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= 009263
(539 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>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 = 280 bits (715), Expect = 2e-75, Method: Compositional matrix adjust.
Identities = 169/478 (35%), Positives = 265/478 (55%), Gaps = 28/478 (5%)
Query: 18 QGSTGVKFSDVAGIDEAVEELQELVRYLKNPELFDKMGIKPPHGVLLEGPPGCGKTLVAK 77
G+ V F DV G +EA+EEL+E+V +LK+P F+++G + P G+LL GPPG GKTL+A+
Sbjct: 8 SGNKRVTFKDVGGAEEAIEELKEVVEFLKDPSKFNRIGARMPKGILLVGPPGTGKTLLAR 67
Query: 78 AIAGEAGVPFYQMAGSEFVEVLVGVGSARIRDLFKRAKVNKPSVIFIDEIDALATRRQGI 137
A+AGEA VPF+ ++GS+FVE+ VGVG+AR+RDLF +AK + P ++FIDEIDA+ R
Sbjct: 68 AVAGEANVPFFHISGSDFVELFVGVGAARVRDLFAQAKAHAPCIVFIDEIDAVGRHRGAG 127
Query: 138 FKDTTDHLYNAATQERETTLNQLLIELDGFDTGKGVIFLAATNXXXXXXXXXXXXXXFDR 197
D ERE TLNQLL+E+DGFD+ +G+I +AATN FD+
Sbjct: 128 LGGGHD--------EREQTLNQLLVEMDGFDSKEGIIVMAATNRPDILDPALLRPGRFDK 179
Query: 198 KIRIRAPNAKGRTEILKIHASKVKMSDSVDLSSYAKNLPGWTGXXXXXXXXXXXXXXXXK 257
KI + P+ GR +IL+IH +++ V+L AK PG+ G +
Sbjct: 180 KIVVDPPDMLGRKKILEIHTRNKPLAEDVNLEIIAKRTPGFVGADLENLVNEAALLAARE 239
Query: 258 GHESILSSDMDDAVDRLTVGPKRRGIELGNQGQSRRAATEVGVAMISHLLRRYENAKVEC 317
G + I D ++A+DR+ GP R+ + + + A E G A++S ++ E
Sbjct: 240 GRDKITMKDFEEAIDRVIAGPARKSLLISPAEKRIIAYHEAGHAVVSTVV-----PNGEP 294
Query: 318 CDRISIVPRGQTLSQLVFHRLDDESYMFERRPQLLHRLQVLLGGRAAEEVIYGQDTSRAS 377
RISI+PRG H +++ Y+ R +LL +L LLGGRAAEEV++G TS A+
Sbjct: 295 VHRISIIPRGYKALGYTLHLPEEDKYLVSRN-ELLDKLTALLGGRAAEEVVFGDVTSGAA 353
Query: 378 VNYLADASWLARKILTIWNLENPMVIHGEPPPWRKKVKFVGPRLDFEGSLYDDYGLTEPP 437
N + A+ +AR ++ + + P W K+ + V F G
Sbjct: 354 -NDIERATEIARNMVCQLGMSEEL----GPLAWGKEEQEV-----FLGKEITRLRNYSEE 403
Query: 438 VNFNLDDDIAWRTEELLRDMYGRTVTLLRRHHAALLKTVKVLLNQKEIGREEIDFILN 495
V +D+++ ++++ + Y R ++R++ L V++LL ++ I +E+ IL+
Sbjct: 404 VASKIDEEV----KKIVTNCYERAKEIIRKYRKQLDNIVEILLEKETIEGDELRRILS 457
>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 = 278 bits (711), Expect = 5e-75, Method: Compositional matrix adjust.
Identities = 168/478 (35%), Positives = 264/478 (55%), Gaps = 28/478 (5%)
Query: 18 QGSTGVKFSDVAGIDEAVEELQELVRYLKNPELFDKMGIKPPHGVLLEGPPGCGKTLVAK 77
G+ V F DV G +EA+EEL+E+V +LK+P F+++G + P G+LL GPPG G TL+A+
Sbjct: 8 SGNKRVTFKDVGGAEEAIEELKEVVEFLKDPSKFNRIGARMPKGILLVGPPGTGATLLAR 67
Query: 78 AIAGEAGVPFYQMAGSEFVEVLVGVGSARIRDLFKRAKVNKPSVIFIDEIDALATRRQGI 137
A+AGEA VPF+ ++GS+FVE+ VGVG+AR+RDLF +AK + P ++FIDEIDA+ R
Sbjct: 68 AVAGEANVPFFHISGSDFVELFVGVGAARVRDLFAQAKAHAPCIVFIDEIDAVGRHRGAG 127
Query: 138 FKDTTDHLYNAATQERETTLNQLLIELDGFDTGKGVIFLAATNXXXXXXXXXXXXXXFDR 197
D ERE TLNQLL+E+DGFD+ +G+I +AATN FD+
Sbjct: 128 LGGGHD--------EREQTLNQLLVEMDGFDSKEGIIVMAATNRPDILDPALLRPGRFDK 179
Query: 198 KIRIRAPNAKGRTEILKIHASKVKMSDSVDLSSYAKNLPGWTGXXXXXXXXXXXXXXXXK 257
KI + P+ GR +IL+IH +++ V+L AK PG+ G +
Sbjct: 180 KIVVDPPDMLGRKKILEIHTRNKPLAEDVNLEIIAKRTPGFVGADLENLVNEAALLAARE 239
Query: 258 GHESILSSDMDDAVDRLTVGPKRRGIELGNQGQSRRAATEVGVAMISHLLRRYENAKVEC 317
G + I D ++A+DR+ GP R+ + + + A E G A++S ++ E
Sbjct: 240 GRDKITMKDFEEAIDRVIAGPARKSLLISPAEKRIIAYHEAGHAVVSTVV-----PNGEP 294
Query: 318 CDRISIVPRGQTLSQLVFHRLDDESYMFERRPQLLHRLQVLLGGRAAEEVIYGQDTSRAS 377
RISI+PRG H +++ Y+ R +LL +L LLGGRAAEEV++G TS A+
Sbjct: 295 VHRISIIPRGYKALGYTLHLPEEDKYLVSRN-ELLDKLTALLGGRAAEEVVFGDVTSGAA 353
Query: 378 VNYLADASWLARKILTIWNLENPMVIHGEPPPWRKKVKFVGPRLDFEGSLYDDYGLTEPP 437
N + A+ +AR ++ + + P W K+ + V F G
Sbjct: 354 -NDIERATEIARNMVCQLGMSEEL----GPLAWGKEEQEV-----FLGKEITRLRNYSEE 403
Query: 438 VNFNLDDDIAWRTEELLRDMYGRTVTLLRRHHAALLKTVKVLLNQKEIGREEIDFILN 495
V +D+++ ++++ + Y R ++R++ L V++LL ++ I +E+ IL+
Sbjct: 404 VASKIDEEV----KKIVTNCYERAKEIIRKYRKQLDNIVEILLEKETIEGDELRRILS 457
>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 = 255 bits (651), Expect = 5e-68, Method: Compositional matrix adjust.
Identities = 171/481 (35%), Positives = 258/481 (53%), Gaps = 43/481 (8%)
Query: 23 VKFSDVAGIDEAVEELQELVRYLKNPELFDKMGIKPPHGVLLEGPPGCGKTLVAKAIAGE 82
V F DVAG +EA EEL+E+V +LKNP F +MG + P GVLL GPPG GKT +A+A+AGE
Sbjct: 28 VTFKDVAGAEEAKEELKEIVEFLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGE 87
Query: 83 AGVPFYQMAGSEFVEVLVGVGSARIRDLFKRAKVNKPSVIFIDEIDALATRR-QGIFKDT 141
A VPF +GS+FVE+ VGVG+AR+RDLF+ AK + P ++FIDEIDA+ +R G+
Sbjct: 88 ARVPFITASGSDFVEMFVGVGAARVRDLFETAKRHAPCIVFIDEIDAVGRKRGSGV---- 143
Query: 142 TDHLYNAATQERETTLNQLLIELDGFDTGKGVIFLAATNXXXXXXXXXXXXXXFDRKIRI 201
ERE TLNQLL+E+DGF+ ++ +AATN FDR+I I
Sbjct: 144 -----GGGNDEREQTLNQLLVEMDGFEKDTAIVVMAATNRPDILDPALLRPGRFDRQIAI 198
Query: 202 RAPNAKGRTEILKIHASKVKMSDSVDLSSYAKNLPGWTGXXXXXXXXXXXXXXXXKGHES 261
AP+ KGR +IL+IHA +++ VDL+ AK PG+ G +G
Sbjct: 199 DAPDVKGREQILRIHARGKPLAEDVDLALLAKRTPGFVGADLENLLNEAALLAAREGRRK 258
Query: 262 ILSSDMDDAVDRLTVGPKRRGIELGNQGQSRRAATEVGVAMISHLLRRYENAKVECCDRI 321
I D+++A DR+ + P ++ + L + + A E G A+ +H L E+A + ++
Sbjct: 259 ITMKDLEEAADRVMMLPAKKSLVLSPRDRRITAYHEAGHALAAHFL---EHA--DGVHKV 313
Query: 322 SIVPRGQTLSQLVFHRLDDESYMFERRPQLLHRLQVLLGGRAAEEVIYGQDTSRASVNYL 381
+IVPRG+ L ++ R E + R +LL ++ V L GRAAEE+++ D + + N
Sbjct: 314 TIVPRGRALGFMMPRR---EDMLHWSRKRLLDQIAVALAGRAAEEIVF-DDVTTGAENDF 369
Query: 382 ADASWLARKILTIWNLENPMVIHGEPPPWRKKVKFVGPRLDFEGSLYDDYGLTEPPVNFN 441
A+ LAR+++T W + H E P V+ E + Y + +
Sbjct: 370 RQATELARRMITEWGM------HPEFGPVAYAVR--------EDTYLGGYDVRQ------ 409
Query: 442 LDDDIAWRTEE----LLRDMYGRTVTLLRRHHAALLKTVKVLLNQKEIGREEIDFILNNY 497
++ A R +E L+ + Y R LL L + + LL ++ + EE ++
Sbjct: 410 YSEETAKRIDEAVRRLIEEQYQRVKALLLEKREVLERVAETLLERETLTAEEFQRVVEGL 469
Query: 498 P 498
P
Sbjct: 470 P 470
>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 = 254 bits (650), Expect = 6e-68, Method: Compositional matrix adjust.
Identities = 171/481 (35%), Positives = 258/481 (53%), Gaps = 43/481 (8%)
Query: 23 VKFSDVAGIDEAVEELQELVRYLKNPELFDKMGIKPPHGVLLEGPPGCGKTLVAKAIAGE 82
V F DVAG +EA EEL+E+V +LKNP F +MG + P GVLL GPPG GKT +A+A+AGE
Sbjct: 37 VTFKDVAGAEEAKEELKEIVEFLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGE 96
Query: 83 AGVPFYQMAGSEFVEVLVGVGSARIRDLFKRAKVNKPSVIFIDEIDALATRR-QGIFKDT 141
A VPF +GS+FVE+ VGVG+AR+RDLF+ AK + P ++FIDEIDA+ +R G+
Sbjct: 97 ARVPFITASGSDFVEMFVGVGAARVRDLFETAKRHAPCIVFIDEIDAVGRKRGSGV---- 152
Query: 142 TDHLYNAATQERETTLNQLLIELDGFDTGKGVIFLAATNXXXXXXXXXXXXXXFDRKIRI 201
ERE TLNQLL+E+DGF+ ++ +AATN FDR+I I
Sbjct: 153 -----GGGNDEREQTLNQLLVEMDGFEKDTAIVVMAATNRPDILDPALLRPGRFDRQIAI 207
Query: 202 RAPNAKGRTEILKIHASKVKMSDSVDLSSYAKNLPGWTGXXXXXXXXXXXXXXXXKGHES 261
AP+ KGR +IL+IHA +++ VDL+ AK PG+ G +G
Sbjct: 208 DAPDVKGREQILRIHARGKPLAEDVDLALLAKRTPGFVGADLENLLNEAALLAAREGRRK 267
Query: 262 ILSSDMDDAVDRLTVGPKRRGIELGNQGQSRRAATEVGVAMISHLLRRYENAKVECCDRI 321
I D+++A DR+ + P ++ + L + + A E G A+ +H L E+A + ++
Sbjct: 268 ITMKDLEEAADRVMMLPAKKSLVLSPRDRRITAYHEAGHALAAHFL---EHA--DGVHKV 322
Query: 322 SIVPRGQTLSQLVFHRLDDESYMFERRPQLLHRLQVLLGGRAAEEVIYGQDTSRASVNYL 381
+IVPRG+ L ++ R E + R +LL ++ V L GRAAEE+++ D + + N
Sbjct: 323 TIVPRGRALGFMMPRR---EDMLHWSRKRLLDQIAVALAGRAAEEIVF-DDVTTGAENDF 378
Query: 382 ADASWLARKILTIWNLENPMVIHGEPPPWRKKVKFVGPRLDFEGSLYDDYGLTEPPVNFN 441
A+ LAR+++T W + H E P V+ E + Y + +
Sbjct: 379 RQATELARRMITEWGM------HPEFGPVAYAVR--------EDTYLGGYDVRQ------ 418
Query: 442 LDDDIAWRTEE----LLRDMYGRTVTLLRRHHAALLKTVKVLLNQKEIGREEIDFILNNY 497
++ A R +E L+ + Y R LL L + + LL ++ + EE ++
Sbjct: 419 YSEETAKRIDEAVRRLIEEQYQRVKALLLEKREVLERVAETLLERETLTAEEFQRVVEGL 478
Query: 498 P 498
P
Sbjct: 479 P 479
>pdb|1LV7|A Chain A, Crystal Structure Of The Aaa Domain Of Ftsh
Length = 257
Score = 209 bits (533), Expect = 2e-54, Method: Compositional matrix adjust.
Identities = 104/226 (46%), Positives = 148/226 (65%), Gaps = 8/226 (3%)
Query: 15 MFSQGSTGVKFSDVAGIDEAVEELQELVRYLKNPELFDKMGIKPPHGVLLEGPPGCGKTL 74
M ++ F+DVAG DEA EE+ ELV YL+ P F K+G K P GVL+ GPPG GKTL
Sbjct: 1 MLTEDQIKTTFADVAGCDEAKEEVAELVEYLREPSRFQKLGGKIPKGVLMVGPPGTGKTL 60
Query: 75 VAKAIAGEAGVPFYQMAGSEFVEVLVGVGSARIRDLFKRAKVNKPSVIFIDEIDALATRR 134
+AKAIAGEA VPF+ ++GS+FVE+ VGVG++R+RD+F++AK P +IFIDEIDA+ +R
Sbjct: 61 LAKAIAGEAKVPFFTISGSDFVEMFVGVGASRVRDMFEQAKKAAPCIIFIDEIDAVGRQR 120
Query: 135 QGIFKDTTDHLYNAATQERETTLNQLLIELDGFDTGKGVIFLAATNXXXXXXXXXXXXXX 194
D ERE TLNQ+L+E+DGF+ +G+I +AATN
Sbjct: 121 GAGLGGGHD--------EREQTLNQMLVEMDGFEGNEGIIVIAATNRPDVLDPALLRPGR 172
Query: 195 FDRKIRIRAPNAKGRTEILKIHASKVKMSDSVDLSSYAKNLPGWTG 240
FDR++ + P+ +GR +ILK+H +V ++ +D + A+ PG++G
Sbjct: 173 FDRQVVVGLPDVRGREQILKVHMRRVPLAPDIDAAIIARGTPGFSG 218
>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 = 196 bits (499), Expect = 2e-50, Method: Compositional matrix adjust.
Identities = 110/262 (41%), Positives = 151/262 (57%), Gaps = 12/262 (4%)
Query: 23 VKFSDVAGIDEAVEELQELVRYLKNPELFDKMGIKPPHGVLLEGPPGCGKTLVAKAIAGE 82
V+F D+AG +EA EE+ E+V +LK PE + +G K P GVLL GPPG GKTL+AKA+AGE
Sbjct: 8 VRFKDMAGNEEAKEEVVEIVDFLKYPERYANLGAKIPKGVLLVGPPGTGKTLLAKAVAGE 67
Query: 83 AGVPFYQMAGSEFVEVLVGVGSARIRDLFKRAKVNKPSVIFIDEIDALATRRQ--GIFKD 140
A VPF+ M GS F+E+ VG+G++R+RDLF+ AK PS+IFIDEIDA+ R G+
Sbjct: 68 AHVPFFSMGGSSFIEMFVGLGASRVRDLFETAKKQAPSIIFIDEIDAIGKSRAAGGVV-- 125
Query: 141 TTDHLYNAATQERETTLNQLLIELDGFDTGKG-VIFLAATNXXXXXXXXXXXXXXFDRKI 199
+ ERE TLNQLL E+DGF + VI LAATN FDR++
Sbjct: 126 -------SGNDEREQTLNQLLAEMDGFGSENAPVIVLAATNRPEILDPALMRPGRFDRQV 178
Query: 200 RIRAPNAKGRTEILKIHASKVKMSDSVDLSSYAKNLPGWTGXXXXXXXXXXXXXXXXKGH 259
+ P+ GR EILK+H VK+++ V+L AK G G
Sbjct: 179 LVDKPDFNGRVEILKVHIKGVKLANDVNLQEVAKLTAGLAGADLANIINEAALLAGRNNQ 238
Query: 260 ESILSSDMDDAVDRLTVGPKRR 281
+ + + +AV+R G +++
Sbjct: 239 KEVRQQHLKEAVERGIAGLEKK 260
>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 = 196 bits (498), Expect = 3e-50, Method: Compositional matrix adjust.
Identities = 112/249 (44%), Positives = 152/249 (61%), Gaps = 10/249 (4%)
Query: 23 VKFSDVAGIDEAVEELQELVRYLKNPELFDKMGIKPPHGVLLEGPPGCGKTLVAKAIAGE 82
V F DVAG +EA EEL+E+V +LKNP F +MG + P GVLL GPPG GKT +A+A+AGE
Sbjct: 13 VTFKDVAGAEEAKEELKEIVEFLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGE 72
Query: 83 AGVPFYQMAGSEFVEVLVGVGSARIRDLFKRAKVNKPSVIFIDEIDALATRR-QGIFKDT 141
A VPF +GS+FVE+ VGVG+AR+RDLF+ AK + P ++FIDEIDA+ +R G+
Sbjct: 73 ARVPFITASGSDFVEMFVGVGAARVRDLFETAKRHAPCIVFIDEIDAVGRKRGSGV---- 128
Query: 142 TDHLYNAATQERETTLNQLLIELDGFDTGKGVIFLAATNXXXXXXXXXXXXXXFDRKIRI 201
ERE TLNQLL+E+DGF+ ++ +AATN FDR+I I
Sbjct: 129 -----GGGNDEREQTLNQLLVEMDGFEKDTAIVVMAATNRPDILDPALLRPGRFDRQIAI 183
Query: 202 RAPNAKGRTEILKIHASKVKMSDSVDLSSYAKNLPGWTGXXXXXXXXXXXXXXXXKGHES 261
AP+ KGR +IL+IHA +++ VDL+ AK PG+ G +G
Sbjct: 184 DAPDVKGREQILRIHARGKPLAEDVDLALLAKRTPGFVGADLENLLNEAALLAAREGRRK 243
Query: 262 ILSSDMDDA 270
I D+++A
Sbjct: 244 ITMKDLEEA 252
>pdb|1IY2|A Chain A, Crystal Structure Of The Ftsh Atpase Domain From Thermus
Thermophilus
Length = 278
Score = 196 bits (498), Expect = 3e-50, Method: Compositional matrix adjust.
Identities = 112/250 (44%), Positives = 152/250 (60%), Gaps = 10/250 (4%)
Query: 23 VKFSDVAGIDEAVEELQELVRYLKNPELFDKMGIKPPHGVLLEGPPGCGKTLVAKAIAGE 82
V F DVAG +EA EEL+E+V +LKNP F +MG + P GVLL GPPG GKT +A+A+AGE
Sbjct: 37 VTFKDVAGAEEAKEELKEIVEFLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGE 96
Query: 83 AGVPFYQMAGSEFVEVLVGVGSARIRDLFKRAKVNKPSVIFIDEIDALATRR-QGIFKDT 141
A VPF +GS+FVE+ VGVG+AR+RDLF+ AK + P ++FIDEIDA+ +R G+
Sbjct: 97 ARVPFITASGSDFVEMFVGVGAARVRDLFETAKRHAPCIVFIDEIDAVGRKRGSGV---- 152
Query: 142 TDHLYNAATQERETTLNQLLIELDGFDTGKGVIFLAATNXXXXXXXXXXXXXXFDRKIRI 201
ERE TLNQLL+E+DGF+ ++ +AATN FDR+I I
Sbjct: 153 -----GGGNDEREQTLNQLLVEMDGFEKDTAIVVMAATNRPDILDPALLRPGRFDRQIAI 207
Query: 202 RAPNAKGRTEILKIHASKVKMSDSVDLSSYAKNLPGWTGXXXXXXXXXXXXXXXXKGHES 261
AP+ KGR +IL+IHA +++ VDL+ AK PG+ G +G
Sbjct: 208 DAPDVKGREQILRIHARGKPLAEDVDLALLAKRTPGFVGADLENLLNEAALLAAREGRRK 267
Query: 262 ILSSDMDDAV 271
I D+++A
Sbjct: 268 ITMKDLEEAA 277
>pdb|2QZ4|A Chain A, Human Paraplegin, Aaa Domain In Complex With Adp
Length = 262
Score = 194 bits (494), Expect = 8e-50, Method: Compositional matrix adjust.
Identities = 107/262 (40%), Positives = 150/262 (57%), Gaps = 9/262 (3%)
Query: 22 GVKFSDVAGIDEAVEELQELVRYLKNPELFDKMGIKPPHGVLLEGPPGCGKTLVAKAIAG 81
GV F DVAG+ EA E++E V YLK+PE F ++G K P G LL GPPGCGKTL+AKA+A
Sbjct: 2 GVSFKDVAGMHEAKLEVREFVDYLKSPERFLQLGAKVPKGALLLGPPGCGKTLLAKAVAT 61
Query: 82 EAGVPFYQMAGSEFVEVLVGVGSARIRDLFKRAKVNKPSVIFIDEIDALATRRQGIFKDT 141
EA VPF MAG+EFVEV+ G+G+AR+R LFK A+ P +++IDEIDA+ +R
Sbjct: 62 EAQVPFLAMAGAEFVEVIGGLGAARVRSLFKEARARAPCIVYIDEIDAVGKKR------- 114
Query: 142 TDHLYNAATQERETTLNQLLIELDGFDTGKGVIFLAATNXXXXXXXXXXXXXXFDRKIRI 201
+ + + E E TLNQLL+E+DG T VI LA+TN DR + I
Sbjct: 115 STTMSGFSNTEEEQTLNQLLVEMDGMGTTDHVIVLASTNRADILDGALMRPGRLDRHVFI 174
Query: 202 RAPNAKGRTEILKIHASKVKMSDSVDLSS--YAKNLPGWTGXXXXXXXXXXXXXXXXKGH 259
P + R EI + H +K++ S S A+ PG++G +GH
Sbjct: 175 DLPTLQERREIFEQHLKSLKLTQSSTFYSQRLAELTPGFSGADIANICNEAALHAAREGH 234
Query: 260 ESILSSDMDDAVDRLTVGPKRR 281
S+ + + + AV+R+ G ++
Sbjct: 235 TSVHTLNFEYAVERVLAGTAKK 256
>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 = 180 bits (457), Expect = 1e-45, Method: Compositional matrix adjust.
Identities = 99/228 (43%), Positives = 140/228 (61%), Gaps = 9/228 (3%)
Query: 14 AMFSQGSTGVKFSDVAGIDEAVEELQELVRY-LKNPELFDKMGIKPPHGVLLEGPPGCGK 72
AM V++ D+ G+++ ++E++E+V LK+PELF+K+GI+PP G+LL GPPG GK
Sbjct: 5 AMEVDERPNVRYEDIGGLEKQMQEIREVVELPLKHPELFEKVGIEPPKGILLYGPPGTGK 64
Query: 73 TLVAKAIAGEAGVPFYQMAGSEFVEVLVGVGSARIRDLFKRAKVNKPSVIFIDEIDALAT 132
TL+AKA+A E F ++ GSE V+ +G G++ ++D+FK AK PS+IFIDEIDA+A
Sbjct: 65 TLLAKAVATETNATFIRVVGSELVKKFIGEGASLVKDIFKLAKEKAPSIIFIDEIDAIAA 124
Query: 133 RRQGIFKDTTDHLYNAATQERETTLNQLLIELDGFDTGKGVIFLAATNXXXXXXXXXXXX 192
+R TD L +E + TL QLL E+DGFD V + ATN
Sbjct: 125 KR-------TDAL-TGGDREVQRTLMQLLAEMDGFDARGDVKIIGATNRPDILDPAILRP 176
Query: 193 XXFDRKIRIRAPNAKGRTEILKIHASKVKMSDSVDLSSYAKNLPGWTG 240
FDR I + AP+ KGR EILKIH K+ +++ V+L AK G G
Sbjct: 177 GRFDRIIEVPAPDEKGRLEILKIHTRKMNLAEDVNLEEIAKMTEGCVG 224
>pdb|4B4T|L Chain L, Near-Atomic Resolution Structural Model Of The Yeast 26s
Proteasome
Length = 437
Score = 158 bits (400), Expect = 6e-39, Method: Compositional matrix adjust.
Identities = 91/231 (39%), Positives = 127/231 (54%), Gaps = 11/231 (4%)
Query: 11 YYFAMFSQGSTGVKFSDVAGIDEAVEELQELVRY-LKNPELFDKMGIKPPHGVLLEGPPG 69
Y F QG + F + G+ E + EL+E++ LKNPE+F ++GIKPP GVLL GPPG
Sbjct: 168 YNMTSFEQGE--ITFDGIGGLTEQIRELREVIELPLKNPEIFQRVGIKPPKGVLLYGPPG 225
Query: 70 CGKTLVAKAIAGEAGVPFYQMAGSEFVEVLVGVGSARIRDLFKRAKVNKPSVIFIDEIDA 129
GKTL+AKA+A G F S V+ +G + IR++F AK ++P +IF+DE+DA
Sbjct: 226 TGKTLLAKAVAATIGANFIFSPASGIVDKYIGESARIIREMFAYAKEHEPCIIFMDEVDA 285
Query: 130 LATRRQGIFKDTTDHLYNAATQERETTLNQLLIELDGFDTGKGVIFLAATNXXXXXXXXX 189
+ RR F + T +A +E + TL +LL ++DGFD + ATN
Sbjct: 286 IGGRR---FSEGT-----SADREIQRTLMELLTQMDGFDNLGQTKIIMATNRPDTLDPAL 337
Query: 190 XXXXXFDRKIRIRAPNAKGRTEILKIHASKVKMSDSVDLSSYAKNLPGWTG 240
DRK+ I PN GR EI KIH +KVK + D + K G+ G
Sbjct: 338 LRPGRLDRKVEIPLPNEAGRLEIFKIHTAKVKKTGEFDFEAAVKMSDGFNG 388
>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 = 150 bits (379), Expect = 2e-36, Method: Compositional matrix adjust.
Identities = 81/219 (36%), Positives = 122/219 (55%), Gaps = 12/219 (5%)
Query: 23 VKFSDVAGIDEAVEELQELVRY-LKNPELFDKMGIKPPHGVLLEGPPGCGKTLVAKAIAG 81
V + DV G + + +++E+V L++P LF +G+KPP G+LL GPPG GKTL+A+A+A
Sbjct: 201 VGYDDVGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVAN 260
Query: 82 EAGVPFYQMAGSEFVEVLVGVGSARIRDLFKRAKVNKPSVIFIDEIDALATRRQGIFKDT 141
E G F+ + G E + L G + +R F+ A+ N P++IFIDE+DA+A +R+ +
Sbjct: 261 ETGAFFFLINGPEIMSKLAGESESNLRKAFEEAEKNAPAIIFIDELDAIAPKREKTHGEV 320
Query: 142 TDHLYNAATQERETTLNQLLIELDGFDTGKGVIFLAATNXXXXXXXXXXXXXXFDRKIRI 201
+ ++QLL +DG VI +AATN FDR++ I
Sbjct: 321 ERRI-----------VSQLLTLMDGLKQRAHVIVMAATNRPNSIDPALRRFGRFDREVDI 369
Query: 202 RAPNAKGRTEILKIHASKVKMSDSVDLSSYAKNLPGWTG 240
P+A GR EIL+IH +K++D VDL A G G
Sbjct: 370 GIPDATGRLEILQIHTKNMKLADDVDLEQVANETHGHVG 408
>pdb|1R7R|A Chain A, The Crystal Structure Of Murine P97VCP AT 3.6A
Length = 816
Score = 150 bits (378), Expect = 2e-36, Method: Compositional matrix adjust.
Identities = 81/219 (36%), Positives = 122/219 (55%), Gaps = 12/219 (5%)
Query: 23 VKFSDVAGIDEAVEELQELVRY-LKNPELFDKMGIKPPHGVLLEGPPGCGKTLVAKAIAG 81
V + DV G + + +++E+V L++P LF +G+KPP G+LL GPPG GKTL+A+A+A
Sbjct: 201 VGYDDVGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVAN 260
Query: 82 EAGVPFYQMAGSEFVEVLVGVGSARIRDLFKRAKVNKPSVIFIDEIDALATRRQGIFKDT 141
E G F+ + G E + L G + +R F+ A+ N P++IFIDE+DA+A +R+ +
Sbjct: 261 ETGAFFFLINGPEIMSKLAGESESNLRKAFEEAEKNAPAIIFIDELDAIAPKREKTHGEV 320
Query: 142 TDHLYNAATQERETTLNQLLIELDGFDTGKGVIFLAATNXXXXXXXXXXXXXXFDRKIRI 201
+ ++QLL +DG VI +AATN FDR++ I
Sbjct: 321 ERRI-----------VSQLLTLMDGLKQRAHVIVMAATNRPNSIDPALRRFGRFDREVDI 369
Query: 202 RAPNAKGRTEILKIHASKVKMSDSVDLSSYAKNLPGWTG 240
P+A GR EIL+IH +K++D VDL A G G
Sbjct: 370 GIPDATGRLEILQIHTKNMKLADDVDLEQVANETHGHVG 408
Score = 136 bits (342), Expect = 3e-32, Method: Compositional matrix adjust.
Identities = 78/219 (35%), Positives = 114/219 (52%), Gaps = 9/219 (4%)
Query: 23 VKFSDVAGIDEAVEELQELVRY-LKNPELFDKMGIKPPHGVLLEGPPGCGKTLVAKAIAG 81
V + D+ G+++ ELQELV+Y +++P+ F K G+ P GVL GPPGCGKTL+AKAIA
Sbjct: 474 VTWEDIGGLEDVKRELQELVQYPVEHPDKFLKFGMTPSKGVLFYGPPGCGKTLLAKAIAN 533
Query: 82 EAGVPFYQMAGSEFVEVLVGVGSARIRDLFKRAKVNKPSVIFIDEIDALATRRQGIFKDT 141
E F + G E + + G A +R++F +A+ P V+F DE+D++A R
Sbjct: 534 ECQANFISIKGPELLTMWFGESEANVREIFDKARQAAPCVLFFDELDSIAKARG------ 587
Query: 142 TDHLYNAATQERETTLNQLLIELDGFDTGKGVIFLAATNXXXXXXXXXXXXXXFDRKIRI 201
+ +NQ+L E+DG T K V + ATN D+ I I
Sbjct: 588 --GNIGDGGGAADRVINQILTEMDGMSTKKNVFIIGATNRPDIIDPAILRPGRLDQLIYI 645
Query: 202 RAPNAKGRTEILKIHASKVKMSDSVDLSSYAKNLPGWTG 240
P+ K R ILK + K ++ VDL AK G++G
Sbjct: 646 PLPDEKSRVAILKANLRKSPVAKDVDLEFLAKMTNGFSG 684
>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 = 150 bits (378), Expect = 2e-36, Method: Compositional matrix adjust.
Identities = 80/219 (36%), Positives = 122/219 (55%), Gaps = 12/219 (5%)
Query: 23 VKFSDVAGIDEAVEELQELVRY-LKNPELFDKMGIKPPHGVLLEGPPGCGKTLVAKAIAG 81
V + D+ G + + +++E+V L++P LF +G+KPP G+LL GPPG GKTL+A+A+A
Sbjct: 201 VGYDDIGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVAN 260
Query: 82 EAGVPFYQMAGSEFVEVLVGVGSARIRDLFKRAKVNKPSVIFIDEIDALATRRQGIFKDT 141
E G F+ + G E + L G + +R F+ A+ N P++IFIDE+DA+A +R+ +
Sbjct: 261 ETGAFFFLINGPEIMSKLAGESESNLRKAFEEAEKNAPAIIFIDELDAIAPKREKTHGEV 320
Query: 142 TDHLYNAATQERETTLNQLLIELDGFDTGKGVIFLAATNXXXXXXXXXXXXXXFDRKIRI 201
+ ++QLL +DG VI +AATN FDR++ I
Sbjct: 321 ERRI-----------VSQLLTLMDGLKQRAHVIVMAATNRPNSIDPALRRFGRFDREVDI 369
Query: 202 RAPNAKGRTEILKIHASKVKMSDSVDLSSYAKNLPGWTG 240
P+A GR EIL+IH +K++D VDL A G G
Sbjct: 370 GIPDATGRLEILQIHTKNMKLADDVDLEQVANETHGHVG 408
>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 = 150 bits (378), Expect = 2e-36, Method: Compositional matrix adjust.
Identities = 80/219 (36%), Positives = 122/219 (55%), Gaps = 12/219 (5%)
Query: 23 VKFSDVAGIDEAVEELQELVRY-LKNPELFDKMGIKPPHGVLLEGPPGCGKTLVAKAIAG 81
V + D+ G + + +++E+V L++P LF +G+KPP G+LL GPPG GKTL+A+A+A
Sbjct: 201 VGYDDIGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVAN 260
Query: 82 EAGVPFYQMAGSEFVEVLVGVGSARIRDLFKRAKVNKPSVIFIDEIDALATRRQGIFKDT 141
E G F+ + G E + L G + +R F+ A+ N P++IFIDE+DA+A +R+ +
Sbjct: 261 ETGAFFFLINGPEIMSKLAGESESNLRKAFEEAEKNAPAIIFIDELDAIAPKREKTHGEV 320
Query: 142 TDHLYNAATQERETTLNQLLIELDGFDTGKGVIFLAATNXXXXXXXXXXXXXXFDRKIRI 201
+ ++QLL +DG VI +AATN FDR++ I
Sbjct: 321 ERRI-----------VSQLLTLMDGLKQRAHVIVMAATNRPNSIDPALRRFGRFDREVDI 369
Query: 202 RAPNAKGRTEILKIHASKVKMSDSVDLSSYAKNLPGWTG 240
P+A GR EIL+IH +K++D VDL A G G
Sbjct: 370 GIPDATGRLEILQIHTKNMKLADDVDLEQVANETHGHVG 408
>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 = 150 bits (378), Expect = 2e-36, Method: Compositional matrix adjust.
Identities = 80/219 (36%), Positives = 122/219 (55%), Gaps = 12/219 (5%)
Query: 23 VKFSDVAGIDEAVEELQELVRY-LKNPELFDKMGIKPPHGVLLEGPPGCGKTLVAKAIAG 81
V + D+ G + + +++E+V L++P LF +G+KPP G+LL GPPG GKTL+A+A+A
Sbjct: 201 VGYDDIGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVAN 260
Query: 82 EAGVPFYQMAGSEFVEVLVGVGSARIRDLFKRAKVNKPSVIFIDEIDALATRRQGIFKDT 141
E G F+ + G E + L G + +R F+ A+ N P++IFIDE+DA+A +R+ +
Sbjct: 261 ETGAFFFLINGPEIMSKLAGESESNLRKAFEEAEKNAPAIIFIDELDAIAPKREKTHGEV 320
Query: 142 TDHLYNAATQERETTLNQLLIELDGFDTGKGVIFLAATNXXXXXXXXXXXXXXFDRKIRI 201
+ ++QLL +DG VI +AATN FDR++ I
Sbjct: 321 ERRI-----------VSQLLTLMDGLKQRAHVIVMAATNRPNSIDPALRRFGRFDREVDI 369
Query: 202 RAPNAKGRTEILKIHASKVKMSDSVDLSSYAKNLPGWTG 240
P+A GR EIL+IH +K++D VDL A G G
Sbjct: 370 GIPDATGRLEILQIHTKNMKLADDVDLEQVANETHGHVG 408
>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 = 150 bits (378), Expect = 3e-36, Method: Compositional matrix adjust.
Identities = 80/219 (36%), Positives = 122/219 (55%), Gaps = 12/219 (5%)
Query: 23 VKFSDVAGIDEAVEELQELVRY-LKNPELFDKMGIKPPHGVLLEGPPGCGKTLVAKAIAG 81
V + D+ G + + +++E+V L++P LF +G+KPP G+LL GPPG GKTL+A+A+A
Sbjct: 201 VGYDDIGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVAN 260
Query: 82 EAGVPFYQMAGSEFVEVLVGVGSARIRDLFKRAKVNKPSVIFIDEIDALATRRQGIFKDT 141
E G F+ + G E + L G + +R F+ A+ N P++IFIDE+DA+A +R+ +
Sbjct: 261 ETGAFFFLINGPEIMSKLAGESESNLRKAFEEAEKNAPAIIFIDELDAIAPKREKTHGEV 320
Query: 142 TDHLYNAATQERETTLNQLLIELDGFDTGKGVIFLAATNXXXXXXXXXXXXXXFDRKIRI 201
+ ++QLL +DG VI +AATN FDR++ I
Sbjct: 321 ERRI-----------VSQLLTLMDGLKQRAHVIVMAATNRPNSIDPALRRFGRFDREVDI 369
Query: 202 RAPNAKGRTEILKIHASKVKMSDSVDLSSYAKNLPGWTG 240
P+A GR EIL+IH +K++D VDL A G G
Sbjct: 370 GIPDATGRLEILQIHTKNMKLADDVDLEQVANETHGHVG 408
Score = 136 bits (343), Expect = 3e-32, Method: Compositional matrix adjust.
Identities = 78/219 (35%), Positives = 114/219 (52%), Gaps = 9/219 (4%)
Query: 23 VKFSDVAGIDEAVEELQELVRY-LKNPELFDKMGIKPPHGVLLEGPPGCGKTLVAKAIAG 81
V + D+ G+++ ELQELV+Y +++P+ F K G+ P GVL GPPGCGKTL+AKAIA
Sbjct: 474 VTWEDIGGLEDVKRELQELVQYPVEHPDKFLKFGMTPSKGVLFYGPPGCGKTLLAKAIAN 533
Query: 82 EAGVPFYQMAGSEFVEVLVGVGSARIRDLFKRAKVNKPSVIFIDEIDALATRRQGIFKDT 141
E F + G E + + G A +R++F +A+ P V+F DE+D++A R
Sbjct: 534 ECQANFISIKGPELLTMWFGESEANVREIFDKARQAAPCVLFFDELDSIAKARG------ 587
Query: 142 TDHLYNAATQERETTLNQLLIELDGFDTGKGVIFLAATNXXXXXXXXXXXXXXFDRKIRI 201
+ +NQ+L E+DG T K V + ATN D+ I I
Sbjct: 588 --GNIGDGGGAADRVINQILTEMDGMSTKKNVFIIGATNRPDIIDPAILRPGRLDQLIYI 645
Query: 202 RAPNAKGRTEILKIHASKVKMSDSVDLSSYAKNLPGWTG 240
P+ K R ILK + K ++ VDL AK G++G
Sbjct: 646 PLPDEKSRVAILKANLRKSPVAKDVDLEFLAKMTNGFSG 684
>pdb|4B4T|I Chain I, Near-Atomic Resolution Structural Model Of The Yeast 26s
Proteasome
Length = 437
Score = 145 bits (366), Expect = 5e-35, Method: Compositional matrix adjust.
Identities = 81/217 (37%), Positives = 124/217 (57%), Gaps = 9/217 (4%)
Query: 25 FSDVAGIDEAVEELQELVRY-LKNPELFDKMGIKPPHGVLLEGPPGCGKTLVAKAIAGEA 83
+SD+ G++ ++E++E V L +PEL+++MGIKPP GV+L G PG GKTL+AKA+A +
Sbjct: 181 YSDIGGLESQIQEIKESVELPLTHPELYEEMGIKPPKGVILYGAPGTGKTLLAKAVANQT 240
Query: 84 GVPFYQMAGSEFVEVLVGVGSARIRDLFKRAKVNKPSVIFIDEIDALATRRQGIFKDTTD 143
F ++ GSE ++ +G G R +FK A N PS++FIDEIDA+ T+R D+
Sbjct: 241 SATFLRIVGSELIQKYLGDGPRLCRQIFKVAGENAPSIVFIDEIDAIGTKRY----DSN- 295
Query: 144 HLYNAATQERETTLNQLLIELDGFDTGKGVIFLAATNXXXXXXXXXXXXXXFDRKIRIRA 203
+ +E + T+ +LL +LDGFD V + ATN DRKI
Sbjct: 296 ---SGGEREIQRTMLELLNQLDGFDDRGDVKVIMATNKIETLDPALIRPGRIDRKILFEN 352
Query: 204 PNAKGRTEILKIHASKVKMSDSVDLSSYAKNLPGWTG 240
P+ + +IL IH SK+ +S+ V+L + +G
Sbjct: 353 PDLSTKKKILGIHTSKMNLSEDVNLETLVTTKDDLSG 389
>pdb|4B4T|J Chain J, Near-Atomic Resolution Structural Model Of The Yeast 26s
Proteasome
Length = 405
Score = 144 bits (364), Expect = 9e-35, Method: Compositional matrix adjust.
Identities = 77/218 (35%), Positives = 128/218 (58%), Gaps = 11/218 (5%)
Query: 25 FSDVAGIDEAVEELQELVRY-LKNPELFDKMGIKPPHGVLLEGPPGCGKTLVAKAIAGEA 83
+ V G+ + ++E++E++ +K+PELF+ +GI P GV+L GPPG GKTL+A+A+A
Sbjct: 147 YDMVGGLTKQIKEIKEVIELPVKHPELFESLGIAQPKGVILYGPPGTGKTLLARAVAHHT 206
Query: 84 GVPFYQMAGSEFVEVLVGVGSARIRDLFKRAKVNKPSVIFIDEIDAL-ATRRQGIFKDTT 142
F +++G+E V+ +G GS +R+LF A+ + PS+IF+DEID++ +TR +G
Sbjct: 207 DCKFIRVSGAELVQKYIGEGSRMVRELFVMAREHAPSIIFMDEIDSIGSTRVEG------ 260
Query: 143 DHLYNAATQERETTLNQLLIELDGFDTGKGVIFLAATNXXXXXXXXXXXXXXFDRKIRIR 202
E + T+ +LL +LDGF+T K + + ATN DRKI
Sbjct: 261 ---SGGGDSEVQRTMLELLNQLDGFETSKNIKIIMATNRLDILDPALLRPGRIDRKIEFP 317
Query: 203 APNAKGRTEILKIHASKVKMSDSVDLSSYAKNLPGWTG 240
P+ R EIL+IH+ K+ ++ ++L A+ + G +G
Sbjct: 318 PPSVAARAEILRIHSRKMNLTRGINLRKVAEKMNGCSG 355
>pdb|4B4T|M Chain M, Near-Atomic Resolution Structural Model Of The Yeast 26s
Proteasome
Length = 434
Score = 141 bits (355), Expect = 1e-33, Method: Compositional matrix adjust.
Identities = 78/217 (35%), Positives = 120/217 (55%), Gaps = 9/217 (4%)
Query: 25 FSDVAGIDEAVEELQE-LVRYLKNPELFDKMGIKPPHGVLLEGPPGCGKTLVAKAIAGEA 83
+SDV G+D+ +EEL E +V +K + F MGI+ P G L+ GPPG GKTL+A+A A +
Sbjct: 180 YSDVGGLDKQIEELVEAIVLPMKRADKFKDMGIRAPKGALMYGPPGTGKTLLARACAAQT 239
Query: 84 GVPFYQMAGSEFVEVLVGVGSARIRDLFKRAKVNKPSVIFIDEIDALATRRQGIFKDTTD 143
F ++A + V++ +G G+ +RD F AK P++IFIDE+DA+ T+R K
Sbjct: 240 NATFLKLAAPQLVQMYIGEGAKLVRDAFALAKEKAPTIIFIDELDAIGTKRFDSEK---- 295
Query: 144 HLYNAATQERETTLNQLLIELDGFDTGKGVIFLAATNXXXXXXXXXXXXXXFDRKIRIRA 203
+ +E + T+ +LL +LDGF + V LAATN DRKI
Sbjct: 296 ----SGDREVQRTMLELLNQLDGFSSDDRVKVLAATNRVDVLDPALLRSGRLDRKIEFPL 351
Query: 204 PNAKGRTEILKIHASKVKMSDSVDLSSYAKNLPGWTG 240
P+ R +IL+IH+ K+ D ++ A++ + G
Sbjct: 352 PSEDSRAQILQIHSRKMTTDDDINWQELARSTDEFNG 388
>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 = 136 bits (343), Expect = 2e-32, Method: Compositional matrix adjust.
Identities = 78/219 (35%), Positives = 114/219 (52%), Gaps = 9/219 (4%)
Query: 23 VKFSDVAGIDEAVEELQELVRY-LKNPELFDKMGIKPPHGVLLEGPPGCGKTLVAKAIAG 81
V + D+ G+++ ELQELV+Y +++P+ F K G+ P GVL GPPGCGKTL+AKAIA
Sbjct: 12 VTWEDIGGLEDVKRELQELVQYPVEHPDKFLKFGMTPSKGVLFYGPPGCGKTLLAKAIAN 71
Query: 82 EAGVPFYQMAGSEFVEVLVGVGSARIRDLFKRAKVNKPSVIFIDEIDALATRRQGIFKDT 141
E F + G E + + G A +R++F +A+ P V+F DE+D++A R
Sbjct: 72 ECQANFISIKGPELLTMWFGESEANVREIFDKARQAAPCVLFFDELDSIAKARG------ 125
Query: 142 TDHLYNAATQERETTLNQLLIELDGFDTGKGVIFLAATNXXXXXXXXXXXXXXFDRKIRI 201
+ +NQ+L E+DG T K V + ATN D+ I I
Sbjct: 126 --GNIGDGGGAADRVINQILTEMDGMSTKKNVFIIGATNRPDIIDPAILRPGRLDQLIYI 183
Query: 202 RAPNAKGRTEILKIHASKVKMSDSVDLSSYAKNLPGWTG 240
P+ K R ILK + K ++ VDL AK G++G
Sbjct: 184 PLPDEKSRVAILKANLRKSPVAKDVDLEFLAKMTNGFSG 222
>pdb|4B4T|K Chain K, Near-Atomic Resolution Structural Model Of The Yeast 26s
Proteasome
Length = 428
Score = 136 bits (342), Expect = 3e-32, Method: Compositional matrix adjust.
Identities = 87/252 (34%), Positives = 129/252 (51%), Gaps = 14/252 (5%)
Query: 23 VKFSDVAGIDEAVEELQELVRY-LKNPELFDKMGIKPPHGVLLEGPPGCGKTLVAKAIAG 81
V ++DV G+D +E++E V L +L++++GI PP GVLL GPPG GKT++ KA+A
Sbjct: 169 VTYADVGGLDMQKQEIREAVELPLVQADLYEQIGIDPPRGVLLYGPPGTGKTMLVKAVAN 228
Query: 82 EAGVPFYQMAGSEFVEVLVGVGSARIRDLFKRAKVNKPSVIFIDEIDALATRRQGIFKDT 141
F ++ GSEFV +G G +RD+F+ A+ N PS+IFIDE+D++AT+R F
Sbjct: 229 STKAAFIRVNGSEFVHKYLGEGPRMVRDVFRLARENAPSIIFIDEVDSIATKR---FDAQ 285
Query: 142 TDHLYNAATQERETTLNQLLIELDGFDTGKGVIFLAATNXXXXXXXXXXXXXXFDRKIRI 201
T + +E + L +LL ++DGFD V + ATN DRKI
Sbjct: 286 T-----GSDREVQRILIELLTQMDGFDQSTNVKVIMATNRADTLDPALLRPGRLDRKIEF 340
Query: 202 RAPNAKGRTE---ILKIHASKVKMSDSVDLSSYAKNLPGWTGXXXXXXXXXXXXXXXXKG 258
P+ + R E I ASK+ ++ DL S +G K
Sbjct: 341 --PSLRDRRERRLIFGTIASKMSLAPEADLDSLIIRNDSLSGAVIAAIMQEAGLRAVRKN 398
Query: 259 HESILSSDMDDA 270
IL SD+++A
Sbjct: 399 RYVILQSDLEEA 410
>pdb|4B4T|H Chain H, Near-Atomic Resolution Structural Model Of The Yeast 26s
Proteasome
Length = 467
Score = 135 bits (339), Expect = 7e-32, Method: Compositional matrix adjust.
Identities = 83/259 (32%), Positives = 125/259 (48%), Gaps = 9/259 (3%)
Query: 23 VKFSDVAGIDEAVEELQELVRY-LKNPELFDKMGIKPPHGVLLEGPPGCGKTLVAKAIAG 81
V +SDV G + +E+L+E+V L +PE F +GI PP G+LL GPPG GKTL A+A+A
Sbjct: 206 VTYSDVGGCKDQIEKLREVVELPLLSPERFATLGIDPPKGILLYGPPGTGKTLCARAVAN 265
Query: 82 EAGVPFYQMAGSEFVEVLVGVGSARIRDLFKRAKVNKPSVIFIDEIDALATRRQGIFKDT 141
F ++ GSE V+ VG G+ +R+LF+ A+ K +IF DEIDA+ R F D
Sbjct: 266 RTDATFIRVIGSELVQKYVGEGARMVRELFEMARTKKACIIFFDEIDAVGGAR---FDDG 322
Query: 142 TDHLYNAATQERETTLNQLLIELDGFDTGKGVIFLAATNXXXXXXXXXXXXXXFDRKIRI 201
E + T+ +L+ +LDGFD + + ATN DRK+
Sbjct: 323 A-----GGDNEVQRTMLELITQLDGFDPRGNIKVMFATNRPNTLDPALLRPGRIDRKVEF 377
Query: 202 RAPNAKGRTEILKIHASKVKMSDSVDLSSYAKNLPGWTGXXXXXXXXXXXXXXXXKGHES 261
P+ +GR I +IH+ + + + ++ P TG +
Sbjct: 378 SLPDLEGRANIFRIHSKSMSVERGIRWELISRLCPNSTGAELRSVCTEAGMFAIRARRKV 437
Query: 262 ILSSDMDDAVDRLTVGPKR 280
D AVD++ G K+
Sbjct: 438 ATEKDFLKAVDKVISGYKK 456
>pdb|2X8A|A Chain A, Human Nuclear Valosin Containing Protein Like (Nvl), C-
Terminal Aaa-Atpase Domain
Length = 274
Score = 125 bits (314), Expect = 6e-29, Method: Compositional matrix adjust.
Identities = 75/217 (34%), Positives = 117/217 (53%), Gaps = 15/217 (6%)
Query: 23 VKFSDVAGIDEAVEEL-QELVRYLKNPELFDKMGIKPPHGVLLEGPPGCGKTLVAKAIAG 81
V ++D+ +++ EEL ++ ++NP+ F +G+ P GVLL GPPGCGKTL+AKA+A
Sbjct: 7 VTWADIGALEDIREELTMAILAPVRNPDQFKALGLVTPAGVLLAGPPGCGKTLLAKAVAN 66
Query: 82 EAGVPFYQMAGSEFVEVLVGVGSARIRDLFKRAKVNKPSVIFIDEIDALATRRQGIFKDT 141
E+G+ F + G E + + VG +R +F+RAK + P VIF DE+DAL RR
Sbjct: 67 ESGLNFISVKGPELLNMYVGESERAVRQVFQRAKNSAPCVIFFDEVDALCPRR------- 119
Query: 142 TDHLYNAATQERETTLNQLLIELDGFDTGKGVIFLAATNXXXXXXXXXXXXXXFDRKIRI 201
+D A+ + +NQLL E+DG + + V +AATN D+ + +
Sbjct: 120 SDRETGASVR----VVNQLLTEMDGLEARQQVFIMAATNRPDIIDPAILRPGRLDKTLFV 175
Query: 202 RAPNAKGRTEILKI---HASKVKMSDSVDLSSYAKNL 235
P R ILK + +K + V+L + A +L
Sbjct: 176 GLPPPADRLAILKTITKNGTKPPLDADVNLEAIAGDL 212
>pdb|2RKO|A Chain A, Crystal Structure Of The Vps4p-Dimer
Length = 331
Score = 107 bits (267), Expect = 2e-23, Method: Compositional matrix adjust.
Identities = 74/197 (37%), Positives = 112/197 (56%), Gaps = 18/197 (9%)
Query: 23 VKFSDVAGIDEAVEELQELVRY-LKNPELFDKMGIKPPHGVLLEGPPGCGKTLVAKAIAG 81
VK+ DVAG++ A E L+E V +K P LF K KP G+LL GPPG GK+ +AKA+A
Sbjct: 24 VKWEDVAGLEGAKEALKEAVILPVKFPHLF-KGNRKPTSGILLYGPPGTGKSYLAKAVAT 82
Query: 82 EAGVPFYQMAGSEFVEVLVGVGSARIRDLFKRAKVNKPSVIFIDEIDAL-ATRRQGIFKD 140
EA F+ ++ S+ V +G ++ LF A+ NKPS+IFIDE+DAL TR +G
Sbjct: 83 EANSTFFSVSSSDLVSKWMGESEKLVKQLFAMARENKPSIIFIDEVDALTGTRGEG---- 138
Query: 141 TTDHLYNAATQERETTLNQLLIELDGF-DTGKGVIFLAATNXXXXXXXXXXXXXXFDRKI 199
+ A++ +T +LL++++G + +GV+ L ATN F+R+I
Sbjct: 139 -----ESEASRRIKT---ELLVQMNGVGNDSQGVLVLGATN--IPWQLDSAIRRRFERRI 188
Query: 200 RIRAPNAKGRTEILKIH 216
I P+ RT + +I+
Sbjct: 189 YIPLPDLAARTTMFEIN 205
>pdb|3EIE|A Chain A, Crystal Structure Of S.Cerevisiae Vps4 In The So4-Bound
State
Length = 322
Score = 106 bits (264), Expect = 4e-23, Method: Compositional matrix adjust.
Identities = 73/197 (37%), Positives = 112/197 (56%), Gaps = 18/197 (9%)
Query: 23 VKFSDVAGIDEAVEELQELVRY-LKNPELFDKMGIKPPHGVLLEGPPGCGKTLVAKAIAG 81
VK+ DVAG++ A E L+E V +K P LF K KP G+LL GPPG GK+ +AKA+A
Sbjct: 15 VKWEDVAGLEGAKEALKEAVILPVKFPHLF-KGNRKPTSGILLYGPPGTGKSYLAKAVAT 73
Query: 82 EAGVPFYQMAGSEFVEVLVGVGSARIRDLFKRAKVNKPSVIFIDEIDAL-ATRRQGIFKD 140
EA F+ ++ S+ V +G ++ LF A+ NKPS+IFID++DAL TR +G
Sbjct: 74 EANSTFFSVSSSDLVSKWMGESEKLVKQLFAMARENKPSIIFIDQVDALTGTRGEG---- 129
Query: 141 TTDHLYNAATQERETTLNQLLIELDGF-DTGKGVIFLAATNXXXXXXXXXXXXXXFDRKI 199
+ A++ +T +LL++++G + +GV+ L ATN F+R+I
Sbjct: 130 -----ESEASRRIKT---ELLVQMNGVGNDSQGVLVLGATN--IPWQLDSAIRRRFERRI 179
Query: 200 RIRAPNAKGRTEILKIH 216
I P+ RT + +I+
Sbjct: 180 YIPLPDLAARTTMFEIN 196
>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 = 105 bits (263), Expect = 5e-23, Method: Compositional matrix adjust.
Identities = 73/197 (37%), Positives = 112/197 (56%), Gaps = 18/197 (9%)
Query: 23 VKFSDVAGIDEAVEELQELVRY-LKNPELFDKMGIKPPHGVLLEGPPGCGKTLVAKAIAG 81
VK+ DVAG++ A E L+E V +K P LF K KP G+LL GPPG GK+ +AKA+A
Sbjct: 33 VKWEDVAGLEGAKEALKEAVILPVKFPHLF-KGNRKPTSGILLYGPPGTGKSYLAKAVAT 91
Query: 82 EAGVPFYQMAGSEFVEVLVGVGSARIRDLFKRAKVNKPSVIFIDEIDAL-ATRRQGIFKD 140
EA F+ ++ S+ V +G ++ LF A+ NKPS+IFID++DAL TR +G
Sbjct: 92 EANSTFFSVSSSDLVSKWMGESEKLVKQLFAMARENKPSIIFIDQVDALTGTRGEG---- 147
Query: 141 TTDHLYNAATQERETTLNQLLIELDGF-DTGKGVIFLAATNXXXXXXXXXXXXXXFDRKI 199
+ A++ +T +LL++++G + +GV+ L ATN F+R+I
Sbjct: 148 -----ESEASRRIKT---ELLVQMNGVGNDSQGVLVLGATN--IPWQLDSAIRRRFERRI 197
Query: 200 RIRAPNAKGRTEILKIH 216
I P+ RT + +I+
Sbjct: 198 YIPLPDLAARTTMFEIN 214
>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 = 105 bits (263), Expect = 5e-23, Method: Compositional matrix adjust.
Identities = 73/197 (37%), Positives = 112/197 (56%), Gaps = 18/197 (9%)
Query: 23 VKFSDVAGIDEAVEELQELVRY-LKNPELFDKMGIKPPHGVLLEGPPGCGKTLVAKAIAG 81
VK+ DVAG++ A E L+E V +K P LF K KP G+LL GPPG GK+ +AKA+A
Sbjct: 48 VKWEDVAGLEGAKEALKEAVILPVKFPHLF-KGNRKPTSGILLYGPPGTGKSYLAKAVAT 106
Query: 82 EAGVPFYQMAGSEFVEVLVGVGSARIRDLFKRAKVNKPSVIFIDEIDAL-ATRRQGIFKD 140
EA F+ ++ S+ V +G ++ LF A+ NKPS+IFID++DAL TR +G
Sbjct: 107 EANSTFFSVSSSDLVSKWMGESEKLVKQLFAMARENKPSIIFIDQVDALTGTRGEG---- 162
Query: 141 TTDHLYNAATQERETTLNQLLIELDGF-DTGKGVIFLAATNXXXXXXXXXXXXXXFDRKI 199
+ A++ +T +LL++++G + +GV+ L ATN F+R+I
Sbjct: 163 -----ESEASRRIKT---ELLVQMNGVGNDSQGVLVLGATN--IPWQLDSAIRRRFERRI 212
Query: 200 RIRAPNAKGRTEILKIH 216
I P+ RT + +I+
Sbjct: 213 YIPLPDLAARTTMFEIN 229
>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 = 100 bits (249), Expect = 2e-21, Method: Compositional matrix adjust.
Identities = 73/223 (32%), Positives = 116/223 (52%), Gaps = 20/223 (8%)
Query: 23 VKFSDVAGIDEAVEELQELVRY-LKNPELFDKMGIKPP-HGVLLEGPPGCGKTLVAKAIA 80
VK+SDVAG++ A E L+E V +K P LF G + P G+LL GPPG GK+ +AKA+A
Sbjct: 131 VKWSDVAGLEGAKEALKEAVILPIKFPHLF--TGKRTPWRGILLFGPPGTGKSYLAKAVA 188
Query: 81 GEAG-VPFYQMAGSEFVEVLVGVGSARIRDLFKRAKVNKPSVIFIDEIDALATRRQGIFK 139
EA F+ ++ S+ V +G +++LF+ A+ NKPS+IFIDEID+L R
Sbjct: 189 TEANNSTFFSISSSDLVSKWLGESEKLVKNLFQLARENKPSIIFIDEIDSLCGSR----- 243
Query: 140 DTTDHLYNAATQERETTLNQLLIELDGFDT-GKGVIFLAATNXXXXXXXXXXXXXXFDRK 198
+++ AA + + + L+++ G G++ L ATN F+++
Sbjct: 244 --SENESEAARRIK----TEFLVQMQGVGVDNDGILVLGATN--IPWVLDSAIRRRFEKR 295
Query: 199 IRIRAPNAKGRTEILKIHASKVKMS-DSVDLSSYAKNLPGWTG 240
I I P A R + ++H + S D + G++G
Sbjct: 296 IYIPLPEAHARAAMFRLHLGSTQNSLTEADFQELGRKTDGYSG 338
>pdb|1XWI|A Chain A, Crystal Structure Of Vps4b
Length = 322
Score = 98.6 bits (244), Expect = 7e-21, Method: Compositional matrix adjust.
Identities = 72/223 (32%), Positives = 116/223 (52%), Gaps = 20/223 (8%)
Query: 23 VKFSDVAGIDEAVEELQE-LVRYLKNPELFDKMGIKPP-HGVLLEGPPGCGKTLVAKAIA 80
VK+SDVAG++ A E L+E ++ +K P LF G + P G+LL GPPG GK+ +AKA+A
Sbjct: 9 VKWSDVAGLEGAKEALKEAVILPIKFPHLF--TGKRTPWRGILLFGPPGTGKSYLAKAVA 66
Query: 81 GEAG-VPFYQMAGSEFVEVLVGVGSARIRDLFKRAKVNKPSVIFIDEIDALATRRQGIFK 139
EA F+ ++ S+ V +G +++LF+ A+ NKPS+IFIDEID+L R
Sbjct: 67 TEANNSTFFSISSSDLVSKWLGESEKLVKNLFQLARENKPSIIFIDEIDSLCGSR----- 121
Query: 140 DTTDHLYNAATQERETTLNQLLIELDGFDT-GKGVIFLAATNXXXXXXXXXXXXXXFDRK 198
+++ AA + + + L+++ G G++ L ATN F+++
Sbjct: 122 --SENESEAARRIK----TEFLVQMQGVGVDNDGILVLGATN--IPWVLDSAIRRRFEKR 173
Query: 199 IRIRAPNAKGRTEILKIHASKVKMS-DSVDLSSYAKNLPGWTG 240
I I P R + K+H + S D + G++G
Sbjct: 174 IYIPLPEPHARAAMFKLHLGTTQNSLTEADFRELGRKTDGYSG 216
>pdb|3VFD|A Chain A, Human Spastin Aaa Domain
Length = 389
Score = 97.8 bits (242), Expect = 1e-20, Method: Compositional matrix adjust.
Identities = 62/164 (37%), Positives = 89/164 (54%), Gaps = 17/164 (10%)
Query: 21 TGVKFSDVAGIDEAVEELQELVRYLK-NPELFDKMGIKPP-HGVLLEGPPGCGKTLVAKA 78
T VKF D+AG D A + LQE+V PELF G++ P G+LL GPPG GKT++AKA
Sbjct: 110 TAVKFDDIAGQDLAKQALQEIVILPSLRPELF--TGLRAPARGLLLFGPPGNGKTMLAKA 167
Query: 79 IAGEAGVPFYQMAGSEFVEVLVGVGSARIRDLFKRAKVNKPSVIFIDEIDALATRRQGIF 138
+A E+ F+ ++ + VG G +R LF A+ +PS+IFID++D+L R+
Sbjct: 168 VAAESNATFFNISAASLTSKYVGEGEKLVRALFAVARELQPSIIFIDQVDSLLCERREGE 227
Query: 139 KDTTDHLYNAATQERETTLNQLLIELDGFDTGKG--VIFLAATN 180
D + L + LIE DG + V+ + ATN
Sbjct: 228 HDASRRLK-----------TEFLIEFDGVQSAGDDRVLVMGATN 260
>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 = 94.7 bits (234), Expect = 1e-19, Method: Compositional matrix adjust.
Identities = 55/162 (33%), Positives = 92/162 (56%), Gaps = 17/162 (10%)
Query: 23 VKFSDVAGIDEAVEELQELVRY-LKNPELFDKMGIK-PPHGVLLEGPPGCGKTLVAKAIA 80
V + D+AG++ A ++E+V + + P++F G++ PP G+LL GPPG GKTL+ K IA
Sbjct: 81 VNWEDIAGVEFAKATIKEIVVWPMLRPDIF--TGLRGPPKGILLFGPPGTGKTLIGKCIA 138
Query: 81 GEAGVPFYQMAGSEFVEVLVGVGSARIRDLFKRAKVNKPSVIFIDEIDALATRRQGIFKD 140
++G F+ ++ S VG G +R LF A+ +P+VIFIDEID+L ++R +
Sbjct: 139 SQSGATFFSISASSLTSKWVGEGEKMVRALFAVARCQQPAVIFIDEIDSLLSQRGDGEHE 198
Query: 141 TTDHLYNAATQERETTLNQLLIELDGFDTGKG--VIFLAATN 180
++ + + L++LDG T ++ + ATN
Sbjct: 199 SSRRIK-----------TEFLVQLDGATTSSEDRILVVGATN 229
>pdb|3B9P|A Chain A, Spastin
Length = 297
Score = 91.3 bits (225), Expect = 1e-18, Method: Compositional matrix adjust.
Identities = 71/229 (31%), Positives = 113/229 (49%), Gaps = 21/229 (9%)
Query: 18 QGSTGVKFSDVAGIDEAVEELQELVRYLK-NPELFDKMGIKPP-HGVLLEGPPGCGKTLV 75
+G V+++D+AG D A + LQE+V PELF G++ P G+LL GPPG GKTL+
Sbjct: 13 EGGAKVEWTDIAGQDVAKQALQEMVILPSVRPELF--TGLRAPAKGLLLFGPPGNGKTLL 70
Query: 76 AKAIAGEAGVPFYQMAGSEFVEVLVGVGSARIRDLFKRAKVNKPSVIFIDEIDALATRRQ 135
A+A+A E F ++ + VG G +R LF A+ +PS+IFIDE+D+L + R
Sbjct: 71 ARAVATECSATFLNISAASLTSKYVGDGEKLVRALFAVARHMQPSIIFIDEVDSLLSERS 130
Query: 136 GIFKDTTDHLYNAATQERETTLNQLLIELDGF---DTGKGVIFLAATNXXXXXXXXXXXX 192
+ + L + L+E DG G ++ LAATN
Sbjct: 131 SSEHEASRRLK-----------TEFLVEFDGLPGNPDGDRIVVLAATN--RPQELDEAAL 177
Query: 193 XXFDRKIRIRAPNAKGRTEIL-KIHASKVKMSDSVDLSSYAKNLPGWTG 240
F +++ + P+ + R +L ++ + D+ L AK G++G
Sbjct: 178 RRFTKRVYVSLPDEQTRELLLNRLLQKQGSPLDTEALRRLAKITDGYSG 226
>pdb|2DI4|A Chain A, Crystal Structure Of The Ftsh Protease Domain
pdb|2DI4|B Chain B, Crystal Structure Of The Ftsh Protease Domain
Length = 238
Score = 55.5 bits (132), Expect = 8e-08, Method: Compositional matrix adjust.
Identities = 48/182 (26%), Positives = 86/182 (47%), Gaps = 24/182 (13%)
Query: 320 RISIVPRGQTLSQLVFHRLDDESYMFERRPQLLHRLQVLLGGRAAEEVIYGQD-TSRASV 378
+ISI+PRG L V +L E + L +++ VLLGGRAAEEV +G+D + +
Sbjct: 41 KISIIPRGMALG--VTQQLPIEDKHIYDKKDLYNKILVLLGGRAAEEVFFGKDGITTGAE 98
Query: 379 NYLADASWLARKILTIWNLEN---PMVIHGEPPPWRKKVKFVGPRLDFEGSLYDDYGLTE 435
N L A+ LA +++++W + + P+ I + P L + D T
Sbjct: 99 NDLQRATDLAYRMVSMWGMSDKVGPIAIR----------RVANPFLGGMTTAVD----TS 144
Query: 436 PPVNFNLDDDIAWRTEELLRDMYGRTVTLLRRHHAALLKTVKVLLNQKEIGREEIDFILN 495
P + +D+++ + ++ + Y + ++ + L VK LL ++ I EE +
Sbjct: 145 PDLLREIDEEV----KRIITEQYEKAKAIVEEYKEPLKAVVKKLLEKETITCEEFVEVFK 200
Query: 496 NY 497
Y
Sbjct: 201 LY 202
>pdb|1OFH|A Chain A, Asymmetric Complex Between Hslv And I-domain Deleted Hslu
(h. Influenzae)
pdb|1OFH|B Chain B, Asymmetric Complex Between Hslv And I-domain Deleted Hslu
(h. Influenzae)
pdb|1OFH|C Chain C, Asymmetric Complex Between Hslv And I-domain Deleted Hslu
(h. Influenzae)
pdb|1OFI|A Chain A, Asymmetric Complex Between Hslv And I-Domain Deleted Hslu
(H. Influenzae)
pdb|1OFI|B Chain B, Asymmetric Complex Between Hslv And I-Domain Deleted Hslu
(H. Influenzae)
pdb|1OFI|C Chain C, Asymmetric Complex Between Hslv And I-Domain Deleted Hslu
(H. Influenzae)
Length = 310
Score = 48.5 bits (114), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 35/99 (35%), Positives = 52/99 (52%), Gaps = 18/99 (18%)
Query: 59 PHGVLLEGPPGCGKTLVAKAIAGEAGVPFYQMAGSEFVEV-LVG--VGSARIRDLFKRA- 114
P +L+ GP G GKT +A+ +A A PF ++ ++F EV VG V S IRDL A
Sbjct: 50 PKNILMIGPTGVGKTEIARRLAKLANAPFIKVEATKFTEVGYVGKEVDSI-IRDLTDSAG 108
Query: 115 ----KVNKPSVIFIDEIDALATR---------RQGIFKD 140
V + ++FIDEID + + R+G+ +D
Sbjct: 109 GAIDAVEQNGIVFIDEIDKICKKGEYSGADVSREGVQRD 147
>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 = 44.7 bits (104), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 46/152 (30%), Positives = 69/152 (45%), Gaps = 27/152 (17%)
Query: 38 LQELVRYLKNPELFDKMGIKPPHGVLLEGPPGCGKTLVAKAIAGEAGVPFYQMA------ 91
+Q+L + LK P L L GPPG GKT +AK+IA G F +++
Sbjct: 99 VQKLTKSLKGPIL------------CLAGPPGVGKTSLAKSIAKSLGRKFVRISLGGVRD 146
Query: 92 GSEF---VEVLVGVGSARIRDLFKRAKVNKPSVIFIDEIDALATRRQGIFKDTTDHLYNA 148
SE VG RI K+A P V +DEID +++ +G D + +
Sbjct: 147 ESEIRGHRRTYVGAMPGRIIQGMKKAGKLNP-VFLLDEIDKMSSDFRG---DPSSAMLEV 202
Query: 149 ATQERETTLNQLLIELDGFDTGKGVIFLAATN 180
E+ ++ + IE + FD K V+F+A N
Sbjct: 203 LDPEQNSSFSDHYIE-ETFDLSK-VLFIATAN 232
>pdb|3PVS|A Chain A, Structure And Biochemical Activities Of Escherichia Coli
Mgsa
pdb|3PVS|B Chain B, Structure And Biochemical Activities Of Escherichia Coli
Mgsa
pdb|3PVS|C Chain C, Structure And Biochemical Activities Of Escherichia Coli
Mgsa
pdb|3PVS|D Chain D, Structure And Biochemical Activities Of Escherichia Coli
Mgsa
Length = 447
Score = 44.3 bits (103), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 32/111 (28%), Positives = 52/111 (46%), Gaps = 15/111 (13%)
Query: 60 HGVLLEGPPGCGKTLVAKAIAGEAGVPFYQMAGSEFVEVLVGVGSARIRDLFKRAKVNKP 119
H ++L GPPG GKT +A+ IA A +++ V G IR+ +RA+ N+
Sbjct: 51 HSMILWGPPGTGKTTLAEVIARYANADVERISA-------VTSGVKEIREAIERARQNRN 103
Query: 120 ----SVIFIDEIDALATRRQGIF----KDTTDHLYNAATQERETTLNQLLI 162
+++F+DE+ +Q F +D T A T+ LN L+
Sbjct: 104 AGRRTILFVDEVHRFNKSQQDAFLPHIEDGTITFIGATTENPSFELNSALL 154
>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 = 42.7 bits (99), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 29/72 (40%), Positives = 38/72 (52%), Gaps = 9/72 (12%)
Query: 26 SDVAGIDEAVEELQELVRYLKNPELFDKMGIKPPHGVLLEGPPGCGKTLVAKAIAGEAG- 84
S + G + A E +V +K+ ++ + VLL GPPG GKT +A AIA E G
Sbjct: 37 SGLVGQENAREACGVIVELIKSKKMAGR-------AVLLAGPPGTGKTALALAIAQELGS 89
Query: 85 -VPFYQMAGSEF 95
VPF M GSE
Sbjct: 90 KVPFCPMVGSEV 101
>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 = 40.4 bits (93), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 27/84 (32%), Positives = 39/84 (46%), Gaps = 6/84 (7%)
Query: 61 GVLLEGPPGCGKTLVAKAIAGEAG--VPFYQMAGSEFVEVLV----GVGSARIRDLFKRA 114
VL+ G PG GKT +A +A G PF +AGSE + + + A R + R
Sbjct: 72 AVLIAGQPGTGKTAIAMGMAQALGPDTPFTAIAGSEIFSLEMSKTEALTQAFRRSIGVRI 131
Query: 115 KVNKPSVIFIDEIDALATRRQGIF 138
K + + EID + +R QG
Sbjct: 132 KAGAVHTVSLHEIDVINSRTQGFL 155
>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 = 39.7 bits (91), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 22/37 (59%), Positives = 23/37 (62%), Gaps = 2/37 (5%)
Query: 61 GVLLEGPPGCGKTLVAKAIAGEAG--VPFYQMAGSEF 95
VLL GPPG GKT +A AIA E G VPF GSE
Sbjct: 79 AVLLAGPPGTGKTALALAIAQELGSKVPFCPXVGSEV 115
>pdb|1DO2|A Chain A, Trigonal Crystal Form Of Heat Shock Locus U (Hslu) From
Escherichia Coli
pdb|1DO2|B Chain B, Trigonal Crystal Form Of Heat Shock Locus U (Hslu) From
Escherichia Coli
pdb|1DO2|C Chain C, Trigonal Crystal Form Of Heat Shock Locus U (Hslu) From
Escherichia Coli
pdb|1DO2|D Chain D, Trigonal Crystal Form Of Heat Shock Locus U (Hslu) From
Escherichia Coli
pdb|1DO0|A Chain A, Orthorhombic Crystal Form Of Heat Shock Locus U (Hslu)
From Escherichia Coli
pdb|1DO0|B Chain B, Orthorhombic Crystal Form Of Heat Shock Locus U (Hslu)
From Escherichia Coli
pdb|1DO0|C Chain C, Orthorhombic Crystal Form Of Heat Shock Locus U (Hslu)
From Escherichia Coli
pdb|1DO0|D Chain D, Orthorhombic Crystal Form Of Heat Shock Locus U (Hslu)
From Escherichia Coli
pdb|1DO0|E Chain E, Orthorhombic Crystal Form Of Heat Shock Locus U (Hslu)
From Escherichia Coli
pdb|1DO0|F Chain F, Orthorhombic Crystal Form Of Heat Shock Locus U (Hslu)
From Escherichia Coli
Length = 442
Score = 39.7 bits (91), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 16/40 (40%), Positives = 25/40 (62%)
Query: 59 PHGVLLEGPPGCGKTLVAKAIAGEAGVPFYQMAGSEFVEV 98
P +L+ GP G GKT +A+ +A A PF ++ ++F EV
Sbjct: 49 PKNILMIGPTGVGKTEIARRLAKLANAPFIKVEATKFTEV 88
>pdb|1E94|E Chain E, Hslv-Hslu From E.Coli
pdb|1E94|F Chain F, Hslv-Hslu From E.Coli
pdb|1HT2|E Chain E, Nucleotide-dependent Conformational Changes In A
Protease-associated Atpase Hslu
pdb|1HT2|F Chain F, Nucleotide-dependent Conformational Changes In A
Protease-associated Atpase Hslu
pdb|1HT2|G Chain G, Nucleotide-dependent Conformational Changes In A
Protease-associated Atpase Hslu
pdb|1HT2|H Chain H, Nucleotide-dependent Conformational Changes In A
Protease-associated Atpase Hslu
pdb|1HT1|E Chain E, Nucleotide-Dependent Conformational Changes In A
Protease-Associated Atpase Hslu
pdb|1HT1|F Chain F, Nucleotide-Dependent Conformational Changes In A
Protease-Associated Atpase Hslu
pdb|1HT1|G Chain G, Nucleotide-Dependent Conformational Changes In A
Protease-Associated Atpase Hslu
pdb|1HT1|I Chain I, Nucleotide-Dependent Conformational Changes In A
Protease-Associated Atpase Hslu
pdb|1HQY|E Chain E, Nucleotide-Dependent Conformational Changes In A
Protease-Associated Atpase Hslu
pdb|1HQY|F Chain F, Nucleotide-Dependent Conformational Changes In A
Protease-Associated Atpase Hslu
Length = 449
Score = 39.7 bits (91), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 16/40 (40%), Positives = 25/40 (62%)
Query: 59 PHGVLLEGPPGCGKTLVAKAIAGEAGVPFYQMAGSEFVEV 98
P +L+ GP G GKT +A+ +A A PF ++ ++F EV
Sbjct: 56 PKNILMIGPTGVGKTEIARRLAKLANAPFIKVEATKFTEV 95
>pdb|1G4A|E Chain E, Crystal Structures Of The Hslvu Peptidase-Atpase Complex
Reveal An Atp-Dependent Proteolysis Mechanism
pdb|1G4A|F Chain F, Crystal Structures Of The Hslvu Peptidase-Atpase Complex
Reveal An Atp-Dependent Proteolysis Mechanism
pdb|1G4B|E Chain E, Crystal Structures Of The Hslvu Peptidase-Atpase Complex
Reveal An Atp-Dependent Proteolysis Mechanism
pdb|1G4B|F Chain F, Crystal Structures Of The Hslvu Peptidase-Atpase Complex
Reveal An Atp-Dependent Proteolysis Mechanism
pdb|1G4B|K Chain K, Crystal Structures Of The Hslvu Peptidase-Atpase Complex
Reveal An Atp-Dependent Proteolysis Mechanism
pdb|1G4B|L Chain L, Crystal Structures Of The Hslvu Peptidase-Atpase Complex
Reveal An Atp-Dependent Proteolysis Mechanism
pdb|1YYF|A Chain A, Correction Of X-Ray Intensities From An Hslv-Hslu Co-
Crystal Containing Lattice Translocation Defects
pdb|1YYF|B Chain B, Correction Of X-Ray Intensities From An Hslv-Hslu Co-
Crystal Containing Lattice Translocation Defects
Length = 443
Score = 39.7 bits (91), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 16/40 (40%), Positives = 25/40 (62%)
Query: 59 PHGVLLEGPPGCGKTLVAKAIAGEAGVPFYQMAGSEFVEV 98
P +L+ GP G GKT +A+ +A A PF ++ ++F EV
Sbjct: 50 PKNILMIGPTGVGKTEIARRLAKLANAPFIKVEATKFTEV 89
>pdb|1G3I|A Chain A, Crystal Structure Of The Hsluv Protease-Chaperone
Complex
pdb|1G3I|B Chain B, Crystal Structure Of The Hsluv Protease-Chaperone
Complex
pdb|1G3I|C Chain C, Crystal Structure Of The Hsluv Protease-Chaperone
Complex
pdb|1G3I|D Chain D, Crystal Structure Of The Hsluv Protease-Chaperone
Complex
pdb|1G3I|E Chain E, Crystal Structure Of The Hsluv Protease-Chaperone
Complex
pdb|1G3I|F Chain F, Crystal Structure Of The Hsluv Protease-Chaperone
Complex
pdb|1G3I|S Chain S, Crystal Structure Of The Hsluv Protease-Chaperone
Complex
pdb|1G3I|T Chain T, Crystal Structure Of The Hsluv Protease-Chaperone
Complex
pdb|1G3I|U Chain U, Crystal Structure Of The Hsluv Protease-Chaperone
Complex
pdb|1G3I|V Chain V, Crystal Structure Of The Hsluv Protease-Chaperone
Complex
pdb|1G3I|W Chain W, Crystal Structure Of The Hsluv Protease-Chaperone
Complex
pdb|1G3I|X Chain X, Crystal Structure Of The Hsluv Protease-Chaperone
Complex
pdb|1G41|A Chain A, Crystal Structure Of Hslu Haemophilus Influenzae
pdb|1KYI|A Chain A, Hsluv (h. Influenzae)-nlvs Vinyl Sulfone Inhibitor
Complex
pdb|1KYI|B Chain B, Hsluv (h. Influenzae)-nlvs Vinyl Sulfone Inhibitor
Complex
pdb|1KYI|C Chain C, Hsluv (h. Influenzae)-nlvs Vinyl Sulfone Inhibitor
Complex
pdb|1KYI|D Chain D, Hsluv (h. Influenzae)-nlvs Vinyl Sulfone Inhibitor
Complex
pdb|1KYI|E Chain E, Hsluv (h. Influenzae)-nlvs Vinyl Sulfone Inhibitor
Complex
pdb|1KYI|F Chain F, Hsluv (h. Influenzae)-nlvs Vinyl Sulfone Inhibitor
Complex
pdb|1KYI|S Chain S, Hsluv (h. Influenzae)-nlvs Vinyl Sulfone Inhibitor
Complex
pdb|1KYI|T Chain T, Hsluv (h. Influenzae)-nlvs Vinyl Sulfone Inhibitor
Complex
pdb|1KYI|U Chain U, Hsluv (h. Influenzae)-nlvs Vinyl Sulfone Inhibitor
Complex
pdb|1KYI|V Chain V, Hsluv (h. Influenzae)-nlvs Vinyl Sulfone Inhibitor
Complex
pdb|1KYI|W Chain W, Hsluv (h. Influenzae)-nlvs Vinyl Sulfone Inhibitor
Complex
pdb|1KYI|X Chain X, Hsluv (h. Influenzae)-nlvs Vinyl Sulfone Inhibitor
Complex
Length = 444
Score = 39.7 bits (91), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 16/40 (40%), Positives = 25/40 (62%)
Query: 59 PHGVLLEGPPGCGKTLVAKAIAGEAGVPFYQMAGSEFVEV 98
P +L+ GP G GKT +A+ +A A PF ++ ++F EV
Sbjct: 50 PKNILMIGPTGVGKTEIARRLAKLANAPFIKVEATKFTEV 89
>pdb|1NSF|A Chain A, D2 Hexamerization Domain Of N-Ethylmaleimide Sensitive
Factor (Nsf)
Length = 273
Score = 39.7 bits (91), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 23/74 (31%), Positives = 38/74 (51%), Gaps = 1/74 (1%)
Query: 58 PPHGVLLEGPPGCGKTLVAKAIAGEAGVPFYQMAGSE-FVEVLVGVGSARIRDLFKRAKV 116
P VLLEGPP GKT +A IA E+ PF ++ + + ++ +F A
Sbjct: 62 PLVSVLLEGPPHSGKTALAAKIAEESNFPFIKICSPDKMIGFSETAKCQAMKKIFDDAYK 121
Query: 117 NKPSVIFIDEIDAL 130
++ S + +D+I+ L
Sbjct: 122 SQLSCVVVDDIERL 135
>pdb|1D2N|A Chain A, D2 Domain Of N-Ethylmaleimide-Sensitive Fusion Protein
Length = 272
Score = 39.3 bits (90), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 23/74 (31%), Positives = 38/74 (51%), Gaps = 1/74 (1%)
Query: 58 PPHGVLLEGPPGCGKTLVAKAIAGEAGVPFYQMAGSE-FVEVLVGVGSARIRDLFKRAKV 116
P VLLEGPP GKT +A IA E+ PF ++ + + ++ +F A
Sbjct: 63 PLVSVLLEGPPHSGKTALAAKIAEESNFPFIKICSPDKMIGFSETAKCQAMKKIFDDAYK 122
Query: 117 NKPSVIFIDEIDAL 130
++ S + +D+I+ L
Sbjct: 123 SQLSCVVVDDIERL 136
>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 = 38.1 bits (87), Expect = 0.012, Method: Compositional matrix adjust.
Identities = 29/87 (33%), Positives = 39/87 (44%), Gaps = 9/87 (10%)
Query: 61 GVLLEGPPGCGKTLVAKAIAGEAG--VPFYQMAGSEFVEV----LVGVGSARIRDLFKRA 114
VL+ G PG GKT +A A G PF +AGSE + + A R + R
Sbjct: 87 AVLIAGQPGTGKTAIAXGXAQALGPDTPFTAIAGSEIFSLEXSKTEALTQAFRRSIGVRI 146
Query: 115 KVNKPSVIF---IDEIDALATRRQGIF 138
K P V+ + EID + +R QG
Sbjct: 147 KEGPPGVVHTVSLHEIDVINSRTQGFL 173
>pdb|1IM2|A Chain A, Hslu, Haemophilus Influenzae, Selenomethionine Variant
Length = 444
Score = 38.1 bits (87), Expect = 0.014, Method: Compositional matrix adjust.
Identities = 16/40 (40%), Positives = 24/40 (60%)
Query: 59 PHGVLLEGPPGCGKTLVAKAIAGEAGVPFYQMAGSEFVEV 98
P +L GP G GKT +A+ +A A PF ++ ++F EV
Sbjct: 50 PKNILXIGPTGVGKTEIARRLAKLANAPFIKVEATKFTEV 89
>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 = 37.7 bits (86), Expect = 0.016, Method: Compositional matrix adjust.
Identities = 37/126 (29%), Positives = 54/126 (42%), Gaps = 21/126 (16%)
Query: 25 FSDVAGIDEAVEELQELVRYLKNPELFDKMGIKPPHGVLLEGPPGCGKTLVAKAIA---- 80
+V G DE ++ L+ V P L L GPPG GKT A A+A
Sbjct: 16 LDEVVGQDEVIQRLKGYVERKNIPHL------------LFSGPPGTGKTATAIALARDLF 63
Query: 81 GEAGVP-FYQMAGSEFVEVLVGVGSARIRDLFKRAKVNKP--SVIFIDEIDALATRRQGI 137
GE F +M S+ E + V +I++ + A + +IF+DE DAL Q
Sbjct: 64 GENWRDNFIEMNASD--ERGIDVVRHKIKEFARTAPIGGAPFKIIFLDEADALTADAQAA 121
Query: 138 FKDTTD 143
+ T +
Sbjct: 122 LRRTME 127
>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 = 37.7 bits (86), Expect = 0.018, Method: Compositional matrix adjust.
Identities = 37/126 (29%), Positives = 54/126 (42%), Gaps = 21/126 (16%)
Query: 25 FSDVAGIDEAVEELQELVRYLKNPELFDKMGIKPPHGVLLEGPPGCGKTLVAKAIA---- 80
+V G DE ++ L+ V P L L GPPG GKT A A+A
Sbjct: 16 LDEVVGQDEVIQRLKGYVERKNIPHL------------LFSGPPGTGKTATAIALARDLF 63
Query: 81 GEAGVP-FYQMAGSEFVEVLVGVGSARIRDLFKRAKVNKP--SVIFIDEIDALATRRQGI 137
GE F +M S+ E + V +I++ + A + +IF+DE DAL Q
Sbjct: 64 GENWRDNFIEMNASD--ERGIDVVRHKIKEFARTAPIGGAPFKIIFLDEADALTADAQAA 121
Query: 138 FKDTTD 143
+ T +
Sbjct: 122 LRRTME 127
>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 = 37.4 bits (85), Expect = 0.021, Method: Compositional matrix adjust.
Identities = 38/128 (29%), Positives = 55/128 (42%), Gaps = 23/128 (17%)
Query: 24 KFSDVAGIDEAVEELQELVRYLKNPELFDKMGIKPPHGVLLEGPPGCGKTLVAKAIAGEA 83
+ D+ G + V+ L+ Y+K + PH +L GPPG GKT A A+A E
Sbjct: 23 RLDDIVGQEHIVKRLKH---YVKTGSM--------PH-LLFAGPPGVGKTTAALALAREL 70
Query: 84 GVPFYQMAGSEFVEVLVG--VGSARIRDLFKRAKVNKP------SVIFIDEIDALATRRQ 135
F + F+E+ G IR+ K KP +IF+DE DAL Q
Sbjct: 71 ---FGENWRHNFLELNASDERGINVIREKVKEFARTKPIGGASFKIIFLDEADALTQDAQ 127
Query: 136 GIFKDTTD 143
+ T +
Sbjct: 128 QALRRTME 135
>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 = 36.2 bits (82), Expect = 0.048, Method: Compositional matrix adjust.
Identities = 14/37 (37%), Positives = 25/37 (67%)
Query: 204 PNAKGRTEILKIHASKVKMSDSVDLSSYAKNLPGWTG 240
PN + R +ILKIH+ K+ ++ ++L A+ +PG +G
Sbjct: 11 PNEEARLDILKIHSRKMNLTRGINLRKIAELMPGASG 47
>pdb|1IN5|A Chain A, Thermogota Maritima Ruvb A156s Mutant
Length = 334
Score = 35.4 bits (80), Expect = 0.091, Method: Compositional matrix adjust.
Identities = 29/70 (41%), Positives = 34/70 (48%), Gaps = 10/70 (14%)
Query: 62 VLLEGPPGCGKTLVAKAIAGEAGVPFYQMAGSEFVEVLVGVGS-ARIRDLFKRAKVNKPS 120
VLL GPPG GKT +A IA E + +G VLV G A I +R
Sbjct: 54 VLLAGPPGLGKTTLAHIIASELQTNIHVTSGP----VLVKQGDMAAILTSLERG-----D 104
Query: 121 VIFIDEIDAL 130
V+FIDEI L
Sbjct: 105 VLFIDEIHRL 114
>pdb|1IN4|A Chain A, Thermotoga Maritima Ruvb Holliday Junction Branch
Migration Motor
Length = 334
Score = 35.0 bits (79), Expect = 0.094, Method: Compositional matrix adjust.
Identities = 29/70 (41%), Positives = 34/70 (48%), Gaps = 10/70 (14%)
Query: 62 VLLEGPPGCGKTLVAKAIAGEAGVPFYQMAGSEFVEVLVGVGS-ARIRDLFKRAKVNKPS 120
VLL GPPG GKT +A IA E + +G VLV G A I +R
Sbjct: 54 VLLAGPPGLGKTTLAHIIASELQTNIHVTSGP----VLVKQGDMAAILTSLERG-----D 104
Query: 121 VIFIDEIDAL 130
V+FIDEI L
Sbjct: 105 VLFIDEIHRL 114
>pdb|1IN7|A Chain A, Thermotoga Maritima Ruvb R170a
Length = 334
Score = 35.0 bits (79), Expect = 0.099, Method: Compositional matrix adjust.
Identities = 29/70 (41%), Positives = 34/70 (48%), Gaps = 10/70 (14%)
Query: 62 VLLEGPPGCGKTLVAKAIAGEAGVPFYQMAGSEFVEVLVGVGS-ARIRDLFKRAKVNKPS 120
VLL GPPG GKT +A IA E + +G VLV G A I +R
Sbjct: 54 VLLAGPPGLGKTTLAHIIASELQTNIHVTSGP----VLVKQGDMAAILTSLERG-----D 104
Query: 121 VIFIDEIDAL 130
V+FIDEI L
Sbjct: 105 VLFIDEIHRL 114
>pdb|1J7K|A Chain A, Thermotoga Maritima Ruvb P216g Mutant
Length = 334
Score = 35.0 bits (79), Expect = 0.099, Method: Compositional matrix adjust.
Identities = 29/70 (41%), Positives = 34/70 (48%), Gaps = 10/70 (14%)
Query: 62 VLLEGPPGCGKTLVAKAIAGEAGVPFYQMAGSEFVEVLVGVGS-ARIRDLFKRAKVNKPS 120
VLL GPPG GKT +A IA E + +G VLV G A I +R
Sbjct: 54 VLLAGPPGLGKTTLAHIIASELQTNIHVTSGP----VLVKQGDMAAILTSLERG-----D 104
Query: 121 VIFIDEIDAL 130
V+FIDEI L
Sbjct: 105 VLFIDEIHRL 114
>pdb|1IN8|A Chain A, Thermotoga Maritima Ruvb T158v
Length = 334
Score = 35.0 bits (79), Expect = 0.10, Method: Compositional matrix adjust.
Identities = 29/70 (41%), Positives = 34/70 (48%), Gaps = 10/70 (14%)
Query: 62 VLLEGPPGCGKTLVAKAIAGEAGVPFYQMAGSEFVEVLVGVGS-ARIRDLFKRAKVNKPS 120
VLL GPPG GKT +A IA E + +G VLV G A I +R
Sbjct: 54 VLLAGPPGLGKTTLAHIIASELQTNIHVTSGP----VLVKQGDMAAILTSLERG-----D 104
Query: 121 VIFIDEIDAL 130
V+FIDEI L
Sbjct: 105 VLFIDEIHRL 114
>pdb|1IXR|C Chain C, Ruva-Ruvb Complex
Length = 312
Score = 35.0 bits (79), Expect = 0.10, Method: Compositional matrix adjust.
Identities = 29/92 (31%), Positives = 44/92 (47%), Gaps = 14/92 (15%)
Query: 57 KPPHGVLLEGPPGCGKTLVAKAIAGEAGVPFYQMAGSEFVEVLVGVGSARIRDLFKRAKV 116
+P +LL GPPG GKT +A IA E GV +G + G +A + + +
Sbjct: 36 EPLEHLLLFGPPGLGKTTLAHVIAHELGVNLRVTSGPAIEK--PGDLAAILAN-----SL 88
Query: 117 NKPSVIFIDEIDALATRRQGIFKDTTDHLYNA 148
+ ++FIDEI L+ + +HLY A
Sbjct: 89 EEGDILFIDEIHRLS-------RQAEEHLYPA 113
>pdb|1IXS|B Chain B, Structure Of Ruvb Complexed With Ruva Domain Iii
Length = 318
Score = 34.7 bits (78), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 29/92 (31%), Positives = 44/92 (47%), Gaps = 14/92 (15%)
Query: 57 KPPHGVLLEGPPGCGKTLVAKAIAGEAGVPFYQMAGSEFVEVLVGVGSARIRDLFKRAKV 116
+P +LL GPPG GKT +A IA E GV +G + G +A + + +
Sbjct: 36 EPLEHLLLFGPPGLGKTTLAHVIAHELGVNLRVTSGPAIEK--PGDLAAILAN-----SL 88
Query: 117 NKPSVIFIDEIDALATRRQGIFKDTTDHLYNA 148
+ ++FIDEI L+ + +HLY A
Sbjct: 89 EEGDILFIDEIHRLS-------RQAEEHLYPA 113
>pdb|1UM8|A Chain A, Crystal Structure Of Helicobacter Pylori Clpx
Length = 376
Score = 34.7 bits (78), Expect = 0.14, Method: Compositional matrix adjust.
Identities = 23/92 (25%), Positives = 42/92 (45%), Gaps = 12/92 (13%)
Query: 61 GVLLEGPPGCGKTLVAKAIAGEAGVPFYQMAGSEFVEVLVGVGSARIRDLFKR------- 113
+LL GP G GKTL+A+ +A +P + E G + ++ R
Sbjct: 74 NILLIGPTGSGKTLMAQTLAKHLDIPIAISDATSLTE--AGYVGEDVENILTRLLQASDW 131
Query: 114 -AKVNKPSVIFIDEIDALA--TRRQGIFKDTT 142
+ + ++FIDEID ++ + + I +D +
Sbjct: 132 NVQKAQKGIVFIDEIDKISRLSENRSITRDVS 163
>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 = 0.15, Method: Compositional matrix adjust.
Identities = 29/92 (31%), Positives = 44/92 (47%), Gaps = 14/92 (15%)
Query: 57 KPPHGVLLEGPPGCGKTLVAKAIAGEAGVPFYQMAGSEFVEVLVGVGSARIRDLFKRAKV 116
+P +LL GPPG GKT +A IA E GV +G + G +A + + +
Sbjct: 36 EPLEHLLLFGPPGLGKTTLAHVIAHELGVNLRVTSGPAIEK--PGDLAAILAN-----SL 88
Query: 117 NKPSVIFIDEIDALATRRQGIFKDTTDHLYNA 148
+ ++FIDEI L+ + +HLY A
Sbjct: 89 EEGDILFIDEIHRLS-------RQAEEHLYPA 113
>pdb|1IN6|A Chain A, Thermotoga Maritima Ruvb K64r Mutant
Length = 334
Score = 34.3 bits (77), Expect = 0.20, Method: Compositional matrix adjust.
Identities = 28/70 (40%), Positives = 34/70 (48%), Gaps = 10/70 (14%)
Query: 62 VLLEGPPGCGKTLVAKAIAGEAGVPFYQMAGSEFVEVLVGVGS-ARIRDLFKRAKVNKPS 120
VLL GPPG G+T +A IA E + +G VLV G A I +R
Sbjct: 54 VLLAGPPGLGRTTLAHIIASELQTNIHVTSGP----VLVKQGDMAAILTSLERG-----D 104
Query: 121 VIFIDEIDAL 130
V+FIDEI L
Sbjct: 105 VLFIDEIHRL 114
>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 = 33.5 bits (75), Expect = 0.28, Method: Compositional matrix adjust.
Identities = 14/37 (37%), Positives = 23/37 (62%)
Query: 204 PNAKGRTEILKIHASKVKMSDSVDLSSYAKNLPGWTG 240
PN + R +ILKIH+ K ++ ++L A+ PG +G
Sbjct: 3 PNEEARLDILKIHSRKXNLTRGINLRKIAELXPGASG 39
>pdb|3HWS|A Chain A, Crystal Structure Of Nucleotide-Bound Hexameric Clpx
pdb|3HWS|B Chain B, Crystal Structure Of Nucleotide-Bound Hexameric Clpx
pdb|3HWS|C Chain C, Crystal Structure Of Nucleotide-Bound Hexameric Clpx
pdb|3HWS|D Chain D, Crystal Structure Of Nucleotide-Bound Hexameric Clpx
pdb|3HWS|E Chain E, Crystal Structure Of Nucleotide-Bound Hexameric Clpx
pdb|3HWS|F Chain F, Crystal Structure Of Nucleotide-Bound Hexameric Clpx
Length = 363
Score = 32.7 bits (73), Expect = 0.47, Method: Compositional matrix adjust.
Identities = 23/78 (29%), Positives = 40/78 (51%), Gaps = 6/78 (7%)
Query: 62 VLLEGPPGCGKTLVAKAIAGEAGVPFYQMAGSEFVEV-LVGVGSAR-IRDLFKRAKVN-- 117
+LL GP G GKTL+A+ +A VPF + E VG I+ L ++ +
Sbjct: 54 ILLIGPTGSGKTLLAETLARLLDVPFTMADATTLTEAGYVGEDVENIIQKLLQKCDYDVQ 113
Query: 118 --KPSVIFIDEIDALATR 133
+ +++ID+ID ++ +
Sbjct: 114 KAQRGIVYIDQIDKISRK 131
>pdb|3HTE|A Chain A, Crystal Structure Of Nucleotide-Free Hexameric Clpx
pdb|3HTE|B Chain B, Crystal Structure Of Nucleotide-Free Hexameric Clpx
pdb|3HTE|C Chain C, Crystal Structure Of Nucleotide-Free Hexameric Clpx
pdb|3HTE|D Chain D, Crystal Structure Of Nucleotide-Free Hexameric Clpx
pdb|3HTE|E Chain E, Crystal Structure Of Nucleotide-Free Hexameric Clpx
pdb|3HTE|F Chain F, Crystal Structure Of Nucleotide-Free Hexameric Clpx
Length = 363
Score = 32.7 bits (73), Expect = 0.48, Method: Compositional matrix adjust.
Identities = 23/78 (29%), Positives = 40/78 (51%), Gaps = 6/78 (7%)
Query: 62 VLLEGPPGCGKTLVAKAIAGEAGVPFYQMAGSEFVEV-LVGVGSAR-IRDLFKRAKVN-- 117
+LL GP G GKTL+A+ +A VPF + E VG I+ L ++ +
Sbjct: 54 ILLIGPTGSGKTLLAETLARLLDVPFTMADATTLTEAGYVGEDVENIIQKLLQKCDYDVQ 113
Query: 118 --KPSVIFIDEIDALATR 133
+ +++ID+ID ++ +
Sbjct: 114 KAQRGIVYIDQIDKISRK 131
>pdb|1KSF|X Chain X, Crystal Structure Of Clpa, An Hsp100 Chaperone And
Regulator Of Clpap Protease: Structural Basis Of
Differences In Function Of The Two Aaa+ Atpase Domains
pdb|1R6B|X Chain X, High Resolution Crystal Structure Of Clpa
Length = 758
Score = 32.0 bits (71), Expect = 0.79, Method: Compositional matrix adjust.
Identities = 21/70 (30%), Positives = 33/70 (47%), Gaps = 3/70 (4%)
Query: 28 VAGIDEAVEELQELVRYLKNPELFDKMGIKPPHGVLLEGPPGCGKTLVAKAIAGEAGVPF 87
V G D+A+E L E ++ + + KP L GP G GKT V ++ G+
Sbjct: 460 VFGQDKAIEALTEAIKMARAGLGHEH---KPVGSFLFAGPTGVGKTEVTVQLSKALGIEL 516
Query: 88 YQMAGSEFVE 97
+ SE++E
Sbjct: 517 LRFDMSEYME 526
>pdb|1JMJ|A Chain A, Crystal Structure Of Native Heparin Cofactor Ii
pdb|1JMJ|B Chain B, Crystal Structure Of Native Heparin Cofactor Ii
Length = 480
Score = 32.0 bits (71), Expect = 0.88, Method: Compositional matrix adjust.
Identities = 25/75 (33%), Positives = 31/75 (41%), Gaps = 7/75 (9%)
Query: 260 ESILSSDMD--DAVDRLTVGPKRRGIELGN-----QGQSRRAATEVGVAMISHLLRRYEN 312
E I S D D D VD L+V P + GN G+SR + A + L R
Sbjct: 64 EKIFSEDDDYIDIVDSLSVSPTDSDVSAGNILQLFHGKSRIQRLNILNAKFAFNLYRVLK 123
Query: 313 AKVECCDRISIVPRG 327
+V D I I P G
Sbjct: 124 DQVNTFDNIFIAPVG 138
>pdb|1BD3|D Chain D, Structure Of The Apo Uracil Phosphoribosyltransferase, 2
Mutant C128v
pdb|1BD3|C Chain C, Structure Of The Apo Uracil Phosphoribosyltransferase, 2
Mutant C128v
pdb|1BD3|B Chain B, Structure Of The Apo Uracil Phosphoribosyltransferase, 2
Mutant C128v
pdb|1BD3|A Chain A, Structure Of The Apo Uracil Phosphoribosyltransferase, 2
Mutant C128v
pdb|1BD4|D Chain D, Uprt-Uracil Complex
pdb|1BD4|C Chain C, Uprt-Uracil Complex
pdb|1BD4|B Chain B, Uprt-Uracil Complex
pdb|1BD4|A Chain A, Uprt-Uracil Complex
pdb|1JLS|B Chain B, Structure Of The Uracil Phosphoribosyltransferase
UracilCPR 2 MUTANT C128V
pdb|1JLS|A Chain A, Structure Of The Uracil Phosphoribosyltransferase
UracilCPR 2 MUTANT C128V
pdb|1JLS|D Chain D, Structure Of The Uracil Phosphoribosyltransferase
UracilCPR 2 MUTANT C128V
pdb|1JLS|C Chain C, Structure Of The Uracil Phosphoribosyltransferase
UracilCPR 2 MUTANT C128V
pdb|1JLR|A Chain A, Structure Of The Uracil Phosphoribosyltransferase Gtp
Complex 2 Mutant C128v
pdb|1JLR|B Chain B, Structure Of The Uracil Phosphoribosyltransferase Gtp
Complex 2 Mutant C128v
pdb|1JLR|D Chain D, Structure Of The Uracil Phosphoribosyltransferase Gtp
Complex 2 Mutant C128v
pdb|1JLR|C Chain C, Structure Of The Uracil Phosphoribosyltransferase Gtp
Complex 2 Mutant C128v
Length = 243
Score = 31.2 bits (69), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 24/88 (27%), Positives = 42/88 (47%), Gaps = 9/88 (10%)
Query: 451 EELLRDMYGRTVTLLRRHHAALLKTVKVLLNQKEIGREEIDFILNNYPPQTPISRLLEEE 510
E +L+D+ R ++ A L+ + ++ KE +EE F + + RLL EE
Sbjct: 22 ESILQDIITRFPNVVLMKQTAQLRAMMTIIRDKETPKEEFVFYADR------LIRLLIEE 75
Query: 511 NPGTLPFIKQEQCSQVE---HALVNHSK 535
LPF K+E + ++ H + +SK
Sbjct: 76 ALNELPFQKKEVTTPLDVSYHGVSFYSK 103
>pdb|1SXJ|B Chain B, Crystal Structure Of The Eukaryotic Clamp Loader
(Replication Factor C, Rfc) Bound To The Dna Sliding
Clamp (Proliferating Cell Nuclear Antigen, Pcna)
Length = 323
Score = 31.2 bits (69), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 27/140 (19%), Positives = 61/140 (43%), Gaps = 33/140 (23%)
Query: 25 FSDVAGIDEAVEELQELVRYLKNPELFDKMGIKPPHGVLLEGPPGCGKTLVAKAIAGEAG 84
SD+ G E ++ LQ++ + P + ++ G PG GKT +A
Sbjct: 20 LSDIVGNKETIDRLQQIAKDGNMPHM------------IISGMPGIGKTTSVHCLA---- 63
Query: 85 VPFYQMAGSEFVEVLVGVGSARIRDL---------FKRAKVNKP----SVIFIDEIDALA 131
+++ G + + ++ + ++ R + F + K++ P ++ +DE D++
Sbjct: 64 ---HELLGRSYADGVLELNASDDRGIDVVRNQIKHFAQKKLHLPPGKHKIVILDEADSMT 120
Query: 132 TRRQGIFKDTTDHLYNAATQ 151
Q + T + LY+ +T+
Sbjct: 121 AGAQQALRRTME-LYSNSTR 139
>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 = 31.2 bits (69), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 25/88 (28%), Positives = 37/88 (42%), Gaps = 12/88 (13%)
Query: 61 GVLLEGPPGCGKTLVAKAIAGEAGVPFYQMAGSEF-VEVLVGVGSARIRD------LFKR 113
+L GPPG GKT A +A E G + S+ + L+ G D FK
Sbjct: 79 AAMLYGPPGIGKTTAAHLVAQELGYDILEQNASDVRSKTLLNAGVKNALDNMSVVGYFKH 138
Query: 114 AK-----VNKPSVIFIDEIDALATRRQG 136
+ K VI +DE+D ++ +G
Sbjct: 139 NEEAQNLNGKHFVIIMDEVDGMSGGDRG 166
>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 = 31.2 bits (69), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 27/104 (25%), Positives = 45/104 (43%), Gaps = 23/104 (22%)
Query: 59 PHGVLLEGPPGCGKTLVAKAIAGEAGVPFYQMAGSEFVEVL------VGVGSARIRDLFK 112
PH +L GPPG GKT A+ E P + S +E+ + + ++++ F
Sbjct: 59 PH-MLFYGPPGTGKTSTILALTKELYGP--DLMKSRILELNASDERGISIVREKVKN-FA 114
Query: 113 RAKVNKPS-------------VIFIDEIDALATRRQGIFKDTTD 143
R V+KPS +I +DE D++ Q + T +
Sbjct: 115 RLTVSKPSKHDLENYPCPPYKIIILDEADSMTADAQSALRRTME 158
>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 = 31.2 bits (69), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 27/77 (35%), Positives = 33/77 (42%), Gaps = 12/77 (15%)
Query: 57 KPPHGVLLEGPPGCGKTLVAKAIAGEAGVPFYQMAGS----EFVE-VLVGVGSARIRDLF 111
K PH +L PG GKT VAKA+ + + GS +FV L SA D
Sbjct: 46 KIPHIILHSPSPGTGKTTVAKALCHDVNADMMFVNGSDCKIDFVRGPLTNFASAASFD-- 103
Query: 112 KRAKVNKPSVIFIDEID 128
+ VI IDE D
Sbjct: 104 -----GRQKVIVIDEFD 115
>pdb|1UPU|D Chain D, Structure Of The Uracil Phosphoribosyltransferase, Mutant
C128v, Bound To Product Uridine-1-Monophosphate (Ump)
pdb|1UPU|C Chain C, Structure Of The Uracil Phosphoribosyltransferase, Mutant
C128v, Bound To Product Uridine-1-Monophosphate (Ump)
pdb|1UPU|B Chain B, Structure Of The Uracil Phosphoribosyltransferase, Mutant
C128v, Bound To Product Uridine-1-Monophosphate (Ump)
pdb|1UPU|A Chain A, Structure Of The Uracil Phosphoribosyltransferase, Mutant
C128v, Bound To Product Uridine-1-Monophosphate (Ump)
pdb|1UPF|D Chain D, Structure Of The Uracil Phosphoribosyltransferase, Mutant
C128v Bound To The Drug 5-Fluorouracil
pdb|1UPF|C Chain C, Structure Of The Uracil Phosphoribosyltransferase, Mutant
C128v Bound To The Drug 5-Fluorouracil
pdb|1UPF|B Chain B, Structure Of The Uracil Phosphoribosyltransferase, Mutant
C128v Bound To The Drug 5-Fluorouracil
pdb|1UPF|A Chain A, Structure Of The Uracil Phosphoribosyltransferase, Mutant
C128v Bound To The Drug 5-Fluorouracil
Length = 224
Score = 30.8 bits (68), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 24/88 (27%), Positives = 42/88 (47%), Gaps = 9/88 (10%)
Query: 451 EELLRDMYGRTVTLLRRHHAALLKTVKVLLNQKEIGREEIDFILNNYPPQTPISRLLEEE 510
E +L+D+ R ++ A L+ + ++ KE +EE F + + RLL EE
Sbjct: 3 ESILQDIITRFPNVVLMKQTAQLRAMMTIIRDKETPKEEFVFYADR------LIRLLIEE 56
Query: 511 NPGTLPFIKQEQCSQVE---HALVNHSK 535
LPF K+E + ++ H + +SK
Sbjct: 57 ALNELPFQKKEVTTPLDVSYHGVSFYSK 84
>pdb|1ZP6|A Chain A, Crystal Structure Of Atu3015, A Putative Cytidylate
Kinase From Agrobacterium Tumefaciens, Northeast
Structural Genomics Target Atr62
Length = 191
Score = 30.4 bits (67), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 13/25 (52%), Positives = 18/25 (72%)
Query: 62 VLLEGPPGCGKTLVAKAIAGEAGVP 86
+LL G PG GK+ +A+A+A GVP
Sbjct: 12 LLLSGHPGSGKSTIAEALANLPGVP 36
>pdb|1RKB|A Chain A, The Structure Of Adrenal Gland Protein Ad-004
Length = 173
Score = 30.0 bits (66), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 11/27 (40%), Positives = 18/27 (66%)
Query: 61 GVLLEGPPGCGKTLVAKAIAGEAGVPF 87
+LL G PG GKT + K +A ++G+ +
Sbjct: 6 NILLTGTPGVGKTTLGKELASKSGLKY 32
>pdb|1G29|1 Chain 1, Malk
pdb|1G29|2 Chain 2, Malk
Length = 372
Score = 29.6 bits (65), Expect = 3.9, Method: Compositional matrix adjust.
Identities = 19/61 (31%), Positives = 29/61 (47%), Gaps = 11/61 (18%)
Query: 21 TGVKFSDVAGIDEAVEELQELVRYLKNPELFDKMGIKPPHGVLLEGPPGCGKTLVAKAIA 80
GV+ DV + V ++E+ +K+ E ++L GP GCGKT + IA
Sbjct: 2 AGVRLVDVWKVFGEVTAVREMSLEVKDGEF-----------MILLGPSGCGKTTTLRMIA 50
Query: 81 G 81
G
Sbjct: 51 G 51
>pdb|4FCT|A Chain A, Crystal Structure Of The C-Terminal Domain Of Clpb
pdb|4FD2|A Chain A, Crystal Structure Of The C-Terminal Domain Of Clpb
pdb|4FD2|B Chain B, Crystal Structure Of The C-Terminal Domain Of Clpb
pdb|4FD2|D Chain D, Crystal Structure Of The C-Terminal Domain Of Clpb
Length = 308
Score = 29.6 bits (65), Expect = 4.4, Method: Compositional matrix adjust.
Identities = 20/58 (34%), Positives = 28/58 (48%), Gaps = 11/58 (18%)
Query: 28 VAGIDEAVEELQELVRY----LKNPELFDKMGIKPPHGVLLEGPPGCGKTLVAKAIAG 81
V G DEA+ + + +R LK+P +P L GP G GKT +AK +A
Sbjct: 16 VVGQDEAIRAVADAIRRARAGLKDPN-------RPIGSFLFLGPTGVGKTELAKTLAA 66
>pdb|3IIJ|A Chain A, The Structure Of Hcinap-Adp Complex At 1.76 Angstroms
Resolution.
pdb|3IIK|A Chain A, The Structure Of Hcinap-So4 Complex At 1.95 Angstroms
Resolution
pdb|3IIL|A Chain A, The Structure Of Hcinap-Mgadp-Pi Complex At 2.0
Angstroms Resolution
pdb|3IIM|A Chain A, The Structure Of Hcinap-Dadp Complex At 2.0 Angstroms
Resolution
Length = 180
Score = 29.6 bits (65), Expect = 4.4, Method: Compositional matrix adjust.
Identities = 11/26 (42%), Positives = 18/26 (69%)
Query: 62 VLLEGPPGCGKTLVAKAIAGEAGVPF 87
+LL G PG GKT + K +A ++G+ +
Sbjct: 14 ILLTGTPGVGKTTLGKELASKSGLKY 39
>pdb|4FCV|A Chain A, Crystal Structure Of The C-Terminal Domain Of Clpb
pdb|4FCV|B Chain B, Crystal Structure Of The C-Terminal Domain Of Clpb
pdb|4FCV|C Chain C, Crystal Structure Of The C-Terminal Domain Of Clpb
pdb|4FCW|A Chain A, Crystal Structure Of The C-Terminal Domain Of Clpb
pdb|4FCW|C Chain C, Crystal Structure Of The C-Terminal Domain Of Clpb
pdb|4FCW|F Chain F, Crystal Structure Of The C-Terminal Domain Of Clpb
Length = 311
Score = 29.6 bits (65), Expect = 4.8, Method: Compositional matrix adjust.
Identities = 20/58 (34%), Positives = 28/58 (48%), Gaps = 11/58 (18%)
Query: 28 VAGIDEAVEELQELVRY----LKNPELFDKMGIKPPHGVLLEGPPGCGKTLVAKAIAG 81
V G DEA+ + + +R LK+P +P L GP G GKT +AK +A
Sbjct: 19 VVGQDEAIRAVADAIRRARAGLKDPN-------RPIGSFLFLGPTGVGKTELAKTLAA 69
>pdb|3TAN|A Chain A, Crystal Structure Of Bacillus Dna Polymerase I Large
Fragment Bound To Duplex Dna With Cytosine-Adenine
Mismatch At (N-1) Position
pdb|3TAP|A Chain A, Crystal Structure Of Bacillus Dna Polymerase I Large
Fragment Bound To Duplex Dna With Cytosine-Adenine
Mismatch At (N-3) Position
pdb|3TAQ|A Chain A, Crystal Structure Of Bacillus Dna Polymerase I Large
Fragment Bound To Duplex Dna With Cytosine-Adenine
Mismatch At (N-4) Position
pdb|3TAR|A Chain A, Crystal Structure Of Bacillus Dna Polymerase I Large
Fragment Bound To Duplex Dna With Cytosine-Adenine
Mismatch At (N-6) Position
pdb|4DQS|A Chain A, Binary Complex Of Bacillus Dna Polymerase I Large Fragment
And Duplex Dna With Rc In Primer Terminus Paired With Dg
Of Template
Length = 592
Score = 29.6 bits (65), Expect = 4.8, Method: Compositional matrix adjust.
Identities = 14/38 (36%), Positives = 19/38 (50%)
Query: 365 EEVIYGQDTSRASVNYLADASWLARKILTIWNLENPMV 402
+E +YG+ RA + A L RK IW LE P +
Sbjct: 141 DEAVYGKGAKRAVPDEPVLAEHLVRKAAAIWELERPFL 178
>pdb|4DQQ|A Chain A, Ternary Complex Of Bacillus Dna Polymerase I Large
Fragment E658a, Dna Duplex, And Rctp (Paired With Dg Of
Template) In Presence Of Mg2+
pdb|4DQQ|D Chain D, Ternary Complex Of Bacillus Dna Polymerase I Large
Fragment E658a, Dna Duplex, And Rctp (Paired With Dg Of
Template) In Presence Of Mg2+
pdb|4DQR|A Chain A, Ternary Complex Of Bacillus Dna Polymerase I Large
Fragment E658a, Dna Duplex, And Rctp (Paired With Dg Of
Template) In Presence Of Mn2+
pdb|4DQR|D Chain D, Ternary Complex Of Bacillus Dna Polymerase I Large
Fragment E658a, Dna Duplex, And Rctp (Paired With Dg Of
Template) In Presence Of Mn2+
pdb|4E0D|A Chain A, Binary Complex Of Bacillus Dna Polymerase I Large Fragment
E658a And Duplex Dna
Length = 592
Score = 29.6 bits (65), Expect = 4.8, Method: Compositional matrix adjust.
Identities = 14/38 (36%), Positives = 19/38 (50%)
Query: 365 EEVIYGQDTSRASVNYLADASWLARKILTIWNLENPMV 402
+E +YG+ RA + A L RK IW LE P +
Sbjct: 141 DEAVYGKGAKRAVPDEPVLAEHLVRKAAAIWELERPFL 178
>pdb|3HT3|A Chain A, Crystal Structure Of Fragment Dna Polymerase I From
Bacillus Stearothermophilus V713p Mutant Bound To G:dctp
pdb|3HT3|D Chain D, Crystal Structure Of Fragment Dna Polymerase I From
Bacillus Stearothermophilus V713p Mutant Bound To G:dctp
Length = 579
Score = 29.6 bits (65), Expect = 4.8, Method: Compositional matrix adjust.
Identities = 14/38 (36%), Positives = 19/38 (50%)
Query: 365 EEVIYGQDTSRASVNYLADASWLARKILTIWNLENPMV 402
+E +YG+ RA + A L RK IW LE P +
Sbjct: 128 DEAVYGKGAKRAVPDEPVLAEHLVRKAAAIWELERPFL 165
>pdb|1L3S|A Chain A, Crystal Structure Of Bacillus Dna Polymerase I Fragment
Complexed To 9 Base Pairs Of Duplex Dna.
pdb|1L3T|A Chain A, Crystal Structure Of Bacillus Dna Polymerase I Fragment
Product Complex With 10 Base Pairs Of Duplex Dna
Following Addition Of A Single Dttp Residue
pdb|1L3U|A Chain A, Crystal Structure Of Bacillus Dna Polymerase I Fragment
Product Complex With 11 Base Pairs Of Duplex Dna
Following Addition Of A Dttp And A Datp Residue.
pdb|1L3V|A Chain A, Crystal Structure Of Bacillus Dna Polymerase I Fragment
Product Complex With 15 Base Pairs Of Duplex Dna
Following Addition Of Dttp, Datp, Dctp, And Dgtp
Residues.
pdb|1L5U|A Chain A, Crystal Structure Of Bacillus Dna Polymerase I Fragment
Product Complex With 12 Base Pairs Of Duplex Dna
Following Addition Of A Dttp, A Datp, And A Dctp
Residue.
pdb|1NJW|A Chain A, Guanine-Thymine Mismatch At The Polymerase Active Site
pdb|1NJX|A Chain A, Thymine-Guanine Mismatch At The Polymerase Active Site
pdb|1NJY|A Chain A, Thymine-Thymine Mismatch At The Polymerase Active Site
pdb|1NJZ|A Chain A, Cytosine-thymine Mismatch At The Polymerase Active Site
pdb|1NK0|A Chain A, Adenine-Guanine Mismatch At The Polymerase Active Site
pdb|1NK4|A Chain A, Guanine-Guanine Mismatch At The Polymerase Active Site
pdb|1NK5|A Chain A, Adenine-Adenine Mismatch At The Polymerase Active Site
pdb|1NK6|A Chain A, Cytosine-Cytosine Mismatch At The Polymerase Active Site
pdb|1NK7|A Chain A, Guanine-Adenine Mismatch At The Polymerase Active Site
pdb|1NK8|A Chain A, A Bacillus Dna Polymerase I Product Complex Bound To A
Guanine-Thymine Mismatch After A Single Round Of Primer
Extension, Following Incorporation Of Dctp.
pdb|1NK9|A Chain A, A Bacillus Dna Polymerase I Product Complex Bound To A
Guanine-Thymine Mismatch After Two Rounds Of Primer
Extension, Following Incorporation Of Dctp And Dgtp.
pdb|1NKB|A Chain A, A Bacillus Dna Polymerase I Product Complex Bound To A
Guanine-Thymine Mismatch After Three Rounds Of Primer
Extension, Following Incorporation Of Dctp, Dgtp, And
Dttp.
pdb|1NKC|A Chain A, A Bacillus Dna Polymerase I Product Complex Bound To A
Guanine-Thymine Mismatch After Five Rounds Of Primer
Extension, Following Incorporation Of Dctp, Dgtp, Dttp,
And Datp.
pdb|1NKE|A Chain A, A Bacillus Dna Polymerase I Product Complex Bound To A
Cytosine-Thymine Mismatch After A Single Round Of Primer
Extension, Following Incorporation Of Dctp.
pdb|1XC9|A Chain A, Structure Of A High-Fidelity Polymerase Bound To A
Benzo[a]pyrene Adduct That Blocks Replication
pdb|1XWL|A Chain A, Bacillus Stearothermophilus (Newly Identified Strain As
Yet Unnamed) Dna Polymerase Fragment
Length = 580
Score = 29.6 bits (65), Expect = 4.9, Method: Compositional matrix adjust.
Identities = 14/38 (36%), Positives = 19/38 (50%)
Query: 365 EEVIYGQDTSRASVNYLADASWLARKILTIWNLENPMV 402
+E +YG+ RA + A L RK IW LE P +
Sbjct: 129 DEAVYGKGAKRAVPDEPVLAEHLVRKAAAIWELERPFL 166
>pdb|4DQI|A Chain A, Ternary Complex Of Bacillus Dna Polymerase I Large
Fragment, Dna Duplex, And Dctp (Paired With Dg Of
Template)
pdb|4DQI|D Chain D, Ternary Complex Of Bacillus Dna Polymerase I Large
Fragment, Dna Duplex, And Dctp (Paired With Dg Of
Template)
pdb|4DQP|A Chain A, Ternary Complex Of Bacillus Dna Polymerase I Large
Fragment, Dna Duplex, And Ddctp (Paired With Dg Of
Template)
pdb|4DQP|D Chain D, Ternary Complex Of Bacillus Dna Polymerase I Large
Fragment, Dna Duplex, And Ddctp (Paired With Dg Of
Template)
pdb|4DS4|A Chain A, Ternary Complex Of Bacillus Dna Polymerase I Large
Fragment, Dna Duplex, And Rctp In Presence Of Mn2+
pdb|4DS4|D Chain D, Ternary Complex Of Bacillus Dna Polymerase I Large
Fragment, Dna Duplex, And Rctp In Presence Of Mn2+
pdb|4DS5|A Chain A, Ternary Complex Of Bacillus Dna Polymerase I Large
Fragment, Dna Duplex, And Rctp In Presence Of Mg2+
pdb|4DS5|D Chain D, Ternary Complex Of Bacillus Dna Polymerase I Large
Fragment, Dna Duplex, And Rctp In Presence Of Mg2+
Length = 592
Score = 29.6 bits (65), Expect = 4.9, Method: Compositional matrix adjust.
Identities = 14/38 (36%), Positives = 19/38 (50%)
Query: 365 EEVIYGQDTSRASVNYLADASWLARKILTIWNLENPMV 402
+E +YG+ RA + A L RK IW LE P +
Sbjct: 141 DEAVYGKGAKRAVPDEPVLAEHLVRKAAAIWELERPFL 178
>pdb|3PV8|A Chain A, Crystal Structure Of Bacillus Dna Polymerase I Large
Fragment Bound To Dna And Ddttp-Da In Closed
Conformation
pdb|3PV8|D Chain D, Crystal Structure Of Bacillus Dna Polymerase I Large
Fragment Bound To Dna And Ddttp-Da In Closed
Conformation
pdb|3PX0|A Chain A, Crystal Structure Of Bacillus Dna Polymerase I Large
Fragment Bound To Dna And Dctp-Da Mismatch (Tautomer) In
Closed Conformation
pdb|3PX0|D Chain D, Crystal Structure Of Bacillus Dna Polymerase I Large
Fragment Bound To Dna And Dctp-Da Mismatch (Tautomer) In
Closed Conformation
pdb|3PX4|A Chain A, Crystal Structure Of Bacillus Dna Polymerase I Large
Fragment Bound To Dna And Ddctp-Da Mismatch (Wobble) In
Ajar Conformation
pdb|3PX4|D Chain D, Crystal Structure Of Bacillus Dna Polymerase I Large
Fragment Bound To Dna And Ddctp-Da Mismatch (Wobble) In
Ajar Conformation
pdb|3PX6|A Chain A, Crystal Structure Of Bacillus Dna Polymerase I Large
Fragment Bound To Dna And Ddctp-Da Mismatch (Tautomer)
In Closed Conformation
pdb|3PX6|D Chain D, Crystal Structure Of Bacillus Dna Polymerase I Large
Fragment Bound To Dna And Ddctp-Da Mismatch (Tautomer)
In Closed Conformation
pdb|3THV|A Chain A, Crystal Structure Of Bacillus Dna Polymerase I Large
Fragment Bound To Dna And Ddatp-Dt In Closed
Conformation
pdb|3THV|D Chain D, Crystal Structure Of Bacillus Dna Polymerase I Large
Fragment Bound To Dna And Ddatp-Dt In Closed
Conformation
pdb|3TI0|A Chain A, Crystal Structure Of Bacillus Dna Polymerase I Large
Fragment Bound To Dna And Ddgtp-Dc In Closed
Conformation
pdb|3TI0|D Chain D, Crystal Structure Of Bacillus Dna Polymerase I Large
Fragment Bound To Dna And Ddgtp-Dc In Closed
Conformation
pdb|4DSE|A Chain A, Ternary Complex Of Bacillus Dna Polymerase I Large
Fragment F710y, Dna Duplex, And Rctp (Paired With Dg Of
Template) In Presence Of Mg2+
pdb|4DSE|D Chain D, Ternary Complex Of Bacillus Dna Polymerase I Large
Fragment F710y, Dna Duplex, And Rctp (Paired With Dg Of
Template) In Presence Of Mg2+
pdb|4DSF|A Chain A, Ternary Complex Of Bacillus Dna Polymerase I Large
Fragment F710y, Dna Duplex, And Rctp (Paired With Dg Of
Template) In Presence Of Mn2+
pdb|4DSF|D Chain D, Ternary Complex Of Bacillus Dna Polymerase I Large
Fragment F710y, Dna Duplex, And Rctp (Paired With Dg Of
Template) In Presence Of Mn2+
Length = 592
Score = 29.6 bits (65), Expect = 4.9, Method: Compositional matrix adjust.
Identities = 14/38 (36%), Positives = 19/38 (50%)
Query: 365 EEVIYGQDTSRASVNYLADASWLARKILTIWNLENPMV 402
+E +YG+ RA + A L RK IW LE P +
Sbjct: 141 DEAVYGKGAKRAVPDEPVLAEHLVRKAAAIWELERPFL 178
>pdb|1VCI|A Chain A, Crystal Structure Of The Atp-binding Cassette Of
Multisugar Transporter From Pyrococcus Horikoshii Ot3
Complexed With Atp
Length = 373
Score = 29.6 bits (65), Expect = 5.0, Method: Compositional matrix adjust.
Identities = 16/47 (34%), Positives = 25/47 (53%), Gaps = 2/47 (4%)
Query: 37 ELQELVRYLKNPELFDKMGIKPPHG--VLLEGPPGCGKTLVAKAIAG 81
+L+ L + N +K+ + G ++L GP GCGKT + IAG
Sbjct: 14 KLENLTKRFGNFTAVNKLNLTIKDGEFLVLLGPSGCGKTTTLRMIAG 60
>pdb|3HPO|A Chain A, Crystal Structure Of Fragment Dna Polymerase I From
Bacillus Stearothermophilus Y714s Mutant Bound To G:t
Mismatch
Length = 580
Score = 29.6 bits (65), Expect = 5.0, Method: Compositional matrix adjust.
Identities = 14/38 (36%), Positives = 19/38 (50%)
Query: 365 EEVIYGQDTSRASVNYLADASWLARKILTIWNLENPMV 402
+E +YG+ RA + A L RK IW LE P +
Sbjct: 129 DEAVYGKGAKRAVPDEPVLAEHLVRKAAAIWELERPFL 166
>pdb|2HHQ|A Chain A, O6-Methyl-Guanine:t Pair In The Polymerase-10 Basepair
Position
pdb|2HHS|A Chain A, O6-Methyl:c Pair In The Polymerase-10 Basepair Position
pdb|2HHT|A Chain A, C:o6-Methyl-Guanine Pair In The Polymerase-2 Basepair
Position
pdb|2HHU|A Chain A, C:o6-Methyl-Guanine In The Polymerase Postinsertion Site
(- 1 Basepair Position)
pdb|2HHV|A Chain A, T:o6-Methyl-Guanine In The Polymerase-2 Basepair Position
pdb|2HHX|A Chain A, O6-Methyl-Guanine In The Polymerase Template Preinsertion
Site
pdb|2HW3|A Chain A, T:o6-Methyl-Guanine Pair In The Polymerase Postinsertion
Site (-1 Basepair Position)
Length = 580
Score = 29.6 bits (65), Expect = 5.0, Method: Compositional matrix adjust.
Identities = 14/38 (36%), Positives = 19/38 (50%)
Query: 365 EEVIYGQDTSRASVNYLADASWLARKILTIWNLENPMV 402
+E +YG+ RA + A L RK IW LE P +
Sbjct: 129 DEAVYGKGAKRAVPDEPVLAEHLVRKAAAIWELERPFL 166
>pdb|2HVH|A Chain A, Ddctp:o6meg Pair In The Polymerase Active Site (0
Position)
pdb|2HVH|D Chain D, Ddctp:o6meg Pair In The Polymerase Active Site (0
Position)
pdb|2HVI|A Chain A, Ddctp:g Pair In The Polymerase Active Site (0 Position)
pdb|2HVI|D Chain D, Ddctp:g Pair In The Polymerase Active Site (0 Position)
pdb|3EZ5|A Chain A, Cocrystal Structure Of Bacillus Fragment Dna Polymerase I
With Duplex Dna , Dctp, And Zinc (Closed Form).
pdb|3EZ5|D Chain D, Cocrystal Structure Of Bacillus Fragment Dna Polymerase I
With Duplex Dna , Dctp, And Zinc (Closed Form)
Length = 580
Score = 29.6 bits (65), Expect = 5.0, Method: Compositional matrix adjust.
Identities = 14/38 (36%), Positives = 19/38 (50%)
Query: 365 EEVIYGQDTSRASVNYLADASWLARKILTIWNLENPMV 402
+E +YG+ RA + A L RK IW LE P +
Sbjct: 129 DEAVYGKGAKRAVPDEPVLAEHLVRKAAAIWELERPFL 166
>pdb|3BDP|A Chain A, Dna Polymerase IDNA COMPLEX
pdb|4BDP|A Chain A, Crystal Structure Of Bacillus Dna Polymerase I Fragment
Complexed To 11 Base Pairs Of Duplex Dna After Addition
Of Two Datp Residues
pdb|2BDP|A Chain A, Crystal Structure Of Bacillus Dna Polymerase I Fragment
Complexed To 9 Base Pairs Of Duplex Dna
Length = 580
Score = 29.6 bits (65), Expect = 5.0, Method: Compositional matrix adjust.
Identities = 14/38 (36%), Positives = 19/38 (50%)
Query: 365 EEVIYGQDTSRASVNYLADASWLARKILTIWNLENPMV 402
+E +YG+ RA + A L RK IW LE P +
Sbjct: 129 DEAVYGKGAKRAVPDEPVLAEHLVRKAAAIWELERPFL 166
>pdb|3EYZ|A Chain A, Cocrystal Structure Of Bacillus Fragment Dna Polymerase I
With Duplex Dna (Open Form)
Length = 580
Score = 29.6 bits (65), Expect = 5.0, Method: Compositional matrix adjust.
Identities = 14/38 (36%), Positives = 19/38 (50%)
Query: 365 EEVIYGQDTSRASVNYLADASWLARKILTIWNLENPMV 402
+E +YG+ RA + A L RK IW LE P +
Sbjct: 129 DEAVYGKGAKRAVPDEPVLAEHLVRKAAAIWELERPFL 166
>pdb|1U45|A Chain A, 8oxoguanine At The Pre-Insertion Site Of The Polymerase
Active Site
pdb|1U47|A Chain A, Cytosine-8-Oxoguanine Base Pair At The Polymerase Active
Site
pdb|1U48|A Chain A, Extension Of A Cytosine-8-Oxoguanine Base Pair
pdb|1U49|A Chain A, Adenine-8oxoguanine Mismatch At The Polymerase Active Site
pdb|1U4B|A Chain A, Extension Of An Adenine-8oxoguanine Mismatch
pdb|1UA0|A Chain A, Aminofluorene Dna Adduct At The Pre-Insertion Site Of A
Dna Polymerase
pdb|1UA1|A Chain A, Structure Of Aminofluorene Adduct Paired Opposite Cytosine
At The Polymerase Active Site
Length = 580
Score = 29.3 bits (64), Expect = 5.1, Method: Compositional matrix adjust.
Identities = 14/38 (36%), Positives = 19/38 (50%)
Query: 365 EEVIYGQDTSRASVNYLADASWLARKILTIWNLENPMV 402
+E +YG+ RA + A L RK IW LE P +
Sbjct: 129 DEAVYGKGAKRAVPDEPVLAEHLVRKAAAIWELERPFL 166
>pdb|1LV5|A Chain A, Crystal Structure Of The Closed Conformation Of Bacillus
Dna Polymerase I Fragment Bound To Dna And Dctp
pdb|1LV5|B Chain B, Crystal Structure Of The Closed Conformation Of Bacillus
Dna Polymerase I Fragment Bound To Dna And Dctp
Length = 580
Score = 29.3 bits (64), Expect = 5.1, Method: Compositional matrix adjust.
Identities = 14/38 (36%), Positives = 19/38 (50%)
Query: 365 EEVIYGQDTSRASVNYLADASWLARKILTIWNLENPMV 402
+E +YG+ RA + A L RK IW LE P +
Sbjct: 129 DEAVYGKGAKRAVPDEPVLAEHLVRKAAAIWELERPFL 166
>pdb|2HHW|A Chain A, Ddttp:o6-Methyl-Guanine Pair In The Polymerase Active
Site, In The Closed Conformation
pdb|2HHW|D Chain D, Ddttp:o6-Methyl-Guanine Pair In The Polymerase Active
Site, In The Closed Conformation
Length = 580
Score = 29.3 bits (64), Expect = 5.1, Method: Compositional matrix adjust.
Identities = 14/38 (36%), Positives = 19/38 (50%)
Query: 365 EEVIYGQDTSRASVNYLADASWLARKILTIWNLENPMV 402
+E +YG+ RA + A L RK IW LE P +
Sbjct: 129 DEAVYGKGAKRAVPDEPVLAEHLVRKAAAIWELERPFL 166
>pdb|1V43|A Chain A, Crystal Structure Of Atpase Subunit Of Abc Sugar
Transporter
Length = 372
Score = 29.3 bits (64), Expect = 5.2, Method: Compositional matrix adjust.
Identities = 16/47 (34%), Positives = 25/47 (53%), Gaps = 2/47 (4%)
Query: 37 ELQELVRYLKNPELFDKMGIKPPHG--VLLEGPPGCGKTLVAKAIAG 81
+L+ L + N +K+ + G ++L GP GCGKT + IAG
Sbjct: 13 KLENLTKRFGNFTAVNKLNLTIKDGEFLVLLGPSGCGKTTTLRMIAG 59
>pdb|3HP6|A Chain A, Crystal Structure Of Fragment Dna Polymerase I From
Bacillus Stearothermophilus F710y Mutant Bound To G:t
Mismatch
pdb|3HP6|D Chain D, Crystal Structure Of Fragment Dna Polymerase I From
Bacillus Stearothermophilus F710y Mutant Bound To G:t
Mismatch
Length = 580
Score = 29.3 bits (64), Expect = 5.3, Method: Compositional matrix adjust.
Identities = 14/38 (36%), Positives = 19/38 (50%)
Query: 365 EEVIYGQDTSRASVNYLADASWLARKILTIWNLENPMV 402
+E +YG+ RA + A L RK IW LE P +
Sbjct: 129 DEAVYGKGAKRAVPDEPVLAEHLVRKAAAIWELERPFL 166
>pdb|1QVR|A Chain A, Crystal Structure Analysis Of Clpb
pdb|1QVR|B Chain B, Crystal Structure Analysis Of Clpb
pdb|1QVR|C Chain C, Crystal Structure Analysis Of Clpb
Length = 854
Score = 28.9 bits (63), Expect = 6.7, Method: Compositional matrix adjust.
Identities = 20/58 (34%), Positives = 28/58 (48%), Gaps = 11/58 (18%)
Query: 28 VAGIDEAVEELQELVRY----LKNPELFDKMGIKPPHGVLLEGPPGCGKTLVAKAIAG 81
V G DEA+ + + +R LK+P +P L GP G GKT +AK +A
Sbjct: 560 VVGQDEAIRAVADAIRRARAGLKDPN-------RPIGSFLFLGPTGVGKTELAKTLAA 610
>pdb|2Y94|A Chain A, Structure Of An Active Form Of Mammalian Ampk
Length = 476
Score = 28.9 bits (63), Expect = 6.8, Method: Compositional matrix adjust.
Identities = 24/100 (24%), Positives = 40/100 (40%), Gaps = 13/100 (13%)
Query: 423 FEGSLYDDYGLTEPPVNFNLDDDIAWRTEELLRDMYGRTVTLLRRHHAALLKTVKVLLNQ 482
+ ++ DD L E F + EE+L +Y R H L ++++
Sbjct: 285 YSSTMIDDEALKEVCEKFECSE------EEVLSCLYNRN------HQDPLAVAYHLIIDN 332
Query: 483 KEIGREEIDFILNNYPPQTPI-SRLLEEENPGTLPFIKQE 521
+ I E DF L PP + + L +P +PF+ E
Sbjct: 333 RRIMNEAKDFYLATSPPDSFLDDHHLTRPHPERVPFLVAE 372
>pdb|2XY6|A Chain A, Crystal Structure Of A Salicylic Aldehyde Basepair In
Complex With Fragment Dna Polymerase I From Bacillus
Stearothermophilus
Length = 581
Score = 28.9 bits (63), Expect = 6.9, Method: Compositional matrix adjust.
Identities = 14/38 (36%), Positives = 19/38 (50%)
Query: 365 EEVIYGQDTSRASVNYLADASWLARKILTIWNLENPMV 402
+E +YG+ RA + A L RK IW LE P +
Sbjct: 130 DEAVYGKGAKRAVPDEPVLAEHLVRKAAAIWALERPFL 167
>pdb|2XY5|A Chain A, Crystal Structure Of An Artificial Salen-Copper Basepair
In Complex With Fragment Dna Polymerase I From Bacillus
Stearothermophilus
Length = 581
Score = 28.9 bits (63), Expect = 6.9, Method: Compositional matrix adjust.
Identities = 14/38 (36%), Positives = 19/38 (50%)
Query: 365 EEVIYGQDTSRASVNYLADASWLARKILTIWNLENPMV 402
+E +YG+ RA + A L RK IW LE P +
Sbjct: 130 DEAVYGKGAKRAVPDEPVLAEHLVRKAAAIWALERPFL 167
>pdb|2XO7|A Chain A, Crystal Structure Of A Da:o-Allylhydroxylamine-Dc Basepair
In Complex With Fragment Dna Polymerase I From Bacillus
Stearothermophilus
Length = 580
Score = 28.9 bits (63), Expect = 6.9, Method: Compositional matrix adjust.
Identities = 14/38 (36%), Positives = 19/38 (50%)
Query: 365 EEVIYGQDTSRASVNYLADASWLARKILTIWNLENPMV 402
+E +YG+ RA + A L RK IW LE P +
Sbjct: 129 DEAVYGKGAKRAVPDEPVLAEHLVRKAAAIWALERPFL 166
>pdb|2XY7|A Chain A, Crystal Structure Of A Salicylic Aldehyde Base In The
Pre-Insertion Site Of Fragment Dna Polymerase I From
Bacillus Stearothermophilus
Length = 580
Score = 28.9 bits (63), Expect = 7.0, Method: Compositional matrix adjust.
Identities = 14/38 (36%), Positives = 19/38 (50%)
Query: 365 EEVIYGQDTSRASVNYLADASWLARKILTIWNLENPMV 402
+E +YG+ RA + A L RK IW LE P +
Sbjct: 129 DEAVYGKGAKRAVPDEPVLAEHLVRKAAAIWALERPFL 166
>pdb|2Y1I|A Chain A, Crystal Structure Of A S-Diastereomer Analogue Of The
Spore Photoproduct In Complex With Fragment Dna
Polymerase I From Bacillus Stearothermophilus
pdb|2Y1J|A Chain A, Crystal Structure Of A R-Diastereomer Analogue Of The
Spore Photoproduct In Complex With Fragment Dna
Polymerase I From Bacillus Stearothermophilus
Length = 580
Score = 28.9 bits (63), Expect = 7.1, Method: Compositional matrix adjust.
Identities = 14/38 (36%), Positives = 19/38 (50%)
Query: 365 EEVIYGQDTSRASVNYLADASWLARKILTIWNLENPMV 402
+E +YG+ RA + A L RK IW LE P +
Sbjct: 129 DEAVYGKGAKRAVPDEPVLAEHLVRKAAAIWALERPFL 166
>pdb|3D31|A Chain A, Modbc From Methanosarcina Acetivorans
pdb|3D31|B Chain B, Modbc From Methanosarcina Acetivorans
Length = 348
Score = 28.9 bits (63), Expect = 7.4, Method: Compositional matrix adjust.
Identities = 19/47 (40%), Positives = 26/47 (55%), Gaps = 3/47 (6%)
Query: 37 ELQELVRYLKNPELFDKMGIKPPHG--VLLEGPPGCGKTLVAKAIAG 81
E++ L R KN L D + +K G ++ GP G GKTL + IAG
Sbjct: 3 EIESLSRKWKNFSL-DNLSLKVESGEYFVILGPTGAGKTLFLELIAG 48
>pdb|2D62|A Chain A, Crystal Structure Of Multiple Sugar Binding Transport
Atp- Binding Protein
Length = 375
Score = 28.9 bits (63), Expect = 8.3, Method: Compositional matrix adjust.
Identities = 13/28 (46%), Positives = 17/28 (60%)
Query: 54 MGIKPPHGVLLEGPPGCGKTLVAKAIAG 81
+ IK ++L GP GCGKT + IAG
Sbjct: 27 LEIKDGEFLVLLGPSGCGKTTTLRXIAG 54
>pdb|1P4S|A Chain A, Solution Structure Of Mycobacterium Tuberculosis
Adenylate Kinase
Length = 181
Score = 28.5 bits (62), Expect = 9.6, Method: Compositional matrix adjust.
Identities = 13/25 (52%), Positives = 16/25 (64%)
Query: 62 VLLEGPPGCGKTLVAKAIAGEAGVP 86
VLL GPPG GK A +A + G+P
Sbjct: 3 VLLLGPPGAGKGTQAVKLAEKLGIP 27
>pdb|1GVN|B Chain B, Crystal Structure Of The Plasmid Maintenance System
EpsilonZETA: MEACHNISM OF TOXIN INACTIVATION AND TOXIN
Function
pdb|1GVN|D Chain D, Crystal Structure Of The Plasmid Maintenance System
EpsilonZETA: MEACHNISM OF TOXIN INACTIVATION AND TOXIN
Function
pdb|3Q8X|B Chain B, Structure Of A Toxin-Antitoxin System Bound To Its
Substrate
pdb|3Q8X|D Chain D, Structure Of A Toxin-Antitoxin System Bound To Its
Substrate
Length = 287
Score = 28.5 bits (62), Expect = 9.8, Method: Compositional matrix adjust.
Identities = 19/61 (31%), Positives = 28/61 (45%), Gaps = 8/61 (13%)
Query: 23 VKFSDVAGIDEAVEELQELVRYLKNPELFDKMGIKPPHGVLLEGPPGCGKTLVAKAIAGE 82
V F+D + + L+EL++ K ++ P LL G PG GKT + AI E
Sbjct: 5 VNFTDKQFENRLNDNLEELIQ--------GKKAVESPTAFLLGGQPGSGKTSLRSAIFEE 56
Query: 83 A 83
Sbjct: 57 T 57
Database: pdbaa
Posted date: Mar 3, 2013 10:34 PM
Number of letters in database: 14,973,337
Number of sequences in database: 62,578
Lambda K H
0.319 0.137 0.402
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 15,148,690
Number of Sequences: 62578
Number of extensions: 609392
Number of successful extensions: 1893
Number of sequences better than 100.0: 116
Number of HSP's better than 100.0 without gapping: 92
Number of HSP's successfully gapped in prelim test: 24
Number of HSP's that attempted gapping in prelim test: 1733
Number of HSP's gapped (non-prelim): 127
length of query: 539
length of database: 14,973,337
effective HSP length: 104
effective length of query: 435
effective length of database: 8,465,225
effective search space: 3682372875
effective search space used: 3682372875
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 54 (25.4 bits)