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|15644875|ref|NP_207045.1| ATP-dependent RNA helicase,
DEAD-box family (deaD) [Helicobacter pylori 26695]
(492 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|1HV8|A Chain A, Crystal Structure Of A Dead Box Protein... 282 7e-77
pdb|1FUU|B Chain B, Yeast Initiation Factor 4a >gi|11513344... 243 4e-65
pdb|1QDE|A Chain A, Crystal Structure Of The Atpase Domain ... 155 1e-38
pdb|1QVA|A Chain A, Yeast Initiation Factor 4a N-Terminal D... 153 5e-38
pdb|1FUK|A Chain A, Crystal Structure Of The Carboxy Termin... 105 1e-23
pdb|1D9X|A Chain A, Crystal Structure Of The Dna Repair Pro... 40 5e-04
pdb|1D9Z|A Chain A, Crystal Structure Of The Dna Repair Pro... 40 5e-04
pdb|1GM5|A Chain A, Structure Of Recg Bound To Three-Way Dn... 39 0.001
pdb|1GL9|B Chain B, Archaeoglobus Fulgidus Reverse Gyrase C... 38 0.003
pdb|1GKU|B Chain B, Reverse Gyrase From Archaeoglobus Fulgidus 38 0.003
pdb|1ELO| Elongation Factor G Without Nucleotide >gi|1633... 31 0.28
pdb|1FNM|A Chain A, Structure Of Thermus Thermophilus Ef-G ... 31 0.28
pdb|1JQM|B Chain B, Fitting Of L11 Protein And Elongation F... 31 0.28
pdb|1JR6|A Chain A, Solution Structure Of An Engineered Arg... 30 0.61
pdb|1M6N|A Chain A, Crystal Structure Of The Seca Transloca... 29 1.4
pdb|1H2H|A Chain A, Crystal Structure Of Tm1643 28 1.8
pdb|1J5P|A Chain A, Crystal Structure Of Conserved Hypothet... 28 1.8
pdb|1FBL| Mol_id: 1; Molecule: Fibroblast (Interstitial) ... 28 3.0
pdb|1IYJ|B Chain B, Structure Of A Brca2-Dss1 Complex >gi|2... 27 4.0
pdb|1LTM| Accelerated X-Ray Structure Elucidation Of A 36... 27 6.8
pdb|1QQ7|A Chain A, Structure Of L-2-Haloacid Dehalogenase ... 27 6.8
pdb|1AQ6|A Chain A, Structure Of L-2-Haloacid Dehalogenase ... 27 6.8
pdb|1D0L|A Chain A, The Escherichia Coli Lytic Transglycosy... 27 6.8
pdb|1QQ5|A Chain A, Structure Of L-2-Haloacid Dehalogenase ... 27 6.8
>pdb|1HV8|A Chain A, Crystal Structure Of A Dead Box Protein From The
Hyperthermophile Methanococcus Jannaschii
pdb|1HV8|B Chain B, Crystal Structure Of A Dead Box Protein From The
Hyperthermophile Methanococcus Jannaschii
Length = 367
Score = 282 bits (721), Expect = 7e-77
Identities = 152/364 (41%), Positives = 231/364 (62%), Gaps = 11/364 (3%)
Query: 21 SFNDLGLKESVLKSVYEAGFTSPSPIQEKAIPAVLQGR-DVIAQAQTGTGKTAAFALPII 79
+FN+L L +++L ++ GF P+ IQ K IP L +++AQA+TG+GKTA+FA+P+I
Sbjct: 7 NFNELNLSDNILNAIRNKGFEKPTDIQXKVIPLFLNDEYNIVAQARTGSGKTASFAIPLI 66
Query: 80 NNLKNNHTIEALVITPTRELAMQISDEIFKLGKHTRTKTVCVYGGQSVKKQCEFIKKNPQ 139
+ N+ IEA+++TPTRELA+Q++DEI L + K +YGG+++ Q + +K N
Sbjct: 67 ELVNENNGIEAIILTPTRELAIQVADEIESLKGNKNLKIAKIYGGKAIYPQIKALK-NAN 125
Query: 140 VMIATPGRLLDHLKNERIHKFVPKVVVLDESDEMLDMGFLDDIEEIFDYLPSEAQILLFS 199
+++ TPGR+LDH+ ++ K +LDE+DE L+ GF+ D+E+I + + +ILLFS
Sbjct: 126 IVVGTPGRILDHINRGTLNLKNVKYFILDEADEXLNXGFIKDVEKILNACNKDKRILLFS 185
Query: 200 ATMPEPIKRLADKILENP--IKIHIAPSNITNTDITQRFYVINEHERAEAIMRLLDTQAP 257
AT P I LA K + IK I N +I Q + +NE+ER EA+ RLL +
Sbjct: 186 ATXPREILNLAKKYXGDYSFIKAKI------NANIEQSYVEVNENERFEALCRLLKNKE- 238
Query: 258 KKSIVFTRTKKEADELHQFLASKNYKSTALHGDMDQRDRRSSIMAFKKNDADVLVATDVA 317
+VF +TK++ EL L +K+ A+HGD+ Q R I FK+ +L+ATDV
Sbjct: 239 FYGLVFCKTKRDTKELASXLRDIGFKAGAIHGDLSQSQREKVIRLFKQKKIRILIATDVX 298
Query: 318 SRGLDISGVSHVFNYHLPLNTESYIHRIGRTGRAGKKGMAITLVTPLEYKELLRMQKEID 377
SRG+D++ ++ V NYHLP N ESY HRIGRTGRAGKKG AI+++ EYK+L +++
Sbjct: 299 SRGIDVNDLNCVINYHLPQNPESYXHRIGRTGRAGKKGKAISIINRREYKKLRYIERAXK 358
Query: 378 SEIE 381
+I+
Sbjct: 359 LKIK 362
>pdb|1FUU|B Chain B, Yeast Initiation Factor 4a
pdb|1FUU|A Chain A, Yeast Initiation Factor 4a
Length = 394
Score = 243 bits (620), Expect = 4e-65
Identities = 132/388 (34%), Positives = 222/388 (57%), Gaps = 8/388 (2%)
Query: 2 ELNQPPLPTEIDGDAYHKPSFNDLGLKESVLKSVYEAGFTSPSPIQEKAIPAVLQGRDVI 61
++ + + T D Y F+D L E++L+ V+ GF PS IQ++AI +++G DV+
Sbjct: 6 DIEESQIQTNYDKVVY---KFDDXELDENLLRGVFGYGFEEPSAIQQRAIXPIIEGHDVL 62
Query: 62 AQAQTGTGKTAAFALPIINNLKNN-HTIEALVITPTRELAMQISDEIFKLGKHTRTKTVC 120
AQAQ+GTGKT F++ + + + +AL + PTRELA+QI + L H K
Sbjct: 63 AQAQSGTGKTGTFSIAALQRIDTSVKAPQALXLAPTRELALQIQKVVXALAFHXDIKVHA 122
Query: 121 VYGGQSVKKQCEFIKKNPQVMIATPGRLLDHLKNERIHKFVPKVVVLDESDEMLDMGFLD 180
GG S + E ++ + Q+++ TPGR+ D+++ R K +LDE+DE L GF +
Sbjct: 123 CIGGTSFVEDAEGLR-DAQIVVGTPGRVFDNIQRRRFRTDKIKXFILDEADEXLSSGFKE 181
Query: 181 DIEEIFDYLPSEAQILLFSATMPEPIKRLADKILENPIKIHIAPSNITNTDITQRFYVIN 240
I +IF LP Q++L SAT P + + K NP++I + +T I Q + +
Sbjct: 182 QIYQIFTLLPPTTQVVLLSATXPNDVLEVTTKFXRNPVRILVKKDELTLEGIKQFYVNVE 241
Query: 241 EHE-RAEAIMRLLDTQAPKKSIVFTRTKKEADELHQFLASKNYKSTALHGDMDQRDRRSS 299
E E + E + L D+ + ++++F T+++ +EL L + + +A++ D+ Q++R +
Sbjct: 242 EEEYKYECLTDLYDSISVTQAVIFCNTRRKVEELTTKLRNDKFTVSAIYSDLPQQERDTI 301
Query: 300 IMAFKKNDADVLVATDVASRGLDISGVSHVFNYHLPLNTESYIHRIGRTGRAGKKGMAIT 359
F+ + +L++TD+ +RG+D+ VS V NY LP N E+YIHRIGR GR G+KG+AI
Sbjct: 302 XKEFRSGSSRILISTDLLARGIDVQQVSLVINYDLPANKENYIHRIGRGGRFGRKGVAIN 361
Query: 360 LVTPLEYKELLRMQKEIDSEIELFEIPT 387
VT + ++K ++IE E+P+
Sbjct: 362 FVTNEDVGAXRELEKFYSTQIE--ELPS 387
>pdb|1QDE|A Chain A, Crystal Structure Of The Atpase Domain Of Translation
Initiation Factor 4a From Saccharomyces Cerevisiae-The
Prototype Of The Dead Box Protein Family
Length = 224
Score = 155 bits (392), Expect = 1e-38
Identities = 78/208 (37%), Positives = 126/208 (60%), Gaps = 2/208 (0%)
Query: 22 FNDLGLKESVLKSVYEAGFTSPSPIQEKAIPAVLQGRDVIAQAQTGTGKTAAFALPIINN 81
F+D+ L E++L+ V+ GF PS IQ++AI +++G DV+AQAQ+GTGKT F++ +
Sbjct: 16 FDDMELDENLLRGVFGYGFEEPSAIQQRAIMPIIEGHDVLAQAQSGTGKTGTFSIAALQR 75
Query: 82 LKNN-HTIEALVITPTRELAMQISDEIFKLGKHTRTKTVCVYGGQSVKKQCEFIKKNPQV 140
+ + +AL++ PTRELA+QI + L H K GG S + E ++ + Q+
Sbjct: 76 IDTSVKAPQALMLAPTRELALQIQKVVMALAFHMDIKVHACIGGTSFVEDAEGLR-DAQI 134
Query: 141 MIATPGRLLDHLKNERIHKFVPKVVVLDESDEMLDMGFLDDIEEIFDYLPSEAQILLFSA 200
++ TPGR+ D+++ R K+ +LDE+DEML GF + I +IF LP Q++L SA
Sbjct: 135 VVGTPGRVFDNIQRRRFRTDKIKMFILDEADEMLSSGFKEQIYQIFTLLPPTTQVVLLSA 194
Query: 201 TMPEPIKRLADKILENPIKIHIAPSNIT 228
TMP + + K + NP++I + +T
Sbjct: 195 TMPNDVLEVTTKFMRNPVRILVKKDELT 222
>pdb|1QVA|A Chain A, Yeast Initiation Factor 4a N-Terminal Domain
Length = 223
Score = 153 bits (386), Expect = 5e-38
Identities = 77/200 (38%), Positives = 122/200 (60%), Gaps = 2/200 (1%)
Query: 22 FNDLGLKESVLKSVYEAGFTSPSPIQEKAIPAVLQGRDVIAQAQTGTGKTAAFALPIINN 81
F+D+ L E +L+ V+ GF PS IQ++AI +++G DV+AQAQ+GTGKT F++ +
Sbjct: 23 FDDMELDEQLLRGVFGYGFEEPSAIQQRAIMPIIEGHDVLAQAQSGTGKTGTFSIAALQR 82
Query: 82 LKNN-HTIEALVITPTRELAMQISDEIFKLGKHTRTKTVCVYGGQSVKKQCEFIKKNPQV 140
+ + +AL++ PTRELA+QI + L H K GG S + E ++ + Q+
Sbjct: 83 IDTSVKAPQALMLAPTRELALQIQKVVMALAFHMDIKVHACIGGTSFVEDAEGLR-DAQI 141
Query: 141 MIATPGRLLDHLKNERIHKFVPKVVVLDESDEMLDMGFLDDIEEIFDYLPSEAQILLFSA 200
++ TPGR+ D+++ R K+ +LDE+DEML GF + I +IF LP Q++L SA
Sbjct: 142 VVGTPGRVFDNIQRRRFRTDKIKMFILDEADEMLSSGFKEQIYQIFTLLPPTTQVVLLSA 201
Query: 201 TMPEPIKRLADKILENPIKI 220
TMP + + K + NP++I
Sbjct: 202 TMPNDVLEVTTKFMRNPVRI 221
>pdb|1FUK|A Chain A, Crystal Structure Of The Carboxy Terminal Domain Of Yeast
Eif4a
Length = 165
Score = 105 bits (262), Expect = 1e-23
Identities = 54/156 (34%), Positives = 98/156 (62%), Gaps = 4/156 (2%)
Query: 234 QRFYVINEHE--RAEAIMRLLDTQAPKKSIVFTRTKKEADELHQFLASKNYKSTALHGDM 291
++FYV E E + E + L D+ + ++++F T+++ +EL L + + +A++ D+
Sbjct: 5 KQFYVNVEEEEYKYECLTDLYDSISVTQAVIFCNTRRKVEELTTKLRNDKFTVSAIYSDL 64
Query: 292 DQRDRRSSIMAFKKNDADVLVATDVASRGLDISGVSHVFNYHLPLNTESYIHRIGRTGRA 351
Q++R + + F+ + +L++TD+ +RG+D+ VS V NY LP N E+YIHRIGR GR
Sbjct: 65 PQQERDTIMKEFRSGSSRILISTDLLARGIDVQQVSLVINYDLPANKENYIHRIGRGGRF 124
Query: 352 GKKGMAITLVTPLEYKELLRMQKEIDSEIELFEIPT 387
G+KG+AI VT + + ++K ++IE E+P+
Sbjct: 125 GRKGVAINFVTNEDVGAMRELEKFYSTQIE--ELPS 158
>pdb|1D9X|A Chain A, Crystal Structure Of The Dna Repair Protein Uvrb
Length = 658
Score = 40.4 bits (93), Expect = 5e-04
Identities = 24/72 (33%), Positives = 37/72 (51%)
Query: 258 KKSIVFTRTKKEADELHQFLASKNYKSTALHGDMDQRDRRSSIMAFKKNDADVLVATDVA 317
++++V T TKK A++L +L K LH ++ +R I + DVLV ++
Sbjct: 446 ERTLVTTLTKKMAEDLTDYLKEAGIKVAYLHSEIKTLERIEIIRDLRLGKYDVLVGINLL 505
Query: 318 SRGLDISGVSHV 329
GLDI VS V
Sbjct: 506 REGLDIPEVSLV 517
>pdb|1D9Z|A Chain A, Crystal Structure Of The Dna Repair Protein Uvrb In
Complex With Atp
Length = 657
Score = 40.4 bits (93), Expect = 5e-04
Identities = 24/72 (33%), Positives = 37/72 (51%)
Query: 258 KKSIVFTRTKKEADELHQFLASKNYKSTALHGDMDQRDRRSSIMAFKKNDADVLVATDVA 317
++++V T TKK A++L +L K LH ++ +R I + DVLV ++
Sbjct: 445 ERTLVTTLTKKMAEDLTDYLKEAGIKVAYLHSEIKTLERIEIIRDLRLGKYDVLVGINLL 504
Query: 318 SRGLDISGVSHV 329
GLDI VS V
Sbjct: 505 REGLDIPEVSLV 516
>pdb|1GM5|A Chain A, Structure Of Recg Bound To Three-Way Dna Junction
Length = 780
Score = 39.3 bits (90), Expect = 0.001
Identities = 24/110 (21%), Positives = 57/110 (51%), Gaps = 4/110 (3%)
Query: 268 KEADELHQFLASK---NYKSTALHGDMDQRDRRSSIMAFKKNDADVLVATDVASRGLDIS 324
K A E++++L+ + +K +HG + Q ++ ++ F + D+LV+T V G+D+
Sbjct: 597 KSAVEMYEYLSKEVFPEFKLGLMHGRLSQEEKDRVMLEFAEGRYDILVSTTVIEVGIDVP 656
Query: 325 GVSHVFNYHLPLNTESYIHRI-GRTGRAGKKGMAITLVTPLEYKELLRMQ 373
+ + + + +H++ GR GR G++ +V + + + R++
Sbjct: 657 RANVMVIENPERFGLAQLHQLRGRVGRGGQEAYCFLVVGDVGEEAMERLR 706
>pdb|1GL9|B Chain B, Archaeoglobus Fulgidus Reverse Gyrase Complexed With Adpnp
pdb|1GL9|C Chain C, Archaeoglobus Fulgidus Reverse Gyrase Complexed With Adpnp
Length = 1054
Score = 37.7 bits (86), Expect = 0.003
Identities = 58/256 (22%), Positives = 109/256 (41%), Gaps = 32/256 (12%)
Query: 43 PSPIQEKAIPAVLQGRDVIAQAQTGTGKTA-AFALPIINNLKNNHTIEALVITPTRELAM 101
P IQ+ +L+ A A TG GKT+ A+ + LK VI PT L +
Sbjct: 57 PRAIQKMWAKRILRKESFAATAPTGVGKTSFGLAMSLFLALKGK---RCYVIFPTSLLVI 113
Query: 102 QISDEIFKLGKHTRTKT---VCVYGGQSVKKQCE-FIK--KNPQVMIATPGRLLDHLKNE 155
Q ++ I K + T + Y G+ K++ E F++ +N +++I T L H +
Sbjct: 114 QAAETIRKYAEKAGVGTENLIGYYHGRIPKREKENFMQNLRNFKIVITTTQFLSKHYREL 173
Query: 156 RIHKFVPKVVVLDESDEMLD-----------MGFLDDIEEIFDYLPSEAQILLFSATMPE 204
F + +D+ D +L +GF D++ + +++ +AT +
Sbjct: 174 GHFDF----IFVDDVDAILKASKNVDKLLHLLGFHYDLKTKSWVGEARGCLMVSTATAKK 229
Query: 205 PIKRLADKILENPIKIHIAPSNITNTDITQRFYVINEHERAEAIMRLLDTQAPKKSIVFT 264
K ++ + I S IT ++ V E + +L+ + I++
Sbjct: 230 GKKA---ELFRQLLNFDIGSSRITVRNVED---VAVNDESISTLSSILE-KLGTGGIIYA 282
Query: 265 RTKKEADELHQFLASK 280
RT +EA+E+++ L +K
Sbjct: 283 RTGEEAEEIYESLKNK 298
>pdb|1GKU|B Chain B, Reverse Gyrase From Archaeoglobus Fulgidus
Length = 1054
Score = 37.7 bits (86), Expect = 0.003
Identities = 58/256 (22%), Positives = 109/256 (41%), Gaps = 32/256 (12%)
Query: 43 PSPIQEKAIPAVLQGRDVIAQAQTGTGKTA-AFALPIINNLKNNHTIEALVITPTRELAM 101
P IQ+ +L+ A A TG GKT+ A+ + LK VI PT L +
Sbjct: 57 PRAIQKMWAKRILRKESFAATAPTGVGKTSFGLAMSLFLALKGK---RCYVIFPTSLLVI 113
Query: 102 QISDEIFKLGKHTRTKT---VCVYGGQSVKKQCE-FIK--KNPQVMIATPGRLLDHLKNE 155
Q ++ I K + T + Y G+ K++ E F++ +N +++I T L H +
Sbjct: 114 QAAETIRKYAEKAGVGTENLIGYYHGRIPKREKENFMQNLRNFKIVITTTQFLSKHYREL 173
Query: 156 RIHKFVPKVVVLDESDEMLD-----------MGFLDDIEEIFDYLPSEAQILLFSATMPE 204
F + +D+ D +L +GF D++ + +++ +AT +
Sbjct: 174 GHFDF----IFVDDVDAILKASKNVDKLLHLLGFHYDLKTKSWVGEARGCLMVSTATAKK 229
Query: 205 PIKRLADKILENPIKIHIAPSNITNTDITQRFYVINEHERAEAIMRLLDTQAPKKSIVFT 264
K ++ + I S IT ++ V E + +L+ + I++
Sbjct: 230 GKKA---ELFRQLLNFDIGSSRITVRNVED---VAVNDESISTLSSILE-KLGTGGIIYA 282
Query: 265 RTKKEADELHQFLASK 280
RT +EA+E+++ L +K
Sbjct: 283 RTGEEAEEIYESLKNK 298
>pdb|1ELO| Elongation Factor G Without Nucleotide
pdb|1DAR| Elongation Factor G In Complex With Gdp
Length = 691
Score = 31.2 bits (69), Expect = 0.28
Identities = 25/88 (28%), Positives = 37/88 (41%), Gaps = 13/88 (14%)
Query: 182 IEEIFDYLPSEAQILLFSATMPE------------PIKRLADKILENPIKIHIAPSNITN 229
++ + DYLPS I T PE P+ LA KI+ +P + + +
Sbjct: 273 LDAVVDYLPSPLDIPPIKGTTPEGEVVEIHPDPNGPLAALAFKIMADPYVGRLTFIRVYS 332
Query: 230 TDITQRFYVINEHE-RAEAIMRLLDTQA 256
+T YV N + R E + RLL A
Sbjct: 333 GTLTSGSYVYNTTKGRKERVARLLRMHA 360
>pdb|1FNM|A Chain A, Structure Of Thermus Thermophilus Ef-G H573a
Length = 691
Score = 31.2 bits (69), Expect = 0.28
Identities = 25/88 (28%), Positives = 37/88 (41%), Gaps = 13/88 (14%)
Query: 182 IEEIFDYLPSEAQILLFSATMPE------------PIKRLADKILENPIKIHIAPSNITN 229
++ + DYLPS I T PE P+ LA KI+ +P + + +
Sbjct: 273 LDAVVDYLPSPLDIPPIKGTTPEGEVVEIHPDPNGPLAALAFKIMADPYVGRLTFIRVYS 332
Query: 230 TDITQRFYVINEHE-RAEAIMRLLDTQA 256
+T YV N + R E + RLL A
Sbjct: 333 GTLTSGSYVYNTTKGRKERVARLLRMHA 360
>pdb|1JQM|B Chain B, Fitting Of L11 Protein And Elongation Factor G (Ef-G) In
The Cryo-Em Map Of E. Coli 70s Ribosome Bound With Ef-G,
Gdp And Fusidic Acid
pdb|2EFG|A Chain A, Translational Elongation Factor G Complexed With Gdp
pdb|1EFG|A Chain A, Elongation Factor G Complexed With Guanosine
5'-Diphosphate
Length = 691
Score = 31.2 bits (69), Expect = 0.28
Identities = 25/88 (28%), Positives = 37/88 (41%), Gaps = 13/88 (14%)
Query: 182 IEEIFDYLPSEAQILLFSATMPE------------PIKRLADKILENPIKIHIAPSNITN 229
++ + DYLPS I T PE P+ LA KI+ +P + + +
Sbjct: 273 LDAVVDYLPSPLDIPPIKGTTPEGEVVEIHPDPNGPLAALAFKIMADPYVGRLTFIRVYS 332
Query: 230 TDITQRFYVINEHE-RAEAIMRLLDTQA 256
+T YV N + R E + RLL A
Sbjct: 333 GTLTSGSYVYNTTKGRKERVARLLRMHA 360
>pdb|1JR6|A Chain A, Solution Structure Of An Engineered Arginine-Rich
Subdomain 2 Of The Hepatitis C Virus Ns3 Rna Helicase
Length = 142
Score = 30.0 bits (66), Expect = 0.61
Identities = 29/101 (28%), Positives = 43/101 (41%), Gaps = 11/101 (10%)
Query: 259 KSIVFTRTKKEADELHQFLASKNYKSTALHGDMDQRDRRSSIMAFKKNDADVLVATDVAS 318
+ ++F +KK+ DEL L + + A + +D + N V+VATD
Sbjct: 41 RHLIFCHSKKKCDELAAKLVALGINAVAYYRGLD-------VSVIPTNGDVVVVATDALM 93
Query: 319 RGL--DISGVSHV-FNYHLPLNTESYIHRIGRTGRAGKKGM 356
G D V + P + S R GRTGR GK G+
Sbjct: 94 TGFTGDFDSVIDCNTSDGKPQDAVSRTQRRGRTGR-GKPGI 133
>pdb|1M6N|A Chain A, Crystal Structure Of The Seca Translocation Atpase From
Bacillus Subtilis
pdb|1M74|A Chain A, Crystal Structure Of Mg-Adp-Bound Seca From Bacillus
Subtilis
Length = 802
Score = 28.9 bits (63), Expect = 1.4
Identities = 31/115 (26%), Positives = 50/115 (42%), Gaps = 22/115 (19%)
Query: 251 LLDTQAPKKSIVFTRTKKEADELHQFLASKNYKSTALHGDMDQRDRRSSIMAFKKNDADV 310
L+ T A + S + ++ K HQ L +KN+ +R + I+ V
Sbjct: 433 LVGTVAVETSELISKLLKNKGIPHQVLNAKNH------------EREAQIIEEAGQKGAV 480
Query: 311 LVATDVASRGLDI---SGVSHVFNYHLPLNTESYIHR------IGRTGRAGKKGM 356
+AT++A RG DI GV + + + TE + R GR+GR G G+
Sbjct: 481 TIATNMAGRGTDIKLGEGVKELGGLAV-VGTERHESRRIDNQLRGRSGRQGDPGI 534
Score = 26.2 bits (56), Expect = 8.9
Identities = 15/50 (30%), Positives = 26/50 (52%), Gaps = 2/50 (4%)
Query: 61 IAQAQTGTGKTAAFALPIINNLKNNHTIEALVITPTRELAMQISDEIFKL 110
IA+ +TG GKT LP+ N + V+T LA + ++++ K+
Sbjct: 97 IAEMKTGEGKTLTSTLPVYLNALTGKGVH--VVTVNEYLASRDAEQMGKI 144
>pdb|1H2H|A Chain A, Crystal Structure Of Tm1643
Length = 241
Score = 28.5 bits (62), Expect = 1.8
Identities = 24/84 (28%), Positives = 40/84 (47%), Gaps = 19/84 (22%)
Query: 155 ERIHKFVPKVVVLDESDEMLDMGFLDDIEEIFDYLPSEAQILLFSATMPEPIKRLADKIL 214
+RI K +P VV LDE +PS+ ++ A+ PE +K + +IL
Sbjct: 28 DRISKDIPGVVRLDEFQ-----------------VPSDVSTVVECAS-PEAVKEYSLQIL 69
Query: 215 ENPIK-IHIAPSNITNTDITQRFY 237
+NP+ I I+ S + +RF+
Sbjct: 70 KNPVNYIIISTSAFADEVFRERFF 93
>pdb|1J5P|A Chain A, Crystal Structure Of Conserved Hypothetical Protein
(Tm1643) From Thermotoga Maritima At 1.9 A Resolution
Length = 253
Score = 28.5 bits (62), Expect = 1.8
Identities = 24/84 (28%), Positives = 40/84 (47%), Gaps = 19/84 (22%)
Query: 155 ERIHKFVPKVVVLDESDEMLDMGFLDDIEEIFDYLPSEAQILLFSATMPEPIKRLADKIL 214
+RI K +P VV LDE +PS+ ++ A+ PE +K + +IL
Sbjct: 40 DRISKDIPGVVRLDEFQ-----------------VPSDVSTVVECAS-PEAVKEYSLQIL 81
Query: 215 ENPIK-IHIAPSNITNTDITQRFY 237
+NP+ I I+ S + +RF+
Sbjct: 82 KNPVNYIIISTSAFADEVFRERFF 105
>pdb|1FBL| Mol_id: 1; Molecule: Fibroblast (Interstitial) Collagenase
(Mmp-1); Chain: Null; Ec: 3.4.24.7; Engineered: Yes
Length = 370
Score = 27.7 bits (60), Expect = 3.0
Identities = 14/34 (41%), Positives = 19/34 (55%), Gaps = 3/34 (8%)
Query: 433 TSKIGLNQQEIDAIQ---NPKEKTPKPSNKKTPQ 463
T + L+Q +ID IQ P E +PS +TPQ
Sbjct: 144 TGDVQLSQDDIDGIQAIYGPSENPVQPSGPQTPQ 177
>pdb|1IYJ|B Chain B, Structure Of A Brca2-Dss1 Complex
pdb|1IYJ|D Chain D, Structure Of A Brca2-Dss1 Complex
Length = 817
Score = 27.3 bits (59), Expect = 4.0
Identities = 14/48 (29%), Positives = 22/48 (45%)
Query: 240 NEHERAEAIMRLLDTQAPKKSIVFTRTKKEADELHQFLASKNYKSTAL 287
NE E + +R + Q K +FT+ E E + +A + S AL
Sbjct: 439 NEREEEKEALRFAEAQQKKLEALFTKVHTELKEHEEDIAQRRVLSRAL 486
>pdb|1LTM| Accelerated X-Ray Structure Elucidation Of A 36 Kda
MuramidaseTRANSGLYCOSYLASE USING WARP
Length = 320
Score = 26.6 bits (57), Expect = 6.8
Identities = 8/24 (33%), Positives = 19/24 (78%)
Query: 238 VINEHERAEAIMRLLDTQAPKKSI 261
++++ +R ++++RL+D QAP S+
Sbjct: 40 ILSQAKRLDSVLRLMDNQAPTTSV 63
>pdb|1QQ7|A Chain A, Structure Of L-2-Haloacid Dehalogenase From Xanthobacter
Autotrophicus With Chloropropionic Acid Covalently Bound
pdb|1QQ7|B Chain B, Structure Of L-2-Haloacid Dehalogenase From Xanthobacter
Autotrophicus With Chloropropionic Acid Covalently Bound
pdb|1QQ6|A Chain A, Structure Of L-2-Haloacid Dehalogenase From Xanthobacter
Autotrophicus With Chloroacetic Acid Covalently Bound
pdb|1QQ6|B Chain B, Structure Of L-2-Haloacid Dehalogenase From Xanthobacter
Autotrophicus With Chloroacetic Acid Covalently Bound
Length = 253
Score = 26.6 bits (57), Expect = 6.8
Identities = 19/79 (24%), Positives = 36/79 (45%), Gaps = 16/79 (20%)
Query: 316 VASRGLDISGVSHVFNYHLPLNTESYIHRIGRTGRAGKKGMAITLVT----PLEYKELLR 371
V+S G D+ G +++ + R R ++ +A LV+ PL + LR
Sbjct: 170 VSSNGFDVGGA------------KNFGFSVARVARLSQEALARELVSGTIAPLTMFKALR 217
Query: 372 MQKEIDSEIELFEIPTINE 390
M++E +E F +P + +
Sbjct: 218 MREETYAEAPDFVVPALGD 236
>pdb|1AQ6|A Chain A, Structure Of L-2-Haloacid Dehalogenase From Xanthobacter
Autotrophicus
pdb|1AQ6|B Chain B, Structure Of L-2-Haloacid Dehalogenase From Xanthobacter
Autotrophicus
Length = 253
Score = 26.6 bits (57), Expect = 6.8
Identities = 19/79 (24%), Positives = 36/79 (45%), Gaps = 16/79 (20%)
Query: 316 VASRGLDISGVSHVFNYHLPLNTESYIHRIGRTGRAGKKGMAITLVT----PLEYKELLR 371
V+S G D+ G +++ + R R ++ +A LV+ PL + LR
Sbjct: 170 VSSNGFDVGGA------------KNFGFSVARVARLSQEALARELVSGTIAPLTMFKALR 217
Query: 372 MQKEIDSEIELFEIPTINE 390
M++E +E F +P + +
Sbjct: 218 MREETYAEAPDFVVPALGD 236
>pdb|1D0L|A Chain A, The Escherichia Coli Lytic Transglycosylase Slt35 In
Complex With Bulgecin A
pdb|1D0K|A Chain A, The Escherichia Coli Lytic Transglycosylase Slt35 In
Complex With Two Murodipeptides
(Glcnac-Murnac-L-Ala-D-Glu)
pdb|1QUS|A Chain A, 1.7 A Resolution Structure Of The Soluble Lytic
Transglycosylase Slt35 From Escherichia Coli
pdb|1QDR|A Chain A, 2.1 A Resolution Structure Of Escherichia Coli Lytic
Transglycosylase Slt35
pdb|1QDT|A Chain A, 2.1 A Resolution Structure Of Escherichia Coli Lytic
Transglycoyslase Slt35 In Complex With Calcium
pdb|1QUT|A Chain A, The Soluble Lytic Transglycosylase Slt35 From Escherichia
Coli In Complex With N-Acetylglucosamine
pdb|1D0M|A Chain A, The Escherichia Coli Lytic Transglycosylase Slt35 In
Complex With Bulgecin A And (Glcnac)2
Length = 322
Score = 26.6 bits (57), Expect = 6.8
Identities = 8/24 (33%), Positives = 19/24 (78%)
Query: 238 VINEHERAEAIMRLLDTQAPKKSI 261
++++ +R ++++RL+D QAP S+
Sbjct: 42 ILSQAKRLDSVLRLMDNQAPTTSV 65
>pdb|1QQ5|A Chain A, Structure Of L-2-Haloacid Dehalogenase From Xanthobacter
Autotrophicus
pdb|1QQ5|B Chain B, Structure Of L-2-Haloacid Dehalogenase From Xanthobacter
Autotrophicus
Length = 253
Score = 26.6 bits (57), Expect = 6.8
Identities = 19/79 (24%), Positives = 36/79 (45%), Gaps = 16/79 (20%)
Query: 316 VASRGLDISGVSHVFNYHLPLNTESYIHRIGRTGRAGKKGMAITLVT----PLEYKELLR 371
V+S G D+ G +++ + R R ++ +A LV+ PL + LR
Sbjct: 170 VSSNGFDVGGA------------KNFGFSVARVARLSQEALARELVSGTIAPLTMFKALR 217
Query: 372 MQKEIDSEIELFEIPTINE 390
M++E +E F +P + +
Sbjct: 218 MREETYAEAPDFVVPALGD 236
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
0.316 0.134 0.372
Gapped
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 2,687,319
Number of Sequences: 13198
Number of extensions: 107699
Number of successful extensions: 435
Number of sequences better than 10.0: 24
Number of HSP's better than 10.0 without gapping: 11
Number of HSP's successfully gapped in prelim test: 13
Number of HSP's that attempted gapping in prelim test: 408
Number of HSP's gapped (non-prelim): 29
length of query: 492
length of database: 2,899,336
effective HSP length: 92
effective length of query: 400
effective length of database: 1,685,120
effective search space: 674048000
effective search space used: 674048000
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 56 (26.2 bits)