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= 007208
(613 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3VFD|A Chain A, Human Spastin Aaa Domain
Length = 389
Score = 62.4 bits (150), Expect = 8e-10, Method: Compositional matrix adjust.
Identities = 33/70 (47%), Positives = 44/70 (62%), Gaps = 2/70 (2%)
Query: 504 DNEFEKRIRPEVIPSNEISVTFADIGALEEIKESLQELVMLPLRRPDLFKGGLLKPCRGI 563
D+ I E++ N +V F DI + K++LQE+V+LP RP+LF GL P RG+
Sbjct: 94 DSNLANLIMNEIV-DNGTAVKFDDIAGQDLAKQALQEIVILPSLRPELFT-GLRAPARGL 151
Query: 564 LLFGPPGLGK 573
LLFGPPG GK
Sbjct: 152 LLFGPPGNGK 161
>pdb|4B4T|L Chain L, Near-Atomic Resolution Structural Model Of The Yeast 26s
Proteasome
Length = 437
Score = 61.2 bits (147), Expect = 2e-09, Method: Compositional matrix adjust.
Identities = 27/71 (38%), Positives = 43/71 (60%)
Query: 523 VTFADIGALEEIKESLQELVMLPLRRPDLFKGGLLKPCRGILLFGPPGLGKQCWPRPLPK 582
+TF IG L E L+E++ LPL+ P++F+ +KP +G+LL+GPPG GK + +
Sbjct: 178 ITFDGIGGLTEQIRELREVIELPLKNPEIFQRVGIKPPKGVLLYGPPGTGKTLLAKAVAA 237
Query: 583 RLGQASLMSPC 593
+G + SP
Sbjct: 238 TIGANFIFSPA 248
>pdb|1R7R|A Chain A, The Crystal Structure Of Murine P97VCP AT 3.6A
Length = 816
Score = 60.8 bits (146), Expect = 2e-09, Method: Compositional matrix adjust.
Identities = 31/75 (41%), Positives = 43/75 (57%), Gaps = 1/75 (1%)
Query: 523 VTFADIGALEEIKESLQELVMLPLRRPDLFKGGLLKPCRGILLFGPPGLGKQCWPRPLPK 582
VT+ DIG LE++K LQELV P+ PD F + P +G+L +GPPG GK + +
Sbjct: 474 VTWEDIGGLEDVKRELQELVQYPVEHPDKFLKFGMTPSKGVLFYGPPGCGKTLLAKAIAN 533
Query: 583 RLGQASLMSPCLPSL 597
QA+ +S P L
Sbjct: 534 EC-QANFISIKGPEL 547
Score = 57.8 bits (138), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 28/63 (44%), Positives = 37/63 (58%)
Query: 523 VTFADIGALEEIKESLQELVMLPLRRPDLFKGGLLKPCRGILLFGPPGLGKQCWPRPLPK 582
V + D+G + ++E+V LPLR P LFK +KP RGILL+GPPG GK R +
Sbjct: 201 VGYDDVGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVAN 260
Query: 583 RLG 585
G
Sbjct: 261 ETG 263
>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 = 60.8 bits (146), Expect = 2e-09, Method: Compositional matrix adjust.
Identities = 31/75 (41%), Positives = 43/75 (57%), Gaps = 1/75 (1%)
Query: 523 VTFADIGALEEIKESLQELVMLPLRRPDLFKGGLLKPCRGILLFGPPGLGKQCWPRPLPK 582
VT+ DIG LE++K LQELV P+ PD F + P +G+L +GPPG GK + +
Sbjct: 474 VTWEDIGGLEDVKRELQELVQYPVEHPDKFLKFGMTPSKGVLFYGPPGCGKTLLAKAIAN 533
Query: 583 RLGQASLMSPCLPSL 597
QA+ +S P L
Sbjct: 534 EC-QANFISIKGPEL 547
Score = 58.5 bits (140), Expect = 1e-08, Method: Compositional matrix adjust.
Identities = 29/63 (46%), Positives = 37/63 (58%)
Query: 523 VTFADIGALEEIKESLQELVMLPLRRPDLFKGGLLKPCRGILLFGPPGLGKQCWPRPLPK 582
V + DIG + ++E+V LPLR P LFK +KP RGILL+GPPG GK R +
Sbjct: 201 VGYDDIGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVAN 260
Query: 583 RLG 585
G
Sbjct: 261 ETG 263
>pdb|2X8A|A Chain A, Human Nuclear Valosin Containing Protein Like (Nvl), C-
Terminal Aaa-Atpase Domain
Length = 274
Score = 60.1 bits (144), Expect = 3e-09, Method: Compositional matrix adjust.
Identities = 30/53 (56%), Positives = 39/53 (73%), Gaps = 2/53 (3%)
Query: 522 SVTFADIGALEEIKESLQELVMLPLRRPDLFKG-GLLKPCRGILLFGPPGLGK 573
+VT+ADIGALE+I+E L ++ P+R PD FK GL+ P G+LL GPPG GK
Sbjct: 6 NVTWADIGALEDIREELTMAILAPVRNPDQFKALGLVTPA-GVLLAGPPGCGK 57
>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 = 60.1 bits (144), Expect = 4e-09, Method: Compositional matrix adjust.
Identities = 30/59 (50%), Positives = 40/59 (67%), Gaps = 1/59 (1%)
Query: 515 VIPSNEISVTFADIGALEEIKESLQELVMLPLRRPDLFKGGLLKPCRGILLFGPPGLGK 573
I S + +V + D+ LE KE+L+E V+LP++ P LFKG KP GILL+GPPG GK
Sbjct: 40 AILSEKPNVKWEDVAGLEGAKEALKEAVILPVKFPHLFKGN-RKPTSGILLYGPPGTGK 97
>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 = 59.7 bits (143), Expect = 4e-09, Method: Compositional matrix adjust.
Identities = 31/75 (41%), Positives = 43/75 (57%), Gaps = 1/75 (1%)
Query: 523 VTFADIGALEEIKESLQELVMLPLRRPDLFKGGLLKPCRGILLFGPPGLGKQCWPRPLPK 582
VT+ DIG LE++K LQELV P+ PD F + P +G+L +GPPG GK + +
Sbjct: 12 VTWEDIGGLEDVKRELQELVQYPVEHPDKFLKFGMTPSKGVLFYGPPGCGKTLLAKAIAN 71
Query: 583 RLGQASLMSPCLPSL 597
QA+ +S P L
Sbjct: 72 EC-QANFISIKGPEL 85
>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 = 59.3 bits (142), Expect = 6e-09, Method: Compositional matrix adjust.
Identities = 30/59 (50%), Positives = 40/59 (67%), Gaps = 1/59 (1%)
Query: 515 VIPSNEISVTFADIGALEEIKESLQELVMLPLRRPDLFKGGLLKPCRGILLFGPPGLGK 573
I S + +V + D+ LE KE+L+E V+LP++ P LFKG KP GILL+GPPG GK
Sbjct: 25 AILSEKPNVKWEDVAGLEGAKEALKEAVILPVKFPHLFKGN-RKPTSGILLYGPPGTGK 82
>pdb|3EIE|A Chain A, Crystal Structure Of S.Cerevisiae Vps4 In The So4-Bound
State
Length = 322
Score = 59.3 bits (142), Expect = 6e-09, Method: Compositional matrix adjust.
Identities = 30/59 (50%), Positives = 40/59 (67%), Gaps = 1/59 (1%)
Query: 515 VIPSNEISVTFADIGALEEIKESLQELVMLPLRRPDLFKGGLLKPCRGILLFGPPGLGK 573
I S + +V + D+ LE KE+L+E V+LP++ P LFKG KP GILL+GPPG GK
Sbjct: 7 AILSEKPNVKWEDVAGLEGAKEALKEAVILPVKFPHLFKGN-RKPTSGILLYGPPGTGK 64
>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 = 59.3 bits (142), Expect = 6e-09, Method: Compositional matrix adjust.
Identities = 28/52 (53%), Positives = 37/52 (71%), Gaps = 1/52 (1%)
Query: 522 SVTFADIGALEEIKESLQELVMLPLRRPDLFKGGLLKPCRGILLFGPPGLGK 573
+V ++D+ LE KE+L+E V+LP++ P LF G P RGILLFGPPG GK
Sbjct: 130 NVKWSDVAGLEGAKEALKEAVILPIKFPHLFTGK-RTPWRGILLFGPPGTGK 180
>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 = 58.5 bits (140), Expect = 9e-09, Method: Compositional matrix adjust.
Identities = 29/63 (46%), Positives = 37/63 (58%)
Query: 523 VTFADIGALEEIKESLQELVMLPLRRPDLFKGGLLKPCRGILLFGPPGLGKQCWPRPLPK 582
V + DIG + ++E+V LPLR P LFK +KP RGILL+GPPG GK R +
Sbjct: 201 VGYDDIGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVAN 260
Query: 583 RLG 585
G
Sbjct: 261 ETG 263
>pdb|2RKO|A Chain A, Crystal Structure Of The Vps4p-Dimer
Length = 331
Score = 58.5 bits (140), Expect = 9e-09, Method: Compositional matrix adjust.
Identities = 29/56 (51%), Positives = 39/56 (69%), Gaps = 1/56 (1%)
Query: 518 SNEISVTFADIGALEEIKESLQELVMLPLRRPDLFKGGLLKPCRGILLFGPPGLGK 573
S + +V + D+ LE KE+L+E V+LP++ P LFKG KP GILL+GPPG GK
Sbjct: 19 SEKPNVKWEDVAGLEGAKEALKEAVILPVKFPHLFKGN-RKPTSGILLYGPPGTGK 73
>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 = 58.5 bits (140), Expect = 9e-09, Method: Compositional matrix adjust.
Identities = 29/63 (46%), Positives = 37/63 (58%)
Query: 523 VTFADIGALEEIKESLQELVMLPLRRPDLFKGGLLKPCRGILLFGPPGLGKQCWPRPLPK 582
V + DIG + ++E+V LPLR P LFK +KP RGILL+GPPG GK R +
Sbjct: 201 VGYDDIGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVAN 260
Query: 583 RLG 585
G
Sbjct: 261 ETG 263
>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 = 58.5 bits (140), Expect = 1e-08, Method: Compositional matrix adjust.
Identities = 29/63 (46%), Positives = 37/63 (58%)
Query: 523 VTFADIGALEEIKESLQELVMLPLRRPDLFKGGLLKPCRGILLFGPPGLGKQCWPRPLPK 582
V + DIG + ++E+V LPLR P LFK +KP RGILL+GPPG GK R +
Sbjct: 201 VGYDDIGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVAN 260
Query: 583 RLG 585
G
Sbjct: 261 ETG 263
>pdb|1XWI|A Chain A, Crystal Structure Of Vps4b
Length = 322
Score = 58.5 bits (140), Expect = 1e-08, Method: Compositional matrix adjust.
Identities = 28/52 (53%), Positives = 37/52 (71%), Gaps = 1/52 (1%)
Query: 522 SVTFADIGALEEIKESLQELVMLPLRRPDLFKGGLLKPCRGILLFGPPGLGK 573
+V ++D+ LE KE+L+E V+LP++ P LF G P RGILLFGPPG GK
Sbjct: 8 NVKWSDVAGLEGAKEALKEAVILPIKFPHLFTGK-RTPWRGILLFGPPGTGK 58
>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 = 58.2 bits (139), Expect = 1e-08, Method: Compositional matrix adjust.
Identities = 28/63 (44%), Positives = 37/63 (58%)
Query: 523 VTFADIGALEEIKESLQELVMLPLRRPDLFKGGLLKPCRGILLFGPPGLGKQCWPRPLPK 582
V + D+G + ++E+V LPLR P LFK +KP RGILL+GPPG GK R +
Sbjct: 201 VGYDDVGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVAN 260
Query: 583 RLG 585
G
Sbjct: 261 ETG 263
>pdb|3B9P|A Chain A, Spastin
Length = 297
Score = 57.0 bits (136), Expect = 3e-08, Method: Compositional matrix adjust.
Identities = 28/58 (48%), Positives = 38/58 (65%), Gaps = 1/58 (1%)
Query: 523 VTFADIGALEEIKESLQELVMLPLRRPDLFKGGLLKPCRGILLFGPPGLGKQCWPRPL 580
V + DI + K++LQE+V+LP RP+LF GL P +G+LLFGPPG GK R +
Sbjct: 18 VEWTDIAGQDVAKQALQEMVILPSVRPELFT-GLRAPAKGLLLFGPPGNGKTLLARAV 74
>pdb|4B4T|K Chain K, Near-Atomic Resolution Structural Model Of The Yeast 26s
Proteasome
Length = 428
Score = 57.0 bits (136), Expect = 3e-08, Method: Compositional matrix adjust.
Identities = 25/51 (49%), Positives = 37/51 (72%)
Query: 523 VTFADIGALEEIKESLQELVMLPLRRPDLFKGGLLKPCRGILLFGPPGLGK 573
VT+AD+G L+ K+ ++E V LPL + DL++ + P RG+LL+GPPG GK
Sbjct: 169 VTYADVGGLDMQKQEIREAVELPLVQADLYEQIGIDPPRGVLLYGPPGTGK 219
>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 = 56.2 bits (134), Expect = 6e-08, Method: Compositional matrix adjust.
Identities = 25/59 (42%), Positives = 41/59 (69%)
Query: 522 SVTFADIGALEEIKESLQELVMLPLRRPDLFKGGLLKPCRGILLFGPPGLGKQCWPRPL 580
+V + DIG LE+ + ++E+V LPL+ P+LF+ ++P +GILL+GPPG GK + +
Sbjct: 13 NVRYEDIGGLEKQMQEIREVVELPLKHPELFEKVGIEPPKGILLYGPPGTGKTLLAKAV 71
>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 = 56.2 bits (134), Expect = 6e-08, Method: Compositional matrix adjust.
Identities = 26/51 (50%), Positives = 36/51 (70%), Gaps = 1/51 (1%)
Query: 523 VTFADIGALEEIKESLQELVMLPLRRPDLFKGGLLKPCRGILLFGPPGLGK 573
V + DI +E K +++E+V+ P+ RPD+F GL P +GILLFGPPG GK
Sbjct: 81 VNWEDIAGVEFAKATIKEIVVWPMLRPDIFT-GLRGPPKGILLFGPPGTGK 130
>pdb|4B4T|M Chain M, Near-Atomic Resolution Structural Model Of The Yeast 26s
Proteasome
Length = 434
Score = 55.1 bits (131), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 28/93 (30%), Positives = 50/93 (53%), Gaps = 2/93 (2%)
Query: 505 NEFEKRIRPEVIPSNEISVTFADIGALEEIKESLQELVMLPLRRPDLFKGGLLKPCRGIL 564
+EF+ R++ + T++D+G L++ E L E ++LP++R D FK ++ +G L
Sbjct: 161 SEFDSRVKAMEVDEKPTE-TYSDVGGLDKQIEELVEAIVLPMKRADKFKDMGIRAPKGAL 219
Query: 565 LFGPPGLGKQCWPRPLPKRLGQASLMSPCLPSL 597
++GPPG GK R + A+ + P L
Sbjct: 220 MYGPPGTGKTLLARACAAQTN-ATFLKLAAPQL 251
>pdb|4B4T|H Chain H, Near-Atomic Resolution Structural Model Of The Yeast 26s
Proteasome
Length = 467
Score = 53.9 bits (128), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 26/61 (42%), Positives = 38/61 (62%)
Query: 523 VTFADIGALEEIKESLQELVMLPLRRPDLFKGGLLKPCRGILLFGPPGLGKQCWPRPLPK 582
VT++D+G ++ E L+E+V LPL P+ F + P +GILL+GPPG GK R +
Sbjct: 206 VTYSDVGGCKDQIEKLREVVELPLLSPERFATLGIDPPKGILLYGPPGTGKTLCARAVAN 265
Query: 583 R 583
R
Sbjct: 266 R 266
>pdb|4B4T|I Chain I, Near-Atomic Resolution Structural Model Of The Yeast 26s
Proteasome
Length = 437
Score = 48.5 bits (114), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 21/55 (38%), Positives = 36/55 (65%)
Query: 524 TFADIGALEEIKESLQELVMLPLRRPDLFKGGLLKPCRGILLFGPPGLGKQCWPR 578
+++DIG LE + ++E V LPL P+L++ +KP +G++L+G PG GK +
Sbjct: 180 SYSDIGGLESQIQEIKESVELPLTHPELYEEMGIKPPKGVILYGAPGTGKTLLAK 234
>pdb|4B4T|J Chain J, Near-Atomic Resolution Structural Model Of The Yeast 26s
Proteasome
Length = 405
Score = 46.2 bits (108), Expect = 6e-05, Method: Compositional matrix adjust.
Identities = 20/58 (34%), Positives = 39/58 (67%), Gaps = 2/58 (3%)
Query: 524 TFADIGALEEIKESLQELVMLPLRRPDLFKG-GLLKPCRGILLFGPPGLGKQCWPRPL 580
T+ +G L + + ++E++ LP++ P+LF+ G+ +P +G++L+GPPG GK R +
Sbjct: 146 TYDMVGGLTKQIKEIKEVIELPVKHPELFESLGIAQP-KGVILYGPPGTGKTLLARAV 202
>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 = 45.8 bits (107), Expect = 7e-05, Method: Compositional matrix adjust.
Identities = 27/64 (42%), Positives = 34/64 (53%), Gaps = 1/64 (1%)
Query: 517 PSNEISVTFADIGALEEIKESLQELVMLPLRRPDLFKGGLLKPCRGILLFGPPGLGKQCW 576
PS VTF D+G EE E L+E+V L+ P F + +GILL GPPG GK
Sbjct: 7 PSGNKRVTFKDVGGAEEAIEELKEVVEF-LKDPSKFNRIGARMPKGILLVGPPGTGKTLL 65
Query: 577 PRPL 580
R +
Sbjct: 66 ARAV 69
>pdb|1LV7|A Chain A, Crystal Structure Of The Aaa Domain Of Ftsh
Length = 257
Score = 43.9 bits (102), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 26/68 (38%), Positives = 39/68 (57%), Gaps = 5/68 (7%)
Query: 515 VIPSNEISVTFADIGALEEIKESLQELVMLPLRRPDLFK--GGLLKPCRGILLFGPPGLG 572
++ ++I TFAD+ +E KE + ELV LR P F+ GG K +G+L+ GPPG G
Sbjct: 1 MLTEDQIKTTFADVAGCDEAKEEVAELVEY-LREPSRFQKLGG--KIPKGVLMVGPPGTG 57
Query: 573 KQCWPRPL 580
K + +
Sbjct: 58 KTLLAKAI 65
>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 = 43.9 bits (102), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 26/64 (40%), Positives = 33/64 (51%), Gaps = 1/64 (1%)
Query: 517 PSNEISVTFADIGALEEIKESLQELVMLPLRRPDLFKGGLLKPCRGILLFGPPGLGKQCW 576
PS VTF D+G EE E L+E+V L+ P F + +GILL GPPG G
Sbjct: 7 PSGNKRVTFKDVGGAEEAIEELKEVVEF-LKDPSKFNRIGARMPKGILLVGPPGTGATLL 65
Query: 577 PRPL 580
R +
Sbjct: 66 ARAV 69
>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 = 0.036, Method: Compositional matrix adjust.
Identities = 21/59 (35%), Positives = 32/59 (54%), Gaps = 1/59 (1%)
Query: 522 SVTFADIGALEEIKESLQELVMLPLRRPDLFKGGLLKPCRGILLFGPPGLGKQCWPRPL 580
+V F D+ EE KE + E+V L+ P+ + K +G+LL GPPG GK + +
Sbjct: 7 NVRFKDMAGNEEAKEEVVEIVDF-LKYPERYANLGAKIPKGVLLVGPPGTGKTLLAKAV 64
>pdb|2QZ4|A Chain A, Human Paraplegin, Aaa Domain In Complex With Adp
Length = 262
Score = 35.4 bits (80), Expect = 0.095, Method: Compositional matrix adjust.
Identities = 20/60 (33%), Positives = 31/60 (51%), Gaps = 1/60 (1%)
Query: 521 ISVTFADIGALEEIKESLQELVMLPLRRPDLFKGGLLKPCRGILLFGPPGLGKQCWPRPL 580
+ V+F D+ + E K ++E V L+ P+ F K +G LL GPPG GK + +
Sbjct: 1 MGVSFKDVAGMHEAKLEVREFVDY-LKSPERFLQLGAKVPKGALLLGPPGCGKTLLAKAV 59
>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 = 33.9 bits (76), Expect = 0.25, Method: Compositional matrix adjust.
Identities = 24/91 (26%), Positives = 40/91 (43%), Gaps = 5/91 (5%)
Query: 71 YLSGQTRA--LLTSAAYVHLKHTEVSKYTRNLSPASQAILLSGPAELYQQMLAKALAHFF 128
Y+ GQ +A +L A Y H K + + ILL GP + +LA+ LA
Sbjct: 16 YVIGQEQAKKVLAVAVYNHYKRLRNGDTSNGVELGKSNILLIGPTGSGKTLLAETLARLL 75
Query: 129 EAKLLLLDVTDFSLKIQSKYGGTNKESHFQR 159
+ + D T + ++ Y G + E+ Q+
Sbjct: 76 DVPFTMADATTLT---EAGYVGEDVENIIQK 103
>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 = 33.9 bits (76), Expect = 0.26, Method: Compositional matrix adjust.
Identities = 24/91 (26%), Positives = 40/91 (43%), Gaps = 5/91 (5%)
Query: 71 YLSGQTRA--LLTSAAYVHLKHTEVSKYTRNLSPASQAILLSGPAELYQQMLAKALAHFF 128
Y+ GQ +A +L A Y H K + + ILL GP + +LA+ LA
Sbjct: 16 YVIGQEQAKKVLAVAVYNHYKRLRNGDTSNGVELGKSNILLIGPTGSGKTLLAETLARLL 75
Query: 129 EAKLLLLDVTDFSLKIQSKYGGTNKESHFQR 159
+ + D T + ++ Y G + E+ Q+
Sbjct: 76 DVPFTMADATTLT---EAGYVGEDVENIIQK 103
>pdb|2W27|A Chain A, Crystal Structure Of The Bacillus Subtilis Ykui Protein,
With An Eal Domain, In Complex With Substrate C-Di-Gmp
And Calcium
pdb|2W27|B Chain B, Crystal Structure Of The Bacillus Subtilis Ykui Protein,
With An Eal Domain, In Complex With Substrate C-Di-Gmp
And Calcium
Length = 431
Score = 31.2 bits (69), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 23/67 (34%), Positives = 36/67 (53%), Gaps = 3/67 (4%)
Query: 105 QAILLSGPAELYQQMLAKA--LAHFFEAKLLLLDV-TDFSLKIQSKYGGTNKESHFQRSP 161
QA+ +S P+ Y+ +L LA A LL D+ +F L+ + GG + ++ SP
Sbjct: 201 QALKVSQPSPSYEHVLYSISLLARKIGAALLYEDIEANFQLQYAWRNGGRYFQGYYLVSP 260
Query: 162 SESALER 168
SE+ LER
Sbjct: 261 SETFLER 267
>pdb|2BAS|A Chain A, Crystal Structure Of The Bacillus Subtilis Ykui Protein,
With An Eal Domain.
pdb|2BAS|B Chain B, Crystal Structure Of The Bacillus Subtilis Ykui Protein,
With An Eal Domain
Length = 431
Score = 31.2 bits (69), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 23/67 (34%), Positives = 36/67 (53%), Gaps = 3/67 (4%)
Query: 105 QAILLSGPAELYQQMLAKA--LAHFFEAKLLLLDV-TDFSLKIQSKYGGTNKESHFQRSP 161
QA+ +S P+ Y+ +L LA A LL D+ +F L+ + GG + ++ SP
Sbjct: 201 QALKVSQPSPSYEHVLYSISLLARKIGAALLYEDIEANFQLQYAWRNGGRYFQGYYLVSP 260
Query: 162 SESALER 168
SE+ LER
Sbjct: 261 SETFLER 267
>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 = 30.8 bits (68), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 33/100 (33%), Positives = 49/100 (49%), Gaps = 15/100 (15%)
Query: 523 VTFADIGALEEIKESLQELVMLPLRRPDLFKGGLLKPCRGILLFGPPGLGKQCWPRPLPK 582
VTF D+ EE KE L+E+V L+ P F + +G+LL GPPG+GK R +
Sbjct: 28 VTFKDVAGAEEAKEELKEIVEF-LKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVA- 85
Query: 583 RLGQASLMSPCLPS---------LPNGLVRMRRMFELYSR 613
G+A + P + + + G R+R +FE R
Sbjct: 86 --GEARV--PFITASGSDFVEMFVGVGAARVRDLFETAKR 121
>pdb|1IXR|C Chain C, Ruva-Ruvb Complex
Length = 312
Score = 30.8 bits (68), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 13/28 (46%), Positives = 16/28 (57%)
Query: 558 KPCRGILLFGPPGLGKQCWPRPLPKRLG 585
+P +LLFGPPGLGK + LG
Sbjct: 36 EPLEHLLLFGPPGLGKTTLAHVIAHELG 63
>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 = 30.8 bits (68), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 33/100 (33%), Positives = 49/100 (49%), Gaps = 15/100 (15%)
Query: 523 VTFADIGALEEIKESLQELVMLPLRRPDLFKGGLLKPCRGILLFGPPGLGKQCWPRPLPK 582
VTF D+ EE KE L+E+V L+ P F + +G+LL GPPG+GK R +
Sbjct: 37 VTFKDVAGAEEAKEELKEIVEF-LKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVA- 94
Query: 583 RLGQASLMSPCLPS---------LPNGLVRMRRMFELYSR 613
G+A + P + + + G R+R +FE R
Sbjct: 95 --GEARV--PFITASGSDFVEMFVGVGAARVRDLFETAKR 130
>pdb|1IXS|B Chain B, Structure Of Ruvb Complexed With Ruva Domain Iii
Length = 318
Score = 30.4 bits (67), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 13/28 (46%), Positives = 16/28 (57%)
Query: 558 KPCRGILLFGPPGLGKQCWPRPLPKRLG 585
+P +LLFGPPGLGK + LG
Sbjct: 36 EPLEHLLLFGPPGLGKTTLAHVIAHELG 63
>pdb|1IY2|A Chain A, Crystal Structure Of The Ftsh Atpase Domain From Thermus
Thermophilus
Length = 278
Score = 30.0 bits (66), Expect = 4.4, Method: Compositional matrix adjust.
Identities = 33/100 (33%), Positives = 49/100 (49%), Gaps = 15/100 (15%)
Query: 523 VTFADIGALEEIKESLQELVMLPLRRPDLFKGGLLKPCRGILLFGPPGLGKQCWPRPLPK 582
VTF D+ EE KE L+E+V L+ P F + +G+LL GPPG+GK R +
Sbjct: 37 VTFKDVAGAEEAKEELKEIVEF-LKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAV-- 93
Query: 583 RLGQASLMSPCLPS---------LPNGLVRMRRMFELYSR 613
G+A + P + + + G R+R +FE R
Sbjct: 94 -AGEARV--PFITASGSDFVEMFVGVGAARVRDLFETAKR 130
>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 = 29.6 bits (65), Expect = 4.7, Method: Compositional matrix adjust.
Identities = 13/28 (46%), Positives = 16/28 (57%)
Query: 558 KPCRGILLFGPPGLGKQCWPRPLPKRLG 585
+P +LLFGPPGLGK + LG
Sbjct: 36 EPLEHLLLFGPPGLGKTTLAHVIAHELG 63
>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 = 29.3 bits (64), Expect = 6.5, Method: Compositional matrix adjust.
Identities = 33/100 (33%), Positives = 49/100 (49%), Gaps = 15/100 (15%)
Query: 523 VTFADIGALEEIKESLQELVMLPLRRPDLFKGGLLKPCRGILLFGPPGLGKQCWPRPLPK 582
VTF D+ EE KE L+E+V L+ P F + +G+LL GPPG+GK R +
Sbjct: 13 VTFKDVAGAEEAKEELKEIVEF-LKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAV-- 69
Query: 583 RLGQASLMSPCLPS---------LPNGLVRMRRMFELYSR 613
G+A + P + + + G R+R +FE R
Sbjct: 70 -AGEARV--PFITASGSDFVEMFVGVGAARVRDLFETAKR 106
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
0.315 0.133 0.377
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 15,958,325
Number of Sequences: 62578
Number of extensions: 606553
Number of successful extensions: 1563
Number of sequences better than 100.0: 48
Number of HSP's better than 100.0 without gapping: 29
Number of HSP's successfully gapped in prelim test: 19
Number of HSP's that attempted gapping in prelim test: 1496
Number of HSP's gapped (non-prelim): 69
length of query: 613
length of database: 14,973,337
effective HSP length: 105
effective length of query: 508
effective length of database: 8,402,647
effective search space: 4268544676
effective search space used: 4268544676
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: 54 (25.4 bits)