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= 030960
(168 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|4B4T|K Chain K, Near-Atomic Resolution Structural Model Of The Yeast 26s
Proteasome
Length = 428
Score = 242 bits (618), Expect = 7e-65, Method: Compositional matrix adjust.
Identities = 125/176 (71%), Positives = 144/176 (81%), Gaps = 8/176 (4%)
Query: 1 MVRDVFRLAKENAPAIIFIDEVDAIATARFDAQTGADREVQRILMELLNQMDGFDQTVNV 60
MVRDVFRLA+ENAP+IIFIDEVD+IAT RFDAQTG+DREVQRIL+ELL QMDGFDQ+ NV
Sbjct: 253 MVRDVFRLARENAPSIIFIDEVDSIATKRFDAQTGSDREVQRILIELLTQMDGFDQSTNV 312
Query: 61 KVIMATNRADTLDPALLRPGRLDRKIEFP-LPDRRQKRLVF-----QMNLSDEVDLEDYV 114
KVIMATNRADTLDPALLRPGRLDRKIEFP L DRR++RL+F +M+L+ E DL+ +
Sbjct: 313 KVIMATNRADTLDPALLRPGRLDRKIEFPSLRDRRERRLIFGTIASKMSLAPEADLDSLI 372
Query: 115 SRPDKISAAEIAAICQEAGMHAVRKNRYVILPKDFEKGYRTNVKKPDT--DFEFYK 168
R D +S A IAAI QEAG+ AVRKNRYVIL D E+ Y T VK +T F+FYK
Sbjct: 373 IRNDSLSGAVIAAIMQEAGLRAVRKNRYVILQSDLEEAYATQVKTDNTVDKFDFYK 428
>pdb|4B4T|I Chain I, Near-Atomic Resolution Structural Model Of The Yeast 26s
Proteasome
Length = 437
Score = 172 bits (437), Expect = 7e-44, Method: Compositional matrix adjust.
Identities = 80/156 (51%), Positives = 117/156 (75%), Gaps = 5/156 (3%)
Query: 1 MVRDVFRLAKENAPAIIFIDEVDAIATARFDAQTGADREVQRILMELLNQMDGFDQTVNV 60
+ R +F++A ENAP+I+FIDE+DAI T R+D+ +G +RE+QR ++ELLNQ+DGFD +V
Sbjct: 263 LCRQIFKVAGENAPSIVFIDEIDAIGTKRYDSNSGGEREIQRTMLELLNQLDGFDDRGDV 322
Query: 61 KVIMATNRADTLDPALLRPGRLDRKIEFPLPDRRQKRLVF-----QMNLSDEVDLEDYVS 115
KVIMATN+ +TLDPAL+RPGR+DRKI F PD K+ + +MNLS++V+LE V+
Sbjct: 323 KVIMATNKIETLDPALIRPGRIDRKILFENPDLSTKKKILGIHTSKMNLSEDVNLETLVT 382
Query: 116 RPDKISAAEIAAICQEAGMHAVRKNRYVILPKDFEK 151
D +S A+I A+C EAG+ A+R+ R + +DF++
Sbjct: 383 TKDDLSGADIQAMCTEAGLLALRERRMQVTAEDFKQ 418
>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 = 166 bits (419), Expect = 7e-42, Method: Compositional matrix adjust.
Identities = 84/156 (53%), Positives = 110/156 (70%), Gaps = 5/156 (3%)
Query: 1 MVRDVFRLAKENAPAIIFIDEVDAIATARFDAQTGADREVQRILMELLNQMDGFDQTVNV 60
+V+D+F+LAKE AP+IIFIDE+DAIA R DA TG DREVQR LM+LL +MDGFD +V
Sbjct: 98 LVKDIFKLAKEKAPSIIFIDEIDAIAAKRTDALTGGDREVQRTLMQLLAEMDGFDARGDV 157
Query: 61 KVIMATNRADTLDPALLRPGRLDRKIEFPLPDRRQKRLVF-----QMNLSDEVDLEDYVS 115
K+I ATNR D LDPA+LRPGR DR IE P PD + + + +MNL+++V+LE+
Sbjct: 158 KIIGATNRPDILDPAILRPGRFDRIIEVPAPDEKGRLEILKIHTRKMNLAEDVNLEEIAK 217
Query: 116 RPDKISAAEIAAICQEAGMHAVRKNRYVILPKDFEK 151
+ AE+ AIC EAGM+A+R+ R + DF K
Sbjct: 218 MTEGCVGAELKAICTEAGMNAIRELRDYVTMDDFRK 253
>pdb|4B4T|J Chain J, Near-Atomic Resolution Structural Model Of The Yeast 26s
Proteasome
Length = 405
Score = 163 bits (413), Expect = 4e-41, Method: Compositional matrix adjust.
Identities = 74/155 (47%), Positives = 109/155 (70%), Gaps = 5/155 (3%)
Query: 1 MVRDVFRLAKENAPAIIFIDEVDAIATARFDAQTGADREVQRILMELLNQMDGFDQTVNV 60
MVR++F +A+E+AP+IIF+DE+D+I + R + G D EVQR ++ELLNQ+DGF+ + N+
Sbjct: 229 MVRELFVMAREHAPSIIFMDEIDSIGSTRVEGSGGGDSEVQRTMLELLNQLDGFETSKNI 288
Query: 61 KVIMATNRADTLDPALLRPGRLDRKIEFPLPDRRQKRLVF-----QMNLSDEVDLEDYVS 115
K+IMATNR D LDPALLRPGR+DRKIEFP P + + +MNL+ ++L
Sbjct: 289 KIIMATNRLDILDPALLRPGRIDRKIEFPPPSVAARAEILRIHSRKMNLTRGINLRKVAE 348
Query: 116 RPDKISAAEIAAICQEAGMHAVRKNRYVILPKDFE 150
+ + S A++ +C EAGM+A+R+ R + +DFE
Sbjct: 349 KMNGCSGADVKGVCTEAGMYALRERRIHVTQEDFE 383
>pdb|4B4T|M Chain M, Near-Atomic Resolution Structural Model Of The Yeast 26s
Proteasome
Length = 434
Score = 160 bits (404), Expect = 4e-40, Method: Compositional matrix adjust.
Identities = 81/172 (47%), Positives = 107/172 (62%), Gaps = 5/172 (2%)
Query: 1 MVRDVFRLAKENAPAIIFIDEVDAIATARFDAQTGADREVQRILMELLNQMDGFDQTVNV 60
+VRD F LAKE AP IIFIDE+DAI T RFD++ DREVQR ++ELLNQ+DGF V
Sbjct: 262 LVRDAFALAKEKAPTIIFIDELDAIGTKRFDSEKSGDREVQRTMLELLNQLDGFSSDDRV 321
Query: 61 KVIMATNRADTLDPALLRPGRLDRKIEFPLPDRRQKRLVFQ-----MNLSDEVDLEDYVS 115
KV+ ATNR D LDPALLR GRLDRKIEFPLP + + Q M D+++ ++
Sbjct: 322 KVLAATNRVDVLDPALLRSGRLDRKIEFPLPSEDSRAQILQIHSRKMTTDDDINWQELAR 381
Query: 116 RPDKISAAEIAAICQEAGMHAVRKNRYVILPKDFEKGYRTNVKKPDTDFEFY 167
D+ + A++ A+ EAGM A+R + + +DF +G + FY
Sbjct: 382 STDEFNGAQLKAVTVEAGMIALRNGQSSVKHEDFVEGISEVQARKSKSVSFY 433
>pdb|4B4T|L Chain L, Near-Atomic Resolution Structural Model Of The Yeast 26s
Proteasome
Length = 437
Score = 157 bits (398), Expect = 2e-39, Method: Compositional matrix adjust.
Identities = 86/175 (49%), Positives = 108/175 (61%), Gaps = 7/175 (4%)
Query: 1 MVRDVFRLAKENAPAIIFIDEVDAIATARFDAQTGADREVQRILMELLNQMDGFDQTVNV 60
++R++F AKE+ P IIF+DEVDAI RF T ADRE+QR LMELL QMDGFD
Sbjct: 262 IIREMFAYAKEHEPCIIFMDEVDAIGGRRFSEGTSADREIQRTLMELLTQMDGFDNLGQT 321
Query: 61 KVIMATNRADTLDPALLRPGRLDRKIEFPLPDRRQKRLVFQMNL-----SDEVDLEDYVS 115
K+IMATNR DTLDPALLRPGRLDRK+E PLP+ + +F+++ + E D E V
Sbjct: 322 KIIMATNRPDTLDPALLRPGRLDRKVEIPLPNEAGRLEIFKIHTAKVKKTGEFDFEAAVK 381
Query: 116 RPDKISAAEIAAICQEAGMHAVRKNRYVILPKDFEKGYR--TNVKKPDTDFEFYK 168
D + A+I EAG A+R +R I P D K R VKK + E+ K
Sbjct: 382 MSDGFNGADIRNCATEAGFFAIRDDRDHINPDDLMKAVRKVAEVKKLEGTIEYQK 436
>pdb|4B4T|H Chain H, Near-Atomic Resolution Structural Model Of The Yeast 26s
Proteasome
Length = 467
Score = 147 bits (370), Expect = 3e-36, Method: Compositional matrix adjust.
Identities = 76/158 (48%), Positives = 106/158 (67%), Gaps = 9/158 (5%)
Query: 1 MVRDVFRLAKENAPAIIFIDEVDAIATARFDAQTGADREVQRILMELLNQMDGFDQTVNV 60
MVR++F +A+ IIF DE+DA+ ARFD G D EVQR ++EL+ Q+DGFD N+
Sbjct: 290 MVRELFEMARTKKACIIFFDEIDAVGGARFDDGAGGDNEVQRTMLELITQLDGFDPRGNI 349
Query: 61 KVIMATNRADTLDPALLRPGRLDRKIEFPLPDRRQKRLVFQMNLSDEVDLE-----DYVS 115
KV+ ATNR +TLDPALLRPGR+DRK+EF LPD + +F+++ S + +E + +S
Sbjct: 350 KVMFATNRPNTLDPALLRPGRIDRKVEFSLPDLEGRANIFRIH-SKSMSVERGIRWELIS 408
Query: 116 R--PDKISAAEIAAICQEAGMHAVRKNRYVILPKDFEK 151
R P+ + AE+ ++C EAGM A+R R V KDF K
Sbjct: 409 RLCPNS-TGAELRSVCTEAGMFAIRARRKVATEKDFLK 445
>pdb|2DVW|B Chain B, Structure Of The Oncoprotein Gankyrin In Complex With S6
Atpase Of The 26s Proteasome
pdb|2DWZ|B Chain B, Structure Of The Oncoprotein Gankyrin In Complex With S6
Atpase Of The 26s Proteasome
pdb|2DWZ|D Chain D, Structure Of The Oncoprotein Gankyrin In Complex With S6
Atpase Of The 26s Proteasome
pdb|3AJI|B Chain B, Structure Of Gankyrin-S6atpase Photo-Cross-Linked
Site-Specifically, And Incoporated By Genetic Code
Expansion
pdb|3AJI|D Chain D, Structure Of Gankyrin-S6atpase Photo-Cross-Linked
Site-Specifically, And Incoporated By Genetic Code
Expansion
Length = 83
Score = 115 bits (289), Expect = 1e-26, Method: Compositional matrix adjust.
Identities = 54/82 (65%), Positives = 68/82 (82%), Gaps = 5/82 (6%)
Query: 92 DRRQKRLVF-----QMNLSDEVDLEDYVSRPDKISAAEIAAICQEAGMHAVRKNRYVILP 146
DRRQKRL+F +MNLS+EVDLEDYV+RPDKIS A+I +ICQE+GM AVR+NRY++L
Sbjct: 2 DRRQKRLIFSTITSKMNLSEEVDLEDYVARPDKISGADINSICQESGMLAVRENRYIVLA 61
Query: 147 KDFEKGYRTNVKKPDTDFEFYK 168
KDFEK Y+T +KK + + EFYK
Sbjct: 62 KDFEKAYKTVIKKDEQEHEFYK 83
>pdb|1LV7|A Chain A, Crystal Structure Of The Aaa Domain Of Ftsh
Length = 257
Score = 113 bits (282), Expect = 6e-26, Method: Compositional matrix adjust.
Identities = 62/155 (40%), Positives = 90/155 (58%), Gaps = 5/155 (3%)
Query: 2 VRDVFRLAKENAPAIIFIDEVDAIATARFDAQTGADREVQRILMELLNQMDGFDQTVNVK 61
VRD+F AK+ AP IIFIDE+DA+ R G E ++ L ++L +MDGF+ +
Sbjct: 93 VRDMFEQAKKAAPCIIFIDEIDAVGRQRGAGLGGGHDEREQTLNQMLVEMDGFEGNEGII 152
Query: 62 VIMATNRADTLDPALLRPGRLDRKIEFPLPDRRQKRLVFQMN-----LSDEVDLEDYVSR 116
VI ATNR D LDPALLRPGR DR++ LPD R + + +++ L+ ++D
Sbjct: 153 VIAATNRPDVLDPALLRPGRFDRQVVVGLPDVRGREQILKVHMRRVPLAPDIDAAIIARG 212
Query: 117 PDKISAAEIAAICQEAGMHAVRKNRYVILPKDFEK 151
S A++A + EA + A R N+ V+ +FEK
Sbjct: 213 TPGFSGADLANLVNEAALFAARGNKRVVSMVEFEK 247
>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 = 112 bits (280), Expect = 1e-25, Method: Compositional matrix adjust.
Identities = 63/155 (40%), Positives = 91/155 (58%), Gaps = 5/155 (3%)
Query: 2 VRDVFRLAKENAPAIIFIDEVDAIATARFDAQTGADREVQRILMELLNQMDGFDQTVNVK 61
VRD+F AK +AP I+FIDE+DA+ R G E ++ L +LL +MDGFD +
Sbjct: 97 VRDLFAQAKAHAPCIVFIDEIDAVGRHRGAGLGGGHDEREQTLNQLLVEMDGFDSKEGII 156
Query: 62 VIMATNRADTLDPALLRPGRLDRKIEFPLPDRRQKRLVFQMN-----LSDEVDLEDYVSR 116
V+ ATNR D LDPALLRPGR D+KI PD ++ + +++ L+++V+LE R
Sbjct: 157 VMAATNRPDILDPALLRPGRFDKKIVVDPPDMLGRKKILEIHTRNKPLAEDVNLEIIAKR 216
Query: 117 PDKISAAEIAAICQEAGMHAVRKNRYVILPKDFEK 151
A++ + EA + A R+ R I KDFE+
Sbjct: 217 TPGFVGADLENLVNEAALLAAREGRDKITMKDFEE 251
>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 = 112 bits (280), Expect = 1e-25, Method: Compositional matrix adjust.
Identities = 63/155 (40%), Positives = 91/155 (58%), Gaps = 5/155 (3%)
Query: 2 VRDVFRLAKENAPAIIFIDEVDAIATARFDAQTGADREVQRILMELLNQMDGFDQTVNVK 61
VRD+F AK +AP I+FIDE+DA+ R G E ++ L +LL +MDGFD +
Sbjct: 97 VRDLFAQAKAHAPCIVFIDEIDAVGRHRGAGLGGGHDEREQTLNQLLVEMDGFDSKEGII 156
Query: 62 VIMATNRADTLDPALLRPGRLDRKIEFPLPDRRQKRLVFQMN-----LSDEVDLEDYVSR 116
V+ ATNR D LDPALLRPGR D+KI PD ++ + +++ L+++V+LE R
Sbjct: 157 VMAATNRPDILDPALLRPGRFDKKIVVDPPDMLGRKKILEIHTRNKPLAEDVNLEIIAKR 216
Query: 117 PDKISAAEIAAICQEAGMHAVRKNRYVILPKDFEK 151
A++ + EA + A R+ R I KDFE+
Sbjct: 217 TPGFVGADLENLVNEAALLAAREGRDKITMKDFEE 251
>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 = 108 bits (270), Expect = 1e-24, Method: Compositional matrix adjust.
Identities = 61/143 (42%), Positives = 87/143 (60%), Gaps = 8/143 (5%)
Query: 2 VRDVFRLAKENAPAIIFIDEVDAIATARFDAQTGADREVQRILMELLNQMDGFDQTVNVK 61
+R F A++NAPAIIFIDE+DAIA R +R RI+ +LL MDG Q +V
Sbjct: 286 LRKAFEEAEKNAPAIIFIDELDAIAPKREKTHGEVER---RIVSQLLTLMDGLKQRAHVI 342
Query: 62 VIMATNRADTLDPALLRPGRLDRKIEFPLPDRRQKRLVFQ-----MNLSDEVDLEDYVSR 116
V+ ATNR +++DPAL R GR DR+++ +PD + + Q M L+D+VDLE +
Sbjct: 343 VMAATNRPNSIDPALRRFGRFDREVDIGIPDATGRLEILQIHTKNMKLADDVDLEQVANE 402
Query: 117 PDKISAAEIAAICQEAGMHAVRK 139
A++AA+C EA + A+RK
Sbjct: 403 THGHVGADLAALCSEAALQAIRK 425
>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 = 108 bits (270), Expect = 1e-24, Method: Compositional matrix adjust.
Identities = 61/143 (42%), Positives = 87/143 (60%), Gaps = 8/143 (5%)
Query: 2 VRDVFRLAKENAPAIIFIDEVDAIATARFDAQTGADREVQRILMELLNQMDGFDQTVNVK 61
+R F A++NAPAIIFIDE+DAIA R +R RI+ +LL MDG Q +V
Sbjct: 286 LRKAFEEAEKNAPAIIFIDELDAIAPKREKTHGEVER---RIVSQLLTLMDGLKQRAHVI 342
Query: 62 VIMATNRADTLDPALLRPGRLDRKIEFPLPDRRQKRLVFQ-----MNLSDEVDLEDYVSR 116
V+ ATNR +++DPAL R GR DR+++ +PD + + Q M L+D+VDLE +
Sbjct: 343 VMAATNRPNSIDPALRRFGRFDREVDIGIPDATGRLEILQIHTKNMKLADDVDLEQVANE 402
Query: 117 PDKISAAEIAAICQEAGMHAVRK 139
A++AA+C EA + A+RK
Sbjct: 403 THGHVGADLAALCSEAALQAIRK 425
>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 = 108 bits (270), Expect = 2e-24, Method: Compositional matrix adjust.
Identities = 61/143 (42%), Positives = 87/143 (60%), Gaps = 8/143 (5%)
Query: 2 VRDVFRLAKENAPAIIFIDEVDAIATARFDAQTGADREVQRILMELLNQMDGFDQTVNVK 61
+R F A++NAPAIIFIDE+DAIA R +R RI+ +LL MDG Q +V
Sbjct: 286 LRKAFEEAEKNAPAIIFIDELDAIAPKREKTHGEVER---RIVSQLLTLMDGLKQRAHVI 342
Query: 62 VIMATNRADTLDPALLRPGRLDRKIEFPLPDRRQKRLVFQ-----MNLSDEVDLEDYVSR 116
V+ ATNR +++DPAL R GR DR+++ +PD + + Q M L+D+VDLE +
Sbjct: 343 VMAATNRPNSIDPALRRFGRFDREVDIGIPDATGRLEILQIHTKNMKLADDVDLEQVANE 402
Query: 117 PDKISAAEIAAICQEAGMHAVRK 139
A++AA+C EA + A+RK
Sbjct: 403 THGHVGADLAALCSEAALQAIRK 425
>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 = 108 bits (270), Expect = 2e-24, Method: Compositional matrix adjust.
Identities = 61/143 (42%), Positives = 87/143 (60%), Gaps = 8/143 (5%)
Query: 2 VRDVFRLAKENAPAIIFIDEVDAIATARFDAQTGADREVQRILMELLNQMDGFDQTVNVK 61
+R F A++NAPAIIFIDE+DAIA R +R RI+ +LL MDG Q +V
Sbjct: 286 LRKAFEEAEKNAPAIIFIDELDAIAPKREKTHGEVER---RIVSQLLTLMDGLKQRAHVI 342
Query: 62 VIMATNRADTLDPALLRPGRLDRKIEFPLPDRRQKRLVFQ-----MNLSDEVDLEDYVSR 116
V+ ATNR +++DPAL R GR DR+++ +PD + + Q M L+D+VDLE +
Sbjct: 343 VMAATNRPNSIDPALRRFGRFDREVDIGIPDATGRLEILQIHTKNMKLADDVDLEQVANE 402
Query: 117 PDKISAAEIAAICQEAGMHAVRK 139
A++AA+C EA + A+RK
Sbjct: 403 THGHVGADLAALCSEAALQAIRK 425
>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 = 108 bits (269), Expect = 2e-24, Method: Compositional matrix adjust.
Identities = 61/143 (42%), Positives = 87/143 (60%), Gaps = 8/143 (5%)
Query: 2 VRDVFRLAKENAPAIIFIDEVDAIATARFDAQTGADREVQRILMELLNQMDGFDQTVNVK 61
+R F A++NAPAIIFIDE+DAIA R +R RI+ +LL MDG Q +V
Sbjct: 286 LRKAFEEAEKNAPAIIFIDELDAIAPKREKTHGEVER---RIVSQLLTLMDGLKQRAHVI 342
Query: 62 VIMATNRADTLDPALLRPGRLDRKIEFPLPDRRQKRLVFQ-----MNLSDEVDLEDYVSR 116
V+ ATNR +++DPAL R GR DR+++ +PD + + Q M L+D+VDLE +
Sbjct: 343 VMAATNRPNSIDPALRRFGRFDREVDIGIPDATGRLEILQIHTKNMKLADDVDLEQVANE 402
Query: 117 PDKISAAEIAAICQEAGMHAVRK 139
A++AA+C EA + A+RK
Sbjct: 403 THGHVGADLAALCSEAALQAIRK 425
Score = 104 bits (260), Expect = 2e-23, Method: Compositional matrix adjust.
Identities = 54/136 (39%), Positives = 80/136 (58%), Gaps = 5/136 (3%)
Query: 2 VRDVFRLAKENAPAIIFIDEVDAIATARFDAQTGADREVQRILMELLNQMDGFDQTVNVK 61
VR++F A++ AP ++F DE+D+IA AR R++ ++L +MDG NV
Sbjct: 559 VREIFDKARQAAPCVLFFDELDSIAKARGGNIGDGGGAADRVINQILTEMDGMSTKKNVF 618
Query: 62 VIMATNRADTLDPALLRPGRLDRKIEFPLPDRRQKRLVFQMNL-----SDEVDLEDYVSR 116
+I ATNR D +DPA+LRPGRLD+ I PLPD + + + + NL + +VDLE
Sbjct: 619 IIGATNRPDIIDPAILRPGRLDQLIYIPLPDEKSRVAILKANLRKSPVAKDVDLEFLAKM 678
Query: 117 PDKISAAEIAAICQEA 132
+ S A++ ICQ A
Sbjct: 679 TNGFSGADLTEICQRA 694
>pdb|1R7R|A Chain A, The Crystal Structure Of Murine P97VCP AT 3.6A
Length = 816
Score = 108 bits (269), Expect = 2e-24, Method: Compositional matrix adjust.
Identities = 61/143 (42%), Positives = 87/143 (60%), Gaps = 8/143 (5%)
Query: 2 VRDVFRLAKENAPAIIFIDEVDAIATARFDAQTGADREVQRILMELLNQMDGFDQTVNVK 61
+R F A++NAPAIIFIDE+DAIA R +R RI+ +LL MDG Q +V
Sbjct: 286 LRKAFEEAEKNAPAIIFIDELDAIAPKREKTHGEVER---RIVSQLLTLMDGLKQRAHVI 342
Query: 62 VIMATNRADTLDPALLRPGRLDRKIEFPLPDRRQKRLVFQ-----MNLSDEVDLEDYVSR 116
V+ ATNR +++DPAL R GR DR+++ +PD + + Q M L+D+VDLE +
Sbjct: 343 VMAATNRPNSIDPALRRFGRFDREVDIGIPDATGRLEILQIHTKNMKLADDVDLEQVANE 402
Query: 117 PDKISAAEIAAICQEAGMHAVRK 139
A++AA+C EA + A+RK
Sbjct: 403 THGHVGADLAALCSEAALQAIRK 425
Score = 104 bits (260), Expect = 2e-23, Method: Compositional matrix adjust.
Identities = 54/136 (39%), Positives = 80/136 (58%), Gaps = 5/136 (3%)
Query: 2 VRDVFRLAKENAPAIIFIDEVDAIATARFDAQTGADREVQRILMELLNQMDGFDQTVNVK 61
VR++F A++ AP ++F DE+D+IA AR R++ ++L +MDG NV
Sbjct: 559 VREIFDKARQAAPCVLFFDELDSIAKARGGNIGDGGGAADRVINQILTEMDGMSTKKNVF 618
Query: 62 VIMATNRADTLDPALLRPGRLDRKIEFPLPDRRQKRLVFQMNL-----SDEVDLEDYVSR 116
+I ATNR D +DPA+LRPGRLD+ I PLPD + + + + NL + +VDLE
Sbjct: 619 IIGATNRPDIIDPAILRPGRLDQLIYIPLPDEKSRVAILKANLRKSPVAKDVDLEFLAKM 678
Query: 117 PDKISAAEIAAICQEA 132
+ S A++ ICQ A
Sbjct: 679 TNGFSGADLTEICQRA 694
>pdb|2QZ4|A Chain A, Human Paraplegin, Aaa Domain In Complex With Adp
Length = 262
Score = 107 bits (268), Expect = 2e-24, Method: Compositional matrix adjust.
Identities = 59/157 (37%), Positives = 90/157 (57%), Gaps = 8/157 (5%)
Query: 2 VRDVFRLAKENAPAIIFIDEVDAIATARFDAQTG-ADREVQRILMELLNQMDGFDQTVNV 60
VR +F+ A+ AP I++IDE+DA+ R +G ++ E ++ L +LL +MDG T +V
Sbjct: 87 VRSLFKEARARAPCIVYIDEIDAVGKKRSTTMSGFSNTEEEQTLNQLLVEMDGMGTTDHV 146
Query: 61 KVIMATNRADTLDPALLRPGRLDRKIEFPLPDRRQKRLVFQMNL-------SDEVDLEDY 113
V+ +TNRAD LD AL+RPGRLDR + LP +++R +F+ +L S +
Sbjct: 147 IVLASTNRADILDGALMRPGRLDRHVFIDLPTLQERREIFEQHLKSLKLTQSSTFYSQRL 206
Query: 114 VSRPDKISAAEIAAICQEAGMHAVRKNRYVILPKDFE 150
S A+IA IC EA +HA R+ + +FE
Sbjct: 207 AELTPGFSGADIANICNEAALHAAREGHTSVHTLNFE 243
>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 = 104 bits (259), Expect = 2e-23, Method: Compositional matrix adjust.
Identities = 54/136 (39%), Positives = 80/136 (58%), Gaps = 5/136 (3%)
Query: 2 VRDVFRLAKENAPAIIFIDEVDAIATARFDAQTGADREVQRILMELLNQMDGFDQTVNVK 61
VR++F A++ AP ++F DE+D+IA AR R++ ++L +MDG NV
Sbjct: 97 VREIFDKARQAAPCVLFFDELDSIAKARGGNIGDGGGAADRVINQILTEMDGMSTKKNVF 156
Query: 62 VIMATNRADTLDPALLRPGRLDRKIEFPLPDRRQKRLVFQMNL-----SDEVDLEDYVSR 116
+I ATNR D +DPA+LRPGRLD+ I PLPD + + + + NL + +VDLE
Sbjct: 157 IIGATNRPDIIDPAILRPGRLDQLIYIPLPDEKSRVAILKANLRKSPVAKDVDLEFLAKM 216
Query: 117 PDKISAAEIAAICQEA 132
+ S A++ ICQ A
Sbjct: 217 TNGFSGADLTEICQRA 232
>pdb|1IY2|A Chain A, Crystal Structure Of The Ftsh Atpase Domain From Thermus
Thermophilus
Length = 278
Score = 102 bits (255), Expect = 8e-23, Method: Compositional matrix adjust.
Identities = 61/155 (39%), Positives = 91/155 (58%), Gaps = 5/155 (3%)
Query: 2 VRDVFRLAKENAPAIIFIDEVDAIATARFDAQTGADREVQRILMELLNQMDGFDQTVNVK 61
VRD+F AK +AP I+FIDE+DA+ R G + E ++ L +LL +MDGF++ +
Sbjct: 121 VRDLFETAKRHAPCIVFIDEIDAVGRKRGSGVGGGNDEREQTLNQLLVEMDGFEKDTAIV 180
Query: 62 VIMATNRADTLDPALLRPGRLDRKIEFPLPDRRQKRLVFQMN-----LSDEVDLEDYVSR 116
V+ ATNR D LDPALLRPGR DR+I PD + + + +++ L+++VDL R
Sbjct: 181 VMAATNRPDILDPALLRPGRFDRQIAIDAPDVKGREQILRIHARGKPLAEDVDLALLAKR 240
Query: 117 PDKISAAEIAAICQEAGMHAVRKNRYVILPKDFEK 151
A++ + EA + A R+ R I KD E+
Sbjct: 241 TPGFVGADLENLLNEAALLAAREGRRKITMKDLEE 275
>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 = 102 bits (255), Expect = 8e-23, Method: Compositional matrix adjust.
Identities = 61/155 (39%), Positives = 91/155 (58%), Gaps = 5/155 (3%)
Query: 2 VRDVFRLAKENAPAIIFIDEVDAIATARFDAQTGADREVQRILMELLNQMDGFDQTVNVK 61
VRD+F AK +AP I+FIDE+DA+ R G + E ++ L +LL +MDGF++ +
Sbjct: 121 VRDLFETAKRHAPCIVFIDEIDAVGRKRGSGVGGGNDEREQTLNQLLVEMDGFEKDTAIV 180
Query: 62 VIMATNRADTLDPALLRPGRLDRKIEFPLPDRRQKRLVFQMN-----LSDEVDLEDYVSR 116
V+ ATNR D LDPALLRPGR DR+I PD + + + +++ L+++VDL R
Sbjct: 181 VMAATNRPDILDPALLRPGRFDRQIAIDAPDVKGREQILRIHARGKPLAEDVDLALLAKR 240
Query: 117 PDKISAAEIAAICQEAGMHAVRKNRYVILPKDFEK 151
A++ + EA + A R+ R I KD E+
Sbjct: 241 TPGFVGADLENLLNEAALLAAREGRRKITMKDLEE 275
>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 = 102 bits (255), Expect = 8e-23, Method: Compositional matrix adjust.
Identities = 61/155 (39%), Positives = 91/155 (58%), Gaps = 5/155 (3%)
Query: 2 VRDVFRLAKENAPAIIFIDEVDAIATARFDAQTGADREVQRILMELLNQMDGFDQTVNVK 61
VRD+F AK +AP I+FIDE+DA+ R G + E ++ L +LL +MDGF++ +
Sbjct: 112 VRDLFETAKRHAPCIVFIDEIDAVGRKRGSGVGGGNDEREQTLNQLLVEMDGFEKDTAIV 171
Query: 62 VIMATNRADTLDPALLRPGRLDRKIEFPLPDRRQKRLVFQMN-----LSDEVDLEDYVSR 116
V+ ATNR D LDPALLRPGR DR+I PD + + + +++ L+++VDL R
Sbjct: 172 VMAATNRPDILDPALLRPGRFDRQIAIDAPDVKGREQILRIHARGKPLAEDVDLALLAKR 231
Query: 117 PDKISAAEIAAICQEAGMHAVRKNRYVILPKDFEK 151
A++ + EA + A R+ R I KD E+
Sbjct: 232 TPGFVGADLENLLNEAALLAAREGRRKITMKDLEE 266
>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 = 102 bits (254), Expect = 9e-23, Method: Compositional matrix adjust.
Identities = 61/155 (39%), Positives = 91/155 (58%), Gaps = 5/155 (3%)
Query: 2 VRDVFRLAKENAPAIIFIDEVDAIATARFDAQTGADREVQRILMELLNQMDGFDQTVNVK 61
VRD+F AK +AP I+FIDE+DA+ R G + E ++ L +LL +MDGF++ +
Sbjct: 97 VRDLFETAKRHAPCIVFIDEIDAVGRKRGSGVGGGNDEREQTLNQLLVEMDGFEKDTAIV 156
Query: 62 VIMATNRADTLDPALLRPGRLDRKIEFPLPDRRQKRLVFQMN-----LSDEVDLEDYVSR 116
V+ ATNR D LDPALLRPGR DR+I PD + + + +++ L+++VDL R
Sbjct: 157 VMAATNRPDILDPALLRPGRFDRQIAIDAPDVKGREQILRIHARGKPLAEDVDLALLAKR 216
Query: 117 PDKISAAEIAAICQEAGMHAVRKNRYVILPKDFEK 151
A++ + EA + A R+ R I KD E+
Sbjct: 217 TPGFVGADLENLLNEAALLAAREGRRKITMKDLEE 251
>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 = 96.7 bits (239), Expect = 6e-21, Method: Compositional matrix adjust.
Identities = 56/147 (38%), Positives = 89/147 (60%), Gaps = 7/147 (4%)
Query: 2 VRDVFRLAKENAPAIIFIDEVDAIATARFDAQT-GADREVQRILMELLNQMDGF-DQTVN 59
VRD+F AK+ AP+IIFIDE+DAI +R + E ++ L +LL +MDGF +
Sbjct: 92 VRDLFETAKKQAPSIIFIDEIDAIGKSRAAGGVVSGNDEREQTLNQLLAEMDGFGSENAP 151
Query: 60 VKVIMATNRADTLDPALLRPGRLDRKIEFPLPDRRQKRLVFQMN-----LSDEVDLEDYV 114
V V+ ATNR + LDPAL+RPGR DR++ PD + + +++ L+++V+L++
Sbjct: 152 VIVLAATNRPEILDPALMRPGRFDRQVLVDKPDFNGRVEILKVHIKGVKLANDVNLQEVA 211
Query: 115 SRPDKISAAEIAAICQEAGMHAVRKNR 141
++ A++A I EA + A R N+
Sbjct: 212 KLTAGLAGADLANIINEAALLAGRNNQ 238
>pdb|2X8A|A Chain A, Human Nuclear Valosin Containing Protein Like (Nvl), C-
Terminal Aaa-Atpase Domain
Length = 274
Score = 93.2 bits (230), Expect = 6e-20, Method: Compositional matrix adjust.
Identities = 63/184 (34%), Positives = 98/184 (53%), Gaps = 27/184 (14%)
Query: 2 VRDVFRLAKENAPAIIFIDEVDAIATARFDAQTGADREVQRILMELLNQMDGFDQTVNVK 61
VR VF+ AK +AP +IF DEVDA+ R D +TGA R++ +LL +MDG + V
Sbjct: 92 VRQVFQRAKNSAPCVIFFDEVDALCPRRSDRETGAS---VRVVNQLLTEMDGLEARQQVF 148
Query: 62 VIMATNRADTLDPALLRPGRLDRKIEFPLPDRRQKRLVFQM--------NLSDEVDLEDY 113
++ ATNR D +DPA+LRPGRLD+ + LP + + + L +V+LE
Sbjct: 149 IMAATNRPDIIDPAILRPGRLDKTLFVGLPPPADRLAILKTITKNGTKPPLDADVNLEAI 208
Query: 114 VS--RPDKISAAEIAAICQEAGMHAVR-----------KNRYVILPKDFEKGY---RTNV 157
R D + A+++A+ +EA + A+R K + K FE+ + R+++
Sbjct: 209 AGDLRCDCYTGADLSALVREASICALRQEMARQKSGNEKGELKVSHKHFEEAFKKVRSSI 268
Query: 158 KKPD 161
K D
Sbjct: 269 SKKD 272
>pdb|2RKO|A Chain A, Crystal Structure Of The Vps4p-Dimer
Length = 331
Score = 84.7 bits (208), Expect = 2e-17, Method: Compositional matrix adjust.
Identities = 55/146 (37%), Positives = 86/146 (58%), Gaps = 12/146 (8%)
Query: 1 MVRDVFRLAKENAPAIIFIDEVDAIATARFDAQTGADREVQRILMELLNQMDGF-DQTVN 59
+V+ +F +A+EN P+IIFIDEVDA+ R + ++ A R RI ELL QM+G + +
Sbjct: 107 LVKQLFAMARENKPSIIFIDEVDALTGTRGEGESEASR---RIKTELLVQMNGVGNDSQG 163
Query: 60 VKVIMATNRADTLDPALLRPGRLDRKIEFPLPDRRQKRLVFQMNLSDE---VDLEDY--- 113
V V+ ATN LD A+ R R +R+I PLPD + +F++N+ D + EDY
Sbjct: 164 VLVLGATNIPWQLDSAIRR--RFERRIYIPLPDLAARTTMFEINVGDTPCVLTKEDYRTL 221
Query: 114 VSRPDKISAAEIAAICQEAGMHAVRK 139
+ + S ++IA + ++A M +RK
Sbjct: 222 GAMTEGYSGSDIAVVVKDALMQPIRK 247
>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 = 84.3 bits (207), Expect = 3e-17, Method: Compositional matrix adjust.
Identities = 54/146 (36%), Positives = 86/146 (58%), Gaps = 12/146 (8%)
Query: 1 MVRDVFRLAKENAPAIIFIDEVDAIATARFDAQTGADREVQRILMELLNQMDGF-DQTVN 59
+V+ +F +A+EN P+IIFID+VDA+ R + ++ A R RI ELL QM+G + +
Sbjct: 131 LVKQLFAMARENKPSIIFIDQVDALTGTRGEGESEASR---RIKTELLVQMNGVGNDSQG 187
Query: 60 VKVIMATNRADTLDPALLRPGRLDRKIEFPLPDRRQKRLVFQMNLSDEVDL---EDY--- 113
V V+ ATN LD A+ R R +R+I PLPD + +F++N+ D + EDY
Sbjct: 188 VLVLGATNIPWQLDSAIRR--RFERRIYIPLPDLAARTTMFEINVGDTPSVLTKEDYRTL 245
Query: 114 VSRPDKISAAEIAAICQEAGMHAVRK 139
+ + S ++IA + ++A M +RK
Sbjct: 246 GAMTEGYSGSDIAVVVKDALMQPIRK 271
>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 = 83.6 bits (205), Expect = 5e-17, Method: Compositional matrix adjust.
Identities = 54/146 (36%), Positives = 86/146 (58%), Gaps = 12/146 (8%)
Query: 1 MVRDVFRLAKENAPAIIFIDEVDAIATARFDAQTGADREVQRILMELLNQMDGF-DQTVN 59
+V+ +F +A+EN P+IIFID+VDA+ R + ++ A R RI ELL QM+G + +
Sbjct: 116 LVKQLFAMARENKPSIIFIDQVDALTGTRGEGESEASR---RIKTELLVQMNGVGNDSQG 172
Query: 60 VKVIMATNRADTLDPALLRPGRLDRKIEFPLPDRRQKRLVFQMNLSDE---VDLEDY--- 113
V V+ ATN LD A+ R R +R+I PLPD + +F++N+ D + EDY
Sbjct: 173 VLVLGATNIPWQLDSAIRR--RFERRIYIPLPDLAARTTMFEINVGDTPCVLTKEDYRTL 230
Query: 114 VSRPDKISAAEIAAICQEAGMHAVRK 139
+ + S ++IA + ++A M +RK
Sbjct: 231 GAMTEGYSGSDIAVVVKDALMQPIRK 256
>pdb|3EIE|A Chain A, Crystal Structure Of S.Cerevisiae Vps4 In The So4-Bound
State
Length = 322
Score = 83.2 bits (204), Expect = 6e-17, Method: Compositional matrix adjust.
Identities = 54/146 (36%), Positives = 86/146 (58%), Gaps = 12/146 (8%)
Query: 1 MVRDVFRLAKENAPAIIFIDEVDAIATARFDAQTGADREVQRILMELLNQMDGF-DQTVN 59
+V+ +F +A+EN P+IIFID+VDA+ R + ++ A R RI ELL QM+G + +
Sbjct: 98 LVKQLFAMARENKPSIIFIDQVDALTGTRGEGESEASR---RIKTELLVQMNGVGNDSQG 154
Query: 60 VKVIMATNRADTLDPALLRPGRLDRKIEFPLPDRRQKRLVFQMNLSDE---VDLEDY--- 113
V V+ ATN LD A+ R R +R+I PLPD + +F++N+ D + EDY
Sbjct: 155 VLVLGATNIPWQLDSAIRR--RFERRIYIPLPDLAARTTMFEINVGDTPCVLTKEDYRTL 212
Query: 114 VSRPDKISAAEIAAICQEAGMHAVRK 139
+ + S ++IA + ++A M +RK
Sbjct: 213 GAMTEGYSGSDIAVVVKDALMQPIRK 238
>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 = 80.9 bits (198), Expect = 3e-16, Method: Compositional matrix adjust.
Identities = 51/146 (34%), Positives = 84/146 (57%), Gaps = 12/146 (8%)
Query: 1 MVRDVFRLAKENAPAIIFIDEVDAIATARFDAQTGADREVQRILMELLNQMDGFD-QTVN 59
+V+++F+LA+EN P+IIFIDE+D++ +R + ++ A R RI E L QM G
Sbjct: 215 LVKNLFQLARENKPSIIFIDEIDSLCGSRSENESEAAR---RIKTEFLVQMQGVGVDNDG 271
Query: 60 VKVIMATNRADTLDPALLRPGRLDRKIEFPLPDRRQKRLVFQMNLSD------EVDLEDY 113
+ V+ ATN LD A+ R R +++I PLP+ + +F+++L E D ++
Sbjct: 272 ILVLGATNIPWVLDSAIRR--RFEKRIYIPLPEAHARAAMFRLHLGSTQNSLTEADFQEL 329
Query: 114 VSRPDKISAAEIAAICQEAGMHAVRK 139
+ D S A+I+ I ++A M VRK
Sbjct: 330 GRKTDGYSGADISIIVRDALMQPVRK 355
>pdb|1XWI|A Chain A, Crystal Structure Of Vps4b
Length = 322
Score = 79.3 bits (194), Expect = 8e-16, Method: Compositional matrix adjust.
Identities = 51/146 (34%), Positives = 83/146 (56%), Gaps = 12/146 (8%)
Query: 1 MVRDVFRLAKENAPAIIFIDEVDAIATARFDAQTGADREVQRILMELLNQMDGFD-QTVN 59
+V+++F+LA+EN P+IIFIDE+D++ +R + ++ A R RI E L QM G
Sbjct: 93 LVKNLFQLARENKPSIIFIDEIDSLCGSRSENESEAAR---RIKTEFLVQMQGVGVDNDG 149
Query: 60 VKVIMATNRADTLDPALLRPGRLDRKIEFPLPDRRQKRLVFQMNLS------DEVDLEDY 113
+ V+ ATN LD A+ R R +++I PLP+ + +F+++L E D +
Sbjct: 150 ILVLGATNIPWVLDSAIRR--RFEKRIYIPLPEPHARAAMFKLHLGTTQNSLTEADFREL 207
Query: 114 VSRPDKISAAEIAAICQEAGMHAVRK 139
+ D S A+I+ I ++A M VRK
Sbjct: 208 GRKTDGYSGADISIIVRDALMQPVRK 233
>pdb|2DZN|B Chain B, Crystal Structure Analysis Of Yeast Nas6p Complexed With
The Proteasome Subunit, Rpt3
pdb|2DZN|D Chain D, Crystal Structure Analysis Of Yeast Nas6p Complexed With
The Proteasome Subunit, Rpt3
pdb|2DZN|F Chain F, Crystal Structure Analysis Of Yeast Nas6p Complexed With
The Proteasome Subunit, Rpt3
pdb|2DZO|B Chain B, Crystal Structure Analysis Of Yeast Nas6p Complexed With
The Proteasome Subunit, Rpt3
pdb|2DZO|D Chain D, Crystal Structure Analysis Of Yeast Nas6p Complexed With
The Proteasome Subunit, Rpt3
Length = 82
Score = 77.0 bits (188), Expect = 4e-15, Method: Compositional matrix adjust.
Identities = 41/81 (50%), Positives = 54/81 (66%), Gaps = 7/81 (8%)
Query: 95 QKRLVF-----QMNLSDEVDLEDYVSRPDKISAAEIAAICQEAGMHAVRKNRYVILPKDF 149
++RL+F +M+L+ E DL+ + R D +S A IAAI QEAG+ AVRKNRYVIL D
Sbjct: 2 ERRLIFGTIASKMSLAPEADLDSLIIRNDSLSGAVIAAIMQEAGLRAVRKNRYVILQSDL 61
Query: 150 EKGYRTNVKKPDT--DFEFYK 168
E+ Y T VK +T F+FYK
Sbjct: 62 EEAYATQVKTDNTVDKFDFYK 82
>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 = 76.3 bits (186), Expect = 7e-15, Method: Compositional matrix adjust.
Identities = 60/192 (31%), Positives = 96/192 (50%), Gaps = 32/192 (16%)
Query: 1 MVRDVFRLAKENAPAIIFIDEVDAIATARFDAQTGADREVQRILMELLNQMDGFDQTVN- 59
MVR +F +A+ PA+IFIDE+D++ + R D + + R RI E L Q+DG +
Sbjct: 164 MVRALFAVARCQQPAVIFIDEIDSLLSQRGDGEHESSR---RIKTEFLVQLDGATTSSED 220
Query: 60 -VKVIMATNRADTLDPALLRPGRLDRKIEFPLPDRRQKRLVF-------QMNLSDEVDLE 111
+ V+ ATNR +D A R RL +++ PLP+ ++ + Q LS+E ++E
Sbjct: 221 RILVVGATNRPQEIDEAARR--RLVKRLYIPLPEASARKQIVINLMSKEQCCLSEE-EIE 277
Query: 112 DYVSRPDKISAAEIAAICQEAGMHAVRKNRY----VILPK--------DFEKGYRTNVKK 159
V + D S A++ +C+EA + +R + I P DFE +RT +
Sbjct: 278 QIVQQSDAFSGADMTQLCREASLGPIRSLQTADIATITPDQVRPIAYIDFENAFRT--VR 335
Query: 160 PDT---DFEFYK 168
P D E Y+
Sbjct: 336 PSVSPKDLELYE 347
>pdb|3VFD|A Chain A, Human Spastin Aaa Domain
Length = 389
Score = 54.7 bits (130), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 43/147 (29%), Positives = 76/147 (51%), Gaps = 13/147 (8%)
Query: 1 MVRDVFRLAKENAPAIIFIDEVDAIATARFDAQTGADREVQRILMELLNQMDGFDQTVN- 59
+VR +F +A+E P+IIFID+VD++ R + + A R R+ E L + DG +
Sbjct: 195 LVRALFAVARELQPSIIFIDQVDSLLCERREGEHDASR---RLKTEFLIEFDGVQSAGDD 251
Query: 60 -VKVIMATNRADTLDPALLRPGRLDRKIEFPLPDRRQKRLVF------QMNLSDEVDLED 112
V V+ ATNR LD A+LR R +++ LP+ + L+ Q + + +L
Sbjct: 252 RVLVMGATNRPQELDEAVLR--RFIKRVYVSLPNEETRLLLLKNLLCKQGSPLTQKELAQ 309
Query: 113 YVSRPDKISAAEIAAICQEAGMHAVRK 139
D S +++ A+ ++A + +R+
Sbjct: 310 LARMTDGYSGSDLTALAKDAALGPIRE 336
>pdb|3B9P|A Chain A, Spastin
Length = 297
Score = 53.5 bits (127), Expect = 5e-08, Method: Compositional matrix adjust.
Identities = 44/148 (29%), Positives = 75/148 (50%), Gaps = 14/148 (9%)
Query: 1 MVRDVFRLAKENAPAIIFIDEVDAIATARFDAQTGADREVQRILMELLNQMDGFDQTVN- 59
+VR +F +A+ P+IIFIDEVD++ + R ++ A R R+ E L + DG +
Sbjct: 101 LVRALFAVARHMQPSIIFIDEVDSLLSERSSSEHEASR---RLKTEFLVEFDGLPGNPDG 157
Query: 60 --VKVIMATNRADTLDPALLRPGRLDRKIEFPLPDRRQKRLVF------QMNLSDEVDLE 111
+ V+ ATNR LD A LR R +++ LPD + + L+ Q + D L
Sbjct: 158 DRIVVLAATNRPQELDEAALR--RFTKRVYVSLPDEQTRELLLNRLLQKQGSPLDTEALR 215
Query: 112 DYVSRPDKISAAEIAAICQEAGMHAVRK 139
D S +++ A+ ++A + +R+
Sbjct: 216 RLAKITDGYSGSDLTALAKDAALEPIRE 243
>pdb|2KRK|A Chain A, Solution Nmr Structure Of 26s Protease Regulatory Subunit
8 From H.Sapiens, Northeast Structural Genomics
Consortium Target Target Hr3102a
Length = 86
Score = 40.8 bits (94), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 18/50 (36%), Positives = 29/50 (58%)
Query: 101 QMNLSDEVDLEDYVSRPDKISAAEIAAICQEAGMHAVRKNRYVILPKDFE 150
+MNL+ ++L S AE+ +C EAGM+A+R+ R + +DFE
Sbjct: 26 KMNLTRGINLRKIAELMPGASGAEVKGVCTEAGMYALRERRVHVTQEDFE 75
>pdb|3KW6|A Chain A, Crystal Structure Of A Domain Of 26s Proteasome Regulatory
Subunit 8 From Homo Sapiens. Northeast Structural
Genomics Consortium Target Id Hr3102a
Length = 78
Score = 35.8 bits (81), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 16/50 (32%), Positives = 27/50 (54%)
Query: 101 QMNLSDEVDLEDYVSRPDKISAAEIAAICQEAGMHAVRKNRYVILPKDFE 150
+ NL+ ++L S AE+ +C EAG +A+R+ R + +DFE
Sbjct: 18 KXNLTRGINLRKIAELXPGASGAEVKGVCTEAGXYALRERRVHVTQEDFE 67
>pdb|4A3V|B Chain B, Yeast Regulatory Particle Proteasome Assembly Chaperone
Hsm3 In Complex With Rpt1 C-Terminal Fragment
pdb|4A3V|D Chain D, Yeast Regulatory Particle Proteasome Assembly Chaperone
Hsm3 In Complex With Rpt1 C-Terminal Fragment
Length = 95
Score = 35.4 bits (80), Expect = 0.014, Method: Compositional matrix adjust.
Identities = 24/69 (34%), Positives = 39/69 (56%), Gaps = 9/69 (13%)
Query: 90 LPDRRQKRLVFQMNLSDEVDLE-----DYVSR--PDKISAAEIAAICQEAGMHAVRKNRY 142
LPD + +F+++ S + +E + +SR P+ + AE+ ++C EAGM A+R R
Sbjct: 7 LPDLEGRANIFRIH-SKSMSVERGIRWELISRLCPNS-TGAELRSVCTEAGMFAIRARRK 64
Query: 143 VILPKDFEK 151
V KDF K
Sbjct: 65 VATEKDFLK 73
>pdb|3VLF|B Chain B, Crystal Structure Of Yeast Proteasome Interacting Protein
pdb|3VLF|D Chain D, Crystal Structure Of Yeast Proteasome Interacting Protein
Length = 88
Score = 32.0 bits (71), Expect = 0.18, Method: Compositional matrix adjust.
Identities = 14/31 (45%), Positives = 19/31 (61%)
Query: 121 SAAEIAAICQEAGMHAVRKNRYVILPKDFEK 151
+ AE+ ++C EAG A+R R V KDF K
Sbjct: 36 TGAELRSVCTEAGXFAIRARRKVATEKDFLK 66
>pdb|1F89|A Chain A, Crystal Structure Of Saccharomyces Cerevisiae Nit3, A
Member Of Branch 10 Of The Nitrilase Superfamily
pdb|1F89|B Chain B, Crystal Structure Of Saccharomyces Cerevisiae Nit3, A
Member Of Branch 10 Of The Nitrilase Superfamily
Length = 291
Score = 27.7 bits (60), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 19/62 (30%), Positives = 27/62 (43%), Gaps = 10/62 (16%)
Query: 115 SRPDKISAAEIAAICQEAGMHAVRKNRYVILPKDFEKGYRT----------NVKKPDTDF 164
S PDK++ + AA E M + V+LP+ F Y T N K+P T
Sbjct: 21 SSPDKMANLQRAATFIERAMKEQPDTKLVVLPECFNSPYSTDQFRKYSEVINPKEPSTSV 80
Query: 165 EF 166
+F
Sbjct: 81 QF 82
>pdb|3T15|A Chain A, Structure Of Green-Type Rubisco Activase From Tobacco
pdb|3ZW6|A Chain A, Model Of Hexameric Aaa Domain Arrangement Of Green-Type
Rubisco Activase From Tobacco.
pdb|3ZW6|B Chain B, Model Of Hexameric Aaa Domain Arrangement Of Green-Type
Rubisco Activase From Tobacco.
pdb|3ZW6|C Chain C, Model Of Hexameric Aaa Domain Arrangement Of Green-Type
Rubisco Activase From Tobacco.
pdb|3ZW6|D Chain D, Model Of Hexameric Aaa Domain Arrangement Of Green-Type
Rubisco Activase From Tobacco.
pdb|3ZW6|E Chain E, Model Of Hexameric Aaa Domain Arrangement Of Green-Type
Rubisco Activase From Tobacco.
pdb|3ZW6|F Chain F, Model Of Hexameric Aaa Domain Arrangement Of Green-Type
Rubisco Activase From Tobacco
Length = 293
Score = 26.9 bits (58), Expect = 6.1, Method: Compositional matrix adjust.
Identities = 32/136 (23%), Positives = 54/136 (39%), Gaps = 17/136 (12%)
Query: 3 RDVFRLAKENAPAIIFIDEVDAIATARFDAQTGADREVQRILMELLN--------QMDGF 54
R+ + ++ +FI+++DA A R T Q + L+N Q+ G
Sbjct: 89 REAAEIIRKGNMCCLFINDLDAGA-GRMGGTTQYTVNNQMVNATLMNIADNPTNVQLPGM 147
Query: 55 ---DQTVNVKVIMATNRADTLDPALLRPGRLDRKIEFPLPDRRQKRLVFQMNL--SDEVD 109
+ V +I+ N TL L+R GR+++ F R+ R+ + +D V
Sbjct: 148 YNKQENARVPIIVTGNDFSTLYAPLIRDGRMEK---FYWAPTREDRIGVCTGIFRTDNVP 204
Query: 110 LEDYVSRPDKISAAEI 125
ED V D I
Sbjct: 205 AEDVVKIVDNFPGQSI 220
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
0.322 0.138 0.389
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,643,579
Number of Sequences: 62578
Number of extensions: 168267
Number of successful extensions: 437
Number of sequences better than 100.0: 43
Number of HSP's better than 100.0 without gapping: 42
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 357
Number of HSP's gapped (non-prelim): 45
length of query: 168
length of database: 14,973,337
effective HSP length: 92
effective length of query: 76
effective length of database: 9,216,161
effective search space: 700428236
effective search space used: 700428236
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 48 (23.1 bits)