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= 005611
(688 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 (716), Expect = 2e-75, Method: Compositional matrix adjust.
Identities = 169/477 (35%), Positives = 265/477 (55%), Gaps = 28/477 (5%)
Query: 168 GSTGVKFSDVAGIDEAVEELQELVRYLKNPELFDKMGIKPPHGVLLEGPPGCGKTLVAKA 227
G+ V F DV G +EA+EEL+E+V +LK+P F+++G + P G+LL GPPG GKTL+A+A
Sbjct: 9 GNKRVTFKDVGGAEEAIEELKEVVEFLKDPSKFNRIGARMPKGILLVGPPGTGKTLLARA 68
Query: 228 IAGEAGVPFYQMAGSEFVEVLVGVGSARIRDLFKRAKVNKPSVIFIDEIDALATRRQGIF 287
+AGEA VPF+ ++GS+FVE+ VGVG+AR+RDLF +AK + P ++FIDEIDA+ R
Sbjct: 69 VAGEANVPFFHISGSDFVELFVGVGAARVRDLFAQAKAHAPCIVFIDEIDAVGRHRGAGL 128
Query: 288 KDTTDHLYNAATQERETTLNQLLIELDGFDTGKGVIFLAATNXXXXXXXXXXXXXXFDRK 347
D ERE TLNQLL+E+DGFD+ +G+I +AATN FD+K
Sbjct: 129 GGGHD--------EREQTLNQLLVEMDGFDSKEGIIVMAATNRPDILDPALLRPGRFDKK 180
Query: 348 IRIRAPNAKGRTEILKIHASKVKMSDSVDLSSYAKNLPGWTGXXXXXXXXXXXXXXXXKG 407
I + P+ GR +IL+IH +++ V+L AK PG+ G +G
Sbjct: 181 IVVDPPDMLGRKKILEIHTRNKPLAEDVNLEIIAKRTPGFVGADLENLVNEAALLAAREG 240
Query: 408 HESILSSDMDDAVDRLTVGPKRRGIELGNQGQSRRAATEVGVAMISHLLRRYENAKVECC 467
+ I D ++A+DR+ GP R+ + + + A E G A++S ++ E
Sbjct: 241 RDKITMKDFEEAIDRVIAGPARKSLLISPAEKRIIAYHEAGHAVVSTVV-----PNGEPV 295
Query: 468 DRISIVPRGQTLSQLVFHRLDDESYMFERRPQLLHRLQVLLGGRAAEEVIYGQDTSRASV 527
RISI+PRG H +++ Y+ R +LL +L LLGGRAAEEV++G TS A+
Sbjct: 296 HRISIIPRGYKALGYTLHLPEEDKYLVSRN-ELLDKLTALLGGRAAEEVVFGDVTSGAA- 353
Query: 528 NYLADASWLARKILTIWNLENPMVIHGEPPPWRKKVKFVGPRLDFEGSLYDDYGLTEPPV 587
N + A+ +AR ++ + + P W K+ + V F G V
Sbjct: 354 NDIERATEIARNMVCQLGMSEEL----GPLAWGKEEQEV-----FLGKEITRLRNYSEEV 404
Query: 588 NFNLDDDIAWRTEELLRDMYGRTVTLLRRHHAALLKTVKVLLNQKEIGREEIDFILN 644
+D+++ ++++ + Y R ++R++ L V++LL ++ I +E+ IL+
Sbjct: 405 ASKIDEEV----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 = 8e-75, Method: Compositional matrix adjust.
Identities = 168/477 (35%), Positives = 264/477 (55%), Gaps = 28/477 (5%)
Query: 168 GSTGVKFSDVAGIDEAVEELQELVRYLKNPELFDKMGIKPPHGVLLEGPPGCGKTLVAKA 227
G+ V F DV G +EA+EEL+E+V +LK+P F+++G + P G+LL GPPG G TL+A+A
Sbjct: 9 GNKRVTFKDVGGAEEAIEELKEVVEFLKDPSKFNRIGARMPKGILLVGPPGTGATLLARA 68
Query: 228 IAGEAGVPFYQMAGSEFVEVLVGVGSARIRDLFKRAKVNKPSVIFIDEIDALATRRQGIF 287
+AGEA VPF+ ++GS+FVE+ VGVG+AR+RDLF +AK + P ++FIDEIDA+ R
Sbjct: 69 VAGEANVPFFHISGSDFVELFVGVGAARVRDLFAQAKAHAPCIVFIDEIDAVGRHRGAGL 128
Query: 288 KDTTDHLYNAATQERETTLNQLLIELDGFDTGKGVIFLAATNXXXXXXXXXXXXXXFDRK 347
D ERE TLNQLL+E+DGFD+ +G+I +AATN FD+K
Sbjct: 129 GGGHD--------EREQTLNQLLVEMDGFDSKEGIIVMAATNRPDILDPALLRPGRFDKK 180
Query: 348 IRIRAPNAKGRTEILKIHASKVKMSDSVDLSSYAKNLPGWTGXXXXXXXXXXXXXXXXKG 407
I + P+ GR +IL+IH +++ V+L AK PG+ G +G
Sbjct: 181 IVVDPPDMLGRKKILEIHTRNKPLAEDVNLEIIAKRTPGFVGADLENLVNEAALLAAREG 240
Query: 408 HESILSSDMDDAVDRLTVGPKRRGIELGNQGQSRRAATEVGVAMISHLLRRYENAKVECC 467
+ I D ++A+DR+ GP R+ + + + A E G A++S ++ E
Sbjct: 241 RDKITMKDFEEAIDRVIAGPARKSLLISPAEKRIIAYHEAGHAVVSTVV-----PNGEPV 295
Query: 468 DRISIVPRGQTLSQLVFHRLDDESYMFERRPQLLHRLQVLLGGRAAEEVIYGQDTSRASV 527
RISI+PRG H +++ Y+ R +LL +L LLGGRAAEEV++G TS A+
Sbjct: 296 HRISIIPRGYKALGYTLHLPEEDKYLVSRN-ELLDKLTALLGGRAAEEVVFGDVTSGAA- 353
Query: 528 NYLADASWLARKILTIWNLENPMVIHGEPPPWRKKVKFVGPRLDFEGSLYDDYGLTEPPV 587
N + A+ +AR ++ + + P W K+ + V F G V
Sbjct: 354 NDIERATEIARNMVCQLGMSEEL----GPLAWGKEEQEV-----FLGKEITRLRNYSEEV 404
Query: 588 NFNLDDDIAWRTEELLRDMYGRTVTLLRRHHAALLKTVKVLLNQKEIGREEIDFILN 644
+D+++ ++++ + Y R ++R++ L V++LL ++ I +E+ IL+
Sbjct: 405 ASKIDEEV----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 = 258 bits (660), Expect = 6e-69, Method: Compositional matrix adjust.
Identities = 177/497 (35%), Positives = 267/497 (53%), Gaps = 44/497 (8%)
Query: 157 FSRSKAEARV-DGSTGVKFSDVAGIDEAVEELQELVRYLKNPELFDKMGIKPPHGVLLEG 215
FS +K+ ARV + V F DVAG +EA EEL+E+V +LKNP F +MG + P GVLL G
Sbjct: 12 FSFTKSRARVLTEAPKVTFKDVAGAEEAKEELKEIVEFLKNPSRFHEMGARIPKGVLLVG 71
Query: 216 PPGCGKTLVAKAIAGEAGVPFYQMAGSEFVEVLVGVGSARIRDLFKRAKVNKPSVIFIDE 275
PPG GKT +A+A+AGEA VPF +GS+FVE+ VGVG+AR+RDLF+ AK + P ++FIDE
Sbjct: 72 PPGVGKTHLARAVAGEARVPFITASGSDFVEMFVGVGAARVRDLFETAKRHAPCIVFIDE 131
Query: 276 IDALATRR-QGIFKDTTDHLYNAATQERETTLNQLLIELDGFDTGKGVIFLAATNXXXXX 334
IDA+ +R G+ ERE TLNQLL+E+DGF+ ++ +AATN
Sbjct: 132 IDAVGRKRGSGV---------GGGNDEREQTLNQLLVEMDGFEKDTAIVVMAATNRPDIL 182
Query: 335 XXXXXXXXXFDRKIRIRAPNAKGRTEILKIHASKVKMSDSVDLSSYAKNLPGWTGXXXXX 394
FDR+I I AP+ KGR +IL+IHA +++ VDL+ AK PG+ G
Sbjct: 183 DPALLRPGRFDRQIAIDAPDVKGREQILRIHARGKPLAEDVDLALLAKRTPGFVGADLEN 242
Query: 395 XXXXXXXXXXXKGHESILSSDMDDAVDRLTVGPKRRGIELGNQGQSRRAATEVGVAMISH 454
+G I D+++A DR+ + P ++ + L + + A E G A+ +H
Sbjct: 243 LLNEAALLAAREGRRKITMKDLEEAADRVMMLPAKKSLVLSPRDRRITAYHEAGHALAAH 302
Query: 455 LLRRYENAKVECCDRISIVPRGQTLSQLVFHRLDDESYMFERRPQLLHRLQVLLGGRAAE 514
L E+A + +++IVPRG+ L ++ R E + R +LL ++ V L GRAAE
Sbjct: 303 FL---EHA--DGVHKVTIVPRGRALGFMMPRR---EDMLHWSRKRLLDQIAVALAGRAAE 354
Query: 515 EVIYGQDTSRASVNYLADASWLARKILTIWNLENPMVIHGEPPPWRKKVKFVGPRLDFEG 574
E+++ D + + N A+ LAR+++T W + H E P V+ E
Sbjct: 355 EIVF-DDVTTGAENDFRQATELARRMITEWGM------HPEFGPVAYAVR--------ED 399
Query: 575 SLYDDYGLTEPPVNFNLDDDIAWRTEE----LLRDMYGRTVTLLRRHHAALLKTVKVLLN 630
+ Y + + ++ A R +E L+ + Y R LL L + + LL
Sbjct: 400 TYLGGYDVRQ------YSEETAKRIDEAVRRLIEEQYQRVKALLLEKREVLERVAETLLE 453
Query: 631 QKEIGREEIDFILNNYP 647
++ + EE ++ P
Sbjct: 454 RETLTAEEFQRVVEGLP 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 = 258 bits (660), Expect = 6e-69, Method: Compositional matrix adjust.
Identities = 177/497 (35%), Positives = 267/497 (53%), Gaps = 44/497 (8%)
Query: 157 FSRSKAEARV-DGSTGVKFSDVAGIDEAVEELQELVRYLKNPELFDKMGIKPPHGVLLEG 215
FS +K+ ARV + V F DVAG +EA EEL+E+V +LKNP F +MG + P GVLL G
Sbjct: 21 FSFTKSRARVLTEAPKVTFKDVAGAEEAKEELKEIVEFLKNPSRFHEMGARIPKGVLLVG 80
Query: 216 PPGCGKTLVAKAIAGEAGVPFYQMAGSEFVEVLVGVGSARIRDLFKRAKVNKPSVIFIDE 275
PPG GKT +A+A+AGEA VPF +GS+FVE+ VGVG+AR+RDLF+ AK + P ++FIDE
Sbjct: 81 PPGVGKTHLARAVAGEARVPFITASGSDFVEMFVGVGAARVRDLFETAKRHAPCIVFIDE 140
Query: 276 IDALATRR-QGIFKDTTDHLYNAATQERETTLNQLLIELDGFDTGKGVIFLAATNXXXXX 334
IDA+ +R G+ ERE TLNQLL+E+DGF+ ++ +AATN
Sbjct: 141 IDAVGRKRGSGV---------GGGNDEREQTLNQLLVEMDGFEKDTAIVVMAATNRPDIL 191
Query: 335 XXXXXXXXXFDRKIRIRAPNAKGRTEILKIHASKVKMSDSVDLSSYAKNLPGWTGXXXXX 394
FDR+I I AP+ KGR +IL+IHA +++ VDL+ AK PG+ G
Sbjct: 192 DPALLRPGRFDRQIAIDAPDVKGREQILRIHARGKPLAEDVDLALLAKRTPGFVGADLEN 251
Query: 395 XXXXXXXXXXXKGHESILSSDMDDAVDRLTVGPKRRGIELGNQGQSRRAATEVGVAMISH 454
+G I D+++A DR+ + P ++ + L + + A E G A+ +H
Sbjct: 252 LLNEAALLAAREGRRKITMKDLEEAADRVMMLPAKKSLVLSPRDRRITAYHEAGHALAAH 311
Query: 455 LLRRYENAKVECCDRISIVPRGQTLSQLVFHRLDDESYMFERRPQLLHRLQVLLGGRAAE 514
L E+A + +++IVPRG+ L ++ R E + R +LL ++ V L GRAAE
Sbjct: 312 FL---EHA--DGVHKVTIVPRGRALGFMMPRR---EDMLHWSRKRLLDQIAVALAGRAAE 363
Query: 515 EVIYGQDTSRASVNYLADASWLARKILTIWNLENPMVIHGEPPPWRKKVKFVGPRLDFEG 574
E+++ D + + N A+ LAR+++T W + H E P V+ E
Sbjct: 364 EIVF-DDVTTGAENDFRQATELARRMITEWGM------HPEFGPVAYAVR--------ED 408
Query: 575 SLYDDYGLTEPPVNFNLDDDIAWRTEE----LLRDMYGRTVTLLRRHHAALLKTVKVLLN 630
+ Y + + ++ A R +E L+ + Y R LL L + + LL
Sbjct: 409 TYLGGYDVRQ------YSEETAKRIDEAVRRLIEEQYQRVKALLLEKREVLERVAETLLE 462
Query: 631 QKEIGREEIDFILNNYP 647
++ + EE ++ P
Sbjct: 463 RETLTAEEFQRVVEGLP 479
>pdb|1LV7|A Chain A, Crystal Structure Of The Aaa Domain Of Ftsh
Length = 257
Score = 208 bits (530), Expect = 8e-54, Method: Compositional matrix adjust.
Identities = 103/216 (47%), Positives = 145/216 (67%), Gaps = 8/216 (3%)
Query: 174 FSDVAGIDEAVEELQELVRYLKNPELFDKMGIKPPHGVLLEGPPGCGKTLVAKAIAGEAG 233
F+DVAG DEA EE+ ELV YL+ P F K+G K P GVL+ GPPG GKTL+AKAIAGEA
Sbjct: 11 FADVAGCDEAKEEVAELVEYLREPSRFQKLGGKIPKGVLMVGPPGTGKTLLAKAIAGEAK 70
Query: 234 VPFYQMAGSEFVEVLVGVGSARIRDLFKRAKVNKPSVIFIDEIDALATRRQGIFKDTTDH 293
VPF+ ++GS+FVE+ VGVG++R+RD+F++AK P +IFIDEIDA+ +R D
Sbjct: 71 VPFFTISGSDFVEMFVGVGASRVRDMFEQAKKAAPCIIFIDEIDAVGRQRGAGLGGGHD- 129
Query: 294 LYNAATQERETTLNQLLIELDGFDTGKGVIFLAATNXXXXXXXXXXXXXXFDRKIRIRAP 353
ERE TLNQ+L+E+DGF+ +G+I +AATN FDR++ + P
Sbjct: 130 -------EREQTLNQMLVEMDGFEGNEGIIVIAATNRPDVLDPALLRPGRFDRQVVVGLP 182
Query: 354 NAKGRTEILKIHASKVKMSDSVDLSSYAKNLPGWTG 389
+ +GR +ILK+H +V ++ +D + A+ PG++G
Sbjct: 183 DVRGREQILKVHMRRVPLAPDIDAAIIARGTPGFSG 218
>pdb|1IY2|A Chain A, Crystal Structure Of The Ftsh Atpase Domain From Thermus
Thermophilus
Length = 278
Score = 199 bits (506), Expect = 4e-51, Method: Compositional matrix adjust.
Identities = 118/266 (44%), Positives = 161/266 (60%), Gaps = 11/266 (4%)
Query: 157 FSRSKAEARV-DGSTGVKFSDVAGIDEAVEELQELVRYLKNPELFDKMGIKPPHGVLLEG 215
FS +K+ ARV + V F DVAG +EA EEL+E+V +LKNP F +MG + P GVLL G
Sbjct: 21 FSFTKSRARVLTEAPKVTFKDVAGAEEAKEELKEIVEFLKNPSRFHEMGARIPKGVLLVG 80
Query: 216 PPGCGKTLVAKAIAGEAGVPFYQMAGSEFVEVLVGVGSARIRDLFKRAKVNKPSVIFIDE 275
PPG GKT +A+A+AGEA VPF +GS+FVE+ VGVG+AR+RDLF+ AK + P ++FIDE
Sbjct: 81 PPGVGKTHLARAVAGEARVPFITASGSDFVEMFVGVGAARVRDLFETAKRHAPCIVFIDE 140
Query: 276 IDALATRR-QGIFKDTTDHLYNAATQERETTLNQLLIELDGFDTGKGVIFLAATNXXXXX 334
IDA+ +R G+ ERE TLNQLL+E+DGF+ ++ +AATN
Sbjct: 141 IDAVGRKRGSGV---------GGGNDEREQTLNQLLVEMDGFEKDTAIVVMAATNRPDIL 191
Query: 335 XXXXXXXXXFDRKIRIRAPNAKGRTEILKIHASKVKMSDSVDLSSYAKNLPGWTGXXXXX 394
FDR+I I AP+ KGR +IL+IHA +++ VDL+ AK PG+ G
Sbjct: 192 DPALLRPGRFDRQIAIDAPDVKGREQILRIHARGKPLAEDVDLALLAKRTPGFVGADLEN 251
Query: 395 XXXXXXXXXXXKGHESILSSDMDDAV 420
+G I D+++A
Sbjct: 252 LLNEAALLAAREGRRKITMKDLEEAA 277
>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 = 197 bits (500), Expect = 2e-50, Method: Compositional matrix adjust.
Identities = 110/262 (41%), Positives = 151/262 (57%), Gaps = 12/262 (4%)
Query: 172 VKFSDVAGIDEAVEELQELVRYLKNPELFDKMGIKPPHGVLLEGPPGCGKTLVAKAIAGE 231
V+F D+AG +EA EE+ E+V +LK PE + +G K P GVLL GPPG GKTL+AKA+AGE
Sbjct: 8 VRFKDMAGNEEAKEEVVEIVDFLKYPERYANLGAKIPKGVLLVGPPGTGKTLLAKAVAGE 67
Query: 232 AGVPFYQMAGSEFVEVLVGVGSARIRDLFKRAKVNKPSVIFIDEIDALATRRQ--GIFKD 289
A VPF+ M GS F+E+ VG+G++R+RDLF+ AK PS+IFIDEIDA+ R G+
Sbjct: 68 AHVPFFSMGGSSFIEMFVGLGASRVRDLFETAKKQAPSIIFIDEIDAIGKSRAAGGVV-- 125
Query: 290 TTDHLYNAATQERETTLNQLLIELDGFDTGKG-VIFLAATNXXXXXXXXXXXXXXFDRKI 348
+ ERE TLNQLL E+DGF + VI LAATN FDR++
Sbjct: 126 -------SGNDEREQTLNQLLAEMDGFGSENAPVIVLAATNRPEILDPALMRPGRFDRQV 178
Query: 349 RIRAPNAKGRTEILKIHASKVKMSDSVDLSSYAKNLPGWTGXXXXXXXXXXXXXXXXKGH 408
+ P+ GR EILK+H VK+++ V+L AK G G
Sbjct: 179 LVDKPDFNGRVEILKVHIKGVKLANDVNLQEVAKLTAGLAGADLANIINEAALLAGRNNQ 238
Query: 409 ESILSSDMDDAVDRLTVGPKRR 430
+ + + +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 = 4e-50, Method: Compositional matrix adjust.
Identities = 112/249 (44%), Positives = 152/249 (61%), Gaps = 10/249 (4%)
Query: 172 VKFSDVAGIDEAVEELQELVRYLKNPELFDKMGIKPPHGVLLEGPPGCGKTLVAKAIAGE 231
V F DVAG +EA EEL+E+V +LKNP F +MG + P GVLL GPPG GKT +A+A+AGE
Sbjct: 13 VTFKDVAGAEEAKEELKEIVEFLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGE 72
Query: 232 AGVPFYQMAGSEFVEVLVGVGSARIRDLFKRAKVNKPSVIFIDEIDALATRR-QGIFKDT 290
A VPF +GS+FVE+ VGVG+AR+RDLF+ AK + P ++FIDEIDA+ +R G+
Sbjct: 73 ARVPFITASGSDFVEMFVGVGAARVRDLFETAKRHAPCIVFIDEIDAVGRKRGSGV---- 128
Query: 291 TDHLYNAATQERETTLNQLLIELDGFDTGKGVIFLAATNXXXXXXXXXXXXXXFDRKIRI 350
ERE TLNQLL+E+DGF+ ++ +AATN FDR+I I
Sbjct: 129 -----GGGNDEREQTLNQLLVEMDGFEKDTAIVVMAATNRPDILDPALLRPGRFDRQIAI 183
Query: 351 RAPNAKGRTEILKIHASKVKMSDSVDLSSYAKNLPGWTGXXXXXXXXXXXXXXXXKGHES 410
AP+ KGR +IL+IHA +++ VDL+ AK PG+ G +G
Sbjct: 184 DAPDVKGREQILRIHARGKPLAEDVDLALLAKRTPGFVGADLENLLNEAALLAAREGRRK 243
Query: 411 ILSSDMDDA 419
I D+++A
Sbjct: 244 ITMKDLEEA 252
>pdb|2QZ4|A Chain A, Human Paraplegin, Aaa Domain In Complex With Adp
Length = 262
Score = 194 bits (494), Expect = 9e-50, Method: Compositional matrix adjust.
Identities = 107/262 (40%), Positives = 150/262 (57%), Gaps = 9/262 (3%)
Query: 171 GVKFSDVAGIDEAVEELQELVRYLKNPELFDKMGIKPPHGVLLEGPPGCGKTLVAKAIAG 230
GV F DVAG+ EA E++E V YLK+PE F ++G K P G LL GPPGCGKTL+AKA+A
Sbjct: 2 GVSFKDVAGMHEAKLEVREFVDYLKSPERFLQLGAKVPKGALLLGPPGCGKTLLAKAVAT 61
Query: 231 EAGVPFYQMAGSEFVEVLVGVGSARIRDLFKRAKVNKPSVIFIDEIDALATRRQGIFKDT 290
EA VPF MAG+EFVEV+ G+G+AR+R LFK A+ P +++IDEIDA+ +R
Sbjct: 62 EAQVPFLAMAGAEFVEVIGGLGAARVRSLFKEARARAPCIVYIDEIDAVGKKR------- 114
Query: 291 TDHLYNAATQERETTLNQLLIELDGFDTGKGVIFLAATNXXXXXXXXXXXXXXFDRKIRI 350
+ + + E E TLNQLL+E+DG T VI LA+TN DR + I
Sbjct: 115 STTMSGFSNTEEEQTLNQLLVEMDGMGTTDHVIVLASTNRADILDGALMRPGRLDRHVFI 174
Query: 351 RAPNAKGRTEILKIHASKVKMSDSVDLSS--YAKNLPGWTGXXXXXXXXXXXXXXXXKGH 408
P + R EI + H +K++ S S A+ PG++G +GH
Sbjct: 175 DLPTLQERREIFEQHLKSLKLTQSSTFYSQRLAELTPGFSGADIANICNEAALHAAREGH 234
Query: 409 ESILSSDMDDAVDRLTVGPKRR 430
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 = 183 bits (465), Expect = 2e-46, Method: Compositional matrix adjust.
Identities = 102/232 (43%), Positives = 144/232 (62%), Gaps = 10/232 (4%)
Query: 159 RSKAEARVDGSTGVKFSDVAGIDEAVEELQELVRY-LKNPELFDKMGIKPPHGVLLEGPP 217
R+KA VD V++ D+ G+++ ++E++E+V LK+PELF+K+GI+PP G+LL GPP
Sbjct: 2 RAKA-MEVDERPNVRYEDIGGLEKQMQEIREVVELPLKHPELFEKVGIEPPKGILLYGPP 60
Query: 218 GCGKTLVAKAIAGEAGVPFYQMAGSEFVEVLVGVGSARIRDLFKRAKVNKPSVIFIDEID 277
G GKTL+AKA+A E F ++ GSE V+ +G G++ ++D+FK AK PS+IFIDEID
Sbjct: 61 GTGKTLLAKAVATETNATFIRVVGSELVKKFIGEGASLVKDIFKLAKEKAPSIIFIDEID 120
Query: 278 ALATRRQGIFKDTTDHLYNAATQERETTLNQLLIELDGFDTGKGVIFLAATNXXXXXXXX 337
A+A +R TD L +E + TL QLL E+DGFD V + ATN
Sbjct: 121 AIAAKR-------TDAL-TGGDREVQRTLMQLLAEMDGFDARGDVKIIGATNRPDILDPA 172
Query: 338 XXXXXXFDRKIRIRAPNAKGRTEILKIHASKVKMSDSVDLSSYAKNLPGWTG 389
FDR I + AP+ KGR EILKIH K+ +++ V+L AK G G
Sbjct: 173 ILRPGRFDRIIEVPAPDEKGRLEILKIHTRKMNLAEDVNLEEIAKMTEGCVG 224
>pdb|4B4T|L Chain L, Near-Atomic Resolution Structural Model Of The Yeast 26s
Proteasome
Length = 437
Score = 154 bits (388), Expect = 2e-37, Method: Compositional matrix adjust.
Identities = 87/219 (39%), Positives = 123/219 (56%), Gaps = 9/219 (4%)
Query: 172 VKFSDVAGIDEAVEELQELVRY-LKNPELFDKMGIKPPHGVLLEGPPGCGKTLVAKAIAG 230
+ F + G+ E + EL+E++ LKNPE+F ++GIKPP GVLL GPPG GKTL+AKA+A
Sbjct: 178 ITFDGIGGLTEQIRELREVIELPLKNPEIFQRVGIKPPKGVLLYGPPGTGKTLLAKAVAA 237
Query: 231 EAGVPFYQMAGSEFVEVLVGVGSARIRDLFKRAKVNKPSVIFIDEIDALATRRQGIFKDT 290
G F S V+ +G + IR++F AK ++P +IF+DE+DA+ RR F +
Sbjct: 238 TIGANFIFSPASGIVDKYIGESARIIREMFAYAKEHEPCIIFMDEVDAIGGRR---FSEG 294
Query: 291 TDHLYNAATQERETTLNQLLIELDGFDTGKGVIFLAATNXXXXXXXXXXXXXXFDRKIRI 350
T +A +E + TL +LL ++DGFD + ATN DRK+ I
Sbjct: 295 T-----SADREIQRTLMELLTQMDGFDNLGQTKIIMATNRPDTLDPALLRPGRLDRKVEI 349
Query: 351 RAPNAKGRTEILKIHASKVKMSDSVDLSSYAKNLPGWTG 389
PN GR EI KIH +KVK + D + K G+ G
Sbjct: 350 PLPNEAGRLEIFKIHTAKVKKTGEFDFEAAVKMSDGFNG 388
>pdb|1R7R|A Chain A, The Crystal Structure Of Murine P97VCP AT 3.6A
Length = 816
Score = 150 bits (380), Expect = 2e-36, Method: Compositional matrix adjust.
Identities = 81/219 (36%), Positives = 122/219 (55%), Gaps = 12/219 (5%)
Query: 172 VKFSDVAGIDEAVEELQELVRY-LKNPELFDKMGIKPPHGVLLEGPPGCGKTLVAKAIAG 230
V + DV G + + +++E+V L++P LF +G+KPP G+LL GPPG GKTL+A+A+A
Sbjct: 201 VGYDDVGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVAN 260
Query: 231 EAGVPFYQMAGSEFVEVLVGVGSARIRDLFKRAKVNKPSVIFIDEIDALATRRQGIFKDT 290
E G F+ + G E + L G + +R F+ A+ N P++IFIDE+DA+A +R+ +
Sbjct: 261 ETGAFFFLINGPEIMSKLAGESESNLRKAFEEAEKNAPAIIFIDELDAIAPKREKTHGEV 320
Query: 291 TDHLYNAATQERETTLNQLLIELDGFDTGKGVIFLAATNXXXXXXXXXXXXXXFDRKIRI 350
+ ++QLL +DG VI +AATN FDR++ I
Sbjct: 321 ERRI-----------VSQLLTLMDGLKQRAHVIVMAATNRPNSIDPALRRFGRFDREVDI 369
Query: 351 RAPNAKGRTEILKIHASKVKMSDSVDLSSYAKNLPGWTG 389
P+A GR EIL+IH +K++D VDL A G G
Sbjct: 370 GIPDATGRLEILQIHTKNMKLADDVDLEQVANETHGHVG 408
Score = 135 bits (341), Expect = 7e-32, Method: Compositional matrix adjust.
Identities = 78/219 (35%), Positives = 114/219 (52%), Gaps = 9/219 (4%)
Query: 172 VKFSDVAGIDEAVEELQELVRY-LKNPELFDKMGIKPPHGVLLEGPPGCGKTLVAKAIAG 230
V + D+ G+++ ELQELV+Y +++P+ F K G+ P GVL GPPGCGKTL+AKAIA
Sbjct: 474 VTWEDIGGLEDVKRELQELVQYPVEHPDKFLKFGMTPSKGVLFYGPPGCGKTLLAKAIAN 533
Query: 231 EAGVPFYQMAGSEFVEVLVGVGSARIRDLFKRAKVNKPSVIFIDEIDALATRRQGIFKDT 290
E F + G E + + G A +R++F +A+ P V+F DE+D++A R
Sbjct: 534 ECQANFISIKGPELLTMWFGESEANVREIFDKARQAAPCVLFFDELDSIAKARG------ 587
Query: 291 TDHLYNAATQERETTLNQLLIELDGFDTGKGVIFLAATNXXXXXXXXXXXXXXFDRKIRI 350
+ +NQ+L E+DG T K V + ATN D+ I I
Sbjct: 588 --GNIGDGGGAADRVINQILTEMDGMSTKKNVFIIGATNRPDIIDPAILRPGRLDQLIYI 645
Query: 351 RAPNAKGRTEILKIHASKVKMSDSVDLSSYAKNLPGWTG 389
P+ K R ILK + K ++ VDL AK G++G
Sbjct: 646 PLPDEKSRVAILKANLRKSPVAKDVDLEFLAKMTNGFSG 684
>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 (380), Expect = 2e-36, Method: Compositional matrix adjust.
Identities = 81/219 (36%), Positives = 122/219 (55%), Gaps = 12/219 (5%)
Query: 172 VKFSDVAGIDEAVEELQELVRY-LKNPELFDKMGIKPPHGVLLEGPPGCGKTLVAKAIAG 230
V + DV G + + +++E+V L++P LF +G+KPP G+LL GPPG GKTL+A+A+A
Sbjct: 201 VGYDDVGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVAN 260
Query: 231 EAGVPFYQMAGSEFVEVLVGVGSARIRDLFKRAKVNKPSVIFIDEIDALATRRQGIFKDT 290
E G F+ + G E + L G + +R F+ A+ N P++IFIDE+DA+A +R+ +
Sbjct: 261 ETGAFFFLINGPEIMSKLAGESESNLRKAFEEAEKNAPAIIFIDELDAIAPKREKTHGEV 320
Query: 291 TDHLYNAATQERETTLNQLLIELDGFDTGKGVIFLAATNXXXXXXXXXXXXXXFDRKIRI 350
+ ++QLL +DG VI +AATN FDR++ I
Sbjct: 321 ERRI-----------VSQLLTLMDGLKQRAHVIVMAATNRPNSIDPALRRFGRFDREVDI 369
Query: 351 RAPNAKGRTEILKIHASKVKMSDSVDLSSYAKNLPGWTG 389
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 (379), Expect = 3e-36, Method: Compositional matrix adjust.
Identities = 80/219 (36%), Positives = 122/219 (55%), Gaps = 12/219 (5%)
Query: 172 VKFSDVAGIDEAVEELQELVRY-LKNPELFDKMGIKPPHGVLLEGPPGCGKTLVAKAIAG 230
V + D+ G + + +++E+V L++P LF +G+KPP G+LL GPPG GKTL+A+A+A
Sbjct: 201 VGYDDIGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVAN 260
Query: 231 EAGVPFYQMAGSEFVEVLVGVGSARIRDLFKRAKVNKPSVIFIDEIDALATRRQGIFKDT 290
E G F+ + G E + L G + +R F+ A+ N P++IFIDE+DA+A +R+ +
Sbjct: 261 ETGAFFFLINGPEIMSKLAGESESNLRKAFEEAEKNAPAIIFIDELDAIAPKREKTHGEV 320
Query: 291 TDHLYNAATQERETTLNQLLIELDGFDTGKGVIFLAATNXXXXXXXXXXXXXXFDRKIRI 350
+ ++QLL +DG VI +AATN FDR++ I
Sbjct: 321 ERRI-----------VSQLLTLMDGLKQRAHVIVMAATNRPNSIDPALRRFGRFDREVDI 369
Query: 351 RAPNAKGRTEILKIHASKVKMSDSVDLSSYAKNLPGWTG 389
P+A GR EIL+IH +K++D VDL A G G
Sbjct: 370 GIPDATGRLEILQIHTKNMKLADDVDLEQVANETHGHVG 408
>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 = 3e-36, Method: Compositional matrix adjust.
Identities = 80/219 (36%), Positives = 122/219 (55%), Gaps = 12/219 (5%)
Query: 172 VKFSDVAGIDEAVEELQELVRY-LKNPELFDKMGIKPPHGVLLEGPPGCGKTLVAKAIAG 230
V + D+ G + + +++E+V L++P LF +G+KPP G+LL GPPG GKTL+A+A+A
Sbjct: 201 VGYDDIGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVAN 260
Query: 231 EAGVPFYQMAGSEFVEVLVGVGSARIRDLFKRAKVNKPSVIFIDEIDALATRRQGIFKDT 290
E G F+ + G E + L G + +R F+ A+ N P++IFIDE+DA+A +R+ +
Sbjct: 261 ETGAFFFLINGPEIMSKLAGESESNLRKAFEEAEKNAPAIIFIDELDAIAPKREKTHGEV 320
Query: 291 TDHLYNAATQERETTLNQLLIELDGFDTGKGVIFLAATNXXXXXXXXXXXXXXFDRKIRI 350
+ ++QLL +DG VI +AATN FDR++ I
Sbjct: 321 ERRI-----------VSQLLTLMDGLKQRAHVIVMAATNRPNSIDPALRRFGRFDREVDI 369
Query: 351 RAPNAKGRTEILKIHASKVKMSDSVDLSSYAKNLPGWTG 389
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: 172 VKFSDVAGIDEAVEELQELVRY-LKNPELFDKMGIKPPHGVLLEGPPGCGKTLVAKAIAG 230
V + D+ G + + +++E+V L++P LF +G+KPP G+LL GPPG GKTL+A+A+A
Sbjct: 201 VGYDDIGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVAN 260
Query: 231 EAGVPFYQMAGSEFVEVLVGVGSARIRDLFKRAKVNKPSVIFIDEIDALATRRQGIFKDT 290
E G F+ + G E + L G + +R F+ A+ N P++IFIDE+DA+A +R+ +
Sbjct: 261 ETGAFFFLINGPEIMSKLAGESESNLRKAFEEAEKNAPAIIFIDELDAIAPKREKTHGEV 320
Query: 291 TDHLYNAATQERETTLNQLLIELDGFDTGKGVIFLAATNXXXXXXXXXXXXXXFDRKIRI 350
+ ++QLL +DG VI +AATN FDR++ I
Sbjct: 321 ERRI-----------VSQLLTLMDGLKQRAHVIVMAATNRPNSIDPALRRFGRFDREVDI 369
Query: 351 RAPNAKGRTEILKIHASKVKMSDSVDLSSYAKNLPGWTG 389
P+A GR EIL+IH +K++D VDL A G G
Sbjct: 370 GIPDATGRLEILQIHTKNMKLADDVDLEQVANETHGHVG 408
Score = 135 bits (340), Expect = 7e-32, Method: Compositional matrix adjust.
Identities = 78/219 (35%), Positives = 114/219 (52%), Gaps = 9/219 (4%)
Query: 172 VKFSDVAGIDEAVEELQELVRY-LKNPELFDKMGIKPPHGVLLEGPPGCGKTLVAKAIAG 230
V + D+ G+++ ELQELV+Y +++P+ F K G+ P GVL GPPGCGKTL+AKAIA
Sbjct: 474 VTWEDIGGLEDVKRELQELVQYPVEHPDKFLKFGMTPSKGVLFYGPPGCGKTLLAKAIAN 533
Query: 231 EAGVPFYQMAGSEFVEVLVGVGSARIRDLFKRAKVNKPSVIFIDEIDALATRRQGIFKDT 290
E F + G E + + G A +R++F +A+ P V+F DE+D++A R
Sbjct: 534 ECQANFISIKGPELLTMWFGESEANVREIFDKARQAAPCVLFFDELDSIAKARG------ 587
Query: 291 TDHLYNAATQERETTLNQLLIELDGFDTGKGVIFLAATNXXXXXXXXXXXXXXFDRKIRI 350
+ +NQ+L E+DG T K V + ATN D+ I I
Sbjct: 588 --GNIGDGGGAADRVINQILTEMDGMSTKKNVFIIGATNRPDIIDPAILRPGRLDQLIYI 645
Query: 351 RAPNAKGRTEILKIHASKVKMSDSVDLSSYAKNLPGWTG 389
P+ K R ILK + K ++ VDL AK G++G
Sbjct: 646 PLPDEKSRVAILKANLRKSPVAKDVDLEFLAKMTNGFSG 684
>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 = 3e-36, Method: Compositional matrix adjust.
Identities = 80/219 (36%), Positives = 122/219 (55%), Gaps = 12/219 (5%)
Query: 172 VKFSDVAGIDEAVEELQELVRY-LKNPELFDKMGIKPPHGVLLEGPPGCGKTLVAKAIAG 230
V + D+ G + + +++E+V L++P LF +G+KPP G+LL GPPG GKTL+A+A+A
Sbjct: 201 VGYDDIGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVAN 260
Query: 231 EAGVPFYQMAGSEFVEVLVGVGSARIRDLFKRAKVNKPSVIFIDEIDALATRRQGIFKDT 290
E G F+ + G E + L G + +R F+ A+ N P++IFIDE+DA+A +R+ +
Sbjct: 261 ETGAFFFLINGPEIMSKLAGESESNLRKAFEEAEKNAPAIIFIDELDAIAPKREKTHGEV 320
Query: 291 TDHLYNAATQERETTLNQLLIELDGFDTGKGVIFLAATNXXXXXXXXXXXXXXFDRKIRI 350
+ ++QLL +DG VI +AATN FDR++ I
Sbjct: 321 ERRI-----------VSQLLTLMDGLKQRAHVIVMAATNRPNSIDPALRRFGRFDREVDI 369
Query: 351 RAPNAKGRTEILKIHASKVKMSDSVDLSSYAKNLPGWTG 389
P+A GR EIL+IH +K++D VDL A G G
Sbjct: 370 GIPDATGRLEILQIHTKNMKLADDVDLEQVANETHGHVG 408
>pdb|4B4T|I Chain I, Near-Atomic Resolution Structural Model Of The Yeast 26s
Proteasome
Length = 437
Score = 147 bits (371), Expect = 2e-35, Method: Compositional matrix adjust.
Identities = 83/226 (36%), Positives = 128/226 (56%), Gaps = 9/226 (3%)
Query: 165 RVDGSTGVKFSDVAGIDEAVEELQELVRY-LKNPELFDKMGIKPPHGVLLEGPPGCGKTL 223
++D S +SD+ G++ ++E++E V L +PEL+++MGIKPP GV+L G PG GKTL
Sbjct: 172 KMDKSPTESYSDIGGLESQIQEIKESVELPLTHPELYEEMGIKPPKGVILYGAPGTGKTL 231
Query: 224 VAKAIAGEAGVPFYQMAGSEFVEVLVGVGSARIRDLFKRAKVNKPSVIFIDEIDALATRR 283
+AKA+A + F ++ GSE ++ +G G R +FK A N PS++FIDEIDA+ T+R
Sbjct: 232 LAKAVANQTSATFLRIVGSELIQKYLGDGPRLCRQIFKVAGENAPSIVFIDEIDAIGTKR 291
Query: 284 QGIFKDTTDHLYNAATQERETTLNQLLIELDGFDTGKGVIFLAATNXXXXXXXXXXXXXX 343
D+ + +E + T+ +LL +LDGFD V + ATN
Sbjct: 292 Y----DSN----SGGEREIQRTMLELLNQLDGFDDRGDVKVIMATNKIETLDPALIRPGR 343
Query: 344 FDRKIRIRAPNAKGRTEILKIHASKVKMSDSVDLSSYAKNLPGWTG 389
DRKI P+ + +IL IH SK+ +S+ V+L + +G
Sbjct: 344 IDRKILFENPDLSTKKKILGIHTSKMNLSEDVNLETLVTTKDDLSG 389
>pdb|4B4T|J Chain J, Near-Atomic Resolution Structural Model Of The Yeast 26s
Proteasome
Length = 405
Score = 144 bits (364), Expect = 1e-34, Method: Compositional matrix adjust.
Identities = 77/218 (35%), Positives = 128/218 (58%), Gaps = 11/218 (5%)
Query: 174 FSDVAGIDEAVEELQELVRY-LKNPELFDKMGIKPPHGVLLEGPPGCGKTLVAKAIAGEA 232
+ V G+ + ++E++E++ +K+PELF+ +GI P GV+L GPPG GKTL+A+A+A
Sbjct: 147 YDMVGGLTKQIKEIKEVIELPVKHPELFESLGIAQPKGVILYGPPGTGKTLLARAVAHHT 206
Query: 233 GVPFYQMAGSEFVEVLVGVGSARIRDLFKRAKVNKPSVIFIDEIDAL-ATRRQGIFKDTT 291
F +++G+E V+ +G GS +R+LF A+ + PS+IF+DEID++ +TR +G
Sbjct: 207 DCKFIRVSGAELVQKYIGEGSRMVRELFVMAREHAPSIIFMDEIDSIGSTRVEG------ 260
Query: 292 DHLYNAATQERETTLNQLLIELDGFDTGKGVIFLAATNXXXXXXXXXXXXXXFDRKIRIR 351
E + T+ +LL +LDGF+T K + + ATN DRKI
Sbjct: 261 ---SGGGDSEVQRTMLELLNQLDGFETSKNIKIIMATNRLDILDPALLRPGRIDRKIEFP 317
Query: 352 APNAKGRTEILKIHASKVKMSDSVDLSSYAKNLPGWTG 389
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 = 142 bits (357), Expect = 8e-34, Method: Compositional matrix adjust.
Identities = 84/233 (36%), Positives = 126/233 (54%), Gaps = 10/233 (4%)
Query: 158 SRSKAEARVDGSTGVKFSDVAGIDEAVEELQE-LVRYLKNPELFDKMGIKPPHGVLLEGP 216
SR KA VD +SDV G+D+ +EEL E +V +K + F MGI+ P G L+ GP
Sbjct: 165 SRVKA-MEVDEKPTETYSDVGGLDKQIEELVEAIVLPMKRADKFKDMGIRAPKGALMYGP 223
Query: 217 PGCGKTLVAKAIAGEAGVPFYQMAGSEFVEVLVGVGSARIRDLFKRAKVNKPSVIFIDEI 276
PG GKTL+A+A A + F ++A + V++ +G G+ +RD F AK P++IFIDE+
Sbjct: 224 PGTGKTLLARACAAQTNATFLKLAAPQLVQMYIGEGAKLVRDAFALAKEKAPTIIFIDEL 283
Query: 277 DALATRRQGIFKDTTDHLYNAATQERETTLNQLLIELDGFDTGKGVIFLAATNXXXXXXX 336
DA+ T+R K + +E + T+ +LL +LDGF + V LAATN
Sbjct: 284 DAIGTKRFDSEK--------SGDREVQRTMLELLNQLDGFSSDDRVKVLAATNRVDVLDP 335
Query: 337 XXXXXXXFDRKIRIRAPNAKGRTEILKIHASKVKMSDSVDLSSYAKNLPGWTG 389
DRKI P+ R +IL+IH+ K+ D ++ A++ + G
Sbjct: 336 ALLRSGRLDRKIEFPLPSEDSRAQILQIHSRKMTTDDDINWQELARSTDEFNG 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 (342), Expect = 5e-32, Method: Compositional matrix adjust.
Identities = 78/219 (35%), Positives = 114/219 (52%), Gaps = 9/219 (4%)
Query: 172 VKFSDVAGIDEAVEELQELVRY-LKNPELFDKMGIKPPHGVLLEGPPGCGKTLVAKAIAG 230
V + D+ G+++ ELQELV+Y +++P+ F K G+ P GVL GPPGCGKTL+AKAIA
Sbjct: 12 VTWEDIGGLEDVKRELQELVQYPVEHPDKFLKFGMTPSKGVLFYGPPGCGKTLLAKAIAN 71
Query: 231 EAGVPFYQMAGSEFVEVLVGVGSARIRDLFKRAKVNKPSVIFIDEIDALATRRQGIFKDT 290
E F + G E + + G A +R++F +A+ P V+F DE+D++A R
Sbjct: 72 ECQANFISIKGPELLTMWFGESEANVREIFDKARQAAPCVLFFDELDSIAKARG------ 125
Query: 291 TDHLYNAATQERETTLNQLLIELDGFDTGKGVIFLAATNXXXXXXXXXXXXXXFDRKIRI 350
+ +NQ+L E+DG T K V + ATN D+ I I
Sbjct: 126 --GNIGDGGGAADRVINQILTEMDGMSTKKNVFIIGATNRPDIIDPAILRPGRLDQLIYI 183
Query: 351 RAPNAKGRTEILKIHASKVKMSDSVDLSSYAKNLPGWTG 389
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 = 135 bits (341), Expect = 6e-32, Method: Compositional matrix adjust.
Identities = 87/252 (34%), Positives = 129/252 (51%), Gaps = 14/252 (5%)
Query: 172 VKFSDVAGIDEAVEELQELVRY-LKNPELFDKMGIKPPHGVLLEGPPGCGKTLVAKAIAG 230
V ++DV G+D +E++E V L +L++++GI PP GVLL GPPG GKT++ KA+A
Sbjct: 169 VTYADVGGLDMQKQEIREAVELPLVQADLYEQIGIDPPRGVLLYGPPGTGKTMLVKAVAN 228
Query: 231 EAGVPFYQMAGSEFVEVLVGVGSARIRDLFKRAKVNKPSVIFIDEIDALATRRQGIFKDT 290
F ++ GSEFV +G G +RD+F+ A+ N PS+IFIDE+D++AT+R F
Sbjct: 229 STKAAFIRVNGSEFVHKYLGEGPRMVRDVFRLARENAPSIIFIDEVDSIATKR---FDAQ 285
Query: 291 TDHLYNAATQERETTLNQLLIELDGFDTGKGVIFLAATNXXXXXXXXXXXXXXFDRKIRI 350
T + +E + L +LL ++DGFD V + ATN DRKI
Sbjct: 286 T-----GSDREVQRILIELLTQMDGFDQSTNVKVIMATNRADTLDPALLRPGRLDRKIEF 340
Query: 351 RAPNAKGRTE---ILKIHASKVKMSDSVDLSSYAKNLPGWTGXXXXXXXXXXXXXXXXKG 407
P+ + R E I ASK+ ++ DL S +G K
Sbjct: 341 --PSLRDRRERRLIFGTIASKMSLAPEADLDSLIIRNDSLSGAVIAAIMQEAGLRAVRKN 398
Query: 408 HESILSSDMDDA 419
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 = 1e-31, Method: Compositional matrix adjust.
Identities = 83/259 (32%), Positives = 125/259 (48%), Gaps = 9/259 (3%)
Query: 172 VKFSDVAGIDEAVEELQELVRY-LKNPELFDKMGIKPPHGVLLEGPPGCGKTLVAKAIAG 230
V +SDV G + +E+L+E+V L +PE F +GI PP G+LL GPPG GKTL A+A+A
Sbjct: 206 VTYSDVGGCKDQIEKLREVVELPLLSPERFATLGIDPPKGILLYGPPGTGKTLCARAVAN 265
Query: 231 EAGVPFYQMAGSEFVEVLVGVGSARIRDLFKRAKVNKPSVIFIDEIDALATRRQGIFKDT 290
F ++ GSE V+ VG G+ +R+LF+ A+ K +IF DEIDA+ R F D
Sbjct: 266 RTDATFIRVIGSELVQKYVGEGARMVRELFEMARTKKACIIFFDEIDAVGGAR---FDDG 322
Query: 291 TDHLYNAATQERETTLNQLLIELDGFDTGKGVIFLAATNXXXXXXXXXXXXXXFDRKIRI 350
E + T+ +L+ +LDGFD + + ATN DRK+
Sbjct: 323 A-----GGDNEVQRTMLELITQLDGFDPRGNIKVMFATNRPNTLDPALLRPGRIDRKVEF 377
Query: 351 RAPNAKGRTEILKIHASKVKMSDSVDLSSYAKNLPGWTGXXXXXXXXXXXXXXXXKGHES 410
P+ +GR I +IH+ + + + ++ P TG +
Sbjct: 378 SLPDLEGRANIFRIHSKSMSVERGIRWELISRLCPNSTGAELRSVCTEAGMFAIRARRKV 437
Query: 411 ILSSDMDDAVDRLTVGPKR 429
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 (313), Expect = 1e-28, Method: Compositional matrix adjust.
Identities = 75/217 (34%), Positives = 117/217 (53%), Gaps = 15/217 (6%)
Query: 172 VKFSDVAGIDEAVEEL-QELVRYLKNPELFDKMGIKPPHGVLLEGPPGCGKTLVAKAIAG 230
V ++D+ +++ EEL ++ ++NP+ F +G+ P GVLL GPPGCGKTL+AKA+A
Sbjct: 7 VTWADIGALEDIREELTMAILAPVRNPDQFKALGLVTPAGVLLAGPPGCGKTLLAKAVAN 66
Query: 231 EAGVPFYQMAGSEFVEVLVGVGSARIRDLFKRAKVNKPSVIFIDEIDALATRRQGIFKDT 290
E+G+ F + G E + + VG +R +F+RAK + P VIF DE+DAL RR
Sbjct: 67 ESGLNFISVKGPELLNMYVGESERAVRQVFQRAKNSAPCVIFFDEVDALCPRR------- 119
Query: 291 TDHLYNAATQERETTLNQLLIELDGFDTGKGVIFLAATNXXXXXXXXXXXXXXFDRKIRI 350
+D A+ + +NQLL E+DG + + V +AATN D+ + +
Sbjct: 120 SDRETGASVR----VVNQLLTEMDGLEARQQVFIMAATNRPDIIDPAILRPGRLDKTLFV 175
Query: 351 RAPNAKGRTEILKI---HASKVKMSDSVDLSSYAKNL 384
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 = 106 bits (264), Expect = 5e-23, Method: Compositional matrix adjust.
Identities = 74/197 (37%), Positives = 112/197 (56%), Gaps = 18/197 (9%)
Query: 172 VKFSDVAGIDEAVEELQELVRY-LKNPELFDKMGIKPPHGVLLEGPPGCGKTLVAKAIAG 230
VK+ DVAG++ A E L+E V +K P LF K KP G+LL GPPG GK+ +AKA+A
Sbjct: 24 VKWEDVAGLEGAKEALKEAVILPVKFPHLF-KGNRKPTSGILLYGPPGTGKSYLAKAVAT 82
Query: 231 EAGVPFYQMAGSEFVEVLVGVGSARIRDLFKRAKVNKPSVIFIDEIDAL-ATRRQGIFKD 289
EA F+ ++ S+ V +G ++ LF A+ NKPS+IFIDE+DAL TR +G
Sbjct: 83 EANSTFFSVSSSDLVSKWMGESEKLVKQLFAMARENKPSIIFIDEVDALTGTRGEG---- 138
Query: 290 TTDHLYNAATQERETTLNQLLIELDGF-DTGKGVIFLAATNXXXXXXXXXXXXXXFDRKI 348
+ A++ +T +LL++++G + +GV+ L ATN F+R+I
Sbjct: 139 -----ESEASRRIKT---ELLVQMNGVGNDSQGVLVLGATN--IPWQLDSAIRRRFERRI 188
Query: 349 RIRAPNAKGRTEILKIH 365
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 = 105 bits (261), Expect = 1e-22, Method: Compositional matrix adjust.
Identities = 73/197 (37%), Positives = 112/197 (56%), Gaps = 18/197 (9%)
Query: 172 VKFSDVAGIDEAVEELQELVRY-LKNPELFDKMGIKPPHGVLLEGPPGCGKTLVAKAIAG 230
VK+ DVAG++ A E L+E V +K P LF K KP G+LL GPPG GK+ +AKA+A
Sbjct: 15 VKWEDVAGLEGAKEALKEAVILPVKFPHLF-KGNRKPTSGILLYGPPGTGKSYLAKAVAT 73
Query: 231 EAGVPFYQMAGSEFVEVLVGVGSARIRDLFKRAKVNKPSVIFIDEIDAL-ATRRQGIFKD 289
EA F+ ++ S+ V +G ++ LF A+ NKPS+IFID++DAL TR +G
Sbjct: 74 EANSTFFSVSSSDLVSKWMGESEKLVKQLFAMARENKPSIIFIDQVDALTGTRGEG---- 129
Query: 290 TTDHLYNAATQERETTLNQLLIELDGF-DTGKGVIFLAATNXXXXXXXXXXXXXXFDRKI 348
+ A++ +T +LL++++G + +GV+ L ATN F+R+I
Sbjct: 130 -----ESEASRRIKT---ELLVQMNGVGNDSQGVLVLGATN--IPWQLDSAIRRRFERRI 179
Query: 349 RIRAPNAKGRTEILKIH 365
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 = 104 bits (260), Expect = 1e-22, Method: Compositional matrix adjust.
Identities = 73/197 (37%), Positives = 112/197 (56%), Gaps = 18/197 (9%)
Query: 172 VKFSDVAGIDEAVEELQELVRY-LKNPELFDKMGIKPPHGVLLEGPPGCGKTLVAKAIAG 230
VK+ DVAG++ A E L+E V +K P LF K KP G+LL GPPG GK+ +AKA+A
Sbjct: 33 VKWEDVAGLEGAKEALKEAVILPVKFPHLF-KGNRKPTSGILLYGPPGTGKSYLAKAVAT 91
Query: 231 EAGVPFYQMAGSEFVEVLVGVGSARIRDLFKRAKVNKPSVIFIDEIDAL-ATRRQGIFKD 289
EA F+ ++ S+ V +G ++ LF A+ NKPS+IFID++DAL TR +G
Sbjct: 92 EANSTFFSVSSSDLVSKWMGESEKLVKQLFAMARENKPSIIFIDQVDALTGTRGEG---- 147
Query: 290 TTDHLYNAATQERETTLNQLLIELDGF-DTGKGVIFLAATNXXXXXXXXXXXXXXFDRKI 348
+ A++ +T +LL++++G + +GV+ L ATN F+R+I
Sbjct: 148 -----ESEASRRIKT---ELLVQMNGVGNDSQGVLVLGATN--IPWQLDSAIRRRFERRI 197
Query: 349 RIRAPNAKGRTEILKIH 365
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 = 104 bits (260), Expect = 2e-22, Method: Compositional matrix adjust.
Identities = 73/197 (37%), Positives = 112/197 (56%), Gaps = 18/197 (9%)
Query: 172 VKFSDVAGIDEAVEELQELVRY-LKNPELFDKMGIKPPHGVLLEGPPGCGKTLVAKAIAG 230
VK+ DVAG++ A E L+E V +K P LF K KP G+LL GPPG GK+ +AKA+A
Sbjct: 48 VKWEDVAGLEGAKEALKEAVILPVKFPHLF-KGNRKPTSGILLYGPPGTGKSYLAKAVAT 106
Query: 231 EAGVPFYQMAGSEFVEVLVGVGSARIRDLFKRAKVNKPSVIFIDEIDAL-ATRRQGIFKD 289
EA F+ ++ S+ V +G ++ LF A+ NKPS+IFID++DAL TR +G
Sbjct: 107 EANSTFFSVSSSDLVSKWMGESEKLVKQLFAMARENKPSIIFIDQVDALTGTRGEG---- 162
Query: 290 TTDHLYNAATQERETTLNQLLIELDGF-DTGKGVIFLAATNXXXXXXXXXXXXXXFDRKI 348
+ A++ +T +LL++++G + +GV+ L ATN F+R+I
Sbjct: 163 -----ESEASRRIKT---ELLVQMNGVGNDSQGVLVLGATN--IPWQLDSAIRRRFERRI 212
Query: 349 RIRAPNAKGRTEILKIH 365
I P+ RT + +I+
Sbjct: 213 YIPLPDLAARTTMFEIN 229
>pdb|3VFD|A Chain A, Human Spastin Aaa Domain
Length = 389
Score = 101 bits (251), Expect = 1e-21, Method: Compositional matrix adjust.
Identities = 64/168 (38%), Positives = 91/168 (54%), Gaps = 17/168 (10%)
Query: 166 VDGSTGVKFSDVAGIDEAVEELQELVRYLK-NPELFDKMGIKPP-HGVLLEGPPGCGKTL 223
VD T VKF D+AG D A + LQE+V PELF G++ P G+LL GPPG GKT+
Sbjct: 106 VDNGTAVKFDDIAGQDLAKQALQEIVILPSLRPELF--TGLRAPARGLLLFGPPGNGKTM 163
Query: 224 VAKAIAGEAGVPFYQMAGSEFVEVLVGVGSARIRDLFKRAKVNKPSVIFIDEIDALATRR 283
+AKA+A E+ F+ ++ + VG G +R LF A+ +PS+IFID++D+L R
Sbjct: 164 LAKAVAAESNATFFNISAASLTSKYVGEGEKLVRALFAVARELQPSIIFIDQVDSLLCER 223
Query: 284 QGIFKDTTDHLYNAATQERETTLNQLLIELDGFDTGKG--VIFLAATN 329
+ D + L + LIE DG + V+ + ATN
Sbjct: 224 REGEHDASRRLK-----------TEFLIEFDGVQSAGDDRVLVMGATN 260
>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 = 99.4 bits (246), Expect = 6e-21, Method: Compositional matrix adjust.
Identities = 73/223 (32%), Positives = 116/223 (52%), Gaps = 20/223 (8%)
Query: 172 VKFSDVAGIDEAVEELQELVRY-LKNPELFDKMGIKPP-HGVLLEGPPGCGKTLVAKAIA 229
VK+SDVAG++ A E L+E V +K P LF G + P G+LL GPPG GK+ +AKA+A
Sbjct: 131 VKWSDVAGLEGAKEALKEAVILPIKFPHLF--TGKRTPWRGILLFGPPGTGKSYLAKAVA 188
Query: 230 GEAG-VPFYQMAGSEFVEVLVGVGSARIRDLFKRAKVNKPSVIFIDEIDALATRRQGIFK 288
EA F+ ++ S+ V +G +++LF+ A+ NKPS+IFIDEID+L R
Sbjct: 189 TEANNSTFFSISSSDLVSKWLGESEKLVKNLFQLARENKPSIIFIDEIDSLCGSR----- 243
Query: 289 DTTDHLYNAATQERETTLNQLLIELDGFDT-GKGVIFLAATNXXXXXXXXXXXXXXFDRK 347
+++ AA + + + L+++ G G++ L ATN F+++
Sbjct: 244 --SENESEAARRIK----TEFLVQMQGVGVDNDGILVLGATN--IPWVLDSAIRRRFEKR 295
Query: 348 IRIRAPNAKGRTEILKIHASKVKMS-DSVDLSSYAKNLPGWTG 389
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 = 97.8 bits (242), Expect = 2e-20, Method: Compositional matrix adjust.
Identities = 73/223 (32%), Positives = 115/223 (51%), Gaps = 20/223 (8%)
Query: 172 VKFSDVAGIDEAVEELQELVRY-LKNPELFDKMGIKPP-HGVLLEGPPGCGKTLVAKAIA 229
VK+SDVAG++ A E L+E V +K P LF G + P G+LL GPPG GK+ +AKA+A
Sbjct: 9 VKWSDVAGLEGAKEALKEAVILPIKFPHLF--TGKRTPWRGILLFGPPGTGKSYLAKAVA 66
Query: 230 GEAG-VPFYQMAGSEFVEVLVGVGSARIRDLFKRAKVNKPSVIFIDEIDALATRRQGIFK 288
EA F+ ++ S+ V +G +++LF+ A+ NKPS+IFIDEID+L R
Sbjct: 67 TEANNSTFFSISSSDLVSKWLGESEKLVKNLFQLARENKPSIIFIDEIDSLCGSR----- 121
Query: 289 DTTDHLYNAATQERETTLNQLLIELDGFDT-GKGVIFLAATNXXXXXXXXXXXXXXFDRK 347
+++ AA + + + L+++ G G++ L ATN F+++
Sbjct: 122 --SENESEAARRIK----TEFLVQMQGVGVDNDGILVLGATN--IPWVLDSAIRRRFEKR 173
Query: 348 IRIRAPNAKGRTEILKIHASKVKMS-DSVDLSSYAKNLPGWTG 389
I I P R + K+H + S D + G++G
Sbjct: 174 IYIPLPEPHARAAMFKLHLGTTQNSLTEADFRELGRKTDGYSG 216
>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 = 94.0 bits (232), Expect = 2e-19, Method: Compositional matrix adjust.
Identities = 56/168 (33%), Positives = 94/168 (55%), Gaps = 17/168 (10%)
Query: 166 VDGSTGVKFSDVAGIDEAVEELQELVRY-LKNPELFDKMGIK-PPHGVLLEGPPGCGKTL 223
+D V + D+AG++ A ++E+V + + P++F G++ PP G+LL GPPG GKTL
Sbjct: 75 MDHGPPVNWEDIAGVEFAKATIKEIVVWPMLRPDIF--TGLRGPPKGILLFGPPGTGKTL 132
Query: 224 VAKAIAGEAGVPFYQMAGSEFVEVLVGVGSARIRDLFKRAKVNKPSVIFIDEIDALATRR 283
+ K IA ++G F+ ++ S VG G +R LF A+ +P+VIFIDEID+L ++R
Sbjct: 133 IGKCIASQSGATFFSISASSLTSKWVGEGEKMVRALFAVARCQQPAVIFIDEIDSLLSQR 192
Query: 284 QGIFKDTTDHLYNAATQERETTLNQLLIELDGFDTGKG--VIFLAATN 329
+++ + + L++LDG T ++ + ATN
Sbjct: 193 GDGEHESSRRIK-----------TEFLVQLDGATTSSEDRILVVGATN 229
>pdb|3B9P|A Chain A, Spastin
Length = 297
Score = 92.0 bits (227), Expect = 9e-19, Method: Compositional matrix adjust.
Identities = 72/230 (31%), Positives = 114/230 (49%), Gaps = 21/230 (9%)
Query: 166 VDGSTGVKFSDVAGIDEAVEELQELVRYLK-NPELFDKMGIKPP-HGVLLEGPPGCGKTL 223
V+G V+++D+AG D A + LQE+V PELF G++ P G+LL GPPG GKTL
Sbjct: 12 VEGGAKVEWTDIAGQDVAKQALQEMVILPSVRPELF--TGLRAPAKGLLLFGPPGNGKTL 69
Query: 224 VAKAIAGEAGVPFYQMAGSEFVEVLVGVGSARIRDLFKRAKVNKPSVIFIDEIDALATRR 283
+A+A+A E F ++ + VG G +R LF A+ +PS+IFIDE+D+L + R
Sbjct: 70 LARAVATECSATFLNISAASLTSKYVGDGEKLVRALFAVARHMQPSIIFIDEVDSLLSER 129
Query: 284 QGIFKDTTDHLYNAATQERETTLNQLLIELDGF---DTGKGVIFLAATNXXXXXXXXXXX 340
+ + L + L+E DG G ++ LAATN
Sbjct: 130 SSSEHEASRRLK-----------TEFLVEFDGLPGNPDGDRIVVLAATN--RPQELDEAA 176
Query: 341 XXXFDRKIRIRAPNAKGRTEIL-KIHASKVKMSDSVDLSSYAKNLPGWTG 389
F +++ + P+ + R +L ++ + D+ L AK G++G
Sbjct: 177 LRRFTKRVYVSLPDEQTRELLLNRLLQKQGSPLDTEALRRLAKITDGYSG 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 = 54.7 bits (130), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 48/182 (26%), Positives = 86/182 (47%), Gaps = 24/182 (13%)
Query: 469 RISIVPRGQTLSQLVFHRLDDESYMFERRPQLLHRLQVLLGGRAAEEVIYGQD-TSRASV 527
+ISI+PRG L V +L E + L +++ VLLGGRAAEEV +G+D + +
Sbjct: 41 KISIIPRGMALG--VTQQLPIEDKHIYDKKDLYNKILVLLGGRAAEEVFFGKDGITTGAE 98
Query: 528 NYLADASWLARKILTIWNLEN---PMVIHGEPPPWRKKVKFVGPRLDFEGSLYDDYGLTE 584
N L A+ LA +++++W + + P+ I + P L + D T
Sbjct: 99 NDLQRATDLAYRMVSMWGMSDKVGPIAIR----------RVANPFLGGMTTAVD----TS 144
Query: 585 PPVNFNLDDDIAWRTEELLRDMYGRTVTLLRRHHAALLKTVKVLLNQKEIGREEIDFILN 644
P + +D+++ + ++ + Y + ++ + L VK LL ++ I EE +
Sbjct: 145 PDLLREIDEEV----KRIITEQYEKAKAIVEEYKEPLKAVVKKLLEKETITCEEFVEVFK 200
Query: 645 NY 646
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: 208 PHGVLLEGPPGCGKTLVAKAIAGEAGVPFYQMAGSEFVEV-LVG--VGSARIRDLFKRA- 263
P +L+ GP G GKT +A+ +A A PF ++ ++F EV VG V S IRDL A
Sbjct: 50 PKNILMIGPTGVGKTEIARRLAKLANAPFIKVEATKFTEVGYVGKEVDSI-IRDLTDSAG 108
Query: 264 ----KVNKPSVIFIDEIDALATR---------RQGIFKD 289
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 = 44.3 bits (103), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 46/152 (30%), Positives = 69/152 (45%), Gaps = 27/152 (17%)
Query: 187 LQELVRYLKNPELFDKMGIKPPHGVLLEGPPGCGKTLVAKAIAGEAGVPFYQMA------ 240
+Q+L + LK P L L GPPG GKT +AK+IA G F +++
Sbjct: 99 VQKLTKSLKGPIL------------CLAGPPGVGKTSLAKSIAKSLGRKFVRISLGGVRD 146
Query: 241 GSEF---VEVLVGVGSARIRDLFKRAKVNKPSVIFIDEIDALATRRQGIFKDTTDHLYNA 297
SE VG RI K+A P V +DEID +++ +G D + +
Sbjct: 147 ESEIRGHRRTYVGAMPGRIIQGMKKAGKLNP-VFLLDEIDKMSSDFRG---DPSSAMLEV 202
Query: 298 ATQERETTLNQLLIELDGFDTGKGVIFLAATN 329
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 = 43.9 bits (102), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 32/111 (28%), Positives = 52/111 (46%), Gaps = 15/111 (13%)
Query: 209 HGVLLEGPPGCGKTLVAKAIAGEAGVPFYQMAGSEFVEVLVGVGSARIRDLFKRAKVNKP 268
H ++L GPPG GKT +A+ IA A +++ V G IR+ +RA+ N+
Sbjct: 51 HSMILWGPPGTGKTTLAEVIARYANADVERISA-------VTSGVKEIREAIERARQNRN 103
Query: 269 ----SVIFIDEIDALATRRQGIF----KDTTDHLYNAATQERETTLNQLLI 311
+++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 = 7e-04, Method: Compositional matrix adjust.
Identities = 29/72 (40%), Positives = 38/72 (52%), Gaps = 9/72 (12%)
Query: 175 SDVAGIDEAVEELQELVRYLKNPELFDKMGIKPPHGVLLEGPPGCGKTLVAKAIAGEAG- 233
S + G + A E +V +K+ ++ + VLL GPPG GKT +A AIA E G
Sbjct: 37 SGLVGQENAREACGVIVELIKSKKMAGR-------AVLLAGPPGTGKTALALAIAQELGS 89
Query: 234 -VPFYQMAGSEF 244
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 = 0.004, Method: Compositional matrix adjust.
Identities = 27/84 (32%), Positives = 39/84 (46%), Gaps = 6/84 (7%)
Query: 210 GVLLEGPPGCGKTLVAKAIAGEAG--VPFYQMAGSEFVEVLV----GVGSARIRDLFKRA 263
VL+ G PG GKT +A +A G PF +AGSE + + + A R + R
Sbjct: 72 AVLIAGQPGTGKTAIAMGMAQALGPDTPFTAIAGSEIFSLEMSKTEALTQAFRRSIGVRI 131
Query: 264 KVNKPSVIFIDEIDALATRRQGIF 287
K + + EID + +R QG
Sbjct: 132 KAGAVHTVSLHEIDVINSRTQGFL 155
>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: 207 PPHGVLLEGPPGCGKTLVAKAIAGEAGVPFYQMAGSE-FVEVLVGVGSARIRDLFKRAKV 265
P VLLEGPP GKT +A IA E+ PF ++ + + ++ +F A
Sbjct: 62 PLVSVLLEGPPHSGKTALAAKIAEESNFPFIKICSPDKMIGFSETAKCQAMKKIFDDAYK 121
Query: 266 NKPSVIFIDEIDAL 279
++ S + +D+I+ L
Sbjct: 122 SQLSCVVVDDIERL 135
>pdb|1D2N|A Chain A, D2 Domain Of N-Ethylmaleimide-Sensitive Fusion Protein
Length = 272
Score = 39.7 bits (91), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 23/74 (31%), Positives = 39/74 (52%), Gaps = 1/74 (1%)
Query: 207 PPHGVLLEGPPGCGKTLVAKAIAGEAGVPFYQMAGSEFVEVLVGVGSAR-IRDLFKRAKV 265
P VLLEGPP GKT +A IA E+ PF ++ + + + ++ +F A
Sbjct: 63 PLVSVLLEGPPHSGKTALAAKIAEESNFPFIKICSPDKMIGFSETAKCQAMKKIFDDAYK 122
Query: 266 NKPSVIFIDEIDAL 279
++ S + +D+I+ L
Sbjct: 123 SQLSCVVVDDIERL 136
>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 = 0.006, Method: Compositional matrix adjust.
Identities = 22/37 (59%), Positives = 23/37 (62%), Gaps = 2/37 (5%)
Query: 210 GVLLEGPPGCGKTLVAKAIAGEAG--VPFYQMAGSEF 244
VLL GPPG GKT +A AIA E G VPF GSE
Sbjct: 79 AVLLAGPPGTGKTALALAIAQELGSKVPFCPXVGSEV 115
>pdb|1G4A|E Chain E, Crystal Structures Of The Hslvu Peptidase-Atpase Complex
Reveal An Atp-Dependent Proteolysis Mechanism
pdb|1G4A|F Chain F, Crystal Structures Of The Hslvu Peptidase-Atpase Complex
Reveal An Atp-Dependent Proteolysis Mechanism
pdb|1G4B|E Chain E, Crystal Structures Of The Hslvu Peptidase-Atpase Complex
Reveal An Atp-Dependent Proteolysis Mechanism
pdb|1G4B|F Chain F, Crystal Structures Of The Hslvu Peptidase-Atpase Complex
Reveal An Atp-Dependent Proteolysis Mechanism
pdb|1G4B|K Chain K, Crystal Structures Of The Hslvu Peptidase-Atpase Complex
Reveal An Atp-Dependent Proteolysis Mechanism
pdb|1G4B|L Chain L, Crystal Structures Of The Hslvu Peptidase-Atpase Complex
Reveal An Atp-Dependent Proteolysis Mechanism
pdb|1YYF|A Chain A, Correction Of X-Ray Intensities From An Hslv-Hslu Co-
Crystal Containing Lattice Translocation Defects
pdb|1YYF|B Chain B, Correction Of X-Ray Intensities From An Hslv-Hslu Co-
Crystal Containing Lattice Translocation Defects
Length = 443
Score = 39.3 bits (90), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 16/40 (40%), Positives = 25/40 (62%)
Query: 208 PHGVLLEGPPGCGKTLVAKAIAGEAGVPFYQMAGSEFVEV 247
P +L+ GP G GKT +A+ +A A PF ++ ++F EV
Sbjct: 50 PKNILMIGPTGVGKTEIARRLAKLANAPFIKVEATKFTEV 89
>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 = 39.3 bits (90), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 16/40 (40%), Positives = 25/40 (62%)
Query: 208 PHGVLLEGPPGCGKTLVAKAIAGEAGVPFYQMAGSEFVEV 247
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 = 39.3 bits (90), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 16/40 (40%), Positives = 25/40 (62%)
Query: 208 PHGVLLEGPPGCGKTLVAKAIAGEAGVPFYQMAGSEFVEV 247
P +L+ GP G GKT +A+ +A A PF ++ ++F EV
Sbjct: 56 PKNILMIGPTGVGKTEIARRLAKLANAPFIKVEATKFTEV 95
>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 = 39.3 bits (90), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 16/40 (40%), Positives = 25/40 (62%)
Query: 208 PHGVLLEGPPGCGKTLVAKAIAGEAGVPFYQMAGSEFVEV 247
P +L+ GP G GKT +A+ +A A PF ++ ++F EV
Sbjct: 50 PKNILMIGPTGVGKTEIARRLAKLANAPFIKVEATKFTEV 89
>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 = 37.7 bits (86), Expect = 0.019, Method: Compositional matrix adjust.
Identities = 29/87 (33%), Positives = 39/87 (44%), Gaps = 9/87 (10%)
Query: 210 GVLLEGPPGCGKTLVAKAIAGEAG--VPFYQMAGSEFVEV----LVGVGSARIRDLFKRA 263
VL+ G PG GKT +A A G PF +AGSE + + A R + R
Sbjct: 87 AVLIAGQPGTGKTAIAXGXAQALGPDTPFTAIAGSEIFSLEXSKTEALTQAFRRSIGVRI 146
Query: 264 KVNKPSVIF---IDEIDALATRRQGIF 287
K P V+ + EID + +R QG
Sbjct: 147 KEGPPGVVHTVSLHEIDVINSRTQGFL 173
>pdb|1IM2|A Chain A, Hslu, Haemophilus Influenzae, Selenomethionine Variant
Length = 444
Score = 37.7 bits (86), Expect = 0.020, Method: Compositional matrix adjust.
Identities = 16/40 (40%), Positives = 24/40 (60%)
Query: 208 PHGVLLEGPPGCGKTLVAKAIAGEAGVPFYQMAGSEFVEV 247
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 = 0.024, Method: Compositional matrix adjust.
Identities = 37/126 (29%), Positives = 54/126 (42%), Gaps = 21/126 (16%)
Query: 174 FSDVAGIDEAVEELQELVRYLKNPELFDKMGIKPPHGVLLEGPPGCGKTLVAKAIA---- 229
+V G DE ++ L+ V P L L GPPG GKT A A+A
Sbjct: 16 LDEVVGQDEVIQRLKGYVERKNIPHL------------LFSGPPGTGKTATAIALARDLF 63
Query: 230 GEAGVP-FYQMAGSEFVEVLVGVGSARIRDLFKRAKVNKP--SVIFIDEIDALATRRQGI 286
GE F +M S+ E + V +I++ + A + +IF+DE DAL Q
Sbjct: 64 GENWRDNFIEMNASD--ERGIDVVRHKIKEFARTAPIGGAPFKIIFLDEADALTADAQAA 121
Query: 287 FKDTTD 292
+ 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 = 37.4 bits (85), Expect = 0.026, Method: Compositional matrix adjust.
Identities = 37/126 (29%), Positives = 54/126 (42%), Gaps = 21/126 (16%)
Query: 174 FSDVAGIDEAVEELQELVRYLKNPELFDKMGIKPPHGVLLEGPPGCGKTLVAKAIA---- 229
+V G DE ++ L+ V P L L GPPG GKT A A+A
Sbjct: 16 LDEVVGQDEVIQRLKGYVERKNIPHL------------LFSGPPGTGKTATAIALARDLF 63
Query: 230 GEAGVP-FYQMAGSEFVEVLVGVGSARIRDLFKRAKVNKP--SVIFIDEIDALATRRQGI 286
GE F +M S+ E + V +I++ + A + +IF+DE DAL Q
Sbjct: 64 GENWRDNFIEMNASD--ERGIDVVRHKIKEFARTAPIGGAPFKIIFLDEADALTADAQAA 121
Query: 287 FKDTTD 292
+ 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 = 0.032, Method: Compositional matrix adjust.
Identities = 38/128 (29%), Positives = 55/128 (42%), Gaps = 23/128 (17%)
Query: 173 KFSDVAGIDEAVEELQELVRYLKNPELFDKMGIKPPHGVLLEGPPGCGKTLVAKAIAGEA 232
+ D+ G + V+ L+ Y+K + PH +L GPPG GKT A A+A E
Sbjct: 23 RLDDIVGQEHIVKRLKH---YVKTGSM--------PH-LLFAGPPGVGKTTAALALAREL 70
Query: 233 GVPFYQMAGSEFVEVLVG--VGSARIRDLFKRAKVNKP------SVIFIDEIDALATRRQ 284
F + F+E+ G IR+ K KP +IF+DE DAL Q
Sbjct: 71 ---FGENWRHNFLELNASDERGINVIREKVKEFARTKPIGGASFKIIFLDEADALTQDAQ 127
Query: 285 GIFKDTTD 292
+ 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 = 35.4 bits (80), Expect = 0.097, Method: Composition-based stats.
Identities = 14/37 (37%), Positives = 25/37 (67%)
Query: 353 PNAKGRTEILKIHASKVKMSDSVDLSSYAKNLPGWTG 389
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 = 0.11, Method: Compositional matrix adjust.
Identities = 29/70 (41%), Positives = 34/70 (48%), Gaps = 10/70 (14%)
Query: 211 VLLEGPPGCGKTLVAKAIAGEAGVPFYQMAGSEFVEVLVGVGS-ARIRDLFKRAKVNKPS 269
VLL GPPG GKT +A IA E + +G VLV G A I +R
Sbjct: 54 VLLAGPPGLGKTTLAHIIASELQTNIHVTSGP----VLVKQGDMAAILTSLERG-----D 104
Query: 270 VIFIDEIDAL 279
V+FIDEI L
Sbjct: 105 VLFIDEIHRL 114
>pdb|1IN8|A Chain A, Thermotoga Maritima Ruvb T158v
Length = 334
Score = 35.4 bits (80), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 29/70 (41%), Positives = 34/70 (48%), Gaps = 10/70 (14%)
Query: 211 VLLEGPPGCGKTLVAKAIAGEAGVPFYQMAGSEFVEVLVGVGS-ARIRDLFKRAKVNKPS 269
VLL GPPG GKT +A IA E + +G VLV G A I +R
Sbjct: 54 VLLAGPPGLGKTTLAHIIASELQTNIHVTSGP----VLVKQGDMAAILTSLERG-----D 104
Query: 270 VIFIDEIDAL 279
V+FIDEI L
Sbjct: 105 VLFIDEIHRL 114
>pdb|1IN4|A Chain A, Thermotoga Maritima Ruvb Holliday Junction Branch
Migration Motor
Length = 334
Score = 35.4 bits (80), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 29/70 (41%), Positives = 34/70 (48%), Gaps = 10/70 (14%)
Query: 211 VLLEGPPGCGKTLVAKAIAGEAGVPFYQMAGSEFVEVLVGVGS-ARIRDLFKRAKVNKPS 269
VLL GPPG GKT +A IA E + +G VLV G A I +R
Sbjct: 54 VLLAGPPGLGKTTLAHIIASELQTNIHVTSGP----VLVKQGDMAAILTSLERG-----D 104
Query: 270 VIFIDEIDAL 279
V+FIDEI L
Sbjct: 105 VLFIDEIHRL 114
>pdb|1J7K|A Chain A, Thermotoga Maritima Ruvb P216g Mutant
Length = 334
Score = 35.4 bits (80), Expect = 0.12, Method: Compositional matrix adjust.
Identities = 29/70 (41%), Positives = 34/70 (48%), Gaps = 10/70 (14%)
Query: 211 VLLEGPPGCGKTLVAKAIAGEAGVPFYQMAGSEFVEVLVGVGS-ARIRDLFKRAKVNKPS 269
VLL GPPG GKT +A IA E + +G VLV G A I +R
Sbjct: 54 VLLAGPPGLGKTTLAHIIASELQTNIHVTSGP----VLVKQGDMAAILTSLERG-----D 104
Query: 270 VIFIDEIDAL 279
V+FIDEI L
Sbjct: 105 VLFIDEIHRL 114
>pdb|1IXR|C Chain C, Ruva-Ruvb Complex
Length = 312
Score = 35.4 bits (80), Expect = 0.12, Method: Compositional matrix adjust.
Identities = 29/92 (31%), Positives = 44/92 (47%), Gaps = 14/92 (15%)
Query: 206 KPPHGVLLEGPPGCGKTLVAKAIAGEAGVPFYQMAGSEFVEVLVGVGSARIRDLFKRAKV 265
+P +LL GPPG GKT +A IA E GV +G + G +A + + +
Sbjct: 36 EPLEHLLLFGPPGLGKTTLAHVIAHELGVNLRVTSGPAIEK--PGDLAAILAN-----SL 88
Query: 266 NKPSVIFIDEIDALATRRQGIFKDTTDHLYNA 297
+ ++FIDEI L+ + +HLY A
Sbjct: 89 EEGDILFIDEIHRLS-------RQAEEHLYPA 113
>pdb|1IN7|A Chain A, Thermotoga Maritima Ruvb R170a
Length = 334
Score = 35.4 bits (80), Expect = 0.12, Method: Compositional matrix adjust.
Identities = 29/70 (41%), Positives = 34/70 (48%), Gaps = 10/70 (14%)
Query: 211 VLLEGPPGCGKTLVAKAIAGEAGVPFYQMAGSEFVEVLVGVGS-ARIRDLFKRAKVNKPS 269
VLL GPPG GKT +A IA E + +G VLV G A I +R
Sbjct: 54 VLLAGPPGLGKTTLAHIIASELQTNIHVTSGP----VLVKQGDMAAILTSLERG-----D 104
Query: 270 VIFIDEIDAL 279
V+FIDEI L
Sbjct: 105 VLFIDEIHRL 114
>pdb|1IXS|B Chain B, Structure Of Ruvb Complexed With Ruva Domain Iii
Length = 318
Score = 35.0 bits (79), Expect = 0.15, Method: Compositional matrix adjust.
Identities = 29/92 (31%), Positives = 44/92 (47%), Gaps = 14/92 (15%)
Query: 206 KPPHGVLLEGPPGCGKTLVAKAIAGEAGVPFYQMAGSEFVEVLVGVGSARIRDLFKRAKV 265
+P +LL GPPG GKT +A IA E GV +G + G +A + + +
Sbjct: 36 EPLEHLLLFGPPGLGKTTLAHVIAHELGVNLRVTSGPAIEK--PGDLAAILAN-----SL 88
Query: 266 NKPSVIFIDEIDALATRRQGIFKDTTDHLYNA 297
+ ++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 = 0.18, Method: Compositional matrix adjust.
Identities = 21/79 (26%), Positives = 36/79 (45%), Gaps = 10/79 (12%)
Query: 210 GVLLEGPPGCGKTLVAKAIAGEAGVPFYQMAGSEFVEVLVGVGSARIRDLFKR------- 262
+LL GP G GKTL+A+ +A +P + E G + ++ R
Sbjct: 74 NILLIGPTGSGKTLMAQTLAKHLDIPIAISDATSLTE--AGYVGEDVENILTRLLQASDW 131
Query: 263 -AKVNKPSVIFIDEIDALA 280
+ + ++FIDEID ++
Sbjct: 132 NVQKAQKGIVFIDEIDKIS 150
>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 = 0.18, Method: Compositional matrix adjust.
Identities = 29/92 (31%), Positives = 44/92 (47%), Gaps = 14/92 (15%)
Query: 206 KPPHGVLLEGPPGCGKTLVAKAIAGEAGVPFYQMAGSEFVEVLVGVGSARIRDLFKRAKV 265
+P +LL GPPG GKT +A IA E GV +G + G +A + + +
Sbjct: 36 EPLEHLLLFGPPGLGKTTLAHVIAHELGVNLRVTSGPAIEK--PGDLAAILAN-----SL 88
Query: 266 NKPSVIFIDEIDALATRRQGIFKDTTDHLYNA 297
+ ++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 = 0.23, Method: Compositional matrix adjust.
Identities = 28/70 (40%), Positives = 34/70 (48%), Gaps = 10/70 (14%)
Query: 211 VLLEGPPGCGKTLVAKAIAGEAGVPFYQMAGSEFVEVLVGVGS-ARIRDLFKRAKVNKPS 269
VLL GPPG G+T +A IA E + +G VLV G A I +R
Sbjct: 54 VLLAGPPGLGRTTLAHIIASELQTNIHVTSGP----VLVKQGDMAAILTSLERG-----D 104
Query: 270 VIFIDEIDAL 279
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 = 33.9 bits (76), Expect = 0.34, Method: Compositional matrix adjust.
Identities = 14/37 (37%), Positives = 23/37 (62%)
Query: 353 PNAKGRTEILKIHASKVKMSDSVDLSSYAKNLPGWTG 389
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 = 33.1 bits (74), Expect = 0.56, Method: Compositional matrix adjust.
Identities = 23/78 (29%), Positives = 40/78 (51%), Gaps = 6/78 (7%)
Query: 211 VLLEGPPGCGKTLVAKAIAGEAGVPFYQMAGSEFVEV-LVGVGSAR-IRDLFKRAKVN-- 266
+LL GP G GKTL+A+ +A VPF + E VG I+ L ++ +
Sbjct: 54 ILLIGPTGSGKTLLAETLARLLDVPFTMADATTLTEAGYVGEDVENIIQKLLQKCDYDVQ 113
Query: 267 --KPSVIFIDEIDALATR 282
+ +++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 = 33.1 bits (74), Expect = 0.57, Method: Compositional matrix adjust.
Identities = 23/78 (29%), Positives = 40/78 (51%), Gaps = 6/78 (7%)
Query: 211 VLLEGPPGCGKTLVAKAIAGEAGVPFYQMAGSEFVEV-LVGVGSAR-IRDLFKRAKVN-- 266
+LL GP G GKTL+A+ +A VPF + E VG I+ L ++ +
Sbjct: 54 ILLIGPTGSGKTLLAETLARLLDVPFTMADATTLTEAGYVGEDVENIIQKLLQKCDYDVQ 113
Query: 267 --KPSVIFIDEIDALATR 282
+ +++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 = 1.2, Method: Compositional matrix adjust.
Identities = 21/70 (30%), Positives = 33/70 (47%), Gaps = 3/70 (4%)
Query: 177 VAGIDEAVEELQELVRYLKNPELFDKMGIKPPHGVLLEGPPGCGKTLVAKAIAGEAGVPF 236
V G D+A+E L E ++ + + KP L GP G GKT V ++ G+
Sbjct: 460 VFGQDKAIEALTEAIKMARAGLGHEH---KPVGSFLFAGPTGVGKTEVTVQLSKALGIEL 516
Query: 237 YQMAGSEFVE 246
+ SE++E
Sbjct: 517 LRFDMSEYME 526
>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 = 31.6 bits (70), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 27/140 (19%), Positives = 61/140 (43%), Gaps = 33/140 (23%)
Query: 174 FSDVAGIDEAVEELQELVRYLKNPELFDKMGIKPPHGVLLEGPPGCGKTLVAKAIAGEAG 233
SD+ G E ++ LQ++ + P + ++ G PG GKT +A
Sbjct: 20 LSDIVGNKETIDRLQQIAKDGNMPHM------------IISGMPGIGKTTSVHCLA---- 63
Query: 234 VPFYQMAGSEFVEVLVGVGSARIRDL---------FKRAKVNKP----SVIFIDEIDALA 280
+++ G + + ++ + ++ R + F + K++ P ++ +DE D++
Sbjct: 64 ---HELLGRSYADGVLELNASDDRGIDVVRNQIKHFAQKKLHLPPGKHKIVILDEADSMT 120
Query: 281 TRRQGIFKDTTDHLYNAATQ 300
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 = 31.6 bits (70), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 25/88 (28%), Positives = 37/88 (42%), Gaps = 12/88 (13%)
Query: 210 GVLLEGPPGCGKTLVAKAIAGEAGVPFYQMAGSEF-VEVLVGVGSARIRD------LFKR 262
+L GPPG GKT A +A E G + S+ + L+ G D FK
Sbjct: 79 AAMLYGPPGIGKTTAAHLVAQELGYDILEQNASDVRSKTLLNAGVKNALDNMSVVGYFKH 138
Query: 263 AK-----VNKPSVIFIDEIDALATRRQG 285
+ K VI +DE+D ++ +G
Sbjct: 139 NEEAQNLNGKHFVIIMDEVDGMSGGDRG 166
>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 = 31.6 bits (70), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 25/75 (33%), Positives = 31/75 (41%), Gaps = 7/75 (9%)
Query: 409 ESILSSDMD--DAVDRLTVGPKRRGIELGN-----QGQSRRAATEVGVAMISHLLRRYEN 461
E I S D D D VD L+V P + GN G+SR + A + L R
Sbjct: 64 EKIFSEDDDYIDIVDSLSVSPTDSDVSAGNILQLFHGKSRIQRLNILNAKFAFNLYRVLK 123
Query: 462 AKVECCDRISIVPRG 476
+V D I I P G
Sbjct: 124 DQVNTFDNIFIAPVG 138
>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 = 2.1, Method: Compositional matrix adjust.
Identities = 27/77 (35%), Positives = 33/77 (42%), Gaps = 12/77 (15%)
Query: 206 KPPHGVLLEGPPGCGKTLVAKAIAGEAGVPFYQMAGS----EFVE-VLVGVGSARIRDLF 260
K PH +L PG GKT VAKA+ + + GS +FV L SA D
Sbjct: 46 KIPHIILHSPSPGTGKTTVAKALCHDVNADMMFVNGSDCKIDFVRGPLTNFASAASFD-- 103
Query: 261 KRAKVNKPSVIFIDEID 277
+ VI IDE D
Sbjct: 104 -----GRQKVIVIDEFD 115
>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 = 30.8 bits (68), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 24/88 (27%), Positives = 42/88 (47%), Gaps = 9/88 (10%)
Query: 600 EELLRDMYGRTVTLLRRHHAALLKTVKVLLNQKEIGREEIDFILNNYPPQTPISRLLEEE 659
E +L+D+ R ++ A L+ + ++ KE +EE F + + RLL EE
Sbjct: 22 ESILQDIITRFPNVVLMKQTAQLRAMMTIIRDKETPKEEFVFYADR------LIRLLIEE 75
Query: 660 NPGTLPFIKQEQCSQVE---HALVNHSK 684
LPF K+E + ++ H + +SK
Sbjct: 76 ALNELPFQKKEVTTPLDVSYHGVSFYSK 103
>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 = 30.8 bits (68), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 27/104 (25%), Positives = 45/104 (43%), Gaps = 23/104 (22%)
Query: 208 PHGVLLEGPPGCGKTLVAKAIAGEAGVPFYQMAGSEFVEVL------VGVGSARIRDLFK 261
PH +L GPPG GKT A+ E P + S +E+ + + ++++ F
Sbjct: 59 PH-MLFYGPPGTGKTSTILALTKELYGP--DLMKSRILELNASDERGISIVREKVKN-FA 114
Query: 262 RAKVNKPS-------------VIFIDEIDALATRRQGIFKDTTD 292
R V+KPS +I +DE D++ Q + T +
Sbjct: 115 RLTVSKPSKHDLENYPCPPYKIIILDEADSMTADAQSALRRTME 158
>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 = 3.0, Method: Compositional matrix adjust.
Identities = 24/88 (27%), Positives = 42/88 (47%), Gaps = 9/88 (10%)
Query: 600 EELLRDMYGRTVTLLRRHHAALLKTVKVLLNQKEIGREEIDFILNNYPPQTPISRLLEEE 659
E +L+D+ R ++ A L+ + ++ KE +EE F + + RLL EE
Sbjct: 3 ESILQDIITRFPNVVLMKQTAQLRAMMTIIRDKETPKEEFVFYADR------LIRLLIEE 56
Query: 660 NPGTLPFIKQEQCSQVE---HALVNHSK 684
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 = 3.6, Method: Compositional matrix adjust.
Identities = 13/25 (52%), Positives = 18/25 (72%)
Query: 211 VLLEGPPGCGKTLVAKAIAGEAGVP 235
+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 = 4.1, Method: Compositional matrix adjust.
Identities = 11/27 (40%), Positives = 18/27 (66%)
Query: 210 GVLLEGPPGCGKTLVAKAIAGEAGVPF 236
+LL G PG GKT + K +A ++G+ +
Sbjct: 6 NILLTGTPGVGKTTLGKELASKSGLKY 32
>pdb|1V43|A Chain A, Crystal Structure Of Atpase Subunit Of Abc Sugar
Transporter
Length = 372
Score = 29.6 bits (65), Expect = 6.2, Method: Compositional matrix adjust.
Identities = 16/47 (34%), Positives = 25/47 (53%), Gaps = 2/47 (4%)
Query: 186 ELQELVRYLKNPELFDKMGIKPPHG--VLLEGPPGCGKTLVAKAIAG 230
+L+ L + N +K+ + G ++L GP GCGKT + IAG
Sbjct: 13 KLENLTKRFGNFTAVNKLNLTIKDGEFLVLLGPSGCGKTTTLRMIAG 59
>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 = 6.3, Method: Compositional matrix adjust.
Identities = 16/47 (34%), Positives = 25/47 (53%), Gaps = 2/47 (4%)
Query: 186 ELQELVRYLKNPELFDKMGIKPPHG--VLLEGPPGCGKTLVAKAIAG 230
+L+ L + N +K+ + G ++L GP GCGKT + IAG
Sbjct: 14 KLENLTKRFGNFTAVNKLNLTIKDGEFLVLLGPSGCGKTTTLRMIAG 60
>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 = 6.3, Method: Compositional matrix adjust.
Identities = 11/27 (40%), Positives = 18/27 (66%)
Query: 210 GVLLEGPPGCGKTLVAKAIAGEAGVPF 236
+LL G PG GKT + K +A ++G+ +
Sbjct: 13 NILLTGTPGVGKTTLGKELASKSGLKY 39
>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 = 6.4, Method: Compositional matrix adjust.
Identities = 20/58 (34%), Positives = 28/58 (48%), Gaps = 11/58 (18%)
Query: 177 VAGIDEAVEELQELVRY----LKNPELFDKMGIKPPHGVLLEGPPGCGKTLVAKAIAG 230
V G DEA+ + + +R LK+P +P L GP G GKT +AK +A
Sbjct: 16 VVGQDEAIRAVADAIRRARAGLKDPN-------RPIGSFLFLGPTGVGKTELAKTLAA 66
>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 = 6.6, Method: Compositional matrix adjust.
Identities = 14/38 (36%), Positives = 19/38 (50%)
Query: 514 EEVIYGQDTSRASVNYLADASWLARKILTIWNLENPMV 551
+E +YG+ RA + A L RK IW LE P +
Sbjct: 141 DEAVYGKGAKRAVPDEPVLAEHLVRKAAAIWELERPFL 178
>pdb|1G29|1 Chain 1, Malk
pdb|1G29|2 Chain 2, Malk
Length = 372
Score = 29.6 bits (65), Expect = 6.6, Method: Compositional matrix adjust.
Identities = 19/61 (31%), Positives = 29/61 (47%), Gaps = 11/61 (18%)
Query: 170 TGVKFSDVAGIDEAVEELQELVRYLKNPELFDKMGIKPPHGVLLEGPPGCGKTLVAKAIA 229
GV+ DV + V ++E+ +K+ E ++L GP GCGKT + IA
Sbjct: 2 AGVRLVDVWKVFGEVTAVREMSLEVKDGEF-----------MILLGPSGCGKTTTLRMIA 50
Query: 230 G 230
G
Sbjct: 51 G 51
>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 = 6.7, Method: Compositional matrix adjust.
Identities = 14/38 (36%), Positives = 19/38 (50%)
Query: 514 EEVIYGQDTSRASVNYLADASWLARKILTIWNLENPMV 551
+E +YG+ RA + A L RK IW LE P +
Sbjct: 141 DEAVYGKGAKRAVPDEPVLAEHLVRKAAAIWELERPFL 178
>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 = 29.3 bits (64), Expect = 6.7, Method: Compositional matrix adjust.
Identities = 14/38 (36%), Positives = 19/38 (50%)
Query: 514 EEVIYGQDTSRASVNYLADASWLARKILTIWNLENPMV 551
+E +YG+ RA + A L RK IW LE P +
Sbjct: 141 DEAVYGKGAKRAVPDEPVLAEHLVRKAAAIWELERPFL 178
>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 = 29.3 bits (64), Expect = 6.7, Method: Compositional matrix adjust.
Identities = 14/38 (36%), Positives = 19/38 (50%)
Query: 514 EEVIYGQDTSRASVNYLADASWLARKILTIWNLENPMV 551
+E +YG+ RA + A L RK IW LE P +
Sbjct: 129 DEAVYGKGAKRAVPDEPVLAEHLVRKAAAIWELERPFL 166
>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 = 29.3 bits (64), Expect = 6.8, Method: Compositional matrix adjust.
Identities = 14/38 (36%), Positives = 19/38 (50%)
Query: 514 EEVIYGQDTSRASVNYLADASWLARKILTIWNLENPMV 551
+E +YG+ RA + A L RK IW LE P +
Sbjct: 141 DEAVYGKGAKRAVPDEPVLAEHLVRKAAAIWELERPFL 178
>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 = 29.3 bits (64), Expect = 6.9, Method: Compositional matrix adjust.
Identities = 14/38 (36%), Positives = 19/38 (50%)
Query: 514 EEVIYGQDTSRASVNYLADASWLARKILTIWNLENPMV 551
+E +YG+ RA + A L RK IW LE P +
Sbjct: 129 DEAVYGKGAKRAVPDEPVLAEHLVRKAAAIWELERPFL 166
>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 = 29.3 bits (64), Expect = 6.9, Method: Compositional matrix adjust.
Identities = 14/38 (36%), Positives = 19/38 (50%)
Query: 514 EEVIYGQDTSRASVNYLADASWLARKILTIWNLENPMV 551
+E +YG+ RA + A L RK IW LE P +
Sbjct: 128 DEAVYGKGAKRAVPDEPVLAEHLVRKAAAIWELERPFL 165
>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 = 7.0, Method: Compositional matrix adjust.
Identities = 14/38 (36%), Positives = 19/38 (50%)
Query: 514 EEVIYGQDTSRASVNYLADASWLARKILTIWNLENPMV 551
+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 = 29.3 bits (64), Expect = 7.0, Method: Compositional matrix adjust.
Identities = 14/38 (36%), Positives = 19/38 (50%)
Query: 514 EEVIYGQDTSRASVNYLADASWLARKILTIWNLENPMV 551
+E +YG+ RA + A L RK IW LE P +
Sbjct: 129 DEAVYGKGAKRAVPDEPVLAEHLVRKAAAIWELERPFL 166
>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 = 29.3 bits (64), Expect = 7.0, Method: Compositional matrix adjust.
Identities = 14/38 (36%), Positives = 19/38 (50%)
Query: 514 EEVIYGQDTSRASVNYLADASWLARKILTIWNLENPMV 551
+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 = 7.1, Method: Compositional matrix adjust.
Identities = 14/38 (36%), Positives = 19/38 (50%)
Query: 514 EEVIYGQDTSRASVNYLADASWLARKILTIWNLENPMV 551
+E +YG+ RA + A L RK IW LE P +
Sbjct: 129 DEAVYGKGAKRAVPDEPVLAEHLVRKAAAIWELERPFL 166
>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 = 29.3 bits (64), Expect = 7.1, Method: Compositional matrix adjust.
Identities = 20/58 (34%), Positives = 28/58 (48%), Gaps = 11/58 (18%)
Query: 177 VAGIDEAVEELQELVRY----LKNPELFDKMGIKPPHGVLLEGPPGCGKTLVAKAIAG 230
V G DEA+ + + +R LK+P +P L GP G GKT +AK +A
Sbjct: 19 VVGQDEAIRAVADAIRRARAGLKDPN-------RPIGSFLFLGPTGVGKTELAKTLAA 69
>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 = 7.1, Method: Compositional matrix adjust.
Identities = 14/38 (36%), Positives = 19/38 (50%)
Query: 514 EEVIYGQDTSRASVNYLADASWLARKILTIWNLENPMV 551
+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 = 29.3 bits (64), Expect = 7.1, Method: Compositional matrix adjust.
Identities = 14/38 (36%), Positives = 19/38 (50%)
Query: 514 EEVIYGQDTSRASVNYLADASWLARKILTIWNLENPMV 551
+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 = 29.3 bits (64), Expect = 7.2, Method: Compositional matrix adjust.
Identities = 14/38 (36%), Positives = 19/38 (50%)
Query: 514 EEVIYGQDTSRASVNYLADASWLARKILTIWNLENPMV 551
+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 = 7.2, Method: Compositional matrix adjust.
Identities = 14/38 (36%), Positives = 19/38 (50%)
Query: 514 EEVIYGQDTSRASVNYLADASWLARKILTIWNLENPMV 551
+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 = 9.9, Method: Compositional matrix adjust.
Identities = 20/58 (34%), Positives = 28/58 (48%), Gaps = 11/58 (18%)
Query: 177 VAGIDEAVEELQELVRY----LKNPELFDKMGIKPPHGVLLEGPPGCGKTLVAKAIAG 230
V G DEA+ + + +R LK+P +P L GP G GKT +AK +A
Sbjct: 560 VVGQDEAIRAVADAIRRARAGLKDPN-------RPIGSFLFLGPTGVGKTELAKTLAA 610
>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 = 9.9, Method: Compositional matrix adjust.
Identities = 14/38 (36%), Positives = 19/38 (50%)
Query: 514 EEVIYGQDTSRASVNYLADASWLARKILTIWNLENPMV 551
+E +YG+ RA + A L RK IW LE P +
Sbjct: 129 DEAVYGKGAKRAVPDEPVLAEHLVRKAAAIWALERPFL 166
>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 = 9.9, Method: Compositional matrix adjust.
Identities = 14/38 (36%), Positives = 19/38 (50%)
Query: 514 EEVIYGQDTSRASVNYLADASWLARKILTIWNLENPMV 551
+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 = 9.9, Method: Compositional matrix adjust.
Identities = 14/38 (36%), Positives = 19/38 (50%)
Query: 514 EEVIYGQDTSRASVNYLADASWLARKILTIWNLENPMV 551
+E +YG+ RA + A L RK IW LE P +
Sbjct: 129 DEAVYGKGAKRAVPDEPVLAEHLVRKAAAIWALERPFL 166
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
0.320 0.138 0.407
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 18,586,066
Number of Sequences: 62578
Number of extensions: 723851
Number of successful extensions: 2179
Number of sequences better than 100.0: 112
Number of HSP's better than 100.0 without gapping: 85
Number of HSP's successfully gapped in prelim test: 27
Number of HSP's that attempted gapping in prelim test: 2025
Number of HSP's gapped (non-prelim): 124
length of query: 688
length of database: 14,973,337
effective HSP length: 105
effective length of query: 583
effective length of database: 8,402,647
effective search space: 4898743201
effective search space used: 4898743201
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: 55 (25.8 bits)