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= 014376
(426 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|4B4T|J Chain J, Near-Atomic Resolution Structural Model Of The Yeast 26s
Proteasome
Length = 405
Score = 82.8 bits (203), Expect = 3e-16, Method: Compositional matrix adjust.
Identities = 51/160 (31%), Positives = 84/160 (52%), Gaps = 17/160 (10%)
Query: 197 VLLHGPPGTGKTSLCKALAQKLSIRFSSRYPQCQLVEVNAHSLFSKWFSESGKLVAKLFQ 256
V+L+GPPGTGKT L +A+A + C+ + V+ L K+ E ++V +LF
Sbjct: 185 VILYGPPGTGKTLLARAVAH---------HTDCKFIRVSGAELVQKYIGEGSRMVRELF- 234
Query: 257 KIQEMVEEENNLVFVLIDEVESLAAARKAALSGSEPSDSIRVVNALLTQMDKLKSSPNVI 316
++ E+ + +DE++S+ + R SG S+ R + LL Q+D ++S N+
Sbjct: 235 ----VMAREHAPSIIFMDEIDSIGSTRVEG-SGGGDSEVQRTMLELLNQLDGFETSKNIK 289
Query: 317 ILTTSNITAAIDIAFV--DRADIKAYVGPPTLQARYEILR 354
I+ +N +D A + R D K PP++ AR EILR
Sbjct: 290 IIMATNRLDILDPALLRPGRIDRKIEFPPPSVAARAEILR 329
>pdb|2RKO|A Chain A, Crystal Structure Of The Vps4p-Dimer
Length = 331
Score = 81.3 bits (199), Expect = 9e-16, Method: Compositional matrix adjust.
Identities = 65/197 (32%), Positives = 92/197 (46%), Gaps = 29/197 (14%)
Query: 158 WESLIYESGLKQRLLHYAASALMFAEKGVNPFLVSWNRI----VLLHGPPGTGKTSLCKA 213
WE + G K+ L + F P L NR +LL+GPPGTGK+ L KA
Sbjct: 26 WEDVAGLEGAKEALKEAVILPVKF------PHLFKGNRKPTSGILLYGPPGTGKSYLAKA 79
Query: 214 LAQKLSIRFSSRYPQCQLVEVNAHSLFSKWFSESGKLVAKLFQKIQEMVEEENNLVFVLI 273
+A + + F S V++ L SKW ES KLV +LF + EN + I
Sbjct: 80 VATEANSTFFS---------VSSSDLVSKWMGESEKLVKQLF-----AMARENKPSIIFI 125
Query: 274 DEVESLAAARKAALSGSEPSDSIRVVNALLTQMDKLKS-SPNVIILTTSNITAAIDIAFV 332
DEV++L R E S R+ LL QM+ + + S V++L +NI +D A
Sbjct: 126 DEVDALTGTRGEG----ESEASRRIKTELLVQMNGVGNDSQGVLVLGATNIPWQLDSAIR 181
Query: 333 DRADIKAYVGPPTLQAR 349
R + + Y+ P L AR
Sbjct: 182 RRFERRIYIPLPDLAAR 198
>pdb|4B4T|K Chain K, Near-Atomic Resolution Structural Model Of The Yeast 26s
Proteasome
Length = 428
Score = 81.3 bits (199), Expect = 1e-15, Method: Compositional matrix adjust.
Identities = 55/174 (31%), Positives = 86/174 (49%), Gaps = 20/174 (11%)
Query: 178 ALMFAEKGVNPFLVSWNRIVLLHGPPGTGKTSLCKALAQKLSIRFSSRYPQCQLVEVNAH 237
A ++ + G++P R VLL+GPPGTGKT L KA+A F + VN
Sbjct: 195 ADLYEQIGIDP-----PRGVLLYGPPGTGKTMLVKAVANSTKAAF---------IRVNGS 240
Query: 238 SLFSKWFSESGKLVAKLFQKIQEMVEEENNLVFVLIDEVESLAAARKAALSGSEPSDSIR 297
K+ E ++V +F+ + EN + IDEV+S+A R A +GS+ + R
Sbjct: 241 EFVHKYLGEGPRMVRDVFR-----LARENAPSIIFIDEVDSIATKRFDAQTGSD-REVQR 294
Query: 298 VVNALLTQMDKLKSSPNVIILTTSNITAAIDIAFVDRADIKAYVGPPTLQARYE 351
++ LLTQMD S NV ++ +N +D A + + + P+L+ R E
Sbjct: 295 ILIELLTQMDGFDQSTNVKVIMATNRADTLDPALLRPGRLDRKIEFPSLRDRRE 348
>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 = 80.1 bits (196), Expect = 2e-15, Method: Compositional matrix adjust.
Identities = 64/197 (32%), Positives = 92/197 (46%), Gaps = 29/197 (14%)
Query: 158 WESLIYESGLKQRLLHYAASALMFAEKGVNPFLVSWNRI----VLLHGPPGTGKTSLCKA 213
WE + G K+ L + F P L NR +LL+GPPGTGK+ L KA
Sbjct: 35 WEDVAGLEGAKEALKEAVILPVKF------PHLFKGNRKPTSGILLYGPPGTGKSYLAKA 88
Query: 214 LAQKLSIRFSSRYPQCQLVEVNAHSLFSKWFSESGKLVAKLFQKIQEMVEEENNLVFVLI 273
+A + + F S V++ L SKW ES KLV +LF + EN + I
Sbjct: 89 VATEANSTFFS---------VSSSDLVSKWMGESEKLVKQLF-----AMARENKPSIIFI 134
Query: 274 DEVESLAAARKAALSGSEPSDSIRVVNALLTQMDKLKS-SPNVIILTTSNITAAIDIAFV 332
D+V++L R E S R+ LL QM+ + + S V++L +NI +D A
Sbjct: 135 DQVDALTGTRGEG----ESEASRRIKTELLVQMNGVGNDSQGVLVLGATNIPWQLDSAIR 190
Query: 333 DRADIKAYVGPPTLQAR 349
R + + Y+ P L AR
Sbjct: 191 RRFERRIYIPLPDLAAR 207
>pdb|3EIE|A Chain A, Crystal Structure Of S.Cerevisiae Vps4 In The So4-Bound
State
Length = 322
Score = 80.1 bits (196), Expect = 2e-15, Method: Compositional matrix adjust.
Identities = 64/197 (32%), Positives = 92/197 (46%), Gaps = 29/197 (14%)
Query: 158 WESLIYESGLKQRLLHYAASALMFAEKGVNPFLVSWNRI----VLLHGPPGTGKTSLCKA 213
WE + G K+ L + F P L NR +LL+GPPGTGK+ L KA
Sbjct: 17 WEDVAGLEGAKEALKEAVILPVKF------PHLFKGNRKPTSGILLYGPPGTGKSYLAKA 70
Query: 214 LAQKLSIRFSSRYPQCQLVEVNAHSLFSKWFSESGKLVAKLFQKIQEMVEEENNLVFVLI 273
+A + + F S V++ L SKW ES KLV +LF + EN + I
Sbjct: 71 VATEANSTFFS---------VSSSDLVSKWMGESEKLVKQLF-----AMARENKPSIIFI 116
Query: 274 DEVESLAAARKAALSGSEPSDSIRVVNALLTQMDKLKS-SPNVIILTTSNITAAIDIAFV 332
D+V++L R E S R+ LL QM+ + + S V++L +NI +D A
Sbjct: 117 DQVDALTGTRGEG----ESEASRRIKTELLVQMNGVGNDSQGVLVLGATNIPWQLDSAIR 172
Query: 333 DRADIKAYVGPPTLQAR 349
R + + Y+ P L AR
Sbjct: 173 RRFERRIYIPLPDLAAR 189
>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 = 79.7 bits (195), Expect = 3e-15, Method: Compositional matrix adjust.
Identities = 64/197 (32%), Positives = 92/197 (46%), Gaps = 29/197 (14%)
Query: 158 WESLIYESGLKQRLLHYAASALMFAEKGVNPFLVSWNRI----VLLHGPPGTGKTSLCKA 213
WE + G K+ L + F P L NR +LL+GPPGTGK+ L KA
Sbjct: 50 WEDVAGLEGAKEALKEAVILPVKF------PHLFKGNRKPTSGILLYGPPGTGKSYLAKA 103
Query: 214 LAQKLSIRFSSRYPQCQLVEVNAHSLFSKWFSESGKLVAKLFQKIQEMVEEENNLVFVLI 273
+A + + F S V++ L SKW ES KLV +LF + EN + I
Sbjct: 104 VATEANSTFFS---------VSSSDLVSKWMGESEKLVKQLF-----AMARENKPSIIFI 149
Query: 274 DEVESLAAARKAALSGSEPSDSIRVVNALLTQMDKLKS-SPNVIILTTSNITAAIDIAFV 332
D+V++L R E S R+ LL QM+ + + S V++L +NI +D A
Sbjct: 150 DQVDALTGTRGEG----ESEASRRIKTELLVQMNGVGNDSQGVLVLGATNIPWQLDSAIR 205
Query: 333 DRADIKAYVGPPTLQAR 349
R + + Y+ P L AR
Sbjct: 206 RRFERRIYIPLPDLAAR 222
>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 = 77.4 bits (189), Expect = 1e-14, Method: Compositional matrix adjust.
Identities = 62/215 (28%), Positives = 101/215 (46%), Gaps = 24/215 (11%)
Query: 195 RIVLLHGPPGTGKTSLCKALAQKLSIRFSSRYPQCQLVEVNAHSLFSKWFSESGKLVAKL 254
R +LL GPPGTGK+ L KA+A + + +++ L SKW ES KLV L
Sbjct: 168 RGILLFGPPGTGKSYLAKAVATEAN--------NSTFFSISSSDLVSKWLGESEKLVKNL 219
Query: 255 FQKIQEMVEEENNLVFVLIDEVESLAAARKAALSGSEPSDSIRVVNALLTQMDKLK-SSP 313
FQ + EN + IDE++SL +R S +E + R+ L QM + +
Sbjct: 220 FQ-----LARENKPSIIFIDEIDSLCGSR----SENESEAARRIKTEFLVQMQGVGVDND 270
Query: 314 NVIILTTSNITAAIDIAFVDRADIKAYVGPPTLQARYEILRSCLQELIRTGIISNFQD-- 371
+++L +NI +D A R + + Y+ P AR + R L + ++FQ+
Sbjct: 271 GILVLGATNIPWVLDSAIRRRFEKRIYIPLPEAHARAAMFRLHLGSTQNSLTEADFQELG 330
Query: 372 --CDQSMLPNFSIL-KEKLSNPDIQEADRSQHFYK 403
D + SI+ ++ L P +++ + HF K
Sbjct: 331 RKTDGYSGADISIIVRDALMQP-VRKVQSATHFKK 364
>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 = 76.3 bits (186), Expect = 3e-14, Method: Compositional matrix adjust.
Identities = 51/173 (29%), Positives = 87/173 (50%), Gaps = 17/173 (9%)
Query: 189 FLVSWNRIVLLHGPPGTGKTSLCKALAQKLSIRFSSRYPQCQLVEVNAHSLFSKWFSESG 248
F ++ ++ VL +GPPG GKT L KA+A + Q + + L + WF ES
Sbjct: 506 FGMTPSKGVLFYGPPGCGKTLLAKAIANEC---------QANFISIKGPELLTMWFGESE 556
Query: 249 KLVAKLFQKIQEMVEEENNLVFVLIDEVESLAAARKAALSGSEPSDSIRVVNALLTQMDK 308
V ++F K ++ + DE++S+A AR + + + RV+N +LT+MD
Sbjct: 557 ANVREIFDKARQAAP-----CVLFFDELDSIAKARGGNIGDGGGA-ADRVINQILTEMDG 610
Query: 309 LKSSPNVIILTTSNITAAIDIAFV--DRADIKAYVGPPTLQARYEILRSCLQE 359
+ + NV I+ +N ID A + R D Y+ P ++R IL++ L++
Sbjct: 611 MSTKKNVFIIGATNRPDIIDPAILRPGRLDQLIYIPLPDEKSRVAILKANLRK 663
Score = 72.8 bits (177), Expect = 4e-13, Method: Compositional matrix adjust.
Identities = 56/177 (31%), Positives = 85/177 (48%), Gaps = 25/177 (14%)
Query: 180 MFAEKGVNPFLVSWNRIVLLHGPPGTGKTSLCKALAQKLSIRFSSRYPQCQLVEVNAHSL 239
+F GV P R +LL+GPPGTGKT + +A+A + F +N +
Sbjct: 229 LFKAIGVKP-----PRGILLYGPPGTGKTLIARAVANETGAFF---------FLINGPEI 274
Query: 240 FSKWFSESGKLVAKLFQKIQEMVEEENNLVFVLIDEVESLAAARKAALSGSEPSDSIRVV 299
SK ES + K F++ E+N + IDE++++A R+ E R+V
Sbjct: 275 MSKLAGESESNLRKAFEEA-----EKNAPAIIFIDELDAIAPKREKTHGEVER----RIV 325
Query: 300 NALLTQMDKLKSSPNVIILTTSNITAAIDIAF--VDRADIKAYVGPPTLQARYEILR 354
+ LLT MD LK +VI++ +N +ID A R D + +G P R EIL+
Sbjct: 326 SQLLTLMDGLKQRAHVIVMAATNRPNSIDPALRRFGRFDREVDIGIPDATGRLEILQ 382
>pdb|1R7R|A Chain A, The Crystal Structure Of Murine P97VCP AT 3.6A
Length = 816
Score = 76.3 bits (186), Expect = 3e-14, Method: Compositional matrix adjust.
Identities = 51/173 (29%), Positives = 87/173 (50%), Gaps = 17/173 (9%)
Query: 189 FLVSWNRIVLLHGPPGTGKTSLCKALAQKLSIRFSSRYPQCQLVEVNAHSLFSKWFSESG 248
F ++ ++ VL +GPPG GKT L KA+A + Q + + L + WF ES
Sbjct: 506 FGMTPSKGVLFYGPPGCGKTLLAKAIANEC---------QANFISIKGPELLTMWFGESE 556
Query: 249 KLVAKLFQKIQEMVEEENNLVFVLIDEVESLAAARKAALSGSEPSDSIRVVNALLTQMDK 308
V ++F K ++ + DE++S+A AR + + + RV+N +LT+MD
Sbjct: 557 ANVREIFDKARQAAP-----CVLFFDELDSIAKARGGNIGDGGGA-ADRVINQILTEMDG 610
Query: 309 LKSSPNVIILTTSNITAAIDIAFV--DRADIKAYVGPPTLQARYEILRSCLQE 359
+ + NV I+ +N ID A + R D Y+ P ++R IL++ L++
Sbjct: 611 MSTKKNVFIIGATNRPDIIDPAILRPGRLDQLIYIPLPDEKSRVAILKANLRK 663
Score = 72.8 bits (177), Expect = 4e-13, Method: Compositional matrix adjust.
Identities = 56/177 (31%), Positives = 85/177 (48%), Gaps = 25/177 (14%)
Query: 180 MFAEKGVNPFLVSWNRIVLLHGPPGTGKTSLCKALAQKLSIRFSSRYPQCQLVEVNAHSL 239
+F GV P R +LL+GPPGTGKT + +A+A + F +N +
Sbjct: 229 LFKAIGVKP-----PRGILLYGPPGTGKTLIARAVANETGAFF---------FLINGPEI 274
Query: 240 FSKWFSESGKLVAKLFQKIQEMVEEENNLVFVLIDEVESLAAARKAALSGSEPSDSIRVV 299
SK ES + K F++ E+N + IDE++++A R+ E R+V
Sbjct: 275 MSKLAGESESNLRKAFEEA-----EKNAPAIIFIDELDAIAPKREKTHGEVER----RIV 325
Query: 300 NALLTQMDKLKSSPNVIILTTSNITAAIDIAF--VDRADIKAYVGPPTLQARYEILR 354
+ LLT MD LK +VI++ +N +ID A R D + +G P R EIL+
Sbjct: 326 SQLLTLMDGLKQRAHVIVMAATNRPNSIDPALRRFGRFDREVDIGIPDATGRLEILQ 382
>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 = 75.9 bits (185), Expect = 4e-14, Method: Compositional matrix adjust.
Identities = 51/173 (29%), Positives = 87/173 (50%), Gaps = 17/173 (9%)
Query: 189 FLVSWNRIVLLHGPPGTGKTSLCKALAQKLSIRFSSRYPQCQLVEVNAHSLFSKWFSESG 248
F ++ ++ VL +GPPG GKT L KA+A + Q + + L + WF ES
Sbjct: 44 FGMTPSKGVLFYGPPGCGKTLLAKAIANEC---------QANFISIKGPELLTMWFGESE 94
Query: 249 KLVAKLFQKIQEMVEEENNLVFVLIDEVESLAAARKAALSGSEPSDSIRVVNALLTQMDK 308
V ++F K ++ + DE++S+A AR + + + RV+N +LT+MD
Sbjct: 95 ANVREIFDKARQAAP-----CVLFFDELDSIAKARGGNIGDGGGA-ADRVINQILTEMDG 148
Query: 309 LKSSPNVIILTTSNITAAIDIAFV--DRADIKAYVGPPTLQARYEILRSCLQE 359
+ + NV I+ +N ID A + R D Y+ P ++R IL++ L++
Sbjct: 149 MSTKKNVFIIGATNRPDIIDPAILRPGRLDQLIYIPLPDEKSRVAILKANLRK 201
>pdb|2X8A|A Chain A, Human Nuclear Valosin Containing Protein Like (Nvl), C-
Terminal Aaa-Atpase Domain
Length = 274
Score = 75.1 bits (183), Expect = 7e-14, Method: Compositional matrix adjust.
Identities = 54/161 (33%), Positives = 78/161 (48%), Gaps = 20/161 (12%)
Query: 197 VLLHGPPGTGKTSLCKALAQKLSIRFSSRYPQCQLVEVNAHSLFSKWFSESGKLVAKLFQ 256
VLL GPPG GKT L KA+A + + F + V L + + ES + V ++FQ
Sbjct: 47 VLLAGPPGCGKTLLAKAVANESGLNF---------ISVKGPELLNMYVGESERAVRQVFQ 97
Query: 257 KIQEMVEEENNLVFVLIDEVESLAAARKAALSGSEPSDSIRVVNALLTQMDKLKSSPNVI 316
+ + + DEV++L R S E S+RVVN LLT+MD L++ V
Sbjct: 98 RAKNSAP-----CVIFFDEVDALCPRR----SDRETGASVRVVNQLLTEMDGLEARQQVF 148
Query: 317 ILTTSNITAAIDIAFV--DRADIKAYVGPPTLQARYEILRS 355
I+ +N ID A + R D +VG P R IL++
Sbjct: 149 IMAATNRPDIIDPAILRPGRLDKTLFVGLPPPADRLAILKT 189
>pdb|1XWI|A Chain A, Crystal Structure Of Vps4b
Length = 322
Score = 73.6 bits (179), Expect = 2e-13, Method: Compositional matrix adjust.
Identities = 60/215 (27%), Positives = 101/215 (46%), Gaps = 24/215 (11%)
Query: 195 RIVLLHGPPGTGKTSLCKALAQKLSIRFSSRYPQCQLVEVNAHSLFSKWFSESGKLVAKL 254
R +LL GPPGTGK+ L KA+A + + +++ L SKW ES KLV L
Sbjct: 46 RGILLFGPPGTGKSYLAKAVATEAN--------NSTFFSISSSDLVSKWLGESEKLVKNL 97
Query: 255 FQKIQEMVEEENNLVFVLIDEVESLAAARKAALSGSEPSDSIRVVNALLTQMDKLK-SSP 313
FQ + EN + IDE++SL +R S +E + R+ L QM + +
Sbjct: 98 FQ-----LARENKPSIIFIDEIDSLCGSR----SENESEAARRIKTEFLVQMQGVGVDND 148
Query: 314 NVIILTTSNITAAIDIAFVDRADIKAYVGPPTLQARYEILRSCLQELIRTGIISNFQD-- 371
+++L +NI +D A R + + Y+ P AR + + L + ++F++
Sbjct: 149 GILVLGATNIPWVLDSAIRRRFEKRIYIPLPEPHARAAMFKLHLGTTQNSLTEADFRELG 208
Query: 372 --CDQSMLPNFSIL-KEKLSNPDIQEADRSQHFYK 403
D + SI+ ++ L P +++ + HF K
Sbjct: 209 RKTDGYSGADISIIVRDALMQP-VRKVQSATHFKK 242
>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 = 72.4 bits (176), Expect = 4e-13, Method: Compositional matrix adjust.
Identities = 56/177 (31%), Positives = 85/177 (48%), Gaps = 25/177 (14%)
Query: 180 MFAEKGVNPFLVSWNRIVLLHGPPGTGKTSLCKALAQKLSIRFSSRYPQCQLVEVNAHSL 239
+F GV P R +LL+GPPGTGKT + +A+A + F +N +
Sbjct: 229 LFKAIGVKP-----PRGILLYGPPGTGKTLIARAVANETGAFF---------FLINGPEI 274
Query: 240 FSKWFSESGKLVAKLFQKIQEMVEEENNLVFVLIDEVESLAAARKAALSGSEPSDSIRVV 299
SK ES + K F++ E+N + IDE++++A R+ E R+V
Sbjct: 275 MSKLAGESESNLRKAFEEA-----EKNAPAIIFIDELDAIAPKREKTHGEVER----RIV 325
Query: 300 NALLTQMDKLKSSPNVIILTTSNITAAIDIAF--VDRADIKAYVGPPTLQARYEILR 354
+ LLT MD LK +VI++ +N +ID A R D + +G P R EIL+
Sbjct: 326 SQLLTLMDGLKQRAHVIVMAATNRPNSIDPALRRFGRFDREVDIGIPDATGRLEILQ 382
>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 = 72.4 bits (176), Expect = 4e-13, Method: Compositional matrix adjust.
Identities = 56/177 (31%), Positives = 85/177 (48%), Gaps = 25/177 (14%)
Query: 180 MFAEKGVNPFLVSWNRIVLLHGPPGTGKTSLCKALAQKLSIRFSSRYPQCQLVEVNAHSL 239
+F GV P R +LL+GPPGTGKT + +A+A + F +N +
Sbjct: 229 LFKAIGVKP-----PRGILLYGPPGTGKTLIARAVANETGAFF---------FLINGPEI 274
Query: 240 FSKWFSESGKLVAKLFQKIQEMVEEENNLVFVLIDEVESLAAARKAALSGSEPSDSIRVV 299
SK ES + K F++ E+N + IDE++++A R+ E R+V
Sbjct: 275 MSKLAGESESNLRKAFEEA-----EKNAPAIIFIDELDAIAPKREKTHGEVER----RIV 325
Query: 300 NALLTQMDKLKSSPNVIILTTSNITAAIDIAF--VDRADIKAYVGPPTLQARYEILR 354
+ LLT MD LK +VI++ +N +ID A R D + +G P R EIL+
Sbjct: 326 SQLLTLMDGLKQRAHVIVMAATNRPNSIDPALRRFGRFDREVDIGIPDATGRLEILQ 382
>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 = 72.4 bits (176), Expect = 4e-13, Method: Compositional matrix adjust.
Identities = 56/177 (31%), Positives = 85/177 (48%), Gaps = 25/177 (14%)
Query: 180 MFAEKGVNPFLVSWNRIVLLHGPPGTGKTSLCKALAQKLSIRFSSRYPQCQLVEVNAHSL 239
+F GV P R +LL+GPPGTGKT + +A+A + F +N +
Sbjct: 229 LFKAIGVKP-----PRGILLYGPPGTGKTLIARAVANETGAFF---------FLINGPEI 274
Query: 240 FSKWFSESGKLVAKLFQKIQEMVEEENNLVFVLIDEVESLAAARKAALSGSEPSDSIRVV 299
SK ES + K F++ E+N + IDE++++A R+ E R+V
Sbjct: 275 MSKLAGESESNLRKAFEEA-----EKNAPAIIFIDELDAIAPKREKTHGEVER----RIV 325
Query: 300 NALLTQMDKLKSSPNVIILTTSNITAAIDIAF--VDRADIKAYVGPPTLQARYEILR 354
+ LLT MD LK +VI++ +N +ID A R D + +G P R EIL+
Sbjct: 326 SQLLTLMDGLKQRAHVIVMAATNRPNSIDPALRRFGRFDREVDIGIPDATGRLEILQ 382
>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 = 72.4 bits (176), Expect = 5e-13, Method: Compositional matrix adjust.
Identities = 56/177 (31%), Positives = 85/177 (48%), Gaps = 25/177 (14%)
Query: 180 MFAEKGVNPFLVSWNRIVLLHGPPGTGKTSLCKALAQKLSIRFSSRYPQCQLVEVNAHSL 239
+F GV P R +LL+GPPGTGKT + +A+A + F +N +
Sbjct: 229 LFKAIGVKP-----PRGILLYGPPGTGKTLIARAVANETGAFF---------FLINGPEI 274
Query: 240 FSKWFSESGKLVAKLFQKIQEMVEEENNLVFVLIDEVESLAAARKAALSGSEPSDSIRVV 299
SK ES + K F++ E+N + IDE++++A R+ E R+V
Sbjct: 275 MSKLAGESESNLRKAFEE-----AEKNAPAIIFIDELDAIAPKREKTHGEVER----RIV 325
Query: 300 NALLTQMDKLKSSPNVIILTTSNITAAIDIAF--VDRADIKAYVGPPTLQARYEILR 354
+ LLT MD LK +VI++ +N +ID A R D + +G P R EIL+
Sbjct: 326 SQLLTLMDGLKQRAHVIVMAATNRPNSIDPALRRFGRFDREVDIGIPDATGRLEILQ 382
>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 = 70.9 bits (172), Expect = 1e-12, Method: Compositional matrix adjust.
Identities = 53/177 (29%), Positives = 86/177 (48%), Gaps = 22/177 (12%)
Query: 180 MFAEKGVNPFLVSWNRIVLLHGPPGTGKTSLCKALAQKLSIRFSSRYPQCQLVEVNAHSL 239
+F + G+ P + +LL+GPPGTGKT L KA+A + + F + V L
Sbjct: 42 LFEKVGIEP-----PKGILLYGPPGTGKTLLAKAVATETNATF---------IRVVGSEL 87
Query: 240 FSKWFSESGKLVAKLFQKIQEMVEEENNLVFVLIDEVESLAAARKAALSGSEPSDSIRVV 299
K+ E LV +F+ + +E + IDE++++AA R AL+G + + R +
Sbjct: 88 VKKFIGEGASLVKDIFK-----LAKEKAPSIIFIDEIDAIAAKRTDALTGGD-REVQRTL 141
Query: 300 NALLTQMDKLKSSPNVIILTTSNITAAIDIAFV--DRADIKAYVGPPTLQARYEILR 354
LL +MD + +V I+ +N +D A + R D V P + R EIL+
Sbjct: 142 MQLLAEMDGFDARGDVKIIGATNRPDILDPAILRPGRFDRIIEVPAPDEKGRLEILK 198
>pdb|2QZ4|A Chain A, Human Paraplegin, Aaa Domain In Complex With Adp
Length = 262
Score = 67.4 bits (163), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 54/188 (28%), Positives = 89/188 (47%), Gaps = 20/188 (10%)
Query: 198 LLHGPPGTGKTSLCKALAQKLSIRFSSRYPQCQLVEVNAHSLFSKWFSESGKLVAKLFQK 257
LL GPPG GKT L KA+A + + F + + VEV G L A +
Sbjct: 43 LLLGPPGCGKTLLAKAVATEAQVPFLA-MAGAEFVEV------------IGGLGA---AR 86
Query: 258 IQEMVEEENNLV--FVLIDEVESLAAARKAALSGSEPSDSIRVVNALLTQMDKLKSSPNV 315
++ + +E V IDE++++ R +SG ++ + +N LL +MD + ++ +V
Sbjct: 87 VRSLFKEARARAPCIVYIDEIDAVGKKRSTTMSGFSNTEEEQTLNQLLVEMDGMGTTDHV 146
Query: 316 IILTTSNITAAIDIAFV--DRADIKAYVGPPTLQARYEILRSCLQELIRTGIISNFQDCD 373
I+L ++N +D A + R D ++ PTLQ R EI L+ L T + +
Sbjct: 147 IVLASTNRADILDGALMRPGRLDRHVFIDLPTLQERREIFEQHLKSLKLTQSSTFYSQRL 206
Query: 374 QSMLPNFS 381
+ P FS
Sbjct: 207 AELTPGFS 214
>pdb|4B4T|H Chain H, Near-Atomic Resolution Structural Model Of The Yeast 26s
Proteasome
Length = 467
Score = 65.9 bits (159), Expect = 4e-11, Method: Compositional matrix adjust.
Identities = 48/176 (27%), Positives = 82/176 (46%), Gaps = 22/176 (12%)
Query: 181 FAEKGVNPFLVSWNRIVLLHGPPGTGKTSLCKALAQKLSIRFSSRYPQCQLVEVNAHSLF 240
FA G++P + +LL+GPPGTGKT +A+A + F + V L
Sbjct: 235 FATLGIDP-----PKGILLYGPPGTGKTLCARAVANRTDATF---------IRVIGSELV 280
Query: 241 SKWFSESGKLVAKLFQKIQEMVEEENNLVFVLIDEVESLAAARKAALSGSEPSDSIRVVN 300
K+ E ++V +LF EM + + + DE++++ AR +G + ++ R +
Sbjct: 281 QKYVGEGARMVRELF----EMARTKKACI-IFFDEIDAVGGARFDDGAGGD-NEVQRTML 334
Query: 301 ALLTQMDKLKSSPNVIILTTSNITAAIDIAFV--DRADIKAYVGPPTLQARYEILR 354
L+TQ+D N+ ++ +N +D A + R D K P L+ R I R
Sbjct: 335 ELITQLDGFDPRGNIKVMFATNRPNTLDPALLRPGRIDRKVEFSLPDLEGRANIFR 390
>pdb|4B4T|I Chain I, Near-Atomic Resolution Structural Model Of The Yeast 26s
Proteasome
Length = 437
Score = 65.9 bits (159), Expect = 4e-11, Method: Compositional matrix adjust.
Identities = 59/216 (27%), Positives = 96/216 (44%), Gaps = 31/216 (14%)
Query: 180 MFAEKGVNPFLVSWNRIVLLHGPPGTGKTSLCKALAQKLSIRFSSRYPQCQLVEVNAHSL 239
++ E G+ P + V+L+G PGTGKT L KA+A + S F + + L
Sbjct: 207 LYEEMGIKP-----PKGVILYGAPGTGKTLLAKAVANQTSATF---------LRIVGSEL 252
Query: 240 FSKWFSESGKLVAKLFQKIQEMVEEENNLVFVLIDEVESLAAARKAALSGSEPSDSIRVV 299
K+ + +L ++F+ V EN V IDE++++ R + SG E + R +
Sbjct: 253 IQKYLGDGPRLCRQIFK-----VAGENAPSIVFIDEIDAIGTKRYDSNSGGE-REIQRTM 306
Query: 300 NALLTQMDKLKSSPNVIILTTSNITAAIDIAFV--DRADIKAYVGPPTLQARYEILRSCL 357
LL Q+D +V ++ +N +D A + R D K P L + +IL
Sbjct: 307 LELLNQLDGFDDRGDVKVIMATNKIETLDPALIRPGRIDRKILFENPDLSTKKKILG--- 363
Query: 358 QELIRTGIISNFQDCDQSMLPNFSILKEKLSNPDIQ 393
I T ++ +D + L K+ LS DIQ
Sbjct: 364 ---IHTSKMNLSEDVN---LETLVTTKDDLSGADIQ 393
>pdb|1LV7|A Chain A, Crystal Structure Of The Aaa Domain Of Ftsh
Length = 257
Score = 64.3 bits (155), Expect = 1e-10, Method: Compositional matrix adjust.
Identities = 44/168 (26%), Positives = 82/168 (48%), Gaps = 21/168 (12%)
Query: 197 VLLHGPPGTGKTSLCKALAQKLSIRFSSRYPQCQLVEVNAHSLFSKWFSESGKLVAKLFQ 256
VL+ GPPGTGKT L KA+A + + F + + S F + F G
Sbjct: 48 VLMVGPPGTGKTLLAKAIAGEAKVPFFT----------ISGSDFVEMFVGVGA------S 91
Query: 257 KIQEMVEEENNLV--FVLIDEVESLAAARKAALSGSEPSDSIRVVNALLTQMDKLKSSPN 314
++++M E+ + IDE++++ R A L G + + +N +L +MD + +
Sbjct: 92 RVRDMFEQAKKAAPCIIFIDEIDAVGRQRGAGLGGGH-DEREQTLNQMLVEMDGFEGNEG 150
Query: 315 VIILTTSNITAAIDIAFV--DRADIKAYVGPPTLQARYEILRSCLQEL 360
+I++ +N +D A + R D + VG P ++ R +IL+ ++ +
Sbjct: 151 IIVIAATNRPDVLDPALLRPGRFDRQVVVGLPDVRGREQILKVHMRRV 198
>pdb|4B4T|L Chain L, Near-Atomic Resolution Structural Model Of The Yeast 26s
Proteasome
Length = 437
Score = 63.5 bits (153), Expect = 2e-10, Method: Compositional matrix adjust.
Identities = 50/187 (26%), Positives = 85/187 (45%), Gaps = 22/187 (11%)
Query: 180 MFAEKGVNPFLVSWNRIVLLHGPPGTGKTSLCKALAQKLSIRFSSRYPQCQLVEVNAHSL 239
+F G+ P + VLL+GPPGTGKT L KA+A + F + A +
Sbjct: 206 IFQRVGIKP-----PKGVLLYGPPGTGKTLLAKAVAATIGANF---------IFSPASGI 251
Query: 240 FSKWFSESGKLVAKLFQKIQEMVEEENNLVFVLIDEVESLAAARKAALSGSEPSDSIRVV 299
K+ ES +++ ++F +E+ + +DEV+++ R+ + S + R +
Sbjct: 252 VDKYIGESARIIREMF-----AYAKEHEPCIIFMDEVDAI-GGRRFSEGTSADREIQRTL 305
Query: 300 NALLTQMDKLKSSPNVIILTTSNITAAIDIAFV--DRADIKAYVGPPTLQARYEILRSCL 357
LLTQMD + I+ +N +D A + R D K + P R EI +
Sbjct: 306 MELLTQMDGFDNLGQTKIIMATNRPDTLDPALLRPGRLDRKVEIPLPNEAGRLEIFKIHT 365
Query: 358 QELIRTG 364
++ +TG
Sbjct: 366 AKVKKTG 372
>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 = 62.4 bits (150), Expect = 4e-10, Method: Compositional matrix adjust.
Identities = 49/159 (30%), Positives = 72/159 (45%), Gaps = 20/159 (12%)
Query: 197 VLLHGPPGTGKTSLCKALAQKLSIRFSSRYPQCQLVEVNAHSLFSKWFSESGKLVAKLFQ 256
+LL GPPGTGKT + K +A + F S ++A SL SKW E K+V LF
Sbjct: 120 ILLFGPPGTGKTLIGKCIASQSGATFFS---------ISASSLTSKWVGEGEKMVRALF- 169
Query: 257 KIQEMVEEENNLVFVLIDEVESLAAARKAALSGSEPSDSIRVVNALLTQMDKLKSSP--N 314
V + IDE++SL + R E S R+ L Q+D +S
Sbjct: 170 ----AVARCQQPAVIFIDEIDSLLSQR----GDGEHESSRRIKTEFLVQLDGATTSSEDR 221
Query: 315 VIILTTSNITAAIDIAFVDRADIKAYVGPPTLQARYEIL 353
++++ +N ID A R + Y+ P AR +I+
Sbjct: 222 ILVVGATNRPQEIDEAARRRLVKRLYIPLPEASARKQIV 260
>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 = 62.0 bits (149), Expect = 6e-10, Method: Compositional matrix adjust.
Identities = 47/170 (27%), Positives = 75/170 (44%), Gaps = 24/170 (14%)
Query: 193 WNRI-------VLLHGPPGTGKTSLCKALAQKLSIRFSSRYPQCQLVEVNAHSLFSKWFS 245
+NRI +LL GPPGTGKT L +A+A + ++ F ++ +
Sbjct: 41 FNRIGARMPKGILLVGPPGTGKTLLARAVAGEANVPF---------FHISGSDFVELFVG 91
Query: 246 ESGKLVAKLFQKIQEMVEEENNLVFVLIDEVESLAAARKAALSGSEPSDSIRVVNALLTQ 305
V LF + + V IDE++++ R A L G + + +N LL +
Sbjct: 92 VGAARVRDLFAQAKAHAP-----CIVFIDEIDAVGRHRGAGLGGGH-DEREQTLNQLLVE 145
Query: 306 MDKLKSSPNVIILTTSNITAAIDIAFV--DRADIKAYVGPPTLQARYEIL 353
MD S +I++ +N +D A + R D K V PP + R +IL
Sbjct: 146 MDGFDSKEGIIVMAATNRPDILDPALLRPGRFDKKIVVDPPDMLGRKKIL 195
>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 = 60.1 bits (144), Expect = 3e-09, Method: Compositional matrix adjust.
Identities = 46/170 (27%), Positives = 74/170 (43%), Gaps = 24/170 (14%)
Query: 193 WNRI-------VLLHGPPGTGKTSLCKALAQKLSIRFSSRYPQCQLVEVNAHSLFSKWFS 245
+NRI +LL GPPGTG T L +A+A + ++ F ++ +
Sbjct: 41 FNRIGARMPKGILLVGPPGTGATLLARAVAGEANVPF---------FHISGSDFVELFVG 91
Query: 246 ESGKLVAKLFQKIQEMVEEENNLVFVLIDEVESLAAARKAALSGSEPSDSIRVVNALLTQ 305
V LF + + V IDE++++ R A L G + + +N LL +
Sbjct: 92 VGAARVRDLFAQAKAHAP-----CIVFIDEIDAVGRHRGAGLGGGH-DEREQTLNQLLVE 145
Query: 306 MDKLKSSPNVIILTTSNITAAIDIAFV--DRADIKAYVGPPTLQARYEIL 353
MD S +I++ +N +D A + R D K V PP + R +IL
Sbjct: 146 MDGFDSKEGIIVMAATNRPDILDPALLRPGRFDKKIVVDPPDMLGRKKIL 195
>pdb|3B9P|A Chain A, Spastin
Length = 297
Score = 59.3 bits (142), Expect = 4e-09, Method: Compositional matrix adjust.
Identities = 52/166 (31%), Positives = 84/166 (50%), Gaps = 21/166 (12%)
Query: 197 VLLHGPPGTGKTSLCKALAQKLSIRFSSRYPQCQLVEVNAHSLFSKWFSESGKLVAKLFQ 256
+LL GPPG GKT L +A+A + S F + ++A SL SK+ + KLV LF
Sbjct: 57 LLLFGPPGNGKTLLARAVATECSATF---------LNISAASLTSKYVGDGEKLVRALFA 107
Query: 257 KIQEMVEEENNLVFVLIDEVESLAAARKAALSGSEPSDSIRVVNALLTQMDKLKSSPN-- 314
+ M + +++F IDEV+SL + R ++ + S R+ L + D L +P+
Sbjct: 108 VARHM---QPSIIF--IDEVDSLLSERSSSEHEA----SRRLKTEFLVEFDGLPGNPDGD 158
Query: 315 -VIILTTSNITAAIDIAFVDRADIKAYVGPPTLQARYEILRSCLQE 359
+++L +N +D A + R + YV P Q R +L LQ+
Sbjct: 159 RIVVLAATNRPQELDEAALRRFTKRVYVSLPDEQTRELLLNRLLQK 204
>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 = 58.5 bits (140), Expect = 6e-09, Method: Compositional matrix adjust.
Identities = 47/161 (29%), Positives = 72/161 (44%), Gaps = 17/161 (10%)
Query: 197 VLLHGPPGTGKTSLCKALAQKLSIRFSSRYPQCQLVEVNAHSLFSKWFSESGKLVAKLFQ 256
VLL GPPGTGKT L KA+A + + F S + S + V LF+
Sbjct: 47 VLLVGPPGTGKTLLAKAVAGEAHVPFFS---------MGGSSFIEMFVGLGASRVRDLFE 97
Query: 257 KIQEMVEEENNLVFVLIDEVESLAAARKAALSGSEPSDSIRVVNALLTQMDKLKS-SPNV 315
++ + IDE++++ +R A S + + +N LL +MD S + V
Sbjct: 98 TAKKQAPS-----IIFIDEIDAIGKSRAAGGVVSGNDEREQTLNQLLAEMDGFGSENAPV 152
Query: 316 IILTTSNITAAIDIAFV--DRADIKAYVGPPTLQARYEILR 354
I+L +N +D A + R D + V P R EIL+
Sbjct: 153 IVLAATNRPEILDPALMRPGRFDRQVLVDKPDFNGRVEILK 193
>pdb|3VFD|A Chain A, Human Spastin Aaa Domain
Length = 389
Score = 58.2 bits (139), Expect = 8e-09, Method: Compositional matrix adjust.
Identities = 49/157 (31%), Positives = 79/157 (50%), Gaps = 20/157 (12%)
Query: 195 RIVLLHGPPGTGKTSLCKALAQKLSIRFSSRYPQCQLVEVNAHSLFSKWFSESGKLVAKL 254
R +LL GPPG GKT L KA+A + + F ++A SL SK+ E KLV L
Sbjct: 149 RGLLLFGPPGNGKTMLAKAVAAESNATF---------FNISAASLTSKYVGEGEKLVRAL 199
Query: 255 FQKIQEMVEEENNLVFVLIDEVESLAAARKAALSGSEPSDSIRVVNALLTQMDKLKSSPN 314
F +E+ + +++F ID+V+SL R+ E S R+ L + D ++S+ +
Sbjct: 200 FAVAREL---QPSIIF--IDQVDSLLCERREG----EHDASRRLKTEFLIEFDGVQSAGD 250
Query: 315 --VIILTTSNITAAIDIAFVDRADIKAYVGPPTLQAR 349
V+++ +N +D A + R + YV P + R
Sbjct: 251 DRVLVMGATNRPQELDEAVLRRFIKRVYVSLPNEETR 287
>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 = 54.3 bits (129), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 38/160 (23%), Positives = 71/160 (44%), Gaps = 17/160 (10%)
Query: 197 VLLHGPPGTGKTSLCKALAQKLSIRFSSRYPQCQLVEVNAHSLFSKWFSESGKLVAKLFQ 256
VLL GPPG GKT L +A+A + + F + + + V LF+
Sbjct: 67 VLLVGPPGVGKTHLARAVAGEARVPF---------ITASGSDFVEMFVGVGAARVRDLFE 117
Query: 257 KIQEMVEEENNLVFVLIDEVESLAAARKAALSGSEPSDSIRVVNALLTQMDKLKSSPNVI 316
+ + V IDE++++ R + + G + + +N LL +MD + ++
Sbjct: 118 TAK-----RHAPCIVFIDEIDAVGRKRGSGVGGGN-DEREQTLNQLLVEMDGFEKDTAIV 171
Query: 317 ILTTSNITAAIDIAFV--DRADIKAYVGPPTLQARYEILR 354
++ +N +D A + R D + + P ++ R +ILR
Sbjct: 172 VMAATNRPDILDPALLRPGRFDRQIAIDAPDVKGREQILR 211
>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 = 54.3 bits (129), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 38/160 (23%), Positives = 71/160 (44%), Gaps = 17/160 (10%)
Query: 197 VLLHGPPGTGKTSLCKALAQKLSIRFSSRYPQCQLVEVNAHSLFSKWFSESGKLVAKLFQ 256
VLL GPPG GKT L +A+A + + F + + + V LF+
Sbjct: 76 VLLVGPPGVGKTHLARAVAGEARVPF---------ITASGSDFVEMFVGVGAARVRDLFE 126
Query: 257 KIQEMVEEENNLVFVLIDEVESLAAARKAALSGSEPSDSIRVVNALLTQMDKLKSSPNVI 316
+ + V IDE++++ R + + G + + +N LL +MD + ++
Sbjct: 127 TAK-----RHAPCIVFIDEIDAVGRKRGSGVGGGN-DEREQTLNQLLVEMDGFEKDTAIV 180
Query: 317 ILTTSNITAAIDIAFV--DRADIKAYVGPPTLQARYEILR 354
++ +N +D A + R D + + P ++ R +ILR
Sbjct: 181 VMAATNRPDILDPALLRPGRFDRQIAIDAPDVKGREQILR 220
>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 = 54.3 bits (129), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 38/160 (23%), Positives = 71/160 (44%), Gaps = 17/160 (10%)
Query: 197 VLLHGPPGTGKTSLCKALAQKLSIRFSSRYPQCQLVEVNAHSLFSKWFSESGKLVAKLFQ 256
VLL GPPG GKT L +A+A + + F + + + V LF+
Sbjct: 52 VLLVGPPGVGKTHLARAVAGEARVPF---------ITASGSDFVEMFVGVGAARVRDLFE 102
Query: 257 KIQEMVEEENNLVFVLIDEVESLAAARKAALSGSEPSDSIRVVNALLTQMDKLKSSPNVI 316
+ + V IDE++++ R + + G + + +N LL +MD + ++
Sbjct: 103 -----TAKRHAPCIVFIDEIDAVGRKRGSGVGGGN-DEREQTLNQLLVEMDGFEKDTAIV 156
Query: 317 ILTTSNITAAIDIAFV--DRADIKAYVGPPTLQARYEILR 354
++ +N +D A + R D + + P ++ R +ILR
Sbjct: 157 VMAATNRPDILDPALLRPGRFDRQIAIDAPDVKGREQILR 196
>pdb|1IY2|A Chain A, Crystal Structure Of The Ftsh Atpase Domain From Thermus
Thermophilus
Length = 278
Score = 53.9 bits (128), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 38/160 (23%), Positives = 70/160 (43%), Gaps = 17/160 (10%)
Query: 197 VLLHGPPGTGKTSLCKALAQKLSIRFSSRYPQCQLVEVNAHSLFSKWFSESGKLVAKLFQ 256
VLL GPPG GKT L +A+A + + F + + + V LF+
Sbjct: 76 VLLVGPPGVGKTHLARAVAGEARVPF---------ITASGSDFVEMFVGVGAARVRDLFE 126
Query: 257 KIQEMVEEENNLVFVLIDEVESLAAARKAALSGSEPSDSIRVVNALLTQMDKLKSSPNVI 316
+ V IDE++++ R + + G + + +N LL +MD + ++
Sbjct: 127 TAKRHAP-----CIVFIDEIDAVGRKRGSGVGGGN-DEREQTLNQLLVEMDGFEKDTAIV 180
Query: 317 ILTTSNITAAIDIAFV--DRADIKAYVGPPTLQARYEILR 354
++ +N +D A + R D + + P ++ R +ILR
Sbjct: 181 VMAATNRPDILDPALLRPGRFDRQIAIDAPDVKGREQILR 220
>pdb|4B4T|M Chain M, Near-Atomic Resolution Structural Model Of The Yeast 26s
Proteasome
Length = 434
Score = 52.4 bits (124), Expect = 5e-07, Method: Compositional matrix adjust.
Identities = 45/160 (28%), Positives = 73/160 (45%), Gaps = 19/160 (11%)
Query: 198 LLHGPPGTGKTSLCKALAQKLSIRFSSRYPQCQLVEVNAHSLFSKWFSESGKLVAKLFQK 257
L++GPPGTGKT L +A A + + F +++ A L + E KLV F
Sbjct: 219 LMYGPPGTGKTLLARACAAQTNATF---------LKLAAPQLVQMYIGEGAKLVRDAF-- 267
Query: 258 IQEMVEEENNLVFVLIDEVESLAAAR-KAALSGSEPSDSIRVVNALLTQMDKLKSSPNVI 316
+ +E + IDE++++ R + SG + R + LL Q+D S V
Sbjct: 268 ---ALAKEKAPTIIFIDELDAIGTKRFDSEKSGDR--EVQRTMLELLNQLDGFSSDDRVK 322
Query: 317 ILTTSNITAAIDIAFV--DRADIKAYVGPPTLQARYEILR 354
+L +N +D A + R D K P+ +R +IL+
Sbjct: 323 VLAATNRVDVLDPALLRSGRLDRKIEFPLPSEDSRAQILQ 362
>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 = 43.1 bits (100), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 34/84 (40%), Positives = 44/84 (52%), Gaps = 17/84 (20%)
Query: 164 ESGLKQRLLHYAASALMFAEK-----GVNPFLVS----WNRIVLLHGPPGTGKTSLCKAL 214
ESGL ++ AAS L+ E GV L+ R VLL GPPGTGKT+L A+
Sbjct: 28 ESGLAKQ----AASGLVGQENAREACGVIVELIKSKKMAGRAVLLAGPPGTGKTALALAI 83
Query: 215 AQKLSIRFSSRYPQCQLVEVNAHS 238
AQ+L S+ P C +V +S
Sbjct: 84 AQEL----GSKVPFCPMVGSEVYS 103
>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 = 41.2 bits (95), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 34/84 (40%), Positives = 43/84 (51%), Gaps = 17/84 (20%)
Query: 164 ESGLKQRLLHYAASALMFAEK-----GVNPFLVS----WNRIVLLHGPPGTGKTSLCKAL 214
ESGL ++ AAS L+ E GV L+ R VLL GPPGTGKT+L A+
Sbjct: 42 ESGLAKQ----AASGLVGQENAREACGVIVELIKSKKXAGRAVLLAGPPGTGKTALALAI 97
Query: 215 AQKLSIRFSSRYPQCQLVEVNAHS 238
AQ+L S+ P C V +S
Sbjct: 98 AQEL----GSKVPFCPXVGSEVYS 117
>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 = 39.3 bits (90), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 42/185 (22%), Positives = 77/185 (41%), Gaps = 38/185 (20%)
Query: 195 RIVLLHGPPGTGKTSLCKALAQKLSIRFSSRYPQCQLVEVNAHSLFSKWFSESG------ 248
R +L+GPPG GKT+ +AQ+L ++E NA + SK +G
Sbjct: 78 RAAMLYGPPGIGKTTAAHLVAQELGY---------DILEQNASDVRSKTLLNAGVKNALD 128
Query: 249 KLVAKLFQKIQEMVEEENNLVFVLI-DEVESLAAARKAALSGSEPSDSIRVVNALLTQMD 307
+ + K E + N FV+I DEV+ ++ + + L Q
Sbjct: 129 NMSVVGYFKHNEEAQNLNGKHFVIIMDEVDGMSGGDRGGV-------------GQLAQFC 175
Query: 308 KLKSSPNVIILTTSNI-------TAAIDIAFV--DRADIKAYVGPPTLQARYEILRSCLQ 358
+ S+P ++I N+ +DI F D IK+ + ++ ++++ + +
Sbjct: 176 RKTSTPLILICNERNLPKMRPFDRVCLDIQFRRPDANSIKSRLMTIAIREKFKLDPNVID 235
Query: 359 ELIRT 363
LI+T
Sbjct: 236 RLIQT 240
>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 = 38.9 bits (89), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 59/229 (25%), Positives = 106/229 (46%), Gaps = 46/229 (20%)
Query: 167 LKQRLLHY-AASALMFAEKGVNPFLVSWNRIVLLHGPPGTGKTSLCKALAQKLSIRFSSR 225
+K+R+L Y A L + KG I+ L GPPG GKTSL K++A+ L +F
Sbjct: 89 VKERILEYLAVQKLTKSLKGP---------ILCLAGPPGVGKTSLAKSIAKSLGRKFV-- 137
Query: 226 YPQCQLVEVNAHS-LFSKWFSESGKLVAKLFQKIQEMVEEENNLVFVLIDEVESLAAARK 284
+ L V S + + G + ++ Q +++ + N VF L+DE++ +++ +
Sbjct: 138 --RISLGGVRDESEIRGHRRTYVGAMPGRIIQGMKKA--GKLNPVF-LLDEIDKMSSDFR 192
Query: 285 AALSGSEPSDSIRVVNALLTQMDKLKSS-------------PNVIILTTSNITAAIDIAF 331
+PS +A+L +D ++S V+ + T+N A I
Sbjct: 193 G-----DPS------SAMLEVLDPEQNSSFSDHYIEETFDLSKVLFIATANNLATIPGPL 241
Query: 332 VDRADIKAYVGPPTLQARYEILRSCL--QELIRTGI-ISNFQDCDQSML 377
DR +I G ++ + EI++ L +++ G+ SN Q DQ++L
Sbjct: 242 RDRMEIINIAGYTEIE-KLEIVKDHLLPKQIKEHGLKKSNLQLRDQAIL 289
>pdb|3R20|A Chain A, Crystal Structure Of Cytidylate Kinase From Mycobacterium
Smegmatis
Length = 233
Score = 37.0 bits (84), Expect = 0.019, Method: Compositional matrix adjust.
Identities = 14/33 (42%), Positives = 23/33 (69%)
Query: 190 LVSWNRIVLLHGPPGTGKTSLCKALAQKLSIRF 222
+VS + +V + GP GTGK+S+ + LA+ L R+
Sbjct: 5 MVSGSLVVAVDGPAGTGKSSVSRGLARALGARY 37
>pdb|4E22|A Chain A, Structure Of Cytidine Monophosphate Kinase From Yersinia
Pseudotuberculosis
Length = 252
Score = 35.4 bits (80), Expect = 0.056, Method: Compositional matrix adjust.
Identities = 14/35 (40%), Positives = 22/35 (62%)
Query: 188 PFLVSWNRIVLLHGPPGTGKTSLCKALAQKLSIRF 222
P + + ++ + GP G GK +LCKALA+ L+ R
Sbjct: 21 PHMTAIAPVITVDGPSGAGKGTLCKALAESLNWRL 55
>pdb|4HSE|A Chain A, Crystal Structure Of Clpb Nbd1 In Complex With Guanidinium
Chloride And Adp
Length = 397
Score = 35.4 bits (80), Expect = 0.066, Method: Compositional matrix adjust.
Identities = 29/103 (28%), Positives = 49/103 (47%), Gaps = 18/103 (17%)
Query: 187 NPFLVSWNRIVLLHGPPGTGKTSLCKALAQKLSIRFSSRYPQC----QLVEVNAHSLFSK 242
NP L+ G PG GKT++ + LAQ++ P+ ++V + SL +
Sbjct: 56 NPVLI---------GEPGVGKTAIVEGLAQRI---VKGDVPEGLKGKRIVSLQMGSLLA- 102
Query: 243 WFSESGKLVAKLFQKIQEMVEEENNLVFVLIDEVESLAAARKA 285
G+ +L IQE+V+ + V + IDE+ ++ A KA
Sbjct: 103 GAKYRGEFEERLKAVIQEVVQSQGE-VILFIDELHTVVGAGKA 144
>pdb|1QVR|A Chain A, Crystal Structure Analysis Of Clpb
pdb|1QVR|B Chain B, Crystal Structure Analysis Of Clpb
pdb|1QVR|C Chain C, Crystal Structure Analysis Of Clpb
Length = 854
Score = 35.0 bits (79), Expect = 0.078, Method: Compositional matrix adjust.
Identities = 29/103 (28%), Positives = 49/103 (47%), Gaps = 18/103 (17%)
Query: 187 NPFLVSWNRIVLLHGPPGTGKTSLCKALAQKLSIRFSSRYPQC----QLVEVNAHSLFSK 242
NP L+ G PG GKT++ + LAQ++ P+ ++V + SL +
Sbjct: 193 NPVLI---------GEPGVGKTAIVEGLAQRI---VKGDVPEGLKGKRIVSLQMGSLLA- 239
Query: 243 WFSESGKLVAKLFQKIQEMVEEENNLVFVLIDEVESLAAARKA 285
G+ +L IQE+V+ + V + IDE+ ++ A KA
Sbjct: 240 GAKYRGEFEERLKAVIQEVVQSQGE-VILFIDELHTVVGAGKA 281
>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 = 35.0 bits (79), Expect = 0.089, Method: Compositional matrix adjust.
Identities = 30/115 (26%), Positives = 53/115 (46%), Gaps = 32/115 (27%)
Query: 181 FAEKGVNPFLVSWNRIVLLHGPPGTGKTSLCKALAQKLSIRFSSRYPQCQLVEVNAHSLF 240
F ++G P L L +GPPGTGKTS ALA+++ + Y ++E+NA
Sbjct: 40 FVDEGKLPHL-------LFYGPPGTGKTSTIVALAREI---YGKNYSN-MVLELNASDDR 88
Query: 241 S--------KWFSESGKLVAKLFQKIQEMVEEENNLVFVLIDEVESLAAARKAAL 287
K F+ + ++ +K F+ +++DE +++ A + AL
Sbjct: 89 GIDVVRNQIKDFASTRQIFSKGFK-------------LIILDEADAMTNAAQNAL 130
>pdb|3UK6|A Chain A, Crystal Structure Of The Tip48 (Tip49b) Hexamer
pdb|3UK6|B Chain B, Crystal Structure Of The Tip48 (Tip49b) Hexamer
pdb|3UK6|C Chain C, Crystal Structure Of The Tip48 (Tip49b) Hexamer
pdb|3UK6|D Chain D, Crystal Structure Of The Tip48 (Tip49b) Hexamer
pdb|3UK6|E Chain E, Crystal Structure Of The Tip48 (Tip49b) Hexamer
pdb|3UK6|F Chain F, Crystal Structure Of The Tip48 (Tip49b) Hexamer
pdb|3UK6|G Chain G, Crystal Structure Of The Tip48 (Tip49b) Hexamer
pdb|3UK6|H Chain H, Crystal Structure Of The Tip48 (Tip49b) Hexamer
pdb|3UK6|I Chain I, Crystal Structure Of The Tip48 (Tip49b) Hexamer
pdb|3UK6|J Chain J, Crystal Structure Of The Tip48 (Tip49b) Hexamer
pdb|3UK6|K Chain K, Crystal Structure Of The Tip48 (Tip49b) Hexamer
pdb|3UK6|L Chain L, Crystal Structure Of The Tip48 (Tip49b) Hexamer
Length = 368
Score = 34.3 bits (77), Expect = 0.14, Method: Compositional matrix adjust.
Identities = 19/65 (29%), Positives = 28/65 (43%), Gaps = 7/65 (10%)
Query: 194 NRIVLLHGPPGTGKTSLCKALAQKLSIRFSSRYPQCQLVEVNAHSLFSKWFSESGKLVAK 253
R VL+ G PGTGKT++ +AQ L P + +FS S++ L
Sbjct: 70 GRAVLIAGQPGTGKTAIAMGMAQALG-------PDTPFTAIAGSEIFSLEMSKTEALTQA 122
Query: 254 LFQKI 258
+ I
Sbjct: 123 FRRSI 127
>pdb|2BDT|A Chain A, Crystal Structure Of The Putative Gluconate Kinase From
Bacillus Halodurans, Northeast Structural Genomics
Target Bhr61
Length = 189
Score = 33.5 bits (75), Expect = 0.21, Method: Compositional matrix adjust.
Identities = 28/106 (26%), Positives = 53/106 (50%), Gaps = 15/106 (14%)
Query: 195 RIVLLHGPPGTGKTSLCKALAQKLSIRFSSRYPQCQLVEVNAHSLFSKWFS--ESGKLVA 252
++ ++ GP G GK++ CK LA +L +S Y + ++ H + + ES +L+A
Sbjct: 3 KLYIITGPAGVGKSTTCKRLAAQLD---NSAYIEGDIIN---HXVVGGYRPPWESDELLA 56
Query: 253 KLFQKIQEMVEE----ENNLVFVLI---DEVESLAAARKAALSGSE 291
++ I ++ +N++V I DE E+LA +A + E
Sbjct: 57 LTWKNITDLTVNFLLAQNDVVLDYIAFPDEAEALAQTVQAKVDDVE 102
>pdb|1P4S|A Chain A, Solution Structure Of Mycobacterium Tuberculosis Adenylate
Kinase
Length = 181
Score = 33.5 bits (75), Expect = 0.21, Method: Compositional matrix adjust.
Identities = 21/54 (38%), Positives = 26/54 (48%), Gaps = 11/54 (20%)
Query: 197 VLLHGPPGTGKTSLCKALAQKLSIRFSSRYPQCQLVEVNAHSLFSKWFSESGKL 250
VLL GPPG GK + LA+KL I PQ ++ LF + E KL
Sbjct: 3 VLLLGPPGAGKGTQAVKLAEKLGI------PQ-----ISTGELFRRNIEEGTKL 45
>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 = 33.5 bits (75), Expect = 0.23, Method: Compositional matrix adjust.
Identities = 30/95 (31%), Positives = 44/95 (46%), Gaps = 17/95 (17%)
Query: 197 VLLHGPPGTGKTSLCKALAQKLSIRFSSRYPQCQLVEVNAHSLFSKWFSESGKLVAKLFQ 256
+L GPPGTGKT+ ALA+ L F + + +E+NA E G V +
Sbjct: 41 LLFSGPPGTGKTATAIALARDL---FGENW-RDNFIEMNAS-------DERGIDVVR--H 87
Query: 257 KIQEMVEEE----NNLVFVLIDEVESLAAARKAAL 287
KI+E + +DE ++L A +AAL
Sbjct: 88 KIKEFARTAPIGGAPFKIIFLDEADALTADAQAAL 122
>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 = 33.5 bits (75), Expect = 0.24, Method: Compositional matrix adjust.
Identities = 16/40 (40%), Positives = 26/40 (65%), Gaps = 3/40 (7%)
Query: 197 VLLHGPPGTGKTSLCKALAQKLSIRFSSRYPQCQLVEVNA 236
+L +GPPGTGKTS AL ++L + + +++E+NA
Sbjct: 61 MLFYGPPGTGKTSTILALTKEL---YGPDLMKSRILELNA 97
>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 = 33.5 bits (75), Expect = 0.25, Method: Compositional matrix adjust.
Identities = 30/95 (31%), Positives = 44/95 (46%), Gaps = 17/95 (17%)
Query: 197 VLLHGPPGTGKTSLCKALAQKLSIRFSSRYPQCQLVEVNAHSLFSKWFSESGKLVAKLFQ 256
+L GPPGTGKT+ ALA+ L F + + +E+NA E G V +
Sbjct: 41 LLFSGPPGTGKTATAIALARDL---FGENW-RDNFIEMNAS-------DERGIDVVR--H 87
Query: 257 KIQEMVEEE----NNLVFVLIDEVESLAAARKAAL 287
KI+E + +DE ++L A +AAL
Sbjct: 88 KIKEFARTAPIGGAPFKIIFLDEADALTADAQAAL 122
>pdb|4B3G|A Chain A, Crystal Structure Of Ighmbp2 Helicase In Complex With Rna
pdb|4B3G|B Chain B, Crystal Structure Of Ighmbp2 Helicase In Complex With Rna
Length = 646
Score = 33.5 bits (75), Expect = 0.25, Method: Compositional matrix adjust.
Identities = 11/21 (52%), Positives = 16/21 (76%)
Query: 189 FLVSWNRIVLLHGPPGTGKTS 209
F +S + ++HGPPGTGKT+
Sbjct: 200 FALSQKELAIIHGPPGTGKTT 220
>pdb|4B3F|X Chain X, Crystal Structure Of 1ghmbp2 Helicase
Length = 646
Score = 33.5 bits (75), Expect = 0.25, Method: Compositional matrix adjust.
Identities = 11/21 (52%), Positives = 16/21 (76%)
Query: 189 FLVSWNRIVLLHGPPGTGKTS 209
F +S + ++HGPPGTGKT+
Sbjct: 200 FALSQKELAIIHGPPGTGKTT 220
>pdb|1JBK|A Chain A, Crystal Structure Of The First Nucelotide Binding Domain
Of Clpb
Length = 195
Score = 33.1 bits (74), Expect = 0.26, Method: Compositional matrix adjust.
Identities = 25/103 (24%), Positives = 51/103 (49%), Gaps = 18/103 (17%)
Query: 187 NPFLVSWNRIVLLHGPPGTGKTSLCKALAQKLSIRFSSRYPQC----QLVEVNAHSLFSK 242
NP L+ G PG GKT++ + LAQ++ + P+ +++ ++ +L +
Sbjct: 45 NPVLI---------GEPGVGKTAIVEGLAQRI---INGEVPEGLKGRRVLALDMGALVA- 91
Query: 243 WFSESGKLVAKLFQKIQEMVEEENNLVFVLIDEVESLAAARKA 285
G+ +L + ++ ++E N V + IDE+ ++ A KA
Sbjct: 92 GAKYRGEFEERLKGVLNDLAKQEGN-VILFIDELHTMVGAGKA 133
>pdb|2QBY|A Chain A, Crystal Structure Of A Heterodimer Of Cdc6ORC1 INITIATORS
Bound To Origin Dna (From S. Solfataricus)
Length = 386
Score = 33.1 bits (74), Expect = 0.28, Method: Compositional matrix adjust.
Identities = 19/96 (19%), Positives = 48/96 (50%), Gaps = 16/96 (16%)
Query: 197 VLLHGPPGTGKTSLCKALAQKLSIRFSSRYPQCQLVEVNAHSLFSKW------------- 243
+ ++G GTGKT++ K + KL +F ++ V +N + + +
Sbjct: 48 IFIYGLTGTGKTAVVKFVLSKLHKKFLGKFKH---VYINTRQIDTPYRVLADLLESLDVK 104
Query: 244 FSESGKLVAKLFQKIQEMVEEENNLVFVLIDEVESL 279
+G +A+L++++ + V + + V +++DE+++
Sbjct: 105 VPFTGLSIAELYRRLVKAVRDYGSQVVIVLDEIDAF 140
>pdb|2CDN|A Chain A, Crystal Structure Of Mycobacterium Tuberculosis Adenylate
Kinase Complexed With Two Molecules Of Adp And Mg
Length = 201
Score = 33.1 bits (74), Expect = 0.29, Method: Compositional matrix adjust.
Identities = 21/54 (38%), Positives = 26/54 (48%), Gaps = 11/54 (20%)
Query: 197 VLLHGPPGTGKTSLCKALAQKLSIRFSSRYPQCQLVEVNAHSLFSKWFSESGKL 250
VLL GPPG GK + LA+KL I PQ ++ LF + E KL
Sbjct: 23 VLLLGPPGAGKGTQAVKLAEKLGI------PQ-----ISTGELFRRNIEEGTKL 65
>pdb|2XSZ|D Chain D, The Dodecameric Human Ruvbl1:ruvbl2 Complex With Truncated
Domains Ii
pdb|2XSZ|E Chain E, The Dodecameric Human Ruvbl1:ruvbl2 Complex With Truncated
Domains Ii
pdb|2XSZ|F Chain F, The Dodecameric Human Ruvbl1:ruvbl2 Complex With Truncated
Domains Ii
Length = 378
Score = 33.1 bits (74), Expect = 0.30, Method: Compositional matrix adjust.
Identities = 20/71 (28%), Positives = 30/71 (42%), Gaps = 7/71 (9%)
Query: 194 NRIVLLHGPPGTGKTSLCKALAQKLSIRFSSRYPQCQLVEVNAHSLFSKWFSESGKLVAK 253
R VL+ G PGTGKT++ AQ L P + +FS S++ L
Sbjct: 85 GRAVLIAGQPGTGKTAIAXGXAQALG-------PDTPFTAIAGSEIFSLEXSKTEALTQA 137
Query: 254 LFQKIQEMVEE 264
+ I ++E
Sbjct: 138 FRRSIGVRIKE 148
>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 = 0.37, Method: Compositional matrix adjust.
Identities = 25/84 (29%), Positives = 36/84 (42%), Gaps = 21/84 (25%)
Query: 197 VLLHGPPGTGKTSLCKALAQKLSIRFSSRYPQCQLVEVNAHSLFSKWFSESGKLVAKLFQ 256
+LL GPPG GKT+L +A +L VN + G L A L
Sbjct: 41 LLLFGPPGLGKTTLAHVIAHELG--------------VNLRVTSGPAIEKPGDLAAILAN 86
Query: 257 KIQEMVEEENNLVFVLIDEVESLA 280
+ EE +++F IDE+ L+
Sbjct: 87 SL-----EEGDILF--IDEIHRLS 103
>pdb|3VAA|A Chain A, 1.7 Angstrom Resolution Crystal Structure Of Shikimate
Kinase From Bacteroides Thetaiotaomicron
pdb|3VAA|B Chain B, 1.7 Angstrom Resolution Crystal Structure Of Shikimate
Kinase From Bacteroides Thetaiotaomicron
pdb|3VAA|C Chain C, 1.7 Angstrom Resolution Crystal Structure Of Shikimate
Kinase From Bacteroides Thetaiotaomicron
Length = 199
Score = 32.7 bits (73), Expect = 0.41, Method: Compositional matrix adjust.
Identities = 22/75 (29%), Positives = 38/75 (50%), Gaps = 5/75 (6%)
Query: 197 VLLHGPPGTGKTSLCKALAQKLSIRFSSRYPQCQLVEVNAHSLFSKWFSESGKLVAKLFQ 256
+ L G G GKT+L KA A+KL++ F +E H + F+E G+ + +
Sbjct: 28 IFLTGYMGAGKTTLGKAFARKLNVPFID---LDWYIEERFHKTVGELFTERGEAGFRELE 84
Query: 257 K--IQEMVEEENNLV 269
+ + E+ E EN ++
Sbjct: 85 RNMLHEVAEFENVVI 99
>pdb|1IXR|C Chain C, Ruva-Ruvb Complex
Length = 312
Score = 32.7 bits (73), Expect = 0.43, Method: Compositional matrix adjust.
Identities = 25/84 (29%), Positives = 36/84 (42%), Gaps = 21/84 (25%)
Query: 197 VLLHGPPGTGKTSLCKALAQKLSIRFSSRYPQCQLVEVNAHSLFSKWFSESGKLVAKLFQ 256
+LL GPPG GKT+L +A +L VN + G L A L
Sbjct: 41 LLLFGPPGLGKTTLAHVIAHELG--------------VNLRVTSGPAIEKPGDLAAILAN 86
Query: 257 KIQEMVEEENNLVFVLIDEVESLA 280
+ EE +++F IDE+ L+
Sbjct: 87 SL-----EEGDILF--IDEIHRLS 103
>pdb|1RKB|A Chain A, The Structure Of Adrenal Gland Protein Ad-004
Length = 173
Score = 32.7 bits (73), Expect = 0.44, Method: Compositional matrix adjust.
Identities = 13/26 (50%), Positives = 18/26 (69%)
Query: 197 VLLHGPPGTGKTSLCKALAQKLSIRF 222
+LL G PG GKT+L K LA K +++
Sbjct: 7 ILLTGTPGVGKTTLGKELASKSGLKY 32
>pdb|1IXS|B Chain B, Structure Of Ruvb Complexed With Ruva Domain Iii
Length = 318
Score = 32.7 bits (73), Expect = 0.44, Method: Compositional matrix adjust.
Identities = 25/84 (29%), Positives = 36/84 (42%), Gaps = 21/84 (25%)
Query: 197 VLLHGPPGTGKTSLCKALAQKLSIRFSSRYPQCQLVEVNAHSLFSKWFSESGKLVAKLFQ 256
+LL GPPG GKT+L +A +L VN + G L A L
Sbjct: 41 LLLFGPPGLGKTTLAHVIAHELG--------------VNLRVTSGPAIEKPGDLAAILAN 86
Query: 257 KIQEMVEEENNLVFVLIDEVESLA 280
+ EE +++F IDE+ L+
Sbjct: 87 SL-----EEGDILF--IDEIHRLS 103
>pdb|2FEM|A Chain A, Mutant R188m Of The Cytidine Monophosphate Kinase From E.
Coli
pdb|2FEO|A Chain A, Mutant R188m Of The Cytidine Monophosphate Kinase From E.
Coli Complexed With Dcmp
Length = 227
Score = 32.3 bits (72), Expect = 0.50, Method: Compositional matrix adjust.
Identities = 11/23 (47%), Positives = 17/23 (73%)
Query: 196 IVLLHGPPGTGKTSLCKALAQKL 218
++ + GP G GK +LCKA+A+ L
Sbjct: 7 VITIDGPSGAGKGTLCKAMAEAL 29
>pdb|2CMK|A Chain A, Cytidine Monophosphate Kinase In Complex With Cytidine-Di-
Phosphate
pdb|1KDO|A Chain A, Cytidine Monophosphate Kinase From E. Coli In Complex With
Cytidine Monophosphate
pdb|1KDO|B Chain B, Cytidine Monophosphate Kinase From E. Coli In Complex With
Cytidine Monophosphate
pdb|1KDP|A Chain A, Cytidine Monophosphate Kinase From E. Coli In Complex With
2'-Deoxy-Cytidine Monophosphate
pdb|1KDP|B Chain B, Cytidine Monophosphate Kinase From E. Coli In Complex With
2'-Deoxy-Cytidine Monophosphate
pdb|1KDR|A Chain A, Cytidine Monophosphate Kinase From E.Coli In Complex With
Ara-Cytidine Monophosphate
pdb|1KDR|B Chain B, Cytidine Monophosphate Kinase From E.Coli In Complex With
Ara-Cytidine Monophosphate
pdb|1KDT|A Chain A, Cytidine Monophosphate Kinase From E.Coli In Complex With
2',3'-Dideoxy-Cytidine Monophosphate
pdb|1KDT|B Chain B, Cytidine Monophosphate Kinase From E.Coli In Complex With
2',3'-Dideoxy-Cytidine Monophosphate
Length = 227
Score = 32.3 bits (72), Expect = 0.50, Method: Compositional matrix adjust.
Identities = 11/23 (47%), Positives = 17/23 (73%)
Query: 196 IVLLHGPPGTGKTSLCKALAQKL 218
++ + GP G GK +LCKA+A+ L
Sbjct: 7 VITIDGPSGAGKGTLCKAMAEAL 29
>pdb|3IIJ|A Chain A, The Structure Of Hcinap-Adp Complex At 1.76 Angstroms
Resolution.
pdb|3IIK|A Chain A, The Structure Of Hcinap-So4 Complex At 1.95 Angstroms
Resolution
pdb|3IIL|A Chain A, The Structure Of Hcinap-Mgadp-Pi Complex At 2.0 Angstroms
Resolution
pdb|3IIM|A Chain A, The Structure Of Hcinap-Dadp Complex At 2.0 Angstroms
Resolution
Length = 180
Score = 32.3 bits (72), Expect = 0.51, Method: Compositional matrix adjust.
Identities = 13/26 (50%), Positives = 18/26 (69%)
Query: 197 VLLHGPPGTGKTSLCKALAQKLSIRF 222
+LL G PG GKT+L K LA K +++
Sbjct: 14 ILLTGTPGVGKTTLGKELASKSGLKY 39
>pdb|1CKE|A Chain A, Cmp Kinase From Escherichia Coli Free Enzyme Structure
Length = 227
Score = 32.3 bits (72), Expect = 0.52, Method: Compositional matrix adjust.
Identities = 11/23 (47%), Positives = 17/23 (73%)
Query: 196 IVLLHGPPGTGKTSLCKALAQKL 218
++ + GP G GK +LCKA+A+ L
Sbjct: 7 VITIDGPSGAGKGTLCKAMAEAL 29
>pdb|3R8C|A Chain A, Crystal Structure Of Cytidylate Kinase (Cmk) From
Mycobacterium Abscessus
pdb|3R8C|B Chain B, Crystal Structure Of Cytidylate Kinase (Cmk) From
Mycobacterium Abscessus
pdb|4DIE|A Chain A, Crystal Structure Of A Cytidylate Kinase Cmk From
Mycobacterium Abscessus Bound To
Cytidine-5'-Monophosphate
pdb|4DIE|B Chain B, Crystal Structure Of A Cytidylate Kinase Cmk From
Mycobacterium Abscessus Bound To
Cytidine-5'-Monophosphate
pdb|4DIE|C Chain C, Crystal Structure Of A Cytidylate Kinase Cmk From
Mycobacterium Abscessus Bound To
Cytidine-5'-Monophosphate
pdb|4DIE|D Chain D, Crystal Structure Of A Cytidylate Kinase Cmk From
Mycobacterium Abscessus Bound To
Cytidine-5'-Monophosphate
Length = 228
Score = 32.0 bits (71), Expect = 0.62, Method: Compositional matrix adjust.
Identities = 12/27 (44%), Positives = 19/27 (70%)
Query: 196 IVLLHGPPGTGKTSLCKALAQKLSIRF 222
+V + GP GTGK+S+ K LA++L +
Sbjct: 6 VVAVDGPSGTGKSSVAKELARQLGASY 32
>pdb|1OFH|A Chain A, Asymmetric Complex Between Hslv And I-domain Deleted Hslu
(h. Influenzae)
pdb|1OFH|B Chain B, Asymmetric Complex Between Hslv And I-domain Deleted Hslu
(h. Influenzae)
pdb|1OFH|C Chain C, Asymmetric Complex Between Hslv And I-domain Deleted Hslu
(h. Influenzae)
pdb|1OFI|A Chain A, Asymmetric Complex Between Hslv And I-Domain Deleted Hslu
(H. Influenzae)
pdb|1OFI|B Chain B, Asymmetric Complex Between Hslv And I-Domain Deleted Hslu
(H. Influenzae)
pdb|1OFI|C Chain C, Asymmetric Complex Between Hslv And I-Domain Deleted Hslu
(H. Influenzae)
Length = 310
Score = 32.0 bits (71), Expect = 0.62, Method: Compositional matrix adjust.
Identities = 24/101 (23%), Positives = 47/101 (46%), Gaps = 17/101 (16%)
Query: 197 VLLHGPPGTGKTSLCKALAQKLSIRF----SSRYPQCQLVEVNAHSLFSKWFSESGKLVA 252
+L+ GP G GKT + + LA+ + F ++++ + V S+ +G +
Sbjct: 53 ILMIGPTGVGKTEIARRLAKLANAPFIKVEATKFTEVGYVGKEVDSIIRDLTDSAGGAID 112
Query: 253 KLFQKIQEMVEEENNLVFVLIDEVESLAAARKAALSGSEPS 293
+ E+N +VF IDE++ + +K SG++ S
Sbjct: 113 AV---------EQNGIVF--IDEIDKI--CKKGEYSGADVS 140
>pdb|2V1U|A Chain A, Structure Of The Aeropyrum Pernix Orc1 Protein In Complex
With Dna
Length = 387
Score = 31.6 bits (70), Expect = 0.90, Method: Compositional matrix adjust.
Identities = 21/95 (22%), Positives = 46/95 (48%), Gaps = 13/95 (13%)
Query: 198 LLHGPPGTGKTSLCKALAQKLSIRFSSRYPQCQLVEVNAHSLFSKWFSES---------- 247
LL+G GTGKT++ + + ++L R SS + + VNA + + S
Sbjct: 48 LLYGLTGTGKTAVARLVLRRLEARASSLGVLVKPIYVNARHRETPYRVASAIAEAVGVRV 107
Query: 248 ---GKLVAKLFQKIQEMVEEENNLVFVLIDEVESL 279
G V ++++++ + + + +++DE++ L
Sbjct: 108 PFTGLSVGEVYERLVKRLSRLRGIYIIVLDEIDFL 142
>pdb|1KAG|A Chain A, Crystal Structure Of The Escherichia Coli Shikimate Kinase
I (Arok)
pdb|1KAG|B Chain B, Crystal Structure Of The Escherichia Coli Shikimate Kinase
I (Arok)
Length = 173
Score = 31.6 bits (70), Expect = 0.95, Method: Compositional matrix adjust.
Identities = 15/39 (38%), Positives = 24/39 (61%), Gaps = 3/39 (7%)
Query: 195 RIVLLHGPPGTGKTSLCKALAQKLSIRFSSRYPQCQLVE 233
R + L GP G GK+++ + LAQ+L++ F Y Q +E
Sbjct: 5 RNIFLVGPMGAGKSTIGRQLAQQLNMEF---YDSDQEIE 40
>pdb|1IN8|A Chain A, Thermotoga Maritima Ruvb T158v
Length = 334
Score = 31.6 bits (70), Expect = 0.96, Method: Compositional matrix adjust.
Identities = 13/22 (59%), Positives = 16/22 (72%)
Query: 197 VLLHGPPGTGKTSLCKALAQKL 218
VLL GPPG GKT+L +A +L
Sbjct: 54 VLLAGPPGLGKTTLAHIIASEL 75
>pdb|1IN5|A Chain A, Thermogota Maritima Ruvb A156s Mutant
Length = 334
Score = 31.6 bits (70), Expect = 0.98, Method: Compositional matrix adjust.
Identities = 13/22 (59%), Positives = 16/22 (72%)
Query: 197 VLLHGPPGTGKTSLCKALAQKL 218
VLL GPPG GKT+L +A +L
Sbjct: 54 VLLAGPPGLGKTTLAHIIASEL 75
>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 = 31.6 bits (70), Expect = 1.00, Method: Compositional matrix adjust.
Identities = 19/60 (31%), Positives = 29/60 (48%), Gaps = 14/60 (23%)
Query: 159 ESLIYESGLKQRLLHYAASALMFAEKGVNPFLVSWNRIVLLHGPPGTGKTSLCKALAQKL 218
+ ++ + + +RL HY + M P L L GPPG GKT+ ALA++L
Sbjct: 25 DDIVGQEHIVKRLKHYVKTGSM-------PHL-------LFAGPPGVGKTTAALALAREL 70
>pdb|1IN4|A Chain A, Thermotoga Maritima Ruvb Holliday Junction Branch
Migration Motor
Length = 334
Score = 31.6 bits (70), Expect = 1.00, Method: Compositional matrix adjust.
Identities = 13/22 (59%), Positives = 16/22 (72%)
Query: 197 VLLHGPPGTGKTSLCKALAQKL 218
VLL GPPG GKT+L +A +L
Sbjct: 54 VLLAGPPGLGKTTLAHIIASEL 75
>pdb|1IN7|A Chain A, Thermotoga Maritima Ruvb R170a
Length = 334
Score = 31.2 bits (69), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 13/22 (59%), Positives = 16/22 (72%)
Query: 197 VLLHGPPGTGKTSLCKALAQKL 218
VLL GPPG GKT+L +A +L
Sbjct: 54 VLLAGPPGLGKTTLAHIIASEL 75
>pdb|1J7K|A Chain A, Thermotoga Maritima Ruvb P216g Mutant
Length = 334
Score = 31.2 bits (69), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 13/22 (59%), Positives = 16/22 (72%)
Query: 197 VLLHGPPGTGKTSLCKALAQKL 218
VLL GPPG GKT+L +A +L
Sbjct: 54 VLLAGPPGLGKTTLAHIIASEL 75
>pdb|3C8U|A Chain A, Crystal Structure Of Putative Fructose Transport System
Kinase (Yp_612366.1) From Silicibacter Sp. Tm1040 At
1.95 A Resolution
Length = 208
Score = 31.2 bits (69), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 24/100 (24%), Positives = 44/100 (44%), Gaps = 13/100 (13%)
Query: 195 RIVLLHGPPGTGKTSLCKALAQKLSIRFSSRYPQCQLVEVNAHSLFSKWFSESGKLVAK- 253
++V L G PG+GK++L LA LS + ++V + L ++ G L K
Sbjct: 23 QLVALSGAPGSGKSTLSNPLAAALSAQGLP----AEVVPXDGFHLDNRLLEPRGLLPRKG 78
Query: 254 --------LFQKIQEMVEEENNLVFVLIDEVESLAAARKA 285
FQ++ ++ + +++ L D +A A A
Sbjct: 79 APETFDFEGFQRLCHALKHQERVIYPLFDRARDIAIAGAA 118
>pdb|2XZL|A Chain A, Upf1-Rna Complex
Length = 802
Score = 31.2 bits (69), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 23/66 (34%), Positives = 29/66 (43%), Gaps = 1/66 (1%)
Query: 198 LLHGPPGTGKTSLCKALAQKLSIRFSSRYPQCQLVEVNAHSLFSKWFSESGKLVAKLFQK 257
L+ GPPGTGKT + LS R C V L +K + G V +L K
Sbjct: 379 LIQGPPGTGKTVTSATIVYHLSKIHKDRILVCAPSNVAVDHLAAK-LRDLGLKVVRLTAK 437
Query: 258 IQEMVE 263
+E VE
Sbjct: 438 SREDVE 443
>pdb|2AR7|A Chain A, Crystal Structure Of Human Adenylate Kinase 4, Ak4
pdb|2AR7|B Chain B, Crystal Structure Of Human Adenylate Kinase 4, Ak4
pdb|2BBW|A Chain A, Crystal Structure Of Human Adenylate Kinase 4 (Ak4) In
Complex With Diguanosine Pentaphosphate
pdb|2BBW|B Chain B, Crystal Structure Of Human Adenylate Kinase 4 (Ak4) In
Complex With Diguanosine Pentaphosphate
Length = 246
Score = 31.2 bits (69), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 13/30 (43%), Positives = 21/30 (70%), Gaps = 1/30 (3%)
Query: 195 RIVLLHGPPGTGKTSLCKALAQKLSIRFSS 224
R V+L GPPG+GK ++C+ +AQ ++ S
Sbjct: 29 RAVIL-GPPGSGKGTVCQRIAQNFGLQHLS 57
>pdb|3NDP|A Chain A, Crystal Structure Of Human Ak4(L171p)
pdb|3NDP|B Chain B, Crystal Structure Of Human Ak4(L171p)
Length = 231
Score = 31.2 bits (69), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 13/30 (43%), Positives = 21/30 (70%), Gaps = 1/30 (3%)
Query: 195 RIVLLHGPPGTGKTSLCKALAQKLSIRFSS 224
R V+L GPPG+GK ++C+ +AQ ++ S
Sbjct: 7 RAVIL-GPPGSGKGTVCQRIAQNFGLQHLS 35
>pdb|2GDJ|A Chain A, Delta-62 Rada Recombinase In Complex With Amp-Pnp And
Magnesium
Length = 264
Score = 30.8 bits (68), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 18/76 (23%), Positives = 40/76 (52%), Gaps = 2/76 (2%)
Query: 256 QKIQEMVEEENNLVFVLIDEVESLAAARKAALSGSEPSDSIRVVNALLTQMDKLKSSPNV 315
+KI+++++E NN+ V+ID + S R + ++ + + + ++KL N
Sbjct: 135 EKIEDLIQEGNNIKLVVIDSLTS--TFRNEYTGRGKLAERQQKLGRHMATLNKLADLFNC 192
Query: 316 IILTTSNITAAIDIAF 331
++L T+ ++A D F
Sbjct: 193 VVLVTNQVSAKPDAFF 208
>pdb|3THO|A Chain A, Crystal Structure Of Mre11:rad50 In Its AtpADP BOUND STATE
Length = 382
Score = 30.8 bits (68), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 32/129 (24%), Positives = 56/129 (43%), Gaps = 12/129 (9%)
Query: 196 IVLLHGPPGTGKTSLCKALAQKL---SIRFSSRYPQCQLVEVNAHSLFSKWFSESGKLVA 252
I ++ GP G GK+SL +A++ L IR+ + Y V+ + F GK
Sbjct: 42 ITVVEGPNGAGKSSLFEAISFALFGNGIRYPNSYDYVNRNAVDGTARLVFQFERGGKRY- 100
Query: 253 KLFQKIQEMVEEENNLVFVLIDEVESLAAARKAA--------LSGSEPSDSIRVVNALLT 304
++ ++I + + N + +++ + A A K + G E IR V
Sbjct: 101 EIIREINALQRKHNAKLSEILENGKKAAIAAKPTSVKQEVEKILGIEHRTFIRTVFLPQG 160
Query: 305 QMDKLKSSP 313
++DKL SP
Sbjct: 161 EIDKLLISP 169
>pdb|3QG5|A Chain A, The Mre11:rad50 Complex Forms An Atp Dependent Molecular
Clamp In Dna Double-Strand Break Repair
pdb|3QG5|B Chain B, The Mre11:rad50 Complex Forms An Atp Dependent Molecular
Clamp In Dna Double-Strand Break Repair
Length = 365
Score = 30.8 bits (68), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 32/129 (24%), Positives = 56/129 (43%), Gaps = 12/129 (9%)
Query: 196 IVLLHGPPGTGKTSLCKALAQKL---SIRFSSRYPQCQLVEVNAHSLFSKWFSESGKLVA 252
I ++ GP G GK+SL +A++ L IR+ + Y V+ + F GK
Sbjct: 25 ITVVEGPNGAGKSSLFEAISFALFGNGIRYPNSYDYVNRNAVDGTARLVFQFERGGKRY- 83
Query: 253 KLFQKIQEMVEEENNLVFVLIDEVESLAAARKAA--------LSGSEPSDSIRVVNALLT 304
++ ++I + + N + +++ + A A K + G E IR V
Sbjct: 84 EIIREINALQRKHNAKLSEILENGKKAAIAAKPTSVKQEVEKILGIEHRTFIRTVFLPQG 143
Query: 305 QMDKLKSSP 313
++DKL SP
Sbjct: 144 EIDKLLISP 152
>pdb|4DC9|A Chain A, Hexameric Ring Of Methanococcus Voltae Rada
pdb|4DC9|B Chain B, Hexameric Ring Of Methanococcus Voltae Rada
pdb|4DC9|C Chain C, Hexameric Ring Of Methanococcus Voltae Rada
pdb|4DC9|D Chain D, Hexameric Ring Of Methanococcus Voltae Rada
pdb|4DC9|E Chain E, Hexameric Ring Of Methanococcus Voltae Rada
pdb|4DC9|F Chain F, Hexameric Ring Of Methanococcus Voltae Rada
Length = 266
Score = 30.8 bits (68), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 18/76 (23%), Positives = 40/76 (52%), Gaps = 2/76 (2%)
Query: 256 QKIQEMVEEENNLVFVLIDEVESLAAARKAALSGSEPSDSIRVVNALLTQMDKLKSSPNV 315
+KI+++++E NN+ V+ID + S R + ++ + + + ++KL N
Sbjct: 137 EKIEDLIQEGNNIKLVVIDSLTS--TFRNEYTGRGKLAERQQKLGRHMATLNKLADLFNC 194
Query: 316 IILTTSNITAAIDIAF 331
++L T+ ++A D F
Sbjct: 195 VVLVTNQVSAKPDAFF 210
>pdb|3QF7|A Chain A, The Mre11:rad50 Complex Forms An Atp Dependent Molecular
Clamp In Dna Double-Strand Break Repair
pdb|3QF7|B Chain B, The Mre11:rad50 Complex Forms An Atp Dependent Molecular
Clamp In Dna Double-Strand Break Repair
Length = 365
Score = 30.8 bits (68), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 32/129 (24%), Positives = 56/129 (43%), Gaps = 12/129 (9%)
Query: 196 IVLLHGPPGTGKTSLCKALAQKL---SIRFSSRYPQCQLVEVNAHSLFSKWFSESGKLVA 252
I ++ GP G GK+SL +A++ L IR+ + Y V+ + F GK
Sbjct: 25 ITVVEGPNGAGKSSLFEAISFALFGNGIRYPNSYDYVNRNAVDGTARLVFQFERGGKRY- 83
Query: 253 KLFQKIQEMVEEENNLVFVLIDEVESLAAARKAA--------LSGSEPSDSIRVVNALLT 304
++ ++I + + N + +++ + A A K + G E IR V
Sbjct: 84 EIIREINALQRKHNAKLSEILENGKKAAIAAKPTSVKQEVEKILGIEHRTFIRTVFLPQG 143
Query: 305 QMDKLKSSP 313
++DKL SP
Sbjct: 144 EIDKLLISP 152
>pdb|1Y63|A Chain A, Initial Crystal Structural Analysis Of A Probable Kinase
From Leishmania Major Friedlin
Length = 184
Score = 30.4 bits (67), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 14/36 (38%), Positives = 21/36 (58%), Gaps = 9/36 (25%)
Query: 184 KGVNPFLVSWNRIVLLHGPPGTGKTSLCKALAQKLS 219
KG+N +L+ G PGTGKTS+ + +A +L
Sbjct: 9 KGIN---------ILITGTPGTGKTSMAEMIAAELD 35
>pdb|3NTU|A Chain A, Rada Recombinase D302k Mutant In Complex With Amp-Pnp
Length = 319
Score = 30.4 bits (67), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 18/76 (23%), Positives = 40/76 (52%), Gaps = 2/76 (2%)
Query: 256 QKIQEMVEEENNLVFVLIDEVESLAAARKAALSGSEPSDSIRVVNALLTQMDKLKSSPNV 315
+KI+++++E NN+ V+ID + S R + ++ + + + ++KL N
Sbjct: 190 EKIEDLIQEGNNIKLVVIDSLTS--TFRNEYTGRGKLAERQQKLGRHMATLNKLADLFNC 247
Query: 316 IILTTSNITAAIDIAF 331
++L T+ ++A D F
Sbjct: 248 VVLVTNQVSAKPDAFF 263
>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 = 30.4 bits (67), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 11/20 (55%), Positives = 17/20 (85%)
Query: 197 VLLHGPPGTGKTSLCKALAQ 216
++L GPPGTGKT+L + +A+
Sbjct: 53 MILWGPPGTGKTTLAEVIAR 72
>pdb|1IN6|A Chain A, Thermotoga Maritima Ruvb K64r Mutant
Length = 334
Score = 30.4 bits (67), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 12/22 (54%), Positives = 16/22 (72%)
Query: 197 VLLHGPPGTGKTSLCKALAQKL 218
VLL GPPG G+T+L +A +L
Sbjct: 54 VLLAGPPGLGRTTLAHIIASEL 75
>pdb|1T4G|A Chain A, Atpase In Complex With Amp-pnp
pdb|1XU4|A Chain A, Atpase In Complex With Amp-Pnp, Magnesium And Potassium
Co-F
pdb|2FPK|A Chain A, Rada Recombinase In Complex With Adp
pdb|2FPL|A Chain A, Rada Recombinase In Complex With Amp-Pnp And Low
Concentration Of K+
pdb|2FPM|A Chain A, Rada Recombinase In Complex With Amp-Pnp And High
Concentration Of K+
pdb|2B21|A Chain A, Rada Recombinase In Complex With Amppnp At Ph 6.0
pdb|2I1Q|A Chain A, Rada Recombinase In Complex With Calcium
pdb|3FYH|A Chain A, Recombinase In Complex With Adp And Metatungstate
Length = 322
Score = 30.4 bits (67), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 18/76 (23%), Positives = 40/76 (52%), Gaps = 2/76 (2%)
Query: 256 QKIQEMVEEENNLVFVLIDEVESLAAARKAALSGSEPSDSIRVVNALLTQMDKLKSSPNV 315
+KI+++++E NN+ V+ID + S R + ++ + + + ++KL N
Sbjct: 193 EKIEDLIQEGNNIKLVVIDSLTS--TFRNEYTGRGKLAERQQKLGRHMATLNKLADLFNC 250
Query: 316 IILTTSNITAAIDIAF 331
++L T+ ++A D F
Sbjct: 251 VVLVTNQVSAKPDAFF 266
>pdb|2F1H|A Chain A, Recombinase In Complex With Amp-pnp And Potassium
pdb|2F1I|A Chain A, Recombinase In Complex With Amp-pnp
pdb|2F1J|A Chain A, Recombinase In Complex With Adp
Length = 322
Score = 30.4 bits (67), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 18/76 (23%), Positives = 40/76 (52%), Gaps = 2/76 (2%)
Query: 256 QKIQEMVEEENNLVFVLIDEVESLAAARKAALSGSEPSDSIRVVNALLTQMDKLKSSPNV 315
+KI+++++E NN+ V+ID + S R + ++ + + + ++KL N
Sbjct: 193 EKIEDLIQEGNNIKLVVIDSLTS--TFRNEYTGRGKLAERQQKLGRHMATLNKLADLFNC 250
Query: 316 IILTTSNITAAIDIAF 331
++L T+ ++A D F
Sbjct: 251 VVLVTNQVSAKPDAFF 266
>pdb|3E1S|A Chain A, Structure Of An N-Terminal Truncation Of Deinococcus
Radiodurans Recd2
pdb|3GP8|A Chain A, Crystal Structure Of The Binary Complex Of Recd2 With Dna
pdb|3GPL|A Chain A, Crystal Structure Of The Ternary Complex Of Recd2 With Dna
And Adpnp
pdb|3GPL|B Chain B, Crystal Structure Of The Ternary Complex Of Recd2 With Dna
And Adpnp
Length = 574
Score = 30.4 bits (67), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 12/25 (48%), Positives = 20/25 (80%)
Query: 191 VSWNRIVLLHGPPGTGKTSLCKALA 215
++ +R+V+L G PGTGK++ KA+A
Sbjct: 201 LAGHRLVVLTGGPGTGKSTTTKAVA 225
>pdb|3SAF|A Chain A, Crystal Structure Of The Human Rrp6 Catalytic Domain With
D313n Mutation In The Active Site
pdb|3SAF|B Chain B, Crystal Structure Of The Human Rrp6 Catalytic Domain With
D313n Mutation In The Active Site
pdb|3SAG|A Chain A, Crystal Structure Of The Human Rrp6 Catalytic Domain With
D313n Mutation In The Active Site
pdb|3SAG|B Chain B, Crystal Structure Of The Human Rrp6 Catalytic Domain With
D313n Mutation In The Active Site
Length = 428
Score = 30.0 bits (66), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 18/50 (36%), Positives = 25/50 (50%)
Query: 118 KPVVQVFQLSEEGPCEELSGDGQLSSFNEWILPAKEFDGMWESLIYESGL 167
KP Q+++ EE PC +S +L NE +L +EF E Y S L
Sbjct: 96 KPQPQLYRPIEETPCHFISSLDELVELNEKLLNCQEFAVNLEHHSYRSFL 145
>pdb|3HWS|A Chain A, Crystal Structure Of Nucleotide-Bound Hexameric Clpx
pdb|3HWS|B Chain B, Crystal Structure Of Nucleotide-Bound Hexameric Clpx
pdb|3HWS|C Chain C, Crystal Structure Of Nucleotide-Bound Hexameric Clpx
pdb|3HWS|D Chain D, Crystal Structure Of Nucleotide-Bound Hexameric Clpx
pdb|3HWS|E Chain E, Crystal Structure Of Nucleotide-Bound Hexameric Clpx
pdb|3HWS|F Chain F, Crystal Structure Of Nucleotide-Bound Hexameric Clpx
Length = 363
Score = 30.0 bits (66), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 23/86 (26%), Positives = 43/86 (50%), Gaps = 12/86 (13%)
Query: 197 VLLHGPPGTGKTSLCKALAQKLSIRFSSRYPQCQLVEVNAHSLFSKWF--SESGKLVAKL 254
+LL GP G+GKT L + LA+ L + F+ +A +L + + ++ KL
Sbjct: 54 ILLIGPTGSGKTLLAETLARLLDVPFTM---------ADATTLTEAGYVGEDVENIIQKL 104
Query: 255 FQKIQEMVEEENNLVFVLIDEVESLA 280
QK V++ + V ID+++ ++
Sbjct: 105 LQKCDYDVQKAQRGI-VYIDQIDKIS 129
>pdb|3HTE|A Chain A, Crystal Structure Of Nucleotide-Free Hexameric Clpx
pdb|3HTE|B Chain B, Crystal Structure Of Nucleotide-Free Hexameric Clpx
pdb|3HTE|C Chain C, Crystal Structure Of Nucleotide-Free Hexameric Clpx
pdb|3HTE|D Chain D, Crystal Structure Of Nucleotide-Free Hexameric Clpx
pdb|3HTE|E Chain E, Crystal Structure Of Nucleotide-Free Hexameric Clpx
pdb|3HTE|F Chain F, Crystal Structure Of Nucleotide-Free Hexameric Clpx
Length = 363
Score = 30.0 bits (66), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 23/86 (26%), Positives = 43/86 (50%), Gaps = 12/86 (13%)
Query: 197 VLLHGPPGTGKTSLCKALAQKLSIRFSSRYPQCQLVEVNAHSLFSKWF--SESGKLVAKL 254
+LL GP G+GKT L + LA+ L + F+ +A +L + + ++ KL
Sbjct: 54 ILLIGPTGSGKTLLAETLARLLDVPFTM---------ADATTLTEAGYVGEDVENIIQKL 104
Query: 255 FQKIQEMVEEENNLVFVLIDEVESLA 280
QK V++ + V ID+++ ++
Sbjct: 105 LQKCDYDVQKAQRGI-VYIDQIDKIS 129
>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 = 29.6 bits (65), Expect = 3.1, Method: Compositional matrix adjust.
Identities = 12/24 (50%), Positives = 18/24 (75%), Gaps = 1/24 (4%)
Query: 197 VLLHGP-PGTGKTSLCKALAQKLS 219
++LH P PGTGKT++ KAL ++
Sbjct: 50 IILHSPSPGTGKTTVAKALCHDVN 73
>pdb|3SAH|A Chain A, Crystal Structure Of The Human Rrp6 Catalytic Domain With
Y436a Mutation In The Catalytic Site
pdb|3SAH|B Chain B, Crystal Structure Of The Human Rrp6 Catalytic Domain With
Y436a Mutation In The Catalytic Site
Length = 428
Score = 29.6 bits (65), Expect = 3.2, Method: Compositional matrix adjust.
Identities = 18/50 (36%), Positives = 25/50 (50%)
Query: 118 KPVVQVFQLSEEGPCEELSGDGQLSSFNEWILPAKEFDGMWESLIYESGL 167
KP Q+++ EE PC +S +L NE +L +EF E Y S L
Sbjct: 96 KPQPQLYRPIEETPCHFISSLDELVELNEKLLNCQEFAVDLEHHSYRSFL 145
>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 = 29.3 bits (64), Expect = 3.8, Method: Compositional matrix adjust.
Identities = 14/27 (51%), Positives = 19/27 (70%)
Query: 192 SWNRIVLLHGPPGTGKTSLCKALAQKL 218
+ R VLL G PGTGK+ L +A+A+ L
Sbjct: 58 NQKRHVLLIGEPGTGKSMLGQAMAELL 84
>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 = 29.3 bits (64), Expect = 4.3, Method: Compositional matrix adjust.
Identities = 11/22 (50%), Positives = 16/22 (72%)
Query: 197 VLLHGPPGTGKTSLCKALAQKL 218
+LL+GP GTGK + C AL + +
Sbjct: 39 LLLYGPNGTGKKTRCMALLESI 60
>pdb|2GZA|A Chain A, Crystal Structure Of The Virb11 Atpase From The Brucella
Suis Type Iv Secretion System In Complex With Sulphate
pdb|2GZA|B Chain B, Crystal Structure Of The Virb11 Atpase From The Brucella
Suis Type Iv Secretion System In Complex With Sulphate
pdb|2GZA|C Chain C, Crystal Structure Of The Virb11 Atpase From The Brucella
Suis Type Iv Secretion System In Complex With Sulphate
Length = 361
Score = 29.3 bits (64), Expect = 4.4, Method: Compositional matrix adjust.
Identities = 12/28 (42%), Positives = 20/28 (71%)
Query: 191 VSWNRIVLLHGPPGTGKTSLCKALAQKL 218
V R++++ G G+GKT+L KAL Q++
Sbjct: 172 VQLERVIVVAGETGSGKTTLMKALMQEI 199
>pdb|3ETL|A Chain A, Rada Recombinase From Methanococcus Maripaludis In Complex
With Amppnp
pdb|3EW9|A Chain A, Rada Recombinase From Methanococcus Maripaludis In Complex
With Amppnp And Potassium Ions
pdb|3EWA|A Chain A, Rada Recombinase From Methanococcus Maripaludis In Complex
With Amppnp And Ammonium Ions
Length = 322
Score = 29.3 bits (64), Expect = 4.4, Method: Compositional matrix adjust.
Identities = 19/77 (24%), Positives = 41/77 (53%), Gaps = 4/77 (5%)
Query: 256 QKIQEMVEEENNLVFVLIDEVESLAAARKAALSG-SEPSDSIRVVNALLTQMDKLKSSPN 314
+KI+++++ NN+ V+ID SL + + +G + ++ + + + ++KL N
Sbjct: 193 EKIEDLIKGGNNIKLVIID---SLTSTFRNEFTGRGKLAERQQKLGRHMATLNKLADLYN 249
Query: 315 VIILTTSNITAAIDIAF 331
I+L T+ + A D F
Sbjct: 250 CIVLVTNQVAAKPDAYF 266
>pdb|1D2N|A Chain A, D2 Domain Of N-Ethylmaleimide-Sensitive Fusion Protein
Length = 272
Score = 29.3 bits (64), Expect = 4.7, Method: Compositional matrix adjust.
Identities = 23/85 (27%), Positives = 45/85 (52%), Gaps = 17/85 (20%)
Query: 197 VLLHGPPGTGKTSLCKALAQKLSIRFSSRYPQCQLVEVNAHSLFSKWFSESGKLVAKLFQ 256
VLL GPP +GKT+L +A++ S +P ++ + FSE+ K Q
Sbjct: 67 VLLEGPPHSGKTALAAKIAEE------SNFPFIKICSPDKMI----GFSETAKC-----Q 111
Query: 257 KIQEMVEE--ENNLVFVLIDEVESL 279
++++ ++ ++ L V++D++E L
Sbjct: 112 AMKKIFDDAYKSQLSCVVVDDIERL 136
>pdb|3IQD|B Chain B, Structure Of Octopine-Dehydrogenase In Complex With Nadh
And Agmatine
Length = 404
Score = 28.9 bits (63), Expect = 5.0, Method: Compositional matrix adjust.
Identities = 36/141 (25%), Positives = 59/141 (41%), Gaps = 19/141 (13%)
Query: 158 WESLIYESGLKQRLLH----YAASALMFAEKGVNPFLVSWNRIVLLHGPPGTGKTSLCKA 213
W I E G K +L AAS + K V+P + + +LHG + L K
Sbjct: 146 WACRIKEFGRKVEVLGTKSVLAASLIKGTAKTVDPL----STLQMLHGAEPVFR--LAKH 199
Query: 214 LAQKLSIRFSSRYPQCQLVEVNAHSLFSKWFSESGKLVAKLFQKIQEMVEEENNLVFVLI 273
+ L + +S +P LF +W S GK V + Q + + +++
Sbjct: 200 FLEMLIMSYSFVHPAI---------LFGRWGSWDGKPVPEAPLFYQGIDQATADMLTACS 250
Query: 274 DEVESLAAARKAALSGSEPSD 294
+E + +A A AA G++ SD
Sbjct: 251 NECKDVANAIMAACPGNDLSD 271
>pdb|1NSF|A Chain A, D2 Hexamerization Domain Of N-Ethylmaleimide Sensitive
Factor (Nsf)
Length = 273
Score = 28.9 bits (63), Expect = 5.1, Method: Compositional matrix adjust.
Identities = 23/85 (27%), Positives = 45/85 (52%), Gaps = 17/85 (20%)
Query: 197 VLLHGPPGTGKTSLCKALAQKLSIRFSSRYPQCQLVEVNAHSLFSKWFSESGKLVAKLFQ 256
VLL GPP +GKT+L +A++ S +P ++ + FSE+ K Q
Sbjct: 66 VLLEGPPHSGKTALAAKIAEE------SNFPFIKICSPDKMI----GFSETAKC-----Q 110
Query: 257 KIQEMVEE--ENNLVFVLIDEVESL 279
++++ ++ ++ L V++D++E L
Sbjct: 111 AMKKIFDDAYKSQLSCVVVDDIERL 135
>pdb|3C7A|A Chain A, A Structural Basis For Substrate And Stereo Selectivity In
Octopine Dehydrogenase (Odh-Nadh)
pdb|3C7D|B Chain B, A Structural Basis For Substrate And Stereo Selectivity In
Octopine Dehydrogenase (Odh-Nadh-Pyruvate)
pdb|3C7C|B Chain B, A Structural Basis For Substrate And Stereo Selectivity In
Octopine Dehydrogenase (Odh-Nadh-L-Arginine)
Length = 404
Score = 28.9 bits (63), Expect = 5.2, Method: Compositional matrix adjust.
Identities = 36/141 (25%), Positives = 59/141 (41%), Gaps = 19/141 (13%)
Query: 158 WESLIYESGLKQRLLH----YAASALMFAEKGVNPFLVSWNRIVLLHGPPGTGKTSLCKA 213
W I E G K +L AAS + K V+P + + +LHG + L K
Sbjct: 146 WACRIKEFGRKVEVLGTKSVLAASLIKGTAKTVDPL----STLQMLHGAEPVFR--LAKH 199
Query: 214 LAQKLSIRFSSRYPQCQLVEVNAHSLFSKWFSESGKLVAKLFQKIQEMVEEENNLVFVLI 273
+ L + +S +P LF +W S GK V + Q + + +++
Sbjct: 200 FLEMLIMSYSFVHPAI---------LFGRWGSWDGKPVPEAPLFYQGIDQATADMLTACS 250
Query: 274 DEVESLAAARKAALSGSEPSD 294
+E + +A A AA G++ SD
Sbjct: 251 NECKDVANAIMAACPGNDLSD 271
>pdb|3KQ5|A Chain A, Crystal Structure Of An Uncharacterized Protein From
Coxiella Burnetii
Length = 393
Score = 28.9 bits (63), Expect = 5.7, Method: Compositional matrix adjust.
Identities = 23/109 (21%), Positives = 51/109 (46%), Gaps = 4/109 (3%)
Query: 89 FLVENVQRICVSDTDEWVKNHDILLFWQVKPVVQVFQLSEEGPCEELSGDGQL---SSFN 145
FL++ ++ + + T+++ + ++ L++ V+ VQV + + P L +G L +S N
Sbjct: 31 FLLQQIETLSLLPTEQYAQLYEALVYRFVE-FVQVLPIRLDEPLCSLMNEGLLRGVNSLN 89
Query: 146 EWILPAKEFDGMWESLIYESGLKQRLLHYAASALMFAEKGVNPFLVSWN 194
+I E + ++ +GL + H + +F F+ WN
Sbjct: 90 HYIQNHPEATPLERYALFSAGLLLEVAHAVVNQKIFITDEEGNFIKQWN 138
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 0.384
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 11,522,490
Number of Sequences: 62578
Number of extensions: 444360
Number of successful extensions: 1644
Number of sequences better than 100.0: 115
Number of HSP's better than 100.0 without gapping: 83
Number of HSP's successfully gapped in prelim test: 32
Number of HSP's that attempted gapping in prelim test: 1522
Number of HSP's gapped (non-prelim): 122
length of query: 426
length of database: 14,973,337
effective HSP length: 102
effective length of query: 324
effective length of database: 8,590,381
effective search space: 2783283444
effective search space used: 2783283444
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: 53 (25.0 bits)