BLASTP 2.2.26 [Sep-21-2011]
Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer,
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.
Reference for compositional score matrix adjustment: Altschul, Stephen F.,
John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis,
Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches
using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109.
Query= psy17903
(355 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1SXJ|D Chain D, Crystal Structure Of The Eukaryotic Clamp Loader
(Replication Factor C, Rfc) Bound To The Dna Sliding
Clamp (Proliferating Cell Nuclear Antigen, Pcna)
Length = 353
Score = 310 bits (793), Expect = 1e-84, Method: Compositional matrix adjust.
Identities = 158/321 (49%), Positives = 216/321 (67%), Gaps = 11/321 (3%)
Query: 34 PWVEKYRPKTIDDVIEQQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFG- 92
PWVEKYRPK +D+V Q V+VLKK L A+LPH LFYGPPGTGKTST++A +L+G
Sbjct: 26 PWVEKYRPKNLDEVTAQDHAVTVLKKTLKSANLPHMLFYGPPGTGKTSTILALTKELYGP 85
Query: 93 DMYRERILELNASDDRGIQVIRDKVKTFAQQTASG---FNQDGKPCPPFKIVILDEADSM 149
D+ + RILELNASD+RGI ++R+KVK FA+ T S + + PCPP+KI+ILDEADSM
Sbjct: 86 DLMKSRILELNASDERGISIVREKVKNFARLTVSKPSKHDLENYPCPPYKIIILDEADSM 145
Query: 150 THAAQAALRRTMEKETKSTRFCLICNYVSCIIQPLTSRCSKFRFKPLAENTMLTRLQYIC 209
T AQ+ALRRTME + TRFCLICNYV+ II PL S+CSKFRFK L + + RL++I
Sbjct: 146 TADAQSALRRTMETYSGVTRFCLICNYVTRIIDPLASQCSKFRFKALDASNAIDRLRFIS 205
Query: 210 EQESVMCDFKALETLVETSGGDMRRAITCLQSCAR----LKGGEGIVNEDVLEVTGVIPN 265
EQE+V CD LE +++ S GD+RR IT LQS ++ L G+ I + V E+ GV+P+
Sbjct: 206 EQENVKCDDGVLERILDISAGDLRRGITLLQSASKGAQYLGDGKNITSTQVEELAGVVPH 265
Query: 266 P-WIEKLLKVDS--FQVLEKYIEDLILEAYSATQLFDQFHDIVMSASSLSDKQKALILEK 322
IE + KV S F ++KY+ + +SA + +Q H+ ++ + K I
Sbjct: 266 DILIEIVEKVKSGDFDEIKKYVNTFMKSGWSAASVVNQLHEYYITNDNFDTNFKNQISWL 325
Query: 323 LAECNARLQDGASEYIQILDL 343
L ++RL +G +E+IQ+L+L
Sbjct: 326 LFTTDSRLNNGTNEHIQLLNL 346
>pdb|2CHQ|A Chain A, Replication Factor C Adpnp Complex
pdb|2CHQ|B Chain B, Replication Factor C Adpnp Complex
pdb|2CHQ|C Chain C, Replication Factor C Adpnp Complex
pdb|2CHV|A Chain A, Replication Factor C Adpnp Complex
pdb|2CHV|B Chain B, Replication Factor C Adpnp Complex
pdb|2CHV|C Chain C, Replication Factor C Adpnp Complex
pdb|2CHV|D Chain D, Replication Factor C Adpnp Complex
pdb|2CHV|E Chain E, Replication Factor C Adpnp Complex
pdb|2CHV|F Chain F, Replication Factor C Adpnp Complex
Length = 319
Score = 246 bits (628), Expect = 2e-65, Method: Compositional matrix adjust.
Identities = 134/311 (43%), Positives = 192/311 (61%), Gaps = 16/311 (5%)
Query: 35 WVEKYRPKTIDDVIEQQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFGDM 94
WVEKYRP+T+D+V+ Q EV+ LK + ++PH LF GPPGTGKT+T IA LFG+
Sbjct: 7 WVEKYRPRTLDEVVGQDEVIQRLKGYVERKNIPHLLFSGPPGTGKTATAIALARDLFGEN 66
Query: 95 YRERILELNASDDRGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQ 154
+R+ +E+NASD+RGI V+R K+K FA+ G PFKI+ LDEAD++T AQ
Sbjct: 67 WRDNFIEMNASDERGIDVVRHKIKEFARTAPIG-------GAPFKIIFLDEADALTADAQ 119
Query: 155 AALRRTMEKETKSTRFCLICNYVSCIIQPLTSRCSKFRFKPLAENTMLTRLQYICEQESV 214
AALRRTME +KS RF L CNYVS II+P+ SRC+ FRFKP+ + M RL ICE+E V
Sbjct: 120 AALRRTMEMYSKSCRFILSCNYVSRIIEPIQSRCAVFRFKPVPKEAMKKRLLEICEKEGV 179
Query: 215 MCDFKALETLVETSGGDMRRAITCLQSCARLKGGEGIVNEDVLEVTGVIPNPWIEKLLKV 274
LE L+ SGGD R+AI LQ A + GE + + + ++T + +L++
Sbjct: 180 KITEDGLEALIYISGGDFRKAINALQGAAAI--GEVVDADTIYQITATARPEEMTELIQT 237
Query: 275 ---DSFQVLEKYIEDLILE-AYSATQLFDQ-FHDIVMSASSLSDKQKALILEKLAECNAR 329
+F + ++ L++E S + Q F +I+ + + D K +++KL E + R
Sbjct: 238 ALKGNFMEARELLDRLMVEYGMSGEDIVAQLFREII--SMPIKDSLKVQLIDKLGEVDFR 295
Query: 330 LQDGASEYIQI 340
L +GA+E IQ+
Sbjct: 296 LTEGANERIQL 306
>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|C Chain C, 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
Length = 327
Score = 240 bits (613), Expect = 7e-64, Method: Compositional matrix adjust.
Identities = 130/311 (41%), Positives = 185/311 (59%), Gaps = 14/311 (4%)
Query: 34 PWVEKYRPKTIDDVIEQQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFGD 93
PWVEKYRP+ +DD++ Q+ +V LK + +PH LF GPPG GKT+ +A +LFG+
Sbjct: 14 PWVEKYRPQRLDDIVGQEHIVKRLKHYVKTGSMPHLLFAGPPGVGKTTAALALARELFGE 73
Query: 94 MYRERILELNASDDRGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAA 153
+R LELNASD+RGI VIR+KVK FA+ G FKI+ LDEAD++T A
Sbjct: 74 NWRHNFLELNASDERGINVIREKVKEFARTKPIG-------GASFKIIFLDEADALTQDA 126
Query: 154 QAALRRTMEKETKSTRFCLICNYVSCIIQPLTSRCSKFRFKPLAENTMLTRLQYICEQES 213
Q ALRRTME + + RF L CNY S II+P+ SRC+ FRF+PL + + RL+YI E E
Sbjct: 127 QQALRRTMEMFSSNVRFILSCNYSSKIIEPIQSRCAIFRFRPLRDEDIAKRLRYIAENEG 186
Query: 214 VMCDFKALETLVETSGGDMRRAITCLQSCARLKGGEGIVNEDVLEVTGVIPNPWIEKL-- 271
+ + L+ ++ + GDMRRAI LQ+ A L + I +E+V V I ++
Sbjct: 187 LELTEEGLQAILYIAEGDMRRAINILQAAAALD--KKITDENVFMVASRARPEDIREMML 244
Query: 272 --LKVDSFQVLEKYIEDLILEAYSATQLFDQFHDIVMSASSLSDKQKALILEKLAECNAR 329
LK + + EK E L+ + S + Q H V + + + +K L+ +K+ E N R
Sbjct: 245 LALKGNFLKAREKLREILLKQGLSGEDVLVQMHKEVFNL-PIEEPKKVLLADKIGEYNFR 303
Query: 330 LQDGASEYIQI 340
L +GA+E IQ+
Sbjct: 304 LVEGANEIIQL 314
>pdb|2CHG|A Chain A, Replication Factor C Domains 1 And 2
pdb|2CHG|B Chain B, Replication Factor C Domains 1 And 2
pdb|2CHG|C Chain C, Replication Factor C Domains 1 And 2
pdb|2CHG|D Chain D, Replication Factor C Domains 1 And 2
Length = 226
Score = 229 bits (585), Expect = 1e-60, Method: Compositional matrix adjust.
Identities = 114/227 (50%), Positives = 150/227 (66%), Gaps = 9/227 (3%)
Query: 35 WVEKYRPKTIDDVIEQQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFGDM 94
WVEKYRP+T+D+V+ Q EV+ LK + ++PH LF GPPGTGKT+T IA LFG+
Sbjct: 7 WVEKYRPRTLDEVVGQDEVIQRLKGYVERKNIPHLLFSGPPGTGKTATAIALARDLFGEN 66
Query: 95 YRERILELNASDDRGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHAAQ 154
+R+ +E+NASD+RGI V+R K+K FA+ G PFKI+ LDEAD++T AQ
Sbjct: 67 WRDNFIEMNASDERGIDVVRHKIKEFARTAPIG-------GAPFKIIFLDEADALTADAQ 119
Query: 155 AALRRTMEKETKSTRFCLICNYVSCIIQPLTSRCSKFRFKPLAENTMLTRLQYICEQESV 214
AALRRTME +KS RF L CNYVS II+P+ SRC+ FRFKP+ + M RL ICE+E V
Sbjct: 120 AALRRTMEMYSKSCRFILSCNYVSRIIEPIQSRCAVFRFKPVPKEAMKKRLLEICEKEGV 179
Query: 215 MCDFKALETLVETSGGDMRRAITCLQSCARLKGGEGIVNEDVLEVTG 261
LE L+ SGGD R+AI LQ A + GE + + + ++T
Sbjct: 180 KITEDGLEALIYISGGDFRKAINALQGAAAI--GEVVDADTIYQITA 224
>pdb|1SXJ|C Chain C, Crystal Structure Of The Eukaryotic Clamp Loader
(Replication Factor C, Rfc) Bound To The Dna Sliding
Clamp (Proliferating Cell Nuclear Antigen, Pcna)
Length = 340
Score = 219 bits (559), Expect = 1e-57, Method: Compositional matrix adjust.
Identities = 132/336 (39%), Positives = 193/336 (57%), Gaps = 32/336 (9%)
Query: 33 VPWVEKYRPKTIDDVIEQQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFG 92
+PWVEKYRP+T+D+V Q EV++ ++K + LPH LFYGPPGTGKTST++A +++G
Sbjct: 13 LPWVEKYRPETLDEVYGQNEVITTVRKFVDEGKLPHLLFYGPPGTGKTSTIVALAREIYG 72
Query: 93 DMYRERILELNASDDRGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMTHA 152
Y +LELNASDDRGI V+R+++K FA T F++ FK++ILDEAD+MT+A
Sbjct: 73 KNYSNMVLELNASDDRGIDVVRNQIKDFA-STRQIFSKG------FKLIILDEADAMTNA 125
Query: 153 AQAALRRTMEKETKSTRFCLICNYVSCIIQPLTSRCSKFRFKPLAENTMLTRLQYICEQE 212
AQ ALRR +E+ TK+TRFC++ NY + L S+C++FRF+PL + + R+ + E
Sbjct: 126 AQNALRRVIERYTKNTRFCVLANYAHKLTPALLSQCTRFRFQPLPQEAIERRIANVLVHE 185
Query: 213 SVMCDFKALETLVETSGGDMRRAITCLQSC-ARLKG-GEGIVNEDVLEVTGVIPNPWIEK 270
+ A + L+E S GDMRR + LQSC A L E +++DV+ P P
Sbjct: 186 KLKLSPNAEKALIELSNGDMRRVLNVLQSCKATLDNPDEDEISDDVIYECCGAPRP---- 241
Query: 271 LLKVDSFQVLEKYIEDLILEAY---------SATQLFDQFHDIV--MSASSLSDKQ-KAL 318
D VL+ +ED A+ L D IV + L +++ +
Sbjct: 242 ---SDLKAVLKSILEDDWGTAHYTLNKVRSAKGLALIDLIEGIVKILEDYELQNEETRVH 298
Query: 319 ILEKLAECNARLQDGASEYIQILDLGSIVIKANKTA 354
+L KLA+ + G ++ IQ GS VI A K +
Sbjct: 299 LLTKLADIEYSISKGGNDQIQ----GSAVIGAIKAS 330
>pdb|1SXJ|B Chain B, Crystal Structure Of The Eukaryotic Clamp Loader
(Replication Factor C, Rfc) Bound To The Dna Sliding
Clamp (Proliferating Cell Nuclear Antigen, Pcna)
Length = 323
Score = 211 bits (536), Expect = 6e-55, Method: Compositional matrix adjust.
Identities = 119/329 (36%), Positives = 184/329 (55%), Gaps = 21/329 (6%)
Query: 33 VPWVEKYRPKTIDDVIEQQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFG 92
+PWVEKYRP+ + D++ +E + L++ ++PH + G PG GKT+++ H+L G
Sbjct: 9 LPWVEKYRPQVLSDIVGNKETIDRLQQIAKDGNMPHMIISGMPGIGKTTSVHCLAHELLG 68
Query: 93 DMYRERILELNASDDRGIQVIRDKVKTFAQQTASGFNQDGKPCPP--FKIVILDEADSMT 150
Y + +LELNASDDRGI V+R+++K FAQ+ PP KIVILDEADSMT
Sbjct: 69 RSYADGVLELNASDDRGIDVVRNQIKHFAQKKLH--------LPPGKHKIVILDEADSMT 120
Query: 151 HAAQAALRRTMEKETKSTRFCLICNYVSCIIQPLTSRCSKFRFKPLAENTMLTRLQYICE 210
AQ ALRRTME + STRF CN + II+PL S+C+ R+ L++ +L RL I +
Sbjct: 121 AGAQQALRRTMELYSNSTRFAFACNQSNKIIEPLQSQCAILRYSKLSDEDVLKRLLQIIK 180
Query: 211 QESVMCDFKALETLVETSGGDMRRAITCLQSCARLKGGEGIVNEDVLEVTGVIPNPWIEK 270
E V LE ++ T+ GDMR+AI LQS G G+VN D + P+P I K
Sbjct: 181 LEDVKYTNDGLEAIIFTAEGDMRQAINNLQSTV---AGHGLVNADNVFKIVDSPHPLIVK 237
Query: 271 LLKV-----DSFQVLEKYIEDLILEAYSATQLFDQFHDIVMSASSLSDKQKALILEKLAE 325
+ + DS Q+L DL + YS+ + + + + + + + +++++
Sbjct: 238 KMLLASNLEDSIQILR---TDLWKKGYSSIDIVTTSFRVTKNLAQVKESVRLEMIKEIGL 294
Query: 326 CNARLQDGASEYIQILDLGSIVIKANKTA 354
+ R+ +G Y+Q+ + + + K N A
Sbjct: 295 THMRILEGVGTYLQLASMLAKIHKLNNKA 323
>pdb|1SXJ|E Chain E, Crystal Structure Of The Eukaryotic Clamp Loader
(Replication Factor C, Rfc) Bound To The Dna Sliding
Clamp (Proliferating Cell Nuclear Antigen, Pcna)
Length = 354
Score = 122 bits (305), Expect = 4e-28, Method: Compositional matrix adjust.
Identities = 102/340 (30%), Positives = 168/340 (49%), Gaps = 49/340 (14%)
Query: 35 WVEKYRPKTIDDVIEQQEVVSVLKKCLSGA--DLPHFLFYGPPGTGKTSTMIAACHQLFG 92
WV+KYRPK+++ + +E+ + LK LS DLPH L YGP GTGK + +A +FG
Sbjct: 4 WVDKYRPKSLNALSHNEELTNFLKS-LSDQPRDLPHLLLYGPNGTGKKTRCMALLESIFG 62
Query: 93 -DMYRERI------------LELN---------------ASDDRGIQVIRDKVKTFAQQT 124
+YR +I LELN ++DR VI++ +K AQ
Sbjct: 63 PGVYRLKIDVRQFVTASNRKLELNVVSSPYHLEITPSDMGNNDR--IVIQELLKEVAQME 120
Query: 125 ASGFNQDGKP--CPPFKIVILDEADSMTHAAQAALRRTMEKETKSTRFCLICNYVSCIIQ 182
F QD K +K VI++EA+S+T AQAALRRTMEK +K+ R ++C+ +S II
Sbjct: 121 QVDF-QDSKDGLAHRYKCVIINEANSLTKDAQAALRRTMEKYSKNIRLIMVCDSMSPIIA 179
Query: 183 PLTSRCSKFRFKPLAENTMLTRLQYICEQESVMCDFK-ALETLVETSGGDMRRAITCLQS 241
P+ S+C R +++ + T L + E + + K L+ + + S G++R ++ L+S
Sbjct: 180 PIKSQCLLIRCPAPSDSEISTILSDVVTNERIQLETKDILKRIAQASNGNLRVSLLMLES 239
Query: 242 CA-----RLKGGEGIVNEDVLEVTGVIPNPWIEKLLK---VDSFQVLEKYIEDLILEAYS 293
A LK I+ D + ++ + K++K V+S + DL+
Sbjct: 240 MALNNELALKSSSPIIKPDWI----IVIHKLTRKIVKERSVNSLIECRAVLYDLLAHCIP 295
Query: 294 ATQLFDQFHDIVMSASSLSDKQKALILEKLAECNARLQDG 333
A + + ++ +L+ K+ I+E + + RL G
Sbjct: 296 ANIILKELTFSLLDVETLNTTNKSSIIEYSSVFDERLSLG 335
>pdb|3U5Z|B Chain B, Structure Of T4 Bacteriophage Clamp Loader Bound To The T4
Clamp, Primer-Template Dna, And Atp Analog
pdb|3U5Z|C Chain C, Structure Of T4 Bacteriophage Clamp Loader Bound To The T4
Clamp, Primer-Template Dna, And Atp Analog
pdb|3U5Z|D Chain D, Structure Of T4 Bacteriophage Clamp Loader Bound To The T4
Clamp, Primer-Template Dna, And Atp Analog
pdb|3U5Z|E Chain E, Structure Of T4 Bacteriophage Clamp Loader Bound To The T4
Clamp, Primer-Template Dna, And Atp Analog
pdb|3U5Z|L Chain L, Structure Of T4 Bacteriophage Clamp Loader Bound To The T4
Clamp, Primer-Template Dna, And Atp Analog
pdb|3U5Z|M Chain M, Structure Of T4 Bacteriophage Clamp Loader Bound To The T4
Clamp, Primer-Template Dna, And Atp Analog
pdb|3U5Z|N Chain N, Structure Of T4 Bacteriophage Clamp Loader Bound To The T4
Clamp, Primer-Template Dna, And Atp Analog
pdb|3U5Z|O Chain O, Structure Of T4 Bacteriophage Clamp Loader Bound To The T4
Clamp, Primer-Template Dna, And Atp Analog
pdb|3U60|B Chain B, Structure Of T4 Bacteriophage Clamp Loader Bound To Open
Clamp, Dna And Atp Analog
pdb|3U60|C Chain C, Structure Of T4 Bacteriophage Clamp Loader Bound To Open
Clamp, Dna And Atp Analog
pdb|3U60|D Chain D, Structure Of T4 Bacteriophage Clamp Loader Bound To Open
Clamp, Dna And Atp Analog
pdb|3U60|E Chain E, Structure Of T4 Bacteriophage Clamp Loader Bound To Open
Clamp, Dna And Atp Analog
pdb|3U61|B Chain B, Structure Of T4 Bacteriophage Clamp Loader Bound To Closed
Clamp, Dna And Atp Analog And Adp
pdb|3U61|C Chain C, Structure Of T4 Bacteriophage Clamp Loader Bound To Closed
Clamp, Dna And Atp Analog And Adp
pdb|3U61|D Chain D, Structure Of T4 Bacteriophage Clamp Loader Bound To Closed
Clamp, Dna And Atp Analog And Adp
pdb|3U61|E Chain E, Structure Of T4 Bacteriophage Clamp Loader Bound To Closed
Clamp, Dna And Atp Analog And Adp
Length = 324
Score = 93.2 bits (230), Expect = 2e-19, Method: Compositional matrix adjust.
Identities = 73/233 (31%), Positives = 115/233 (49%), Gaps = 28/233 (12%)
Query: 37 EKYRPKTIDDVIEQQEVVSVLKKCLSGADLPHFLFYGP-PGTGKTSTMIAACHQLFGDMY 95
+KYRP TID+ I K S +PH + + P PGTGKT+ A CH + DM
Sbjct: 18 QKYRPSTIDECILPAFDKETFKSITSKGKIPHIILHSPSPGTGKTTVAKALCHDVNADM- 76
Query: 96 RERILELNASDDRGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEAD-SMTHAAQ 154
+ +N SD + I +R + FA +A+ F DG+ K++++DE D S +Q
Sbjct: 77 ----MFVNGSDCK-IDFVRGPLTNFA--SAASF--DGRQ----KVIVIDEFDRSGLAESQ 123
Query: 155 AALRRTMEKETKSTRFCLICNYVSCIIQPLTSRCSKFRF-KPLAENT------MLTRLQY 207
LR ME + + + N + II+PL SRC F +P E+ M+ RL
Sbjct: 124 RHLRSFMEAYSSNCSIIITANNIDGIIKPLQSRCRVITFGQPTDEDKIEMMKQMIRRLTE 183
Query: 208 ICEQESV-MCDFKALETLVETSGGDMRRAITCLQSCARLKGGEGIVNEDVLEV 259
IC+ E + + D K + LV+ + D R+ I L S + +G+++ +L +
Sbjct: 184 ICKHEGIAIADMKVVAALVKKNFPDFRKTIGELDSYS----SKGVLDAGILSL 232
>pdb|1JR3|A Chain A, 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
pdb|1JR3|C Chain C, Crystal Structure Of The Processivity Clamp Loader Gamma
Complex Of E. Coli Dna Polymerase Iii
pdb|1XXH|B Chain B, Atpgs Bound E. Coli Clamp Loader Complex
pdb|1XXH|C Chain C, Atpgs Bound E. Coli Clamp Loader Complex
pdb|1XXH|D Chain D, Atpgs Bound E. Coli Clamp Loader Complex
pdb|1XXH|G Chain G, Atpgs Bound E. Coli Clamp Loader Complex
pdb|1XXH|H Chain H, Atpgs Bound E. Coli Clamp Loader Complex
pdb|1XXH|I Chain I, Atpgs Bound E. Coli Clamp Loader Complex
Length = 373
Score = 70.9 bits (172), Expect = 1e-12, Method: Compositional matrix adjust.
Identities = 60/236 (25%), Positives = 106/236 (44%), Gaps = 31/236 (13%)
Query: 38 KYRPKTIDDVIEQQEVVSVLKKCLSGADLPH-FLFYGPPGTGKTS------------TMI 84
K+RP+T DV+ Q+ V++ L LS + H +LF G G GKTS T I
Sbjct: 9 KWRPQTFADVVGQEHVLTALANGLSLGRIHHAYLFSGTRGVGKTSIARLLAKGLNCETGI 68
Query: 85 AACHQLFGDMYRE-------RILELNASDDRGIQVIRDKVKTFAQQTASGFNQDGKPCPP 137
A D RE ++E++A+ ++ RD + A G
Sbjct: 69 TATPCGVCDNCREIEQGRFVDLIEIDAASRTKVEDTRDLLDNVQYAPARGR--------- 119
Query: 138 FKIVILDEADSMTHAAQAALRRTMEKETKSTRFCLICNYVSCIIQPLTSRCSKFRFKPLA 197
FK+ ++DE ++ + AL +T+E+ + +F L + + SRC +F K L
Sbjct: 120 FKVYLIDEVHMLSRHSFNALLKTLEEPPEHVKFLLATTDPQKLPVTILSRCLQFHLKALD 179
Query: 198 ENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCARLKGGEGIVN 253
+ +L++I +E + + +AL+ L + G +R A++ + G+G V+
Sbjct: 180 VEQIRHQLEHILNEEHIAHEPRALQLLARAAEGSLRDALSLTDQA--IASGDGQVS 233
>pdb|3GLH|B Chain B, Crystal Structure Of The E. Coli Clamp Loader Bound To Psi
Peptide
pdb|3GLH|C Chain C, Crystal Structure Of The E. Coli Clamp Loader Bound To Psi
Peptide
pdb|3GLH|D Chain D, Crystal Structure Of The E. Coli Clamp Loader Bound To Psi
Peptide
pdb|3GLH|G Chain G, Crystal Structure Of The E. Coli Clamp Loader Bound To Psi
Peptide
pdb|3GLH|H Chain H, Crystal Structure Of The E. Coli Clamp Loader Bound To Psi
Peptide
pdb|3GLH|I Chain I, Crystal Structure Of The E. Coli Clamp Loader Bound To Psi
Peptide
pdb|3GLH|L Chain L, Crystal Structure Of The E. Coli Clamp Loader Bound To Psi
Peptide
pdb|3GLH|M Chain M, Crystal Structure Of The E. Coli Clamp Loader Bound To Psi
Peptide
pdb|3GLH|N Chain N, Crystal Structure Of The E. Coli Clamp Loader Bound To Psi
Peptide
Length = 376
Score = 70.9 bits (172), Expect = 1e-12, Method: Compositional matrix adjust.
Identities = 60/236 (25%), Positives = 106/236 (44%), Gaps = 31/236 (13%)
Query: 38 KYRPKTIDDVIEQQEVVSVLKKCLSGADLPH-FLFYGPPGTGKTS------------TMI 84
K+RP+T DV+ Q+ V++ L LS + H +LF G G GKTS T I
Sbjct: 12 KWRPQTFADVVGQEHVLTALANGLSLGRIHHAYLFSGTRGVGKTSIARLLAKGLNCETGI 71
Query: 85 AACHQLFGDMYRE-------RILELNASDDRGIQVIRDKVKTFAQQTASGFNQDGKPCPP 137
A D RE ++E++A+ ++ RD + A G
Sbjct: 72 TATPCGVCDNCREIEQGRFVDLIEIDAASRTKVEDTRDLLDNVQYAPARGR--------- 122
Query: 138 FKIVILDEADSMTHAAQAALRRTMEKETKSTRFCLICNYVSCIIQPLTSRCSKFRFKPLA 197
FK+ ++DE ++ + AL +T+E+ + +F L + + SRC +F K L
Sbjct: 123 FKVYLIDEVHMLSRHSFNALLKTLEEPPEHVKFLLATTDPQKLPVTILSRCLQFHLKALD 182
Query: 198 ENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCARLKGGEGIVN 253
+ +L++I +E + + +AL+ L + G +R A++ + G+G V+
Sbjct: 183 VEQIRHQLEHILNEEHIAHEPRALQLLARAAEGSLRDALSLTDQA--IASGDGQVS 236
>pdb|3GLF|B Chain B, Crystal Structure Of The Ecoli Clamp Loader Bound To
Primer-template Dna
pdb|3GLF|C Chain C, Crystal Structure Of The Ecoli Clamp Loader Bound To
Primer-template Dna
pdb|3GLF|D Chain D, Crystal Structure Of The Ecoli Clamp Loader Bound To
Primer-template Dna
pdb|3GLF|G Chain G, Crystal Structure Of The Ecoli Clamp Loader Bound To
Primer-template Dna
pdb|3GLF|H Chain H, Crystal Structure Of The Ecoli Clamp Loader Bound To
Primer-template Dna
pdb|3GLF|I Chain I, Crystal Structure Of The Ecoli Clamp Loader Bound To
Primer-template Dna
pdb|3GLI|B Chain B, Crystal Structure Of The E. Coli Clamp Loader Bound To
Primer-template Dna And Psi Peptide
pdb|3GLI|C Chain C, Crystal Structure Of The E. Coli Clamp Loader Bound To
Primer-template Dna And Psi Peptide
pdb|3GLI|D Chain D, Crystal Structure Of The E. Coli Clamp Loader Bound To
Primer-template Dna And Psi Peptide
pdb|3GLI|G Chain G, Crystal Structure Of The E. Coli Clamp Loader Bound To
Primer-template Dna And Psi Peptide
pdb|3GLI|H Chain H, Crystal Structure Of The E. Coli Clamp Loader Bound To
Primer-template Dna And Psi Peptide
pdb|3GLI|I Chain I, Crystal Structure Of The E. Coli Clamp Loader Bound To
Primer-template Dna And Psi Peptide
Length = 395
Score = 70.9 bits (172), Expect = 1e-12, Method: Compositional matrix adjust.
Identities = 60/236 (25%), Positives = 106/236 (44%), Gaps = 31/236 (13%)
Query: 38 KYRPKTIDDVIEQQEVVSVLKKCLSGADLPH-FLFYGPPGTGKTS------------TMI 84
K+RP+T DV+ Q+ V++ L LS + H +LF G G GKTS T I
Sbjct: 31 KWRPQTFADVVGQEHVLTALANGLSLGRIHHAYLFSGTRGVGKTSIARLLAKGLNCETGI 90
Query: 85 AACHQLFGDMYRE-------RILELNASDDRGIQVIRDKVKTFAQQTASGFNQDGKPCPP 137
A D RE ++E++A+ ++ RD + A G
Sbjct: 91 TATPCGVCDNCREIEQGRFVDLIEIDAASRTKVEDTRDLLDNVQYAPARGR--------- 141
Query: 138 FKIVILDEADSMTHAAQAALRRTMEKETKSTRFCLICNYVSCIIQPLTSRCSKFRFKPLA 197
FK+ ++DE ++ + AL +T+E+ + +F L + + SRC +F K L
Sbjct: 142 FKVYLIDEVHMLSRHSFNALLKTLEEPPEHVKFLLATTDPQKLPVTILSRCLQFHLKALD 201
Query: 198 ENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCARLKGGEGIVN 253
+ +L++I +E + + +AL+ L + G +R A++ + G+G V+
Sbjct: 202 VEQIRHQLEHILNEEHIAHEPRALQLLARAAEGSLRDALSLTDQA--IASGDGQVS 255
>pdb|1XXI|B Chain B, Adp Bound E. Coli Clamp Loader Complex
pdb|1XXI|C Chain C, Adp Bound E. Coli Clamp Loader Complex
pdb|1XXI|D Chain D, Adp Bound E. Coli Clamp Loader Complex
pdb|1XXI|G Chain G, Adp Bound E. Coli Clamp Loader Complex
pdb|1XXI|H Chain H, Adp Bound E. Coli Clamp Loader Complex
pdb|1XXI|I Chain I, Adp Bound E. Coli Clamp Loader Complex
Length = 368
Score = 70.5 bits (171), Expect = 1e-12, Method: Compositional matrix adjust.
Identities = 60/236 (25%), Positives = 106/236 (44%), Gaps = 31/236 (13%)
Query: 38 KYRPKTIDDVIEQQEVVSVLKKCLSGADLPH-FLFYGPPGTGKTS------------TMI 84
K+RP+T DV+ Q+ V++ L LS + H +LF G G GKTS T I
Sbjct: 9 KWRPQTFADVVGQEHVLTALANGLSLGRIHHAYLFSGTRGVGKTSIARLLAKGLNCETGI 68
Query: 85 AACHQLFGDMYRE-------RILELNASDDRGIQVIRDKVKTFAQQTASGFNQDGKPCPP 137
A D RE ++E++A+ ++ RD + A G
Sbjct: 69 TATPCGVCDNCREIEQGRFVDLIEIDAASRTKVEDTRDLLDNVQYAPARGR--------- 119
Query: 138 FKIVILDEADSMTHAAQAALRRTMEKETKSTRFCLICNYVSCIIQPLTSRCSKFRFKPLA 197
FK+ ++DE ++ + AL +T+E+ + +F L + + SRC +F K L
Sbjct: 120 FKVYLIDEVHMLSRHSFNALLKTLEEPPEHVKFLLATTDPQKLPVTILSRCLQFHLKALD 179
Query: 198 ENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCARLKGGEGIVN 253
+ +L++I +E + + +AL+ L + G +R A++ + G+G V+
Sbjct: 180 VEQIRHQLEHILNEEHIAHEPRALQLLARAAEGSLRDALSLTDQA--IASGDGQVS 233
>pdb|3GLG|B Chain B, Crystal Structure Of A Mutant (Gammat157a) E. Coli Clamp
Loader Bound To Primer-Template Dna
pdb|3GLG|C Chain C, Crystal Structure Of A Mutant (Gammat157a) E. Coli Clamp
Loader Bound To Primer-Template Dna
pdb|3GLG|D Chain D, Crystal Structure Of A Mutant (Gammat157a) E. Coli Clamp
Loader Bound To Primer-Template Dna
pdb|3GLG|G Chain G, Crystal Structure Of A Mutant (Gammat157a) E. Coli Clamp
Loader Bound To Primer-Template Dna
pdb|3GLG|H Chain H, Crystal Structure Of A Mutant (Gammat157a) E. Coli Clamp
Loader Bound To Primer-Template Dna
pdb|3GLG|I Chain I, Crystal Structure Of A Mutant (Gammat157a) E. Coli Clamp
Loader Bound To Primer-Template Dna
Length = 395
Score = 70.1 bits (170), Expect = 2e-12, Method: Compositional matrix adjust.
Identities = 60/236 (25%), Positives = 106/236 (44%), Gaps = 31/236 (13%)
Query: 38 KYRPKTIDDVIEQQEVVSVLKKCLSGADLPH-FLFYGPPGTGKTS------------TMI 84
K+RP+T DV+ Q+ V++ L LS + H +LF G G GKTS T I
Sbjct: 31 KWRPQTFADVVGQEHVLTALANGLSLGRIHHAYLFSGTRGVGKTSIARLLAKGLNCETGI 90
Query: 85 AACHQLFGDMYRE-------RILELNASDDRGIQVIRDKVKTFAQQTASGFNQDGKPCPP 137
A D RE ++E++A+ ++ RD + A G
Sbjct: 91 TATPCGVCDNCREIEQGRFVDLIEIDAASRTKVEDTRDLLDNVQYAPARGR--------- 141
Query: 138 FKIVILDEADSMTHAAQAALRRTMEKETKSTRFCLICNYVSCIIQPLTSRCSKFRFKPLA 197
FK+ ++DE ++ + AL +T+E+ + +F L + + SRC +F K L
Sbjct: 142 FKVYLIDEVHMLSRHSFNALLKTLEEPPEHVKFLLATADPQKLPVTILSRCLQFHLKALD 201
Query: 198 ENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCLQSCARLKGGEGIVN 253
+ +L++I +E + + +AL+ L + G +R A++ + G+G V+
Sbjct: 202 VEQIRHQLEHILNEEHIAHEPRALQLLARAAEGSLRDALSLTDQA--IASGDGQVS 255
>pdb|1NJG|A Chain A, Nucleotide-Free Form Of An Isolated E. Coli Clamp Loader
Gamma Subunit
pdb|1NJG|B Chain B, Nucleotide-Free Form Of An Isolated E. Coli Clamp Loader
Gamma Subunit
pdb|1NJF|A Chain A, Nucleotide Bound Form Of An Isolated E. Coli Clamp Loader
Gamma Subunit
pdb|1NJF|B Chain B, Nucleotide Bound Form Of An Isolated E. Coli Clamp Loader
Gamma Subunit
pdb|1NJF|C Chain C, Nucleotide Bound Form Of An Isolated E. Coli Clamp Loader
Gamma Subunit
pdb|1NJF|D Chain D, Nucleotide Bound Form Of An Isolated E. Coli Clamp Loader
Gamma Subunit
Length = 250
Score = 69.7 bits (169), Expect = 2e-12, Method: Compositional matrix adjust.
Identities = 57/220 (25%), Positives = 100/220 (45%), Gaps = 29/220 (13%)
Query: 38 KYRPKTIDDVIEQQEVVSVLKKCLSGADLPH-FLFYGPPGTGKTS------------TMI 84
K+RP+T DV+ Q+ V++ L LS + H +LF G G GKTS T I
Sbjct: 16 KWRPQTFADVVGQEHVLTALANGLSLGRIHHAYLFSGTRGVGKTSIARLLAKGLNCETGI 75
Query: 85 AACHQLFGDMYRE-------RILELNASDDRGIQVIRDKVKTFAQQTASGFNQDGKPCPP 137
A D RE ++E++A+ ++ RD + A G
Sbjct: 76 TATPCGVCDNCREIEQGRFVDLIEIDAASRTKVEDTRDLLDNVQYAPARG---------R 126
Query: 138 FKIVILDEADSMTHAAQAALRRTMEKETKSTRFCLICNYVSCIIQPLTSRCSKFRFKPLA 197
FK+ ++DE ++ + AL +T+E+ + +F L + + SRC +F K L
Sbjct: 127 FKVYLIDEVHMLSRHSFNALLKTLEEPPEHVKFLLATTDPQKLPVTILSRCLQFHLKALD 186
Query: 198 ENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAIT 237
+ +L++I +E + + +AL+ L + G +R A++
Sbjct: 187 VEQIRHQLEHILNEEHIAHEPRALQLLARAAEGSLRDALS 226
>pdb|1SXJ|A Chain A, Crystal Structure Of The Eukaryotic Clamp Loader
(Replication Factor C, Rfc) Bound To The Dna Sliding
Clamp (Proliferating Cell Nuclear Antigen, Pcna)
Length = 516
Score = 67.8 bits (164), Expect = 8e-12, Method: Compositional matrix adjust.
Identities = 62/233 (26%), Positives = 97/233 (41%), Gaps = 37/233 (15%)
Query: 35 WVEKYRPKTIDDVIEQQEVVSVLKKCLS-------------GAD----LPHFLFYGPPGT 77
W KY P + V + V LK L+ G D + YGPPG
Sbjct: 29 WTVKYAPTNLQQVCGNKGSVMKLKNWLANWENSKKNSFKHAGKDGSGVFRAAMLYGPPGI 88
Query: 78 GKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRDKVKT---------FAQQTASGF 128
GKT+ +L D ILE NASD R ++ VK + +
Sbjct: 89 GKTTAAHLVAQELGYD-----ILEQNASDVRSKTLLNAGVKNALDNMSVVGYFKHNEEAQ 143
Query: 129 NQDGKPCPPFKIVILDEADSMTHAAQAALRRTMEKETK-STRFCLICNYVSC-IIQPLTS 186
N +GK ++I+DE D M+ + + + + K ST LICN + ++P
Sbjct: 144 NLNGKHF----VIIMDEVDGMSGGDRGGVGQLAQFCRKTSTPLILICNERNLPKMRPFDR 199
Query: 187 RCSKFRFKPLAENTMLTRLQYICEQESVMCDFKALETLVETSGGDMRRAITCL 239
C +F+ N++ +RL I +E D ++ L++T+ GD+R+ I L
Sbjct: 200 VCLDIQFRRPDANSIKSRLMTIAIREKFKLDPNVIDRLIQTTRGDIRQVINLL 252
>pdb|3PVS|A Chain A, Structure And Biochemical Activities Of Escherichia Coli
Mgsa
pdb|3PVS|B Chain B, Structure And Biochemical Activities Of Escherichia Coli
Mgsa
pdb|3PVS|C Chain C, Structure And Biochemical Activities Of Escherichia Coli
Mgsa
pdb|3PVS|D Chain D, Structure And Biochemical Activities Of Escherichia Coli
Mgsa
Length = 447
Score = 46.6 bits (109), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 51/221 (23%), Positives = 88/221 (39%), Gaps = 27/221 (12%)
Query: 34 PWVEKYRPKTIDDVIEQQEVVSV---LKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQL 90
P + RP+ + I QQ +++ L + + L + +GPPGTGKT+ +A
Sbjct: 15 PLAARMRPENLAQYIGQQHLLAAGKPLPRAIEAGHLHSMILWGPPGTGKTT--LAEVIAR 72
Query: 91 FGDMYRERILELNASDDRGIQVIRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMT 150
+ + ERI + + G++ IR+ ++ Q +G I+ +DE
Sbjct: 73 YANADVERISAVTS----GVKEIREAIERARQNRNAGRR---------TILFVDEVHRFN 119
Query: 151 HAAQAALRRTMEKETKSTRFCLICNYVSCIIQPLTSRCSKFRFKPLAENTMLTRLQYICE 210
+ Q A +E T + N + L SR + K L+ + L E
Sbjct: 120 KSQQDAFLPHIEDGTITFIGATTENPSFELNSALLSRARVYLLKSLSTEDIEQVLTQAME 179
Query: 211 --------QESVMCDFKALETLVETSGGDMRRAITCLQSCA 243
Q+ V+ D + + E GD RRA+ L+ A
Sbjct: 180 DKTRGYGGQDIVLPD-ETRRAIAELVNGDARRALNTLEMMA 219
>pdb|1IXR|C Chain C, Ruva-Ruvb Complex
Length = 312
Score = 44.3 bits (103), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 22/56 (39%), Positives = 30/56 (53%), Gaps = 5/56 (8%)
Query: 40 RPKTIDDVIEQQEVVSVLKKCLSGAD-----LPHFLFYGPPGTGKTSTMIAACHQL 90
RPKT+D+ I Q+ + L+ L A L H L +GPPG GKT+ H+L
Sbjct: 7 RPKTLDEYIGQERLKQKLRVYLEAAKARKEPLEHLLLFGPPGLGKTTLAHVIAHEL 62
>pdb|1IXS|B Chain B, Structure Of Ruvb Complexed With Ruva Domain Iii
Length = 318
Score = 43.9 bits (102), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 22/56 (39%), Positives = 30/56 (53%), Gaps = 5/56 (8%)
Query: 40 RPKTIDDVIEQQEVVSVLKKCLSGAD-----LPHFLFYGPPGTGKTSTMIAACHQL 90
RPKT+D+ I Q+ + L+ L A L H L +GPPG GKT+ H+L
Sbjct: 7 RPKTLDEYIGQERLKQKLRVYLEAAKARKEPLEHLLLFGPPGLGKTTLAHVIAHEL 62
>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 = 43.5 bits (101), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 22/56 (39%), Positives = 30/56 (53%), Gaps = 5/56 (8%)
Query: 40 RPKTIDDVIEQQEVVSVLKKCLSGAD-----LPHFLFYGPPGTGKTSTMIAACHQL 90
RPKT+D+ I Q+ + L+ L A L H L +GPPG GKT+ H+L
Sbjct: 7 RPKTLDEYIGQERLKQKLRVYLEAAKARKEPLEHLLLFGPPGLGKTTLAHVIAHEL 62
>pdb|1J7K|A Chain A, Thermotoga Maritima Ruvb P216g Mutant
Length = 334
Score = 38.5 bits (88), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 21/51 (41%), Positives = 27/51 (52%), Gaps = 5/51 (9%)
Query: 36 VEKYRPKTIDDVIEQQEVVSVLKKCLSGAD-----LPHFLFYGPPGTGKTS 81
V+ RPK++D+ I Q+ V L L A L H L GPPG GKT+
Sbjct: 16 VQFLRPKSLDEFIGQENVKKKLSLALEAAKMRGEVLDHVLLAGPPGLGKTT 66
>pdb|1IN7|A Chain A, Thermotoga Maritima Ruvb R170a
Length = 334
Score = 38.5 bits (88), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 21/51 (41%), Positives = 27/51 (52%), Gaps = 5/51 (9%)
Query: 36 VEKYRPKTIDDVIEQQEVVSVLKKCLSGAD-----LPHFLFYGPPGTGKTS 81
V+ RPK++D+ I Q+ V L L A L H L GPPG GKT+
Sbjct: 16 VQFLRPKSLDEFIGQENVKKKLSLALEAAKMRGEVLDHVLLAGPPGLGKTT 66
>pdb|1IN8|A Chain A, Thermotoga Maritima Ruvb T158v
Length = 334
Score = 38.5 bits (88), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 21/51 (41%), Positives = 27/51 (52%), Gaps = 5/51 (9%)
Query: 36 VEKYRPKTIDDVIEQQEVVSVLKKCLSGAD-----LPHFLFYGPPGTGKTS 81
V+ RPK++D+ I Q+ V L L A L H L GPPG GKT+
Sbjct: 16 VQFLRPKSLDEFIGQENVKKKLSLALEAAKMRGEVLDHVLLAGPPGLGKTT 66
>pdb|1IN4|A Chain A, Thermotoga Maritima Ruvb Holliday Junction Branch
Migration Motor
Length = 334
Score = 38.5 bits (88), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 21/51 (41%), Positives = 27/51 (52%), Gaps = 5/51 (9%)
Query: 36 VEKYRPKTIDDVIEQQEVVSVLKKCLSGAD-----LPHFLFYGPPGTGKTS 81
V+ RPK++D+ I Q+ V L L A L H L GPPG GKT+
Sbjct: 16 VQFLRPKSLDEFIGQENVKKKLSLALEAAKMRGEVLDHVLLAGPPGLGKTT 66
>pdb|1IN5|A Chain A, Thermogota Maritima Ruvb A156s Mutant
Length = 334
Score = 38.5 bits (88), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 21/51 (41%), Positives = 27/51 (52%), Gaps = 5/51 (9%)
Query: 36 VEKYRPKTIDDVIEQQEVVSVLKKCLSGAD-----LPHFLFYGPPGTGKTS 81
V+ RPK++D+ I Q+ V L L A L H L GPPG GKT+
Sbjct: 16 VQFLRPKSLDEFIGQENVKKKLSLALEAAKMRGEVLDHVLLAGPPGLGKTT 66
>pdb|1IN6|A Chain A, Thermotoga Maritima Ruvb K64r Mutant
Length = 334
Score = 37.7 bits (86), Expect = 0.010, Method: Compositional matrix adjust.
Identities = 20/51 (39%), Positives = 27/51 (52%), Gaps = 5/51 (9%)
Query: 36 VEKYRPKTIDDVIEQQEVVSVLKKCLSGAD-----LPHFLFYGPPGTGKTS 81
V+ RPK++D+ I Q+ V L L A L H L GPPG G+T+
Sbjct: 16 VQFLRPKSLDEFIGQENVKKKLSLALEAAKMRGEVLDHVLLAGPPGLGRTT 66
>pdb|4FXK|B Chain B, Human Complement C4
Length = 767
Score = 33.1 bits (74), Expect = 0.25, Method: Compositional matrix adjust.
Identities = 16/55 (29%), Positives = 29/55 (52%), Gaps = 7/55 (12%)
Query: 232 MRRAITCLQSCARLKGGEGIVNEDVLEVTGVIPNPWIEKLLKVDSFQVLEKYIED 286
++RA+ LQ E +++ED + V P W+ ++ VD FQ+L ++ D
Sbjct: 75 LQRALEILQE-------EDLIDEDDIPVRSFFPENWLWRVETVDRFQILTLWLPD 122
>pdb|4FXG|B Chain B, Complement C4 In Complex With Masp-2
pdb|4FXG|E Chain E, Complement C4 In Complex With Masp-2
Length = 767
Score = 33.1 bits (74), Expect = 0.25, Method: Compositional matrix adjust.
Identities = 16/55 (29%), Positives = 29/55 (52%), Gaps = 7/55 (12%)
Query: 232 MRRAITCLQSCARLKGGEGIVNEDVLEVTGVIPNPWIEKLLKVDSFQVLEKYIED 286
++RA+ LQ E +++ED + V P W+ ++ VD FQ+L ++ D
Sbjct: 75 LQRALEILQE-------EDLIDEDDIPVRSFFPENWLWRVETVDRFQILTLWLPD 122
>pdb|3PFI|A Chain A, 2.7 Angstrom Resolution Crystal Structure Of A Probable
Holliday Junction Dna Helicase (Ruvb) From
Campylobacter Jejuni Subsp. Jejuni Nctc 11168 In
Complex With Adenosine-5'-Diphosphate
pdb|3PFI|B Chain B, 2.7 Angstrom Resolution Crystal Structure Of A Probable
Holliday Junction Dna Helicase (Ruvb) From
Campylobacter Jejuni Subsp. Jejuni Nctc 11168 In
Complex With Adenosine-5'-Diphosphate
Length = 338
Score = 32.3 bits (72), Expect = 0.38, Method: Compositional matrix adjust.
Identities = 17/47 (36%), Positives = 22/47 (46%), Gaps = 5/47 (10%)
Query: 40 RPKTIDDVIEQQEVVSVLKKCLSGAD-----LPHFLFYGPPGTGKTS 81
RP D I Q+ + L ++ A L H LF GP G GKT+
Sbjct: 24 RPSNFDGYIGQESIKKNLNVFIAAAKKRNECLDHILFSGPAGLGKTT 70
>pdb|3PXI|A Chain A, Structure Of Meca108:clpc
pdb|3PXI|B Chain B, Structure Of Meca108:clpc
pdb|3PXI|C Chain C, Structure Of Meca108:clpc
Length = 758
Score = 32.0 bits (71), Expect = 0.50, Method: Compositional matrix adjust.
Identities = 12/25 (48%), Positives = 14/25 (56%)
Query: 69 FLFYGPPGTGKTSTMIAACHQLFGD 93
F+F GP G GKT A +FGD
Sbjct: 524 FIFLGPTGVGKTELARALAESIFGD 548
>pdb|3M6A|A Chain A, Crystal Structure Of Bacillus Subtilis Lon C-Terminal
Domain
pdb|3M6A|B Chain B, Crystal Structure Of Bacillus Subtilis Lon C-Terminal
Domain
pdb|3M6A|C Chain C, Crystal Structure Of Bacillus Subtilis Lon C-Terminal
Domain
pdb|3M6A|D Chain D, Crystal Structure Of Bacillus Subtilis Lon C-Terminal
Domain
pdb|3M6A|E Chain E, Crystal Structure Of Bacillus Subtilis Lon C-Terminal
Domain
pdb|3M6A|F Chain F, Crystal Structure Of Bacillus Subtilis Lon C-Terminal
Domain
Length = 543
Score = 32.0 bits (71), Expect = 0.55, Method: Compositional matrix adjust.
Identities = 31/98 (31%), Positives = 41/98 (41%), Gaps = 9/98 (9%)
Query: 54 VSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILEL-NASDDRGIQV 112
V L K L G P GPPG GKTS + L R + + + S+ RG +
Sbjct: 99 VQKLTKSLKG---PILCLAGPPGVGKTSLAKSIAKSLGRKFVRISLGGVRDESEIRGHR- 154
Query: 113 IRDKVKTFAQQTASGFNQDGKPCPPFKIVILDEADSMT 150
R V + G + GK P F +LDE D M+
Sbjct: 155 -RTYVGAMPGRIIQGMKKAGKLNPVF---LLDEIDKMS 188
>pdb|3K1J|A Chain A, Crystal Structure Of Lon Protease From Thermococcus
Onnurineus Na1
pdb|3K1J|B Chain B, Crystal Structure Of Lon Protease From Thermococcus
Onnurineus Na1
Length = 604
Score = 32.0 bits (71), Expect = 0.56, Method: Compositional matrix adjust.
Identities = 17/39 (43%), Positives = 21/39 (53%), Gaps = 2/39 (5%)
Query: 42 KTIDDVIEQQEVVSVLKKCLSGADLPHFLFYGPPGTGKT 80
K ID VI Q+ V V+K + H L G PGTGK+
Sbjct: 38 KLIDQVIGQEHAVEVIKTAANQKR--HVLLIGEPGTGKS 74
>pdb|2XZL|A Chain A, Upf1-Rna Complex
Length = 802
Score = 32.0 bits (71), Expect = 0.57, Method: Compositional matrix adjust.
Identities = 21/64 (32%), Positives = 31/64 (48%), Gaps = 12/64 (18%)
Query: 67 PHFLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASD-----------DRGIQVIRD 115
P L GPPGTGKT T + L ++++RIL S+ D G++V+R
Sbjct: 376 PLSLIQGPPGTGKTVTSATIVYHL-SKIHKDRILVCAPSNVAVDHLAAKLRDLGLKVVRL 434
Query: 116 KVKT 119
K+
Sbjct: 435 TAKS 438
>pdb|4B4T|J Chain J, Near-Atomic Resolution Structural Model Of The Yeast 26s
Proteasome
Length = 405
Score = 31.2 bits (69), Expect = 0.83, Method: Compositional matrix adjust.
Identities = 19/48 (39%), Positives = 22/48 (45%)
Query: 42 KTIDDVIEQQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQ 89
K I +VIE L + L A + YGPPGTGKT A H
Sbjct: 158 KEIKEVIELPVKHPELFESLGIAQPKGVILYGPPGTGKTLLARAVAHH 205
>pdb|2R62|A Chain A, Crystal Structure Of Helicobacter Pylori Atp Dependent
Protease, Ftsh
pdb|2R62|B Chain B, Crystal Structure Of Helicobacter Pylori Atp Dependent
Protease, Ftsh
pdb|2R65|A Chain A, Crystal Structure Of Helicobacter Pylori Atp Dependent
Protease, Ftsh Adp Complex
pdb|2R65|B Chain B, Crystal Structure Of Helicobacter Pylori Atp Dependent
Protease, Ftsh Adp Complex
pdb|2R65|C Chain C, Crystal Structure Of Helicobacter Pylori Atp Dependent
Protease, Ftsh Adp Complex
pdb|2R65|D Chain D, Crystal Structure Of Helicobacter Pylori Atp Dependent
Protease, Ftsh Adp Complex
pdb|2R65|E Chain E, Crystal Structure Of Helicobacter Pylori Atp Dependent
Protease, Ftsh Adp Complex
Length = 268
Score = 31.2 bits (69), Expect = 0.84, Method: Compositional matrix adjust.
Identities = 30/108 (27%), Positives = 44/108 (40%), Gaps = 21/108 (19%)
Query: 63 GADLPH-FLFYGPPGTGKT---STMIAACHQLFGDMYRERILELNASDDRGIQVIRDKVK 118
GA +P L GPPGTGKT + H F M +E+ G +RD +
Sbjct: 40 GAKIPKGVLLVGPPGTGKTLLAKAVAGEAHVPFFSMGGSSFIEMFVG--LGASRVRDLFE 97
Query: 119 TFAQQTASGFNQDGKPCPPFKIVILDEADSM--THAAQAALRRTMEKE 164
T +Q S I+ +DE D++ + AA + E+E
Sbjct: 98 TAKKQAPS-------------IIFIDEIDAIGKSRAAGGVVSGNDERE 132
>pdb|4B4T|K Chain K, Near-Atomic Resolution Structural Model Of The Yeast 26s
Proteasome
Length = 428
Score = 31.2 bits (69), Expect = 0.89, Method: Compositional matrix adjust.
Identities = 28/94 (29%), Positives = 40/94 (42%), Gaps = 25/94 (26%)
Query: 63 GADLPH-FLFYGPPGTGKTSTMIAACHQLFGDMYRERILELNASD------DRGIQVIRD 115
G D P L YGPPGTGKT + A + R +N S+ G +++RD
Sbjct: 202 GIDPPRGVLLYGPPGTGKTMLVKAVANSTKAAFIR-----VNGSEFVHKYLGEGPRMVRD 256
Query: 116 KVKTFAQQTASGFNQDGKPCPPFKIVILDEADSM 149
V A++ A I+ +DE DS+
Sbjct: 257 -VFRLARENAPS------------IIFIDEVDSI 277
>pdb|2L4D|A Chain A, Cytochrome C Domain Of Pp3183 Protein From Pseudomonas
Putida
Length = 110
Score = 30.8 bits (68), Expect = 1.3, Method: Composition-based stats.
Identities = 29/106 (27%), Positives = 48/106 (45%), Gaps = 9/106 (8%)
Query: 227 TSGGDM-RRAITCLQSCARLKGGEGIVNEDVLEVTGVIPNPWIEKLLKVDSFQVLEKYIE 285
TSG + R + + + G+ + D+L VT W+ + LKV + EK
Sbjct: 4 TSGEQIFRTRCSSCHTVGNTEPGQPGIGPDLLGVTRQRDANWLVRWLKVPDQMLAEK--- 60
Query: 286 DLILEAYSATQLFDQFHDIVMSASSLSDKQKALILEKLAECNARLQ 331
D + A LF+Q++ + M L D + + ++ L E ARLQ
Sbjct: 61 DPL-----AMLLFEQYNRLAMPNMRLGDAEVSALISYLEEETARLQ 101
>pdb|3BFN|A Chain A, Crystal Structure Of The Motor Domain Of Human Kinesin
Family Member 22
Length = 388
Score = 30.8 bits (68), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 17/51 (33%), Positives = 24/51 (47%), Gaps = 1/51 (1%)
Query: 39 YRPKTIDDVIEQQEVVSVLKKCLSGADLPHFLFYGPPGTGKTSTMIAACHQ 89
Y ++ I V +L+ L G + L YGP G GKT TM+ + Q
Sbjct: 73 YGERSTQQDIYAGSVQPILRHLLEGQNA-SVLAYGPTGAGKTHTMLGSPEQ 122
>pdb|4B3G|A Chain A, Crystal Structure Of Ighmbp2 Helicase In Complex With Rna
pdb|4B3G|B Chain B, Crystal Structure Of Ighmbp2 Helicase In Complex With Rna
Length = 646
Score = 29.6 bits (65), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 9/15 (60%), Positives = 14/15 (93%)
Query: 70 LFYGPPGTGKTSTMI 84
+ +GPPGTGKT+T++
Sbjct: 209 IIHGPPGTGKTTTVV 223
>pdb|4B3F|X Chain X, Crystal Structure Of 1ghmbp2 Helicase
Length = 646
Score = 29.6 bits (65), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 9/15 (60%), Positives = 14/15 (93%)
Query: 70 LFYGPPGTGKTSTMI 84
+ +GPPGTGKT+T++
Sbjct: 209 IIHGPPGTGKTTTVV 223
>pdb|4AI6|A Chain A, Dynein Motor Domain - Adp Complex
pdb|4AI6|B Chain B, Dynein Motor Domain - Adp Complex
pdb|4AKG|A Chain A, Dynein Motor Domain - Atp Complex
pdb|4AKG|B Chain B, Dynein Motor Domain - Atp Complex
pdb|4AKH|A Chain A, Dynein Motor Domain - Amppnp Complex
pdb|4AKH|B Chain B, Dynein Motor Domain - Amppnp Complex
pdb|4AKI|A Chain A, Dynein Motor Domain - Luac Derivative
pdb|4AKI|B Chain B, Dynein Motor Domain - Luac Derivative
Length = 2695
Score = 29.6 bits (65), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 19/57 (33%), Positives = 25/57 (43%), Gaps = 5/57 (8%)
Query: 71 FYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRDKVKTFAQQTASG 127
F+GP GTGKT T+ A FG ++ N D QV+ + Q A G
Sbjct: 650 FFGPAGTGKTETVKA-----FGQNLGRVVVVFNCDDSFDYQVLSRLLVGITQIGAWG 701
>pdb|3QMZ|A Chain A, Crystal Structure Of The Cytoplasmic Dynein Heavy Chain
Motor Domain
pdb|3QMZ|B Chain B, Crystal Structure Of The Cytoplasmic Dynein Heavy Chain
Motor Domain
Length = 2486
Score = 29.6 bits (65), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 19/57 (33%), Positives = 25/57 (43%), Gaps = 5/57 (8%)
Query: 71 FYGPPGTGKTSTMIAACHQLFGDMYRERILELNASDDRGIQVIRDKVKTFAQQTASG 127
F+GP GTGKT T+ A FG ++ N D QV+ + Q A G
Sbjct: 431 FFGPAGTGKTETVKA-----FGQNLGRVVVVFNCDDSFDYQVLSRLLVGITQIGAWG 482
>pdb|2PBF|A Chain A, Crystal Structure Of A Putative Protein-L-Isoaspartate O-
Methyltransferase Beta-Aspartate Methyltransferase
(Pcmt) From Plasmodium Falciparum In Complex With
S-Adenosyl-L-Homocysteine
pdb|2PBF|B Chain B, Crystal Structure Of A Putative Protein-L-Isoaspartate O-
Methyltransferase Beta-Aspartate Methyltransferase
(Pcmt) From Plasmodium Falciparum In Complex With
S-Adenosyl-L-Homocysteine
Length = 227
Score = 29.6 bits (65), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 22/72 (30%), Positives = 38/72 (52%), Gaps = 5/72 (6%)
Query: 270 KLLKVDSFQVLEKYIEDLILEAYSATQLFDQFHDIVMSASSLSDKQKALILEKLAECNAR 329
+LLK+D+F+++ K I + E LFD H + SAS L + ++++ LAE
Sbjct: 135 ELLKIDNFKIIHKNIYQVNEEEKKELGLFDAIH-VGASASELPE----ILVDLLAENGKL 189
Query: 330 LQDGASEYIQIL 341
+ +Y Q+L
Sbjct: 190 IIPIEEDYTQVL 201
Database: pdbaa
Posted date: Mar 3, 2013 10:34 PM
Number of letters in database: 14,973,337
Number of sequences in database: 62,578
Lambda K H
0.320 0.135 0.395
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 9,705,962
Number of Sequences: 62578
Number of extensions: 385162
Number of successful extensions: 1276
Number of sequences better than 100.0: 45
Number of HSP's better than 100.0 without gapping: 24
Number of HSP's successfully gapped in prelim test: 21
Number of HSP's that attempted gapping in prelim test: 1226
Number of HSP's gapped (non-prelim): 48
length of query: 355
length of database: 14,973,337
effective HSP length: 100
effective length of query: 255
effective length of database: 8,715,537
effective search space: 2222461935
effective search space used: 2222461935
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 52 (24.6 bits)