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= 002012
(982 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>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 = 902 bits (2330), Expect = 0.0, Method: Compositional matrix adjust.
Identities = 468/844 (55%), Positives = 616/844 (72%), Gaps = 19/844 (2%)
Query: 97 FTEKAWEGIVGAVDAARVNNQQVVETEHLMKALLEQKDGLARRILTKAGQDNTKVLQATE 156
+T+ A E + A A+ Q ++ HL LL+ + LA R+L KAG D + + E
Sbjct: 6 WTQAAREALAQAQVLAQRMKHQAIDLPHLWAVLLKDERSLAWRLLEKAGADPKALKELQE 65
Query: 157 DFISKQPKVTGATSGPIVGSNFGLLLSNAQRIKKEMEDDFVSVEHLLLAFLSDDRFGRLL 216
+++ PKV GA G + S L+ A+ + +E++D +V+V+ L+LA L++ G
Sbjct: 66 RELARLPKVEGAEVGQYLTSRLSGALNRAEGLMEELKDRYVAVDTLVLA-LAEATPGLPG 124
Query: 217 FNDIRLNEKDLKDAVKAVRGHQRVTDQNPEGKYQALEKYGNDLTELARSGKLDPVIGRDD 276
+ LK A+K +RG + V ++ E Y ALE+YG DLT LA GKLDPVIGRD+
Sbjct: 125 L-------EALKGALKELRGGRTVQTEHAESTYNALEQYGIDLTRLAAEGKLDPVIGRDE 177
Query: 277 EIRRCIQILSRRTKNNPVIIGEPGVGKTAIAEGLAQRIVRGDVPETLQNRKLISLDMASL 336
EIRR IQIL RRTKNNPV+IGEPGVGKTAI EGLAQRIV+GDVPE L+ ++++SL M SL
Sbjct: 178 EIRRVIQILLRRTKNNPVLIGEPGVGKTAIVEGLAQRIVKGDVPEGLKGKRIVSLQMGSL 237
Query: 337 VAGTCYRGDFEKRLKAVLKEVTKSNGQIILFIDELHTIIGAGNQSGAMDASNMLKPMLGR 396
+AG YRG+FE+RLKAV++EV +S G++ILFIDELHT++GAG GA+DA NMLKP L R
Sbjct: 238 LAGAKYRGEFEERLKAVIQEVVQSQGEVILFIDELHTVVGAGKAEGAVDAGNMLKPALAR 297
Query: 397 GELRCIGATTLNEYRNYIEKDPALERRFQQVFCDQPSVENTISILRGLRERYELHHGVKI 456
GELR IGATTL+EYR IEKDPALERRFQ V+ D+P+VE TISILRGL+E+YE+HHGV+I
Sbjct: 298 GELRLIGATTLDEYRE-IEKDPALERRFQPVYVDEPTVEETISILRGLKEKYEVHHGVRI 356
Query: 457 XXXXXXXXXXXXXRYITERFLPDKAIDLVDEAAAKLKMEITSKPIELDEIDRAVLKLEME 516
RYITER LPDKAIDL+DEAAA+L+M + S P E+D ++R L+LE+E
Sbjct: 357 SDSAIIAAATLSHRYITERRLPDKAIDLIDEAAARLRMALESAPEEIDALERKKLQLEIE 416
Query: 517 KLSLKNDTDKASKERLSKLEHDLNSLKQKQKELNDQWSREKDLMSRIRSIKEEIDRVNLE 576
+ +LK + D S+ERL +E ++ L ++ +L +W RE++++ ++R + +D V E
Sbjct: 417 REALKKEKDPDSQERLKAIEAEIAKLTEEIAKLRAEWEREREILRKLREAQHRLDEVRRE 476
Query: 577 MEAAERDYDLNRAAELKYGTMISLQRQLEEAEKNLSEFQKSGHSLLREEVTDLDIAEIVS 636
+E AER YDLNRAAEL+YG + L+ ++E + L G +R EVT+ DIAEIVS
Sbjct: 477 IELAERQYDLNRAAELRYGELPKLEAEVEALSEKLR-----GARFVRLEVTEEDIAEIVS 531
Query: 637 KWTGIPLSSLQQSEREKLVMLEEVLHKRVIGQDIAVKSVADAIRRSRAGLSDPARPIASF 696
+WTGIP+S L + EREKL+ LEE LHKRV+GQD A+++VADAIRR+RAGL DP RPI SF
Sbjct: 532 RWTGIPVSKLLEGEREKLLRLEEELHKRVVGQDEAIRAVADAIRRARAGLKDPNRPIGSF 591
Query: 697 MFMGPTGVGKTELGKALADFLFNTENALVRIDMSEYMEKHSVSRLVGAPPGYVGYEEGGQ 756
+F+GPTGVGKTEL K LA LF+TE A++RIDM+EYMEKH+VSRL+GAPPGYVGYEEGGQ
Sbjct: 592 LFLGPTGVGKTELAKTLAATLFDTEEAMIRIDMTEYMEKHAVSRLIGAPPGYVGYEEGGQ 651
Query: 757 LTEVVRRRPYSVVLFDEIEKAHQDVFNILLQLLDDGRITDSQGRTVSFTNCVVIMTSNIG 816
LTE VRRRPYSV+LFDEIEKAH DVFNILLQ+LDDGR+TDS GRTV F N V+I+TSN+G
Sbjct: 652 LTEAVRRRPYSVILFDEIEKAHPDVFNILLQILDDGRLTDSHGRTVDFRNTVIILTSNLG 711
Query: 817 SHYILETLQSVQDSKEAVYEVMKKQVVELARQTFRPEFLNRIDEYIVFQPLDSKEISKIV 876
S ILE LQ K YE ++ +V ++ +Q FRPEFLNR+DE +VF+PL ++I +IV
Sbjct: 712 SPLILEGLQ-----KGWPYERIRDEVFKVLQQHFRPEFLNRLDEIVVFRPLTKEQIRQIV 766
Query: 877 EIQMNRVKDRLKQKKIDLHYTKEAVTLLGILGFDPNFGARPVKRVIQQLVENEIAVAILK 936
EIQ++ ++ RL +K+I L T+ A L G+DP FGARP++RVIQ+ +E +A IL
Sbjct: 767 EIQLSYLRARLAEKRISLELTEAAKDFLAERGYDPVFGARPLRRVIQRELETPLAQKILA 826
Query: 937 GDIK 940
G++K
Sbjct: 827 GEVK 830
>pdb|3PXI|A Chain A, Structure Of Meca108:clpc
pdb|3PXI|B Chain B, Structure Of Meca108:clpc
pdb|3PXI|C Chain C, Structure Of Meca108:clpc
Length = 758
Score = 561 bits (1447), Expect = e-160, Method: Compositional matrix adjust.
Identities = 346/849 (40%), Positives = 490/849 (57%), Gaps = 126/849 (14%)
Query: 97 FTEKAWEGIVGAVDAARVNNQQVVETEHLMKALLEQKDGLARRILTKAGQDNTKVLQATE 156
FTE+A + + A + A + TEH++ L+ + +G+A + L G + K+ + E
Sbjct: 6 FTERAQKVLALAQEEALRLGHNNIGTEHILLGLVREGEGIAAKALQALGLGSEKIQKEVE 65
Query: 157 DFISKQPKVTGATS-GPIVGSNFGLLLSNAQRIKKEMEDDFVSVEHLLLAFLSD-DRFGR 214
I + +++ P L + A+++ +V EH+LL + + +
Sbjct: 66 SLIGRGQEMSQTIHYTPRAKKVIELSMDEARKLGH----SYVGTEHILLGLIREGEGVAA 121
Query: 215 LLFNDIRLNEKDLKDAVKAVRGHQRV----TDQNPEGKYQALEKYGNDLTELARSGKLDP 270
+ N++ ++ + V + G N L+ DLT +A+ LDP
Sbjct: 122 RVLNNLGVSLNKARQQVLQLLGSNETGSSAAGTNSNANTPTLDSLARDLTAIAKEDSLDP 181
Query: 271 VIGRDDEIRRCIQILSRRTKNNPVIIGEPGVGKTAIAEGLAQRIVRGDVPETLQNRKLIS 330
VIGR EI+R I++LSRRTKNNPV+IGEPGVGKTAIAEGLAQ+I+ +VPE L+++++++
Sbjct: 182 VIGRSKEIQRVIEVLSRRTKNNPVLIGEPGVGKTAIAEGLAQQIINNEVPEILRDKRVMT 241
Query: 331 LDMASLVAGTCYRGDFEKRLKAVLKEVTKSNGQIILFIDELHTIIGAGNQSGAMDASNML 390
LDM GT YRG+FE RLK V+ E+ ++ G IILFID A+DASN+L
Sbjct: 242 LDM-----GTKYRGEFEDRLKKVMDEIRQA-GNIILFID------------AAIDASNIL 283
Query: 391 KPMLGRGELRCIGATTLNEYRNYIEKDPALERRFQQVFCDQPSVENTISILRGLRERYEL 450
KP L RGEL+CIGATTL+EYR YIEKD ALERRFQ + DQPSV+ +I IL+GLR+RYE
Sbjct: 284 KPSLARGELQCIGATTLDEYRKYIEKDAALERRFQPIQVDQPSVDESIQILQGLRDRYEA 343
Query: 451 HHGVKIXXXXXXXXXXXXXRYITERFLPDKAIDLVDEAAAKLKMEITSKPIELDEIDRAV 510
HH V I RYI++RFLPDKA +D ID A
Sbjct: 344 HHRVSITDDAIEAAVKLSDRYISDRFLPDKA---------------------IDLIDEA- 381
Query: 511 LKLEMEKLSLKNDTDKASKERLSKLEHDLNSLKQKQKELNDQWSREKDLMSRIRSIKEEI 570
SK RL N ++ +++++
Sbjct: 382 ----------------GSKVRLRSFTTPPN----------------------LKELEQKL 403
Query: 571 DRVNLEMEAAERDYDLNRAAELKYGTMISLQRQLEEAEKNLSEFQKSGHSLLREEVTDLD 630
D V E +AA + + +AA L+ T L+ Q+E+ +K+ E Q +S EVT D
Sbjct: 404 DEVRKEKDAAVQSQEFEKAASLR-DTEQRLREQVEDTKKSWKEKQGQENS----EVTVDD 458
Query: 631 IAEIVSKWTGIPLSSLQQSEREKLVMLEEVLHKRVIGQDIAVKSVADAIRRSRAGLSDPA 690
IA +VS WTG+P+S + Q+E +KL+ +E +LH RVIGQD AV +VA A+RR+RAGL DP
Sbjct: 459 IAMVVSSWTGVPVSKIAQTETDKLLNMENILHSRVIGQDEAVVAVAKAVRRARAGLKDPK 518
Query: 691 RPIASFMFMGPTGVGKTELGKALADFLFNTENALVRIDMSEYMEKHSVSRLVGAPPGYVG 750
RPI SF+F+GPTGVGKTEL +ALA+ +F E +++RIDMSEYMEKHS S
Sbjct: 519 RPIGSFIFLGPTGVGKTELARALAESIFGDEESMIRIDMSEYMEKHSTS----------- 567
Query: 751 YEEGGQLTEVVRRRPYSVVLFDEIEKAHQDVFNILLQLLDDGRITDSQGRTVSFTNCVVI 810
GGQLTE VRR+PYSVVL D IEKAH DVFNILLQ+L+DGR+TDS+GRTV F N ++I
Sbjct: 568 ---GGQLTEKVRRKPYSVVLLDAIEKAHPDVFNILLQVLEDGRLTDSKGRTVDFRNTILI 624
Query: 811 MTSNIGSHYILETLQSVQDSKEAVYEVMKKQVVELARQTFRPEFLNRIDEYIVFQPLDSK 870
MTSN+G+ K +V+ ++ FRPEF+NRIDE IVF L+ K
Sbjct: 625 MTSNVGASE-------------------KDKVMGELKRAFRPEFINRIDEIIVFHSLEKK 665
Query: 871 EISKIVEIQMNRVKDRLKQKKIDLHYTKEAVTLLGILGFDPNFGARPVKRVIQQLVENEI 930
+++IV + +++ RLK++ + + T A + G D +GARP++R IQ+ VE+ +
Sbjct: 666 HLTEIVSLMSDQLTKRLKEQDLSIELTDAAKAKVAEEGVDLEYGARPLRRAIQKHVEDRL 725
Query: 931 AVAILKGDI 939
+ +L+G+I
Sbjct: 726 SEELLRGNI 734
>pdb|4HSE|A Chain A, Crystal Structure Of Clpb Nbd1 In Complex With Guanidinium
Chloride And Adp
Length = 397
Score = 472 bits (1215), Expect = e-133, Method: Compositional matrix adjust.
Identities = 232/397 (58%), Positives = 300/397 (75%), Gaps = 6/397 (1%)
Query: 243 QNPEGKYQALEKYGNDLTELARSGKLDPVIGRDDEIRRCIQILSRRTKNNPVIIGEPGVG 302
++ E Y ALE+YG DLT LA GKLDPVIGRD+EIRR IQIL RRTKNNPV+IGEPGVG
Sbjct: 7 EHAESTYNALEQYGIDLTRLAAEGKLDPVIGRDEEIRRVIQILLRRTKNNPVLIGEPGVG 66
Query: 303 KTAIAEGLAQRIVRGDVPETLQNRKLISLDMASLVAGTCYRGDFEKRLKAVLKEVTKSNG 362
KTAI EGLAQRIV+GDVPE L+ ++++SL M SL+AG YRG+FE+RLKAV++EV +S G
Sbjct: 67 KTAIVEGLAQRIVKGDVPEGLKGKRIVSLQMGSLLAGAKYRGEFEERLKAVIQEVVQSQG 126
Query: 363 QIILFIDELHTIIGAGNQSGAMDASNMLKPMLGRGELRCIGATTLNEYRNYIEKDPALER 422
++ILFIDELHT++GAG GA+DA NMLKP L RGELR IGATTL+EYR IEKDPALER
Sbjct: 127 EVILFIDELHTVVGAGKAEGAVDAGNMLKPALARGELRLIGATTLDEYRE-IEKDPALER 185
Query: 423 RFQQVFCDQPSVENTISILRGLRERYELHHGVKIXXXXXXXXXXXXXRYITERFLPDKAI 482
RFQ V+ D+P+VE TISILRGL+E+YE+HHGV+I RYITER LPDKAI
Sbjct: 186 RFQPVYVDEPTVEETISILRGLKEKYEVHHGVRISDSAIIAAATLSHRYITERRLPDKAI 245
Query: 483 DLVDEAAAKLKMEITSKPIELDEIDRAVLKLEMEKLSLKNDTDKASKERLSKLEHDLNSL 542
DL+DEAAA+L+M + S P E+D ++R L+LE+E+ +LK + D S+ERL +E ++ L
Sbjct: 246 DLIDEAAARLRMALESAPEEIDALERKKLQLEIEREALKKEKDPDSQERLKAIEAEIAKL 305
Query: 543 KQKQKELNDQWSREKDLMSRIRSIKEEIDRVNLEMEAAERDYDLNRAAELKYGTMISLQR 602
++ +L +W RE++++ ++R + +D V E+E AER YDLNRAAEL+YG + L+
Sbjct: 306 TEEIAKLRAEWEREREILRKLREAQHRLDEVRREIELAERQYDLNRAAELRYGELPKLEA 365
Query: 603 QLEEAEKNLSEFQKSGHSLLREEVTDLDIAEIVSKWT 639
++E + L G +R EVT+ DIAEIVS+WT
Sbjct: 366 EVEALSEKL-----RGARFVRLEVTEEDIAEIVSRWT 397
>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 = 370 bits (950), Expect = e-102, Method: Compositional matrix adjust.
Identities = 177/279 (63%), Positives = 223/279 (79%), Gaps = 5/279 (1%)
Query: 662 HKRVIGQDIAVKSVADAIRRSRAGLSDPARPIASFMFMGPTGVGKTELGKALADFLFNTE 721
HKRV+GQD A+++VADAIRR+RAGL DP RPI SF+F+GPTGVGKTEL K LA LF+TE
Sbjct: 13 HKRVVGQDEAIRAVADAIRRARAGLKDPNRPIGSFLFLGPTGVGKTELAKTLAATLFDTE 72
Query: 722 NALVRIDMSEYMEKHSVSRLVGAPPGYVGYEEGGQLTEVVRRRPYSVVLFDEIEKAHQDV 781
A++RIDM+EYMEKH+VSRL+GAPPGYVGYEEGGQLTE VRRRPYSV+LFD IEKAH DV
Sbjct: 73 EAMIRIDMTEYMEKHAVSRLIGAPPGYVGYEEGGQLTEAVRRRPYSVILFDAIEKAHPDV 132
Query: 782 FNILLQLLDDGRITDSQGRTVSFTNCVVIMTSNIGSHYILETLQSVQDSKEAVYEVMKKQ 841
FNILLQ+LDDGR+TDS GRTV F N V+I+TSN+GS ILE LQ K YE ++ +
Sbjct: 133 FNILLQILDDGRLTDSHGRTVDFRNTVIILTSNLGSPLILEGLQ-----KGWPYERIRDE 187
Query: 842 VVELARQTFRPEFLNRIDEYIVFQPLDSKEISKIVEIQMNRVKDRLKQKKIDLHYTKEAV 901
V ++ +Q FRPEFLNR+DE +VF+PL ++I +IVEIQ++ ++ RL +K+I L T+ A
Sbjct: 188 VFKVLQQHFRPEFLNRLDEIVVFRPLTKEQIRQIVEIQLSYLRARLAEKRISLELTEAAK 247
Query: 902 TLLGILGFDPNFGARPVKRVIQQLVENEIAVAILKGDIK 940
L G+DP FGARP++RVIQ+ +E +A IL G++K
Sbjct: 248 DFLAERGYDPVFGARPLRRVIQRELETPLAQKILAGEVK 286
>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 = 360 bits (924), Expect = 2e-99, Method: Compositional matrix adjust.
Identities = 175/279 (62%), Positives = 217/279 (77%), Gaps = 5/279 (1%)
Query: 662 HKRVIGQDIAVKSVADAIRRSRAGLSDPARPIASFMFMGPTGVGKTELGKALADFLFNTE 721
HKRV+GQD A+++VADAIRR+RAGL DP RPI SF+F+GPTGVGKTEL K LA LF+TE
Sbjct: 16 HKRVVGQDEAIRAVADAIRRARAGLKDPNRPIGSFLFLGPTGVGKTELAKTLAATLFDTE 75
Query: 722 NALVRIDMSEYMEKHSVSRLVGAPPGYVGYEEGGQLTEVVRRRPYSVVLFDEIEKAHQDV 781
A +RID +EY EKH+VSRL+GAPPGYVGYEEGGQLTE VRRRPYSV+LFD IEKAH DV
Sbjct: 76 EAXIRIDXTEYXEKHAVSRLIGAPPGYVGYEEGGQLTEAVRRRPYSVILFDAIEKAHPDV 135
Query: 782 FNILLQLLDDGRITDSQGRTVSFTNCVVIMTSNIGSHYILETLQSVQDSKEAVYEVMKKQ 841
FNILLQ LDDGR+TDS GRTV F N V+I TSN+GS ILE LQ K YE ++ +
Sbjct: 136 FNILLQXLDDGRLTDSHGRTVDFRNTVIIXTSNLGSPLILEGLQ-----KGWPYERIRDE 190
Query: 842 VVELARQTFRPEFLNRIDEYIVFQPLDSKEISKIVEIQMNRVKDRLKQKKIDLHYTKEAV 901
V ++ +Q FRPEFLNR+DE +VF+PL ++I +IVEIQ + ++ RL +K+I L T+ A
Sbjct: 191 VFKVLQQHFRPEFLNRLDEIVVFRPLTKEQIRQIVEIQXSYLRARLAEKRISLELTEAAK 250
Query: 902 TLLGILGFDPNFGARPVKRVIQQLVENEIAVAILKGDIK 940
L G+DP FGARP++RVIQ+ +E +A IL G++K
Sbjct: 251 DFLAERGYDPVFGARPLRRVIQRELETPLAQKILAGEVK 289
>pdb|3PXG|A Chain A, Structure Of Meca121 And Clpc1-485 Complex
pdb|3PXG|B Chain B, Structure Of Meca121 And Clpc1-485 Complex
pdb|3PXG|C Chain C, Structure Of Meca121 And Clpc1-485 Complex
pdb|3PXG|D Chain D, Structure Of Meca121 And Clpc1-485 Complex
pdb|3PXG|E Chain E, Structure Of Meca121 And Clpc1-485 Complex
pdb|3PXG|F Chain F, Structure Of Meca121 And Clpc1-485 Complex
Length = 468
Score = 308 bits (788), Expect = 1e-83, Method: Compositional matrix adjust.
Identities = 187/473 (39%), Positives = 271/473 (57%), Gaps = 42/473 (8%)
Query: 97 FTEKAWEGIVGAVDAARVNNQQVVETEHLMKALLEQKDGLARRILTKAGQDNTKVLQATE 156
FTE+A + + A + A + TEH++ L+ + +G+A + L G + K+ + E
Sbjct: 6 FTERAQKVLALAQEEALRLGHNNIGTEHILLGLVREGEGIAAKALQALGLGSEKIQKEVE 65
Query: 157 DFISKQPKVTGATS-GPIVGSNFGLLLSNAQRIKKEMEDDFVSVEHLLLAFLSD-DRFGR 214
I + +++ P L + A+++ +V EH+LL + + +
Sbjct: 66 SLIGRGQEMSQTIHYTPRAKKVIELSMDEARKLGH----SYVGTEHILLGLIREGEGVAA 121
Query: 215 LLFNDIRLNEKDLKDAVKAVRGHQRV----TDQNPEGKYQALEKYGNDLTELARSGKLDP 270
+ N++ ++ + V + G N L+ DLT +A+ LDP
Sbjct: 122 RVLNNLGVSLNKARQQVLQLLGSNETGSSAAGTNSNANTPTLDSLARDLTAIAKEDSLDP 181
Query: 271 VIGRDDEIRRCIQILSRRTKNNPVIIGEPGVGKTAIAEGLAQRIVRGDVPETLQNRKLIS 330
VIGR EI+R I++LSRRTKNNPV+IGEPGVGKTAIAEGLAQ+I+ +VPE L+++++++
Sbjct: 182 VIGRSKEIQRVIEVLSRRTKNNPVLIGEPGVGKTAIAEGLAQQIINNEVPEILRDKRVMT 241
Query: 331 LDMASLVAGTCYRGDFEKRLKAVLKEVTKSNGQIILFIDELHTIIGAGNQSGAMDASNML 390
LDM GT YRG+FE RLK V+ E+ ++ G IILFID A+DASN+L
Sbjct: 242 LDM-----GTKYRGEFEDRLKKVMDEIRQA-GNIILFID------------AAIDASNIL 283
Query: 391 KPMLGRGELRCIGATTLNEYRNYIEKDPALERRFQQVFCDQPSVENTISILRGLRERYEL 450
KP L RGEL+CIGATTL+EYR YIEKD ALERRFQ + DQPSV+ +I IL+GLR+RYE
Sbjct: 284 KPSLARGELQCIGATTLDEYRKYIEKDAALERRFQPIQVDQPSVDESIQILQGLRDRYEA 343
Query: 451 HHGVKIXXXXXXXXXXXXXRYITERFLPDKAIDLVDEAAAKLKMEITSKPIELDEI---- 506
HH V I RYI++RFLPDKAIDL+DEA +K+++ + P L E+
Sbjct: 344 HHRVSITDDAIEAAVKLSDRYISDRFLPDKAIDLIDEAGSKVRLRSFTTPPNLKELEQKL 403
Query: 507 -------DRAVLKLEMEKLSLKNDTDKASKERLSKLEHDLNSLKQKQKELNDQ 552
D AV E EK + DT++ +E ++E S K+KQ + N +
Sbjct: 404 DEVRKEKDAAVQSQEFEKAASLRDTEQRLRE---QVEDTKKSWKEKQGQENSE 453
>pdb|1JBK|A Chain A, Crystal Structure Of The First Nucelotide Binding Domain
Of Clpb
Length = 195
Score = 293 bits (751), Expect = 2e-79, Method: Compositional matrix adjust.
Identities = 137/193 (70%), Positives = 162/193 (83%)
Query: 250 QALEKYGNDLTELARSGKLDPVIGRDDEIRRCIQILSRRTKNNPVIIGEPGVGKTAIAEG 309
QAL+KY DLTE A GKLDPVIGRD+EIRR IQ+L RRTKNNPV+IGEPGVGKTAI EG
Sbjct: 3 QALKKYTIDLTERAEQGKLDPVIGRDEEIRRTIQVLQRRTKNNPVLIGEPGVGKTAIVEG 62
Query: 310 LAQRIVRGDVPETLQNRKLISLDMASLVAGTCYRGDFEKRLKAVLKEVTKSNGQIILFID 369
LAQRI+ G+VPE L+ R++++LDM +LVAG YRG+FE+RLK VL ++ K G +ILFID
Sbjct: 63 LAQRIINGEVPEGLKGRRVLALDMGALVAGAKYRGEFEERLKGVLNDLAKQEGNVILFID 122
Query: 370 ELHTIIGAGNQSGAMDASNMLKPMLGRGELRCIGATTLNEYRNYIEKDPALERRFQQVFC 429
ELHT++GAG GAMDA NMLKP L RGEL C+GATTL+EYR YIEKD ALERRFQ+VF
Sbjct: 123 ELHTMVGAGKADGAMDAGNMLKPALARGELHCVGATTLDEYRQYIEKDAALERRFQKVFV 182
Query: 430 DQPSVENTISILR 442
+PSVE+TI+ILR
Sbjct: 183 AEPSVEDTIAILR 195
>pdb|2P65|A Chain A, Crystal Structure Of The First Nucleotide Binding Domain
Of Chaperone Clpb1, Putative, (Pv089580) From Plasmodium
Vivax
Length = 187
Score = 290 bits (742), Expect = 3e-78, Method: Compositional matrix adjust.
Identities = 132/186 (70%), Positives = 164/186 (88%), Gaps = 1/186 (0%)
Query: 249 YQALEKYGNDLTELARSGKLDPVIGRDDEIRRCIQILSRRTKNNPVIIGEPGVGKTAIAE 308
YQALEKY DLT LAR+GKLDPVIGRD EIRR IQILSRRTKNNP+++G+PGVGKTAI E
Sbjct: 2 YQALEKYSRDLTALARAGKLDPVIGRDTEIRRAIQILSRRTKNNPILLGDPGVGKTAIVE 61
Query: 309 GLAQRIVRGDVPETLQNRKLISLDMASLVAGTCYRGDFEKRLKAVLKEVTKSNGQIILFI 368
GLA +IV+GDVP++L+ RKL+SLD++SL+AG YRGDFE+RLK++LKEV + GQ+++FI
Sbjct: 62 GLAIKIVQGDVPDSLKGRKLVSLDLSSLIAGAKYRGDFEERLKSILKEVQDAEGQVVMFI 121
Query: 369 DELHTIIGAGNQS-GAMDASNMLKPMLGRGELRCIGATTLNEYRNYIEKDPALERRFQQV 427
DE+HT++GAG + GA+DA N+LKPML RGELRCIGATT++EYR +IEKD ALERRFQQ+
Sbjct: 122 DEIHTVVGAGAVAEGALDAGNILKPMLARGELRCIGATTVSEYRQFIEKDKALERRFQQI 181
Query: 428 FCDQPS 433
+QPS
Sbjct: 182 LVEQPS 187
>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 = 275 bits (704), Expect = 7e-74, Method: Compositional matrix adjust.
Identities = 165/407 (40%), Positives = 235/407 (57%), Gaps = 26/407 (6%)
Query: 112 ARVNNQQVVETEHLMKALLEQKDGLARRILTKAGQDNTKVLQATEDFISKQPKVTGAT-- 169
AR + + + EHL+ ALL AR L D + Q E FI + V A+
Sbjct: 17 AREHRHEFMTVEHLLLALLSNPS--AREALEACSVDLVALRQELEAFIEQTTPVLPASEE 74
Query: 170 ---SGPIVGSNFGLLLSNAQRIKKEMEDDFVSVEHLLLAFLSDDRFGRLLFNDIRLNEKD 226
+ P + +F +L A + + V+ ++L+A S+ +R +E
Sbjct: 75 ERDTQPTL--SFQRVLQRAVFHVQSSGRNEVTGANVLVAIFSEQESQAAYL--LRKHEVS 130
Query: 227 LKDAVKAVRGHQRVTD--------QNPEGKYQA-----LEKYGNDLTELARSGKLDPVIG 273
D V + R + P + QA LE + +L +LAR G +DP+IG
Sbjct: 131 RLDVVNFISHGTRKDEPTQSSDPGSQPNSEEQAGGEERLENFTTNLNQLARVGGIDPLIG 190
Query: 274 RDDEIRRCIQILSRRTKNNPVIIGEPGVGKTAIAEGLAQRIVRGDVPETLQNRKLISLDM 333
R+ E+ R IQ+L RR KNNP+++GE GVGKTAIAEGLA RIV+GDVPE + + + SLD+
Sbjct: 191 REKELERAIQVLCRRRKNNPLLVGESGVGKTAIAEGLAWRIVQGDVPEVMADCTIYSLDI 250
Query: 334 ASLVAGTCYRGDFEKRLKAVLKEVTKSNGQIILFIDELHTIIGAGNQSGA-MDASNMLKP 392
SL+AGT YRGDFEKR KA+LK++ + ILFIDE+HTIIGAG SG +DA+N++KP
Sbjct: 251 GSLLAGTKYRGDFEKRFKALLKQLEQDTNS-ILFIDEIHTIIGAGAASGGQVDAANLIKP 309
Query: 393 MLGRGELRCIGATTLNEYRNYIEKDPALERRFQQVFCDQPSVENTISILRGLRERYELHH 452
+L G++R IG+TT E+ N EKD AL RRFQ++ +PS+E T+ I+ GL+ +YE HH
Sbjct: 310 LLSSGKIRVIGSTTYQEFSNIFEKDRALARRFQKIDITEPSIEETVQIINGLKPKYEAHH 369
Query: 453 GVKIXXXXXXXXXXXXXRYITERFLPDKAIDLVDEAAAKLKMEITSK 499
V+ +YI +R LPDKAID++DEA A+ ++ SK
Sbjct: 370 DVRYTAKAVRAAVELAVKYINDRHLPDKAIDVIDEAGARARLMPVSK 416
Score = 245 bits (626), Expect = 8e-65, Method: Compositional matrix adjust.
Identities = 131/310 (42%), Positives = 198/310 (63%), Gaps = 9/310 (2%)
Query: 630 DIAEIVSKWTGIPLSSLQQSEREKLVMLEEVLHKRVIGQDIAVKSVADAIRRSRAGLSDP 689
DI +V++ IP S+ QS+R+ L L + L V GQD A++++ +AI+ +RAGL
Sbjct: 425 DIESVVARIARIPEKSVSQSDRDTLKNLGDRLKMLVFGQDKAIEALTEAIKMARAGLGHE 484
Query: 690 ARPIASFMFMGPTGVGKTELGKALADFLFNTENALVRIDMSEYMEKHSVSRLVGAPPGYV 749
+P+ SF+F GPTGVGKTE+ L+ L E L+R DMSEYME+H+VSRL+GAPPGYV
Sbjct: 485 HKPVGSFLFAGPTGVGKTEVTVQLSKAL-GIE--LLRFDMSEYMERHTVSRLIGAPPGYV 541
Query: 750 GYEEGGQLTEVVRRRPYSVVLFDEIEKAHQDVFNILLQLLDDGRITDSQGRTVSFTNCVV 809
G+++GG LT+ V + P++V+L DEIEKAH DVFNILLQ++D+G +TD+ GR F N V+
Sbjct: 542 GFDQGGLLTDAVIKHPHAVLLLDEIEKAHPDVFNILLQVMDNGTLTDNNGRKADFRNVVL 601
Query: 810 IMTSNIGSHYILETLQSVQDSKEAVYEVMKKQVVELARQTFRPEFLNRIDEYIVFQPLDS 869
+MT+N G ++ + S +++ +E ++ F PEF NR+D I F L +
Sbjct: 602 VMTTNAGVR------ETERKSIGLIHQDNSTDAMEEIKKIFTPEFRNRLDNIIWFDHLST 655
Query: 870 KEISKIVEIQMNRVKDRLKQKKIDLHYTKEAVTLLGILGFDPNFGARPVKRVIQQLVENE 929
I ++V+ + ++ +L QK + L ++EA L G+D GARP+ RVIQ ++
Sbjct: 656 DVIHQVVDKFIVELQVQLDQKGVSLEVSQEARNWLAEKGYDRAMGARPMARVIQDNLKKP 715
Query: 930 IAVAILKGDI 939
+A +L G +
Sbjct: 716 LANELLFGSL 725
>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 = 43.1 bits (100), Expect = 7e-04, Method: Compositional matrix adjust.
Identities = 32/97 (32%), Positives = 49/97 (50%), Gaps = 19/97 (19%)
Query: 661 LHKRVIGQDIAVKSVADAIRRS--RAGLSDPARPIAS---FMFMGPTGVGKTELGKALAD 715
L K +IGQD A +SVA A+R R L++ R + + +GPTGVGKTE+ + LA
Sbjct: 13 LDKHIIGQDNAKRSVAIALRNRWRRMQLNEELRHEVTPKNILMIGPTGVGKTEIARRLAK 72
Query: 716 FLFNTENALVRIDMSEYMEKHSVSRLVGAPPGYVGYE 752
++++ +++ E GYVG E
Sbjct: 73 L---ANAPFIKVEATKFTEV-----------GYVGKE 95
>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 = 43.1 bits (100), Expect = 7e-04, Method: Compositional matrix adjust.
Identities = 32/97 (32%), Positives = 49/97 (50%), Gaps = 19/97 (19%)
Query: 661 LHKRVIGQDIAVKSVADAIRRS--RAGLSDPARPIAS---FMFMGPTGVGKTELGKALAD 715
L K +IGQD A +SVA A+R R L++ R + + +GPTGVGKTE+ + LA
Sbjct: 12 LDKHIIGQDNAKRSVAIALRNRWRRMQLNEELRHEVTPKNILMIGPTGVGKTEIARRLAK 71
Query: 716 FLFNTENALVRIDMSEYMEKHSVSRLVGAPPGYVGYE 752
++++ +++ E GYVG E
Sbjct: 72 L---ANAPFIKVEATKFTEV-----------GYVGKE 94
>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 = 43.1 bits (100), Expect = 7e-04, Method: Compositional matrix adjust.
Identities = 32/97 (32%), Positives = 49/97 (50%), Gaps = 19/97 (19%)
Query: 661 LHKRVIGQDIAVKSVADAIRRS--RAGLSDPARPIAS---FMFMGPTGVGKTELGKALAD 715
L K +IGQD A +SVA A+R R L++ R + + +GPTGVGKTE+ + LA
Sbjct: 19 LDKHIIGQDNAKRSVAIALRNRWRRMQLNEELRHEVTPKNILMIGPTGVGKTEIARRLAK 78
Query: 716 FLFNTENALVRIDMSEYMEKHSVSRLVGAPPGYVGYE 752
++++ +++ E GYVG E
Sbjct: 79 L---ANAPFIKVEATKFTEV-----------GYVGKE 101
>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 = 41.6 bits (96), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 35/121 (28%), Positives = 60/121 (49%), Gaps = 11/121 (9%)
Query: 661 LHKRVIGQDIAVKSVADAIRRS--RAGLSDPARPIAS---FMFMGPTGVGKTELGKALAD 715
L + +IGQ A ++VA A+R R L +P R + + +GPTGVGKTE+ + LA
Sbjct: 13 LDQHIIGQADAKRAVAIALRNRWRRMQLQEPLRHEVTPKNILMIGPTGVGKTEIARRLAK 72
Query: 716 FLFNTENALVRIDMSEYMEKHSVSRLVGAPPGYVGYEEGGQLTEVVRRRPYSVVLFDEIE 775
++++ +++ E V + V + + GG + V + +V DEI+
Sbjct: 73 L---ANAPFIKVEATKFTEVGYVGKEVDSIIRDLTDSAGGAIDAVEQN---GIVFIDEID 126
Query: 776 K 776
K
Sbjct: 127 K 127
Score = 37.0 bits (84), Expect = 0.061, Method: Compositional matrix adjust.
Identities = 33/103 (32%), Positives = 48/103 (46%), Gaps = 22/103 (21%)
Query: 289 TKNNPVIIGEPGVGKTAIAEGLAQRIVRGDVPETLQNRKLISLDMASLVAGTCYRGDFEK 348
T N ++IG GVGKT IA LA+ L N I ++ A+ Y G K
Sbjct: 49 TPKNILMIGPTGVGKTEIARRLAK----------LANAPFIKVE-ATKFTEVGYVG---K 94
Query: 349 RLKAVLKEVTKSNGQI--------ILFIDELHTIIGAGNQSGA 383
+ ++++++T S G I+FIDE+ I G SGA
Sbjct: 95 EVDSIIRDLTDSAGGAIDAVEQNGIVFIDEIDKICKKGEYSGA 137
>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 = 40.8 bits (94), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 30/97 (30%), Positives = 48/97 (49%), Gaps = 19/97 (19%)
Query: 661 LHKRVIGQDIAVKSVADAIRRS--RAGLSDPARPIAS---FMFMGPTGVGKTELGKALAD 715
L + +IGQ A ++VA A+R R L +P R + + +GPTGVGKTE+ + LA
Sbjct: 13 LDQHIIGQADAKRAVAIALRNRWRRMQLQEPLRHEVTPKNILMIGPTGVGKTEIARRLAK 72
Query: 716 FLFNTENALVRIDMSEYMEKHSVSRLVGAPPGYVGYE 752
++++ +++ E GYVG E
Sbjct: 73 L---ANAPFIKVEATKFTE-----------VGYVGKE 95
>pdb|1IM2|A Chain A, Hslu, Haemophilus Influenzae, Selenomethionine Variant
Length = 444
Score = 40.4 bits (93), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 30/97 (30%), Positives = 48/97 (49%), Gaps = 19/97 (19%)
Query: 661 LHKRVIGQDIAVKSVADAIRRS--RAGLSDPARPIAS---FMFMGPTGVGKTELGKALAD 715
L + +IGQ A ++VA A+R R L +P R + + +GPTGVGKTE+ + LA
Sbjct: 13 LDQHIIGQADAKRAVAIALRNRWRRXQLQEPLRHEVTPKNILXIGPTGVGKTEIARRLAK 72
Query: 716 FLFNTENALVRIDMSEYMEKHSVSRLVGAPPGYVGYE 752
++++ +++ E GYVG E
Sbjct: 73 L---ANAPFIKVEATKFTEV-----------GYVGKE 95
>pdb|4B4T|K Chain K, Near-Atomic Resolution Structural Model Of The Yeast 26s
Proteasome
Length = 428
Score = 40.0 bits (92), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 40/138 (28%), Positives = 65/138 (47%), Gaps = 33/138 (23%)
Query: 688 DPARPIASFMFMGPTGVGKTELGKALADFLFNTENALVRIDMSEYMEKHSVSRLVGAPPG 747
DP R + + GP G GKT L KA+A+ +T+ A +R++ SE++ K+ +G P
Sbjct: 204 DPPRGV---LLYGPPGTGKTMLVKAVAN---STKAAFIRVNGSEFVHKY-----LGEGPR 252
Query: 748 YVGYEEGGQLTEVVRRRPYSVVLFDEIEK-----------AHQDVFNILLQLLDDGRITD 796
V + + R S++ DE++ + ++V IL++LL T
Sbjct: 253 MV-----RDVFRLARENAPSIIFIDEVDSIATKRFDAQTGSDREVQRILIELL-----TQ 302
Query: 797 SQGRTVSFTNCVVIMTSN 814
G S TN VIM +N
Sbjct: 303 MDGFDQS-TNVKVIMATN 319
>pdb|3FH2|A Chain A, The Crystal Structure Of The Probable Atp-Dependent
Protease (Heat Shock Protein) From Corynebacterium
Glutamicum
Length = 146
Score = 38.5 bits (88), Expect = 0.020, Method: Compositional matrix adjust.
Identities = 33/116 (28%), Positives = 55/116 (47%), Gaps = 8/116 (6%)
Query: 97 FTEKAWEGIVGAVDAARVNNQQVVETEHLMKALLEQKDGLARRILTKAGQDNTKVLQATE 156
FT++A IV A + AR+ N + TEH++ L+ + +G+A + L G V Q E
Sbjct: 7 FTDRARRVIVLAQEEARMLNHNYIGTEHILLGLIHEGEGVAAKALESMGISLDAVRQEVE 66
Query: 157 DFISK--QPKVTGATSGPI-VGSNFGLLLSNAQRIKKEMEDDFVSVEHLLLAFLSD 209
+ I + QP T+G I +L + R +M ++ E LLL + +
Sbjct: 67 EIIGQGSQP-----TTGHIPFTPRAKKVLELSLREGLQMGHKYIGTEFLLLGLIRE 117
>pdb|3FES|A Chain A, Crystal Structure Of The Atp-Dependent Clp Protease Clpc
From Clostridium Difficile
pdb|3FES|B Chain B, Crystal Structure Of The Atp-Dependent Clp Protease Clpc
From Clostridium Difficile
pdb|3FES|C Chain C, Crystal Structure Of The Atp-Dependent Clp Protease Clpc
From Clostridium Difficile
pdb|3FES|D Chain D, Crystal Structure Of The Atp-Dependent Clp Protease Clpc
From Clostridium Difficile
Length = 145
Score = 37.4 bits (85), Expect = 0.038, Method: Compositional matrix adjust.
Identities = 24/113 (21%), Positives = 58/113 (51%), Gaps = 3/113 (2%)
Query: 97 FTEKAWEGIVGAVDAARVNNQQVVETEHLMKALLEQKDGLARRILTKAGQDNTKVLQATE 156
FT++A + I A ++A+ +V +EH++ LL +++G+A ++L+K G +
Sbjct: 8 FTQRAKKAIDLAFESAKSLGHNIVGSEHILLGLLREEEGIAAKVLSKVGFTEAYLEGKIV 67
Query: 157 DFISKQPKVTGATSGPIVGSNFGLLLSNAQRIKKEMEDDFVSVEHLLLAFLSD 209
D K ++ + ++ +L + +++ +++ EH+LLA + +
Sbjct: 68 DXEGKGEEI---SEDIVLSPRSKQILELSGXFANKLKTNYIGTEHILLAIIQE 117
Score = 32.0 bits (71), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 13/38 (34%), Positives = 26/38 (68%)
Query: 120 VETEHLMKALLEQKDGLARRILTKAGQDNTKVLQATED 157
+ TEH++ A++++ +G+A +IL AG ++ + Q T D
Sbjct: 105 IGTEHILLAIIQEGEGIANKILNYAGVNDRTLAQLTID 142
>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 = 37.4 bits (85), Expect = 0.045, Method: Compositional matrix adjust.
Identities = 37/158 (23%), Positives = 73/158 (46%), Gaps = 26/158 (16%)
Query: 294 VIIGEPGVGKTAIAEGLAQRIVRGDVPETLQNRKLISLDMASLVAGTCYRGDFEKRLKAV 353
++ G PG GK+ +A+ +A N S+ + LV+ + G+ EK +K +
Sbjct: 171 LLFGPPGTGKSYLAKAVATEA---------NNSTFFSISSSDLVSK--WLGESEKLVKNL 219
Query: 354 LKEVTKSNGQIILFIDELHTIIGAGNQSGAMDA----SNMLKPMLGRG----ELRCIGAT 405
++ + N I+FIDE+ ++ G+ +++ + A + L M G G + +GAT
Sbjct: 220 F-QLARENKPSIIFIDEIDSLCGSRSENESEAARRIKTEFLVQMQGVGVDNDGILVLGAT 278
Query: 406 TLNEYRNYIEKDPALERRFQQ-VFCDQPSVENTISILR 442
+ D A+ RRF++ ++ P ++ R
Sbjct: 279 NIPWVL-----DSAIRRRFEKRIYIPLPEAHARAAMFR 311
>pdb|2RKO|A Chain A, Crystal Structure Of The Vps4p-Dimer
Length = 331
Score = 37.0 bits (84), Expect = 0.053, Method: Compositional matrix adjust.
Identities = 39/150 (26%), Positives = 70/150 (46%), Gaps = 28/150 (18%)
Query: 286 SRRTKNNPVIIGEPGVGKTAIAEGLAQRIVRGDVPETLQNRKLISLDMASLVAGTCYRGD 345
+R+ + ++ G PG GK+ +A+ +A T N S+ + LV+ + G+
Sbjct: 56 NRKPTSGILLYGPPGTGKSYLAKAVA----------TEANSTFFSVSSSDLVSK--WMGE 103
Query: 346 FEKRLKAVLKEVTKSNGQIILFIDELHTIIGAGNQSGAMDASNMLKP-----MLGRGE-- 398
EK +K + + + N I+FIDE+ + G + G +AS +K M G G
Sbjct: 104 SEKLVKQLFA-MARENKPSIIFIDEVDALTGTRGE-GESEASRRIKTELLVQMNGVGNDS 161
Query: 399 --LRCIGATTLNEYRNYIEKDPALERRFQQ 426
+ +GAT + + D A+ RRF++
Sbjct: 162 QGVLVLGATNIP-----WQLDSAIRRRFER 186
>pdb|1XWI|A Chain A, Crystal Structure Of Vps4b
Length = 322
Score = 36.6 bits (83), Expect = 0.072, Method: Compositional matrix adjust.
Identities = 35/141 (24%), Positives = 67/141 (47%), Gaps = 25/141 (17%)
Query: 294 VIIGEPGVGKTAIAEGLAQRIVRGDVPETLQNRKLISLDMASLVAGTCYRGDFEKRLKAV 353
++ G PG GK+ +A+ +A N S+ + LV+ + G+ EK +K +
Sbjct: 49 LLFGPPGTGKSYLAKAVATEA---------NNSTFFSISSSDLVSK--WLGESEKLVKNL 97
Query: 354 LKEVTKSNGQIILFIDELHTIIGAGNQSGAMDA----SNMLKPMLGRG----ELRCIGAT 405
++ + N I+FIDE+ ++ G+ +++ + A + L M G G + +GAT
Sbjct: 98 F-QLARENKPSIIFIDEIDSLCGSRSENESEAARRIKTEFLVQMQGVGVDNDGILVLGAT 156
Query: 406 TLNEYRNYIEKDPALERRFQQ 426
+ D A+ RRF++
Sbjct: 157 NIPWVL-----DSAIRRRFEK 172
>pdb|1KHY|A Chain A, The Crystal Structure Of Clpb N Terminal Domain,
Implication To The Peptide Binding Function Of Clpb
pdb|1KHY|B Chain B, The Crystal Structure Of Clpb N Terminal Domain,
Implication To The Peptide Binding Function Of Clpb
pdb|1KHY|C Chain C, The Crystal Structure Of Clpb N Terminal Domain,
Implication To The Peptide Binding Function Of Clpb
pdb|1KHY|D Chain D, The Crystal Structure Of Clpb N Terminal Domain,
Implication To The Peptide Binding Function Of Clpb
Length = 148
Score = 36.2 bits (82), Expect = 0.085, Method: Compositional matrix adjust.
Identities = 31/112 (27%), Positives = 55/112 (49%), Gaps = 2/112 (1%)
Query: 97 FTEKAWEGIVGAVDAARVNNQQVVETEHLMKALLEQKDGLARRILTKAGQDNTKVLQATE 156
T K + A A ++ Q +E HL ALL Q+ G +LT AG + ++
Sbjct: 6 LTNKFQLALADAQSLALGHDNQFIEPLHLXSALLNQEGGSVSPLLTSAGINAGQLRTDIN 65
Query: 157 DFISKQPKVTGATSGPIVGS-NFGLLLSNAQRIKKEMEDDFVSVEHLLLAFL 207
+++ P+V G T G + S + +L+ ++ ++ D+F+S E +LA L
Sbjct: 66 QALNRLPQVEG-TGGDVQPSQDLVRVLNLCDKLAQKRGDNFISSELFVLAAL 116
>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 = 36.2 bits (82), Expect = 0.094, Method: Compositional matrix adjust.
Identities = 25/61 (40%), Positives = 36/61 (59%), Gaps = 3/61 (4%)
Query: 294 VIIGEPGVGKTAIAEGLAQRIVRGDVPET-LQNRKLISLDMASLVAGT-CYRGDFEKRLK 351
+I G+PG GKTAIA G+AQ + D P T + ++ SL+M+ A T +R R+K
Sbjct: 74 LIAGQPGTGKTAIAMGMAQAL-GPDTPFTAIAGSEIFSLEMSKTEALTQAFRRSIGVRIK 132
Query: 352 A 352
A
Sbjct: 133 A 133
>pdb|4B4T|H Chain H, Near-Atomic Resolution Structural Model Of The Yeast 26s
Proteasome
Length = 467
Score = 36.2 bits (82), Expect = 0.094, Method: Compositional matrix adjust.
Identities = 31/111 (27%), Positives = 48/111 (43%), Gaps = 28/111 (25%)
Query: 692 PIASFMFMGPTGVGKTELGKALADFLFNTENALVRIDMSEYMEKHSVSRLVGAPPGYVGY 751
P + GP G GKT +A+A+ T+ +R+ SE ++K YVG
Sbjct: 242 PPKGILLYGPPGTGKTLCARAVAN---RTDATFIRVIGSELVQK------------YVG- 285
Query: 752 EEGG----QLTEVVRRRPYSVVLFDEIEKAHQDVFNILLQLLDDGRITDSQ 798
EG +L E+ R + ++ FDEI+ F DDG D++
Sbjct: 286 -EGARMVRELFEMARTKKACIIFFDEIDAVGGARF-------DDGAGGDNE 328
Score = 30.0 bits (66), Expect = 6.7, Method: Compositional matrix adjust.
Identities = 26/101 (25%), Positives = 42/101 (41%), Gaps = 13/101 (12%)
Query: 294 VIIGEPGVGKTAIAEGLAQRIVRGDVPETLQNRKLISLDMASLVAGTCYRGDFEKRLKAV 353
++ G PG GKT A +A R + I + + LV G R+
Sbjct: 247 LLYGPPGTGKTLCARAVANR----------TDATFIRVIGSELVQKYVGEG---ARMVRE 293
Query: 354 LKEVTKSNGQIILFIDELHTIIGAGNQSGAMDASNMLKPML 394
L E+ ++ I+F DE+ + GA GA + + + ML
Sbjct: 294 LFEMARTKKACIIFFDEIDAVGGARFDDGAGGDNEVQRTML 334
>pdb|3EIE|A Chain A, Crystal Structure Of S.Cerevisiae Vps4 In The So4-Bound
State
Length = 322
Score = 35.8 bits (81), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 38/150 (25%), Positives = 70/150 (46%), Gaps = 28/150 (18%)
Query: 286 SRRTKNNPVIIGEPGVGKTAIAEGLAQRIVRGDVPETLQNRKLISLDMASLVAGTCYRGD 345
+R+ + ++ G PG GK+ +A+ +A T N S+ + LV+ + G+
Sbjct: 47 NRKPTSGILLYGPPGTGKSYLAKAVA----------TEANSTFFSVSSSDLVSK--WMGE 94
Query: 346 FEKRLKAVLKEVTKSNGQIILFIDELHTIIGAGNQSGAMDASNMLKP-----MLGRGE-- 398
EK +K + + + N I+FID++ + G + G +AS +K M G G
Sbjct: 95 SEKLVKQLFA-MARENKPSIIFIDQVDALTGTRGE-GESEASRRIKTELLVQMNGVGNDS 152
Query: 399 --LRCIGATTLNEYRNYIEKDPALERRFQQ 426
+ +GAT + + D A+ RRF++
Sbjct: 153 QGVLVLGATNIP-----WQLDSAIRRRFER 177
>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 = 35.8 bits (81), Expect = 0.12, Method: Compositional matrix adjust.
Identities = 38/150 (25%), Positives = 70/150 (46%), Gaps = 28/150 (18%)
Query: 286 SRRTKNNPVIIGEPGVGKTAIAEGLAQRIVRGDVPETLQNRKLISLDMASLVAGTCYRGD 345
+R+ + ++ G PG GK+ +A+ +A T N S+ + LV + + G+
Sbjct: 80 NRKPTSGILLYGPPGTGKSYLAKAVA----------TEANSTFFSVSSSDLV--SKWMGE 127
Query: 346 FEKRLKAVLKEVTKSNGQIILFIDELHTIIGAGNQSGAMDASNMLKP-----MLGRGE-- 398
EK +K + + + N I+FID++ + G + G +AS +K M G G
Sbjct: 128 SEKLVKQLFA-MARENKPSIIFIDQVDALTGTRGE-GESEASRRIKTELLVQMNGVGNDS 185
Query: 399 --LRCIGATTLNEYRNYIEKDPALERRFQQ 426
+ +GAT + + D A+ RRF++
Sbjct: 186 QGVLVLGATNIP-----WQLDSAIRRRFER 210
>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 = 35.4 bits (80), Expect = 0.15, Method: Compositional matrix adjust.
Identities = 38/150 (25%), Positives = 70/150 (46%), Gaps = 28/150 (18%)
Query: 286 SRRTKNNPVIIGEPGVGKTAIAEGLAQRIVRGDVPETLQNRKLISLDMASLVAGTCYRGD 345
+R+ + ++ G PG GK+ +A+ +A T N S+ + LV + + G+
Sbjct: 65 NRKPTSGILLYGPPGTGKSYLAKAVA----------TEANSTFFSVSSSDLV--SKWMGE 112
Query: 346 FEKRLKAVLKEVTKSNGQIILFIDELHTIIGAGNQSGAMDASNMLKP-----MLGRGE-- 398
EK +K + + + N I+FID++ + G + G +AS +K M G G
Sbjct: 113 SEKLVKQLFA-MARENKPSIIFIDQVDALTGTRGE-GESEASRRIKTELLVQMNGVGNDS 170
Query: 399 --LRCIGATTLNEYRNYIEKDPALERRFQQ 426
+ +GAT + + D A+ RRF++
Sbjct: 171 QGVLVLGATNIP-----WQLDSAIRRRFER 195
>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 = 35.4 bits (80), Expect = 0.18, Method: Compositional matrix adjust.
Identities = 44/193 (22%), Positives = 77/193 (39%), Gaps = 44/193 (22%)
Query: 665 VIGQDIAVKSVADAIRRSRAGLSDPARPIASFMFMGPTGVGKTELGKALADFLF--NTEN 722
V+GQD ++ + + R + I +F GP G GKT ALA LF N +
Sbjct: 19 VVGQDEVIQRLKGYVER---------KNIPHLLFSGPPGTGKTATAIALARDLFGENWRD 69
Query: 723 ALVRIDMSEY----MEKHSVSRLVGAPPGYVGYEEGGQLTEVVRRRPYSVVLFDEIEKAH 778
+ ++ S+ + +H + P GG P+ ++ DE +
Sbjct: 70 NFIEMNASDERGIDVVRHKIKEFARTAP------IGGA--------PFKIIFLDEADALT 115
Query: 779 QDVFNILLQLLDDGRITDSQGRTVSFTNCVVIMTSNIGSHYILETLQS---VQDSKEAVY 835
D L + ++ + +C I++ N S I+E +QS V K
Sbjct: 116 ADAQAALRRTME-----------MYSKSCRFILSCNYVSR-IIEPIQSRCAVFRFKPVPK 163
Query: 836 EVMKKQVVELARQ 848
E MKK+++E+ +
Sbjct: 164 EAMKKRLLEICEK 176
Score = 34.7 bits (78), Expect = 0.28, Method: Compositional matrix adjust.
Identities = 20/54 (37%), Positives = 29/54 (53%)
Query: 259 LTELARSGKLDPVIGRDDEIRRCIQILSRRTKNNPVIIGEPGVGKTAIAEGLAQ 312
E R LD V+G+D+ I+R + R+ + + G PG GKTA A LA+
Sbjct: 7 WVEKYRPRTLDEVVGQDEVIQRLKGYVERKNIPHLLFSGPPGTGKTATAIALAR 60
>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 = 35.0 bits (79), Expect = 0.19, Method: Compositional matrix adjust.
Identities = 44/193 (22%), Positives = 77/193 (39%), Gaps = 44/193 (22%)
Query: 665 VIGQDIAVKSVADAIRRSRAGLSDPARPIASFMFMGPTGVGKTELGKALADFLF--NTEN 722
V+GQD ++ + + R + I +F GP G GKT ALA LF N +
Sbjct: 19 VVGQDEVIQRLKGYVER---------KNIPHLLFSGPPGTGKTATAIALARDLFGENWRD 69
Query: 723 ALVRIDMSEY----MEKHSVSRLVGAPPGYVGYEEGGQLTEVVRRRPYSVVLFDEIEKAH 778
+ ++ S+ + +H + P GG P+ ++ DE +
Sbjct: 70 NFIEMNASDERGIDVVRHKIKEFARTAP------IGGA--------PFKIIFLDEADALT 115
Query: 779 QDVFNILLQLLDDGRITDSQGRTVSFTNCVVIMTSNIGSHYILETLQS---VQDSKEAVY 835
D L + ++ + +C I++ N S I+E +QS V K
Sbjct: 116 ADAQAALRRTME-----------MYSKSCRFILSCNYVSR-IIEPIQSRCAVFRFKPVPK 163
Query: 836 EVMKKQVVELARQ 848
E MKK+++E+ +
Sbjct: 164 EAMKKRLLEICEK 176
Score = 35.0 bits (79), Expect = 0.21, Method: Compositional matrix adjust.
Identities = 20/53 (37%), Positives = 29/53 (54%)
Query: 260 TELARSGKLDPVIGRDDEIRRCIQILSRRTKNNPVIIGEPGVGKTAIAEGLAQ 312
E R LD V+G+D+ I+R + R+ + + G PG GKTA A LA+
Sbjct: 8 VEKYRPRTLDEVVGQDEVIQRLKGYVERKNIPHLLFSGPPGTGKTATAIALAR 60
>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 = 35.0 bits (79), Expect = 0.20, Method: Compositional matrix adjust.
Identities = 32/105 (30%), Positives = 47/105 (44%), Gaps = 21/105 (20%)
Query: 696 FMFMGPTGVGKTELGKALADFLFNTENALVRIDMSEYMEKHSV----SRLVGAPPGYV-- 749
GP GVGKT L K++A L VRI + ++ + VGA PG +
Sbjct: 111 LCLAGPPGVGKTSLAKSIAKSLGRK---FVRISLGGVRDESEIRGHRRTYVGAMPGRIIQ 167
Query: 750 GYEEGGQLTEVVRRRPYSVVLFDEIEKAHQDV----FNILLQLLD 790
G ++ G+L V L DEI+K D + +L++LD
Sbjct: 168 GMKKAGKLN--------PVFLLDEIDKMSSDFRGDPSSAMLEVLD 204
>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 = 35.0 bits (79), Expect = 0.21, Method: Compositional matrix adjust.
Identities = 46/174 (26%), Positives = 72/174 (41%), Gaps = 35/174 (20%)
Query: 285 LSRRTKNNPVIIGEPGVGKTAIAEGLAQRIVRGDVPETLQNRKLISLDMASLVAGTCYRG 344
L + +++G PG GKT +A+ +A VP S+ +S + + G
Sbjct: 39 LGAKIPKGVLLVGPPGTGKTLLAKAVAG---EAHVP-------FFSMGGSSFI--EMFVG 86
Query: 345 DFEKRLKAVLKEVTKSNGQIILFIDELHTIIGAGNQSGAMDASN---------MLKPMLG 395
R++ + E K I+FIDE+ IG +G + + N +L M G
Sbjct: 87 LGASRVRDLF-ETAKKQAPSIIFIDEIDA-IGKSRAAGGVVSGNDEREQTLNQLLAEMDG 144
Query: 396 RGE----LRCIGATTLNEYRNYIEKDPALER--RF-QQVFCDQPSVENTISILR 442
G + + AT E DPAL R RF +QV D+P + IL+
Sbjct: 145 FGSENAPVIVLAATNRPEIL-----DPALMRPGRFDRQVLVDKPDFNGRVEILK 193
>pdb|3VFD|A Chain A, Human Spastin Aaa Domain
Length = 389
Score = 34.7 bits (78), Expect = 0.26, Method: Compositional matrix adjust.
Identities = 41/153 (26%), Positives = 69/153 (45%), Gaps = 30/153 (19%)
Query: 294 VIIGEPGVGKTAIAEGLAQRIVRGDVPETLQNRKLISLDMASLVAGTCYRGDFEKRLKAV 353
++ G PG GKT +A+ +A N ++ ASL + Y G+ EK ++A+
Sbjct: 152 LLFGPPGNGKTMLAKAVAAE----------SNATFFNISAASLTSK--YVGEGEKLVRAL 199
Query: 354 LKEVTKSNGQIILFIDELHTIIGAGNQSGAMDASNMLKPML----------GRGELRCIG 403
V + I+FID++ +++ + G DAS LK G + +G
Sbjct: 200 F-AVARELQPSIIFIDQVDSLL-CERREGEHDASRRLKTEFLIEFDGVQSAGDDRVLVMG 257
Query: 404 ATTLNEYRNYIEKDPALERRF-QQVFCDQPSVE 435
AT + E D A+ RRF ++V+ P+ E
Sbjct: 258 ATNRPQ-----ELDEAVLRRFIKRVYVSLPNEE 285
>pdb|1UM8|A Chain A, Crystal Structure Of Helicobacter Pylori Clpx
Length = 376
Score = 34.3 bits (77), Expect = 0.37, Method: Compositional matrix adjust.
Identities = 65/280 (23%), Positives = 118/280 (42%), Gaps = 69/280 (24%)
Query: 694 ASFMFMGPTGVGKTELGKALADFLFNTENALVRIDMSEYMEKHSVSRLVGAPPGYVGYEE 753
++ + +GPTG GKT + + LA L + I +S+ + L A GYVG +
Sbjct: 73 SNILLIGPTGSGKTLMAQTLAKHLD------IPIAISD------ATSLTEA--GYVGEDV 118
Query: 754 GGQLTEVVRRRPYSV-------VLFDEIEK--------------AHQDVFNILLQLLDDG 792
LT +++ ++V V DEI+K + + V LL++++
Sbjct: 119 ENILTRLLQASDWNVQKAQKGIVFIDEIDKISRLSENRSITRDVSGEGVQQALLKIVEGS 178
Query: 793 --RITDSQGRTVSFTNCVVIMTSNI---------GSHYILE--TLQSV---------QDS 830
I GR N + I TS+I G I++ T Q+V +
Sbjct: 179 LVNIPPKGGRKHPEGNFIQIDTSDILFICAGAFDGLAEIIKKRTTQNVLGFTQEKMSKKE 238
Query: 831 KEAVYEVMKKQVVELARQTFRPEFLNRIDEYIVFQPLDSKEISKIVEI-------QMNRV 883
+EA+ ++ Q +L PE + R+ V LDS + +V+I + +
Sbjct: 239 QEAILHLV--QTHDLVTYGLIPELIGRLP---VLSTLDSISLEAMVDILQKPKNALIKQY 293
Query: 884 KDRLKQKKIDLHYTKEAVTLLGILGFDPNFGARPVKRVIQ 923
+ K ++DL + +EA+ + L + GAR ++ +I+
Sbjct: 294 QQLFKMDEVDLIFEEEAIKEIAQLALERKTGARGLRAIIE 333
Score = 30.0 bits (66), Expect = 6.3, Method: Compositional matrix adjust.
Identities = 29/91 (31%), Positives = 47/91 (51%), Gaps = 17/91 (18%)
Query: 289 TKNNPVIIGEPGVGKTAIAEGLAQRIVRGDVPETLQNRKLISLDMASLVAGTCYRG-DFE 347
+K+N ++IG G GKT +A+ LA+ + D+P I++ A+ + Y G D E
Sbjct: 71 SKSNILLIGPTGSGKTLMAQTLAKHL---DIP--------IAISDATSLTEAGYVGEDVE 119
Query: 348 KRLKAVLK----EVTKSNGQIILFIDELHTI 374
L +L+ V K+ I+ FIDE+ I
Sbjct: 120 NILTRLLQASDWNVQKAQKGIV-FIDEIDKI 149
>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 = 31.6 bits (70), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 16/55 (29%), Positives = 29/55 (52%)
Query: 260 TELARSGKLDPVIGRDDEIRRCIQILSRRTKNNPVIIGEPGVGKTAIAEGLAQRI 314
E R +LD ++G++ ++R + + + + G PGVGKT A LA+ +
Sbjct: 16 VEKYRPQRLDDIVGQEHIVKRLKHYVKTGSMPHLLFAGPPGVGKTTAALALAREL 70
>pdb|4B4T|J Chain J, Near-Atomic Resolution Structural Model Of The Yeast 26s
Proteasome
Length = 405
Score = 31.6 bits (70), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 24/90 (26%), Positives = 43/90 (47%), Gaps = 22/90 (24%)
Query: 690 ARPIASFMFMGPTGVGKTELGKALADFLFNTENALVRIDMSEYMEKHSVSRLVGAPPGYV 749
A+P ++ GP G GKT L +A+A +T+ +R+ +E ++K Y+
Sbjct: 180 AQPKGVILY-GPPGTGKTLLARAVA---HHTDCKFIRVSGAELVQK------------YI 223
Query: 750 GYEEGGQLTE----VVRRRPYSVVLFDEIE 775
G EG ++ + R S++ DEI+
Sbjct: 224 G--EGSRMVRELFVMAREHAPSIIFMDEID 251
>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 = 31.6 bits (70), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 43/164 (26%), Positives = 72/164 (43%), Gaps = 35/164 (21%)
Query: 294 VIIGEPGVGKTAIAEGLAQRIVRGDVPETLQNRKLISLDMASLVAGTCYRGDFEKRLKAV 353
++ G PG GKT +A+ +A T N I + + LV + G+ +K +
Sbjct: 55 LLYGPPGTGKTLLAKAVA----------TETNATFIRVVGSELVKK--FIGEGASLVKDI 102
Query: 354 LKEVTKSNGQIILFIDELHTIIGAGNQSGAMDASN---------MLKPMLG---RGELRC 401
K + K I+FIDE+ I A ++ A+ + +L M G RG+++
Sbjct: 103 FK-LAKEKAPSIIFIDEIDAI--AAKRTDALTGGDREVQRTLMQLLAEMDGFDARGDVKI 159
Query: 402 IGATTLNEYRNYIEKDPALER--RFQQVF-CDQPSVENTISILR 442
IGAT + DPA+ R RF ++ P + + IL+
Sbjct: 160 IGATNRPDIL-----DPAILRPGRFDRIIEVPAPDEKGRLEILK 198
Score = 31.2 bits (69), Expect = 3.4, Method: Compositional matrix adjust.
Identities = 33/132 (25%), Positives = 56/132 (42%), Gaps = 34/132 (25%)
Query: 692 PIASFMFMGPTGVGKTELGKALADFLFNTENALVRIDMSEYMEKHSVSRLVGAPPGYVGY 751
P + GP G GKT L KA+A T +R+ SE ++K ++G
Sbjct: 50 PPKGILLYGPPGTGKTLLAKAVAT---ETNATFIRVVGSELVKK------------FIG- 93
Query: 752 EEGGQLT----EVVRRRPYSVVLFDEIEK-----------AHQDVFNILLQLLDDGRITD 796
EG L ++ + + S++ DEI+ ++V L+QLL + D
Sbjct: 94 -EGASLVKDIFKLAKEKAPSIIFIDEIDAIAAKRTDALTGGDREVQRTLMQLLAEMDGFD 152
Query: 797 SQG--RTVSFTN 806
++G + + TN
Sbjct: 153 ARGDVKIIGATN 164
>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 = 31.2 bits (69), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 20/82 (24%), Positives = 40/82 (48%), Gaps = 13/82 (15%)
Query: 294 VIIGEPGVGKTAIAEGLAQRIVRGDVPETLQNRKLISLDMASLVAGTCYRGDFEKRLKAV 353
++ G PG GKT I + +A + S+ +SL + + G+ EK ++A+
Sbjct: 121 LLFGPPGTGKTLIGKCIASQ----------SGATFFSISASSLTSK--WVGEGEKMVRAL 168
Query: 354 LKEVTKSNGQIILFIDELHTII 375
V + ++FIDE+ +++
Sbjct: 169 FA-VARCQQPAVIFIDEIDSLL 189
>pdb|2ZQM|A Chain A, Crystal Structure Of The Prefoldin Beta Subunit From
Thermococcus Strain Ks-1
Length = 117
Score = 31.2 bits (69), Expect = 3.1, Method: Compositional matrix adjust.
Identities = 28/78 (35%), Positives = 46/78 (58%), Gaps = 10/78 (12%)
Query: 495 EITSKPIELDEI----DRAVLKLEMEKLSLKNDTDKAS---KERLSKLEHDLNSLKQKQK 547
E+T LDEI D AV+ + L +K DKA KE++ LE LN+L++++K
Sbjct: 35 ELTEAKKALDEIESLPDDAVVYKTVGTLIVKTTKDKAVAELKEKIETLEVRLNALERQEK 94
Query: 548 ELNDQWSREKDLMSRIRS 565
+LN++ K+L ++I+S
Sbjct: 95 KLNEKL---KELTAQIQS 109
>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 = 30.8 bits (68), Expect = 3.6, Method: Compositional matrix adjust.
Identities = 23/60 (38%), Positives = 33/60 (55%), Gaps = 3/60 (5%)
Query: 294 VIIGEPGVGKTAIAEGLAQRIVRGDVPET-LQNRKLISLDMASLVAGT-CYRGDFEKRLK 351
+I G+PG GKTAIA G AQ + D P T + ++ SL+ + A T +R R+K
Sbjct: 89 LIAGQPGTGKTAIAXGXAQAL-GPDTPFTAIAGSEIFSLEXSKTEALTQAFRRSIGVRIK 147
>pdb|2GA8|A Chain A, Crystal Structure Of Yfh7 From Saccharomyces Cerevisiae: A
Putative P-Loop Containing Kinase With A Circular
Permutation.
pdb|2GAA|A Chain A, Crystal Structure Of Yfh7 From Saccharomyces Cerevisiae: A
Putative P-Loop Containing Kinase With A Circular
Permutation
Length = 359
Score = 30.8 bits (68), Expect = 4.1, Method: Compositional matrix adjust.
Identities = 15/37 (40%), Positives = 23/37 (62%), Gaps = 4/37 (10%)
Query: 282 IQILSRRTKNN----PVIIGEPGVGKTAIAEGLAQRI 314
+Q+L R ++N +++G PG GK+ IAE L Q I
Sbjct: 12 LQLLDNRIEDNYRVCVILVGSPGSGKSTIAEELXQII 48
>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 = 30.8 bits (68), Expect = 4.3, Method: Compositional matrix adjust.
Identities = 30/118 (25%), Positives = 52/118 (44%), Gaps = 30/118 (25%)
Query: 294 VIIGEPGVGKTAIAEGLAQRIVRGDVPETLQNRKLISLDMASLVAGTCYRGDFEKRLKAV 353
++ G PG GKT +AE +A R DV ++++ +G K ++
Sbjct: 54 ILWGPPGTGKTTLAEVIA-RYANADVER-----------ISAVTSGV-------KEIREA 94
Query: 354 LKEVTKSNG---QIILFIDELHTIIGAGNQSGAMDASNMLKPMLGRGELRCIGATTLN 408
++ ++ + ILF+DE+H N+S + P + G + IGATT N
Sbjct: 95 IERARQNRNAGRRTILFVDEVHRF----NKS----QQDAFLPHIEDGTITFIGATTEN 144
>pdb|2Y1Q|A Chain A, Crystal Structure Of Clpc N-Terminal Domain
Length = 150
Score = 30.4 bits (67), Expect = 4.6, Method: Compositional matrix adjust.
Identities = 25/115 (21%), Positives = 52/115 (45%), Gaps = 5/115 (4%)
Query: 97 FTEKAWEGIVGAVDAARVNNQQVVETEHLMKALLEQKDGLARRILTKAGQDNTKVLQATE 156
FTE+A + + A + A + TEH++ L+ + +G+A + L G + K+ + E
Sbjct: 6 FTERAQKVLALAQEEALRLGHNNIGTEHILLGLVREGEGIAAKALQALGLGSEKIQKEVE 65
Query: 157 DFISKQPKVTGATS-GPIVGSNFGLLLSNAQRIKKEMEDDFVSVEHLLLAFLSDD 210
I + +++ P L + A+++ +V EH+LL + +
Sbjct: 66 SLIGRAQEMSQTIHYTPRAKKVIELSMDEARKLG----HSYVGTEHILLGLIREG 116
Score = 29.6 bits (65), Expect = 9.0, Method: Compositional matrix adjust.
Identities = 16/49 (32%), Positives = 28/49 (57%)
Query: 97 FTEKAWEGIVGAVDAARVNNQQVVETEHLMKALLEQKDGLARRILTKAG 145
+T +A + I ++D AR V TEH++ L+ + +G+A R+L G
Sbjct: 80 YTPRAKKVIELSMDEARKLGHSYVGTEHILLGLIREGEGVAARVLNNLG 128
>pdb|2K77|A Chain A, Nmr Solution Structure Of The Bacillus Subtilis Clpc N-
Domain
Length = 146
Score = 30.4 bits (67), Expect = 4.8, Method: Compositional matrix adjust.
Identities = 25/115 (21%), Positives = 52/115 (45%), Gaps = 5/115 (4%)
Query: 97 FTEKAWEGIVGAVDAARVNNQQVVETEHLMKALLEQKDGLARRILTKAGQDNTKVLQATE 156
FTE+A + + A + A + TEH++ L+ + +G+A + L G + K+ + E
Sbjct: 7 FTERAQKVLALAQEEALRLGHNNIGTEHILLGLVREGEGIAAKALQALGLGSEKIQKEVE 66
Query: 157 DFISKQPKVTGATS-GPIVGSNFGLLLSNAQRIKKEMEDDFVSVEHLLLAFLSDD 210
I + +++ P L + A+++ +V EH+LL + +
Sbjct: 67 SLIGRGQEMSQTIHYTPRAKKVIELSMDEARKLG----HSYVGTEHILLGLIREG 117
Score = 29.6 bits (65), Expect = 8.8, Method: Compositional matrix adjust.
Identities = 18/57 (31%), Positives = 30/57 (52%)
Query: 97 FTEKAWEGIVGAVDAARVNNQQVVETEHLMKALLEQKDGLARRILTKAGQDNTKVLQ 153
+T +A + I ++D AR V TEH++ L+ + +G+A R+L G K Q
Sbjct: 81 YTPRAKKVIELSMDEARKLGHSYVGTEHILLGLIREGEGVAARVLNNLGVSLNKARQ 137
>pdb|4B4T|I Chain I, Near-Atomic Resolution Structural Model Of The Yeast 26s
Proteasome
Length = 437
Score = 30.4 bits (67), Expect = 4.8, Method: Compositional matrix adjust.
Identities = 38/140 (27%), Positives = 60/140 (42%), Gaps = 30/140 (21%)
Query: 294 VIIGEPGVGKTAIAEGLAQRIVRGDVPETLQNRKLISLDMASLVAGTCYRGDFEKRLKAV 353
++ G PG GKT +A+ +A + + + + + L+ Y GD + + +
Sbjct: 220 ILYGAPGTGKTLLAKAVANQT----------SATFLRIVGSELIQK--YLGDGPRLCRQI 267
Query: 354 LKEVTKSNGQIILFIDELHTI------IGAGN----QSGAMDASNMLKPMLGRGELRCIG 403
K V N I+FIDE+ I +G Q ++ N L RG+++ I
Sbjct: 268 FK-VAGENAPSIVFIDEIDAIGTKRYDSNSGGEREIQRTMLELLNQLDGFDDRGDVKVIM 326
Query: 404 ATTLNEYRNYIEK-DPALER 422
AT N IE DPAL R
Sbjct: 327 AT------NKIETLDPALIR 340
>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 = 30.4 bits (67), Expect = 4.9, Method: Compositional matrix adjust.
Identities = 23/63 (36%), Positives = 34/63 (53%), Gaps = 6/63 (9%)
Query: 661 LHKRVIGQDIAVKSVADAI----RRSRAGLSDPARPI--ASFMFMGPTGVGKTELGKALA 714
L VIGQ+ A K +A A+ +R R G + + ++ + +GPTG GKT L + LA
Sbjct: 13 LDDYVIGQEQAKKVLAVAVYNHYKRLRNGDTSNGVELGKSNILLIGPTGSGKTLLAETLA 72
Query: 715 DFL 717
L
Sbjct: 73 RLL 75
>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 = 30.4 bits (67), Expect = 5.1, Method: Compositional matrix adjust.
Identities = 23/63 (36%), Positives = 34/63 (53%), Gaps = 6/63 (9%)
Query: 661 LHKRVIGQDIAVKSVADAI----RRSRAGLSDPARPI--ASFMFMGPTGVGKTELGKALA 714
L VIGQ+ A K +A A+ +R R G + + ++ + +GPTG GKT L + LA
Sbjct: 13 LDDYVIGQEQAKKVLAVAVYNHYKRLRNGDTSNGVELGKSNILLIGPTGSGKTLLAETLA 72
Query: 715 DFL 717
L
Sbjct: 73 RLL 75
>pdb|2IBX|B Chain B, Influenza Virus (Vn1194) H5 Ha
pdb|2IBX|D Chain D, Influenza Virus (Vn1194) H5 Ha
pdb|2IBX|F Chain F, Influenza Virus (Vn1194) H5 Ha
Length = 160
Score = 30.4 bits (67), Expect = 5.1, Method: Composition-based stats.
Identities = 44/183 (24%), Positives = 72/183 (39%), Gaps = 43/183 (23%)
Query: 97 FTEKAWEGIVGAVDAARVNNQQ----VVETEHLMKALLEQKDGLARRILTKAGQDNTKVL 152
F E W+G+V +N+Q + E KA+ DG+ ++ + + NT+
Sbjct: 9 FIEGGWQGMVDGWYGYHHSNEQGSGYAADKESTQKAI----DGVTNKVNSIIDKMNTQF- 63
Query: 153 QATEDFISKQPKVTGATSGPIVGSNFGLLLSNAQRIKKEMEDDFVSV---EHLLLAFLSD 209
VG F L + + K+MED F+ V LL + +
Sbjct: 64 -------------------EAVGREFNNLERRIENLNKKMEDGFLDVWTYNAELLVLMEN 104
Query: 210 DRFGRLLFNDIRLNEKDLKDAVKAVRGHQRVTDQNPE---GKYQALEKYGNDLTELARSG 266
+R L F+D N K+L D V+ ++ D E G ++ K N+ E R+G
Sbjct: 105 ER--TLDFHDS--NVKNLYDKVRL-----QLRDNAKELGNGCFEFYHKCDNECMESVRNG 155
Query: 267 KLD 269
D
Sbjct: 156 TYD 158
>pdb|3CRM|A Chain A, Structure Of Trna Dimethylallyltransferase: Rna
Modification Through A Channel
pdb|3CRQ|A Chain A, Structure Of Trna Dimethylallyltransferase: Rna
Modification Through A Channel
pdb|3CRR|A Chain A, Structure Of Trna Dimethylallyltransferase: Rna
Modification Through A Channel
Length = 323
Score = 30.4 bits (67), Expect = 5.2, Method: Composition-based stats.
Identities = 16/26 (61%), Positives = 18/26 (69%), Gaps = 1/26 (3%)
Query: 692 PIASFMFMGPTGVGKTELGKALADFL 717
P A F+ MGPT GKT+L ALAD L
Sbjct: 5 PPAIFL-MGPTAAGKTDLAMALADAL 29
>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 = 30.4 bits (67), Expect = 5.4, Method: Compositional matrix adjust.
Identities = 35/135 (25%), Positives = 55/135 (40%), Gaps = 18/135 (13%)
Query: 295 IIGEPGVGKTAIA---EGLAQRIVRGDVPETLQNRKLISLDMASLVAGTCYRGDFEKRLK 351
G PG GKT +A GL R+ ++ L+S+ LV Y G + K
Sbjct: 65 FTGNPGTGKTTVALKMAGLLHRL------GYVRKGHLVSVTRDDLVG--QYIGHTAPKTK 116
Query: 352 AVLKEVTKSNGQIILFIDELHTIIGAGNQSG-AMDASNMLKPML--GRGELRCIGATTLN 408
VLK +LFIDE + + N+ +A +L ++ R +L I A +
Sbjct: 117 EVLKRAMGG----VLFIDEAYYLYRPDNERDYGQEAIEILLQVMENNRDDLVVILAGYAD 172
Query: 409 EYRNYIEKDPALERR 423
N+ + +P R
Sbjct: 173 RMENFFQSNPGFRSR 187
>pdb|2Y1R|A Chain A, Structure Of Meca121 & Clpc N-Domain Complex
pdb|2Y1R|B Chain B, Structure Of Meca121 & Clpc N-Domain Complex
pdb|2Y1R|C Chain C, Structure Of Meca121 & Clpc N-Domain Complex
pdb|2Y1R|D Chain D, Structure Of Meca121 & Clpc N-Domain Complex
pdb|2Y1R|E Chain E, Structure Of Meca121 & Clpc N-Domain Complex
pdb|2Y1R|F Chain F, Structure Of Meca121 & Clpc N-Domain Complex
pdb|2Y1R|G Chain G, Structure Of Meca121 & Clpc N-Domain Complex
pdb|2Y1R|H Chain H, Structure Of Meca121 & Clpc N-Domain Complex
Length = 149
Score = 30.4 bits (67), Expect = 5.7, Method: Compositional matrix adjust.
Identities = 25/115 (21%), Positives = 52/115 (45%), Gaps = 5/115 (4%)
Query: 97 FTEKAWEGIVGAVDAARVNNQQVVETEHLMKALLEQKDGLARRILTKAGQDNTKVLQATE 156
FTE+A + + A + A + TEH++ L+ + +G+A + L G + K+ + E
Sbjct: 6 FTERAQKVLALAQEEALRLGHNNIGTEHILLGLVREGEGIAAKALQALGLGSEKIQKEVE 65
Query: 157 DFISKQPKVTGATS-GPIVGSNFGLLLSNAQRIKKEMEDDFVSVEHLLLAFLSDD 210
I + +++ P L + A+++ +V EH+LL + +
Sbjct: 66 SLIGRGQEMSQTIHYTPRAKKVIELSMDEARKLG----HSYVGTEHILLGLIREG 116
Score = 29.6 bits (65), Expect = 9.4, Method: Compositional matrix adjust.
Identities = 18/57 (31%), Positives = 30/57 (52%)
Query: 97 FTEKAWEGIVGAVDAARVNNQQVVETEHLMKALLEQKDGLARRILTKAGQDNTKVLQ 153
+T +A + I ++D AR V TEH++ L+ + +G+A R+L G K Q
Sbjct: 80 YTPRAKKVIELSMDEARKLGHSYVGTEHILLGLIREGEGVAARVLNNLGVSLNKARQ 136
>pdb|3B9P|A Chain A, Spastin
Length = 297
Score = 30.4 bits (67), Expect = 5.7, Method: Compositional matrix adjust.
Identities = 24/78 (30%), Positives = 39/78 (50%), Gaps = 13/78 (16%)
Query: 294 VIIGEPGVGKTAIAEGLAQRIVRGDVPETLQNRKLISLDMASLVAGTCYRGDFEKRLKAV 353
++ G PG GKT +A +A T + +++ ASL + Y GD EK ++A+
Sbjct: 58 LLFGPPGNGKTLLARAVA----------TECSATFLNISAASLTSK--YVGDGEKLVRAL 105
Query: 354 LKEVTKSNGQIILFIDEL 371
V + I+FIDE+
Sbjct: 106 FA-VARHMQPSIIFIDEV 122
>pdb|3PE0|A Chain A, Structure Of The Central Region Of The Plakin Domain Of
Plectin
pdb|3PE0|B Chain B, Structure Of The Central Region Of The Plakin Domain Of
Plectin
Length = 283
Score = 30.0 bits (66), Expect = 5.8, Method: Composition-based stats.
Identities = 16/41 (39%), Positives = 22/41 (53%)
Query: 585 DLNRAAELKYGTMISLQRQLEEAEKNLSEFQKSGHSLLREE 625
D N K + +L R+LE EK + E Q +G LLRE+
Sbjct: 38 DRNTNMTAKKESYSALMRELELKEKKIKELQNAGDRLLRED 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 = 30.0 bits (66), Expect = 6.0, Method: Compositional matrix adjust.
Identities = 35/138 (25%), Positives = 55/138 (39%), Gaps = 18/138 (13%)
Query: 295 IIGEPGVGKTAIA---EGLAQRIVRGDVPETLQNRKLISLDMASLVAGTCYRGDFEKRLK 351
G PG GKT +A GL R+ ++ L+S+ LV Y G + K
Sbjct: 72 FTGNPGTGKTTVALKMAGLLHRL------GYVRKGHLVSVTRDDLVG--QYIGHTAPKTK 123
Query: 352 AVLKEVTKSNGQIILFIDELHTIIGAGNQSG-AMDASNMLKPML--GRGELRCIGATTLN 408
VLK +LFIDE + + N+ +A +L ++ R +L I A +
Sbjct: 124 EVLKRAMGG----VLFIDEAYYLYRPDNERDYGQEAIEILLQVMENNRDDLVVILAGYAD 179
Query: 409 EYRNYIEKDPALERRFQQ 426
N+ + +P R
Sbjct: 180 RMENFFQSNPGFRSRIAH 197
>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 = 29.6 bits (65), Expect = 7.7, Method: Compositional matrix adjust.
Identities = 12/24 (50%), Positives = 15/24 (62%)
Query: 692 PIASFMFMGPTGVGKTELGKALAD 715
P +F GP G GKT L KA+A+
Sbjct: 510 PSKGVLFYGPPGCGKTLLAKAIAN 533
>pdb|1R7R|A Chain A, The Crystal Structure Of Murine P97VCP AT 3.6A
Length = 816
Score = 29.6 bits (65), Expect = 7.9, Method: Compositional matrix adjust.
Identities = 12/24 (50%), Positives = 15/24 (62%)
Query: 692 PIASFMFMGPTGVGKTELGKALAD 715
P +F GP G GKT L KA+A+
Sbjct: 510 PSKGVLFYGPPGCGKTLLAKAIAN 533
>pdb|1NJG|A Chain A, Nucleotide-Free Form Of An Isolated E. Coli Clamp Loader
Gamma Subunit
pdb|1NJG|B Chain B, Nucleotide-Free Form Of An Isolated E. Coli Clamp Loader
Gamma Subunit
pdb|1NJF|A Chain A, Nucleotide Bound Form Of An Isolated E. Coli Clamp Loader
Gamma Subunit
pdb|1NJF|B Chain B, Nucleotide Bound Form Of An Isolated E. Coli Clamp Loader
Gamma Subunit
pdb|1NJF|C Chain C, Nucleotide Bound Form Of An Isolated E. Coli Clamp Loader
Gamma Subunit
pdb|1NJF|D Chain D, Nucleotide Bound Form Of An Isolated E. Coli Clamp Loader
Gamma Subunit
Length = 250
Score = 29.6 bits (65), Expect = 7.9, Method: Compositional matrix adjust.
Identities = 36/137 (26%), Positives = 60/137 (43%), Gaps = 19/137 (13%)
Query: 665 VIGQDIAVKSVADAIRRSRAGLSDPARPIASFMFMGPTGVGKTELGKALADFLFNTENAL 724
V+GQ+ + ++A+ GLS R +++F G GVGKT + + LA L N E +
Sbjct: 25 VVGQEHVLTALAN-------GLS-LGRIHHAYLFSGTRGVGKTSIARLLAKGL-NCETGI 75
Query: 725 VR-----IDMSEYMEKHSVSRLVGA-PPGYVGYEEGGQLTEVVRRRP----YSVVLFDEI 774
D +E+ L+ E+ L + V+ P + V L DE+
Sbjct: 76 TATPCGVCDNCREIEQGRFVDLIEIDAASRTKVEDTRDLLDNVQYAPARGRFKVYLIDEV 135
Query: 775 EKAHQDVFNILLQLLDD 791
+ FN LL+ L++
Sbjct: 136 HMLSRHSFNALLKTLEE 152
>pdb|3K1J|A Chain A, Crystal Structure Of Lon Protease From Thermococcus
Onnurineus Na1
pdb|3K1J|B Chain B, Crystal Structure Of Lon Protease From Thermococcus
Onnurineus Na1
Length = 604
Score = 29.6 bits (65), Expect = 8.1, Method: Compositional matrix adjust.
Identities = 19/59 (32%), Positives = 30/59 (50%), Gaps = 11/59 (18%)
Query: 659 EVLHKRVIGQDIAVKSVADAIRRSRAGLSDPARPIASFMFMGPTGVGKTELGKALADFL 717
E L +VIGQ+ AV+ + A + R + +G G GK+ LG+A+A+ L
Sbjct: 37 EKLIDQVIGQEHAVEVIKTAANQKR-----------HVLLIGEPGTGKSMLGQAMAELL 84
>pdb|2QBY|A Chain A, Crystal Structure Of A Heterodimer Of Cdc6ORC1 INITIATORS
Bound To Origin Dna (From S. Solfataricus)
Length = 386
Score = 29.6 bits (65), Expect = 8.7, Method: Compositional matrix adjust.
Identities = 32/125 (25%), Positives = 53/125 (42%), Gaps = 23/125 (18%)
Query: 274 RDDEIRRCIQILS---RRTK-NNPVIIGEPGVGKTAIAEGLAQRIVRG------------ 317
R+D+IR+ IL+ R K NN I G G GKTA+ + + ++ +
Sbjct: 25 REDQIRKIASILAPLYREEKPNNIFIYGLTGTGKTAVVKFVLSKLHKKFLGKFKHVYINT 84
Query: 318 ---DVPETLQNRKLISLDMASLVAGTCYRGDFEKRLKAVLKEVTKSNGQIILFIDELHTI 374
D P + L SLD+ G + +RL +K V Q+++ +DE+
Sbjct: 85 RQIDTPYRVLADLLESLDVKVPFTGLSI-AELYRRL---VKAVRDYGSQVVIVLDEIDAF 140
Query: 375 IGAGN 379
+ N
Sbjct: 141 VKKYN 145
>pdb|1WP1|A Chain A, Crystal Structure Of The Drug-Discharge Outer Membrane
Protein, Oprm
pdb|1WP1|B Chain B, Crystal Structure Of The Drug-Discharge Outer Membrane
Protein, Oprm
Length = 474
Score = 29.6 bits (65), Expect = 8.9, Method: Compositional matrix adjust.
Identities = 21/67 (31%), Positives = 33/67 (49%), Gaps = 4/67 (5%)
Query: 553 WSREKDLMSRIRSIKEEIDRVNLEMEAAERDYDLNRAAEL--KYGTMISLQRQLEEAEKN 610
W E DL R+RS++++ L E A+R A + Y T+ + Q QL+ +
Sbjct: 124 W--ELDLFGRLRSLRDQALEQYLATEQAQRSAQTTLVASVATAYLTLKADQAQLQLTKDT 181
Query: 611 LSEFQKS 617
L +QKS
Sbjct: 182 LGTYQKS 188
>pdb|3D5K|A Chain A, Crystal Structure Of The Oprm Channel In A Non-Symmetrical
Space Group
pdb|3D5K|B Chain B, Crystal Structure Of The Oprm Channel In A Non-Symmetrical
Space Group
pdb|3D5K|C Chain C, Crystal Structure Of The Oprm Channel In A Non-Symmetrical
Space Group
Length = 474
Score = 29.6 bits (65), Expect = 9.2, Method: Compositional matrix adjust.
Identities = 21/67 (31%), Positives = 33/67 (49%), Gaps = 4/67 (5%)
Query: 553 WSREKDLMSRIRSIKEEIDRVNLEMEAAERDYDLNRAAEL--KYGTMISLQRQLEEAEKN 610
W E DL R+RS++++ L E A+R A + Y T+ + Q QL+ +
Sbjct: 124 W--ELDLFGRLRSLRDQALEQYLATEQAQRSAQTTLVASVATAYLTLKADQAQLQLTKDT 181
Query: 611 LSEFQKS 617
L +QKS
Sbjct: 182 LGTYQKS 188
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
0.316 0.133 0.364
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 25,509,852
Number of Sequences: 62578
Number of extensions: 1024018
Number of successful extensions: 4126
Number of sequences better than 100.0: 129
Number of HSP's better than 100.0 without gapping: 29
Number of HSP's successfully gapped in prelim test: 100
Number of HSP's that attempted gapping in prelim test: 3957
Number of HSP's gapped (non-prelim): 239
length of query: 982
length of database: 14,973,337
effective HSP length: 108
effective length of query: 874
effective length of database: 8,214,913
effective search space: 7179833962
effective search space used: 7179833962
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)