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= 003623
         (807 letters)

Database: pdbaa 
           62,578 sequences; 14,973,337 total letters

Searching..................................................done



>pdb|1R7R|A Chain A, The Crystal Structure Of Murine P97VCP AT 3.6A
          Length = 816

 Score = 1227 bits (3174), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 600/776 (77%), Positives = 678/776 (87%), Gaps = 4/776 (0%)

Query: 5   AESSDAKGTKRDFSTAILERKKAPNRLVVDEAINDDNSVVVLHPDTMEKLQFFRGDTILI 64
           A  +D+KG   D STAIL++K  PNRL+VDEAIN+DNSVV L    M++LQ FRGDT+L+
Sbjct: 2   ASGADSKGD--DLSTAILKQKNRPNRLIVDEAINEDNSVVSLSQPKMDELQLFRGDTVLL 59

Query: 65  KGKKRKDTVCIALADDTCEEPKIRMNKVVRSNLRVRLGDVVSVHQCADVKYGKRVHILPV 124
           KGKKR++ VCI L+DDTC + KIRMN+VVR+NLRVRLGDV+S+  C DVKYGKR+H+LP+
Sbjct: 60  KGKKRREAVCIVLSDDTCSDEKIRMNRVVRNNLRVRLGDVISIQPCPDVKYGKRIHVLPI 119

Query: 125 DDTIEGVTGNLFDAYLKPYFTEAYRPVRKGDLFLVRGGMRSVEFKVIETDPPEYCVVAPD 184
           DDT+EG+TGNLF+ YLKPYF EAYRP+RKGD+FLVRGGMR+VEFKV+ETDP  YC+VAPD
Sbjct: 120 DDTVEGITGNLFEVYLKPYFLEAYRPIRKGDIFLVRGGMRAVEFKVVETDPSPYCIVAPD 179

Query: 185 TEIFCEGEPVRREDENR-LDEVGYDDVGGVRKQMAQIRELVELPLRHPQLFKSIGVKPPK 243
           T I CEGEP++REDE   L+EVGYDDVGG RKQ+AQI+E+VELPLRHP LFK+IGVKPP+
Sbjct: 180 TVIHCEGEPIKREDEEESLNEVGYDDVGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPR 239

Query: 244 GILLYGPPGSGKTLIARAVANETGAFFFCINGPEIMSKLAGESESNLRKAFEEAEKNAPS 303
           GILLYGPPG+GKTLIARAVANETGAFFF INGPEIMSKLAGESESNLRKAFEEAEKNAP+
Sbjct: 240 GILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESESNLRKAFEEAEKNAPA 299

Query: 304 IIFIDEIDSIAPKREKTHGEVERRIVSQLLTLMDGLKSRAHVIVIGATNRPNSIDPALRR 363
           IIFIDE+D+IAPKREKTHGEVERRIVSQLLTLMDGLK RAHVIV+ ATNRPNSIDPALRR
Sbjct: 300 IIFIDELDAIAPKREKTHGEVERRIVSQLLTLMDGLKQRAHVIVMAATNRPNSIDPALRR 359

Query: 364 FGRFDREIDIGVPDEVGRLEVLRIHTKNMKLSDDVDLERIAKDTHGYVGADLAALCTEAA 423
           FGRFDRE+DIG+PD  GRLE+L+IHTKNMKL+DDVDLE++A +THG+VGADLAALC+EAA
Sbjct: 360 FGRFDREVDIGIPDATGRLEILQIHTKNMKLADDVDLEQVANETHGHVGADLAALCSEAA 419

Query: 424 LQCIREKMDVIDLEDETIDAEILNSMAVTDEHFKTALGTSNPSALRETVVEVPNVNWEDI 483
           LQ IR+KMD+IDLEDETIDAE++NS+AVT + F+ AL  SNPSALRETVVEVP V WEDI
Sbjct: 420 LQAIRKKMDLIDLEDETIDAEVMNSLAVTMDDFRWALSQSNPSALRETVVEVPQVTWEDI 479

Query: 484 GGLENVKRELQETVQYPVEHPEKFEKFGMSPSKGVLFYGPPGCGKTLLAKAIANECQANF 543
           GGLE+VKRELQE VQYPVEHP+KF KFGM+PSKGVLFYGPPGCGKTLLAKAIANECQANF
Sbjct: 480 GGLEDVKRELQELVQYPVEHPDKFLKFGMTPSKGVLFYGPPGCGKTLLAKAIANECQANF 539

Query: 544 ISVKGPELLTMWFGESEANVREIFDKARQSAPCVLFFDELDSIATQXXXXXXXXXXXXXX 603
           IS+KGPELLTMWFGESEANVREIFDKARQ+APCVLFFDELDSIA                
Sbjct: 540 ISIKGPELLTMWFGESEANVREIFDKARQAAPCVLFFDELDSIAKARGGNIGDGGGAADR 599

Query: 604 XLNQLLTEMDGMSAKKTVFIIGATNRPDIIDPALLRPGRLDQLIYIPLPDEESRLQIFKA 663
            +NQ+LTEMDGMS KK VFIIGATNRPDIIDPA+LRPGRLDQLIYIPLPDE+SR+ I KA
Sbjct: 600 VINQILTEMDGMSTKKNVFIIGATNRPDIIDPAILRPGRLDQLIYIPLPDEKSRVAILKA 659

Query: 664 CLRKSPVSKDVDLRALAKYTQGFSGADITEICQRACKYAIRENIEKDIERERRRSENPXX 723
            LRKSPV+KDVDL  LAK T GFSGAD+TEICQRACK AIRE+IE +I RER R  NP  
Sbjct: 660 NLRKSPVAKDVDLEFLAKMTNGFSGADLTEICQRACKLAIRESIESEIRRERERQTNPSA 719

Query: 724 XXXXXXXXXXXIKAVHFEESMKYARRSVSDADIRKYQAFAQTLQQSRGFGSEFRFP 779
                      I+  HFEE+M++ARRSVSD DIRKY+ FAQTLQQSRGFGS FRFP
Sbjct: 720 MEVEEDDPVPEIRRDHFEEAMRFARRSVSDNDIRKYEMFAQTLQQSRGFGS-FRFP 774


>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 = 1226 bits (3173), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 599/776 (77%), Positives = 678/776 (87%), Gaps = 4/776 (0%)

Query: 5   AESSDAKGTKRDFSTAILERKKAPNRLVVDEAINDDNSVVVLHPDTMEKLQFFRGDTILI 64
           A  +D+KG   D STAIL++K  PNRL+VDEAIN+DNSVV L    M++LQ FRGDT+L+
Sbjct: 2   ASGADSKGD--DLSTAILKQKNRPNRLIVDEAINEDNSVVSLSQPKMDELQLFRGDTVLL 59

Query: 65  KGKKRKDTVCIALADDTCEEPKIRMNKVVRSNLRVRLGDVVSVHQCADVKYGKRVHILPV 124
           KGKKR++ VCI L+DDTC + KIRMN+VVR+NLRVRLGDV+S+  C DVKYGKR+H+LP+
Sbjct: 60  KGKKRREAVCIVLSDDTCSDEKIRMNRVVRNNLRVRLGDVISIQPCPDVKYGKRIHVLPI 119

Query: 125 DDTIEGVTGNLFDAYLKPYFTEAYRPVRKGDLFLVRGGMRSVEFKVIETDPPEYCVVAPD 184
           DDT+EG+TGNLF+ YLKPYF EAYRP+RKGD+FLVRGGMR+VEFKV+ETDP  YC+VAPD
Sbjct: 120 DDTVEGITGNLFEVYLKPYFLEAYRPIRKGDIFLVRGGMRAVEFKVVETDPSPYCIVAPD 179

Query: 185 TEIFCEGEPVRREDENR-LDEVGYDDVGGVRKQMAQIRELVELPLRHPQLFKSIGVKPPK 243
           T I CEGEP++REDE   L+EVGYDD+GG RKQ+AQI+E+VELPLRHP LFK+IGVKPP+
Sbjct: 180 TVIHCEGEPIKREDEEESLNEVGYDDIGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPR 239

Query: 244 GILLYGPPGSGKTLIARAVANETGAFFFCINGPEIMSKLAGESESNLRKAFEEAEKNAPS 303
           GILLYGPPG+GKTLIARAVANETGAFFF INGPEIMSKLAGESESNLRKAFEEAEKNAP+
Sbjct: 240 GILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESESNLRKAFEEAEKNAPA 299

Query: 304 IIFIDEIDSIAPKREKTHGEVERRIVSQLLTLMDGLKSRAHVIVIGATNRPNSIDPALRR 363
           IIFIDE+D+IAPKREKTHGEVERRIVSQLLTLMDGLK RAHVIV+ ATNRPNSIDPALRR
Sbjct: 300 IIFIDELDAIAPKREKTHGEVERRIVSQLLTLMDGLKQRAHVIVMAATNRPNSIDPALRR 359

Query: 364 FGRFDREIDIGVPDEVGRLEVLRIHTKNMKLSDDVDLERIAKDTHGYVGADLAALCTEAA 423
           FGRFDRE+DIG+PD  GRLE+L+IHTKNMKL+DDVDLE++A +THG+VGADLAALC+EAA
Sbjct: 360 FGRFDREVDIGIPDATGRLEILQIHTKNMKLADDVDLEQVANETHGHVGADLAALCSEAA 419

Query: 424 LQCIREKMDVIDLEDETIDAEILNSMAVTDEHFKTALGTSNPSALRETVVEVPNVNWEDI 483
           LQ IR+KMD+IDLEDETIDAE++NS+AVT + F+ AL  SNPSALRETVVEVP V WEDI
Sbjct: 420 LQAIRKKMDLIDLEDETIDAEVMNSLAVTMDDFRWALSQSNPSALRETVVEVPQVTWEDI 479

Query: 484 GGLENVKRELQETVQYPVEHPEKFEKFGMSPSKGVLFYGPPGCGKTLLAKAIANECQANF 543
           GGLE+VKRELQE VQYPVEHP+KF KFGM+PSKGVLFYGPPGCGKTLLAKAIANECQANF
Sbjct: 480 GGLEDVKRELQELVQYPVEHPDKFLKFGMTPSKGVLFYGPPGCGKTLLAKAIANECQANF 539

Query: 544 ISVKGPELLTMWFGESEANVREIFDKARQSAPCVLFFDELDSIATQXXXXXXXXXXXXXX 603
           IS+KGPELLTMWFGESEANVREIFDKARQ+APCVLFFDELDSIA                
Sbjct: 540 ISIKGPELLTMWFGESEANVREIFDKARQAAPCVLFFDELDSIAKARGGNIGDGGGAADR 599

Query: 604 XLNQLLTEMDGMSAKKTVFIIGATNRPDIIDPALLRPGRLDQLIYIPLPDEESRLQIFKA 663
            +NQ+LTEMDGMS KK VFIIGATNRPDIIDPA+LRPGRLDQLIYIPLPDE+SR+ I KA
Sbjct: 600 VINQILTEMDGMSTKKNVFIIGATNRPDIIDPAILRPGRLDQLIYIPLPDEKSRVAILKA 659

Query: 664 CLRKSPVSKDVDLRALAKYTQGFSGADITEICQRACKYAIRENIEKDIERERRRSENPXX 723
            LRKSPV+KDVDL  LAK T GFSGAD+TEICQRACK AIRE+IE +I RER R  NP  
Sbjct: 660 NLRKSPVAKDVDLEFLAKMTNGFSGADLTEICQRACKLAIRESIESEIRRERERQTNPSA 719

Query: 724 XXXXXXXXXXXIKAVHFEESMKYARRSVSDADIRKYQAFAQTLQQSRGFGSEFRFP 779
                      I+  HFEE+M++ARRSVSD DIRKY+ FAQTLQQSRGFGS FRFP
Sbjct: 720 MEVEEDDPVPEIRRDHFEEAMRFARRSVSDNDIRKYEMFAQTLQQSRGFGS-FRFP 774


>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 =  798 bits (2062), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 376/482 (78%), Positives = 435/482 (90%), Gaps = 3/482 (0%)

Query: 5   AESSDAKGTKRDFSTAILERKKAPNRLVVDEAINDDNSVVVLHPDTMEKLQFFRGDTILI 64
           A  +D+KG   D STAIL++K  PNRL+VDEAIN+DNSVV L    M++LQ FRGDT+L+
Sbjct: 2   ASGADSKGD--DLSTAILKQKNRPNRLIVDEAINEDNSVVSLSQPKMDELQLFRGDTVLL 59

Query: 65  KGKKRKDTVCIALADDTCEEPKIRMNKVVRSNLRVRLGDVVSVHQCADVKYGKRVHILPV 124
           KGKKR++ VCI L+DDTC + KIRMN VVR+NLRVRLGDV+S+  C DVKYGKR+H+LP+
Sbjct: 60  KGKKRREAVCIVLSDDTCSDEKIRMNAVVRNNLRVRLGDVISIQPCPDVKYGKRIHVLPI 119

Query: 125 DDTIEGVTGNLFDAYLKPYFTEAYRPVRKGDLFLVRGGMRSVEFKVIETDPPEYCVVAPD 184
           DDT+EG+TGNLF+ YLKPYF EAYRP+RKGD+FLVRGGMR+VEFKV+ETDP  YC+VAPD
Sbjct: 120 DDTVEGITGNLFEVYLKPYFLEAYRPIRKGDIFLVRGGMRAVEFKVVETDPSPYCIVAPD 179

Query: 185 TEIFCEGEPVRREDENR-LDEVGYDDVGGVRKQMAQIRELVELPLRHPQLFKSIGVKPPK 243
           T I CEGEP++REDE   L+EVGYDD+GG RKQ+AQI+E+VELPLRHP LFK+IGVKPP+
Sbjct: 180 TVIHCEGEPIKREDEEESLNEVGYDDIGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPR 239

Query: 244 GILLYGPPGSGKTLIARAVANETGAFFFCINGPEIMSKLAGESESNLRKAFEEAEKNAPS 303
           GILLYGPPG+GKTLIARAVANETGAFFF INGPEIMSKLAGESESNLRKAFEEAEKNAP+
Sbjct: 240 GILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESESNLRKAFEEAEKNAPA 299

Query: 304 IIFIDEIDSIAPKREKTHGEVERRIVSQLLTLMDGLKSRAHVIVIGATNRPNSIDPALRR 363
           IIFIDE+D+IAPKREKTHGEVERRIVSQLLTLMDGLK RAHVIV+ ATNRPNSIDPALRR
Sbjct: 300 IIFIDELDAIAPKREKTHGEVERRIVSQLLTLMDGLKQRAHVIVMAATNRPNSIDPALRR 359

Query: 364 FGRFDREIDIGVPDEVGRLEVLRIHTKNMKLSDDVDLERIAKDTHGYVGADLAALCTEAA 423
           FGRFDRE+DIG+PD  GRLE+L+IHTKNMKL+DDVDLE++A +THG+VGADLAALC+EAA
Sbjct: 360 FGRFDREVDIGIPDATGRLEILQIHTKNMKLADDVDLEQVANETHGHVGADLAALCSEAA 419

Query: 424 LQCIREKMDVIDLEDETIDAEILNSMAVTDEHFKTALGTSNPSALRETVVEVPNVNWEDI 483
           LQ IR+KMD+IDLEDETIDAE++NS+AVT + F+ AL  SNPSALRETVVEVP V WEDI
Sbjct: 420 LQAIRKKMDLIDLEDETIDAEVMNSLAVTMDDFRWALSQSNPSALRETVVEVPQVTWEDI 479

Query: 484 GG 485
           GG
Sbjct: 480 GG 481



 Score =  194 bits (494), Expect = 1e-49,   Method: Compositional matrix adjust.
 Identities = 94/231 (40%), Positives = 144/231 (62%), Gaps = 3/231 (1%)

Query: 478 VNWEDIGGLENVKRELQETVQYPVEHPEKFEKFGMSPSKGVLFYGPPGCGKTLLAKAIAN 537
           V ++DIGG      +++E V+ P+ HP  F+  G+ P +G+L YGPPG GKTL+A+A+AN
Sbjct: 201 VGYDDIGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVAN 260

Query: 538 ECQANFISVKGPELLTMWFGESEANVREIFDKARQSAPCVLFFDELDSIATQXXXXXXXX 597
           E  A F  + GPE+++   GESE+N+R+ F++A ++AP ++F DELD+IA +        
Sbjct: 261 ETGAFFFLINGPEIMSKLAGESESNLRKAFEEAEKNAPAIIFIDELDAIAPK---REKTH 317

Query: 598 XXXXXXXLNQLLTEMDGMSAKKTVFIIGATNRPDIIDPALLRPGRLDQLIYIPLPDEESR 657
                  ++QLLT MDG+  +  V ++ ATNRP+ IDPAL R GR D+ + I +PD   R
Sbjct: 318 GEVERRIVSQLLTLMDGLKQRAHVIVMAATNRPNSIDPALRRFGRFDREVDIGIPDATGR 377

Query: 658 LQIFKACLRKSPVSKDVDLRALAKYTQGFSGADITEICQRACKYAIRENIE 708
           L+I +   +   ++ DVDL  +A  T G  GAD+  +C  A   AIR+ ++
Sbjct: 378 LEILQIHTKNMKLADDVDLEQVANETHGHVGADLAALCSEAALQAIRKKMD 428


>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 =  797 bits (2058), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 375/482 (77%), Positives = 435/482 (90%), Gaps = 3/482 (0%)

Query: 5   AESSDAKGTKRDFSTAILERKKAPNRLVVDEAINDDNSVVVLHPDTMEKLQFFRGDTILI 64
           A  +D+KG   D STAIL++K  PNRL+VDEAIN+DNSVV L    M++LQ FRGDT+L+
Sbjct: 2   ASGADSKGD--DLSTAILKQKNRPNRLIVDEAINEDNSVVSLSQPKMDELQLFRGDTVLL 59

Query: 65  KGKKRKDTVCIALADDTCEEPKIRMNKVVRSNLRVRLGDVVSVHQCADVKYGKRVHILPV 124
           KGKKR++ VCI L+DDTC + KIRMN+VVR+NLRVRLGDV+S+  C DVKYGKR+H+LP+
Sbjct: 60  KGKKRREAVCIVLSDDTCSDEKIRMNRVVRNNLRVRLGDVISIQPCPDVKYGKRIHVLPI 119

Query: 125 DDTIEGVTGNLFDAYLKPYFTEAYRPVRKGDLFLVRGGMRSVEFKVIETDPPEYCVVAPD 184
           DDT+EG+TGNLF+ YLKPYF EAYRP+RKGD+FLV GGMR+VEFKV+ETDP  YC+VAPD
Sbjct: 120 DDTVEGITGNLFEVYLKPYFLEAYRPIRKGDIFLVHGGMRAVEFKVVETDPSPYCIVAPD 179

Query: 185 TEIFCEGEPVRREDENR-LDEVGYDDVGGVRKQMAQIRELVELPLRHPQLFKSIGVKPPK 243
           T I CEGEP++REDE   L+EVGYDD+GG RKQ+AQI+E+VELPLRHP LFK+IGVKPP+
Sbjct: 180 TVIHCEGEPIKREDEEESLNEVGYDDIGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPR 239

Query: 244 GILLYGPPGSGKTLIARAVANETGAFFFCINGPEIMSKLAGESESNLRKAFEEAEKNAPS 303
           GILLYGPPG+GKTLIARAVANETGAFFF INGPEIMSKLAGESESNLRKAFEEAEKNAP+
Sbjct: 240 GILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESESNLRKAFEEAEKNAPA 299

Query: 304 IIFIDEIDSIAPKREKTHGEVERRIVSQLLTLMDGLKSRAHVIVIGATNRPNSIDPALRR 363
           IIFIDE+D+IAPKREKTHGEVERRIVSQLLTLMDGLK RAHVIV+ ATNRPNSIDPALRR
Sbjct: 300 IIFIDELDAIAPKREKTHGEVERRIVSQLLTLMDGLKQRAHVIVMAATNRPNSIDPALRR 359

Query: 364 FGRFDREIDIGVPDEVGRLEVLRIHTKNMKLSDDVDLERIAKDTHGYVGADLAALCTEAA 423
           FGRFDRE+DIG+PD  GRLE+L+IHTKNMKL+DDVDLE++A +THG+VGADLAALC+EAA
Sbjct: 360 FGRFDREVDIGIPDATGRLEILQIHTKNMKLADDVDLEQVANETHGHVGADLAALCSEAA 419

Query: 424 LQCIREKMDVIDLEDETIDAEILNSMAVTDEHFKTALGTSNPSALRETVVEVPNVNWEDI 483
           LQ IR+KMD+IDLEDETIDAE++NS+AVT + F+ AL  SNPSALRETVVEVP V WEDI
Sbjct: 420 LQAIRKKMDLIDLEDETIDAEVMNSLAVTMDDFRWALSQSNPSALRETVVEVPQVTWEDI 479

Query: 484 GG 485
           GG
Sbjct: 480 GG 481



 Score =  194 bits (493), Expect = 1e-49,   Method: Compositional matrix adjust.
 Identities = 94/231 (40%), Positives = 144/231 (62%), Gaps = 3/231 (1%)

Query: 478 VNWEDIGGLENVKRELQETVQYPVEHPEKFEKFGMSPSKGVLFYGPPGCGKTLLAKAIAN 537
           V ++DIGG      +++E V+ P+ HP  F+  G+ P +G+L YGPPG GKTL+A+A+AN
Sbjct: 201 VGYDDIGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVAN 260

Query: 538 ECQANFISVKGPELLTMWFGESEANVREIFDKARQSAPCVLFFDELDSIATQXXXXXXXX 597
           E  A F  + GPE+++   GESE+N+R+ F++A ++AP ++F DELD+IA +        
Sbjct: 261 ETGAFFFLINGPEIMSKLAGESESNLRKAFEEAEKNAPAIIFIDELDAIAPK---REKTH 317

Query: 598 XXXXXXXLNQLLTEMDGMSAKKTVFIIGATNRPDIIDPALLRPGRLDQLIYIPLPDEESR 657
                  ++QLLT MDG+  +  V ++ ATNRP+ IDPAL R GR D+ + I +PD   R
Sbjct: 318 GEVERRIVSQLLTLMDGLKQRAHVIVMAATNRPNSIDPALRRFGRFDREVDIGIPDATGR 377

Query: 658 LQIFKACLRKSPVSKDVDLRALAKYTQGFSGADITEICQRACKYAIRENIE 708
           L+I +   +   ++ DVDL  +A  T G  GAD+  +C  A   AIR+ ++
Sbjct: 378 LEILQIHTKNMKLADDVDLEQVANETHGHVGADLAALCSEAALQAIRKKMD 428


>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 =  796 bits (2056), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 375/482 (77%), Positives = 435/482 (90%), Gaps = 3/482 (0%)

Query: 5   AESSDAKGTKRDFSTAILERKKAPNRLVVDEAINDDNSVVVLHPDTMEKLQFFRGDTILI 64
           A  +D+KG   D STAIL++K  PNRL+VDEAIN+DNSVV L    M++LQ FRGDT+L+
Sbjct: 2   ASGADSKGD--DLSTAILKQKNRPNRLIVDEAINEDNSVVSLSQPKMDELQLFRGDTVLL 59

Query: 65  KGKKRKDTVCIALADDTCEEPKIRMNKVVRSNLRVRLGDVVSVHQCADVKYGKRVHILPV 124
           KGKKR++ VCI L+DDTC + KIRMN+VVR+NLRV LGDV+S+  C DVKYGKR+H+LP+
Sbjct: 60  KGKKRREAVCIVLSDDTCSDEKIRMNRVVRNNLRVGLGDVISIQPCPDVKYGKRIHVLPI 119

Query: 125 DDTIEGVTGNLFDAYLKPYFTEAYRPVRKGDLFLVRGGMRSVEFKVIETDPPEYCVVAPD 184
           DDT+EG+TGNLF+ YLKPYF EAYRP+RKGD+FLVRGGMR+VEFKV+ETDP  YC+VAPD
Sbjct: 120 DDTVEGITGNLFEVYLKPYFLEAYRPIRKGDIFLVRGGMRAVEFKVVETDPSPYCIVAPD 179

Query: 185 TEIFCEGEPVRREDENR-LDEVGYDDVGGVRKQMAQIRELVELPLRHPQLFKSIGVKPPK 243
           T I CEGEP++REDE   L+EVGYDD+GG RKQ+AQI+E+VELPLRHP LFK+IGVKPP+
Sbjct: 180 TVIHCEGEPIKREDEEESLNEVGYDDIGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPR 239

Query: 244 GILLYGPPGSGKTLIARAVANETGAFFFCINGPEIMSKLAGESESNLRKAFEEAEKNAPS 303
           GILLYGPPG+GKTLIARAVANETGAFFF INGPEIMSKLAGESESNLRKAFEEAEKNAP+
Sbjct: 240 GILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESESNLRKAFEEAEKNAPA 299

Query: 304 IIFIDEIDSIAPKREKTHGEVERRIVSQLLTLMDGLKSRAHVIVIGATNRPNSIDPALRR 363
           IIFIDE+D+IAPKREKTHGEVERRIVSQLLTLMDGLK RAHVIV+ ATNRPNSIDPALRR
Sbjct: 300 IIFIDELDAIAPKREKTHGEVERRIVSQLLTLMDGLKQRAHVIVMAATNRPNSIDPALRR 359

Query: 364 FGRFDREIDIGVPDEVGRLEVLRIHTKNMKLSDDVDLERIAKDTHGYVGADLAALCTEAA 423
           FGRFDRE+DIG+PD  GRLE+L+IHTKNMKL+DDVDLE++A +THG+VGADLAALC+EAA
Sbjct: 360 FGRFDREVDIGIPDATGRLEILQIHTKNMKLADDVDLEQVANETHGHVGADLAALCSEAA 419

Query: 424 LQCIREKMDVIDLEDETIDAEILNSMAVTDEHFKTALGTSNPSALRETVVEVPNVNWEDI 483
           LQ IR+KMD+IDLEDETIDAE++NS+AVT + F+ AL  SNPSALRETVVEVP V WEDI
Sbjct: 420 LQAIRKKMDLIDLEDETIDAEVMNSLAVTMDDFRWALSQSNPSALRETVVEVPQVTWEDI 479

Query: 484 GG 485
           GG
Sbjct: 480 GG 481



 Score =  194 bits (494), Expect = 1e-49,   Method: Compositional matrix adjust.
 Identities = 94/231 (40%), Positives = 144/231 (62%), Gaps = 3/231 (1%)

Query: 478 VNWEDIGGLENVKRELQETVQYPVEHPEKFEKFGMSPSKGVLFYGPPGCGKTLLAKAIAN 537
           V ++DIGG      +++E V+ P+ HP  F+  G+ P +G+L YGPPG GKTL+A+A+AN
Sbjct: 201 VGYDDIGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVAN 260

Query: 538 ECQANFISVKGPELLTMWFGESEANVREIFDKARQSAPCVLFFDELDSIATQXXXXXXXX 597
           E  A F  + GPE+++   GESE+N+R+ F++A ++AP ++F DELD+IA +        
Sbjct: 261 ETGAFFFLINGPEIMSKLAGESESNLRKAFEEAEKNAPAIIFIDELDAIAPK---REKTH 317

Query: 598 XXXXXXXLNQLLTEMDGMSAKKTVFIIGATNRPDIIDPALLRPGRLDQLIYIPLPDEESR 657
                  ++QLLT MDG+  +  V ++ ATNRP+ IDPAL R GR D+ + I +PD   R
Sbjct: 318 GEVERRIVSQLLTLMDGLKQRAHVIVMAATNRPNSIDPALRRFGRFDREVDIGIPDATGR 377

Query: 658 LQIFKACLRKSPVSKDVDLRALAKYTQGFSGADITEICQRACKYAIRENIE 708
           L+I +   +   ++ DVDL  +A  T G  GAD+  +C  A   AIR+ ++
Sbjct: 378 LEILQIHTKNMKLADDVDLEQVANETHGHVGADLAALCSEAALQAIRKKMD 428


>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 =  756 bits (1952), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 356/457 (77%), Positives = 415/457 (90%), Gaps = 3/457 (0%)

Query: 5   AESSDAKGTKRDFSTAILERKKAPNRLVVDEAINDDNSVVVLHPDTMEKLQFFRGDTILI 64
           A  +D+KG   D STAIL++K  PNRL+VDEAIN+DNSVV L    M++LQ FRGDT+L+
Sbjct: 2   ASGADSKGD--DLSTAILKQKNRPNRLIVDEAINEDNSVVSLSQPKMDELQLFRGDTVLL 59

Query: 65  KGKKRKDTVCIALADDTCEEPKIRMNKVVRSNLRVRLGDVVSVHQCADVKYGKRVHILPV 124
           KGKKR++ VCI L+DDTC + KIRMN+VVR+NLRVRLGDV+S+  C DVKYGKR+H+LP+
Sbjct: 60  KGKKRREAVCIVLSDDTCSDEKIRMNRVVRNNLRVRLGDVISIQPCPDVKYGKRIHVLPI 119

Query: 125 DDTIEGVTGNLFDAYLKPYFTEAYRPVRKGDLFLVRGGMRSVEFKVIETDPPEYCVVAPD 184
           DDT+EG+TGNLF+ YLKPYF EAYRP+RKGD+FLVRGGMR+VEFKV+ETDP  YC+VAPD
Sbjct: 120 DDTVEGITGNLFEVYLKPYFLEAYRPIRKGDIFLVRGGMRAVEFKVVETDPSPYCIVAPD 179

Query: 185 TEIFCEGEPVRREDENR-LDEVGYDDVGGVRKQMAQIRELVELPLRHPQLFKSIGVKPPK 243
           T I CEGEP++REDE   L+EVGYDDVGG RKQ+AQI+E+VELPLRHP LFK+IGVKPP+
Sbjct: 180 TVIHCEGEPIKREDEEESLNEVGYDDVGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPR 239

Query: 244 GILLYGPPGSGKTLIARAVANETGAFFFCINGPEIMSKLAGESESNLRKAFEEAEKNAPS 303
           GILLYGPPG+GKTLIARAVANETGAFFF INGPEIMSKLAGESESNLRKAFEEAEKNAP+
Sbjct: 240 GILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESESNLRKAFEEAEKNAPA 299

Query: 304 IIFIDEIDSIAPKREKTHGEVERRIVSQLLTLMDGLKSRAHVIVIGATNRPNSIDPALRR 363
           IIFIDE+D+IAPKREKTHGEVERRIVSQLLTLMDGLK RAHVIV+ ATNRPNSIDPALRR
Sbjct: 300 IIFIDELDAIAPKREKTHGEVERRIVSQLLTLMDGLKQRAHVIVMAATNRPNSIDPALRR 359

Query: 364 FGRFDREIDIGVPDEVGRLEVLRIHTKNMKLSDDVDLERIAKDTHGYVGADLAALCTEAA 423
           FGRFDRE+DIG+PD  GRLE+L+IHTKNMKL+DDVDLE++A +THG+VGADLAALC+EAA
Sbjct: 360 FGRFDREVDIGIPDATGRLEILQIHTKNMKLADDVDLEQVANETHGHVGADLAALCSEAA 419

Query: 424 LQCIREKMDVIDLEDETIDAEILNSMAVTDEHFKTAL 460
           LQ IR+KMD+IDLEDETIDAE++NS+AVT + F+ AL
Sbjct: 420 LQAIRKKMDLIDLEDETIDAEVMNSLAVTMDDFRWAL 456



 Score =  194 bits (493), Expect = 2e-49,   Method: Compositional matrix adjust.
 Identities = 93/231 (40%), Positives = 144/231 (62%), Gaps = 3/231 (1%)

Query: 478 VNWEDIGGLENVKRELQETVQYPVEHPEKFEKFGMSPSKGVLFYGPPGCGKTLLAKAIAN 537
           V ++D+GG      +++E V+ P+ HP  F+  G+ P +G+L YGPPG GKTL+A+A+AN
Sbjct: 201 VGYDDVGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVAN 260

Query: 538 ECQANFISVKGPELLTMWFGESEANVREIFDKARQSAPCVLFFDELDSIATQXXXXXXXX 597
           E  A F  + GPE+++   GESE+N+R+ F++A ++AP ++F DELD+IA +        
Sbjct: 261 ETGAFFFLINGPEIMSKLAGESESNLRKAFEEAEKNAPAIIFIDELDAIAPK---REKTH 317

Query: 598 XXXXXXXLNQLLTEMDGMSAKKTVFIIGATNRPDIIDPALLRPGRLDQLIYIPLPDEESR 657
                  ++QLLT MDG+  +  V ++ ATNRP+ IDPAL R GR D+ + I +PD   R
Sbjct: 318 GEVERRIVSQLLTLMDGLKQRAHVIVMAATNRPNSIDPALRRFGRFDREVDIGIPDATGR 377

Query: 658 LQIFKACLRKSPVSKDVDLRALAKYTQGFSGADITEICQRACKYAIRENIE 708
           L+I +   +   ++ DVDL  +A  T G  GAD+  +C  A   AIR+ ++
Sbjct: 378 LEILQIHTKNMKLADDVDLEQVANETHGHVGADLAALCSEAALQAIRKKMD 428


>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 =  446 bits (1146), Expect = e-125,   Method: Compositional matrix adjust.
 Identities = 229/301 (76%), Positives = 248/301 (82%)

Query: 467 ALRETVVEVPNVNWEDIGGLENVKRELQETVQYPVEHPEKFEKFGMSPSKGVLFYGPPGC 526
           ALRETVVEVP V WEDIGGLE+VKRELQE VQYPVEHP+KF KFGM+PSKGVLFYGPPGC
Sbjct: 1   ALRETVVEVPQVTWEDIGGLEDVKRELQELVQYPVEHPDKFLKFGMTPSKGVLFYGPPGC 60

Query: 527 GKTLLAKAIANECQANFISVKGPELLTMWFGESEANVREIFDKARQSAPCVLFFDELDSI 586
           GKTLLAKAIANECQANFIS+KGPELLTMWFGESEANVREIFDKARQ+APCVLFFDELDSI
Sbjct: 61  GKTLLAKAIANECQANFISIKGPELLTMWFGESEANVREIFDKARQAAPCVLFFDELDSI 120

Query: 587 ATQXXXXXXXXXXXXXXXLNQLLTEMDGMSAKKTVFIIGATNRPDIIDPALLRPGRLDQL 646
           A                 +NQ+LTEMDGMS KK VFIIGATNRPDIIDPA+LRPGRLDQL
Sbjct: 121 AKARGGNIGDGGGAADRVINQILTEMDGMSTKKNVFIIGATNRPDIIDPAILRPGRLDQL 180

Query: 647 IYIPLPDEESRLQIFKACLRKSPVSKDVDLRALAKYTQGFSGADITEICQRACKYAIREN 706
           IYIPLPDE+SR+ I KA LRKSPV+KDVDL  LAK T GFSGAD+TEICQRACK AIRE+
Sbjct: 181 IYIPLPDEKSRVAILKANLRKSPVAKDVDLEFLAKMTNGFSGADLTEICQRACKLAIRES 240

Query: 707 IEKDIERERRRSENPXXXXXXXXXXXXXIKAVHFEESMKYARRSVSDADIRKYQAFAQTL 766
           IE +I RER R  NP             I+  HFEE+M++ARRSVSD DIRKY+ FAQTL
Sbjct: 241 IESEIRRERERQTNPSAMEVEEDDPVPEIRRDHFEEAMRFARRSVSDNDIRKYEMFAQTL 300

Query: 767 Q 767
           Q
Sbjct: 301 Q 301



 Score =  210 bits (535), Expect = 2e-54,   Method: Compositional matrix adjust.
 Identities = 102/230 (44%), Positives = 155/230 (67%), Gaps = 3/230 (1%)

Query: 196 REDENRLDEVGYDDVGGVRKQMAQIRELVELPLRHPQLFKSIGVKPPKGILLYGPPGSGK 255
           RE    + +V ++D+GG+     +++ELV+ P+ HP  F   G+ P KG+L YGPPG GK
Sbjct: 3   RETVVEVPQVTWEDIGGLEDVKRELQELVQYPVEHPDKFLKFGMTPSKGVLFYGPPGCGK 62

Query: 256 TLIARAVANETGAFFFCINGPEIMSKLAGESESNLRKAFEEAEKNAPSIIFIDEIDSIAP 315
           TL+A+A+ANE  A F  I GPE+++   GESE+N+R+ F++A + AP ++F DE+DSIA 
Sbjct: 63  TLLAKAIANECQANFISIKGPELLTMWFGESEANVREIFDKARQAAPCVLFFDELDSIAK 122

Query: 316 KREKTHGEVER---RIVSQLLTLMDGLKSRAHVIVIGATNRPNSIDPALRRFGRFDREID 372
            R    G+      R+++Q+LT MDG+ ++ +V +IGATNRP+ IDPA+ R GR D+ I 
Sbjct: 123 ARGGNIGDGGGAADRVINQILTEMDGMSTKKNVFIIGATNRPDIIDPAILRPGRLDQLIY 182

Query: 373 IGVPDEVGRLEVLRIHTKNMKLSDDVDLERIAKDTHGYVGADLAALCTEA 422
           I +PDE  R+ +L+ + +   ++ DVDLE +AK T+G+ GADL  +C  A
Sbjct: 183 IPLPDEKSRVAILKANLRKSPVAKDVDLEFLAKMTNGFSGADLTEICQRA 232


>pdb|3QWZ|A Chain A, Crystal Structure Of Faf1 Ubx-P97n-Domain Complex
          Length = 211

 Score =  313 bits (803), Expect = 2e-85,   Method: Compositional matrix adjust.
 Identities = 145/212 (68%), Positives = 179/212 (84%), Gaps = 3/212 (1%)

Query: 2   SNQAESSDAKGTKRDFSTAILERKKAPNRLVVDEAINDDNSVVVLHPDTMEKLQFFRGDT 61
           S+ A  +D+KG   D STAIL++K  PNRL+VDEAIN+DNSVV L    M++LQ FRGDT
Sbjct: 2   SHMASGADSKGD--DLSTAILKQKNRPNRLIVDEAINEDNSVVSLSQPKMDELQLFRGDT 59

Query: 62  ILIKGKKRKDTVCIALADDTCEEPKIRMNKVVRSNLRVRLGDVVSVHQCADVKYGKRVHI 121
           +L+KG KR++ VCI L+DDTC + KIRMN+VVR+NLRVRLGDV+S+  C DVKYGKR+H+
Sbjct: 60  VLLKGXKRREAVCIVLSDDTCSDEKIRMNRVVRNNLRVRLGDVISIQPCPDVKYGKRIHV 119

Query: 122 LPVDDTIEGVTGNLFDAYLKPYFTEAYRPVRKGDLFLVRGGMRSVEFKVIETDPPEYCVV 181
           LP+DDT+EG+TGNLF+ YLKPYF EAYRP+RKGD+FLVRGGMR+VEF V+ETDP  YC+V
Sbjct: 120 LPIDDTVEGITGNLFEVYLKPYFLEAYRPIRKGDIFLVRGGMRAVEFXVVETDPSPYCIV 179

Query: 182 APDTEIFCEGEPVRREDENR-LDEVGYDDVGG 212
           APDT I CEGEP++REDE   L+EVGYDD+GG
Sbjct: 180 APDTVIHCEGEPIKREDEEESLNEVGYDDIGG 211


>pdb|2PJH|B Chain B, Strctural Model Of The P97 N Domain- Npl4 Ubd Complex
          Length = 193

 Score =  305 bits (782), Expect = 6e-83,   Method: Compositional matrix adjust.
 Identities = 139/191 (72%), Positives = 168/191 (87%), Gaps = 1/191 (0%)

Query: 28  PNRLVVDEAINDDNSVVVLHPDTMEKLQFFRGDTILIKGKKRKDTVCIALADDTCEEPKI 87
           PNRL+VDEAIN+DNSVV L    M++LQ FRGDT+L+KGKKR++ VCI L+DDTC + KI
Sbjct: 3   PNRLIVDEAINEDNSVVSLSQPKMDELQLFRGDTVLLKGKKRREAVCIVLSDDTCSDEKI 62

Query: 88  RMNKVVRSNLRVRLGDVVSVHQCADVKYGKRVHILPVDDTIEGVTGNLFDAYLKPYFTEA 147
           RMN+VVR+NLRVRLGDV+S+  C DVKYGKR+H+LP+DDT+EG+TGNLF+ YLKPYF EA
Sbjct: 63  RMNRVVRNNLRVRLGDVISIQPCPDVKYGKRIHVLPIDDTVEGITGNLFEVYLKPYFLEA 122

Query: 148 YRPVRKGDLFLVRGGMRSVEFKVIETDPPEYCVVAPDTEIFCEGEPVRREDENR-LDEVG 206
           YRP+RKGD+FLVRGGMR+VEFKV+ETDP  YC+VAPDT I CEGEP++REDE   L+EVG
Sbjct: 123 YRPIRKGDIFLVRGGMRAVEFKVVETDPSPYCIVAPDTVIHCEGEPIKREDEEESLNEVG 182

Query: 207 YDDVGGVRKQM 217
           YDDVGG RKQ+
Sbjct: 183 YDDVGGCRKQL 193


>pdb|3QQ7|A Chain A, Crystal Structure Of The P97 N-Terminal Domain
 pdb|3QQ8|A Chain A, Crystal Structure Of P97-N In Complex With Faf1-Ubx
          Length = 186

 Score =  288 bits (738), Expect = 6e-78,   Method: Compositional matrix adjust.
 Identities = 132/188 (70%), Positives = 161/188 (85%), Gaps = 2/188 (1%)

Query: 5   AESSDAKGTKRDFSTAILERKKAPNRLVVDEAINDDNSVVVLHPDTMEKLQFFRGDTILI 64
           A  +D+KG   D STAIL++K  PNRL+VDEAIN+DNSVV L    M++LQ FRGDT+L+
Sbjct: 1   ASGADSKGD--DLSTAILKQKNRPNRLIVDEAINEDNSVVSLSQPKMDELQLFRGDTVLL 58

Query: 65  KGKKRKDTVCIALADDTCEEPKIRMNKVVRSNLRVRLGDVVSVHQCADVKYGKRVHILPV 124
           KGKKR++ VCI L+DDTC + KIRMN+VVR+NLRVRLGDV+S+  C DVKYGKR+H+LP+
Sbjct: 59  KGKKRREAVCIVLSDDTCSDEKIRMNRVVRNNLRVRLGDVISIQPCPDVKYGKRIHVLPI 118

Query: 125 DDTIEGVTGNLFDAYLKPYFTEAYRPVRKGDLFLVRGGMRSVEFKVIETDPPEYCVVAPD 184
           DDT+EG+TGNLF+ YLKPYF EAYRP+RKGD+FLVRGGMR+VEFKV+ETDP  YC+VAPD
Sbjct: 119 DDTVEGITGNLFEVYLKPYFLEAYRPIRKGDIFLVRGGMRAVEFKVVETDPSPYCIVAPD 178

Query: 185 TEIFCEGE 192
           T I CEGE
Sbjct: 179 TVIHCEGE 186


>pdb|3TIW|A Chain A, Crystal Structure Of P97n In Complex With The C-Terminus
           Of Gp78
 pdb|3TIW|B Chain B, Crystal Structure Of P97n In Complex With The C-Terminus
           Of Gp78
          Length = 187

 Score =  287 bits (735), Expect = 1e-77,   Method: Compositional matrix adjust.
 Identities = 132/188 (70%), Positives = 159/188 (84%), Gaps = 2/188 (1%)

Query: 5   AESSDAKGTKRDFSTAILERKKAPNRLVVDEAINDDNSVVVLHPDTMEKLQFFRGDTILI 64
           A  SD K    D STAIL++K  PNRL+VDEAIN+DNSVV L    M++LQ FRGDT+L+
Sbjct: 2   ASGSDTKSD--DLSTAILKQKSRPNRLIVDEAINEDNSVVSLSQPKMDELQLFRGDTVLL 59

Query: 65  KGKKRKDTVCIALADDTCEEPKIRMNKVVRSNLRVRLGDVVSVHQCADVKYGKRVHILPV 124
           KGKKR++ VCI L+DDTC + KIRMN+VVR+NLRVRLGDV+S+  C DVKYGKR+H+LP+
Sbjct: 60  KGKKRREAVCIVLSDDTCSDEKIRMNRVVRNNLRVRLGDVISIQPCPDVKYGKRIHVLPI 119

Query: 125 DDTIEGVTGNLFDAYLKPYFTEAYRPVRKGDLFLVRGGMRSVEFKVIETDPPEYCVVAPD 184
           DDT+EG+TGNLF+ YLKPYF EAYRP+RKGD+FLVRGGMR+VEFKV+ETDP  YC+VAPD
Sbjct: 120 DDTVEGITGNLFEVYLKPYFLEAYRPIRKGDIFLVRGGMRAVEFKVVETDPSPYCIVAPD 179

Query: 185 TEIFCEGE 192
           T I CEGE
Sbjct: 180 TVIHCEGE 187


>pdb|3QC8|A Chain A, Crystal Structure Of Faf1 Ubx Domain In Complex With
           P97VCP N DOMAIN Reveals The Conserved Fcisp Touch-Turn
           Motif Of Ubx Domain Suffering Conformational Change
          Length = 178

 Score =  283 bits (724), Expect = 3e-76,   Method: Compositional matrix adjust.
 Identities = 126/172 (73%), Positives = 153/172 (88%)

Query: 28  PNRLVVDEAINDDNSVVVLHPDTMEKLQFFRGDTILIKGKKRKDTVCIALADDTCEEPKI 87
           PNRL+VDEAIN+DNSVV L    M++LQ FRGDT+L+KGKKR++ VCI L+DDTC + KI
Sbjct: 5   PNRLIVDEAINEDNSVVSLSQPKMDELQLFRGDTVLLKGKKRREAVCIVLSDDTCSDEKI 64

Query: 88  RMNKVVRSNLRVRLGDVVSVHQCADVKYGKRVHILPVDDTIEGVTGNLFDAYLKPYFTEA 147
           RMN+VVR+NLRVRLGDV+S+  C DVKYGKR+H+LP+DDT+EG+TGNLF+ YLKPYF EA
Sbjct: 65  RMNRVVRNNLRVRLGDVISIQPCPDVKYGKRIHVLPIDDTVEGITGNLFEVYLKPYFLEA 124

Query: 148 YRPVRKGDLFLVRGGMRSVEFKVIETDPPEYCVVAPDTEIFCEGEPVRREDE 199
           YRP+RKGD+FLVRGGMR+VEFKV+ETDP  YC+VAPDT I CEGEP++REDE
Sbjct: 125 YRPIRKGDIFLVRGGMRAVEFKVVETDPSPYCIVAPDTVIHCEGEPIKREDE 176


>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 =  266 bits (681), Expect = 2e-71,   Method: Compositional matrix adjust.
 Identities = 133/237 (56%), Positives = 178/237 (75%), Gaps = 3/237 (1%)

Query: 205 VGYDDVGGVRKQMAQIRELVELPLRHPQLFKSIGVKPPKGILLYGPPGSGKTLIARAVAN 264
           V Y+D+GG+ KQM +IRE+VELPL+HP+LF+ +G++PPKGILLYGPPG+GKTL+A+AVA 
Sbjct: 14  VRYEDIGGLEKQMQEIREVVELPLKHPELFEKVGIEPPKGILLYGPPGTGKTLLAKAVAT 73

Query: 265 ETGAFFFCINGPEIMSKLAGESESNLRKAFEEAEKNAPSIIFIDEIDSIAPKREK--THG 322
           ET A F  + G E++ K  GE  S ++  F+ A++ APSIIFIDEID+IA KR    T G
Sbjct: 74  ETNATFIRVVGSELVKKFIGEGASLVKDIFKLAKEKAPSIIFIDEIDAIAAKRTDALTGG 133

Query: 323 EVE-RRIVSQLLTLMDGLKSRAHVIVIGATNRPNSIDPALRRFGRFDREIDIGVPDEVGR 381
           + E +R + QLL  MDG  +R  V +IGATNRP+ +DPA+ R GRFDR I++  PDE GR
Sbjct: 134 DREVQRTLMQLLAEMDGFDARGDVKIIGATNRPDILDPAILRPGRFDRIIEVPAPDEKGR 193

Query: 382 LEVLRIHTKNMKLSDDVDLERIAKDTHGYVGADLAALCTEAALQCIREKMDVIDLED 438
           LE+L+IHT+ M L++DV+LE IAK T G VGA+L A+CTEA +  IRE  D + ++D
Sbjct: 194 LEILKIHTRKMNLAEDVNLEEIAKMTEGCVGAELKAICTEAGMNAIRELRDYVTMDD 250



 Score =  242 bits (618), Expect = 5e-64,   Method: Compositional matrix adjust.
 Identities = 119/234 (50%), Positives = 157/234 (67%)

Query: 472 VVEVPNVNWEDIGGLENVKRELQETVQYPVEHPEKFEKFGMSPSKGVLFYGPPGCGKTLL 531
           V E PNV +EDIGGLE   +E++E V+ P++HPE FEK G+ P KG+L YGPPG GKTLL
Sbjct: 8   VDERPNVRYEDIGGLEKQMQEIREVVELPLKHPELFEKVGIEPPKGILLYGPPGTGKTLL 67

Query: 532 AKAIANECQANFISVKGPELLTMWFGESEANVREIFDKARQSAPCVLFFDELDSIATQXX 591
           AKA+A E  A FI V G EL+  + GE  + V++IF  A++ AP ++F DE+D+IA +  
Sbjct: 68  AKAVATETNATFIRVVGSELVKKFIGEGASLVKDIFKLAKEKAPSIIFIDEIDAIAAKRT 127

Query: 592 XXXXXXXXXXXXXLNQLLTEMDGMSAKKTVFIIGATNRPDIIDPALLRPGRLDQLIYIPL 651
                        L QLL EMDG  A+  V IIGATNRPDI+DPA+LRPGR D++I +P 
Sbjct: 128 DALTGGDREVQRTLMQLLAEMDGFDARGDVKIIGATNRPDILDPAILRPGRFDRIIEVPA 187

Query: 652 PDEESRLQIFKACLRKSPVSKDVDLRALAKYTQGFSGADITEICQRACKYAIRE 705
           PDE+ RL+I K   RK  +++DV+L  +AK T+G  GA++  IC  A   AIRE
Sbjct: 188 PDEKGRLEILKIHTRKMNLAEDVNLEEIAKMTEGCVGAELKAICTEAGMNAIRE 241


>pdb|2X8A|A Chain A, Human Nuclear Valosin Containing Protein Like (Nvl), C-
           Terminal Aaa-Atpase Domain
          Length = 274

 Score =  245 bits (626), Expect = 6e-65,   Method: Compositional matrix adjust.
 Identities = 129/288 (44%), Positives = 177/288 (61%), Gaps = 22/288 (7%)

Query: 473 VEVPNVNWEDIGGLENVKRELQETVQYPVEHPEKFEKFGMSPSKGVLFYGPPGCGKTLLA 532
           + VPNV W DIG LE+++ EL   +  PV +P++F+  G+    GVL  GPPGCGKTLLA
Sbjct: 2   MTVPNVTWADIGALEDIREELTMAILAPVRNPDQFKALGLVTPAGVLLAGPPGCGKTLLA 61

Query: 533 KAIANECQANFISVKGPELLTMWFGESEANVREIFDKARQSAPCVLFFDELDSIATQXXX 592
           KA+ANE   NFISVKGPELL M+ GESE  VR++F +A+ SAPCV+FFDE+D++  +   
Sbjct: 62  KAVANESGLNFISVKGPELLNMYVGESERAVRQVFQRAKNSAPCVIFFDEVDALCPR--- 118

Query: 593 XXXXXXXXXXXXLNQLLTEMDGMSAKKTVFIIGATNRPDIIDPALLRPGRLDQLIYIPLP 652
                       +NQLLTEMDG+ A++ VFI+ ATNRPDIIDPA+LRPGRLD+ +++ LP
Sbjct: 119 RSDRETGASVRVVNQLLTEMDGLEARQQVFIMAATNRPDIIDPAILRPGRLDKTLFVGLP 178

Query: 653 DEESRLQIFKACLR---KSPVSKDVDLRALAK--YTQGFSGADITEICQRACKYAIRENI 707
               RL I K   +   K P+  DV+L A+A       ++GAD++ + + A   A+R+  
Sbjct: 179 PPADRLAILKTITKNGTKPPLDADVNLEAIAGDLRCDCYTGADLSALVREASICALRQ-- 236

Query: 708 EKDIERERRRSENPXXXXXXXXXXXXXIKAVHFEESMKYARRSVSDAD 755
               E  R++S N              +   HFEE+ K  R S+S  D
Sbjct: 237 ----EMARQKSGN--------EKGELKVSHKHFEEAFKKVRSSISKKD 272



 Score =  199 bits (507), Expect = 4e-51,   Method: Compositional matrix adjust.
 Identities = 100/232 (43%), Positives = 150/232 (64%), Gaps = 5/232 (2%)

Query: 205 VGYDDVGGVRKQMAQIRELVELPLRHPQLFKSIGVKPPKGILLYGPPGSGKTLIARAVAN 264
           V + D+G +     ++   +  P+R+P  FK++G+  P G+LL GPPG GKTL+A+AVAN
Sbjct: 7   VTWADIGALEDIREELTMAILAPVRNPDQFKALGLVTPAGVLLAGPPGCGKTLLAKAVAN 66

Query: 265 ETGAFFFCINGPEIMSKLAGESESNLRKAFEEAEKNAPSIIFIDEIDSIAPKREKTHGEV 324
           E+G  F  + GPE+++   GESE  +R+ F+ A+ +AP +IF DE+D++ P+R       
Sbjct: 67  ESGLNFISVKGPELLNMYVGESERAVRQVFQRAKNSAPCVIFFDEVDALCPRRSDRETGA 126

Query: 325 ERRIVSQLLTLMDGLKSRAHVIVIGATNRPNSIDPALRRFGRFDREIDIGVPDEVGRLEV 384
             R+V+QLLT MDGL++R  V ++ ATNRP+ IDPA+ R GR D+ + +G+P    RL +
Sbjct: 127 SVRVVNQLLTEMDGLEARQQVFIMAATNRPDIIDPAILRPGRLDKTLFVGLPPPADRLAI 186

Query: 385 LRIHTKNMK---LSDDVDLERIAKDTH--GYVGADLAALCTEAALQCIREKM 431
           L+  TKN     L  DV+LE IA D     Y GADL+AL  EA++  +R++M
Sbjct: 187 LKTITKNGTKPPLDADVNLEAIAGDLRCDCYTGADLSALVREASICALRQEM 238


>pdb|4B4T|J Chain J, Near-Atomic Resolution Structural Model Of The Yeast 26s
           Proteasome
          Length = 405

 Score =  213 bits (543), Expect = 2e-55,   Method: Compositional matrix adjust.
 Identities = 105/236 (44%), Positives = 162/236 (68%), Gaps = 5/236 (2%)

Query: 207 YDDVGGVRKQMAQIRELVELPLRHPQLFKSIGVKPPKGILLYGPPGSGKTLIARAVANET 266
           YD VGG+ KQ+ +I+E++ELP++HP+LF+S+G+  PKG++LYGPPG+GKTL+ARAVA+ T
Sbjct: 147 YDMVGGLTKQIKEIKEVIELPVKHPELFESLGIAQPKGVILYGPPGTGKTLLARAVAHHT 206

Query: 267 GAFFFCINGPEIMSKLAGESESNLRKAFEEAEKNAPSIIFIDEIDSIAPKREKTHG---- 322
              F  ++G E++ K  GE    +R+ F  A ++APSIIF+DEIDSI   R +  G    
Sbjct: 207 DCKFIRVSGAELVQKYIGEGSRMVRELFVMAREHAPSIIFMDEIDSIGSTRVEGSGGGDS 266

Query: 323 EVERRIVSQLLTLMDGLKSRAHVIVIGATNRPNSIDPALRRFGRFDREIDIGVPDEVGRL 382
           EV+R ++ +LL  +DG ++  ++ +I ATNR + +DPAL R GR DR+I+   P    R 
Sbjct: 267 EVQRTML-ELLNQLDGFETSKNIKIIMATNRLDILDPALLRPGRIDRKIEFPPPSVAARA 325

Query: 383 EVLRIHTKNMKLSDDVDLERIAKDTHGYVGADLAALCTEAALQCIREKMDVIDLED 438
           E+LRIH++ M L+  ++L ++A+  +G  GAD+  +CTEA +  +RE+   +  ED
Sbjct: 326 EILRIHSRKMNLTRGINLRKVAEKMNGCSGADVKGVCTEAGMYALRERRIHVTQED 381



 Score =  204 bits (520), Expect = 1e-52,   Method: Compositional matrix adjust.
 Identities = 98/234 (41%), Positives = 144/234 (61%)

Query: 472 VVEVPNVNWEDIGGLENVKRELQETVQYPVEHPEKFEKFGMSPSKGVLFYGPPGCGKTLL 531
           V +VP+  ++ +GGL    +E++E ++ PV+HPE FE  G++  KGV+ YGPPG GKTLL
Sbjct: 139 VEKVPDSTYDMVGGLTKQIKEIKEVIELPVKHPELFESLGIAQPKGVILYGPPGTGKTLL 198

Query: 532 AKAIANECQANFISVKGPELLTMWFGESEANVREIFDKARQSAPCVLFFDELDSIATQXX 591
           A+A+A+     FI V G EL+  + GE    VRE+F  AR+ AP ++F DE+DSI +   
Sbjct: 199 ARAVAHHTDCKFIRVSGAELVQKYIGEGSRMVRELFVMAREHAPSIIFMDEIDSIGSTRV 258

Query: 592 XXXXXXXXXXXXXLNQLLTEMDGMSAKKTVFIIGATNRPDIIDPALLRPGRLDQLIYIPL 651
                        + +LL ++DG    K + II ATNR DI+DPALLRPGR+D+ I  P 
Sbjct: 259 EGSGGGDSEVQRTMLELLNQLDGFETSKNIKIIMATNRLDILDPALLRPGRIDRKIEFPP 318

Query: 652 PDEESRLQIFKACLRKSPVSKDVDLRALAKYTQGFSGADITEICQRACKYAIRE 705
           P   +R +I +   RK  +++ ++LR +A+   G SGAD+  +C  A  YA+RE
Sbjct: 319 PSVAARAEILRIHSRKMNLTRGINLRKVAEKMNGCSGADVKGVCTEAGMYALRE 372


>pdb|4B4T|I Chain I, Near-Atomic Resolution Structural Model Of The Yeast 26s
           Proteasome
          Length = 437

 Score =  213 bits (541), Expect = 4e-55,   Method: Compositional matrix adjust.
 Identities = 110/235 (46%), Positives = 154/235 (65%), Gaps = 3/235 (1%)

Query: 207 YDDVGGVRKQMAQIRELVELPLRHPQLFKSIGVKPPKGILLYGPPGSGKTLIARAVANET 266
           Y D+GG+  Q+ +I+E VELPL HP+L++ +G+KPPKG++LYG PG+GKTL+A+AVAN+T
Sbjct: 181 YSDIGGLESQIQEIKESVELPLTHPELYEEMGIKPPKGVILYGAPGTGKTLLAKAVANQT 240

Query: 267 GAFFFCINGPEIMSKLAGESESNLRKAFEEAEKNAPSIIFIDEIDSIAPKREKTHGEVER 326
            A F  I G E++ K  G+     R+ F+ A +NAPSI+FIDEID+I  KR  ++   ER
Sbjct: 241 SATFLRIVGSELIQKYLGDGPRLCRQIFKVAGENAPSIVFIDEIDAIGTKRYDSNSGGER 300

Query: 327 ---RIVSQLLTLMDGLKSRAHVIVIGATNRPNSIDPALRRFGRFDREIDIGVPDEVGRLE 383
              R + +LL  +DG   R  V VI ATN+  ++DPAL R GR DR+I    PD   + +
Sbjct: 301 EIQRTMLELLNQLDGFDDRGDVKVIMATNKIETLDPALIRPGRIDRKILFENPDLSTKKK 360

Query: 384 VLRIHTKNMKLSDDVDLERIAKDTHGYVGADLAALCTEAALQCIREKMDVIDLED 438
           +L IHT  M LS+DV+LE +        GAD+ A+CTEA L  +RE+   +  ED
Sbjct: 361 ILGIHTSKMNLSEDVNLETLVTTKDDLSGADIQAMCTEAGLLALRERRMQVTAED 415



 Score =  182 bits (463), Expect = 5e-46,   Method: Compositional matrix adjust.
 Identities = 90/230 (39%), Positives = 138/230 (60%)

Query: 476 PNVNWEDIGGLENVKRELQETVQYPVEHPEKFEKFGMSPSKGVLFYGPPGCGKTLLAKAI 535
           P  ++ DIGGLE+  +E++E+V+ P+ HPE +E+ G+ P KGV+ YG PG GKTLLAKA+
Sbjct: 177 PTESYSDIGGLESQIQEIKESVELPLTHPELYEEMGIKPPKGVILYGAPGTGKTLLAKAV 236

Query: 536 ANECQANFISVKGPELLTMWFGESEANVREIFDKARQSAPCVLFFDELDSIATQXXXXXX 595
           AN+  A F+ + G EL+  + G+     R+IF  A ++AP ++F DE+D+I T+      
Sbjct: 237 ANQTSATFLRIVGSELIQKYLGDGPRLCRQIFKVAGENAPSIVFIDEIDAIGTKRYDSNS 296

Query: 596 XXXXXXXXXLNQLLTEMDGMSAKKTVFIIGATNRPDIIDPALLRPGRLDQLIYIPLPDEE 655
                    + +LL ++DG   +  V +I ATN+ + +DPAL+RPGR+D+ I    PD  
Sbjct: 297 GGEREIQRTMLELLNQLDGFDDRGDVKVIMATNKIETLDPALIRPGRIDRKILFENPDLS 356

Query: 656 SRLQIFKACLRKSPVSKDVDLRALAKYTQGFSGADITEICQRACKYAIRE 705
           ++ +I      K  +S+DV+L  L       SGADI  +C  A   A+RE
Sbjct: 357 TKKKILGIHTSKMNLSEDVNLETLVTTKDDLSGADIQAMCTEAGLLALRE 406


>pdb|4B4T|L Chain L, Near-Atomic Resolution Structural Model Of The Yeast 26s
           Proteasome
          Length = 437

 Score =  211 bits (538), Expect = 1e-54,   Method: Compositional matrix adjust.
 Identities = 105/238 (44%), Positives = 161/238 (67%), Gaps = 3/238 (1%)

Query: 204 EVGYDDVGGVRKQMAQIRELVELPLRHPQLFKSIGVKPPKGILLYGPPGSGKTLIARAVA 263
           E+ +D +GG+ +Q+ ++RE++ELPL++P++F+ +G+KPPKG+LLYGPPG+GKTL+A+AVA
Sbjct: 177 EITFDGIGGLTEQIRELREVIELPLKNPEIFQRVGIKPPKGVLLYGPPGTGKTLLAKAVA 236

Query: 264 NETGAFFFCINGPEIMSKLAGESESNLRKAFEEAEKNAPSIIFIDEIDSIAPKR--EKTH 321
              GA F       I+ K  GES   +R+ F  A+++ P IIF+DE+D+I  +R  E T 
Sbjct: 237 ATIGANFIFSPASGIVDKYIGESARIIREMFAYAKEHEPCIIFMDEVDAIGGRRFSEGTS 296

Query: 322 GEVE-RRIVSQLLTLMDGLKSRAHVIVIGATNRPNSIDPALRRFGRFDREIDIGVPDEVG 380
            + E +R + +LLT MDG  +     +I ATNRP+++DPAL R GR DR+++I +P+E G
Sbjct: 297 ADREIQRTLMELLTQMDGFDNLGQTKIIMATNRPDTLDPALLRPGRLDRKVEIPLPNEAG 356

Query: 381 RLEVLRIHTKNMKLSDDVDLERIAKDTHGYVGADLAALCTEAALQCIREKMDVIDLED 438
           RLE+ +IHT  +K + + D E   K + G+ GAD+    TEA    IR+  D I+ +D
Sbjct: 357 RLEIFKIHTAKVKKTGEFDFEAAVKMSDGFNGADIRNCATEAGFFAIRDDRDHINPDD 414



 Score =  202 bits (513), Expect = 7e-52,   Method: Compositional matrix adjust.
 Identities = 103/244 (42%), Positives = 144/244 (59%)

Query: 463 SNPSALRETVVEVPNVNWEDIGGLENVKRELQETVQYPVEHPEKFEKFGMSPSKGVLFYG 522
           ++P     T  E   + ++ IGGL    REL+E ++ P+++PE F++ G+ P KGVL YG
Sbjct: 163 TDPLVYNMTSFEQGEITFDGIGGLTEQIRELREVIELPLKNPEIFQRVGIKPPKGVLLYG 222

Query: 523 PPGCGKTLLAKAIANECQANFISVKGPELLTMWFGESEANVREIFDKARQSAPCVLFFDE 582
           PPG GKTLLAKA+A    ANFI      ++  + GES   +RE+F  A++  PC++F DE
Sbjct: 223 PPGTGKTLLAKAVAATIGANFIFSPASGIVDKYIGESARIIREMFAYAKEHEPCIIFMDE 282

Query: 583 LDSIATQXXXXXXXXXXXXXXXLNQLLTEMDGMSAKKTVFIIGATNRPDIIDPALLRPGR 642
           +D+I  +               L +LLT+MDG        II ATNRPD +DPALLRPGR
Sbjct: 283 VDAIGGRRFSEGTSADREIQRTLMELLTQMDGFDNLGQTKIIMATNRPDTLDPALLRPGR 342

Query: 643 LDQLIYIPLPDEESRLQIFKACLRKSPVSKDVDLRALAKYTQGFSGADITEICQRACKYA 702
           LD+ + IPLP+E  RL+IFK    K   + + D  A  K + GF+GADI      A  +A
Sbjct: 343 LDRKVEIPLPNEAGRLEIFKIHTAKVKKTGEFDFEAAVKMSDGFNGADIRNCATEAGFFA 402

Query: 703 IREN 706
           IR++
Sbjct: 403 IRDD 406


>pdb|1LV7|A Chain A, Crystal Structure Of The Aaa Domain Of Ftsh
          Length = 257

 Score =  205 bits (521), Expect = 8e-53,   Method: Compositional matrix adjust.
 Identities = 94/228 (41%), Positives = 140/228 (61%), Gaps = 1/228 (0%)

Query: 479 NWEDIGGLENVKRELQETVQYPVEHPEKFEKFGMSPSKGVLFYGPPGCGKTLLAKAIANE 538
            + D+ G +  K E+ E V+Y +  P +F+K G    KGVL  GPPG GKTLLAKAIA E
Sbjct: 10  TFADVAGCDEAKEEVAELVEY-LREPSRFQKLGGKIPKGVLMVGPPGTGKTLLAKAIAGE 68

Query: 539 CQANFISVKGPELLTMWFGESEANVREIFDKARQSAPCVLFFDELDSIATQXXXXXXXXX 598
            +  F ++ G + + M+ G   + VR++F++A+++APC++F DE+D++  Q         
Sbjct: 69  AKVPFFTISGSDFVEMFVGVGASRVRDMFEQAKKAAPCIIFIDEIDAVGRQRGAGLGGGH 128

Query: 599 XXXXXXLNQLLTEMDGMSAKKTVFIIGATNRPDIIDPALLRPGRLDQLIYIPLPDEESRL 658
                 LNQ+L EMDG    + + +I ATNRPD++DPALLRPGR D+ + + LPD   R 
Sbjct: 129 DEREQTLNQMLVEMDGFEGNEGIIVIAATNRPDVLDPALLRPGRFDRQVVVGLPDVRGRE 188

Query: 659 QIFKACLRKSPVSKDVDLRALAKYTQGFSGADITEICQRACKYAIREN 706
           QI K  +R+ P++ D+D   +A+ T GFSGAD+  +   A  +A R N
Sbjct: 189 QILKVHMRRVPLAPDIDAAIIARGTPGFSGADLANLVNEAALFAARGN 236



 Score =  192 bits (489), Expect = 5e-49,   Method: Compositional matrix adjust.
 Identities = 101/233 (43%), Positives = 147/233 (63%), Gaps = 4/233 (1%)

Query: 207 YDDVGGVRKQMAQIRELVELPLRHPQLFKSIGVKPPKGILLYGPPGSGKTLIARAVANET 266
           + DV G  +   ++ ELVE  LR P  F+ +G K PKG+L+ GPPG+GKTL+A+A+A E 
Sbjct: 11  FADVAGCDEAKEEVAELVEY-LREPSRFQKLGGKIPKGVLMVGPPGTGKTLLAKAIAGEA 69

Query: 267 GAFFFCINGPEIMSKLAGESESNLRKAFEEAEKNAPSIIFIDEIDSIAPKREKTHG---E 323
              FF I+G + +    G   S +R  FE+A+K AP IIFIDEID++  +R    G   +
Sbjct: 70  KVPFFTISGSDFVEMFVGVGASRVRDMFEQAKKAAPCIIFIDEIDAVGRQRGAGLGGGHD 129

Query: 324 VERRIVSQLLTLMDGLKSRAHVIVIGATNRPNSIDPALRRFGRFDREIDIGVPDEVGRLE 383
              + ++Q+L  MDG +    +IVI ATNRP+ +DPAL R GRFDR++ +G+PD  GR +
Sbjct: 130 EREQTLNQMLVEMDGFEGNEGIIVIAATNRPDVLDPALLRPGRFDRQVVVGLPDVRGREQ 189

Query: 384 VLRIHTKNMKLSDDVDLERIAKDTHGYVGADLAALCTEAALQCIREKMDVIDL 436
           +L++H + + L+ D+D   IA+ T G+ GADLA L  EAAL   R    V+ +
Sbjct: 190 ILKVHMRRVPLAPDIDAAIIARGTPGFSGADLANLVNEAALFAARGNKRVVSM 242


>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 =  205 bits (521), Expect = 9e-53,   Method: Compositional matrix adjust.
 Identities = 113/243 (46%), Positives = 157/243 (64%), Gaps = 6/243 (2%)

Query: 205 VGYDDVGGVRKQMAQIRELVELPLRHPQLFKSIGVKPPKGILLYGPPGSGKTLIARAVAN 264
           V + DVGG  + + +++E+VE  L+ P  F  IG + PKGILL GPPG+GKTL+ARAVA 
Sbjct: 13  VTFKDVGGAEEAIEELKEVVEF-LKDPSKFNRIGARMPKGILLVGPPGTGKTLLARAVAG 71

Query: 265 ETGAFFFCINGPEIMSKLAGESESNLRKAFEEAEKNAPSIIFIDEIDSIAPKREKTHG-- 322
           E    FF I+G + +    G   + +R  F +A+ +AP I+FIDEID++   R    G  
Sbjct: 72  EANVPFFHISGSDFVELFVGVGAARVRDLFAQAKAHAPCIVFIDEIDAVGRHRGAGLGGG 131

Query: 323 -EVERRIVSQLLTLMDGLKSRAHVIVIGATNRPNSIDPALRRFGRFDREIDIGVPDEVGR 381
            +   + ++QLL  MDG  S+  +IV+ ATNRP+ +DPAL R GRFD++I +  PD +GR
Sbjct: 132 HDEREQTLNQLLVEMDGFDSKEGIIVMAATNRPDILDPALLRPGRFDKKIVVDPPDMLGR 191

Query: 382 LEVLRIHTKNMKLSDDVDLERIAKDTHGYVGADLAALCTEAALQCIREKMDVIDLED--E 439
            ++L IHT+N  L++DV+LE IAK T G+VGADL  L  EAAL   RE  D I ++D  E
Sbjct: 192 KKILEIHTRNKPLAEDVNLEIIAKRTPGFVGADLENLVNEAALLAAREGRDKITMKDFEE 251

Query: 440 TID 442
            ID
Sbjct: 252 AID 254



 Score =  194 bits (493), Expect = 2e-49,   Method: Compositional matrix adjust.
 Identities = 94/232 (40%), Positives = 138/232 (59%), Gaps = 1/232 (0%)

Query: 478 VNWEDIGGLENVKRELQETVQYPVEHPEKFEKFGMSPSKGVLFYGPPGCGKTLLAKAIAN 537
           V ++D+GG E    EL+E V++ ++ P KF + G    KG+L  GPPG GKTLLA+A+A 
Sbjct: 13  VTFKDVGGAEEAIEELKEVVEF-LKDPSKFNRIGARMPKGILLVGPPGTGKTLLARAVAG 71

Query: 538 ECQANFISVKGPELLTMWFGESEANVREIFDKARQSAPCVLFFDELDSIATQXXXXXXXX 597
           E    F  + G + + ++ G   A VR++F +A+  APC++F DE+D++           
Sbjct: 72  EANVPFFHISGSDFVELFVGVGAARVRDLFAQAKAHAPCIVFIDEIDAVGRHRGAGLGGG 131

Query: 598 XXXXXXXLNQLLTEMDGMSAKKTVFIIGATNRPDIIDPALLRPGRLDQLIYIPLPDEESR 657
                  LNQLL EMDG  +K+ + ++ ATNRPDI+DPALLRPGR D+ I +  PD   R
Sbjct: 132 HDEREQTLNQLLVEMDGFDSKEGIIVMAATNRPDILDPALLRPGRFDKKIVVDPPDMLGR 191

Query: 658 LQIFKACLRKSPVSKDVDLRALAKYTQGFSGADITEICQRACKYAIRENIEK 709
            +I +   R  P+++DV+L  +AK T GF GAD+  +   A   A RE  +K
Sbjct: 192 KKILEIHTRNKPLAEDVNLEIIAKRTPGFVGADLENLVNEAALLAAREGRDK 243


>pdb|4B4T|H Chain H, Near-Atomic Resolution Structural Model Of The Yeast 26s
           Proteasome
          Length = 467

 Score =  202 bits (515), Expect = 4e-52,   Method: Compositional matrix adjust.
 Identities = 105/238 (44%), Positives = 152/238 (63%), Gaps = 3/238 (1%)

Query: 204 EVGYDDVGGVRKQMAQIRELVELPLRHPQLFKSIGVKPPKGILLYGPPGSGKTLIARAVA 263
           +V Y DVGG + Q+ ++RE+VELPL  P+ F ++G+ PPKGILLYGPPG+GKTL ARAVA
Sbjct: 205 DVTYSDVGGCKDQIEKLREVVELPLLSPERFATLGIDPPKGILLYGPPGTGKTLCARAVA 264

Query: 264 NETGAFFFCINGPEIMSKLAGESESNLRKAFEEAEKNAPSIIFIDEIDSIAPKR--EKTH 321
           N T A F  + G E++ K  GE    +R+ FE A      IIF DEID++   R  +   
Sbjct: 265 NRTDATFIRVIGSELVQKYVGEGARMVRELFEMARTKKACIIFFDEIDAVGGARFDDGAG 324

Query: 322 GEVE-RRIVSQLLTLMDGLKSRAHVIVIGATNRPNSIDPALRRFGRFDREIDIGVPDEVG 380
           G+ E +R + +L+T +DG   R ++ V+ ATNRPN++DPAL R GR DR+++  +PD  G
Sbjct: 325 GDNEVQRTMLELITQLDGFDPRGNIKVMFATNRPNTLDPALLRPGRIDRKVEFSLPDLEG 384

Query: 381 RLEVLRIHTKNMKLSDDVDLERIAKDTHGYVGADLAALCTEAALQCIREKMDVIDLED 438
           R  + RIH+K+M +   +  E I++      GA+L ++CTEA +  IR +  V   +D
Sbjct: 385 RANIFRIHSKSMSVERGIRWELISRLCPNSTGAELRSVCTEAGMFAIRARRKVATEKD 442



 Score =  189 bits (479), Expect = 8e-48,   Method: Compositional matrix adjust.
 Identities = 90/241 (37%), Positives = 140/241 (58%)

Query: 464 NPSALRETVVEVPNVNWEDIGGLENVKRELQETVQYPVEHPEKFEKFGMSPSKGVLFYGP 523
           +PS    TV E P+V + D+GG ++   +L+E V+ P+  PE+F   G+ P KG+L YGP
Sbjct: 192 DPSVTMMTVEEKPDVTYSDVGGCKDQIEKLREVVELPLLSPERFATLGIDPPKGILLYGP 251

Query: 524 PGCGKTLLAKAIANECQANFISVKGPELLTMWFGESEANVREIFDKARQSAPCVLFFDEL 583
           PG GKTL A+A+AN   A FI V G EL+  + GE    VRE+F+ AR    C++FFDE+
Sbjct: 252 PGTGKTLCARAVANRTDATFIRVIGSELVQKYVGEGARMVRELFEMARTKKACIIFFDEI 311

Query: 584 DSIATQXXXXXXXXXXXXXXXLNQLLTEMDGMSAKKTVFIIGATNRPDIIDPALLRPGRL 643
           D++                  + +L+T++DG   +  + ++ ATNRP+ +DPALLRPGR+
Sbjct: 312 DAVGGARFDDGAGGDNEVQRTMLELITQLDGFDPRGNIKVMFATNRPNTLDPALLRPGRI 371

Query: 644 DQLIYIPLPDEESRLQIFKACLRKSPVSKDVDLRALAKYTQGFSGADITEICQRACKYAI 703
           D+ +   LPD E R  IF+   +   V + +    +++     +GA++  +C  A  +AI
Sbjct: 372 DRKVEFSLPDLEGRANIFRIHSKSMSVERGIRWELISRLCPNSTGAELRSVCTEAGMFAI 431

Query: 704 R 704
           R
Sbjct: 432 R 432


>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 =  202 bits (515), Expect = 5e-52,   Method: Compositional matrix adjust.
 Identities = 114/244 (46%), Positives = 157/244 (64%), Gaps = 8/244 (3%)

Query: 205 VGYDDVGGVRKQMAQIRELVELPLRHPQLFKSIGVKPPKGILLYGPPGSGKTLIARAVAN 264
           V + DVGG  + + +++E+VE  L+ P  F  IG + PKGILL GPPG+G TL+ARAVA 
Sbjct: 13  VTFKDVGGAEEAIEELKEVVEF-LKDPSKFNRIGARMPKGILLVGPPGTGATLLARAVAG 71

Query: 265 ETGAFFFCINGPEIMSKLAGESESNLRKAFEEAEKNAPSIIFIDEIDSIAPKREKT---- 320
           E    FF I+G + +    G   + +R  F +A+ +AP I+FIDEID++   R       
Sbjct: 72  EANVPFFHISGSDFVELFVGVGAARVRDLFAQAKAHAPCIVFIDEIDAVGRHRGAGLGGG 131

Query: 321 HGEVERRIVSQLLTLMDGLKSRAHVIVIGATNRPNSIDPALRRFGRFDREIDIGVPDEVG 380
           H E E+ + +QLL  MDG  S+  +IV+ ATNRP+ +DPAL R GRFD++I +  PD +G
Sbjct: 132 HDEREQTL-NQLLVEMDGFDSKEGIIVMAATNRPDILDPALLRPGRFDKKIVVDPPDMLG 190

Query: 381 RLEVLRIHTKNMKLSDDVDLERIAKDTHGYVGADLAALCTEAALQCIREKMDVIDLED-- 438
           R ++L IHT+N  L++DV+LE IAK T G+VGADL  L  EAAL   RE  D I ++D  
Sbjct: 191 RKKILEIHTRNKPLAEDVNLEIIAKRTPGFVGADLENLVNEAALLAAREGRDKITMKDFE 250

Query: 439 ETID 442
           E ID
Sbjct: 251 EAID 254



 Score =  192 bits (487), Expect = 9e-49,   Method: Compositional matrix adjust.
 Identities = 93/232 (40%), Positives = 137/232 (59%), Gaps = 1/232 (0%)

Query: 478 VNWEDIGGLENVKRELQETVQYPVEHPEKFEKFGMSPSKGVLFYGPPGCGKTLLAKAIAN 537
           V ++D+GG E    EL+E V++ ++ P KF + G    KG+L  GPPG G TLLA+A+A 
Sbjct: 13  VTFKDVGGAEEAIEELKEVVEF-LKDPSKFNRIGARMPKGILLVGPPGTGATLLARAVAG 71

Query: 538 ECQANFISVKGPELLTMWFGESEANVREIFDKARQSAPCVLFFDELDSIATQXXXXXXXX 597
           E    F  + G + + ++ G   A VR++F +A+  APC++F DE+D++           
Sbjct: 72  EANVPFFHISGSDFVELFVGVGAARVRDLFAQAKAHAPCIVFIDEIDAVGRHRGAGLGGG 131

Query: 598 XXXXXXXLNQLLTEMDGMSAKKTVFIIGATNRPDIIDPALLRPGRLDQLIYIPLPDEESR 657
                  LNQLL EMDG  +K+ + ++ ATNRPDI+DPALLRPGR D+ I +  PD   R
Sbjct: 132 HDEREQTLNQLLVEMDGFDSKEGIIVMAATNRPDILDPALLRPGRFDKKIVVDPPDMLGR 191

Query: 658 LQIFKACLRKSPVSKDVDLRALAKYTQGFSGADITEICQRACKYAIRENIEK 709
            +I +   R  P+++DV+L  +AK T GF GAD+  +   A   A RE  +K
Sbjct: 192 KKILEIHTRNKPLAEDVNLEIIAKRTPGFVGADLENLVNEAALLAAREGRDK 243


>pdb|4B4T|K Chain K, Near-Atomic Resolution Structural Model Of The Yeast 26s
           Proteasome
          Length = 428

 Score =  194 bits (493), Expect = 1e-49,   Method: Compositional matrix adjust.
 Identities = 114/286 (39%), Positives = 160/286 (55%), Gaps = 15/286 (5%)

Query: 440 TIDAEILN-SMAVTDEHFKTAL-------GTSNPSALRETVVEVPNVNWEDIGGLENVKR 491
           T+D E+L  SM+V       AL         S+ S + E   E P+V + D+GGL+  K+
Sbjct: 125 TLDRELLKPSMSVALHRHSNALVDILPPDSDSSISVMGEN--EKPDVTYADVGGLDMQKQ 182

Query: 492 ELQETVQYPVEHPEKFEKFGMSPSKGVLFYGPPGCGKTLLAKAIANECQANFISVKGPEL 551
           E++E V+ P+   + +E+ G+ P +GVL YGPPG GKT+L KA+AN  +A FI V G E 
Sbjct: 183 EIREAVELPLVQADLYEQIGIDPPRGVLLYGPPGTGKTMLVKAVANSTKAAFIRVNGSEF 242

Query: 552 LTMWFGESEANVREIFDKARQSAPCVLFFDELDSIATQXXXXXXXXXXXXXXXLNQLLTE 611
           +  + GE    VR++F  AR++AP ++F DE+DSIAT+               L +LLT+
Sbjct: 243 VHKYLGEGPRMVRDVFRLARENAPSIIFIDEVDSIATKRFDAQTGSDREVQRILIELLTQ 302

Query: 612 MDGMSAKKTVFIIGATNRPDIIDPALLRPGRLDQLIYIP-LPDEESRLQIFKACLRKSPV 670
           MDG      V +I ATNR D +DPALLRPGRLD+ I  P L D   R  IF     K  +
Sbjct: 303 MDGFDQSTNVKVIMATNRADTLDPALLRPGRLDRKIEFPSLRDRRERRLIFGTIASKMSL 362

Query: 671 SKDVDLRALAKYTQGFSGADITEICQRACKYAIREN----IEKDIE 712
           + + DL +L       SGA I  I Q A   A+R+N    ++ D+E
Sbjct: 363 APEADLDSLIIRNDSLSGAVIAAIMQEAGLRAVRKNRYVILQSDLE 408



 Score =  191 bits (484), Expect = 2e-48,   Method: Compositional matrix adjust.
 Identities = 110/247 (44%), Positives = 148/247 (59%), Gaps = 7/247 (2%)

Query: 199 ENRLDEVGYDDVGGVRKQMAQIRELVELPLRHPQLFKSIGVKPPKGILLYGPPGSGKTLI 258
           EN   +V Y DVGG+  Q  +IRE VELPL    L++ IG+ PP+G+LLYGPPG+GKT++
Sbjct: 163 ENEKPDVTYADVGGLDMQKQEIREAVELPLVQADLYEQIGIDPPRGVLLYGPPGTGKTML 222

Query: 259 ARAVANETGAFFFCINGPEIMSKLAGESESNLRKAFEEAEKNAPSIIFIDEIDSIAPKRE 318
            +AVAN T A F  +NG E + K  GE    +R  F  A +NAPSIIFIDE+DSIA KR 
Sbjct: 223 VKAVANSTKAAFIRVNGSEFVHKYLGEGPRMVRDVFRLARENAPSIIFIDEVDSIATKRF 282

Query: 319 KTHGEVER---RIVSQLLTLMDGLKSRAHVIVIGATNRPNSIDPALRRFGRFDREIDI-G 374
                 +R   RI+ +LLT MDG     +V VI ATNR +++DPAL R GR DR+I+   
Sbjct: 283 DAQTGSDREVQRILIELLTQMDGFDQSTNVKVIMATNRADTLDPALLRPGRLDRKIEFPS 342

Query: 375 VPDEVGRLEVLRIHTKNMKLSDDVDLERIAKDTHGYVGADLAALCTEAALQCIREKMDVI 434
           + D   R  +       M L+ + DL+ +        GA +AA+  EA L+ +R+   VI
Sbjct: 343 LRDRRERRLIFGTIASKMSLAPEADLDSLIIRNDSLSGAVIAAIMQEAGLRAVRKNRYVI 402

Query: 435 ---DLED 438
              DLE+
Sbjct: 403 LQSDLEE 409


>pdb|4B4T|M Chain M, Near-Atomic Resolution Structural Model Of The Yeast 26s
           Proteasome
          Length = 434

 Score =  192 bits (488), Expect = 7e-49,   Method: Compositional matrix adjust.
 Identities = 96/235 (40%), Positives = 146/235 (62%), Gaps = 3/235 (1%)

Query: 207 YDDVGGVRKQMAQIRELVELPLRHPQLFKSIGVKPPKGILLYGPPGSGKTLIARAVANET 266
           Y DVGG+ KQ+ ++ E + LP++    FK +G++ PKG L+YGPPG+GKTL+ARA A +T
Sbjct: 180 YSDVGGLDKQIEELVEAIVLPMKRADKFKDMGIRAPKGALMYGPPGTGKTLLARACAAQT 239

Query: 267 GAFFFCINGPEIMSKLAGESESNLRKAFEEAEKNAPSIIFIDEIDSIAPKR---EKTHGE 323
            A F  +  P+++    GE    +R AF  A++ AP+IIFIDE+D+I  KR   EK+   
Sbjct: 240 NATFLKLAAPQLVQMYIGEGAKLVRDAFALAKEKAPTIIFIDELDAIGTKRFDSEKSGDR 299

Query: 324 VERRIVSQLLTLMDGLKSRAHVIVIGATNRPNSIDPALRRFGRFDREIDIGVPDEVGRLE 383
             +R + +LL  +DG  S   V V+ ATNR + +DPAL R GR DR+I+  +P E  R +
Sbjct: 300 EVQRTMLELLNQLDGFSSDDRVKVLAATNRVDVLDPALLRSGRLDRKIEFPLPSEDSRAQ 359

Query: 384 VLRIHTKNMKLSDDVDLERIAKDTHGYVGADLAALCTEAALQCIREKMDVIDLED 438
           +L+IH++ M   DD++ + +A+ T  + GA L A+  EA +  +R     +  ED
Sbjct: 360 ILQIHSRKMTTDDDINWQELARSTDEFNGAQLKAVTVEAGMIALRNGQSSVKHED 414



 Score =  185 bits (470), Expect = 8e-47,   Method: Compositional matrix adjust.
 Identities = 92/233 (39%), Positives = 135/233 (57%)

Query: 472 VVEVPNVNWEDIGGLENVKRELQETVQYPVEHPEKFEKFGMSPSKGVLFYGPPGCGKTLL 531
           V E P   + D+GGL+    EL E +  P++  +KF+  G+   KG L YGPPG GKTLL
Sbjct: 172 VDEKPTETYSDVGGLDKQIEELVEAIVLPMKRADKFKDMGIRAPKGALMYGPPGTGKTLL 231

Query: 532 AKAIANECQANFISVKGPELLTMWFGESEANVREIFDKARQSAPCVLFFDELDSIATQXX 591
           A+A A +  A F+ +  P+L+ M+ GE    VR+ F  A++ AP ++F DELD+I T+  
Sbjct: 232 ARACAAQTNATFLKLAAPQLVQMYIGEGAKLVRDAFALAKEKAPTIIFIDELDAIGTKRF 291

Query: 592 XXXXXXXXXXXXXLNQLLTEMDGMSAKKTVFIIGATNRPDIIDPALLRPGRLDQLIYIPL 651
                        + +LL ++DG S+   V ++ ATNR D++DPALLR GRLD+ I  PL
Sbjct: 292 DSEKSGDREVQRTMLELLNQLDGFSSDDRVKVLAATNRVDVLDPALLRSGRLDRKIEFPL 351

Query: 652 PDEESRLQIFKACLRKSPVSKDVDLRALAKYTQGFSGADITEICQRACKYAIR 704
           P E+SR QI +   RK     D++ + LA+ T  F+GA +  +   A   A+R
Sbjct: 352 PSEDSRAQILQIHSRKMTTDDDINWQELARSTDEFNGAQLKAVTVEAGMIALR 404


>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 =  191 bits (486), Expect = 1e-48,   Method: Compositional matrix adjust.
 Identities = 106/229 (46%), Positives = 147/229 (64%), Gaps = 6/229 (2%)

Query: 205 VGYDDVGGVRKQMAQIRELVELPLRHPQLFKSIGVKPPKGILLYGPPGSGKTLIARAVAN 264
           V + D+ G  +   ++ E+V+  L++P+ + ++G K PKG+LL GPPG+GKTL+A+AVA 
Sbjct: 8   VRFKDMAGNEEAKEEVVEIVDF-LKYPERYANLGAKIPKGVLLVGPPGTGKTLLAKAVAG 66

Query: 265 ETGAFFFCINGPEIMSKLAGESESNLRKAFEEAEKNAPSIIFIDEIDSIAPKREK---TH 321
           E    FF + G   +    G   S +R  FE A+K APSIIFIDEID+I   R       
Sbjct: 67  EAHVPFFSMGGSSFIEMFVGLGASRVRDLFETAKKQAPSIIFIDEIDAIGKSRAAGGVVS 126

Query: 322 GEVER-RIVSQLLTLMDGLKS-RAHVIVIGATNRPNSIDPALRRFGRFDREIDIGVPDEV 379
           G  ER + ++QLL  MDG  S  A VIV+ ATNRP  +DPAL R GRFDR++ +  PD  
Sbjct: 127 GNDEREQTLNQLLAEMDGFGSENAPVIVLAATNRPEILDPALMRPGRFDRQVLVDKPDFN 186

Query: 380 GRLEVLRIHTKNMKLSDDVDLERIAKDTHGYVGADLAALCTEAALQCIR 428
           GR+E+L++H K +KL++DV+L+ +AK T G  GADLA +  EAAL   R
Sbjct: 187 GRVEILKVHIKGVKLANDVNLQEVAKLTAGLAGADLANIINEAALLAGR 235



 Score =  186 bits (473), Expect = 4e-47,   Method: Compositional matrix adjust.
 Identities = 94/246 (38%), Positives = 147/246 (59%), Gaps = 4/246 (1%)

Query: 474 EVPNVNWEDIGGLENVKRELQETVQYPVEHPEKFEKFGMSPSKGVLFYGPPGCGKTLLAK 533
           E PNV ++D+ G E  K E+ E V + +++PE++   G    KGVL  GPPG GKTLLAK
Sbjct: 4   EKPNVRFKDMAGNEEAKEEVVEIVDF-LKYPERYANLGAKIPKGVLLVGPPGTGKTLLAK 62

Query: 534 AIANECQANFISVKGPELLTMWFGESEANVREIFDKARQSAPCVLFFDELDSIA-TQXXX 592
           A+A E    F S+ G   + M+ G   + VR++F+ A++ AP ++F DE+D+I  ++   
Sbjct: 63  AVAGEAHVPFFSMGGSSFIEMFVGLGASRVRDLFETAKKQAPSIIFIDEIDAIGKSRAAG 122

Query: 593 XXXXXXXXXXXXLNQLLTEMDGMSAKKT-VFIIGATNRPDIIDPALLRPGRLDQLIYIPL 651
                       LNQLL EMDG  ++   V ++ ATNRP+I+DPAL+RPGR D+ + +  
Sbjct: 123 GVVSGNDEREQTLNQLLAEMDGFGSENAPVIVLAATNRPEILDPALMRPGRFDRQVLVDK 182

Query: 652 PDEESRLQIFKACLRKSPVSKDVDLRALAKYTQGFSGADITEICQRACKYAIRENIEKDI 711
           PD   R++I K  ++   ++ DV+L+ +AK T G +GAD+  I   A   A R N +K++
Sbjct: 183 PDFNGRVEILKVHIKGVKLANDVNLQEVAKLTAGLAGADLANIINEAALLAGRNN-QKEV 241

Query: 712 ERERRR 717
            ++  +
Sbjct: 242 RQQHLK 247


>pdb|2QZ4|A Chain A, Human Paraplegin, Aaa Domain In Complex With Adp
          Length = 262

 Score =  189 bits (481), Expect = 4e-48,   Method: Compositional matrix adjust.
 Identities = 99/248 (39%), Positives = 144/248 (58%), Gaps = 12/248 (4%)

Query: 477 NVNWEDIGGLENVKRELQETVQYPVEHPEKFEKFGMSPSKGVLFYGPPGCGKTLLAKAIA 536
            V+++D+ G+   K E++E V Y ++ PE+F + G    KG L  GPPGCGKTLLAKA+A
Sbjct: 2   GVSFKDVAGMHEAKLEVREFVDY-LKSPERFLQLGAKVPKGALLLGPPGCGKTLLAKAVA 60

Query: 537 NECQANFISVKGPELLTMWFGESEANVREIFDKARQSAPCVLFFDELDSIATQXXXXXXX 596
            E Q  F+++ G E + +  G   A VR +F +AR  APC+++ DE+D++  +       
Sbjct: 61  TEAQVPFLAMAGAEFVEVIGGLGAARVRSLFKEARARAPCIVYIDEIDAVGKKRSTTMSG 120

Query: 597 -XXXXXXXXLNQLLTEMDGMSAKKTVFIIGATNRPDIIDPALLRPGRLDQLIYIPLPDEE 655
                    LNQLL EMDGM     V ++ +TNR DI+D AL+RPGRLD+ ++I LP  +
Sbjct: 121 FSNTEEEQTLNQLLVEMDGMGTTDHVIVLASTNRADILDGALMRPGRLDRHVFIDLPTLQ 180

Query: 656 SRLQIFKACLRKSPVSKDVDLRA--LAKYTQGFSGADITEICQRACKYAIRE-------- 705
            R +IF+  L+   +++     +  LA+ T GFSGADI  IC  A  +A RE        
Sbjct: 181 ERREIFEQHLKSLKLTQSSTFYSQRLAELTPGFSGADIANICNEAALHAAREGHTSVHTL 240

Query: 706 NIEKDIER 713
           N E  +ER
Sbjct: 241 NFEYAVER 248



 Score =  172 bits (437), Expect = 5e-43,   Method: Compositional matrix adjust.
 Identities = 94/231 (40%), Positives = 136/231 (58%), Gaps = 7/231 (3%)

Query: 205 VGYDDVGGVRKQMAQIRELVELPLRHPQLFKSIGVKPPKGILLYGPPGSGKTLIARAVAN 264
           V + DV G+ +   ++RE V+  L+ P+ F  +G K PKG LL GPPG GKTL+A+AVA 
Sbjct: 3   VSFKDVAGMHEAKLEVREFVDY-LKSPERFLQLGAKVPKGALLLGPPGCGKTLLAKAVAT 61

Query: 265 ETGAFFFCINGPEIMSKLAGESESNLRKAFEEAEKNAPSIIFIDEIDSIAPKREKTHGEV 324
           E    F  + G E +  + G   + +R  F+EA   AP I++IDEID++  KR  T    
Sbjct: 62  EAQVPFLAMAGAEFVEVIGGLGAARVRSLFKEARARAPCIVYIDEIDAVGKKRSTTMSGF 121

Query: 325 ----ERRIVSQLLTLMDGLKSRAHVIVIGATNRPNSIDPALRRFGRFDREIDIGVPDEVG 380
               E + ++QLL  MDG+ +  HVIV+ +TNR + +D AL R GR DR + I +P    
Sbjct: 122 SNTEEEQTLNQLLVEMDGMGTTDHVIVLASTNRADILDGALMRPGRLDRHVFIDLPTLQE 181

Query: 381 RLEVLRIHTKNMKLSDDVDL--ERIAKDTHGYVGADLAALCTEAALQCIRE 429
           R E+   H K++KL+       +R+A+ T G+ GAD+A +C EAAL   RE
Sbjct: 182 RREIFEQHLKSLKLTQSSTFYSQRLAELTPGFSGADIANICNEAALHAARE 232


>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 =  186 bits (471), Expect = 5e-47,   Method: Compositional matrix adjust.
 Identities = 101/242 (41%), Positives = 143/242 (59%), Gaps = 1/242 (0%)

Query: 468 LRETVVEVPNVNWEDIGGLENVKRELQETVQYPVEHPEKFEKFGMSPSKGVLFYGPPGCG 527
           L   + E P V ++D+ G E  K EL+E V++ +++P +F + G    KGVL  GPPG G
Sbjct: 3   LGSVLTEAPKVTFKDVAGAEEAKEELKEIVEF-LKNPSRFHEMGARIPKGVLLVGPPGVG 61

Query: 528 KTLLAKAIANECQANFISVKGPELLTMWFGESEANVREIFDKARQSAPCVLFFDELDSIA 587
           KT LA+A+A E +  FI+  G + + M+ G   A VR++F+ A++ APC++F DE+D++ 
Sbjct: 62  KTHLARAVAGEARVPFITASGSDFVEMFVGVGAARVRDLFETAKRHAPCIVFIDEIDAVG 121

Query: 588 TQXXXXXXXXXXXXXXXLNQLLTEMDGMSAKKTVFIIGATNRPDIIDPALLRPGRLDQLI 647
            +               LNQLL EMDG      + ++ ATNRPDI+DPALLRPGR D+ I
Sbjct: 122 RKRGSGVGGGNDEREQTLNQLLVEMDGFEKDTAIVVMAATNRPDILDPALLRPGRFDRQI 181

Query: 648 YIPLPDEESRLQIFKACLRKSPVSKDVDLRALAKYTQGFSGADITEICQRACKYAIRENI 707
            I  PD + R QI +   R  P+++DVDL  LAK T GF GAD+  +   A   A RE  
Sbjct: 182 AIDAPDVKGREQILRIHARGKPLAEDVDLALLAKRTPGFVGADLENLLNEAALLAAREGR 241

Query: 708 EK 709
            K
Sbjct: 242 RK 243



 Score =  171 bits (434), Expect = 1e-42,   Method: Compositional matrix adjust.
 Identities = 105/241 (43%), Positives = 150/241 (62%), Gaps = 7/241 (2%)

Query: 204 EVGYDDVGGVRKQMAQIRELVELPLRHPQLFKSIGVKPPKGILLYGPPGSGKTLIARAVA 263
           +V + DV G  +   +++E+VE  L++P  F  +G + PKG+LL GPPG GKT +ARAVA
Sbjct: 12  KVTFKDVAGAEEAKEELKEIVEF-LKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVA 70

Query: 264 NETGAFFFCINGPEIMSKLAGESESNLRKAFEEAEKNAPSIIFIDEIDSIAPKREKTHG- 322
            E    F   +G + +    G   + +R  FE A+++AP I+FIDEID++  KR    G 
Sbjct: 71  GEARVPFITASGSDFVEMFVGVGAARVRDLFETAKRHAPCIVFIDEIDAVGRKRGSGVGG 130

Query: 323 --EVERRIVSQLLTLMDGLKSRAHVIVIGATNRPNSIDPALRRFGRFDREIDIGVPDEVG 380
             +   + ++QLL  MDG +    ++V+ ATNRP+ +DPAL R GRFDR+I I  PD  G
Sbjct: 131 GNDEREQTLNQLLVEMDGFEKDTAIVVMAATNRPDILDPALLRPGRFDRQIAIDAPDVKG 190

Query: 381 RLEVLRIHTKNMKLSDDVDLERIAKDTHGYVGADLAALCTEAALQCIRE---KMDVIDLE 437
           R ++LRIH +   L++DVDL  +AK T G+VGADL  L  EAAL   RE   K+ + DLE
Sbjct: 191 REQILRIHARGKPLAEDVDLALLAKRTPGFVGADLENLLNEAALLAAREGRRKITMKDLE 250

Query: 438 D 438
           +
Sbjct: 251 E 251


>pdb|1IY2|A Chain A, Crystal Structure Of The Ftsh Atpase Domain From Thermus
           Thermophilus
          Length = 278

 Score =  185 bits (470), Expect = 7e-47,   Method: Compositional matrix adjust.
 Identities = 100/239 (41%), Positives = 142/239 (59%), Gaps = 1/239 (0%)

Query: 471 TVVEVPNVNWEDIGGLENVKRELQETVQYPVEHPEKFEKFGMSPSKGVLFYGPPGCGKTL 530
            + E P V ++D+ G E  K EL+E V++ +++P +F + G    KGVL  GPPG GKT 
Sbjct: 30  VLTEAPKVTFKDVAGAEEAKEELKEIVEF-LKNPSRFHEMGARIPKGVLLVGPPGVGKTH 88

Query: 531 LAKAIANECQANFISVKGPELLTMWFGESEANVREIFDKARQSAPCVLFFDELDSIATQX 590
           LA+A+A E +  FI+  G + + M+ G   A VR++F+ A++ APC++F DE+D++  + 
Sbjct: 89  LARAVAGEARVPFITASGSDFVEMFVGVGAARVRDLFETAKRHAPCIVFIDEIDAVGRKR 148

Query: 591 XXXXXXXXXXXXXXLNQLLTEMDGMSAKKTVFIIGATNRPDIIDPALLRPGRLDQLIYIP 650
                         LNQLL EMDG      + ++ ATNRPDI+DPALLRPGR D+ I I 
Sbjct: 149 GSGVGGGNDEREQTLNQLLVEMDGFEKDTAIVVMAATNRPDILDPALLRPGRFDRQIAID 208

Query: 651 LPDEESRLQIFKACLRKSPVSKDVDLRALAKYTQGFSGADITEICQRACKYAIRENIEK 709
            PD + R QI +   R  P+++DVDL  LAK T GF GAD+  +   A   A RE   K
Sbjct: 209 APDVKGREQILRIHARGKPLAEDVDLALLAKRTPGFVGADLENLLNEAALLAAREGRRK 267



 Score =  171 bits (434), Expect = 1e-42,   Method: Compositional matrix adjust.
 Identities = 105/238 (44%), Positives = 148/238 (62%), Gaps = 4/238 (1%)

Query: 204 EVGYDDVGGVRKQMAQIRELVELPLRHPQLFKSIGVKPPKGILLYGPPGSGKTLIARAVA 263
           +V + DV G  +   +++E+VE  L++P  F  +G + PKG+LL GPPG GKT +ARAVA
Sbjct: 36  KVTFKDVAGAEEAKEELKEIVEF-LKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVA 94

Query: 264 NETGAFFFCINGPEIMSKLAGESESNLRKAFEEAEKNAPSIIFIDEIDSIAPKREKT--H 321
            E    F   +G + +    G   + +R  FE A+++AP I+FIDEID++  KR      
Sbjct: 95  GEARVPFITASGSDFVEMFVGVGAARVRDLFETAKRHAPCIVFIDEIDAVGRKRGSGVGG 154

Query: 322 GEVER-RIVSQLLTLMDGLKSRAHVIVIGATNRPNSIDPALRRFGRFDREIDIGVPDEVG 380
           G  ER + ++QLL  MDG +    ++V+ ATNRP+ +DPAL R GRFDR+I I  PD  G
Sbjct: 155 GNDEREQTLNQLLVEMDGFEKDTAIVVMAATNRPDILDPALLRPGRFDRQIAIDAPDVKG 214

Query: 381 RLEVLRIHTKNMKLSDDVDLERIAKDTHGYVGADLAALCTEAALQCIREKMDVIDLED 438
           R ++LRIH +   L++DVDL  +AK T G+VGADL  L  EAAL   RE    I ++D
Sbjct: 215 REQILRIHARGKPLAEDVDLALLAKRTPGFVGADLENLLNEAALLAAREGRRKITMKD 272


>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 =  185 bits (470), Expect = 7e-47,   Method: Compositional matrix adjust.
 Identities = 100/239 (41%), Positives = 142/239 (59%), Gaps = 1/239 (0%)

Query: 471 TVVEVPNVNWEDIGGLENVKRELQETVQYPVEHPEKFEKFGMSPSKGVLFYGPPGCGKTL 530
            + E P V ++D+ G E  K EL+E V++ +++P +F + G    KGVL  GPPG GKT 
Sbjct: 30  VLTEAPKVTFKDVAGAEEAKEELKEIVEF-LKNPSRFHEMGARIPKGVLLVGPPGVGKTH 88

Query: 531 LAKAIANECQANFISVKGPELLTMWFGESEANVREIFDKARQSAPCVLFFDELDSIATQX 590
           LA+A+A E +  FI+  G + + M+ G   A VR++F+ A++ APC++F DE+D++  + 
Sbjct: 89  LARAVAGEARVPFITASGSDFVEMFVGVGAARVRDLFETAKRHAPCIVFIDEIDAVGRKR 148

Query: 591 XXXXXXXXXXXXXXLNQLLTEMDGMSAKKTVFIIGATNRPDIIDPALLRPGRLDQLIYIP 650
                         LNQLL EMDG      + ++ ATNRPDI+DPALLRPGR D+ I I 
Sbjct: 149 GSGVGGGNDEREQTLNQLLVEMDGFEKDTAIVVMAATNRPDILDPALLRPGRFDRQIAID 208

Query: 651 LPDEESRLQIFKACLRKSPVSKDVDLRALAKYTQGFSGADITEICQRACKYAIRENIEK 709
            PD + R QI +   R  P+++DVDL  LAK T GF GAD+  +   A   A RE   K
Sbjct: 209 APDVKGREQILRIHARGKPLAEDVDLALLAKRTPGFVGADLENLLNEAALLAAREGRRK 267



 Score =  172 bits (437), Expect = 5e-43,   Method: Compositional matrix adjust.
 Identities = 105/241 (43%), Positives = 150/241 (62%), Gaps = 7/241 (2%)

Query: 204 EVGYDDVGGVRKQMAQIRELVELPLRHPQLFKSIGVKPPKGILLYGPPGSGKTLIARAVA 263
           +V + DV G  +   +++E+VE  L++P  F  +G + PKG+LL GPPG GKT +ARAVA
Sbjct: 36  KVTFKDVAGAEEAKEELKEIVEF-LKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVA 94

Query: 264 NETGAFFFCINGPEIMSKLAGESESNLRKAFEEAEKNAPSIIFIDEIDSIAPKREKTHG- 322
            E    F   +G + +    G   + +R  FE A+++AP I+FIDEID++  KR    G 
Sbjct: 95  GEARVPFITASGSDFVEMFVGVGAARVRDLFETAKRHAPCIVFIDEIDAVGRKRGSGVGG 154

Query: 323 --EVERRIVSQLLTLMDGLKSRAHVIVIGATNRPNSIDPALRRFGRFDREIDIGVPDEVG 380
             +   + ++QLL  MDG +    ++V+ ATNRP+ +DPAL R GRFDR+I I  PD  G
Sbjct: 155 GNDEREQTLNQLLVEMDGFEKDTAIVVMAATNRPDILDPALLRPGRFDRQIAIDAPDVKG 214

Query: 381 RLEVLRIHTKNMKLSDDVDLERIAKDTHGYVGADLAALCTEAALQCIRE---KMDVIDLE 437
           R ++LRIH +   L++DVDL  +AK T G+VGADL  L  EAAL   RE   K+ + DLE
Sbjct: 215 REQILRIHARGKPLAEDVDLALLAKRTPGFVGADLENLLNEAALLAAREGRRKITMKDLE 274

Query: 438 D 438
           +
Sbjct: 275 E 275


>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 =  185 bits (470), Expect = 7e-47,   Method: Compositional matrix adjust.
 Identities = 95/220 (43%), Positives = 135/220 (61%), Gaps = 1/220 (0%)

Query: 471 TVVEVPNVNWEDIGGLENVKRELQETVQYPVEHPEKFEKFGMSPSKGVLFYGPPGCGKTL 530
            + E P V ++D+ G E  K EL+E V++ +++P +F + G    KGVL  GPPG GKT 
Sbjct: 21  VLTEAPKVTFKDVAGAEEAKEELKEIVEF-LKNPSRFHEMGARIPKGVLLVGPPGVGKTH 79

Query: 531 LAKAIANECQANFISVKGPELLTMWFGESEANVREIFDKARQSAPCVLFFDELDSIATQX 590
           LA+A+A E +  FI+  G + + M+ G   A VR++F+ A++ APC++F DE+D++  + 
Sbjct: 80  LARAVAGEARVPFITASGSDFVEMFVGVGAARVRDLFETAKRHAPCIVFIDEIDAVGRKR 139

Query: 591 XXXXXXXXXXXXXXLNQLLTEMDGMSAKKTVFIIGATNRPDIIDPALLRPGRLDQLIYIP 650
                         LNQLL EMDG      + ++ ATNRPDI+DPALLRPGR D+ I I 
Sbjct: 140 GSGVGGGNDEREQTLNQLLVEMDGFEKDTAIVVMAATNRPDILDPALLRPGRFDRQIAID 199

Query: 651 LPDEESRLQIFKACLRKSPVSKDVDLRALAKYTQGFSGAD 690
            PD + R QI +   R  P+++DVDL  LAK T GF GAD
Sbjct: 200 APDVKGREQILRIHARGKPLAEDVDLALLAKRTPGFVGAD 239



 Score =  172 bits (437), Expect = 5e-43,   Method: Compositional matrix adjust.
 Identities = 105/241 (43%), Positives = 150/241 (62%), Gaps = 7/241 (2%)

Query: 204 EVGYDDVGGVRKQMAQIRELVELPLRHPQLFKSIGVKPPKGILLYGPPGSGKTLIARAVA 263
           +V + DV G  +   +++E+VE  L++P  F  +G + PKG+LL GPPG GKT +ARAVA
Sbjct: 27  KVTFKDVAGAEEAKEELKEIVEF-LKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVA 85

Query: 264 NETGAFFFCINGPEIMSKLAGESESNLRKAFEEAEKNAPSIIFIDEIDSIAPKREKTHG- 322
            E    F   +G + +    G   + +R  FE A+++AP I+FIDEID++  KR    G 
Sbjct: 86  GEARVPFITASGSDFVEMFVGVGAARVRDLFETAKRHAPCIVFIDEIDAVGRKRGSGVGG 145

Query: 323 --EVERRIVSQLLTLMDGLKSRAHVIVIGATNRPNSIDPALRRFGRFDREIDIGVPDEVG 380
             +   + ++QLL  MDG +    ++V+ ATNRP+ +DPAL R GRFDR+I I  PD  G
Sbjct: 146 GNDEREQTLNQLLVEMDGFEKDTAIVVMAATNRPDILDPALLRPGRFDRQIAIDAPDVKG 205

Query: 381 RLEVLRIHTKNMKLSDDVDLERIAKDTHGYVGADLAALCTEAALQCIRE---KMDVIDLE 437
           R ++LRIH +   L++DVDL  +AK T G+VGADL  L  EAAL   RE   K+ + DLE
Sbjct: 206 REQILRIHARGKPLAEDVDLALLAKRTPGFVGADLENLLNEAALLAAREGRRKITMKDLE 265

Query: 438 D 438
           +
Sbjct: 266 E 266


>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 =  169 bits (427), Expect = 8e-42,   Method: Compositional matrix adjust.
 Identities = 113/332 (34%), Positives = 172/332 (51%), Gaps = 21/332 (6%)

Query: 143 YFTEAYRPVRKGDLFLVRGGMRSVEFKVIETDPPEYCVVAPDTEIFCEGEP-----VRRE 197
           YF     P+ K D     GGM+   +    T+P       P  E     EP     +  E
Sbjct: 19  YFQSMVPPIPKQDGGEQNGGMQCKPYGAGPTEP-----AHPVDERLKNLEPKMIELIMNE 73

Query: 198 DENRLDEVGYDDVGGVRKQMAQIRELVELPLRHPQLFKSIGVKPPKGILLYGPPGSGKTL 257
             +    V ++D+ GV    A I+E+V  P+  P +F  +   PPKGILL+GPPG+GKTL
Sbjct: 74  IMDHGPPVNWEDIAGVEFAKATIKEIVVWPMLRPDIFTGL-RGPPKGILLFGPPGTGKTL 132

Query: 258 IARAVANETGAFFFCINGPEIMSKLAGESESNLRKAFEEAEKNAPSIIFIDEIDSIAPKR 317
           I + +A+++GA FF I+   + SK  GE E  +R  F  A    P++IFIDEIDS+  +R
Sbjct: 133 IGKCIASQSGATFFSISASSLTSKWVGEGEKMVRALFAVARCQQPAVIFIDEIDSLLSQR 192

Query: 318 EKTHGEVERRIVSQLLTLMDGLKSRAH--VIVIGATNRPNSIDPALRRFGRFDREIDIGV 375
                E  RRI ++ L  +DG  + +   ++V+GATNRP  ID A RR  R  + + I +
Sbjct: 193 GDGEHESSRRIKTEFLVQLDGATTSSEDRILVVGATNRPQEIDEAARR--RLVKRLYIPL 250

Query: 376 PDEVGRLE-VLRIHTKNMKLSDDVDLERIAKDTHGYVGADLAALCTEAALQCIREKMDVI 434
           P+   R + V+ + +K      + ++E+I + +  + GAD+  LC EA+L  IR  +   
Sbjct: 251 PEASARKQIVINLMSKEQCCLSEEEIEQIVQQSDAFSGADMTQLCREASLGPIR-SLQTA 309

Query: 435 DLEDETIDAEILNSMAVTDEHFKTALGTSNPS 466
           D+   TI  + +  +A  D  F+ A  T  PS
Sbjct: 310 DI--ATITPDQVRPIAYID--FENAFRTVRPS 337



 Score =  160 bits (406), Expect = 2e-39,   Method: Compositional matrix adjust.
 Identities = 100/302 (33%), Positives = 150/302 (49%), Gaps = 22/302 (7%)

Query: 468 LRETVVEVPNVNWEDIGGLENVKRELQETVQYPVEHPEKFEKFGMSPSKGVLFYGPPGCG 527
           + E +   P VNWEDI G+E  K  ++E V +P+  P+ F      P KG+L +GPPG G
Sbjct: 71  MNEIMDHGPPVNWEDIAGVEFAKATIKEIVVWPMLRPDIFTGL-RGPPKGILLFGPPGTG 129

Query: 528 KTLLAKAIANECQANFISVKGPELLTMWFGESEANVREIFDKARQSAPCVLFFDELDSIA 587
           KTL+ K IA++  A F S+    L + W GE E  VR +F  AR   P V+F DE+DS+ 
Sbjct: 130 KTLIGKCIASQSGATFFSISASSLTSKWVGEGEKMVRALFAVARCQQPAVIFIDEIDSLL 189

Query: 588 TQXXXXXXXXXXXXXXXLNQLLTEMDG--MSAKKTVFIIGATNRPDIIDPALLRPGRLDQ 645
           +Q                 + L ++DG   S++  + ++GATNRP  ID A  R  RL +
Sbjct: 190 SQRGDGEHESSRRIK---TEFLVQLDGATTSSEDRILVVGATNRPQEIDEAARR--RLVK 244

Query: 646 LIYIPLPDEESRLQIFKACLRKSPVS-KDVDLRALAKYTQGFSGADITEICQRACKYAIR 704
            +YIPLP+  +R QI    + K      + ++  + + +  FSGAD+T++C+ A    IR
Sbjct: 245 RLYIPLPEASARKQIVINLMSKEQCCLSEEEIEQIVQQSDAFSGADMTQLCREASLGPIR 304

Query: 705 ENIEKDIERERRRSENPXXXXXXXXXXXXXIKAVHFEESMKYARRSVSDADIRKYQAFAQ 764
                DI         P             I  + FE + +  R SVS  D+  Y+ + +
Sbjct: 305 SLQTADIATITPDQVRP-------------IAYIDFENAFRTVRPSVSPKDLELYENWNK 351

Query: 765 TL 766
           T 
Sbjct: 352 TF 353


>pdb|2RKO|A Chain A, Crystal Structure Of The Vps4p-Dimer
          Length = 331

 Score =  167 bits (422), Expect = 3e-41,   Method: Compositional matrix adjust.
 Identities = 91/239 (38%), Positives = 137/239 (57%), Gaps = 8/239 (3%)

Query: 469 RETVVEVPNVNWEDIGGLENVKRELQETVQYPVEHPEKFEKFGMSPSKGVLFYGPPGCGK 528
           R ++ E PNV WED+ GLE  K  L+E V  PV+ P  F K    P+ G+L YGPPG GK
Sbjct: 15  RGSLSEKPNVKWEDVAGLEGAKEALKEAVILPVKFPHLF-KGNRKPTSGILLYGPPGTGK 73

Query: 529 TLLAKAIANECQANFISVKGPELLTMWFGESEANVREIFDKARQSAPCVLFFDELDSIAT 588
           + LAKA+A E  + F SV   +L++ W GESE  V+++F  AR++ P ++F DE+D++  
Sbjct: 74  SYLAKAVATEANSTFFSVSSSDLVSKWMGESEKLVKQLFAMARENKPSIIFIDEVDALTG 133

Query: 589 QXXXXXXXXXXXXXXXLNQLLTEMDGM-SAKKTVFIIGATNRPDIIDPALLRPGRLDQLI 647
                             +LL +M+G+ +  + V ++GATN P  +D A+ R  R ++ I
Sbjct: 134 TRGEGESEASRRIK---TELLVQMNGVGNDSQGVLVLGATNIPWQLDSAIRR--RFERRI 188

Query: 648 YIPLPDEESRLQIFKACLRKSP-VSKDVDLRALAKYTQGFSGADITEICQRACKYAIRE 705
           YIPLPD  +R  +F+  +  +P V    D R L   T+G+SG+DI  + + A    IR+
Sbjct: 189 YIPLPDLAARTTMFEINVGDTPCVLTKEDYRTLGAMTEGYSGSDIAVVVKDALMQPIRK 247



 Score =  165 bits (417), Expect = 1e-40,   Method: Compositional matrix adjust.
 Identities = 91/236 (38%), Positives = 140/236 (59%), Gaps = 5/236 (2%)

Query: 205 VGYDDVGGVRKQMAQIRELVELPLRHPQLFKSIGVKPPKGILLYGPPGSGKTLIARAVAN 264
           V ++DV G+      ++E V LP++ P LFK    KP  GILLYGPPG+GK+ +A+AVA 
Sbjct: 24  VKWEDVAGLEGAKEALKEAVILPVKFPHLFKG-NRKPTSGILLYGPPGTGKSYLAKAVAT 82

Query: 265 ETGAFFFCINGPEIMSKLAGESESNLRKAFEEAEKNAPSIIFIDEIDSIAPKREKTHGEV 324
           E  + FF ++  +++SK  GESE  +++ F  A +N PSIIFIDE+D++   R +   E 
Sbjct: 83  EANSTFFSVSSSDLVSKWMGESEKLVKQLFAMARENKPSIIFIDEVDALTGTRGEGESEA 142

Query: 325 ERRIVSQLLTLMDGLKSRAH-VIVIGATNRPNSIDPALRRFGRFDREIDIGVPDEVGRLE 383
            RRI ++LL  M+G+ + +  V+V+GATN P  +D A+RR  RF+R I I +PD   R  
Sbjct: 143 SRRIKTELLVQMNGVGNDSQGVLVLGATNIPWQLDSAIRR--RFERRIYIPLPDLAARTT 200

Query: 384 VLRIHTKNMK-LSDDVDLERIAKDTHGYVGADLAALCTEAALQCIREKMDVIDLED 438
           +  I+  +   +    D   +   T GY G+D+A +  +A +Q IR+       +D
Sbjct: 201 MFEINVGDTPCVLTKEDYRTLGAMTEGYSGSDIAVVVKDALMQPIRKIQSATHFKD 256


>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 =  165 bits (417), Expect = 9e-41,   Method: Compositional matrix adjust.
 Identities = 89/234 (38%), Positives = 133/234 (56%), Gaps = 8/234 (3%)

Query: 474 EVPNVNWEDIGGLENVKRELQETVQYPVEHPEKFEKFGMSPSKGVLFYGPPGCGKTLLAK 533
           E PNV WED+ GLE  K  L+E V  PV+ P  F K    P+ G+L YGPPG GK+ LAK
Sbjct: 44  EKPNVKWEDVAGLEGAKEALKEAVILPVKFPHLF-KGNRKPTSGILLYGPPGTGKSYLAK 102

Query: 534 AIANECQANFISVKGPELLTMWFGESEANVREIFDKARQSAPCVLFFDELDSIATQXXXX 593
           A+A E  + F SV   +L++ W GESE  V+++F  AR++ P ++F D++D++       
Sbjct: 103 AVATEANSTFFSVSSSDLVSKWMGESEKLVKQLFAMARENKPSIIFIDQVDALTGTRGEG 162

Query: 594 XXXXXXXXXXXLNQLLTEMDGMSA-KKTVFIIGATNRPDIIDPALLRPGRLDQLIYIPLP 652
                        +LL +M+G+    + V ++GATN P  +D A+ R  R ++ IYIPLP
Sbjct: 163 ESEASRRIK---TELLVQMNGVGNDSQGVLVLGATNIPWQLDSAIRR--RFERRIYIPLP 217

Query: 653 DEESRLQIFKACLRKSP-VSKDVDLRALAKYTQGFSGADITEICQRACKYAIRE 705
           D  +R  +F+  +  +P V    D R L   T+G+SG+DI  + + A    IR+
Sbjct: 218 DLAARTTMFEINVGDTPSVLTKEDYRTLGAMTEGYSGSDIAVVVKDALMQPIRK 271



 Score =  164 bits (415), Expect = 2e-40,   Method: Compositional matrix adjust.
 Identities = 90/236 (38%), Positives = 140/236 (59%), Gaps = 5/236 (2%)

Query: 205 VGYDDVGGVRKQMAQIRELVELPLRHPQLFKSIGVKPPKGILLYGPPGSGKTLIARAVAN 264
           V ++DV G+      ++E V LP++ P LFK    KP  GILLYGPPG+GK+ +A+AVA 
Sbjct: 48  VKWEDVAGLEGAKEALKEAVILPVKFPHLFKG-NRKPTSGILLYGPPGTGKSYLAKAVAT 106

Query: 265 ETGAFFFCINGPEIMSKLAGESESNLRKAFEEAEKNAPSIIFIDEIDSIAPKREKTHGEV 324
           E  + FF ++  +++SK  GESE  +++ F  A +N PSIIFID++D++   R +   E 
Sbjct: 107 EANSTFFSVSSSDLVSKWMGESEKLVKQLFAMARENKPSIIFIDQVDALTGTRGEGESEA 166

Query: 325 ERRIVSQLLTLMDGLKSRAH-VIVIGATNRPNSIDPALRRFGRFDREIDIGVPDEVGRLE 383
            RRI ++LL  M+G+ + +  V+V+GATN P  +D A+RR  RF+R I I +PD   R  
Sbjct: 167 SRRIKTELLVQMNGVGNDSQGVLVLGATNIPWQLDSAIRR--RFERRIYIPLPDLAARTT 224

Query: 384 VLRIHTKNM-KLSDDVDLERIAKDTHGYVGADLAALCTEAALQCIREKMDVIDLED 438
           +  I+  +   +    D   +   T GY G+D+A +  +A +Q IR+       +D
Sbjct: 225 MFEINVGDTPSVLTKEDYRTLGAMTEGYSGSDIAVVVKDALMQPIRKIQSATHFKD 280


>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 =  164 bits (415), Expect = 2e-40,   Method: Compositional matrix adjust.
 Identities = 89/234 (38%), Positives = 134/234 (57%), Gaps = 8/234 (3%)

Query: 474 EVPNVNWEDIGGLENVKRELQETVQYPVEHPEKFEKFGMSPSKGVLFYGPPGCGKTLLAK 533
           E PNV WED+ GLE  K  L+E V  PV+ P  F K    P+ G+L YGPPG GK+ LAK
Sbjct: 29  EKPNVKWEDVAGLEGAKEALKEAVILPVKFPHLF-KGNRKPTSGILLYGPPGTGKSYLAK 87

Query: 534 AIANECQANFISVKGPELLTMWFGESEANVREIFDKARQSAPCVLFFDELDSIATQXXXX 593
           A+A E  + F SV   +L++ W GESE  V+++F  AR++ P ++F D++D++       
Sbjct: 88  AVATEANSTFFSVSSSDLVSKWMGESEKLVKQLFAMARENKPSIIFIDQVDALTGTRGEG 147

Query: 594 XXXXXXXXXXXLNQLLTEMDGM-SAKKTVFIIGATNRPDIIDPALLRPGRLDQLIYIPLP 652
                        +LL +M+G+ +  + V ++GATN P  +D A+ R  R ++ IYIPLP
Sbjct: 148 ESEASRRIK---TELLVQMNGVGNDSQGVLVLGATNIPWQLDSAIRR--RFERRIYIPLP 202

Query: 653 DEESRLQIFKACLRKSP-VSKDVDLRALAKYTQGFSGADITEICQRACKYAIRE 705
           D  +R  +F+  +  +P V    D R L   T+G+SG+DI  + + A    IR+
Sbjct: 203 DLAARTTMFEINVGDTPCVLTKEDYRTLGAMTEGYSGSDIAVVVKDALMQPIRK 256



 Score =  163 bits (413), Expect = 3e-40,   Method: Compositional matrix adjust.
 Identities = 90/236 (38%), Positives = 140/236 (59%), Gaps = 5/236 (2%)

Query: 205 VGYDDVGGVRKQMAQIRELVELPLRHPQLFKSIGVKPPKGILLYGPPGSGKTLIARAVAN 264
           V ++DV G+      ++E V LP++ P LFK    KP  GILLYGPPG+GK+ +A+AVA 
Sbjct: 33  VKWEDVAGLEGAKEALKEAVILPVKFPHLFKG-NRKPTSGILLYGPPGTGKSYLAKAVAT 91

Query: 265 ETGAFFFCINGPEIMSKLAGESESNLRKAFEEAEKNAPSIIFIDEIDSIAPKREKTHGEV 324
           E  + FF ++  +++SK  GESE  +++ F  A +N PSIIFID++D++   R +   E 
Sbjct: 92  EANSTFFSVSSSDLVSKWMGESEKLVKQLFAMARENKPSIIFIDQVDALTGTRGEGESEA 151

Query: 325 ERRIVSQLLTLMDGLKSRAH-VIVIGATNRPNSIDPALRRFGRFDREIDIGVPDEVGRLE 383
            RRI ++LL  M+G+ + +  V+V+GATN P  +D A+RR  RF+R I I +PD   R  
Sbjct: 152 SRRIKTELLVQMNGVGNDSQGVLVLGATNIPWQLDSAIRR--RFERRIYIPLPDLAARTT 209

Query: 384 VLRIHTKNMK-LSDDVDLERIAKDTHGYVGADLAALCTEAALQCIREKMDVIDLED 438
           +  I+  +   +    D   +   T GY G+D+A +  +A +Q IR+       +D
Sbjct: 210 MFEINVGDTPCVLTKEDYRTLGAMTEGYSGSDIAVVVKDALMQPIRKIQSATHFKD 265


>pdb|3EIE|A Chain A, Crystal Structure Of S.Cerevisiae Vps4 In The So4-Bound
           State
          Length = 322

 Score =  164 bits (414), Expect = 2e-40,   Method: Compositional matrix adjust.
 Identities = 90/236 (38%), Positives = 140/236 (59%), Gaps = 5/236 (2%)

Query: 205 VGYDDVGGVRKQMAQIRELVELPLRHPQLFKSIGVKPPKGILLYGPPGSGKTLIARAVAN 264
           V ++DV G+      ++E V LP++ P LFK    KP  GILLYGPPG+GK+ +A+AVA 
Sbjct: 15  VKWEDVAGLEGAKEALKEAVILPVKFPHLFKG-NRKPTSGILLYGPPGTGKSYLAKAVAT 73

Query: 265 ETGAFFFCINGPEIMSKLAGESESNLRKAFEEAEKNAPSIIFIDEIDSIAPKREKTHGEV 324
           E  + FF ++  +++SK  GESE  +++ F  A +N PSIIFID++D++   R +   E 
Sbjct: 74  EANSTFFSVSSSDLVSKWMGESEKLVKQLFAMARENKPSIIFIDQVDALTGTRGEGESEA 133

Query: 325 ERRIVSQLLTLMDGLKSRAH-VIVIGATNRPNSIDPALRRFGRFDREIDIGVPDEVGRLE 383
            RRI ++LL  M+G+ + +  V+V+GATN P  +D A+RR  RF+R I I +PD   R  
Sbjct: 134 SRRIKTELLVQMNGVGNDSQGVLVLGATNIPWQLDSAIRR--RFERRIYIPLPDLAARTT 191

Query: 384 VLRIHTKNMK-LSDDVDLERIAKDTHGYVGADLAALCTEAALQCIREKMDVIDLED 438
           +  I+  +   +    D   +   T GY G+D+A +  +A +Q IR+       +D
Sbjct: 192 MFEINVGDTPCVLTKEDYRTLGAMTEGYSGSDIAVVVKDALMQPIRKIQSATHFKD 247



 Score =  164 bits (414), Expect = 2e-40,   Method: Compositional matrix adjust.
 Identities = 89/234 (38%), Positives = 134/234 (57%), Gaps = 8/234 (3%)

Query: 474 EVPNVNWEDIGGLENVKRELQETVQYPVEHPEKFEKFGMSPSKGVLFYGPPGCGKTLLAK 533
           E PNV WED+ GLE  K  L+E V  PV+ P  F K    P+ G+L YGPPG GK+ LAK
Sbjct: 11  EKPNVKWEDVAGLEGAKEALKEAVILPVKFPHLF-KGNRKPTSGILLYGPPGTGKSYLAK 69

Query: 534 AIANECQANFISVKGPELLTMWFGESEANVREIFDKARQSAPCVLFFDELDSIATQXXXX 593
           A+A E  + F SV   +L++ W GESE  V+++F  AR++ P ++F D++D++       
Sbjct: 70  AVATEANSTFFSVSSSDLVSKWMGESEKLVKQLFAMARENKPSIIFIDQVDALTGTRGEG 129

Query: 594 XXXXXXXXXXXLNQLLTEMDGM-SAKKTVFIIGATNRPDIIDPALLRPGRLDQLIYIPLP 652
                        +LL +M+G+ +  + V ++GATN P  +D A+ R  R ++ IYIPLP
Sbjct: 130 ESEASRRIK---TELLVQMNGVGNDSQGVLVLGATNIPWQLDSAIRR--RFERRIYIPLP 184

Query: 653 DEESRLQIFKACLRKSP-VSKDVDLRALAKYTQGFSGADITEICQRACKYAIRE 705
           D  +R  +F+  +  +P V    D R L   T+G+SG+DI  + + A    IR+
Sbjct: 185 DLAARTTMFEINVGDTPCVLTKEDYRTLGAMTEGYSGSDIAVVVKDALMQPIRK 238


>pdb|1XWI|A Chain A, Crystal Structure Of Vps4b
          Length = 322

 Score =  158 bits (400), Expect = 1e-38,   Method: Compositional matrix adjust.
 Identities = 86/237 (36%), Positives = 132/237 (55%), Gaps = 9/237 (3%)

Query: 472 VVEVPNVNWEDIGGLENVKRELQETVQYPVEHPEKFEKFGMSPSKGVLFYGPPGCGKTLL 531
           V+E PNV W D+ GLE  K  L+E V  P++ P  F     +P +G+L +GPPG GK+ L
Sbjct: 3   VIERPNVKWSDVAGLEGAKEALKEAVILPIKFPHLFTG-KRTPWRGILLFGPPGTGKSYL 61

Query: 532 AKAIANECQ-ANFISVKGPELLTMWFGESEANVREIFDKARQSAPCVLFFDELDSIATQX 590
           AKA+A E   + F S+   +L++ W GESE  V+ +F  AR++ P ++F DE+DS+    
Sbjct: 62  AKAVATEANNSTFFSISSSDLVSKWLGESEKLVKNLFQLARENKPSIIFIDEIDSLCGSR 121

Query: 591 XXXXXXXXXXXXXXLNQLLTEMDGMSA-KKTVFIIGATNRPDIIDPALLRPGRLDQLIYI 649
                           + L +M G+      + ++GATN P ++D A+ R  R ++ IYI
Sbjct: 122 SENESEAARRIK---TEFLVQMQGVGVDNDGILVLGATNIPWVLDSAIRR--RFEKRIYI 176

Query: 650 PLPDEESRLQIFKACLRKSPVS-KDVDLRALAKYTQGFSGADITEICQRACKYAIRE 705
           PLP+  +R  +FK  L  +  S  + D R L + T G+SGADI+ I + A    +R+
Sbjct: 177 PLPEPHARAAMFKLHLGTTQNSLTEADFRELGRKTDGYSGADISIIVRDALMQPVRK 233



 Score =  154 bits (389), Expect = 2e-37,   Method: Compositional matrix adjust.
 Identities = 100/303 (33%), Positives = 160/303 (52%), Gaps = 9/303 (2%)

Query: 205 VGYDDVGGVRKQMAQIRELVELPLRHPQLFKSIGVKPPKGILLYGPPGSGKTLIARAVAN 264
           V + DV G+      ++E V LP++ P LF      P +GILL+GPPG+GK+ +A+AVA 
Sbjct: 9   VKWSDVAGLEGAKEALKEAVILPIKFPHLFTG-KRTPWRGILLFGPPGTGKSYLAKAVAT 67

Query: 265 E-TGAFFFCINGPEIMSKLAGESESNLRKAFEEAEKNAPSIIFIDEIDSIAPKREKTHGE 323
           E   + FF I+  +++SK  GESE  ++  F+ A +N PSIIFIDEIDS+   R +   E
Sbjct: 68  EANNSTFFSISSSDLVSKWLGESEKLVKNLFQLARENKPSIIFIDEIDSLCGSRSENESE 127

Query: 324 VERRIVSQLLTLMDGLK-SRAHVIVIGATNRPNSIDPALRRFGRFDREIDIGVPDEVGRL 382
             RRI ++ L  M G+      ++V+GATN P  +D A+RR  RF++ I I +P+   R 
Sbjct: 128 AARRIKTEFLVQMQGVGVDNDGILVLGATNIPWVLDSAIRR--RFEKRIYIPLPEPHARA 185

Query: 383 EVLRIHTKNMKLS-DDVDLERIAKDTHGYVGADLAALCTEAALQCIREKMDVIDLEDETI 441
            + ++H    + S  + D   + + T GY GAD++ +  +A +Q +R+       +    
Sbjct: 186 AMFKLHLGTTQNSLTEADFRELGRKTDGYSGADISIIVRDALMQPVRKVQSATHFKKVRG 245

Query: 442 DAEILNSMAVTDEHFKTALGTSNPSALRETVVEVPNVN-WEDIGGLENVKRELQETVQYP 500
            +    +  V D    T     +P A+  T ++VP     E +  + ++ R L  T    
Sbjct: 246 PSRADPNHLVDD--LLTPCSPGDPGAIEMTWMDVPGDKLLEPVVSMSDMLRSLSNTKPTV 303

Query: 501 VEH 503
            EH
Sbjct: 304 NEH 306


>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 =  158 bits (399), Expect = 1e-38,   Method: Compositional matrix adjust.
 Identities = 87/228 (38%), Positives = 137/228 (60%), Gaps = 6/228 (2%)

Query: 205 VGYDDVGGVRKQMAQIRELVELPLRHPQLFKSIGVKPPKGILLYGPPGSGKTLIARAVAN 264
           V + DV G+      ++E V LP++ P LF      P +GILL+GPPG+GK+ +A+AVA 
Sbjct: 131 VKWSDVAGLEGAKEALKEAVILPIKFPHLFTGKRT-PWRGILLFGPPGTGKSYLAKAVAT 189

Query: 265 E-TGAFFFCINGPEIMSKLAGESESNLRKAFEEAEKNAPSIIFIDEIDSIAPKREKTHGE 323
           E   + FF I+  +++SK  GESE  ++  F+ A +N PSIIFIDEIDS+   R +   E
Sbjct: 190 EANNSTFFSISSSDLVSKWLGESEKLVKNLFQLARENKPSIIFIDEIDSLCGSRSENESE 249

Query: 324 VERRIVSQLLTLMDGLK-SRAHVIVIGATNRPNSIDPALRRFGRFDREIDIGVPDEVGRL 382
             RRI ++ L  M G+      ++V+GATN P  +D A+RR  RF++ I I +P+   R 
Sbjct: 250 AARRIKTEFLVQMQGVGVDNDGILVLGATNIPWVLDSAIRR--RFEKRIYIPLPEAHARA 307

Query: 383 EVLRIHTKNMKLS-DDVDLERIAKDTHGYVGADLAALCTEAALQCIRE 429
            + R+H  + + S  + D + + + T GY GAD++ +  +A +Q +R+
Sbjct: 308 AMFRLHLGSTQNSLTEADFQELGRKTDGYSGADISIIVRDALMQPVRK 355



 Score =  155 bits (393), Expect = 6e-38,   Method: Compositional matrix adjust.
 Identities = 84/237 (35%), Positives = 132/237 (55%), Gaps = 9/237 (3%)

Query: 472 VVEVPNVNWEDIGGLENVKRELQETVQYPVEHPEKFEKFGMSPSKGVLFYGPPGCGKTLL 531
           V+E PNV W D+ GLE  K  L+E V  P++ P  F     +P +G+L +GPPG GK+ L
Sbjct: 125 VIERPNVKWSDVAGLEGAKEALKEAVILPIKFPHLFTG-KRTPWRGILLFGPPGTGKSYL 183

Query: 532 AKAIANECQ-ANFISVKGPELLTMWFGESEANVREIFDKARQSAPCVLFFDELDSIATQX 590
           AKA+A E   + F S+   +L++ W GESE  V+ +F  AR++ P ++F DE+DS+    
Sbjct: 184 AKAVATEANNSTFFSISSSDLVSKWLGESEKLVKNLFQLARENKPSIIFIDEIDSLCGSR 243

Query: 591 XXXXXXXXXXXXXXLNQLLTEMDGMSA-KKTVFIIGATNRPDIIDPALLRPGRLDQLIYI 649
                           + L +M G+      + ++GATN P ++D A+ R  R ++ IYI
Sbjct: 244 SENESEAARRIK---TEFLVQMQGVGVDNDGILVLGATNIPWVLDSAIRR--RFEKRIYI 298

Query: 650 PLPDEESRLQIFKACLRKSPVS-KDVDLRALAKYTQGFSGADITEICQRACKYAIRE 705
           PLP+  +R  +F+  L  +  S  + D + L + T G+SGADI+ I + A    +R+
Sbjct: 299 PLPEAHARAAMFRLHLGSTQNSLTEADFQELGRKTDGYSGADISIIVRDALMQPVRK 355


>pdb|3B9P|A Chain A, Spastin
          Length = 297

 Score =  157 bits (396), Expect = 3e-38,   Method: Compositional matrix adjust.
 Identities = 105/307 (34%), Positives = 155/307 (50%), Gaps = 35/307 (11%)

Query: 468 LRETVVEVPNVNWEDIGGLENVKRELQETVQYPVEHPEKFEKFGMSPSKGVLFYGPPGCG 527
           L E V     V W DI G +  K+ LQE V  P   PE F     +P+KG+L +GPPG G
Sbjct: 8   LDEIVEGGAKVEWTDIAGQDVAKQALQEMVILPSVRPELFTGL-RAPAKGLLLFGPPGNG 66

Query: 528 KTLLAKAIANECQANFISVKGPELLTMWFGESEANVREIFDKARQSAPCVLFFDELDSIA 587
           KTLLA+A+A EC A F+++    L + + G+ E  VR +F  AR   P ++F DE+DS+ 
Sbjct: 67  KTLLARAVATECSATFLNISAASLTSKYVGDGEKLVRALFAVARHMQPSIIFIDEVDSLL 126

Query: 588 TQXXXXXXXXXXXXXXXLNQLLTEMDGMSAK---KTVFIIGATNRPDIIDPALLRPGRLD 644
           ++                 + L E DG+        + ++ ATNRP  +D A LR  R  
Sbjct: 127 SERSSSEHEASRRLK---TEFLVEFDGLPGNPDGDRIVVLAATNRPQELDEAALR--RFT 181

Query: 645 QLIYIPLPDEESRLQIFKACLRK--SPVSKDVDLRALAKYTQGFSGADITEICQRACKYA 702
           + +Y+ LPDE++R  +    L+K  SP+  +  LR LAK T G+SG+D+T + + A    
Sbjct: 182 KRVYVSLPDEQTRELLLNRLLQKQGSPLDTEA-LRRLAKITDGYSGSDLTALAKDAALEP 240

Query: 703 IRE-NIEK----DIERERRRSENPXXXXXXXXXXXXXIKAVHFEESMKYARRSVSDADIR 757
           IRE N+E+    DI   R  +E                    F  S+K  RRSV+   + 
Sbjct: 241 IRELNVEQVKCLDISAMRAITEQ------------------DFHSSLKRIRRSVAPQSLN 282

Query: 758 KYQAFAQ 764
            Y+ ++Q
Sbjct: 283 SYEKWSQ 289



 Score =  152 bits (385), Expect = 5e-37,   Method: Compositional matrix adjust.
 Identities = 101/262 (38%), Positives = 147/262 (56%), Gaps = 14/262 (5%)

Query: 204 EVGYDDVGGVRKQMAQIRELVELPLRHPQLFKSIGVKPPKGILLYGPPGSGKTLIARAVA 263
           +V + D+ G       ++E+V LP   P+LF  +   P KG+LL+GPPG+GKTL+ARAVA
Sbjct: 17  KVEWTDIAGQDVAKQALQEMVILPSVRPELFTGLRA-PAKGLLLFGPPGNGKTLLARAVA 75

Query: 264 NETGAFFFCINGPEIMSKLAGESESNLRKAFEEAEKNAPSIIFIDEIDSIAPKREKTHGE 323
            E  A F  I+   + SK  G+ E  +R  F  A    PSIIFIDE+DS+  +R  +  E
Sbjct: 76  TECSATFLNISAASLTSKYVGDGEKLVRALFAVARHMQPSIIFIDEVDSLLSERSSSEHE 135

Query: 324 VERRIVSQLLTLMDGLKSRA---HVIVIGATNRPNSIDPALRRFGRFDREIDIGVPDEVG 380
             RR+ ++ L   DGL        ++V+ ATNRP  +D A  R  RF + + + +PDE  
Sbjct: 136 ASRRLKTEFLVEFDGLPGNPDGDRIVVLAATNRPQELDEAALR--RFTKRVYVSLPDEQT 193

Query: 381 RLEVL-RIHTKNMKLSDDVDLERIAKDTHGYVGADLAALCTEAALQCIREKMDVIDLEDE 439
           R  +L R+  K     D   L R+AK T GY G+DL AL  +AAL+ IRE      L  E
Sbjct: 194 RELLLNRLLQKQGSPLDTEALRRLAKITDGYSGSDLTALAKDAALEPIRE------LNVE 247

Query: 440 TIDAEILNSM-AVTDEHFKTAL 460
            +    +++M A+T++ F ++L
Sbjct: 248 QVKCLDISAMRAITEQDFHSSL 269


>pdb|3VFD|A Chain A, Human Spastin Aaa Domain
          Length = 389

 Score =  149 bits (375), Expect = 8e-36,   Method: Compositional matrix adjust.
 Identities = 90/228 (39%), Positives = 137/228 (60%), Gaps = 6/228 (2%)

Query: 205 VGYDDVGGVRKQMAQIRELVELPLRHPQLFKSIGVKPPKGILLYGPPGSGKTLIARAVAN 264
           V +DD+ G       ++E+V LP   P+LF  +   P +G+LL+GPPG+GKT++A+AVA 
Sbjct: 112 VKFDDIAGQDLAKQALQEIVILPSLRPELFTGLRA-PARGLLLFGPPGNGKTMLAKAVAA 170

Query: 265 ETGAFFFCINGPEIMSKLAGESESNLRKAFEEAEKNAPSIIFIDEIDSIAPKREKTHGEV 324
           E+ A FF I+   + SK  GE E  +R  F  A +  PSIIFID++DS+  +R +   + 
Sbjct: 171 ESNATFFNISAASLTSKYVGEGEKLVRALFAVARELQPSIIFIDQVDSLLCERREGEHDA 230

Query: 325 ERRIVSQLLTLMDGLKSRA--HVIVIGATNRPNSIDPALRRFGRFDREIDIGVPDEVGRL 382
            RR+ ++ L   DG++S     V+V+GATNRP  +D A+ R  RF + + + +P+E  RL
Sbjct: 231 SRRLKTEFLIEFDGVQSAGDDRVLVMGATNRPQELDEAVLR--RFIKRVYVSLPNEETRL 288

Query: 383 EVLRIHT-KNMKLSDDVDLERIAKDTHGYVGADLAALCTEAALQCIRE 429
            +L+    K        +L ++A+ T GY G+DL AL  +AAL  IRE
Sbjct: 289 LLLKNLLCKQGSPLTQKELAQLARMTDGYSGSDLTALAKDAALGPIRE 336



 Score =  146 bits (369), Expect = 3e-35,   Method: Compositional matrix adjust.
 Identities = 95/286 (33%), Positives = 145/286 (50%), Gaps = 24/286 (8%)

Query: 478 VNWEDIGGLENVKRELQETVQYPVEHPEKFEKFGMSPSKGVLFYGPPGCGKTLLAKAIAN 537
           V ++DI G +  K+ LQE V  P   PE F     +P++G+L +GPPG GKT+LAKA+A 
Sbjct: 112 VKFDDIAGQDLAKQALQEIVILPSLRPELFTGL-RAPARGLLLFGPPGNGKTMLAKAVAA 170

Query: 538 ECQANFISVKGPELLTMWFGESEANVREIFDKARQSAPCVLFFDELDSIATQXXXXXXXX 597
           E  A F ++    L + + GE E  VR +F  AR+  P ++F D++DS+  +        
Sbjct: 171 ESNATFFNISAASLTSKYVGEGEKLVRALFAVARELQPSIIFIDQVDSLLCERREGEHDA 230

Query: 598 XXXXXXXLNQLLTEMDGM--SAKKTVFIIGATNRPDIIDPALLRPGRLDQLIYIPLPDEE 655
                    + L E DG+  +    V ++GATNRP  +D A+LR  R  + +Y+ LP+EE
Sbjct: 231 SRRLK---TEFLIEFDGVQSAGDDRVLVMGATNRPQELDEAVLR--RFIKRVYVSLPNEE 285

Query: 656 SR--LQIFKACLRKSPVSKDVDLRALAKYTQGFSGADITEICQRACKYAIRENIEKDIER 713
           +R  L     C + SP+++  +L  LA+ T G+SG+D+T + + A    IRE        
Sbjct: 286 TRLLLLKNLLCKQGSPLTQK-ELAQLARMTDGYSGSDLTALAKDAALGPIRE-------- 336

Query: 714 ERRRSENPXXXXXXXXXXXXXIKAVHFEESMKYARRSVSDADIRKY 759
                  P             I+   F ES+K  +RSVS   +  Y
Sbjct: 337 -----LKPEQVKNMSASEMRNIRLSDFTESLKKIKRSVSPQTLEAY 377


>pdb|1IXS|B Chain B, Structure Of Ruvb Complexed With Ruva Domain Iii
          Length = 318

 Score = 53.5 bits (127), Expect = 4e-07,   Method: Compositional matrix adjust.
 Identities = 49/177 (27%), Positives = 86/177 (48%), Gaps = 17/177 (9%)

Query: 240 KPPKGILLYGPPGSGKTLIARAVANETGAFFFCINGPEIMSKLAGESESNLRKAFEEAEK 299
           +P + +LL+GPPG GKT +A  +A+E G      +GP I     G+  + L  + EE + 
Sbjct: 36  EPLEHLLLFGPPGLGKTTLAHVIAHELGVNLRVTSGPAIEKP--GDLAAILANSLEEGD- 92

Query: 300 NAPSIIFIDEIDSIAPKREKTHGEVERRIVSQLLTLMDGLKSRA------HVIVIGATNR 353
               I+FIDEI  ++ + E+         V  ++ +  G  +R          +IGAT R
Sbjct: 93  ----ILFIDEIHRLSRQAEEHLYPAMEDFVMDIV-IGQGPAARTIRLELPRFTLIGATTR 147

Query: 354 PNSID-PALRRFGRFDREIDIGVPDEVGRLEVLRIHTKNMKLSDDVDLERIAKDTHG 409
           P  I  P L RFG  +  ++   P+E+ +  +       ++++++  LE I + + G
Sbjct: 148 PGLITAPLLSRFGIVE-HLEYYTPEELAQGVMRDARLLGVRITEEAALE-IGRRSRG 202



 Score = 44.7 bits (104), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 39/143 (27%), Positives = 60/143 (41%), Gaps = 20/143 (13%)

Query: 514 PSKGVLFYGPPGCGKTLLAKAIANECQANFISVKGPELLTMWFGESEANVREIFDKARQS 573
           P + +L +GPPG GKT LA  IA+E   N     GP +      E   ++  I   + + 
Sbjct: 37  PLEHLLLFGPPGLGKTTLAHVIAHELGVNLRVTSGPAI------EKPGDLAAILANSLEE 90

Query: 574 APCVLFFDELDSIATQXXXXXXXXXXXXXXXLNQLLTEMDGMSAKKTV-------FIIGA 626
              +LF DE+  ++ Q               +      +    A +T+        +IGA
Sbjct: 91  G-DILFIDEIHRLSRQAEEHLYPAMEDFVMDIV-----IGQGPAARTIRLELPRFTLIGA 144

Query: 627 TNRPDIID-PALLRPGRLDQLIY 648
           T RP +I  P L R G ++ L Y
Sbjct: 145 TTRPGLITAPLLSRFGIVEHLEY 167


>pdb|1IXR|C Chain C, Ruva-Ruvb Complex
          Length = 312

 Score = 53.5 bits (127), Expect = 5e-07,   Method: Compositional matrix adjust.
 Identities = 43/133 (32%), Positives = 65/133 (48%), Gaps = 15/133 (11%)

Query: 240 KPPKGILLYGPPGSGKTLIARAVANETGAFFFCINGPEIMSKLAGESESNLRKAFEEAEK 299
           +P + +LL+GPPG GKT +A  +A+E G      +GP I     G+  + L  + EE + 
Sbjct: 36  EPLEHLLLFGPPGLGKTTLAHVIAHELGVNLRVTSGPAIEKP--GDLAAILANSLEEGD- 92

Query: 300 NAPSIIFIDEIDSIAPKREKTHGEVERRIVSQLLTLMDGLKSRA------HVIVIGATNR 353
               I+FIDEI  ++ + E+         V  ++ +  G  +R          +IGAT R
Sbjct: 93  ----ILFIDEIHRLSRQAEEHLYPAMEDFVMDIV-IGQGPAARTIRLELPRFTLIGATTR 147

Query: 354 PNSID-PALRRFG 365
           P  I  P L RFG
Sbjct: 148 PGLITAPLLSRFG 160



 Score = 44.7 bits (104), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 39/143 (27%), Positives = 60/143 (41%), Gaps = 20/143 (13%)

Query: 514 PSKGVLFYGPPGCGKTLLAKAIANECQANFISVKGPELLTMWFGESEANVREIFDKARQS 573
           P + +L +GPPG GKT LA  IA+E   N     GP +      E   ++  I   + + 
Sbjct: 37  PLEHLLLFGPPGLGKTTLAHVIAHELGVNLRVTSGPAI------EKPGDLAAILANSLEE 90

Query: 574 APCVLFFDELDSIATQXXXXXXXXXXXXXXXLNQLLTEMDGMSAKKTV-------FIIGA 626
              +LF DE+  ++ Q               +      +    A +T+        +IGA
Sbjct: 91  GD-ILFIDEIHRLSRQAEEHLYPAMEDFVMDIV-----IGQGPAARTIRLELPRFTLIGA 144

Query: 627 TNRPDIID-PALLRPGRLDQLIY 648
           T RP +I  P L R G ++ L Y
Sbjct: 145 TTRPGLITAPLLSRFGIVEHLEY 167


>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 = 53.5 bits (127), Expect = 5e-07,   Method: Compositional matrix adjust.
 Identities = 49/177 (27%), Positives = 86/177 (48%), Gaps = 17/177 (9%)

Query: 240 KPPKGILLYGPPGSGKTLIARAVANETGAFFFCINGPEIMSKLAGESESNLRKAFEEAEK 299
           +P + +LL+GPPG GKT +A  +A+E G      +GP I     G+  + L  + EE + 
Sbjct: 36  EPLEHLLLFGPPGLGKTTLAHVIAHELGVNLRVTSGPAIEKP--GDLAAILANSLEEGD- 92

Query: 300 NAPSIIFIDEIDSIAPKREKTHGEVERRIVSQLLTLMDGLKSRA------HVIVIGATNR 353
               I+FIDEI  ++ + E+         V  ++ +  G  +R          +IGAT R
Sbjct: 93  ----ILFIDEIHRLSRQAEEHLYPAMEDFVMDIV-IGQGPAARTIRLELPRFTLIGATTR 147

Query: 354 PNSID-PALRRFGRFDREIDIGVPDEVGRLEVLRIHTKNMKLSDDVDLERIAKDTHG 409
           P  I  P L RFG  +  ++   P+E+ +  +       ++++++  LE I + + G
Sbjct: 148 PGLITAPLLSRFGIVE-HLEYYTPEELAQGVMRDARLLGVRITEEAALE-IGRRSRG 202



 Score = 44.7 bits (104), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 39/143 (27%), Positives = 60/143 (41%), Gaps = 20/143 (13%)

Query: 514 PSKGVLFYGPPGCGKTLLAKAIANECQANFISVKGPELLTMWFGESEANVREIFDKARQS 573
           P + +L +GPPG GKT LA  IA+E   N     GP +      E   ++  I   + + 
Sbjct: 37  PLEHLLLFGPPGLGKTTLAHVIAHELGVNLRVTSGPAI------EKPGDLAAILANSLEE 90

Query: 574 APCVLFFDELDSIATQXXXXXXXXXXXXXXXLNQLLTEMDGMSAKKTV-------FIIGA 626
              +LF DE+  ++ Q               +      +    A +T+        +IGA
Sbjct: 91  G-DILFIDEIHRLSRQAEEHLYPAMEDFVMDIV-----IGQGPAARTIRLELPRFTLIGA 144

Query: 627 TNRPDIID-PALLRPGRLDQLIY 648
           T RP +I  P L R G ++ L Y
Sbjct: 145 TTRPGLITAPLLSRFGIVEHLEY 167


>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 = 52.0 bits (123), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 23/63 (36%), Positives = 41/63 (65%)

Query: 376 PDEVGRLEVLRIHTKNMKLSDDVDLERIAKDTHGYVGADLAALCTEAALQCIREKMDVID 435
           P+E  RL++L+IH++ M L+  ++L +IA+   G  GA++  +CTEA +  +RE+   + 
Sbjct: 11  PNEEARLDILKIHSRKMNLTRGINLRKIAELMPGASGAEVKGVCTEAGMYALRERRVHVT 70

Query: 436 LED 438
            ED
Sbjct: 71  QED 73



 Score = 49.3 bits (116), Expect = 9e-06,   Method: Compositional matrix adjust.
 Identities = 22/54 (40%), Positives = 35/54 (64%)

Query: 652 PDEESRLQIFKACLRKSPVSKDVDLRALAKYTQGFSGADITEICQRACKYAIRE 705
           P+EE+RL I K   RK  +++ ++LR +A+   G SGA++  +C  A  YA+RE
Sbjct: 11  PNEEARLDILKIHSRKMNLTRGINLRKIAELMPGASGAEVKGVCTEAGMYALRE 64


>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 = 51.6 bits (122), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 51/163 (31%), Positives = 74/163 (45%), Gaps = 34/163 (20%)

Query: 227 PLRHPQLFKSIGVKPPKGILLYGPPGSGKTLIARAVANETGAFFFCINGPEI--MSKLAG 284
           PLRH           PK IL+ GP G GKT IAR +A    A F  +   +   +  +  
Sbjct: 43  PLRHEV--------TPKNILMIGPTGVGKTEIARRLAKLANAPFIKVEATKFTEVGYVGK 94

Query: 285 ESESNLRK-------AFEEAEKNAPSIIFIDEIDSIAPKREKTHGEVERRIVSQ-LLTLM 336
           E +S +R        A +  E+N   I+FIDEID I  K E +  +V R  V + LL L+
Sbjct: 95  EVDSIIRDLTDSAGGAIDAVEQNG--IVFIDEIDKICKKGEYSGADVSREGVQRDLLPLV 152

Query: 337 D--------GLKSRAHVIVIGA----TNRPNSIDPALRRFGRF 367
           +        G+    H++ I +      RP+ + P L+  GR 
Sbjct: 153 EGSTVSTKHGMVKTDHILFIASGAFQVARPSDLIPELQ--GRL 193



 Score = 41.2 bits (95), Expect = 0.002,   Method: Compositional matrix adjust.
 Identities = 32/109 (29%), Positives = 53/109 (48%), Gaps = 17/109 (15%)

Query: 485 GLENVKRELQETVQYPVEHPEKFEKFGMSPSKGVLFYGPPGCGKTLLAKAIANECQANFI 544
            L N  R +Q  +Q P+ H        ++P K +L  GP G GKT +A+ +A    A FI
Sbjct: 30  ALRNRWRRMQ--LQEPLRHE-------VTP-KNILMIGPTGVGKTEIARRLAKLANAPFI 79

Query: 545 SVKGPELLTMWF--GESEANVREIFDKARQSAPCV-----LFFDELDSI 586
            V+  +   + +   E ++ +R++ D A  +   V     +F DE+D I
Sbjct: 80  KVEATKFTEVGYVGKEVDSIIRDLTDSAGGAIDAVEQNGIVFIDEIDKI 128


>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 = 50.8 bits (120), Expect = 3e-06,   Method: Compositional matrix adjust.
 Identities = 23/56 (41%), Positives = 36/56 (64%)

Query: 650 PLPDEESRLQIFKACLRKSPVSKDVDLRALAKYTQGFSGADITEICQRACKYAIRE 705
           P P+EE+RL I K   RK  +++ ++LR +A+   G SGA++  +C  A  YA+RE
Sbjct: 1   PPPNEEARLDILKIHSRKXNLTRGINLRKIAELXPGASGAEVKGVCTEAGXYALRE 56



 Score = 48.9 bits (115), Expect = 1e-05,   Method: Compositional matrix adjust.
 Identities = 22/63 (34%), Positives = 39/63 (61%)

Query: 376 PDEVGRLEVLRIHTKNMKLSDDVDLERIAKDTHGYVGADLAALCTEAALQCIREKMDVID 435
           P+E  RL++L+IH++   L+  ++L +IA+   G  GA++  +CTEA    +RE+   + 
Sbjct: 3   PNEEARLDILKIHSRKXNLTRGINLRKIAELXPGASGAEVKGVCTEAGXYALRERRVHVT 62

Query: 436 LED 438
            ED
Sbjct: 63  QED 65


>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 = 46.6 bits (109), Expect = 5e-05,   Method: Compositional matrix adjust.
 Identities = 22/64 (34%), Positives = 36/64 (56%)

Query: 375 VPDEVGRLEVLRIHTKNMKLSDDVDLERIAKDTHGYVGADLAALCTEAALQCIREKMDVI 434
           +PD  GR  + RIH+K+M +   +  E I++      GA+L ++CTEA +  IR +  V 
Sbjct: 7   LPDLEGRANIFRIHSKSMSVERGIRWELISRLCPNSTGAELRSVCTEAGMFAIRARRKVA 66

Query: 435 DLED 438
             +D
Sbjct: 67  TEKD 70



 Score = 32.3 bits (72), Expect = 1.1,   Method: Compositional matrix adjust.
 Identities = 15/54 (27%), Positives = 27/54 (50%)

Query: 651 LPDEESRLQIFKACLRKSPVSKDVDLRALAKYTQGFSGADITEICQRACKYAIR 704
           LPD E R  IF+   +   V + +    +++     +GA++  +C  A  +AIR
Sbjct: 7   LPDLEGRANIFRIHSKSMSVERGIRWELISRLCPNSTGAELRSVCTEAGMFAIR 60


>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 = 43.9 bits (102), Expect = 4e-04,   Method: Compositional matrix adjust.
 Identities = 42/165 (25%), Positives = 71/165 (43%), Gaps = 23/165 (13%)

Query: 226 LPLRHPQLFKSIGVKPP-KGILLYGP-PGSGKTLIARAVANETGAFFFCINGPEIMSKLA 283
           LP    + FKSI  K     I+L+ P PG+GKT +A+A+ ++  A    +NG +      
Sbjct: 30  LPAFDKETFKSITSKGKIPHIILHSPSPGTGKTTVAKALCHDVNADMMFVNGSDCKIDFV 89

Query: 284 GESESNLRKA--FEEAEKNAPSIIFIDEIDSIAPKREKTHGEVERRIVSQLLTLMDGLKS 341
               +N   A  F+  +K    +I IDE D       + H          L + M+   S
Sbjct: 90  RGPLTNFASAASFDGRQK----VIVIDEFDRSGLAESQRH----------LRSFMEAYSS 135

Query: 342 RAHVIVIGATNRPNSIDPALRRFGRFDREIDIGVPDEVGRLEVLR 386
              +I+       N+ID  ++      R I  G P +  ++E+++
Sbjct: 136 NCSIIITA-----NNIDGIIKPLQSRCRVITFGQPTDEDKIEMMK 175



 Score = 31.2 bits (69), Expect = 2.6,   Method: Compositional matrix adjust.
 Identities = 42/167 (25%), Positives = 68/167 (40%), Gaps = 29/167 (17%)

Query: 508 EKFGMSPSKG----VLFYGP-PGCGKTLLAKAIANECQANFISVKGPELLTMWFGESEAN 562
           E F    SKG    ++ + P PG GKT +AKA+ ++  A+ + V G +    +      N
Sbjct: 36  ETFKSITSKGKIPHIILHSPSPGTGKTTVAKALCHDVNADMMFVNGSDCKIDFVRGPLTN 95

Query: 563 VREI--FDKARQSAPCVLFFDELDSIATQXXXXXXXXXXXXXXXLNQLLTEMDGMSAKKT 620
                 FD  RQ    V+  DE D                       L + M+  S+  +
Sbjct: 96  FASAASFD-GRQK---VIVIDEFDRSGLAESQ-------------RHLRSFMEAYSSNCS 138

Query: 621 VFIIGATNRPDIIDPALLRPGRLDQLIYIPLPDEESRLQIFKACLRK 667
           + II A N   II P   R     ++I    P +E ++++ K  +R+
Sbjct: 139 I-IITANNIDGIIKPLQSRC----RVITFGQPTDEDKIEMMKQMIRR 180


>pdb|1D2N|A Chain A, D2 Domain Of N-Ethylmaleimide-Sensitive Fusion Protein
          Length = 272

 Score = 43.5 bits (101), Expect = 4e-04,   Method: Compositional matrix adjust.
 Identities = 27/77 (35%), Positives = 44/77 (57%), Gaps = 7/77 (9%)

Query: 241 PPKGILLYGPPGSGKTLIARAVANETGAFFFCINGPEIMSKLAGESES----NLRKAFEE 296
           P   +LL GPP SGKT +A  +A E+   F  I  P+   K+ G SE+     ++K F++
Sbjct: 63  PLVSVLLEGPPHSGKTALAAKIAEESNFPFIKICSPD---KMIGFSETAKCQAMKKIFDD 119

Query: 297 AEKNAPSIIFIDEIDSI 313
           A K+  S + +D+I+ +
Sbjct: 120 AYKSQLSCVVVDDIERL 136



 Score = 39.7 bits (91), Expect = 0.006,   Method: Compositional matrix adjust.
 Identities = 25/76 (32%), Positives = 40/76 (52%), Gaps = 3/76 (3%)

Query: 513 SPSKGVLFYGPPGCGKTLLAKAIANECQANFISVKGPELLTMWFGESE--ANVREIFDKA 570
           +P   VL  GPP  GKT LA  IA E    FI +  P+ + + F E+     +++IFD A
Sbjct: 62  TPLVSVLLEGPPHSGKTALAAKIAEESNFPFIKICSPDKM-IGFSETAKCQAMKKIFDDA 120

Query: 571 RQSAPCVLFFDELDSI 586
            +S    +  D+++ +
Sbjct: 121 YKSQLSCVVVDDIERL 136


>pdb|1NSF|A Chain A, D2 Hexamerization Domain Of N-Ethylmaleimide Sensitive
           Factor (Nsf)
          Length = 273

 Score = 43.5 bits (101), Expect = 4e-04,   Method: Compositional matrix adjust.
 Identities = 27/77 (35%), Positives = 44/77 (57%), Gaps = 7/77 (9%)

Query: 241 PPKGILLYGPPGSGKTLIARAVANETGAFFFCINGPEIMSKLAGESES----NLRKAFEE 296
           P   +LL GPP SGKT +A  +A E+   F  I  P+   K+ G SE+     ++K F++
Sbjct: 62  PLVSVLLEGPPHSGKTALAAKIAEESNFPFIKICSPD---KMIGFSETAKCQAMKKIFDD 118

Query: 297 AEKNAPSIIFIDEIDSI 313
           A K+  S + +D+I+ +
Sbjct: 119 AYKSQLSCVVVDDIERL 135



 Score = 39.7 bits (91), Expect = 0.006,   Method: Compositional matrix adjust.
 Identities = 25/76 (32%), Positives = 40/76 (52%), Gaps = 3/76 (3%)

Query: 513 SPSKGVLFYGPPGCGKTLLAKAIANECQANFISVKGPELLTMWFGESE--ANVREIFDKA 570
           +P   VL  GPP  GKT LA  IA E    FI +  P+ + + F E+     +++IFD A
Sbjct: 61  TPLVSVLLEGPPHSGKTALAAKIAEESNFPFIKICSPDKM-IGFSETAKCQAMKKIFDDA 119

Query: 571 RQSAPCVLFFDELDSI 586
            +S    +  D+++ +
Sbjct: 120 YKSQLSCVVVDDIERL 135


>pdb|1J7K|A Chain A, Thermotoga Maritima Ruvb P216g Mutant
          Length = 334

 Score = 43.5 bits (101), Expect = 5e-04,   Method: Compositional matrix adjust.
 Identities = 26/68 (38%), Positives = 33/68 (48%), Gaps = 8/68 (11%)

Query: 485 GLENVKRELQETVQYPVEHPEKFEKFGMSPSKGVLFYGPPGCGKTLLAKAIANECQANFI 544
           G ENVK++L   ++      E  +         VL  GPPG GKT LA  IA+E Q N  
Sbjct: 29  GQENVKKKLSLALEAAKMRGEVLDH--------VLLAGPPGLGKTTLAHIIASELQTNIH 80

Query: 545 SVKGPELL 552
              GP L+
Sbjct: 81  VTSGPVLV 88



 Score = 37.4 bits (85), Expect = 0.032,   Method: Compositional matrix adjust.
 Identities = 36/134 (26%), Positives = 58/134 (43%), Gaps = 28/134 (20%)

Query: 245 ILLYGPPGSGKTLIARAVANETGAFFFCINGPEIMSKLAGESESNLRKAFEEAEKNAPSI 304
           +LL GPPG GKT +A  +A+E        +GP ++       + ++       E+    +
Sbjct: 54  VLLAGPPGLGKTTLAHIIASELQTNIHVTSGPVLV------KQGDMAAILTSLERG--DV 105

Query: 305 IFIDEIDSIAPKREKTHGEVERRIVSQL----LTLMDGLKSRAHVI--------VIGATN 352
           +FIDEI        + +  VE  + S +    + +M G    A  I        ++GAT 
Sbjct: 106 LFIDEI-------HRLNKAVEELLYSAIEDFQIDIMIGKGPSAKSIRIDIQPFTLVGATT 158

Query: 353 RPNSIDPALR-RFG 365
           R   +   LR RFG
Sbjct: 159 RSGLLSSPLRSRFG 172


>pdb|1IN7|A Chain A, Thermotoga Maritima Ruvb R170a
          Length = 334

 Score = 43.5 bits (101), Expect = 5e-04,   Method: Compositional matrix adjust.
 Identities = 26/68 (38%), Positives = 33/68 (48%), Gaps = 8/68 (11%)

Query: 485 GLENVKRELQETVQYPVEHPEKFEKFGMSPSKGVLFYGPPGCGKTLLAKAIANECQANFI 544
           G ENVK++L   ++      E  +         VL  GPPG GKT LA  IA+E Q N  
Sbjct: 29  GQENVKKKLSLALEAAKMRGEVLDH--------VLLAGPPGLGKTTLAHIIASELQTNIH 80

Query: 545 SVKGPELL 552
              GP L+
Sbjct: 81  VTSGPVLV 88



 Score = 35.8 bits (81), Expect = 0.093,   Method: Compositional matrix adjust.
 Identities = 44/178 (24%), Positives = 74/178 (41%), Gaps = 30/178 (16%)

Query: 245 ILLYGPPGSGKTLIARAVANETGAFFFCINGPEIMSKLAGESESNLRKAFEEAEKNAPSI 304
           +LL GPPG GKT +A  +A+E        +GP ++       + ++       E+    +
Sbjct: 54  VLLAGPPGLGKTTLAHIIASELQTNIHVTSGPVLV------KQGDMAAILTSLERG--DV 105

Query: 305 IFIDEIDSIAPKREKTHGEVERRIVSQL----LTLMDGLKSRAHVI--------VIGATN 352
           +FIDEI        + +  VE  + S +    + +M G    A  I        ++GAT 
Sbjct: 106 LFIDEI-------HRLNKAVEELLYSAIEDFQIDIMIGKGPSAKSIRIDIQPFTLVGATT 158

Query: 353 RPNSIDPALRRFGRFDREIDIGVPDEVGRLEVLRIHTKNMKLS-DDVDLERIAKDTHG 409
           R   +   LR       E+D     E+   E+++     M +  +D   E IAK + G
Sbjct: 159 RSGLLSSPLRSAFGIILELDFYTVKELK--EIIKRAASLMDVEIEDAAAEMIAKRSRG 214


>pdb|1IN4|A Chain A, Thermotoga Maritima Ruvb Holliday Junction Branch
           Migration Motor
          Length = 334

 Score = 43.5 bits (101), Expect = 5e-04,   Method: Compositional matrix adjust.
 Identities = 26/68 (38%), Positives = 33/68 (48%), Gaps = 8/68 (11%)

Query: 485 GLENVKRELQETVQYPVEHPEKFEKFGMSPSKGVLFYGPPGCGKTLLAKAIANECQANFI 544
           G ENVK++L   ++      E  +         VL  GPPG GKT LA  IA+E Q N  
Sbjct: 29  GQENVKKKLSLALEAAKMRGEVLDH--------VLLAGPPGLGKTTLAHIIASELQTNIH 80

Query: 545 SVKGPELL 552
              GP L+
Sbjct: 81  VTSGPVLV 88



 Score = 37.4 bits (85), Expect = 0.030,   Method: Compositional matrix adjust.
 Identities = 36/134 (26%), Positives = 58/134 (43%), Gaps = 28/134 (20%)

Query: 245 ILLYGPPGSGKTLIARAVANETGAFFFCINGPEIMSKLAGESESNLRKAFEEAEKNAPSI 304
           +LL GPPG GKT +A  +A+E        +GP ++       + ++       E+    +
Sbjct: 54  VLLAGPPGLGKTTLAHIIASELQTNIHVTSGPVLV------KQGDMAAILTSLERG--DV 105

Query: 305 IFIDEIDSIAPKREKTHGEVERRIVSQL----LTLMDGLKSRAHVI--------VIGATN 352
           +FIDEI        + +  VE  + S +    + +M G    A  I        ++GAT 
Sbjct: 106 LFIDEI-------HRLNKAVEELLYSAIEDFQIDIMIGKGPSAKSIRIDIQPFTLVGATT 158

Query: 353 RPNSIDPALR-RFG 365
           R   +   LR RFG
Sbjct: 159 RSGLLSSPLRSRFG 172


>pdb|1IN5|A Chain A, Thermogota Maritima Ruvb A156s Mutant
          Length = 334

 Score = 43.5 bits (101), Expect = 5e-04,   Method: Compositional matrix adjust.
 Identities = 26/68 (38%), Positives = 33/68 (48%), Gaps = 8/68 (11%)

Query: 485 GLENVKRELQETVQYPVEHPEKFEKFGMSPSKGVLFYGPPGCGKTLLAKAIANECQANFI 544
           G ENVK++L   ++      E  +         VL  GPPG GKT LA  IA+E Q N  
Sbjct: 29  GQENVKKKLSLALEAAKMRGEVLDH--------VLLAGPPGLGKTTLAHIIASELQTNIH 80

Query: 545 SVKGPELL 552
              GP L+
Sbjct: 81  VTSGPVLV 88



 Score = 36.2 bits (82), Expect = 0.068,   Method: Compositional matrix adjust.
 Identities = 35/134 (26%), Positives = 58/134 (43%), Gaps = 28/134 (20%)

Query: 245 ILLYGPPGSGKTLIARAVANETGAFFFCINGPEIMSKLAGESESNLRKAFEEAEKNAPSI 304
           +LL GPPG GKT +A  +A+E        +GP ++       + ++       E+    +
Sbjct: 54  VLLAGPPGLGKTTLAHIIASELQTNIHVTSGPVLV------KQGDMAAILTSLERG--DV 105

Query: 305 IFIDEIDSIAPKREKTHGEVERRIVSQL----LTLMDGLKSRAHVI--------VIGATN 352
           +FIDEI        + +  VE  + S +    + +M G    A  I        ++G+T 
Sbjct: 106 LFIDEI-------HRLNKAVEELLYSAIEDFQIDIMIGKGPSAKSIRIDIQPFTLVGSTT 158

Query: 353 RPNSIDPALR-RFG 365
           R   +   LR RFG
Sbjct: 159 RSGLLSSPLRSRFG 172


>pdb|1IN8|A Chain A, Thermotoga Maritima Ruvb T158v
          Length = 334

 Score = 43.1 bits (100), Expect = 5e-04,   Method: Compositional matrix adjust.
 Identities = 26/68 (38%), Positives = 33/68 (48%), Gaps = 8/68 (11%)

Query: 485 GLENVKRELQETVQYPVEHPEKFEKFGMSPSKGVLFYGPPGCGKTLLAKAIANECQANFI 544
           G ENVK++L   ++      E  +         VL  GPPG GKT LA  IA+E Q N  
Sbjct: 29  GQENVKKKLSLALEAAKMRGEVLDH--------VLLAGPPGLGKTTLAHIIASELQTNIH 80

Query: 545 SVKGPELL 552
              GP L+
Sbjct: 81  VTSGPVLV 88



 Score = 36.6 bits (83), Expect = 0.064,   Method: Compositional matrix adjust.
 Identities = 36/134 (26%), Positives = 58/134 (43%), Gaps = 28/134 (20%)

Query: 245 ILLYGPPGSGKTLIARAVANETGAFFFCINGPEIMSKLAGESESNLRKAFEEAEKNAPSI 304
           +LL GPPG GKT +A  +A+E        +GP ++       + ++       E+    +
Sbjct: 54  VLLAGPPGLGKTTLAHIIASELQTNIHVTSGPVLV------KQGDMAAILTSLERG--DV 105

Query: 305 IFIDEIDSIAPKREKTHGEVERRIVSQL----LTLMDGLKSRAHVI--------VIGATN 352
           +FIDEI        + +  VE  + S +    + +M G    A  I        ++GAT 
Sbjct: 106 LFIDEI-------HRLNKAVEELLYSAIEDFQIDIMIGKGPSAKSIRIDIQPFTLVGATV 158

Query: 353 RPNSIDPALR-RFG 365
           R   +   LR RFG
Sbjct: 159 RSGLLSSPLRSRFG 172


>pdb|1IN6|A Chain A, Thermotoga Maritima Ruvb K64r Mutant
          Length = 334

 Score = 42.4 bits (98), Expect = 0.001,   Method: Compositional matrix adjust.
 Identities = 25/68 (36%), Positives = 33/68 (48%), Gaps = 8/68 (11%)

Query: 485 GLENVKRELQETVQYPVEHPEKFEKFGMSPSKGVLFYGPPGCGKTLLAKAIANECQANFI 544
           G ENVK++L   ++      E  +         VL  GPPG G+T LA  IA+E Q N  
Sbjct: 29  GQENVKKKLSLALEAAKMRGEVLDH--------VLLAGPPGLGRTTLAHIIASELQTNIH 80

Query: 545 SVKGPELL 552
              GP L+
Sbjct: 81  VTSGPVLV 88



 Score = 36.2 bits (82), Expect = 0.066,   Method: Compositional matrix adjust.
 Identities = 35/134 (26%), Positives = 58/134 (43%), Gaps = 28/134 (20%)

Query: 245 ILLYGPPGSGKTLIARAVANETGAFFFCINGPEIMSKLAGESESNLRKAFEEAEKNAPSI 304
           +LL GPPG G+T +A  +A+E        +GP ++       + ++       E+    +
Sbjct: 54  VLLAGPPGLGRTTLAHIIASELQTNIHVTSGPVLV------KQGDMAAILTSLERG--DV 105

Query: 305 IFIDEIDSIAPKREKTHGEVERRIVSQL----LTLMDGLKSRAHVI--------VIGATN 352
           +FIDEI        + +  VE  + S +    + +M G    A  I        ++GAT 
Sbjct: 106 LFIDEI-------HRLNKAVEELLYSAIEDFQIDIMIGKGPSAKSIRIDIQPFTLVGATT 158

Query: 353 RPNSIDPALR-RFG 365
           R   +   LR RFG
Sbjct: 159 RSGLLSSPLRSRFG 172


>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 = 29/83 (34%), Positives = 42/83 (50%), Gaps = 20/83 (24%)

Query: 245 ILLYGPPGSGKTLIARAVANE-------------TGAFFFCINGPEIMSKLAGESESNLR 291
           ILL GP GSGKTL+A+ +A               T A +   +   I+++L   S+ N++
Sbjct: 75  ILLIGPTGSGKTLMAQTLAKHLDIPIAISDATSLTEAGYVGEDVENILTRLLQASDWNVQ 134

Query: 292 KAFEEAEKNAPSIIFIDEIDSIA 314
           KA          I+FIDEID I+
Sbjct: 135 KA-------QKGIVFIDEIDKIS 150



 Score = 34.3 bits (77), Expect = 0.29,   Method: Compositional matrix adjust.
 Identities = 23/83 (27%), Positives = 39/83 (46%), Gaps = 20/83 (24%)

Query: 518 VLFYGPPGCGKTLLAKAIANE-------------CQANFISVKGPELLTMWFGESEANVR 564
           +L  GP G GKTL+A+ +A                +A ++      +LT     S+ NV+
Sbjct: 75  ILLIGPTGSGKTLMAQTLAKHLDIPIAISDATSLTEAGYVGEDVENILTRLLQASDWNVQ 134

Query: 565 EIFDKARQSAPCVLFFDELDSIA 587
               KA++    ++F DE+D I+
Sbjct: 135 ----KAQKG---IVFIDEIDKIS 150


>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 = 40.4 bits (93), Expect = 0.004,   Method: Compositional matrix adjust.
 Identities = 22/74 (29%), Positives = 37/74 (50%), Gaps = 15/74 (20%)

Query: 519 LFYGPPGCGKTLLAKAIANECQANFISVKGPELL-----------TMWFGESEANVREIF 567
           +  G PG GKT +A+ +A +   N +    PE+L           T + GE E  ++++ 
Sbjct: 205 VLIGEPGVGKTAIAEGLAQQIINNEV----PEILRDKRVMTLDMGTKYRGEFEDRLKKVM 260

Query: 568 DKARQSAPCVLFFD 581
           D+ RQ+   +LF D
Sbjct: 261 DEIRQAGNIILFID 274



 Score = 35.0 bits (79), Expect = 0.19,   Method: Compositional matrix adjust.
 Identities = 26/76 (34%), Positives = 35/76 (46%), Gaps = 19/76 (25%)

Query: 246 LLYGPPGSGKTLIARAVANETGAFFFCING--PEIM-----------SKLAGESESNLRK 292
           +L G PG GKT IA  +A +       IN   PEI+           +K  GE E  L+K
Sbjct: 205 VLIGEPGVGKTAIAEGLAQQ------IINNEVPEILRDKRVMTLDMGTKYRGEFEDRLKK 258

Query: 293 AFEEAEKNAPSIIFID 308
             +E  +    I+FID
Sbjct: 259 VMDEIRQAGNIILFID 274


>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 = 40.0 bits (92), Expect = 0.005,   Method: Compositional matrix adjust.
 Identities = 22/74 (29%), Positives = 37/74 (50%), Gaps = 15/74 (20%)

Query: 519 LFYGPPGCGKTLLAKAIANECQANFISVKGPELL-----------TMWFGESEANVREIF 567
           +  G PG GKT +A+ +A +   N +    PE+L           T + GE E  ++++ 
Sbjct: 205 VLIGEPGVGKTAIAEGLAQQIINNEV----PEILRDKRVMTLDMGTKYRGEFEDRLKKVM 260

Query: 568 DKARQSAPCVLFFD 581
           D+ RQ+   +LF D
Sbjct: 261 DEIRQAGNIILFID 274



 Score = 34.7 bits (78), Expect = 0.23,   Method: Compositional matrix adjust.
 Identities = 26/76 (34%), Positives = 35/76 (46%), Gaps = 19/76 (25%)

Query: 246 LLYGPPGSGKTLIARAVANETGAFFFCING--PEIM-----------SKLAGESESNLRK 292
           +L G PG GKT IA  +A +       IN   PEI+           +K  GE E  L+K
Sbjct: 205 VLIGEPGVGKTAIAEGLAQQ------IINNEVPEILRDKRVMTLDMGTKYRGEFEDRLKK 258

Query: 293 AFEEAEKNAPSIIFID 308
             +E  +    I+FID
Sbjct: 259 VMDEIRQAGNIILFID 274


>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 = 39.7 bits (91), Expect = 0.008,   Method: Compositional matrix adjust.
 Identities = 49/184 (26%), Positives = 80/184 (43%), Gaps = 35/184 (19%)

Query: 216 QMAQIRELVELPLRHPQLFKSIGV---KPPKGILLYGPPGSGKTLIARAVANETGAFFFC 272
           Q+A++  +  L  R  +L ++I V   +     LL G  G GKT IA  +A      +  
Sbjct: 178 QLARVGGIDPLIGREKELERAIQVLCRRRKNNPLLVGESGVGKTAIAEGLA------WRI 231

Query: 273 ING--PEIM----------------SKLAGESESNLRKAFEEAEKNAPSIIFIDEIDSIA 314
           + G  PE+M                +K  G+ E   +   ++ E++  SI+FIDEI +I 
Sbjct: 232 VQGDVPEVMADCTIYSLDIGSLLAGTKYRGDFEKRFKALLKQLEQDTNSILFIDEIHTII 291

Query: 315 PKREKTHGEVERRIVSQLLTLMDGLKSRAHVIVIGATNRP--NSIDPALRRFGRFDREID 372
                + G+V+         L+  L S   + VIG+T     ++I    R   R  ++ID
Sbjct: 292 GAGAASGGQVD------AANLIKPLLSSGKIRVIGSTTYQEFSNIFEKDRALARRFQKID 345

Query: 373 IGVP 376
           I  P
Sbjct: 346 ITEP 349


>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 = 38.9 bits (89), Expect = 0.011,   Method: Compositional matrix adjust.
 Identities = 23/57 (40%), Positives = 34/57 (59%), Gaps = 5/57 (8%)

Query: 243 KGILLYGPPGSGKTLIARAVANETGAFF-FC-INGPEIMSKLAGESE---SNLRKAF 294
           + +LL GPPG+GKT +A A+A E G+   FC + G E+ S    ++E    N R+A 
Sbjct: 64  RAVLLAGPPGTGKTALALAIAQELGSKVPFCPMVGSEVYSTEIKKTEVLMENFRRAI 120



 Score = 34.7 bits (78), Expect = 0.24,   Method: Compositional matrix adjust.
 Identities = 19/47 (40%), Positives = 26/47 (55%), Gaps = 2/47 (4%)

Query: 516 KGVLFYGPPGCGKTLLAKAIANECQAN--FISVKGPELLTMWFGESE 560
           + VL  GPPG GKT LA AIA E  +   F  + G E+ +    ++E
Sbjct: 64  RAVLLAGPPGTGKTALALAIAQELGSKVPFCPMVGSEVYSTEIKKTE 110


>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 = 38.9 bits (89), Expect = 0.012,   Method: Compositional matrix adjust.
 Identities = 27/71 (38%), Positives = 37/71 (52%), Gaps = 5/71 (7%)

Query: 243 KGILLYGPPGSGKTLIARAVANETGAFF-FC-INGPEIMSKLAGESE---SNLRKAFEEA 297
           + +LL GPPG+GKT +A A+A E G+   FC   G E+ S    ++E    N R+A    
Sbjct: 78  RAVLLAGPPGTGKTALALAIAQELGSKVPFCPXVGSEVYSTEIKKTEVLXENFRRAIGLR 137

Query: 298 EKNAPSIIFID 308
            K  P  I  D
Sbjct: 138 IKEGPPGIIQD 148



 Score = 33.9 bits (76), Expect = 0.39,   Method: Compositional matrix adjust.
 Identities = 19/47 (40%), Positives = 25/47 (53%), Gaps = 2/47 (4%)

Query: 516 KGVLFYGPPGCGKTLLAKAIANECQAN--FISVKGPELLTMWFGESE 560
           + VL  GPPG GKT LA AIA E  +   F    G E+ +    ++E
Sbjct: 78  RAVLLAGPPGTGKTALALAIAQELGSKVPFCPXVGSEVYSTEIKKTE 124


>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 = 38.5 bits (88), Expect = 0.015,   Method: Compositional matrix adjust.
 Identities = 27/80 (33%), Positives = 40/80 (50%), Gaps = 6/80 (7%)

Query: 245 ILLYGPPGSGKTLIARAVANETGAFFFCINGPEIM-SKLAGESESN-----LRKAFEEAE 298
           ILL GP GSGKTL+A  +A      F   +   +  +   GE   N     L+K   + +
Sbjct: 54  ILLIGPTGSGKTLLAETLARLLDVPFTMADATTLTEAGYVGEDVENIIQKLLQKCDYDVQ 113

Query: 299 KNAPSIIFIDEIDSIAPKRE 318
           K    I++ID+ID I+ K +
Sbjct: 114 KAQRGIVYIDQIDKISRKSD 133



 Score = 32.0 bits (71), Expect = 1.5,   Method: Compositional matrix adjust.
 Identities = 20/76 (26%), Positives = 37/76 (48%), Gaps = 6/76 (7%)

Query: 518 VLFYGPPGCGKTLLAKAIANECQANFISVKGPELLTM-WFGESEAN-VREIFDK----AR 571
           +L  GP G GKTLLA+ +A      F       L    + GE   N ++++  K     +
Sbjct: 54  ILLIGPTGSGKTLLAETLARLLDVPFTMADATTLTEAGYVGEDVENIIQKLLQKCDYDVQ 113

Query: 572 QSAPCVLFFDELDSIA 587
           ++   +++ D++D I+
Sbjct: 114 KAQRGIVYIDQIDKIS 129


>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 = 38.5 bits (88), Expect = 0.015,   Method: Compositional matrix adjust.
 Identities = 27/80 (33%), Positives = 40/80 (50%), Gaps = 6/80 (7%)

Query: 245 ILLYGPPGSGKTLIARAVANETGAFFFCINGPEIM-SKLAGESESN-----LRKAFEEAE 298
           ILL GP GSGKTL+A  +A      F   +   +  +   GE   N     L+K   + +
Sbjct: 54  ILLIGPTGSGKTLLAETLARLLDVPFTMADATTLTEAGYVGEDVENIIQKLLQKCDYDVQ 113

Query: 299 KNAPSIIFIDEIDSIAPKRE 318
           K    I++ID+ID I+ K +
Sbjct: 114 KAQRGIVYIDQIDKISRKSD 133



 Score = 32.0 bits (71), Expect = 1.5,   Method: Compositional matrix adjust.
 Identities = 20/76 (26%), Positives = 37/76 (48%), Gaps = 6/76 (7%)

Query: 518 VLFYGPPGCGKTLLAKAIANECQANFISVKGPELLTM-WFGESEAN-VREIFDK----AR 571
           +L  GP G GKTLLA+ +A      F       L    + GE   N ++++  K     +
Sbjct: 54  ILLIGPTGSGKTLLAETLARLLDVPFTMADATTLTEAGYVGEDVENIIQKLLQKCDYDVQ 113

Query: 572 QSAPCVLFFDELDSIA 587
           ++   +++ D++D I+
Sbjct: 114 KAQRGIVYIDQIDKIS 129


>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 = 37.7 bits (86), Expect = 0.028,   Method: Compositional matrix adjust.
 Identities = 29/108 (26%), Positives = 51/108 (47%), Gaps = 14/108 (12%)

Query: 485 GLENVKRELQETVQYPVEHPEKFEKFGM---SPSKGVLFYGPPGCGKTLLAKAIANEC-- 539
           GL+ VK  ++ET    +    + +K G+   +P+  + F G PG GKT +A  +A     
Sbjct: 35  GLKPVKDRIRETAALLLVERAR-QKLGLAHETPTLHMSFTGNPGTGKTTVALKMAGLLHR 93

Query: 540 -----QANFISVKGPELLTMWFGESEANVREIFDKARQSAPCVLFFDE 582
                + + +SV   +L+  + G +    +E+  +A      VLF DE
Sbjct: 94  LGYVRKGHLVSVTRDDLVGQYIGHTAPKTKEVLKRA---MGGVLFIDE 138


>pdb|2ZRH|A Chain A, Msreca Q196a Form Iv
 pdb|2ZRI|A Chain A, Msreca Q196a Adp Form Iv
 pdb|2ZRJ|A Chain A, Msreca Q196a Atpgs Form Iv
 pdb|2ZRK|A Chain A, Msreca Q196a Datp Form Iv
 pdb|2ZRL|A Chain A, Msreca Q196a Datp Form Ii'
          Length = 349

 Score = 37.7 bits (86), Expect = 0.028,   Method: Compositional matrix adjust.
 Identities = 40/124 (32%), Positives = 58/124 (46%), Gaps = 27/124 (21%)

Query: 242 PKG--ILLYGPPGSGKTLIA-RAVAN--ETGAFFFCING-----PEIMSKLAGESESNL- 290
           P+G  I +YGP  SGKT +A  AVAN    G     I+      PE   KL  +++S L 
Sbjct: 59  PRGRVIEIYGPESSGKTTVALHAVANAQAAGGIAAFIDAEHALDPEYAKKLGVDTDSLLV 118

Query: 291 ------RKAFEEAE----KNAPSIIFIDEIDSIAPKRE------KTHGEVERRIVSQLLT 334
                  +A E A+      A  II ID + ++ P+ E       +H  ++ R++SQ L 
Sbjct: 119 SQPDTGEQALEIADMLVRSGALDIIVIDSVAALVPRAEIEGEMGDSHVGLQARLMSQALR 178

Query: 335 LMDG 338
            M G
Sbjct: 179 KMTG 182


>pdb|1UBC|A Chain A, Structure Of Reca Protein
 pdb|1UBE|A Chain A, Msreca-Adp Complex
 pdb|1UBF|A Chain A, Msreca-Atpgs Complex
 pdb|1UBG|A Chain A, Msreca-Datp Complex
 pdb|2G88|A Chain A, Msreca-datp Complex
 pdb|2ODN|A Chain A, Msreca-Datp Complex
 pdb|2ODW|A Chain A, Msreca-Atp-Gama-S Complex
 pdb|2OE2|A Chain A, Msreca-Native-Low Humidity 95%
 pdb|2OEP|A Chain A, Msreca-adp-complex
 pdb|2OES|A Chain A, Msreca-Native-Ssb
 pdb|2OFO|A Chain A, Msreca-native
 pdb|2ZR7|A Chain A, Msreca Native Form Ii'
 pdb|2ZRM|A Chain A, Msreca Datp Form Iv
 pdb|2ZRN|A Chain A, Msreca Form Iv
 pdb|2ZRO|A Chain A, Msreca Adp Form Iv
 pdb|2ZRP|A Chain A, Msreca Datp Form Ii'
          Length = 349

 Score = 37.7 bits (86), Expect = 0.029,   Method: Compositional matrix adjust.
 Identities = 40/124 (32%), Positives = 58/124 (46%), Gaps = 27/124 (21%)

Query: 242 PKG--ILLYGPPGSGKTLIA-RAVAN--ETGAFFFCING-----PEIMSKLAGESESNL- 290
           P+G  I +YGP  SGKT +A  AVAN    G     I+      PE   KL  +++S L 
Sbjct: 59  PRGRVIEIYGPESSGKTTVALHAVANAQAAGGIAAFIDAEHALDPEYAKKLGVDTDSLLV 118

Query: 291 ------RKAFEEAE----KNAPSIIFIDEIDSIAPKRE------KTHGEVERRIVSQLLT 334
                  +A E A+      A  II ID + ++ P+ E       +H  ++ R++SQ L 
Sbjct: 119 SQPDTGEQALEIADMLVRSGALDIIVIDSVAALVPRAEIEGEMGDSHVGLQARLMSQALR 178

Query: 335 LMDG 338
            M G
Sbjct: 179 KMTG 182


>pdb|2ZRC|A Chain A, Msreca Q196n Form Iv
 pdb|2ZRD|A Chain A, Msreca Q196n Adp Form Iv
 pdb|2ZRE|A Chain A, Msreca Q196n Atpgs Form Iv
 pdb|2ZRF|A Chain A, Msreca Q196n Datp Form Iv
 pdb|2ZRG|A Chain A, Msreca Q196n Datp Form Ii'
          Length = 349

 Score = 37.4 bits (85), Expect = 0.030,   Method: Compositional matrix adjust.
 Identities = 40/124 (32%), Positives = 58/124 (46%), Gaps = 27/124 (21%)

Query: 242 PKG--ILLYGPPGSGKTLIA-RAVAN--ETGAFFFCING-----PEIMSKLAGESESNL- 290
           P+G  I +YGP  SGKT +A  AVAN    G     I+      PE   KL  +++S L 
Sbjct: 59  PRGRVIEIYGPESSGKTTVALHAVANAQAAGGIAAFIDAEHALDPEYAKKLGVDTDSLLV 118

Query: 291 ------RKAFEEAE----KNAPSIIFIDEIDSIAPKRE------KTHGEVERRIVSQLLT 334
                  +A E A+      A  II ID + ++ P+ E       +H  ++ R++SQ L 
Sbjct: 119 SQPDTGEQALEIADMLVRSGALDIIVIDSVAALVPRAEIEGEMGDSHVGLQARLMSQALR 178

Query: 335 LMDG 338
            M G
Sbjct: 179 KMTG 182


>pdb|2ZR0|A Chain A, Msreca-Q196e Mutant
 pdb|2ZR9|A Chain A, Msreca Q196e Datp Form Iv
 pdb|2ZRA|A Chain A, Msreca Q196e Atpgs
 pdb|2ZRB|A Chain A, Msreca Q196e Form Ii'
          Length = 349

 Score = 37.4 bits (85), Expect = 0.031,   Method: Compositional matrix adjust.
 Identities = 40/124 (32%), Positives = 58/124 (46%), Gaps = 27/124 (21%)

Query: 242 PKG--ILLYGPPGSGKTLIA-RAVAN--ETGAFFFCING-----PEIMSKLAGESESNL- 290
           P+G  I +YGP  SGKT +A  AVAN    G     I+      PE   KL  +++S L 
Sbjct: 59  PRGRVIEIYGPESSGKTTVALHAVANAQAAGGIAAFIDAEHALDPEYAKKLGVDTDSLLV 118

Query: 291 ------RKAFEEAE----KNAPSIIFIDEIDSIAPKRE------KTHGEVERRIVSQLLT 334
                  +A E A+      A  II ID + ++ P+ E       +H  ++ R++SQ L 
Sbjct: 119 SQPDTGEQALEIADMLVRSGALDIIVIDSVAALVPRAEIEGEMGDSHVGLQARLMSQALR 178

Query: 335 LMDG 338
            M G
Sbjct: 179 KMTG 182


>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 = 37.4 bits (85), Expect = 0.037,   Method: Compositional matrix adjust.
 Identities = 29/108 (26%), Positives = 51/108 (47%), Gaps = 14/108 (12%)

Query: 485 GLENVKRELQETVQYPVEHPEKFEKFGM---SPSKGVLFYGPPGCGKTLLAKAIANEC-- 539
           GL+ VK  ++ET    +    + +K G+   +P+  + F G PG GKT +A  +A     
Sbjct: 28  GLKPVKDRIRETAALLLVERAR-QKLGLAHETPTLHMSFTGNPGTGKTTVALKMAGLLHR 86

Query: 540 -----QANFISVKGPELLTMWFGESEANVREIFDKARQSAPCVLFFDE 582
                + + +SV   +L+  + G +    +E+  +A      VLF DE
Sbjct: 87  LGYVRKGHLVSVTRDDLVGQYIGHTAPKTKEVLKRA---MGGVLFIDE 131


>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 = 37.0 bits (84), Expect = 0.045,   Method: Composition-based stats.
 Identities = 20/62 (32%), Positives = 32/62 (51%)

Query: 377 DEVGRLEVLRIHTKNMKLSDDVDLERIAKDTHGYVGADLAALCTEAALQCIREKMDVIDL 436
           D  GR  + RIH+K+  +   +  E I++      GA+L ++CTEA    IR +  V   
Sbjct: 2   DLEGRANIFRIHSKSXSVERGIRWELISRLCPNSTGAELRSVCTEAGXFAIRARRKVATE 61

Query: 437 ED 438
           +D
Sbjct: 62  KD 63


>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 = 36.6 bits (83), Expect = 0.051,   Method: Compositional matrix adjust.
 Identities = 23/65 (35%), Positives = 31/65 (47%), Gaps = 4/65 (6%)

Query: 653 DEESRLQIFKACLRKSPVSKDVDLRALAKYTQGFSGADITEICQRACKYAIREN----IE 708
           D   +  IF     K  +S++VDL          SGADI  ICQ +   A+REN    + 
Sbjct: 2   DRRQKRLIFSTITSKMNLSEEVDLEDYVARPDKISGADINSICQESGMLAVRENRYIVLA 61

Query: 709 KDIER 713
           KD E+
Sbjct: 62  KDFEK 66



 Score = 32.3 bits (72), Expect = 0.98,   Method: Compositional matrix adjust.
 Identities = 15/41 (36%), Positives = 23/41 (56%)

Query: 389 TKNMKLSDDVDLERIAKDTHGYVGADLAALCTEAALQCIRE 429
           T  M LS++VDLE          GAD+ ++C E+ +  +RE
Sbjct: 14  TSKMNLSEEVDLEDYVARPDKISGADINSICQESGMLAVRE 54


>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 = 36.2 bits (82), Expect = 0.068,   Method: Compositional matrix adjust.
 Identities = 26/88 (29%), Positives = 44/88 (50%), Gaps = 12/88 (13%)

Query: 485 GLENVKRELQETVQYPVEHPEKFEKFGMSPSKGVLFYGPPGCGKTLLAKAIANECQANFI 544
            L N  R +Q  +Q P+ H        ++P K +L  GP G GKT +A+ +A    A FI
Sbjct: 30  ALRNRWRRMQ--LQEPLRHE-------VTP-KNILMIGPTGVGKTEIARRLAKLANAPFI 79

Query: 545 SVKGPELLTMWF--GESEANVREIFDKA 570
            V+  +   + +   E ++ +R++ D A
Sbjct: 80  KVEATKFTEVGYVGKEVDSIIRDLTDSA 107



 Score = 35.8 bits (81), Expect = 0.10,   Method: Compositional matrix adjust.
 Identities = 33/109 (30%), Positives = 45/109 (41%), Gaps = 17/109 (15%)

Query: 227 PLRHPQLFKSIGVKPPKGILLYGPPGSGKTLIARAVANETGAFFFCINGPEI--MSKLAG 284
           PLRH           PK IL+ GP G GKT IAR +A    A F  +   +   +  +  
Sbjct: 43  PLRHE--------VTPKNILMIGPTGVGKTEIARRLAKLANAPFIKVEATKFTEVGYVGK 94

Query: 285 ESESNLRKAFEEAEKNAPSIIFIDEIDSIAPKREKTHGEVERRIVSQLL 333
           E +S +R   + A K       +     IA  R +     E RI+  LL
Sbjct: 95  EVDSIIRDLTDSAMK-------LVRQQEIAKNRARAEDVAEERILDALL 136



 Score = 32.7 bits (73), Expect = 0.92,   Method: Compositional matrix adjust.
 Identities = 29/90 (32%), Positives = 45/90 (50%), Gaps = 17/90 (18%)

Query: 291 RKAFEEAEKNAPSIIFIDEIDSIAPKREKTHGEVERRIVSQ-LLTLMD--------GLKS 341
           +KA +  E+N   I+FIDEID I  K E +  +V R  V + LL L++        G+  
Sbjct: 242 QKAIDAVEQNG--IVFIDEIDKICKKGEYSGADVSREGVQRDLLPLVEGSTVSTKHGMVK 299

Query: 342 RAHVIVIGA----TNRPNSIDPALRRFGRF 367
             H++ I +      RP+ + P L+  GR 
Sbjct: 300 TDHILFIASGAFQVARPSDLIPELQ--GRL 327


>pdb|4AI6|A Chain A, Dynein Motor Domain - Adp Complex
 pdb|4AI6|B Chain B, Dynein Motor Domain - Adp Complex
 pdb|4AKG|A Chain A, Dynein Motor Domain - Atp Complex
 pdb|4AKG|B Chain B, Dynein Motor Domain - Atp Complex
 pdb|4AKH|A Chain A, Dynein Motor Domain - Amppnp Complex
 pdb|4AKH|B Chain B, Dynein Motor Domain - Amppnp Complex
 pdb|4AKI|A Chain A, Dynein Motor Domain - Luac Derivative
 pdb|4AKI|B Chain B, Dynein Motor Domain - Luac Derivative
          Length = 2695

 Score = 35.8 bits (81), Expect = 0.092,   Method: Compositional matrix adjust.
 Identities = 47/184 (25%), Positives = 76/184 (41%), Gaps = 26/184 (14%)

Query: 228  LRHPQLFKSIGVKPPKGILLYGPPGSGKTLIA-RAVANETGAFFFCIN------GPEIMS 280
            ++H ++F  + +   +GI+L GPPGSGKT+I   A+ N +      IN         I+S
Sbjct: 1254 IKHEKIFYDL-LNSKRGIILCGPPGSGKTMIMNNALRNSSLYDVVGINFSKDTTTEHILS 1312

Query: 281  KLAGESES-NLRKAFEEAEKN--APSIIFIDEIDSIAPKREKTHGEVERRIVSQLLTLMD 337
             L   +      K      K+     ++F DEI+   PK +K   +     + QL+    
Sbjct: 1313 ALHRHTNYVTTSKGLTLLPKSDIKNLVLFCDEIN--LPKLDKYGSQNVVLFLRQLMEKQG 1370

Query: 338  GLKS---------RAHVIVIGATNRPNSID--PALRRFGRFDREIDIGVPDEVGRLEVLR 386
              K+         R H  ++GA N P      P   RF R    + +G P      ++  
Sbjct: 1371 FWKTPENKWVTIERIH--IVGACNPPTDPGRIPMSERFTRHAAILYLGYPSGKSLSQIYE 1428

Query: 387  IHTK 390
            I+ K
Sbjct: 1429 IYYK 1432


>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 = 35.8 bits (81), Expect = 0.093,   Method: Compositional matrix adjust.
 Identities = 23/70 (32%), Positives = 39/70 (55%), Gaps = 11/70 (15%)

Query: 245 ILLYGPPGSGKTLIARAVANETGAFFFCINGPEIMSKLAGESESNLRKAFEEAEKNAP-- 302
           ++L+GPPG+GKT +A  +A    A     +   I +  +G  E  +R+A E A +N    
Sbjct: 53  MILWGPPGTGKTTLAEVIARYANA-----DVERISAVTSGVKE--IREAIERARQNRNAG 105

Query: 303 --SIIFIDEI 310
             +I+F+DE+
Sbjct: 106 RRTILFVDEV 115



 Score = 35.4 bits (80), Expect = 0.13,   Method: Compositional matrix adjust.
 Identities = 23/70 (32%), Positives = 36/70 (51%), Gaps = 11/70 (15%)

Query: 518 VLFYGPPGCGKTLLAKAIANECQANFISVKGPELLTMWFGESEANVREIFDKARQSAPC- 576
           ++ +GPPG GKT LA+ IA    A+   +     +T    E    +RE  ++ARQ+    
Sbjct: 53  MILWGPPGTGKTTLAEVIARYANADVERISA---VTSGVKE----IREAIERARQNRNAG 105

Query: 577 ---VLFFDEL 583
              +LF DE+
Sbjct: 106 RRTILFVDEV 115


>pdb|3QMZ|A Chain A, Crystal Structure Of The Cytoplasmic Dynein Heavy Chain
            Motor Domain
 pdb|3QMZ|B Chain B, Crystal Structure Of The Cytoplasmic Dynein Heavy Chain
            Motor Domain
          Length = 2486

 Score = 35.8 bits (81), Expect = 0.099,   Method: Compositional matrix adjust.
 Identities = 47/184 (25%), Positives = 76/184 (41%), Gaps = 26/184 (14%)

Query: 228  LRHPQLFKSIGVKPPKGILLYGPPGSGKTLIA-RAVANETGAFFFCIN------GPEIMS 280
            ++H ++F  + +   +GI+L GPPGSGKT+I   A+ N +      IN         I+S
Sbjct: 1035 IKHEKIFYDL-LNSKRGIILCGPPGSGKTMIMNNALRNSSLYDVVGINFSKDTTTEHILS 1093

Query: 281  KLAGESES-NLRKAFEEAEKN--APSIIFIDEIDSIAPKREKTHGEVERRIVSQLLTLMD 337
             L   +      K      K+     ++F DEI+   PK +K   +     + QL+    
Sbjct: 1094 ALHRHTNYVTTSKGLTLLPKSDIKNLVLFCDEIN--LPKLDKYGSQNVVLFLRQLMEKQG 1151

Query: 338  GLKS---------RAHVIVIGATNRPNSID--PALRRFGRFDREIDIGVPDEVGRLEVLR 386
              K+         R H  ++GA N P      P   RF R    + +G P      ++  
Sbjct: 1152 FWKTPENKWVTIERIH--IVGACNPPTDPGRIPMSERFTRHAAILYLGYPSGKSLSQIYE 1209

Query: 387  IHTK 390
            I+ K
Sbjct: 1210 IYYK 1213


>pdb|1G18|A Chain A, Reca-Adp-Alf4 Complex
 pdb|1G19|A Chain A, Structure Of Reca Protein
 pdb|1MO3|A Chain A, Reca-Adp Complex
 pdb|1MO4|A Chain A, Reca-Atp-Gamma-S Complex
 pdb|1MO5|A Chain A, Reca-Atp-Gamma-S-Mg Complex
 pdb|1MO6|A Chain A, Reca-datp-mg Complex
          Length = 350

 Score = 35.8 bits (81), Expect = 0.10,   Method: Compositional matrix adjust.
 Identities = 38/124 (30%), Positives = 58/124 (46%), Gaps = 27/124 (21%)

Query: 242 PKG--ILLYGPPGSGKTLIA-RAVAN--ETGAFFFCING-----PEIMSKLAGESESNL- 290
           P+G  I +YGP  SGKT +A  AVAN    G     I+      P+   KL  +++S L 
Sbjct: 58  PRGRVIEIYGPESSGKTTVALHAVANAQAAGGVAAFIDAEHALDPDYAKKLGVDTDSLLV 117

Query: 291 ------RKAFEEAE----KNAPSIIFIDEIDSIAPKRE------KTHGEVERRIVSQLLT 334
                  +A E A+      A  I+ ID + ++ P+ E       +H  ++ R++SQ L 
Sbjct: 118 SQPDTGEQALEIADMLIRSGALDIVVIDSVAALVPRAELEGEMGDSHVGLQARLMSQALR 177

Query: 335 LMDG 338
            M G
Sbjct: 178 KMTG 181


>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 = 35.8 bits (81), Expect = 0.10,   Method: Compositional matrix adjust.
 Identities = 29/108 (26%), Positives = 49/108 (45%), Gaps = 14/108 (12%)

Query: 485 GLENVKRELQETVQYPVEHPEKFEKFGM---SPSKGVLFYGPPGCGKTLLAKAIANEC-- 539
           GL+ VK  ++ET    +    + +K G+   +P+    F G PG GKT +A   A     
Sbjct: 35  GLKPVKDRIRETAALLLVERAR-QKLGLAHETPTLHXSFTGNPGTGKTTVALKXAGLLHR 93

Query: 540 -----QANFISVKGPELLTMWFGESEANVREIFDKARQSAPCVLFFDE 582
                + + +SV   +L+  + G +    +E+  +A      VLF DE
Sbjct: 94  LGYVRKGHLVSVTRDDLVGQYIGHTAPKTKEVLKRA---XGGVLFIDE 138


>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 = 35.8 bits (81), Expect = 0.11,   Method: Compositional matrix adjust.
 Identities = 27/84 (32%), Positives = 37/84 (44%), Gaps = 12/84 (14%)

Query: 243 KGILLYGPPGSGKTLIARAVANETGAFFFCINGPEIMSK----------LAGESESNLRK 292
           +  +LYGPPG GKT  A  VA E G      N  ++ SK          L   S     K
Sbjct: 78  RAAMLYGPPGIGKTTAAHLVAQELGYDILEQNASDVRSKTLLNAGVKNALDNMSVVGYFK 137

Query: 293 AFEEAE--KNAPSIIFIDEIDSIA 314
             EEA+       +I +DE+D ++
Sbjct: 138 HNEEAQNLNGKHFVIIMDEVDGMS 161



 Score = 30.0 bits (66), Expect = 5.6,   Method: Compositional matrix adjust.
 Identities = 11/23 (47%), Positives = 14/23 (60%)

Query: 516 KGVLFYGPPGCGKTLLAKAIANE 538
           +  + YGPPG GKT  A  +A E
Sbjct: 78  RAAMLYGPPGIGKTTAAHLVAQE 100


>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 = 35.0 bits (79), Expect = 0.16,   Method: Compositional matrix adjust.
 Identities = 26/83 (31%), Positives = 41/83 (49%), Gaps = 8/83 (9%)

Query: 243 KGILLYGPPGSGKTLIARAVANETG--AFFFCINGPEIMSKLAGESESNLRKAFEEA--- 297
           + +L+ G PG+GKT IA  +A   G    F  I G EI S    ++E+ L +AF  +   
Sbjct: 71  RAVLIAGQPGTGKTAIAMGMAQALGPDTPFTAIAGSEIFSLEMSKTEA-LTQAFRRSIGV 129

Query: 298 --EKNAPSIIFIDEIDSIAPKRE 318
             +  A   + + EID I  + +
Sbjct: 130 RIKAGAVHTVSLHEIDVINSRTQ 152



 Score = 33.5 bits (75), Expect = 0.48,   Method: Compositional matrix adjust.
 Identities = 22/82 (26%), Positives = 37/82 (45%), Gaps = 6/82 (7%)

Query: 511 GMSPSKGVLFYGPPGCGKTLLAKAIANECQAN--FISVKGPELLTMWFGESEANV----R 564
           G    + VL  G PG GKT +A  +A     +  F ++ G E+ ++   ++EA      R
Sbjct: 66  GKIAGRAVLIAGQPGTGKTAIAMGMAQALGPDTPFTAIAGSEIFSLEMSKTEALTQAFRR 125

Query: 565 EIFDKARQSAPCVLFFDELDSI 586
            I  + +  A   +   E+D I
Sbjct: 126 SIGVRIKAGAVHTVSLHEIDVI 147


>pdb|1IM2|A Chain A, Hslu, Haemophilus Influenzae, Selenomethionine Variant
          Length = 444

 Score = 35.0 bits (79), Expect = 0.16,   Method: Compositional matrix adjust.
 Identities = 34/115 (29%), Positives = 47/115 (40%), Gaps = 17/115 (14%)

Query: 221 RELVELPLRHPQLFKSIGVKPPKGILLYGPPGSGKTLIARAVANETGAFFFCINGPEI-- 278
           R  ++ PLRH           PK IL  GP G GKT IAR +A    A F  +   +   
Sbjct: 37  RXQLQEPLRHE--------VTPKNILXIGPTGVGKTEIARRLAKLANAPFIKVEATKFTE 88

Query: 279 MSKLAGESESNLRKAFEEAEKNAPSIIFIDEIDSIAPKREKTHGEVERRIVSQLL 333
           +  +  E +S +R   + A K       +     IA  R +     E RI+  LL
Sbjct: 89  VGYVGKEVDSIIRDLTDSAXK-------LVRQQEIAKNRARAEDVAEERILDALL 136



 Score = 34.3 bits (77), Expect = 0.30,   Method: Compositional matrix adjust.
 Identities = 26/88 (29%), Positives = 43/88 (48%), Gaps = 12/88 (13%)

Query: 485 GLENVKRELQETVQYPVEHPEKFEKFGMSPSKGVLFYGPPGCGKTLLAKAIANECQANFI 544
            L N  R  Q  +Q P+ H        ++P K +L  GP G GKT +A+ +A    A FI
Sbjct: 30  ALRNRWRRXQ--LQEPLRHE-------VTP-KNILXIGPTGVGKTEIARRLAKLANAPFI 79

Query: 545 SVKGPELLTMWF--GESEANVREIFDKA 570
            V+  +   + +   E ++ +R++ D A
Sbjct: 80  KVEATKFTEVGYVGKEVDSIIRDLTDSA 107



 Score = 32.0 bits (71), Expect = 1.3,   Method: Compositional matrix adjust.
 Identities = 21/49 (42%), Positives = 30/49 (61%), Gaps = 3/49 (6%)

Query: 291 RKAFEEAEKNAPSIIFIDEIDSIAPKREKTHGEVERRIVSQ-LLTLMDG 338
           +KA +  E+N   I+FIDEID I  K E +  +V R  V + LL L++G
Sbjct: 242 QKAIDAVEQNG--IVFIDEIDKICKKGEYSGADVSREGVQRDLLPLVEG 288


>pdb|3PFI|A Chain A, 2.7 Angstrom Resolution Crystal Structure Of A Probable
           Holliday Junction Dna Helicase (Ruvb) From Campylobacter
           Jejuni Subsp. Jejuni Nctc 11168 In Complex With
           Adenosine-5'-Diphosphate
 pdb|3PFI|B Chain B, 2.7 Angstrom Resolution Crystal Structure Of A Probable
           Holliday Junction Dna Helicase (Ruvb) From Campylobacter
           Jejuni Subsp. Jejuni Nctc 11168 In Complex With
           Adenosine-5'-Diphosphate
          Length = 338

 Score = 34.7 bits (78), Expect = 0.19,   Method: Compositional matrix adjust.
 Identities = 21/73 (28%), Positives = 33/73 (45%), Gaps = 8/73 (10%)

Query: 479 NWEDIGGLENVKRELQETVQYPVEHPEKFEKFGMSPSKGVLFYGPPGCGKTLLAKAIANE 538
           N++   G E++K+ L   +    +  E  +         +LF GP G GKT LA  I+ E
Sbjct: 27  NFDGYIGQESIKKNLNVFIAAAKKRNECLDH--------ILFSGPAGLGKTTLANIISYE 78

Query: 539 CQANFISVKGPEL 551
             AN  +   P +
Sbjct: 79  XSANIKTTAAPXI 91



 Score = 32.0 bits (71), Expect = 1.3,   Method: Compositional matrix adjust.
 Identities = 37/130 (28%), Positives = 50/130 (38%), Gaps = 20/130 (15%)

Query: 245 ILLYGPPGSGKTLIARAVANETGAFFFCINGPEIMSKLAGESESNLRKAFEEAEKNAPSI 304
           IL  GP G GKT +A  ++ E  A       P I      E   +L        +    I
Sbjct: 58  ILFSGPAGLGKTTLANIISYEXSANIKTTAAPXI------EKSGDLAAILTNLSEG--DI 109

Query: 305 IFIDEIDSIAPKREKTHGEVERRIVSQLLTLMDGLKSRAHVI--------VIGATNRPNS 356
           +FIDEI  ++P  E+             L ++ G    A  I        +IGAT R   
Sbjct: 110 LFIDEIHRLSPAIEEVLYPAXE---DYRLDIIIGSGPAAQTIKIDLPKFTLIGATTRAGX 166

Query: 357 IDPALR-RFG 365
           +   LR RFG
Sbjct: 167 LSNPLRDRFG 176


>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 = 34.3 bits (77), Expect = 0.32,   Method: Compositional matrix adjust.
 Identities = 18/57 (31%), Positives = 31/57 (54%), Gaps = 2/57 (3%)

Query: 516 KGVLFYGPPGCGKTLLAKAIANECQANFISVKGPELLTMWF--GESEANVREIFDKA 570
           K +L  GP G GKT +A+ +A    A FI V+  +   + +   E ++ +R++ D A
Sbjct: 50  KNILMIGPTGVGKTEIARRLAKLANAPFIKVEATKFTEVGYVGKEVDSIIRDLTDAA 106



 Score = 33.9 bits (76), Expect = 0.34,   Method: Compositional matrix adjust.
 Identities = 16/34 (47%), Positives = 19/34 (55%)

Query: 242 PKGILLYGPPGSGKTLIARAVANETGAFFFCING 275
           PK IL+ GP G GKT IAR +A    A F  +  
Sbjct: 49  PKNILMIGPTGVGKTEIARRLAKLANAPFIKVEA 82


>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 = 34.3 bits (77), Expect = 0.32,   Method: Compositional matrix adjust.
 Identities = 18/57 (31%), Positives = 31/57 (54%), Gaps = 2/57 (3%)

Query: 516 KGVLFYGPPGCGKTLLAKAIANECQANFISVKGPELLTMWF--GESEANVREIFDKA 570
           K +L  GP G GKT +A+ +A    A FI V+  +   + +   E ++ +R++ D A
Sbjct: 57  KNILMIGPTGVGKTEIARRLAKLANAPFIKVEATKFTEVGYVGKEVDSIIRDLTDAA 113



 Score = 33.9 bits (76), Expect = 0.34,   Method: Compositional matrix adjust.
 Identities = 16/34 (47%), Positives = 19/34 (55%)

Query: 242 PKGILLYGPPGSGKTLIARAVANETGAFFFCING 275
           PK IL+ GP G GKT IAR +A    A F  +  
Sbjct: 56  PKNILMIGPTGVGKTEIARRLAKLANAPFIKVEA 89


>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 = 34.3 bits (77), Expect = 0.32,   Method: Compositional matrix adjust.
 Identities = 18/57 (31%), Positives = 31/57 (54%), Gaps = 2/57 (3%)

Query: 516 KGVLFYGPPGCGKTLLAKAIANECQANFISVKGPELLTMWF--GESEANVREIFDKA 570
           K +L  GP G GKT +A+ +A    A FI V+  +   + +   E ++ +R++ D A
Sbjct: 51  KNILMIGPTGVGKTEIARRLAKLANAPFIKVEATKFTEVGYVGKEVDSIIRDLTDAA 107



 Score = 33.9 bits (76), Expect = 0.34,   Method: Compositional matrix adjust.
 Identities = 16/34 (47%), Positives = 19/34 (55%)

Query: 242 PKGILLYGPPGSGKTLIARAVANETGAFFFCING 275
           PK IL+ GP G GKT IAR +A    A F  +  
Sbjct: 50  PKNILMIGPTGVGKTEIARRLAKLANAPFIKVEA 83


>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 = 33.9 bits (76), Expect = 0.38,   Method: Compositional matrix adjust.
 Identities = 56/233 (24%), Positives = 85/233 (36%), Gaps = 70/233 (30%)

Query: 481 EDIGGLENVKRELQETVQYPVEHPEKFEKFGMSPSKGVLFYGPPGCGKTLLAKAIANE-- 538
           +DI G E++ + L+  V           K G  P   +LF GPPG GKT  A A+A E  
Sbjct: 25  DDIVGQEHIVKRLKHYV-----------KTGSMPH--LLFAGPPGVGKTTAALALARELF 71

Query: 539 ---CQANFISVKGPELLTMWFGESEANV-REIFDKARQSAPC------VLFFDELDSIAT 588
               + NF+ +   +       E   NV RE   +  ++ P       ++F DE D++  
Sbjct: 72  GENWRHNFLELNASD-------ERGINVIREKVKEFARTKPIGGASFKIIFLDEADALTQ 124

Query: 589 QXXXXXXXXXXXXXXXLNQLLTEMDGMSAKKTVFIIGATNRPDIIDPALLRPGRLDQLIY 648
                             Q L     M +    FI+       II+P             
Sbjct: 125 DA---------------QQALRRTMEMFSSNVRFILSCNYSSKIIEPI------------ 157

Query: 649 IPLPDEESRLQIFKACLRKSPVSKDVDLRALAKYTQGFSGADITEICQRACKY 701
                 +SR  IF    R  P+ +D D+    +Y     G ++TE   +A  Y
Sbjct: 158 ------QSRCAIF----RFRPL-RDEDIAKRLRYIAENEGLELTEEGLQAILY 199



 Score = 31.2 bits (69), Expect = 2.3,   Method: Compositional matrix adjust.
 Identities = 25/78 (32%), Positives = 35/78 (44%), Gaps = 13/78 (16%)

Query: 245 ILLYGPPGSGKTLIARAVANETGAFFFCINGPEIMSKLAGESESN---LRKAFEEAEKNA 301
           +L  GPPG GKT  A A+A E     F  N      +L    E     +R+  +E  +  
Sbjct: 49  LLFAGPPGVGKTTAALALARE----LFGENWRHNFLELNASDERGINVIREKVKEFARTK 104

Query: 302 P------SIIFIDEIDSI 313
           P       IIF+DE D++
Sbjct: 105 PIGGASFKIIFLDEADAL 122


>pdb|1S9H|A Chain A, Crystal Structure Of Adeno-Associated Virus Type 2 Rep40
 pdb|1S9H|B Chain B, Crystal Structure Of Adeno-Associated Virus Type 2 Rep40
 pdb|1S9H|C Chain C, Crystal Structure Of Adeno-Associated Virus Type 2 Rep40
          Length = 268

 Score = 33.5 bits (75), Expect = 0.43,   Method: Compositional matrix adjust.
 Identities = 23/63 (36%), Positives = 34/63 (53%), Gaps = 8/63 (12%)

Query: 219 QIRELVELPLRHPQLFKSI--GVKPPK-----GILLYGPPGSGKTLIARAVANETGAFFF 271
           +I +++EL    PQ   S+  G    K      I L+GP  +GKT IA A+A+ T  F+ 
Sbjct: 75  RIYKILELNGYDPQYAASVFLGWATKKFGKRNTIWLFGPATTGKTNIAEAIAH-TVPFYG 133

Query: 272 CIN 274
           C+N
Sbjct: 134 CVN 136


>pdb|1U0J|A Chain A, Crystal Structure Of Aav2 Rep40-adp Complex
          Length = 267

 Score = 33.5 bits (75), Expect = 0.44,   Method: Compositional matrix adjust.
 Identities = 23/63 (36%), Positives = 34/63 (53%), Gaps = 8/63 (12%)

Query: 219 QIRELVELPLRHPQLFKSI--GVKPPK-----GILLYGPPGSGKTLIARAVANETGAFFF 271
           +I +++EL    PQ   S+  G    K      I L+GP  +GKT IA A+A+ T  F+ 
Sbjct: 74  RIYKILELNGYDPQYAASVFLGWATKKFGKRNTIWLFGPATTGKTNIAEAIAH-TVPFYG 132

Query: 272 CIN 274
           C+N
Sbjct: 133 CVN 135


>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 = 33.5 bits (75), Expect = 0.51,   Method: Compositional matrix adjust.
 Identities = 23/66 (34%), Positives = 31/66 (46%), Gaps = 7/66 (10%)

Query: 481 EDIGGLENVKRELQETVQYPVEHPEKFEKFGMSPSKGVLFYGPPGCGKTLLAKAIANECQ 540
           E+  GLE VK  + E +       +K  K    P   +   GPPG GKT LAK+IA    
Sbjct: 81  EEHHGLEKVKERILEYLAV-----QKLTKSLKGPI--LCLAGPPGVGKTSLAKSIAKSLG 133

Query: 541 ANFISV 546
             F+ +
Sbjct: 134 RKFVRI 139



 Score = 31.2 bits (69), Expect = 2.2,   Method: Compositional matrix adjust.
 Identities = 22/79 (27%), Positives = 39/79 (49%), Gaps = 10/79 (12%)

Query: 245 ILLYGPPGSGKTLIARAVANETGAFF--FCINGPEIMSKLAGESES-------NLRKAFE 295
           + L GPPG GKT +A+++A   G  F    + G    S++ G   +        + +  +
Sbjct: 111 LCLAGPPGVGKTSLAKSIAKSLGRKFVRISLGGVRDESEIRGHRRTYVGAMPGRIIQGMK 170

Query: 296 EAEKNAPSIIFIDEIDSIA 314
           +A K  P +  +DEID ++
Sbjct: 171 KAGKLNP-VFLLDEIDKMS 188


>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 = 33.1 bits (74), Expect = 0.61,   Method: Compositional matrix adjust.
 Identities = 25/87 (28%), Positives = 40/87 (45%), Gaps = 8/87 (9%)

Query: 243 KGILLYGPPGSGKTLIARAVANETG--AFFFCINGPEIMSKLAGESESNLRKAFEEA--- 297
           + +L+ G PG+GKT IA   A   G    F  I G EI S    ++E+ L +AF  +   
Sbjct: 86  RAVLIAGQPGTGKTAIAXGXAQALGPDTPFTAIAGSEIFSLEXSKTEA-LTQAFRRSIGV 144

Query: 298 --EKNAPSIIFIDEIDSIAPKREKTHG 322
             ++  P ++    +  I     +T G
Sbjct: 145 RIKEGPPGVVHTVSLHEIDVINSRTQG 171


>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 = 33.1 bits (74), Expect = 0.64,   Method: Compositional matrix adjust.
 Identities = 40/137 (29%), Positives = 57/137 (41%), Gaps = 25/137 (18%)

Query: 246 LLYGPPGSGKTLIARAVANET--GAFFFCINGPEIMS----------KLAGESESNLRKA 293
           +L G PG GKT I   +A     G     + G  I+S          K  GE E  L+  
Sbjct: 195 VLIGEPGVGKTAIVEGLAQRIVKGDVPEGLKGKRIVSLQMGSLLAGAKYRGEFEERLKAV 254

Query: 294 FEE-AEKNAPSIIFIDEIDSIAPKREKTHGEVERRIVSQLLTLMDGLKSRAHVIVIGATN 352
            +E  +     I+FIDE+ ++     K  G V+         ++    +R  + +IGAT 
Sbjct: 255 IQEVVQSQGEVILFIDELHTVVGA-GKAEGAVDAG------NMLKPALARGELRLIGATT 307

Query: 353 ----RPNSIDPAL-RRF 364
               R    DPAL RRF
Sbjct: 308 LDEYREIEKDPALERRF 324


>pdb|4HSE|A Chain A, Crystal Structure Of Clpb Nbd1 In Complex With Guanidinium
           Chloride And Adp
          Length = 397

 Score = 32.7 bits (73), Expect = 0.72,   Method: Compositional matrix adjust.
 Identities = 40/137 (29%), Positives = 57/137 (41%), Gaps = 25/137 (18%)

Query: 246 LLYGPPGSGKTLIARAVANET--GAFFFCINGPEIMS----------KLAGESESNLRKA 293
           +L G PG GKT I   +A     G     + G  I+S          K  GE E  L+  
Sbjct: 58  VLIGEPGVGKTAIVEGLAQRIVKGDVPEGLKGKRIVSLQMGSLLAGAKYRGEFEERLKAV 117

Query: 294 FEE-AEKNAPSIIFIDEIDSIAPKREKTHGEVERRIVSQLLTLMDGLKSRAHVIVIGATN 352
            +E  +     I+FIDE+ ++     K  G V+         ++    +R  + +IGAT 
Sbjct: 118 IQEVVQSQGEVILFIDELHTVVGAG-KAEGAVDAG------NMLKPALARGELRLIGATT 170

Query: 353 ----RPNSIDPAL-RRF 364
               R    DPAL RRF
Sbjct: 171 LDEYREIEKDPALERRF 187



 Score = 32.0 bits (71), Expect = 1.5,   Method: Compositional matrix adjust.
 Identities = 31/150 (20%), Positives = 62/150 (41%), Gaps = 32/150 (21%)

Query: 455 HFKTALGTSNPSALRETVVEVPNVNWED-----IGGLENVKRELQETVQYPVEHPEKFEK 509
           H +T    S  +AL +  +++  +  E      IG  E ++R +Q  ++    +P     
Sbjct: 3   HMQTEHAESTYNALEQYGIDLTRLAAEGKLDPVIGRDEEIRRVIQILLRRTKNNP----- 57

Query: 510 FGMSPSKGVLFYGPPGCGKTLLAKAIANECQANFI--SVKGPELLTM----------WFG 557
                    +  G PG GKT + + +A       +   +KG  ++++          + G
Sbjct: 58  ---------VLIGEPGVGKTAIVEGLAQRIVKGDVPEGLKGKRIVSLQMGSLLAGAKYRG 108

Query: 558 ESEANVREIFDKARQS-APCVLFFDELDSI 586
           E E  ++ +  +  QS    +LF DEL ++
Sbjct: 109 EFEERLKAVIQEVVQSQGEVILFIDELHTV 138


>pdb|4EUN|A Chain A, Crystal Structure Of A Sugar Kinase (Target Efi-502144
           From Janibacter Sp. Htcc2649), Unliganded Structure
          Length = 200

 Score = 32.7 bits (73), Expect = 0.89,   Method: Composition-based stats.
 Identities = 15/31 (48%), Positives = 21/31 (67%)

Query: 240 KPPKGILLYGPPGSGKTLIARAVANETGAFF 270
           +P + +++ G  GSGKT IA  VA+ETG  F
Sbjct: 27  EPTRHVVVMGVSGSGKTTIAHGVADETGLEF 57


>pdb|2Y91|A Chain A, Crystal Structure Of Class A Beta-Lactamase From Bacillus
           Licheniformis Bs3 With Clavulanic Acid
 pdb|2Y91|B Chain B, Crystal Structure Of Class A Beta-Lactamase From Bacillus
           Licheniformis Bs3 With Clavulanic Acid
          Length = 265

 Score = 32.3 bits (72), Expect = 1.1,   Method: Compositional matrix adjust.
 Identities = 33/119 (27%), Positives = 57/119 (47%), Gaps = 14/119 (11%)

Query: 444 EILNSMAVTDEHFKTALGTSN--PSALRETVVEVPNVNWEDIGGLENVKRELQETVQYPV 501
           +++N   +T++H  T +       ++LR +     N+  + IGG E++K+EL++ +   V
Sbjct: 73  DLVNYNPITEKHVDTGMTLKELADASLRYSDNTAQNLILKQIGGPESLKKELRK-IGDEV 131

Query: 502 EHPEKFEKFGMSPSKGVLFYGPPGCGKTLLAKAIANECQANFISVKGP----ELLTMWF 556
            +PE+FE     P    +   P     T  A+A+A   QA  +  K P    ELL  W 
Sbjct: 132 TNPERFE-----PELNEV--NPGETQDTSTARALATSLQAFALEDKLPSEKRELLIDWM 183


>pdb|3B3X|A Chain A, Crystal Structure Of Class A Beta-Lactamase Of Bacillus
           Licheniformis Bs3 With Aminocitrate
 pdb|3B3X|B Chain B, Crystal Structure Of Class A Beta-Lactamase Of Bacillus
           Licheniformis Bs3 With Aminocitrate
 pdb|2WK0|A Chain A, Crystal Structure Of The Class A Beta-Lactamase Bs3
           Inhibited By 6-Beta-Iodopenicillanate.
 pdb|2WK0|B Chain B, Crystal Structure Of The Class A Beta-Lactamase Bs3
           Inhibited By 6-Beta-Iodopenicillanate.
 pdb|2X71|A Chain A, Structural Basis For The Interaction Of Lactivicins With
           Serine Beta-Lactamases
 pdb|2X71|B Chain B, Structural Basis For The Interaction Of Lactivicins With
           Serine Beta-Lactamases
 pdb|4A5R|A Chain A, Crystal Structure Of Class A Beta-Lactamase From Bacillus
           Licheniformis Bs3 With Tazobactam
 pdb|4A5R|B Chain B, Crystal Structure Of Class A Beta-Lactamase From Bacillus
           Licheniformis Bs3 With Tazobactam
          Length = 265

 Score = 32.3 bits (72), Expect = 1.1,   Method: Compositional matrix adjust.
 Identities = 33/119 (27%), Positives = 57/119 (47%), Gaps = 14/119 (11%)

Query: 444 EILNSMAVTDEHFKTALGTSN--PSALRETVVEVPNVNWEDIGGLENVKRELQETVQYPV 501
           +++N   +T++H  T +       ++LR +     N+  + IGG E++K+EL++ +   V
Sbjct: 73  DLVNYNPITEKHVDTGMTLKELADASLRYSDNTAQNLILKQIGGPESLKKELRK-IGDEV 131

Query: 502 EHPEKFEKFGMSPSKGVLFYGPPGCGKTLLAKAIANECQANFISVKGP----ELLTMWF 556
            +PE+FE     P    +   P     T  A+A+A   QA  +  K P    ELL  W 
Sbjct: 132 TNPERFE-----PELNEV--NPGETQDTSTARALATSLQAFALEDKLPSEKRELLIDWM 183


>pdb|1Y63|A Chain A, Initial Crystal Structural Analysis Of A Probable Kinase
           From Leishmania Major Friedlin
          Length = 184

 Score = 32.3 bits (72), Expect = 1.2,   Method: Compositional matrix adjust.
 Identities = 15/34 (44%), Positives = 21/34 (61%), Gaps = 2/34 (5%)

Query: 238 GVKPPKGI--LLYGPPGSGKTLIARAVANETGAF 269
            ++ PKGI  L+ G PG+GKT +A  +A E   F
Sbjct: 4   SMEQPKGINILITGTPGTGKTSMAEMIAAELDGF 37


>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 = 32.0 bits (71), Expect = 1.2,   Method: Compositional matrix adjust.
 Identities = 24/78 (30%), Positives = 37/78 (47%), Gaps = 13/78 (16%)

Query: 245 ILLYGPPGSGKTLIARAVANETGAFFFCINGPEIMSKLAGESESNL---RKAFEEAEKNA 301
           +L  GPPG+GKT  A A+A +     F  N  +   ++    E  +   R   +E  + A
Sbjct: 41  LLFSGPPGTGKTATAIALARD----LFGENWRDNFIEMNASDERGIDVVRHKIKEFARTA 96

Query: 302 P------SIIFIDEIDSI 313
           P       IIF+DE D++
Sbjct: 97  PIGGAPFKIIFLDEADAL 114



 Score = 31.2 bits (69), Expect = 2.5,   Method: Compositional matrix adjust.
 Identities = 40/179 (22%), Positives = 67/179 (37%), Gaps = 35/179 (19%)

Query: 518 VLFYGPPGCGKTLLAKAIANE-----CQANFISVKGPELLTMWFGESEANVREIFDKARQ 572
           +LF GPPG GKT  A A+A +      + NFI +   +   +        VR    +  +
Sbjct: 41  LLFSGPPGTGKTATAIALARDLFGENWRDNFIEMNASDERGI------DVVRHKIKEFAR 94

Query: 573 SAPC------VLFFDELDSIATQXXXXXXXXXXXXXXXLNQLLTEMDGMSAKKTVFIIGA 626
           +AP       ++F DE D++                      L     M +K   FI+  
Sbjct: 95  TAPIGGAPFKIIFLDEADALTADAQAA---------------LRRTMEMYSKSCRFILSC 139

Query: 627 TNRPDIIDPALLRPGRLDQLIYIPLPDEESRLQIFKACLRKSPVSKDVDLRALAKYTQG 685
                II+P      R     + P+P E  + ++ + C ++     +  L AL   + G
Sbjct: 140 NYVSRIIEPI---QSRCAVFRFKPVPKEAMKKRLLEICEKEGVKITEDGLEALIYISGG 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 = 32.0 bits (71), Expect = 1.3,   Method: Compositional matrix adjust.
 Identities = 24/78 (30%), Positives = 37/78 (47%), Gaps = 13/78 (16%)

Query: 245 ILLYGPPGSGKTLIARAVANETGAFFFCINGPEIMSKLAGESESNL---RKAFEEAEKNA 301
           +L  GPPG+GKT  A A+A +     F  N  +   ++    E  +   R   +E  + A
Sbjct: 41  LLFSGPPGTGKTATAIALARD----LFGENWRDNFIEMNASDERGIDVVRHKIKEFARTA 96

Query: 302 P------SIIFIDEIDSI 313
           P       IIF+DE D++
Sbjct: 97  PIGGAPFKIIFLDEADAL 114



 Score = 31.2 bits (69), Expect = 2.2,   Method: Compositional matrix adjust.
 Identities = 40/179 (22%), Positives = 67/179 (37%), Gaps = 35/179 (19%)

Query: 518 VLFYGPPGCGKTLLAKAIANE-----CQANFISVKGPELLTMWFGESEANVREIFDKARQ 572
           +LF GPPG GKT  A A+A +      + NFI +   +   +        VR    +  +
Sbjct: 41  LLFSGPPGTGKTATAIALARDLFGENWRDNFIEMNASDERGI------DVVRHKIKEFAR 94

Query: 573 SAPC------VLFFDELDSIATQXXXXXXXXXXXXXXXLNQLLTEMDGMSAKKTVFIIGA 626
           +AP       ++F DE D++                      L     M +K   FI+  
Sbjct: 95  TAPIGGAPFKIIFLDEADALTADAQAA---------------LRRTMEMYSKSCRFILSC 139

Query: 627 TNRPDIIDPALLRPGRLDQLIYIPLPDEESRLQIFKACLRKSPVSKDVDLRALAKYTQG 685
                II+P      R     + P+P E  + ++ + C ++     +  L AL   + G
Sbjct: 140 NYVSRIIEPI---QSRCAVFRFKPVPKEAMKKRLLEICEKEGVKITEDGLEALIYISGG 195


>pdb|2RGX|A Chain A, Crystal Structure Of Adenylate Kinase From Aquifex
           Aeolicus In Complex With Ap5a
 pdb|2RH5|A Chain A, Structure Of Apo Adenylate Kinase From Aquifex Aeolicus
 pdb|2RH5|C Chain C, Structure Of Apo Adenylate Kinase From Aquifex Aeolicus
 pdb|2RH5|B Chain B, Structure Of Apo Adenylate Kinase From Aquifex Aeolicus
 pdb|3SR0|A Chain A, Crystal Structure Of The Phosphoryl Transfer Transition
           State Mimic In The Adenylate Kinase: AdpALF4AMP IN THE
           ACTIVE SITE
 pdb|3SR0|B Chain B, Crystal Structure Of The Phosphoryl Transfer Transition
           State Mimic In The Adenylate Kinase: AdpALF4AMP IN THE
           ACTIVE SITE
          Length = 206

 Score = 32.0 bits (71), Expect = 1.4,   Method: Compositional matrix adjust.
 Identities = 25/82 (30%), Positives = 40/82 (48%), Gaps = 8/82 (9%)

Query: 245 ILLYGPPGSGKTLIARAVANETGAFFFCINGPEIMSKLAGESESNLRKAFEEAEKN--AP 302
           ++  GPPG+GK   A+ +A E G  F  I+  +I+ +   +     +KA E  E+    P
Sbjct: 3   LVFLGPPGAGKGTQAKRLAKEKG--FVHISTGDILREAVQKGTPLGKKAKEYMERGELVP 60

Query: 303 SIIFIDEIDSIAPKREKTHGEV 324
             + I  I+ + PK    HG V
Sbjct: 61  DDLIIALIEEVFPK----HGNV 78


>pdb|1SXJ|C Chain C, Crystal Structure Of The Eukaryotic Clamp Loader
           (Replication Factor C, Rfc) Bound To The Dna Sliding
           Clamp (Proliferating Cell Nuclear Antigen, Pcna)
          Length = 340

 Score = 32.0 bits (71), Expect = 1.5,   Method: Compositional matrix adjust.
 Identities = 17/33 (51%), Positives = 19/33 (57%), Gaps = 2/33 (6%)

Query: 506 KFEKFGMSPSKGVLFYGPPGCGKTLLAKAIANE 538
           KF   G  P   +LFYGPPG GKT    A+A E
Sbjct: 39  KFVDEGKLPH--LLFYGPPGTGKTSTIVALARE 69


>pdb|1SXJ|D Chain D, Crystal Structure Of The Eukaryotic Clamp Loader
           (Replication Factor C, Rfc) Bound To The Dna Sliding
           Clamp (Proliferating Cell Nuclear Antigen, Pcna)
          Length = 353

 Score = 32.0 bits (71), Expect = 1.6,   Method: Compositional matrix adjust.
 Identities = 38/146 (26%), Positives = 61/146 (41%), Gaps = 39/146 (26%)

Query: 245 ILLYGPPGSGKTLIARAVANETGAFFFCINGPEIM-SKLAGESESNLR---------KAF 294
           +L YGPPG+GKT    A+  E       + GP++M S++   + S+ R         K F
Sbjct: 61  MLFYGPPGTGKTSTILALTKE-------LYGPDLMKSRILELNASDERGISIVREKVKNF 113

Query: 295 EEAEKNAPS-------------IIFIDEIDSIAPKRE-------KTHGEVER--RIVSQL 332
                + PS             II +DE DS+    +       +T+  V R   I + +
Sbjct: 114 ARLTVSKPSKHDLENYPCPPYKIIILDEADSMTADAQSALRRTMETYSGVTRFCLICNYV 173

Query: 333 LTLMDGLKSRAHVIVIGATNRPNSID 358
             ++D L S+       A +  N+ID
Sbjct: 174 TRIIDPLASQCSKFRFKALDASNAID 199



 Score = 31.6 bits (70), Expect = 2.0,   Method: Compositional matrix adjust.
 Identities = 15/35 (42%), Positives = 20/35 (57%), Gaps = 7/35 (20%)

Query: 518 VLFYGPPGCGKTLLAKAIANECQANFISVKGPELL 552
           +LFYGPPG GKT    A+  E       + GP+L+
Sbjct: 61  MLFYGPPGTGKTSTILALTKE-------LYGPDLM 88


>pdb|1I2S|A Chain A, Beta-Lactamase From Bacillus Licheniformis Bs3
 pdb|1I2S|B Chain B, Beta-Lactamase From Bacillus Licheniformis Bs3
 pdb|1I2W|A Chain A, Beta-Lactamase From Bacillus Licheniformis Bs3 Complexed
           With Cefoxitin
 pdb|1I2W|B Chain B, Beta-Lactamase From Bacillus Licheniformis Bs3 Complexed
           With Cefoxitin
          Length = 282

 Score = 31.6 bits (70), Expect = 1.6,   Method: Compositional matrix adjust.
 Identities = 33/119 (27%), Positives = 57/119 (47%), Gaps = 14/119 (11%)

Query: 444 EILNSMAVTDEHFKTALGTSN--PSALRETVVEVPNVNWEDIGGLENVKRELQETVQYPV 501
           +++N   +T++H  T +       ++LR +     N+  + IGG E++K+EL++ +   V
Sbjct: 90  DLVNYNPITEKHVDTGMTLKELADASLRYSDNTAQNLILKQIGGPESLKKELRK-IGDEV 148

Query: 502 EHPEKFEKFGMSPSKGVLFYGPPGCGKTLLAKAIANECQANFISVKGP----ELLTMWF 556
            +PE+FE     P    +   P     T  A+A+A   QA  +  K P    ELL  W 
Sbjct: 149 TNPERFE-----PELNEV--NPGETQDTSTARALATSLQAFALEDKLPSEKRELLIDWM 200


>pdb|3MHV|C Chain C, Crystal Structure Of Vps4 And Vta1
          Length = 117

 Score = 31.6 bits (70), Expect = 1.8,   Method: Compositional matrix adjust.
 Identities = 18/55 (32%), Positives = 29/55 (52%), Gaps = 1/55 (1%)

Query: 652 PDEESRLQIFKACLRKSP-VSKDVDLRALAKYTQGFSGADITEICQRACKYAIRE 705
           PD  +R  +F+  +  +P V    D R L   T+G+SG+DI  + + A    IR+
Sbjct: 3   PDLAARTTMFEINVGDTPCVLTKEDYRTLGAMTEGYSGSDIAVVVKDALMQPIRK 57


>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 = 31.6 bits (70), Expect = 1.9,   Method: Compositional matrix adjust.
 Identities = 29/121 (23%), Positives = 57/121 (47%), Gaps = 9/121 (7%)

Query: 239 VKPPKGILLYGPPGSGKTLIARAVANETGAFFFCINGPEIMSKLAGESESNLRKAFEEA- 297
           +K P  + ++G  G GK+     V  + G     ++  E+ S  AGE    +R+ + EA 
Sbjct: 33  IKVPLILGIWGGKGQGKSFQCELVFRKMGINPIMMSAGELESGNAGEPAKLIRQRYREAA 92

Query: 298 ---EKNAPSIIFIDEIDSIAPKREKTHGEVERRIVSQLL--TLMDGLKSRAHVIVIGATN 352
               K     +FI+++D+ A    +  G  +  + +Q++  TLM+   +  +V + G  N
Sbjct: 93  EIIRKGNMCCLFINDLDAGA---GRMGGTTQYTVNNQMVNATLMNIADNPTNVQLPGMYN 149

Query: 353 R 353
           +
Sbjct: 150 K 150


>pdb|1W7F|A Chain A, Crystal Structure Of The Class A Beta-Lactamase Bs3
           Inhibited With Isocitrate
 pdb|1W7F|B Chain B, Crystal Structure Of The Class A Beta-Lactamase Bs3
           Inhibited With Isocitrate
          Length = 307

 Score = 31.2 bits (69), Expect = 2.3,   Method: Compositional matrix adjust.
 Identities = 33/119 (27%), Positives = 57/119 (47%), Gaps = 14/119 (11%)

Query: 444 EILNSMAVTDEHFKTALGTSN--PSALRETVVEVPNVNWEDIGGLENVKRELQETVQYPV 501
           +++N   +T++H  T +       ++LR +     N+  + IGG E++K+EL++ +   V
Sbjct: 115 DLVNYNPITEKHVDTGMTLKELADASLRYSDNTAQNLILKQIGGPESLKKELRK-IGDEV 173

Query: 502 EHPEKFEKFGMSPSKGVLFYGPPGCGKTLLAKAIANECQANFISVKGP----ELLTMWF 556
            +PE+FE     P    +   P     T  A+A+A   QA  +  K P    ELL  W 
Sbjct: 174 TNPERFE-----PELNEV--NPGETQDTSTARALATSLQAFALEDKLPSEKRELLIDWM 225


>pdb|3LHR|A Chain A, Crystal Structure Of The Scan Domain From Human Znf24
 pdb|3LHR|B Chain B, Crystal Structure Of The Scan Domain From Human Znf24
          Length = 93

 Score = 30.8 bits (68), Expect = 2.8,   Method: Compositional matrix adjust.
 Identities = 18/48 (37%), Positives = 24/48 (50%), Gaps = 10/48 (20%)

Query: 182 APDTEIFCEGEPVRREDENRLDEVGYDDVGGVRKQMAQIRELVELPLR 229
           +PD EIF            R  + GY D  G R+ ++Q+REL  L LR
Sbjct: 2   SPDPEIF----------RQRFRQFGYQDSPGPREAVSQLRELCRLWLR 39


>pdb|1GVN|B Chain B, Crystal Structure Of The Plasmid Maintenance System
           EpsilonZETA: MEACHNISM OF TOXIN INACTIVATION AND TOXIN
           Function
 pdb|1GVN|D Chain D, Crystal Structure Of The Plasmid Maintenance System
           EpsilonZETA: MEACHNISM OF TOXIN INACTIVATION AND TOXIN
           Function
 pdb|3Q8X|B Chain B, Structure Of A Toxin-Antitoxin System Bound To Its
           Substrate
 pdb|3Q8X|D Chain D, Structure Of A Toxin-Antitoxin System Bound To Its
           Substrate
          Length = 287

 Score = 30.4 bits (67), Expect = 3.7,   Method: Compositional matrix adjust.
 Identities = 15/38 (39%), Positives = 19/38 (50%)

Query: 238 GVKPPKGILLYGPPGSGKTLIARAVANETGAFFFCING 275
            V+ P   LL G PGSGKT +  A+  ET      I+ 
Sbjct: 29  AVESPTAFLLGGQPGSGKTSLRSAIFEETQGNVIVIDN 66


>pdb|1ZP6|A Chain A, Crystal Structure Of Atu3015, A Putative Cytidylate Kinase
           From Agrobacterium Tumefaciens, Northeast Structural
           Genomics Target Atr62
          Length = 191

 Score = 30.4 bits (67), Expect = 4.2,   Method: Composition-based stats.
 Identities = 14/23 (60%), Positives = 17/23 (73%)

Query: 245 ILLYGPPGSGKTLIARAVANETG 267
           +LL G PGSGK+ IA A+AN  G
Sbjct: 12  LLLSGHPGSGKSTIAEALANLPG 34


>pdb|3SOI|A Chain A, Crystallographic Structure Of Bacillus Licheniformis
           Beta-Lactamase W210fW229FW251F AT 1.73 ANGSTROM
           RESOLUTION
 pdb|3SOI|B Chain B, Crystallographic Structure Of Bacillus Licheniformis
           Beta-Lactamase W210fW229FW251F AT 1.73 ANGSTROM
           RESOLUTION
          Length = 258

 Score = 30.4 bits (67), Expect = 4.3,   Method: Compositional matrix adjust.
 Identities = 19/67 (28%), Positives = 39/67 (58%), Gaps = 3/67 (4%)

Query: 444 EILNSMAVTDEHFKTALGTSN--PSALRETVVEVPNVNWEDIGGLENVKRELQETVQYPV 501
           +++N   +T++H  T +       ++LR +     N+  + IGG E++K+EL++ +   V
Sbjct: 70  DLVNYNPITEKHVDTGMTLKELADASLRYSDNAAQNLILKQIGGPESLKKELRK-IGDEV 128

Query: 502 EHPEKFE 508
            +PE+FE
Sbjct: 129 TNPERFE 135


>pdb|3VTF|A Chain A, Structure Of A Udp-Glucose Dehydrogenase From The
           Hyperthermophilic Archaeon Pyrobaculum Islandicum
          Length = 444

 Score = 30.0 bits (66), Expect = 5.0,   Method: Compositional matrix adjust.
 Identities = 14/31 (45%), Positives = 20/31 (64%), Gaps = 1/31 (3%)

Query: 250 PPGSGKTLIARAVANETGAFFFCI-NGPEIM 279
           PPG+ + L+ARAVA E G   F + + PE +
Sbjct: 147 PPGTTEGLVARAVAEEAGGVKFSVASNPEFL 177


>pdb|3FAJ|A Chain A, Structure Of The Structural Protein P131 Of The Archaeal
           Virus Acidianus Two-Tailed Virus (Atv)
          Length = 151

 Score = 30.0 bits (66), Expect = 5.6,   Method: Compositional matrix adjust.
 Identities = 20/47 (42%), Positives = 26/47 (55%), Gaps = 1/47 (2%)

Query: 276 PEIMSKLAGESESNLRKAFEEAEKNAPSIIFIDEIDSIAPKREKTHG 322
           PE+  KLAGE E+N R+A +E  K A   I     D++ P R K  G
Sbjct: 50  PEVTLKLAGE-EANARRAGDERTKEAIHAIVKMISDAMKPYRNKGSG 95


>pdb|1VIA|A Chain A, Crystal Structure Of Shikimate Kinase
 pdb|1VIA|B Chain B, Crystal Structure Of Shikimate Kinase
          Length = 175

 Score = 30.0 bits (66), Expect = 5.8,   Method: Compositional matrix adjust.
 Identities = 19/61 (31%), Positives = 33/61 (54%), Gaps = 5/61 (8%)

Query: 513 SPSKGVLFYGPPGCGKTLLAKAIANECQANFISVKGPELLTMWFGESEANVREIFDKARQ 572
           S +K ++F G  G GK+ LA+A+A +    F+      L+   F +    V EIF++ R+
Sbjct: 2   SLAKNIVFIGFXGSGKSTLARALAKDLDLVFLD--SDFLIEQKFNQK---VSEIFEQKRE 56

Query: 573 S 573
           +
Sbjct: 57  N 57


>pdb|2BLM|A Chain A, Beta-Lactamase Of Bacillus Licheniformis 749(Slash)c At 2
           Angstroms Resolution
 pdb|2BLM|B Chain B, Beta-Lactamase Of Bacillus Licheniformis 749(Slash)c At 2
           Angstroms Resolution
 pdb|4BLM|A Chain A, Beta-Lactamase Of Bacillus Licheniformis 749(Slash)c.
           Refinement At 2 Angstroms Resolution And Analysis Of
           Hydration
 pdb|4BLM|B Chain B, Beta-Lactamase Of Bacillus Licheniformis 749(Slash)c.
           Refinement At 2 Angstroms Resolution And Analysis Of
           Hydration
          Length = 265

 Score = 29.3 bits (64), Expect = 8.4,   Method: Compositional matrix adjust.
 Identities = 19/67 (28%), Positives = 39/67 (58%), Gaps = 3/67 (4%)

Query: 444 EILNSMAVTDEHFKTALGTSN--PSALRETVVEVPNVNWEDIGGLENVKRELQETVQYPV 501
           +++N   +T++H  T +       ++LR +     N+  + IGG E++K+EL++ +   V
Sbjct: 73  DLVNYNPITEKHVDTGMTLKELADASLRYSDNAAQNLILKQIGGPESLKKELRK-IGDEV 131

Query: 502 EHPEKFE 508
            +PE+FE
Sbjct: 132 TNPERFE 138


  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
   0.318    0.137    0.394 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 22,358,299
Number of Sequences: 62578
Number of extensions: 936269
Number of successful extensions: 3162
Number of sequences better than 100.0: 122
Number of HSP's better than 100.0 without gapping: 80
Number of HSP's successfully gapped in prelim test: 42
Number of HSP's that attempted gapping in prelim test: 2826
Number of HSP's gapped (non-prelim): 237
length of query: 807
length of database: 14,973,337
effective HSP length: 107
effective length of query: 700
effective length of database: 8,277,491
effective search space: 5794243700
effective search space used: 5794243700
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 55 (25.8 bits)