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= 011935
(474 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>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 = 78.6 bits (192), Expect = 7e-15, Method: Compositional matrix adjust.
Identities = 62/204 (30%), Positives = 101/204 (49%), Gaps = 15/204 (7%)
Query: 203 INLEHPST-FDTLAMDPELKQMILDDLDRFLRRKEFYRRVGKAWKRGYLLYGPPGTGKSS 261
IN E P+ F +A + E K+ +++ +D FL+ E Y +G +G LL GPPGTGK+
Sbjct: 1 INAEKPNVRFKDMAGNEEAKEEVVEIVD-FLKYPERYANLGAKIPKGVLLVGPPGTGKTL 59
Query: 262 LIAAMANYLRFDIYDLELTSIYS-----NSDLRRILLSTTNR---SILVIEDVDCSVEMK 313
L A+A + + +S + R L T + SI+ I+++D K
Sbjct: 60 LAKAVAGEAHVPFFSMGGSSFIEMFVGLGASRVRDLFETAKKQAPSIIFIDEIDAI--GK 117
Query: 314 DRQNDGASVGSNTK-LTLSGILNFIDGLWSSCGDERIIVFTTNHKERIDPALLRPGRMDV 372
R G G++ + TL+ +L +DG S I++ TN E +DPAL+RPGR D
Sbjct: 118 SRAAGGVVSGNDEREQTLNQLLAEMDGFGSENA-PVIVLAATNRPEILDPALMRPGRFDR 176
Query: 373 HINMSYCTVHG-FKVLASNYLGIK 395
+ + +G ++L + G+K
Sbjct: 177 QVLVDKPDFNGRVEILKVHIKGVK 200
>pdb|4B4T|K Chain K, Near-Atomic Resolution Structural Model Of The Yeast 26s
Proteasome
Length = 428
Score = 69.7 bits (169), Expect = 4e-12, Method: Compositional matrix adjust.
Identities = 53/164 (32%), Positives = 83/164 (50%), Gaps = 16/164 (9%)
Query: 221 KQMILDDLDRFLRRKEFYRRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLR---FDIYDL 277
KQ I + ++ L + + Y ++G RG LLYGPPGTGK+ L+ A+AN + +
Sbjct: 181 KQEIREAVELPLVQADLYEQIGIDPPRGVLLYGPPGTGKTMLVKAVANSTKAAFIRVNGS 240
Query: 278 ELTSIYSNSDLRRI-----LLSTTNRSILVIEDVDCSVEMKDRQNDGASVGSNTKL--TL 330
E Y R + L SI+ I++VD + ++ D A GS+ ++ L
Sbjct: 241 EFVHKYLGEGPRMVRDVFRLARENAPSIIFIDEVDS---IATKRFD-AQTGSDREVQRIL 296
Query: 331 SGILNFIDGLWSSCGDERIIVFTTNHKERIDPALLRPGRMDVHI 374
+L +DG S + ++ TN + +DPALLRPGR+D I
Sbjct: 297 IELLTQMDGFDQSTNVK--VIMATNRADTLDPALLRPGRLDRKI 338
>pdb|4B4T|J Chain J, Near-Atomic Resolution Structural Model Of The Yeast 26s
Proteasome
Length = 405
Score = 68.9 bits (167), Expect = 6e-12, Method: Compositional matrix adjust.
Identities = 52/181 (28%), Positives = 90/181 (49%), Gaps = 12/181 (6%)
Query: 209 STFDTLAMDPELKQMILDDLDRFLRRKEFYRRVGKAWKRGYLLYGPPGTGKSSLIAAMAN 268
ST+D + + + I + ++ ++ E + +G A +G +LYGPPGTGK+ L A+A+
Sbjct: 145 STYDMVGGLTKQIKEIKEVIELPVKHPELFESLGIAQPKGVILYGPPGTGKTLLARAVAH 204
Query: 269 -----YLRFDIYDLELTSIYSNSDLRRILLSTTNR---SILVIEDVDCSVEMKDRQNDGA 320
++R +L I S + R L SI+ ++++D + + G
Sbjct: 205 HTDCKFIRVSGAELVQKYIGEGSRMVRELFVMAREHAPSIIFMDEIDSIGSTRVEGSGGG 264
Query: 321 SVGSNTKLTLSGILNFIDGLWSSCGDERIIVFTTNHKERIDPALLRPGRMDVHINMSYCT 380
S + T+ +LN +DG +S + I+ TN + +DPALLRPGR+D I +
Sbjct: 265 D--SEVQRTMLELLNQLDGFETSKNIK--IIMATNRLDILDPALLRPGRIDRKIEFPPPS 320
Query: 381 V 381
V
Sbjct: 321 V 321
>pdb|4B4T|L Chain L, Near-Atomic Resolution Structural Model Of The Yeast 26s
Proteasome
Length = 437
Score = 68.2 bits (165), Expect = 9e-12, Method: Compositional matrix adjust.
Identities = 53/182 (29%), Positives = 91/182 (50%), Gaps = 12/182 (6%)
Query: 210 TFDTLAMDPELKQMILDDLDRFLRRKEFYRRVGKAWKRGYLLYGPPGTGKSSLIAAM--- 266
TFD + E + + + ++ L+ E ++RVG +G LLYGPPGTGK+ L A+
Sbjct: 179 TFDGIGGLTEQIRELREVIELPLKNPEIFQRVGIKPPKGVLLYGPPGTGKTLLAKAVAAT 238
Query: 267 --ANYLRFDIYDLELTSIYSNSDLRRILLSTTNR---SILVIEDVDCSVEMKDRQNDGAS 321
AN++ + I ++ + R + + I+ +++VD R ++G S
Sbjct: 239 IGANFIFSPASGIVDKYIGESARIIREMFAYAKEHEPCIIFMDEVDAI--GGRRFSEGTS 296
Query: 322 VGSNTKLTLSGILNFIDGLWSSCGDERIIVFTTNHKERIDPALLRPGRMDVHINMSYCTV 381
+ TL +L +DG + + G +II+ TN + +DPALLRPGR+D + +
Sbjct: 297 ADREIQRTLMELLTQMDG-FDNLGQTKIIM-ATNRPDTLDPALLRPGRLDRKVEIPLPNE 354
Query: 382 HG 383
G
Sbjct: 355 AG 356
>pdb|1LV7|A Chain A, Crystal Structure Of The Aaa Domain Of Ftsh
Length = 257
Score = 68.2 bits (165), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 56/187 (29%), Positives = 92/187 (49%), Gaps = 21/187 (11%)
Query: 209 STFDTLAMDPELKQMILDDLDRFLRRKEFYRRVGKAWKRGYLLYGPPGTGKSSLIAAMAN 268
+TF +A E K+ + + L +LR ++++G +G L+ GPPGTGK+ L A+A
Sbjct: 9 TTFADVAGCDEAKEEVAE-LVEYLREPSRFQKLGGKIPKGVLMVGPPGTGKTLLAKAIAG 67
Query: 269 YLR---FDIYDLELTSIYSNSDLRRI--LLSTTNRS---ILVIEDVDCSVEMKDRQNDGA 320
+ F I + ++ R+ + ++ I+ I+++D RQ GA
Sbjct: 68 EAKVPFFTISGSDFVEMFVGVGASRVRDMFEQAKKAAPCIIFIDEIDAV----GRQR-GA 122
Query: 321 SVGSN---TKLTLSGILNFIDGLWSSCGDERIIVF-TTNHKERIDPALLRPGRMDVHINM 376
+G + TL+ +L +DG G+E IIV TN + +DPALLRPGR D + +
Sbjct: 123 GLGGGHDEREQTLNQMLVEMDGFE---GNEGIIVIAATNRPDVLDPALLRPGRFDRQVVV 179
Query: 377 SYCTVHG 383
V G
Sbjct: 180 GLPDVRG 186
>pdb|4B4T|I Chain I, Near-Atomic Resolution Structural Model Of The Yeast 26s
Proteasome
Length = 437
Score = 66.2 bits (160), Expect = 4e-11, Method: Compositional matrix adjust.
Identities = 54/163 (33%), Positives = 79/163 (48%), Gaps = 16/163 (9%)
Query: 222 QMILDDLDRFLRRKEFYRRVGKAWKRGYLLYGPPGTGKSSLIAAMAN-----YLRFDIYD 276
Q I + ++ L E Y +G +G +LYG PGTGK+ L A+AN +LR I
Sbjct: 192 QEIKESVELPLTHPELYEEMGIKPPKGVILYGAPGTGKTLLAKAVANQTSATFLR--IVG 249
Query: 277 LELTSIYSNSDLR--RILLSTTNR---SILVIEDVDCSVEMKDRQNDGASVGSNTKLTLS 331
EL Y R R + SI+ I+++D + N G + T+
Sbjct: 250 SELIQKYLGDGPRLCRQIFKVAGENAPSIVFIDEIDAIGTKRYDSNSGGE--REIQRTML 307
Query: 332 GILNFIDGLWSSCGDERIIVFTTNHKERIDPALLRPGRMDVHI 374
+LN +DG + GD ++I TN E +DPAL+RPGR+D I
Sbjct: 308 ELLNQLDG-FDDRGDVKVI-MATNKIETLDPALIRPGRIDRKI 348
>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 = 65.9 bits (159), Expect = 5e-11, Method: Compositional matrix adjust.
Identities = 48/149 (32%), Positives = 77/149 (51%), Gaps = 14/149 (9%)
Query: 232 LRRKEFYRRVGKAWKRGYLLYGPPGTGKSSLIAAM-----ANYLRFDIYDLELTSIYSNS 286
L+ E + +VG +G LLYGPPGTGK+ L A+ A ++R +L I +
Sbjct: 37 LKHPELFEKVGIEPPKGILLYGPPGTGKTLLAKAVATETNATFIRVVGSELVKKFIGEGA 96
Query: 287 DLRRILLSTTNR---SILVIEDVDCSVEMKDRQNDGASVGS-NTKLTLSGILNFIDGLWS 342
L + + SI+ I+++D + ++ D + G + TL +L +DG +
Sbjct: 97 SLVKDIFKLAKEKAPSIIFIDEIDA---IAAKRTDALTGGDREVQRTLMQLLAEMDG-FD 152
Query: 343 SCGDERIIVFTTNHKERIDPALLRPGRMD 371
+ GD +II TN + +DPA+LRPGR D
Sbjct: 153 ARGDVKII-GATNRPDILDPAILRPGRFD 180
>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 = 65.1 bits (157), Expect = 7e-11, Method: Compositional matrix adjust.
Identities = 52/167 (31%), Positives = 81/167 (48%), Gaps = 23/167 (13%)
Query: 219 ELKQMILDDLDRFLRRKEFYRRVGKAWKRGYLLYGPPGTGKSSL---IAAMANYLRFDIY 275
ELK+++ FL+ + R+G +G LL GPPGTGK+ L +A AN F I
Sbjct: 27 ELKEVV-----EFLKDPSKFNRIGARMPKGILLVGPPGTGKTLLARAVAGEANVPFFHIS 81
Query: 276 DLELTSIYSNSDLRRI--LLSTTNR---SILVIEDVDCSVEMKDRQNDGASVGSN---TK 327
+ ++ R+ L + I+ I+++D ++ GA +G +
Sbjct: 82 GSDFVELFVGVGAARVRDLFAQAKAHAPCIVFIDEIDAV-----GRHRGAGLGGGHDERE 136
Query: 328 LTLSGILNFIDGLWSSCGDERIIVFTTNHKERIDPALLRPGRMDVHI 374
TL+ +L +DG S G I++ TN + +DPALLRPGR D I
Sbjct: 137 QTLNQLLVEMDGFDSKEGI--IVMAATNRPDILDPALLRPGRFDKKI 181
>pdb|4B4T|H Chain H, Near-Atomic Resolution Structural Model Of The Yeast 26s
Proteasome
Length = 467
Score = 65.1 bits (157), Expect = 8e-11, Method: Compositional matrix adjust.
Identities = 52/176 (29%), Positives = 84/176 (47%), Gaps = 20/176 (11%)
Query: 236 EFYRRVGKAWKRGYLLYGPPGTGKSSLIAAMAN-----YLRFDIYDLELTSIYSNSDLRR 290
E + +G +G LLYGPPGTGK+ A+AN ++R + EL Y R
Sbjct: 233 ERFATLGIDPPKGILLYGPPGTGKTLCARAVANRTDATFIR--VIGSELVQKYVGEGARM 290
Query: 291 I-----LLSTTNRSILVIEDVDCSVEMKDRQNDGASVGSNTKLTLSGILNFIDGLWSSCG 345
+ + T I+ +++D R +DGA + + T+ ++ +DG + G
Sbjct: 291 VRELFEMARTKKACIIFFDEIDAVGGA--RFDDGAGGDNEVQRTMLELITQLDG-FDPRG 347
Query: 346 DERIIVFTTNHKERIDPALLRPGRMDVHINMSYCTVHGFKVLASNYLGIKGKSHSL 401
+ +++ F TN +DPALLRPGR+D + S + G +N I KS S+
Sbjct: 348 NIKVM-FATNRPNTLDPALLRPGRIDRKVEFSLPDLEG----RANIFRIHSKSMSV 398
>pdb|1R7R|A Chain A, The Crystal Structure Of Murine P97VCP AT 3.6A
Length = 816
Score = 63.9 bits (154), Expect = 2e-10, Method: Compositional matrix adjust.
Identities = 48/160 (30%), Positives = 75/160 (46%), Gaps = 15/160 (9%)
Query: 232 LRRKEFYRRVGKAWKRGYLLYGPPGTGKSSLIAAMAN---YLRFDIYDLELTSIY---SN 285
LR ++ +G RG LLYGPPGTGK+ + A+AN F I E+ S S
Sbjct: 224 LRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESE 283
Query: 286 SDLRRILLSTTNR--SILVIEDVDCSVEMKDRQNDGASVGSNTKLTLSGILNFIDGLWSS 343
S+LR+ +I+ I+++D +++ + G + +S +L +DGL
Sbjct: 284 SNLRKAFEEAEKNAPAIIFIDELDAIAPKREKTH-----GEVERRIVSQLLTLMDGLKQR 338
Query: 344 CGDERIIVFTTNHKERIDPALLRPGRMDVHINMSYCTVHG 383
I++ TN IDPAL R GR D +++ G
Sbjct: 339 A--HVIVMAATNRPNSIDPALRRFGRFDREVDIGIPDATG 376
Score = 57.8 bits (138), Expect = 1e-08, Method: Compositional matrix adjust.
Identities = 48/161 (29%), Positives = 78/161 (48%), Gaps = 19/161 (11%)
Query: 219 ELKQMILDDLDRFLRRKEFYRRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLRFDIYDL- 277
EL Q ++ D+FL+ G +G L YGPPG GK+ L A+AN + + +
Sbjct: 491 ELVQYPVEHPDKFLK-------FGMTPSKGVLFYGPPGCGKTLLAKAIANECQANFISIK 543
Query: 278 --ELTSIY---SNSDLRRILLSTTNRS--ILVIEDVDCSVEMKDRQNDGASVGSNTKLTL 330
EL +++ S +++R I + +L +++D K R + G +
Sbjct: 544 GPELLTMWFGESEANVREIFDKARQAAPCVLFFDELDSIA--KARGGNIGDGGGAADRVI 601
Query: 331 SGILNFIDGLWSSCGDERIIVFTTNHKERIDPALLRPGRMD 371
+ IL +DG+ S I+ TN + IDPA+LRPGR+D
Sbjct: 602 NQILTEMDGM--STKKNVFIIGATNRPDIIDPAILRPGRLD 640
>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 = 63.5 bits (153), Expect = 2e-10, Method: Compositional matrix adjust.
Identities = 48/160 (30%), Positives = 75/160 (46%), Gaps = 15/160 (9%)
Query: 232 LRRKEFYRRVGKAWKRGYLLYGPPGTGKSSLIAAMAN---YLRFDIYDLELTSIY---SN 285
LR ++ +G RG LLYGPPGTGK+ + A+AN F I E+ S S
Sbjct: 224 LRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESE 283
Query: 286 SDLRRILLSTTNR--SILVIEDVDCSVEMKDRQNDGASVGSNTKLTLSGILNFIDGLWSS 343
S+LR+ +I+ I+++D +++ + G + +S +L +DGL
Sbjct: 284 SNLRKAFEEAEKNAPAIIFIDELDAIAPKREKTH-----GEVERRIVSQLLTLMDGLKQR 338
Query: 344 CGDERIIVFTTNHKERIDPALLRPGRMDVHINMSYCTVHG 383
I++ TN IDPAL R GR D +++ G
Sbjct: 339 A--HVIVMAATNRPNSIDPALRRFGRFDREVDIGIPDATG 376
Score = 57.8 bits (138), Expect = 1e-08, Method: Compositional matrix adjust.
Identities = 48/161 (29%), Positives = 78/161 (48%), Gaps = 19/161 (11%)
Query: 219 ELKQMILDDLDRFLRRKEFYRRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLRFDIYDL- 277
EL Q ++ D+FL+ G +G L YGPPG GK+ L A+AN + + +
Sbjct: 491 ELVQYPVEHPDKFLK-------FGMTPSKGVLFYGPPGCGKTLLAKAIANECQANFISIK 543
Query: 278 --ELTSIY---SNSDLRRILLSTTNRS--ILVIEDVDCSVEMKDRQNDGASVGSNTKLTL 330
EL +++ S +++R I + +L +++D K R + G +
Sbjct: 544 GPELLTMWFGESEANVREIFDKARQAAPCVLFFDELDSIA--KARGGNIGDGGGAADRVI 601
Query: 331 SGILNFIDGLWSSCGDERIIVFTTNHKERIDPALLRPGRMD 371
+ IL +DG+ S I+ TN + IDPA+LRPGR+D
Sbjct: 602 NQILTEMDGM--STKKNVFIIGATNRPDIIDPAILRPGRLD 640
>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 = 63.2 bits (152), Expect = 3e-10, Method: Compositional matrix adjust.
Identities = 48/160 (30%), Positives = 75/160 (46%), Gaps = 15/160 (9%)
Query: 232 LRRKEFYRRVGKAWKRGYLLYGPPGTGKSSLIAAMAN---YLRFDIYDLELTSIY---SN 285
LR ++ +G RG LLYGPPGTGK+ + A+AN F I E+ S S
Sbjct: 224 LRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESE 283
Query: 286 SDLRRILLSTTNR--SILVIEDVDCSVEMKDRQNDGASVGSNTKLTLSGILNFIDGLWSS 343
S+LR+ +I+ I+++D +++ + G + +S +L +DGL
Sbjct: 284 SNLRKAFEEAEKNAPAIIFIDELDAIAPKREKTH-----GEVERRIVSQLLTLMDGLKQR 338
Query: 344 CGDERIIVFTTNHKERIDPALLRPGRMDVHINMSYCTVHG 383
I++ TN IDPAL R GR D +++ G
Sbjct: 339 A--HVIVMAATNRPNSIDPALRRFGRFDREVDIGIPDATG 376
>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 = 63.2 bits (152), Expect = 3e-10, Method: Compositional matrix adjust.
Identities = 48/160 (30%), Positives = 75/160 (46%), Gaps = 15/160 (9%)
Query: 232 LRRKEFYRRVGKAWKRGYLLYGPPGTGKSSLIAAMAN---YLRFDIYDLELTSIY---SN 285
LR ++ +G RG LLYGPPGTGK+ + A+AN F I E+ S S
Sbjct: 224 LRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESE 283
Query: 286 SDLRRILLSTTNR--SILVIEDVDCSVEMKDRQNDGASVGSNTKLTLSGILNFIDGLWSS 343
S+LR+ +I+ I+++D +++ + G + +S +L +DGL
Sbjct: 284 SNLRKAFEEAEKNAPAIIFIDELDAIAPKREKTH-----GEVERRIVSQLLTLMDGLKQR 338
Query: 344 CGDERIIVFTTNHKERIDPALLRPGRMDVHINMSYCTVHG 383
I++ TN IDPAL R GR D +++ G
Sbjct: 339 A--HVIVMAATNRPNSIDPALRRFGRFDREVDIGIPDATG 376
>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 = 63.2 bits (152), Expect = 3e-10, Method: Compositional matrix adjust.
Identities = 48/160 (30%), Positives = 75/160 (46%), Gaps = 15/160 (9%)
Query: 232 LRRKEFYRRVGKAWKRGYLLYGPPGTGKSSLIAAMAN---YLRFDIYDLELTSIY---SN 285
LR ++ +G RG LLYGPPGTGK+ + A+AN F I E+ S S
Sbjct: 224 LRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESE 283
Query: 286 SDLRRILLSTTNR--SILVIEDVDCSVEMKDRQNDGASVGSNTKLTLSGILNFIDGLWSS 343
S+LR+ +I+ I+++D +++ + G + +S +L +DGL
Sbjct: 284 SNLRKAFEEAEKNAPAIIFIDELDAIAPKREKTH-----GEVERRIVSQLLTLMDGLKQR 338
Query: 344 CGDERIIVFTTNHKERIDPALLRPGRMDVHINMSYCTVHG 383
I++ TN IDPAL R GR D +++ G
Sbjct: 339 A--HVIVMAATNRPNSIDPALRRFGRFDREVDIGIPDATG 376
>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 = 63.2 bits (152), Expect = 3e-10, Method: Compositional matrix adjust.
Identities = 51/167 (30%), Positives = 80/167 (47%), Gaps = 23/167 (13%)
Query: 219 ELKQMILDDLDRFLRRKEFYRRVGKAWKRGYLLYGPPGTGKSSL---IAAMANYLRFDIY 275
ELK+++ FL+ + R+G +G LL GPPGTG + L +A AN F I
Sbjct: 27 ELKEVV-----EFLKDPSKFNRIGARMPKGILLVGPPGTGATLLARAVAGEANVPFFHIS 81
Query: 276 DLELTSIYSNSDLRRI--LLSTTNR---SILVIEDVDCSVEMKDRQNDGASVGSN---TK 327
+ ++ R+ L + I+ I+++D ++ GA +G +
Sbjct: 82 GSDFVELFVGVGAARVRDLFAQAKAHAPCIVFIDEIDAV-----GRHRGAGLGGGHDERE 136
Query: 328 LTLSGILNFIDGLWSSCGDERIIVFTTNHKERIDPALLRPGRMDVHI 374
TL+ +L +DG S G I++ TN + +DPALLRPGR D I
Sbjct: 137 QTLNQLLVEMDGFDSKEGI--IVMAATNRPDILDPALLRPGRFDKKI 181
>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 = 63.2 bits (152), Expect = 3e-10, Method: Compositional matrix adjust.
Identities = 48/160 (30%), Positives = 75/160 (46%), Gaps = 15/160 (9%)
Query: 232 LRRKEFYRRVGKAWKRGYLLYGPPGTGKSSLIAAMAN---YLRFDIYDLELTSIY---SN 285
LR ++ +G RG LLYGPPGTGK+ + A+AN F I E+ S S
Sbjct: 224 LRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESE 283
Query: 286 SDLRRILLSTTNR--SILVIEDVDCSVEMKDRQNDGASVGSNTKLTLSGILNFIDGLWSS 343
S+LR+ +I+ I+++D +++ + G + +S +L +DGL
Sbjct: 284 SNLRKAFEEAEKNAPAIIFIDELDAIAPKREKTH-----GEVERRIVSQLLTLMDGLKQR 338
Query: 344 CGDERIIVFTTNHKERIDPALLRPGRMDVHINMSYCTVHG 383
I++ TN IDPAL R GR D +++ G
Sbjct: 339 A--HVIVMAATNRPNSIDPALRRFGRFDREVDIGIPDATG 376
>pdb|2X8A|A Chain A, Human Nuclear Valosin Containing Protein Like (Nvl), C-
Terminal Aaa-Atpase Domain
Length = 274
Score = 62.8 bits (151), Expect = 4e-10, Method: Compositional matrix adjust.
Identities = 48/148 (32%), Positives = 76/148 (51%), Gaps = 15/148 (10%)
Query: 232 LRRKEFYRRVGKAWKRGYLLYGPPGTGKSSLIAAMANY--LRF-DIYDLELTSIY---SN 285
+R + ++ +G G LL GPPG GK+ L A+AN L F + EL ++Y S
Sbjct: 30 VRNPDQFKALGLVTPAGVLLAGPPGCGKTLLAKAVANESGLNFISVKGPELLNMYVGESE 89
Query: 286 SDLRRILLSTTNRSILVI--EDVDCSVEMKDRQNDGASVGSNTKLTLSGILNFIDGLWSS 343
+R++ N + VI ++VD + + GASV ++ +L +DGL +
Sbjct: 90 RAVRQVFQRAKNSAPCVIFFDEVDALCPRRSDRETGASV-----RVVNQLLTEMDGLEAR 144
Query: 344 CGDERIIVFTTNHKERIDPALLRPGRMD 371
+ I+ TN + IDPA+LRPGR+D
Sbjct: 145 --QQVFIMAATNRPDIIDPAILRPGRLD 170
>pdb|2QZ4|A Chain A, Human Paraplegin, Aaa Domain In Complex With Adp
Length = 262
Score = 61.6 bits (148), Expect = 9e-10, Method: Compositional matrix adjust.
Identities = 42/160 (26%), Positives = 81/160 (50%), Gaps = 11/160 (6%)
Query: 231 FLRRKEFYRRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLRFDIYDL------ELTSIYS 284
+L+ E + ++G +G LL GPPG GK+ L A+A + + E+
Sbjct: 24 YLKSPERFLQLGAKVPKGALLLGPPGCGKTLLAKAVATEAQVPFLAMAGAEFVEVIGGLG 83
Query: 285 NSDLRRILLSTTNRS--ILVIEDVDCSVEMKDRQNDGASVGSNTKLTLSGILNFIDGLWS 342
+ +R + R+ I+ I+++D + + G S + + TL+ +L +DG+ +
Sbjct: 84 AARVRSLFKEARARAPCIVYIDEIDAVGKKRSTTMSGFS-NTEEEQTLNQLLVEMDGMGT 142
Query: 343 SCGDERIIVFTTNHKERIDPALLRPGRMDVHINMSYCTVH 382
+ D I++ +TN + +D AL+RPGR+D H+ + T+
Sbjct: 143 T--DHVIVLASTNRADILDGALMRPGRLDRHVFIDLPTLQ 180
>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 = 60.8 bits (146), Expect = 2e-09, Method: Compositional matrix adjust.
Identities = 48/163 (29%), Positives = 75/163 (46%), Gaps = 16/163 (9%)
Query: 231 FLRRKEFYRRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLRFDIYDL---ELTSIYSNSD 287
FL+ + +G +G LL GPPG GK+ L A+A R + ++
Sbjct: 49 FLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGEARVPFITASGSDFVEMFVGVG 108
Query: 288 LRRI--LLSTTNR---SILVIEDVDCSVEMKDRQNDGASVGSNTK-LTLSGILNFIDGLW 341
R+ L T R I+ I+++D + ++ G G++ + TL+ +L +DG
Sbjct: 109 AARVRDLFETAKRHAPCIVFIDEIDA---VGRKRGSGVGGGNDEREQTLNQLLVEMDGFE 165
Query: 342 SSCGDERIIVF-TTNHKERIDPALLRPGRMDVHINMSYCTVHG 383
D I+V TN + +DPALLRPGR D I + V G
Sbjct: 166 K---DTAIVVMAATNRPDILDPALLRPGRFDRQIAIDAPDVKG 205
>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 = 60.8 bits (146), Expect = 2e-09, Method: Compositional matrix adjust.
Identities = 48/163 (29%), Positives = 75/163 (46%), Gaps = 16/163 (9%)
Query: 231 FLRRKEFYRRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLRFDIYDL---ELTSIYSNSD 287
FL+ + +G +G LL GPPG GK+ L A+A R + ++
Sbjct: 34 FLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGEARVPFITASGSDFVEMFVGVG 93
Query: 288 LRRI--LLSTTNR---SILVIEDVDCSVEMKDRQNDGASVGSNTK-LTLSGILNFIDGLW 341
R+ L T R I+ I+++D + ++ G G++ + TL+ +L +DG
Sbjct: 94 AARVRDLFETAKRHAPCIVFIDEIDA---VGRKRGSGVGGGNDEREQTLNQLLVEMDGFE 150
Query: 342 SSCGDERIIVF-TTNHKERIDPALLRPGRMDVHINMSYCTVHG 383
D I+V TN + +DPALLRPGR D I + V G
Sbjct: 151 K---DTAIVVMAATNRPDILDPALLRPGRFDRQIAIDAPDVKG 190
>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 = 60.8 bits (146), Expect = 2e-09, Method: Compositional matrix adjust.
Identities = 48/163 (29%), Positives = 75/163 (46%), Gaps = 16/163 (9%)
Query: 231 FLRRKEFYRRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLRFDIYDL---ELTSIYSNSD 287
FL+ + +G +G LL GPPG GK+ L A+A R + ++
Sbjct: 58 FLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGEARVPFITASGSDFVEMFVGVG 117
Query: 288 LRRI--LLSTTNR---SILVIEDVDCSVEMKDRQNDGASVGSNTK-LTLSGILNFIDGLW 341
R+ L T R I+ I+++D + ++ G G++ + TL+ +L +DG
Sbjct: 118 AARVRDLFETAKRHAPCIVFIDEIDA---VGRKRGSGVGGGNDEREQTLNQLLVEMDGFE 174
Query: 342 SSCGDERIIVF-TTNHKERIDPALLRPGRMDVHINMSYCTVHG 383
D I+V TN + +DPALLRPGR D I + V G
Sbjct: 175 K---DTAIVVMAATNRPDILDPALLRPGRFDRQIAIDAPDVKG 214
>pdb|1IY2|A Chain A, Crystal Structure Of The Ftsh Atpase Domain From Thermus
Thermophilus
Length = 278
Score = 60.5 bits (145), Expect = 2e-09, Method: Compositional matrix adjust.
Identities = 48/163 (29%), Positives = 75/163 (46%), Gaps = 16/163 (9%)
Query: 231 FLRRKEFYRRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLRFDIYDL---ELTSIYSNSD 287
FL+ + +G +G LL GPPG GK+ L A+A R + ++
Sbjct: 58 FLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGEARVPFITASGSDFVEMFVGVG 117
Query: 288 LRRI--LLSTTNR---SILVIEDVDCSVEMKDRQNDGASVGSNTK-LTLSGILNFIDGLW 341
R+ L T R I+ I+++D + ++ G G++ + TL+ +L +DG
Sbjct: 118 AARVRDLFETAKRHAPCIVFIDEIDA---VGRKRGSGVGGGNDEREQTLNQLLVEMDGFE 174
Query: 342 SSCGDERIIVF-TTNHKERIDPALLRPGRMDVHINMSYCTVHG 383
D I+V TN + +DPALLRPGR D I + V G
Sbjct: 175 K---DTAIVVMAATNRPDILDPALLRPGRFDRQIAIDAPDVKG 214
>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 = 59.3 bits (142), Expect = 5e-09, Method: Compositional matrix adjust.
Identities = 48/161 (29%), Positives = 78/161 (48%), Gaps = 19/161 (11%)
Query: 219 ELKQMILDDLDRFLRRKEFYRRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLRFDIYDL- 277
EL Q ++ D+FL+ G +G L YGPPG GK+ L A+AN + + +
Sbjct: 29 ELVQYPVEHPDKFLK-------FGMTPSKGVLFYGPPGCGKTLLAKAIANECQANFISIK 81
Query: 278 --ELTSIY---SNSDLRRILLSTTNRS--ILVIEDVDCSVEMKDRQNDGASVGSNTKLTL 330
EL +++ S +++R I + +L +++D K R + G +
Sbjct: 82 GPELLTMWFGESEANVREIFDKARQAAPCVLFFDELDSIA--KARGGNIGDGGGAADRVI 139
Query: 331 SGILNFIDGLWSSCGDERIIVFTTNHKERIDPALLRPGRMD 371
+ IL +DG+ S I+ TN + IDPA+LRPGR+D
Sbjct: 140 NQILTEMDGM--STKKNVFIIGATNRPDIIDPAILRPGRLD 178
>pdb|4B4T|M Chain M, Near-Atomic Resolution Structural Model Of The Yeast 26s
Proteasome
Length = 434
Score = 59.3 bits (142), Expect = 5e-09, Method: Compositional matrix adjust.
Identities = 45/153 (29%), Positives = 76/153 (49%), Gaps = 16/153 (10%)
Query: 232 LRRKEFYRRVGKAWKRGYLLYGPPGTGKSSLI---AAMANYLRFDIYDLELTSIYSNSDL 288
++R + ++ +G +G L+YGPPGTGK+ L AA N + +L +Y
Sbjct: 201 MKRADKFKDMGIRAPKGALMYGPPGTGKTLLARACAAQTNATFLKLAAPQLVQMYIGEGA 260
Query: 289 RRI-----LLSTTNRSILVIEDVDCSVEMKDRQNDGASVGS-NTKLTLSGILNFIDGLWS 342
+ + L +I+ I+++D + ++ D G + T+ +LN +DG S
Sbjct: 261 KLVRDAFALAKEKAPTIIFIDELDA---IGTKRFDSEKSGDREVQRTMLELLNQLDGFSS 317
Query: 343 SCGDERIIVF-TTNHKERIDPALLRPGRMDVHI 374
D+R+ V TN + +DPALLR GR+D I
Sbjct: 318 ---DDRVKVLAATNRVDVLDPALLRSGRLDRKI 347
>pdb|3VFD|A Chain A, Human Spastin Aaa Domain
Length = 389
Score = 56.2 bits (134), Expect = 4e-08, Method: Compositional matrix adjust.
Identities = 53/166 (31%), Positives = 85/166 (51%), Gaps = 18/166 (10%)
Query: 211 FDTLAMDPELKQMILDDLDRFLRRKEFYRRVGKAWKRGYLLYGPPGTGKSSL---IAAMA 267
FD +A KQ + + + R E + + +A RG LL+GPPG GK+ L +AA +
Sbjct: 114 FDDIAGQDLAKQALQEIVILPSLRPELFTGL-RAPARGLLLFGPPGNGKTMLAKAVAAES 172
Query: 268 NYLRFDIYDLELTSIY--SNSDLRRILLSTTNR---SILVIEDVDCSV-EMKDRQNDGAS 321
N F+I LTS Y L R L + SI+ I+ VD + E ++ ++D
Sbjct: 173 NATFFNISAASLTSKYVGEGEKLVRALFAVARELQPSIIFIDQVDSLLCERREGEHD--- 229
Query: 322 VGSNTKLTLSGILNFIDGLWSSCGDERIIVF-TTNHKERIDPALLR 366
++ +L ++ F DG+ S GD+R++V TN + +D A+LR
Sbjct: 230 --ASRRLKTEFLIEF-DGVQ-SAGDDRVLVMGATNRPQELDEAVLR 271
>pdb|3B9P|A Chain A, Spastin
Length = 297
Score = 44.3 bits (103), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 43/143 (30%), Positives = 67/143 (46%), Gaps = 14/143 (9%)
Query: 243 KAWKRGYLLYGPPGTGKSSLIAAMANYLR---FDIYDLELTSIY--SNSDLRRILLSTTN 297
+A +G LL+GPPG GK+ L A+A +I LTS Y L R L +
Sbjct: 51 RAPAKGLLLFGPPGNGKTLLARAVATECSATFLNISAASLTSKYVGDGEKLVRALFAVAR 110
Query: 298 R---SILVIEDVDCSVEMKDRQNDGASVGSNTKLTLSGILNFIDGLWSSCGDERIIVF-T 353
SI+ I++VD + + AS +L ++ F DGL + +RI+V
Sbjct: 111 HMQPSIIFIDEVDSLLSERSSSEHEAS----RRLKTEFLVEF-DGLPGNPDGDRIVVLAA 165
Query: 354 TNHKERIDPALLRPGRMDVHINM 376
TN + +D A LR V++++
Sbjct: 166 TNRPQELDEAALRRFTKRVYVSL 188
>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 = 42.7 bits (99), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 35/128 (27%), Positives = 62/128 (48%), Gaps = 13/128 (10%)
Query: 247 RGYLLYGPPGTGKSSL---IAAMANYLRFDIYDLELTS--IYSNSDLRRILLSTT---NR 298
+G LL+GPPGTGK+ + IA+ + F I LTS + + R L +
Sbjct: 118 KGILLFGPPGTGKTLIGKCIASQSGATFFSISASSLTSKWVGEGEKMVRALFAVARCQQP 177
Query: 299 SILVIEDVDCSVEMKDRQNDGASVGSNTKLTLSGILNFIDGLWSSCGDERIIVFTTNHKE 358
+++ I+++D + ++ DG +++ + L +DG +S D ++V TN +
Sbjct: 178 AVIFIDEID---SLLSQRGDGEH--ESSRRIKTEFLVQLDGATTSSEDRILVVGATNRPQ 232
Query: 359 RIDPALLR 366
ID A R
Sbjct: 233 EIDEAARR 240
>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 = 39.7 bits (91), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 39/158 (24%), Positives = 66/158 (41%), Gaps = 21/158 (13%)
Query: 247 RGYLLYGPPGTGKSSLIAAMA----NYLRFDIYDLELTSIYSNSDLRRI-----LLSTTN 297
RG LL+GPPGTGKS L A+A N F I +L S + + + L
Sbjct: 168 RGILLFGPPGTGKSYLAKAVATEANNSTFFSISSSDLVSKWLGESEKLVKNLFQLARENK 227
Query: 298 RSILVIEDVD--CSVEMKDRQNDGASVGSNTKLTLSGILNFIDGLWSSCGDERIIVFTTN 355
SI+ I+++D C ++ + + + + G+ DG+ +++ TN
Sbjct: 228 PSIIFIDEIDSLCGSRSENESEAARRIKTEFLVQMQGVGVDNDGI--------LVLGATN 279
Query: 356 HKERIDPALLRPGRMDVHINMSYCTVHGFKVLASNYLG 393
+D A+ R R + I + H + +LG
Sbjct: 280 IPWVLDSAIRR--RFEKRIYIPLPEAHARAAMFRLHLG 315
>pdb|2RKO|A Chain A, Crystal Structure Of The Vps4p-Dimer
Length = 331
Score = 39.3 bits (90), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 37/129 (28%), Positives = 61/129 (47%), Gaps = 18/129 (13%)
Query: 248 GYLLYGPPGTGKSSL---IAAMANYLRFDIYDLELTSIYSNSDLRRI----LLSTTNR-S 299
G LLYGPPGTGKS L +A AN F + +L S + + + ++ N+ S
Sbjct: 62 GILLYGPPGTGKSYLAKAVATEANSTFFSVSSSDLVSKWMGESEKLVKQLFAMARENKPS 121
Query: 300 ILVIEDVDCSVEMKDRQNDGASVGSNTKL--TLSGILNFIDGLWSSCGDERIIVFTTNHK 357
I+ I++VD + AS T+L ++G+ N G+ +++ TN
Sbjct: 122 IIFIDEVDALTGTRGEGESEASRRIKTELLVQMNGVGNDSQGV--------LVLGATNIP 173
Query: 358 ERIDPALLR 366
++D A+ R
Sbjct: 174 WQLDSAIRR 182
>pdb|2QGZ|A Chain A, Crystal Structure Of A Putative Primosome Component From
Streptococcus Pyogenes Serotype M3. Northeast Structural
Genomics Target Dr58
Length = 308
Score = 38.9 bits (89), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 22/84 (26%), Positives = 42/84 (50%), Gaps = 11/84 (13%)
Query: 236 EFYRRVGKAWKRGYLLYGPPGTGKSSLIAAMAN-----------YLRFDIYDLELTSIYS 284
+F + A ++G LYG G GKS L+AAMA+ L F + +++ + S
Sbjct: 142 DFVEQYPSAEQKGLYLYGDMGIGKSYLLAAMAHELSEKKGVSTTLLHFPSFAIDVKNAIS 201
Query: 285 NSDLRRILLSTTNRSILVIEDVDC 308
N ++ + + N +L+++D+
Sbjct: 202 NGSVKEEIDAVKNVPVLILDDIGA 225
>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 = 38.9 bits (89), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 37/129 (28%), Positives = 60/129 (46%), Gaps = 18/129 (13%)
Query: 248 GYLLYGPPGTGKSSL---IAAMANYLRFDIYDLELTSIYSNSDLRRI----LLSTTNR-S 299
G LLYGPPGTGKS L +A AN F + +L S + + + ++ N+ S
Sbjct: 86 GILLYGPPGTGKSYLAKAVATEANSTFFSVSSSDLVSKWMGESEKLVKQLFAMARENKPS 145
Query: 300 ILVIEDVDCSVEMKDRQNDGASVGSNTKL--TLSGILNFIDGLWSSCGDERIIVFTTNHK 357
I+ I+ VD + AS T+L ++G+ N G+ +++ TN
Sbjct: 146 IIFIDQVDALTGTRGEGESEASRRIKTELLVQMNGVGNDSQGV--------LVLGATNIP 197
Query: 358 ERIDPALLR 366
++D A+ R
Sbjct: 198 WQLDSAIRR 206
>pdb|3EIE|A Chain A, Crystal Structure Of S.Cerevisiae Vps4 In The So4-Bound
State
Length = 322
Score = 38.1 bits (87), Expect = 0.009, Method: Compositional matrix adjust.
Identities = 37/129 (28%), Positives = 60/129 (46%), Gaps = 18/129 (13%)
Query: 248 GYLLYGPPGTGKSSL---IAAMANYLRFDIYDLELTSIYSNSDLRRI----LLSTTNR-S 299
G LLYGPPGTGKS L +A AN F + +L S + + + ++ N+ S
Sbjct: 53 GILLYGPPGTGKSYLAKAVATEANSTFFSVSSSDLVSKWMGESEKLVKQLFAMARENKPS 112
Query: 300 ILVIEDVDCSVEMKDRQNDGASVGSNTKL--TLSGILNFIDGLWSSCGDERIIVFTTNHK 357
I+ I+ VD + AS T+L ++G+ N G+ +++ TN
Sbjct: 113 IIFIDQVDALTGTRGEGESEASRRIKTELLVQMNGVGNDSQGV--------LVLGATNIP 164
Query: 358 ERIDPALLR 366
++D A+ R
Sbjct: 165 WQLDSAIRR 173
>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 = 38.1 bits (87), Expect = 0.010, Method: Compositional matrix adjust.
Identities = 37/129 (28%), Positives = 60/129 (46%), Gaps = 18/129 (13%)
Query: 248 GYLLYGPPGTGKSSL---IAAMANYLRFDIYDLELTSIYSNSDLRRI----LLSTTNR-S 299
G LLYGPPGTGKS L +A AN F + +L S + + + ++ N+ S
Sbjct: 71 GILLYGPPGTGKSYLAKAVATEANSTFFSVSSSDLVSKWMGESEKLVKQLFAMARENKPS 130
Query: 300 ILVIEDVDCSVEMKDRQNDGASVGSNTKL--TLSGILNFIDGLWSSCGDERIIVFTTNHK 357
I+ I+ VD + AS T+L ++G+ N G+ +++ TN
Sbjct: 131 IIFIDQVDALTGTRGEGESEASRRIKTELLVQMNGVGNDSQGV--------LVLGATNIP 182
Query: 358 ERIDPALLR 366
++D A+ R
Sbjct: 183 WQLDSAIRR 191
>pdb|1XWI|A Chain A, Crystal Structure Of Vps4b
Length = 322
Score = 37.7 bits (86), Expect = 0.013, Method: Compositional matrix adjust.
Identities = 39/158 (24%), Positives = 66/158 (41%), Gaps = 21/158 (13%)
Query: 247 RGYLLYGPPGTGKSSLIAAMA----NYLRFDIYDLELTSIYSNSDLRRI-----LLSTTN 297
RG LL+GPPGTGKS L A+A N F I +L S + + + L
Sbjct: 46 RGILLFGPPGTGKSYLAKAVATEANNSTFFSISSSDLVSKWLGESEKLVKNLFQLARENK 105
Query: 298 RSILVIEDVD--CSVEMKDRQNDGASVGSNTKLTLSGILNFIDGLWSSCGDERIIVFTTN 355
SI+ I+++D C ++ + + + + G+ DG+ +++ TN
Sbjct: 106 PSIIFIDEIDSLCGSRSENESEAARRIKTEFLVQMQGVGVDNDGI--------LVLGATN 157
Query: 356 HKERIDPALLRPGRMDVHINMSYCTVHGFKVLASNYLG 393
+D A+ R R + I + H + +LG
Sbjct: 158 IPWVLDSAIRR--RFEKRIYIPLPEPHARAAMFKLHLG 193
>pdb|3JVV|A Chain A, Crystal Structure Of P. Aeruginosa Pilt With Bound Amp-Pcp
pdb|3JVV|B Chain B, Crystal Structure Of P. Aeruginosa Pilt With Bound Amp-Pcp
pdb|3JVV|C Chain C, Crystal Structure Of P. Aeruginosa Pilt With Bound Amp-Pcp
pdb|3JVU|A Chain A, Crystal Structure Of Unliganded P. Aeruginosa Pilt
pdb|3JVU|B Chain B, Crystal Structure Of Unliganded P. Aeruginosa Pilt
pdb|3JVU|C Chain C, Crystal Structure Of Unliganded P. Aeruginosa Pilt
Length = 356
Score = 35.4 bits (80), Expect = 0.079, Method: Compositional matrix adjust.
Identities = 15/35 (42%), Positives = 23/35 (65%)
Query: 236 EFYRRVGKAWKRGYLLYGPPGTGKSSLIAAMANYL 270
E ++RV + L+ GP G+GKS+ +AAM +YL
Sbjct: 113 EVFKRVSDVPRGLVLVTGPTGSGKSTTLAAMLDYL 147
>pdb|1IN7|A Chain A, Thermotoga Maritima Ruvb R170a
Length = 334
Score = 34.3 bits (77), Expect = 0.14, Method: Compositional matrix adjust.
Identities = 24/88 (27%), Positives = 44/88 (50%), Gaps = 9/88 (10%)
Query: 228 LDRFLRRKEFYRRVGKAWK----RG-----YLLYGPPGTGKSSLIAAMANYLRFDIYDLE 278
LD F+ ++ +++ A + RG LL GPPG GK++L +A+ L+ +I+
Sbjct: 24 LDEFIGQENVKKKLSLALEAAKMRGEVLDHVLLAGPPGLGKTTLAHIIASELQTNIHVTS 83
Query: 279 LTSIYSNSDLRRILLSTTNRSILVIEDV 306
+ D+ IL S +L I+++
Sbjct: 84 GPVLVKQGDMAAILTSLERGDVLFIDEI 111
>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 = 34.3 bits (77), Expect = 0.15, Method: Compositional matrix adjust.
Identities = 13/18 (72%), Positives = 15/18 (83%)
Query: 250 LLYGPPGTGKSSLIAAMA 267
L YGPPGTGK+S I A+A
Sbjct: 50 LFYGPPGTGKTSTIVALA 67
>pdb|1IN5|A Chain A, Thermogota Maritima Ruvb A156s Mutant
Length = 334
Score = 34.3 bits (77), Expect = 0.15, Method: Compositional matrix adjust.
Identities = 24/88 (27%), Positives = 44/88 (50%), Gaps = 9/88 (10%)
Query: 228 LDRFLRRKEFYRRVGKAWK----RG-----YLLYGPPGTGKSSLIAAMANYLRFDIYDLE 278
LD F+ ++ +++ A + RG LL GPPG GK++L +A+ L+ +I+
Sbjct: 24 LDEFIGQENVKKKLSLALEAAKMRGEVLDHVLLAGPPGLGKTTLAHIIASELQTNIHVTS 83
Query: 279 LTSIYSNSDLRRILLSTTNRSILVIEDV 306
+ D+ IL S +L I+++
Sbjct: 84 GPVLVKQGDMAAILTSLERGDVLFIDEI 111
>pdb|1J7K|A Chain A, Thermotoga Maritima Ruvb P216g Mutant
Length = 334
Score = 34.3 bits (77), Expect = 0.15, Method: Compositional matrix adjust.
Identities = 24/88 (27%), Positives = 44/88 (50%), Gaps = 9/88 (10%)
Query: 228 LDRFLRRKEFYRRVGKAWK----RG-----YLLYGPPGTGKSSLIAAMANYLRFDIYDLE 278
LD F+ ++ +++ A + RG LL GPPG GK++L +A+ L+ +I+
Sbjct: 24 LDEFIGQENVKKKLSLALEAAKMRGEVLDHVLLAGPPGLGKTTLAHIIASELQTNIHVTS 83
Query: 279 LTSIYSNSDLRRILLSTTNRSILVIEDV 306
+ D+ IL S +L I+++
Sbjct: 84 GPVLVKQGDMAAILTSLERGDVLFIDEI 111
>pdb|1IN4|A Chain A, Thermotoga Maritima Ruvb Holliday Junction Branch
Migration Motor
Length = 334
Score = 34.3 bits (77), Expect = 0.15, Method: Compositional matrix adjust.
Identities = 24/88 (27%), Positives = 44/88 (50%), Gaps = 9/88 (10%)
Query: 228 LDRFLRRKEFYRRVGKAWK----RG-----YLLYGPPGTGKSSLIAAMANYLRFDIYDLE 278
LD F+ ++ +++ A + RG LL GPPG GK++L +A+ L+ +I+
Sbjct: 24 LDEFIGQENVKKKLSLALEAAKMRGEVLDHVLLAGPPGLGKTTLAHIIASELQTNIHVTS 83
Query: 279 LTSIYSNSDLRRILLSTTNRSILVIEDV 306
+ D+ IL S +L I+++
Sbjct: 84 GPVLVKQGDMAAILTSLERGDVLFIDEI 111
>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 = 34.3 bits (77), Expect = 0.16, Method: Compositional matrix adjust.
Identities = 15/28 (53%), Positives = 18/28 (64%)
Query: 243 KAWKRGYLLYGPPGTGKSSLIAAMANYL 270
K R LL GPPGTGK++L A+A L
Sbjct: 74 KXAGRAVLLAGPPGTGKTALALAIAQEL 101
>pdb|1IN8|A Chain A, Thermotoga Maritima Ruvb T158v
Length = 334
Score = 34.3 bits (77), Expect = 0.17, Method: Compositional matrix adjust.
Identities = 24/88 (27%), Positives = 44/88 (50%), Gaps = 9/88 (10%)
Query: 228 LDRFLRRKEFYRRVGKAWK----RG-----YLLYGPPGTGKSSLIAAMANYLRFDIYDLE 278
LD F+ ++ +++ A + RG LL GPPG GK++L +A+ L+ +I+
Sbjct: 24 LDEFIGQENVKKKLSLALEAAKMRGEVLDHVLLAGPPGLGKTTLAHIIASELQTNIHVTS 83
Query: 279 LTSIYSNSDLRRILLSTTNRSILVIEDV 306
+ D+ IL S +L I+++
Sbjct: 84 GPVLVKQGDMAAILTSLERGDVLFIDEI 111
>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 = 34.3 bits (77), Expect = 0.17, Method: Compositional matrix adjust.
Identities = 34/130 (26%), Positives = 56/130 (43%), Gaps = 24/130 (18%)
Query: 209 STFDTLA--MDPELKQMILDDLDRFLRRKEFYRRVGKAWKRGYLLYGPPGTGKSSLIAAM 266
+TF LA M PE + K R + +L+GPPGTGK++L
Sbjct: 11 NTFQPLAARMRPENLAQYIGQQHLLAAGKPLPRAIEAGHLHSMILWGPPGTGKTTLA--- 67
Query: 267 ANYLRFDIYDLELTSIYSNSDLRRILLSTTNRSILVIEDVDCSVEMKDRQNDGASVGSNT 326
E+ + Y+N+D+ RI T+ ++++ ++E + RQN A G T
Sbjct: 68 -----------EVIARYANADVERISAVTSG-----VKEIREAIE-RARQNRNA--GRRT 108
Query: 327 KLTLSGILNF 336
L + + F
Sbjct: 109 ILFVDEVHRF 118
>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 = 33.9 bits (76), Expect = 0.18, Method: Compositional matrix adjust.
Identities = 15/28 (53%), Positives = 18/28 (64%)
Query: 243 KAWKRGYLLYGPPGTGKSSLIAAMANYL 270
K R LL GPPGTGK++L A+A L
Sbjct: 60 KMAGRAVLLAGPPGTGKTALALAIAQEL 87
>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 = 33.9 bits (76), Expect = 0.18, Method: Compositional matrix adjust.
Identities = 18/58 (31%), Positives = 30/58 (51%), Gaps = 3/58 (5%)
Query: 234 RKEFYRRVGKAWK---RGYLLYGPPGTGKSSLIAAMANYLRFDIYDLELTSIYSNSDL 288
+K ++ GK R +LYGPPG GK++ +A L +DI + + + S + L
Sbjct: 62 KKNSFKHAGKDGSGVFRAAMLYGPPGIGKTTAAHLVAQELGYDILEQNASDVRSKTLL 119
>pdb|1IN6|A Chain A, Thermotoga Maritima Ruvb K64r Mutant
Length = 334
Score = 33.1 bits (74), Expect = 0.34, Method: Compositional matrix adjust.
Identities = 23/88 (26%), Positives = 44/88 (50%), Gaps = 9/88 (10%)
Query: 228 LDRFLRRKEFYRRVGKAWK----RG-----YLLYGPPGTGKSSLIAAMANYLRFDIYDLE 278
LD F+ ++ +++ A + RG LL GPPG G+++L +A+ L+ +I+
Sbjct: 24 LDEFIGQENVKKKLSLALEAAKMRGEVLDHVLLAGPPGLGRTTLAHIIASELQTNIHVTS 83
Query: 279 LTSIYSNSDLRRILLSTTNRSILVIEDV 306
+ D+ IL S +L I+++
Sbjct: 84 GPVLVKQGDMAAILTSLERGDVLFIDEI 111
>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 = 33.1 bits (74), Expect = 0.39, Method: Compositional matrix adjust.
Identities = 15/34 (44%), Positives = 19/34 (55%)
Query: 240 RVGKAWKRGYLLYGPPGTGKSSLIAAMANYLRFD 273
R GK R L+ G PGTGK+++ MA L D
Sbjct: 64 REGKIAGRAVLIAGQPGTGKTAIAMGMAQALGPD 97
>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 = 32.7 bits (73), Expect = 0.43, Method: Compositional matrix adjust.
Identities = 20/57 (35%), Positives = 30/57 (52%), Gaps = 8/57 (14%)
Query: 215 AMDPELKQMILDDLDRFLRRKEFYRRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLR 271
M P++ ++ +D K FY + KRG +L GPPG+GK+ + M N LR
Sbjct: 1022 VMRPDI---VIPTIDTIKHEKIFYDLLNS--KRGIILCGPPGSGKTMI---MNNALR 1070
>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 = 32.7 bits (73), Expect = 0.45, Method: Compositional matrix adjust.
Identities = 24/82 (29%), Positives = 40/82 (48%), Gaps = 4/82 (4%)
Query: 229 DRFLRRKEFYRRVGKAWKRGY---LLYGPPGTGKSSLIAAMANYLRFDIYDLELTSIYSN 285
+R ++ Y KA K LL+GPPG GK++L +A+ L ++ +I
Sbjct: 18 ERLKQKLRVYLEAAKARKEPLEHLLLFGPPGLGKTTLAHVIAHELGVNLRVTSGPAIEKP 77
Query: 286 SDLRRILLSTTNRS-ILVIEDV 306
DL IL ++ IL I+++
Sbjct: 78 GDLAAILANSLEEGDILFIDEI 99
>pdb|1S3G|A Chain A, Crystal Structure Of Adenylate Kinase From Bacillus
Globisporus
Length = 217
Score = 32.7 bits (73), Expect = 0.46, Method: Compositional matrix adjust.
Identities = 26/91 (28%), Positives = 38/91 (41%), Gaps = 22/91 (24%)
Query: 44 LCTTFYHYLFNPLSNNLTLVFDEWSGMSRNQVFDAAELYLRTKINPD--TERLKVSKTSR 101
+C T YH LFNP + G D ELY R NPD T RL+V+
Sbjct: 132 VCGTSYHLLFNP---------PQVEGKCDK---DGGELYQRADDNPDTVTNRLEVNMNQT 179
Query: 102 --------QKNFTVSIEKGEEVTDSFQNVQL 124
K V+I +++ D F+++ +
Sbjct: 180 APLLAFYDSKEVLVNINGQKDIKDVFKDLDV 210
>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 = 32.7 bits (73), Expect = 0.50, Method: Compositional matrix adjust.
Identities = 20/57 (35%), Positives = 30/57 (52%), Gaps = 8/57 (14%)
Query: 215 AMDPELKQMILDDLDRFLRRKEFYRRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLR 271
M P++ ++ +D K FY + KRG +L GPPG+GK+ + M N LR
Sbjct: 1241 VMRPDI---VIPTIDTIKHEKIFYDLLNS--KRGIILCGPPGSGKTMI---MNNALR 1289
>pdb|1IXR|C Chain C, Ruva-Ruvb Complex
Length = 312
Score = 32.7 bits (73), Expect = 0.51, Method: Compositional matrix adjust.
Identities = 24/82 (29%), Positives = 40/82 (48%), Gaps = 4/82 (4%)
Query: 229 DRFLRRKEFYRRVGKAWKRGY---LLYGPPGTGKSSLIAAMANYLRFDIYDLELTSIYSN 285
+R ++ Y KA K LL+GPPG GK++L +A+ L ++ +I
Sbjct: 18 ERLKQKLRVYLEAAKARKEPLEHLLLFGPPGLGKTTLAHVIAHELGVNLRVTSGPAIEKP 77
Query: 286 SDLRRILLSTTNRS-ILVIEDV 306
DL IL ++ IL I+++
Sbjct: 78 GDLAAILANSLEEGDILFIDEI 99
>pdb|1IXS|B Chain B, Structure Of Ruvb Complexed With Ruva Domain Iii
Length = 318
Score = 32.3 bits (72), Expect = 0.52, Method: Compositional matrix adjust.
Identities = 24/82 (29%), Positives = 40/82 (48%), Gaps = 4/82 (4%)
Query: 229 DRFLRRKEFYRRVGKAWKRGY---LLYGPPGTGKSSLIAAMANYLRFDIYDLELTSIYSN 285
+R ++ Y KA K LL+GPPG GK++L +A+ L ++ +I
Sbjct: 18 ERLKQKLRVYLEAAKARKEPLEHLLLFGPPGLGKTTLAHVIAHELGVNLRVTSGPAIEKP 77
Query: 286 SDLRRILLSTTNRS-ILVIEDV 306
DL IL ++ IL I+++
Sbjct: 78 GDLAAILANSLEEGDILFIDEI 99
>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 = 32.3 bits (72), Expect = 0.59, Method: Compositional matrix adjust.
Identities = 13/21 (61%), Positives = 15/21 (71%)
Query: 250 LLYGPPGTGKSSLIAAMANYL 270
L YGPPGTGK+S I A+ L
Sbjct: 62 LFYGPPGTGKTSTILALTKEL 82
>pdb|1KAG|A Chain A, Crystal Structure Of The Escherichia Coli Shikimate Kinase
I (Arok)
pdb|1KAG|B Chain B, Crystal Structure Of The Escherichia Coli Shikimate Kinase
I (Arok)
Length = 173
Score = 32.0 bits (71), Expect = 0.79, Method: Compositional matrix adjust.
Identities = 14/33 (42%), Positives = 18/33 (54%)
Query: 244 AWKRGYLLYGPPGTGKSSLIAAMANYLRFDIYD 276
A KR L GP G GKS++ +A L + YD
Sbjct: 2 AEKRNIFLVGPMGAGKSTIGRQLAQQLNMEFYD 34
>pdb|3K1J|A Chain A, Crystal Structure Of Lon Protease From Thermococcus
Onnurineus Na1
pdb|3K1J|B Chain B, Crystal Structure Of Lon Protease From Thermococcus
Onnurineus Na1
Length = 604
Score = 31.6 bits (70), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 16/25 (64%), Positives = 16/25 (64%)
Query: 246 KRGYLLYGPPGTGKSSLIAAMANYL 270
KR LL G PGTGKS L AMA L
Sbjct: 60 KRHVLLIGEPGTGKSMLGQAMAELL 84
>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 = 31.2 bits (69), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 14/39 (35%), Positives = 21/39 (53%)
Query: 251 LYGPPGTGKSSLIAAMANYLRFDIYDLELTSIYSNSDLR 289
L GPPG GK+SL ++A L + L + S++R
Sbjct: 113 LAGPPGVGKTSLAKSIAKSLGRKFVRISLGGVRDESEIR 151
>pdb|2DPY|A Chain A, Crystal Structure Of The Flagellar Type Iii Atpase Flii
pdb|2DPY|B Chain B, Crystal Structure Of The Flagellar Type Iii Atpase Flii
Length = 438
Score = 31.2 bits (69), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 24/76 (31%), Positives = 34/76 (44%), Gaps = 7/76 (9%)
Query: 204 NLEHPSTFDTLAM-----DPELKQMILDDLDRFLRRKEFYRRVGKAWKRGYLLYGPPGTG 258
L P T +T A+ +P + I LD +R VG+ + G L+ G G
Sbjct: 112 GLPAPDTLETGALITPPFNPLQRTPIEHVLDTGVRAINALLTVGRGQRMG--LFAGSGVG 169
Query: 259 KSSLIAAMANYLRFDI 274
KS L+ MA Y R D+
Sbjct: 170 KSVLLGMMARYTRADV 185
>pdb|2EWV|A Chain A, Crystal Structure Of The Pilus Retraction Motor Pilt And
Bound Adp
Length = 372
Score = 30.0 bits (66), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 33/141 (23%), Positives = 60/141 (42%), Gaps = 37/141 (26%)
Query: 250 LLYGPPGTGKSSLIAAMANYLRFDIYDLELTSIYSNSDLRRILLSTTNRSILVIED-VDC 308
L+ GP G+GKS+ IA+M +Y+ T + I+ IED ++
Sbjct: 140 LVTGPTGSGKSTTIASMIDYIN----------------------QTKSYHIITIEDPIEY 177
Query: 309 SVEMKDRQNDGASVGSNTKLTLSGILNFIDGLWSSCGDERIIVFTTNHK--ERIDPAL-- 364
+ K + VG +TK +F D L ++ ++ ++F + E ++ AL
Sbjct: 178 VFKHKKSIVNQREVGEDTK-------SFADALRAALREDPDVIFVGEMRDLETVETALRA 230
Query: 365 LRPGRM---DVHINMSYCTVH 382
G + +H N + T+H
Sbjct: 231 AETGHLVFGTLHTNTAIDTIH 251
>pdb|2P7J|A Chain A, Crystal Structure Of The Domain Of Putative Sensory
Box/ggdef Family Protein From Vibrio Parahaemolyticus
pdb|2P7J|B Chain B, Crystal Structure Of The Domain Of Putative Sensory
Box/ggdef Family Protein From Vibrio Parahaemolyticus
Length = 287
Score = 30.0 bits (66), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 12/30 (40%), Positives = 18/30 (60%)
Query: 45 CTTFYHYLFNPLSNNLTLVFDEWSGMSRNQ 74
+ Y YL P NLT++ + WS ++RNQ
Sbjct: 47 SQSLYDYLREPSKANLTILENXWSSVARNQ 76
>pdb|3LID|A Chain A, Crystal Structure Of The Extracellular Domain Of The
Putative Histidine Kinase Vphk1s-Z8
pdb|3LID|B Chain B, Crystal Structure Of The Extracellular Domain Of The
Putative Histidine Kinase Vphk1s-Z8
pdb|3LIE|A Chain A, Crystal Structure Of The Extracellular Domain Of The
Putative Histidine Kinase Vphk1s-Z8
pdb|3LIE|B Chain B, Crystal Structure Of The Extracellular Domain Of The
Putative Histidine Kinase Vphk1s-Z8
Length = 295
Score = 29.6 bits (65), Expect = 4.1, Method: Compositional matrix adjust.
Identities = 12/30 (40%), Positives = 18/30 (60%)
Query: 45 CTTFYHYLFNPLSNNLTLVFDEWSGMSRNQ 74
+ Y YL P NLT++ + WS ++RNQ
Sbjct: 47 SQSLYDYLREPSKANLTILENMWSSVARNQ 76
>pdb|4B3G|A Chain A, Crystal Structure Of Ighmbp2 Helicase In Complex With Rna
pdb|4B3G|B Chain B, Crystal Structure Of Ighmbp2 Helicase In Complex With Rna
Length = 646
Score = 29.3 bits (64), Expect = 4.4, Method: Compositional matrix adjust.
Identities = 16/57 (28%), Positives = 26/57 (45%), Gaps = 15/57 (26%)
Query: 207 HPSTFDTLAMDPELKQMILDDLDRFLRRKEFYRRVGKAWKRGYLLYGPPGTGKSSLI 263
HP TF +D K+ +L L + K +++GPPGTGK++ +
Sbjct: 181 HPLTFFNTCLDTSQKEAVLFALSQ---------------KELAIIHGPPGTGKTTTV 222
>pdb|1UM8|A Chain A, Crystal Structure Of Helicobacter Pylori Clpx
Length = 376
Score = 29.3 bits (64), Expect = 4.5, Method: Compositional matrix adjust.
Identities = 20/76 (26%), Positives = 34/76 (44%), Gaps = 14/76 (18%)
Query: 246 KRGYLLYGPPGTGKSSLIAAMANYLRFDIYDLELTSI----YSNSDLRRIL--------- 292
K LL GP G+GK+ + +A +L I + TS+ Y D+ IL
Sbjct: 72 KSNILLIGPTGSGKTLMAQTLAKHLDIPIAISDATSLTEAGYVGEDVENILTRLLQASDW 131
Query: 293 -LSTTNRSILVIEDVD 307
+ + I+ I+++D
Sbjct: 132 NVQKAQKGIVFIDEID 147
>pdb|4B3F|X Chain X, Crystal Structure Of 1ghmbp2 Helicase
Length = 646
Score = 29.3 bits (64), Expect = 4.7, Method: Compositional matrix adjust.
Identities = 16/57 (28%), Positives = 26/57 (45%), Gaps = 15/57 (26%)
Query: 207 HPSTFDTLAMDPELKQMILDDLDRFLRRKEFYRRVGKAWKRGYLLYGPPGTGKSSLI 263
HP TF +D K+ +L L + K +++GPPGTGK++ +
Sbjct: 181 HPLTFFNTCLDTSQKEAVLFALSQ---------------KELAIIHGPPGTGKTTTV 222
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 0.134 0.388
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 13,554,248
Number of Sequences: 62578
Number of extensions: 551523
Number of successful extensions: 1758
Number of sequences better than 100.0: 65
Number of HSP's better than 100.0 without gapping: 56
Number of HSP's successfully gapped in prelim test: 9
Number of HSP's that attempted gapping in prelim test: 1668
Number of HSP's gapped (non-prelim): 69
length of query: 474
length of database: 14,973,337
effective HSP length: 102
effective length of query: 372
effective length of database: 8,590,381
effective search space: 3195621732
effective search space used: 3195621732
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 53 (25.0 bits)