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= psy3540
(202 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>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 = 129 bits (325), Expect = 9e-31, Method: Compositional matrix adjust.
Identities = 78/217 (35%), Positives = 116/217 (53%), Gaps = 39/217 (17%)
Query: 15 RVSTIFIDEVDSLCSMRGSDSEHEASRRFKAELLIQMDGLNSSLYEDKIIMILAATNHPW 74
+ S IFID+VD+L RG + E EASRR K ELL+QM+G+ + + + +++L ATN PW
Sbjct: 143 KPSIIFIDQVDALTGTRG-EGESEASRRIKTELLVQMNGVGN---DSQGVLVLGATNIPW 198
Query: 75 DIDEAFRRRFEKRVYIPLPNEWARYQLLTLCL-EGVVIDVNLDFHKISKMLEGYTGSDIA 133
+D A RRRFE+R+YIPLP+ AR + + + + + D+ + M EGY+GSDIA
Sbjct: 199 QLDSAIRRRFERRIYIPLPDLAARTTMFEINVGDTPSVLTKEDYRTLGAMTEGYSGSDIA 258
Query: 134 NLARDAAMMSIR------------------RKIMGQTPA------------QIKEIKQED 163
+ +DA M IR RK+ +P + E+K+ D
Sbjct: 259 VVVKDALMQPIRKIQSATHFKDVSTEDDETRKLTPSSPGDDGAIEMSWTDIEADELKEPD 318
Query: 164 IDLPVTEKDFREAIARCRKSVTAHDLSKYDSWMNEFG 200
+ T KDF +AI R +V DL K + + +FG
Sbjct: 319 L----TIKDFLKAIKSTRPTVNEDDLLKQEQFTRDFG 351
>pdb|2RKO|A Chain A, Crystal Structure Of The Vps4p-Dimer
Length = 331
Score = 129 bits (324), Expect = 1e-30, Method: Compositional matrix adjust.
Identities = 79/219 (36%), Positives = 116/219 (52%), Gaps = 39/219 (17%)
Query: 15 RVSTIFIDEVDSLCSMRGSDSEHEASRRFKAELLIQMDGLNSSLYEDKIIMILAATNHPW 74
+ S IFIDEVD+L RG + E EASRR K ELL+QM+G+ + + + +++L ATN PW
Sbjct: 119 KPSIIFIDEVDALTGTRG-EGESEASRRIKTELLVQMNGVGN---DSQGVLVLGATNIPW 174
Query: 75 DIDEAFRRRFEKRVYIPLPNEWARYQLLTLCL-EGVVIDVNLDFHKISKMLEGYTGSDIA 133
+D A RRRFE+R+YIPLP+ AR + + + + + D+ + M EGY+GSDIA
Sbjct: 175 QLDSAIRRRFERRIYIPLPDLAARTTMFEINVGDTPCVLTKEDYRTLGAMTEGYSGSDIA 234
Query: 134 NLARDAAMMSIR------------------RKIMGQTPA------------QIKEIKQED 163
+ +DA M IR RK+ +P + E+K+ D
Sbjct: 235 VVVKDALMQPIRKIQSATHFKDVSTEDDETRKLTPCSPGDDGAIEMSWTDIEADELKEPD 294
Query: 164 IDLPVTEKDFREAIARCRKSVTAHDLSKYDSWMNEFGSH 202
+ T KDF +AI R +V DL K + + +FG
Sbjct: 295 L----TIKDFLKAIKSTRPTVNEDDLLKQEQFTRDFGQE 329
>pdb|3B9P|A Chain A, Spastin
Length = 297
Score = 128 bits (321), Expect = 2e-30, Method: Compositional matrix adjust.
Identities = 82/188 (43%), Positives = 116/188 (61%), Gaps = 14/188 (7%)
Query: 17 STIFIDEVDSLCSMRGSDSEHEASRRFKAELLIQMDGLNSSLYEDKIIMILAATNHPWDI 76
S IFIDEVDSL S R S SEHEASRR K E L++ DGL + D+I+ +LAATN P ++
Sbjct: 115 SIIFIDEVDSLLSER-SSSEHEASRRLKTEFLVEFDGLPGNPDGDRIV-VLAATNRPQEL 172
Query: 77 DEAFRRRFEKRVYIPLPNEWARYQLLTLCL--EGVVIDVNLDFHKISKMLEGYTGSDIAN 134
DEA RRF KRVY+ LP+E R LL L +G +D +++K+ +GY+GSD+
Sbjct: 173 DEAALRRFTKRVYVSLPDEQTRELLLNRLLQKQGSPLDTEA-LRRLAKITDGYSGSDLTA 231
Query: 135 LARDAAMMSIRRKIMGQTPAQIKEIKQEDIDL--PVTEKDFREAIARCRKSVTAHDLSKY 192
LA+DAA+ IR ++++K DI +TE+DF ++ R R+SV L+ Y
Sbjct: 232 LAKDAALEPIRE-------LNVEQVKCLDISAMRAITEQDFHSSLKRIRRSVAPQSLNSY 284
Query: 193 DSWMNEFG 200
+ W ++G
Sbjct: 285 EKWSQDYG 292
>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 = 127 bits (320), Expect = 3e-30, Method: Compositional matrix adjust.
Identities = 78/219 (35%), Positives = 116/219 (52%), Gaps = 39/219 (17%)
Query: 15 RVSTIFIDEVDSLCSMRGSDSEHEASRRFKAELLIQMDGLNSSLYEDKIIMILAATNHPW 74
+ S IFID+VD+L RG + E EASRR K ELL+QM+G+ + + + +++L ATN PW
Sbjct: 128 KPSIIFIDQVDALTGTRG-EGESEASRRIKTELLVQMNGVGN---DSQGVLVLGATNIPW 183
Query: 75 DIDEAFRRRFEKRVYIPLPNEWARYQLLTLCL-EGVVIDVNLDFHKISKMLEGYTGSDIA 133
+D A RRRFE+R+YIPLP+ AR + + + + + D+ + M EGY+GSDIA
Sbjct: 184 QLDSAIRRRFERRIYIPLPDLAARTTMFEINVGDTPCVLTKEDYRTLGAMTEGYSGSDIA 243
Query: 134 NLARDAAMMSIR------------------RKIMGQTPA------------QIKEIKQED 163
+ +DA M IR RK+ +P + E+K+ D
Sbjct: 244 VVVKDALMQPIRKIQSATHFKDVSTEDDETRKLTPCSPGDDGAIEMSWTDIEADELKEPD 303
Query: 164 IDLPVTEKDFREAIARCRKSVTAHDLSKYDSWMNEFGSH 202
+ T KDF +AI R +V DL K + + +FG
Sbjct: 304 L----TIKDFLKAIKSTRPTVNEDDLLKQEQFTRDFGQE 338
>pdb|3EIE|A Chain A, Crystal Structure Of S.Cerevisiae Vps4 In The So4-Bound
State
Length = 322
Score = 127 bits (320), Expect = 3e-30, Method: Compositional matrix adjust.
Identities = 78/219 (35%), Positives = 116/219 (52%), Gaps = 39/219 (17%)
Query: 15 RVSTIFIDEVDSLCSMRGSDSEHEASRRFKAELLIQMDGLNSSLYEDKIIMILAATNHPW 74
+ S IFID+VD+L RG + E EASRR K ELL+QM+G+ + + + +++L ATN PW
Sbjct: 110 KPSIIFIDQVDALTGTRG-EGESEASRRIKTELLVQMNGVGN---DSQGVLVLGATNIPW 165
Query: 75 DIDEAFRRRFEKRVYIPLPNEWARYQLLTLCL-EGVVIDVNLDFHKISKMLEGYTGSDIA 133
+D A RRRFE+R+YIPLP+ AR + + + + + D+ + M EGY+GSDIA
Sbjct: 166 QLDSAIRRRFERRIYIPLPDLAARTTMFEINVGDTPCVLTKEDYRTLGAMTEGYSGSDIA 225
Query: 134 NLARDAAMMSIR------------------RKIMGQTPA------------QIKEIKQED 163
+ +DA M IR RK+ +P + E+K+ D
Sbjct: 226 VVVKDALMQPIRKIQSATHFKDVSTEDDETRKLTPCSPGDDGAIEMSWTDIEADELKEPD 285
Query: 164 IDLPVTEKDFREAIARCRKSVTAHDLSKYDSWMNEFGSH 202
+ T KDF +AI R +V DL K + + +FG
Sbjct: 286 L----TIKDFLKAIKSTRPTVNEDDLLKQEQFTRDFGQE 320
>pdb|3VFD|A Chain A, Human Spastin Aaa Domain
Length = 389
Score = 125 bits (314), Expect = 2e-29, Method: Compositional matrix adjust.
Identities = 73/187 (39%), Positives = 110/187 (58%), Gaps = 13/187 (6%)
Query: 17 STIFIDEVDSL-CSMRGSDSEHEASRRFKAELLIQMDGLNSSLYEDKIIMILAATNHPWD 75
S IFID+VDSL C R + EH+ASRR K E LI+ DG+ S+ D ++++ ATN P +
Sbjct: 209 SIIFIDQVDSLLCERR--EGEHDASRRLKTEFLIEFDGVQSA--GDDRVLVMGATNRPQE 264
Query: 76 IDEAFRRRFEKRVYIPLPNEWAR--YQLLTLCLEGVVIDVNLDFHKISKMLEGYTGSDIA 133
+DEA RRF KRVY+ LPNE R LC +G + + ++++M +GY+GSD+
Sbjct: 265 LDEAVLRRFIKRVYVSLPNEETRLLLLKNLLCKQGSPL-TQKELAQLARMTDGYSGSDLT 323
Query: 134 NLARDAAMMSIRRKIMGQTPAQIKEIKQEDIDLPVTEKDFREAIARCRKSVTAHDLSKYD 193
LA+DAA+ IR P Q+K + ++ + DF E++ + ++SV+ L Y
Sbjct: 324 ALAKDAALGPIRE----LKPEQVKNMSASEMR-NIRLSDFTESLKKIKRSVSPQTLEAYI 378
Query: 194 SWMNEFG 200
W +FG
Sbjct: 379 RWNKDFG 385
>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 = 124 bits (311), Expect = 4e-29, Method: Compositional matrix adjust.
Identities = 76/195 (38%), Positives = 107/195 (54%), Gaps = 29/195 (14%)
Query: 17 STIFIDEVDSLCSMRGSDSEHEASRRFKAELLIQMDGLNSSLYEDKIIMILAATNHPWDI 76
+ IFIDE+DSL S RG D EHE+SRR K E L+Q+DG +S ED+I +++ ATN P +I
Sbjct: 178 AVIFIDEIDSLLSQRG-DGEHESSRRIKTEFLVQLDGATTS-SEDRI-LVVGATNRPQEI 234
Query: 77 DEAFRRRFEKRVYIPLPNEWARYQLL-------TLCLEGVVIDVNLDFHKISKMLEGYTG 129
DEA RRR KR+YIPLP AR Q++ CL + +I + + ++G
Sbjct: 235 DEAARRRLVKRLYIPLPEASARKQIVINLMSKEQCCLS------EEEIEQIVQQSDAFSG 288
Query: 130 SDIANLARDAAMMSIRR----KIMGQTPAQIKEIKQEDIDLPVTEKDFREAIARCRKSVT 185
+D+ L R+A++ IR I TP Q++ P+ DF A R SV+
Sbjct: 289 ADMTQLCREASLGPIRSLQTADIATITPDQVR---------PIAYIDFENAFRTVRPSVS 339
Query: 186 AHDLSKYDSWMNEFG 200
DL Y++W FG
Sbjct: 340 PKDLELYENWNKTFG 354
>pdb|1XWI|A Chain A, Crystal Structure Of Vps4b
Length = 322
Score = 122 bits (307), Expect = 1e-28, Method: Compositional matrix adjust.
Identities = 76/220 (34%), Positives = 114/220 (51%), Gaps = 39/220 (17%)
Query: 15 RVSTIFIDEVDSLCSMRGSDSEHEASRRFKAELLIQMDGLNSSLYEDKIIMILAATNHPW 74
+ S IFIDE+DSLC R S++E EA+RR K E L+QM G+ ++ I++L ATN PW
Sbjct: 105 KPSIIFIDEIDSLCGSR-SENESEAARRIKTEFLVQMQGVG---VDNDGILVLGATNIPW 160
Query: 75 DIDEAFRRRFEKRVYIPLPNEWARYQLLTLCLEGVVID--VNLDFHKISKMLEGYTGSDI 132
+D A RRRFEKR+YIPLP AR + L L G + DF ++ + +GY+G+DI
Sbjct: 161 VLDSAIRRRFEKRIYIPLPEPHARAAMFKLHL-GTTQNSLTEADFRELGRKTDGYSGADI 219
Query: 133 ANLARDAAMMSIR--------RKIMGQ----------------TPAQIKEIKQEDIDLP- 167
+ + RDA M +R +K+ G +P I+ +D+P
Sbjct: 220 SIIVRDALMQPVRKVQSATHFKKVRGPSRADPNHLVDDLLTPCSPGDPGAIEMTWMDVPG 279
Query: 168 -------VTEKDFREAIARCRKSVTAHDLSKYDSWMNEFG 200
V+ D +++ + +V HDL K + +FG
Sbjct: 280 DKLLEPVVSMSDMLRSLSNTKPTVNEHDLLKLKKFTEDFG 319
>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 = 118 bits (296), Expect = 2e-27, Method: Compositional matrix adjust.
Identities = 74/219 (33%), Positives = 112/219 (51%), Gaps = 37/219 (16%)
Query: 15 RVSTIFIDEVDSLCSMRGSDSEHEASRRFKAELLIQMDGLNSSLYEDKIIMILAATNHPW 74
+ S IFIDE+DSLC R S++E EA+RR K E L+QM G+ ++ I++L ATN PW
Sbjct: 227 KPSIIFIDEIDSLCGSR-SENESEAARRIKTEFLVQMQGVG---VDNDGILVLGATNIPW 282
Query: 75 DIDEAFRRRFEKRVYIPLPNEWARYQLLTLCLEGVVIDVN-LDFHKISKMLEGYTGSDIA 133
+D A RRRFEKR+YIPLP AR + L L + DF ++ + +GY+G+DI+
Sbjct: 283 VLDSAIRRRFEKRIYIPLPEAHARAAMFRLHLGSTQNSLTEADFQELGRKTDGYSGADIS 342
Query: 134 NLARDAAMMSIR--------RKIMGQ----------------TPAQIKEIKQEDIDLP-- 167
+ RDA M +R +K+ G +P I+ +D+P
Sbjct: 343 IIVRDALMQPVRKVQSATHFKKVRGPSRADPNCIVNDLLTPCSPGDPGAIEMTWMDVPGD 402
Query: 168 ------VTEKDFREAIARCRKSVTAHDLSKYDSWMNEFG 200
V+ D +++ + +V DL K + +FG
Sbjct: 403 KLLEPVVSMWDMLRSLSSTKPTVNEQDLLKLKKFTEDFG 441
>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 = 85.9 bits (211), Expect = 1e-17, Method: Compositional matrix adjust.
Identities = 55/175 (31%), Positives = 97/175 (55%), Gaps = 19/175 (10%)
Query: 17 STIFIDEVDSLCSMRGSDSEHEASRRFKAELLIQMDGLNSSLYEDKIIMILAATNHPWDI 76
+ IFIDE+D++ R + E RR ++LL MDGL + ++++AATN P I
Sbjct: 299 AIIFIDELDAIAPKR-EKTHGEVERRIVSQLLTLMDGLKQRAH----VIVMAATNRPNSI 353
Query: 77 DEAFRR--RFEKRVYIPLPNEWARYQLLTLCLEGVVIDVNLDFHKISKMLEGYTGSDIAN 134
D A RR RF++ V I +P+ R ++L + + + + ++D +++ G+ G+D+A
Sbjct: 354 DPALRRFGRFDREVDIGIPDATGRLEILQIHTKNMKLADDVDLEQVANETHGHVGADLAA 413
Query: 135 LARDAAMMSIRRKIMGQTPAQIKEIKQEDID------LPVTEKDFREAIARCRKS 183
L +AA+ +IR+K+ + +++ E ID L VT DFR A+++ S
Sbjct: 414 LCSEAALQAIRKKM------DLIDLEDETIDAEVMNSLAVTMDDFRWALSQSNPS 462
>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 = 85.9 bits (211), Expect = 1e-17, Method: Compositional matrix adjust.
Identities = 55/175 (31%), Positives = 97/175 (55%), Gaps = 19/175 (10%)
Query: 17 STIFIDEVDSLCSMRGSDSEHEASRRFKAELLIQMDGLNSSLYEDKIIMILAATNHPWDI 76
+ IFIDE+D++ R + E RR ++LL MDGL + ++++AATN P I
Sbjct: 299 AIIFIDELDAIAPKR-EKTHGEVERRIVSQLLTLMDGLKQRAH----VIVMAATNRPNSI 353
Query: 77 DEAFRR--RFEKRVYIPLPNEWARYQLLTLCLEGVVIDVNLDFHKISKMLEGYTGSDIAN 134
D A RR RF++ V I +P+ R ++L + + + + ++D +++ G+ G+D+A
Sbjct: 354 DPALRRFGRFDREVDIGIPDATGRLEILQIHTKNMKLADDVDLEQVANETHGHVGADLAA 413
Query: 135 LARDAAMMSIRRKIMGQTPAQIKEIKQEDID------LPVTEKDFREAIARCRKS 183
L +AA+ +IR+K+ + +++ E ID L VT DFR A+++ S
Sbjct: 414 LCSEAALQAIRKKM------DLIDLEDETIDAEVMNSLAVTMDDFRWALSQSNPS 462
>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 = 85.9 bits (211), Expect = 1e-17, Method: Compositional matrix adjust.
Identities = 55/175 (31%), Positives = 97/175 (55%), Gaps = 19/175 (10%)
Query: 17 STIFIDEVDSLCSMRGSDSEHEASRRFKAELLIQMDGLNSSLYEDKIIMILAATNHPWDI 76
+ IFIDE+D++ R + E RR ++LL MDGL + ++++AATN P I
Sbjct: 299 AIIFIDELDAIAPKR-EKTHGEVERRIVSQLLTLMDGLKQRAH----VIVMAATNRPNSI 353
Query: 77 DEAFRR--RFEKRVYIPLPNEWARYQLLTLCLEGVVIDVNLDFHKISKMLEGYTGSDIAN 134
D A RR RF++ V I +P+ R ++L + + + + ++D +++ G+ G+D+A
Sbjct: 354 DPALRRFGRFDREVDIGIPDATGRLEILQIHTKNMKLADDVDLEQVANETHGHVGADLAA 413
Query: 135 LARDAAMMSIRRKIMGQTPAQIKEIKQEDID------LPVTEKDFREAIARCRKS 183
L +AA+ +IR+K+ + +++ E ID L VT DFR A+++ S
Sbjct: 414 LCSEAALQAIRKKM------DLIDLEDETIDAEVMNSLAVTMDDFRWALSQSNPS 462
>pdb|1R7R|A Chain A, The Crystal Structure Of Murine P97VCP AT 3.6A
Length = 816
Score = 85.5 bits (210), Expect = 2e-17, Method: Compositional matrix adjust.
Identities = 55/175 (31%), Positives = 97/175 (55%), Gaps = 19/175 (10%)
Query: 17 STIFIDEVDSLCSMRGSDSEHEASRRFKAELLIQMDGLNSSLYEDKIIMILAATNHPWDI 76
+ IFIDE+D++ R + E RR ++LL MDGL + ++++AATN P I
Sbjct: 299 AIIFIDELDAIAPKR-EKTHGEVERRIVSQLLTLMDGLKQRAH----VIVMAATNRPNSI 353
Query: 77 DEAFRR--RFEKRVYIPLPNEWARYQLLTLCLEGVVIDVNLDFHKISKMLEGYTGSDIAN 134
D A RR RF++ V I +P+ R ++L + + + + ++D +++ G+ G+D+A
Sbjct: 354 DPALRRFGRFDREVDIGIPDATGRLEILQIHTKNMKLADDVDLEQVANETHGHVGADLAA 413
Query: 135 LARDAAMMSIRRKIMGQTPAQIKEIKQEDID------LPVTEKDFREAIARCRKS 183
L +AA+ +IR+K+ + +++ E ID L VT DFR A+++ S
Sbjct: 414 LCSEAALQAIRKKM------DLIDLEDETIDAEVMNSLAVTMDDFRWALSQSNPS 462
Score = 77.4 bits (189), Expect = 5e-15, Method: Compositional matrix adjust.
Identities = 56/190 (29%), Positives = 101/190 (53%), Gaps = 16/190 (8%)
Query: 18 TIFIDEVDSLCSMRGSDSEHE--ASRRFKAELLIQMDGLNSSLYEDKIIMILAATNHPWD 75
+F DE+DS+ RG + A+ R ++L +MDG+++ K + I+ ATN P
Sbjct: 573 VLFFDELDSIAKARGGNIGDGGGAADRVINQILTEMDGMSTK----KNVFIIGATNRPDI 628
Query: 76 IDEAFRR--RFEKRVYIPLPNEWARYQLLTLCLEGVVIDVNLDFHKISKMLEGYTGSDIA 133
ID A R R ++ +YIPLP+E +R +L L + ++D ++KM G++G+D+
Sbjct: 629 IDPAILRPGRLDQLIYIPLPDEKSRVAILKANLRKSPVAKDVDLEFLAKMTNGFSGADLT 688
Query: 134 NLARDAAMMS--------IRRKIMGQTPAQIKEIKQEDIDLPVTEKDFREAIARCRKSVT 185
+ + A ++ IRR+ QT E++++D + F EA+ R+SV+
Sbjct: 689 EICQRACKLAIRESIESEIRRERERQTNPSAMEVEEDDPVPEIRRDHFEEAMRFARRSVS 748
Query: 186 AHDLSKYDSW 195
+D+ KY+ +
Sbjct: 749 DNDIRKYEMF 758
>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 = 85.5 bits (210), Expect = 2e-17, Method: Compositional matrix adjust.
Identities = 55/175 (31%), Positives = 97/175 (55%), Gaps = 19/175 (10%)
Query: 17 STIFIDEVDSLCSMRGSDSEHEASRRFKAELLIQMDGLNSSLYEDKIIMILAATNHPWDI 76
+ IFIDE+D++ R + E RR ++LL MDGL + ++++AATN P I
Sbjct: 299 AIIFIDELDAIAPKR-EKTHGEVERRIVSQLLTLMDGLKQRAH----VIVMAATNRPNSI 353
Query: 77 DEAFRR--RFEKRVYIPLPNEWARYQLLTLCLEGVVIDVNLDFHKISKMLEGYTGSDIAN 134
D A RR RF++ V I +P+ R ++L + + + + ++D +++ G+ G+D+A
Sbjct: 354 DPALRRFGRFDREVDIGIPDATGRLEILQIHTKNMKLADDVDLEQVANETHGHVGADLAA 413
Query: 135 LARDAAMMSIRRKIMGQTPAQIKEIKQEDID------LPVTEKDFREAIARCRKS 183
L +AA+ +IR+K+ + +++ E ID L VT DFR A+++ S
Sbjct: 414 LCSEAALQAIRKKM------DLIDLEDETIDAEVMNSLAVTMDDFRWALSQSNPS 462
Score = 77.4 bits (189), Expect = 5e-15, Method: Compositional matrix adjust.
Identities = 56/190 (29%), Positives = 101/190 (53%), Gaps = 16/190 (8%)
Query: 18 TIFIDEVDSLCSMRGSDSEHE--ASRRFKAELLIQMDGLNSSLYEDKIIMILAATNHPWD 75
+F DE+DS+ RG + A+ R ++L +MDG+++ K + I+ ATN P
Sbjct: 573 VLFFDELDSIAKARGGNIGDGGGAADRVINQILTEMDGMSTK----KNVFIIGATNRPDI 628
Query: 76 IDEAFRR--RFEKRVYIPLPNEWARYQLLTLCLEGVVIDVNLDFHKISKMLEGYTGSDIA 133
ID A R R ++ +YIPLP+E +R +L L + ++D ++KM G++G+D+
Sbjct: 629 IDPAILRPGRLDQLIYIPLPDEKSRVAILKANLRKSPVAKDVDLEFLAKMTNGFSGADLT 688
Query: 134 NLARDAAMMS--------IRRKIMGQTPAQIKEIKQEDIDLPVTEKDFREAIARCRKSVT 185
+ + A ++ IRR+ QT E++++D + F EA+ R+SV+
Sbjct: 689 EICQRACKLAIRESIESEIRRERERQTNPSAMEVEEDDPVPEIRRDHFEEAMRFARRSVS 748
Query: 186 AHDLSKYDSW 195
+D+ KY+ +
Sbjct: 749 DNDIRKYEMF 758
>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 = 84.7 bits (208), Expect = 3e-17, Method: Compositional matrix adjust.
Identities = 54/171 (31%), Positives = 96/171 (56%), Gaps = 19/171 (11%)
Query: 17 STIFIDEVDSLCSMRGSDSEHEASRRFKAELLIQMDGLNSSLYEDKIIMILAATNHPWDI 76
+ IFIDE+D++ R + E RR ++LL MDGL + ++++AATN P I
Sbjct: 299 AIIFIDELDAIAPKR-EKTHGEVERRIVSQLLTLMDGLKQRAH----VIVMAATNRPNSI 353
Query: 77 DEAFRR--RFEKRVYIPLPNEWARYQLLTLCLEGVVIDVNLDFHKISKMLEGYTGSDIAN 134
D A RR RF++ V I +P+ R ++L + + + + ++D +++ G+ G+D+A
Sbjct: 354 DPALRRFGRFDREVDIGIPDATGRLEILQIHTKNMKLADDVDLEQVANETHGHVGADLAA 413
Query: 135 LARDAAMMSIRRKIMGQTPAQIKEIKQEDID------LPVTEKDFREAIAR 179
L +AA+ +IR+K+ + +++ E ID L VT DFR A+++
Sbjct: 414 LCSEAALQAIRKKM------DLIDLEDETIDAEVMNSLAVTMDDFRWALSQ 458
>pdb|2X8A|A Chain A, Human Nuclear Valosin Containing Protein Like (Nvl), C-
Terminal Aaa-Atpase Domain
Length = 274
Score = 82.8 bits (203), Expect = 1e-16, Method: Compositional matrix adjust.
Identities = 61/178 (34%), Positives = 96/178 (53%), Gaps = 18/178 (10%)
Query: 18 TIFIDEVDSLCSMRGSDSEHEASRRFKAELLIQMDGLNSSLYEDKIIMILAATNHPWDID 77
IF DEVD+LC R SD E AS R +LL +MDGL + + + I+AATN P ID
Sbjct: 106 VIFFDEVDALCPRR-SDRETGASVRVVNQLLTEMDGLEAR----QQVFIMAATNRPDIID 160
Query: 78 EAFRR--RFEKRVYIPLPNEWARYQLL-TLCLEGV--VIDVNLDFHKISKML--EGYTGS 130
A R R +K +++ LP R +L T+ G +D +++ I+ L + YTG+
Sbjct: 161 PAILRPGRLDKTLFVGLPPPADRLAILKTITKNGTKPPLDADVNLEAIAGDLRCDCYTGA 220
Query: 131 DIANLARDAAMMSIRRKIMGQTPAQIKEIKQEDIDLPVTEKDFREAIARCRKSVTAHD 188
D++ L R+A++ ++R+++ Q E +L V+ K F EA + R S++ D
Sbjct: 221 DLSALVREASICALRQEMARQKSG------NEKGELKVSHKHFEEAFKKVRSSISKKD 272
>pdb|4B4T|L Chain L, Near-Atomic Resolution Structural Model Of The Yeast 26s
Proteasome
Length = 437
Score = 82.4 bits (202), Expect = 1e-16, Method: Compositional matrix adjust.
Identities = 52/132 (39%), Positives = 73/132 (55%), Gaps = 10/132 (7%)
Query: 19 IFIDEVDSLCSMR---GSDSEHEASRRFKAELLIQMDGLNSSLYEDKIIMILAATNHPWD 75
IF+DEVD++ R G+ ++ E R ELL QMDG ++ L + KIIM ATN P
Sbjct: 278 IFMDEVDAIGGRRFSEGTSADREIQRTL-MELLTQMDGFDN-LGQTKIIM---ATNRPDT 332
Query: 76 IDEAFRR--RFEKRVYIPLPNEWARYQLLTLCLEGVVIDVNLDFHKISKMLEGYTGSDIA 133
+D A R R +++V IPLPNE R ++ + V DF KM +G+ G+DI
Sbjct: 333 LDPALLRPGRLDRKVEIPLPNEAGRLEIFKIHTAKVKKTGEFDFEAAVKMSDGFNGADIR 392
Query: 134 NLARDAAMMSIR 145
N A +A +IR
Sbjct: 393 NCATEAGFFAIR 404
>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 = 77.4 bits (189), Expect = 5e-15, Method: Compositional matrix adjust.
Identities = 43/134 (32%), Positives = 81/134 (60%), Gaps = 8/134 (5%)
Query: 17 STIFIDEVDSLCSMR---GSDSEHEASRRFKAELLIQMDGLNSSLYEDKIIMILAATNHP 73
S IFIDE+D++ R G S ++ + +LL +MDG S E+ +++LAATN P
Sbjct: 105 SIIFIDEIDAIGKSRAAGGVVSGNDEREQTLNQLLAEMDGFGS---ENAPVIVLAATNRP 161
Query: 74 WDIDEAFRR--RFEKRVYIPLPNEWARYQLLTLCLEGVVIDVNLDFHKISKMLEGYTGSD 131
+D A R RF+++V + P+ R ++L + ++GV + +++ +++K+ G G+D
Sbjct: 162 EILDPALMRPGRFDRQVLVDKPDFNGRVEILKVHIKGVKLANDVNLQEVAKLTAGLAGAD 221
Query: 132 IANLARDAAMMSIR 145
+AN+ +AA+++ R
Sbjct: 222 LANIINEAALLAGR 235
>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 = 77.0 bits (188), Expect = 7e-15, Method: Compositional matrix adjust.
Identities = 56/190 (29%), Positives = 101/190 (53%), Gaps = 16/190 (8%)
Query: 18 TIFIDEVDSLCSMRGSDSEHE--ASRRFKAELLIQMDGLNSSLYEDKIIMILAATNHPWD 75
+F DE+DS+ RG + A+ R ++L +MDG+++ K + I+ ATN P
Sbjct: 111 VLFFDELDSIAKARGGNIGDGGGAADRVINQILTEMDGMSTK----KNVFIIGATNRPDI 166
Query: 76 IDEAFRR--RFEKRVYIPLPNEWARYQLLTLCLEGVVIDVNLDFHKISKMLEGYTGSDIA 133
ID A R R ++ +YIPLP+E +R +L L + ++D ++KM G++G+D+
Sbjct: 167 IDPAILRPGRLDQLIYIPLPDEKSRVAILKANLRKSPVAKDVDLEFLAKMTNGFSGADLT 226
Query: 134 NLARDAAMMS--------IRRKIMGQTPAQIKEIKQEDIDLPVTEKDFREAIARCRKSVT 185
+ + A ++ IRR+ QT E++++D + F EA+ R+SV+
Sbjct: 227 EICQRACKLAIRESIESEIRRERERQTNPSAMEVEEDDPVPEIRRDHFEEAMRFARRSVS 286
Query: 186 AHDLSKYDSW 195
+D+ KY+ +
Sbjct: 287 DNDIRKYEMF 296
>pdb|1LV7|A Chain A, Crystal Structure Of The Aaa Domain Of Ftsh
Length = 257
Score = 76.3 bits (186), Expect = 1e-14, Method: Compositional matrix adjust.
Identities = 42/131 (32%), Positives = 78/131 (59%), Gaps = 8/131 (6%)
Query: 19 IFIDEVDSLCSMRGSD--SEHEASRRFKAELLIQMDGLNSSLYEDKIIMILAATNHPWDI 76
IFIDE+D++ RG+ H+ + ++L++MDG ++ I+++AATN P +
Sbjct: 108 IFIDEIDAVGRQRGAGLGGGHDEREQTLNQMLVEMDGFEG----NEGIIVIAATNRPDVL 163
Query: 77 DEAFRR--RFEKRVYIPLPNEWARYQLLTLCLEGVVIDVNLDFHKISKMLEGYTGSDIAN 134
D A R RF+++V + LP+ R Q+L + + V + ++D I++ G++G+D+AN
Sbjct: 164 DPALLRPGRFDRQVVVGLPDVRGREQILKVHMRRVPLAPDIDAAIIARGTPGFSGADLAN 223
Query: 135 LARDAAMMSIR 145
L +AA+ + R
Sbjct: 224 LVNEAALFAAR 234
>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 = 71.6 bits (174), Expect = 2e-13, Method: Compositional matrix adjust.
Identities = 53/176 (30%), Positives = 92/176 (52%), Gaps = 29/176 (16%)
Query: 11 SNSYRVSTIFIDEVDSLCSMRGSD--SEHEASRRFKAELLIQMDGLNSSLYEDKIIMILA 68
+ ++ +FIDE+D++ RG+ H+ + +LL++MDG +S + I+++A
Sbjct: 104 AKAHAPCIVFIDEIDAVGRHRGAGLGGGHDEREQTLNQLLVEMDGFDSK----EGIIVMA 159
Query: 69 ATNHPWDIDEAFRR--RFEKRVYIPLPNEWARYQLLTLCL--EGVVIDVNLDFHKISKML 124
ATN P +D A R RF+K++ + P+ R ++L + + + DVNL+ I+K
Sbjct: 160 ATNRPDILDPALLRPGRFDKKIVVDPPDMLGRKKILEIHTRNKPLAEDVNLEI--IAKRT 217
Query: 125 EGYTGSDIANLARDAAMMSIRRKIMGQTPAQIKEIKQEDIDLPVTEKDFREAIARC 180
G+ G+D+ NL +AA+++ R E D +T KDF EAI R
Sbjct: 218 PGFVGADLENLVNEAALLAAR----------------EGRD-KITMKDFEEAIDRV 256
>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 = 71.6 bits (174), Expect = 3e-13, Method: Compositional matrix adjust.
Identities = 53/176 (30%), Positives = 92/176 (52%), Gaps = 29/176 (16%)
Query: 11 SNSYRVSTIFIDEVDSLCSMRGSD--SEHEASRRFKAELLIQMDGLNSSLYEDKIIMILA 68
+ ++ +FIDE+D++ RG+ H+ + +LL++MDG +S + I+++A
Sbjct: 104 AKAHAPCIVFIDEIDAVGRHRGAGLGGGHDEREQTLNQLLVEMDGFDSK----EGIIVMA 159
Query: 69 ATNHPWDIDEAFRR--RFEKRVYIPLPNEWARYQLLTLCL--EGVVIDVNLDFHKISKML 124
ATN P +D A R RF+K++ + P+ R ++L + + + DVNL+ I+K
Sbjct: 160 ATNRPDILDPALLRPGRFDKKIVVDPPDMLGRKKILEIHTRNKPLAEDVNLEI--IAKRT 217
Query: 125 EGYTGSDIANLARDAAMMSIRRKIMGQTPAQIKEIKQEDIDLPVTEKDFREAIARC 180
G+ G+D+ NL +AA+++ R E D +T KDF EAI R
Sbjct: 218 PGFVGADLENLVNEAALLAAR----------------EGRD-KITMKDFEEAIDRV 256
>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 = 67.4 bits (163), Expect = 5e-12, Method: Compositional matrix adjust.
Identities = 42/136 (30%), Positives = 75/136 (55%), Gaps = 14/136 (10%)
Query: 17 STIFIDEVDSLCSMR-----GSDSEHEASRRFKAELLIQMDGLNSSLYEDKIIMILAATN 71
S IFIDE+D++ + R G D E +R +LL +MDG ++ + I+ ATN
Sbjct: 112 SIIFIDEIDAIAAKRTDALTGGDRE---VQRTLMQLLAEMDGFDAR----GDVKIIGATN 164
Query: 72 HPWDIDEAFRR--RFEKRVYIPLPNEWARYQLLTLCLEGVVIDVNLDFHKISKMLEGYTG 129
P +D A R RF++ + +P P+E R ++L + + + +++ +I+KM EG G
Sbjct: 165 RPDILDPAILRPGRFDRIIEVPAPDEKGRLEILKIHTRKMNLAEDVNLEEIAKMTEGCVG 224
Query: 130 SDIANLARDAAMMSIR 145
+++ + +A M +IR
Sbjct: 225 AELKAICTEAGMNAIR 240
>pdb|4B4T|J Chain J, Near-Atomic Resolution Structural Model Of The Yeast 26s
Proteasome
Length = 405
Score = 66.6 bits (161), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 51/172 (29%), Positives = 88/172 (51%), Gaps = 18/172 (10%)
Query: 2 REVQRTNVPSNSYRVSTIFIDEVDSLCSMR--GSDSEHEASRRFKAELLIQMDGLNSSLY 59
R V+ V + + S IF+DE+DS+ S R GS +R ELL Q+DG +S
Sbjct: 228 RMVRELFVMAREHAPSIIFMDEIDSIGSTRVEGSGGGDSEVQRTMLELLNQLDGFETS-- 285
Query: 60 EDKIIMILAATNHPWDIDEAFRR--RFEKRVYIPLPNEWARYQLLTLCLEGVVIDVNLDF 117
K I I+ ATN +D A R R ++++ P P+ AR ++L + + + ++
Sbjct: 286 --KNIKIIMATNRLDILDPALLRPGRIDRKIEFPPPSVAARAEILRIHSRKMNLTRGINL 343
Query: 118 HKISKMLEGYTGSDIANLARDAAMMSIR-RKIMGQTPAQIKEIKQEDIDLPV 168
K+++ + G +G+D+ + +A M ++R R+I + QED +L V
Sbjct: 344 RKVAEKMNGCSGADVKGVCTEAGMYALRERRI---------HVTQEDFELAV 386
>pdb|4B4T|M Chain M, Near-Atomic Resolution Structural Model Of The Yeast 26s
Proteasome
Length = 434
Score = 65.1 bits (157), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 53/178 (29%), Positives = 92/178 (51%), Gaps = 31/178 (17%)
Query: 17 STIFIDEVDSLCSMRGSDSEHEASR---RFKAELLIQMDGLNSSLYEDKIIMILAATNHP 73
+ IFIDE+D++ + R DSE R R ELL Q+DG +S D + +LAATN
Sbjct: 276 TIIFIDELDAIGTKR-FDSEKSGDREVQRTMLELLNQLDGFSS----DDRVKVLAATNRV 330
Query: 74 WDIDEAFRR--RFEKRVYIPLPNEWARYQLLTLCLEGVVIDVNLDFHKISKMLEGYTGSD 131
+D A R R ++++ PLP+E +R Q+L + + D ++++ ++++ + + G+
Sbjct: 331 DVLDPALLRSGRLDRKIEFPLPSEDSRAQILQIHSRKMTTDDDINWQELARSTDEFNGAQ 390
Query: 132 IANLARDAAMMSIRRKIMGQTPAQIKEIKQEDIDLPVTEKDFREAI----ARCRKSVT 185
+ + +A M+++R GQ+ V +DF E I AR KSV+
Sbjct: 391 LKAVTVEAGMIALRN---GQS--------------SVKHEDFVEGISEVQARKSKSVS 431
>pdb|1IY2|A Chain A, Crystal Structure Of The Ftsh Atpase Domain From Thermus
Thermophilus
Length = 278
Score = 62.4 bits (150), Expect = 1e-10, Method: Compositional matrix adjust.
Identities = 37/117 (31%), Positives = 64/117 (54%), Gaps = 8/117 (6%)
Query: 19 IFIDEVDSLCSMRGSDSEHEASRRFKA--ELLIQMDGLNSSLYEDKIIMILAATNHPWDI 76
+FIDE+D++ RGS R + +LL++MDG +D I+++AATN P +
Sbjct: 136 VFIDEIDAVGRKRGSGVGGGNDEREQTLNQLLVEMDGFE----KDTAIVVMAATNRPDIL 191
Query: 77 DEAFRR--RFEKRVYIPLPNEWARYQLLTLCLEGVVIDVNLDFHKISKMLEGYTGSD 131
D A R RF++++ I P+ R Q+L + G + ++D ++K G+ G+D
Sbjct: 192 DPALLRPGRFDRQIAIDAPDVKGREQILRIHARGKPLAEDVDLALLAKRTPGFVGAD 248
>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 = 62.0 bits (149), Expect = 2e-10, Method: Compositional matrix adjust.
Identities = 37/117 (31%), Positives = 64/117 (54%), Gaps = 8/117 (6%)
Query: 19 IFIDEVDSLCSMRGSDSEHEASRRFKA--ELLIQMDGLNSSLYEDKIIMILAATNHPWDI 76
+FIDE+D++ RGS R + +LL++MDG +D I+++AATN P +
Sbjct: 112 VFIDEIDAVGRKRGSGVGGGNDEREQTLNQLLVEMDGFE----KDTAIVVMAATNRPDIL 167
Query: 77 DEAFRR--RFEKRVYIPLPNEWARYQLLTLCLEGVVIDVNLDFHKISKMLEGYTGSD 131
D A R RF++++ I P+ R Q+L + G + ++D ++K G+ G+D
Sbjct: 168 DPALLRPGRFDRQIAIDAPDVKGREQILRIHARGKPLAEDVDLALLAKRTPGFVGAD 224
>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 = 62.0 bits (149), Expect = 2e-10, Method: Compositional matrix adjust.
Identities = 37/117 (31%), Positives = 64/117 (54%), Gaps = 8/117 (6%)
Query: 19 IFIDEVDSLCSMRGSDSEHEASRRFKA--ELLIQMDGLNSSLYEDKIIMILAATNHPWDI 76
+FIDE+D++ RGS R + +LL++MDG +D I+++AATN P +
Sbjct: 136 VFIDEIDAVGRKRGSGVGGGNDEREQTLNQLLVEMDGFE----KDTAIVVMAATNRPDIL 191
Query: 77 DEAFRR--RFEKRVYIPLPNEWARYQLLTLCLEGVVIDVNLDFHKISKMLEGYTGSD 131
D A R RF++++ I P+ R Q+L + G + ++D ++K G+ G+D
Sbjct: 192 DPALLRPGRFDRQIAIDAPDVKGREQILRIHARGKPLAEDVDLALLAKRTPGFVGAD 248
>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 = 62.0 bits (149), Expect = 2e-10, Method: Compositional matrix adjust.
Identities = 37/117 (31%), Positives = 64/117 (54%), Gaps = 8/117 (6%)
Query: 19 IFIDEVDSLCSMRGSDSEHEASRRFKA--ELLIQMDGLNSSLYEDKIIMILAATNHPWDI 76
+FIDE+D++ RGS R + +LL++MDG +D I+++AATN P +
Sbjct: 127 VFIDEIDAVGRKRGSGVGGGNDEREQTLNQLLVEMDGFE----KDTAIVVMAATNRPDIL 182
Query: 77 DEAFRR--RFEKRVYIPLPNEWARYQLLTLCLEGVVIDVNLDFHKISKMLEGYTGSD 131
D A R RF++++ I P+ R Q+L + G + ++D ++K G+ G+D
Sbjct: 183 DPALLRPGRFDRQIAIDAPDVKGREQILRIHARGKPLAEDVDLALLAKRTPGFVGAD 239
>pdb|2QZ4|A Chain A, Human Paraplegin, Aaa Domain In Complex With Adp
Length = 262
Score = 58.5 bits (140), Expect = 2e-09, Method: Compositional matrix adjust.
Identities = 40/137 (29%), Positives = 81/137 (59%), Gaps = 17/137 (12%)
Query: 19 IFIDEVDSL-----CSMRG-SDSEHEASRRFKAELLIQMDGLNSSLYEDKIIMILAATNH 72
++IDE+D++ +M G S++E E + +LL++MDG+ ++ D +I +LA+TN
Sbjct: 102 VYIDEIDAVGKKRSTTMSGFSNTEEEQTLN---QLLVEMDGMGTT---DHVI-VLASTNR 154
Query: 73 PWDIDEAFRR--RFEKRVYIPLPNEWARYQLLTLCLEGVVIDVNLDFH--KISKMLEGYT 128
+D A R R ++ V+I LP R ++ L+ + + + F+ +++++ G++
Sbjct: 155 ADILDGALMRPGRLDRHVFIDLPTLQERREIFEQHLKSLKLTQSSTFYSQRLAELTPGFS 214
Query: 129 GSDIANLARDAAMMSIR 145
G+DIAN+ +AA+ + R
Sbjct: 215 GADIANICNEAALHAAR 231
>pdb|4B4T|H Chain H, Near-Atomic Resolution Structural Model Of The Yeast 26s
Proteasome
Length = 467
Score = 55.1 bits (131), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 43/174 (24%), Positives = 82/174 (47%), Gaps = 31/174 (17%)
Query: 11 SNSYRVSTIFIDEVDSLCSMR---GSDSEHEASRRFKAELLIQMDGLNSSLYEDKIIMIL 67
+ + + IF DE+D++ R G+ ++E R EL+ Q+DG + I ++
Sbjct: 298 ARTKKACIIFFDEIDAVGGARFDDGAGGDNEVQRTM-LELITQLDGFDPR----GNIKVM 352
Query: 68 AATNHPWDIDEAFRR--RFEKRVYIPLPNEWARYQLLTLCLEGVVIDVNLDFHKISKMLE 125
ATN P +D A R R +++V LP+ R + + + + ++ + + IS++
Sbjct: 353 FATNRPNTLDPALLRPGRIDRKVEFSLPDLEGRANIFRIHSKSMSVERGIRWELISRLCP 412
Query: 126 GYTGSDIANLARDAAMMSI--RRKIMGQTPAQIKEIKQEDIDLPVTEKDFREAI 177
TG+++ ++ +A M +I RRK+ TEKDF +A+
Sbjct: 413 NSTGAELRSVCTEAGMFAIRARRKV-------------------ATEKDFLKAV 447
>pdb|4B4T|I Chain I, Near-Atomic Resolution Structural Model Of The Yeast 26s
Proteasome
Length = 437
Score = 46.6 bits (109), Expect = 9e-06, Method: Compositional matrix adjust.
Identities = 38/150 (25%), Positives = 75/150 (50%), Gaps = 10/150 (6%)
Query: 17 STIFIDEVDSLCSMR---GSDSEHEASRRFKAELLIQMDGLNSSLYEDKIIMILAATNHP 73
S +FIDE+D++ + R S E E R ELL Q+DG + + K+IM ATN
Sbjct: 277 SIVFIDEIDAIGTKRYDSNSGGEREIQRTM-LELLNQLDGFDDR-GDVKVIM---ATNKI 331
Query: 74 WDIDEAFRR--RFEKRVYIPLPNEWARYQLLTLCLEGVVIDVNLDFHKISKMLEGYTGSD 131
+D A R R ++++ P+ + ++L + + + +++ + + +G+D
Sbjct: 332 ETLDPALIRPGRIDRKILFENPDLSTKKKILGIHTSKMNLSEDVNLETLVTTKDDLSGAD 391
Query: 132 IANLARDAAMMSIRRKIMGQTPAQIKEIKQ 161
I + +A ++++R + M T K+ K+
Sbjct: 392 IQAMCTEAGLLALRERRMQVTAEDFKQAKE 421
>pdb|4B4T|K Chain K, Near-Atomic Resolution Structural Model Of The Yeast 26s
Proteasome
Length = 428
Score = 46.2 bits (108), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 45/149 (30%), Positives = 70/149 (46%), Gaps = 21/149 (14%)
Query: 6 RTNVPSNSYRVSTIFIDEVDSLCSMR-----GSDSEHEASRRFKAELLIQMDGLNSSLYE 60
R N PS IFIDEVDS+ + R GSD E + R ELL QMDG + S
Sbjct: 262 RENAPS------IIFIDEVDSIATKRFDAQTGSDREVQ---RILIELLTQMDGFDQS-TN 311
Query: 61 DKIIMILAATNHPWDIDEAFRR--RFEKRVYIP-LPNEWARYQLLTLCLEGVVIDVNLDF 117
K+IM ATN +D A R R ++++ P L + R + + + D
Sbjct: 312 VKVIM---ATNRADTLDPALLRPGRLDRKIEFPSLRDRRERRLIFGTIASKMSLAPEADL 368
Query: 118 HKISKMLEGYTGSDIANLARDAAMMSIRR 146
+ + +G+ IA + ++A + ++R+
Sbjct: 369 DSLIIRNDSLSGAVIAAIMQEAGLRAVRK 397
>pdb|3MHV|C Chain C, Crystal Structure Of Vps4 And Vta1
Length = 117
Score = 39.7 bits (91), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 19/48 (39%), Positives = 28/48 (58%), Gaps = 3/48 (6%)
Query: 116 DFHKISKMLEGYTGSDIANLARDAAMMSIRRKIMGQTPAQIKEIKQED 163
D+ + M EGY+GSDIA + +DA M IR+ Q+ K++ ED
Sbjct: 27 DYRTLGAMTEGYSGSDIAVVVKDALMQPIRKI---QSATHFKDVSTED 71
>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 = 38.1 bits (87), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 29/87 (33%), Positives = 47/87 (54%), Gaps = 3/87 (3%)
Query: 107 EGVVIDV-NLDFHKISKMLEGYTGSDIANL-ARDAAMMSIRRKIMGQTPAQIKEIKQEDI 164
EG + V L +I K LEG G +IANL A + ++S RR+ + + ++KE + +
Sbjct: 126 EGAMAAVLKLPLEEIQKALEGLEGVEIANLNAPEQTVISGRRQAVEEAAERLKERRARVV 185
Query: 165 DLPVTEKDFREAIARCRKSVTAHDLSK 191
LPV+ +A RK + A DL++
Sbjct: 186 FLPVSAPFHSSLMAPARKRL-AEDLAQ 211
>pdb|3DKU|A Chain A, Crystal Structure Of Nudix Hydrolase Orf153, Ymfb, From
Escherichia Coli K-1
pdb|3DKU|B Chain B, Crystal Structure Of Nudix Hydrolase Orf153, Ymfb, From
Escherichia Coli K-1
pdb|3DKU|C Chain C, Crystal Structure Of Nudix Hydrolase Orf153, Ymfb, From
Escherichia Coli K-1
pdb|3DKU|D Chain D, Crystal Structure Of Nudix Hydrolase Orf153, Ymfb, From
Escherichia Coli K-1
pdb|3DKU|E Chain E, Crystal Structure Of Nudix Hydrolase Orf153, Ymfb, From
Escherichia Coli K-1
pdb|3DKU|F Chain F, Crystal Structure Of Nudix Hydrolase Orf153, Ymfb, From
Escherichia Coli K-1
pdb|3DKU|G Chain G, Crystal Structure Of Nudix Hydrolase Orf153, Ymfb, From
Escherichia Coli K-1
pdb|3DKU|H Chain H, Crystal Structure Of Nudix Hydrolase Orf153, Ymfb, From
Escherichia Coli K-1
pdb|3SHD|A Chain A, Crystal Structure Of Nudix Hydrolase Orf153, Ymfb, From
Escherichia Coli K-1
pdb|3SHD|B Chain B, Crystal Structure Of Nudix Hydrolase Orf153, Ymfb, From
Escherichia Coli K-1
pdb|3SHD|C Chain C, Crystal Structure Of Nudix Hydrolase Orf153, Ymfb, From
Escherichia Coli K-1
pdb|3SHD|D Chain D, Crystal Structure Of Nudix Hydrolase Orf153, Ymfb, From
Escherichia Coli K-1
pdb|3SHD|E Chain E, Crystal Structure Of Nudix Hydrolase Orf153, Ymfb, From
Escherichia Coli K-1
pdb|3SHD|F Chain F, Crystal Structure Of Nudix Hydrolase Orf153, Ymfb, From
Escherichia Coli K-1
pdb|3SHD|G Chain G, Crystal Structure Of Nudix Hydrolase Orf153, Ymfb, From
Escherichia Coli K-1
pdb|3SHD|H Chain H, Crystal Structure Of Nudix Hydrolase Orf153, Ymfb, From
Escherichia Coli K-1
pdb|3SHD|I Chain I, Crystal Structure Of Nudix Hydrolase Orf153, Ymfb, From
Escherichia Coli K-1
pdb|3SHD|J Chain J, Crystal Structure Of Nudix Hydrolase Orf153, Ymfb, From
Escherichia Coli K-1
pdb|3SHD|K Chain K, Crystal Structure Of Nudix Hydrolase Orf153, Ymfb, From
Escherichia Coli K-1
pdb|3SHD|L Chain L, Crystal Structure Of Nudix Hydrolase Orf153, Ymfb, From
Escherichia Coli K-1
Length = 153
Score = 31.6 bits (70), Expect = 0.28, Method: Compositional matrix adjust.
Identities = 19/79 (24%), Positives = 35/79 (44%)
Query: 10 PSNSYRVSTIFIDEVDSLCSMRGSDSEHEASRRFKAELLIQMDGLNSSLYEDKIIMILAA 69
P + + +F E++ +C + DS+ + R AE ++Q L S L + I +
Sbjct: 74 PDKTPFLRFLFAIELEQICPTQPHDSDIDCCRWVSAEEILQASNLRSPLVAESIRCYQSG 133
Query: 70 TNHPWDIDEAFRRRFEKRV 88
+P ++ F F K V
Sbjct: 134 QRYPLEMIGDFNWPFTKGV 152
>pdb|1AVC|A Chain A, Bovine Annexin Vi (Calcium-Bound)
Length = 673
Score = 30.8 bits (68), Expect = 0.54, Method: Compositional matrix adjust.
Identities = 25/78 (32%), Positives = 41/78 (52%), Gaps = 12/78 (15%)
Query: 33 SDSEHEASRRFKAELLIQMDGLNSSLYEDKIIMILAATNH--PWDIDEAFRRRFEKRVYI 90
S +E+ A R FKA M GL + ++ +I I+ + + DI E FR ++EK +Y
Sbjct: 251 STAEYFAERLFKA-----MKGLGTR--DNTLIRIMVSRSELDMLDIREIFRTKYEKSLYS 303
Query: 91 PLPNEWA---RYQLLTLC 105
+ N+ + + LL LC
Sbjct: 304 MIKNDTSGEYKKTLLKLC 321
>pdb|3CUX|A Chain A, Atomic Resolution Structures Of Escherichia Coli And
Bacillis Anthracis Malate Synthase A: Comparison With
Isoform G And Implications For Structure Based Drug
Design
Length = 528
Score = 28.5 bits (62), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 14/44 (31%), Positives = 23/44 (52%)
Query: 103 TLCLEGVVIDVNLDFHKISKMLEGYTGSDIANLARDAAMMSIRR 146
T+ EG+ +++++ I+ L G + I NL DAA I R
Sbjct: 407 TITEEGLRMNISVGIQYIASWLSGRGAAPIYNLMEDAATAEISR 450
>pdb|1M9I|A Chain A, Crystal Structure Of Phosphorylation-Mimicking Mutant
T356d Of Annexin Vi
Length = 672
Score = 27.7 bits (60), Expect = 4.2, Method: Compositional matrix adjust.
Identities = 25/79 (31%), Positives = 39/79 (49%), Gaps = 10/79 (12%)
Query: 33 SDSEHEASRRFKAELLIQMDGLNSSLYEDKIIMILAATNH--PWDIDEAFRRRFEKRVYI 90
S E+ A R FKA M GL + ++ +I I+ + + DI E FR ++EK +Y
Sbjct: 250 STPEYFAERLFKA-----MKGLGTR--DNTLIRIMVSRSELDMLDIREIFRTKYEKSLYS 302
Query: 91 PLPNEW-ARYQLLTLCLEG 108
+ N+ Y+ L L G
Sbjct: 303 MIKNDTSGEYKKTLLKLSG 321
>pdb|2AYT|A Chain A, The Crystal Structure Of A Protein Disulfide
Oxidoreductase From Aquifex Aeolicus
pdb|2AYT|B Chain B, The Crystal Structure Of A Protein Disulfide
Oxidoreductase From Aquifex Aeolicus
Length = 237
Score = 27.3 bits (59), Expect = 5.3, Method: Compositional matrix adjust.
Identities = 15/37 (40%), Positives = 22/37 (59%), Gaps = 1/37 (2%)
Query: 155 QIKEIKQEDIDLPVTEKDFREAIARCRKSVTAHDLSK 191
Q+KE+ Q++ PV+ K F +AI C TA +L K
Sbjct: 10 QLKELAQKEFKEPVSIKLFSQAIG-CESCQTAEELLK 45
>pdb|2YWM|A Chain A, Crystal Structure Of Glutaredoxin-Like Protein From
Aquifex Aeolicus
pdb|2YWM|B Chain B, Crystal Structure Of Glutaredoxin-Like Protein From
Aquifex Aeolicus
pdb|2YWM|C Chain C, Crystal Structure Of Glutaredoxin-Like Protein From
Aquifex Aeolicus
pdb|2YWM|D Chain D, Crystal Structure Of Glutaredoxin-Like Protein From
Aquifex Aeolicus
Length = 229
Score = 27.3 bits (59), Expect = 6.2, Method: Compositional matrix adjust.
Identities = 15/37 (40%), Positives = 22/37 (59%), Gaps = 1/37 (2%)
Query: 155 QIKEIKQEDIDLPVTEKDFREAIARCRKSVTAHDLSK 191
Q+KE+ Q++ PV+ K F +AI C TA +L K
Sbjct: 10 QLKELAQKEFKEPVSIKLFSQAIG-CESCQTAEELLK 45
Database: pdbaa
Posted date: Mar 3, 2013 10:34 PM
Number of letters in database: 14,973,337
Number of sequences in database: 62,578
Lambda K H
0.320 0.134 0.391
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,649,680
Number of Sequences: 62578
Number of extensions: 207281
Number of successful extensions: 669
Number of sequences better than 100.0: 45
Number of HSP's better than 100.0 without gapping: 35
Number of HSP's successfully gapped in prelim test: 10
Number of HSP's that attempted gapping in prelim test: 563
Number of HSP's gapped (non-prelim): 50
length of query: 202
length of database: 14,973,337
effective HSP length: 94
effective length of query: 108
effective length of database: 9,091,005
effective search space: 981828540
effective search space used: 981828540
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 49 (23.5 bits)