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= 009856
(523 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>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 = 80.1 bits (196), Expect = 3e-15, Method: Compositional matrix adjust.
Identities = 70/241 (29%), Positives = 111/241 (46%), Gaps = 38/241 (15%)
Query: 269 KIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGD-VAPLGAQAVTKIHEIFD 327
K+ P + +L YGPPGTGKT++A+ +A ++ + + G + V + + + +IF
Sbjct: 45 KVGIEPPKGILLYGPPGTGKTLLAKAVATETNATFIRVVGSELVKKFIGEGASLVKDIFK 104
Query: 328 WAKKSKKGLLLFIDEADAFLCERNSIHMS---EAQRSALNALLFRTGDQSR-DIVLVLAT 383
AK+ K ++FIDE DA +R E QR+ + L G +R D+ ++ AT
Sbjct: 105 LAKE-KAPSIIFIDEIDAIAAKRTDALTGGDREVQRTLMQLLAEMDGFDARGDVKIIGAT 163
Query: 384 NRPGDLDSAI--TDRIDEVIEFPLPREEERFXXXXXXXXXXXCSDEGDSSSLKWGHLFKK 441
NRP LD AI R D +IE P P E+ R + K
Sbjct: 164 NRPDILDPAILRPGRFDRIIEVPAPDEKGRL------------------------EILKI 199
Query: 442 QQQKITIKDLSDNVIQEAARKTEGFSGREIAKLM--ASVQAAVYARPDCVLDSQLFREVV 499
+K+ + + D ++E A+ TEG G E+ + A + A R +D FR+ V
Sbjct: 200 HTRKMNLAE--DVNLEEIAKMTEGCVGAELKAICTEAGMNAIRELRDYVTMDD--FRKAV 255
Query: 500 E 500
E
Sbjct: 256 E 256
>pdb|3VFD|A Chain A, Human Spastin Aaa Domain
Length = 389
Score = 77.4 bits (189), Expect = 2e-14, Method: Compositional matrix adjust.
Identities = 77/269 (28%), Positives = 126/269 (46%), Gaps = 48/269 (17%)
Query: 216 SGLLSQAMNKVIRNKTSA---GTAGPVEAIKNNGDIILHPSLQRRIQHLAKATANTKIHQ 272
S L + MN+++ N T+ AG A + +I++ PSL+ + +A
Sbjct: 95 SNLANLIMNEIVDNGTAVKFDDIAGQDLAKQALQEIVILPSLRPELFTGLRA-------- 146
Query: 273 APFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVAPLGAQAVTK----IHEIFDW 328
P R +L +GPPG GKTM+A+ +A +S + ++ A L ++ V + + +F
Sbjct: 147 -PARGLLLFGPPGNGKTMLAKAVAAESNATFFNIS---AASLTSKYVGEGEKLVRALFAV 202
Query: 329 AKKSKKGLLLFIDEADAFLCERNSIHMSEAQRSALNALLFRTGDQS--RDIVLVL-ATNR 385
A++ + ++FID+ D+ LCER ++R L+ G QS D VLV+ ATNR
Sbjct: 203 ARELQPS-IIFIDQVDSLLCERREGEHDASRRLKTEFLIEFDGVQSAGDDRVLVMGATNR 261
Query: 386 PGDLDSAITDRIDEVIEFPLPREEERFXXXXXXXXXXXCSDEGDSSSLKWGHLFKKQQQK 445
P +LD A+ R + + LP EE R C KQ
Sbjct: 262 PQELDEAVLRRFIKRVYVSLPNEETR----LLLLKNLLC----------------KQGSP 301
Query: 446 ITIKDLSDNVIQEAARKTEGFSGREIAKL 474
+T K+L+ + AR T+G+SG ++ L
Sbjct: 302 LTQKELA-----QLARMTDGYSGSDLTAL 325
>pdb|4B4T|H Chain H, Near-Atomic Resolution Structural Model Of The Yeast 26s
Proteasome
Length = 467
Score = 75.9 bits (185), Expect = 5e-14, Method: Compositional matrix adjust.
Identities = 51/145 (35%), Positives = 77/145 (53%), Gaps = 8/145 (5%)
Query: 274 PFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGD-VAPLGAQAVTKIHEIFDWAKKS 332
P + +L YGPPGTGKT+ AR +A ++ + + G + V + + E+F+ A ++
Sbjct: 242 PPKGILLYGPPGTGKTLCARAVANRTDATFIRVIGSELVQKYVGEGARMVRELFEMA-RT 300
Query: 333 KKGLLLFIDEADAFLCER---NSIHMSEAQRSALNALLFRTG-DQSRDIVLVLATNRPGD 388
KK ++F DE DA R + +E QR+ L + G D +I ++ ATNRP
Sbjct: 301 KKACIIFFDEIDAVGGARFDDGAGGDNEVQRTMLELITQLDGFDPRGNIKVMFATNRPNT 360
Query: 389 LDSAI--TDRIDEVIEFPLPREEER 411
LD A+ RID +EF LP E R
Sbjct: 361 LDPALLRPGRIDRKVEFSLPDLEGR 385
>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 = 75.5 bits (184), Expect = 7e-14, Method: Compositional matrix adjust.
Identities = 47/138 (34%), Positives = 81/138 (58%), Gaps = 7/138 (5%)
Query: 274 PFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDV-APLGAQAVTKIHEIFDWAKKS 332
P R +L YGPPGTGKT++AR +A ++G + ++ G ++ + L ++ + + + F+ A+K+
Sbjct: 237 PPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESESNLRKAFEEAEKN 296
Query: 333 KKGLLLFIDEADAFLCERNSIHMSEAQRSALNALL-FRTGDQSRDIVLVL-ATNRPGDLD 390
++FIDE DA +R H E +R ++ LL G + R V+V+ ATNRP +D
Sbjct: 297 APA-IIFIDELDAIAPKREKTH-GEVERRIVSQLLTLMDGLKQRAHVIVMAATNRPNSID 354
Query: 391 SAI--TDRIDEVIEFPLP 406
A+ R D ++ +P
Sbjct: 355 PALRRFGRFDREVDIGIP 372
>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 = 75.5 bits (184), Expect = 7e-14, Method: Compositional matrix adjust.
Identities = 45/137 (32%), Positives = 77/137 (56%), Gaps = 5/137 (3%)
Query: 274 PFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDV-APLGAQAVTKIHEIFDWAKKS 332
P R +L YGPPGTGKT++AR +A ++G + ++ G ++ + L ++ + + + F+ A+K+
Sbjct: 237 PPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESESNLRKAFEEAEKN 296
Query: 333 KKGLLLFIDEADAFLCERNSIHMSEAQRSALNALLFRTGDQSRDIVLVL-ATNRPGDLDS 391
++FIDE DA +R H +R L G + R V+V+ ATNRP +D
Sbjct: 297 APA-IIFIDELDAIAPKREKTHGEVERRIVSQLLTLMDGLKQRAHVIVMAATNRPNSIDP 355
Query: 392 AI--TDRIDEVIEFPLP 406
A+ R D ++ +P
Sbjct: 356 ALRRFGRFDREVDIGIP 372
>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 = 75.5 bits (184), Expect = 7e-14, Method: Compositional matrix adjust.
Identities = 45/137 (32%), Positives = 77/137 (56%), Gaps = 5/137 (3%)
Query: 274 PFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDV-APLGAQAVTKIHEIFDWAKKS 332
P R +L YGPPGTGKT++AR +A ++G + ++ G ++ + L ++ + + + F+ A+K+
Sbjct: 237 PPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESESNLRKAFEEAEKN 296
Query: 333 KKGLLLFIDEADAFLCERNSIHMSEAQRSALNALLFRTGDQSRDIVLVL-ATNRPGDLDS 391
++FIDE DA +R H +R L G + R V+V+ ATNRP +D
Sbjct: 297 APA-IIFIDELDAIAPKREKTHGEVERRIVSQLLTLMDGLKQRAHVIVMAATNRPNSIDP 355
Query: 392 AI--TDRIDEVIEFPLP 406
A+ R D ++ +P
Sbjct: 356 ALRRFGRFDREVDIGIP 372
>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 = 75.5 bits (184), Expect = 7e-14, Method: Compositional matrix adjust.
Identities = 45/137 (32%), Positives = 77/137 (56%), Gaps = 5/137 (3%)
Query: 274 PFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDV-APLGAQAVTKIHEIFDWAKKS 332
P R +L YGPPGTGKT++AR +A ++G + ++ G ++ + L ++ + + + F+ A+K+
Sbjct: 237 PPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESESNLRKAFEEAEKN 296
Query: 333 KKGLLLFIDEADAFLCERNSIHMSEAQRSALNALLFRTGDQSRDIVLVL-ATNRPGDLDS 391
++FIDE DA +R H +R L G + R V+V+ ATNRP +D
Sbjct: 297 APA-IIFIDELDAIAPKREKTHGEVERRIVSQLLTLMDGLKQRAHVIVMAATNRPNSIDP 355
Query: 392 AI--TDRIDEVIEFPLP 406
A+ R D ++ +P
Sbjct: 356 ALRRFGRFDREVDIGIP 372
>pdb|1R7R|A Chain A, The Crystal Structure Of Murine P97VCP AT 3.6A
Length = 816
Score = 75.1 bits (183), Expect = 8e-14, Method: Compositional matrix adjust.
Identities = 45/137 (32%), Positives = 77/137 (56%), Gaps = 5/137 (3%)
Query: 274 PFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDV-APLGAQAVTKIHEIFDWAKKS 332
P R +L YGPPGTGKT++AR +A ++G + ++ G ++ + L ++ + + + F+ A+K+
Sbjct: 237 PPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESESNLRKAFEEAEKN 296
Query: 333 KKGLLLFIDEADAFLCERNSIHMSEAQRSALNALLFRTGDQSRDIVLVL-ATNRPGDLDS 391
++FIDE DA +R H +R L G + R V+V+ ATNRP +D
Sbjct: 297 APA-IIFIDELDAIAPKREKTHGEVERRIVSQLLTLMDGLKQRAHVIVMAATNRPNSIDP 355
Query: 392 AI--TDRIDEVIEFPLP 406
A+ R D ++ +P
Sbjct: 356 ALRRFGRFDREVDIGIP 372
Score = 73.9 bits (180), Expect = 2e-13, Method: Compositional matrix adjust.
Identities = 51/165 (30%), Positives = 86/165 (52%), Gaps = 11/165 (6%)
Query: 254 LQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVAP 313
+Q ++H K K P + +LFYGPPG GKT++A+ IA + ++ + G ++
Sbjct: 493 VQYPVEHPDKFL---KFGMTPSKGVLFYGPPGCGKTLLAKAIANECQANFISIKGPELLT 549
Query: 314 L-GAQAVTKIHEIFDWAKKSKKGLLLFIDEADAFLCER--NSIHMSEAQRSALNALLFRT 370
+ ++ + EIFD A+++ +LF DE D+ R N A +N +L
Sbjct: 550 MWFGESEANVREIFDKARQAAP-CVLFFDELDSIAKARGGNIGDGGGAADRVINQILTEM 608
Query: 371 GDQS--RDIVLVLATNRPGDLDSAI--TDRIDEVIEFPLPREEER 411
S +++ ++ ATNRP +D AI R+D++I PLP E+ R
Sbjct: 609 DGMSTKKNVFIIGATNRPDIIDPAILRPGRLDQLIYIPLPDEKSR 653
>pdb|4B4T|L Chain L, Near-Atomic Resolution Structural Model Of The Yeast 26s
Proteasome
Length = 437
Score = 75.1 bits (183), Expect = 8e-14, Method: Compositional matrix adjust.
Identities = 51/146 (34%), Positives = 76/146 (52%), Gaps = 8/146 (5%)
Query: 274 PFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTG-GDVAPLGAQAVTKIHEIFDWAKKS 332
P + +L YGPPGTGKT++A+ +A G ++ G V ++ I E+F +AK+
Sbjct: 214 PPKGVLLYGPPGTGKTLLAKAVAATIGANFIFSPASGIVDKYIGESARIIREMFAYAKEH 273
Query: 333 KKGLLLFIDEADAFLCERNSIHMS---EAQRSALNALLFRTG-DQSRDIVLVLATNRPGD 388
+ ++F+DE DA R S S E QR+ + L G D +++ATNRP
Sbjct: 274 EP-CIIFMDEVDAIGGRRFSEGTSADREIQRTLMELLTQMDGFDNLGQTKIIMATNRPDT 332
Query: 389 LDSAI--TDRIDEVIEFPLPREEERF 412
LD A+ R+D +E PLP E R
Sbjct: 333 LDPALLRPGRLDRKVEIPLPNEAGRL 358
>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 = 75.1 bits (183), Expect = 9e-14, Method: Compositional matrix adjust.
Identities = 45/137 (32%), Positives = 77/137 (56%), Gaps = 5/137 (3%)
Query: 274 PFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDV-APLGAQAVTKIHEIFDWAKKS 332
P R +L YGPPGTGKT++AR +A ++G + ++ G ++ + L ++ + + + F+ A+K+
Sbjct: 237 PPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESESNLRKAFEEAEKN 296
Query: 333 KKGLLLFIDEADAFLCERNSIHMSEAQRSALNALLFRTGDQSRDIVLVL-ATNRPGDLDS 391
++FIDE DA +R H +R L G + R V+V+ ATNRP +D
Sbjct: 297 APA-IIFIDELDAIAPKREKTHGEVERRIVSQLLTLMDGLKQRAHVIVMAATNRPNSIDP 355
Query: 392 AI--TDRIDEVIEFPLP 406
A+ R D ++ +P
Sbjct: 356 ALRRFGRFDREVDIGIP 372
Score = 73.9 bits (180), Expect = 2e-13, Method: Compositional matrix adjust.
Identities = 51/165 (30%), Positives = 86/165 (52%), Gaps = 11/165 (6%)
Query: 254 LQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVAP 313
+Q ++H K K P + +LFYGPPG GKT++A+ IA + ++ + G ++
Sbjct: 493 VQYPVEHPDKFL---KFGMTPSKGVLFYGPPGCGKTLLAKAIANECQANFISIKGPELLT 549
Query: 314 L-GAQAVTKIHEIFDWAKKSKKGLLLFIDEADAFLCER--NSIHMSEAQRSALNALLFRT 370
+ ++ + EIFD A+++ +LF DE D+ R N A +N +L
Sbjct: 550 MWFGESEANVREIFDKARQAAP-CVLFFDELDSIAKARGGNIGDGGGAADRVINQILTEM 608
Query: 371 GDQS--RDIVLVLATNRPGDLDSAI--TDRIDEVIEFPLPREEER 411
S +++ ++ ATNRP +D AI R+D++I PLP E+ R
Sbjct: 609 DGMSTKKNVFIIGATNRPDIIDPAILRPGRLDQLIYIPLPDEKSR 653
>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 = 74.7 bits (182), Expect = 1e-13, Method: Compositional matrix adjust.
Identities = 66/243 (27%), Positives = 115/243 (47%), Gaps = 49/243 (20%)
Query: 274 PFRNMLFYGPPGTGKTMVAREIARKSGLD--YAMMTGGDVAPLGAQAVTKIHEIFDWAKK 331
P+R +L +GPPGTGK+ +A+ +A ++ +++ + V+ ++ + +F A++
Sbjct: 166 PWRGILLFGPPGTGKSYLAKAVATEANNSTFFSISSSDLVSKWLGESEKLVKNLFQLARE 225
Query: 332 SKKGLLLFIDEADAFLCERNSIHMSEAQRSALNALLFR---TGDQSRDIVLVLATNRPGD 388
+K ++FIDE D+ LC S + SEA R L + G + I+++ ATN P
Sbjct: 226 NKPS-IIFIDEIDS-LCGSRSENESEAARRIKTEFLVQMQGVGVDNDGILVLGATNIPWV 283
Query: 389 LDSAITDRIDEVIEFPLPREEERFXXXXXXXXXXXCSDEGDSSSLKWGHLFKKQQQKITI 448
LDSAI R ++ I PLP R +++ HL Q
Sbjct: 284 LDSAIRRRFEKRIYIPLPEAHAR-------------------AAMFRLHLGSTQNS---- 320
Query: 449 KDLSDNVIQEAARKTEGFSGREIAKLMAS--------VQAAVY---------ARPDCVLD 491
L++ QE RKT+G+SG +I+ ++ VQ+A + A P+C+++
Sbjct: 321 --LTEADFQELGRKTDGYSGADISIIVRDALMQPVRKVQSATHFKKVRGPSRADPNCIVN 378
Query: 492 SQL 494
L
Sbjct: 379 DLL 381
>pdb|3EIE|A Chain A, Crystal Structure Of S.Cerevisiae Vps4 In The So4-Bound
State
Length = 322
Score = 74.7 bits (182), Expect = 1e-13, Method: Compositional matrix adjust.
Identities = 59/197 (29%), Positives = 103/197 (52%), Gaps = 20/197 (10%)
Query: 214 PWSGLLSQAMNKVIRNKTSAGTAGPVEAIKNNGDIILHPSLQRRIQHLAKATANTKIHQA 273
P++ +LS+ N ++ + AG G EA+K + ++ P + HL K ++
Sbjct: 4 PFTAILSEKPN--VKWEDVAGLEGAKEALK---EAVILPV---KFPHLFKG------NRK 49
Query: 274 PFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGD-VAPLGAQAVTKIHEIFDWAKKS 332
P +L YGPPGTGK+ +A+ +A ++ + ++ D V+ ++ + ++F A+++
Sbjct: 50 PTSGILLYGPPGTGKSYLAKAVATEANSTFFSVSSSDLVSKWMGESEKLVKQLFAMAREN 109
Query: 333 KKGLLLFIDEADAFLCERNSIHMSEAQRSALNALLFR---TGDQSRDIVLVLATNRPGDL 389
K ++FID+ DA R SEA R LL + G+ S+ ++++ ATN P L
Sbjct: 110 KPS-IIFIDQVDALTGTRGEGE-SEASRRIKTELLVQMNGVGNDSQGVLVLGATNIPWQL 167
Query: 390 DSAITDRIDEVIEFPLP 406
DSAI R + I PLP
Sbjct: 168 DSAIRRRFERRIYIPLP 184
>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 = 73.6 bits (179), Expect = 2e-13, Method: Compositional matrix adjust.
Identities = 51/165 (30%), Positives = 86/165 (52%), Gaps = 11/165 (6%)
Query: 254 LQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVAP 313
+Q ++H K K P + +LFYGPPG GKT++A+ IA + ++ + G ++
Sbjct: 31 VQYPVEHPDKFL---KFGMTPSKGVLFYGPPGCGKTLLAKAIANECQANFISIKGPELLT 87
Query: 314 LG-AQAVTKIHEIFDWAKKSKKGLLLFIDEADAFLCER--NSIHMSEAQRSALNALLFRT 370
+ ++ + EIFD A+++ +LF DE D+ R N A +N +L
Sbjct: 88 MWFGESEANVREIFDKARQAAP-CVLFFDELDSIAKARGGNIGDGGGAADRVINQILTEM 146
Query: 371 GDQS--RDIVLVLATNRPGDLDSAI--TDRIDEVIEFPLPREEER 411
S +++ ++ ATNRP +D AI R+D++I PLP E+ R
Sbjct: 147 DGMSTKKNVFIIGATNRPDIIDPAILRPGRLDQLIYIPLPDEKSR 191
>pdb|4B4T|M Chain M, Near-Atomic Resolution Structural Model Of The Yeast 26s
Proteasome
Length = 434
Score = 73.6 bits (179), Expect = 3e-13, Method: Compositional matrix adjust.
Identities = 73/246 (29%), Positives = 111/246 (45%), Gaps = 44/246 (17%)
Query: 254 LQRRIQHLAKATANTKIHQAPFRNM--------LFYGPPGTGKTMVAREIARKSGLDYAM 305
L ++I+ L +A F++M L YGPPGTGKT++AR A ++ +
Sbjct: 186 LDKQIEELVEAIVLPMKRADKFKDMGIRAPKGALMYGPPGTGKTLLARACAAQTNATFLK 245
Query: 306 MTGGDVAPLG-AQAVTKIHEIFDWAKKSKKGLLLFIDEADAFLCERNSIHMS---EAQRS 361
+ + + + + + F AK+ K ++FIDE DA +R S E QR+
Sbjct: 246 LAAPQLVQMYIGEGAKLVRDAFALAKE-KAPTIIFIDELDAIGTKRFDSEKSGDREVQRT 304
Query: 362 ALNALLFRTGDQSRDIVLVL-ATNRPGDLDSAI--TDRIDEVIEFPLPREEERFXXXXXX 418
L L G S D V VL ATNR LD A+ + R+D IEFPLP E+ R
Sbjct: 305 MLELLNQLDGFSSDDRVKVLAATNRVDVLDPALLRSGRLDRKIEFPLPSEDSR------- 357
Query: 419 XXXXXCSDEGDSSSLKWGHLFKKQQQKITIKDLSDNVIQEAARKTEGFSGREIAKLMASV 478
+ + +K+T D D QE AR T+ F+G ++ + +V
Sbjct: 358 -----------------AQILQIHSRKMTTDD--DINWQELARSTDEFNGAQLKAV--TV 396
Query: 479 QAAVYA 484
+A + A
Sbjct: 397 EAGMIA 402
>pdb|2RKO|A Chain A, Crystal Structure Of The Vps4p-Dimer
Length = 331
Score = 72.8 bits (177), Expect = 4e-13, Method: Compositional matrix adjust.
Identities = 60/194 (30%), Positives = 100/194 (51%), Gaps = 20/194 (10%)
Query: 217 GLLSQAMNKVIRNKTSAGTAGPVEAIKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFR 276
G LS+ N ++ + AG G EA+K + ++ P + HL K ++ P
Sbjct: 16 GSLSEKPN--VKWEDVAGLEGAKEALK---EAVILPV---KFPHLFKG------NRKPTS 61
Query: 277 NMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGD-VAPLGAQAVTKIHEIFDWAKKSKKG 335
+L YGPPGTGK+ +A+ +A ++ + ++ D V+ ++ + ++F A+++K
Sbjct: 62 GILLYGPPGTGKSYLAKAVATEANSTFFSVSSSDLVSKWMGESEKLVKQLFAMARENKPS 121
Query: 336 LLLFIDEADAFLCERNSIHMSEAQRSALNALLFR---TGDQSRDIVLVLATNRPGDLDSA 392
++FIDE DA R SEA R LL + G+ S+ ++++ ATN P LDSA
Sbjct: 122 -IIFIDEVDALTGTRGEGE-SEASRRIKTELLVQMNGVGNDSQGVLVLGATNIPWQLDSA 179
Query: 393 ITDRIDEVIEFPLP 406
I R + I PLP
Sbjct: 180 IRRRFERRIYIPLP 193
>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 = 72.8 bits (177), Expect = 4e-13, Method: Compositional matrix adjust.
Identities = 59/195 (30%), Positives = 101/195 (51%), Gaps = 20/195 (10%)
Query: 216 SGLLSQAMNKVIRNKTSAGTAGPVEAIKNNGDIILHPSLQRRIQHLAKATANTKIHQAPF 275
S +LS+ N ++ + AG G EA+K + ++ P + HL K ++ P
Sbjct: 39 SAILSEKPN--VKWEDVAGLEGAKEALK---EAVILPV---KFPHLFKG------NRKPT 84
Query: 276 RNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGD-VAPLGAQAVTKIHEIFDWAKKSKK 334
+L YGPPGTGK+ +A+ +A ++ + ++ D V+ ++ + ++F A+++K
Sbjct: 85 SGILLYGPPGTGKSYLAKAVATEANSTFFSVSSSDLVSKWMGESEKLVKQLFAMARENKP 144
Query: 335 GLLLFIDEADAFLCERNSIHMSEAQRSALNALLFR---TGDQSRDIVLVLATNRPGDLDS 391
++FID+ DA R SEA R LL + G+ S+ ++++ ATN P LDS
Sbjct: 145 S-IIFIDQVDALTGTRGEGE-SEASRRIKTELLVQMNGVGNDSQGVLVLGATNIPWQLDS 202
Query: 392 AITDRIDEVIEFPLP 406
AI R + I PLP
Sbjct: 203 AIRRRFERRIYIPLP 217
>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 = 72.4 bits (176), Expect = 6e-13, Method: Compositional matrix adjust.
Identities = 59/195 (30%), Positives = 101/195 (51%), Gaps = 20/195 (10%)
Query: 216 SGLLSQAMNKVIRNKTSAGTAGPVEAIKNNGDIILHPSLQRRIQHLAKATANTKIHQAPF 275
S +LS+ N ++ + AG G EA+K + ++ P + HL K ++ P
Sbjct: 24 SAILSEKPN--VKWEDVAGLEGAKEALK---EAVILPV---KFPHLFKG------NRKPT 69
Query: 276 RNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGD-VAPLGAQAVTKIHEIFDWAKKSKK 334
+L YGPPGTGK+ +A+ +A ++ + ++ D V+ ++ + ++F A+++K
Sbjct: 70 SGILLYGPPGTGKSYLAKAVATEANSTFFSVSSSDLVSKWMGESEKLVKQLFAMARENKP 129
Query: 335 GLLLFIDEADAFLCERNSIHMSEAQRSALNALLFR---TGDQSRDIVLVLATNRPGDLDS 391
++FID+ DA R SEA R LL + G+ S+ ++++ ATN P LDS
Sbjct: 130 S-IIFIDQVDALTGTRGEGE-SEASRRIKTELLVQMNGVGNDSQGVLVLGATNIPWQLDS 187
Query: 392 AITDRIDEVIEFPLP 406
AI R + I PLP
Sbjct: 188 AIRRRFERRIYIPLP 202
>pdb|4B4T|K Chain K, Near-Atomic Resolution Structural Model Of The Yeast 26s
Proteasome
Length = 428
Score = 70.9 bits (172), Expect = 2e-12, Method: Compositional matrix adjust.
Identities = 49/155 (31%), Positives = 79/155 (50%), Gaps = 8/155 (5%)
Query: 261 LAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGD-VAPLGAQAV 319
L +A +I P R +L YGPPGTGKTM+ + +A + + + G + V +
Sbjct: 192 LVQADLYEQIGIDPPRGVLLYGPPGTGKTMLVKAVANSTKAAFIRVNGSEFVHKYLGEGP 251
Query: 320 TKIHEIFDWAKKSKKGLLLFIDEADAFLCERNSIHMS---EAQRSALNALLFRTG-DQSR 375
+ ++F A+++ ++FIDE D+ +R E QR + L G DQS
Sbjct: 252 RMVRDVFRLARENAPS-IIFIDEVDSIATKRFDAQTGSDREVQRILIELLTQMDGFDQST 310
Query: 376 DIVLVLATNRPGDLDSAI--TDRIDEVIEFPLPRE 408
++ +++ATNR LD A+ R+D IEFP R+
Sbjct: 311 NVKVIMATNRADTLDPALLRPGRLDRKIEFPSLRD 345
>pdb|1XWI|A Chain A, Crystal Structure Of Vps4b
Length = 322
Score = 70.1 bits (170), Expect = 3e-12, Method: Compositional matrix adjust.
Identities = 58/209 (27%), Positives = 101/209 (48%), Gaps = 32/209 (15%)
Query: 272 QAPFRNMLFYGPPGTGKTMVAREIARKSGLD--YAMMTGGDVAPLGAQAVTKIHEIFDWA 329
+ P+R +L +GPPGTGK+ +A+ +A ++ +++ + V+ ++ + +F A
Sbjct: 42 RTPWRGILLFGPPGTGKSYLAKAVATEANNSTFFSISSSDLVSKWLGESEKLVKNLFQLA 101
Query: 330 KKSKKGLLLFIDEADAFLCERNSIHMSEAQRSALNALLFR---TGDQSRDIVLVLATNRP 386
+++K ++FIDE D+ LC S + SEA R L + G + I+++ ATN P
Sbjct: 102 RENKPS-IIFIDEIDS-LCGSRSENESEAARRIKTEFLVQMQGVGVDNDGILVLGATNIP 159
Query: 387 GDLDSAITDRIDEVIEFPLPREEERFXXXXXXXXXXXCSDEGDSSSLKWGHLFKKQQQKI 446
LDSAI R ++ I PLP R +F K
Sbjct: 160 WVLDSAIRRRFEKRIYIPLPEPHAR------------------------AAMF-KLHLGT 194
Query: 447 TIKDLSDNVIQEAARKTEGFSGREIAKLM 475
T L++ +E RKT+G+SG +I+ ++
Sbjct: 195 TQNSLTEADFRELGRKTDGYSGADISIIV 223
>pdb|4B4T|J Chain J, Near-Atomic Resolution Structural Model Of The Yeast 26s
Proteasome
Length = 405
Score = 67.8 bits (164), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 46/138 (33%), Positives = 75/138 (54%), Gaps = 8/138 (5%)
Query: 276 RNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGD-VAPLGAQAVTKIHEIFDWAKKSKK 334
+ ++ YGPPGTGKT++AR +A + + ++G + V + + E+F A++
Sbjct: 183 KGVILYGPPGTGKTLLARAVAHHTDCKFIRVSGAELVQKYIGEGSRMVRELFVMAREHAP 242
Query: 335 GLLLFIDEADAFLCER---NSIHMSEAQRSALNALLFRTG-DQSRDIVLVLATNRPGDLD 390
++F+DE D+ R + SE QR+ L L G + S++I +++ATNR LD
Sbjct: 243 S-IIFMDEIDSIGSTRVEGSGGGDSEVQRTMLELLNQLDGFETSKNIKIIMATNRLDILD 301
Query: 391 SAI--TDRIDEVIEFPLP 406
A+ RID IEFP P
Sbjct: 302 PALLRPGRIDRKIEFPPP 319
>pdb|2X8A|A Chain A, Human Nuclear Valosin Containing Protein Like (Nvl), C-
Terminal Aaa-Atpase Domain
Length = 274
Score = 67.4 bits (163), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 47/140 (33%), Positives = 77/140 (55%), Gaps = 7/140 (5%)
Query: 278 MLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVAPLG-AQAVTKIHEIFDWAKKSKKGL 336
+L GPPG GKT++A+ +A +SGL++ + G ++ + ++ + ++F AK S
Sbjct: 47 VLLAGPPGCGKTLLAKAVANESGLNFISVKGPELLNMYVGESERAVRQVFQRAKNSAP-C 105
Query: 337 LLFIDEADAFLCERNSIHMSEAQRSALNALLFRT-GDQSRDIVLVL-ATNRPGDLDSAI- 393
++F DE DA LC R S + A +N LL G ++R V ++ ATNRP +D AI
Sbjct: 106 VIFFDEVDA-LCPRRSDRETGASVRVVNQLLTEMDGLEARQQVFIMAATNRPDIIDPAIL 164
Query: 394 -TDRIDEVIEFPLPREEERF 412
R+D+ + LP +R
Sbjct: 165 RPGRLDKTLFVGLPPPADRL 184
>pdb|1LV7|A Chain A, Crystal Structure Of The Aaa Domain Of Ftsh
Length = 257
Score = 62.8 bits (151), Expect = 4e-10, Method: Compositional matrix adjust.
Identities = 60/217 (27%), Positives = 104/217 (47%), Gaps = 38/217 (17%)
Query: 276 RNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVAPL--GAQAVTKIHEIFDWAKKSK 333
+ +L GPPGTGKT++A+ IA ++ + + ++G D + G A +++ ++F+ AKK+
Sbjct: 46 KGVLMVGPPGTGKTLLAKAIAGEAKVPFFTISGSDFVEMFVGVGA-SRVRDMFEQAKKAA 104
Query: 334 KGLLLFIDEADAFLCERNS-IHMSEAQRS-ALNALLFRTG--DQSRDIVLVLATNRPGDL 389
++FIDE DA +R + + +R LN +L + + I+++ ATNRP L
Sbjct: 105 P-CIIFIDEIDAVGRQRGAGLGGGHDEREQTLNQMLVEMDGFEGNEGIIVIAATNRPDVL 163
Query: 390 DSAI--TDRIDEVIEFPLPREEERFXXXXXXXXXXXCSDEGDSSSLKWGHLFKKQQQKIT 447
D A+ R D + LP R + K +++
Sbjct: 164 DPALLRPGRFDRQVVVGLPDVRGR------------------------EQILKVHMRRVP 199
Query: 448 IKDLSDNVIQEAARKTEGFSGREIAKLMASVQAAVYA 484
+ D I AR T GFSG ++A L+ +AA++A
Sbjct: 200 LAPDIDAAI--IARGTPGFSGADLANLVN--EAALFA 232
>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 = 62.8 bits (151), Expect = 5e-10, Method: Compositional matrix adjust.
Identities = 41/143 (28%), Positives = 71/143 (49%), Gaps = 3/143 (2%)
Query: 272 QAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVAPLGAQAVTKIHEIFDWAKK 331
+ P + +L +GPPGTGKT++ + IA +SG + ++ + K+ +
Sbjct: 114 RGPPKGILLFGPPGTGKTLIGKCIASQSGATFFSISASSLTSKWVGEGEKMVRALFAVAR 173
Query: 332 SKKGLLLFIDEADAFLCERNSIHMSEAQRSALNALLFRTG--DQSRDIVLVL-ATNRPGD 388
++ ++FIDE D+ L +R ++R L+ G S D +LV+ ATNRP +
Sbjct: 174 CQQPAVIFIDEIDSLLSQRGDGEHESSRRIKTEFLVQLDGATTSSEDRILVVGATNRPQE 233
Query: 389 LDSAITDRIDEVIEFPLPREEER 411
+D A R+ + + PLP R
Sbjct: 234 IDEAARRRLVKRLYIPLPEASAR 256
>pdb|2QZ4|A Chain A, Human Paraplegin, Aaa Domain In Complex With Adp
Length = 262
Score = 61.6 bits (148), Expect = 1e-09, Method: Compositional matrix adjust.
Identities = 60/217 (27%), Positives = 100/217 (46%), Gaps = 37/217 (17%)
Query: 276 RNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGD-VAPLGAQAVTKIHEIFDWAKKSKK 334
+ L GPPG GKT++A+ +A ++ + + M G + V +G ++ +F A +++
Sbjct: 40 KGALLLGPPGCGKTLLAKAVATEAQVPFLAMAGAEFVEVIGGLGAARVRSLFKEA-RARA 98
Query: 335 GLLLFIDEADAFLCERNSIHMSEAQRS----ALNALLFRT-GDQSRDIVLVLA-TNRPGD 388
+++IDE DA + ++ S MS + LN LL G + D V+VLA TNR
Sbjct: 99 PCIVYIDEIDA-VGKKRSTTMSGFSNTEEEQTLNQLLVEMDGMGTTDHVIVLASTNRADI 157
Query: 389 LDSAIT--DRIDEVIEFPLPREEERFXXXXXXXXXXXCSDEGDSSSLKWGHLFKKQQQKI 446
LD A+ R+D + LP +ER +F++ + +
Sbjct: 158 LDGALMRPGRLDRHVFIDLPTLQER------------------------REIFEQHLKSL 193
Query: 447 TIKDLSDNVIQEAARKTEGFSGREIAKLM--ASVQAA 481
+ S Q A T GFSG +IA + A++ AA
Sbjct: 194 KLTQSSTFYSQRLAELTPGFSGADIANICNEAALHAA 230
>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 = 59.7 bits (143), Expect = 4e-09, Method: Compositional matrix adjust.
Identities = 40/128 (31%), Positives = 70/128 (54%), Gaps = 14/128 (10%)
Query: 276 RNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGD----VAPLGAQAVTKIHEIFDWAKK 331
+ +L GPPGTGKT++A+ +A ++ + + M G LGA +++ ++F+ AKK
Sbjct: 45 KGVLLVGPPGTGKTLLAKAVAGEAHVPFFSMGGSSFIEMFVGLGA---SRVRDLFETAKK 101
Query: 332 SKKGLLLFIDEADAFLCERNS---IHMSEAQRSALNALLFRT---GDQSRDIVLVLATNR 385
++FIDE DA R + + ++ + LN LL G ++ ++++ ATNR
Sbjct: 102 QAPS-IIFIDEIDAIGKSRAAGGVVSGNDEREQTLNQLLAEMDGFGSENAPVIVLAATNR 160
Query: 386 PGDLDSAI 393
P LD A+
Sbjct: 161 PEILDPAL 168
>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 = 59.7 bits (143), Expect = 4e-09, Method: Compositional matrix adjust.
Identities = 45/146 (30%), Positives = 75/146 (51%), Gaps = 8/146 (5%)
Query: 254 LQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVAP 313
L+ ++ L + +I + +L GPPGTGKT++AR +A ++ + + ++G D
Sbjct: 28 LKEVVEFLKDPSKFNRIGARMPKGILLVGPPGTGKTLLARAVAGEANVPFFHISGSDFVE 87
Query: 314 L--GAQAVTKIHEIFDWAKKSKKGLLLFIDEADAFLCERNS-IHMSEAQRS-ALNALLFR 369
L G A ++ ++F A K+ ++FIDE DA R + + +R LN LL
Sbjct: 88 LFVGVGA-ARVRDLFAQA-KAHAPCIVFIDEIDAVGRHRGAGLGGGHDEREQTLNQLLVE 145
Query: 370 TG--DQSRDIVLVLATNRPGDLDSAI 393
D I+++ ATNRP LD A+
Sbjct: 146 MDGFDSKEGIIVMAATNRPDILDPAL 171
>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 = 57.8 bits (138), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 44/146 (30%), Positives = 74/146 (50%), Gaps = 8/146 (5%)
Query: 254 LQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVAP 313
L+ ++ L + +I + +L GPPGTG T++AR +A ++ + + ++G D
Sbjct: 28 LKEVVEFLKDPSKFNRIGARMPKGILLVGPPGTGATLLARAVAGEANVPFFHISGSDFVE 87
Query: 314 L--GAQAVTKIHEIFDWAKKSKKGLLLFIDEADAFLCERNS-IHMSEAQRS-ALNALLFR 369
L G A ++ ++F A K+ ++FIDE DA R + + +R LN LL
Sbjct: 88 LFVGVGA-ARVRDLFAQA-KAHAPCIVFIDEIDAVGRHRGAGLGGGHDEREQTLNQLLVE 145
Query: 370 TG--DQSRDIVLVLATNRPGDLDSAI 393
D I+++ ATNRP LD A+
Sbjct: 146 MDGFDSKEGIIVMAATNRPDILDPAL 171
>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 = 57.4 bits (137), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 45/138 (32%), Positives = 69/138 (50%), Gaps = 8/138 (5%)
Query: 276 RNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGD-VAPLGAQAVTKIHEIFDWAKKSKK 334
+ +L GPPG GKT +AR +A ++ + + +G D V ++ ++F+ AK+
Sbjct: 74 KGVLLVGPPGVGKTHLARAVAGEARVPFITASGSDFVEMFVGVGAARVRDLFETAKRHAP 133
Query: 335 GLLLFIDEADAFLCERNS-IHMSEAQRS-ALNALLFRTGDQSRD--IVLVLATNRPGDLD 390
++FIDE DA +R S + +R LN LL +D IV++ ATNRP LD
Sbjct: 134 -CIVFIDEIDAVGRKRGSGVGGGNDEREQTLNQLLVEMDGFEKDTAIVVMAATNRPDILD 192
Query: 391 SAI--TDRIDEVIEFPLP 406
A+ R D I P
Sbjct: 193 PALLRPGRFDRQIAIDAP 210
>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 = 57.4 bits (137), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 45/138 (32%), Positives = 69/138 (50%), Gaps = 8/138 (5%)
Query: 276 RNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGD-VAPLGAQAVTKIHEIFDWAKKSKK 334
+ +L GPPG GKT +AR +A ++ + + +G D V ++ ++F+ AK+
Sbjct: 65 KGVLLVGPPGVGKTHLARAVAGEARVPFITASGSDFVEMFVGVGAARVRDLFETAKRHAP 124
Query: 335 GLLLFIDEADAFLCERNS-IHMSEAQRS-ALNALLFRTGDQSRD--IVLVLATNRPGDLD 390
++FIDE DA +R S + +R LN LL +D IV++ ATNRP LD
Sbjct: 125 -CIVFIDEIDAVGRKRGSGVGGGNDEREQTLNQLLVEMDGFEKDTAIVVMAATNRPDILD 183
Query: 391 SAI--TDRIDEVIEFPLP 406
A+ R D I P
Sbjct: 184 PALLRPGRFDRQIAIDAP 201
>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 = 56.2 bits (134), Expect = 4e-08, Method: Compositional matrix adjust.
Identities = 42/124 (33%), Positives = 67/124 (54%), Gaps = 8/124 (6%)
Query: 276 RNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVAPL--GAQAVTKIHEIFDWAKKSK 333
+ +L GPPG GKT +AR +A ++ + + +G D + G A ++ ++F+ AK+
Sbjct: 50 KGVLLVGPPGVGKTHLARAVAGEARVPFITASGSDFVEMFVGVGA-ARVRDLFETAKRHA 108
Query: 334 KGLLLFIDEADAFLCERNS-IHMSEAQRS-ALNALLFRTGDQSRD--IVLVLATNRPGDL 389
++FIDE DA +R S + +R LN LL +D IV++ ATNRP L
Sbjct: 109 P-CIVFIDEIDAVGRKRGSGVGGGNDEREQTLNQLLVEMDGFEKDTAIVVMAATNRPDIL 167
Query: 390 DSAI 393
D A+
Sbjct: 168 DPAL 171
>pdb|1IY2|A Chain A, Crystal Structure Of The Ftsh Atpase Domain From Thermus
Thermophilus
Length = 278
Score = 56.2 bits (134), Expect = 4e-08, Method: Compositional matrix adjust.
Identities = 41/123 (33%), Positives = 65/123 (52%), Gaps = 6/123 (4%)
Query: 276 RNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGD-VAPLGAQAVTKIHEIFDWAKKSKK 334
+ +L GPPG GKT +AR +A ++ + + +G D V ++ ++F+ AK+
Sbjct: 74 KGVLLVGPPGVGKTHLARAVAGEARVPFITASGSDFVEMFVGVGAARVRDLFETAKRHAP 133
Query: 335 GLLLFIDEADAFLCERNS-IHMSEAQRS-ALNALLFRTGDQSRD--IVLVLATNRPGDLD 390
++FIDE DA +R S + +R LN LL +D IV++ ATNRP LD
Sbjct: 134 -CIVFIDEIDAVGRKRGSGVGGGNDEREQTLNQLLVEMDGFEKDTAIVVMAATNRPDILD 192
Query: 391 SAI 393
A+
Sbjct: 193 PAL 195
>pdb|3B9P|A Chain A, Spastin
Length = 297
Score = 55.1 bits (131), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 57/212 (26%), Positives = 92/212 (43%), Gaps = 39/212 (18%)
Query: 272 QAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVAPLGAQAVTK----IHEIFD 327
+AP + +L +GPPG GKT++AR +A + + ++ A L ++ V + +F
Sbjct: 51 RAPAKGLLLFGPPGNGKTLLARAVATECSATFLNISA---ASLTSKYVGDGEKLVRALFA 107
Query: 328 WAKKSKKGLLLFIDEADAFLCERNSIHMSEAQRSALNALLFR----TGDQSRD-IVLVLA 382
A+ + ++FIDE D+ L S EA R L G+ D IV++ A
Sbjct: 108 VARHMQPS-IIFIDEVDS-LLSERSSSEHEASRRLKTEFLVEFDGLPGNPDGDRIVVLAA 165
Query: 383 TNRPGDLDSAITDRIDEVIEFPLPREEERFXXXXXXXXXXXCSDEGDSSSLKWGHLFKKQ 442
TNRP +LD A R + + LP E+ R L L +KQ
Sbjct: 166 TNRPQELDEAALRRFTKRVYVSLPDEQTR--------------------ELLLNRLLQKQ 205
Query: 443 QQKITIKDLSDNVIQEAARKTEGFSGREIAKL 474
L ++ A+ T+G+SG ++ L
Sbjct: 206 GSP-----LDTEALRRLAKITDGYSGSDLTAL 232
>pdb|4B4T|I Chain I, Near-Atomic Resolution Structural Model Of The Yeast 26s
Proteasome
Length = 437
Score = 53.9 bits (128), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 44/140 (31%), Positives = 70/140 (50%), Gaps = 8/140 (5%)
Query: 274 PFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGD-VAPLGAQAVTKIHEIFDWAKKS 332
P + ++ YG PGTGKT++A+ +A ++ + + G + + +IF A ++
Sbjct: 215 PPKGVILYGAPGTGKTLLAKAVANQTSATFLRIVGSELIQKYLGDGPRLCRQIFKVAGEN 274
Query: 333 KKGLLLFIDEADAFLCER---NSIHMSEAQRSALNALLFRTG-DQSRDIVLVLATNRPGD 388
++FIDE DA +R NS E QR+ L L G D D+ +++ATN+
Sbjct: 275 APS-IVFIDEIDAIGTKRYDSNSGGEREIQRTMLELLNQLDGFDDRGDVKVIMATNKIET 333
Query: 389 LDSAI--TDRIDEVIEFPLP 406
LD A+ RID I F P
Sbjct: 334 LDPALIRPGRIDRKILFENP 353
>pdb|1IXR|C Chain C, Ruva-Ruvb Complex
Length = 312
Score = 51.6 bits (122), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 42/149 (28%), Positives = 68/149 (45%), Gaps = 17/149 (11%)
Query: 269 KIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVAPLGAQAVTKIHEIFDW 328
K + P ++L +GPPG GKT +A IA + G++ + +G + G A
Sbjct: 32 KARKEPLEHLLLFGPPGLGKTTLAHVIAHELGVNLRVTSGPAIEKPGDLAAI-------L 84
Query: 329 AKKSKKGLLLFIDEADAFLCERNSIHMSEAQRSALNALLFRTGDQSRDI-------VLVL 381
A ++G +LFIDE L + H+ A + ++ G +R I L+
Sbjct: 85 ANSLEEGDILFIDEIHR-LSRQAEEHLYPAMEDFVMDIVIGQGPAARTIRLELPRFTLIG 143
Query: 382 ATNRPGDLDSAITDR--IDEVIEFPLPRE 408
AT RPG + + + R I E +E+ P E
Sbjct: 144 ATTRPGLITAPLLSRFGIVEHLEYYTPEE 172
>pdb|1IXS|B Chain B, Structure Of Ruvb Complexed With Ruva Domain Iii
Length = 318
Score = 50.8 bits (120), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 42/149 (28%), Positives = 68/149 (45%), Gaps = 17/149 (11%)
Query: 269 KIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVAPLGAQAVTKIHEIFDW 328
K + P ++L +GPPG GKT +A IA + G++ + +G + G A
Sbjct: 32 KARKEPLEHLLLFGPPGLGKTTLAHVIAHELGVNLRVTSGPAIEKPGDLAAI-------L 84
Query: 329 AKKSKKGLLLFIDEADAFLCERNSIHMSEAQRSALNALLFRTGDQSRDI-------VLVL 381
A ++G +LFIDE L + H+ A + ++ G +R I L+
Sbjct: 85 ANSLEEGDILFIDEIHR-LSRQAEEHLYPAMEDFVMDIVIGQGPAARTIRLELPRFTLIG 143
Query: 382 ATNRPGDLDSAITDR--IDEVIEFPLPRE 408
AT RPG + + + R I E +E+ P E
Sbjct: 144 ATTRPGLITAPLLSRFGIVEHLEYYTPEE 172
>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 = 50.4 bits (119), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 42/149 (28%), Positives = 68/149 (45%), Gaps = 17/149 (11%)
Query: 269 KIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVAPLGAQAVTKIHEIFDW 328
K + P ++L +GPPG GKT +A IA + G++ + +G + G A
Sbjct: 32 KARKEPLEHLLLFGPPGLGKTTLAHVIAHELGVNLRVTSGPAIEKPGDLAAI-------L 84
Query: 329 AKKSKKGLLLFIDEADAFLCERNSIHMSEAQRSALNALLFRTGDQSRDI-------VLVL 381
A ++G +LFIDE L + H+ A + ++ G +R I L+
Sbjct: 85 ANSLEEGDILFIDEIHR-LSRQAEEHLYPAMEDFVMDIVIGQGPAARTIRLELPRFTLIG 143
Query: 382 ATNRPGDLDSAITDR--IDEVIEFPLPRE 408
AT RPG + + + R I E +E+ P E
Sbjct: 144 ATTRPGLITAPLLSRFGIVEHLEYYTPEE 172
>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 = 45.8 bits (107), Expect = 5e-05, Method: Compositional matrix adjust.
Identities = 44/149 (29%), Positives = 65/149 (43%), Gaps = 27/149 (18%)
Query: 270 IHQAPFRNMLFYGPPGTGKTMVAREIARK-SGLDYAMMT---------GGDVAPLGAQAV 319
+ + ++LFYGPPGTGKT +AR+ G +Y+ M G DV +
Sbjct: 41 VDEGKLPHLLFYGPPGTGKTSTIVALAREIYGKNYSNMVLELNASDDRGIDVVRNQIKDF 100
Query: 320 TKIHEIFDWAKKSKKGLLLFIDEADAFLCERNSIHMSEAQRSALNALLFRTGDQSRDIVL 379
+IF SK L+ +DEADA M+ A ++AL ++ R +R VL
Sbjct: 101 ASTRQIF-----SKGFKLIILDEADA---------MTNAAQNALRRVIERYTKNTRFCVL 146
Query: 380 VLATNRPGDLDSAITDRIDEVIEFPLPRE 408
N L A+ + PLP+E
Sbjct: 147 ---ANYAHKLTPALLSQCTRFRFQPLPQE 172
>pdb|1UM8|A Chain A, Crystal Structure Of Helicobacter Pylori Clpx
Length = 376
Score = 40.4 bits (93), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 30/100 (30%), Positives = 50/100 (50%), Gaps = 10/100 (10%)
Query: 277 NMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVAPLGA------QAVTKIHEIFDW-A 329
N+L GP G+GKT++A+ +A+ + A+ + G +T++ + DW
Sbjct: 74 NILLIGPTGSGKTLMAQTLAKHLDIPIAISDATSLTEAGYVGEDVENILTRLLQASDWNV 133
Query: 330 KKSKKGLLLFIDEADAF--LCERNSIHMSEAQRSALNALL 367
+K++KG ++FIDE D L E SI + ALL
Sbjct: 134 QKAQKG-IVFIDEIDKISRLSENRSITRDVSGEGVQQALL 172
>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 = 39.3 bits (90), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 28/87 (32%), Positives = 43/87 (49%), Gaps = 23/87 (26%)
Query: 275 FRNMLFYGPPGTGKTMVAREIARKSGLDY---AMMTGGDVAPLGAQAVTKIHEIFDWAKK 331
+M+ +GPPGTGKT +A IAR + D + +T G V +I E + A++
Sbjct: 50 LHSMILWGPPGTGKTTLAEVIARYANADVERISAVTSG---------VKEIREAIERARQ 100
Query: 332 SKKG---LLLFIDEA--------DAFL 347
++ +LF+DE DAFL
Sbjct: 101 NRNAGRRTILFVDEVHRFNKSQQDAFL 127
>pdb|3SYL|A Chain A, Crystal Structure Of The Aaa+ Protein Cbbx, Native
Structure
pdb|3SYL|B Chain B, Crystal Structure Of The Aaa+ Protein Cbbx, Native
Structure
Length = 309
Score = 38.5 bits (88), Expect = 0.009, Method: Compositional matrix adjust.
Identities = 49/162 (30%), Positives = 66/162 (40%), Gaps = 34/162 (20%)
Query: 271 HQAPFRNMLFYGPPGTGKTMVAREIA---------RKSGL------DYAMMTGGDVAPLG 315
H+ P +M F G PGTGKT VA ++A RK L D G AP
Sbjct: 63 HETPTLHMSFTGNPGTGKTTVALKMAGLLHRLGYVRKGHLVSVTRDDLVGQYIGHTAP-- 120
Query: 316 AQAVTKIHEIFDWAKKSKKGLLLFIDEADAFLCERNSIHMSEAQRSALNALLFRTGDQSR 375
K E+ K G +LFIDEA N + + A+ LL +
Sbjct: 121 -----KTKEVL----KRAMGGVLFIDEAYYLYRPDNE---RDYGQEAIEILLQVMENNRD 168
Query: 376 DIVLVLA--TNRPGDL---DSAITDRIDEVIEFPLPREEERF 412
D+V++LA +R + + RI IEFP +EE F
Sbjct: 169 DLVVILAGYADRMENFFQSNPGFRSRIAHHIEFPDYSDEELF 210
>pdb|3ZUH|A Chain A, Negative Stain Em Map Of The Aaa Protein Cbbx, A Red-Type
Rubisco Activase From R. Sphaeroides
pdb|3ZUH|B Chain B, Negative Stain Em Map Of The Aaa Protein Cbbx, A Red-Type
Rubisco Activase From R. Sphaeroides
pdb|3ZUH|C Chain C, Negative Stain Em Map Of The Aaa Protein Cbbx, A Red-Type
Rubisco Activase From R. Sphaeroides
pdb|3ZUH|D Chain D, Negative Stain Em Map Of The Aaa Protein Cbbx, A Red-Type
Rubisco Activase From R. Sphaeroides
pdb|3ZUH|E Chain E, Negative Stain Em Map Of The Aaa Protein Cbbx, A Red-Type
Rubisco Activase From R. Sphaeroides
pdb|3ZUH|F Chain F, Negative Stain Em Map Of The Aaa Protein Cbbx, A Red-Type
Rubisco Activase From R. Sphaeroides
Length = 289
Score = 38.5 bits (88), Expect = 0.010, Method: Compositional matrix adjust.
Identities = 49/162 (30%), Positives = 66/162 (40%), Gaps = 34/162 (20%)
Query: 271 HQAPFRNMLFYGPPGTGKTMVAREIA---------RKSGL------DYAMMTGGDVAPLG 315
H+ P +M F G PGTGKT VA ++A RK L D G AP
Sbjct: 56 HETPTLHMSFTGNPGTGKTTVALKMAGLLHRLGYVRKGHLVSVTRDDLVGQYIGHTAP-- 113
Query: 316 AQAVTKIHEIFDWAKKSKKGLLLFIDEADAFLCERNSIHMSEAQRSALNALLFRTGDQSR 375
K E+ K G +LFIDEA N + + A+ LL +
Sbjct: 114 -----KTKEVL----KRAMGGVLFIDEAYYLYRPDNE---RDYGQEAIEILLQVMENNRD 161
Query: 376 DIVLVLA--TNRPGDL---DSAITDRIDEVIEFPLPREEERF 412
D+V++LA +R + + RI IEFP +EE F
Sbjct: 162 DLVVILAGYADRMENFFQSNPGFRSRIAHHIEFPDYSDEELF 203
>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 = 38.1 bits (87), Expect = 0.013, Method: Compositional matrix adjust.
Identities = 24/100 (24%), Positives = 49/100 (49%), Gaps = 8/100 (8%)
Query: 271 HQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTG---GDVAPLGAQAVTKIHEIFD 327
H+ +N+L GP G GKT +AR +A+ + + + +V +G + + I ++ D
Sbjct: 46 HEVTPKNILMIGPTGVGKTEIARRLAKLANAPFIKVEATKFTEVGYVGKEVDSIIRDLTD 105
Query: 328 WAKKSKKGL----LLFIDEADAFLCERNSIHMSEAQRSAL 363
A + + ++FIDE D +C++ ++ R +
Sbjct: 106 SAGGAIDAVEQNGIVFIDEIDK-ICKKGEYSGADVSREGV 144
>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 = 38.1 bits (87), Expect = 0.014, Method: Compositional matrix adjust.
Identities = 18/36 (50%), Positives = 24/36 (66%), Gaps = 2/36 (5%)
Query: 277 NMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVA 312
N+L G PG GKT + +E+A KSGL Y + GD+A
Sbjct: 13 NILLTGTPGVGKTTLGKELASKSGLKY--INVGDLA 46
>pdb|1RKB|A Chain A, The Structure Of Adrenal Gland Protein Ad-004
Length = 173
Score = 37.0 bits (84), Expect = 0.029, Method: Composition-based stats.
Identities = 18/36 (50%), Positives = 24/36 (66%), Gaps = 2/36 (5%)
Query: 277 NMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVA 312
N+L G PG GKT + +E+A KSGL Y + GD+A
Sbjct: 6 NILLTGTPGVGKTTLGKELASKSGLKY--INVGDLA 39
>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 = 37.0 bits (84), Expect = 0.030, Method: Compositional matrix adjust.
Identities = 16/37 (43%), Positives = 20/37 (54%)
Query: 275 FRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDV 311
FR + YGPPG GKT A +A++ G D DV
Sbjct: 77 FRAAMLYGPPGIGKTTAAHLVAQELGYDILEQNASDV 113
>pdb|3SYK|A Chain A, Crystal Structure Of The Aaa+ Protein Cbbx,
Selenomethionine Structure
pdb|3SYK|B Chain B, Crystal Structure Of The Aaa+ Protein Cbbx,
Selenomethionine Structure
Length = 309
Score = 35.4 bits (80), Expect = 0.070, Method: Compositional matrix adjust.
Identities = 47/157 (29%), Positives = 64/157 (40%), Gaps = 24/157 (15%)
Query: 271 HQAPFRNMLFYGPPGTGKTMVAREIA---------RKSGLDYAMMTGGD-VAPLGAQAVT 320
H+ P + F G PGTGKT VA + A RK L +T D V
Sbjct: 63 HETPTLHXSFTGNPGTGKTTVALKXAGLLHRLGYVRKGHL--VSVTRDDLVGQYIGHTAP 120
Query: 321 KIHEIFDWAKKSKKGLLLFIDEADAFLCERNSIHMSEAQRSALNALLFRTGDQSRDIVLV 380
K E+ K G +LFIDEA N + + A+ LL + D+V++
Sbjct: 121 KTKEVL----KRAXGGVLFIDEAYYLYRPDNE---RDYGQEAIEILLQVXENNRDDLVVI 173
Query: 381 LA--TNRPGDL---DSAITDRIDEVIEFPLPREEERF 412
LA +R + + RI IEFP +EE F
Sbjct: 174 LAGYADRXENFFQSNPGFRSRIAHHIEFPDYSDEELF 210
>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 = 35.0 bits (79), Expect = 0.10, Method: Compositional matrix adjust.
Identities = 17/38 (44%), Positives = 24/38 (63%), Gaps = 2/38 (5%)
Query: 276 RNMLFYGPPGTGKTMVAREIARKSG--LDYAMMTGGDV 311
R +L GPPGTGKT +A IA++ G + + M G +V
Sbjct: 64 RAVLLAGPPGTGKTALALAIAQELGSKVPFCPMVGSEV 101
>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 = 34.7 bits (78), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 13/20 (65%), Positives = 15/20 (75%)
Query: 270 IHQAPFRNMLFYGPPGTGKT 289
+ A +MLFYGPPGTGKT
Sbjct: 53 LKSANLPHMLFYGPPGTGKT 72
>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 = 34.3 bits (77), Expect = 0.18, Method: Compositional matrix adjust.
Identities = 43/143 (30%), Positives = 65/143 (45%), Gaps = 29/143 (20%)
Query: 277 NMLFYGPPGTGKTMVAREIARKSGL-----DYAMMTGGDVAPLGAQAVTKIHEIFDWAKK 331
++LF GPPGTGKT A +AR ++ M D G V H+I ++A+
Sbjct: 40 HLLFSGPPGTGKTATAIALARDLFGENWRDNFIEMNASD--ERGIDVVR--HKIKEFART 95
Query: 332 SKKG----LLLFIDEADAFLCERNSIHMSEAQRSALNALLFRTGDQ-SRDIVLVLATNRP 386
+ G ++F+DEADA ++AQ A L RT + S+ +L+ N
Sbjct: 96 APIGGAPFKIIFLDEADAL--------TADAQ-----AALRRTMEMYSKSCRFILSCNYV 142
Query: 387 GDLDSAITDRIDEVIEF-PLPRE 408
+ I R V F P+P+E
Sbjct: 143 SRIIEPIQSRC-AVFRFKPVPKE 164
>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 = 34.3 bits (77), Expect = 0.19, Method: Compositional matrix adjust.
Identities = 27/79 (34%), Positives = 40/79 (50%), Gaps = 13/79 (16%)
Query: 277 NMLFYGPPGTGKTMVAREIARKSGL-----DYAMMTGGDVAPLGAQAVTKIHEIFDWAKK 331
++LF GPPGTGKT A +AR ++ M D G V H+I ++A+
Sbjct: 40 HLLFSGPPGTGKTATAIALARDLFGENWRDNFIEMNASD--ERGIDVVR--HKIKEFART 95
Query: 332 SKKG----LLLFIDEADAF 346
+ G ++F+DEADA
Sbjct: 96 APIGGAPFKIIFLDEADAL 114
>pdb|1NSF|A Chain A, D2 Hexamerization Domain Of N-Ethylmaleimide Sensitive
Factor (Nsf)
Length = 273
Score = 33.9 bits (76), Expect = 0.26, Method: Compositional matrix adjust.
Identities = 32/125 (25%), Positives = 56/125 (44%), Gaps = 24/125 (19%)
Query: 220 SQAMNKVIRNKTSAGTAGPVEAIKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNML 279
S MN +I+ PV + ++G++ L + T N+ + P ++L
Sbjct: 28 SYIMNGIIK------WGDPVTRVLDDGEL------------LVQQTKNS--DRTPLVSVL 67
Query: 280 FYGPPGTGKTMVAREIARKSGLDYAMMTGGDVAPLGAQAVTK---IHEIFDWAKKSKKGL 336
GPP +GKT +A +IA +S + + D +G K + +IFD A KS+
Sbjct: 68 LEGPPHSGKTALAAKIAEESNFPFIKICSPDKM-IGFSETAKCQAMKKIFDDAYKSQLSC 126
Query: 337 LLFID 341
++ D
Sbjct: 127 VVVDD 131
>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 = 33.5 bits (75), Expect = 0.27, Method: Compositional matrix adjust.
Identities = 17/52 (32%), Positives = 27/52 (51%), Gaps = 8/52 (15%)
Query: 247 DIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARK 298
DI+ + +R++H K + ++LF GPPG GKT A +AR+
Sbjct: 26 DIVGQEHIVKRLKHYVKTGS--------MPHLLFAGPPGVGKTTAALALARE 69
>pdb|3QMZ|A Chain A, Crystal Structure Of The Cytoplasmic Dynein Heavy Chain
Motor Domain
pdb|3QMZ|B Chain B, Crystal Structure Of The Cytoplasmic Dynein Heavy Chain
Motor Domain
Length = 2486
Score = 33.5 bits (75), Expect = 0.30, Method: Compositional matrix adjust.
Identities = 21/79 (26%), Positives = 33/79 (41%), Gaps = 10/79 (12%)
Query: 276 RNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVAPLGAQAVTKIHEIFDWAKKSK-- 333
R ++ GPPG+GKTM+ R S L + ++ +H ++ SK
Sbjct: 1049 RGIILCGPPGSGKTMIMNNALRNSSLYDVVGINFSKDTTTEHILSALHRHTNYVTTSKGL 1108
Query: 334 --------KGLLLFIDEAD 344
K L+LF DE +
Sbjct: 1109 TLLPKSDIKNLVLFCDEIN 1127
>pdb|1D2N|A Chain A, D2 Domain Of N-Ethylmaleimide-Sensitive Fusion Protein
Length = 272
Score = 33.5 bits (75), Expect = 0.32, Method: Compositional matrix adjust.
Identities = 32/125 (25%), Positives = 56/125 (44%), Gaps = 24/125 (19%)
Query: 220 SQAMNKVIRNKTSAGTAGPVEAIKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNML 279
S MN +I+ PV + ++G++ L + T N+ + P ++L
Sbjct: 29 SYIMNGIIK------WGDPVTRVLDDGEL------------LVQQTKNS--DRTPLVSVL 68
Query: 280 FYGPPGTGKTMVAREIARKSGLDYAMMTGGDVAPLGAQAVTK---IHEIFDWAKKSKKGL 336
GPP +GKT +A +IA +S + + D +G K + +IFD A KS+
Sbjct: 69 LEGPPHSGKTALAAKIAEESNFPFIKICSPDKM-IGFSETAKCQAMKKIFDDAYKSQLSC 127
Query: 337 LLFID 341
++ D
Sbjct: 128 VVVDD 132
>pdb|4AI6|A Chain A, Dynein Motor Domain - Adp Complex
pdb|4AI6|B Chain B, Dynein Motor Domain - Adp Complex
pdb|4AKG|A Chain A, Dynein Motor Domain - Atp Complex
pdb|4AKG|B Chain B, Dynein Motor Domain - Atp Complex
pdb|4AKH|A Chain A, Dynein Motor Domain - Amppnp Complex
pdb|4AKH|B Chain B, Dynein Motor Domain - Amppnp Complex
pdb|4AKI|A Chain A, Dynein Motor Domain - Luac Derivative
pdb|4AKI|B Chain B, Dynein Motor Domain - Luac Derivative
Length = 2695
Score = 33.1 bits (74), Expect = 0.34, Method: Compositional matrix adjust.
Identities = 21/79 (26%), Positives = 33/79 (41%), Gaps = 10/79 (12%)
Query: 276 RNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVAPLGAQAVTKIHEIFDWAKKSK-- 333
R ++ GPPG+GKTM+ R S L + ++ +H ++ SK
Sbjct: 1268 RGIILCGPPGSGKTMIMNNALRNSSLYDVVGINFSKDTTTEHILSALHRHTNYVTTSKGL 1327
Query: 334 --------KGLLLFIDEAD 344
K L+LF DE +
Sbjct: 1328 TLLPKSDIKNLVLFCDEIN 1346
>pdb|1DO2|A Chain A, Trigonal Crystal Form Of Heat Shock Locus U (Hslu) From
Escherichia Coli
pdb|1DO2|B Chain B, Trigonal Crystal Form Of Heat Shock Locus U (Hslu) From
Escherichia Coli
pdb|1DO2|C Chain C, Trigonal Crystal Form Of Heat Shock Locus U (Hslu) From
Escherichia Coli
pdb|1DO2|D Chain D, Trigonal Crystal Form Of Heat Shock Locus U (Hslu) From
Escherichia Coli
pdb|1DO0|A Chain A, Orthorhombic Crystal Form Of Heat Shock Locus U (Hslu)
From Escherichia Coli
pdb|1DO0|B Chain B, Orthorhombic Crystal Form Of Heat Shock Locus U (Hslu)
From Escherichia Coli
pdb|1DO0|C Chain C, Orthorhombic Crystal Form Of Heat Shock Locus U (Hslu)
From Escherichia Coli
pdb|1DO0|D Chain D, Orthorhombic Crystal Form Of Heat Shock Locus U (Hslu)
From Escherichia Coli
pdb|1DO0|E Chain E, Orthorhombic Crystal Form Of Heat Shock Locus U (Hslu)
From Escherichia Coli
pdb|1DO0|F Chain F, Orthorhombic Crystal Form Of Heat Shock Locus U (Hslu)
From Escherichia Coli
Length = 442
Score = 33.1 bits (74), Expect = 0.35, Method: Compositional matrix adjust.
Identities = 18/64 (28%), Positives = 33/64 (51%), Gaps = 3/64 (4%)
Query: 271 HQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTG---GDVAPLGAQAVTKIHEIFD 327
H+ +N+L GP G GKT +AR +A+ + + + +V +G + + I ++ D
Sbjct: 45 HEVTPKNILMIGPTGVGKTEIARRLAKLANAPFIKVEATKFTEVGYVGKEVDSIIRDLTD 104
Query: 328 WAKK 331
A K
Sbjct: 105 AAVK 108
>pdb|1E94|E Chain E, Hslv-Hslu From E.Coli
pdb|1E94|F Chain F, Hslv-Hslu From E.Coli
pdb|1HT2|E Chain E, Nucleotide-dependent Conformational Changes In A
Protease-associated Atpase Hslu
pdb|1HT2|F Chain F, Nucleotide-dependent Conformational Changes In A
Protease-associated Atpase Hslu
pdb|1HT2|G Chain G, Nucleotide-dependent Conformational Changes In A
Protease-associated Atpase Hslu
pdb|1HT2|H Chain H, Nucleotide-dependent Conformational Changes In A
Protease-associated Atpase Hslu
pdb|1HT1|E Chain E, Nucleotide-Dependent Conformational Changes In A
Protease-Associated Atpase Hslu
pdb|1HT1|F Chain F, Nucleotide-Dependent Conformational Changes In A
Protease-Associated Atpase Hslu
pdb|1HT1|G Chain G, Nucleotide-Dependent Conformational Changes In A
Protease-Associated Atpase Hslu
pdb|1HT1|I Chain I, Nucleotide-Dependent Conformational Changes In A
Protease-Associated Atpase Hslu
pdb|1HQY|E Chain E, Nucleotide-Dependent Conformational Changes In A
Protease-Associated Atpase Hslu
pdb|1HQY|F Chain F, Nucleotide-Dependent Conformational Changes In A
Protease-Associated Atpase Hslu
Length = 449
Score = 33.1 bits (74), Expect = 0.35, Method: Compositional matrix adjust.
Identities = 18/64 (28%), Positives = 33/64 (51%), Gaps = 3/64 (4%)
Query: 271 HQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTG---GDVAPLGAQAVTKIHEIFD 327
H+ +N+L GP G GKT +AR +A+ + + + +V +G + + I ++ D
Sbjct: 52 HEVTPKNILMIGPTGVGKTEIARRLAKLANAPFIKVEATKFTEVGYVGKEVDSIIRDLTD 111
Query: 328 WAKK 331
A K
Sbjct: 112 AAVK 115
>pdb|1G4A|E Chain E, Crystal Structures Of The Hslvu Peptidase-Atpase Complex
Reveal An Atp-Dependent Proteolysis Mechanism
pdb|1G4A|F Chain F, Crystal Structures Of The Hslvu Peptidase-Atpase Complex
Reveal An Atp-Dependent Proteolysis Mechanism
pdb|1G4B|E Chain E, Crystal Structures Of The Hslvu Peptidase-Atpase Complex
Reveal An Atp-Dependent Proteolysis Mechanism
pdb|1G4B|F Chain F, Crystal Structures Of The Hslvu Peptidase-Atpase Complex
Reveal An Atp-Dependent Proteolysis Mechanism
pdb|1G4B|K Chain K, Crystal Structures Of The Hslvu Peptidase-Atpase Complex
Reveal An Atp-Dependent Proteolysis Mechanism
pdb|1G4B|L Chain L, Crystal Structures Of The Hslvu Peptidase-Atpase Complex
Reveal An Atp-Dependent Proteolysis Mechanism
pdb|1YYF|A Chain A, Correction Of X-Ray Intensities From An Hslv-Hslu Co-
Crystal Containing Lattice Translocation Defects
pdb|1YYF|B Chain B, Correction Of X-Ray Intensities From An Hslv-Hslu Co-
Crystal Containing Lattice Translocation Defects
Length = 443
Score = 33.1 bits (74), Expect = 0.35, Method: Compositional matrix adjust.
Identities = 18/64 (28%), Positives = 33/64 (51%), Gaps = 3/64 (4%)
Query: 271 HQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTG---GDVAPLGAQAVTKIHEIFD 327
H+ +N+L GP G GKT +AR +A+ + + + +V +G + + I ++ D
Sbjct: 46 HEVTPKNILMIGPTGVGKTEIARRLAKLANAPFIKVEATKFTEVGYVGKEVDSIIRDLTD 105
Query: 328 WAKK 331
A K
Sbjct: 106 AAVK 109
>pdb|1G3I|A Chain A, Crystal Structure Of The Hsluv Protease-Chaperone Complex
pdb|1G3I|B Chain B, Crystal Structure Of The Hsluv Protease-Chaperone Complex
pdb|1G3I|C Chain C, Crystal Structure Of The Hsluv Protease-Chaperone Complex
pdb|1G3I|D Chain D, Crystal Structure Of The Hsluv Protease-Chaperone Complex
pdb|1G3I|E Chain E, Crystal Structure Of The Hsluv Protease-Chaperone Complex
pdb|1G3I|F Chain F, Crystal Structure Of The Hsluv Protease-Chaperone Complex
pdb|1G3I|S Chain S, Crystal Structure Of The Hsluv Protease-Chaperone Complex
pdb|1G3I|T Chain T, Crystal Structure Of The Hsluv Protease-Chaperone Complex
pdb|1G3I|U Chain U, Crystal Structure Of The Hsluv Protease-Chaperone Complex
pdb|1G3I|V Chain V, Crystal Structure Of The Hsluv Protease-Chaperone Complex
pdb|1G3I|W Chain W, Crystal Structure Of The Hsluv Protease-Chaperone Complex
pdb|1G3I|X Chain X, Crystal Structure Of The Hsluv Protease-Chaperone Complex
pdb|1G41|A Chain A, Crystal Structure Of Hslu Haemophilus Influenzae
pdb|1KYI|A Chain A, Hsluv (h. Influenzae)-nlvs Vinyl Sulfone Inhibitor Complex
pdb|1KYI|B Chain B, Hsluv (h. Influenzae)-nlvs Vinyl Sulfone Inhibitor Complex
pdb|1KYI|C Chain C, Hsluv (h. Influenzae)-nlvs Vinyl Sulfone Inhibitor Complex
pdb|1KYI|D Chain D, Hsluv (h. Influenzae)-nlvs Vinyl Sulfone Inhibitor Complex
pdb|1KYI|E Chain E, Hsluv (h. Influenzae)-nlvs Vinyl Sulfone Inhibitor Complex
pdb|1KYI|F Chain F, Hsluv (h. Influenzae)-nlvs Vinyl Sulfone Inhibitor Complex
pdb|1KYI|S Chain S, Hsluv (h. Influenzae)-nlvs Vinyl Sulfone Inhibitor Complex
pdb|1KYI|T Chain T, Hsluv (h. Influenzae)-nlvs Vinyl Sulfone Inhibitor Complex
pdb|1KYI|U Chain U, Hsluv (h. Influenzae)-nlvs Vinyl Sulfone Inhibitor Complex
pdb|1KYI|V Chain V, Hsluv (h. Influenzae)-nlvs Vinyl Sulfone Inhibitor Complex
pdb|1KYI|W Chain W, Hsluv (h. Influenzae)-nlvs Vinyl Sulfone Inhibitor Complex
pdb|1KYI|X Chain X, Hsluv (h. Influenzae)-nlvs Vinyl Sulfone Inhibitor Complex
Length = 444
Score = 33.1 bits (74), Expect = 0.36, Method: Compositional matrix adjust.
Identities = 18/64 (28%), Positives = 33/64 (51%), Gaps = 3/64 (4%)
Query: 271 HQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTG---GDVAPLGAQAVTKIHEIFD 327
H+ +N+L GP G GKT +AR +A+ + + + +V +G + + I ++ D
Sbjct: 46 HEVTPKNILMIGPTGVGKTEIARRLAKLANAPFIKVEATKFTEVGYVGKEVDSIIRDLTD 105
Query: 328 WAKK 331
A K
Sbjct: 106 SAMK 109
>pdb|1IM2|A Chain A, Hslu, Haemophilus Influenzae, Selenomethionine Variant
Length = 444
Score = 33.1 bits (74), Expect = 0.38, Method: Compositional matrix adjust.
Identities = 18/64 (28%), Positives = 33/64 (51%), Gaps = 3/64 (4%)
Query: 271 HQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTG---GDVAPLGAQAVTKIHEIFD 327
H+ +N+L GP G GKT +AR +A+ + + + +V +G + + I ++ D
Sbjct: 46 HEVTPKNILXIGPTGVGKTEIARRLAKLANAPFIKVEATKFTEVGYVGKEVDSIIRDLTD 105
Query: 328 WAKK 331
A K
Sbjct: 106 SAXK 109
>pdb|2XSZ|A Chain A, The Dodecameric Human Ruvbl1:ruvbl2 Complex With Truncated
Domains Ii
pdb|2XSZ|B Chain B, The Dodecameric Human Ruvbl1:ruvbl2 Complex With Truncated
Domains Ii
pdb|2XSZ|C Chain C, The Dodecameric Human Ruvbl1:ruvbl2 Complex With Truncated
Domains Ii
Length = 367
Score = 32.7 bits (73), Expect = 0.46, Method: Compositional matrix adjust.
Identities = 16/38 (42%), Positives = 23/38 (60%), Gaps = 2/38 (5%)
Query: 276 RNMLFYGPPGTGKTMVAREIARKSG--LDYAMMTGGDV 311
R +L GPPGTGKT +A IA++ G + + G +V
Sbjct: 78 RAVLLAGPPGTGKTALALAIAQELGSKVPFCPXVGSEV 115
>pdb|3M6A|A Chain A, Crystal Structure Of Bacillus Subtilis Lon C-Terminal
Domain
pdb|3M6A|B Chain B, Crystal Structure Of Bacillus Subtilis Lon C-Terminal
Domain
pdb|3M6A|C Chain C, Crystal Structure Of Bacillus Subtilis Lon C-Terminal
Domain
pdb|3M6A|D Chain D, Crystal Structure Of Bacillus Subtilis Lon C-Terminal
Domain
pdb|3M6A|E Chain E, Crystal Structure Of Bacillus Subtilis Lon C-Terminal
Domain
pdb|3M6A|F Chain F, Crystal Structure Of Bacillus Subtilis Lon C-Terminal
Domain
Length = 543
Score = 32.3 bits (72), Expect = 0.61, Method: Compositional matrix adjust.
Identities = 19/57 (33%), Positives = 31/57 (54%), Gaps = 3/57 (5%)
Query: 255 QRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDV 311
+R +++LA TK + P + GPPG GKT +A+ IA+ G + ++ G V
Sbjct: 91 ERILEYLA-VQKLTKSLKGPI--LCLAGPPGVGKTSLAKSIAKSLGRKFVRISLGGV 144
>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 = 32.3 bits (72), Expect = 0.66, Method: Compositional matrix adjust.
Identities = 20/75 (26%), Positives = 40/75 (53%), Gaps = 8/75 (10%)
Query: 277 NMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVAPLGA------QAVTKIHEIFDW-A 329
N+L GP G+GKT++A +AR + + M + G + K+ + D+
Sbjct: 53 NILLIGPTGSGKTLLAETLARLLDVPFTMADATTLTEAGYVGEDVENIIQKLLQKCDYDV 112
Query: 330 KKSKKGLLLFIDEAD 344
+K+++G +++ID+ D
Sbjct: 113 QKAQRG-IVYIDQID 126
>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 = 32.3 bits (72), Expect = 0.68, Method: Compositional matrix adjust.
Identities = 20/75 (26%), Positives = 40/75 (53%), Gaps = 8/75 (10%)
Query: 277 NMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVAPLGA------QAVTKIHEIFDW-A 329
N+L GP G+GKT++A +AR + + M + G + K+ + D+
Sbjct: 53 NILLIGPTGSGKTLLAETLARLLDVPFTMADATTLTEAGYVGEDVENIIQKLLQKCDYDV 112
Query: 330 KKSKKGLLLFIDEAD 344
+K+++G +++ID+ D
Sbjct: 113 QKAQRG-IVYIDQID 126
>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 = 0.91, Method: Compositional matrix adjust.
Identities = 13/22 (59%), Positives = 17/22 (77%)
Query: 282 GPPGTGKTMVAREIARKSGLDY 303
GP GTGK+ VA+E+AR+ G Y
Sbjct: 11 GPSGTGKSSVAKELARQLGASY 32
>pdb|3DZD|A Chain A, Crystal Structure Of Sigma54 Activator Ntrc4 In The
Inactive State
pdb|3DZD|B Chain B, Crystal Structure Of Sigma54 Activator Ntrc4 In The
Inactive State
Length = 368
Score = 31.6 bits (70), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 51/166 (30%), Positives = 70/166 (42%), Gaps = 32/166 (19%)
Query: 236 AGPVEAIKNNGDIILHPSL---QRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVA 292
A P E I+ G+ HP + +R I +AK+ +AP +L G GTGK +VA
Sbjct: 123 APPQEEIEFVGE---HPKILEIKRLIPKIAKS-------KAP---VLITGESGTGKEIVA 169
Query: 293 REIARKSGLDYAM--MTGGDVAPLGAQAVTKIHE--IFDWAKKSKKGLLLFIDEADAFLC 348
R I R SG A + + A++ HE F A KKG L D+ FL
Sbjct: 170 RLIHRYSGRKGAFVDLNCASIPQELAESELFGHEKGAFTGALTRKKGKLELADQGTLFLD 229
Query: 349 ERNSIHMSEAQRSALNALLFRTGDQSR---------DIVLVLATNR 385
E + Q L L TG +R DI ++ ATN+
Sbjct: 230 EVGELD-QRVQAKLLRVL--ETGSFTRLGGNQKIEVDIRVISATNK 272
>pdb|2RGX|A Chain A, Crystal Structure Of Adenylate Kinase From Aquifex
Aeolicus In Complex With Ap5a
pdb|2RH5|A Chain A, Structure Of Apo Adenylate Kinase From Aquifex Aeolicus
pdb|2RH5|C Chain C, Structure Of Apo Adenylate Kinase From Aquifex Aeolicus
pdb|2RH5|B Chain B, Structure Of Apo Adenylate Kinase From Aquifex Aeolicus
pdb|3SR0|A Chain A, Crystal Structure Of The Phosphoryl Transfer Transition
State Mimic In The Adenylate Kinase: AdpALF4AMP IN THE
ACTIVE SITE
pdb|3SR0|B Chain B, Crystal Structure Of The Phosphoryl Transfer Transition
State Mimic In The Adenylate Kinase: AdpALF4AMP IN THE
ACTIVE SITE
Length = 206
Score = 31.6 bits (70), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 16/49 (32%), Positives = 27/49 (55%), Gaps = 10/49 (20%)
Query: 278 MLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDV--------APLGAQA 318
++F GPPG GK A+ +A++ G + ++ GD+ PLG +A
Sbjct: 3 LVFLGPPGAGKGTQAKRLAKEKG--FVHISTGDILREAVQKGTPLGKKA 49
>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 = 30.8 bits (68), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 14/34 (41%), Positives = 19/34 (55%)
Query: 263 KATANTKIHQAPFRNMLFYGPPGTGKTMVAREIA 296
+A A K P + LF GP G GKT +A+ +A
Sbjct: 576 RARAGLKDPNRPIGSFLFLGPTGVGKTELAKTLA 609
>pdb|4EUN|A Chain A, Crystal Structure Of A Sugar Kinase (Target Efi-502144
From Janibacter Sp. Htcc2649), Unliganded Structure
Length = 200
Score = 30.8 bits (68), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 12/31 (38%), Positives = 22/31 (70%)
Query: 274 PFRNMLFYGPPGTGKTMVAREIARKSGLDYA 304
P R+++ G G+GKT +A +A ++GL++A
Sbjct: 28 PTRHVVVMGVSGSGKTTIAHGVADETGLEFA 58
>pdb|1J7K|A Chain A, Thermotoga Maritima Ruvb P216g Mutant
Length = 334
Score = 30.4 bits (67), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 39/156 (25%), Positives = 63/156 (40%), Gaps = 24/156 (15%)
Query: 259 QHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVAPLGAQA 318
+ L+ A K+ ++L GPPG GKT +A IA + + + +G + G A
Sbjct: 35 KKLSLALEAAKMRGEVLDHVLLAGPPGLGKTTLAHIIASELQTNIHVTSGPVLVKQGDMA 94
Query: 319 VTKIHEIFDWAKKSKKGLLLFIDEADAFLCERNSIHMSEAQRSALN----ALLFRTGDQS 374
++G +LFIDE R + + E SA+ ++ G +
Sbjct: 95 A--------ILTSLERGDVLFIDE-----IHRLNKAVEELLYSAIEDFQIDIMIGKGPSA 141
Query: 375 RDI-------VLVLATNRPGDLDSAITDRIDEVIEF 403
+ I LV AT R G L S + R ++E
Sbjct: 142 KSIRIDIQPFTLVGATTRSGLLSSPLRSRFGIILEL 177
>pdb|1IN4|A Chain A, Thermotoga Maritima Ruvb Holliday Junction Branch
Migration Motor
Length = 334
Score = 30.4 bits (67), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 39/156 (25%), Positives = 63/156 (40%), Gaps = 24/156 (15%)
Query: 259 QHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVAPLGAQA 318
+ L+ A K+ ++L GPPG GKT +A IA + + + +G + G A
Sbjct: 35 KKLSLALEAAKMRGEVLDHVLLAGPPGLGKTTLAHIIASELQTNIHVTSGPVLVKQGDMA 94
Query: 319 VTKIHEIFDWAKKSKKGLLLFIDEADAFLCERNSIHMSEAQRSALN----ALLFRTGDQS 374
++G +LFIDE R + + E SA+ ++ G +
Sbjct: 95 A--------ILTSLERGDVLFIDE-----IHRLNKAVEELLYSAIEDFQIDIMIGKGPSA 141
Query: 375 RDI-------VLVLATNRPGDLDSAITDRIDEVIEF 403
+ I LV AT R G L S + R ++E
Sbjct: 142 KSIRIDIQPFTLVGATTRSGLLSSPLRSRFGIILEL 177
>pdb|3PXI|A Chain A, Structure Of Meca108:clpc
pdb|3PXI|B Chain B, Structure Of Meca108:clpc
pdb|3PXI|C Chain C, Structure Of Meca108:clpc
Length = 758
Score = 30.4 bits (67), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 11/23 (47%), Positives = 15/23 (65%)
Query: 274 PFRNMLFYGPPGTGKTMVAREIA 296
P + +F GP G GKT +AR +A
Sbjct: 520 PIGSFIFLGPTGVGKTELARALA 542
>pdb|4EFP|A Chain A, Bombyx Mori Lipoprotein 7 Isolated From Its Natural Source
At 1.33 A Resolution
pdb|4EFP|B Chain B, Bombyx Mori Lipoprotein 7 Isolated From Its Natural Source
At 1.33 A Resolution
pdb|4EFQ|A Chain A, Bombyx Mori Lipoprotein 7 - Platinum Derivative At 1.94 A
Resolution
pdb|4EFQ|B Chain B, Bombyx Mori Lipoprotein 7 - Platinum Derivative At 1.94 A
Resolution
pdb|4EFR|A Chain A, Bombyx Mori Lipoprotein 7 (crystal Form Ii) At 2.50 A
Resolution
pdb|4EFR|B Chain B, Bombyx Mori Lipoprotein 7 (crystal Form Ii) At 2.50 A
Resolution
pdb|4EFR|C Chain C, Bombyx Mori Lipoprotein 7 (crystal Form Ii) At 2.50 A
Resolution
pdb|4EFR|D Chain D, Bombyx Mori Lipoprotein 7 (crystal Form Ii) At 2.50 A
Resolution
Length = 239
Score = 30.0 bits (66), Expect = 3.1, Method: Compositional matrix adjust.
Identities = 23/93 (24%), Positives = 39/93 (41%), Gaps = 17/93 (18%)
Query: 127 NRRMLIERINGEREKWLA---AINTTFSHIEEGVRSLLT------------DRNKLVMTV 171
N ++ + +N ER ++L N H+ GV S+ + D++ L
Sbjct: 137 NNKVYFKILNTERNQYLVLGVGTNPNGDHMAFGVNSVDSFRAQXYLQPAKYDKDNLFYIY 196
Query: 172 GGATALAAGIYTTRE--GARVTWGYVNRILGQP 202
+ A + T E G R+ WGY R++G P
Sbjct: 197 NREYSKALTLSRTLETSGNRMAWGYNGRVIGSP 229
>pdb|2P65|A Chain A, Crystal Structure Of The First Nucleotide Binding Domain
Of Chaperone Clpb1, Putative, (Pv089580) From Plasmodium
Vivax
Length = 187
Score = 30.0 bits (66), Expect = 3.2, Method: Compositional matrix adjust.
Identities = 22/78 (28%), Positives = 35/78 (44%), Gaps = 14/78 (17%)
Query: 221 QAMNKVIRNKTSAGTAGPVEAIKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLF 280
QA+ K R+ T+ AG ++ + ++R IQ L++ T N N +
Sbjct: 3 QALEKYSRDLTALARAGKLDPVIGR-----DTEIRRAIQILSRRTKN---------NPIL 48
Query: 281 YGPPGTGKTMVAREIARK 298
G PG GKT + +A K
Sbjct: 49 LGDPGVGKTAIVEGLAIK 66
>pdb|4FCV|A Chain A, Crystal Structure Of The C-Terminal Domain Of Clpb
pdb|4FCV|B Chain B, Crystal Structure Of The C-Terminal Domain Of Clpb
pdb|4FCV|C Chain C, Crystal Structure Of The C-Terminal Domain Of Clpb
pdb|4FCW|A Chain A, Crystal Structure Of The C-Terminal Domain Of Clpb
pdb|4FCW|C Chain C, Crystal Structure Of The C-Terminal Domain Of Clpb
pdb|4FCW|F Chain F, Crystal Structure Of The C-Terminal Domain Of Clpb
Length = 311
Score = 30.0 bits (66), Expect = 3.6, Method: Compositional matrix adjust.
Identities = 14/34 (41%), Positives = 19/34 (55%)
Query: 263 KATANTKIHQAPFRNMLFYGPPGTGKTMVAREIA 296
+A A K P + LF GP G GKT +A+ +A
Sbjct: 35 RARAGLKDPNRPIGSFLFLGPTGVGKTELAKTLA 68
>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 = 29.6 bits (65), Expect = 3.8, Method: Compositional matrix adjust.
Identities = 9/28 (32%), Positives = 19/28 (67%)
Query: 276 RNMLFYGPPGTGKTMVAREIARKSGLDY 303
RN+ GP G GK+ + R++A++ +++
Sbjct: 5 RNIFLVGPMGAGKSTIGRQLAQQLNMEF 32
>pdb|3PUB|A Chain A, Crystal Structure Of The Bombyx Mori Low Molecular Weight
Lipoprotein 7 (Bmlp7)
pdb|3PUB|B Chain B, Crystal Structure Of The Bombyx Mori Low Molecular Weight
Lipoprotein 7 (Bmlp7)
Length = 251
Score = 29.6 bits (65), Expect = 3.9, Method: Compositional matrix adjust.
Identities = 23/93 (24%), Positives = 39/93 (41%), Gaps = 17/93 (18%)
Query: 127 NRRMLIERINGEREKWLA---AINTTFSHIEEGVRSLLT------------DRNKLVMTV 171
N ++ + +N ER ++L N H+ GV S+ + D++ L
Sbjct: 138 NNKVYFKILNTERNQYLVLGVGTNPNGDHMAFGVNSVDSFRAQWYLQPAKYDKDNLFYIY 197
Query: 172 GGATALAAGIYTTRE--GARVTWGYVNRILGQP 202
+ A + T E G R+ WGY R++G P
Sbjct: 198 NREYSKALTLSRTLETSGNRMAWGYNGRVIGSP 230
>pdb|4FCT|A Chain A, Crystal Structure Of The C-Terminal Domain Of Clpb
pdb|4FD2|A Chain A, Crystal Structure Of The C-Terminal Domain Of Clpb
pdb|4FD2|B Chain B, Crystal Structure Of The C-Terminal Domain Of Clpb
pdb|4FD2|D Chain D, Crystal Structure Of The C-Terminal Domain Of Clpb
Length = 308
Score = 29.6 bits (65), Expect = 4.0, Method: Compositional matrix adjust.
Identities = 14/34 (41%), Positives = 19/34 (55%)
Query: 263 KATANTKIHQAPFRNMLFYGPPGTGKTMVAREIA 296
+A A K P + LF GP G GKT +A+ +A
Sbjct: 32 RARAGLKDPNRPIGSFLFLGPTGVGKTELAKTLA 65
>pdb|1NJG|A Chain A, Nucleotide-Free Form Of An Isolated E. Coli Clamp Loader
Gamma Subunit
pdb|1NJG|B Chain B, Nucleotide-Free Form Of An Isolated E. Coli Clamp Loader
Gamma Subunit
pdb|1NJF|A Chain A, Nucleotide Bound Form Of An Isolated E. Coli Clamp Loader
Gamma Subunit
pdb|1NJF|B Chain B, Nucleotide Bound Form Of An Isolated E. Coli Clamp Loader
Gamma Subunit
pdb|1NJF|C Chain C, Nucleotide Bound Form Of An Isolated E. Coli Clamp Loader
Gamma Subunit
pdb|1NJF|D Chain D, Nucleotide Bound Form Of An Isolated E. Coli Clamp Loader
Gamma Subunit
Length = 250
Score = 29.6 bits (65), Expect = 4.1, Method: Compositional matrix adjust.
Identities = 45/169 (26%), Positives = 63/169 (37%), Gaps = 50/169 (29%)
Query: 259 QHLAKATANT----KIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVAPL 314
+H+ A AN +IH A LF G G GKT +AR +A+ GL+ TG P
Sbjct: 29 EHVLTALANGLSLGRIHHA----YLFSGTRGVGKTSIARLLAK--GLNCE--TGITATPC 80
Query: 315 G--------------------AQAVTKIHEIFD------WAKKSKKGLLLFIDEADAFLC 348
G A + TK+ + D +A + + IDE
Sbjct: 81 GVCDNCREIEQGRFVDLIEIDAASRTKVEDTRDLLDNVQYAPARGRFKVYLIDE------ 134
Query: 349 ERNSIHMSEAQRSALNALLFRTGDQSRDIVLVLATNRPGDLDSAITDRI 397
+HM R + NALL + + +LAT P L I R
Sbjct: 135 ----VHM--LSRHSFNALLKTLEEPPEHVKFLLATTDPQKLPVTILSRC 177
>pdb|2V1U|A Chain A, Structure Of The Aeropyrum Pernix Orc1 Protein In Complex
With Dna
Length = 387
Score = 29.6 bits (65), Expect = 4.2, Method: Compositional matrix adjust.
Identities = 18/47 (38%), Positives = 25/47 (53%), Gaps = 1/47 (2%)
Query: 252 PSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARK 298
P + ++ LA+ A + P N L YG GTGKT VAR + R+
Sbjct: 22 PHREAELRRLAEVLAPALRGEKP-SNALLYGLTGTGKTAVARLVLRR 67
>pdb|1JR3|A Chain A, Crystal Structure Of The Processivity Clamp Loader Gamma
Complex Of E. Coli Dna Polymerase Iii
pdb|1JR3|B Chain B, Crystal Structure Of The Processivity Clamp Loader Gamma
Complex Of E. Coli Dna Polymerase Iii
pdb|1JR3|C Chain C, Crystal Structure Of The Processivity Clamp Loader Gamma
Complex Of E. Coli Dna Polymerase Iii
pdb|1XXH|B Chain B, Atpgs Bound E. Coli Clamp Loader Complex
pdb|1XXH|C Chain C, Atpgs Bound E. Coli Clamp Loader Complex
pdb|1XXH|D Chain D, Atpgs Bound E. Coli Clamp Loader Complex
pdb|1XXH|G Chain G, Atpgs Bound E. Coli Clamp Loader Complex
pdb|1XXH|H Chain H, Atpgs Bound E. Coli Clamp Loader Complex
pdb|1XXH|I Chain I, Atpgs Bound E. Coli Clamp Loader Complex
Length = 373
Score = 29.6 bits (65), Expect = 4.3, Method: Compositional matrix adjust.
Identities = 45/168 (26%), Positives = 63/168 (37%), Gaps = 50/168 (29%)
Query: 259 QHLAKATANT----KIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVAPL 314
+H+ A AN +IH A LF G G GKT +AR +A+ GL+ TG P
Sbjct: 22 EHVLTALANGLSLGRIHHA----YLFSGTRGVGKTSIARLLAK--GLNCE--TGITATPC 73
Query: 315 G--------------------AQAVTKIHEIFD------WAKKSKKGLLLFIDEADAFLC 348
G A + TK+ + D +A + + IDE
Sbjct: 74 GVCDNCREIEQGRFVDLIEIDAASRTKVEDTRDLLDNVQYAPARGRFKVYLIDE------ 127
Query: 349 ERNSIHMSEAQRSALNALLFRTGDQSRDIVLVLATNRPGDLDSAITDR 396
+HM R + NALL + + +LAT P L I R
Sbjct: 128 ----VHM--LSRHSFNALLKTLEEPPEHVKFLLATTDPQKLPVTILSR 169
>pdb|3GLH|B Chain B, Crystal Structure Of The E. Coli Clamp Loader Bound To Psi
Peptide
pdb|3GLH|C Chain C, Crystal Structure Of The E. Coli Clamp Loader Bound To Psi
Peptide
pdb|3GLH|D Chain D, Crystal Structure Of The E. Coli Clamp Loader Bound To Psi
Peptide
pdb|3GLH|G Chain G, Crystal Structure Of The E. Coli Clamp Loader Bound To Psi
Peptide
pdb|3GLH|H Chain H, Crystal Structure Of The E. Coli Clamp Loader Bound To Psi
Peptide
pdb|3GLH|I Chain I, Crystal Structure Of The E. Coli Clamp Loader Bound To Psi
Peptide
pdb|3GLH|L Chain L, Crystal Structure Of The E. Coli Clamp Loader Bound To Psi
Peptide
pdb|3GLH|M Chain M, Crystal Structure Of The E. Coli Clamp Loader Bound To Psi
Peptide
pdb|3GLH|N Chain N, Crystal Structure Of The E. Coli Clamp Loader Bound To Psi
Peptide
Length = 376
Score = 29.6 bits (65), Expect = 4.3, Method: Compositional matrix adjust.
Identities = 47/162 (29%), Positives = 65/162 (40%), Gaps = 38/162 (23%)
Query: 259 QHLAKATANT----KIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVAPL 314
+H+ A AN +IH A LF G G GKT +AR +A+ GL+ TG P
Sbjct: 25 EHVLTALANGLSLGRIHHA----YLFSGTRGVGKTSIARLLAK--GLNCE--TGITATPC 76
Query: 315 GAQAVTKIHEI----------FDWAKKSK----KGLLLFIDEADA------FLCERNSIH 354
G EI D A ++K + LL + A A +L + +H
Sbjct: 77 G--VCDNCREIEQGRFVDLIEIDAASRTKVEDTRDLLDNVQYAPARGRFKVYLI--DEVH 132
Query: 355 MSEAQRSALNALLFRTGDQSRDIVLVLATNRPGDLDSAITDR 396
M R + NALL + + +LAT P L I R
Sbjct: 133 M--LSRHSFNALLKTLEEPPEHVKFLLATTDPQKLPVTILSR 172
>pdb|1XXI|B Chain B, Adp Bound E. Coli Clamp Loader Complex
pdb|1XXI|C Chain C, Adp Bound E. Coli Clamp Loader Complex
pdb|1XXI|D Chain D, Adp Bound E. Coli Clamp Loader Complex
pdb|1XXI|G Chain G, Adp Bound E. Coli Clamp Loader Complex
pdb|1XXI|H Chain H, Adp Bound E. Coli Clamp Loader Complex
pdb|1XXI|I Chain I, Adp Bound E. Coli Clamp Loader Complex
Length = 368
Score = 29.6 bits (65), Expect = 4.5, Method: Compositional matrix adjust.
Identities = 45/168 (26%), Positives = 63/168 (37%), Gaps = 50/168 (29%)
Query: 259 QHLAKATANT----KIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVAPL 314
+H+ A AN +IH A LF G G GKT +AR +A+ GL+ TG P
Sbjct: 22 EHVLTALANGLSLGRIHHA----YLFSGTRGVGKTSIARLLAK--GLNCE--TGITATPC 73
Query: 315 G--------------------AQAVTKIHEIFD------WAKKSKKGLLLFIDEADAFLC 348
G A + TK+ + D +A + + IDE
Sbjct: 74 GVCDNCREIEQGRFVDLIEIDAASRTKVEDTRDLLDNVQYAPARGRFKVYLIDE------ 127
Query: 349 ERNSIHMSEAQRSALNALLFRTGDQSRDIVLVLATNRPGDLDSAITDR 396
+HM R + NALL + + +LAT P L I R
Sbjct: 128 ----VHM--LSRHSFNALLKTLEEPPEHVKFLLATTDPQKLPVTILSR 169
>pdb|3GLF|B Chain B, Crystal Structure Of The Ecoli Clamp Loader Bound To
Primer-template Dna
pdb|3GLF|C Chain C, Crystal Structure Of The Ecoli Clamp Loader Bound To
Primer-template Dna
pdb|3GLF|D Chain D, Crystal Structure Of The Ecoli Clamp Loader Bound To
Primer-template Dna
pdb|3GLF|G Chain G, Crystal Structure Of The Ecoli Clamp Loader Bound To
Primer-template Dna
pdb|3GLF|H Chain H, Crystal Structure Of The Ecoli Clamp Loader Bound To
Primer-template Dna
pdb|3GLF|I Chain I, Crystal Structure Of The Ecoli Clamp Loader Bound To
Primer-template Dna
pdb|3GLI|B Chain B, Crystal Structure Of The E. Coli Clamp Loader Bound To
Primer-template Dna And Psi Peptide
pdb|3GLI|C Chain C, Crystal Structure Of The E. Coli Clamp Loader Bound To
Primer-template Dna And Psi Peptide
pdb|3GLI|D Chain D, Crystal Structure Of The E. Coli Clamp Loader Bound To
Primer-template Dna And Psi Peptide
pdb|3GLI|G Chain G, Crystal Structure Of The E. Coli Clamp Loader Bound To
Primer-template Dna And Psi Peptide
pdb|3GLI|H Chain H, Crystal Structure Of The E. Coli Clamp Loader Bound To
Primer-template Dna And Psi Peptide
pdb|3GLI|I Chain I, Crystal Structure Of The E. Coli Clamp Loader Bound To
Primer-template Dna And Psi Peptide
Length = 395
Score = 29.6 bits (65), Expect = 4.5, Method: Compositional matrix adjust.
Identities = 45/168 (26%), Positives = 63/168 (37%), Gaps = 50/168 (29%)
Query: 259 QHLAKATANT----KIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVAPL 314
+H+ A AN +IH A LF G G GKT +AR +A+ GL+ TG P
Sbjct: 44 EHVLTALANGLSLGRIHHA----YLFSGTRGVGKTSIARLLAK--GLNCE--TGITATPC 95
Query: 315 G--------------------AQAVTKIHEIFD------WAKKSKKGLLLFIDEADAFLC 348
G A + TK+ + D +A + + IDE
Sbjct: 96 GVCDNCREIEQGRFVDLIEIDAASRTKVEDTRDLLDNVQYAPARGRFKVYLIDE------ 149
Query: 349 ERNSIHMSEAQRSALNALLFRTGDQSRDIVLVLATNRPGDLDSAITDR 396
+HM R + NALL + + +LAT P L I R
Sbjct: 150 ----VHM--LSRHSFNALLKTLEEPPEHVKFLLATTDPQKLPVTILSR 191
>pdb|3CM0|A Chain A, Crystal Structure Of Adenylate Kinase From Thermus
Thermophilus Hb8
Length = 186
Score = 29.6 bits (65), Expect = 4.8, Method: Compositional matrix adjust.
Identities = 31/102 (30%), Positives = 45/102 (44%), Gaps = 13/102 (12%)
Query: 278 MLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDV--------APLGAQAVTKIHEIFDWA 329
++F GPPG GK A +A++ G + ++ GD+ PLG + V I E D
Sbjct: 7 VIFLGPPGAGKGTQASRLAQELG--FKKLSTGDILRDHVARGTPLG-ERVRPIMERGDLV 63
Query: 330 KKSKKGLLLFIDEADAFLCERNSIHMSEAQRSALNALLFRTG 371
+L I E A + + AQ AL+ LL TG
Sbjct: 64 PDDL--ILELIREELAERVIFDGFPRTLAQAEALDRLLSETG 103
>pdb|1KSF|X Chain X, Crystal Structure Of Clpa, An Hsp100 Chaperone And
Regulator Of Clpap Protease: Structural Basis Of
Differences In Function Of The Two Aaa+ Atpase Domains
pdb|1R6B|X Chain X, High Resolution Crystal Structure Of Clpa
Length = 758
Score = 29.3 bits (64), Expect = 5.3, Method: Compositional matrix adjust.
Identities = 11/29 (37%), Positives = 18/29 (62%)
Query: 274 PFRNMLFYGPPGTGKTMVAREIARKSGLD 302
P + LF GP G GKT V ++++ G++
Sbjct: 487 PVGSFLFAGPTGVGKTEVTVQLSKALGIE 515
>pdb|1IN8|A Chain A, Thermotoga Maritima Ruvb T158v
Length = 334
Score = 29.3 bits (64), Expect = 5.3, Method: Compositional matrix adjust.
Identities = 39/156 (25%), Positives = 63/156 (40%), Gaps = 24/156 (15%)
Query: 259 QHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVAPLGAQA 318
+ L+ A K+ ++L GPPG GKT +A IA + + + +G + G A
Sbjct: 35 KKLSLALEAAKMRGEVLDHVLLAGPPGLGKTTLAHIIASELQTNIHVTSGPVLVKQGDMA 94
Query: 319 VTKIHEIFDWAKKSKKGLLLFIDEADAFLCERNSIHMSEAQRSALN----ALLFRTGDQS 374
++G +LFIDE R + + E SA+ ++ G +
Sbjct: 95 A--------ILTSLERGDVLFIDE-----IHRLNKAVEELLYSAIEDFQIDIMIGKGPSA 141
Query: 375 RDI-------VLVLATNRPGDLDSAITDRIDEVIEF 403
+ I LV AT R G L S + R ++E
Sbjct: 142 KSIRIDIQPFTLVGATVRSGLLSSPLRSRFGIILEL 177
>pdb|1IN6|A Chain A, Thermotoga Maritima Ruvb K64r Mutant
Length = 334
Score = 29.3 bits (64), Expect = 5.7, Method: Compositional matrix adjust.
Identities = 38/156 (24%), Positives = 63/156 (40%), Gaps = 24/156 (15%)
Query: 259 QHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVAPLGAQA 318
+ L+ A K+ ++L GPPG G+T +A IA + + + +G + G A
Sbjct: 35 KKLSLALEAAKMRGEVLDHVLLAGPPGLGRTTLAHIIASELQTNIHVTSGPVLVKQGDMA 94
Query: 319 VTKIHEIFDWAKKSKKGLLLFIDEADAFLCERNSIHMSEAQRSALN----ALLFRTGDQS 374
++G +LFIDE R + + E SA+ ++ G +
Sbjct: 95 A--------ILTSLERGDVLFIDE-----IHRLNKAVEELLYSAIEDFQIDIMIGKGPSA 141
Query: 375 RDI-------VLVLATNRPGDLDSAITDRIDEVIEF 403
+ I LV AT R G L S + R ++E
Sbjct: 142 KSIRIDIQPFTLVGATTRSGLLSSPLRSRFGIILEL 177
>pdb|1IN5|A Chain A, Thermogota Maritima Ruvb A156s Mutant
Length = 334
Score = 29.3 bits (64), Expect = 5.9, Method: Compositional matrix adjust.
Identities = 38/156 (24%), Positives = 63/156 (40%), Gaps = 24/156 (15%)
Query: 259 QHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVAPLGAQA 318
+ L+ A K+ ++L GPPG GKT +A IA + + + +G + G A
Sbjct: 35 KKLSLALEAAKMRGEVLDHVLLAGPPGLGKTTLAHIIASELQTNIHVTSGPVLVKQGDMA 94
Query: 319 VTKIHEIFDWAKKSKKGLLLFIDEADAFLCERNSIHMSEAQRSALN----ALLFRTGDQS 374
++G +LFIDE R + + E SA+ ++ G +
Sbjct: 95 A--------ILTSLERGDVLFIDE-----IHRLNKAVEELLYSAIEDFQIDIMIGKGPSA 141
Query: 375 RDI-------VLVLATNRPGDLDSAITDRIDEVIEF 403
+ I LV +T R G L S + R ++E
Sbjct: 142 KSIRIDIQPFTLVGSTTRSGLLSSPLRSRFGIILEL 177
>pdb|1QVA|A Chain A, Yeast Initiation Factor 4a N-Terminal Domain
Length = 223
Score = 29.3 bits (64), Expect = 6.1, Method: Compositional matrix adjust.
Identities = 16/43 (37%), Positives = 22/43 (51%)
Query: 463 TEGFSGREIAKLMASVQAAVYARPDCVLDSQLFREVVEYKVEE 505
+EG + E +++ + Q VY D LD QL R V Y EE
Sbjct: 1 SEGITDIEESQIQTNYQKVVYKFDDMELDEQLLRGVFGYGFEE 43
>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 = 28.9 bits (63), Expect = 6.6, Method: Compositional matrix adjust.
Identities = 15/41 (36%), Positives = 23/41 (56%), Gaps = 2/41 (4%)
Query: 276 RNMLFYGPPGTGKTMVAREIARKSGLD--YAMMTGGDVAPL 314
R +L G PGTGKT +A +A+ G D + + G ++ L
Sbjct: 71 RAVLIAGQPGTGKTAIAMGMAQALGPDTPFTAIAGSEIFSL 111
>pdb|4I96|A Chain A, Crystal Structure Of The N-terminal Two Domains Of The
Skeletal Muscle Ryanodine Receptor (rabbit Ryr1)
Residues 217-536
Length = 320
Score = 28.9 bits (63), Expect = 6.8, Method: Compositional matrix adjust.
Identities = 16/51 (31%), Positives = 24/51 (47%)
Query: 163 DRNKLVMTVGGATALAAGIYTTREGARVTWGYVNRILGQPSLIRESSIGKF 213
D+ +LV GGA A E R++W + GQP IR + G++
Sbjct: 24 DQRRLVYYEGGAVCTHARSLWRLEPLRISWSGSHLRWGQPLRIRHVTTGRY 74
>pdb|2OFI|A Chain A, Crystal Structure Of 3-Methyladenine Dna Glycosylase I
(Tag) Bound To Dna3MA
Length = 184
Score = 28.9 bits (63), Expect = 7.3, Method: Compositional matrix adjust.
Identities = 23/83 (27%), Positives = 36/83 (43%), Gaps = 9/83 (10%)
Query: 154 EEGVRSLLTD------RNKLVMTVGGATALAAGIYTTREGARVTWGYVNRILGQPSLIRE 207
EE V LL + R K+ + A A A A W +V+ GQP + +
Sbjct: 73 EEDVERLLQNTGIIRHRGKIQAIISNARAWLAXEQNGESFADFVWSFVD---GQPQITQA 129
Query: 208 SSIGKFPWSGLLSQAMNKVIRNK 230
+S+ K P S S A+ K ++ +
Sbjct: 130 ASLDKIPTSTPASDALAKALKKR 152
>pdb|2EWF|A Chain A, Crystal Structure Of The Site-specific Dna Nickase
N.bspd6i
Length = 610
Score = 28.9 bits (63), Expect = 8.2, Method: Compositional matrix adjust.
Identities = 12/22 (54%), Positives = 18/22 (81%)
Query: 6 TMKQFNLKLMLQRKLAEEHRNL 27
++KQFN+ LM+Q+KL E+ R L
Sbjct: 544 SLKQFNMLLMVQKKLIEKGRRL 565
>pdb|3PFI|A Chain A, 2.7 Angstrom Resolution Crystal Structure Of A Probable
Holliday Junction Dna Helicase (Ruvb) From Campylobacter
Jejuni Subsp. Jejuni Nctc 11168 In Complex With
Adenosine-5'-Diphosphate
pdb|3PFI|B Chain B, 2.7 Angstrom Resolution Crystal Structure Of A Probable
Holliday Junction Dna Helicase (Ruvb) From Campylobacter
Jejuni Subsp. Jejuni Nctc 11168 In Complex With
Adenosine-5'-Diphosphate
Length = 338
Score = 28.5 bits (62), Expect = 9.1, Method: Compositional matrix adjust.
Identities = 25/89 (28%), Positives = 36/89 (40%), Gaps = 13/89 (14%)
Query: 259 QHLAKATANTKIHQAPFRN-----MLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVAP 313
Q K N I A RN +LF GP G GKT +A I+ + ++
Sbjct: 34 QESIKKNLNVFIAAAKKRNECLDHILFSGPAGLGKTTLANIISYEX--------SANIKT 85
Query: 314 LGAQAVTKIHEIFDWAKKSKKGLLLFIDE 342
A + K ++ +G +LFIDE
Sbjct: 86 TAAPXIEKSGDLAAILTNLSEGDILFIDE 114
>pdb|3RUB|L Chain L, Crystal Structure Of The Unactivated Form Of
Ribulose-1,5-Bisphosphate Carboxylase(Slash)oxygenase
From Tobacco Refined At 2.0-Angstroms Resolution
Length = 477
Score = 28.5 bits (62), Expect = 9.3, Method: Compositional matrix adjust.
Identities = 48/205 (23%), Positives = 84/205 (40%), Gaps = 29/205 (14%)
Query: 127 NRRMLIERINGEREKWLAAINTTFSHIEEG-VRSLLTDRNKLVMTVGGATALAAGIYTTR 185
R IER+ GE+++++A + EEG V ++ T +V V G AL A
Sbjct: 82 GRCYRIERVVGEKDQYIAYVAYPLDLFEEGSVTNMFT---SIVGNVFGFKALRA---LRL 135
Query: 186 EGARVTWGYVNRILGQPSLIR--ESSIGKF----------PWSGLLSQAMNKVIRNKTSA 233
E R+ YV G P I+ + K+ P GL ++ + +
Sbjct: 136 EDLRIPPAYVKTFQGPPHGIQVERDKLNKYGRPLLGCTIKPKLGLSAKNYGRAVYECLRG 195
Query: 234 GTAGPVEAIKNNGDIILHPSLQRRIQHL--AKATANTKIHQAPFRNMLFYGPPGTGKTMV 291
G ++ K++ ++ P ++ R + L A+A + + GT + M+
Sbjct: 196 G----LDFTKDDENVNSQPFMRWRDRFLFCAEALYKAQAETGEIKGHYLNATAGTCEEMI 251
Query: 292 AREI-ARKSGLDYAM---MTGGDVA 312
R + AR+ G+ M +TGG A
Sbjct: 252 KRAVFARELGVPIVMHDYLTGGFTA 276
>pdb|2OFK|A Chain A, Crystal Structure Of 3-Methyladenine Dna Glycosylase I
(Tag)
pdb|2OFK|B Chain B, Crystal Structure Of 3-Methyladenine Dna Glycosylase I
(Tag)
Length = 183
Score = 28.5 bits (62), Expect = 9.7, Method: Compositional matrix adjust.
Identities = 23/83 (27%), Positives = 36/83 (43%), Gaps = 9/83 (10%)
Query: 154 EEGVRSLLTD------RNKLVMTVGGATALAAGIYTTREGARVTWGYVNRILGQPSLIRE 207
EE V LL + R K+ + A A A A W +V+ GQP + +
Sbjct: 73 EEDVERLLQNTGIIRHRGKIQAIISNARAWLAMEQNGESFADFVWSFVD---GQPQITQA 129
Query: 208 SSIGKFPWSGLLSQAMNKVIRNK 230
+S+ K P S S A+ K ++ +
Sbjct: 130 ASLDKIPTSTPASDALAKALKKR 152
>pdb|1EJ7|L Chain L, Crystal Structure Of Unactivated Tobacco Rubisco With
Bound Phosphate Ions
Length = 475
Score = 28.5 bits (62), Expect = 9.9, Method: Compositional matrix adjust.
Identities = 48/205 (23%), Positives = 84/205 (40%), Gaps = 29/205 (14%)
Query: 127 NRRMLIERINGEREKWLAAINTTFSHIEEG-VRSLLTDRNKLVMTVGGATALAAGIYTTR 185
R IER+ GE+++++A + EEG V ++ T +V V G AL A
Sbjct: 80 GRCYRIERVVGEKDQYIAYVAYPLDLFEEGSVTNMFT---SIVGNVFGFKALRA---LRL 133
Query: 186 EGARVTWGYVNRILGQPSLIR--ESSIGKF----------PWSGLLSQAMNKVIRNKTSA 233
E R+ YV G P I+ + K+ P GL ++ + +
Sbjct: 134 EDLRIPPAYVKTFQGPPHGIQVERDKLNKYGRPLLGCTIKPKLGLSAKNYGRAVYECLRG 193
Query: 234 GTAGPVEAIKNNGDIILHPSLQRRIQHL--AKATANTKIHQAPFRNMLFYGPPGTGKTMV 291
G ++ K++ ++ P ++ R + L A+A + + GT + M+
Sbjct: 194 G----LDFTKDDENVNSQPFMRWRDRFLFCAEALYKAQAETGEIKGHYLNATAGTCEEMI 249
Query: 292 AREI-ARKSGLDYAM---MTGGDVA 312
R + AR+ G+ M +TGG A
Sbjct: 250 KRAVFARELGVPIVMHDYLTGGFTA 274
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
0.316 0.130 0.363
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 13,257,575
Number of Sequences: 62578
Number of extensions: 496165
Number of successful extensions: 2016
Number of sequences better than 100.0: 141
Number of HSP's better than 100.0 without gapping: 84
Number of HSP's successfully gapped in prelim test: 57
Number of HSP's that attempted gapping in prelim test: 1837
Number of HSP's gapped (non-prelim): 179
length of query: 523
length of database: 14,973,337
effective HSP length: 103
effective length of query: 420
effective length of database: 8,527,803
effective search space: 3581677260
effective search space used: 3581677260
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 54 (25.4 bits)