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= psy2778
(409 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>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 = 642 bits (1656), Expect = 0.0, Method: Compositional matrix adjust.
Identities = 310/409 (75%), Positives = 355/409 (86%), Gaps = 7/409 (1%)
Query: 1 MIKSKKMAGRAILMAGPPGTGKTAIALAMSHELGNKVPFCPMVGSEVFSSEIKKTEVLME 60
+IKSKKMAGRA+L+AGPPGTGKTA+ALA++ ELG+KVPFCPMVGSEV+S+EIKKTEVLME
Sbjct: 55 LIKSKKMAGRAVLLAGPPGTGKTALALAIAQELGSKVPFCPMVGSEVYSTEIKKTEVLME 114
Query: 61 NFRRAIGLRIKESKEVYEGEVTELTPVETENPMGGYGKTVSHVIIGLKTAKGTKQLKLDP 120
NFRRAIGLRIKE+KEVYEGEVTELTP ETENPMGGYGKT+SHVIIGLKTAKGTKQLKLDP
Sbjct: 115 NFRRAIGLRIKETKEVYEGEVTELTPCETENPMGGYGKTISHVIIGLKTAKGTKQLKLDP 174
Query: 121 TIYESLQKEKVEVGDVIYIEANSGAVKRQGRSDTFAAEFDLEAEEYVPLPKGDVHKKKEV 180
+I+ESLQKE+VE GDVIYIEANSGAVKRQGR DT+A EFDLEAEEYVPLPKGDVHKKKE+
Sbjct: 175 SIFESLQKERVEAGDVIYIEANSGAVKRQGRCDTYATEFDLEAEEYVPLPKGDVHKKKEI 234
Query: 181 IQDVTLHDLDMANAKPQGGQDILSMVGQLIKSKKTEITDKLRKEINKVVNKYIDQGIAEL 240
IQDVTLHDLD+ANA+PQGGQDILSM+GQL+K KKTEITDKLR EINKVVNKYIDQGIAEL
Sbjct: 235 IQDVTLHDLDVANARPQGGQDILSMMGQLMKPKKTEITDKLRGEINKVVNKYIDQGIAEL 294
Query: 241 VPGVLFIDEVHMLDLETFMPHLETFTYLHRALESAIAPIVIFATNRGRCLVRGTDDIISP 300
VPGVLF+DEVHMLD +E FTYLHRALES+IAPIVIFA+NRG C++RGT+DI SP
Sbjct: 295 VPGVLFVDEVHMLD-------IECFTYLHRALESSIAPIVIFASNRGNCVIRGTEDITSP 347
Query: 301 HGIXXXXXXXXXXXXXXXYNQKDMEAIIKLRANTEGHVLDDEALVTLSEIGTRSTLRYVV 360
HGI Y ++M+ IIK+RA TEG + +EAL L EIGT++TLRY V
Sbjct: 348 HGIPLDLLDRVMIIRTMLYTPQEMKQIIKIRAQTEGINISEEALNHLGEIGTKTTLRYSV 407
Query: 361 QLLTPAALTAKTNGRTAISKQDILEVSTLFLDAKSSARILTENKDKFMR 409
QLLTPA L AK NG+ +I K+ + E+S LF DAKSSA+IL + +DK+M+
Sbjct: 408 QLLTPANLLAKINGKDSIEKEHVEEISELFYDAKSSAKILADQQDKYMK 456
>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 = 295 bits (754), Expect = 4e-80, Method: Compositional matrix adjust.
Identities = 149/230 (64%), Positives = 177/230 (76%), Gaps = 7/230 (3%)
Query: 180 VIQDVTLHDLDMANAKPQGGQDILSMVGQLIKSKKTEITDKLRKEINKVVNKYIDQGIAE 239
+IQDVTLHDLD+ANA+PQGGQDILS GQL K KKTEITDKLR EINKVVNKYIDQGIAE
Sbjct: 145 IIQDVTLHDLDVANARPQGGQDILSXXGQLXKPKKTEITDKLRGEINKVVNKYIDQGIAE 204
Query: 240 LVPGVLFIDEVHMLDLETFMPHLETFTYLHRALESAIAPIVIFATNRGRCLVRGTDDIIS 299
LVPGVLF+DEVH LD+E F TYLHRALES+IAPIVIFA+NRG C++RGT+DI S
Sbjct: 205 LVPGVLFVDEVHXLDIECF-------TYLHRALESSIAPIVIFASNRGNCVIRGTEDITS 257
Query: 300 PHGIXXXXXXXXXXXXXXXYNQKDMEAIIKLRANTEGHVLDDEALVTLSEIGTRSTLRYV 359
PHGI Y ++ + IIK+RA TEG + +EAL L EIGT++TLRY
Sbjct: 258 PHGIPLDLLDRVXIIRTXLYTPQEXKQIIKIRAQTEGINISEEALNHLGEIGTKTTLRYS 317
Query: 360 VQLLTPAALTAKTNGRTAISKQDILEVSTLFLDAKSSARILTENKDKFMR 409
VQLLTPA L AK NG+ +I K+ + E+S LF DAKSSA+IL + +DK+ +
Sbjct: 318 VQLLTPANLLAKINGKDSIEKEHVEEISELFYDAKSSAKILADQQDKYXK 367
Score = 129 bits (323), Expect = 4e-30, Method: Compositional matrix adjust.
Identities = 59/72 (81%), Positives = 68/72 (94%)
Query: 1 MIKSKKMAGRAILMAGPPGTGKTAIALAMSHELGNKVPFCPMVGSEVFSSEIKKTEVLME 60
+IKSKK AGRA+L+AGPPGTGKTA+ALA++ ELG+KVPFCP VGSEV+S+EIKKTEVL E
Sbjct: 69 LIKSKKXAGRAVLLAGPPGTGKTALALAIAQELGSKVPFCPXVGSEVYSTEIKKTEVLXE 128
Query: 61 NFRRAIGLRIKE 72
NFRRAIGLRIKE
Sbjct: 129 NFRRAIGLRIKE 140
>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 = 155 bits (393), Expect = 3e-38, Method: Compositional matrix adjust.
Identities = 86/235 (36%), Positives = 135/235 (57%), Gaps = 15/235 (6%)
Query: 174 VHKKKEVIQDVTLHDLDMANAKPQGGQDILSMVGQLIKSKKTEITDKLRKEINKVVNKYI 233
V K + V+LH++D+ N++ QG + S EI ++R++IN V ++
Sbjct: 129 VRIKAGAVHTVSLHEIDVINSRTQGFLALFS-------GDTGEIKSEVREQINAKVAEWR 181
Query: 234 DQGIAELVPGVLFIDEVHMLDLETFMPHLETFTYLHRALESAIAPIVIFATNRGRCLVRG 293
++G AE++PGVLFIDEVHMLD+E+F ++L+RALES +AP++I ATNRG +RG
Sbjct: 182 EEGKAEIIPGVLFIDEVHMLDIESF-------SFLNRALESDMAPVLIMATNRGITRIRG 234
Query: 294 TDDIISPHGIXXXXXXXXXXXXXXXYNQKDMEAIIKLRANTEGHVLDDEALVTLSEIGTR 353
T SPHGI Y++KD + I+++R E + ++A L+ IG
Sbjct: 235 TS-YQSPHGIPIDLLDRLLIVSTTPYSEKDTKQILRIRCEEEDVEMSEDAYTVLTRIGLE 293
Query: 354 STLRYVVQLLTPAALTAKTNGRTAISKQDILEVSTLFLDAKSSARILTENKDKFM 408
++LRY +QL+T A+L + T + DI V +LFLD S + + E +D F+
Sbjct: 294 TSLRYAIQLITAASLVCRKRKGTEVQVDDIKRVYSLFLDESRSTQYMKEYQDAFL 348
Score = 92.8 bits (229), Expect = 3e-19, Method: Compositional matrix adjust.
Identities = 42/71 (59%), Positives = 54/71 (76%)
Query: 1 MIKSKKMAGRAILMAGPPGTGKTAIALAMSHELGNKVPFCPMVGSEVFSSEIKKTEVLME 60
MI+ K+AGRA+L+AG PGTGKTAIA+ M+ LG PF + GSE+FS E+ KTE L +
Sbjct: 62 MIREGKIAGRAVLIAGQPGTGKTAIAMGMAQALGPDTPFTAIAGSEIFSLEMSKTEALTQ 121
Query: 61 NFRRAIGLRIK 71
FRR+IG+RIK
Sbjct: 122 AFRRSIGVRIK 132
>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 = 145 bits (367), Expect = 3e-35, Method: Compositional matrix adjust.
Identities = 84/229 (36%), Positives = 130/229 (56%), Gaps = 15/229 (6%)
Query: 180 VIQDVTLHDLDMANAKPQGGQDILSMVGQLIKSKKTEITDKLRKEINKVVNKYIDQGIAE 239
V+ V+LH++D+ N++ QG + S EI ++R++IN V ++ ++G AE
Sbjct: 153 VVHTVSLHEIDVINSRTQGFLALFS-------GDTGEIKSEVREQINAKVAEWREEGKAE 205
Query: 240 LVPGVLFIDEVHMLDLETFMPHLETFTYLHRALESAIAPIVIFATNRGRCLVRGTDDIIS 299
++PGVLFIDEVH LD+E+F ++L+RALES AP++I ATNRG +RGT S
Sbjct: 206 IIPGVLFIDEVHXLDIESF-------SFLNRALESDXAPVLIXATNRGITRIRGTS-YQS 257
Query: 300 PHGIXXXXXXXXXXXXXXXYNQKDMEAIIKLRANTEGHVLDDEALVTLSEIGTRSTLRYV 359
PHGI Y++KD + I+++R E ++A L+ IG ++LRY
Sbjct: 258 PHGIPIDLLDRLLIVSTTPYSEKDTKQILRIRCEEEDVEXSEDAYTVLTRIGLETSLRYA 317
Query: 360 VQLLTPAALTAKTNGRTAISKQDILEVSTLFLDAKSSARILTENKDKFM 408
+QL+T A+L + T + DI V +LFLD S + E +D F+
Sbjct: 318 IQLITAASLVCRKRKGTEVQVDDIKRVYSLFLDESRSTQYXKEYQDAFL 366
Score = 87.8 bits (216), Expect = 1e-17, Method: Compositional matrix adjust.
Identities = 41/71 (57%), Positives = 51/71 (71%)
Query: 2 IKSKKMAGRAILMAGPPGTGKTAIALAMSHELGNKVPFCPMVGSEVFSSEIKKTEVLMEN 61
I+ K+AGRA+L+AG PGTGKTAIA + LG PF + GSE+FS E KTE L +
Sbjct: 78 IREGKIAGRAVLIAGQPGTGKTAIAXGXAQALGPDTPFTAIAGSEIFSLEXSKTEALTQA 137
Query: 62 FRRAIGLRIKE 72
FRR+IG+RIKE
Sbjct: 138 FRRSIGVRIKE 148
>pdb|2CQA|A Chain A, Solution Structure Of Rsgi Ruh-039, A Fragment Of C-
Terminal Domain Of Ruvb-Like 2 From Human Cdna
Length = 95
Score = 45.1 bits (105), Expect = 7e-05, Method: Compositional matrix adjust.
Identities = 33/86 (38%), Positives = 46/86 (53%), Gaps = 5/86 (5%)
Query: 71 KESKEVYEGEVTELTPVETENPMGGYGKTVSHVIIGLKTAKGTKQLKLDPTIYESLQKEK 130
KE E+ EGEV E ++ + P G G V + LKT + L + ESL K+K
Sbjct: 8 KEETEIIEGEVVE---IQIDRPATGTGSKVGKLT--LKTTEMETIYDLGTKMIESLTKDK 62
Query: 131 VEVGDVIYIEANSGAVKRQGRSDTFA 156
V+ GDVI I+ +G + + GRS T A
Sbjct: 63 VQAGDVITIDKATGKISKLGRSFTRA 88
>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 = 41.6 bits (96), Expect = 7e-04, Method: Compositional matrix adjust.
Identities = 21/62 (33%), Positives = 36/62 (58%), Gaps = 1/62 (1%)
Query: 1 MIKSKKMAGRAILMAGPPGTGKTAIALAMSHELGNKVPFCPMVGSEVFSSEIKKTEVLME 60
+ K+ R IL+ GPPGTGK+ +A A++ E N F + S++ S + ++E L++
Sbjct: 159 LFTGKRTPWRGILLFGPPGTGKSYLAKAVATEANNST-FFSISSSDLVSKWLGESEKLVK 217
Query: 61 NF 62
N
Sbjct: 218 NL 219
>pdb|1XWI|A Chain A, Crystal Structure Of Vps4b
Length = 322
Score = 41.6 bits (96), Expect = 8e-04, Method: Compositional matrix adjust.
Identities = 28/92 (30%), Positives = 49/92 (53%), Gaps = 5/92 (5%)
Query: 1 MIKSKKMAGRAILMAGPPGTGKTAIALAMSHELGNKVPFCPMVGSEVFSSEIKKTEVLME 60
+ K+ R IL+ GPPGTGK+ +A A++ E N F + S++ S + ++E L++
Sbjct: 37 LFTGKRTPWRGILLFGPPGTGKSYLAKAVATEANNST-FFSISSSDLVSKWLGESEKLVK 95
Query: 61 N-FRRAIGLRIKESKEVYEGEVTELTPVETEN 91
N F+ A R + ++ E+ L +EN
Sbjct: 96 NLFQLA---RENKPSIIFIDEIDSLCGSRSEN 124
>pdb|2X8A|A Chain A, Human Nuclear Valosin Containing Protein Like (Nvl), C-
Terminal Aaa-Atpase Domain
Length = 274
Score = 39.3 bits (90), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 29/108 (26%), Positives = 57/108 (52%), Gaps = 10/108 (9%)
Query: 12 ILMAGPPGTGKTAIALAMSHELGNKVPFCPMVGSEVFSSEIKKTE-VLMENFRRAIGLRI 70
+L+AGPPG GKT +A A+++E G + F + G E+ + + ++E + + F+RA
Sbjct: 47 VLLAGPPGCGKTLLAKAVANESG--LNFISVKGPELLNMYVGESERAVRQVFQRA----- 99
Query: 71 KESKE--VYEGEVTELTPVETENPMGGYGKTVSHVIIGLKTAKGTKQL 116
K S ++ EV L P ++ G + V+ ++ + + +Q+
Sbjct: 100 KNSAPCVIFFDEVDALCPRRSDRETGASVRVVNQLLTEMDGLEARQQV 147
>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 = 38.9 bits (89), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 24/57 (42%), Positives = 33/57 (57%), Gaps = 5/57 (8%)
Query: 10 RAILMAGPPGTGKTAIALAMSHELGNKVPFCPMVGSEVFSSEIKKTEVLMENFRRAI 66
R IL+ GPPGTGKT IA A+++E G F + G E+ S ++E N R+A
Sbjct: 239 RGILLYGPPGTGKTLIARAVANETG--AFFFLINGPEIMSKLAGESE---SNLRKAF 290
>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 = 38.9 bits (89), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 24/57 (42%), Positives = 33/57 (57%), Gaps = 5/57 (8%)
Query: 10 RAILMAGPPGTGKTAIALAMSHELGNKVPFCPMVGSEVFSSEIKKTEVLMENFRRAI 66
R IL+ GPPGTGKT IA A+++E G F + G E+ S ++E N R+A
Sbjct: 239 RGILLYGPPGTGKTLIARAVANETG--AFFFLINGPEIMSKLAGESE---SNLRKAF 290
>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 = 38.9 bits (89), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 24/57 (42%), Positives = 33/57 (57%), Gaps = 5/57 (8%)
Query: 10 RAILMAGPPGTGKTAIALAMSHELGNKVPFCPMVGSEVFSSEIKKTEVLMENFRRAI 66
R IL+ GPPGTGKT IA A+++E G F + G E+ S ++E N R+A
Sbjct: 239 RGILLYGPPGTGKTLIARAVANETG--AFFFLINGPEIMSKLAGESE---SNLRKAF 290
>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 = 38.9 bits (89), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 24/57 (42%), Positives = 33/57 (57%), Gaps = 5/57 (8%)
Query: 10 RAILMAGPPGTGKTAIALAMSHELGNKVPFCPMVGSEVFSSEIKKTEVLMENFRRAI 66
R IL+ GPPGTGKT IA A+++E G F + G E+ S ++E N R+A
Sbjct: 239 RGILLYGPPGTGKTLIARAVANETG--AFFFLINGPEIMSKLAGESE---SNLRKAF 290
>pdb|1LV7|A Chain A, Crystal Structure Of The Aaa Domain Of Ftsh
Length = 257
Score = 38.9 bits (89), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 21/47 (44%), Positives = 31/47 (65%), Gaps = 5/47 (10%)
Query: 3 KSKKMAGR---AILMAGPPGTGKTAIALAMSHELGNKVPFCPMVGSE 46
+ +K+ G+ +LM GPPGTGKT +A A++ E KVPF + GS+
Sbjct: 36 RFQKLGGKIPKGVLMVGPPGTGKTLLAKAIAGE--AKVPFFTISGSD 80
>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 = 38.9 bits (89), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 24/57 (42%), Positives = 33/57 (57%), Gaps = 5/57 (8%)
Query: 10 RAILMAGPPGTGKTAIALAMSHELGNKVPFCPMVGSEVFSSEIKKTEVLMENFRRAI 66
R IL+ GPPGTGKT IA A+++E G F + G E+ S ++E N R+A
Sbjct: 239 RGILLYGPPGTGKTLIARAVANETG--AFFFLINGPEIMSKLAGESE---SNLRKAF 290
Score = 31.2 bits (69), Expect = 0.99, Method: Compositional matrix adjust.
Identities = 15/47 (31%), Positives = 27/47 (57%), Gaps = 2/47 (4%)
Query: 10 RAILMAGPPGTGKTAIALAMSHELGNKVPFCPMVGSEVFSSEIKKTE 56
+ +L GPPG GKT +A A+++E + F + G E+ + ++E
Sbjct: 512 KGVLFYGPPGCGKTLLAKAIANEC--QANFISIKGPELLTMWFGESE 556
>pdb|1R7R|A Chain A, The Crystal Structure Of Murine P97VCP AT 3.6A
Length = 816
Score = 38.9 bits (89), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 24/57 (42%), Positives = 33/57 (57%), Gaps = 5/57 (8%)
Query: 10 RAILMAGPPGTGKTAIALAMSHELGNKVPFCPMVGSEVFSSEIKKTEVLMENFRRAI 66
R IL+ GPPGTGKT IA A+++E G F + G E+ S ++E N R+A
Sbjct: 239 RGILLYGPPGTGKTLIARAVANETG--AFFFLINGPEIMSKLAGESE---SNLRKAF 290
Score = 31.2 bits (69), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 15/47 (31%), Positives = 27/47 (57%), Gaps = 2/47 (4%)
Query: 10 RAILMAGPPGTGKTAIALAMSHELGNKVPFCPMVGSEVFSSEIKKTE 56
+ +L GPPG GKT +A A+++E + F + G E+ + ++E
Sbjct: 512 KGVLFYGPPGCGKTLLAKAIANEC--QANFISIKGPELLTMWFGESE 556
>pdb|2R62|A Chain A, Crystal Structure Of Helicobacter Pylori Atp Dependent
Protease, Ftsh
pdb|2R62|B Chain B, Crystal Structure Of Helicobacter Pylori Atp Dependent
Protease, Ftsh
pdb|2R65|A Chain A, Crystal Structure Of Helicobacter Pylori Atp Dependent
Protease, Ftsh Adp Complex
pdb|2R65|B Chain B, Crystal Structure Of Helicobacter Pylori Atp Dependent
Protease, Ftsh Adp Complex
pdb|2R65|C Chain C, Crystal Structure Of Helicobacter Pylori Atp Dependent
Protease, Ftsh Adp Complex
pdb|2R65|D Chain D, Crystal Structure Of Helicobacter Pylori Atp Dependent
Protease, Ftsh Adp Complex
pdb|2R65|E Chain E, Crystal Structure Of Helicobacter Pylori Atp Dependent
Protease, Ftsh Adp Complex
Length = 268
Score = 37.0 bits (84), Expect = 0.020, Method: Compositional matrix adjust.
Identities = 18/36 (50%), Positives = 24/36 (66%), Gaps = 2/36 (5%)
Query: 10 RAILMAGPPGTGKTAIALAMSHELGNKVPFCPMVGS 45
+ +L+ GPPGTGKT +A A++ E VPF M GS
Sbjct: 45 KGVLLVGPPGTGKTLLAKAVAGEA--HVPFFSMGGS 78
>pdb|4B4T|L Chain L, Near-Atomic Resolution Structural Model Of The Yeast 26s
Proteasome
Length = 437
Score = 36.6 bits (83), Expect = 0.025, Method: Compositional matrix adjust.
Identities = 15/35 (42%), Positives = 22/35 (62%)
Query: 10 RAILMAGPPGTGKTAIALAMSHELGNKVPFCPMVG 44
+ +L+ GPPGTGKT +A A++ +G F P G
Sbjct: 216 KGVLLYGPPGTGKTLLAKAVAATIGANFIFSPASG 250
>pdb|2CE7|A Chain A, Edta Treated
pdb|2CE7|B Chain B, Edta Treated
pdb|2CE7|C Chain C, Edta Treated
pdb|2CE7|D Chain D, Edta Treated
pdb|2CE7|E Chain E, Edta Treated
pdb|2CE7|F Chain F, Edta Treated
pdb|2CEA|A Chain A, Cell Division Protein Ftsh
pdb|2CEA|B Chain B, Cell Division Protein Ftsh
pdb|2CEA|C Chain C, Cell Division Protein Ftsh
pdb|2CEA|D Chain D, Cell Division Protein Ftsh
pdb|2CEA|E Chain E, Cell Division Protein Ftsh
pdb|2CEA|F Chain F, Cell Division Protein Ftsh
Length = 476
Score = 36.6 bits (83), Expect = 0.027, Method: Compositional matrix adjust.
Identities = 18/37 (48%), Positives = 25/37 (67%), Gaps = 2/37 (5%)
Query: 10 RAILMAGPPGTGKTAIALAMSHELGNKVPFCPMVGSE 46
+ IL+ GPPGTGKT +A A++ E VPF + GS+
Sbjct: 50 KGILLVGPPGTGKTLLARAVAGE--ANVPFFHISGSD 84
>pdb|2QZ4|A Chain A, Human Paraplegin, Aaa Domain In Complex With Adp
Length = 262
Score = 35.8 bits (81), Expect = 0.048, Method: Compositional matrix adjust.
Identities = 17/37 (45%), Positives = 24/37 (64%), Gaps = 2/37 (5%)
Query: 10 RAILMAGPPGTGKTAIALAMSHELGNKVPFCPMVGSE 46
+ L+ GPPG GKT +A A++ E +VPF M G+E
Sbjct: 40 KGALLLGPPGCGKTLLAKAVATE--AQVPFLAMAGAE 74
>pdb|3M6A|A Chain A, Crystal Structure Of Bacillus Subtilis Lon C-Terminal
Domain
pdb|3M6A|B Chain B, Crystal Structure Of Bacillus Subtilis Lon C-Terminal
Domain
pdb|3M6A|C Chain C, Crystal Structure Of Bacillus Subtilis Lon C-Terminal
Domain
pdb|3M6A|D Chain D, Crystal Structure Of Bacillus Subtilis Lon C-Terminal
Domain
pdb|3M6A|E Chain E, Crystal Structure Of Bacillus Subtilis Lon C-Terminal
Domain
pdb|3M6A|F Chain F, Crystal Structure Of Bacillus Subtilis Lon C-Terminal
Domain
Length = 543
Score = 35.4 bits (80), Expect = 0.065, Method: Compositional matrix adjust.
Identities = 14/33 (42%), Positives = 23/33 (69%)
Query: 4 SKKMAGRAILMAGPPGTGKTAIALAMSHELGNK 36
+K + G + +AGPPG GKT++A +++ LG K
Sbjct: 103 TKSLKGPILCLAGPPGVGKTSLAKSIAKSLGRK 135
>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 = 35.0 bits (79), Expect = 0.070, Method: Compositional matrix adjust.
Identities = 13/22 (59%), Positives = 19/22 (86%)
Query: 12 ILMAGPPGTGKTAIALAMSHEL 33
+L +GPPGTGKTA A+A++ +L
Sbjct: 41 LLFSGPPGTGKTATAIALARDL 62
>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 = 35.0 bits (79), Expect = 0.070, Method: Compositional matrix adjust.
Identities = 13/22 (59%), Positives = 19/22 (86%)
Query: 12 ILMAGPPGTGKTAIALAMSHEL 33
+L +GPPGTGKTA A+A++ +L
Sbjct: 41 LLFSGPPGTGKTATAIALARDL 62
>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 = 35.0 bits (79), Expect = 0.073, Method: Compositional matrix adjust.
Identities = 14/22 (63%), Positives = 17/22 (77%)
Query: 12 ILMAGPPGTGKTAIALAMSHEL 33
+L AGPPG GKT ALA++ EL
Sbjct: 49 LLFAGPPGVGKTTAALALAREL 70
>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 = 34.7 bits (78), Expect = 0.091, Method: Compositional matrix adjust.
Identities = 20/53 (37%), Positives = 31/53 (58%), Gaps = 2/53 (3%)
Query: 10 RAILMAGPPGTGKTAIALAMSHELGNKVPFCPMVGSEVFSSEIKKTEVLMENF 62
+ IL+ GPPGTGKT +A A++ E F +VGSE+ I + L+++
Sbjct: 52 KGILLYGPPGTGKTLLAKAVATE--TNATFIRVVGSELVKKFIGEGASLVKDI 102
>pdb|1IXR|C Chain C, Ruva-Ruvb Complex
Length = 312
Score = 34.7 bits (78), Expect = 0.10, Method: Compositional matrix adjust.
Identities = 15/32 (46%), Positives = 22/32 (68%)
Query: 3 KSKKMAGRAILMAGPPGTGKTAIALAMSHELG 34
K++K +L+ GPPG GKT +A ++HELG
Sbjct: 32 KARKEPLEHLLLFGPPGLGKTTLAHVIAHELG 63
>pdb|1IXS|B Chain B, Structure Of Ruvb Complexed With Ruva Domain Iii
Length = 318
Score = 34.7 bits (78), Expect = 0.10, Method: Compositional matrix adjust.
Identities = 15/32 (46%), Positives = 22/32 (68%)
Query: 3 KSKKMAGRAILMAGPPGTGKTAIALAMSHELG 34
K++K +L+ GPPG GKT +A ++HELG
Sbjct: 32 KARKEPLEHLLLFGPPGLGKTTLAHVIAHELG 63
>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 = 34.7 bits (78), Expect = 0.10, Method: Compositional matrix adjust.
Identities = 16/37 (43%), Positives = 24/37 (64%), Gaps = 2/37 (5%)
Query: 10 RAILMAGPPGTGKTAIALAMSHELGNKVPFCPMVGSE 46
+ +L+ GPPG GKT +A A++ E +VPF GS+
Sbjct: 65 KGVLLVGPPGVGKTHLARAVAGE--ARVPFITASGSD 99
>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 = 34.7 bits (78), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 15/32 (46%), Positives = 22/32 (68%)
Query: 3 KSKKMAGRAILMAGPPGTGKTAIALAMSHELG 34
K++K +L+ GPPG GKT +A ++HELG
Sbjct: 32 KARKEPLEHLLLFGPPGLGKTTLAHVIAHELG 63
>pdb|3KDS|E Chain E, Apo-ftsh Crystal Structure
pdb|3KDS|F Chain F, Apo-ftsh Crystal Structure
pdb|3KDS|G Chain G, Apo-ftsh Crystal Structure
Length = 465
Score = 34.7 bits (78), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 17/37 (45%), Positives = 24/37 (64%), Gaps = 2/37 (5%)
Query: 10 RAILMAGPPGTGKTAIALAMSHELGNKVPFCPMVGSE 46
+ IL+ GPPGTG T +A A++ E VPF + GS+
Sbjct: 50 KGILLVGPPGTGATLLARAVAGEA--NVPFFHISGSD 84
>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 = 34.3 bits (77), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 16/37 (43%), Positives = 24/37 (64%), Gaps = 2/37 (5%)
Query: 10 RAILMAGPPGTGKTAIALAMSHELGNKVPFCPMVGSE 46
+ +L+ GPPG GKT +A A++ E +VPF GS+
Sbjct: 74 KGVLLVGPPGVGKTHLARAVAGE--ARVPFITASGSD 108
>pdb|1IXZ|A Chain A, Crystal Structure Of The Ftsh Atpase Domain From Thermus
Thermophilus
pdb|1IY0|A Chain A, Crystal Structure Of The Ftsh Atpase Domain With Amp-Pnp
From Thermus Thermophilus
pdb|1IY1|A Chain A, Crystal Structure Of The Ftsh Atpase Domain With Adp
From Thermus Thermophilus
Length = 254
Score = 33.9 bits (76), Expect = 0.16, Method: Compositional matrix adjust.
Identities = 16/37 (43%), Positives = 24/37 (64%), Gaps = 2/37 (5%)
Query: 10 RAILMAGPPGTGKTAIALAMSHELGNKVPFCPMVGSE 46
+ +L+ GPPG GKT +A A++ E +VPF GS+
Sbjct: 50 KGVLLVGPPGVGKTHLARAVAGE--ARVPFITASGSD 84
>pdb|1IY2|A Chain A, Crystal Structure Of The Ftsh Atpase Domain From Thermus
Thermophilus
Length = 278
Score = 33.9 bits (76), Expect = 0.17, Method: Compositional matrix adjust.
Identities = 16/37 (43%), Positives = 24/37 (64%), Gaps = 2/37 (5%)
Query: 10 RAILMAGPPGTGKTAIALAMSHELGNKVPFCPMVGSE 46
+ +L+ GPPG GKT +A A++ E +VPF GS+
Sbjct: 74 KGVLLVGPPGVGKTHLARAVAGEA--RVPFITASGSD 108
>pdb|4B4T|J Chain J, Near-Atomic Resolution Structural Model Of The Yeast 26s
Proteasome
Length = 405
Score = 33.9 bits (76), Expect = 0.17, Method: Compositional matrix adjust.
Identities = 16/43 (37%), Positives = 26/43 (60%), Gaps = 2/43 (4%)
Query: 10 RAILMAGPPGTGKTAIALAMSHELGNKVPFCPMVGSEVFSSEI 52
+ +++ GPPGTGKT +A A++H K F + G+E+ I
Sbjct: 183 KGVILYGPPGTGKTLLARAVAHHTDCK--FIRVSGAELVQKYI 223
>pdb|4B4T|K Chain K, Near-Atomic Resolution Structural Model Of The Yeast 26s
Proteasome
Length = 428
Score = 33.9 bits (76), Expect = 0.18, Method: Compositional matrix adjust.
Identities = 16/37 (43%), Positives = 23/37 (62%), Gaps = 2/37 (5%)
Query: 10 RAILMAGPPGTGKTAIALAMSHELGNKVPFCPMVGSE 46
R +L+ GPPGTGKT + A+++ K F + GSE
Sbjct: 207 RGVLLYGPPGTGKTMLVKAVAN--STKAAFIRVNGSE 241
>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 = 33.1 bits (74), Expect = 0.31, Method: Compositional matrix adjust.
Identities = 18/62 (29%), Positives = 34/62 (54%), Gaps = 2/62 (3%)
Query: 1 MIKSKKMAGRAILMAGPPGTGKTAIALAMSHELGNKVPFCPMVGSEVFSSEIKKTEVLME 60
+ K + IL+ GPPGTGK+ +A A++ E + F + S++ S + ++E L++
Sbjct: 61 LFKGNRKPTSGILLYGPPGTGKSYLAKAVATEANST--FFSVSSSDLVSKWMGESEKLVK 118
Query: 61 NF 62
Sbjct: 119 QL 120
>pdb|3EIE|A Chain A, Crystal Structure Of S.Cerevisiae Vps4 In The So4-Bound
State
Length = 322
Score = 33.1 bits (74), Expect = 0.32, Method: Compositional matrix adjust.
Identities = 18/62 (29%), Positives = 34/62 (54%), Gaps = 2/62 (3%)
Query: 1 MIKSKKMAGRAILMAGPPGTGKTAIALAMSHELGNKVPFCPMVGSEVFSSEIKKTEVLME 60
+ K + IL+ GPPGTGK+ +A A++ E + F + S++ S + ++E L++
Sbjct: 43 LFKGNRKPTSGILLYGPPGTGKSYLAKAVATEANST--FFSVSSSDLVSKWMGESEKLVK 100
Query: 61 NF 62
Sbjct: 101 QL 102
>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 = 33.1 bits (74), Expect = 0.33, Method: Compositional matrix adjust.
Identities = 18/62 (29%), Positives = 34/62 (54%), Gaps = 2/62 (3%)
Query: 1 MIKSKKMAGRAILMAGPPGTGKTAIALAMSHELGNKVPFCPMVGSEVFSSEIKKTEVLME 60
+ K + IL+ GPPGTGK+ +A A++ E + F + S++ S + ++E L++
Sbjct: 76 LFKGNRKPTSGILLYGPPGTGKSYLAKAVATEANST--FFSVSSSDLVSKWMGESEKLVK 133
Query: 61 NF 62
Sbjct: 134 QL 135
>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 = 32.7 bits (73), Expect = 0.34, Method: Compositional matrix adjust.
Identities = 13/22 (59%), Positives = 17/22 (77%)
Query: 12 ILMAGPPGTGKTAIALAMSHEL 33
+L GPPGTGKT+ LA++ EL
Sbjct: 61 MLFYGPPGTGKTSTILALTKEL 82
>pdb|2RKO|A Chain A, Crystal Structure Of The Vps4p-Dimer
Length = 331
Score = 32.7 bits (73), Expect = 0.34, Method: Compositional matrix adjust.
Identities = 18/62 (29%), Positives = 34/62 (54%), Gaps = 2/62 (3%)
Query: 1 MIKSKKMAGRAILMAGPPGTGKTAIALAMSHELGNKVPFCPMVGSEVFSSEIKKTEVLME 60
+ K + IL+ GPPGTGK+ +A A++ E + F + S++ S + ++E L++
Sbjct: 52 LFKGNRKPTSGILLYGPPGTGKSYLAKAVATEANST--FFSVSSSDLVSKWMGESEKLVK 109
Query: 61 NF 62
Sbjct: 110 QL 111
>pdb|4B4T|H Chain H, Near-Atomic Resolution Structural Model Of The Yeast 26s
Proteasome
Length = 467
Score = 32.7 bits (73), Expect = 0.42, Method: Compositional matrix adjust.
Identities = 16/38 (42%), Positives = 24/38 (63%), Gaps = 2/38 (5%)
Query: 10 RAILMAGPPGTGKTAIALAMSHELGNKVPFCPMVGSEV 47
+ IL+ GPPGTGKT A A+++ F ++GSE+
Sbjct: 244 KGILLYGPPGTGKTLCARAVANR--TDATFIRVIGSEL 279
>pdb|1IN5|A Chain A, Thermogota Maritima Ruvb A156s Mutant
Length = 334
Score = 32.0 bits (71), Expect = 0.67, Method: Compositional matrix adjust.
Identities = 15/39 (38%), Positives = 24/39 (61%), Gaps = 3/39 (7%)
Query: 2 IKSKKMAGRA---ILMAGPPGTGKTAIALAMSHELGNKV 37
+++ KM G +L+AGPPG GKT +A ++ EL +
Sbjct: 41 LEAAKMRGEVLDHVLLAGPPGLGKTTLAHIIASELQTNI 79
>pdb|1IN8|A Chain A, Thermotoga Maritima Ruvb T158v
Length = 334
Score = 32.0 bits (71), Expect = 0.68, Method: Compositional matrix adjust.
Identities = 15/39 (38%), Positives = 24/39 (61%), Gaps = 3/39 (7%)
Query: 2 IKSKKMAGRA---ILMAGPPGTGKTAIALAMSHELGNKV 37
+++ KM G +L+AGPPG GKT +A ++ EL +
Sbjct: 41 LEAAKMRGEVLDHVLLAGPPGLGKTTLAHIIASELQTNI 79
>pdb|1IN7|A Chain A, Thermotoga Maritima Ruvb R170a
Length = 334
Score = 32.0 bits (71), Expect = 0.71, Method: Compositional matrix adjust.
Identities = 15/39 (38%), Positives = 24/39 (61%), Gaps = 3/39 (7%)
Query: 2 IKSKKMAGRA---ILMAGPPGTGKTAIALAMSHELGNKV 37
+++ KM G +L+AGPPG GKT +A ++ EL +
Sbjct: 41 LEAAKMRGEVLDHVLLAGPPGLGKTTLAHIIASELQTNI 79
>pdb|1IN4|A Chain A, Thermotoga Maritima Ruvb Holliday Junction Branch
Migration Motor
Length = 334
Score = 32.0 bits (71), Expect = 0.71, Method: Compositional matrix adjust.
Identities = 15/39 (38%), Positives = 24/39 (61%), Gaps = 3/39 (7%)
Query: 2 IKSKKMAGRA---ILMAGPPGTGKTAIALAMSHELGNKV 37
+++ KM G +L+AGPPG GKT +A ++ EL +
Sbjct: 41 LEAAKMRGEVLDHVLLAGPPGLGKTTLAHIIASELQTNI 79
>pdb|1J7K|A Chain A, Thermotoga Maritima Ruvb P216g Mutant
Length = 334
Score = 32.0 bits (71), Expect = 0.73, Method: Compositional matrix adjust.
Identities = 15/39 (38%), Positives = 24/39 (61%), Gaps = 3/39 (7%)
Query: 2 IKSKKMAGRA---ILMAGPPGTGKTAIALAMSHELGNKV 37
+++ KM G +L+AGPPG GKT +A ++ EL +
Sbjct: 41 LEAAKMRGEVLDHVLLAGPPGLGKTTLAHIIASELQTNI 79
>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 = 31.6 bits (70), Expect = 0.86, Method: Compositional matrix adjust.
Identities = 13/25 (52%), Positives = 17/25 (68%)
Query: 10 RAILMAGPPGTGKTAIALAMSHELG 34
RA ++ GPPG GKT A ++ ELG
Sbjct: 78 RAAMLYGPPGIGKTTAAHLVAQELG 102
>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 = 31.2 bits (69), Expect = 0.99, Method: Compositional matrix adjust.
Identities = 12/25 (48%), Positives = 18/25 (72%)
Query: 12 ILMAGPPGTGKTAIALAMSHELGNK 36
+L GPPGTGKT+ +A++ E+ K
Sbjct: 49 LLFYGPPGTGKTSTIVALAREIYGK 73
>pdb|1IN6|A Chain A, Thermotoga Maritima Ruvb K64r Mutant
Length = 334
Score = 31.2 bits (69), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 14/39 (35%), Positives = 24/39 (61%), Gaps = 3/39 (7%)
Query: 2 IKSKKMAGRA---ILMAGPPGTGKTAIALAMSHELGNKV 37
+++ KM G +L+AGPPG G+T +A ++ EL +
Sbjct: 41 LEAAKMRGEVLDHVLLAGPPGLGRTTLAHIIASELQTNI 79
>pdb|3CM0|A Chain A, Crystal Structure Of Adenylate Kinase From Thermus
Thermophilus Hb8
Length = 186
Score = 30.8 bits (68), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 13/28 (46%), Positives = 18/28 (64%)
Query: 9 GRAILMAGPPGTGKTAIALAMSHELGNK 36
G+A++ GPPG GK A ++ ELG K
Sbjct: 4 GQAVIFLGPPGAGKGTQASRLAQELGFK 31
>pdb|4B4T|M Chain M, Near-Atomic Resolution Structural Model Of The Yeast 26s
Proteasome
Length = 434
Score = 30.8 bits (68), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 13/25 (52%), Positives = 17/25 (68%)
Query: 8 AGRAILMAGPPGTGKTAIALAMSHE 32
A + LM GPPGTGKT +A A + +
Sbjct: 214 APKGALMYGPPGTGKTLLARACAAQ 238
>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 = 30.8 bits (68), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 15/48 (31%), Positives = 27/48 (56%), Gaps = 2/48 (4%)
Query: 9 GRAILMAGPPGTGKTAIALAMSHELGNKVPFCPMVGSEVFSSEIKKTE 56
+ +L GPPG GKT +A A+++E + F + G E+ + ++E
Sbjct: 49 SKGVLFYGPPGCGKTLLAKAIANEC--QANFISIKGPELLTMWFGESE 94
>pdb|3VFD|A Chain A, Human Spastin Aaa Domain
Length = 389
Score = 30.4 bits (67), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 12/27 (44%), Positives = 18/27 (66%)
Query: 6 KMAGRAILMAGPPGTGKTAIALAMSHE 32
+ R +L+ GPPG GKT +A A++ E
Sbjct: 145 RAPARGLLLFGPPGNGKTMLAKAVAAE 171
>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 = 30.0 bits (66), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 12/25 (48%), Positives = 17/25 (68%)
Query: 10 RAILMAGPPGTGKTAIALAMSHELG 34
+ IL+ GPPGTGKT I ++ + G
Sbjct: 118 KGILLFGPPGTGKTLIGKCIASQSG 142
>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 = 30.0 bits (66), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 15/38 (39%), Positives = 21/38 (55%)
Query: 2 IKSKKMAGRAILMAGPPGTGKTAIALAMSHELGNKVPF 39
I SK IL + PGTGKT +A A+ H++ + F
Sbjct: 41 ITSKGKIPHIILHSPSPGTGKTTVAKALCHDVNADMMF 78
>pdb|4B4T|I Chain I, Near-Atomic Resolution Structural Model Of The Yeast 26s
Proteasome
Length = 437
Score = 30.0 bits (66), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 14/39 (35%), Positives = 25/39 (64%), Gaps = 2/39 (5%)
Query: 10 RAILMAGPPGTGKTAIALAMSHELGNKVPFCPMVGSEVF 48
+ +++ G PGTGKT +A A++++ F +VGSE+
Sbjct: 217 KGVILYGAPGTGKTLLAKAVANQ--TSATFLRIVGSELI 253
>pdb|1NSF|A Chain A, D2 Hexamerization Domain Of N-Ethylmaleimide Sensitive
Factor (Nsf)
Length = 273
Score = 29.3 bits (64), Expect = 4.2, Method: Compositional matrix adjust.
Identities = 17/57 (29%), Positives = 31/57 (54%), Gaps = 4/57 (7%)
Query: 11 AILMAGPPGTGKTAIALAMSHELGNKVPFCPMVGSE--VFSSEIKKTEVLMENFRRA 65
++L+ GPP +GKTA+A ++ E + PF + + + SE K + + + F A
Sbjct: 65 SVLLEGPPHSGKTALAAKIAEE--SNFPFIKICSPDKMIGFSETAKCQAMKKIFDDA 119
>pdb|3B9P|A Chain A, Spastin
Length = 297
Score = 29.3 bits (64), Expect = 4.2, Method: Compositional matrix adjust.
Identities = 11/27 (40%), Positives = 18/27 (66%)
Query: 6 KMAGRAILMAGPPGTGKTAIALAMSHE 32
+ + +L+ GPPG GKT +A A++ E
Sbjct: 51 RAPAKGLLLFGPPGNGKTLLARAVATE 77
>pdb|1D2N|A Chain A, D2 Domain Of N-Ethylmaleimide-Sensitive Fusion Protein
Length = 272
Score = 28.9 bits (63), Expect = 4.9, Method: Compositional matrix adjust.
Identities = 17/57 (29%), Positives = 31/57 (54%), Gaps = 4/57 (7%)
Query: 11 AILMAGPPGTGKTAIALAMSHELGNKVPFCPMVGSE--VFSSEIKKTEVLMENFRRA 65
++L+ GPP +GKTA+A ++ E + PF + + + SE K + + + F A
Sbjct: 66 SVLLEGPPHSGKTALAAKIAEE--SNFPFIKICSPDKMIGFSETAKCQAMKKIFDDA 120
>pdb|3H0K|A Chain A, Crystal Structure Of An Adenylated Kinase Related
Protein From Sulfolobus Solfataricus To 3.25a
pdb|3H0K|B Chain B, Crystal Structure Of An Adenylated Kinase Related
Protein From Sulfolobus Solfataricus To 3.25a
Length = 178
Score = 28.9 bits (63), Expect = 5.7, Method: Compositional matrix adjust.
Identities = 20/55 (36%), Positives = 29/55 (52%), Gaps = 1/55 (1%)
Query: 10 RAILMAGPPGTGKTAIALAMSHELGNKVPFCPMVGSEVFSSEIKKTEVLMENFRR 64
+ IL+ G PG+GK+ A + E G KV V + +S E K E LM+ +R
Sbjct: 1 KVILITGMPGSGKSEFA-KLLKERGAKVIVMSDVVRKRYSIEAKPGERLMDFAKR 54
>pdb|3LW7|A Chain A, The Crystal Structure Of An Adenylate Kinase-Related
Protein Bound To Amp From Sulfolobus Solfataricus To
2.3a
pdb|3LW7|B Chain B, The Crystal Structure Of An Adenylate Kinase-Related
Protein Bound To Amp From Sulfolobus Solfataricus To
2.3a
Length = 179
Score = 28.9 bits (63), Expect = 5.9, Method: Compositional matrix adjust.
Identities = 20/55 (36%), Positives = 29/55 (52%), Gaps = 1/55 (1%)
Query: 10 RAILMAGPPGTGKTAIALAMSHELGNKVPFCPMVGSEVFSSEIKKTEVLMENFRR 64
+ IL+ G PG+GK+ A + E G KV V + +S E K E LM+ +R
Sbjct: 2 KVILITGMPGSGKSEFA-KLLKERGAKVIVMSDVVRKRYSIEAKPGERLMDFAKR 55
>pdb|1YB1|A Chain A, Crystal Structure Of Human 17-Beta-Hydroxysteroid
Dehydrogenase Type Xi
pdb|1YB1|B Chain B, Crystal Structure Of Human 17-Beta-Hydroxysteroid
Dehydrogenase Type Xi
Length = 272
Score = 28.5 bits (62), Expect = 6.2, Method: Compositional matrix adjust.
Identities = 16/37 (43%), Positives = 21/37 (56%), Gaps = 3/37 (8%)
Query: 122 IYESLQKEKVEVGDVIYIEANSGAVKRQGRSDTFAAE 158
IY S +K K E+GDV + N+G V SD FA +
Sbjct: 95 IYSSAKKVKAEIGDVSILVNNAGVVY---TSDLFATQ 128
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 0.134 0.366
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 10,802,289
Number of Sequences: 62578
Number of extensions: 428279
Number of successful extensions: 1554
Number of sequences better than 100.0: 68
Number of HSP's better than 100.0 without gapping: 58
Number of HSP's successfully gapped in prelim test: 10
Number of HSP's that attempted gapping in prelim test: 1466
Number of HSP's gapped (non-prelim): 90
length of query: 409
length of database: 14,973,337
effective HSP length: 101
effective length of query: 308
effective length of database: 8,652,959
effective search space: 2665111372
effective search space used: 2665111372
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 53 (25.0 bits)