BLASTP 2.2.1 [Apr-13-2001]
Reference:
Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schäffer,
Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997),
"Gapped BLAST and PSI-BLAST: a new generation of protein database search
programs", Nucleic Acids Res. 25:3389-3402.
Query= gi|15644718|ref|NP_206888.1| RNA polymerase sigma-70
factor (rpoD) [Helicobacter pylori 26695]
(671 letters)
Database: /var/www/html/HP/blast_new/blast/db/pdbaa
13,198 sequences; 2,899,336 total letters
Searching...........................done
Score E
Sequences producing significant alignments: (bits) Value
pdb|1L9Z|H Chain H, Thermus Aquaticus Rna Polymerase Holoen... 258 2e-69
pdb|1L9U|H Chain H, Thermus Aquaticus Rna Polymerase Holoen... 255 1e-68
pdb|1IW7|F Chain F, Crystal Structure Of The Rna Polymerase... 252 8e-68
pdb|1KU2|A Chain A, Crystal Structure Of Thermus Aquaticus ... 175 1e-44
pdb|1SIG| Crystal Structure Of A Sigma70 Subunit Fragment... 148 2e-36
pdb|1L0O|C Chain C, Crystal Structure Of The Bacillus Stear... 103 8e-23
pdb|1KU7|A Chain A, Crystal Structure Of Thermus Aquatics R... 61 5e-10
pdb|1I84|S Chain S, Cryo-Em Structure Of The Heavy Meromyos... 52 2e-07
pdb|1J7N|B Chain B, Anthrax Toxin Lethal Factor >gi|1697482... 47 9e-06
pdb|1GE9|A Chain A, Solution Structure Of The Ribosome Recy... 37 0.005
pdb|1C1G|A Chain A, Crystal Structure Of Tropomyosin At 7 A... 36 0.016
pdb|2TMA|A Chain A, Tropomyosin >gi|230768|pdb|2TMA|B Chain... 35 0.021
pdb|1LPQ|A Chain A, Human Dna Topoisomerase I (70 Kda) In N... 33 0.079
pdb|1EJ9|A Chain A, Crystal Structure Of Human Topoisomeras... 33 0.079
pdb|1A36|A Chain A, Human Dna Topoisomerase I (70 Kda) In N... 33 0.079
pdb|1A31|A Chain A, Human Reconstituted Dna Topoisomerase I... 33 0.079
pdb|1A35|A Chain A, Human Reconstituted Dna Topoisomerase I... 33 0.079
pdb|2VSG|A Chain A, A Structural Motif In The Variant Surfa... 33 0.13
pdb|6PFK|D Chain D, Phosphofructokinase, Inhibited T-State ... 30 0.67
pdb|4PFK| Phosphofructokinase (E.C.2.7.1.11) Complex With... 30 0.67
pdb|1HLO|A Chain A, The Crystal Structure Of An Intact Huma... 30 0.87
pdb|1K5D|B Chain B, Crystal Structure Of Ran-Gppnhp-Ranbp1-... 30 1.1
pdb|1YRG|A Chain A, The Crystal Structure Of Rna1p: A New F... 30 1.1
pdb|1K5D|C Chain C, Crystal Structure Of Ran-Gppnhp-Ranbp1-... 30 1.1
pdb|1JK0|A Chain A, Ribonucleotide Reductase Y2y4 Heterodimer 29 1.9
pdb|1HH2|P Chain P, Crystal Structure Of Nusa From Thermoto... 28 2.5
pdb|1BF5|A Chain A, Stat-1 Dna Complex 28 3.3
pdb|1LQ7|A Chain A, De Novo Designed Protein Model Of Radic... 28 4.3
pdb|1I9T|A Chain A, Crystal Structure Of The Oxidized Rna T... 28 4.3
pdb|1MDY|B Chain B, Myod Basic-Helix-Loop-Helix (Bhlh) Doma... 28 4.3
pdb|1E5W|A Chain A, Structure Of Isolated Ferm Domain And F... 28 4.3
pdb|1MDY|A Chain A, Myod Basic-Helix-Loop-Helix (Bhlh) Doma... 28 4.3
pdb|1I9S|A Chain A, Crystal Structure Of The Rna Triphospha... 28 4.3
pdb|1AYZ|A Chain A, Crystal Structure Of The Saccharomyces ... 27 5.7
pdb|1DHX| Adenovirus, Hexon Protein, Coat Protein Mol_id:... 27 5.7
pdb|1JIH|B Chain B, Yeast Dna Polymerase Eta >gi|18158625|p... 27 5.7
pdb|1FXK|B Chain B, Crystal Structure Of Archaeal Prefoldin... 27 7.4
pdb|2IG2|H Chain H, Immunoglobulin G1 27 7.4
pdb|1A6D|A Chain A, Thermosome From T. Acidophilum >gi|4699... 27 7.4
pdb|2FB4|H Chain H, Immunoglobulin Fab 27 7.4
pdb|1F1Z|A Chain A, Tnsa, A Catalytic Component Of The Tn7 ... 27 7.4
pdb|1FXK|A Chain A, Crystal Structure Of Archaeal Prefoldin... 27 7.4
pdb|1AHR| Calmodulin Mutant With A Two Residue Deletion I... 27 7.4
pdb|1F5S|A Chain A, Crystal Structure Of Phosphoserine Phos... 27 7.4
pdb|1J97|A Chain A, Phospho-Aspartyl Intermediate Analogue ... 27 7.4
pdb|1E6V|B Chain B, Methyl-Coenzyme M Reductase From Methan... 27 9.6
pdb|1PEH| Nmr Structure Of The Membrane-Binding Domain Of... 27 9.6
pdb|1ECL| Amino Terminal 67kda Domain Of Escherichia Coli... 27 9.6
pdb|1CY7|A Chain A, Complex Of E.Coli Dna Topoisomerase I W... 27 9.6
>pdb|1L9Z|H Chain H, Thermus Aquaticus Rna Polymerase HoloenzymeFORK-Junction
Promoter Dna Complex At 6.5 A Resolution
Length = 438
Score = 258 bits (658), Expect = 2e-69
Identities = 139/311 (44%), Positives = 214/311 (68%), Gaps = 8/311 (2%)
Query: 365 KILANITNMTKEDIIAQVPEATMVSVYMDLKKLFLTKEASEEGFDLAPNKLKEILEQIKR 424
K L+ T + +E +I +V A ++ K L ++ + + KLK + +++KR
Sbjct: 129 KKLSEATGLDQE-LIREVVRAKILGTARIQKIPGLKEKPDPKTVEEVDGKLKSLPKELKR 187
Query: 425 GKLIS---DRAKNKMAKSNLRLVVSIAKRFTSRGLPFLDLIQEGNIGLMKAVDKFEHEKG 481
I+ + A+ + ++NLRLVVSIAK++T RGL FLDLIQEGN GL++AV+KFE+++
Sbjct: 188 YLHIAREGEAARQHLIEANLRLVVSIAKKYTGRGLSFLDLIQEGNQGLIRAVEKFEYKRR 247
Query: 482 FKFSTYATWWIKQAISRAIADQARTIRIPIHMIDTINRINKVMRKHIQENGKEPDLEVVA 541
FKFSTYATWWI+QAI+RAIADQARTIRIP+HM++TIN++++ R+ QE G+EP E +A
Sbjct: 248 FKFSTYATWWIRQAINRAIADQARTIRIPVHMVETINKLSRTARQLQQELGREPSYEEIA 307
Query: 542 EEVGLSLD--KVKNVIKVTKEPISLETPVGNDDDGKFGDFVEDKNIVSSIDHIMREDLKA 599
E +G D +V+ +K+ +EP+SLETP+G++ D +GDF+ D+N+ S ++ + L
Sbjct: 308 EAMGPGWDAKRVEETLKIAQEPVSLETPIGDEKDSFYGDFIPDENLPSPVEAAAQSLLSE 367
Query: 600 QIESVLDQLNEREKAVIRMRFGLLDDESDRTLEEIGKELNVTRERVRQIESSAIKKLR-S 658
++E L +L+ERE V+++R GL+D + TLEE+G VTRER+RQIE+ A++KL+
Sbjct: 368 ELEKALSKLSEREAMVLKLRKGLIDGR-EHTLEEVGAYFGVTRERIRQIENKALRKLKYH 426
Query: 659 PQYGRILRNYL 669
R LR++L
Sbjct: 427 ESRTRKLRDFL 437
Score = 42.7 bits (99), Expect = 1e-04
Identities = 44/164 (26%), Positives = 74/164 (44%), Gaps = 38/164 (23%)
Query: 29 KENNKAKESKIKESKIKEAKAKEPIPVKKLSFNEALEELFANSLSDCVSYESIIQISAKV 88
K +K K +K +E ++KE KEP P+ +L E L++L E ++ A
Sbjct: 3 KSKSKKKAAKAQEVEVKEP-VKEPEPLPELEAAEDLQDL----------PEPDPELLASE 51
Query: 89 PTLAQIKKIKELCQKYQKKLVSSSEYAKKLNAIDKIKKTEEKQKVLDEELEDGYDFLKEK 148
P L + +L + L+ ++ +L+EE E E
Sbjct: 52 PELEDLADPLDLEGPLEADLLP-------------------EEGLLEEEEE-------EL 85
Query: 149 DFLEWSRSDSPVRMYLREMGDIKLLSKDEEIELSKQIRLGEDII 192
+ S SD PVR YL E+G + LL+ +EEI+L++++ G + I
Sbjct: 86 SLPKVSTSD-PVRQYLHEIGQVPLLTLEEEIDLARKVEEGMEAI 128
>pdb|1L9U|H Chain H, Thermus Aquaticus Rna Polymerase Holoenzyme At 4 A
Resolution
pdb|1L9U|Q Chain Q, Thermus Aquaticus Rna Polymerase Holoenzyme At 4 A
Resolution
Length = 332
Score = 255 bits (651), Expect = 1e-68
Identities = 130/262 (49%), Positives = 194/262 (73%), Gaps = 7/262 (2%)
Query: 414 KLKEILEQIKRGKLIS---DRAKNKMAKSNLRLVVSIAKRFTSRGLPFLDLIQEGNIGLM 470
KLK + +++KR I+ + A+ + ++NLRLVVSIAK++T RGL FLDLIQEGN GL+
Sbjct: 71 KLKSLPKELKRYLHIAREGEAARQHLIEANLRLVVSIAKKYTGRGLSFLDLIQEGNQGLI 130
Query: 471 KAVDKFEHEKGFKFSTYATWWIKQAISRAIADQARTIRIPIHMIDTINRINKVMRKHIQE 530
+AV+KFE+++ FKFSTYATWWI+QAI+RAIADQARTIRIP+HM++TIN++++ R+ QE
Sbjct: 131 RAVEKFEYKRRFKFSTYATWWIRQAINRAIADQARTIRIPVHMVETINKLSRTARQLQQE 190
Query: 531 NGKEPDLEVVAEEVGLSLD--KVKNVIKVTKEPISLETPVGNDDDGKFGDFVEDKNIVSS 588
G+EP E +AE +G D +V+ +K+ +EP+SLETP+G++ D +GDF+ D+N+ S
Sbjct: 191 LGREPSYEEIAEAMGPGWDAKRVEETLKIAQEPVSLETPIGDEKDSFYGDFIPDENLPSP 250
Query: 589 IDHIMREDLKAQIESVLDQLNEREKAVIRMRFGLLDDESDRTLEEIGKELNVTRERVRQI 648
++ + L ++E L +L+ERE V+++R GL+D + TLEE+G VTRER+RQI
Sbjct: 251 VEAAAQSLLSEELEKALSKLSEREAMVLKLRKGLIDGR-EHTLEEVGAYFGVTRERIRQI 309
Query: 649 ESSAIKKLR-SPQYGRILRNYL 669
E+ A++KL+ R LR++L
Sbjct: 310 ENKALRKLKYHESRTRKLRDFL 331
Score = 37.0 bits (84), Expect = 0.007
Identities = 15/37 (40%), Positives = 26/37 (69%)
Query: 156 SDSPVRMYLREMGDIKLLSKDEEIELSKQIRLGEDII 192
+ PVR YL E+G + LL+ +EEI+L++++ G + I
Sbjct: 1 TSDPVRQYLHEIGQVPLLTLEEEIDLARKVEEGMEAI 37
>pdb|1IW7|F Chain F, Crystal Structure Of The Rna Polymerase Holoenzyme From
Thermus Thermophilus At 2.6a Resolution
pdb|1IW7|P Chain P, Crystal Structure Of The Rna Polymerase Holoenzyme From
Thermus Thermophilus At 2.6a Resolution
Length = 423
Score = 252 bits (644), Expect = 8e-68
Identities = 141/315 (44%), Positives = 213/315 (66%), Gaps = 16/315 (5%)
Query: 365 KILANIT----NMTKEDIIAQVPEATMVSVYMDLKKLFLTKEASEEGFDLAPNKLKEILE 420
K L+ IT ++ +E + A++ + V LK+ K E KLK + +
Sbjct: 114 KKLSEITGLDPDLIREVVRAKILGSARVRHIPGLKETLDPKTVEE-----IDQKLKSLPK 168
Query: 421 QIKRGKLIS---DRAKNKMAKSNLRLVVSIAKRFTSRGLPFLDLIQEGNIGLMKAVDKFE 477
+ KR I+ + A+ + ++NLRLVVSIAK++T RGL FLDLIQEGN GL++AV+KFE
Sbjct: 169 EHKRYLHIAREGEAARQHLIEANLRLVVSIAKKYTGRGLSFLDLIQEGNQGLIRAVEKFE 228
Query: 478 HEKGFKFSTYATWWIKQAISRAIADQARTIRIPIHMIDTINRINKVMRKHIQENGKEPDL 537
+++ FKFSTYATWWI+QAI+RAIADQARTIRIP+HM++TIN++++ R+ QE G+EP
Sbjct: 229 YKRRFKFSTYATWWIRQAINRAIADQARTIRIPVHMVETINKLSRTARQLQQELGREPTY 288
Query: 538 EVVAEEVGLSLD--KVKNVIKVTKEPISLETPVGNDDDGKFGDFVEDKNIVSSIDHIMRE 595
E +AE +G D +V+ +K+ +EP+SLETP+G++ D +GDF+ D+++ S +D +
Sbjct: 289 EEIAEAMGPGWDAKRVEETLKIAQEPVSLETPIGDEKDSFYGDFIPDEHLPSPVDAATQS 348
Query: 596 DLKAQIESVLDQLNEREKAVIRMRFGLLDDESDRTLEEIGKELNVTRERVRQIESSAIKK 655
L ++E L +L+ERE V+++R GL+D + TLEE+G VTRER+RQIE+ A++K
Sbjct: 349 LLSEELEKALSKLSEREAMVLKLRKGLIDGR-EHTLEEVGAFFGVTRERIRQIENKALRK 407
Query: 656 LR-SPQYGRILRNYL 669
L+ R LR++L
Sbjct: 408 LKYHESRTRKLRDFL 422
Score = 42.0 bits (97), Expect = 2e-04
Identities = 55/249 (22%), Positives = 106/249 (42%), Gaps = 34/249 (13%)
Query: 128 EEKQKVLDEELED------GYDFLKEKDFLEWSR--SDSPVRMYLREMGDIKLLSKDEEI 179
E+ L+++L D G D +E++ L + + PVR YL E+G + LL+ +EE+
Sbjct: 41 EDPDLALEDDLLDLPEEGEGLDLEEEEEDLPIPKISTSDPVRQYLHEIGQVPLLTLEEEV 100
Query: 180 ELSKQIRLGEDII--LDAICSV-PYLIDFIYAYKDALINRERRVKELFRSFDDDDENSVS 236
EL++++ G + I L I + P LI + K R R + L + D +
Sbjct: 101 ELARKVEEGMEAIKKLSEITGLDPDLIREVVRAKILGSARVRHIPGLKETLDPKTVEEID 160
Query: 237 DSKKDEDNEEDEENEERKKVVSEKDKKRVEKVQESFKALDKAKKEW----LKALEAPIDE 292
K +E++ + E + R ++ + + + K++ L L+ I E
Sbjct: 161 QKLK----SLPKEHKRYLHIAREGEAARQHLIEANLRLVVSIAKKYTGRGLSFLDL-IQE 215
Query: 293 REDELVRSL-TLAYK-------------RQTLKDRLYDLEPTSKLINELVKTMETTLKSG 338
L+R++ YK RQ + + D T ++ +V+T+ ++
Sbjct: 216 GNQGLIRAVEKFEYKRRFKFSTYATWWIRQAINRAIADQARTIRIPVHMVETINKLSRTA 275
Query: 339 DGFEKELKR 347
++EL R
Sbjct: 276 RQLQQELGR 284
>pdb|1KU2|A Chain A, Crystal Structure Of Thermus Aquaticus Rna Polymerase
Sigma Subunit Fragment Containing Regions 1.2 To 3.1
pdb|1KU2|B Chain B, Crystal Structure Of Thermus Aquaticus Rna Polymerase
Sigma Subunit Fragment Containing Regions 1.2 To 3.1
Length = 241
Score = 175 bits (444), Expect = 1e-44
Identities = 95/205 (46%), Positives = 143/205 (69%), Gaps = 6/205 (2%)
Query: 365 KILANITNMTKEDIIAQVPEATMVSVYMDLKKLFLTKEASEEGFDLAPNKLKEILEQIKR 424
K L+ T + +E +I +V A ++ K L ++ + + KLK + +++KR
Sbjct: 38 KKLSEATGLDQE-LIREVVRAKILGTARIQKIPGLKEKPDPKTVEEVDGKLKSLPKELKR 96
Query: 425 GKLIS---DRAKNKMAKSNLRLVVSIAKRFTSRGLPFLDLIQEGNIGLMKAVDKFEHEKG 481
I+ + A+ + ++NLRLVVSIAK++T RGL FLDLIQEGN GL++AV+KFE+++
Sbjct: 97 YLHIAREGEAARQHLIEANLRLVVSIAKKYTGRGLSFLDLIQEGNQGLIRAVEKFEYKRR 156
Query: 482 FKFSTYATWWIKQAISRAIADQARTIRIPIHMIDTINRINKVMRKHIQENGKEPDLEVVA 541
FKFSTYATWWI+QAI+RAIADQARTIRIP+HM++TIN++++ R+ QE G+EP E +A
Sbjct: 157 FKFSTYATWWIRQAINRAIADQARTIRIPVHMVETINKLSRTARQLQQELGREPSYEEIA 216
Query: 542 EEVGLSLD--KVKNVIKVTKEPISL 564
E +G D +V+ +K+ +EP+SL
Sbjct: 217 EAMGPGWDAKRVEETLKIAQEPVSL 241
Score = 37.0 bits (84), Expect = 0.007
Identities = 15/37 (40%), Positives = 26/37 (69%)
Query: 156 SDSPVRMYLREMGDIKLLSKDEEIELSKQIRLGEDII 192
+ PVR YL E+G + LL+ +EEI+L++++ G + I
Sbjct: 1 TSDPVRQYLHEIGQVPLLTLEEEIDLARKVEEGMEAI 37
>pdb|1SIG| Crystal Structure Of A Sigma70 Subunit Fragment From Escherichia
Coli Rna Polymerase
Length = 339
Score = 148 bits (373), Expect = 2e-36
Identities = 110/343 (32%), Positives = 189/343 (55%), Gaps = 25/343 (7%)
Query: 178 EIELSKQIRLGEDIILDAICSVPYLIDFIYAYKDALINRERRVKELFRSF-DDDDENSVS 236
EI+++K+I G + + ++ P I ++ + + E R+ +L F D + E ++
Sbjct: 7 EIDIAKRIEDGINQVQCSVAEYPEAITYLLEQYNRVEAEEARLSDLITGFVDPNAEEDLA 66
Query: 237 D---------SKKDEDNEEDEENEERKKVVSEKDKK-RVEKVQESFKALDK---AKKEWL 283
S++D D++EDE+ E+ ++ D E +E F L ++ +
Sbjct: 67 PTATHVGSELSQEDLDDDEDEDEEDGDDDSADDDNSIDPELAREKFAELRAQYVVTRDTI 126
Query: 284 KALEAPIDEREDELVRSLTLAYKRQTLKDRLYD-LEPTSKLINELVKTMETTLKSGDGFE 342
KA ++E+++ L+ +K+ L + +D L + +++ + V+T E + +
Sbjct: 127 KAKGRSHATAQEEILK-LSEVFKQFRLVPKQFDYLVNSMRVMMDRVRTQERLIMKLCVEQ 185
Query: 343 KELKRLEYKLPLFNDTLIANHKKILANITNMTKEDIIAQVPEATMVSVYMDLKKLFLTKE 402
++ + + + LF ++ A N + + V E V+ L+KL +
Sbjct: 186 CKMPKKNF-ITLFTGNETSDTWFNAAIAMNKPWSEKLHDVSE----EVHRALQKL----Q 236
Query: 403 ASEEGFDLAPNKLKEILEQIKRGKLISDRAKNKMAKSNLRLVVSIAKRFTSRGLPFLDLI 462
EE L ++K+I ++ G+ + RAK +M ++NLRLV+SIAK++T+RGL FLDLI
Sbjct: 237 QIEEETGLTIEQVKDINRRMSIGEAKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLI 296
Query: 463 QEGNIGLMKAVDKFEHEKGFKFSTYATWWIKQAISRAIADQAR 505
QEGNIGLMKAVDKFE+ +G+KFSTYATWWI+QAI+R+IADQAR
Sbjct: 297 QEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQAR 339
>pdb|1L0O|C Chain C, Crystal Structure Of The Bacillus Stearothermophilus Anti-
Sigma Factor Spoiiab With The Sporulation Sigma Factor
Sigmaf
Length = 243
Score = 103 bits (256), Expect = 8e-23
Identities = 70/249 (28%), Positives = 132/249 (52%), Gaps = 15/249 (6%)
Query: 411 APNKLKEILEQIKRGKLISDRAKNKMAKSNLRLVVSIAKRFTSRGLPFLDLIQEGNIGLM 470
+P K +E+ E I+R + A++++ + N+RLV S+ +RF +RG DL Q G IGL+
Sbjct: 8 SPIKDQEMKELIRRSQEGDQEARDEIIEKNMRLVWSVVQRFLNRGYEADDLFQIGCIGLL 67
Query: 471 KAVDKFEHEKGFKFSTYATWWIKQAISRAIADQARTIRIPIHMIDTINRINKVMRKHIQE 530
K+VDKF+ KFSTYA I I R + D T+++ + + N+I K + +
Sbjct: 68 KSVDKFDLSYDVKFSTYAVPMIIGEIQRFLRDDG-TVKVSRSLKEMGNKIRKAKDELSKT 126
Query: 531 NGKEPDLEVVAEEVGLSLDKVKNVIKVTKEPISL-ETPVGNDDDG-KFGDFVEDKNIVSS 588
G+ P + +A+ +G+S + V + + P S+ ET ND D D + D + S
Sbjct: 127 RGRAPTVTEIADHLGISPEDVVLAQEAVRLPTSIHETVYENDGDPITLLDQIADADEASW 186
Query: 589 IDHIMREDLKAQIESVLDQLNEREKAVIRMRFGLLDDESDRTLEEIGKELNVTRERVRQI 648
D K ++ +++L+ERE+ ++ +R+ D+T E+ L +++ ++ ++
Sbjct: 187 FD-------KIALKKAIEELDERERLIVYLRY-----YKDQTQSEVASRLGISQVQMSRL 234
Query: 649 ESSAIKKLR 657
E ++ ++
Sbjct: 235 EKKILQHIK 243
>pdb|1KU7|A Chain A, Crystal Structure Of Thermus Aquatics Rna Polymerase
Sigmaa Subunit Region 4 Bound To-35 Element Dna
pdb|1KU7|D Chain D, Crystal Structure Of Thermus Aquatics Rna Polymerase
Sigmaa Subunit Region 4 Bound To-35 Element Dna
pdb|1KU3|A Chain A, Crystal Structure Of Thermus Aquaticus Rna Polymerase
Sigma Subunit Fragment, Region 4
Length = 73
Score = 60.8 bits (146), Expect = 5e-10
Identities = 33/71 (46%), Positives = 49/71 (68%), Gaps = 2/71 (2%)
Query: 600 QIESVLDQLNEREKAVIRMRFGLLDDESDRTLEEIGKELNVTRERVRQIESSAIKKLR-S 658
++E L +L+ERE V++MR GL+D + TLEE+G VTRER+RQIE+ A++KL+
Sbjct: 3 ELEKALSKLSEREAMVLKMRKGLIDGR-EHTLEEVGAYFGVTRERIRQIENKALRKLKYH 61
Query: 659 PQYGRILRNYL 669
R LR++L
Sbjct: 62 ESRTRKLRDFL 72
>pdb|1I84|S Chain S, Cryo-Em Structure Of The Heavy Meromyosin Subfragment Of
Chicken Gizzard Smooth Muscle Myosin With Regulatory
Light Chain In The Dephosphorylated State. Only C Alphas
Provided For Regulatory Light Chain. Only Backbone Atoms
Provided For S2 Fragment.
pdb|1I84|V Chain V, Cryo-Em Structure Of The Heavy Meromyosin Subfragment Of
Chicken Gizzard Smooth Muscle Myosin With Regulatory
Light Chain In The Dephosphorylated State. Only C Alphas
Provided For Regulatory Light Chain. Only Backbone Atoms
Provided For S2 Fragment
Length = 1184
Score = 52.4 bits (124), Expect = 2e-07
Identities = 69/313 (22%), Positives = 147/313 (46%), Gaps = 44/313 (14%)
Query: 13 RAKTEAKAEATQENKTKENNKAKESKIKESKIKEAKAKEPIPVKKLSFNEALEELFANSL 72
R + E +A+ + +TKE + E+++KE + K + E N E+L A +
Sbjct: 854 RQEEEMQAKDEELQRTKERQQKAEAELKELEQKHTQLCE-------EKNLLQEKLQAETE 906
Query: 73 SDCVSYESIIQISAKVPTLAQIKKIKELCQKYQKKLVSSSEYAKKLNAIDKIKKTEEKQK 132
+ E ++++AK ++++E+ + + ++ E +++L A + KK +++
Sbjct: 907 LYAEAEEMRVRLAAKK------QELEEILHEMEARIEEEEERSQQLQA--EKKKMQQQML 958
Query: 133 VLDEELEDGYDFLKEKDFLEWSRSDSPVRMYLREMGDIKLLSKDEEIELSKQIRLGEDII 192
L+E+LE+ + ++K LE +D + ++M D L+ +D+ +L+K+ +L E+ +
Sbjct: 959 DLEEQLEE-EEAARQKLQLEKVTADGKI----KKMEDDILIMEDQNNKLTKERKLLEERV 1013
Query: 193 LDAICSVPYLIDFIYAYKDALINRERRVKELFRSFDDDDENSVSD----SKKDEDNEEDE 248
D + L E + K L + + E+ +S+ KK+E + ++
Sbjct: 1014 SDLTTN--------------LAEEEEKAKNLTK-LKNKHESMISELEVRLKKEEKSRQEL 1058
Query: 249 ENEERKKVVSEKD-KKRVEKVQESFKAL--DKAKKEWLKALEAPIDEREDELVRSLTLAY 305
E +RK D +++ ++Q L AKKE + L+A + EDE +
Sbjct: 1059 EKIKRKLEGESSDLHEQIAELQAQIAELKAQLAKKE--EELQAALARLEDETSQKNNALK 1116
Query: 306 KRQTLKDRLYDLE 318
K + L+ + DL+
Sbjct: 1117 KIRELESHISDLQ 1129
Score = 40.8 bits (94), Expect = 5e-04
Identities = 41/142 (28%), Positives = 68/142 (47%), Gaps = 17/142 (11%)
Query: 2 KKKANEEKAQKRAKTEAKAEATQENKTKENNKAKESKIKESKI---KEAKAKEPIPVKKL 58
++K EE+ A+ E +N TK NK ES I E ++ KE K+++ +
Sbjct: 1005 ERKLLEERVSDLTTNLAEEEEKAKNLTKLKNK-HESMISELEVRLKKEEKSRQEL----- 1058
Query: 59 SFNEALEELFANSLSDCVSYESIIQISAKVPTL-AQIKKIKELCQKYQKKLVSSSEYAKK 117
E ++ SD +E I ++ A++ L AQ+ K +E Q +L E ++K
Sbjct: 1059 ---EKIKRKLEGESSDL--HEQIAELQAQIAELKAQLAKKEEELQAALARL--EDETSQK 1111
Query: 118 LNAIDKIKKTEEKQKVLDEELE 139
NA+ KI++ E L E+LE
Sbjct: 1112 NNALKKIRELESHISDLQEDLE 1133
Score = 37.7 bits (86), Expect = 0.004
Identities = 66/300 (22%), Positives = 128/300 (42%), Gaps = 32/300 (10%)
Query: 4 KANEEKAQKRAKTEAKAEAT-QENKTKENNKAKESKIKESKIKE-----AKAKEP---IP 54
+A +E+ Q+ + + KAEA +E + K +E + + K++ A+A+E +
Sbjct: 860 QAKDEELQRTKERQQKAEAELKELEQKHTQLCEEKNLLQEKLQAETELYAEAEEMRVRLA 919
Query: 55 VKKLSFNEALEELFAN-----SLSDCVSYESIIQISAKVPTLAQIKKIKELCQKYQKKLV 109
KK E L E+ A S + E + Q+++ + QK Q + V
Sbjct: 920 AKKQELEEILHEMEARIEEEEERSQQLQAEKKKMQQQMLDLEEQLEEEEAARQKLQLEKV 979
Query: 110 SSSEYAKKLN-----AIDKIKKTEEKQKVLDEELEDGYDFLKEKDFLEWSRSDSPVRMYL 164
++ KK+ D+ K +++K+L+E + D L E++ E +++ + ++
Sbjct: 980 TADGKIKKMEDDILIMEDQNNKLTKERKLLEERVSDLTTNLAEEE--EKAKNLTKLKNKH 1037
Query: 165 REM-GDIKLLSKDEEI---ELSKQIRLGEDIILDAICSVPYLIDFIYAYKDALINRERRV 220
M ++++ K EE EL K R E D + L I K L +E +
Sbjct: 1038 ESMISELEVRLKKEEKSRQELEKIKRKLEGESSDLHEQIAELQAQIAELKAQLAKKEEEL 1097
Query: 221 KELFRSFDDDDENSVSDSKKDE-------DNEEDEENEERKKVVSEKDKKRVEKVQESFK 273
+ +D+ + KK D +ED E+E+ + +EK K+ + + E+ K
Sbjct: 1098 QAALARLEDETSQKNNALKKIRELESHISDLQEDLESEKAARNKAEKQKRDLSEELEALK 1157
>pdb|1J7N|B Chain B, Anthrax Toxin Lethal Factor
pdb|1J7N|A Chain A, Anthrax Toxin Lethal Factor
pdb|1JKY|A Chain A, Crystal Structure Of The Anthrax Lethal Factor (Lf): Wild-
Type Lf Complexed With The N-Terminal Sequence Of Mapkk2
Length = 776
Score = 46.6 bits (109), Expect = 9e-06
Identities = 117/579 (20%), Positives = 238/579 (40%), Gaps = 66/579 (11%)
Query: 15 KTEAKAEATQENKTKENNKAKESKIKE--SKIKEAKAKEPIPVKKLSFNEALEELFANSL 72
K + K + + K +E NK +E +KE I + + K VKK EA E+L
Sbjct: 12 KEKEKNKDENKRKDEERNKTQEEHLKEIMKHIVKIEVKGEEAVKK----EAAEKLLEKVP 67
Query: 73 SDCVS-YESI----------IQISAKVPTLAQ-IKKIKELCQKYQKKLVSSSEYAKK-LN 119
SD + Y++I I + L++ KKIK++ K L YAK+
Sbjct: 68 SDVLEMYKAIGGKIYIVDGDITKHISLEALSEDKKKIKDIYGK-DALLHEHYVYAKEGYE 126
Query: 120 AIDKIKKTEEKQKVLDEELEDGYDFLK--EKDFLEWSRSDSPVRMYLREMGDIKLLSKDE 177
+ I+ +E+ + ++ L Y+ K +D L S+ + P + +L + IK S +
Sbjct: 127 PVLVIQSSEDYVENTEKALNVYYEIGKILSRDIL--SKINQPYQKFLDVLNTIKNASDSD 184
Query: 178 EIELSKQIRLGE---DIILDAICSVPYLIDFIYAYKDALINRERRVKELFRSFDDDDENS 234
+L +L E D ++ + + ++A K E + +++ + + + N
Sbjct: 185 GQDLLFTNQLKEHPTDFSVEFLEQNSNEVQEVFA-KAFAYYIEPQHRDVLQLYAPEAFNY 243
Query: 235 VSDSKKDEDNEEDEENEERKKVVS-EKDKKRVEKVQESFKALDKAKKEWLKALEAPIDER 293
+ + E N EE ++++ + EK +K + Q +L + + LK L+ PI+ +
Sbjct: 244 MDKFNEQEINLSLEELKDQRMLSRYEKWEKIKQHYQHWSDSLSEEGRGLLKKLQIPIEPK 303
Query: 294 EDELVRSLTLAYKRQTLKDRLYDLEPTSKLINELVKTMETTLKSGDGFEKELKRLEYKLP 353
+D+++ SL+ K EL+K ++ + S D E K KL
Sbjct: 304 KDDIIHSLSQEEK-------------------ELLKRIQ--IDSSDFLSTEEKEFLKKLQ 342
Query: 354 LFNDTLIANHKKILANITNMTKEDIIAQVPEATMVSVYMDLKKLFLTKEASEEGFDL-AP 412
+ ++ +K L N + + +++ + + + +D++ + + + G + +P
Sbjct: 343 IDIRDSLSEEEKELLNRIQVDSSNPLSEKEKEFLKKLKLDIQPYDINQRLQDTGGLIDSP 402
Query: 413 NKLKEILEQIKRGKLISDRAKNKMAKSNLRLVVSIAKRFTSRGLPF---LDLIQEGNIGL 469
+ ++ +Q KR D ++ S L + + + L DL+ +
Sbjct: 403 SINLDVRKQYKRDIQNIDALLHQSIGSTLYNKIYLYENMNINNLTATLGADLVDSTDNTK 462
Query: 470 MKAVDKFEHEKGFKFSTYATWWIKQAISRAIADQARTIRIPIHMIDTINRINKVMRKHIQ 529
+ E +K FK+S + + I R D R + +++ R
Sbjct: 463 INRGIFNEFKKNFKYSISSNYMIVDINERPALDNER--------LKWRIQLSPDTRAGYL 514
Query: 530 ENGKEPDLEVVAEEVGLSLDKVKNVIKVTKEPISLETPV 568
ENGK ++ +GL + V+ + + KE I ++ V
Sbjct: 515 ENGK----LILQRNIGLEIKDVQIIKQSEKEYIRIDAKV 549
>pdb|1GE9|A Chain A, Solution Structure Of The Ribosome Recycling Factor
Length = 184
Score = 37.4 bits (85), Expect = 0.005
Identities = 41/202 (20%), Positives = 89/202 (43%), Gaps = 28/202 (13%)
Query: 460 DLIQEGNIGLMKAVDKFEHE-KGFKFSTYATWWIKQAISRAIADQARTIRIPIHMIDTIN 518
D+ +E + KAV+ +++E G + S +T A+ I + ++PI + TI+
Sbjct: 7 DIFKEAEKDMKKAVEYYKNEIAGLRTSRAST-----ALVEEIKVEYYGSKVPIKQLGTIS 61
Query: 519 --RINKVMRKHIQENGKEPDLEVVAEEVGLSLDKVKNVIKVTKEPISLETPVGNDDDGKF 576
N+++ + +N + + EE+ L+ NVI+VT P++
Sbjct: 62 VPEHNQIVIQVWDQNAVPAIEKAIREELNLNPTVQGNVIRVTLPPLT------------- 108
Query: 577 GDFVEDKNIVSSIDHIMREDLKAQIESVLDQLNEREKAVIRMRFGLLDDESDRTLEEIGK 636
E + + + H + E+ + ++ +V K +I G+ +DE R LE + K
Sbjct: 109 ---EERRRELVRLLHKITEEARVRVRNV----RREAKEMIEELEGISEDEKKRALERLQK 161
Query: 637 ELNVTRERVRQIESSAIKKLRS 658
+ + + ++ + K++ S
Sbjct: 162 LTDKYIDEINKLMEAKEKEIMS 183
>pdb|1C1G|A Chain A, Crystal Structure Of Tropomyosin At 7 Angstroms Resolution
In The Spermine-Induced Crystal Form
pdb|1C1G|B Chain B, Crystal Structure Of Tropomyosin At 7 Angstroms Resolution
In The Spermine-Induced Crystal Form
pdb|1C1G|C Chain C, Crystal Structure Of Tropomyosin At 7 Angstroms Resolution
In The Spermine-Induced Crystal Form
pdb|1C1G|D Chain D, Crystal Structure Of Tropomyosin At 7 Angstroms Resolution
In The Spermine-Induced Crystal Form
Length = 284
Score = 35.8 bits (81), Expect = 0.016
Identities = 53/251 (21%), Positives = 103/251 (40%), Gaps = 48/251 (19%)
Query: 117 KLNAIDKIKKTEEKQKVLDE---ELEDGYDFLKEKDFLEWSRSDSPVRMYLREMGDIKLL 173
K NA+D+ + E +K ++ +LED L++K ++ + Y + D +
Sbjct: 15 KENALDRADEAEADKKAAEDRSKQLEDELVSLQKK----LKATEDELDKYSEALKDAQ-- 68
Query: 174 SKDEEIELSKQIRLGEDIILDAICSVPYLIDFIYAYKDALINRERRVKELFRSFDDDDEN 233
+++ L E DA V L I +++ L + R+ +
Sbjct: 69 ---------EKLELAEKKATDAEADVASLNRRIQLFEEELDRAQERLATALQ-------- 111
Query: 234 SVSDSKKDEDNEEDEENEERKKVVSEKDKKRVEKVQESFKALDKAKKEWLKALEAPIDER 293
K +E + +E+E KV+ + +K EK++ L +AK + D +
Sbjct: 112 -----KLEEAEKAADESERGMKVIESRAQKDEEKMEIQEIQLKEAKH-----IAEDADRK 161
Query: 294 EDELVRSLTL-------AYKRQTLKD-RLYDLEPTSKLINELVKTMETTL----KSGDGF 341
+E+ R L + A +R L + + +LE K + +K++E + D +
Sbjct: 162 YEEVARKLVIIESDLERAEERAELSEGKCAELEEEIKTVTNNLKSLEAQAEKYSQKEDKY 221
Query: 342 EKELKRLEYKL 352
E+E+K L KL
Sbjct: 222 EEEIKVLSDKL 232
Score = 33.9 bits (76), Expect = 0.060
Identities = 38/157 (24%), Positives = 69/157 (43%), Gaps = 16/157 (10%)
Query: 1 MKKKANEEKAQKRAKTEAKAEATQENKTKENNKAKESKIKESK--IKEAKAKEPIPVKKL 58
++K EKA ++ K ++ K +E + +E ++KE+K ++A K +KL
Sbjct: 110 LQKLEEAEKAADESERGMKVIESRAQKDEEKMEIQEIQLKEAKHIAEDADRKYEEVARKL 169
Query: 59 ----SFNEALEELFANSLSDCVSYESIIQISAKVPTLAQIKKIKELCQKYQKKLVSSSEY 114
S E EE S C E I+ +K ++ +KY +K E
Sbjct: 170 VIIESDLERAEERAELSEGKCAELEEEIKTVTN-----NLKSLEAQAEKYSQKEDKYEEE 224
Query: 115 AKKLNAIDKIKKTEEKQKVLDE---ELEDGYDFLKEK 148
K L+ DK+K+ E + + + +LE D L+++
Sbjct: 225 IKVLS--DKLKEAETRAEFAERSVTKLEKSIDDLEDE 259
Score = 32.0 bits (71), Expect = 0.23
Identities = 48/225 (21%), Positives = 92/225 (40%), Gaps = 22/225 (9%)
Query: 239 KKDEDNEEDEENEERKKVVSEKDKKRVEKVQESFKALDKAKKEWLKALEAPIDEREDELV 298
KK + + D+EN + +E DKK E K ++ L +L+ + EDEL
Sbjct: 6 KKMQMLKLDKENALDRADEAEADKKAAED-------RSKQLEDELVSLQKKLKATEDELD 58
Query: 299 RSLTLAYKRQTLKDRLYDLEPTSKLINELVKTMETTLKSGDGFEKELKRLEYKLPLFNDT 358
+ + LKD LE K + + + + FE+EL R + +L
Sbjct: 59 K------YSEALKDAQEKLELAEKKATDAEADVASLNRRIQLFEEELDRAQERLATALQK 112
Query: 359 LIANHKKILANITNMTKEDIIAQVPEATMVSVYMDLKKLFLTKEASEEGFDLAPNKLKEI 418
L K + M + AQ E M + LK+ E ++ ++ KL I
Sbjct: 113 LEEAEKAADESERGMKVIESRAQKDEEKMEIQEIQLKEAKHIAEDADRKYEEVARKLVII 172
Query: 419 LEQIKRGKLISDRAKNKMAK---------SNLRLVVSIAKRFTSR 454
++R + ++ ++ K A+ +NL+ + + A++++ +
Sbjct: 173 ESDLERAEERAELSEGKCAELEEEIKTVTNNLKSLEAQAEKYSQK 217
Score = 29.6 bits (65), Expect = 1.1
Identities = 15/61 (24%), Positives = 33/61 (53%)
Query: 12 KRAKTEAKAEATQENKTKENNKAKESKIKESKIKEAKAKEPIPVKKLSFNEALEELFANS 71
K + +A+ + +E+K +E K K+KE++ + A+ + + S ++ +EL+A
Sbjct: 205 KSLEAQAEKYSQKEDKYEEEIKVLSDKLKEAETRAEFAERSVTKLEKSIDDLEDELYAQK 264
Query: 72 L 72
L
Sbjct: 265 L 265
>pdb|2TMA|A Chain A, Tropomyosin
pdb|2TMA|B Chain B, Tropomyosin
Length = 284
Score = 35.4 bits (80), Expect = 0.021
Identities = 55/252 (21%), Positives = 104/252 (40%), Gaps = 50/252 (19%)
Query: 117 KLNAIDKIKKTEEKQKVLDE---ELEDGYDFLKEKDFLEWSRSDSPVRMYLREMGDIKLL 173
K NA+D+ ++ E +K ++ +LED L++K ++ + Y + D +
Sbjct: 15 KENALDRAEQAEADKKAAEDRSKQLEDELVSLQKK----LKGTEDELDKYSEALKDAQ-- 68
Query: 174 SKDEEIELSKQIRLGEDIILDAICSVPYLIDFIYAYKDALINRERRVKELFRSFDDDDEN 233
+++ L E DA V L RR++ + D E
Sbjct: 69 ---------EKLELAEKKATDAEADVASL--------------NRRIQLVEEELDRAQER 105
Query: 234 SVSDSKKDEDNEEDEENEER-KKVVSEKDKKRVEKVQESFKALDKAKKEWLKALEAPIDE 292
+ +K E+ E+ + ER KV+ + +K EK++ L +AK + D
Sbjct: 106 LATALQKLEEAEKAADESERGMKVIESRAQKDEEKMEIQEIQLKEAKH-----IAEDADR 160
Query: 293 REDELVRSLTL-------AYKRQTLKD-RLYDLEPTSKLINELVKTMETTL----KSGDG 340
+ +E+ R L + A +R L + + +LE K + +K++E + D
Sbjct: 161 KYEEVARKLVIIESDLERAEERAELSEGKCAELEEEIKTVTNNLKSLEAQAEKYSQKEDK 220
Query: 341 FEKELKRLEYKL 352
+E+E+K L KL
Sbjct: 221 YEEEIKVLSDKL 232
Score = 33.9 bits (76), Expect = 0.060
Identities = 38/157 (24%), Positives = 69/157 (43%), Gaps = 16/157 (10%)
Query: 1 MKKKANEEKAQKRAKTEAKAEATQENKTKENNKAKESKIKESK--IKEAKAKEPIPVKKL 58
++K EKA ++ K ++ K +E + +E ++KE+K ++A K +KL
Sbjct: 110 LQKLEEAEKAADESERGMKVIESRAQKDEEKMEIQEIQLKEAKHIAEDADRKYEEVARKL 169
Query: 59 ----SFNEALEELFANSLSDCVSYESIIQISAKVPTLAQIKKIKELCQKYQKKLVSSSEY 114
S E EE S C E I+ +K ++ +KY +K E
Sbjct: 170 VIIESDLERAEERAELSEGKCAELEEEIKTVTN-----NLKSLEAQAEKYSQKEDKYEEE 224
Query: 115 AKKLNAIDKIKKTEEKQKVLDE---ELEDGYDFLKEK 148
K L+ DK+K+ E + + + +LE D L+++
Sbjct: 225 IKVLS--DKLKEAETRAEFAERSVTKLEKSIDDLEDE 259
Score = 29.6 bits (65), Expect = 1.1
Identities = 45/195 (23%), Positives = 80/195 (40%), Gaps = 12/195 (6%)
Query: 239 KKDEDNEEDEENEERKKVVSEKDKKRVEKVQESFKALDKAKKEWLKALEAPIDEREDEL- 297
KK + + D+EN + +E DKK E + + + ++ LK E +D+ + L
Sbjct: 6 KKMQMLKLDKENALDRAEQAEADKKAAEDRSKQLEDELVSLQKKLKGTEDELDKYSEALK 65
Query: 298 --VRSLTLAYKRQTLKDRLYDLEPTSKLI----NELVKTME---TTLKSGDGFEKELKRL 348
L LA K+ T D D+ ++ I EL + E T L+ + EK
Sbjct: 66 DAQEKLELAEKKAT--DAEADVASLNRRIQLVEEELDRAQERLATALQKLEEAEKAADES 123
Query: 349 EYKLPLFNDTLIANHKKILANITNMTKEDIIAQVPEATMVSVYMDLKKLFLTKEASEEGF 408
E + + + +K+ + + IA+ + V L + E +EE
Sbjct: 124 ERGMKVIESRAQKDEEKMEIQEIQLKEAKHIAEDADRKYEEVARKLVIIESDLERAEERA 183
Query: 409 DLAPNKLKEILEQIK 423
+L+ K E+ E+IK
Sbjct: 184 ELSEGKCAELEEEIK 198
Score = 29.6 bits (65), Expect = 1.1
Identities = 15/61 (24%), Positives = 33/61 (53%)
Query: 12 KRAKTEAKAEATQENKTKENNKAKESKIKESKIKEAKAKEPIPVKKLSFNEALEELFANS 71
K + +A+ + +E+K +E K K+KE++ + A+ + + S ++ +EL+A
Sbjct: 205 KSLEAQAEKYSQKEDKYEEEIKVLSDKLKEAETRAEFAERSVTKLEKSIDDLEDELYAQK 264
Query: 72 L 72
L
Sbjct: 265 L 265
>pdb|1LPQ|A Chain A, Human Dna Topoisomerase I (70 Kda) In Non-Covalent Complex
With A 22 Base Pair Dna Duplex Containing An 8-Oxog
Lesion
Length = 564
Score = 33.5 bits (75), Expect = 0.079
Identities = 22/87 (25%), Positives = 43/87 (49%), Gaps = 13/87 (14%)
Query: 213 LINRERRVKELFRSFDDDDENSVSDSKKDEDNEEDEENEERKKVVSEKDKKRVEKVQESF 272
+++ E KE+FR +N D +K+ NEE K +++ K ++ + F
Sbjct: 62 MLDHEYTTKEIFR------KNFFKDWRKEMTNEE-------KNIITNLSKCDFTQMSQYF 108
Query: 273 KALDKAKKEWLKALEAPIDEREDELVR 299
KA +A+K+ K + I E ++L++
Sbjct: 109 KAQTEARKQMSKEEKLKIKEENEKLLK 135
>pdb|1EJ9|A Chain A, Crystal Structure Of Human Topoisomerase I Dna Complex
Length = 563
Score = 33.5 bits (75), Expect = 0.079
Identities = 22/87 (25%), Positives = 43/87 (49%), Gaps = 13/87 (14%)
Query: 213 LINRERRVKELFRSFDDDDENSVSDSKKDEDNEEDEENEERKKVVSEKDKKRVEKVQESF 272
+++ E KE+FR +N D +K+ NEE K +++ K ++ + F
Sbjct: 61 MLDHEYTTKEIFR------KNFFKDWRKEMTNEE-------KNIITNLSKCDFTQMSQYF 107
Query: 273 KALDKAKKEWLKALEAPIDEREDELVR 299
KA +A+K+ K + I E ++L++
Sbjct: 108 KAQTEARKQMSKEEKLKIKEENEKLLK 134
>pdb|1A36|A Chain A, Human Dna Topoisomerase I (70 Kda) In Non-Covalent Complex
With A 22 Base Pair Dna Duplex
Length = 592
Score = 33.5 bits (75), Expect = 0.079
Identities = 22/87 (25%), Positives = 43/87 (49%), Gaps = 13/87 (14%)
Query: 213 LINRERRVKELFRSFDDDDENSVSDSKKDEDNEEDEENEERKKVVSEKDKKRVEKVQESF 272
+++ E KE+FR +N D +K+ NEE K +++ K ++ + F
Sbjct: 90 MLDHEYTTKEIFR------KNFFKDWRKEMTNEE-------KNIITNLSKCDFTQMSQYF 136
Query: 273 KALDKAKKEWLKALEAPIDEREDELVR 299
KA +A+K+ K + I E ++L++
Sbjct: 137 KAQTEARKQMSKEEKLKIKEENEKLLK 163
>pdb|1A31|A Chain A, Human Reconstituted Dna Topoisomerase I In Covalent
Complex With A 22 Base Pair Dna Duplex
Length = 538
Score = 33.5 bits (75), Expect = 0.079
Identities = 22/87 (25%), Positives = 43/87 (49%), Gaps = 13/87 (14%)
Query: 213 LINRERRVKELFRSFDDDDENSVSDSKKDEDNEEDEENEERKKVVSEKDKKRVEKVQESF 272
+++ E KE+FR +N D +K+ NEE K +++ K ++ + F
Sbjct: 89 MLDHEYTTKEIFR------KNFFKDWRKEMTNEE-------KNIITNLSKCDFTQMSQYF 135
Query: 273 KALDKAKKEWLKALEAPIDEREDELVR 299
KA +A+K+ K + I E ++L++
Sbjct: 136 KAQTEARKQMSKEEKLKIKEENEKLLK 162
>pdb|1A35|A Chain A, Human Reconstituted Dna Topoisomerase I In Non-Covalent
Complex With A 22 Base Pair Dna Duplex
Length = 538
Score = 33.5 bits (75), Expect = 0.079
Identities = 22/87 (25%), Positives = 43/87 (49%), Gaps = 13/87 (14%)
Query: 213 LINRERRVKELFRSFDDDDENSVSDSKKDEDNEEDEENEERKKVVSEKDKKRVEKVQESF 272
+++ E KE+FR +N D +K+ NEE K +++ K ++ + F
Sbjct: 89 MLDHEYTTKEIFR------KNFFKDWRKEMTNEE-------KNIITNLSKCDFTQMSQYF 135
Query: 273 KALDKAKKEWLKALEAPIDEREDELVR 299
KA +A+K+ K + I E ++L++
Sbjct: 136 KAQTEARKQMSKEEKLKIKEENEKLLK 162
>pdb|2VSG|A Chain A, A Structural Motif In The Variant Surface Glycoproteins Of
Trypanosoma Brucei
pdb|2VSG|B Chain B, A Structural Motif In The Variant Surface Glycoproteins Of
Trypanosoma Brucei
Length = 358
Score = 32.7 bits (73), Expect = 0.13
Identities = 21/65 (32%), Positives = 33/65 (50%), Gaps = 6/65 (9%)
Query: 3 KKANEEKAQKRAKTEAKAEATQENKTKENNKAKESKIKESKIKEAKAKEPIPVKKLSFNE 62
KK ++ K + KTE KT+ N +A +K+KE K+K A ++P K+S
Sbjct: 290 KKTSDYKEDENLKTE------YFGKTESNIEALWNKVKEEKVKGADPEDPSKESKISDLN 343
Query: 63 ALEEL 67
E+L
Sbjct: 344 TEEQL 348
>pdb|6PFK|D Chain D, Phosphofructokinase, Inhibited T-State
pdb|6PFK|C Chain C, Phosphofructokinase, Inhibited T-State
pdb|6PFK|B Chain B, Phosphofructokinase, Inhibited T-State
pdb|6PFK|A Chain A, Phosphofructokinase, Inhibited T-State
Length = 319
Score = 30.4 bits (67), Expect = 0.67
Identities = 26/95 (27%), Positives = 43/95 (44%), Gaps = 7/95 (7%)
Query: 469 LMKAVDKFE-----HEKGFKFSTYATWWIKQAISRAIADQARTIRIPIHMIDTINRINKV 523
++ A+DK HE+ + A+ +A A TI IP D + I ++
Sbjct: 146 VIDAIDKIRDTATSHERTYVIEVMGRHAGDIALWSGLAGGAETILIPEADYDMNDVIARL 205
Query: 524 MRKHIQENGKEPDLEVVAEEVGLSLDKVKNVIKVT 558
R H E GK+ + +VAE VG +D + + + T
Sbjct: 206 KRGH--ERGKKHSIIIVAEGVGSGVDFGRQIQEAT 238
>pdb|4PFK| Phosphofructokinase (E.C.2.7.1.11) Complex With
Fructose-6-Phosphate And Adenosine
Diphosphate(Slash)Mg++
pdb|3PFK| Phosphofructokinase (E.C.2.7.1.11)
Length = 319
Score = 30.4 bits (67), Expect = 0.67
Identities = 26/95 (27%), Positives = 43/95 (44%), Gaps = 7/95 (7%)
Query: 469 LMKAVDKFE-----HEKGFKFSTYATWWIKQAISRAIADQARTIRIPIHMIDTINRINKV 523
++ A+DK HE+ + A+ +A A TI IP D + I ++
Sbjct: 146 VIDAIDKIRDTATSHERTYVIEVMGRHAGDIALWSGLAGGAETILIPEADYDMNDVIARL 205
Query: 524 MRKHIQENGKEPDLEVVAEEVGLSLDKVKNVIKVT 558
R H E GK+ + +VAE VG +D + + + T
Sbjct: 206 KRGH--ERGKKHSIIIVAEGVGSGVDFGRQIQEAT 238
>pdb|1HLO|A Chain A, The Crystal Structure Of An Intact Human Max-Dna Complex:
New Insights Into Mechanisms Of Transcriptional Control
pdb|1HLO|B Chain B, The Crystal Structure Of An Intact Human Max-Dna Complex:
New Insights Into Mechanisms Of Transcriptional Control
Length = 150
Score = 30.0 bits (66), Expect = 0.87
Identities = 27/126 (21%), Positives = 60/126 (47%), Gaps = 12/126 (9%)
Query: 241 DEDNEEDEENEERKKVVSEKDKKRVEKVQESFKALDKA--KKEWLKALEAPIDEREDELV 298
D D+ E E + +++ + ++KR + +++SF +L + + KA A I ++ E +
Sbjct: 2 DNDDIEVESDADKRAHHNALERKRRDHIKDSFHSLRDSVPSLQGEKASRAQILDKATEYI 61
Query: 299 RSLTLAYKRQTLKDRLYDLEPTSKLINELVKTMETTLKSGDGFEKELKRLEYKLPLFNDT 358
+ + K T + + DL+ + L+ + V+ +E S +L+ P +++
Sbjct: 62 Q--YMRRKNHTHQQDIDDLKRQNALLEQQVRALEKARSSA--------QLQTNYPSSDNS 111
Query: 359 LIANHK 364
L N K
Sbjct: 112 LYTNAK 117
>pdb|1K5D|B Chain B, Crystal Structure Of Ran-Gppnhp-Ranbp1-Rangap Complex
pdb|1K5D|E Chain E, Crystal Structure Of Ran-Gppnhp-Ranbp1-Rangap Complex
pdb|1K5D|H Chain H, Crystal Structure Of Ran-Gppnhp-Ranbp1-Rangap Complex
pdb|1K5D|K Chain K, Crystal Structure Of Ran-Gppnhp-Ranbp1-Rangap Complex
pdb|1K5G|B Chain B, Crystal Structure Of Ran-Gdp-Alfx-Ranbp1-Rangap Complex
pdb|1K5G|E Chain E, Crystal Structure Of Ran-Gdp-Alfx-Ranbp1-Rangap Complex
pdb|1K5G|H Chain H, Crystal Structure Of Ran-Gdp-Alfx-Ranbp1-Rangap Complex
pdb|1K5G|K Chain K, Crystal Structure Of Ran-Gdp-Alfx-Ranbp1-Rangap Complex
Length = 201
Score = 29.6 bits (65), Expect = 1.1
Identities = 40/165 (24%), Positives = 64/165 (38%), Gaps = 26/165 (15%)
Query: 123 KIKKTEEKQKVLDEELEDGYDFLKEKDFLEWSRSDSPVRMYLREMGDIKLLSKDEEIELS 182
+IK EE ++ L + + F E D EW R GD+KLL E+ +
Sbjct: 37 EIKTLEEDEEELFKMRAKLFRFASENDLPEWKE---------RGTGDVKLLKHKEKGAIR 87
Query: 183 KQIRLGEDIILDAICSVPYLIDFIYAYKDALINR------------ERRVKELFRSFDDD 230
+R + + IC+ Y+ + +A +R E EL +
Sbjct: 88 LLMRRDKTL---KICANHYITPMMELKPNAGSDRAWVWNTHADFADECPKPELLAIRFLN 144
Query: 231 DENSVSDSKKDEDNEEDEENEERKKVVSEKDKKRVEKVQESFKAL 275
EN+ K E+ ++ E E+K + D EKV E +AL
Sbjct: 145 AENAQKFKTKFEECRKEIEEREKKAGSGKND--HAEKVAEKLEAL 187
>pdb|1YRG|A Chain A, The Crystal Structure Of Rna1p: A New Fold For A Gtpase-
Activating Protein
pdb|1YRG|B Chain B, The Crystal Structure Of Rna1p: A New Fold For A Gtpase-
Activating Protein
Length = 385
Score = 29.6 bits (65), Expect = 1.1
Identities = 29/123 (23%), Positives = 58/123 (46%), Gaps = 21/123 (17%)
Query: 170 IKLLSKDEEIELSKQIRLGEDIILDAICSVPYLID-------FI------YAYKDALINR 216
+ SK E I L +I LDA+ ++ +ID F+ ++ +D +++
Sbjct: 264 VDAFSKLENIGLQTLRLQYNEIELDAVRTLKTVIDEKMPDLLFLELNGNRFSEEDDVVDE 323
Query: 217 ERRVKELFRS-----FDDDDENSVSDSKKDEDNEEDEENEERKKVVSEKDKKRVEKVQES 271
++E+F + D+ D+ +++ED EE+ E++ + SE++K+ E E
Sbjct: 324 ---IREVFSTRGRGELDELDDMEELTDEEEEDEEEEAESQSPEPETSEEEKEDKELADEL 380
Query: 272 FKA 274
KA
Sbjct: 381 SKA 383
>pdb|1K5D|C Chain C, Crystal Structure Of Ran-Gppnhp-Ranbp1-Rangap Complex
pdb|1K5D|F Chain F, Crystal Structure Of Ran-Gppnhp-Ranbp1-Rangap Complex
pdb|1K5D|I Chain I, Crystal Structure Of Ran-Gppnhp-Ranbp1-Rangap Complex
pdb|1K5D|L Chain L, Crystal Structure Of Ran-Gppnhp-Ranbp1-Rangap Complex
pdb|1K5G|C Chain C, Crystal Structure Of Ran-Gdp-Alfx-Ranbp1-Rangap Complex
pdb|1K5G|F Chain F, Crystal Structure Of Ran-Gdp-Alfx-Ranbp1-Rangap Complex
pdb|1K5G|I Chain I, Crystal Structure Of Ran-Gdp-Alfx-Ranbp1-Rangap Complex
pdb|1K5G|L Chain L, Crystal Structure Of Ran-Gdp-Alfx-Ranbp1-Rangap Complex
Length = 386
Score = 29.6 bits (65), Expect = 1.1
Identities = 29/123 (23%), Positives = 58/123 (46%), Gaps = 21/123 (17%)
Query: 170 IKLLSKDEEIELSKQIRLGEDIILDAICSVPYLID-------FI------YAYKDALINR 216
+ SK E I L +I LDA+ ++ +ID F+ ++ +D +++
Sbjct: 265 VDAFSKLENIGLQTLRLQYNEIELDAVRTLKTVIDEKMPDLLFLELNGNRFSEEDDVVDE 324
Query: 217 ERRVKELFRS-----FDDDDENSVSDSKKDEDNEEDEENEERKKVVSEKDKKRVEKVQES 271
++E+F + D+ D+ +++ED EE+ E++ + SE++K+ E E
Sbjct: 325 ---IREVFSTRGRGELDELDDMEELTDEEEEDEEEEAESQSPEPETSEEEKEDKELADEL 381
Query: 272 FKA 274
KA
Sbjct: 382 SKA 384
>pdb|1JK0|A Chain A, Ribonucleotide Reductase Y2y4 Heterodimer
Length = 419
Score = 28.9 bits (63), Expect = 1.9
Identities = 17/56 (30%), Positives = 30/56 (53%), Gaps = 4/56 (7%)
Query: 2 KKKANEEKAQKRAKTEAKAEATQENKTK--ENNKA--KESKIKESKIKEAKAKEPI 53
K N+E R + K++ +E +K EN+KA K ++ K+KE + +EP+
Sbjct: 43 KSNLNKELETLREENRVKSDMLKEKLSKDAENHKAYLKSHQVHRHKLKEMEKEEPL 98
>pdb|1HH2|P Chain P, Crystal Structure Of Nusa From Thermotoga Maritima
Length = 344
Score = 28.5 bits (62), Expect = 2.5
Identities = 20/100 (20%), Positives = 43/100 (43%), Gaps = 1/100 (1%)
Query: 466 NIGLMKAVDKFEHEKGFKFSTYATWWIKQAISRAIADQARTIRIPIHMIDTINRINKVMR 525
NIGL++A+D+ E EKG K +S + + + + + I
Sbjct: 2 NIGLLEALDQLEEEKGISKEEVIPILEKALVSAYRKNFGNSKNVEVVIDRNTGNIKVYQL 61
Query: 526 KHIQENGKEPDLEVVAEEVGLSLDKVKNVIKVTKEPISLE 565
+ E ++P ++ EE +D + V + K+ ++++
Sbjct: 62 LEVVEEVEDPATQISLEE-AKKIDPLAEVGSIVKKELNVK 100
>pdb|1BF5|A Chain A, Stat-1 Dna Complex
Length = 545
Score = 28.1 bits (61), Expect = 3.3
Identities = 17/61 (27%), Positives = 34/61 (54%), Gaps = 2/61 (3%)
Query: 583 KNIVSSIDHIMR--EDLKAQIESVLDQLNEREKAVIRMRFGLLDDESDRTLEEIGKELNV 640
K+ V I+H ++ EDL+ + + L RE +++ + +LD++ + +I + LNV
Sbjct: 15 KDKVMCIEHEIKSLEDLQDEYDFKCKTLQNREHLLLKKMYLMLDNKRKEVVHKIIELLNV 74
Query: 641 T 641
T
Sbjct: 75 T 75
>pdb|1LQ7|A Chain A, De Novo Designed Protein Model Of Radical Enzymes
Length = 67
Score = 27.7 bits (60), Expect = 4.3
Identities = 17/61 (27%), Positives = 34/61 (54%), Gaps = 4/61 (6%)
Query: 79 ESIIQISAKVPTLAQIKKIKELCQKYQKKLVSSSEYAKKLNAIDKIKKTEEKQKVLDEEL 138
E + + KV L +I+EL +K+++ + ++L ++KK EE+ K L+EE+
Sbjct: 9 EKVKALEEKVKALGGGGRIEELKKKWEEL----KKKIEELGGGGEVKKVEEEVKKLEEEI 64
Query: 139 E 139
+
Sbjct: 65 K 65
>pdb|1I9T|A Chain A, Crystal Structure Of The Oxidized Rna Triphosphatase
Domain Of Mouse Mrna Capping Enzyme
Length = 210
Score = 27.7 bits (60), Expect = 4.3
Identities = 15/39 (38%), Positives = 23/39 (58%), Gaps = 3/39 (7%)
Query: 220 VKELFRSFDDDDENSVSDSKKD---EDNEEDEENEERKK 255
+KELFR + D +E D ED +E++E+E+ KK
Sbjct: 170 LKELFRRYGDIEEAPPPPVLPDWCFEDEDEEDEDEDGKK 208
>pdb|1MDY|B Chain B, Myod Basic-Helix-Loop-Helix (Bhlh) Domain (Residues 102 -
166) Mutant With Cys 135 Replaced By Ser (C135s)
Complexed With Dna
(5'-D(TpCpApApCpApGpCpTpGpTpTpGpA)-3')
pdb|1MDY|C Chain C, Myod Basic-Helix-Loop-Helix (Bhlh) Domain (Residues 102 -
166) Mutant With Cys 135 Replaced By Ser (C135s)
Complexed With Dna
(5'-D(TpCpApApCpApGpCpTpGpTpTpGpA)-3')
pdb|1MDY|D Chain D, Myod Basic-Helix-Loop-Helix (Bhlh) Domain (Residues 102 -
166) Mutant With Cys 135 Replaced By Ser (C135s)
Complexed With Dna
(5'-D(TpCpApApCpApGpCpTpGpTpTpGpA)-3')
Length = 62
Score = 27.7 bits (60), Expect = 4.3
Identities = 9/29 (31%), Positives = 21/29 (72%)
Query: 250 NEERKKVVSEKDKKRVEKVQESFKALDKA 278
N +R+K + ++++R+ KV E+F+ L ++
Sbjct: 3 NADRRKAATMRERRRLSKVNEAFETLKRS 31
>pdb|1E5W|A Chain A, Structure Of Isolated Ferm Domain And First Long Helix Of
Moesin
Length = 346
Score = 27.7 bits (60), Expect = 4.3
Identities = 9/22 (40%), Positives = 20/22 (90%)
Query: 249 ENEERKKVVSEKDKKRVEKVQE 270
ENE++K+ ++EK+K+++E+ +E
Sbjct: 324 ENEKKKREMAEKEKEKIEREKE 345
Score = 26.9 bits (58), Expect = 7.4
Identities = 17/46 (36%), Positives = 25/46 (53%), Gaps = 5/46 (10%)
Query: 1 MKKKANEEKAQKRAKTEAKAEATQENKTKENNKAKESKIKESKIKE 46
MK +A EEK QK+ + A EN+ K+ A++ K K + KE
Sbjct: 305 MKAQAREEKHQKQME-----RAMLENEKKKREMAEKEKEKIEREKE 345
>pdb|1MDY|A Chain A, Myod Basic-Helix-Loop-Helix (Bhlh) Domain (Residues 102 -
166) Mutant With Cys 135 Replaced By Ser (C135s)
Complexed With Dna
(5'-D(TpCpApApCpApGpCpTpGpTpTpGpA)-3')
Length = 68
Score = 27.7 bits (60), Expect = 4.3
Identities = 9/29 (31%), Positives = 21/29 (72%)
Query: 250 NEERKKVVSEKDKKRVEKVQESFKALDKA 278
N +R+K + ++++R+ KV E+F+ L ++
Sbjct: 9 NADRRKAATMRERRRLSKVNEAFETLKRS 37
>pdb|1I9S|A Chain A, Crystal Structure Of The Rna Triphosphatase Domain Of
Mouse Mrna Capping Enzyme
Length = 210
Score = 27.7 bits (60), Expect = 4.3
Identities = 15/39 (38%), Positives = 23/39 (58%), Gaps = 3/39 (7%)
Query: 220 VKELFRSFDDDDENSVSDSKKD---EDNEEDEENEERKK 255
+KELFR + D +E D ED +E++E+E+ KK
Sbjct: 170 LKELFRRYGDIEEAPPPPVLPDWCFEDEDEEDEDEDGKK 208
>pdb|1AYZ|A Chain A, Crystal Structure Of The Saccharomyces Cerevisiae
Ubiquitin-Conjugating Enzyme Rad6 (Ubc2) At 2.6a
Resolution
pdb|1AYZ|B Chain B, Crystal Structure Of The Saccharomyces Cerevisiae
Ubiquitin-Conjugating Enzyme Rad6 (Ubc2) At 2.6a
Resolution
pdb|1AYZ|C Chain C, Crystal Structure Of The Saccharomyces Cerevisiae
Ubiquitin-Conjugating Enzyme Rad6 (Ubc2) At 2.6a
Resolution
Length = 169
Score = 27.3 bits (59), Expect = 5.7
Identities = 15/49 (30%), Positives = 26/49 (52%), Gaps = 1/49 (2%)
Query: 200 PYLIDFIYAYKDALINRERRVKELF-RSFDDDDENSVSDSKKDEDNEED 247
P ++ +KD +RVKE +S++DD ++ D D+D+E D
Sbjct: 121 PANVEAATLFKDHKSQYVKRVKETVEKSWEDDMDDDDDDDDDDDDDEAD 169
>pdb|1DHX| Adenovirus, Hexon Protein, Coat Protein Mol_id: 1; Molecule:
Adenovirus Type 2 Hexon; Chain: Null; Synonym:
Adenovirus Type 2 Polypeptide Ii
Length = 967
Score = 27.3 bits (59), Expect = 5.7
Identities = 9/25 (36%), Positives = 19/25 (76%)
Query: 229 DDDENSVSDSKKDEDNEEDEENEER 253
+D +V++ +++ED +E+EE EE+
Sbjct: 138 EDSGRAVAEDEEEEDEDEEEEEEEQ 162
>pdb|1JIH|B Chain B, Yeast Dna Polymerase Eta
pdb|1JIH|A Chain A, Yeast Dna Polymerase Eta
Length = 531
Score = 27.3 bits (59), Expect = 5.7
Identities = 19/96 (19%), Positives = 46/96 (47%), Gaps = 9/96 (9%)
Query: 7 EEKAQKRAKTEAKAEATQENKTKEN-NKAKESKIKESKIKEAKAKEPIP------VKKLS 59
+ Q + +AK + + +++ N + K + + E K ++ + +P VK +
Sbjct: 337 DNAGQLKEFLDAKVKQSDYDRSTSNIDPLKTADLAEKLFKLSRGRYGLPLSSRPVVKSMM 396
Query: 60 FNEALEELFANSLSDCVSYESII--QISAKVPTLAQ 93
N+ L NS+ DC+S+ + ++++++ L Q
Sbjct: 397 SNKNLRGKSCNSIVDCISWLEVFCAELTSRIQDLEQ 432
>pdb|1FXK|B Chain B, Crystal Structure Of Archaeal Prefoldin (Gimc)
Length = 109
Score = 26.9 bits (58), Expect = 7.4
Identities = 20/73 (27%), Positives = 38/73 (51%), Gaps = 9/73 (12%)
Query: 217 ERRVKELFRSFDDDDENSVSDS-----KKDEDNEEDEENEE----RKKVVSEKDKKRVEK 267
++ ++EL R+ DD + S + KDE EE +E E R+K + ++++ +K
Sbjct: 34 QKALEELSRAADDAEVYKSSGNILIRVAKDELTEELQEKLETLQLREKTIERQEERVXKK 93
Query: 268 VQESFKALDKAKK 280
+QE + +A K
Sbjct: 94 LQEXQVNIQEAXK 106
>pdb|2IG2|H Chain H, Immunoglobulin G1
Length = 455
Score = 26.9 bits (58), Expect = 7.4
Identities = 9/20 (45%), Positives = 15/20 (75%)
Query: 481 GFKFSTYATWWIKQAISRAI 500
GF FS+YA +W++QA + +
Sbjct: 26 GFIFSSYAMYWVRQAPGKGL 45
>pdb|1A6D|A Chain A, Thermosome From T. Acidophilum
pdb|1A6E|A Chain A, Thermosome - Mg-Adp-Alf3 Complex
Length = 545
Score = 26.9 bits (58), Expect = 7.4
Identities = 33/131 (25%), Positives = 60/131 (45%), Gaps = 12/131 (9%)
Query: 319 PTSKLINELVKTMETTLKSGDGFE-------KELKRLEYKLPL-FNDTLIANHKKILANI 370
PT+K+I E+ K +T + GDG + LK+ E L + T+I+N ++ N
Sbjct: 76 PTAKMIVEVSKAQDTAV--GDGTTTAVVLSGELLKQAETLLDQGVHPTVISNGYRLAVNE 133
Query: 371 TNMTKEDIIAQ-VPEATMVSVYMDLKKLFLTKEASEEGFDLAPNKLKEILEQIKRGKLIS 429
++I + +AT+ + + T +++ DL + + E ++ GK I
Sbjct: 134 ARKIIDEIAEKSTDDATLRKIALTALSGKNTGLSNDFLADLVVKAVNAVAE-VRDGKTIV 192
Query: 430 DRAKNKMAKSN 440
D A K+ K N
Sbjct: 193 DTANIKVDKKN 203
>pdb|2FB4|H Chain H, Immunoglobulin Fab
Length = 229
Score = 26.9 bits (58), Expect = 7.4
Identities = 9/20 (45%), Positives = 15/20 (75%)
Query: 481 GFKFSTYATWWIKQAISRAI 500
GF FS+YA +W++QA + +
Sbjct: 26 GFIFSSYAMYWVRQAPGKGL 45
>pdb|1F1Z|A Chain A, Tnsa, A Catalytic Component Of The Tn7 Transposition
System
pdb|1F1Z|B Chain B, Tnsa, A Catalytic Component Of The Tn7 Transposition
System
Length = 273
Score = 26.9 bits (58), Expect = 7.4
Identities = 15/64 (23%), Positives = 33/64 (51%)
Query: 128 EEKQKVLDEELEDGYDFLKEKDFLEWSRSDSPVRMYLREMGDIKLLSKDEEIELSKQIRL 187
+E V+ E +E Y E+ E SP+ L+E GD +++ ++++++ + L
Sbjct: 166 KEINPVVKENIEWLYSVKTEEVSAELLAQLSPLAHILQEKGDENIINVCKQVDIAYDLEL 225
Query: 188 GEDI 191
G+ +
Sbjct: 226 GKTL 229
>pdb|1FXK|A Chain A, Crystal Structure Of Archaeal Prefoldin (Gimc)
Length = 107
Score = 26.9 bits (58), Expect = 7.4
Identities = 20/73 (27%), Positives = 38/73 (51%), Gaps = 9/73 (12%)
Query: 217 ERRVKELFRSFDDDDENSVSDS-----KKDEDNEEDEENEE----RKKVVSEKDKKRVEK 267
++ ++EL R+ DD + S + KDE EE +E E R+K + ++++ +K
Sbjct: 35 QKALEELSRAADDAEVYKSSGNILIRVAKDELTEELQEKLETLQLREKTIERQEERVXKK 94
Query: 268 VQESFKALDKAKK 280
+QE + +A K
Sbjct: 95 LQEXQVNIQEAXK 107
>pdb|1AHR| Calmodulin Mutant With A Two Residue Deletion In The Central Helix
Length = 146
Score = 26.9 bits (58), Expect = 7.4
Identities = 25/112 (22%), Positives = 44/112 (38%), Gaps = 33/112 (29%)
Query: 221 KELFRSFDDDDENSVSDSK-----------------KDEDNEEDEENE------ERKKVV 257
KE F FD D + +++ + +D NE D + E ++
Sbjct: 13 KEAFSLFDKDGDGTITTKELGTVMRSLGQNPTEAELQDMINEVDADGNGTIDFPEFLTMM 72
Query: 258 SEKDKKRVEKVQESFKALDKAKKEWLKALEAP----------IDEREDELVR 299
+ K K E+++E+F+ DK ++ A E DE DE++R
Sbjct: 73 ARKMKDSEEEIREAFRVFDKDGNGFISAAELRHVMTNLGEKLTDEEVDEMIR 124
>pdb|1F5S|A Chain A, Crystal Structure Of Phosphoserine Phosphatase From
Methanococcus Jannaschii
pdb|1F5S|B Chain B, Crystal Structure Of Phosphoserine Phosphatase From
Methanococcus Jannaschii
Length = 211
Score = 26.9 bits (58), Expect = 7.4
Identities = 33/135 (24%), Positives = 54/135 (39%), Gaps = 26/135 (19%)
Query: 326 ELVKTMETTLKSGDGFEKELKRLEYKLPLFNDTLIANHKKILANITNMTKEDIIAQVPEA 385
E+ K + ++ FE+ L++ ++ L D I +K + IT P
Sbjct: 34 EVKKITKEAMEGKLNFEQSLRK---RVSLLKDLPIEKVEKAIKRIT-----------PTE 79
Query: 386 TMVSVYMDLKKLFLTKEASEEGFDLAPNKLKEILEQ---------IKRGKLISDRAKNKM 436
+LK GFD+A NK+KE L +K GKL D + ++
Sbjct: 80 GAEETIKELKNRGYVVAVVSGGFDIAVNKIKEKLGLDYAFANRLIVKDGKLTGD-VEGEV 138
Query: 437 AKSNLR--LVVSIAK 449
K N + ++ IAK
Sbjct: 139 LKENAKGEILEKIAK 153
>pdb|1J97|A Chain A, Phospho-Aspartyl Intermediate Analogue Of Phosphoserine
Phosphatase
pdb|1J97|B Chain B, Phospho-Aspartyl Intermediate Analogue Of Phosphoserine
Phosphatase
Length = 211
Score = 26.9 bits (58), Expect = 7.4
Identities = 33/135 (24%), Positives = 54/135 (39%), Gaps = 26/135 (19%)
Query: 326 ELVKTMETTLKSGDGFEKELKRLEYKLPLFNDTLIANHKKILANITNMTKEDIIAQVPEA 385
E+ K + ++ FE+ L++ ++ L D I +K + IT P
Sbjct: 34 EVKKITKEAMEGKLNFEQSLRK---RVSLLKDLPIEKVEKAIKRIT-----------PTE 79
Query: 386 TMVSVYMDLKKLFLTKEASEEGFDLAPNKLKEILEQ---------IKRGKLISDRAKNKM 436
+LK GFD+A NK+KE L +K GKL D + ++
Sbjct: 80 GAEETIKELKNRGYVVAVVSGGFDIAVNKIKEKLGLDYAFANRLIVKDGKLTGD-VEGEV 138
Query: 437 AKSNLR--LVVSIAK 449
K N + ++ IAK
Sbjct: 139 LKENAKGEILEKIAK 153
>pdb|1E6V|B Chain B, Methyl-Coenzyme M Reductase From Methanopyrus Kandleri
pdb|1E6V|E Chain E, Methyl-Coenzyme M Reductase From Methanopyrus Kandleri
Length = 443
Score = 26.6 bits (57), Expect = 9.6
Identities = 20/82 (24%), Positives = 43/82 (52%), Gaps = 4/82 (4%)
Query: 494 QAISRAIADQARTIRIPIHMIDTINRINKVMRKHIQENGKEPDLEVVAEEVGLSLDKVKN 553
+AI + D RT+ + + I+ + V K ++ G+E D+++V ++ D+++
Sbjct: 34 EAIQSIVNDIKRTVAVDLEGIENALQNATVGGKGMKIPGREMDVDIVDNAEAIA-DEIEK 92
Query: 554 VIKVTKEPISLETPVGNDDDGK 575
+I+V ++ +T V DGK
Sbjct: 93 MIRVYQDD---DTNVEPMYDGK 111
>pdb|1PEH| Nmr Structure Of The Membrane-Binding Domain Of Ctp Phosphocholine
Cytidylyltransferase, 10 Structures
Length = 35
Score = 26.6 bits (57), Expect = 9.6
Identities = 9/26 (34%), Positives = 20/26 (76%)
Query: 262 KKRVEKVQESFKALDKAKKEWLKALE 287
++RV+KV++ K +++ KEW++ +E
Sbjct: 9 QERVDKVKKKVKDVEEKSKEWVQKVE 34
>pdb|1ECL| Amino Terminal 67kda Domain Of Escherichia Coli Dna Topoisomerase
I (Residues 2-590 Of Mature Protein) Cloning Artifact
Adds Two Residues To The Amino-Terminus Which Were Not
Observed In The Experimental Electron Density (Gly-2,
Ser-1)
Length = 597
Score = 26.6 bits (57), Expect = 9.6
Identities = 18/58 (31%), Positives = 29/58 (49%), Gaps = 4/58 (6%)
Query: 575 KFGDFVEDKNIVSSIDHIMREDLKAQIESVLDQLNERE---KAVIRMRFGLLDDESDR 629
K G+ V D+ + + +M D AQ+E+ LDQ+ E KAV+ F + D+
Sbjct: 521 KMGEIVTDR-LEENFRELMNYDFTAQMENSLDQVANHEAEWKAVLDHFFSDFTQQLDK 577
>pdb|1CY7|A Chain A, Complex Of E.Coli Dna Topoisomerase I With 5'-Thymidine
Monophosphate
pdb|1CY8|A Chain A, Complex Of E.Coli Dna Topoisomerase I With 5'-Thymidine
Monophosphate And 3'-Thymidine Monophosphate
pdb|1CY6|A Chain A, Complex Of E.Coli Dna Topoisomerase I With 3' Thymidine
Monophosphate
pdb|1CY4|A Chain A, Complex Of E.Coli Dna Topoisomerase I With 5'ptptptp3'
pdb|1CY1|A Chain A, Complex Of E.Coli Dna Topoisomerase I With 5'ptptpt
pdb|1CY2|A Chain A, Complex Of E.Coli Dna Topoisomerase I With Tptptp3'
pdb|1CY0|A Chain A, Complex Of E.Coli Dna Topoisomerase I With 3'-5'-Adenosine
Diphosphate
Length = 599
Score = 26.6 bits (57), Expect = 9.6
Identities = 18/58 (31%), Positives = 29/58 (49%), Gaps = 4/58 (6%)
Query: 575 KFGDFVEDKNIVSSIDHIMREDLKAQIESVLDQLNERE---KAVIRMRFGLLDDESDR 629
K G+ V D+ + + +M D AQ+E+ LDQ+ E KAV+ F + D+
Sbjct: 523 KMGEIVTDR-LEENFRELMNYDFTAQMENSLDQVANHEAEWKAVLDHFFSDFTQQLDK 579
Database: /var/www/html/HP/blast_new/blast/db/pdbaa
Posted date: Dec 20, 2002 11:08 AM
Number of letters in database: 2,899,336
Number of sequences in database: 13,198
Lambda K H
0.312 0.132 0.347
Gapped
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,489,614
Number of Sequences: 13198
Number of extensions: 145080
Number of successful extensions: 611
Number of sequences better than 10.0: 49
Number of HSP's better than 10.0 without gapping: 25
Number of HSP's successfully gapped in prelim test: 24
Number of HSP's that attempted gapping in prelim test: 531
Number of HSP's gapped (non-prelim): 81
length of query: 671
length of database: 2,899,336
effective HSP length: 94
effective length of query: 577
effective length of database: 1,658,724
effective search space: 957083748
effective search space used: 957083748
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.8 bits)
S2: 57 (26.6 bits)