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= psy5440
(1036 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 = 430 bits (1105), Expect = e-120, Method: Compositional matrix adjust.
Identities = 214/448 (47%), Positives = 307/448 (68%), Gaps = 13/448 (2%)
Query: 543 VRFKDVAGCEEAKVEIMEFVNFLKNPQQYIDLGAKIPKGAMLTGPPGTGKTLLAKATAGE 602
V FKDV G EEA E+ E V FLK+P ++ +GA++PKG +L GPPGTGKTLLA+A AGE
Sbjct: 13 VTFKDVGGAEEAIEELKEVVEFLKDPSKFNRIGARMPKGILLVGPPGTGKTLLARAVAGE 72
Query: 603 ANVPFITVSGSEFLEMFVGVGPSRVRDMFSMARKHAPCILFIDEIDAVGRKRGGRNFGGH 662
ANVPF +SGS+F+E+FVGVG +RVRD+F+ A+ HAPCI+FIDEIDAVGR RG GGH
Sbjct: 73 ANVPFFHISGSDFVELFVGVGAARVRDLFAQAKAHAPCIVFIDEIDAVGRHRGAGLGGGH 132
Query: 663 SEQENTLNQLLVEMDGFXXXXXXXXXXXXXXXDVLDKALLRPGRFDRQIFVPAPDIKGRA 722
E+E TLNQLLVEMDGF D+LD ALLRPGRFD++I V PD+ GR
Sbjct: 133 DEREQTLNQLLVEMDGFDSKEGIIVMAATNRPDILDPALLRPGRFDKKIVVDPPDMLGRK 192
Query: 723 SIFKVHL--KPLKTDLDRDDLSRKLAALTPGFTGADIANVCNEAALIAARDLHTTIVMKH 780
I ++H KPL D++ + ++++ TPGF GAD+ N+ NEAAL+AAR+ I MK
Sbjct: 193 KILEIHTRNKPLAEDVNLEIIAKR----TPGFVGADLENLVNEAALLAAREGRDKITMKD 248
Query: 781 FEQAIERVVAGMEKKTNVLQPEEKKTVAYHEAGHAVAGWFLRYADPLLKVSIIPRG-KGL 839
FE+AI+RV+AG +K+ ++ P EK+ +AYHEAGHAV + +P+ ++SIIPRG K L
Sbjct: 249 FEEAIDRVIAGPARKSLLISPAEKRIIAYHEAGHAVVSTVVPNGEPVHRISIIPRGYKAL 308
Query: 840 GYAQYLPRE-QYLYSKEQLLDRMCMTLGGRVSEEIFFGRITTGAEDDLKKVTQSAYAQVA 898
GY +LP E +YL S+ +LLD++ LGGR +EE+ FG +T+GA +D+++ T+ A V
Sbjct: 309 GYTLHLPEEDKYLVSRNELLDKLTALLGGRAAEEVVFGDVTSGAANDIERATEIARNMVC 368
Query: 899 HFGMNEKVGNVSFDMPQP-----GEMVLEKPYSESTAQLIDNEVRSLISNAYTRTKALLI 953
GM+E++G +++ + E+ + YSE A ID EV+ +++N Y R K ++
Sbjct: 369 QLGMSEELGPLAWGKEEQEVFLGKEITRLRNYSEEVASKIDEEVKKIVTNCYERAKEIIR 428
Query: 954 EHKASVEKVAERLLKKEILDRNDMIELL 981
+++ ++ + E LL+KE ++ +++ +L
Sbjct: 429 KYRKQLDNIVEILLEKETIEGDELRRIL 456
Score = 48.5 bits (114), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 22/43 (51%), Positives = 30/43 (69%)
Query: 140 VRFKDVAGCEEAKVEIMEFVNFLKNPQQYIDLGAKIPKGAMLT 182
V FKDV G EEA E+ E V FLK+P ++ +GA++PKG +L
Sbjct: 13 VTFKDVGGAEEAIEELKEVVEFLKDPSKFNRIGARMPKGILLV 55
>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 = 427 bits (1098), Expect = e-119, Method: Compositional matrix adjust.
Identities = 213/448 (47%), Positives = 306/448 (68%), Gaps = 13/448 (2%)
Query: 543 VRFKDVAGCEEAKVEIMEFVNFLKNPQQYIDLGAKIPKGAMLTGPPGTGKTLLAKATAGE 602
V FKDV G EEA E+ E V FLK+P ++ +GA++PKG +L GPPGTG TLLA+A AGE
Sbjct: 13 VTFKDVGGAEEAIEELKEVVEFLKDPSKFNRIGARMPKGILLVGPPGTGATLLARAVAGE 72
Query: 603 ANVPFITVSGSEFLEMFVGVGPSRVRDMFSMARKHAPCILFIDEIDAVGRKRGGRNFGGH 662
ANVPF +SGS+F+E+FVGVG +RVRD+F+ A+ HAPCI+FIDEIDAVGR RG GGH
Sbjct: 73 ANVPFFHISGSDFVELFVGVGAARVRDLFAQAKAHAPCIVFIDEIDAVGRHRGAGLGGGH 132
Query: 663 SEQENTLNQLLVEMDGFXXXXXXXXXXXXXXXDVLDKALLRPGRFDRQIFVPAPDIKGRA 722
E+E TLNQLLVEMDGF D+LD ALLRPGRFD++I V PD+ GR
Sbjct: 133 DEREQTLNQLLVEMDGFDSKEGIIVMAATNRPDILDPALLRPGRFDKKIVVDPPDMLGRK 192
Query: 723 SIFKVHL--KPLKTDLDRDDLSRKLAALTPGFTGADIANVCNEAALIAARDLHTTIVMKH 780
I ++H KPL D++ + ++++ TPGF GAD+ N+ NEAAL+AAR+ I MK
Sbjct: 193 KILEIHTRNKPLAEDVNLEIIAKR----TPGFVGADLENLVNEAALLAAREGRDKITMKD 248
Query: 781 FEQAIERVVAGMEKKTNVLQPEEKKTVAYHEAGHAVAGWFLRYADPLLKVSIIPRG-KGL 839
FE+AI+RV+AG +K+ ++ P EK+ +AYHEAGHAV + +P+ ++SIIPRG K L
Sbjct: 249 FEEAIDRVIAGPARKSLLISPAEKRIIAYHEAGHAVVSTVVPNGEPVHRISIIPRGYKAL 308
Query: 840 GYAQYLPRE-QYLYSKEQLLDRMCMTLGGRVSEEIFFGRITTGAEDDLKKVTQSAYAQVA 898
GY +LP E +YL S+ +LLD++ LGGR +EE+ FG +T+GA +D+++ T+ A V
Sbjct: 309 GYTLHLPEEDKYLVSRNELLDKLTALLGGRAAEEVVFGDVTSGAANDIERATEIARNMVC 368
Query: 899 HFGMNEKVGNVSFDMPQP-----GEMVLEKPYSESTAQLIDNEVRSLISNAYTRTKALLI 953
GM+E++G +++ + E+ + YSE A ID EV+ +++N Y R K ++
Sbjct: 369 QLGMSEELGPLAWGKEEQEVFLGKEITRLRNYSEEVASKIDEEVKKIVTNCYERAKEIIR 428
Query: 954 EHKASVEKVAERLLKKEILDRNDMIELL 981
+++ ++ + E LL+KE ++ +++ +L
Sbjct: 429 KYRKQLDNIVEILLEKETIEGDELRRIL 456
Score = 48.5 bits (114), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 22/43 (51%), Positives = 30/43 (69%)
Query: 140 VRFKDVAGCEEAKVEIMEFVNFLKNPQQYIDLGAKIPKGAMLT 182
V FKDV G EEA E+ E V FLK+P ++ +GA++PKG +L
Sbjct: 13 VTFKDVGGAEEAIEELKEVVEFLKDPSKFNRIGARMPKGILLV 55
>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 = 404 bits (1039), Expect = e-112, Method: Compositional matrix adjust.
Identities = 228/438 (52%), Positives = 302/438 (68%), Gaps = 16/438 (3%)
Query: 543 VRFKDVAGCEEAKVEIMEFVNFLKNPQQYIDLGAKIPKGAMLTGPPGTGKTLLAKATAGE 602
V FKDVAG EEAK E+ E V FLKNP ++ ++GA+IPKG +L GPPG GKT LA+A AGE
Sbjct: 28 VTFKDVAGAEEAKEELKEIVEFLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGE 87
Query: 603 ANVPFITVSGSEFLEMFVGVGPSRVRDMFSMARKHAPCILFIDEIDAVGRKRGGRNFGGH 662
A VPFIT SGS+F+EMFVGVG +RVRD+F A++HAPCI+FIDEIDAVGRKRG GG+
Sbjct: 88 ARVPFITASGSDFVEMFVGVGAARVRDLFETAKRHAPCIVFIDEIDAVGRKRGSGVGGGN 147
Query: 663 SEQENTLNQLLVEMDGFXXXXXXXXXXXXXXXDVLDKALLRPGRFDRQIFVPAPDIKGRA 722
E+E TLNQLLVEMDGF D+LD ALLRPGRFDRQI + APD+KGR
Sbjct: 148 DEREQTLNQLLVEMDGFEKDTAIVVMAATNRPDILDPALLRPGRFDRQIAIDAPDVKGRE 207
Query: 723 SIFKVHL--KPLKTDLDRDDLSRKLAALTPGFTGADIANVCNEAALIAARDLHTTIVMKH 780
I ++H KPL D+D L+++ TPGF GAD+ N+ NEAAL+AAR+ I MK
Sbjct: 208 QILRIHARGKPLAEDVDLALLAKR----TPGFVGADLENLLNEAALLAAREGRRKITMKD 263
Query: 781 FEQAIERVVAGMEKKTNVLQPEEKKTVAYHEAGHAVAGWFLRYADPLLKVSIIPRGKGLG 840
E+A +RV+ KK+ VL P +++ AYHEAGHA+A FL +AD + KV+I+PRG+ LG
Sbjct: 264 LEEAADRVMMLPAKKSLVLSPRDRRITAYHEAGHALAAHFLEHADGVHKVTIVPRGRALG 323
Query: 841 YAQYLPREQYL--YSKEQLLDRMCMTLGGRVSEEIFFGRITTGAEDDLKKVTQSAYAQVA 898
+ +PR + + +S+++LLD++ + L GR +EEI F +TTGAE+D ++ T+ A +
Sbjct: 324 F--MMPRREDMLHWSRKRLLDQIAVALAGRAAEEIVFDDVTTGAENDFRQATELARRMIT 381
Query: 899 HFGMNEKVGNVSF----DMPQPGEMVLEKPYSESTAQLIDNEVRSLISNAYTRTKALLIE 954
+GM+ + G V++ D G V + YSE TA+ ID VR LI Y R KALL+E
Sbjct: 382 EWGMHPEFGPVAYAVREDTYLGGYDV--RQYSEETAKRIDEAVRRLIEEQYQRVKALLLE 439
Query: 955 HKASVEKVAERLLKKEIL 972
+ +E+VAE LL++E L
Sbjct: 440 KREVLERVAETLLERETL 457
Score = 45.1 bits (105), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 26/43 (60%), Positives = 33/43 (76%)
Query: 140 VRFKDVAGCEEAKVEIMEFVNFLKNPQQYIDLGAKIPKGAMLT 182
V FKDVAG EEAK E+ E V FLKNP ++ ++GA+IPKG +L
Sbjct: 28 VTFKDVAGAEEAKEELKEIVEFLKNPSRFHEMGARIPKGVLLV 70
>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 = 404 bits (1038), Expect = e-112, Method: Compositional matrix adjust.
Identities = 228/438 (52%), Positives = 302/438 (68%), Gaps = 16/438 (3%)
Query: 543 VRFKDVAGCEEAKVEIMEFVNFLKNPQQYIDLGAKIPKGAMLTGPPGTGKTLLAKATAGE 602
V FKDVAG EEAK E+ E V FLKNP ++ ++GA+IPKG +L GPPG GKT LA+A AGE
Sbjct: 37 VTFKDVAGAEEAKEELKEIVEFLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGE 96
Query: 603 ANVPFITVSGSEFLEMFVGVGPSRVRDMFSMARKHAPCILFIDEIDAVGRKRGGRNFGGH 662
A VPFIT SGS+F+EMFVGVG +RVRD+F A++HAPCI+FIDEIDAVGRKRG GG+
Sbjct: 97 ARVPFITASGSDFVEMFVGVGAARVRDLFETAKRHAPCIVFIDEIDAVGRKRGSGVGGGN 156
Query: 663 SEQENTLNQLLVEMDGFXXXXXXXXXXXXXXXDVLDKALLRPGRFDRQIFVPAPDIKGRA 722
E+E TLNQLLVEMDGF D+LD ALLRPGRFDRQI + APD+KGR
Sbjct: 157 DEREQTLNQLLVEMDGFEKDTAIVVMAATNRPDILDPALLRPGRFDRQIAIDAPDVKGRE 216
Query: 723 SIFKVHL--KPLKTDLDRDDLSRKLAALTPGFTGADIANVCNEAALIAARDLHTTIVMKH 780
I ++H KPL D+D L+++ TPGF GAD+ N+ NEAAL+AAR+ I MK
Sbjct: 217 QILRIHARGKPLAEDVDLALLAKR----TPGFVGADLENLLNEAALLAAREGRRKITMKD 272
Query: 781 FEQAIERVVAGMEKKTNVLQPEEKKTVAYHEAGHAVAGWFLRYADPLLKVSIIPRGKGLG 840
E+A +RV+ KK+ VL P +++ AYHEAGHA+A FL +AD + KV+I+PRG+ LG
Sbjct: 273 LEEAADRVMMLPAKKSLVLSPRDRRITAYHEAGHALAAHFLEHADGVHKVTIVPRGRALG 332
Query: 841 YAQYLPREQYL--YSKEQLLDRMCMTLGGRVSEEIFFGRITTGAEDDLKKVTQSAYAQVA 898
+ +PR + + +S+++LLD++ + L GR +EEI F +TTGAE+D ++ T+ A +
Sbjct: 333 F--MMPRREDMLHWSRKRLLDQIAVALAGRAAEEIVFDDVTTGAENDFRQATELARRMIT 390
Query: 899 HFGMNEKVGNVSF----DMPQPGEMVLEKPYSESTAQLIDNEVRSLISNAYTRTKALLIE 954
+GM+ + G V++ D G V + YSE TA+ ID VR LI Y R KALL+E
Sbjct: 391 EWGMHPEFGPVAYAVREDTYLGGYDV--RQYSEETAKRIDEAVRRLIEEQYQRVKALLLE 448
Query: 955 HKASVEKVAERLLKKEIL 972
+ +E+VAE LL++E L
Sbjct: 449 KREVLERVAETLLERETL 466
Score = 45.1 bits (105), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 26/43 (60%), Positives = 33/43 (76%)
Query: 140 VRFKDVAGCEEAKVEIMEFVNFLKNPQQYIDLGAKIPKGAMLT 182
V FKDVAG EEAK E+ E V FLKNP ++ ++GA+IPKG +L
Sbjct: 37 VTFKDVAGAEEAKEELKEIVEFLKNPSRFHEMGARIPKGVLLV 79
>pdb|1LV7|A Chain A, Crystal Structure Of The Aaa Domain Of Ftsh
Length = 257
Score = 298 bits (762), Expect = 1e-80, Method: Composition-based stats.
Identities = 147/261 (56%), Positives = 183/261 (70%), Gaps = 6/261 (2%)
Query: 535 LINSSDIGVRFKDVAGCEEAKVEIMEFVNFLKNPQQYIDLGAKIPKGAMLTGPPGTGKTL 594
++ I F DVAGC+EAK E+ E V +L+ P ++ LG KIPKG ++ GPPGTGKTL
Sbjct: 1 MLTEDQIKTTFADVAGCDEAKEEVAELVEYLREPSRFQKLGGKIPKGVLMVGPPGTGKTL 60
Query: 595 LAKATAGEANVPFITVSGSEFLEMFVGVGPSRVRDMFSMARKHAPCILFIDEIDAVGRKR 654
LAKA AGEA VPF T+SGS+F+EMFVGVG SRVRDMF A+K APCI+FIDEIDAVGR+R
Sbjct: 61 LAKAIAGEAKVPFFTISGSDFVEMFVGVGASRVRDMFEQAKKAAPCIIFIDEIDAVGRQR 120
Query: 655 GGRNFGGHSEQENTLNQLLVEMDGFXXXXXXXXXXXXXXXDVLDKALLRPGRFDRQIFVP 714
G GGH E+E TLNQ+LVEMDGF DVLD ALLRPGRFDRQ+ V
Sbjct: 121 GAGLGGGHDEREQTLNQMLVEMDGFEGNEGIIVIAATNRPDVLDPALLRPGRFDRQVVVG 180
Query: 715 APDIKGRASIFKVHLK--PLKTDLDRDDLSRKLAALTPGFTGADIANVCNEAALIAARDL 772
PD++GR I KVH++ PL D+D ++R TPGF+GAD+AN+ NEAAL AAR
Sbjct: 181 LPDVRGREQILKVHMRRVPLAPDIDAAIIARG----TPGFSGADLANLVNEAALFAARGN 236
Query: 773 HTTIVMKHFEQAIERVVAGME 793
+ M FE+A ++++ G+E
Sbjct: 237 KRVVSMVEFEKAKDKIMMGLE 257
Score = 53.9 bits (128), Expect = 5e-07, Method: Composition-based stats.
Identities = 22/50 (44%), Positives = 32/50 (64%)
Query: 132 LINSSDIGVRFKDVAGCEEAKVEIMEFVNFLKNPQQYIDLGAKIPKGAML 181
++ I F DVAGC+EAK E+ E V +L+ P ++ LG KIPKG ++
Sbjct: 1 MLTEDQIKTTFADVAGCDEAKEEVAELVEYLREPSRFQKLGGKIPKGVLM 50
>pdb|2QZ4|A Chain A, Human Paraplegin, Aaa Domain In Complex With Adp
Length = 262
Score = 295 bits (754), Expect = 1e-79, Method: Compositional matrix adjust.
Identities = 142/260 (54%), Positives = 188/260 (72%), Gaps = 1/260 (0%)
Query: 541 IGVRFKDVAGCEEAKVEIMEFVNFLKNPQQYIDLGAKIPKGAMLTGPPGTGKTLLAKATA 600
+GV FKDVAG EAK+E+ EFV++LK+P++++ LGAK+PKGA+L GPPG GKTLLAKA A
Sbjct: 1 MGVSFKDVAGMHEAKLEVREFVDYLKSPERFLQLGAKVPKGALLLGPPGCGKTLLAKAVA 60
Query: 601 GEANVPFITVSGSEFLEMFVGVGPSRVRDMFSMARKHAPCILFIDEIDAVGRKRGGRNFG 660
EA VPF+ ++G+EF+E+ G+G +RVR +F AR APCI++IDEIDAVG+KR G
Sbjct: 61 TEAQVPFLAMAGAEFVEVIGGLGAARVRSLFKEARARAPCIVYIDEIDAVGKKRSTTMSG 120
Query: 661 -GHSEQENTLNQLLVEMDGFXXXXXXXXXXXXXXXDVLDKALLRPGRFDRQIFVPAPDIK 719
++E+E TLNQLLVEMDG D+LD AL+RPGR DR +F+ P ++
Sbjct: 121 FSNTEEEQTLNQLLVEMDGMGTTDHVIVLASTNRADILDGALMRPGRLDRHVFIDLPTLQ 180
Query: 720 GRASIFKVHLKPLKTDLDRDDLSRKLAALTPGFTGADIANVCNEAALIAARDLHTTIVMK 779
R IF+ HLK LK S++LA LTPGF+GADIAN+CNEAAL AAR+ HT++
Sbjct: 181 ERREIFEQHLKSLKLTQSSTFYSQRLAELTPGFSGADIANICNEAALHAAREGHTSVHTL 240
Query: 780 HFEQAIERVVAGMEKKTNVL 799
+FE A+ERV+AG KK+ +L
Sbjct: 241 NFEYAVERVLAGTAKKSKIL 260
Score = 66.2 bits (160), Expect = 9e-11, Method: Compositional matrix adjust.
Identities = 27/44 (61%), Positives = 39/44 (88%)
Query: 138 IGVRFKDVAGCEEAKVEIMEFVNFLKNPQQYIDLGAKIPKGAML 181
+GV FKDVAG EAK+E+ EFV++LK+P++++ LGAK+PKGA+L
Sbjct: 1 MGVSFKDVAGMHEAKLEVREFVDYLKSPERFLQLGAKVPKGALL 44
>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 = 285 bits (730), Expect = 8e-77, Method: Compositional matrix adjust.
Identities = 144/262 (54%), Positives = 185/262 (70%), Gaps = 4/262 (1%)
Query: 536 INSSDIGVRFKDVAGCEEAKVEIMEFVNFLKNPQQYIDLGAKIPKGAMLTGPPGTGKTLL 595
IN+ VRFKD+AG EEAK E++E V+FLK P++Y +LGAKIPKG +L GPPGTGKTLL
Sbjct: 1 INAEKPNVRFKDMAGNEEAKEEVVEIVDFLKYPERYANLGAKIPKGVLLVGPPGTGKTLL 60
Query: 596 AKATAGEANVPFITVSGSEFLEMFVGVGPSRVRDMFSMARKHAPCILFIDEIDAVGRKR- 654
AKA AGEA+VPF ++ GS F+EMFVG+G SRVRD+F A+K AP I+FIDEIDA+G+ R
Sbjct: 61 AKAVAGEAHVPFFSMGGSSFIEMFVGLGASRVRDLFETAKKQAPSIIFIDEIDAIGKSRA 120
Query: 655 GGRNFGGHSEQENTLNQLLVEMDGFXXXXX-XXXXXXXXXXDVLDKALLRPGRFDRQIFV 713
G G+ E+E TLNQLL EMDGF ++LD AL+RPGRFDRQ+ V
Sbjct: 121 AGGVVSGNDEREQTLNQLLAEMDGFGSENAPVIVLAATNRPEILDPALMRPGRFDRQVLV 180
Query: 714 PAPDIKGRASIFKVHLKPLKTDLDRDDLSRKLAALTPGFTGADIANVCNEAALIAARDLH 773
PD GR I KVH+K +K L D +++A LT G GAD+AN+ NEAAL+A R+
Sbjct: 181 DKPDFNGRVEILKVHIKGVK--LANDVNLQEVAKLTAGLAGADLANIINEAALLAGRNNQ 238
Query: 774 TTIVMKHFEQAIERVVAGMEKK 795
+ +H ++A+ER +AG+EKK
Sbjct: 239 KEVRQQHLKEAVERGIAGLEKK 260
Score = 64.3 bits (155), Expect = 3e-10, Method: Compositional matrix adjust.
Identities = 30/50 (60%), Positives = 39/50 (78%)
Query: 133 INSSDIGVRFKDVAGCEEAKVEIMEFVNFLKNPQQYIDLGAKIPKGAMLT 182
IN+ VRFKD+AG EEAK E++E V+FLK P++Y +LGAKIPKG +L
Sbjct: 1 INAEKPNVRFKDMAGNEEAKEEVVEIVDFLKYPERYANLGAKIPKGVLLV 50
>pdb|1IY2|A Chain A, Crystal Structure Of The Ftsh Atpase Domain From Thermus
Thermophilus
Length = 278
Score = 259 bits (663), Expect = 4e-69, Method: Composition-based stats.
Identities = 146/244 (59%), Positives = 177/244 (72%), Gaps = 6/244 (2%)
Query: 543 VRFKDVAGCEEAKVEIMEFVNFLKNPQQYIDLGAKIPKGAMLTGPPGTGKTLLAKATAGE 602
V FKDVAG EEAK E+ E V FLKNP ++ ++GA+IPKG +L GPPG GKT LA+A AGE
Sbjct: 37 VTFKDVAGAEEAKEELKEIVEFLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGE 96
Query: 603 ANVPFITVSGSEFLEMFVGVGPSRVRDMFSMARKHAPCILFIDEIDAVGRKRGGRNFGGH 662
A VPFIT SGS+F+EMFVGVG +RVRD+F A++HAPCI+FIDEIDAVGRKRG GG+
Sbjct: 97 ARVPFITASGSDFVEMFVGVGAARVRDLFETAKRHAPCIVFIDEIDAVGRKRGSGVGGGN 156
Query: 663 SEQENTLNQLLVEMDGFXXXXXXXXXXXXXXXDVLDKALLRPGRFDRQIFVPAPDIKGRA 722
E+E TLNQLLVEMDGF D+LD ALLRPGRFDRQI + APD+KGR
Sbjct: 157 DEREQTLNQLLVEMDGFEKDTAIVVMAATNRPDILDPALLRPGRFDRQIAIDAPDVKGRE 216
Query: 723 SIFKVHL--KPLKTDLDRDDLSRKLAALTPGFTGADIANVCNEAALIAARDLHTTIVMKH 780
I ++H KPL D+D L+++ TPGF GAD+ N+ NEAAL+AAR+ I MK
Sbjct: 217 QILRIHARGKPLAEDVDLALLAKR----TPGFVGADLENLLNEAALLAAREGRRKITMKD 272
Query: 781 FEQA 784
E+A
Sbjct: 273 LEEA 276
Score = 44.3 bits (103), Expect = 4e-04, Method: Composition-based stats.
Identities = 26/42 (61%), Positives = 33/42 (78%)
Query: 140 VRFKDVAGCEEAKVEIMEFVNFLKNPQQYIDLGAKIPKGAML 181
V FKDVAG EEAK E+ E V FLKNP ++ ++GA+IPKG +L
Sbjct: 37 VTFKDVAGAEEAKEELKEIVEFLKNPSRFHEMGARIPKGVLL 78
>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 = 259 bits (663), Expect = 4e-69, Method: Composition-based stats.
Identities = 146/244 (59%), Positives = 177/244 (72%), Gaps = 6/244 (2%)
Query: 543 VRFKDVAGCEEAKVEIMEFVNFLKNPQQYIDLGAKIPKGAMLTGPPGTGKTLLAKATAGE 602
V FKDVAG EEAK E+ E V FLKNP ++ ++GA+IPKG +L GPPG GKT LA+A AGE
Sbjct: 13 VTFKDVAGAEEAKEELKEIVEFLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGE 72
Query: 603 ANVPFITVSGSEFLEMFVGVGPSRVRDMFSMARKHAPCILFIDEIDAVGRKRGGRNFGGH 662
A VPFIT SGS+F+EMFVGVG +RVRD+F A++HAPCI+FIDEIDAVGRKRG GG+
Sbjct: 73 ARVPFITASGSDFVEMFVGVGAARVRDLFETAKRHAPCIVFIDEIDAVGRKRGSGVGGGN 132
Query: 663 SEQENTLNQLLVEMDGFXXXXXXXXXXXXXXXDVLDKALLRPGRFDRQIFVPAPDIKGRA 722
E+E TLNQLLVEMDGF D+LD ALLRPGRFDRQI + APD+KGR
Sbjct: 133 DEREQTLNQLLVEMDGFEKDTAIVVMAATNRPDILDPALLRPGRFDRQIAIDAPDVKGRE 192
Query: 723 SIFKVHL--KPLKTDLDRDDLSRKLAALTPGFTGADIANVCNEAALIAARDLHTTIVMKH 780
I ++H KPL D+D L+++ TPGF GAD+ N+ NEAAL+AAR+ I MK
Sbjct: 193 QILRIHARGKPLAEDVDLALLAKR----TPGFVGADLENLLNEAALLAAREGRRKITMKD 248
Query: 781 FEQA 784
E+A
Sbjct: 249 LEEA 252
Score = 44.3 bits (103), Expect = 4e-04, Method: Composition-based stats.
Identities = 26/42 (61%), Positives = 33/42 (78%)
Query: 140 VRFKDVAGCEEAKVEIMEFVNFLKNPQQYIDLGAKIPKGAML 181
V FKDVAG EEAK E+ E V FLKNP ++ ++GA+IPKG +L
Sbjct: 13 VTFKDVAGAEEAKEELKEIVEFLKNPSRFHEMGARIPKGVLL 54
>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 = 214 bits (545), Expect = 2e-55, Method: Compositional matrix adjust.
Identities = 114/248 (45%), Positives = 154/248 (62%), Gaps = 3/248 (1%)
Query: 543 VRFKDVAGCEEAKVEIMEFVNF-LKNPQQYIDLGAKIPKGAMLTGPPGTGKTLLAKATAG 601
VR++D+ G E+ EI E V LK+P+ + +G + PKG +L GPPGTGKTLLAKA A
Sbjct: 14 VRYEDIGGLEKQMQEIREVVELPLKHPELFEKVGIEPPKGILLYGPPGTGKTLLAKAVAT 73
Query: 602 EANVPFITVSGSEFLEMFVGVGPSRVRDMFSMARKHAPCILFIDEIDAVGRKRGGRNFGG 661
E N FI V GSE ++ F+G G S V+D+F +A++ AP I+FIDEIDA+ KR GG
Sbjct: 74 ETNATFIRVVGSELVKKFIGEGASLVKDIFKLAKEKAPSIIFIDEIDAIAAKRTDALTGG 133
Query: 662 HSEQENTLNQLLVEMDGFXXXXXXXXXXXXXXXDVLDKALLRPGRFDRQIFVPAPDIKGR 721
E + TL QLL EMDGF D+LD A+LRPGRFDR I VPAPD KGR
Sbjct: 134 DREVQRTLMQLLAEMDGFDARGDVKIIGATNRPDILDPAILRPGRFDRIIEVPAPDEKGR 193
Query: 722 ASIFKVHLKPLKTDLDRDDLSRKLAALTPGFTGADIANVCNEAALIAARDLHTTIVMKHF 781
I K+H + K +L D ++A +T G GA++ +C EA + A R+L + M F
Sbjct: 194 LEILKIHTR--KMNLAEDVNLEEIAKMTEGCVGAELKAICTEAGMNAIRELRDYVTMDDF 251
Query: 782 EQAIERVV 789
+A+E+++
Sbjct: 252 RKAVEKIM 259
Score = 33.1 bits (74), Expect = 0.89, Method: Compositional matrix adjust.
Identities = 17/43 (39%), Positives = 27/43 (62%), Gaps = 1/43 (2%)
Query: 140 VRFKDVAGCEEAKVEIMEFVNF-LKNPQQYIDLGAKIPKGAML 181
VR++D+ G E+ EI E V LK+P+ + +G + PKG +L
Sbjct: 14 VRYEDIGGLEKQMQEIREVVELPLKHPELFEKVGIEPPKGILL 56
>pdb|4B4T|J Chain J, Near-Atomic Resolution Structural Model Of The Yeast 26s
Proteasome
Length = 405
Score = 191 bits (484), Expect = 3e-48, Method: Compositional matrix adjust.
Identities = 100/243 (41%), Positives = 144/243 (59%), Gaps = 3/243 (1%)
Query: 548 VAGCEEAKVEIMEFVNF-LKNPQQYIDLGAKIPKGAMLTGPPGTGKTLLAKATAGEANVP 606
V G + EI E + +K+P+ + LG PKG +L GPPGTGKTLLA+A A +
Sbjct: 150 VGGLTKQIKEIKEVIELPVKHPELFESLGIAQPKGVILYGPPGTGKTLLARAVAHHTDCK 209
Query: 607 FITVSGSEFLEMFVGVGPSRVRDMFSMARKHAPCILFIDEIDAVGRKRGGRNFGGHSEQE 666
FI VSG+E ++ ++G G VR++F MAR+HAP I+F+DEID++G R + GG SE +
Sbjct: 210 FIRVSGAELVQKYIGEGSRMVRELFVMAREHAPSIIFMDEIDSIGSTRVEGSGGGDSEVQ 269
Query: 667 NTLNQLLVEMDGFXXXXXXXXXXXXXXXDVLDKALLRPGRFDRQIFVPAPDIKGRASIFK 726
T+ +LL ++DGF D+LD ALLRPGR DR+I P P + RA I +
Sbjct: 270 RTMLELLNQLDGFETSKNIKIIMATNRLDILDPALLRPGRIDRKIEFPPPSVAARAEILR 329
Query: 727 VHLKPLKTDLDRDDLSRKLAALTPGFTGADIANVCNEAALIAARDLHTTIVMKHFEQAIE 786
+H + K +L R RK+A G +GAD+ VC EA + A R+ + + FE A+
Sbjct: 330 IHSR--KMNLTRGINLRKVAEKMNGCSGADVKGVCTEAGMYALRERRIHVTQEDFELAVG 387
Query: 787 RVV 789
+V+
Sbjct: 388 KVM 390
>pdb|4B4T|H Chain H, Near-Atomic Resolution Structural Model Of The Yeast 26s
Proteasome
Length = 467
Score = 189 bits (479), Expect = 1e-47, Method: Compositional matrix adjust.
Identities = 99/253 (39%), Positives = 148/253 (58%), Gaps = 3/253 (1%)
Query: 543 VRFKDVAGCEEAKVEIMEFVNF-LKNPQQYIDLGAKIPKGAMLTGPPGTGKTLLAKATAG 601
V + DV GC++ ++ E V L +P+++ LG PKG +L GPPGTGKTL A+A A
Sbjct: 206 VTYSDVGGCKDQIEKLREVVELPLLSPERFATLGIDPPKGILLYGPPGTGKTLCARAVAN 265
Query: 602 EANVPFITVSGSEFLEMFVGVGPSRVRDMFSMARKHAPCILFIDEIDAVGRKRGGRNFGG 661
+ FI V GSE ++ +VG G VR++F MAR CI+F DEIDAVG R GG
Sbjct: 266 RTDATFIRVIGSELVQKYVGEGARMVRELFEMARTKKACIIFFDEIDAVGGARFDDGAGG 325
Query: 662 HSEQENTLNQLLVEMDGFXXXXXXXXXXXXXXXDVLDKALLRPGRFDRQIFVPAPDIKGR 721
+E + T+ +L+ ++DGF + LD ALLRPGR DR++ PD++GR
Sbjct: 326 DNEVQRTMLELITQLDGFDPRGNIKVMFATNRPNTLDPALLRPGRIDRKVEFSLPDLEGR 385
Query: 722 ASIFKVHLKPLKTDLDRDDLSRKLAALTPGFTGADIANVCNEAALIAARDLHTTIVMKHF 781
A+IF++H K + ++R ++ L P TGA++ +VC EA + A R K F
Sbjct: 386 ANIFRIHSKSMS--VERGIRWELISRLCPNSTGAELRSVCTEAGMFAIRARRKVATEKDF 443
Query: 782 EQAIERVVAGMEK 794
+A+++V++G +K
Sbjct: 444 LKAVDKVISGYKK 456
>pdb|4B4T|I Chain I, Near-Atomic Resolution Structural Model Of The Yeast 26s
Proteasome
Length = 437
Score = 180 bits (457), Expect = 3e-45, Method: Compositional matrix adjust.
Identities = 97/246 (39%), Positives = 138/246 (56%), Gaps = 3/246 (1%)
Query: 545 FKDVAGCEEAKVEIMEFVNF-LKNPQQYIDLGAKIPKGAMLTGPPGTGKTLLAKATAGEA 603
+ D+ G E EI E V L +P+ Y ++G K PKG +L G PGTGKTLLAKA A +
Sbjct: 181 YSDIGGLESQIQEIKESVELPLTHPELYEEMGIKPPKGVILYGAPGTGKTLLAKAVANQT 240
Query: 604 NVPFITVSGSEFLEMFVGVGPSRVRDMFSMARKHAPCILFIDEIDAVGRKRGGRNFGGHS 663
+ F+ + GSE ++ ++G GP R +F +A ++AP I+FIDEIDA+G KR N GG
Sbjct: 241 SATFLRIVGSELIQKYLGDGPRLCRQIFKVAGENAPSIVFIDEIDAIGTKRYDSNSGGER 300
Query: 664 EQENTLNQLLVEMDGFXXXXXXXXXXXXXXXDVLDKALLRPGRFDRQIFVPAPDIKGRAS 723
E + T+ +LL ++DGF + LD AL+RPGR DR+I PD+ +
Sbjct: 301 EIQRTMLELLNQLDGFDDRGDVKVIMATNKIETLDPALIRPGRIDRKILFENPDLSTKKK 360
Query: 724 IFKVHLKPLKTDLDRDDLSRKLAALTPGFTGADIANVCNEAALIAARDLHTTIVMKHFEQ 783
I +H K +L D L +GADI +C EA L+A R+ + + F+Q
Sbjct: 361 ILGIHTS--KMNLSEDVNLETLVTTKDDLSGADIQAMCTEAGLLALRERRMQVTAEDFKQ 418
Query: 784 AIERVV 789
A ERV+
Sbjct: 419 AKERVM 424
>pdb|4B4T|M Chain M, Near-Atomic Resolution Structural Model Of The Yeast 26s
Proteasome
Length = 434
Score = 179 bits (455), Expect = 6e-45, Method: Compositional matrix adjust.
Identities = 94/248 (37%), Positives = 146/248 (58%), Gaps = 5/248 (2%)
Query: 545 FKDVAGCEEAKVEIMEFVNF-LKNPQQYIDLGAKIPKGAMLTGPPGTGKTLLAKATAGEA 603
+ DV G ++ E++E + +K ++ D+G + PKGA++ GPPGTGKTLLA+A A +
Sbjct: 180 YSDVGGLDKQIEELVEAIVLPMKRADKFKDMGIRAPKGALMYGPPGTGKTLLARACAAQT 239
Query: 604 NVPFITVSGSEFLEMFVGVGPSRVRDMFSMARKHAPCILFIDEIDAVGRKRGGRNFGGHS 663
N F+ ++ + ++M++G G VRD F++A++ AP I+FIDE+DA+G KR G
Sbjct: 240 NATFLKLAAPQLVQMYIGEGAKLVRDAFALAKEKAPTIIFIDELDAIGTKRFDSEKSGDR 299
Query: 664 EQENTLNQLLVEMDGFXXXXXXXXXXXXXXXDVLDKALLRPGRFDRQIFVPAPDIKGRAS 723
E + T+ +LL ++DGF DVLD ALLR GR DR+I P P RA
Sbjct: 300 EVQRTMLELLNQLDGFSSDDRVKVLAATNRVDVLDPALLRSGRLDRKIEFPLPSEDSRAQ 359
Query: 724 IFKVHLKPLKTDLDRDDLS-RKLAALTPGFTGADIANVCNEAALIAARDLHTTIVMKHFE 782
I ++H + + TD DD++ ++LA T F GA + V EA +IA R+ +++ + F
Sbjct: 360 ILQIHSRKMTTD---DDINWQELARSTDEFNGAQLKAVTVEAGMIALRNGQSSVKHEDFV 416
Query: 783 QAIERVVA 790
+ I V A
Sbjct: 417 EGISEVQA 424
>pdb|4B4T|L Chain L, Near-Atomic Resolution Structural Model Of The Yeast 26s
Proteasome
Length = 437
Score = 172 bits (436), Expect = 9e-43, Method: Compositional matrix adjust.
Identities = 94/248 (37%), Positives = 131/248 (52%), Gaps = 3/248 (1%)
Query: 543 VRFKDVAGCEEAKVEIMEFVNF-LKNPQQYIDLGAKIPKGAMLTGPPGTGKTLLAKATAG 601
+ F + G E E+ E + LKNP+ + +G K PKG +L GPPGTGKTLLAKA A
Sbjct: 178 ITFDGIGGLTEQIRELREVIELPLKNPEIFQRVGIKPPKGVLLYGPPGTGKTLLAKAVAA 237
Query: 602 EANVPFITVSGSEFLEMFVGVGPSRVRDMFSMARKHAPCILFIDEIDAVGRKRGGRNFGG 661
FI S ++ ++G +R+MF+ A++H PCI+F+DE+DA+G +R
Sbjct: 238 TIGANFIFSPASGIVDKYIGESARIIREMFAYAKEHEPCIIFMDEVDAIGGRRFSEGTSA 297
Query: 662 HSEQENTLNQLLVEMDGFXXXXXXXXXXXXXXXDVLDKALLRPGRFDRQIFVPAPDIKGR 721
E + TL +LL +MDGF D LD ALLRPGR DR++ +P P+ GR
Sbjct: 298 DREIQRTLMELLTQMDGFDNLGQTKIIMATNRPDTLDPALLRPGRLDRKVEIPLPNEAGR 357
Query: 722 ASIFKVHLKPLKTDLDRDDLSRKLAALTPGFTGADIANVCNEAALIAARDLHTTIVMKHF 781
IFK+H +K + D ++ GF GADI N EA A RD I
Sbjct: 358 LEIFKIHTAKVKKTGEFD--FEAAVKMSDGFNGADIRNCATEAGFFAIRDDRDHINPDDL 415
Query: 782 EQAIERVV 789
+A+ +V
Sbjct: 416 MKAVRKVA 423
>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 = 172 bits (435), Expect = 1e-42, Method: Compositional matrix adjust.
Identities = 89/229 (38%), Positives = 134/229 (58%), Gaps = 7/229 (3%)
Query: 543 VRFKDVAGCEEAKVEIMEFVNF-LKNPQQYIDLGAKIPKGAMLTGPPGTGKTLLAKATAG 601
V ++D+ G E+ K E+ E V + +++P +++ G KG + GPPG GKTLLAKA A
Sbjct: 12 VTWEDIGGLEDVKRELQELVQYPVEHPDKFLKFGMTPSKGVLFYGPPGCGKTLLAKAIAN 71
Query: 602 EANVPFITVSGSEFLEMFVGVGPSRVRDMFSMARKHAPCILFIDEIDAVGRKRGGRNFGG 661
E FI++ G E L M+ G + VR++F AR+ APC+LF DE+D++ + RGG G
Sbjct: 72 ECQANFISIKGPELLTMWFGESEANVREIFDKARQAAPCVLFFDELDSIAKARGGNIGDG 131
Query: 662 HSEQENTLNQLLVEMDGFXXXXXXXXXXXXXXXDVLDKALLRPGRFDRQIFVPAPDIKGR 721
+ +NQ+L EMDG D++D A+LRPGR D+ I++P PD K R
Sbjct: 132 GGAADRVINQILTEMDGMSTKKNVFIIGATNRPDIIDPAILRPGRLDQLIYIPLPDEKSR 191
Query: 722 ASIFKVHLK--PLKTDLDRDDLSRKLAALTPGFTGADIANVCNEAALIA 768
+I K +L+ P+ D+D + LA +T GF+GAD+ +C A +A
Sbjct: 192 VAILKANLRKSPVAKDVDLE----FLAKMTNGFSGADLTEICQRACKLA 236
>pdb|1R7R|A Chain A, The Crystal Structure Of Murine P97VCP AT 3.6A
Length = 816
Score = 171 bits (434), Expect = 2e-42, Method: Compositional matrix adjust.
Identities = 89/229 (38%), Positives = 134/229 (58%), Gaps = 7/229 (3%)
Query: 543 VRFKDVAGCEEAKVEIMEFVNF-LKNPQQYIDLGAKIPKGAMLTGPPGTGKTLLAKATAG 601
V ++D+ G E+ K E+ E V + +++P +++ G KG + GPPG GKTLLAKA A
Sbjct: 474 VTWEDIGGLEDVKRELQELVQYPVEHPDKFLKFGMTPSKGVLFYGPPGCGKTLLAKAIAN 533
Query: 602 EANVPFITVSGSEFLEMFVGVGPSRVRDMFSMARKHAPCILFIDEIDAVGRKRGGRNFGG 661
E FI++ G E L M+ G + VR++F AR+ APC+LF DE+D++ + RGG G
Sbjct: 534 ECQANFISIKGPELLTMWFGESEANVREIFDKARQAAPCVLFFDELDSIAKARGGNIGDG 593
Query: 662 HSEQENTLNQLLVEMDGFXXXXXXXXXXXXXXXDVLDKALLRPGRFDRQIFVPAPDIKGR 721
+ +NQ+L EMDG D++D A+LRPGR D+ I++P PD K R
Sbjct: 594 GGAADRVINQILTEMDGMSTKKNVFIIGATNRPDIIDPAILRPGRLDQLIYIPLPDEKSR 653
Query: 722 ASIFKVHLK--PLKTDLDRDDLSRKLAALTPGFTGADIANVCNEAALIA 768
+I K +L+ P+ D+D + LA +T GF+GAD+ +C A +A
Sbjct: 654 VAILKANLRKSPVAKDVDLE----FLAKMTNGFSGADLTEICQRACKLA 698
Score = 150 bits (380), Expect = 3e-36, Method: Compositional matrix adjust.
Identities = 90/230 (39%), Positives = 124/230 (53%), Gaps = 8/230 (3%)
Query: 543 VRFKDVAGCEEAKVEIMEFVNF-LKNPQQYIDLGAKIPKGAMLTGPPGTGKTLLAKATAG 601
V + DV GC + +I E V L++P + +G K P+G +L GPPGTGKTL+A+A A
Sbjct: 201 VGYDDVGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVAN 260
Query: 602 EANVPFITVSGSEFLEMFVGVGPSRVRDMFSMARKHAPCILFIDEIDAVGRKRGGRNFGG 661
E F ++G E + G S +R F A K+AP I+FIDE+DA+ KR
Sbjct: 261 ETGAFFFLINGPEIMSKLAGESESNLRKAFEEAEKNAPAIIFIDELDAIAPKRE----KT 316
Query: 662 HSEQENTL-NQLLVEMDGFXXXXXXXXXXXXXXXDVLDKALLRPGRFDRQIFVPAPDIKG 720
H E E + +QLL MDG + +D AL R GRFDR++ + PD G
Sbjct: 317 HGEVERRIVSQLLTLMDGLKQRAHVIVMAATNRPNSIDPALRRFGRFDREVDIGIPDATG 376
Query: 721 RASIFKVHLKPLKTDLDRDDLSRKLAALTPGFTGADIANVCNEAALIAAR 770
R I ++H K +K D D ++A T G GAD+A +C+EAAL A R
Sbjct: 377 RLEILQIHTKNMKLADDVD--LEQVANETHGHVGADLAALCSEAALQAIR 424
>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 = 171 bits (433), Expect = 2e-42, Method: Compositional matrix adjust.
Identities = 89/229 (38%), Positives = 134/229 (58%), Gaps = 7/229 (3%)
Query: 543 VRFKDVAGCEEAKVEIMEFVNF-LKNPQQYIDLGAKIPKGAMLTGPPGTGKTLLAKATAG 601
V ++D+ G E+ K E+ E V + +++P +++ G KG + GPPG GKTLLAKA A
Sbjct: 474 VTWEDIGGLEDVKRELQELVQYPVEHPDKFLKFGMTPSKGVLFYGPPGCGKTLLAKAIAN 533
Query: 602 EANVPFITVSGSEFLEMFVGVGPSRVRDMFSMARKHAPCILFIDEIDAVGRKRGGRNFGG 661
E FI++ G E L M+ G + VR++F AR+ APC+LF DE+D++ + RGG G
Sbjct: 534 ECQANFISIKGPELLTMWFGESEANVREIFDKARQAAPCVLFFDELDSIAKARGGNIGDG 593
Query: 662 HSEQENTLNQLLVEMDGFXXXXXXXXXXXXXXXDVLDKALLRPGRFDRQIFVPAPDIKGR 721
+ +NQ+L EMDG D++D A+LRPGR D+ I++P PD K R
Sbjct: 594 GGAADRVINQILTEMDGMSTKKNVFIIGATNRPDIIDPAILRPGRLDQLIYIPLPDEKSR 653
Query: 722 ASIFKVHLK--PLKTDLDRDDLSRKLAALTPGFTGADIANVCNEAALIA 768
+I K +L+ P+ D+D + LA +T GF+GAD+ +C A +A
Sbjct: 654 VAILKANLRKSPVAKDVDLE----FLAKMTNGFSGADLTEICQRACKLA 698
Score = 150 bits (378), Expect = 4e-36, Method: Compositional matrix adjust.
Identities = 89/230 (38%), Positives = 124/230 (53%), Gaps = 8/230 (3%)
Query: 543 VRFKDVAGCEEAKVEIMEFVNF-LKNPQQYIDLGAKIPKGAMLTGPPGTGKTLLAKATAG 601
V + D+ GC + +I E V L++P + +G K P+G +L GPPGTGKTL+A+A A
Sbjct: 201 VGYDDIGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVAN 260
Query: 602 EANVPFITVSGSEFLEMFVGVGPSRVRDMFSMARKHAPCILFIDEIDAVGRKRGGRNFGG 661
E F ++G E + G S +R F A K+AP I+FIDE+DA+ KR
Sbjct: 261 ETGAFFFLINGPEIMSKLAGESESNLRKAFEEAEKNAPAIIFIDELDAIAPKRE----KT 316
Query: 662 HSEQENTL-NQLLVEMDGFXXXXXXXXXXXXXXXDVLDKALLRPGRFDRQIFVPAPDIKG 720
H E E + +QLL MDG + +D AL R GRFDR++ + PD G
Sbjct: 317 HGEVERRIVSQLLTLMDGLKQRAHVIVMAATNRPNSIDPALRRFGRFDREVDIGIPDATG 376
Query: 721 RASIFKVHLKPLKTDLDRDDLSRKLAALTPGFTGADIANVCNEAALIAAR 770
R I ++H K +K D D ++A T G GAD+A +C+EAAL A R
Sbjct: 377 RLEILQIHTKNMKLADDVD--LEQVANETHGHVGADLAALCSEAALQAIR 424
>pdb|4B4T|K Chain K, Near-Atomic Resolution Structural Model Of The Yeast 26s
Proteasome
Length = 428
Score = 161 bits (407), Expect = 2e-39, Method: Compositional matrix adjust.
Identities = 99/249 (39%), Positives = 129/249 (51%), Gaps = 14/249 (5%)
Query: 543 VRFKDVAGCEEAKVEIMEFVNF-LKNPQQYIDLGAKIPKGAMLTGPPGTGKTLLAKATAG 601
V + DV G + K EI E V L Y +G P+G +L GPPGTGKT+L KA A
Sbjct: 169 VTYADVGGLDMQKQEIREAVELPLVQADLYEQIGIDPPRGVLLYGPPGTGKTMLVKAVAN 228
Query: 602 EANVPFITVSGSEFLEMFVGVGPSRVRDMFSMARKHAPCILFIDEIDAVGRKRGGRNFGG 661
FI V+GSEF+ ++G GP VRD+F +AR++AP I+FIDE+D++ KR G
Sbjct: 229 STKAAFIRVNGSEFVHKYLGEGPRMVRDVFRLARENAPSIIFIDEVDSIATKRFDAQTGS 288
Query: 662 HSEQENTLNQLLVEMDGFXXXXXXXXXXXXXXXDVLDKALLRPGRFDRQIFVPA-PDIKG 720
E + L +LL +MDGF D LD ALLRPGR DR+I P+ D +
Sbjct: 289 DREVQRILIELLTQMDGFDQSTNVKVIMATNRADTLDPALLRPGRLDRKIEFPSLRDRRE 348
Query: 721 RASIF-----KVHLKPLKTDLDRDDLSRKLAALTPGFTGADIANVCNEAALIAARDLHTT 775
R IF K+ L P + DLD L +GA IA + EA L A R
Sbjct: 349 RRLIFGTIASKMSLAP-EADLD------SLIIRNDSLSGAVIAAIMQEAGLRAVRKNRYV 401
Query: 776 IVMKHFEQA 784
I+ E+A
Sbjct: 402 ILQSDLEEA 410
>pdb|2X8A|A Chain A, Human Nuclear Valosin Containing Protein Like (Nvl), C-
Terminal Aaa-Atpase Domain
Length = 274
Score = 161 bits (407), Expect = 2e-39, Method: Compositional matrix adjust.
Identities = 95/273 (34%), Positives = 141/273 (51%), Gaps = 22/273 (8%)
Query: 543 VRFKDVAGCEEAKVEI-MEFVNFLKNPQQYIDLGAKIPKGAMLTGPPGTGKTLLAKATAG 601
V + D+ E+ + E+ M + ++NP Q+ LG P G +L GPPG GKTLLAKA A
Sbjct: 7 VTWADIGALEDIREELTMAILAPVRNPDQFKALGLVTPAGVLLAGPPGCGKTLLAKAVAN 66
Query: 602 EANVPFITVSGSEFLEMFVGVGPSRVRDMFSMARKHAPCILFIDEIDAVGRKRGGRNFGG 661
E+ + FI+V G E L M+VG VR +F A+ APC++F DE+DA+ +R R G
Sbjct: 67 ESGLNFISVKGPELLNMYVGESERAVRQVFQRAKNSAPCVIFFDEVDALCPRRSDRETGA 126
Query: 662 HSEQENTLNQLLVEMDGFXXXXXXXXXXXXXXXDVLDKALLRPGRFDRQIFVPAPDIKGR 721
+NQLL EMDG D++D A+LRPGR D+ +FV P R
Sbjct: 127 SVR---VVNQLLTEMDGLEARQQVFIMAATNRPDIIDPAILRPGRLDKTLFVGLPPPADR 183
Query: 722 ASIFKVHLK-----PLKTDLDRDDLSRKLAALTPGFTGADIANVCNEAALIAARDL---- 772
+I K K PL D++ + ++ L +TGAD++ + EA++ A R
Sbjct: 184 LAILKTITKNGTKPPLDADVNLEAIAGDLRCDC--YTGADLSALVREASICALRQEMARQ 241
Query: 773 -------HTTIVMKHFEQAIERVVAGMEKKTNV 798
+ KHFE+A ++V + + KK +
Sbjct: 242 KSGNEKGELKVSHKHFEEAFKKVRSSISKKDQI 274
>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 = 89/230 (38%), Positives = 124/230 (53%), Gaps = 8/230 (3%)
Query: 543 VRFKDVAGCEEAKVEIMEFVNF-LKNPQQYIDLGAKIPKGAMLTGPPGTGKTLLAKATAG 601
V + D+ GC + +I E V L++P + +G K P+G +L GPPGTGKTL+A+A A
Sbjct: 201 VGYDDIGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVAN 260
Query: 602 EANVPFITVSGSEFLEMFVGVGPSRVRDMFSMARKHAPCILFIDEIDAVGRKRGGRNFGG 661
E F ++G E + G S +R F A K+AP I+FIDE+DA+ KR
Sbjct: 261 ETGAFFFLINGPEIMSKLAGESESNLRKAFEEAEKNAPAIIFIDELDAIAPKRE----KT 316
Query: 662 HSEQENTL-NQLLVEMDGFXXXXXXXXXXXXXXXDVLDKALLRPGRFDRQIFVPAPDIKG 720
H E E + +QLL MDG + +D AL R GRFDR++ + PD G
Sbjct: 317 HGEVERRIVSQLLTLMDGLKQRAHVIVMAATNRPNSIDPALRRFGRFDREVDIGIPDATG 376
Query: 721 RASIFKVHLKPLKTDLDRDDLSRKLAALTPGFTGADIANVCNEAALIAAR 770
R I ++H K +K D D ++A T G GAD+A +C+EAAL A R
Sbjct: 377 RLEILQIHTKNMKLADDVD--LEQVANETHGHVGADLAALCSEAALQAIR 424
>pdb|1E32|A Chain A, Structure Of The N-Terminal Domain And The D1 Aaa Domain
Of Membrane Fusion Atpase P97
pdb|1S3S|A Chain A, Crystal Structure Of Aaa Atpase P97VCP ND1 IN COMPLEX WITH
P47 C
pdb|1S3S|B Chain B, Crystal Structure Of Aaa Atpase P97VCP ND1 IN COMPLEX WITH
P47 C
pdb|1S3S|C Chain C, Crystal Structure Of Aaa Atpase P97VCP ND1 IN COMPLEX WITH
P47 C
pdb|1S3S|D Chain D, Crystal Structure Of Aaa Atpase P97VCP ND1 IN COMPLEX WITH
P47 C
pdb|1S3S|E Chain E, Crystal Structure Of Aaa Atpase P97VCP ND1 IN COMPLEX WITH
P47 C
pdb|1S3S|F Chain F, Crystal Structure Of Aaa Atpase P97VCP ND1 IN COMPLEX WITH
P47 C
Length = 458
Score = 150 bits (379), Expect = 3e-36, Method: Compositional matrix adjust.
Identities = 90/230 (39%), Positives = 124/230 (53%), Gaps = 8/230 (3%)
Query: 543 VRFKDVAGCEEAKVEIMEFVNF-LKNPQQYIDLGAKIPKGAMLTGPPGTGKTLLAKATAG 601
V + DV GC + +I E V L++P + +G K P+G +L GPPGTGKTL+A+A A
Sbjct: 201 VGYDDVGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVAN 260
Query: 602 EANVPFITVSGSEFLEMFVGVGPSRVRDMFSMARKHAPCILFIDEIDAVGRKRGGRNFGG 661
E F ++G E + G S +R F A K+AP I+FIDE+DA+ KR
Sbjct: 261 ETGAFFFLINGPEIMSKLAGESESNLRKAFEEAEKNAPAIIFIDELDAIAPKRE----KT 316
Query: 662 HSEQENTL-NQLLVEMDGFXXXXXXXXXXXXXXXDVLDKALLRPGRFDRQIFVPAPDIKG 720
H E E + +QLL MDG + +D AL R GRFDR++ + PD G
Sbjct: 317 HGEVERRIVSQLLTLMDGLKQRAHVIVMAATNRPNSIDPALRRFGRFDREVDIGIPDATG 376
Query: 721 RASIFKVHLKPLKTDLDRDDLSRKLAALTPGFTGADIANVCNEAALIAAR 770
R I ++H K +K D D ++A T G GAD+A +C+EAAL A R
Sbjct: 377 RLEILQIHTKNMKLADDVD--LEQVANETHGHVGADLAALCSEAALQAIR 424
>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 (379), Expect = 3e-36, Method: Compositional matrix adjust.
Identities = 89/230 (38%), Positives = 124/230 (53%), Gaps = 8/230 (3%)
Query: 543 VRFKDVAGCEEAKVEIMEFVNF-LKNPQQYIDLGAKIPKGAMLTGPPGTGKTLLAKATAG 601
V + D+ GC + +I E V L++P + +G K P+G +L GPPGTGKTL+A+A A
Sbjct: 201 VGYDDIGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVAN 260
Query: 602 EANVPFITVSGSEFLEMFVGVGPSRVRDMFSMARKHAPCILFIDEIDAVGRKRGGRNFGG 661
E F ++G E + G S +R F A K+AP I+FIDE+DA+ KR
Sbjct: 261 ETGAFFFLINGPEIMSKLAGESESNLRKAFEEAEKNAPAIIFIDELDAIAPKRE----KT 316
Query: 662 HSEQENTL-NQLLVEMDGFXXXXXXXXXXXXXXXDVLDKALLRPGRFDRQIFVPAPDIKG 720
H E E + +QLL MDG + +D AL R GRFDR++ + PD G
Sbjct: 317 HGEVERRIVSQLLTLMDGLKQRAHVIVMAATNRPNSIDPALRRFGRFDREVDIGIPDATG 376
Query: 721 RASIFKVHLKPLKTDLDRDDLSRKLAALTPGFTGADIANVCNEAALIAAR 770
R I ++H K +K D D ++A T G GAD+A +C+EAAL A R
Sbjct: 377 RLEILQIHTKNMKLADDVD--LEQVANETHGHVGADLAALCSEAALQAIR 424
>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 (379), Expect = 4e-36, Method: Compositional matrix adjust.
Identities = 89/230 (38%), Positives = 124/230 (53%), Gaps = 8/230 (3%)
Query: 543 VRFKDVAGCEEAKVEIMEFVNF-LKNPQQYIDLGAKIPKGAMLTGPPGTGKTLLAKATAG 601
V + D+ GC + +I E V L++P + +G K P+G +L GPPGTGKTL+A+A A
Sbjct: 201 VGYDDIGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVAN 260
Query: 602 EANVPFITVSGSEFLEMFVGVGPSRVRDMFSMARKHAPCILFIDEIDAVGRKRGGRNFGG 661
E F ++G E + G S +R F A K+AP I+FIDE+DA+ KR
Sbjct: 261 ETGAFFFLINGPEIMSKLAGESESNLRKAFEEAEKNAPAIIFIDELDAIAPKREKT---- 316
Query: 662 HSEQENTL-NQLLVEMDGFXXXXXXXXXXXXXXXDVLDKALLRPGRFDRQIFVPAPDIKG 720
H E E + +QLL MDG + +D AL R GRFDR++ + PD G
Sbjct: 317 HGEVERRIVSQLLTLMDGLKQRAHVIVMAATNRPNSIDPALRRFGRFDREVDIGIPDATG 376
Query: 721 RASIFKVHLKPLKTDLDRDDLSRKLAALTPGFTGADIANVCNEAALIAAR 770
R I ++H K +K D D ++A T G GAD+A +C+EAAL A R
Sbjct: 377 RLEILQIHTKNMKLADDVD--LEQVANETHGHVGADLAALCSEAALQAIR 424
>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 = 134 bits (337), Expect = 3e-31, Method: Compositional matrix adjust.
Identities = 81/218 (37%), Positives = 128/218 (58%), Gaps = 8/218 (3%)
Query: 799 LQPEEKKTVAYHEAGHAVAGWFLRYADPLLKVSIIPRGKGLGYAQYLPRE-QYLYSKEQL 857
+ P+EK+ +A HEAGHA+ G D + K+SIIPRG LG Q LP E +++Y K+ L
Sbjct: 11 ISPKEKEKIAIHEAGHALMGLVSDDDDKVHKISIIPRGMALGVTQQLPIEDKHIYDKKDL 70
Query: 858 LDRMCMTLGGRVSEEIFFGR--ITTGAEDDLKKVTQSAYAQVAHFGMNEKVGNVSFDM-- 913
+++ + LGGR +EE+FFG+ ITTGAE+DL++ T AY V+ +GM++KVG ++
Sbjct: 71 YNKILVLLGGRAAEEVFFGKDGITTGAENDLQRATDLAYRMVSMWGMSDKVGPIAIRRVA 130
Query: 914 -PQPGEMVLEKPYSESTAQLIDNEVRSLISNAYTRTKALLIEHKASVEKVAERLLKKEIL 972
P G M S + ID EV+ +I+ Y + KA++ E+K ++ V ++LL+KE +
Sbjct: 131 NPFLGGMTTAVDTSPDLLREIDEEVKRIITEQYEKAKAIVEEYKEPLKAVVKKLLEKETI 190
Query: 973 DRNDMIEL--LGTRPFPEKSTYEEFVEGTGSFEEDTSL 1008
+ +E+ L +K EE + EE+ L
Sbjct: 191 TCEEFVEVFKLYGIELKDKCKKEELFDKDRKSEENKEL 228
>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 = 131 bits (330), Expect = 2e-30, Method: Compositional matrix adjust.
Identities = 87/244 (35%), Positives = 138/244 (56%), Gaps = 16/244 (6%)
Query: 543 VRFKDVAGCEEAKVEIMEFVNF-LKNPQQYIDLGAKIP-KGAMLTGPPGTGKTLLAKATA 600
V+++DVAG E AK + E V +K P + G + P G +L GPPGTGK+ LAKA A
Sbjct: 48 VKWEDVAGLEGAKEALKEAVILPVKFPHLF--KGNRKPTSGILLYGPPGTGKSYLAKAVA 105
Query: 601 GEANVPFITVSGSEFLEMFVGVGPSRVRDMFSMARKHAPCILFIDEIDAVGRKRGGRNFG 660
EAN F +VS S+ + ++G V+ +F+MAR++ P I+FID++DA+ RG
Sbjct: 106 TEANSTFFSVSSSDLVSKWMGESEKLVKQLFAMARENKPSIIFIDQVDALTGTRG----E 161
Query: 661 GHSEQENTL-NQLLVEMDGFXXXXXXXXXXXXXXXD-VLDKALLRPGRFDRQIFVPAPDI 718
G SE + +LLV+M+G LD A+ R RF+R+I++P PD+
Sbjct: 162 GESEASRRIKTELLVQMNGVGNDSQGVLVLGATNIPWQLDSAIRR--RFERRIYIPLPDL 219
Query: 719 KGRASIFKVHLKPLKTDLDRDDLSRKLAALTPGFTGADIANVCNEAALIAARDLHTTIVM 778
R ++F++++ + L ++D R L A+T G++G+DIA V +A + R + +
Sbjct: 220 AARTTMFEINVGDTPSVLTKEDY-RTLGAMTEGYSGSDIAVVVKDALMQPIRKIQSAT-- 276
Query: 779 KHFE 782
HF+
Sbjct: 277 -HFK 279
>pdb|2RKO|A Chain A, Crystal Structure Of The Vps4p-Dimer
Length = 331
Score = 131 bits (329), Expect = 2e-30, Method: Compositional matrix adjust.
Identities = 88/244 (36%), Positives = 137/244 (56%), Gaps = 16/244 (6%)
Query: 543 VRFKDVAGCEEAKVEIMEFVNF-LKNPQQYIDLGAKIP-KGAMLTGPPGTGKTLLAKATA 600
V+++DVAG E AK + E V +K P + G + P G +L GPPGTGK+ LAKA A
Sbjct: 24 VKWEDVAGLEGAKEALKEAVILPVKFPHLF--KGNRKPTSGILLYGPPGTGKSYLAKAVA 81
Query: 601 GEANVPFITVSGSEFLEMFVGVGPSRVRDMFSMARKHAPCILFIDEIDAVGRKRGGRNFG 660
EAN F +VS S+ + ++G V+ +F+MAR++ P I+FIDE+DA+ RG
Sbjct: 82 TEANSTFFSVSSSDLVSKWMGESEKLVKQLFAMARENKPSIIFIDEVDALTGTRG----E 137
Query: 661 GHSEQENTL-NQLLVEMDGFXXXXXXXXXXXXXXXD-VLDKALLRPGRFDRQIFVPAPDI 718
G SE + +LLV+M+G LD A+ R RF+R+I++P PD+
Sbjct: 138 GESEASRRIKTELLVQMNGVGNDSQGVLVLGATNIPWQLDSAIRR--RFERRIYIPLPDL 195
Query: 719 KGRASIFKVHLKPLKTDLDRDDLSRKLAALTPGFTGADIANVCNEAALIAARDLHTTIVM 778
R ++F++++ L ++D R L A+T G++G+DIA V +A + R + +
Sbjct: 196 AARTTMFEINVGDTPCVLTKEDY-RTLGAMTEGYSGSDIAVVVKDALMQPIRKIQSAT-- 252
Query: 779 KHFE 782
HF+
Sbjct: 253 -HFK 255
>pdb|3EIE|A Chain A, Crystal Structure Of S.Cerevisiae Vps4 In The So4-Bound
State
Length = 322
Score = 130 bits (326), Expect = 5e-30, Method: Compositional matrix adjust.
Identities = 87/244 (35%), Positives = 137/244 (56%), Gaps = 16/244 (6%)
Query: 543 VRFKDVAGCEEAKVEIMEFVNF-LKNPQQYIDLGAKIP-KGAMLTGPPGTGKTLLAKATA 600
V+++DVAG E AK + E V +K P + G + P G +L GPPGTGK+ LAKA A
Sbjct: 15 VKWEDVAGLEGAKEALKEAVILPVKFPHLF--KGNRKPTSGILLYGPPGTGKSYLAKAVA 72
Query: 601 GEANVPFITVSGSEFLEMFVGVGPSRVRDMFSMARKHAPCILFIDEIDAVGRKRGGRNFG 660
EAN F +VS S+ + ++G V+ +F+MAR++ P I+FID++DA+ RG
Sbjct: 73 TEANSTFFSVSSSDLVSKWMGESEKLVKQLFAMARENKPSIIFIDQVDALTGTRG----E 128
Query: 661 GHSEQENTL-NQLLVEMDGFXXXXXXXXXXXXXXXD-VLDKALLRPGRFDRQIFVPAPDI 718
G SE + +LLV+M+G LD A+ R RF+R+I++P PD+
Sbjct: 129 GESEASRRIKTELLVQMNGVGNDSQGVLVLGATNIPWQLDSAIRR--RFERRIYIPLPDL 186
Query: 719 KGRASIFKVHLKPLKTDLDRDDLSRKLAALTPGFTGADIANVCNEAALIAARDLHTTIVM 778
R ++F++++ L ++D R L A+T G++G+DIA V +A + R + +
Sbjct: 187 AARTTMFEINVGDTPCVLTKEDY-RTLGAMTEGYSGSDIAVVVKDALMQPIRKIQSAT-- 243
Query: 779 KHFE 782
HF+
Sbjct: 244 -HFK 246
>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 = 130 bits (326), Expect = 5e-30, Method: Compositional matrix adjust.
Identities = 87/244 (35%), Positives = 137/244 (56%), Gaps = 16/244 (6%)
Query: 543 VRFKDVAGCEEAKVEIMEFVNF-LKNPQQYIDLGAKIP-KGAMLTGPPGTGKTLLAKATA 600
V+++DVAG E AK + E V +K P + G + P G +L GPPGTGK+ LAKA A
Sbjct: 33 VKWEDVAGLEGAKEALKEAVILPVKFPHLF--KGNRKPTSGILLYGPPGTGKSYLAKAVA 90
Query: 601 GEANVPFITVSGSEFLEMFVGVGPSRVRDMFSMARKHAPCILFIDEIDAVGRKRGGRNFG 660
EAN F +VS S+ + ++G V+ +F+MAR++ P I+FID++DA+ RG
Sbjct: 91 TEANSTFFSVSSSDLVSKWMGESEKLVKQLFAMARENKPSIIFIDQVDALTGTRG----E 146
Query: 661 GHSEQENTL-NQLLVEMDGFXXXXXXXXXXXXXXXD-VLDKALLRPGRFDRQIFVPAPDI 718
G SE + +LLV+M+G LD A+ R RF+R+I++P PD+
Sbjct: 147 GESEASRRIKTELLVQMNGVGNDSQGVLVLGATNIPWQLDSAIRR--RFERRIYIPLPDL 204
Query: 719 KGRASIFKVHLKPLKTDLDRDDLSRKLAALTPGFTGADIANVCNEAALIAARDLHTTIVM 778
R ++F++++ L ++D R L A+T G++G+DIA V +A + R + +
Sbjct: 205 AARTTMFEINVGDTPCVLTKEDY-RTLGAMTEGYSGSDIAVVVKDALMQPIRKIQSAT-- 261
Query: 779 KHFE 782
HF+
Sbjct: 262 -HFK 264
>pdb|1XWI|A Chain A, Crystal Structure Of Vps4b
Length = 322
Score = 121 bits (304), Expect = 2e-27, Method: Compositional matrix adjust.
Identities = 83/245 (33%), Positives = 132/245 (53%), Gaps = 15/245 (6%)
Query: 543 VRFKDVAGCEEAKVEIMEFVNF-LKNPQQYIDLGAKIP-KGAMLTGPPGTGKTLLAKATA 600
V++ DVAG E AK + E V +K P + G + P +G +L GPPGTGK+ LAKA A
Sbjct: 9 VKWSDVAGLEGAKEALKEAVILPIKFPHLFT--GKRTPWRGILLFGPPGTGKSYLAKAVA 66
Query: 601 GEAN-VPFITVSGSEFLEMFVGVGPSRVRDMFSMARKHAPCILFIDEIDAVGRKRGGRNF 659
EAN F ++S S+ + ++G V+++F +AR++ P I+FIDEID++ G R+
Sbjct: 67 TEANNSTFFSISSSDLVSKWLGESEKLVKNLFQLARENKPSIIFIDEIDSLC---GSRSE 123
Query: 660 GGHSEQENTLNQLLVEMDGFXXXXXXXXXXXXXXXD-VLDKALLRPGRFDRQIFVPAPDI 718
+ LV+M G VLD A+ R RF+++I++P P+
Sbjct: 124 NESEAARRIKTEFLVQMQGVGVDNDGILVLGATNIPWVLDSAIRR--RFEKRIYIPLPEP 181
Query: 719 KGRASIFKVHLKPLKTDLDRDDLSRKLAALTPGFTGADIANVCNEAALIAARDLHTTIVM 778
RA++FK+HL + L D R+L T G++GADI+ + +A + R + +
Sbjct: 182 HARAAMFKLHLGTTQNSLTEADF-RELGRKTDGYSGADISIIVRDALMQPVRKVQSAT-- 238
Query: 779 KHFEQ 783
HF++
Sbjct: 239 -HFKK 242
>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 = 120 bits (302), Expect = 3e-27, Method: Compositional matrix adjust.
Identities = 81/245 (33%), Positives = 132/245 (53%), Gaps = 15/245 (6%)
Query: 543 VRFKDVAGCEEAKVEIMEFVNF-LKNPQQYIDLGAKIP-KGAMLTGPPGTGKTLLAKATA 600
V++ DVAG E AK + E V +K P + G + P +G +L GPPGTGK+ LAKA A
Sbjct: 131 VKWSDVAGLEGAKEALKEAVILPIKFPHLFT--GKRTPWRGILLFGPPGTGKSYLAKAVA 188
Query: 601 GEAN-VPFITVSGSEFLEMFVGVGPSRVRDMFSMARKHAPCILFIDEIDAVGRKRGGRNF 659
EAN F ++S S+ + ++G V+++F +AR++ P I+FIDEID++ G R+
Sbjct: 189 TEANNSTFFSISSSDLVSKWLGESEKLVKNLFQLARENKPSIIFIDEIDSLC---GSRSE 245
Query: 660 GGHSEQENTLNQLLVEMDGFXXXXXXXXXXXXXXXD-VLDKALLRPGRFDRQIFVPAPDI 718
+ LV+M G VLD A+ R RF+++I++P P+
Sbjct: 246 NESEAARRIKTEFLVQMQGVGVDNDGILVLGATNIPWVLDSAIRR--RFEKRIYIPLPEA 303
Query: 719 KGRASIFKVHLKPLKTDLDRDDLSRKLAALTPGFTGADIANVCNEAALIAARDLHTTIVM 778
RA++F++HL + L D ++L T G++GADI+ + +A + R + +
Sbjct: 304 HARAAMFRLHLGSTQNSLTEADF-QELGRKTDGYSGADISIIVRDALMQPVRKVQSAT-- 360
Query: 779 KHFEQ 783
HF++
Sbjct: 361 -HFKK 364
>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 = 113 bits (282), Expect = 6e-25, Method: Compositional matrix adjust.
Identities = 73/235 (31%), Positives = 117/235 (49%), Gaps = 10/235 (4%)
Query: 543 VRFKDVAGCEEAKVEIMEFVNF-LKNPQQYIDLGAKIPKGAMLTGPPGTGKTLLAKATAG 601
V ++D+AG E AK I E V + + P + L PKG +L GPPGTGKTL+ K A
Sbjct: 81 VNWEDIAGVEFAKATIKEIVVWPMLRPDIFTGLRGP-PKGILLFGPPGTGKTLIGKCIAS 139
Query: 602 EANVPFITVSGSEFLEMFVGVGPSRVRDMFSMARKHAPCILFIDEIDAVGRKRGGRNFGG 661
++ F ++S S +VG G VR +F++AR P ++FIDEID++ +RG G
Sbjct: 140 QSGATFFSISASSLTSKWVGEGEKMVRALFAVARCQQPAVIFIDEIDSLLSQRGD---GE 196
Query: 662 HSEQENTLNQLLVEMDGFXXXXXXX--XXXXXXXXDVLDKALLRPGRFDRQIFVPAPDIK 719
H + LV++DG +D+A R R +++++P P+
Sbjct: 197 HESSRRIKTEFLVQLDGATTSSEDRILVVGATNRPQEIDEAARR--RLVKRLYIPLPEAS 254
Query: 720 GRASIFKVHLKPLKTDLDRDDLSRKLAALTPGFTGADIANVCNEAALIAARDLHT 774
R I + + L +++ ++ + F+GAD+ +C EA+L R L T
Sbjct: 255 ARKQIVINLMSKEQCCLSEEEI-EQIVQQSDAFSGADMTQLCREASLGPIRSLQT 308
>pdb|3B9P|A Chain A, Spastin
Length = 297
Score = 110 bits (275), Expect = 4e-24, Method: Compositional matrix adjust.
Identities = 78/235 (33%), Positives = 124/235 (52%), Gaps = 11/235 (4%)
Query: 543 VRFKDVAGCEEAKVEIMEFVNFLKNPQQYIDLGAKIP-KGAMLTGPPGTGKTLLAKATAG 601
V + D+AG + AK + E V L + + + G + P KG +L GPPG GKTLLA+A A
Sbjct: 18 VEWTDIAGQDVAKQALQEMV-ILPSVRPELFTGLRAPAKGLLLFGPPGNGKTLLARAVAT 76
Query: 602 EANVPFITVSGSEFLEMFVGVGPSRVRDMFSMARKHAPCILFIDEIDAVGRKRGGRNFGG 661
E + F+ +S + +VG G VR +F++AR P I+FIDE+D++ + R+
Sbjct: 77 ECSATFLNISAASLTSKYVGDGEKLVRALFAVARHMQPSIIFIDEVDSLLSE---RSSSE 133
Query: 662 HSEQENTLNQLLVEMDGFXXXXXXXXXXXXXXXDV---LDKALLRPGRFDRQIFVPAPDI 718
H + LVE DG + LD+A LR RF ++++V PD
Sbjct: 134 HEASRRLKTEFLVEFDGLPGNPDGDRIVVLAATNRPQELDEAALR--RFTKRVYVSLPDE 191
Query: 719 KGRASIFKVHLKPLKTDLDRDDLSRKLAALTPGFTGADIANVCNEAALIAARDLH 773
+ R + L+ + LD + L R+LA +T G++G+D+ + +AAL R+L+
Sbjct: 192 QTRELLLNRLLQKQGSPLDTEAL-RRLAKITDGYSGSDLTALAKDAALEPIRELN 245
>pdb|3VFD|A Chain A, Human Spastin Aaa Domain
Length = 389
Score = 108 bits (271), Expect = 1e-23, Method: Compositional matrix adjust.
Identities = 76/234 (32%), Positives = 125/234 (53%), Gaps = 10/234 (4%)
Query: 542 GVRFKDVAGCEEAKVEIMEFVNFLKNPQQYIDLGAKIP-KGAMLTGPPGTGKTLLAKATA 600
V+F D+AG + AK + E V L + + + G + P +G +L GPPG GKT+LAKA A
Sbjct: 111 AVKFDDIAGQDLAKQALQEIV-ILPSLRPELFTGLRAPARGLLLFGPPGNGKTMLAKAVA 169
Query: 601 GEANVPFITVSGSEFLEMFVGVGPSRVRDMFSMARKHAPCILFIDEIDAVGRKRGGRNFG 660
E+N F +S + +VG G VR +F++AR+ P I+FID++D++ + R G
Sbjct: 170 AESNATFFNISAASLTSKYVGEGEKLVRALFAVARELQPSIIFIDQVDSLLCE---RREG 226
Query: 661 GHSEQENTLNQLLVEMDGFXXX--XXXXXXXXXXXXDVLDKALLRPGRFDRQIFVPAPDI 718
H + L+E DG LD+A+LR RF ++++V P+
Sbjct: 227 EHDASRRLKTEFLIEFDGVQSAGDDRVLVMGATNRPQELDEAVLR--RFIKRVYVSLPNE 284
Query: 719 KGRASIFKVHLKPLKTDLDRDDLSRKLAALTPGFTGADIANVCNEAALIAARDL 772
+ R + K L + L + +L+ +LA +T G++G+D+ + +AAL R+L
Sbjct: 285 ETRLLLLKNLLCKQGSPLTQKELA-QLARMTDGYSGSDLTALAKDAALGPIREL 337
>pdb|2LNA|A Chain A, Solution Nmr Structure Of The Mitochondrial Inner
Membrane Domain (Residues 164-251), Ftsh_ext, From The
Paraplegin-Like Protein Afg3l2 From Homo Sapiens,
Northeast Structural Genomics Consortium Target Hr6741a
Length = 99
Score = 103 bits (256), Expect = 6e-22, Method: Compositional matrix adjust.
Identities = 45/81 (55%), Positives = 62/81 (76%)
Query: 7 KEITWKDFINNVLTKGIVEKLEVVNKKWVRVKLLPGNSMDGANFLWFNIGSVDSFERNLE 66
+EITWKDF+NN L+KG+V++LEVVNK++VRV PG + ++WFNIGSVD+FERNLE
Sbjct: 16 REITWKDFVNNYLSKGVVDRLEVVNKRFVRVTFTPGKTPVDGQYVWFNIGSVDTFERNLE 75
Query: 67 LAQAQMHIDPANYLPVIYKTE 87
Q ++ I+ N +PV+Y E
Sbjct: 76 TLQQELGIEGENRVPVVYIAE 96
Score = 103 bits (256), Expect = 6e-22, Method: Compositional matrix adjust.
Identities = 45/81 (55%), Positives = 62/81 (76%)
Query: 421 KEITWKDFINNVLTKGIVEKLEVVNKKWVRVKLLPGNSMDGANFLWFNIGSVDSFERNLE 480
+EITWKDF+NN L+KG+V++LEVVNK++VRV PG + ++WFNIGSVD+FERNLE
Sbjct: 16 REITWKDFVNNYLSKGVVDRLEVVNKRFVRVTFTPGKTPVDGQYVWFNIGSVDTFERNLE 75
Query: 481 LAQAQMHIDPANYLPVIYKTE 501
Q ++ I+ N +PV+Y E
Sbjct: 76 TLQQELGIEGENRVPVVYIAE 96
>pdb|4A3V|B Chain B, Yeast Regulatory Particle Proteasome Assembly Chaperone
Hsm3 In Complex With Rpt1 C-Terminal Fragment
pdb|4A3V|D Chain D, Yeast Regulatory Particle Proteasome Assembly Chaperone
Hsm3 In Complex With Rpt1 C-Terminal Fragment
Length = 95
Score = 57.0 bits (136), Expect = 6e-08, Method: Compositional matrix adjust.
Identities = 27/79 (34%), Positives = 48/79 (60%), Gaps = 2/79 (2%)
Query: 716 PDIKGRASIFKVHLKPLKTDLDRDDLSRKLAALTPGFTGADIANVCNEAALIAARDLHTT 775
PD++GRA+IF++H K + ++R ++ L P TGA++ +VC EA + A R
Sbjct: 8 PDLEGRANIFRIHSKSM--SVERGIRWELISRLCPNSTGAELRSVCTEAGMFAIRARRKV 65
Query: 776 IVMKHFEQAIERVVAGMEK 794
K F +A+++V++G +K
Sbjct: 66 ATEKDFLKAVDKVISGYKK 84
>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 = 51.6 bits (122), Expect = 2e-06, Method: Composition-based stats.
Identities = 27/75 (36%), Positives = 41/75 (54%), Gaps = 2/75 (2%)
Query: 714 PAPDIKGRASIFKVHLKPLKTDLDRDDLSRKLAALTPGFTGADIANVCNEAALIAARDLH 773
P P+ + R I K+H + K +L R RK+A L PG +GA++ VC EA A R+
Sbjct: 1 PPPNEEARLDILKIHSR--KXNLTRGINLRKIAELXPGASGAEVKGVCTEAGXYALRERR 58
Query: 774 TTIVMKHFEQAIERV 788
+ + FE A+ +V
Sbjct: 59 VHVTQEDFEXAVAKV 73
>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 = 51.2 bits (121), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 26/74 (35%), Positives = 42/74 (56%), Gaps = 2/74 (2%)
Query: 716 PDIKGRASIFKVHLKPLKTDLDRDDLSRKLAALTPGFTGADIANVCNEAALIAARDLHTT 775
P+ + R I K+H + K +L R RK+A L PG +GA++ VC EA + A R+
Sbjct: 11 PNEEARLDILKIHSR--KMNLTRGINLRKIAELMPGASGAEVKGVCTEAGMYALRERRVH 68
Query: 776 IVMKHFEQAIERVV 789
+ + FE A+ +V+
Sbjct: 69 VTQEDFEMAVAKVM 82
>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 = 51.2 bits (121), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 38/107 (35%), Positives = 54/107 (50%), Gaps = 9/107 (8%)
Query: 579 PKGAMLTGPPGTGKTLLAKATAGEANVPFITVSGSEFLEM-FVGVG-PSRVRDMFSMARK 636
PK ++ GP G GKT +A+ A AN PFI V ++F E+ +VG S +RD+ A
Sbjct: 50 PKNILMIGPTGVGKTEIARRLAKLANAPFIKVEATKFTEVGYVGKEVDSIIRDLTDSAGG 109
Query: 637 HAPC-----ILFIDEIDAVGRKRGGRNFGGHSEQENTLNQLLVEMDG 678
I+FIDEID + +K G G +E LL ++G
Sbjct: 110 AIDAVEQNGIVFIDEIDKICKK--GEYSGADVSREGVQRDLLPLVEG 154
>pdb|3VLF|B Chain B, Crystal Structure Of Yeast Proteasome Interacting Protein
pdb|3VLF|D Chain D, Crystal Structure Of Yeast Proteasome Interacting Protein
Length = 88
Score = 50.4 bits (119), Expect = 5e-06, Method: Composition-based stats.
Identities = 26/78 (33%), Positives = 45/78 (57%), Gaps = 2/78 (2%)
Query: 717 DIKGRASIFKVHLKPLKTDLDRDDLSRKLAALTPGFTGADIANVCNEAALIAARDLHTTI 776
D++GRA+IF++H K ++R ++ L P TGA++ +VC EA A R
Sbjct: 2 DLEGRANIFRIHSK--SXSVERGIRWELISRLCPNSTGAELRSVCTEAGXFAIRARRKVA 59
Query: 777 VMKHFEQAIERVVAGMEK 794
K F +A+++V++G +K
Sbjct: 60 TEKDFLKAVDKVISGYKK 77
>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 = 43.9 bits (102), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 25/60 (41%), Positives = 35/60 (58%), Gaps = 2/60 (3%)
Query: 579 PKGAMLTGPPGTGKTLLAKATAGEANVPFITVSGSEFLEM-FVGVG-PSRVRDMFSMARK 636
PK ++ GP G GKT +A+ A AN PFI V ++F E+ +VG S +RD+ A K
Sbjct: 49 PKNILMIGPTGVGKTEIARRLAKLANAPFIKVEATKFTEVGYVGKEVDSIIRDLTDAAVK 108
>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 = 43.9 bits (102), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 25/60 (41%), Positives = 35/60 (58%), Gaps = 2/60 (3%)
Query: 579 PKGAMLTGPPGTGKTLLAKATAGEANVPFITVSGSEFLEM-FVGVG-PSRVRDMFSMARK 636
PK ++ GP G GKT +A+ A AN PFI V ++F E+ +VG S +RD+ A K
Sbjct: 56 PKNILMIGPTGVGKTEIARRLAKLANAPFIKVEATKFTEVGYVGKEVDSIIRDLTDAAVK 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 = 43.9 bits (102), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 25/60 (41%), Positives = 35/60 (58%), Gaps = 2/60 (3%)
Query: 579 PKGAMLTGPPGTGKTLLAKATAGEANVPFITVSGSEFLEM-FVGVG-PSRVRDMFSMARK 636
PK ++ GP G GKT +A+ A AN PFI V ++F E+ +VG S +RD+ A K
Sbjct: 50 PKNILMIGPTGVGKTEIARRLAKLANAPFIKVEATKFTEVGYVGKEVDSIIRDLTDAAVK 109
>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 = 43.5 bits (101), Expect = 6e-04, Method: Compositional matrix adjust.
Identities = 25/60 (41%), Positives = 35/60 (58%), Gaps = 2/60 (3%)
Query: 579 PKGAMLTGPPGTGKTLLAKATAGEANVPFITVSGSEFLEM-FVGVG-PSRVRDMFSMARK 636
PK ++ GP G GKT +A+ A AN PFI V ++F E+ +VG S +RD+ A K
Sbjct: 50 PKNILMIGPTGVGKTEIARRLAKLANAPFIKVEATKFTEVGYVGKEVDSIIRDLTDSAMK 109
>pdb|1IM2|A Chain A, Hslu, Haemophilus Influenzae, Selenomethionine Variant
Length = 444
Score = 42.7 bits (99), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 25/60 (41%), Positives = 34/60 (56%), Gaps = 2/60 (3%)
Query: 579 PKGAMLTGPPGTGKTLLAKATAGEANVPFITVSGSEFLEM-FVGVG-PSRVRDMFSMARK 636
PK + GP G GKT +A+ A AN PFI V ++F E+ +VG S +RD+ A K
Sbjct: 50 PKNILXIGPTGVGKTEIARRLAKLANAPFIKVEATKFTEVGYVGKEVDSIIRDLTDSAXK 109
>pdb|1UM8|A Chain A, Crystal Structure Of Helicobacter Pylori Clpx
Length = 376
Score = 41.6 bits (96), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 29/102 (28%), Positives = 44/102 (43%), Gaps = 6/102 (5%)
Query: 583 MLTGPPGTGKTLLAKATAGEANVPFITVSGSEFLEM-FVGVGPSRVRDMFSMA-----RK 636
+L GP G+GKTL+A+ A ++P + E +VG + A +K
Sbjct: 76 LLIGPTGSGKTLMAQTLAKHLDIPIAISDATSLTEAGYVGEDVENILTRLLQASDWNVQK 135
Query: 637 HAPCILFIDEIDAVGRKRGGRNFGGHSEQENTLNQLLVEMDG 678
I+FIDEID + R R+ E LL ++G
Sbjct: 136 AQKGIVFIDEIDKISRLSENRSITRDVSGEGVQQALLKIVEG 177
>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 = 39.3 bits (90), Expect = 0.012, Method: Compositional matrix adjust.
Identities = 20/38 (52%), Positives = 24/38 (63%), Gaps = 2/38 (5%)
Query: 580 KGAMLTGPPGTGKTLLAKATAGE--ANVPFITVSGSEF 615
+ +L GPPGTGKT LA A A E + VPF + GSE
Sbjct: 64 RAVLLAGPPGTGKTALALAIAQELGSKVPFCPMVGSEV 101
>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 = 38.9 bits (89), Expect = 0.015, Method: Compositional matrix adjust.
Identities = 29/97 (29%), Positives = 43/97 (44%), Gaps = 10/97 (10%)
Query: 583 MLTGPPGTGKTLLAKATAGEANVPFITVSGSEFLEM-FVGVGPSRVRDMFSM-----ARK 636
+L GP G+GKTLLA+ A +VPF + E +VG + +K
Sbjct: 55 LLIGPTGSGKTLLAETLARLLDVPFTMADATTLTEAGYVGEDVENIIQKLLQKCDYDVQK 114
Query: 637 HAPCILFIDEIDAVGRKRGG----RNFGGHSEQENTL 669
I++ID+ID + RK R+ G Q+ L
Sbjct: 115 AQRGIVYIDQIDKISRKSDNPSITRDVSGEGVQQALL 151
>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 = 38.9 bits (89), Expect = 0.016, Method: Compositional matrix adjust.
Identities = 29/97 (29%), Positives = 43/97 (44%), Gaps = 10/97 (10%)
Query: 583 MLTGPPGTGKTLLAKATAGEANVPFITVSGSEFLEM-FVGVGPSRVRDMFSM-----ARK 636
+L GP G+GKTLLA+ A +VPF + E +VG + +K
Sbjct: 55 LLIGPTGSGKTLLAETLARLLDVPFTMADATTLTEAGYVGEDVENIIQKLLQKCDYDVQK 114
Query: 637 HAPCILFIDEIDAVGRKRGG----RNFGGHSEQENTL 669
I++ID+ID + RK R+ G Q+ L
Sbjct: 115 AQRGIVYIDQIDKISRKSDNPSITRDVSGEGVQQALL 151
>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 = 38.5 bits (88), Expect = 0.019, Method: Compositional matrix adjust.
Identities = 35/110 (31%), Positives = 48/110 (43%), Gaps = 20/110 (18%)
Query: 550 GCEEAKVEIMEFVNFLKNPQQYIDLGAKIPKGAMLT--GPPGTGKTLLAKATAGEANVPF 607
G E+ K I+E++ K + KG +L GPPG GKT LAK+ A F
Sbjct: 85 GLEKVKERILEYLAVQKLTKSL--------KGPILCLAGPPGVGKTSLAKSIAKSLGRKF 136
Query: 608 ITVS------GSEF---LEMFVGVGPSRVRDMFSMARKHAPCILFIDEID 648
+ +S SE +VG P R+ A K P + +DEID
Sbjct: 137 VRISLGGVRDESEIRGHRRTYVGAMPGRIIQGMKKAGKLNP-VFLLDEID 185
>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 = 38.5 bits (88), Expect = 0.020, Method: Compositional matrix adjust.
Identities = 20/38 (52%), Positives = 23/38 (60%), Gaps = 2/38 (5%)
Query: 580 KGAMLTGPPGTGKTLLAKATAGE--ANVPFITVSGSEF 615
+ +L GPPGTGKT LA A A E + VPF GSE
Sbjct: 78 RAVLLAGPPGTGKTALALAIAQELGSKVPFCPXVGSEV 115
>pdb|3MHV|C Chain C, Crystal Structure Of Vps4 And Vta1
Length = 117
Score = 38.5 bits (88), Expect = 0.021, Method: Composition-based stats.
Identities = 19/65 (29%), Positives = 37/65 (56%), Gaps = 1/65 (1%)
Query: 715 APDIKGRASIFKVHLKPLKTDLDRDDLSRKLAALTPGFTGADIANVCNEAALIAARDLHT 774
+PD+ R ++F++++ L ++D R L A+T G++G+DIA V +A + R + +
Sbjct: 2 SPDLAARTTMFEINVGDTPCVLTKEDY-RTLGAMTEGYSGSDIAVVVKDALMQPIRKIQS 60
Query: 775 TIVMK 779
K
Sbjct: 61 ATHFK 65
>pdb|1NSF|A Chain A, D2 Hexamerization Domain Of N-Ethylmaleimide Sensitive
Factor (Nsf)
Length = 273
Score = 37.7 bits (86), Expect = 0.033, Method: Compositional matrix adjust.
Identities = 21/67 (31%), Positives = 35/67 (52%), Gaps = 1/67 (1%)
Query: 583 MLTGPPGTGKTLLAKATAGEANVPFITVSGSEFLEMFVGVGPSR-VRDMFSMARKHAPCI 641
+L GPP +GKT LA A E+N PFI + + + F + ++ +F A K
Sbjct: 67 LLEGPPHSGKTALAAKIAEESNFPFIKICSPDKMIGFSETAKCQAMKKIFDDAYKSQLSC 126
Query: 642 LFIDEID 648
+ +D+I+
Sbjct: 127 VVVDDIE 133
>pdb|1D2N|A Chain A, D2 Domain Of N-Ethylmaleimide-Sensitive Fusion Protein
Length = 272
Score = 37.7 bits (86), Expect = 0.037, Method: Compositional matrix adjust.
Identities = 21/67 (31%), Positives = 35/67 (52%), Gaps = 1/67 (1%)
Query: 583 MLTGPPGTGKTLLAKATAGEANVPFITVSGSEFLEMFVGVGPSR-VRDMFSMARKHAPCI 641
+L GPP +GKT LA A E+N PFI + + + F + ++ +F A K
Sbjct: 68 LLEGPPHSGKTALAAKIAEESNFPFIKICSPDKMIGFSETAKCQAMKKIFDDAYKSQLSC 127
Query: 642 LFIDEID 648
+ +D+I+
Sbjct: 128 VVVDDIE 134
>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 = 37.4 bits (85), Expect = 0.039, Method: Compositional matrix adjust.
Identities = 25/69 (36%), Positives = 34/69 (49%), Gaps = 11/69 (15%)
Query: 583 MLTGPPGTGKTLLAKATAGEANVPFITVSGSEFLEMFVGVGPSRVRDMFSMARKHAPC-- 640
+L GPPGTGKT LA+ A AN +S V G +R+ AR++
Sbjct: 54 ILWGPPGTGKTTLAEVIARYANADVERISA-------VTSGVKEIREAIERARQNRNAGR 106
Query: 641 --ILFIDEI 647
ILF+DE+
Sbjct: 107 RTILFVDEV 115
>pdb|3ZUH|A Chain A, Negative Stain Em Map Of The Aaa Protein Cbbx, A Red-Type
Rubisco Activase From R. Sphaeroides
pdb|3ZUH|B Chain B, Negative Stain Em Map Of The Aaa Protein Cbbx, A Red-Type
Rubisco Activase From R. Sphaeroides
pdb|3ZUH|C Chain C, Negative Stain Em Map Of The Aaa Protein Cbbx, A Red-Type
Rubisco Activase From R. Sphaeroides
pdb|3ZUH|D Chain D, Negative Stain Em Map Of The Aaa Protein Cbbx, A Red-Type
Rubisco Activase From R. Sphaeroides
pdb|3ZUH|E Chain E, Negative Stain Em Map Of The Aaa Protein Cbbx, A Red-Type
Rubisco Activase From R. Sphaeroides
pdb|3ZUH|F Chain F, Negative Stain Em Map Of The Aaa Protein Cbbx, A Red-Type
Rubisco Activase From R. Sphaeroides
Length = 289
Score = 35.4 bits (80), Expect = 0.16, Method: Compositional matrix adjust.
Identities = 36/150 (24%), Positives = 67/150 (44%), Gaps = 19/150 (12%)
Query: 546 KDVAGCEEAKVEIMEFVNFL--KNPQQYIDLGAKIPKGAM-LTGPPGTGKTLLAKATAGE 602
+++ G + K I E L + +Q + L + P M TG PGTGKT +A AG
Sbjct: 24 RELIGLKPVKDRIRETAALLLVERARQKLGLAHETPTLHMSFTGNPGTGKTTVALKMAGL 83
Query: 603 ANV-------PFITVSGSEFLEMFVGVGPSRVRDMFSMARKHAPCILFIDEIDAVGRKRG 655
+ ++V+ + + ++G + +++ A +LFIDE + R
Sbjct: 84 LHRLGYVRKGHLVSVTRDDLVGQYIGHTAPKTKEVLKRA---MGGVLFIDEAYYLYRPDN 140
Query: 656 GRNFGGHSEQ------ENTLNQLLVEMDGF 679
R++G + + EN + L+V + G+
Sbjct: 141 ERDYGQEAIEILLQVMENNRDDLVVILAGY 170
>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 = 35.0 bits (79), Expect = 0.23, Method: Compositional matrix adjust.
Identities = 28/96 (29%), Positives = 41/96 (42%), Gaps = 2/96 (2%)
Query: 564 FLKNPQQYIDLGAKIPKGAMLTGPPGTGKTLLAKATAGEANVPFITVSGSEFLEMFVGVG 623
F K + I KIP + + PGTGKT +AKA + N + V+GS+ FV
Sbjct: 33 FDKETFKSITSKGKIPHIILHSPSPGTGKTTVAKALCHDVNADMMFVNGSDCKIDFVRGP 92
Query: 624 PSRVRDMFSMARKHAPCILFIDEIDAVGRKRGGRNF 659
+ S + ++ IDE D G R+
Sbjct: 93 LTNFASAASFDGRQK--VIVIDEFDRSGLAESQRHL 126
>pdb|2DVW|B Chain B, Structure Of The Oncoprotein Gankyrin In Complex With S6
Atpase Of The 26s Proteasome
pdb|2DWZ|B Chain B, Structure Of The Oncoprotein Gankyrin In Complex With S6
Atpase Of The 26s Proteasome
pdb|2DWZ|D Chain D, Structure Of The Oncoprotein Gankyrin In Complex With S6
Atpase Of The 26s Proteasome
pdb|3AJI|B Chain B, Structure Of Gankyrin-S6atpase Photo-Cross-Linked
Site-Specifically, And Incoporated By Genetic Code
Expansion
pdb|3AJI|D Chain D, Structure Of Gankyrin-S6atpase Photo-Cross-Linked
Site-Specifically, And Incoporated By Genetic Code
Expansion
Length = 83
Score = 35.0 bits (79), Expect = 0.24, Method: Compositional matrix adjust.
Identities = 14/44 (31%), Positives = 28/44 (63%)
Query: 752 FTGADIANVCNEAALIAARDLHTTIVMKHFEQAIERVVAGMEKK 795
+GADI ++C E+ ++A R+ ++ K FE+A + V+ E++
Sbjct: 35 ISGADINSICQESGMLAVRENRYIVLAKDFEKAYKTVIKKDEQE 78
>pdb|3SYL|A Chain A, Crystal Structure Of The Aaa+ Protein Cbbx, Native
Structure
pdb|3SYL|B Chain B, Crystal Structure Of The Aaa+ Protein Cbbx, Native
Structure
Length = 309
Score = 34.7 bits (78), Expect = 0.31, Method: Composition-based stats.
Identities = 36/150 (24%), Positives = 67/150 (44%), Gaps = 19/150 (12%)
Query: 546 KDVAGCEEAKVEIMEFVNFL--KNPQQYIDLGAKIPKGAM-LTGPPGTGKTLLAKATAGE 602
+++ G + K I E L + +Q + L + P M TG PGTGKT +A AG
Sbjct: 31 RELIGLKPVKDRIRETAALLLVERARQKLGLAHETPTLHMSFTGNPGTGKTTVALKMAGL 90
Query: 603 ANV-------PFITVSGSEFLEMFVGVGPSRVRDMFSMARKHAPCILFIDEIDAVGRKRG 655
+ ++V+ + + ++G + +++ A +LFIDE + R
Sbjct: 91 LHRLGYVRKGHLVSVTRDDLVGQYIGHTAPKTKEVLKRAMGG---VLFIDEAYYLYRPDN 147
Query: 656 GRNFGGHSEQ------ENTLNQLLVEMDGF 679
R++G + + EN + L+V + G+
Sbjct: 148 ERDYGQEAIEILLQVMENNRDDLVVILAGY 177
>pdb|3SYK|A Chain A, Crystal Structure Of The Aaa+ Protein Cbbx,
Selenomethionine Structure
pdb|3SYK|B Chain B, Crystal Structure Of The Aaa+ Protein Cbbx,
Selenomethionine Structure
Length = 309
Score = 33.5 bits (75), Expect = 0.71, Method: Composition-based stats.
Identities = 35/150 (23%), Positives = 66/150 (44%), Gaps = 19/150 (12%)
Query: 546 KDVAGCEEAKVEIMEFVNFL--KNPQQYIDLGAKIPK-GAMLTGPPGTGKTLLAKATAGE 602
+++ G + K I E L + +Q + L + P TG PGTGKT +A AG
Sbjct: 31 RELIGLKPVKDRIRETAALLLVERARQKLGLAHETPTLHXSFTGNPGTGKTTVALKXAGL 90
Query: 603 ANV-------PFITVSGSEFLEMFVGVGPSRVRDMFSMARKHAPCILFIDEIDAVGRKRG 655
+ ++V+ + + ++G + +++ A +LFIDE + R
Sbjct: 91 LHRLGYVRKGHLVSVTRDDLVGQYIGHTAPKTKEVLKRAXGG---VLFIDEAYYLYRPDN 147
Query: 656 GRNFGGHSEQ------ENTLNQLLVEMDGF 679
R++G + + EN + L+V + G+
Sbjct: 148 ERDYGQEAIEILLQVXENNRDDLVVILAGY 177
>pdb|1IXR|C Chain C, Ruva-Ruvb Complex
Length = 312
Score = 33.1 bits (74), Expect = 0.87, Method: Composition-based stats.
Identities = 24/71 (33%), Positives = 33/71 (46%), Gaps = 7/71 (9%)
Query: 583 MLTGPPGTGKTLLAKATAGEANVPFITVSGSEFLEMFVGVGPSRVRDMFSMARKHAPCIL 642
+L GPPG GKT LA A E V SG + P + + + + + IL
Sbjct: 42 LLFGPPGLGKTTLAHVIAHELGVNLRVTSGPAIEK------PGDLAAILANSLEEGD-IL 94
Query: 643 FIDEIDAVGRK 653
FIDEI + R+
Sbjct: 95 FIDEIHRLSRQ 105
>pdb|1IXS|B Chain B, Structure Of Ruvb Complexed With Ruva Domain Iii
Length = 318
Score = 33.1 bits (74), Expect = 0.87, Method: Composition-based stats.
Identities = 24/71 (33%), Positives = 33/71 (46%), Gaps = 7/71 (9%)
Query: 583 MLTGPPGTGKTLLAKATAGEANVPFITVSGSEFLEMFVGVGPSRVRDMFSMARKHAPCIL 642
+L GPPG GKT LA A E V SG + P + + + + + IL
Sbjct: 42 LLFGPPGLGKTTLAHVIAHELGVNLRVTSGPAIEK------PGDLAAILANSLEEGD-IL 94
Query: 643 FIDEIDAVGRK 653
FIDEI + R+
Sbjct: 95 FIDEIHRLSRQ 105
>pdb|3VAA|A Chain A, 1.7 Angstrom Resolution Crystal Structure Of Shikimate
Kinase From Bacteroides Thetaiotaomicron
pdb|3VAA|B Chain B, 1.7 Angstrom Resolution Crystal Structure Of Shikimate
Kinase From Bacteroides Thetaiotaomicron
pdb|3VAA|C Chain C, 1.7 Angstrom Resolution Crystal Structure Of Shikimate
Kinase From Bacteroides Thetaiotaomicron
Length = 199
Score = 33.1 bits (74), Expect = 0.87, Method: Compositional matrix adjust.
Identities = 16/29 (55%), Positives = 18/29 (62%)
Query: 583 MLTGPPGTGKTLLAKATAGEANVPFITVS 611
LTG G GKT L KA A + NVPFI +
Sbjct: 29 FLTGYMGAGKTTLGKAFARKLNVPFIDLD 57
>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 = 33.1 bits (74), Expect = 0.92, Method: Composition-based stats.
Identities = 24/71 (33%), Positives = 33/71 (46%), Gaps = 7/71 (9%)
Query: 583 MLTGPPGTGKTLLAKATAGEANVPFITVSGSEFLEMFVGVGPSRVRDMFSMARKHAPCIL 642
+L GPPG GKT LA A E V SG + P + + + + + IL
Sbjct: 42 LLFGPPGLGKTTLAHVIAHELGVNLRVTSGPAIEK------PGDLAAILANSLEEGD-IL 94
Query: 643 FIDEIDAVGRK 653
FIDEI + R+
Sbjct: 95 FIDEIHRLSRQ 105
>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 = 32.3 bits (72), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 27/95 (28%), Positives = 41/95 (43%), Gaps = 13/95 (13%)
Query: 575 GAKIPKGAMLTGPPGTGKTLLAKATAGEANVPFITVSGSEFL-EMFVGVGPSRVRDMFSM 633
G+ + + AML GPPG GKT A A E + + S+ + + G D S+
Sbjct: 73 GSGVFRAAMLYGPPGIGKTTAAHLVAQELGYDILEQNASDVRSKTLLNAGVKNALDNMSV 132
Query: 634 AR--KH---------APCILFIDEIDAV-GRKRGG 656
KH ++ +DE+D + G RGG
Sbjct: 133 VGYFKHNEEAQNLNGKHFVIIMDEVDGMSGGDRGG 167
>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 = 32.3 bits (72), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 15/41 (36%), Positives = 23/41 (56%), Gaps = 2/41 (4%)
Query: 580 KGAMLTGPPGTGKTLLA--KATAGEANVPFITVSGSEFLEM 618
+ ++ G PGTGKT +A A A + PF ++GSE +
Sbjct: 86 RAVLIAGQPGTGKTAIAXGXAQALGPDTPFTAIAGSEIFSL 126
>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 = 32.3 bits (72), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 18/43 (41%), Positives = 25/43 (58%), Gaps = 4/43 (9%)
Query: 580 KGAMLTGPPGTGKTLLA--KATAGEANVPFITVSGSEF--LEM 618
+ ++ G PGTGKT +A A A + PF ++GSE LEM
Sbjct: 71 RAVLIAGQPGTGKTAIAMGMAQALGPDTPFTAIAGSEIFSLEM 113
>pdb|1RKB|A Chain A, The Structure Of Adrenal Gland Protein Ad-004
Length = 173
Score = 31.6 bits (70), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 13/28 (46%), Positives = 18/28 (64%)
Query: 583 MLTGPPGTGKTLLAKATAGEANVPFITV 610
+LTG PG GKT L K A ++ + +I V
Sbjct: 8 LLTGTPGVGKTTLGKELASKSGLKYINV 35
>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 = 31.2 bits (69), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 13/28 (46%), Positives = 18/28 (64%)
Query: 583 MLTGPPGTGKTLLAKATAGEANVPFITV 610
+LTG PG GKT L K A ++ + +I V
Sbjct: 15 LLTGTPGVGKTTLGKELASKSGLKYINV 42
>pdb|2AVN|A Chain A, Crystal Structure Of A UbiquinoneMENAQUINONE BIOSYNTHESIS
Methyltransferase-Related Protein (Tm1389) From
Thermotoga Maritima Msb8 At 2.35 A Resolution
pdb|2AVN|B Chain B, Crystal Structure Of A UbiquinoneMENAQUINONE BIOSYNTHESIS
Methyltransferase-Related Protein (Tm1389) From
Thermotoga Maritima Msb8 At 2.35 A Resolution
Length = 260
Score = 30.8 bits (68), Expect = 3.8, Method: Compositional matrix adjust.
Identities = 16/38 (42%), Positives = 22/38 (57%), Gaps = 3/38 (7%)
Query: 304 GGGGGKWRIILSENVPKGFEKFYPDKNKKSAEKPKEEG 341
GGG GKW + L E +GFE D +K+ E +E+G
Sbjct: 62 GGGTGKWSLFLQE---RGFEVVLVDPSKEXLEVAREKG 96
>pdb|4DF3|A Chain A, Crystal Structure Of Aeropyrum Pernix Fibrillarin In Complex
With Natively Bound S-adenosyl-l-methionine At 1.7a
pdb|4DF3|B Chain B, Crystal Structure Of Aeropyrum Pernix Fibrillarin In Complex
With Natively Bound S-adenosyl-l-methionine At 1.7a
Length = 233
Score = 30.8 bits (68), Expect = 3.8, Method: Composition-based stats.
Identities = 17/46 (36%), Positives = 22/46 (47%), Gaps = 2/46 (4%)
Query: 965 RLLKKEILDRNDMIELLGTRPFPEKSTYEEFVEGTGSFEEDTSLPE 1010
R L + DR ++ +LG FPEK Y VEG D + PE
Sbjct: 116 RDLLTVVRDRRNIFPILGDARFPEK--YRHLVEGVDGLYADVAQPE 159
>pdb|1E29|A Chain A, Psii Associated Cytochrome C549 From Synechocystis Sp
Length = 135
Score = 30.8 bits (68), Expect = 4.4, Method: Composition-based stats.
Identities = 12/39 (30%), Positives = 22/39 (56%)
Query: 130 AKLINSSDIGVRFKDVAGCEEAKVEIMEFVNFLKNPQQY 168
K ++++ + D+AG E + ++ V FLKNP+ Y
Sbjct: 44 GKTKTNNNVSLGLADLAGAEPRRDNVLALVEFLKNPKSY 82
Score = 30.8 bits (68), Expect = 4.4, Method: Composition-based stats.
Identities = 12/39 (30%), Positives = 22/39 (56%)
Query: 533 AKLINSSDIGVRFKDVAGCEEAKVEIMEFVNFLKNPQQY 571
K ++++ + D+AG E + ++ V FLKNP+ Y
Sbjct: 44 GKTKTNNNVSLGLADLAGAEPRRDNVLALVEFLKNPKSY 82
>pdb|3T15|A Chain A, Structure Of Green-Type Rubisco Activase From Tobacco
pdb|3ZW6|A Chain A, Model Of Hexameric Aaa Domain Arrangement Of Green-Type
Rubisco Activase From Tobacco.
pdb|3ZW6|B Chain B, Model Of Hexameric Aaa Domain Arrangement Of Green-Type
Rubisco Activase From Tobacco.
pdb|3ZW6|C Chain C, Model Of Hexameric Aaa Domain Arrangement Of Green-Type
Rubisco Activase From Tobacco.
pdb|3ZW6|D Chain D, Model Of Hexameric Aaa Domain Arrangement Of Green-Type
Rubisco Activase From Tobacco.
pdb|3ZW6|E Chain E, Model Of Hexameric Aaa Domain Arrangement Of Green-Type
Rubisco Activase From Tobacco.
pdb|3ZW6|F Chain F, Model Of Hexameric Aaa Domain Arrangement Of Green-Type
Rubisco Activase From Tobacco
Length = 293
Score = 30.4 bits (67), Expect = 5.2, Method: Compositional matrix adjust.
Identities = 27/98 (27%), Positives = 41/98 (41%), Gaps = 10/98 (10%)
Query: 563 NFLKNPQQYIDLGAKIPKGAMLTGPPGTGKTLLAKATAGEANVPFITVSGSEFLEMFVG- 621
NFLK P K+P + G G GK+ + + + I +S E G
Sbjct: 26 NFLKLPN------IKVPLILGIWGGKGQGKSFQCELVFRKMGINPIMMSAGELESGNAGE 79
Query: 622 ---VGPSRVRDMFSMARKHAPCILFIDEIDAVGRKRGG 656
+ R R+ + RK C LFI+++DA + GG
Sbjct: 80 PAKLIRQRYREAAEIIRKGNMCCLFINDLDAGAGRMGG 117
>pdb|1IN5|A Chain A, Thermogota Maritima Ruvb A156s Mutant
Length = 334
Score = 30.4 bits (67), Expect = 5.8, Method: Compositional matrix adjust.
Identities = 24/69 (34%), Positives = 30/69 (43%), Gaps = 14/69 (20%)
Query: 582 AMLTGPPGTGKTLLAKATAGEANVPFITVSGSEFLEMFVGVGPSRVR--DMFS-MARKHA 638
+L GPPG GKT LA A E + V GP V+ DM + +
Sbjct: 54 VLLAGPPGLGKTTLAHIIASELQT-----------NIHVTSGPVLVKQGDMAAILTSLER 102
Query: 639 PCILFIDEI 647
+LFIDEI
Sbjct: 103 GDVLFIDEI 111
>pdb|1IN7|A Chain A, Thermotoga Maritima Ruvb R170a
Length = 334
Score = 30.4 bits (67), Expect = 6.0, Method: Compositional matrix adjust.
Identities = 24/68 (35%), Positives = 30/68 (44%), Gaps = 14/68 (20%)
Query: 583 MLTGPPGTGKTLLAKATAGEANVPFITVSGSEFLEMFVGVGPSRVR--DMFS-MARKHAP 639
+L GPPG GKT LA A E + V GP V+ DM + +
Sbjct: 55 LLAGPPGLGKTTLAHIIASELQT-----------NIHVTSGPVLVKQGDMAAILTSLERG 103
Query: 640 CILFIDEI 647
+LFIDEI
Sbjct: 104 DVLFIDEI 111
>pdb|1IN8|A Chain A, Thermotoga Maritima Ruvb T158v
Length = 334
Score = 30.4 bits (67), Expect = 6.0, Method: Compositional matrix adjust.
Identities = 24/68 (35%), Positives = 30/68 (44%), Gaps = 14/68 (20%)
Query: 583 MLTGPPGTGKTLLAKATAGEANVPFITVSGSEFLEMFVGVGPSRVR--DMFS-MARKHAP 639
+L GPPG GKT LA A E + V GP V+ DM + +
Sbjct: 55 LLAGPPGLGKTTLAHIIASELQT-----------NIHVTSGPVLVKQGDMAAILTSLERG 103
Query: 640 CILFIDEI 647
+LFIDEI
Sbjct: 104 DVLFIDEI 111
>pdb|1J7K|A Chain A, Thermotoga Maritima Ruvb P216g Mutant
Length = 334
Score = 30.4 bits (67), Expect = 6.0, Method: Compositional matrix adjust.
Identities = 24/68 (35%), Positives = 30/68 (44%), Gaps = 14/68 (20%)
Query: 583 MLTGPPGTGKTLLAKATAGEANVPFITVSGSEFLEMFVGVGPSRVR--DMFS-MARKHAP 639
+L GPPG GKT LA A E + V GP V+ DM + +
Sbjct: 55 LLAGPPGLGKTTLAHIIASELQT-----------NIHVTSGPVLVKQGDMAAILTSLERG 103
Query: 640 CILFIDEI 647
+LFIDEI
Sbjct: 104 DVLFIDEI 111
>pdb|1IN4|A Chain A, Thermotoga Maritima Ruvb Holliday Junction Branch
Migration Motor
Length = 334
Score = 30.4 bits (67), Expect = 6.0, Method: Compositional matrix adjust.
Identities = 24/68 (35%), Positives = 30/68 (44%), Gaps = 14/68 (20%)
Query: 583 MLTGPPGTGKTLLAKATAGEANVPFITVSGSEFLEMFVGVGPSRVR--DMFS-MARKHAP 639
+L GPPG GKT LA A E + V GP V+ DM + +
Sbjct: 55 LLAGPPGLGKTTLAHIIASELQT-----------NIHVTSGPVLVKQGDMAAILTSLERG 103
Query: 640 CILFIDEI 647
+LFIDEI
Sbjct: 104 DVLFIDEI 111
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
0.317 0.135 0.391
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 26,986,058
Number of Sequences: 62578
Number of extensions: 1060487
Number of successful extensions: 2709
Number of sequences better than 100.0: 80
Number of HSP's better than 100.0 without gapping: 63
Number of HSP's successfully gapped in prelim test: 17
Number of HSP's that attempted gapping in prelim test: 2545
Number of HSP's gapped (non-prelim): 108
length of query: 1036
length of database: 14,973,337
effective HSP length: 109
effective length of query: 927
effective length of database: 8,152,335
effective search space: 7557214545
effective search space used: 7557214545
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 56 (26.2 bits)