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= 021660
(309 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>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 = 278 bits (711), Expect = 3e-75, Method: Compositional matrix adjust.
Identities = 134/272 (49%), Positives = 187/272 (68%), Gaps = 10/272 (3%)
Query: 42 PWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGA 101
PWVEKYRP++L +V +++ T+ + E +LPHLL YGPPGTGKTSTI+A+AR++YG
Sbjct: 14 PWVEKYRPETLDEVYGQNEVITTVRKFVDEGKLPHLLFYGPPGTGKTSTIVALAREIYGK 73
Query: 102 QYHNMILELNASDDRGIDVVRQQIQDFAST-QSFSFGVKASVKLVLLDEADAMTKDAQFA 160
Y NM+LELNASDDRGIDVVR QI+DFAST Q FS G KL++LDEADAMT AQ A
Sbjct: 74 NYSNMVLELNASDDRGIDVVRNQIKDFASTRQIFSKG----FKLIILDEADAMTNAAQNA 129
Query: 161 LRRVIEKYTKNTRFALICNQVNKIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDV 220
LRRVIE+YTKNTRF ++ N +K+ PAL S+CTRFRF PL + R+ +V+ E L +
Sbjct: 130 LRRVIERYTKNTRFCVLANYAHKLTPALLSQCTRFRFQPLPQEAIERRIANVLVHEKLKL 189
Query: 221 TEGGLAALVRLCNGDMRKALNILQSTHMA-----SQQITEEAVYLCTGNPLPKDIEQISY 275
+ AL+ L NGDMR+ LN+LQS +I+++ +Y C G P P D++ +
Sbjct: 190 SPNAEKALIELSNGDMRRVLNVLQSCKATLDNPDEDEISDDVIYECCGAPRPSDLKAVLK 249
Query: 276 WLLNESFADSFKRISEMKMRKGLALVDIVREV 307
+L + + + +++++ KGLAL+D++ +
Sbjct: 250 SILEDDWGTAHYTLNKVRSAKGLALIDLIEGI 281
>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 = 244 bits (623), Expect = 4e-65, Method: Compositional matrix adjust.
Identities = 114/263 (43%), Positives = 174/263 (66%), Gaps = 3/263 (1%)
Query: 42 PWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGA 101
PWVEKYRPQ L D+ IV + +PHLL GPPG GKT+ LA+AR+L+G
Sbjct: 14 PWVEKYRPQRLDDIVGQEHIVKRLKHYVKTGSMPHLLFAGPPGVGKTTAALALARELFGE 73
Query: 102 QYHNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFAL 161
+ + LELNASD+RGI+V+R+++++FA T+ AS K++ LDEADA+T+DAQ AL
Sbjct: 74 NWRHNFLELNASDERGINVIREKVKEFARTKPIG---GASFKIIFLDEADALTQDAQQAL 130
Query: 162 RRVIEKYTKNTRFALICNQVNKIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDVT 221
RR +E ++ N RF L CN +KII +QSRC FRF PL + +RL+++ E EGL++T
Sbjct: 131 RRTMEMFSSNVRFILSCNYSSKIIEPIQSRCAIFRFRPLRDEDIAKRLRYIAENEGLELT 190
Query: 222 EGGLAALVRLCNGDMRKALNILQSTHMASQQITEEAVYLCTGNPLPKDIEQISYWLLNES 281
E GL A++ + GDMR+A+NILQ+ ++IT+E V++ P+DI ++ L +
Sbjct: 191 EEGLQAILYIAEGDMRRAINILQAAAALDKKITDENVFMVASRARPEDIREMMLLALKGN 250
Query: 282 FADSFKRISEMKMRKGLALVDIV 304
F + +++ E+ +++GL+ D++
Sbjct: 251 FLKAREKLREILLKQGLSGEDVL 273
>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 = 220 bits (561), Expect = 7e-58, Method: Compositional matrix adjust.
Identities = 106/265 (40%), Positives = 164/265 (61%), Gaps = 3/265 (1%)
Query: 43 WVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQ 102
WVEKYRP++L +V +++ + +PHLL GPPGTGKT+T +A+AR L+G
Sbjct: 7 WVEKYRPRTLDEVVGQDEVIQRLKGYVERKNIPHLLFSGPPGTGKTATAIALARDLFGEN 66
Query: 103 YHNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALR 162
+ + +E+NASD+RGIDVVR +I++FA T A K++ LDEADA+T DAQ ALR
Sbjct: 67 WRDNFIEMNASDERGIDVVRHKIKEFARTAPIG---GAPFKIIFLDEADALTADAQAALR 123
Query: 163 RVIEKYTKNTRFALICNQVNKIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDVTE 222
R +E Y+K+ RF L CN V++II +QSRC FRF P+ + +RL + E EG+ +TE
Sbjct: 124 RTMEMYSKSCRFILSCNYVSRIIEPIQSRCAVFRFKPVPKEAMKKRLLEICEKEGVKITE 183
Query: 223 GGLAALVRLCNGDMRKALNILQSTHMASQQITEEAVYLCTGNPLPKDIEQISYWLLNESF 282
GL AL+ + GD RKA+N LQ + + + +Y T P+++ ++ L +F
Sbjct: 184 DGLEALIYISGGDFRKAINALQGAAAIGEVVDADTIYQITATARPEEMTELIQTALKGNF 243
Query: 283 ADSFKRISEMKMRKGLALVDIVREV 307
++ + + + + G++ DIV ++
Sbjct: 244 MEARELLDRLMVEYGMSGEDIVAQL 268
>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 = 210 bits (535), Expect = 7e-55, Method: Compositional matrix adjust.
Identities = 99/222 (44%), Positives = 141/222 (63%), Gaps = 3/222 (1%)
Query: 43 WVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQ 102
WVEKYRP++L +V +++ + +PHLL GPPGTGKT+T +A+AR L+G
Sbjct: 7 WVEKYRPRTLDEVVGQDEVIQRLKGYVERKNIPHLLFSGPPGTGKTATAIALARDLFGEN 66
Query: 103 YHNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALR 162
+ + +E+NASD+RGIDVVR +I++FA T A K++ LDEADA+T DAQ ALR
Sbjct: 67 WRDNFIEMNASDERGIDVVRHKIKEFARTAPIG---GAPFKIIFLDEADALTADAQAALR 123
Query: 163 RVIEKYTKNTRFALICNQVNKIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDVTE 222
R +E Y+K+ RF L CN V++II +QSRC FRF P+ + +RL + E EG+ +TE
Sbjct: 124 RTMEMYSKSCRFILSCNYVSRIIEPIQSRCAVFRFKPVPKEAMKKRLLEICEKEGVKITE 183
Query: 223 GGLAALVRLCNGDMRKALNILQSTHMASQQITEEAVYLCTGN 264
GL AL+ + GD RKA+N LQ + + + +Y T
Sbjct: 184 DGLEALIYISGGDFRKAINALQGAAAIGEVVDADTIYQITAT 225
>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 = 208 bits (530), Expect = 3e-54, Method: Compositional matrix adjust.
Identities = 109/263 (41%), Positives = 163/263 (61%), Gaps = 5/263 (1%)
Query: 42 PWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGA 101
PWVEKYRPQ L+D+ +++ +D + ++ + +PH+++ G PG GKT+++ +A +L G
Sbjct: 10 PWVEKYRPQVLSDIVGNKETIDRLQQIAKDGNMPHMIISGMPGIGKTTSVHCLAHELLGR 69
Query: 102 QYHNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFAL 161
Y + +LELNASDDRGIDVVR QI+ FA + K K+V+LDEAD+MT AQ AL
Sbjct: 70 SYADGVLELNASDDRGIDVVRNQIKHFAQKKLHLPPGKH--KIVILDEADSMTAGAQQAL 127
Query: 162 RRVIEKYTKNTRFALICNQVNKIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDVT 221
RR +E Y+ +TRFA CNQ NKII LQS+C R++ L V +RL +I+ E + T
Sbjct: 128 RRTMELYSNSTRFAFACNQSNKIIEPLQSQCAILRYSKLSDEDVLKRLLQIIKLEDVKYT 187
Query: 222 EGGLAALVRLCNGDMRKALNILQSTHMASQQITEEAVYLCTGNPLPKDIEQISYWLLNES 281
GL A++ GDMR+A+N LQST + + V+ +P P ++++ LL +
Sbjct: 188 NDGLEAIIFTAEGDMRQAINNLQSTVAGHGLVNADNVFKIVDSPHPLIVKKM---LLASN 244
Query: 282 FADSFKRISEMKMRKGLALVDIV 304
DS + + +KG + +DIV
Sbjct: 245 LEDSIQILRTDLWKKGYSSIDIV 267
>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 = 193 bits (491), Expect = 1e-49, Method: Compositional matrix adjust.
Identities = 96/220 (43%), Positives = 139/220 (63%), Gaps = 8/220 (3%)
Query: 42 PWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGA 101
PWVEKYRP++L +V A V + + LPH+L YGPPGTGKTSTILA+ ++LYG
Sbjct: 26 PWVEKYRPKNLDEVTAQDHAVTVLKKTLKSANLPHMLFYGPPGTGKTSTILALTKELYGP 85
Query: 102 Q-YHNMILELNASDDRGIDVVRQQIQDFA-------STQSFSFGVKASVKLVLLDEADAM 153
+ ILELNASD+RGI +VR+++++FA S K+++LDEAD+M
Sbjct: 86 DLMKSRILELNASDERGISIVREKVKNFARLTVSKPSKHDLENYPCPPYKIIILDEADSM 145
Query: 154 TKDAQFALRRVIEKYTKNTRFALICNQVNKIIPALQSRCTRFRFAPLEPVHVTERLKHVI 213
T DAQ ALRR +E Y+ TRF LICN V +II L S+C++FRF L+ + +RL+ +
Sbjct: 146 TADAQSALRRTMETYSGVTRFCLICNYVTRIIDPLASQCSKFRFKALDASNAIDRLRFIS 205
Query: 214 EAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMASQQI 253
E E + +G L ++ + GD+R+ + +LQS +Q +
Sbjct: 206 EQENVKCDDGVLERILDISAGDLRRGITLLQSASKGAQYL 245
>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 = 115 bits (287), Expect = 4e-26, Method: Compositional matrix adjust.
Identities = 73/247 (29%), Positives = 131/247 (53%), Gaps = 39/247 (15%)
Query: 41 SPWVEKYRPQSLADVAAHRDIVDTIDRLTSENR-LPHLLLYGPPGTGKTSTILAVARKLY 99
S WV+KYRP+SL ++ + ++ + + L+ + R LPHLLLYGP GTGK + +A+ ++
Sbjct: 2 SLWVDKYRPKSLNALSHNEELTNFLKSLSDQPRDLPHLLLYGPNGTGKKTRCMALLESIF 61
Query: 100 G---------------------------AQYHNMILELNASDDRGID--VVRQQIQDFAS 130
G + YH LE+ SD D V+++ +++ A
Sbjct: 62 GPGVYRLKIDVRQFVTASNRKLELNVVSSPYH---LEITPSDMGNNDRIVIQELLKEVAQ 118
Query: 131 TQSFSF-----GVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVNKII 185
+ F G+ K V+++EA+++TKDAQ ALRR +EKY+KN R ++C+ ++ II
Sbjct: 119 MEQVDFQDSKDGLAHRYKCVIINEANSLTKDAQAALRRTMEKYSKNIRLIMVCDSMSPII 178
Query: 186 PALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDV-TEGGLAALVRLCNGDMRKALNILQ 244
++S+C R ++ L V+ E + + T+ L + + NG++R +L +L+
Sbjct: 179 APIKSQCLLIRCPAPSDSEISTILSDVVTNERIQLETKDILKRIAQASNGNLRVSLLMLE 238
Query: 245 STHMASQ 251
S + ++
Sbjct: 239 SMALNNE 245
>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 = 84.3 bits (207), Expect = 8e-17, Method: Compositional matrix adjust.
Identities = 66/213 (30%), Positives = 108/213 (50%), Gaps = 24/213 (11%)
Query: 45 EKYRPQSLADVAAHRDIVDTIDRLTSENRLPHLLLYGP-PGTGKTSTILAVARKLYGAQY 103
+KYRP ++ + +T +TS+ ++PH++L+ P PGTGKT+ VA+ L
Sbjct: 18 QKYRPSTIDECILPAFDKETFKSITSKGKIPHIILHSPSPGTGKTT----VAKALCHDVN 73
Query: 104 HNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEAD-AMTKDAQFALR 162
+M+ +N SD + ID VR + +FAS SF K++++DE D + ++Q LR
Sbjct: 74 ADMMF-VNGSDCK-IDFVRGPLTNFASAASFD----GRQKVIVIDEFDRSGLAESQRHLR 127
Query: 163 RVIEKYTKNTRFALICNQVNKIIPALQSRCTRFRFAPLEPV---------HVTERLKHVI 213
+E Y+ N + N ++ II LQSRC F +P + RL +
Sbjct: 128 SFMEAYSSNCSIIITANNIDGIIKPLQSRCRVITFG--QPTDEDKIEMMKQMIRRLTEIC 185
Query: 214 EAEGLDVTEGG-LAALVRLCNGDMRKALNILQS 245
+ EG+ + + +AALV+ D RK + L S
Sbjct: 186 KHEGIAIADMKVVAALVKKNFPDFRKTIGELDS 218
>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 = 63.2 bits (152), Expect = 2e-10, Method: Compositional matrix adjust.
Identities = 57/261 (21%), Positives = 111/261 (42%), Gaps = 30/261 (11%)
Query: 26 GKNVIVSGTPPDIKASPWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPHLLLY-GPPG 84
G V+ G P + K+RPQ+ ADV ++ + S R+ H L+ G G
Sbjct: 13 GLEVLFQG--PHMSYQVLARKWRPQTFADVVGQEHVLTALANGLSLGRIHHAYLFSGTRG 70
Query: 85 TGKTSTILAVA--------------------RKLYGAQYHNMILELNASDDRGIDVVRQQ 124
GKTS +A R++ ++ ++I E++A+ ++ R
Sbjct: 71 VGKTSIARLLAKGLNCETGITATPCGVCDNCREIEQGRFVDLI-EIDAASRTKVEDTRDL 129
Query: 125 IQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVNKI 184
+ + + + K+ L+DE +++ + AL + +E+ ++ +F L K+
Sbjct: 130 LDNVQYAPA-----RGRFKVYLIDEVHMLSRHSFNALLKTLEEPPEHVKFLLATTDPQKL 184
Query: 185 IPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNIL- 243
+ SRC +F L+ + +L+H++ E + L L R G +R AL++
Sbjct: 185 PVTILSRCLQFHLKALDVEQIRHQLEHILNEEHIAHEPRALQLLARAAEGSLRDALSLTD 244
Query: 244 QSTHMASQQITEEAVYLCTGN 264
Q+ Q++ +AV G
Sbjct: 245 QAIASGDGQVSTQAVSAMLGT 265
>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 = 62.8 bits (151), Expect = 2e-10, Method: Compositional matrix adjust.
Identities = 57/261 (21%), Positives = 111/261 (42%), Gaps = 30/261 (11%)
Query: 26 GKNVIVSGTPPDIKASPWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPHLLLY-GPPG 84
G V+ G P + K+RPQ+ ADV ++ + S R+ H L+ G G
Sbjct: 13 GLEVLFQG--PHMSYQVLARKWRPQTFADVVGQEHVLTALANGLSLGRIHHAYLFSGTRG 70
Query: 85 TGKTSTILAVA--------------------RKLYGAQYHNMILELNASDDRGIDVVRQQ 124
GKTS +A R++ ++ ++I E++A+ ++ R
Sbjct: 71 VGKTSIARLLAKGLNCETGITATPCGVCDNCREIEQGRFVDLI-EIDAASRTKVEDTRDL 129
Query: 125 IQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVNKI 184
+ + + + K+ L+DE +++ + AL + +E+ ++ +F L K+
Sbjct: 130 LDNVQYAPA-----RGRFKVYLIDEVHMLSRHSFNALLKTLEEPPEHVKFLLATADPQKL 184
Query: 185 IPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNIL- 243
+ SRC +F L+ + +L+H++ E + L L R G +R AL++
Sbjct: 185 PVTILSRCLQFHLKALDVEQIRHQLEHILNEEHIAHEPRALQLLARAAEGSLRDALSLTD 244
Query: 244 QSTHMASQQITEEAVYLCTGN 264
Q+ Q++ +AV G
Sbjct: 245 QAIASGDGQVSTQAVSAMLGT 265
>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 = 62.0 bits (149), Expect = 4e-10, Method: Compositional matrix adjust.
Identities = 54/251 (21%), Positives = 107/251 (42%), Gaps = 28/251 (11%)
Query: 36 PDIKASPWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPHLLLY-GPPGTGKTSTILAV 94
P + K+RPQ+ ADV ++ + S R+ H L+ G G GKTS +
Sbjct: 2 PHMSYQVLARKWRPQTFADVVGQEHVLTALANGLSLGRIHHAYLFSGTRGVGKTSIARLL 61
Query: 95 A--------------------RKLYGAQYHNMILELNASDDRGIDVVRQQIQDFASTQSF 134
A R++ ++ ++I E++A+ ++ R + + +
Sbjct: 62 AKGLNCETGITATPCGVCDNCREIEQGRFVDLI-EIDAASRTKVEDTRDLLDNVQYAPA- 119
Query: 135 SFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVNKIIPALQSRCTR 194
+ K+ L+DE +++ + AL + +E+ ++ +F L K+ + SRC +
Sbjct: 120 ----RGRFKVYLIDEVHMLSRHSFNALLKTLEEPPEHVKFLLATTDPQKLPVTILSRCLQ 175
Query: 195 FRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNIL-QSTHMASQQI 253
F L+ + +L+H++ E + L L R G +R AL++ Q+ Q+
Sbjct: 176 FHLKALDVEQIRHQLEHILNEEHIAHEPRALQLLARAAEGSLRDALSLTDQAIASGDGQV 235
Query: 254 TEEAVYLCTGN 264
+ +AV G
Sbjct: 236 STQAVSAMLGT 246
>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 = 61.2 bits (147), Expect = 6e-10, Method: Compositional matrix adjust.
Identities = 53/241 (21%), Positives = 105/241 (43%), Gaps = 28/241 (11%)
Query: 46 KYRPQSLADVAAHRDIVDTIDRLTSENRLPHLLLY-GPPGTGKTSTILAVA--------- 95
K+RPQ+ ADV ++ + S R+ H L+ G G GKTS +A
Sbjct: 9 KWRPQTFADVVGQEHVLTALANGLSLGRIHHAYLFSGTRGVGKTSIARLLAKGLNCETGI 68
Query: 96 -----------RKLYGAQYHNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKL 144
R++ ++ ++I E++A+ ++ R + + + + K+
Sbjct: 69 TATPCGVCDNCREIEQGRFVDLI-EIDAASRTKVEDTRDLLDNVQYAPA-----RGRFKV 122
Query: 145 VLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVNKIIPALQSRCTRFRFAPLEPVH 204
L+DE +++ + AL + +E+ ++ +F L K+ + SRC +F L+
Sbjct: 123 YLIDEVHMLSRHSFNALLKTLEEPPEHVKFLLATTDPQKLPVTILSRCLQFHLKALDVEQ 182
Query: 205 VTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNIL-QSTHMASQQITEEAVYLCTG 263
+ +L+H++ E + L L R G +R AL++ Q+ Q++ +AV G
Sbjct: 183 IRHQLEHILNEEHIAHEPRALQLLARAAEGSLRDALSLTDQAIASGDGQVSTQAVSAMLG 242
Query: 264 N 264
Sbjct: 243 T 243
>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 = 61.2 bits (147), Expect = 6e-10, Method: Compositional matrix adjust.
Identities = 53/241 (21%), Positives = 105/241 (43%), Gaps = 28/241 (11%)
Query: 46 KYRPQSLADVAAHRDIVDTIDRLTSENRLPHLLLY-GPPGTGKTSTILAVA--------- 95
K+RPQ+ ADV ++ + S R+ H L+ G G GKTS +A
Sbjct: 9 KWRPQTFADVVGQEHVLTALANGLSLGRIHHAYLFSGTRGVGKTSIARLLAKGLNCETGI 68
Query: 96 -----------RKLYGAQYHNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKL 144
R++ ++ ++I E++A+ ++ R + + + + K+
Sbjct: 69 TATPCGVCDNCREIEQGRFVDLI-EIDAASRTKVEDTRDLLDNVQYAPA-----RGRFKV 122
Query: 145 VLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVNKIIPALQSRCTRFRFAPLEPVH 204
L+DE +++ + AL + +E+ ++ +F L K+ + SRC +F L+
Sbjct: 123 YLIDEVHMLSRHSFNALLKTLEEPPEHVKFLLATTDPQKLPVTILSRCLQFHLKALDVEQ 182
Query: 205 VTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNIL-QSTHMASQQITEEAVYLCTG 263
+ +L+H++ E + L L R G +R AL++ Q+ Q++ +AV G
Sbjct: 183 IRHQLEHILNEEHIAHEPRALQLLARAAEGSLRDALSLTDQAIASGDGQVSTQAVSAMLG 242
Query: 264 N 264
Sbjct: 243 T 243
>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 = 60.1 bits (144), Expect = 2e-09, Method: Compositional matrix adjust.
Identities = 53/241 (21%), Positives = 105/241 (43%), Gaps = 28/241 (11%)
Query: 46 KYRPQSLADVAAHRDIVDTIDRLTSENRLPHLLLY-GPPGTGKTSTILAVA--------- 95
K+RPQ+ ADV ++ + S R+ H L+ G G GKTS +A
Sbjct: 16 KWRPQTFADVVGQEHVLTALANGLSLGRIHHAYLFSGTRGVGKTSIARLLAKGLNCETGI 75
Query: 96 -----------RKLYGAQYHNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKL 144
R++ ++ ++I E++A+ ++ R + + + + K+
Sbjct: 76 TATPCGVCDNCREIEQGRFVDLI-EIDAASRTKVEDTRDLLDNVQYAPA-----RGRFKV 129
Query: 145 VLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVNKIIPALQSRCTRFRFAPLEPVH 204
L+DE +++ + AL + +E+ ++ +F L K+ + SRC +F L+
Sbjct: 130 YLIDEVHMLSRHSFNALLKTLEEPPEHVKFLLATTDPQKLPVTILSRCLQFHLKALDVEQ 189
Query: 205 VTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNIL-QSTHMASQQITEEAVYLCTG 263
+ +L+H++ E + L L R G +R AL++ Q+ Q++ +AV G
Sbjct: 190 IRHQLEHILNEEHIAHEPRALQLLARAAEGSLRDALSLTDQAIASGDGQVSTQAVSAMLG 249
Query: 264 N 264
Sbjct: 250 T 250
>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 = 53.1 bits (126), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 56/230 (24%), Positives = 98/230 (42%), Gaps = 35/230 (15%)
Query: 43 WVEKYRPQSLADVAAHRDIVDTIDRL------TSENRLPHL-----------LLYGPPGT 85
W KY P +L V ++ V + + +N H +LYGPPG
Sbjct: 29 WTVKYAPTNLQQVCGNKGSVMKLKNWLANWENSKKNSFKHAGKDGSGVFRAAMLYGPPGI 88
Query: 86 GKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVK-- 143
GKT+ VA++L Y ILE NASD R ++ +++ S K + +
Sbjct: 89 GKTTAAHLVAQEL---GYD--ILEQNASDVRSKTLLNAGVKNALDNMSVVGYFKHNEEAQ 143
Query: 144 -------LVLLDEADAMTKDAQFALRRVIEKYTK-NTRFALICNQVN--KIIPALQSRCT 193
++++DE D M+ + + ++ + K +T LICN+ N K+ P C
Sbjct: 144 NLNGKHFVIIMDEVDGMSGGDRGGVGQLAQFCRKTSTPLILICNERNLPKMRP-FDRVCL 202
Query: 194 RFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNIL 243
+F + + RL + E + + L++ GD+R+ +N+L
Sbjct: 203 DIQFRRPDANSIKSRLMTIAIREKFKLDPNVIDRLIQTTRGDIRQVINLL 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 = 53.1 bits (126), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 55/213 (25%), Positives = 93/213 (43%), Gaps = 21/213 (9%)
Query: 42 PWVEKYRPQSLADVAAHRDIVDT---IDRLTSENRLPHLLLYGPPGTGKTSTILAVARKL 98
P + RP++LA + ++ + R L ++L+GPPGTGKT+ +AR
Sbjct: 15 PLAARMRPENLAQYIGQQHLLAAGKPLPRAIEAGHLHSMILWGPPGTGKTTLAEVIAR-- 72
Query: 99 YGAQYHNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQ 158
Y N +E ++ G+ +R+ I+ + Q+ + G + ++ +DE K Q
Sbjct: 73 ----YANADVERISAVTSGVKEIREAIER--ARQNRNAGRRT---ILFVDEVHRFNKSQQ 123
Query: 159 FALRRVIEKYTKNTRFALICNQVNKIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAE-- 216
A IE T A N ++ AL SR + L + + L +E +
Sbjct: 124 DAFLPHIEDGTITFIGATTENPSFELNSALLSRARVYLLKSLSTEDIEQVLTQAMEDKTR 183
Query: 217 ---GLDVT--EGGLAALVRLCNGDMRKALNILQ 244
G D+ + A+ L NGD R+ALN L+
Sbjct: 184 GYGGQDIVLPDETRRAIAELVNGDARRALNTLE 216
>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 = 37.4 bits (85), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 32/114 (28%), Positives = 50/114 (43%), Gaps = 30/114 (26%)
Query: 57 AHRDIVDTIDRLTSENRLPHL--------LLYGPPGTGKTSTILAVARKLY-------GA 101
A ++V+ +D L R +L LL GPPGTGKT AVA + + G+
Sbjct: 19 AKEEVVEIVDFLKYPERYANLGAKIPKGVLLVGPPGTGKTLLAKAVAGEAHVPFFSMGGS 78
Query: 102 QYHNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTK 155
+ M + L AS +++D F K + ++ +DE DA+ K
Sbjct: 79 SFIEMFVGLGAS----------RVRDL-----FETAKKQAPSIIFIDEIDAIGK 117
>pdb|2QBY|A Chain A, Crystal Structure Of A Heterodimer Of Cdc6ORC1 INITIATORS
Bound To Origin Dna (From S. Solfataricus)
Length = 386
Score = 36.2 bits (82), Expect = 0.022, Method: Compositional matrix adjust.
Identities = 61/262 (23%), Positives = 108/262 (41%), Gaps = 57/262 (21%)
Query: 49 PQSLADVAAHRD-----IVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLY---- 99
P + D HR+ I + L E + ++ +YG GTGKT+ + V KL+
Sbjct: 15 PDYIPDELPHREDQIRKIASILAPLYREEKPNNIFIYGLTGTGKTAVVKFVLSKLHKKFL 74
Query: 100 GAQYHNMILELNASDDRGIDVVRQQIQDFAST-------------QSFSFGVKA-----S 141
G H I + R ID + + D + + + VKA S
Sbjct: 75 GKFKHVYI------NTRQIDTPYRVLADLLESLDVKVPFTGLSIAELYRRLVKAVRDYGS 128
Query: 142 VKLVLLDEADAMTK----DAQFALRRVIEKYTKN-TRFALICNQV---NKIIPALQSRCT 193
+++LDE DA K D + L R+ + K+ F I N V + + P ++S +
Sbjct: 129 QVVIVLDEIDAFVKKYNDDILYKLSRINSEVNKSKISFIGITNDVKFVDLLDPRVKSSLS 188
Query: 194 RFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAA--LVRLC-------NGDMRKALNILQ 244
+ P + E L+ ++ + G+ +++LC +GD R+AL++L+
Sbjct: 189 EEEI--IFPPYNAEELEDILTKRAQMAFKPGVLPDNVIKLCAALAAREHGDARRALDLLR 246
Query: 245 -----STHMASQQITEEAVYLC 261
+ M ++ EE VY+
Sbjct: 247 VSGEIAERMKDTKVKEEYVYMA 268
>pdb|3H4M|A Chain A, Aaa Atpase Domain Of The Proteasome- Activating
Nucleotidase
pdb|3H4M|B Chain B, Aaa Atpase Domain Of The Proteasome- Activating
Nucleotidase
pdb|3H4M|C Chain C, Aaa Atpase Domain Of The Proteasome- Activating
Nucleotidase
Length = 285
Score = 36.2 bits (82), Expect = 0.023, Method: Compositional matrix adjust.
Identities = 28/82 (34%), Positives = 41/82 (50%), Gaps = 16/82 (19%)
Query: 77 LLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDR--GIDVVRQQIQDFAS--TQ 132
+LLYGPPGTGKT AVA E NA+ R G ++V++ I + AS
Sbjct: 54 ILLYGPPGTGKTLLAKAVA------------TETNATFIRVVGSELVKKFIGEGASLVKD 101
Query: 133 SFSFGVKASVKLVLLDEADAMT 154
F + + ++ +DE DA+
Sbjct: 102 IFKLAKEKAPSIIFIDEIDAIA 123
>pdb|2RKO|A Chain A, Crystal Structure Of The Vps4p-Dimer
Length = 331
Score = 35.8 bits (81), Expect = 0.032, Method: Compositional matrix adjust.
Identities = 26/87 (29%), Positives = 44/87 (50%), Gaps = 14/87 (16%)
Query: 72 NRLP--HLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDFA 129
NR P +LLYGPPGTGK+ AVA + ++ +++S D+V + + +
Sbjct: 56 NRKPTSGILLYGPPGTGKSYLAKAVA-----TEANSTFFSVSSS-----DLVSKWMGESE 105
Query: 130 S--TQSFSFGVKASVKLVLLDEADAMT 154
Q F+ + ++ +DE DA+T
Sbjct: 106 KLVKQLFAMARENKPSIIFIDEVDALT 132
>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 = 35.0 bits (79), Expect = 0.054, Method: Compositional matrix adjust.
Identities = 29/97 (29%), Positives = 46/97 (47%), Gaps = 10/97 (10%)
Query: 65 IDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQ 124
+ +LT + P L L GPPG GKTS ++A+ L G ++ + ++ R +R
Sbjct: 99 VQKLTKSLKGPILCLAGPPGVGKTSLAKSIAKSL-GRKF----VRISLGGVRDESEIRGH 153
Query: 125 IQDFASTQSFSF--GVKASVKL---VLLDEADAMTKD 156
+ + G+K + KL LLDE D M+ D
Sbjct: 154 RRTYVGAMPGRIIQGMKKAGKLNPVFLLDEIDKMSSD 190
>pdb|4B4T|K Chain K, Near-Atomic Resolution Structural Model Of The Yeast 26s
Proteasome
Length = 428
Score = 34.7 bits (78), Expect = 0.061, Method: Compositional matrix adjust.
Identities = 33/134 (24%), Positives = 55/134 (41%), Gaps = 36/134 (26%)
Query: 77 LLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASD------DRGIDVVRQQIQDFAS 130
+LLYGPPGTGKT + AVA A + +N S+ G +VR
Sbjct: 209 VLLYGPPGTGKTMLVKAVANSTKAA-----FIRVNGSEFVHKYLGEGPRMVR-------- 255
Query: 131 TQSFSFGVKASVKLVLLDEADAMTK---DAQFALRRVIEKY-------------TKNTRF 174
F + + ++ +DE D++ DAQ R +++ + N +
Sbjct: 256 -DVFRLARENAPSIIFIDEVDSIATKRFDAQTGSDREVQRILIELLTQMDGFDQSTNVKV 314
Query: 175 ALICNQVNKIIPAL 188
+ N+ + + PAL
Sbjct: 315 IMATNRADTLDPAL 328
>pdb|2QP9|X Chain X, Crystal Structure Of S.Cerevisiae Vps4
pdb|2QPA|A Chain A, Crystal Structure Of S.Cerevisiae Vps4 In The Presence Of
Adp
pdb|2QPA|B Chain B, Crystal Structure Of S.Cerevisiae Vps4 In The Presence Of
Adp
pdb|2QPA|C Chain C, Crystal Structure Of S.Cerevisiae Vps4 In The Presence Of
Adp
Length = 355
Score = 34.3 bits (77), Expect = 0.083, Method: Compositional matrix adjust.
Identities = 25/87 (28%), Positives = 44/87 (50%), Gaps = 14/87 (16%)
Query: 72 NRLP--HLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDFA 129
NR P +LLYGPPGTGK+ AVA + ++ +++S D+V + + +
Sbjct: 80 NRKPTSGILLYGPPGTGKSYLAKAVA-----TEANSTFFSVSSS-----DLVSKWMGESE 129
Query: 130 S--TQSFSFGVKASVKLVLLDEADAMT 154
Q F+ + ++ +D+ DA+T
Sbjct: 130 KLVKQLFAMARENKPSIIFIDQVDALT 156
>pdb|3EIH|A Chain A, Crystal Structure Of S.Cerevisiae Vps4 In The Presence Of
Atpgammas
pdb|3EIH|B Chain B, Crystal Structure Of S.Cerevisiae Vps4 In The Presence Of
Atpgammas
pdb|3EIH|C Chain C, Crystal Structure Of S.Cerevisiae Vps4 In The Presence Of
Atpgammas
Length = 340
Score = 34.3 bits (77), Expect = 0.086, Method: Compositional matrix adjust.
Identities = 25/87 (28%), Positives = 44/87 (50%), Gaps = 14/87 (16%)
Query: 72 NRLP--HLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDFA 129
NR P +LLYGPPGTGK+ AVA + ++ +++S D+V + + +
Sbjct: 65 NRKPTSGILLYGPPGTGKSYLAKAVA-----TEANSTFFSVSSS-----DLVSKWMGESE 114
Query: 130 S--TQSFSFGVKASVKLVLLDEADAMT 154
Q F+ + ++ +D+ DA+T
Sbjct: 115 KLVKQLFAMARENKPSIIFIDQVDALT 141
>pdb|3EIE|A Chain A, Crystal Structure Of S.Cerevisiae Vps4 In The So4-Bound
State
Length = 322
Score = 34.3 bits (77), Expect = 0.087, Method: Compositional matrix adjust.
Identities = 25/87 (28%), Positives = 44/87 (50%), Gaps = 14/87 (16%)
Query: 72 NRLP--HLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDFA 129
NR P +LLYGPPGTGK+ AVA + ++ +++S D+V + + +
Sbjct: 47 NRKPTSGILLYGPPGTGKSYLAKAVA-----TEANSTFFSVSSS-----DLVSKWMGESE 96
Query: 130 S--TQSFSFGVKASVKLVLLDEADAMT 154
Q F+ + ++ +D+ DA+T
Sbjct: 97 KLVKQLFAMARENKPSIIFIDQVDALT 123
>pdb|2C9O|A Chain A, 3d Structure Of The Human Ruvb-Like Helicase Ruvbl1
pdb|2C9O|B Chain B, 3d Structure Of The Human Ruvb-Like Helicase Ruvbl1
pdb|2C9O|C Chain C, 3d Structure Of The Human Ruvb-Like Helicase Ruvbl1
Length = 456
Score = 33.9 bits (76), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 14/22 (63%), Positives = 19/22 (86%)
Query: 77 LLLYGPPGTGKTSTILAVARKL 98
+LL GPPGTGKT+ LA+A++L
Sbjct: 66 VLLAGPPGTGKTALALAIAQEL 87
>pdb|2XSZ|A Chain A, The Dodecameric Human Ruvbl1:ruvbl2 Complex With Truncated
Domains Ii
pdb|2XSZ|B Chain B, The Dodecameric Human Ruvbl1:ruvbl2 Complex With Truncated
Domains Ii
pdb|2XSZ|C Chain C, The Dodecameric Human Ruvbl1:ruvbl2 Complex With Truncated
Domains Ii
Length = 367
Score = 33.9 bits (76), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 14/22 (63%), Positives = 19/22 (86%)
Query: 77 LLLYGPPGTGKTSTILAVARKL 98
+LL GPPGTGKT+ LA+A++L
Sbjct: 80 VLLAGPPGTGKTALALAIAQEL 101
>pdb|1IXR|C Chain C, Ruva-Ruvb Complex
Length = 312
Score = 33.5 bits (75), Expect = 0.17, Method: Compositional matrix adjust.
Identities = 14/25 (56%), Positives = 18/25 (72%)
Query: 74 LPHLLLYGPPGTGKTSTILAVARKL 98
L HLLL+GPPG GKT+ +A +L
Sbjct: 38 LEHLLLFGPPGLGKTTLAHVIAHEL 62
>pdb|1LV7|A Chain A, Crystal Structure Of The Aaa Domain Of Ftsh
Length = 257
Score = 33.1 bits (74), Expect = 0.18, Method: Compositional matrix adjust.
Identities = 31/124 (25%), Positives = 55/124 (44%), Gaps = 34/124 (27%)
Query: 51 SLADVA----AHRDIVDTIDRLTSENRLPHL--------LLYGPPGTGKTSTILAVARK- 97
+ ADVA A ++ + ++ L +R L L+ GPPGTGKT A+A +
Sbjct: 10 TFADVAGCDEAKEEVAELVEYLREPSRFQKLGGKIPKGVLMVGPPGTGKTLLAKAIAGEA 69
Query: 98 ------LYGAQYHNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEAD 151
+ G+ + M + + AS +++D F KA+ ++ +DE D
Sbjct: 70 KVPFFTISGSDFVEMFVGVGAS----------RVRDM-----FEQAKKAAPCIIFIDEID 114
Query: 152 AMTK 155
A+ +
Sbjct: 115 AVGR 118
>pdb|1IXS|B Chain B, Structure Of Ruvb Complexed With Ruva Domain Iii
Length = 318
Score = 33.1 bits (74), Expect = 0.19, Method: Compositional matrix adjust.
Identities = 14/25 (56%), Positives = 18/25 (72%)
Query: 74 LPHLLLYGPPGTGKTSTILAVARKL 98
L HLLL+GPPG GKT+ +A +L
Sbjct: 38 LEHLLLFGPPGLGKTTLAHVIAHEL 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 = 32.7 bits (73), Expect = 0.24, Method: Compositional matrix adjust.
Identities = 14/25 (56%), Positives = 18/25 (72%)
Query: 74 LPHLLLYGPPGTGKTSTILAVARKL 98
L HLLL+GPPG GKT+ +A +L
Sbjct: 38 LEHLLLFGPPGLGKTTLAHVIAHEL 62
>pdb|4B4T|L Chain L, Near-Atomic Resolution Structural Model Of The Yeast 26s
Proteasome
Length = 437
Score = 32.7 bits (73), Expect = 0.25, Method: Compositional matrix adjust.
Identities = 26/79 (32%), Positives = 40/79 (50%), Gaps = 12/79 (15%)
Query: 77 LLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDFAST--QSF 134
+LLYGPPGTGKT AVA + GA N I + +V + I + A + F
Sbjct: 218 VLLYGPPGTGKTLLAKAVAATI-GA---NFIFSPASG------IVDKYIGESARIIREMF 267
Query: 135 SFGVKASVKLVLLDEADAM 153
++ + ++ +DE DA+
Sbjct: 268 AYAKEHEPCIIFMDEVDAI 286
>pdb|4B4T|M Chain M, Near-Atomic Resolution Structural Model Of The Yeast 26s
Proteasome
Length = 434
Score = 32.7 bits (73), Expect = 0.26, Method: Compositional matrix adjust.
Identities = 25/78 (32%), Positives = 39/78 (50%), Gaps = 12/78 (15%)
Query: 78 LLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDFAS--TQSFS 135
L+YGPPGTGKT A A AQ + L+L A +V+ I + A +F+
Sbjct: 219 LMYGPPGTGKTLLARACA-----AQTNATFLKLAAP-----QLVQMYIGEGAKLVRDAFA 268
Query: 136 FGVKASVKLVLLDEADAM 153
+ + ++ +DE DA+
Sbjct: 269 LAKEKAPTIIFIDELDAI 286
>pdb|1R7R|A Chain A, The Crystal Structure Of Murine P97VCP AT 3.6A
Length = 816
Score = 32.7 bits (73), Expect = 0.27, Method: Compositional matrix adjust.
Identities = 14/19 (73%), Positives = 15/19 (78%)
Query: 77 LLLYGPPGTGKTSTILAVA 95
+LLYGPPGTGKT AVA
Sbjct: 241 ILLYGPPGTGKTLIARAVA 259
>pdb|1E32|A Chain A, Structure Of The N-Terminal Domain And The D1 Aaa Domain
Of Membrane Fusion Atpase P97
pdb|1S3S|A Chain A, Crystal Structure Of Aaa Atpase P97VCP ND1 IN COMPLEX WITH
P47 C
pdb|1S3S|B Chain B, Crystal Structure Of Aaa Atpase P97VCP ND1 IN COMPLEX WITH
P47 C
pdb|1S3S|C Chain C, Crystal Structure Of Aaa Atpase P97VCP ND1 IN COMPLEX WITH
P47 C
pdb|1S3S|D Chain D, Crystal Structure Of Aaa Atpase P97VCP ND1 IN COMPLEX WITH
P47 C
pdb|1S3S|E Chain E, Crystal Structure Of Aaa Atpase P97VCP ND1 IN COMPLEX WITH
P47 C
pdb|1S3S|F Chain F, Crystal Structure Of Aaa Atpase P97VCP ND1 IN COMPLEX WITH
P47 C
Length = 458
Score = 32.7 bits (73), Expect = 0.27, Method: Compositional matrix adjust.
Identities = 14/19 (73%), Positives = 15/19 (78%)
Query: 77 LLLYGPPGTGKTSTILAVA 95
+LLYGPPGTGKT AVA
Sbjct: 241 ILLYGPPGTGKTLIARAVA 259
>pdb|3CF1|A Chain A, Structure Of P97VCP IN COMPLEX WITH ADPADP.ALFX
pdb|3CF1|B Chain B, Structure Of P97VCP IN COMPLEX WITH ADPADP.ALFX
pdb|3CF1|C Chain C, Structure Of P97VCP IN COMPLEX WITH ADPADP.ALFX
pdb|3CF2|A Chain A, Structure Of P97VCP IN COMPLEX WITH ADPAMP-Pnp
pdb|3CF2|B Chain B, Structure Of P97VCP IN COMPLEX WITH ADPAMP-Pnp
pdb|3CF2|C Chain C, Structure Of P97VCP IN COMPLEX WITH ADPAMP-Pnp
pdb|3CF2|D Chain D, Structure Of P97VCP IN COMPLEX WITH ADPAMP-Pnp
pdb|3CF3|A Chain A, Structure Of P97VCP IN COMPLEX WITH ADP
pdb|3CF3|B Chain B, Structure Of P97VCP IN COMPLEX WITH ADP
pdb|3CF3|C Chain C, Structure Of P97VCP IN COMPLEX WITH ADP
Length = 806
Score = 32.7 bits (73), Expect = 0.27, Method: Compositional matrix adjust.
Identities = 14/19 (73%), Positives = 15/19 (78%)
Query: 77 LLLYGPPGTGKTSTILAVA 95
+LLYGPPGTGKT AVA
Sbjct: 241 ILLYGPPGTGKTLIARAVA 259
>pdb|3HU3|A Chain A, Structure Of P97 N-D1 R155h Mutant In Complex With Atpgs
pdb|3HU3|B Chain B, Structure Of P97 N-D1 R155h Mutant In Complex With Atpgs
Length = 489
Score = 32.7 bits (73), Expect = 0.28, Method: Compositional matrix adjust.
Identities = 14/19 (73%), Positives = 15/19 (78%)
Query: 77 LLLYGPPGTGKTSTILAVA 95
+LLYGPPGTGKT AVA
Sbjct: 241 ILLYGPPGTGKTLIARAVA 259
>pdb|3HU2|A Chain A, Structure Of P97 N-D1 R86a Mutant In Complex With Atpgs
pdb|3HU2|B Chain B, Structure Of P97 N-D1 R86a Mutant In Complex With Atpgs
pdb|3HU2|C Chain C, Structure Of P97 N-D1 R86a Mutant In Complex With Atpgs
pdb|3HU2|D Chain D, Structure Of P97 N-D1 R86a Mutant In Complex With Atpgs
pdb|3HU2|E Chain E, Structure Of P97 N-D1 R86a Mutant In Complex With Atpgs
pdb|3HU2|F Chain F, Structure Of P97 N-D1 R86a Mutant In Complex With Atpgs
Length = 489
Score = 32.7 bits (73), Expect = 0.28, Method: Compositional matrix adjust.
Identities = 14/19 (73%), Positives = 15/19 (78%)
Query: 77 LLLYGPPGTGKTSTILAVA 95
+LLYGPPGTGKT AVA
Sbjct: 241 ILLYGPPGTGKTLIARAVA 259
>pdb|4B4T|H Chain H, Near-Atomic Resolution Structural Model Of The Yeast 26s
Proteasome
Length = 467
Score = 32.7 bits (73), Expect = 0.28, Method: Compositional matrix adjust.
Identities = 14/21 (66%), Positives = 16/21 (76%)
Query: 77 LLLYGPPGTGKTSTILAVARK 97
+LLYGPPGTGKT AVA +
Sbjct: 246 ILLYGPPGTGKTLCARAVANR 266
>pdb|3HU1|A Chain A, Structure Of P97 N-D1 R95g Mutant In Complex With Atpgs
pdb|3HU1|B Chain B, Structure Of P97 N-D1 R95g Mutant In Complex With Atpgs
pdb|3HU1|C Chain C, Structure Of P97 N-D1 R95g Mutant In Complex With Atpgs
pdb|3HU1|D Chain D, Structure Of P97 N-D1 R95g Mutant In Complex With Atpgs
pdb|3HU1|E Chain E, Structure Of P97 N-D1 R95g Mutant In Complex With Atpgs
pdb|3HU1|F Chain F, Structure Of P97 N-D1 R95g Mutant In Complex With Atpgs
Length = 489
Score = 32.7 bits (73), Expect = 0.29, Method: Compositional matrix adjust.
Identities = 14/19 (73%), Positives = 15/19 (78%)
Query: 77 LLLYGPPGTGKTSTILAVA 95
+LLYGPPGTGKT AVA
Sbjct: 241 ILLYGPPGTGKTLIARAVA 259
>pdb|2QM7|A Chain A, Meab, A Bacterial Homolog Of Mmaa, Bound To Gdp
pdb|2QM7|B Chain B, Meab, A Bacterial Homolog Of Mmaa, Bound To Gdp
Length = 337
Score = 32.7 bits (73), Expect = 0.29, Method: Compositional matrix adjust.
Identities = 20/61 (32%), Positives = 32/61 (52%), Gaps = 2/61 (3%)
Query: 56 AAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDD 115
AA RD++D + L R + + G PG GK++TI A+ L A + +L ++ S
Sbjct: 39 AAVRDLIDAV--LPQTGRAIRVGITGVPGVGKSTTIDALGSLLTAAGHKVAVLAVDPSST 96
Query: 116 R 116
R
Sbjct: 97 R 97
>pdb|2QM8|A Chain A, Meab, A Bacterial Homolog Of Mmaa, In The Nucleotide Free
Form
pdb|2QM8|B Chain B, Meab, A Bacterial Homolog Of Mmaa, In The Nucleotide Free
Form
Length = 337
Score = 32.3 bits (72), Expect = 0.30, Method: Compositional matrix adjust.
Identities = 20/61 (32%), Positives = 32/61 (52%), Gaps = 2/61 (3%)
Query: 56 AAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDD 115
AA RD++D + L R + + G PG GK++TI A+ L A + +L ++ S
Sbjct: 39 AAVRDLIDAV--LPQTGRAIRVGITGVPGVGKSTTIDALGSLLTAAGHKVAVLAVDPSST 96
Query: 116 R 116
R
Sbjct: 97 R 97
>pdb|3VKG|A Chain A, X-Ray Structure Of An Mtbd Truncation Mutant Of Dynein Motor
Domain
pdb|3VKG|B Chain B, X-Ray Structure Of An Mtbd Truncation Mutant Of Dynein Motor
Domain
Length = 3245
Score = 32.0 bits (71), Expect = 0.45, Method: Compositional matrix adjust.
Identities = 16/35 (45%), Positives = 22/35 (62%), Gaps = 2/35 (5%)
Query: 62 VDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVAR 96
VD + SE+R L+L GPPG+GKT T+ + R
Sbjct: 1294 VDVLHAWLSEHR--PLILCGPPGSGKTMTLTSTLR 1326
>pdb|3VKH|A Chain A, X-Ray Structure Of A Functional Full-Length Dynein Motor
Domain
pdb|3VKH|B Chain B, X-Ray Structure Of A Functional Full-Length Dynein Motor
Domain
Length = 3367
Score = 32.0 bits (71), Expect = 0.46, Method: Compositional matrix adjust.
Identities = 16/35 (45%), Positives = 22/35 (62%), Gaps = 2/35 (5%)
Query: 62 VDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVAR 96
VD + SE+R L+L GPPG+GKT T+ + R
Sbjct: 1294 VDVLHAWLSEHR--PLILCGPPGSGKTMTLTSTLR 1326
>pdb|4B4T|J Chain J, Near-Atomic Resolution Structural Model Of The Yeast 26s
Proteasome
Length = 405
Score = 31.2 bits (69), Expect = 0.67, Method: Compositional matrix adjust.
Identities = 13/19 (68%), Positives = 15/19 (78%)
Query: 77 LLLYGPPGTGKTSTILAVA 95
++LYGPPGTGKT AVA
Sbjct: 185 VILYGPPGTGKTLLARAVA 203
>pdb|1J7K|A Chain A, Thermotoga Maritima Ruvb P216g Mutant
Length = 334
Score = 30.8 bits (68), Expect = 0.93, Method: Compositional matrix adjust.
Identities = 20/70 (28%), Positives = 31/70 (44%), Gaps = 5/70 (7%)
Query: 34 TPPDIKASPWVEKYRPQSLADVAAHRDIVDTIDRLTSENR-----LPHLLLYGPPGTGKT 88
TP V+ RP+SL + ++ + + L H+LL GPPG GKT
Sbjct: 6 TPERTVYDSGVQFLRPKSLDEFIGQENVKKKLSLALEAAKMRGEVLDHVLLAGPPGLGKT 65
Query: 89 STILAVARKL 98
+ +A +L
Sbjct: 66 TLAHIIASEL 75
>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 = 30.8 bits (68), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 9/17 (52%), Positives = 16/17 (94%)
Query: 78 LLYGPPGTGKTSTILAV 94
+++GPPGTGKT+T++ +
Sbjct: 209 IIHGPPGTGKTTTVVEI 225
>pdb|4B3F|X Chain X, Crystal Structure Of 1ghmbp2 Helicase
Length = 646
Score = 30.8 bits (68), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 9/17 (52%), Positives = 16/17 (94%)
Query: 78 LLYGPPGTGKTSTILAV 94
+++GPPGTGKT+T++ +
Sbjct: 209 IIHGPPGTGKTTTVVEI 225
>pdb|1IN8|A Chain A, Thermotoga Maritima Ruvb T158v
Length = 334
Score = 30.8 bits (68), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 20/70 (28%), Positives = 31/70 (44%), Gaps = 5/70 (7%)
Query: 34 TPPDIKASPWVEKYRPQSLADVAAHRDIVDTIDRLTSENR-----LPHLLLYGPPGTGKT 88
TP V+ RP+SL + ++ + + L H+LL GPPG GKT
Sbjct: 6 TPERTVYDSGVQFLRPKSLDEFIGQENVKKKLSLALEAAKMRGEVLDHVLLAGPPGLGKT 65
Query: 89 STILAVARKL 98
+ +A +L
Sbjct: 66 TLAHIIASEL 75
>pdb|1IN5|A Chain A, Thermogota Maritima Ruvb A156s Mutant
Length = 334
Score = 30.8 bits (68), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 20/70 (28%), Positives = 31/70 (44%), Gaps = 5/70 (7%)
Query: 34 TPPDIKASPWVEKYRPQSLADVAAHRDIVDTIDRLTSENR-----LPHLLLYGPPGTGKT 88
TP V+ RP+SL + ++ + + L H+LL GPPG GKT
Sbjct: 6 TPERTVYDSGVQFLRPKSLDEFIGQENVKKKLSLALEAAKMRGEVLDHVLLAGPPGLGKT 65
Query: 89 STILAVARKL 98
+ +A +L
Sbjct: 66 TLAHIIASEL 75
>pdb|1IN4|A Chain A, Thermotoga Maritima Ruvb Holliday Junction Branch
Migration Motor
Length = 334
Score = 30.8 bits (68), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 20/70 (28%), Positives = 31/70 (44%), Gaps = 5/70 (7%)
Query: 34 TPPDIKASPWVEKYRPQSLADVAAHRDIVDTIDRLTSENR-----LPHLLLYGPPGTGKT 88
TP V+ RP+SL + ++ + + L H+LL GPPG GKT
Sbjct: 6 TPERTVYDSGVQFLRPKSLDEFIGQENVKKKLSLALEAAKMRGEVLDHVLLAGPPGLGKT 65
Query: 89 STILAVARKL 98
+ +A +L
Sbjct: 66 TLAHIIASEL 75
>pdb|2QZ4|A Chain A, Human Paraplegin, Aaa Domain In Complex With Adp
Length = 262
Score = 30.4 bits (67), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 28/87 (32%), Positives = 39/87 (44%), Gaps = 19/87 (21%)
Query: 51 SLADVA----AHRDIVDTIDRLTSENRLPHL--------LLYGPPGTGKTSTILAVARK- 97
S DVA A ++ + +D L S R L LL GPPG GKT AVA +
Sbjct: 4 SFKDVAGMHEAKLEVREFVDYLKSPERFLQLGAKVPKGALLLGPPGCGKTLLAKAVATEA 63
Query: 98 ------LYGAQYHNMILELNASDDRGI 118
+ GA++ +I L A+ R +
Sbjct: 64 QVPFLAMAGAEFVEVIGGLGAARVRSL 90
>pdb|1IN7|A Chain A, Thermotoga Maritima Ruvb R170a
Length = 334
Score = 30.4 bits (67), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 20/70 (28%), Positives = 31/70 (44%), Gaps = 5/70 (7%)
Query: 34 TPPDIKASPWVEKYRPQSLADVAAHRDIVDTIDRLTSENR-----LPHLLLYGPPGTGKT 88
TP V+ RP+SL + ++ + + L H+LL GPPG GKT
Sbjct: 6 TPERTVYDSGVQFLRPKSLDEFIGQENVKKKLSLALEAAKMRGEVLDHVLLAGPPGLGKT 65
Query: 89 STILAVARKL 98
+ +A +L
Sbjct: 66 TLAHIIASEL 75
>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 = 30.4 bits (67), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 22/68 (32%), Positives = 34/68 (50%), Gaps = 3/68 (4%)
Query: 49 PQSLAD-VAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMI 107
P+ L D V V+ I T+ N+ H+LL G PGTGK+ A+A L +++
Sbjct: 36 PEKLIDQVIGQEHAVEVIK--TAANQKRHVLLIGEPGTGKSMLGQAMAELLPTETLEDIL 93
Query: 108 LELNASDD 115
+ N D+
Sbjct: 94 VFPNPEDE 101
>pdb|1Y63|A Chain A, Initial Crystal Structural Analysis Of A Probable Kinase
From Leishmania Major Friedlin
Length = 184
Score = 30.0 bits (66), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 13/27 (48%), Positives = 18/27 (66%)
Query: 77 LLLYGPPGTGKTSTILAVARKLYGAQY 103
+L+ G PGTGKTS +A +L G Q+
Sbjct: 13 ILITGTPGTGKTSMAEMIAAELDGFQH 39
>pdb|2CE7|A Chain A, Edta Treated
pdb|2CE7|B Chain B, Edta Treated
pdb|2CE7|C Chain C, Edta Treated
pdb|2CE7|D Chain D, Edta Treated
pdb|2CE7|E Chain E, Edta Treated
pdb|2CE7|F Chain F, Edta Treated
pdb|2CEA|A Chain A, Cell Division Protein Ftsh
pdb|2CEA|B Chain B, Cell Division Protein Ftsh
pdb|2CEA|C Chain C, Cell Division Protein Ftsh
pdb|2CEA|D Chain D, Cell Division Protein Ftsh
pdb|2CEA|E Chain E, Cell Division Protein Ftsh
pdb|2CEA|F Chain F, Cell Division Protein Ftsh
Length = 476
Score = 30.0 bits (66), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 15/24 (62%), Positives = 17/24 (70%), Gaps = 1/24 (4%)
Query: 73 RLPH-LLLYGPPGTGKTSTILAVA 95
R+P +LL GPPGTGKT AVA
Sbjct: 47 RMPKGILLVGPPGTGKTLLARAVA 70
>pdb|2ZAM|A Chain A, Crystal Structure Of Mouse Skd1VPS4B APO-Form
pdb|2ZAN|A Chain A, Crystal Structure Of Mouse Skd1VPS4B ATP-Form
pdb|2ZAO|A Chain A, Crystal Structure Of Mouse Skd1VPS4B ADP-Form
Length = 444
Score = 30.0 bits (66), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 15/45 (33%), Positives = 23/45 (51%), Gaps = 11/45 (24%)
Query: 73 RLPHL-----------LLYGPPGTGKTSTILAVARKLYGAQYHNM 106
+ PHL LL+GPPGTGK+ AVA + + + ++
Sbjct: 155 KFPHLFTGKRTPWRGILLFGPPGTGKSYLAKAVATEANNSTFFSI 199
>pdb|3JVV|A Chain A, Crystal Structure Of P. Aeruginosa Pilt With Bound Amp-Pcp
pdb|3JVV|B Chain B, Crystal Structure Of P. Aeruginosa Pilt With Bound Amp-Pcp
pdb|3JVV|C Chain C, Crystal Structure Of P. Aeruginosa Pilt With Bound Amp-Pcp
pdb|3JVU|A Chain A, Crystal Structure Of Unliganded P. Aeruginosa Pilt
pdb|3JVU|B Chain B, Crystal Structure Of Unliganded P. Aeruginosa Pilt
pdb|3JVU|C Chain C, Crystal Structure Of Unliganded P. Aeruginosa Pilt
Length = 356
Score = 30.0 bits (66), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 11/31 (35%), Positives = 22/31 (70%)
Query: 77 LLLYGPPGTGKTSTILAVARKLYGAQYHNMI 107
+L+ GP G+GK++T+ A+ L +YH+++
Sbjct: 126 VLVTGPTGSGKSTTLAAMLDYLNNTKYHHIL 156
>pdb|3VFD|A Chain A, Human Spastin Aaa Domain
Length = 389
Score = 29.6 bits (65), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 13/19 (68%), Positives = 14/19 (73%)
Query: 77 LLLYGPPGTGKTSTILAVA 95
LLL+GPPG GKT AVA
Sbjct: 151 LLLFGPPGNGKTMLAKAVA 169
>pdb|1XWI|A Chain A, Crystal Structure Of Vps4b
Length = 322
Score = 29.6 bits (65), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 12/30 (40%), Positives = 20/30 (66%)
Query: 77 LLLYGPPGTGKTSTILAVARKLYGAQYHNM 106
+LL+GPPGTGK+ AVA + + + ++
Sbjct: 48 ILLFGPPGTGKSYLAKAVATEANNSTFFSI 77
>pdb|3B9P|A Chain A, Spastin
Length = 297
Score = 29.6 bits (65), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 13/19 (68%), Positives = 14/19 (73%)
Query: 77 LLLYGPPGTGKTSTILAVA 95
LLL+GPPG GKT AVA
Sbjct: 57 LLLFGPPGNGKTLLARAVA 75
>pdb|1IN6|A Chain A, Thermotoga Maritima Ruvb K64r Mutant
Length = 334
Score = 29.6 bits (65), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 19/70 (27%), Positives = 31/70 (44%), Gaps = 5/70 (7%)
Query: 34 TPPDIKASPWVEKYRPQSLADVAAHRDIVDTIDRLTSENR-----LPHLLLYGPPGTGKT 88
TP V+ RP+SL + ++ + + L H+LL GPPG G+T
Sbjct: 6 TPERTVYDSGVQFLRPKSLDEFIGQENVKKKLSLALEAAKMRGEVLDHVLLAGPPGLGRT 65
Query: 89 STILAVARKL 98
+ +A +L
Sbjct: 66 TLAHIIASEL 75
>pdb|3NXS|A Chain A, Crystal Structure Of LaoAO TRANSPORT SYSTEM FROM
MYCOBACTERIUM Smegmatis Bound To Gdp
Length = 329
Score = 29.3 bits (64), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 14/41 (34%), Positives = 23/41 (56%)
Query: 76 HLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDR 116
H+ + G PG GK++TI A+ L A + +L ++ S R
Sbjct: 59 HVGITGVPGVGKSTTIEALGMHLIEAGHRVAVLAVDPSSTR 99
>pdb|3CNL|A Chain A, Crystal Structure Of Gnp-Bound Ylqf From T. Maritima
pdb|3CNN|A Chain A, Gtp-Bound Structure Of Tm Ylqf
pdb|3CNO|A Chain A, Gdp-Bound Structue Of Tm Ylqf
Length = 262
Score = 28.9 bits (63), Expect = 3.3, Method: Compositional matrix adjust.
Identities = 15/50 (30%), Positives = 27/50 (54%), Gaps = 1/50 (2%)
Query: 43 WVEKYRPQSLADVAAHR-DIVDTIDRLTSENRLPHLLLYGPPGTGKTSTI 91
WVE ++ Q + H+ + + + S +RL +L+ G P TGK++ I
Sbjct: 67 WVEFFKKQGKRVITTHKGEPRKVLLKKLSFDRLARVLIVGVPNTGKSTII 116
>pdb|1IBC|A Chain A, Crystal Structure Of Inhibited Interleukin-1beta
Converting Enzyme
Length = 194
Score = 28.9 bits (63), Expect = 3.4, Method: Compositional matrix adjust.
Identities = 22/65 (33%), Positives = 36/65 (55%), Gaps = 3/65 (4%)
Query: 123 QQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFAL-ICNQV 181
Q +QD + + S G + +VKL L+EA + K + +++K ++ TR AL ICN+
Sbjct: 12 QAVQDNPAMPTSS-GSEGNVKLCSLEEAQRIWKQKSAEIYPIMDKSSR-TRLALIICNEE 69
Query: 182 NKIIP 186
IP
Sbjct: 70 FDSIP 74
>pdb|3TX8|A Chain A, Crystal Structure Of A Succinyl-Diaminopimelate
Desuccinylase (Arge) From Corynebacterium Glutamicum
Atcc 13032 At 2.97 A Resolution
Length = 369
Score = 28.9 bits (63), Expect = 3.8, Method: Compositional matrix adjust.
Identities = 16/42 (38%), Positives = 23/42 (54%), Gaps = 2/42 (4%)
Query: 182 NKIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDVTEG 223
N +IP L FRFAP ++ E ++HV+E LD +G
Sbjct: 242 NNVIPDLAWXNLNFRFAPNRDLN--EAIEHVVETLELDGQDG 281
>pdb|3E4C|A Chain A, Procaspase-1 Zymogen Domain Crystal Strucutre
pdb|3E4C|B Chain B, Procaspase-1 Zymogen Domain Crystal Strucutre
Length = 302
Score = 28.9 bits (63), Expect = 4.0, Method: Compositional matrix adjust.
Identities = 22/65 (33%), Positives = 36/65 (55%), Gaps = 3/65 (4%)
Query: 123 QQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFAL-ICNQV 181
Q +QD + + S G + +VKL L+EA + K + +++K ++ TR AL ICN+
Sbjct: 13 QAVQDNPAMPTSS-GSEGNVKLCSLEEAQRIWKQKSAEIYPIMDKSSR-TRLALIICNEE 70
Query: 182 NKIIP 186
IP
Sbjct: 71 FDSIP 75
>pdb|2XZL|A Chain A, Upf1-Rna Complex
Length = 802
Score = 28.5 bits (62), Expect = 4.3, Method: Compositional matrix adjust.
Identities = 24/96 (25%), Positives = 43/96 (44%), Gaps = 11/96 (11%)
Query: 75 PHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDFASTQSF 134
P L+ GPPGTGKT T + L ++ H + + A + +D + +++D
Sbjct: 376 PLSLIQGPPGTGKTVTSATIVYHL--SKIHKDRILVCAPSNVAVDHLAAKLRD------- 426
Query: 135 SFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTK 170
G+K V+L D + + AL ++ + K
Sbjct: 427 -LGLKV-VRLTAKSREDVESSVSNLALHNLVGRGAK 460
>pdb|3D8B|A Chain A, Crystal Structure Of Human Fidgetin-Like Protein 1 In
Complex With Adp
pdb|3D8B|B Chain B, Crystal Structure Of Human Fidgetin-Like Protein 1 In
Complex With Adp
Length = 357
Score = 28.5 bits (62), Expect = 4.4, Method: Compositional matrix adjust.
Identities = 13/30 (43%), Positives = 20/30 (66%), Gaps = 1/30 (3%)
Query: 77 LLLYGPPGTGKTSTILAVARKLYGAQYHNM 106
+LL+GPPGTGKT +A + GA + ++
Sbjct: 120 ILLFGPPGTGKTLIGKCIASQ-SGATFFSI 148
>pdb|4B4T|I Chain I, Near-Atomic Resolution Structural Model Of The Yeast 26s
Proteasome
Length = 437
Score = 28.5 bits (62), Expect = 4.6, Method: Compositional matrix adjust.
Identities = 22/79 (27%), Positives = 39/79 (49%), Gaps = 12/79 (15%)
Query: 77 LLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDFA--STQSF 134
++LYG PGTGKT AVA + A + ++ G +++++ + D Q F
Sbjct: 219 VILYGAPGTGKTLLAKAVANQ-TSATFLRIV---------GSELIQKYLGDGPRLCRQIF 268
Query: 135 SFGVKASVKLVLLDEADAM 153
+ + +V +DE DA+
Sbjct: 269 KVAGENAPSIVFIDEIDAI 287
>pdb|2GA8|A Chain A, Crystal Structure Of Yfh7 From Saccharomyces Cerevisiae: A
Putative P-Loop Containing Kinase With A Circular
Permutation.
pdb|2GAA|A Chain A, Crystal Structure Of Yfh7 From Saccharomyces Cerevisiae: A
Putative P-Loop Containing Kinase With A Circular
Permutation
Length = 359
Score = 28.5 bits (62), Expect = 5.4, Method: Compositional matrix adjust.
Identities = 15/50 (30%), Positives = 26/50 (52%), Gaps = 1/50 (2%)
Query: 60 DIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILE 109
D++ +D +N ++L G PG+GK STI ++ +YH + E
Sbjct: 10 DVLQLLDNRIEDNYRVCVILVGSPGSGK-STIAEELXQIINEKYHTFLSE 58
>pdb|2EP5|A Chain A, Structural Study Of Project Id St1242 From Sulfolobus
Tokodaii Strain7
pdb|2EP5|B Chain B, Structural Study Of Project Id St1242 From Sulfolobus
Tokodaii Strain7
pdb|2EP5|C Chain C, Structural Study Of Project Id St1242 From Sulfolobus
Tokodaii Strain7
pdb|2EP5|D Chain D, Structural Study Of Project Id St1242 From Sulfolobus
Tokodaii Strain7
Length = 350
Score = 28.1 bits (61), Expect = 6.0, Method: Compositional matrix adjust.
Identities = 13/37 (35%), Positives = 21/37 (56%)
Query: 45 EKYRPQSLADVAAHRDIVDTIDRLTSENRLPHLLLYG 81
E+ RPQ + DV A + T+ R+ EN + L++ G
Sbjct: 290 EEDRPQPIIDVNAESGMAVTVGRIRHENNVLRLVVLG 326
>pdb|1SC1|A Chain A, Crystal Structure Of An Active-Site Ligand-Free Form Of
The Human Caspase-1 C285a Mutant
pdb|1SC3|A Chain A, Crystal Structure Of The Human Caspase-1 C285a Mutant In
Complex With Malonate
pdb|1SC4|A Chain A, Crystal Structure Of The Human Caspase-1 C285a Mutant
After Removal Of Malonate
pdb|2FQQ|A Chain A, Crystal Structure Of Human Caspase-1 (Cys285->ala,
Cys362->ala, Cys364->ala, Cys397->ala) In Complex With
1-Methyl-3-Trifluoromethyl-
1h-Thieno[2,3-C]pyrazole-5-Carboxylic Acid
(2-Mercapto-Ethyl)-Amide
Length = 178
Score = 28.1 bits (61), Expect = 6.4, Method: Compositional matrix adjust.
Identities = 19/53 (35%), Positives = 30/53 (56%), Gaps = 2/53 (3%)
Query: 135 SFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFAL-ICNQVNKIIP 186
S G + +VKL L+EA + K + +++K ++ TR AL ICN+ IP
Sbjct: 7 SSGSEGNVKLCSLEEAQRIWKQKSAEIYPIMDKSSR-TRLALIICNEEFDSIP 58
>pdb|2HBR|A Chain A, Crystal Structure Of Human Caspase-1 (Arg286->ala) In
Complex With 3-
[2-(2-Benzyloxycarbonylamino-3-Methyl-Butyrylamino)-
Propionylamino]- 4-Oxo-Pentanoic Acid (Z-Vad-Fmk)
pdb|2HBZ|A Chain A, Crystal Structure Of Human Caspase-1 (Arg286->ala,
Glu390->ala) In Complex With
3-[2-(2-Benzyloxycarbonylamino-3-Methyl-Butyrylamino)-
Propionylamino]-4-Oxo-Pentanoic Acid (Z-Vad-Fmk)
Length = 178
Score = 28.1 bits (61), Expect = 6.4, Method: Compositional matrix adjust.
Identities = 19/53 (35%), Positives = 30/53 (56%), Gaps = 2/53 (3%)
Query: 135 SFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFAL-ICNQVNKIIP 186
S G + +VKL L+EA + K + +++K ++ TR AL ICN+ IP
Sbjct: 7 SSGSEGNVKLCSLEEAQRIWKQKSAEIYPIMDKSSR-TRLALIICNEEFDSIP 58
>pdb|1RWK|A Chain A, Crystal Structure Of Human Caspase-1 In Complex With
3-(2-Mercapto- Acetylamino)-4-Oxo-Pentanoic Acid
pdb|1RWM|A Chain A, Crystal Structure Of Human Caspase-1 In Complex With
4-Oxo-3-[2-(5-
{[4-(Quinoxalin-2-Ylamino)-Benzoylamino]-Methyl}-
Thiophen-2-Yl)- Acetylamino]-Pentanoic Acid
pdb|1RWN|A Chain A, Crystal Structure Of Human Caspase-1 In Complex With
3-{2-Ethyl-6-[4-
(Quinoxalin-2-Ylamino)-Benzoylamino]-Hexanoylamino}-4-
Oxo-Butyric Acid
pdb|1RWO|A Chain A, Crystal Structure Of Human Caspase-1 In Complex With
4-Oxo-3-{6-[4-
(Quinoxalin-2-Ylamino)-Benzoylamino]-2-Thiophen-2-Yl-
Hexanoylamino}- Pentanoic Acid
pdb|1RWP|A Chain A, Crystal Structure Of Human Caspase-1 In Complex With
3-{6-[(8-Hydroxy-
Quinoline-2-Carbonyl)-Amino]-2-Thiophen-2-Yl-
Hexanoylamino}-4-Oxo- Butyric Acid
pdb|1RWV|A Chain A, Crystal Structure Of Human Caspase-1 In Complex With
5-[5-(1-
Carboxymethyl-2-oxo-propylcarbamoyl)-5-phenyl-
pentylsulfamoyl]-2- Hydroxy-benzoic Acid
pdb|1RWW|A Chain A, Crystal Structure Of Human Caspase-1 In Complex With
4-Oxo-3-[(6-{[4-
(Quinoxalin-2-Ylamino)-Benzoylamino]-Methyl}-Pyridine-3-
Carbonyl)- Amino]-Butyric Acid
pdb|1RWX|A Chain A, Crystal Structure Of Human Caspase-1 In Complex With
4-Oxo-3-{6-[4-
(Quinoxalin-2-Yloxy)-Benzoylamino]-2-Thiophen-2-Yl-
Hexanoylamino}- Butyric Acid
pdb|2H48|A Chain A, Crystal Structure Of Human Caspase-1 (Cys362->ala,
Cys364->ala, Cys397->ala) In Complex With
3-[2-(2-Benzyloxycarbonylamino-3-Methyl-
Butyrylamino)-Propionylamino]-4-Oxo-Pentanoic Acid
(Z-Vad-Fmk)
pdb|2HBQ|A Chain A, Crystal Structure Of Wildtype Human Caspase-1 In Complex
With 3-[2-(2-
Benzyloxycarbonylamino-3-Methyl-Butyrylamino)-
Propionylamino]-4-Oxo- Pentanoic Acid (Z-Vad-Fmk)
pdb|2HBY|A Chain A, Crystal Structure Of Human Caspase-1 (Glu390->ala) In
Complex With 3-
[2-(2-Benzyloxycarbonylamino-3-Methyl-Butyrylamino)-
Propionylamino]- 4-Oxo-Pentanoic Acid (Z-Vad-Fmk)
pdb|2H4W|A Chain A, Crystal Structure Of Human Caspase-1 (Glu390->asp) In
Complex With 3-
[2-(2-Benzyloxycarbonylamino-3-Methyl-Butyrylamino)-
Propionylamino]- 4-Oxo-Pentanoic Acid (Z-Vad-Fmk)
pdb|2H54|A Chain A, Crystal Structure Of Human Caspase-1 (Thr388->ala) In
Complex With 3-
[2-(2-Benzyloxycarbonylamino-3-Methyl-Butyrylamino)-
Propionylamino]- 4-Oxo-Pentanoic Acid (Z-Vad-Fmk)
Length = 178
Score = 28.1 bits (61), Expect = 6.5, Method: Compositional matrix adjust.
Identities = 19/53 (35%), Positives = 30/53 (56%), Gaps = 2/53 (3%)
Query: 135 SFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFAL-ICNQVNKIIP 186
S G + +VKL L+EA + K + +++K ++ TR AL ICN+ IP
Sbjct: 7 SSGSEGNVKLCSLEEAQRIWKQKSAEIYPIMDKSSR-TRLALIICNEEFDSIP 58
>pdb|3D6M|A Chain A, Crystal Structure Of Human Caspase-1 With A
Naturally-Occurring Lys319->arg Substitution In Complex
With 3-[2-(2-
Benzyloxycarbonylamino-3-Methyl-Butyrylamino)-
Propionylamino]-4-Oxo- Pentanoic Acid (Z-Vad-Fmk)
Length = 179
Score = 28.1 bits (61), Expect = 6.6, Method: Compositional matrix adjust.
Identities = 19/53 (35%), Positives = 30/53 (56%), Gaps = 2/53 (3%)
Query: 135 SFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFAL-ICNQVNKIIP 186
S G + +VKL L+EA + K + +++K ++ TR AL ICN+ IP
Sbjct: 8 SSGSEGNVKLCSLEEAQRIWKQKSAEIYPIMDKSSR-TRLALIICNEEFDSIP 59
>pdb|3D6H|A Chain A, Crystal Structure Of Human Caspase-1 With A
Naturally-Occurring Asn263->ser Substitution In Complex
With 3-[2-(2-
Benzyloxycarbonylamino-3-Methyl-Butyrylamino)-
Propionylamino]-4-Oxo- Pentanoic Acid (Z-Vad-Fmk)
Length = 179
Score = 28.1 bits (61), Expect = 6.6, Method: Compositional matrix adjust.
Identities = 19/53 (35%), Positives = 30/53 (56%), Gaps = 2/53 (3%)
Query: 135 SFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFAL-ICNQVNKIIP 186
S G + +VKL L+EA + K + +++K ++ TR AL ICN+ IP
Sbjct: 8 SSGSEGNVKLCSLEEAQRIWKQKSAEIYPIMDKSSR-TRLALIICNEEFDSIP 59
>pdb|3D6F|A Chain A, Crystal Structure Of Human Caspase-1 With A
Naturally-Occurring Arg240->gln Substitution In Complex
With 3-[2-(2-
Benzyloxycarbonylamino-3-Methyl-Butyrylamino)-
Propionylamino]-4-Oxo- Pentanoic Acid (Z-Vad-Fmk)
Length = 179
Score = 28.1 bits (61), Expect = 6.6, Method: Compositional matrix adjust.
Identities = 19/53 (35%), Positives = 30/53 (56%), Gaps = 2/53 (3%)
Query: 135 SFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFAL-ICNQVNKIIP 186
S G + +VKL L+EA + K + +++K ++ TR AL ICN+ IP
Sbjct: 8 SSGSEGNVKLCSLEEAQRIWKQKSAEIYPIMDKSSR-TRLALIICNEEFDSIP 59
>pdb|2H4Y|A Chain A, Crystal Structure Of Human Caspase-1 (Arg286->lys) In
Complex With 3-
[2-(2-Benzyloxycarbonylamino-3-Methyl-Butyrylamino)-
Propionylamino]- 4-Oxo-Pentanoic Acid (Z-Vad-Fmk)
pdb|2H51|A Chain A, Crystal Structure Of Human Caspase-1 (Glu390->asp And
Arg286->lys) In Complex With
3-[2-(2-Benzyloxycarbonylamino-3-Methyl-Butyrylamino)-
Propionylamino]-4-Oxo-Pentanoic Acid (Z-Vad-Fmk)
Length = 178
Score = 28.1 bits (61), Expect = 6.8, Method: Compositional matrix adjust.
Identities = 19/53 (35%), Positives = 30/53 (56%), Gaps = 2/53 (3%)
Query: 135 SFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFAL-ICNQVNKIIP 186
S G + +VKL L+EA + K + +++K ++ TR AL ICN+ IP
Sbjct: 7 SSGSEGNVKLCSLEEAQRIWKQKSAEIYPIMDKSSR-TRLALIICNEEFDSIP 58
>pdb|1ARO|P Chain P, T7 Rna Polymerase Complexed With T7 Lysozyme
Length = 883
Score = 28.1 bits (61), Expect = 7.3, Method: Compositional matrix adjust.
Identities = 15/59 (25%), Positives = 31/59 (52%)
Query: 180 QVNKIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRK 238
++NK + A+ + T+++ +P+E + ER + ++ E +D+ L A R RK
Sbjct: 329 KINKKVLAVANVITKWKHSPVEDIPAIEREELPMKPEDIDMNPEALTAWKRAAAAVYRK 387
>pdb|1CJC|A Chain A, Structure Of Adrenodoxin Reductase Of Mitochondrial P450
Systems
pdb|1E1L|A Chain A, Structure Of Adrenodoxin Reductase In Complex With Nadp
Obtained By Cocrystallisation
pdb|1E1K|A Chain A, Adrenodoxin Reductase In Complex With Nadp+ Obtained By A
Soaking Experiment
pdb|1E1M|A Chain A, Adrenodoxin Reductase In Complex With Nadph Obtained By A
Soaking Experiment
pdb|1E1N|A Chain A, Structure Of Adrenodoxin Reductase At 2.4 Angstrom In
Crystal Form A''
pdb|1E6E|A Chain A, Adrenodoxin ReductaseADRENODOXIN COMPLEX OF MITOCHONDRIAL
P450 Systems
pdb|1E6E|C Chain C, Adrenodoxin ReductaseADRENODOXIN COMPLEX OF MITOCHONDRIAL
P450 Systems
Length = 460
Score = 27.7 bits (60), Expect = 8.3, Method: Compositional matrix adjust.
Identities = 18/77 (23%), Positives = 36/77 (46%), Gaps = 5/77 (6%)
Query: 58 HRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRG 117
H ++ + I+ T R YG G+ T+ ++L A YH ++L A D +
Sbjct: 55 HPEVKNVINTFTQTARSDRCAFYGNVEVGRDVTV----QELQDA-YHAVVLSYGAEDHQA 109
Query: 118 IDVVRQQIQDFASTQSF 134
+D+ +++ S ++F
Sbjct: 110 LDIPGEELPGVFSARAF 126
>pdb|2CUY|A Chain A, Crystal Structure Of Malonyl Coa-acyl Carrier Protein
Transacylase From Thermus Thermophilus Hb8
pdb|2CUY|B Chain B, Crystal Structure Of Malonyl Coa-acyl Carrier Protein
Transacylase From Thermus Thermophilus Hb8
Length = 305
Score = 27.7 bits (60), Expect = 8.5, Method: Compositional matrix adjust.
Identities = 16/51 (31%), Positives = 29/51 (56%)
Query: 208 RLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMASQQITEEAV 258
RL+ E + V EG +AA+++L +++KAL L+ +A+ E+ V
Sbjct: 112 RLRGRYMQEAVPVGEGAMAAVLKLPLEEIQKALEGLEGVEIANLNAPEQTV 162
>pdb|3F9V|A Chain A, Crystal Structure Of A Near Full-Length Archaeal Mcm:
Functional Insights For An Aaa+ Hexameric Helicase
Length = 595
Score = 27.7 bits (60), Expect = 8.8, Method: Compositional matrix adjust.
Identities = 31/131 (23%), Positives = 58/131 (44%), Gaps = 8/131 (6%)
Query: 76 HLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGID--VVRQQIQDFASTQS 133
H+L+ G PGT K+ + ++R A Y S G+ VVR++ ++
Sbjct: 329 HILIIGDPGTAKSQMLQFISRVAPRAVYTTG----KGSTAAGLTAAVVREKGTGEYYLEA 384
Query: 134 FSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVNKIIPALQSRCT 193
+ V A + ++DE D M + + A+ +E+ T + A I ++N + +
Sbjct: 385 GAL-VLADGGIAVIDEIDKMRDEDRVAIHEAMEQQTVSIAKAGIVAKLNARAAVIAAGNP 443
Query: 194 RF-RFAPLEPV 203
+F R+ PV
Sbjct: 444 KFGRYISERPV 454
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
0.319 0.133 0.379
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 8,720,963
Number of Sequences: 62578
Number of extensions: 351917
Number of successful extensions: 1219
Number of sequences better than 100.0: 97
Number of HSP's better than 100.0 without gapping: 82
Number of HSP's successfully gapped in prelim test: 15
Number of HSP's that attempted gapping in prelim test: 1112
Number of HSP's gapped (non-prelim): 103
length of query: 309
length of database: 14,973,337
effective HSP length: 99
effective length of query: 210
effective length of database: 8,778,115
effective search space: 1843404150
effective search space used: 1843404150
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 51 (24.3 bits)