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|15644666|ref|NP_206835.1| ATP-dependent C1p protease
(clpA) [Helicobacter pylori 26695]
(741 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|1KSF|X Chain X, Crystal Structure Of Clpa, An Hsp100 Ch... 545 e-156
pdb|1JBK|A Chain A, Crystal Structure Of The First Nuceloti... 202 1e-52
pdb|1KYI|A Chain A, Hsluv (H. Influenzae)-Nlvs Vinyl Sulfon... 40 0.001
pdb|1IM2|A Chain A, Hslu, Haemophilus Influenzae, Selenomet... 40 0.001
pdb|1G4B|E Chain E, Crystal Structures Of The Hslvu Peptida... 39 0.002
pdb|1DO2|A Chain A, Trigonal Crystal Form Of Heat Shock Loc... 39 0.002
pdb|1HT1|E Chain E, Nucleotide-Dependent Conformational Cha... 39 0.002
pdb|1K6K|A Chain A, Crystal Structure Of Clpa, An Aaa+ Chap... 39 0.002
pdb|1E32|A Chain A, Structure Of The N-Terminal Domain And ... 37 0.008
pdb|1IY2|A Chain A, Crystal Structure Of The Ftsh Atpase Do... 37 0.010
pdb|1KAG|A Chain A, Crystal Structure Of The Escherichia Co... 37 0.010
pdb|1IXZ|A Chain A, Crystal Structure Of The Ftsh Atpase Do... 37 0.010
pdb|1LV7|A Chain A, Crystal Structure Of The Aaa Domain Of ... 33 0.11
pdb|1IN5|A Chain A, Thermogota Maritima Ruvb A156s Mutant 33 0.15
pdb|1FTS| Signal Recognition Particle Receptor From E. Coli 32 0.33
pdb|1IN7|A Chain A, Thermotoga Maritima Ruvb R170a 32 0.33
pdb|1IN8|A Chain A, Thermotoga Maritima Ruvb T158v 32 0.33
pdb|1IN4|A Chain A, Thermotoga Maritima Ruvb Holliday Junct... 32 0.33
pdb|1J7K|A Chain A, Thermotoga Maritima Ruvb P216g Mutant 32 0.33
pdb|1IXR|C Chain C, Ruva-Ruvb Complex 31 0.43
pdb|1CFZ|A Chain A, Hydrogenase Maturating Endopeptidase Hy... 31 0.43
pdb|1IXS|B Chain B, Structure Of Ruvb Complexed With Ruva D... 31 0.43
pdb|1HQC|A Chain A, Structure Of Ruvb From Thermus Thermoph... 31 0.43
pdb|1II0|B Chain B, Crystal Structure Of The Escherichia Co... 31 0.57
pdb|1IQP|A Chain A, Crystal Structure Of The Clamp Loader S... 30 0.74
pdb|1IN6|A Chain A, Thermotoga Maritima Ruvb K64r Mutant 30 0.74
pdb|1BOB| Histone Acetyltransferase Hat1 From Saccharomyc... 30 0.97
pdb|1JR3|A Chain A, Crystal Structure Of The Processivity C... 29 2.2
pdb|1FI8|A Chain A, Rat Granzyme B [n66q] Complexed To Ecot... 28 3.7
pdb|1LT7|A Chain A, Oxidized Homo Sapiens Betaine-Homocyste... 28 4.8
pdb|1LD7|A Chain A, Co-Crystal Structure Of Human Farnesylt... 27 6.3
pdb|1SHK|A Chain A, The Three-Dimensional Structure Of Shik... 27 8.2
pdb|1SHK|B Chain B, The Three-Dimensional Structure Of Shik... 27 8.2
pdb|2SHK|B Chain B, The Three-Dimensional Structure Of Shik... 27 8.2
pdb|1FO4|A Chain A, Crystal Structure Of Xanthine Dehydroge... 27 8.2
pdb|1SKY|E Chain E, Crystal Structure Of The Nucleotide Fre... 27 8.2
>pdb|1KSF|X Chain X, Crystal Structure Of Clpa, An Hsp100 Chaperone And
Regulator Of Clpap Protease: Structural Basis Of
Differences In Function Of The Two Aaa+ Atpase Domains
Length = 758
Score = 545 bits (1403), Expect = e-156
Identities = 300/757 (39%), Positives = 471/757 (61%), Gaps = 30/757 (3%)
Query: 5 NQDLNEVLNQALNLALDLNHALCTTEHVLLVILEHESGEKIIGTLERDDYDKLKQILKDY 64
NQ+L LN A A + H T EH+LL +L + S + + D L+Q L+ +
Sbjct: 3 NQELELSLNMAFARAREHRHEFMTVEHLLLALLSNPSAREALEACSVD-LVALRQELEAF 61
Query: 65 LLQYVPL----KSDPAKMPARSF--VLLRMLKRMYASCFESVGVEELLILMLDHPDCYAS 118
+ Q P+ + + P SF VL R + + +S V +L+ + + A+
Sbjct: 62 IEQTTPVLPASEEERDTQPTLSFQRVLQRAVFHVQSSGRNEVTGANVLVAIFSEQESQAA 121
Query: 119 KLMDSFGIARLYSNPALLDLDNHGIPNDI-----------NDNEEAPKNTPLKKYAKNLS 167
L+ ++RL +++ +HG D N E+A L+ + NL+
Sbjct: 122 YLLRKHEVSRL----DVVNFISHGTRKDEPTQSSDPGSQPNSEEQAGGEERLENFTTNLN 177
Query: 168 ALAQDNALDPVIGREEEILRVIEILGRRKKNNPLLIGEAGVGKTSIAEALALKIAQKEVP 227
LA+ +DP+IGRE+E+ R I++L RR+KNNPLL+GE+GVGKT+IAE LA +I Q +VP
Sbjct: 178 QLARVGGIDPLIGREKELERAIQVLCRRRKNNPLLVGESGVGKTAIAEGLAWRIVQGDVP 237
Query: 228 EFLQEYEVYSLDLALMVAGAKYRGDFEKRLKKTLKEIQQNGRIILFIDEIHTLLGTGSSN 287
E + + +YSLD+ ++AG KYRGDFEKR K LK+++Q+ ILFIDEIHT++G G+++
Sbjct: 238 EVMADCTIYSLDIGSLLAGTKYRGDFEKRFKALLKQLEQDTNSILFIDEIHTIIGAGAAS 297
Query: 288 AGSLDAANILKPVLTDGSLKCLGATTFEEYRSVFEKDKAFNRRFSVIKVEEPSKEACYLI 347
G +DAAN++KP+L+ G ++ +G+TT++E+ ++FEKD+A RRF I + EPS E I
Sbjct: 298 GGQVDAANLIKPLLSSGKIRVIGSTTYQEFSNIFEKDRALARRFQKIDITEPSIEETVQI 357
Query: 348 LKKIAPLYEEHHQVRYDESVFKACVDLTSDYMHDKFLPDKAIELLDEVGSRKKISP--KK 405
+ + P YE HH VRY +A V+L Y++D+ LPDKAI+++DE G+R ++ P K+
Sbjct: 358 INGLKPKYEAHHDVRYTAKAVRAAVELAVKYINDRHLPDKAIDVIDEAGARARLMPVSKR 417
Query: 406 GKKIGVDDVKETLALKLKIPKMRLSSDKKALLRNLEKSLKNKIFAQAEAISLVSNAIKIQ 465
K + V D++ +A +IP+ +S + L+NL LK +F Q +AI ++ AIK+
Sbjct: 418 KKTVNVADIESVVARIARIPEKSVSQSDRDTLKNLGDRLKMLVFGQDKAIEALTEAIKMA 477
Query: 466 HCGLSAKNKPVGSFLFVGPSGVGKTELAKELALNLNLHFERFDMSEYKEAHSVAKLIGSP 525
GL ++KPVGSFLF GP+GVGKTE+ +L+ L + RFDMSEY E H+V++LIG+P
Sbjct: 478 RAGLGHEHKPVGSFLFAGPTGVGKTEVTVQLSKALGIELLRFDMSEYMERHTVSRLIGAP 537
Query: 526 SGYVGFEQGGLLVNAIKKHPHCLLLLDEIEKAHSNVYDLLLQVMDNATLSDNLGNQASFK 585
GYVGF+QGGLL +A+ KHPH +LLLDEIEKAH +V+++LLQVMDN TL+DN G +A F+
Sbjct: 538 PGYVGFDQGGLLTDAVIKHPHAVLLLDEIEKAHPDVFNILLQVMDNGTLTDNNGRKADFR 597
Query: 586 HVILIMTSNVGSK--DKDTLGFFSAKN-TKYDKAVKELLTPELRSRIDAIVPFNALSLED 642
+V+L+MT+N G + ++ ++G N T + +K++ TPE R+R+D I+ F+ LS +
Sbjct: 598 NVVLVMTTNAGVRETERKSIGLIHQDNSTDAMEEIKKIFTPEFRNRLDNIIWFDHLSTDV 657
Query: 643 FERIVSVELDKLKALALEQDITLKFHKEVVKFIAQKSYQTTLGAREIKKIIHNEIKTKLS 702
++V + +L+ ++ ++L+ +E ++A+K Y +GAR + ++I + +K L+
Sbjct: 658 IHQVVDKFIVELQVQLDQKGVSLEVSQEARNWLAEKGYDRAMGARPMARVIQDNLKKPLA 717
Query: 703 DILLLQSFKKPCKIACLL--EKNQLVLKEIKRAQKVK 737
+ LL S ++ L EKN+L + AQK K
Sbjct: 718 NELLFGSLVDGGQVTVALDKEKNELTY-GFQSAQKHK 753
>pdb|1JBK|A Chain A, Crystal Structure Of The First Nucelotide Binding Domain
Of Clpb
Length = 195
Score = 202 bits (513), Expect = 1e-52
Identities = 105/192 (54%), Positives = 136/192 (70%), Gaps = 2/192 (1%)
Query: 159 LKKYAKNLSALAQDNALDPVIGREEEILRVIEILGRRKKNNPLLIGEAGVGKTSIAEALA 218
LKKY +L+ A+ LDPVIGR+EEI R I++L RR KNNP+LIGE GVGKT+I E LA
Sbjct: 5 LKKYTIDLTERAEQGKLDPVIGRDEEIRRTIQVLQRRTKNNPVLIGEPGVGKTAIVEGLA 64
Query: 219 LKIAQKEVPEFLQEYEVYSLDLALMVAGAKYRGDFEKRLKKTLKEI-QQNGRIILFIDEI 277
+I EVPE L+ V +LD+ +VAGAKYRG+FE+RLK L ++ +Q G +ILFIDE+
Sbjct: 65 QRIINGEVPEGLKGRRVLALDMGALVAGAKYRGEFEERLKGVLNDLAKQEGNVILFIDEL 124
Query: 278 HTLLGTGSSNAGSLDAANILKPVLTDGSLKCLGATTFEEYRSVFEKDKAFNRRFSVIKVE 337
HT++G G ++ G++DA N+LKP L G L C+GATT +EYR EKD A RRF + V
Sbjct: 125 HTMVGAGKAD-GAMDAGNMLKPALARGELHCVGATTLDEYRQYIEKDAALERRFQKVFVA 183
Query: 338 EPSKEACYLILK 349
EPS E IL+
Sbjct: 184 EPSVEDTIAILR 195
>pdb|1KYI|A Chain A, Hsluv (H. Influenzae)-Nlvs Vinyl Sulfone Inhibitor Complex
pdb|1KYI|B Chain B, Hsluv (H. Influenzae)-Nlvs Vinyl Sulfone Inhibitor Complex
pdb|1KYI|C Chain C, Hsluv (H. Influenzae)-Nlvs Vinyl Sulfone Inhibitor Complex
pdb|1KYI|D Chain D, Hsluv (H. Influenzae)-Nlvs Vinyl Sulfone Inhibitor Complex
pdb|1KYI|E Chain E, Hsluv (H. Influenzae)-Nlvs Vinyl Sulfone Inhibitor Complex
pdb|1KYI|F Chain F, Hsluv (H. Influenzae)-Nlvs Vinyl Sulfone Inhibitor Complex
pdb|1KYI|S Chain S, Hsluv (H. Influenzae)-Nlvs Vinyl Sulfone Inhibitor Complex
pdb|1KYI|T Chain T, Hsluv (H. Influenzae)-Nlvs Vinyl Sulfone Inhibitor Complex
pdb|1KYI|U Chain U, Hsluv (H. Influenzae)-Nlvs Vinyl Sulfone Inhibitor Complex
pdb|1KYI|V Chain V, Hsluv (H. Influenzae)-Nlvs Vinyl Sulfone Inhibitor Complex
pdb|1KYI|W Chain W, Hsluv (H. Influenzae)-Nlvs Vinyl Sulfone Inhibitor Complex
pdb|1KYI|X Chain X, Hsluv (H. Influenzae)-Nlvs Vinyl Sulfone Inhibitor Complex
pdb|1G41|A Chain A, Crystal Structure Of Hslu Haemophilus Influenzae
pdb|1G3I|T Chain T, Crystal Structure Of The Hsluv Protease-Chaperone Complex
pdb|1G3I|A Chain A, Crystal Structure Of The Hsluv Protease-Chaperone Complex
pdb|1G3I|B Chain B, Crystal Structure Of The Hsluv Protease-Chaperone Complex
pdb|1G3I|U Chain U, Crystal Structure Of The Hsluv Protease-Chaperone Complex
pdb|1G3I|X Chain X, Crystal Structure Of The Hsluv Protease-Chaperone Complex
pdb|1G3I|F Chain F, Crystal Structure Of The Hsluv Protease-Chaperone Complex
pdb|1G3I|C Chain C, Crystal Structure Of The Hsluv Protease-Chaperone Complex
pdb|1G3I|D Chain D, Crystal Structure Of The Hsluv Protease-Chaperone Complex
pdb|1G3I|S Chain S, Crystal Structure Of The Hsluv Protease-Chaperone Complex
pdb|1G3I|E Chain E, Crystal Structure Of The Hsluv Protease-Chaperone Complex
pdb|1G3I|V Chain V, Crystal Structure Of The Hsluv Protease-Chaperone Complex
pdb|1G3I|W Chain W, Crystal Structure Of The Hsluv Protease-Chaperone Complex
Length = 444
Score = 39.7 bits (91), Expect = 0.001
Identities = 25/82 (30%), Positives = 43/82 (51%), Gaps = 9/82 (10%)
Query: 621 LTPELRSRIDAIVPFNALSLEDFERIVSVE----LDKLKALALEQDITLKFHKEVVKFIA 676
L PEL+ R+ V ALS DFERI++ ++ KAL + + + F + VK IA
Sbjct: 319 LIPELQGRLPIRVELTALSAADFERILTEPHASLTEQYKALMATEGVNIAFTTDAVKKIA 378
Query: 677 QKSYQT-----TLGAREIKKII 693
+ +++ +GAR + ++
Sbjct: 379 EAAFRVNEKTENIGARRLHTVM 400
Score = 39.3 bits (90), Expect = 0.002
Identities = 26/92 (28%), Positives = 45/92 (48%), Gaps = 5/92 (5%)
Query: 438 RNLEKSLKNKIFAQAEAISLVSNAIKIQHCGLSAKNK-----PVGSFLFVGPSGVGKTEL 492
R + L I QA+A V+ A++ + + + + L +GP+GVGKTE+
Sbjct: 7 REIVSELDQHIIGQADAKRAVAIALRNRWRRMQLQEPLRHEVTPKNILMIGPTGVGKTEI 66
Query: 493 AKELALNLNLHFERFDMSEYKEAHSVAKLIGS 524
A+ LA N F + + +++ E V K + S
Sbjct: 67 ARRLAKLANAPFIKVEATKFTEVGYVGKEVDS 98
Score = 27.3 bits (59), Expect = 6.3
Identities = 13/20 (65%), Positives = 14/20 (70%)
Query: 199 NPLLIGEAGVGKTSIAEALA 218
N L+IG GVGKT IA LA
Sbjct: 52 NILMIGPTGVGKTEIARRLA 71
>pdb|1IM2|A Chain A, Hslu, Haemophilus Influenzae, Selenomethionine Variant
Length = 444
Score = 39.7 bits (91), Expect = 0.001
Identities = 25/81 (30%), Positives = 42/81 (50%), Gaps = 9/81 (11%)
Query: 621 LTPELRSRIDAIVPFNALSLEDFERIVSVE----LDKLKALALEQDITLKFHKEVVKFIA 676
L PEL+ R+ V ALS DFERI++ ++ KAL + + + F + VK IA
Sbjct: 319 LIPELQGRLPIRVELTALSAADFERILTEPHASLTEQYKALXATEGVNIAFTTDAVKKIA 378
Query: 677 QKSYQT-----TLGAREIKKI 692
+ +++ +GAR + +
Sbjct: 379 EAAFRVNEKTENIGARRLHTV 399
Score = 38.5 bits (88), Expect = 0.003
Identities = 29/98 (29%), Positives = 48/98 (48%), Gaps = 17/98 (17%)
Query: 438 RNLEKSLKNKIFAQAEAISLVSNAIK-----------IQHCGLSAKNKPVGSFLFVGPSG 486
R + L I QA+A V+ A++ ++H ++ KN L +GP+G
Sbjct: 7 REIVSELDQHIIGQADAKRAVAIALRNRWRRXQLQEPLRH-EVTPKN-----ILXIGPTG 60
Query: 487 VGKTELAKELALNLNLHFERFDMSEYKEAHSVAKLIGS 524
VGKTE+A+ LA N F + + +++ E V K + S
Sbjct: 61 VGKTEIARRLAKLANAPFIKVEATKFTEVGYVGKEVDS 98
>pdb|1G4B|E Chain E, Crystal Structures Of The Hslvu Peptidase-Atpase Complex
Reveal An Atp-Dependent Proteolysis Mechanism
pdb|1G4B|F Chain F, Crystal Structures Of The Hslvu Peptidase-Atpase Complex
Reveal An Atp-Dependent Proteolysis Mechanism
pdb|1G4B|K Chain K, Crystal Structures Of The Hslvu Peptidase-Atpase Complex
Reveal An Atp-Dependent Proteolysis Mechanism
pdb|1G4B|L Chain L, Crystal Structures Of The Hslvu Peptidase-Atpase Complex
Reveal An Atp-Dependent Proteolysis Mechanism
pdb|1G4A|E Chain E, Crystal Structures Of The Hslvu Peptidase-Atpase Complex
Reveal An Atp-Dependent Proteolysis Mechanism
pdb|1G4A|F Chain F, Crystal Structures Of The Hslvu Peptidase-Atpase Complex
Reveal An Atp-Dependent Proteolysis Mechanism
Length = 443
Score = 38.9 bits (89), Expect = 0.002
Identities = 45/191 (23%), Positives = 82/191 (42%), Gaps = 45/191 (23%)
Query: 538 VNAIKKHPHCLLLLDEIEK------------AHSNVYDLLLQVMDNATLSDNLGNQASFK 585
++A+++H ++ +DEI+K + V LL +++ T+S G
Sbjct: 244 IDAVEQHG--IVFIDEIDKICKRGESSGPDVSREGVQRDLLPLVEGCTVSTKHG-MVKTD 300
Query: 586 HVILIMTSNVGSKDKDTLGFFSAKNTKYDKAVKELLTPELRSRIDAIVPFNALSLEDFER 645
H++ I + F AK + L PEL+ R+ V AL+ DFER
Sbjct: 301 HILFIASG----------AFQIAKPSD--------LIPELQGRLPIRVELQALTTSDFER 342
Query: 646 IVSVELDKL----KALALEQDITLKFHKEVVKFIAQKSYQT-----TLGAREIKKIIH-- 694
I++ + KAL + + ++F +K IA+ ++Q +GAR + ++
Sbjct: 343 ILTEPNASITVQYKALMATEGVNIEFTDSGIKRIAEAAWQVNESTENIGARRLHTVLERL 402
Query: 695 -NEIKTKLSDI 704
EI SD+
Sbjct: 403 MEEISYDASDL 413
Score = 38.5 bits (88), Expect = 0.003
Identities = 18/47 (38%), Positives = 29/47 (61%)
Query: 478 SFLFVGPSGVGKTELAKELALNLNLHFERFDMSEYKEAHSVAKLIGS 524
+ L +GP+GVGKTE+A+ LA N F + + +++ E V K + S
Sbjct: 52 NILMIGPTGVGKTEIARRLAKLANAPFIKVEATKFTEVGYVGKEVDS 98
Score = 27.3 bits (59), Expect = 6.3
Identities = 13/20 (65%), Positives = 14/20 (70%)
Query: 199 NPLLIGEAGVGKTSIAEALA 218
N L+IG GVGKT IA LA
Sbjct: 52 NILMIGPTGVGKTEIARRLA 71
>pdb|1DO2|A Chain A, Trigonal Crystal Form Of Heat Shock Locus U (Hslu) From
Escherichia Coli
pdb|1DO2|B Chain B, Trigonal Crystal Form Of Heat Shock Locus U (Hslu) From
Escherichia Coli
pdb|1DO2|C Chain C, Trigonal Crystal Form Of Heat Shock Locus U (Hslu) From
Escherichia Coli
pdb|1DO2|D Chain D, Trigonal Crystal Form Of Heat Shock Locus U (Hslu) From
Escherichia Coli
pdb|1DO0|A Chain A, Orthorhombic Crystal Form Of Heat Shock Locus U (Hslu)
From Escherichia Coli
pdb|1DO0|B Chain B, Orthorhombic Crystal Form Of Heat Shock Locus U (Hslu)
From Escherichia Coli
pdb|1DO0|C Chain C, Orthorhombic Crystal Form Of Heat Shock Locus U (Hslu)
From Escherichia Coli
pdb|1DO0|D Chain D, Orthorhombic Crystal Form Of Heat Shock Locus U (Hslu)
From Escherichia Coli
pdb|1DO0|E Chain E, Orthorhombic Crystal Form Of Heat Shock Locus U (Hslu)
From Escherichia Coli
pdb|1DO0|F Chain F, Orthorhombic Crystal Form Of Heat Shock Locus U (Hslu)
From Escherichia Coli
Length = 442
Score = 38.9 bits (89), Expect = 0.002
Identities = 45/191 (23%), Positives = 82/191 (42%), Gaps = 45/191 (23%)
Query: 538 VNAIKKHPHCLLLLDEIEK------------AHSNVYDLLLQVMDNATLSDNLGNQASFK 585
++A+++H ++ +DEI+K + V LL +++ T+S G
Sbjct: 243 IDAVEQHG--IVFIDEIDKICKRGESSGPDVSREGVQRDLLPLVEGCTVSTKHG-MVKTD 299
Query: 586 HVILIMTSNVGSKDKDTLGFFSAKNTKYDKAVKELLTPELRSRIDAIVPFNALSLEDFER 645
H++ I + F AK + L PEL+ R+ V AL+ DFER
Sbjct: 300 HILFIASG----------AFQIAKPSD--------LIPELQGRLPIRVELQALTTSDFER 341
Query: 646 IVSVELDKL----KALALEQDITLKFHKEVVKFIAQKSYQT-----TLGAREIKKIIH-- 694
I++ + KAL + + ++F +K IA+ ++Q +GAR + ++
Sbjct: 342 ILTEPNASITVQYKALMATEGVNIEFTDSGIKRIAEAAWQVNESTENIGARRLHTVLERL 401
Query: 695 -NEIKTKLSDI 704
EI SD+
Sbjct: 402 MEEISYDASDL 412
Score = 38.5 bits (88), Expect = 0.003
Identities = 18/47 (38%), Positives = 29/47 (61%)
Query: 478 SFLFVGPSGVGKTELAKELALNLNLHFERFDMSEYKEAHSVAKLIGS 524
+ L +GP+GVGKTE+A+ LA N F + + +++ E V K + S
Sbjct: 51 NILMIGPTGVGKTEIARRLAKLANAPFIKVEATKFTEVGYVGKEVDS 97
Score = 27.3 bits (59), Expect = 6.3
Identities = 13/20 (65%), Positives = 14/20 (70%)
Query: 199 NPLLIGEAGVGKTSIAEALA 218
N L+IG GVGKT IA LA
Sbjct: 51 NILMIGPTGVGKTEIARRLA 70
>pdb|1HT1|E Chain E, Nucleotide-Dependent Conformational Changes In A Protease-
Associated Atpase Hslu
pdb|1HT1|F Chain F, Nucleotide-Dependent Conformational Changes In A Protease-
Associated Atpase Hslu
pdb|1HT1|G Chain G, Nucleotide-Dependent Conformational Changes In A Protease-
Associated Atpase Hslu
pdb|1HT1|I Chain I, Nucleotide-Dependent Conformational Changes In A Protease-
Associated Atpase Hslu
pdb|1HT2|E Chain E, Nucleotide-Dependent Conformational Changes In A Protease-
Associated Atpase Hslu
pdb|1HT2|F Chain F, Nucleotide-Dependent Conformational Changes In A Protease-
Associated Atpase Hslu
pdb|1HT2|G Chain G, Nucleotide-Dependent Conformational Changes In A Protease-
Associated Atpase Hslu
pdb|1HT2|H Chain H, Nucleotide-Dependent Conformational Changes In A Protease-
Associated Atpase Hslu
pdb|1HQY|E Chain E, Nucleotide-Dependent Conformational Changes In A Protease-
Associated Atpase Hslu
pdb|1HQY|F Chain F, Nucleotide-Dependent Conformational Changes In A Protease-
Associated Atpase Hslu
pdb|1E94|E Chain E, Hslv-Hslu From E.Coli
pdb|1E94|F Chain F, Hslv-Hslu From E.Coli
Length = 449
Score = 38.9 bits (89), Expect = 0.002
Identities = 45/191 (23%), Positives = 82/191 (42%), Gaps = 45/191 (23%)
Query: 538 VNAIKKHPHCLLLLDEIEK------------AHSNVYDLLLQVMDNATLSDNLGNQASFK 585
++A+++H ++ +DEI+K + V LL +++ T+S G
Sbjct: 250 IDAVEQHG--IVFIDEIDKICKRGESSGPDVSREGVQRDLLPLVEGCTVSTKHG-MVKTD 306
Query: 586 HVILIMTSNVGSKDKDTLGFFSAKNTKYDKAVKELLTPELRSRIDAIVPFNALSLEDFER 645
H++ I + F AK + L PEL+ R+ V AL+ DFER
Sbjct: 307 HILFIASG----------AFQIAKPSD--------LIPELQGRLPIRVELQALTTSDFER 348
Query: 646 IVSVELDKL----KALALEQDITLKFHKEVVKFIAQKSYQT-----TLGAREIKKIIH-- 694
I++ + KAL + + ++F +K IA+ ++Q +GAR + ++
Sbjct: 349 ILTEPNASITVQYKALMATEGVNIEFTDSGIKRIAEAAWQVNESTENIGARRLHTVLERL 408
Query: 695 -NEIKTKLSDI 704
EI SD+
Sbjct: 409 MEEISYDASDL 419
Score = 38.5 bits (88), Expect = 0.003
Identities = 18/47 (38%), Positives = 29/47 (61%)
Query: 478 SFLFVGPSGVGKTELAKELALNLNLHFERFDMSEYKEAHSVAKLIGS 524
+ L +GP+GVGKTE+A+ LA N F + + +++ E V K + S
Sbjct: 58 NILMIGPTGVGKTEIARRLAKLANAPFIKVEATKFTEVGYVGKEVDS 104
Score = 27.3 bits (59), Expect = 6.3
Identities = 13/20 (65%), Positives = 14/20 (70%)
Query: 199 NPLLIGEAGVGKTSIAEALA 218
N L+IG GVGKT IA LA
Sbjct: 58 NILMIGPTGVGKTEIARRLA 77
>pdb|1K6K|A Chain A, Crystal Structure Of Clpa, An Aaa+ Chaperone-Like
Regulator Of Clpap Protease Implication To The
Functional Difference Of Two Atpase Domains
Length = 143
Score = 38.9 bits (89), Expect = 0.002
Identities = 34/131 (25%), Positives = 59/131 (44%), Gaps = 7/131 (5%)
Query: 5 NQDLNEVLNQALNLALDLNHALCTTEHVLLVILEHESGEKIIGTLERDDYDKLKQILKDY 64
NQ+L LN A A + H T EH+LL +L + S + + D L+Q L+ +
Sbjct: 3 NQELELSLNMAFARAREHRHEFMTVEHLLLALLSNPSAREALEACS-VDLVALRQELEAF 61
Query: 65 LLQYVPL----KSDPAKMPARSF--VLLRMLKRMYASCFESVGVEELLILMLDHPDCYAS 118
+ Q P+ + + P SF VL R + + +S V +L+ + + A+
Sbjct: 62 IEQTTPVLPASEEERDTQPTLSFQRVLQRAVFHVQSSGRNEVTGANVLVAIFSEQESQAA 121
Query: 119 KLMDSFGIARL 129
L+ ++RL
Sbjct: 122 YLLRKHEVSRL 132
>pdb|1E32|A Chain A, Structure Of The N-Terminal Domain And The D1 Aaa Domain
Of Membrane Fusion Atpase P97
Length = 458
Score = 37.0 bits (84), Expect = 0.008
Identities = 31/119 (26%), Positives = 51/119 (42%), Gaps = 21/119 (17%)
Query: 188 VIEILGRRKKNNPLLIGEAGVGKTSIAEALALKIAQKEVPEFLQEYEVYSLDLALMVAG- 246
+ + +G + LL G G GKT IA A+A E F ++ G
Sbjct: 229 LFKAIGVKPPRGILLYGPPGTGKTLIARAVA-----NETGAFF-----------FLINGP 272
Query: 247 ---AKYRGDFEKRLKKTLKEIQQNGRIILFIDEIHTLLGTGSSNAGSLDAANILKPVLT 302
+K G+ E L+K +E ++N I+FIDE+ + G ++ I+ +LT
Sbjct: 273 EIMSKLAGESESNLRKAFEEAEKNAPAIIFIDELDAIAPKREKTHGEVE-RRIVSQLLT 330
Score = 32.3 bits (72), Expect = 0.20
Identities = 40/168 (23%), Positives = 71/168 (41%), Gaps = 31/168 (18%)
Query: 474 KPVGSFLFVGPSGVGKTELAKELALNLNLHFERFDMSEYKEAHSVAKLIGSPSGYV--GF 531
KP L GP G GKT +A+ +A F + E ++KL G + F
Sbjct: 236 KPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEI-----MSKLAGESESNLRKAF 290
Query: 532 EQGGLLVNAIKKHPHCLLLLDEI-------EKAHSNVYDLLLQVMDNATLSDNLGNQASF 584
E+ +K+ ++ +DE+ EK H V ++ + TL D L +A
Sbjct: 291 EEA-------EKNAPAIIFIDELDAIAPKREKTHGEVERRIVSQL--LTLMDGLKQRA-- 339
Query: 585 KHVILIMTSNVGSKDKDTLGFFSAKNTKYDKAVKELLTPELRSRIDAI 632
HVI++ +N + L F ++D+ V ++ P+ R++ +
Sbjct: 340 -HVIVMAATNRPNSIDPALRRFG----RFDREV-DIGIPDATGRLEIL 381
>pdb|1IY2|A Chain A, Crystal Structure Of The Ftsh Atpase Domain From Thermus
Thermophilus
Length = 278
Score = 36.6 bits (83), Expect = 0.010
Identities = 25/76 (32%), Positives = 37/76 (47%), Gaps = 10/76 (13%)
Query: 480 LFVGPSGVGKTELAKELALNLNLHFERFDMSEYKEAHSVAKLIGSPSGYVGFEQGGLLVN 539
L VGP GVGKT LA+ +A + F S++ V +G VG + L
Sbjct: 77 LLVGPPGVGKTHLARAVAGEARVPFITASGSDF-----VEMFVG-----VGAARVRDLFE 126
Query: 540 AIKKHPHCLLLLDEIE 555
K+H C++ +DEI+
Sbjct: 127 TAKRHAPCIVFIDEID 142
Score = 34.3 bits (77), Expect = 0.051
Identities = 33/117 (28%), Positives = 52/117 (44%), Gaps = 21/117 (17%)
Query: 182 EEEILRVIEIL---------GRRKKNNPLLIGEAGVGKTSIAEALALKIAQKEVPEFLQE 232
+EE+ ++E L G R LL+G GVGKT +A A+A + VP F+
Sbjct: 49 KEELKEIVEFLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVA---GEARVP-FITA 104
Query: 233 YEVYSLDLALMVAGAKYRGDFEKRLKKTLKEIQQNGRIILFIDEIHTLLGTGSSNAG 289
+++ + V A+ R FE +++ I+FIDEI + S G
Sbjct: 105 SGSDFVEMFVGVGAARVRDLFE--------TAKRHAPCIVFIDEIDAVGRKRGSGVG 153
>pdb|1KAG|A Chain A, Crystal Structure Of The Escherichia Coli Shikimate Kinase
I (Arok)
pdb|1KAG|B Chain B, Crystal Structure Of The Escherichia Coli Shikimate Kinase
I (Arok)
Length = 173
Score = 36.6 bits (83), Expect = 0.010
Identities = 42/162 (25%), Positives = 69/162 (41%), Gaps = 18/162 (11%)
Query: 196 KKNNPLLIGEAGVGKTSIAEALALKIAQKEVPEFLQEYEVYSLDLALMVAGAKYRGDFEK 255
+K N L+G G GK++I LA ++ E + QE E + V + F
Sbjct: 3 EKRNIFLVGPMGAGKSTIGRQLAQQL-NMEFYDSDQEIEKRTGADVGWVFDLEGEEGFRD 61
Query: 256 RLKKTLKEIQQNGRIILFIDEIHTLLGTGSSNAGSLDAANILKPVLTDGSLKCLGATTFE 315
R +K + E+ + I+ L TG + S + N L G + L TT E
Sbjct: 62 REEKVINELTEKQGIV---------LATGGGSVKSRETRNRLS---ARGVVVYL-ETTIE 108
Query: 316 EYRSVFEKDKAFNRRFSVIKVEEPSKEACYLILKKIAPLYEE 357
+ + ++DK + ++ VE P +E + + PLYEE
Sbjct: 109 KQLARTQRDK----KRPLLHVETPPREVLEALANERNPLYEE 146
Score = 31.6 bits (70), Expect = 0.33
Identities = 16/52 (30%), Positives = 25/52 (47%), Gaps = 7/52 (13%)
Query: 478 SFLFVGPSGVGKTELAKELALNLNLHFERFDMSEYKEAHSVAKLIGSPSGYV 529
+ VGP G GK+ + ++LA LN+ F Y + K G+ G+V
Sbjct: 6 NIFLVGPMGAGKSTIGRQLAQQLNMEF-------YDSDQEIEKRTGADVGWV 50
>pdb|1IXZ|A Chain A, Crystal Structure Of The Ftsh Atpase Domain From Thermus
Thermophilus
pdb|1IY0|A Chain A, Crystal Structure Of The Ftsh Atpase Domain With Amp-Pnp
From Thermus Thermophilus
pdb|1IY1|A Chain A, Crystal Structure Of The Ftsh Atpase Domain With Adp From
Thermus Thermophilus
Length = 254
Score = 36.6 bits (83), Expect = 0.010
Identities = 25/76 (32%), Positives = 37/76 (47%), Gaps = 10/76 (13%)
Query: 480 LFVGPSGVGKTELAKELALNLNLHFERFDMSEYKEAHSVAKLIGSPSGYVGFEQGGLLVN 539
L VGP GVGKT LA+ +A + F S++ V +G VG + L
Sbjct: 53 LLVGPPGVGKTHLARAVAGEARVPFITASGSDF-----VEMFVG-----VGAARVRDLFE 102
Query: 540 AIKKHPHCLLLLDEIE 555
K+H C++ +DEI+
Sbjct: 103 TAKRHAPCIVFIDEID 118
Score = 34.3 bits (77), Expect = 0.051
Identities = 33/117 (28%), Positives = 52/117 (44%), Gaps = 21/117 (17%)
Query: 182 EEEILRVIEIL---------GRRKKNNPLLIGEAGVGKTSIAEALALKIAQKEVPEFLQE 232
+EE+ ++E L G R LL+G GVGKT +A A+A + VP F+
Sbjct: 25 KEELKEIVEFLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVA---GEARVP-FITA 80
Query: 233 YEVYSLDLALMVAGAKYRGDFEKRLKKTLKEIQQNGRIILFIDEIHTLLGTGSSNAG 289
+++ + V A+ R FE +++ I+FIDEI + S G
Sbjct: 81 SGSDFVEMFVGVGAARVRDLFE--------TAKRHAPCIVFIDEIDAVGRKRGSGVG 129
>pdb|1LV7|A Chain A, Crystal Structure Of The Aaa Domain Of Ftsh
Length = 257
Score = 33.1 bits (74), Expect = 0.11
Identities = 24/76 (31%), Positives = 35/76 (45%), Gaps = 10/76 (13%)
Query: 480 LFVGPSGVGKTELAKELALNLNLHFERFDMSEYKEAHSVAKLIGSPSGYVGFEQGGLLVN 539
L VGP G GKT LAK +A + F S++ V +G VG + +
Sbjct: 49 LMVGPPGTGKTLLAKAIAGEAKVPFFTISGSDF-----VEMFVG-----VGASRVRDMFE 98
Query: 540 AIKKHPHCLLLLDEIE 555
KK C++ +DEI+
Sbjct: 99 QAKKAAPCIIFIDEID 114
Score = 31.6 bits (70), Expect = 0.33
Identities = 27/105 (25%), Positives = 47/105 (44%), Gaps = 21/105 (20%)
Query: 182 EEEILRVIEIL---------GRRKKNNPLLIGEAGVGKTSIAEALALKIAQKEVPEFLQE 232
+EE+ ++E L G + L++G G GKT +A+A+A + +VP F
Sbjct: 21 KEEVAELVEYLREPSRFQKLGGKIPKGVLMVGPPGTGKTLLAKAIA---GEAKVPFF--- 74
Query: 233 YEVYSLDLALMVAGAKYRGDFEKRLKKTLKEIQQNGRIILFIDEI 277
+ D M G R++ ++ ++ I+FIDEI
Sbjct: 75 -TISGSDFVEMFVGVG-----ASRVRDMFEQAKKAAPCIIFIDEI 113
>pdb|1IN5|A Chain A, Thermogota Maritima Ruvb A156s Mutant
Length = 334
Score = 32.7 bits (73), Expect = 0.15
Identities = 39/172 (22%), Positives = 68/172 (38%), Gaps = 41/172 (23%)
Query: 480 LFVGPSGVGKTELAKELA--LNLNLHFERFDMSEYKEAHSVAKLIGSPSGYVGFEQGGLL 537
L GP G+GKT LA +A L N+H SG V +QG +
Sbjct: 55 LLAGPPGLGKTTLAHIIASELQTNIHV--------------------TSGPVLVKQGDMA 94
Query: 538 VNAIKKHPHCLLLLDEIEKAHSNVYDLLLQVMDNATLSDNLGNQASFKHVILIMT--SNV 595
+L +DEI + + V +LL +++ + +G S K + + + + V
Sbjct: 95 AILTSLERGDVLFIDEIHRLNKAVEELLYSAIEDFQIDIMIGKGPSAKSIRIDIQPFTLV 154
Query: 596 GSKDKDTLGFFSAKNTKYDKAVKELLTPELRSRIDAIVPFNALSLEDFERIV 647
GS + LL+ LRSR I+ + ++++ + I+
Sbjct: 155 GSTTR-----------------SGLLSSPLRSRFGIILELDFYTVKELKEII 189
Score = 28.1 bits (61), Expect = 3.7
Identities = 31/112 (27%), Positives = 52/112 (45%), Gaps = 25/112 (22%)
Query: 174 ALDPVIGRE---EEILRVIEILGRRKK--NNPLLIGEAGVGKTSIAEALALKIAQKEVPE 228
+LD IG+E +++ +E R + ++ LL G G+GKT++A +A ++ Q +
Sbjct: 23 SLDEFIGQENVKKKLSLALEAAKMRGEVLDHVLLAGPPGLGKTTLAHIIASEL-QTNIHV 81
Query: 229 FLQEYEVYSLDLALMVAGAKYRGDFEKRLKKTLKEIQQNGRIILFIDEIHTL 280
V D+A ++ + RGD +LFIDEIH L
Sbjct: 82 TSGPVLVKQGDMAAILTSLE-RGD------------------VLFIDEIHRL 114
>pdb|1FTS| Signal Recognition Particle Receptor From E. Coli
Length = 295
Score = 31.6 bits (70), Expect = 0.33
Identities = 32/103 (31%), Positives = 49/103 (47%), Gaps = 9/103 (8%)
Query: 401 ISPKKGKKIGVDDVKETLALKLKIPKMRLSSDKKALLRNLEKSLKNKIFAQAEAI----- 455
IS +GKKI DD+ E L +L I + + + +K ++ NL + K AEA+
Sbjct: 15 ISLFRGKKID-DDLFEELEEQLLIADVGVETTRK-IITNLTEGASRKQLRDAEALYGLLK 72
Query: 456 -SLVSNAIKIQHCGLSAKNKPVGSFLFVGPSGVGKTELAKELA 497
+ K+ L+ + K L VG +GVGKT +LA
Sbjct: 73 EEMGEILAKVDE-PLNVEGKAPFVILMVGVNGVGKTTTIGKLA 114
>pdb|1IN7|A Chain A, Thermotoga Maritima Ruvb R170a
Length = 334
Score = 31.6 bits (70), Expect = 0.33
Identities = 28/110 (25%), Positives = 44/110 (39%), Gaps = 22/110 (20%)
Query: 480 LFVGPSGVGKTELAKELA--LNLNLHFERFDMSEYKEAHSVAKLIGSPSGYVGFEQGGLL 537
L GP G+GKT LA +A L N+H SG V +QG +
Sbjct: 55 LLAGPPGLGKTTLAHIIASELQTNIHV--------------------TSGPVLVKQGDMA 94
Query: 538 VNAIKKHPHCLLLLDEIEKAHSNVYDLLLQVMDNATLSDNLGNQASFKHV 587
+L +DEI + + V +LL +++ + +G S K +
Sbjct: 95 AILTSLERGDVLFIDEIHRLNKAVEELLYSAIEDFQIDIMIGKGPSAKSI 144
Score = 28.1 bits (61), Expect = 3.7
Identities = 31/112 (27%), Positives = 52/112 (45%), Gaps = 25/112 (22%)
Query: 174 ALDPVIGRE---EEILRVIEILGRRKK--NNPLLIGEAGVGKTSIAEALALKIAQKEVPE 228
+LD IG+E +++ +E R + ++ LL G G+GKT++A +A ++ Q +
Sbjct: 23 SLDEFIGQENVKKKLSLALEAAKMRGEVLDHVLLAGPPGLGKTTLAHIIASEL-QTNIHV 81
Query: 229 FLQEYEVYSLDLALMVAGAKYRGDFEKRLKKTLKEIQQNGRIILFIDEIHTL 280
V D+A ++ + RGD +LFIDEIH L
Sbjct: 82 TSGPVLVKQGDMAAILTSLE-RGD------------------VLFIDEIHRL 114
>pdb|1IN8|A Chain A, Thermotoga Maritima Ruvb T158v
Length = 334
Score = 31.6 bits (70), Expect = 0.33
Identities = 28/110 (25%), Positives = 44/110 (39%), Gaps = 22/110 (20%)
Query: 480 LFVGPSGVGKTELAKELA--LNLNLHFERFDMSEYKEAHSVAKLIGSPSGYVGFEQGGLL 537
L GP G+GKT LA +A L N+H SG V +QG +
Sbjct: 55 LLAGPPGLGKTTLAHIIASELQTNIHV--------------------TSGPVLVKQGDMA 94
Query: 538 VNAIKKHPHCLLLLDEIEKAHSNVYDLLLQVMDNATLSDNLGNQASFKHV 587
+L +DEI + + V +LL +++ + +G S K +
Sbjct: 95 AILTSLERGDVLFIDEIHRLNKAVEELLYSAIEDFQIDIMIGKGPSAKSI 144
Score = 28.1 bits (61), Expect = 3.7
Identities = 31/112 (27%), Positives = 52/112 (45%), Gaps = 25/112 (22%)
Query: 174 ALDPVIGRE---EEILRVIEILGRRKK--NNPLLIGEAGVGKTSIAEALALKIAQKEVPE 228
+LD IG+E +++ +E R + ++ LL G G+GKT++A +A ++ Q +
Sbjct: 23 SLDEFIGQENVKKKLSLALEAAKMRGEVLDHVLLAGPPGLGKTTLAHIIASEL-QTNIHV 81
Query: 229 FLQEYEVYSLDLALMVAGAKYRGDFEKRLKKTLKEIQQNGRIILFIDEIHTL 280
V D+A ++ + RGD +LFIDEIH L
Sbjct: 82 TSGPVLVKQGDMAAILTSLE-RGD------------------VLFIDEIHRL 114
>pdb|1IN4|A Chain A, Thermotoga Maritima Ruvb Holliday Junction Branch
Migration Motor
Length = 334
Score = 31.6 bits (70), Expect = 0.33
Identities = 28/110 (25%), Positives = 44/110 (39%), Gaps = 22/110 (20%)
Query: 480 LFVGPSGVGKTELAKELA--LNLNLHFERFDMSEYKEAHSVAKLIGSPSGYVGFEQGGLL 537
L GP G+GKT LA +A L N+H SG V +QG +
Sbjct: 55 LLAGPPGLGKTTLAHIIASELQTNIHV--------------------TSGPVLVKQGDMA 94
Query: 538 VNAIKKHPHCLLLLDEIEKAHSNVYDLLLQVMDNATLSDNLGNQASFKHV 587
+L +DEI + + V +LL +++ + +G S K +
Sbjct: 95 AILTSLERGDVLFIDEIHRLNKAVEELLYSAIEDFQIDIMIGKGPSAKSI 144
Score = 28.1 bits (61), Expect = 3.7
Identities = 31/112 (27%), Positives = 52/112 (45%), Gaps = 25/112 (22%)
Query: 174 ALDPVIGRE---EEILRVIEILGRRKK--NNPLLIGEAGVGKTSIAEALALKIAQKEVPE 228
+LD IG+E +++ +E R + ++ LL G G+GKT++A +A ++ Q +
Sbjct: 23 SLDEFIGQENVKKKLSLALEAAKMRGEVLDHVLLAGPPGLGKTTLAHIIASEL-QTNIHV 81
Query: 229 FLQEYEVYSLDLALMVAGAKYRGDFEKRLKKTLKEIQQNGRIILFIDEIHTL 280
V D+A ++ + RGD +LFIDEIH L
Sbjct: 82 TSGPVLVKQGDMAAILTSLE-RGD------------------VLFIDEIHRL 114
>pdb|1J7K|A Chain A, Thermotoga Maritima Ruvb P216g Mutant
Length = 334
Score = 31.6 bits (70), Expect = 0.33
Identities = 28/110 (25%), Positives = 44/110 (39%), Gaps = 22/110 (20%)
Query: 480 LFVGPSGVGKTELAKELA--LNLNLHFERFDMSEYKEAHSVAKLIGSPSGYVGFEQGGLL 537
L GP G+GKT LA +A L N+H SG V +QG +
Sbjct: 55 LLAGPPGLGKTTLAHIIASELQTNIHV--------------------TSGPVLVKQGDMA 94
Query: 538 VNAIKKHPHCLLLLDEIEKAHSNVYDLLLQVMDNATLSDNLGNQASFKHV 587
+L +DEI + + V +LL +++ + +G S K +
Sbjct: 95 AILTSLERGDVLFIDEIHRLNKAVEELLYSAIEDFQIDIMIGKGPSAKSI 144
Score = 28.1 bits (61), Expect = 3.7
Identities = 31/112 (27%), Positives = 52/112 (45%), Gaps = 25/112 (22%)
Query: 174 ALDPVIGRE---EEILRVIEILGRRKK--NNPLLIGEAGVGKTSIAEALALKIAQKEVPE 228
+LD IG+E +++ +E R + ++ LL G G+GKT++A +A ++ Q +
Sbjct: 23 SLDEFIGQENVKKKLSLALEAAKMRGEVLDHVLLAGPPGLGKTTLAHIIASEL-QTNIHV 81
Query: 229 FLQEYEVYSLDLALMVAGAKYRGDFEKRLKKTLKEIQQNGRIILFIDEIHTL 280
V D+A ++ + RGD +LFIDEIH L
Sbjct: 82 TSGPVLVKQGDMAAILTSLE-RGD------------------VLFIDEIHRL 114
>pdb|1IXR|C Chain C, Ruva-Ruvb Complex
Length = 312
Score = 31.2 bits (69), Expect = 0.43
Identities = 36/111 (32%), Positives = 51/111 (45%), Gaps = 24/111 (21%)
Query: 175 LDPVIGRE--EEILRV-IEILGRRKK--NNPLLIGEAGVGKTSIAEALALKIAQKEVPEF 229
LD IG+E ++ LRV +E RK+ + LL G G+GKT++A +A ++
Sbjct: 11 LDEYIGQERLKQKLRVYLEAAKARKEPLEHLLLFGPPGLGKTTLAHVIAHELGVNLRVTS 70
Query: 230 LQEYEVYSLDLALMVAGAKYRGDFEKRLKKTLKEIQQNGRIILFIDEIHTL 280
E DLA ++A + GD ILFIDEIH L
Sbjct: 71 GPAIEKPG-DLAAILANSLEEGD------------------ILFIDEIHRL 102
Score = 30.0 bits (66), Expect = 0.97
Identities = 23/109 (21%), Positives = 47/109 (43%), Gaps = 17/109 (15%)
Query: 471 AKNKPVGSFLFVGPSGVGKTELAKELALNLNLHFERFDMSEYKEAHSVAKLIGSPSGYVG 530
A+ +P+ L GP G+GKT LA +A L ++ ++ P+
Sbjct: 33 ARKEPLEHLLLFGPPGLGKTTLAHVIAHELGVNL---------------RVTSGPAIEKP 77
Query: 531 FEQGGLLVNAIKKHPHCLLLLDEIEKAHSNVYDLLLQVMDNATLSDNLG 579
+ +L N++++ +L +DEI + + L M++ + +G
Sbjct: 78 GDLAAILANSLEEGD--ILFIDEIHRLSRQAEEHLYPAMEDFVMDIVIG 124
>pdb|1CFZ|A Chain A, Hydrogenase Maturating Endopeptidase Hybd From E. Coli
pdb|1CFZ|B Chain B, Hydrogenase Maturating Endopeptidase Hybd From E. Coli
pdb|1CFZ|C Chain C, Hydrogenase Maturating Endopeptidase Hybd From E. Coli
pdb|1CFZ|D Chain D, Hydrogenase Maturating Endopeptidase Hybd From E. Coli
pdb|1CFZ|E Chain E, Hydrogenase Maturating Endopeptidase Hybd From E. Coli
pdb|1CFZ|F Chain F, Hydrogenase Maturating Endopeptidase Hybd From E. Coli
Length = 162
Score = 31.2 bits (69), Expect = 0.43
Identities = 20/70 (28%), Positives = 38/70 (53%), Gaps = 2/70 (2%)
Query: 189 IEILGRRKKNNPLLIGEAGVGKTSIAEALALKIAQKEVPE-FLQEYEVYSLDLALMVAGA 247
+E+LG + L+I +A V K + A + + +EVP F + + L LA +++
Sbjct: 46 MELLGDMANRDHLIIADAIVSKKN-APGTMMILRDEEVPALFTNKISPHQLGLADVLSAL 104
Query: 248 KYRGDFEKRL 257
++ G+F K+L
Sbjct: 105 RFTGEFPKKL 114
>pdb|1IXS|B Chain B, Structure Of Ruvb Complexed With Ruva Domain Iii
Length = 318
Score = 31.2 bits (69), Expect = 0.43
Identities = 36/111 (32%), Positives = 51/111 (45%), Gaps = 24/111 (21%)
Query: 175 LDPVIGRE--EEILRV-IEILGRRKK--NNPLLIGEAGVGKTSIAEALALKIAQKEVPEF 229
LD IG+E ++ LRV +E RK+ + LL G G+GKT++A +A ++
Sbjct: 11 LDEYIGQERLKQKLRVYLEAAKARKEPLEHLLLFGPPGLGKTTLAHVIAHELGVNLRVTS 70
Query: 230 LQEYEVYSLDLALMVAGAKYRGDFEKRLKKTLKEIQQNGRIILFIDEIHTL 280
E DLA ++A + GD ILFIDEIH L
Sbjct: 71 GPAIEKPG-DLAAILANSLEEGD------------------ILFIDEIHRL 102
Score = 30.0 bits (66), Expect = 0.97
Identities = 23/109 (21%), Positives = 47/109 (43%), Gaps = 17/109 (15%)
Query: 471 AKNKPVGSFLFVGPSGVGKTELAKELALNLNLHFERFDMSEYKEAHSVAKLIGSPSGYVG 530
A+ +P+ L GP G+GKT LA +A L ++ ++ P+
Sbjct: 33 ARKEPLEHLLLFGPPGLGKTTLAHVIAHELGVNL---------------RVTSGPAIEKP 77
Query: 531 FEQGGLLVNAIKKHPHCLLLLDEIEKAHSNVYDLLLQVMDNATLSDNLG 579
+ +L N++++ +L +DEI + + L M++ + +G
Sbjct: 78 GDLAAILANSLEEGD--ILFIDEIHRLSRQAEEHLYPAMEDFVMDIVIG 124
>pdb|1HQC|A Chain A, Structure Of Ruvb From Thermus Thermophilus Hb8
pdb|1HQC|B Chain B, Structure Of Ruvb From Thermus Thermophilus Hb8
Length = 324
Score = 31.2 bits (69), Expect = 0.43
Identities = 36/111 (32%), Positives = 51/111 (45%), Gaps = 24/111 (21%)
Query: 175 LDPVIGRE--EEILRV-IEILGRRKK--NNPLLIGEAGVGKTSIAEALALKIAQKEVPEF 229
LD IG+E ++ LRV +E RK+ + LL G G+GKT++A +A ++
Sbjct: 11 LDEYIGQERLKQKLRVYLEAAKARKEPLEHLLLFGPPGLGKTTLAHVIAHELGVNLRVTS 70
Query: 230 LQEYEVYSLDLALMVAGAKYRGDFEKRLKKTLKEIQQNGRIILFIDEIHTL 280
E DLA ++A + GD ILFIDEIH L
Sbjct: 71 GPAIEKPG-DLAAILANSLEEGD------------------ILFIDEIHRL 102
Score = 30.0 bits (66), Expect = 0.97
Identities = 23/109 (21%), Positives = 47/109 (43%), Gaps = 17/109 (15%)
Query: 471 AKNKPVGSFLFVGPSGVGKTELAKELALNLNLHFERFDMSEYKEAHSVAKLIGSPSGYVG 530
A+ +P+ L GP G+GKT LA +A L ++ ++ P+
Sbjct: 33 ARKEPLEHLLLFGPPGLGKTTLAHVIAHELGVNL---------------RVTSGPAIEKP 77
Query: 531 FEQGGLLVNAIKKHPHCLLLLDEIEKAHSNVYDLLLQVMDNATLSDNLG 579
+ +L N++++ +L +DEI + + L M++ + +G
Sbjct: 78 GDLAAILANSLEEGD--ILFIDEIHRLSRQAEEHLYPAMEDFVMDIVIG 124
>pdb|1II0|B Chain B, Crystal Structure Of The Escherichia Coli Arsenite-
Translocating Atpase
pdb|1II0|A Chain A, Crystal Structure Of The Escherichia Coli Arsenite-
Translocating Atpase
pdb|1II9|B Chain B, Crystal Structure Of The Escherichia Coli Arsenite-
Translocating Atpase In Complex With Amp-Pnp
pdb|1F48|A Chain A, Crystal Structure Of The Escherichia Coli Arsenite-
Translocating Atpase
pdb|1II9|A Chain A, Crystal Structure Of The Escherichia Coli Arsenite-
Translocating Atpase In Complex With Amp-Pnp
pdb|1IHU|A Chain A, Crystal Structure Of The Escherichia Coli Arsenite-
Translocating Atpase In Complex With Mg-Adp-Alf3
Length = 589
Score = 30.8 bits (68), Expect = 0.57
Identities = 12/35 (34%), Positives = 26/35 (74%)
Query: 188 VIEILGRRKKNNPLLIGEAGVGKTSIAEALALKIA 222
+++ + R + +L+G+ GVGKT++A A+A+++A
Sbjct: 318 LVDDIARNEHGLIMLMGKGGVGKTTMAAAIAVRLA 352
Score = 26.9 bits (58), Expect = 8.2
Identities = 11/21 (52%), Positives = 18/21 (85%)
Query: 204 GEAGVGKTSIAEALALKIAQK 224
G+ GVGKTSI+ A A+++A++
Sbjct: 15 GKGGVGKTSISCATAIRLAEQ 35
>pdb|1IQP|A Chain A, Crystal Structure Of The Clamp Loader Small Subunit From
Pyrococcus Furiosus
pdb|1IQP|B Chain B, Crystal Structure Of The Clamp Loader Small Subunit From
Pyrococcus Furiosus
pdb|1IQP|D Chain D, Crystal Structure Of The Clamp Loader Small Subunit From
Pyrococcus Furiosus
pdb|1IQP|E Chain E, Crystal Structure Of The Clamp Loader Small Subunit From
Pyrococcus Furiosus
pdb|1IQP|F Chain F, Crystal Structure Of The Clamp Loader Small Subunit From
Pyrococcus Furiosus
pdb|1IQP|C Chain C, Crystal Structure Of The Clamp Loader Small Subunit From
Pyrococcus Furiosus
Length = 327
Score = 30.4 bits (67), Expect = 0.74
Identities = 27/122 (22%), Positives = 50/122 (40%), Gaps = 24/122 (19%)
Query: 175 LDPVIGREEEILRVIEILGRRKKNNPLLIGEAGVGKTSIAEALA---------------- 218
LD ++G+E + R+ + + L G GVGKT+ A ALA
Sbjct: 24 LDDIVGQEHIVKRLKHYVKTGSMPHLLFAGPPGVGKTTAALALARELFGENWRHNFLELN 83
Query: 219 ------LKIAQKEVPEFLQEYEV--YSLDLALMVAGAKYRGDFEKRLKKTLKEIQQNGRI 270
+ + +++V EF + + S + + D ++ L++T++ N R
Sbjct: 84 ASDERGINVIREKVKEFARTKPIGGASFKIIFLDEADALTQDAQQALRRTMEMFSSNVRF 143
Query: 271 IL 272
IL
Sbjct: 144 IL 145
>pdb|1IN6|A Chain A, Thermotoga Maritima Ruvb K64r Mutant
Length = 334
Score = 30.4 bits (67), Expect = 0.74
Identities = 27/110 (24%), Positives = 44/110 (39%), Gaps = 22/110 (20%)
Query: 480 LFVGPSGVGKTELAKELA--LNLNLHFERFDMSEYKEAHSVAKLIGSPSGYVGFEQGGLL 537
L GP G+G+T LA +A L N+H SG V +QG +
Sbjct: 55 LLAGPPGLGRTTLAHIIASELQTNIHVT--------------------SGPVLVKQGDMA 94
Query: 538 VNAIKKHPHCLLLLDEIEKAHSNVYDLLLQVMDNATLSDNLGNQASFKHV 587
+L +DEI + + V +LL +++ + +G S K +
Sbjct: 95 AILTSLERGDVLFIDEIHRLNKAVEELLYSAIEDFQIDIMIGKGPSAKSI 144
Score = 26.9 bits (58), Expect = 8.2
Identities = 30/112 (26%), Positives = 52/112 (45%), Gaps = 25/112 (22%)
Query: 174 ALDPVIGRE---EEILRVIEILGRRKK--NNPLLIGEAGVGKTSIAEALALKIAQKEVPE 228
+LD IG+E +++ +E R + ++ LL G G+G+T++A +A ++ Q +
Sbjct: 23 SLDEFIGQENVKKKLSLALEAAKMRGEVLDHVLLAGPPGLGRTTLAHIIASEL-QTNIHV 81
Query: 229 FLQEYEVYSLDLALMVAGAKYRGDFEKRLKKTLKEIQQNGRIILFIDEIHTL 280
V D+A ++ + RGD +LFIDEIH L
Sbjct: 82 TSGPVLVKQGDMAAILTSLE-RGD------------------VLFIDEIHRL 114
>pdb|1BOB| Histone Acetyltransferase Hat1 From Saccharomyces Cerevisiae In
Complex With Acetyl Coenzyme A
Length = 320
Score = 30.0 bits (66), Expect = 0.97
Identities = 14/53 (26%), Positives = 26/53 (48%)
Query: 669 KEVVKFIAQKSYQTTLGAREIKKIIHNEIKTKLSDILLLQSFKKPCKIACLLE 721
KE++ F+ Y LGA+ + I + + K+S L+ ++ +CL E
Sbjct: 185 KELIGFVTTYKYWHYLGAKSFDEDIDKKFRAKISQFLIFPPYQNKGHGSCLYE 237
>pdb|1JR3|A Chain A, Crystal Structure Of The Processivity Clamp Loader Gamma
Complex Of E. Coli Dna Polymerase Iii
pdb|1JR3|C Chain C, Crystal Structure Of The Processivity Clamp Loader Gamma
Complex Of E. Coli Dna Polymerase Iii
pdb|1JR3|B Chain B, Crystal Structure Of The Processivity Clamp Loader Gamma
Complex Of E. Coli Dna Polymerase Iii
Length = 373
Score = 28.9 bits (63), Expect = 2.2
Identities = 13/24 (54%), Positives = 17/24 (70%)
Query: 478 SFLFVGPSGVGKTELAKELALNLN 501
++LF G GVGKT +A+ LA LN
Sbjct: 40 AYLFSGTRGVGKTSIARLLAKGLN 63
>pdb|1FI8|A Chain A, Rat Granzyme B [n66q] Complexed To Ecotin [81-84 Iepd]
pdb|1FI8|B Chain B, Rat Granzyme B [n66q] Complexed To Ecotin [81-84 Iepd]
Length = 228
Score = 28.1 bits (61), Expect = 3.7
Identities = 20/66 (30%), Positives = 31/66 (46%), Gaps = 3/66 (4%)
Query: 556 KAHSNVYDLLLQVMDNATLSDNLGNQASFKHVILIMTSNVGSKDKDTLGFFSAKNTKYDK 615
K HS Y LQ+MD + S G + +L GSK + TLG A N K +
Sbjct: 8 KPHSRPYMAYLQIMDEYSGSKKCGGFLIREDFVLTAAHCSGSKIQVTLG---AHNIKEQE 64
Query: 616 AVKELL 621
+++++
Sbjct: 65 KMQQII 70
>pdb|1LT7|A Chain A, Oxidized Homo Sapiens Betaine-Homocysteine S-
Methyltransferase In Complex With Four Sm(Iii) Ions
pdb|1LT7|B Chain B, Oxidized Homo Sapiens Betaine-Homocysteine S-
Methyltransferase In Complex With Four Sm(Iii) Ions
pdb|1LT8|A Chain A, Reduced Homo Sapiens Betaine-Homocysteine S-
Methyltransferase In Complex With
S-(Delta-Carboxybutyl)-L- Homocysteine
pdb|1LT8|B Chain B, Reduced Homo Sapiens Betaine-Homocysteine S-
Methyltransferase In Complex With
S-(Delta-Carboxybutyl)-L- Homocysteine
Length = 406
Score = 27.7 bits (60), Expect = 4.8
Identities = 26/84 (30%), Positives = 36/84 (41%), Gaps = 12/84 (14%)
Query: 433 KKALLRNLEKSLKNKI-FAQAEAISLVSNAIKIQHCGLSAKNKPVGSFLFVGPS----GV 487
KK L+ LE +K + F AE V A+ L A KPV + + +GP GV
Sbjct: 138 KKVFLQQLEVFMKKNVDFLIAEYFEHVEEAVWAVET-LIASGKPVAATMAIGPEGDLHGV 196
Query: 488 GKTELAKELA------LNLNLHFE 505
E A L + +N HF+
Sbjct: 197 PPGEAAVRLVKAGASIIGVNCHFD 220
>pdb|1LD7|A Chain A, Co-Crystal Structure Of Human Farnesyltransferase With
Farnesyldiphosphate And Inhibitor Compound 66
pdb|1LD8|A Chain A, Co-Crystal Structure Of Human Farnesyltransferase With
Farnesyldiphosphate And Inhibitor Compound 49
pdb|1JCQ|A Chain A, Crystal Structure Of Human Protein Farnesyltransferase
Complexed With Farnesyl Diphosphate And The
Peptidomimetic Inhibitor L-739,750
Length = 382
Score = 27.3 bits (59), Expect = 6.3
Identities = 24/87 (27%), Positives = 43/87 (48%), Gaps = 6/87 (6%)
Query: 520 KLIGSPSGYVGFEQGGLLVNAIKKHPHCLLLLDEIEKAHSNVYDLLLQVMDNATLSDNLG 579
KL+ + +G L + K+P+ L L +++ +HS+ Y L+ ++D D L
Sbjct: 268 KLVPHNESAWNYLKGILQDRGLSKYPNLLNQLLDLQPSHSSPY-LIAFLVD--IYEDMLE 324
Query: 580 NQASFKHVIL---IMTSNVGSKDKDTL 603
NQ K IL + + +K+KDT+
Sbjct: 325 NQCDNKEDILNKALELCEILAKEKDTI 351
>pdb|1SHK|A Chain A, The Three-Dimensional Structure Of Shikimate Kinase From
Erwinia Chrysanthemi
pdb|2SHK|A Chain A, The Three-Dimensional Structure Of Shikimate Kinase From
Erwinia Chrysanthemi Complexed With Adp
Length = 173
Score = 26.9 bits (58), Expect = 8.2
Identities = 17/53 (32%), Positives = 28/53 (52%), Gaps = 2/53 (3%)
Query: 482 VGPSGVGKTELAKELALNLNLHFERFDM-SEYKEAHSVAKLIGSPSGYVGFEQ 533
VG G GKT + +ELA L F D+ ++ +VA ++ + G+ GF +
Sbjct: 8 VGARGCGKTTVGRELARALGYEFVDTDIFMQHTSGMTVADVVAA-EGWPGFRR 59
>pdb|1SHK|B Chain B, The Three-Dimensional Structure Of Shikimate Kinase From
Erwinia Chrysanthemi
Length = 173
Score = 26.9 bits (58), Expect = 8.2
Identities = 17/53 (32%), Positives = 28/53 (52%), Gaps = 2/53 (3%)
Query: 482 VGPSGVGKTELAKELALNLNLHFERFDM-SEYKEAHSVAKLIGSPSGYVGFEQ 533
VG G GKT + +ELA L F D+ ++ +VA ++ + G+ GF +
Sbjct: 8 VGARGCGKTTVGRELARALGYEFVDTDIFMQHTSGMTVADVVAA-EGWPGFRR 59
>pdb|2SHK|B Chain B, The Three-Dimensional Structure Of Shikimate Kinase From
Erwinia Chrysanthemi Complexed With Adp
Length = 173
Score = 26.9 bits (58), Expect = 8.2
Identities = 17/53 (32%), Positives = 28/53 (52%), Gaps = 2/53 (3%)
Query: 482 VGPSGVGKTELAKELALNLNLHFERFDM-SEYKEAHSVAKLIGSPSGYVGFEQ 533
VG G GKT + +ELA L F D+ ++ +VA ++ + G+ GF +
Sbjct: 8 VGARGCGKTTVGRELARALGYEFVDTDIFMQHTSGMTVADVVAA-EGWPGFRR 59
>pdb|1FO4|A Chain A, Crystal Structure Of Xanthine Dehydrogenase Isolated From
Bovine Milk
pdb|1FO4|B Chain B, Crystal Structure Of Xanthine Dehydrogenase Isolated From
Bovine Milk
Length = 1332
Score = 26.9 bits (58), Expect = 8.2
Identities = 21/111 (18%), Positives = 44/111 (38%), Gaps = 2/111 (1%)
Query: 356 EEHHQVRYDESVFKACVDLTSDYMHDKFLPDKAIELLDEVGSRKKISPKKGKKIGVDDVK 415
++ H V S+F + D + P + + L D + + ++ I +K
Sbjct: 184 KKDHTVTLSPSLFNPEEFMPLDPTQEPIFPPELLRLKDVPPKQLRFEGERVTWIQASTLK 243
Query: 416 ETLALKLKIPKMRLSSDKKALLRNLEKSLKNKIFAQAEAISLVSNAIKIQH 466
E L LK + P+ +L + +E KN++F + + ++H
Sbjct: 244 ELLDLKAQHPEAKLVVGNTEI--GIEMKFKNQLFPMIICPAWIPELNAVEH 292
>pdb|1SKY|E Chain E, Crystal Structure Of The Nucleotide Free Alpha3beta3
Sub-Complex Of F1-Atpase From The Thermophilic Bacillus
Ps3
Length = 473
Score = 26.9 bits (58), Expect = 8.2
Identities = 15/40 (37%), Positives = 24/40 (59%), Gaps = 1/40 (2%)
Query: 186 LRVIEILGRRKKNNPL-LIGEAGVGKTSIAEALALKIAQK 224
++V+++L K + L G AGVGKT + + L IAQ+
Sbjct: 139 IKVVDLLAPYIKGGKIGLFGGAGVGKTVLIQELIHNIAQE 178
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
0.317 0.136 0.374
Gapped
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,961,797
Number of Sequences: 13198
Number of extensions: 166598
Number of successful extensions: 611
Number of sequences better than 10.0: 36
Number of HSP's better than 10.0 without gapping: 22
Number of HSP's successfully gapped in prelim test: 14
Number of HSP's that attempted gapping in prelim test: 529
Number of HSP's gapped (non-prelim): 73
length of query: 741
length of database: 2,899,336
effective HSP length: 95
effective length of query: 646
effective length of database: 1,645,526
effective search space: 1063009796
effective search space used: 1063009796
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 58 (26.9 bits)