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= 002241
(948 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>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 = 79.3 bits (194), Expect = 1e-14, Method: Compositional matrix adjust.
Identities = 55/205 (26%), Positives = 90/205 (43%), Gaps = 41/205 (20%)
Query: 312 KVLLLCGPPGLGKTTLAHVAAKHCGYHVVEVNASDDRSSSTIENKILDVVQMNSVMA--- 368
+ +L GPPG+GKTT AH+ A+ GY ++E NASD RS + + + + + SV+
Sbjct: 78 RAAMLYGPPGIGKTTAAHLVAQELGYDILEQNASDVRSKTLLNAGVKNALDNMSVVGYFK 137
Query: 369 --------DSRPKCLVIDEIDGALGDGKGAVEVILKMVSAERKSNTAKENVAKEDQPEXX 420
+ + +++DE+DG G +G V + + RK++T
Sbjct: 138 HNEEAQNLNGKHFVIIMDEVDGMSGGDRGGVGQLAQFC---RKTST-------------- 180
Query: 421 XXXXXXXXASLLRPVICICNDLYAPALRSLRQIAKVHVFIQPSVSRVVSRLKHICNNESM 480
P+I ICN+ P +R ++ F +P + + SRL I E
Sbjct: 181 -------------PLILICNERNLPKMRPFDRVCLDIQFRRPDANSIKSRLMTIAIREKF 227
Query: 481 KTSSIALTTLAEYTECDIRSCLNTL 505
K + L + T DIR +N L
Sbjct: 228 KLDPNVIDRLIQTTRGDIRQVINLL 252
>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 = 57.8 bits (138), Expect = 3e-08, Method: Compositional matrix adjust.
Identities = 56/218 (25%), Positives = 91/218 (41%), Gaps = 41/218 (18%)
Query: 314 LLLCGPPGLGKTTLAHVAAKHC-----GYHVVEVNASDDRSSSTIENKILDVVQMNSVMA 368
LL GPPG+GKTT A A+ ++ +E+NASD+R + I K+ + + +
Sbjct: 49 LLFAGPPGVGKTTAALALARELFGENWRHNFLELNASDERGINVIREKVKEFARTKPIGG 108
Query: 369 DSRPKCLVIDEIDGALGDGKGAVEVILKMVSAERKSNTAKENVAKEDQPEXXXXXXXXXX 428
S K + +DE D D + A+ ++M S+ + + +K
Sbjct: 109 AS-FKIIFLDEADALTQDAQQALRRTMEMFSSNVRFILSCNYSSK--------------- 152
Query: 429 ASLLRPVICICNDLYAPALRSLRQIAKVHVFIQPSVSRVVSRLKHICNNESMKTSSIALT 488
++ P+ C LR IAK RL++I NE ++ + L
Sbjct: 153 --IIEPIQSRCAIFRFRPLRD-EDIAK--------------RLRYIAENEGLELTEEGLQ 195
Query: 489 TLAEYTECDIRSCLNTLQ---FLDKKKEILNVMDIGSQ 523
+ E D+R +N LQ LDKK NV + S+
Sbjct: 196 AILYIAEGDMRRAINILQAAAALDKKITDENVFMVASR 233
>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 = 48.1 bits (113), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 52/202 (25%), Positives = 82/202 (40%), Gaps = 46/202 (22%)
Query: 314 LLLCGPPGLGKTT----LA-HVAAKHCGYHVVEVNASDDRSSSTIENKILDVVQMNSVMA 368
LL GPPG GKT+ LA + K+ V+E+NASDDR + N+I D + +
Sbjct: 49 LLFYGPPGTGKTSTIVALAREIYGKNYSNMVLELNASDDRGIDVVRNQIKDFASTRQIFS 108
Query: 369 DSRPKCLVIDEIDGALGDGKGAVEVILKMVSAERKSNTAKENVAKEDQPEXXXXXXXXXX 428
K +++DE D + A+ ++ ER + +
Sbjct: 109 KGF-KLIILDEADAMTNAAQNALRRVI-----ERYTKNTR-------------------- 142
Query: 429 ASLLRPVICICNDLYA----PALRSLRQIAKVHVFIQPSVSRVVSRLKHICNNESMKTSS 484
C+ + YA PAL S + Q ++ R R+ ++ +E +K S
Sbjct: 143 -------FCVLAN-YAHKLTPALLSQCTRFRFQPLPQEAIER---RIANVLVHEKLKLSP 191
Query: 485 IALTTLAEYTECDIRSCLNTLQ 506
A L E + D+R LN LQ
Sbjct: 192 NAEKALIELSNGDMRRVLNVLQ 213
>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 = 45.8 bits (107), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 45/198 (22%), Positives = 78/198 (39%), Gaps = 38/198 (19%)
Query: 314 LLLCGPPGLGKTTLAHVAAKHCGY-----HVVEVNASDDRSSSTIENKILDVVQMNSVMA 368
LL GPPG GKT A A+ + +E+NASD+R + +KI + + + +
Sbjct: 41 LLFSGPPGTGKTATAIALARDLFGENWRDNFIEMNASDERGIDVVRHKIKEFAR-TAPIG 99
Query: 369 DSRPKCLVIDEIDGALGDGKGAVEVILKMVSAERKSNTAKENVAKEDQPEXXXXXXXXXX 428
+ K + +DE D D + A+ ++M S + + V++
Sbjct: 100 GAPFKIIFLDEADALTADAQAALRRTMEMYSKSCRFILSCNYVSR--------------- 144
Query: 429 ASLLRPVICICNDLYAPALRSLRQIAKVHVFIQPSVSRVVSRLKHICNNESMKTSSIALT 488
++ P+ C A+ + + K + RL IC E +K + L
Sbjct: 145 --IIEPIQSRC------AVFRFKPVPK---------EAMKKRLLEICEKEGVKITEDGLE 187
Query: 489 TLAEYTECDIRSCLNTLQ 506
L + D R +N LQ
Sbjct: 188 ALIYISGGDFRKAINALQ 205
>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 = 44.7 bits (104), Expect = 2e-04, Method: Composition-based stats.
Identities = 45/198 (22%), Positives = 79/198 (39%), Gaps = 38/198 (19%)
Query: 314 LLLCGPPGLGKTTLAHVAAK-----HCGYHVVEVNASDDRSSSTIENKILDVVQMNSVMA 368
LL GPPG GKT A A+ + + +E+NASD+R + +KI + + + +
Sbjct: 41 LLFSGPPGTGKTATAIALARDLFGENWRDNFIEMNASDERGIDVVRHKIKEFAR-TAPIG 99
Query: 369 DSRPKCLVIDEIDGALGDGKGAVEVILKMVSAERKSNTAKENVAKEDQPEXXXXXXXXXX 428
+ K + +DE D D + A+ ++M S + + V++
Sbjct: 100 GAPFKIIFLDEADALTADAQAALRRTMEMYSKSCRFILSCNYVSR--------------- 144
Query: 429 ASLLRPVICICNDLYAPALRSLRQIAKVHVFIQPSVSRVVSRLKHICNNESMKTSSIALT 488
++ P+ C A+ + + K + RL IC E +K + L
Sbjct: 145 --IIEPIQSRC------AVFRFKPVPK---------EAMKKRLLEICEKEGVKITEDGLE 187
Query: 489 TLAEYTECDIRSCLNTLQ 506
L + D R +N LQ
Sbjct: 188 ALIYISGGDFRKAINALQ 205
>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 = 44.7 bits (104), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 31/85 (36%), Positives = 42/85 (49%), Gaps = 6/85 (7%)
Query: 307 GPPEQKVLLLCGPPGLGKTTLAHVAAKHCGYHVVEVNASDDRSSSTIENKILDVVQMNSV 366
GPP K +LL GPPG GKT + A G ++AS S E + + V + +V
Sbjct: 115 GPP--KGILLFGPPGTGKTLIGKCIASQSGATFFSISASSLTSKWVGEGEKM-VRALFAV 171
Query: 367 MADSRPKCLVIDEIDGAL---GDGK 388
+P + IDEID L GDG+
Sbjct: 172 ARCQQPAVIFIDEIDSLLSQRGDGE 196
>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 = 44.7 bits (104), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 26/91 (28%), Positives = 45/91 (49%), Gaps = 5/91 (5%)
Query: 314 LLLCGPPGLGKTTLAHVAA-----KHCGYHVVEVNASDDRSSSTIENKILDVVQMNSVMA 368
+++ G PG+GKTT H A + V+E+NASDDR + N+I Q +
Sbjct: 45 MIISGMPGIGKTTSVHCLAHELLGRSYADGVLELNASDDRGIDVVRNQIKHFAQKKLHLP 104
Query: 369 DSRPKCLVIDEIDGALGDGKGAVEVILKMVS 399
+ K +++DE D + A+ +++ S
Sbjct: 105 PGKHKIVILDEADSMTAGAQQALRRTMELYS 135
>pdb|2RKO|A Chain A, Crystal Structure Of The Vps4p-Dimer
Length = 331
Score = 43.5 bits (101), Expect = 6e-04, Method: Compositional matrix adjust.
Identities = 28/81 (34%), Positives = 43/81 (53%), Gaps = 2/81 (2%)
Query: 314 LLLCGPPGLGKTTLAHVAAKHCGYHVVEVNASDDRSSSTIENKILDVVQMNSVMADSRPK 373
+LL GPPG GK+ LA A V++SD S E++ L V Q+ ++ +++P
Sbjct: 63 ILLYGPPGTGKSYLAKAVATEANSTFFSVSSSDLVSKWMGESEKL-VKQLFAMARENKPS 121
Query: 374 CLVIDEIDGALGD-GKGAVEV 393
+ IDE+D G G+G E
Sbjct: 122 IIFIDEVDALTGTRGEGESEA 142
>pdb|3EIE|A Chain A, Crystal Structure Of S.Cerevisiae Vps4 In The So4-Bound
State
Length = 322
Score = 42.4 bits (98), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 27/81 (33%), Positives = 43/81 (53%), Gaps = 2/81 (2%)
Query: 314 LLLCGPPGLGKTTLAHVAAKHCGYHVVEVNASDDRSSSTIENKILDVVQMNSVMADSRPK 373
+LL GPPG GK+ LA A V++SD S E++ L V Q+ ++ +++P
Sbjct: 54 ILLYGPPGTGKSYLAKAVATEANSTFFSVSSSDLVSKWMGESEKL-VKQLFAMARENKPS 112
Query: 374 CLVIDEIDGALGD-GKGAVEV 393
+ ID++D G G+G E
Sbjct: 113 IIFIDQVDALTGTRGEGESEA 133
>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 = 42.4 bits (98), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 27/81 (33%), Positives = 43/81 (53%), Gaps = 2/81 (2%)
Query: 314 LLLCGPPGLGKTTLAHVAAKHCGYHVVEVNASDDRSSSTIENKILDVVQMNSVMADSRPK 373
+LL GPPG GK+ LA A V++SD S E++ L V Q+ ++ +++P
Sbjct: 87 ILLYGPPGTGKSYLAKAVATEANSTFFSVSSSDLVSKWMGESEKL-VKQLFAMARENKPS 145
Query: 374 CLVIDEIDGALGD-GKGAVEV 393
+ ID++D G G+G E
Sbjct: 146 IIFIDQVDALTGTRGEGESEA 166
>pdb|3B9P|A Chain A, Spastin
Length = 297
Score = 42.4 bits (98), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 25/70 (35%), Positives = 36/70 (51%), Gaps = 1/70 (1%)
Query: 312 KVLLLCGPPGLGKTTLAHVAAKHCGYHVVEVNASDDRSSSTIENKILDVVQMNSVMADSR 371
K LLL GPPG GKT LA A C + ++A+ S + + L V + +V +
Sbjct: 55 KGLLLFGPPGNGKTLLARAVATECSATFLNISAASLTSKYVGDGEKL-VRALFAVARHMQ 113
Query: 372 PKCLVIDEID 381
P + IDE+D
Sbjct: 114 PSIIFIDEVD 123
>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 = 42.0 bits (97), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 27/81 (33%), Positives = 43/81 (53%), Gaps = 2/81 (2%)
Query: 314 LLLCGPPGLGKTTLAHVAAKHCGYHVVEVNASDDRSSSTIENKILDVVQMNSVMADSRPK 373
+LL GPPG GK+ LA A V++SD S E++ L V Q+ ++ +++P
Sbjct: 72 ILLYGPPGTGKSYLAKAVATEANSTFFSVSSSDLVSKWMGESEKL-VKQLFAMARENKPS 130
Query: 374 CLVIDEIDGALGD-GKGAVEV 393
+ ID++D G G+G E
Sbjct: 131 IIFIDQVDALTGTRGEGESEA 151
>pdb|1IXS|B Chain B, Structure Of Ruvb Complexed With Ruva Domain Iii
Length = 318
Score = 40.8 bits (94), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 18/26 (69%), Positives = 20/26 (76%)
Query: 314 LLLCGPPGLGKTTLAHVAAKHCGYHV 339
LLL GPPGLGKTTLAHV A G ++
Sbjct: 41 LLLFGPPGLGKTTLAHVIAHELGVNL 66
>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 = 40.8 bits (94), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 18/26 (69%), Positives = 20/26 (76%)
Query: 314 LLLCGPPGLGKTTLAHVAAKHCGYHV 339
LLL GPPGLGKTTLAHV A G ++
Sbjct: 41 LLLFGPPGLGKTTLAHVIAHELGVNL 66
>pdb|1IXR|C Chain C, Ruva-Ruvb Complex
Length = 312
Score = 39.3 bits (90), Expect = 0.011, Method: Composition-based stats.
Identities = 18/26 (69%), Positives = 20/26 (76%)
Query: 314 LLLCGPPGLGKTTLAHVAAKHCGYHV 339
LLL GPPGLGKTTLAHV A G ++
Sbjct: 41 LLLFGPPGLGKTTLAHVIAHELGVNL 66
>pdb|1IN5|A Chain A, Thermogota Maritima Ruvb A156s Mutant
Length = 334
Score = 38.9 bits (89), Expect = 0.015, Method: Compositional matrix adjust.
Identities = 15/22 (68%), Positives = 17/22 (77%)
Query: 314 LLLCGPPGLGKTTLAHVAAKHC 335
+LL GPPGLGKTTLAH+ A
Sbjct: 54 VLLAGPPGLGKTTLAHIIASEL 75
>pdb|1IN8|A Chain A, Thermotoga Maritima Ruvb T158v
Length = 334
Score = 38.9 bits (89), Expect = 0.015, Method: Compositional matrix adjust.
Identities = 15/22 (68%), Positives = 17/22 (77%)
Query: 314 LLLCGPPGLGKTTLAHVAAKHC 335
+LL GPPGLGKTTLAH+ A
Sbjct: 54 VLLAGPPGLGKTTLAHIIASEL 75
>pdb|1IN4|A Chain A, Thermotoga Maritima Ruvb Holliday Junction Branch
Migration Motor
Length = 334
Score = 38.5 bits (88), Expect = 0.016, Method: Compositional matrix adjust.
Identities = 15/22 (68%), Positives = 17/22 (77%)
Query: 314 LLLCGPPGLGKTTLAHVAAKHC 335
+LL GPPGLGKTTLAH+ A
Sbjct: 54 VLLAGPPGLGKTTLAHIIASEL 75
>pdb|1J7K|A Chain A, Thermotoga Maritima Ruvb P216g Mutant
Length = 334
Score = 38.5 bits (88), Expect = 0.016, Method: Compositional matrix adjust.
Identities = 15/22 (68%), Positives = 17/22 (77%)
Query: 314 LLLCGPPGLGKTTLAHVAAKHC 335
+LL GPPGLGKTTLAH+ A
Sbjct: 54 VLLAGPPGLGKTTLAHIIASEL 75
>pdb|1IN7|A Chain A, Thermotoga Maritima Ruvb R170a
Length = 334
Score = 38.5 bits (88), Expect = 0.016, Method: Compositional matrix adjust.
Identities = 15/22 (68%), Positives = 17/22 (77%)
Query: 314 LLLCGPPGLGKTTLAHVAAKHC 335
+LL GPPGLGKTTLAH+ A
Sbjct: 54 VLLAGPPGLGKTTLAHIIASEL 75
>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 = 38.5 bits (88), Expect = 0.020, Method: Compositional matrix adjust.
Identities = 22/56 (39%), Positives = 28/56 (50%), Gaps = 3/56 (5%)
Query: 300 HKKTRSTGPPEQKVLLLCGPPGLGKTTLAHVAAKHCGYHVVEVNASDDRSSSTIEN 355
K T+S P +L L GPPG+GKT+LA AK G V ++ R S I
Sbjct: 100 QKLTKSLKGP---ILCLAGPPGVGKTSLAKSIAKSLGRKFVRISLGGVRDESEIRG 152
>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 = 38.1 bits (87), Expect = 0.020, Method: Compositional matrix adjust.
Identities = 44/222 (19%), Positives = 79/222 (35%), Gaps = 55/222 (24%)
Query: 314 LLLCGPPGLGKTTLAHVAAKHC------GYHVVEVNASDDRSSSTIENKILDVVQMNSVM 367
+L GPPG GKT+ K ++E+NASD+R S + K+ + ++
Sbjct: 61 MLFYGPPGTGKTSTILALTKELYGPDLMKSRILELNASDERGISIVREKVKNFARLTV-- 118
Query: 368 ADSRP-------------KCLVIDEIDGALGDGKGAVEVILKMVSAERKSNTAKENVAKE 414
S+P K +++DE D D + A+ ++ S + V +
Sbjct: 119 --SKPSKHDLENYPCPPYKIIILDEADSMTADAQSALRRTMETYSGVTRFCLICNYVTR- 175
Query: 415 DQPEXXXXXXXXXXASLLRPVICICNDLYAPALRSLRQIAKVHVFIQPSVSRVVSRLKHI 474
++ P+ C+ AL S + RL+ I
Sbjct: 176 ----------------IIDPLASQCSKFRFKAL---------------DASNAIDRLRFI 204
Query: 475 CNNESMKTSSIALTTLAEYTECDIRSCLNTLQFLDKKKEILN 516
E++K L + + + D+R + LQ K + L
Sbjct: 205 SEQENVKCDDGVLERILDISAGDLRRGITLLQSASKGAQYLG 246
>pdb|3VFD|A Chain A, Human Spastin Aaa Domain
Length = 389
Score = 38.1 bits (87), Expect = 0.021, Method: Compositional matrix adjust.
Identities = 24/71 (33%), Positives = 35/71 (49%), Gaps = 1/71 (1%)
Query: 314 LLLCGPPGLGKTTLAHVAAKHCGYHVVEVNASDDRSSSTIENKILDVVQMNSVMADSRPK 373
LLL GPPG GKT LA A ++A+ S E + L V + +V + +P
Sbjct: 151 LLLFGPPGNGKTMLAKAVAAESNATFFNISAASLTSKYVGEGEKL-VRALFAVARELQPS 209
Query: 374 CLVIDEIDGAL 384
+ ID++D L
Sbjct: 210 IIFIDQVDSLL 220
>pdb|4B4T|J Chain J, Near-Atomic Resolution Structural Model Of The Yeast 26s
Proteasome
Length = 405
Score = 38.1 bits (87), Expect = 0.024, Method: Compositional matrix adjust.
Identities = 31/95 (32%), Positives = 43/95 (45%), Gaps = 8/95 (8%)
Query: 305 STGPPEQKVLLLCGPPGLGKTTLAHVAAKHCGYHVVEVNASDDRSSSTIENKILDVVQMN 364
S G + K ++L GPPG GKT LA A H + V+ ++ E +V+
Sbjct: 176 SLGIAQPKGVILYGPPGTGKTLLARAVAHHTDCKFIRVSGAELVQKYIGEGS--RMVREL 233
Query: 365 SVMA-DSRPKCLVIDEIDG-----ALGDGKGAVEV 393
VMA + P + +DEID G G G EV
Sbjct: 234 FVMAREHAPSIIFMDEIDSIGSTRVEGSGGGDSEV 268
>pdb|1IN6|A Chain A, Thermotoga Maritima Ruvb K64r Mutant
Length = 334
Score = 37.7 bits (86), Expect = 0.031, Method: Compositional matrix adjust.
Identities = 14/22 (63%), Positives = 17/22 (77%)
Query: 314 LLLCGPPGLGKTTLAHVAAKHC 335
+LL GPPGLG+TTLAH+ A
Sbjct: 54 VLLAGPPGLGRTTLAHIIASEL 75
>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 = 37.0 bits (84), Expect = 0.056, Method: Compositional matrix adjust.
Identities = 19/55 (34%), Positives = 31/55 (56%), Gaps = 1/55 (1%)
Query: 300 HKKTRSTGPPEQKVLLLCGPPGLGKTTLAHVAAKHCG-YHVVEVNASDDRSSSTI 353
H+K ++ ++LCGPPG GKT + + A ++ Y VV +N S D ++ I
Sbjct: 1037 HEKIFYDLLNSKRGIILCGPPGSGKTMIMNNALRNSSLYDVVGINFSKDTTTEHI 1091
>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 = 37.0 bits (84), Expect = 0.058, Method: Compositional matrix adjust.
Identities = 19/55 (34%), Positives = 31/55 (56%), Gaps = 1/55 (1%)
Query: 300 HKKTRSTGPPEQKVLLLCGPPGLGKTTLAHVAAKHCG-YHVVEVNASDDRSSSTI 353
H+K ++ ++LCGPPG GKT + + A ++ Y VV +N S D ++ I
Sbjct: 1256 HEKIFYDLLNSKRGIILCGPPGSGKTMIMNNALRNSSLYDVVGINFSKDTTTEHI 1310
>pdb|4B4T|L Chain L, Near-Atomic Resolution Structural Model Of The Yeast 26s
Proteasome
Length = 437
Score = 36.2 bits (82), Expect = 0.079, Method: Compositional matrix adjust.
Identities = 25/78 (32%), Positives = 37/78 (47%), Gaps = 3/78 (3%)
Query: 308 PPEQKVLLLCGPPGLGKTTLAHVAAKHCGYHVVEVNASDDRSSSTIENKILDVVQMNSVM 367
PP K +LL GPPG GKT LA A G + + AS E+ + + +M +
Sbjct: 214 PP--KGVLLYGPPGTGKTLLAKAVAATIGANFIFSPASGIVDKYIGESARI-IREMFAYA 270
Query: 368 ADSRPKCLVIDEIDGALG 385
+ P + +DE+D G
Sbjct: 271 KEHEPCIIFMDEVDAIGG 288
>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 = 36.2 bits (82), Expect = 0.086, Method: Compositional matrix adjust.
Identities = 28/82 (34%), Positives = 39/82 (47%), Gaps = 8/82 (9%)
Query: 312 KVLLLCGPPGLGKTTLAHVAAKHCGYHVVEVNASD--DRSSSTIENKILDVVQMNSVMAD 369
K +LL GPPG GKT LA A ++ SD + ++ D+ A
Sbjct: 50 KGILLVGPPGTGKTLLARAVAGEANVPFFHISGSDFVELFVGVGAARVRDLF----AQAK 105
Query: 370 SRPKCLV-IDEIDGALGDGKGA 390
+ C+V IDEID A+G +GA
Sbjct: 106 AHAPCIVFIDEID-AVGRHRGA 126
>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 = 35.8 bits (81), Expect = 0.10, Method: Compositional matrix adjust.
Identities = 22/72 (30%), Positives = 32/72 (44%)
Query: 314 LLLCGPPGLGKTTLAHVAAKHCGYHVVEVNASDDRSSSTIENKILDVVQMNSVMADSRPK 373
+LL GPPG GK+ LA A +S D S + V + + +++P
Sbjct: 170 ILLFGPPGTGKSYLAKAVATEANNSTFFSISSSDLVSKWLGESEKLVKNLFQLARENKPS 229
Query: 374 CLVIDEIDGALG 385
+ IDEID G
Sbjct: 230 IIFIDEIDSLCG 241
>pdb|1XWI|A Chain A, Crystal Structure Of Vps4b
Length = 322
Score = 35.8 bits (81), Expect = 0.12, Method: Compositional matrix adjust.
Identities = 22/72 (30%), Positives = 32/72 (44%)
Query: 314 LLLCGPPGLGKTTLAHVAAKHCGYHVVEVNASDDRSSSTIENKILDVVQMNSVMADSRPK 373
+LL GPPG GK+ LA A +S D S + V + + +++P
Sbjct: 48 ILLFGPPGTGKSYLAKAVATEANNSTFFSISSSDLVSKWLGESEKLVKNLFQLARENKPS 107
Query: 374 CLVIDEIDGALG 385
+ IDEID G
Sbjct: 108 IIFIDEIDSLCG 119
>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 = 35.4 bits (80), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 15/31 (48%), Positives = 21/31 (67%)
Query: 314 LLLCGPPGLGKTTLAHVAAKHCGYHVVEVNA 344
++L GPPG GKTTLA V A++ V ++A
Sbjct: 53 MILWGPPGTGKTTLAEVIARYANADVERISA 83
>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 = 35.4 bits (80), Expect = 0.14, Method: Composition-based stats.
Identities = 35/111 (31%), Positives = 46/111 (41%), Gaps = 10/111 (9%)
Query: 308 PPEQKVLLLCGPPGLGKTTLAHVAAKHCGYHVVEVNASDDRSSSTIENKILDVVQMNSVM 367
PP K +LL GPPG GKT LA A + V S+ E L V + +
Sbjct: 50 PP--KGILLYGPPGTGKTLLAKAVATETNATFIRVVGSELVKKFIGEGASL-VKDIFKLA 106
Query: 368 ADSRPKCLVIDEIDG-------ALGDGKGAVEVILKMVSAERKSNTAKENV 411
+ P + IDEID AL G V+ L + AE A+ +V
Sbjct: 107 KEKAPSIIFIDEIDAIAAKRTDALTGGDREVQRTLMQLLAEMDGFDARGDV 157
>pdb|2DHR|A Chain A, Whole Cytosolic Region Of Atp-Dependent Metalloprotease
Ftsh (G399l)
pdb|2DHR|B Chain B, Whole Cytosolic Region Of Atp-Dependent Metalloprotease
Ftsh (G399l)
pdb|2DHR|C Chain C, Whole Cytosolic Region Of Atp-Dependent Metalloprotease
Ftsh (G399l)
pdb|2DHR|D Chain D, Whole Cytosolic Region Of Atp-Dependent Metalloprotease
Ftsh (G399l)
pdb|2DHR|E Chain E, Whole Cytosolic Region Of Atp-Dependent Metalloprotease
Ftsh (G399l)
pdb|2DHR|F Chain F, Whole Cytosolic Region Of Atp-Dependent Metalloprotease
Ftsh (G399l)
Length = 499
Score = 35.4 bits (80), Expect = 0.14, Method: Compositional matrix adjust.
Identities = 26/81 (32%), Positives = 39/81 (48%), Gaps = 6/81 (7%)
Query: 312 KVLLLCGPPGLGKTTLAHVAAKHCGYHVVEVNASD--DRSSSTIENKILDVVQMNSVMAD 369
K +LL GPPG+GKT LA A + + SD + ++ D+ + A
Sbjct: 65 KGVLLVGPPGVGKTHLARAVAGEARVPFITASGSDFVEMFVGVGAARVRDLFETAKRHA- 123
Query: 370 SRPKCLVIDEIDGALGDGKGA 390
P + IDEID A+G +G+
Sbjct: 124 --PCIVFIDEID-AVGRKRGS 141
>pdb|2X8A|A Chain A, Human Nuclear Valosin Containing Protein Like (Nvl), C-
Terminal Aaa-Atpase Domain
Length = 274
Score = 35.0 bits (79), Expect = 0.17, Method: Compositional matrix adjust.
Identities = 22/69 (31%), Positives = 33/69 (47%), Gaps = 1/69 (1%)
Query: 314 LLLCGPPGLGKTTLAHVAAKHCGYHVVEVNASDDRSSSTIENKILDVVQMNSVMADSRPK 373
+LL GPPG GKT LA A G + + V + + E++ V Q+ +S P
Sbjct: 47 VLLAGPPGCGKTLLAKAVANESGLNFISVKGPELLNMYVGESE-RAVRQVFQRAKNSAPC 105
Query: 374 CLVIDEIDG 382
+ DE+D
Sbjct: 106 VIFFDEVDA 114
>pdb|4EIW|A Chain A, Whole Cytosolic Region Of Atp-Dependent Metalloprotease
Ftsh (G399l)
pdb|4EIW|B Chain B, Whole Cytosolic Region Of Atp-Dependent Metalloprotease
Ftsh (G399l)
pdb|4EIW|C Chain C, Whole Cytosolic Region Of Atp-Dependent Metalloprotease
Ftsh (G399l)
pdb|4EIW|D Chain D, Whole Cytosolic Region Of Atp-Dependent Metalloprotease
Ftsh (G399l)
pdb|4EIW|E Chain E, Whole Cytosolic Region Of Atp-Dependent Metalloprotease
Ftsh (G399l)
pdb|4EIW|F Chain F, Whole Cytosolic Region Of Atp-Dependent Metalloprotease
Ftsh (G399l)
Length = 508
Score = 35.0 bits (79), Expect = 0.18, Method: Compositional matrix adjust.
Identities = 26/81 (32%), Positives = 39/81 (48%), Gaps = 6/81 (7%)
Query: 312 KVLLLCGPPGLGKTTLAHVAAKHCGYHVVEVNASD--DRSSSTIENKILDVVQMNSVMAD 369
K +LL GPPG+GKT LA A + + SD + ++ D+ + A
Sbjct: 74 KGVLLVGPPGVGKTHLARAVAGEARVPFITASGSDFVEMFVGVGAARVRDLFETAKRHA- 132
Query: 370 SRPKCLVIDEIDGALGDGKGA 390
P + IDEID A+G +G+
Sbjct: 133 --PCIVFIDEID-AVGRKRGS 150
>pdb|4B4T|K Chain K, Near-Atomic Resolution Structural Model Of The Yeast 26s
Proteasome
Length = 428
Score = 34.7 bits (78), Expect = 0.23, Method: Compositional matrix adjust.
Identities = 24/76 (31%), Positives = 35/76 (46%), Gaps = 7/76 (9%)
Query: 308 PPEQKVLLLCGPPGLGKTTLAHVAAKHCGYHVVEVNASDDRSSSTIEN--KILDVVQMNS 365
PP + +LL GPPG GKT L A + VN S+ E + DV ++
Sbjct: 205 PP--RGVLLYGPPGTGKTMLVKAVANSTKAAFIRVNGSEFVHKYLGEGPRMVRDVFRLAR 262
Query: 366 VMADSRPKCLVIDEID 381
++ P + IDE+D
Sbjct: 263 ---ENAPSIIFIDEVD 275
>pdb|4B4T|H Chain H, Near-Atomic Resolution Structural Model Of The Yeast 26s
Proteasome
Length = 467
Score = 34.7 bits (78), Expect = 0.24, Method: Compositional matrix adjust.
Identities = 29/88 (32%), Positives = 38/88 (43%), Gaps = 9/88 (10%)
Query: 308 PPEQKVLLLCGPPGLGKTTLAHVAAKHCGYHVVEVNASDDRSSSTIENKILDVVQMNSVM 367
PP K +LL GPPG GKT A A + V S+ E + V+ M
Sbjct: 242 PP--KGILLYGPPGTGKTLCARAVANRTDATFIRVIGSELVQKYVGEGARM--VRELFEM 297
Query: 368 ADSRPKCLV-IDEIDGALG----DGKGA 390
A ++ C++ DEID G DG G
Sbjct: 298 ARTKKACIIFFDEIDAVGGARFDDGAGG 325
>pdb|1LV7|A Chain A, Crystal Structure Of The Aaa Domain Of Ftsh
Length = 257
Score = 34.7 bits (78), Expect = 0.24, Method: Composition-based stats.
Identities = 43/166 (25%), Positives = 64/166 (38%), Gaps = 35/166 (21%)
Query: 312 KVLLLCGPPGLGKTTLAHVAAKHCGYHVVEVNASD--DRSSSTIENKILDVVQMNSVMAD 369
K +L+ GPPG GKT LA A ++ SD + +++ D+ + A
Sbjct: 46 KGVLMVGPPGTGKTLLAKAIAGEAKVPFFTISGSDFVEMFVGVGASRVRDMFEQAKKAA- 104
Query: 370 SRPKCLVIDEID-------GALGDGKGAVEVILKMVSAERKSNTAKEN---VAKEDQPEX 419
P + IDEID LG G E L + E E +A ++P+
Sbjct: 105 --PCIIFIDEIDAVGRQRGAGLGGGHDEREQTLNQMLVEMDGFEGNEGIIVIAATNRPD- 161
Query: 420 XXXXXXXXXASLLRP-------VICICNDLYAPALRSLRQIAKVHV 458
+LLRP V+ + P +R QI KVH+
Sbjct: 162 ------VLDPALLRPGRFDRQVVVGL------PDVRGREQILKVHM 195
>pdb|1R7R|A Chain A, The Crystal Structure Of Murine P97VCP AT 3.6A
Length = 816
Score = 34.7 bits (78), Expect = 0.29, Method: Compositional matrix adjust.
Identities = 25/86 (29%), Positives = 36/86 (41%), Gaps = 13/86 (15%)
Query: 302 KTRSTGPPEQKVLLLCGPPGLGKTTLAHVAAKHCGYHVVEVNASDDRSSSTIEN-----K 356
K PP + +LL GPPG GKT +A A G +N + S E+ K
Sbjct: 231 KAIGVKPP--RGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESESNLRK 288
Query: 357 ILDVVQMNSVMADSRPKCLVIDEIDG 382
+ + N+ P + IDE+D
Sbjct: 289 AFEEAEKNA------PAIIFIDELDA 308
Score = 32.3 bits (72), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 13/33 (39%), Positives = 17/33 (51%)
Query: 312 KVLLLCGPPGLGKTTLAHVAAKHCGYHVVEVNA 344
K +L GPPG GKT LA A C + + +
Sbjct: 512 KGVLFYGPPGCGKTLLAKAIANECQANFISIKG 544
>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 = 34.3 bits (77), Expect = 0.31, Method: Compositional matrix adjust.
Identities = 25/86 (29%), Positives = 36/86 (41%), Gaps = 13/86 (15%)
Query: 302 KTRSTGPPEQKVLLLCGPPGLGKTTLAHVAAKHCGYHVVEVNASDDRSSSTIEN-----K 356
K PP + +LL GPPG GKT +A A G +N + S E+ K
Sbjct: 231 KAIGVKPP--RGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESESNLRK 288
Query: 357 ILDVVQMNSVMADSRPKCLVIDEIDG 382
+ + N+ P + IDE+D
Sbjct: 289 AFEEAEKNA------PAIIFIDELDA 308
Score = 32.3 bits (72), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 13/33 (39%), Positives = 17/33 (51%)
Query: 312 KVLLLCGPPGLGKTTLAHVAAKHCGYHVVEVNA 344
K +L GPPG GKT LA A C + + +
Sbjct: 512 KGVLFYGPPGCGKTLLAKAIANECQANFISIKG 544
>pdb|3KDS|E Chain E, Apo-ftsh Crystal Structure
pdb|3KDS|F Chain F, Apo-ftsh Crystal Structure
pdb|3KDS|G Chain G, Apo-ftsh Crystal Structure
Length = 465
Score = 34.3 bits (77), Expect = 0.35, Method: Compositional matrix adjust.
Identities = 27/82 (32%), Positives = 38/82 (46%), Gaps = 8/82 (9%)
Query: 312 KVLLLCGPPGLGKTTLAHVAAKHCGYHVVEVNASD--DRSSSTIENKILDVVQMNSVMAD 369
K +LL GPPG G T LA A ++ SD + ++ D+ A
Sbjct: 50 KGILLVGPPGTGATLLARAVAGEANVPFFHISGSDFVELFVGVGAARVRDLF----AQAK 105
Query: 370 SRPKCLV-IDEIDGALGDGKGA 390
+ C+V IDEID A+G +GA
Sbjct: 106 AHAPCIVFIDEID-AVGRHRGA 126
>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 = 33.9 bits (76), Expect = 0.42, Method: Compositional matrix adjust.
Identities = 17/37 (45%), Positives = 21/37 (56%), Gaps = 1/37 (2%)
Query: 310 EQKVLLLCGPPGLGKT-TLAHVAAKHCGYHVVEVNAS 345
E + L+LCGPPG GKT TL + VV +N S
Sbjct: 1303 EHRPLILCGPPGSGKTMTLTSTLRAFPDFEVVSLNFS 1339
>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 = 33.9 bits (76), Expect = 0.42, Method: Compositional matrix adjust.
Identities = 17/37 (45%), Positives = 21/37 (56%), Gaps = 1/37 (2%)
Query: 310 EQKVLLLCGPPGLGKT-TLAHVAAKHCGYHVVEVNAS 345
E + L+LCGPPG GKT TL + VV +N S
Sbjct: 1303 EHRPLILCGPPGSGKTMTLTSTLRAFPDFEVVSLNFS 1339
>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 = 33.9 bits (76), Expect = 0.50, Method: Compositional matrix adjust.
Identities = 25/86 (29%), Positives = 36/86 (41%), Gaps = 13/86 (15%)
Query: 302 KTRSTGPPEQKVLLLCGPPGLGKTTLAHVAAKHCGYHVVEVNASDDRSSSTIEN-----K 356
K PP + +LL GPPG GKT +A A G +N + S E+ K
Sbjct: 231 KAIGVKPP--RGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESESNLRK 288
Query: 357 ILDVVQMNSVMADSRPKCLVIDEIDG 382
+ + N+ P + IDE+D
Sbjct: 289 AFEEAEKNA------PAIIFIDELDA 308
>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 = 33.5 bits (75), Expect = 0.50, Method: Compositional matrix adjust.
Identities = 25/86 (29%), Positives = 36/86 (41%), Gaps = 13/86 (15%)
Query: 302 KTRSTGPPEQKVLLLCGPPGLGKTTLAHVAAKHCGYHVVEVNASDDRSSSTIEN-----K 356
K PP + +LL GPPG GKT +A A G +N + S E+ K
Sbjct: 231 KAIGVKPP--RGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESESNLRK 288
Query: 357 ILDVVQMNSVMADSRPKCLVIDEIDG 382
+ + N+ P + IDE+D
Sbjct: 289 AFEEAEKNA------PAIIFIDELDA 308
>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 = 33.5 bits (75), Expect = 0.51, Method: Compositional matrix adjust.
Identities = 25/86 (29%), Positives = 36/86 (41%), Gaps = 13/86 (15%)
Query: 302 KTRSTGPPEQKVLLLCGPPGLGKTTLAHVAAKHCGYHVVEVNASDDRSSSTIEN-----K 356
K PP + +LL GPPG GKT +A A G +N + S E+ K
Sbjct: 231 KAIGVKPP--RGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESESNLRK 288
Query: 357 ILDVVQMNSVMADSRPKCLVIDEIDG 382
+ + N+ P + IDE+D
Sbjct: 289 AFEEAEKNA------PAIIFIDELDA 308
>pdb|1IXZ|A Chain A, Crystal Structure Of The Ftsh Atpase Domain From Thermus
Thermophilus
pdb|1IY0|A Chain A, Crystal Structure Of The Ftsh Atpase Domain With Amp-Pnp
From Thermus Thermophilus
pdb|1IY1|A Chain A, Crystal Structure Of The Ftsh Atpase Domain With Adp From
Thermus Thermophilus
Length = 254
Score = 33.5 bits (75), Expect = 0.51, Method: Composition-based stats.
Identities = 45/169 (26%), Positives = 69/169 (40%), Gaps = 33/169 (19%)
Query: 312 KVLLLCGPPGLGKTTLAHVAAKHCGYHVVEVNASD--DRSSSTIENKILDVVQMNSVMAD 369
K +LL GPPG+GKT LA A + + SD + ++ D+ + A
Sbjct: 50 KGVLLVGPPGVGKTHLARAVAGEARVPFITASGSDFVEMFVGVGAARVRDLFE----TAK 105
Query: 370 SRPKCLV-IDEIDG-------ALGDGKGAVEVILKMVSAER---KSNTAKENVAKEDQPE 418
C+V IDEID +G G E L + E + +TA +A ++P+
Sbjct: 106 RHAPCIVFIDEIDAVGRKRGSGVGGGNDEREQTLNQLLVEMDGFEKDTAIVVMAATNRPD 165
Query: 419 XXXXXXXXXXASLLRP-----VICICNDLYAPALRSLRQIAKVHVFIQP 462
+LLRP I I AP ++ QI ++H +P
Sbjct: 166 -------ILDPALLRPGRFDRQIAI----DAPDVKGREQILRIHARGKP 203
>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 = 33.5 bits (75), Expect = 0.52, Method: Compositional matrix adjust.
Identities = 25/86 (29%), Positives = 36/86 (41%), Gaps = 13/86 (15%)
Query: 302 KTRSTGPPEQKVLLLCGPPGLGKTTLAHVAAKHCGYHVVEVNASDDRSSSTIEN-----K 356
K PP + +LL GPPG GKT +A A G +N + S E+ K
Sbjct: 231 KAIGVKPP--RGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESESNLRK 288
Query: 357 ILDVVQMNSVMADSRPKCLVIDEIDG 382
+ + N+ P + IDE+D
Sbjct: 289 AFEEAEKNA------PAIIFIDELDA 308
>pdb|1IY2|A Chain A, Crystal Structure Of The Ftsh Atpase Domain From Thermus
Thermophilus
Length = 278
Score = 33.5 bits (75), Expect = 0.57, Method: Composition-based stats.
Identities = 45/169 (26%), Positives = 69/169 (40%), Gaps = 33/169 (19%)
Query: 312 KVLLLCGPPGLGKTTLAHVAAKHCGYHVVEVNASD--DRSSSTIENKILDVVQMNSVMAD 369
K +LL GPPG+GKT LA A + + SD + ++ D+ + A
Sbjct: 74 KGVLLVGPPGVGKTHLARAVAGEARVPFITASGSDFVEMFVGVGAARVRDLFE----TAK 129
Query: 370 SRPKCLV-IDEIDG-------ALGDGKGAVEVILKMVSAER---KSNTAKENVAKEDQPE 418
C+V IDEID +G G E L + E + +TA +A ++P+
Sbjct: 130 RHAPCIVFIDEIDAVGRKRGSGVGGGNDEREQTLNQLLVEMDGFEKDTAIVVMAATNRPD 189
Query: 419 XXXXXXXXXXASLLRP-----VICICNDLYAPALRSLRQIAKVHVFIQP 462
+LLRP I I AP ++ QI ++H +P
Sbjct: 190 -------ILDPALLRPGRFDRQIAI----DAPDVKGREQILRIHARGKP 227
>pdb|3CF0|A Chain A, Structure Of D2 Subdomain Of P97VCP IN COMPLEX WITH ADP
pdb|3CF0|B Chain B, Structure Of D2 Subdomain Of P97VCP IN COMPLEX WITH ADP
pdb|3CF0|C Chain C, Structure Of D2 Subdomain Of P97VCP IN COMPLEX WITH ADP
pdb|3CF0|D Chain D, Structure Of D2 Subdomain Of P97VCP IN COMPLEX WITH ADP
pdb|3CF0|E Chain E, Structure Of D2 Subdomain Of P97VCP IN COMPLEX WITH ADP
pdb|3CF0|F Chain F, Structure Of D2 Subdomain Of P97VCP IN COMPLEX WITH ADP
pdb|3CF0|G Chain G, Structure Of D2 Subdomain Of P97VCP IN COMPLEX WITH ADP
pdb|3CF0|H Chain H, Structure Of D2 Subdomain Of P97VCP IN COMPLEX WITH ADP
pdb|3CF0|I Chain I, Structure Of D2 Subdomain Of P97VCP IN COMPLEX WITH ADP
pdb|3CF0|J Chain J, Structure Of D2 Subdomain Of P97VCP IN COMPLEX WITH ADP
pdb|3CF0|K Chain K, Structure Of D2 Subdomain Of P97VCP IN COMPLEX WITH ADP
pdb|3CF0|L Chain L, Structure Of D2 Subdomain Of P97VCP IN COMPLEX WITH ADP
pdb|3CF0|M Chain M, Structure Of D2 Subdomain Of P97VCP IN COMPLEX WITH ADP
pdb|3CF0|N Chain N, Structure Of D2 Subdomain Of P97VCP IN COMPLEX WITH ADP
Length = 301
Score = 33.1 bits (74), Expect = 0.71, Method: Compositional matrix adjust.
Identities = 20/70 (28%), Positives = 33/70 (47%), Gaps = 1/70 (1%)
Query: 312 KVLLLCGPPGLGKTTLAHVAAKHCGYHVVEVNASDDRSSSTIENKILDVVQMNSVMADSR 371
K +L GPPG GKT LA A C + + + + + E++ +V ++ +
Sbjct: 50 KGVLFYGPPGCGKTLLAKAIANECQANFISIKGPELLTMWFGESEA-NVREIFDKARQAA 108
Query: 372 PKCLVIDEID 381
P L DE+D
Sbjct: 109 PCVLFFDELD 118
>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 = 32.3 bits (72), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 14/28 (50%), Positives = 17/28 (60%)
Query: 312 KVLLLCGPPGLGKTTLAHVAAKHCGYHV 339
+ +LL GPPG GKT LA A+ G V
Sbjct: 64 RAVLLAGPPGTGKTALALAIAQELGSKV 91
>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 = 32.0 bits (71), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 14/28 (50%), Positives = 17/28 (60%)
Query: 312 KVLLLCGPPGLGKTTLAHVAAKHCGYHV 339
+ +LL GPPG GKT LA A+ G V
Sbjct: 78 RAVLLAGPPGTGKTALALAIAQELGSKV 105
>pdb|1UM8|A Chain A, Crystal Structure Of Helicobacter Pylori Clpx
Length = 376
Score = 32.0 bits (71), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 26/77 (33%), Positives = 36/77 (46%), Gaps = 13/77 (16%)
Query: 314 LLLCGPPGLGKTTLAHVAAKHCGYHVVEVNASDDRSSST--------IENKILDVVQMNS 365
+LL GP G GKT +A AKH + A D +S T +EN + ++Q +
Sbjct: 75 ILLIGPTGSGKTLMAQTLAKHLDIPI----AISDATSLTEAGYVGEDVENILTRLLQASD 130
Query: 366 VMADSRPKCLV-IDEID 381
K +V IDEID
Sbjct: 131 WNVQKAQKGIVFIDEID 147
>pdb|1N25|A Chain A, Crystal Structure Of The Sv40 Large T Antigen Helicase
Domain
pdb|1N25|B Chain B, Crystal Structure Of The Sv40 Large T Antigen Helicase
Domain
Length = 368
Score = 32.0 bits (71), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 16/40 (40%), Positives = 21/40 (52%)
Query: 309 PEQKVLLLCGPPGLGKTTLAHVAAKHCGYHVVEVNASDDR 348
P+++ L GP GKTTLA + CG + VN DR
Sbjct: 158 PKKRYWLFKGPIDSGKTTLAAALLELCGGKALNVNLPLDR 197
>pdb|4E2I|A Chain A, The Complex Structure Of The Sv40 Helicase Large T Antigen
And P68 Subunit Of Dna Polymerase Alpha-Primase
pdb|4E2I|B Chain B, The Complex Structure Of The Sv40 Helicase Large T Antigen
And P68 Subunit Of Dna Polymerase Alpha-Primase
pdb|4E2I|C Chain C, The Complex Structure Of The Sv40 Helicase Large T Antigen
And P68 Subunit Of Dna Polymerase Alpha-Primase
pdb|4E2I|D Chain D, The Complex Structure Of The Sv40 Helicase Large T Antigen
And P68 Subunit Of Dna Polymerase Alpha-Primase
pdb|4E2I|E Chain E, The Complex Structure Of The Sv40 Helicase Large T Antigen
And P68 Subunit Of Dna Polymerase Alpha-Primase
pdb|4E2I|F Chain F, The Complex Structure Of The Sv40 Helicase Large T Antigen
And P68 Subunit Of Dna Polymerase Alpha-Primase
pdb|4E2I|G Chain G, The Complex Structure Of The Sv40 Helicase Large T Antigen
And P68 Subunit Of Dna Polymerase Alpha-Primase
pdb|4E2I|H Chain H, The Complex Structure Of The Sv40 Helicase Large T Antigen
And P68 Subunit Of Dna Polymerase Alpha-Primase
pdb|4E2I|I Chain I, The Complex Structure Of The Sv40 Helicase Large T Antigen
And P68 Subunit Of Dna Polymerase Alpha-Primase
pdb|4E2I|J Chain J, The Complex Structure Of The Sv40 Helicase Large T Antigen
And P68 Subunit Of Dna Polymerase Alpha-Primase
pdb|4E2I|K Chain K, The Complex Structure Of The Sv40 Helicase Large T Antigen
And P68 Subunit Of Dna Polymerase Alpha-Primase
pdb|4E2I|L Chain L, The Complex Structure Of The Sv40 Helicase Large T Antigen
And P68 Subunit Of Dna Polymerase Alpha-Primase
Length = 362
Score = 32.0 bits (71), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 16/40 (40%), Positives = 21/40 (52%)
Query: 309 PEQKVLLLCGPPGLGKTTLAHVAAKHCGYHVVEVNASDDR 348
P+++ L GP GKTTLA + CG + VN DR
Sbjct: 152 PKKRYWLFKGPIDSGKTTLAAALLELCGGKALNVNLPLDR 191
>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 = 32.0 bits (71), Expect = 1.8, Method: Composition-based stats.
Identities = 31/90 (34%), Positives = 42/90 (46%), Gaps = 16/90 (17%)
Query: 312 KVLLLCGPPGLGKTTLAHVAAKHCGYHVVEVNASDDRSSSTIE-------NKILDVVQMN 364
K +LL GPPG GKT LA A HV + SS IE +++ D+ +
Sbjct: 45 KGVLLVGPPGTGKTLLAKAVAGEA--HVPFFSMG---GSSFIEMFVGLGASRVRDLFETA 99
Query: 365 SVMADSRPKCLVIDEIDGALGDGKGAVEVI 394
A P + IDEID A+G + A V+
Sbjct: 100 KKQA---PSIIFIDEID-AIGKSRAAGGVV 125
>pdb|2H1L|A Chain A, The Structure Of The Oncoprotein Sv40 Large T Antigen And
P53 Tumor Suppressor Complex
pdb|2H1L|B Chain B, The Structure Of The Oncoprotein Sv40 Large T Antigen And
P53 Tumor Suppressor Complex
pdb|2H1L|C Chain C, The Structure Of The Oncoprotein Sv40 Large T Antigen And
P53 Tumor Suppressor Complex
pdb|2H1L|D Chain D, The Structure Of The Oncoprotein Sv40 Large T Antigen And
P53 Tumor Suppressor Complex
pdb|2H1L|E Chain E, The Structure Of The Oncoprotein Sv40 Large T Antigen And
P53 Tumor Suppressor Complex
pdb|2H1L|F Chain F, The Structure Of The Oncoprotein Sv40 Large T Antigen And
P53 Tumor Suppressor Complex
pdb|2H1L|G Chain G, The Structure Of The Oncoprotein Sv40 Large T Antigen And
P53 Tumor Suppressor Complex
pdb|2H1L|H Chain H, The Structure Of The Oncoprotein Sv40 Large T Antigen And
P53 Tumor Suppressor Complex
pdb|2H1L|I Chain I, The Structure Of The Oncoprotein Sv40 Large T Antigen And
P53 Tumor Suppressor Complex
pdb|2H1L|J Chain J, The Structure Of The Oncoprotein Sv40 Large T Antigen And
P53 Tumor Suppressor Complex
pdb|2H1L|K Chain K, The Structure Of The Oncoprotein Sv40 Large T Antigen And
P53 Tumor Suppressor Complex
pdb|2H1L|L Chain L, The Structure Of The Oncoprotein Sv40 Large T Antigen And
P53 Tumor Suppressor Complex
Length = 370
Score = 32.0 bits (71), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 16/40 (40%), Positives = 21/40 (52%)
Query: 309 PEQKVLLLCGPPGLGKTTLAHVAAKHCGYHVVEVNASDDR 348
P+++ L GP GKTTLA + CG + VN DR
Sbjct: 160 PKKRYWLFKGPIDSGKTTLAAALLELCGGKALNVNLPLDR 199
>pdb|1SVL|A Chain A, Co-Crystal Structure Of Sv40 Large T Antigen Helicase
Domain And Adp
pdb|1SVL|B Chain B, Co-Crystal Structure Of Sv40 Large T Antigen Helicase
Domain And Adp
pdb|1SVL|C Chain C, Co-Crystal Structure Of Sv40 Large T Antigen Helicase
Domain And Adp
pdb|1SVM|A Chain A, Co-Crystal Structure Of Sv40 Large T Antigen Helicase
Domain And Atp
pdb|1SVM|B Chain B, Co-Crystal Structure Of Sv40 Large T Antigen Helicase
Domain And Atp
pdb|1SVM|C Chain C, Co-Crystal Structure Of Sv40 Large T Antigen Helicase
Domain And Atp
pdb|1SVM|D Chain D, Co-Crystal Structure Of Sv40 Large T Antigen Helicase
Domain And Atp
pdb|1SVM|E Chain E, Co-Crystal Structure Of Sv40 Large T Antigen Helicase
Domain And Atp
pdb|1SVM|F Chain F, Co-Crystal Structure Of Sv40 Large T Antigen Helicase
Domain And Atp
pdb|1SVO|A Chain A, Structure Of Sv40 Large T Antigen Helicase Domain
pdb|1SVO|B Chain B, Structure Of Sv40 Large T Antigen Helicase Domain
Length = 377
Score = 31.6 bits (70), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 16/40 (40%), Positives = 21/40 (52%)
Query: 309 PEQKVLLLCGPPGLGKTTLAHVAAKHCGYHVVEVNASDDR 348
P+++ L GP GKTTLA + CG + VN DR
Sbjct: 167 PKKRYWLFKGPIDSGKTTLAAALLELCGGKALNVNLPLDR 206
>pdb|2I3B|A Chain A, Solution Structure Of A Human Cancer-Related Nucleoside
Triphosphatase
Length = 189
Score = 30.8 bits (68), Expect = 3.7, Method: Composition-based stats.
Identities = 12/20 (60%), Positives = 16/20 (80%)
Query: 314 LLLCGPPGLGKTTLAHVAAK 333
+ L GPPG+GKTTL H A++
Sbjct: 4 VFLTGPPGVGKTTLIHKASE 23
>pdb|4EUN|A Chain A, Crystal Structure Of A Sugar Kinase (Target Efi-502144
From Janibacter Sp. Htcc2649), Unliganded Structure
Length = 200
Score = 29.6 bits (65), Expect = 7.4, Method: Composition-based stats.
Identities = 16/39 (41%), Positives = 22/39 (56%), Gaps = 1/39 (2%)
Query: 306 TGPPEQKVLLLCGPPGLGKTTLAHVAAKHCGYHVVEVNA 344
TG P + V+++ G G GKTT+AH A G E +A
Sbjct: 25 TGEPTRHVVVM-GVSGSGKTTIAHGVADETGLEFAEADA 62
>pdb|1NSF|A Chain A, D2 Hexamerization Domain Of N-Ethylmaleimide Sensitive
Factor (Nsf)
Length = 273
Score = 29.6 bits (65), Expect = 8.2, Method: Compositional matrix adjust.
Identities = 18/68 (26%), Positives = 34/68 (50%)
Query: 314 LLLCGPPGLGKTTLAHVAAKHCGYHVVEVNASDDRSSSTIENKILDVVQMNSVMADSRPK 373
+LL GPP GKT LA A+ + +++ + D + K + ++ S+
Sbjct: 66 VLLEGPPHSGKTALAAKIAEESNFPFIKICSPDKMIGFSETAKCQAMKKIFDDAYKSQLS 125
Query: 374 CLVIDEID 381
C+V+D+I+
Sbjct: 126 CVVVDDIE 133
>pdb|1D2N|A Chain A, D2 Domain Of N-Ethylmaleimide-Sensitive Fusion Protein
Length = 272
Score = 29.6 bits (65), Expect = 8.7, Method: Compositional matrix adjust.
Identities = 18/68 (26%), Positives = 34/68 (50%)
Query: 314 LLLCGPPGLGKTTLAHVAAKHCGYHVVEVNASDDRSSSTIENKILDVVQMNSVMADSRPK 373
+LL GPP GKT LA A+ + +++ + D + K + ++ S+
Sbjct: 67 VLLEGPPHSGKTALAAKIAEESNFPFIKICSPDKMIGFSETAKCQAMKKIFDDAYKSQLS 126
Query: 374 CLVIDEID 381
C+V+D+I+
Sbjct: 127 CVVVDDIE 134
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
0.315 0.131 0.378
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 24,146,661
Number of Sequences: 62578
Number of extensions: 916503
Number of successful extensions: 2505
Number of sequences better than 100.0: 77
Number of HSP's better than 100.0 without gapping: 41
Number of HSP's successfully gapped in prelim test: 36
Number of HSP's that attempted gapping in prelim test: 2424
Number of HSP's gapped (non-prelim): 102
length of query: 948
length of database: 14,973,337
effective HSP length: 108
effective length of query: 840
effective length of database: 8,214,913
effective search space: 6900526920
effective search space used: 6900526920
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 56 (26.2 bits)