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= 013823
(436 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 = 62.0 bits (149), Expect = 6e-10, Method: Compositional matrix adjust.
Identities = 57/202 (28%), Positives = 89/202 (44%), Gaps = 49/202 (24%)
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 LIAAMAN-----YLS------VEM---------------------------------KDR 277
L A+A + S +EM K R
Sbjct: 60 LAKAVAGEAHVPFFSMGGSSFIEMFVGLGASRVRDLFETAKKQAPSIIFIDEIDAIGKSR 119
Query: 278 QNDGASVGSNTK-LTLSGILNFIDGLWSSCGDERIIVFTTNHKERIDPALLRPGRMDVHI 336
G G++ + TL+ +L +DG S I++ TN E +DPAL+RPGR D +
Sbjct: 120 AAGGVVSGNDEREQTLNQLLAEMDGFGSENA-PVIVLAATNRPEILDPALMRPGRFDRQV 178
Query: 337 NMSYCTVHG-FKVLASNYLGIK 357
+ +G ++L + G+K
Sbjct: 179 LVDKPDFNGRVEILKVHIKGVK 200
>pdb|4B4T|L Chain L, Near-Atomic Resolution Structural Model Of The Yeast 26s
Proteasome
Length = 437
Score = 59.3 bits (142), Expect = 4e-09, Method: Compositional matrix adjust.
Identities = 49/180 (27%), Positives = 76/180 (42%), Gaps = 46/180 (25%)
Query: 210 TFDTLAMDPELKQMILDDLDRFLRRKEFYRRVGKAWKRGYLLYGPPGTGKSSLIAAMANY 269
TFD + E + + + ++ L+ E ++RVG +G LLYGPPGTGK+ L A+A
Sbjct: 179 TFDGIGGLTEQIRELREVIELPLKNPEIFQRVGIKPPKGVLLYGPPGTGKTLLAKAVAAT 238
Query: 270 LSV-----------------------EM---------------------KDRQNDGASVG 285
+ EM R ++G S
Sbjct: 239 IGANFIFSPASGIVDKYIGESARIIREMFAYAKEHEPCIIFMDEVDAIGGRRFSEGTSAD 298
Query: 286 SNTKLTLSGILNFIDGLWSSCGDERIIVFTTNHKERIDPALLRPGRMDVHINMSYCTVHG 345
+ TL +L +DG + + G +II+ TN + +DPALLRPGR+D + + G
Sbjct: 299 REIQRTLMELLTQMDG-FDNLGQTKIIM-ATNRPDTLDPALLRPGRLDRKVEIPLPNEAG 356
>pdb|4B4T|K Chain K, Near-Atomic Resolution Structural Model Of The Yeast 26s
Proteasome
Length = 428
Score = 58.2 bits (139), Expect = 9e-09, Method: Compositional matrix adjust.
Identities = 47/160 (29%), Positives = 73/160 (45%), Gaps = 46/160 (28%)
Query: 221 KQMILDDLDRFLRRKEFYRRVGKAWKRGYLLYGPPGTGKSSLIAAMAN-----YLSVE-- 273
KQ I + ++ L + + Y ++G RG LLYGPPGTGK+ L+ A+AN ++ V
Sbjct: 181 KQEIREAVELPLVQADLYEQIGIDPPRGVLLYGPPGTGKTMLVKAVANSTKAAFIRVNGS 240
Query: 274 -------------MKD-----RQND-----------------GASVGSNTKL--TLSGIL 296
++D R+N A GS+ ++ L +L
Sbjct: 241 EFVHKYLGEGPRMVRDVFRLARENAPSIIFIDEVDSIATKRFDAQTGSDREVQRILIELL 300
Query: 297 NFIDGLWSSCGDERIIVFTTNHKERIDPALLRPGRMDVHI 336
+DG S + ++ TN + +DPALLRPGR+D I
Sbjct: 301 TQMDGFDQSTNVK--VIMATNRADTLDPALLRPGRLDRKI 338
>pdb|1LV7|A Chain A, Crystal Structure Of The Aaa Domain Of Ftsh
Length = 257
Score = 54.3 bits (129), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 51/182 (28%), Positives = 78/182 (42%), Gaps = 49/182 (26%)
Query: 209 STFDTLAMDPELKQMILDDLDRFLRRKEFYRRVGKAWKRGYLLYGPPGTGKSSLIAAMAN 268
+TF +A E K+ + + L +LR ++++G +G L+ GPPGTGK+ L A+A
Sbjct: 9 TTFADVAGCDEAKEEVAE-LVEYLREPSRFQKLGGKIPKGVLMVGPPGTGKTLLAKAIAG 67
Query: 269 -----YLSVEMKD-----------RQND-------------------------GASVGSN 287
+ ++ D R D GA +G
Sbjct: 68 EAKVPFFTISGSDFVEMFVGVGASRVRDMFEQAKKAAPCIIFIDEIDAVGRQRGAGLGGG 127
Query: 288 ---TKLTLSGILNFIDGLWSSCGDERIIVF-TTNHKERIDPALLRPGRMDVHINMSYCTV 343
+ TL+ +L +DG G+E IIV TN + +DPALLRPGR D + + V
Sbjct: 128 HDEREQTLNQMLVEMDGFE---GNEGIIVIAATNRPDVLDPALLRPGRFDRQVVVGLPDV 184
Query: 344 HG 345
G
Sbjct: 185 RG 186
>pdb|4B4T|J Chain J, Near-Atomic Resolution Structural Model Of The Yeast 26s
Proteasome
Length = 405
Score = 53.1 bits (126), Expect = 3e-07, Method: Compositional matrix adjust.
Identities = 44/173 (25%), Positives = 78/173 (45%), Gaps = 48/173 (27%)
Query: 209 STFDTLA-MDPELKQMILDDLDRFLRRKEFYRRVGKAWKRGYLLYGPPGTGKSSLIAAMA 267
ST+D + + ++K+ I + ++ ++ E + +G A +G +LYGPPGTGK+ L A+A
Sbjct: 145 STYDMVGGLTKQIKE-IKEVIELPVKHPELFESLGIAQPKGVILYGPPGTGKTLLARAVA 203
Query: 268 NYLSVE-------------------------------------------MKDRQNDGASV 284
++ + + + +G+
Sbjct: 204 HHTDCKFIRVSGAELVQKYIGEGSRMVRELFVMAREHAPSIIFMDEIDSIGSTRVEGSGG 263
Query: 285 G-SNTKLTLSGILNFIDGLWSSCGDERIIVFTTNHKERIDPALLRPGRMDVHI 336
G S + T+ +LN +DG +S + I+ TN + +DPALLRPGR+D I
Sbjct: 264 GDSEVQRTMLELLNQLDGFETSKNIK--IIMATNRLDILDPALLRPGRIDRKI 314
>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 = 51.6 bits (122), Expect = 8e-07, Method: Compositional matrix adjust.
Identities = 46/162 (28%), Positives = 69/162 (42%), Gaps = 51/162 (31%)
Query: 219 ELKQMILDDLDRFLRRKEFYRRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLSV------ 272
ELK+++ FL+ + R+G +G LL GPPGTGK+ L A+A +V
Sbjct: 27 ELKEVV-----EFLKDPSKFNRIGARMPKGILLVGPPGTGKTLLARAVAGEANVPFFHIS 81
Query: 273 --------------EMKD---------------------RQNDGASVGSN---TKLTLSG 294
++D ++ GA +G + TL+
Sbjct: 82 GSDFVELFVGVGAARVRDLFAQAKAHAPCIVFIDEIDAVGRHRGAGLGGGHDEREQTLNQ 141
Query: 295 ILNFIDGLWSSCGDERIIVFTTNHKERIDPALLRPGRMDVHI 336
+L +DG S G I++ TN + +DPALLRPGR D I
Sbjct: 142 LLVEMDGFDSKEG--IIVMAATNRPDILDPALLRPGRFDKKI 181
>pdb|4B4T|I Chain I, Near-Atomic Resolution Structural Model Of The Yeast 26s
Proteasome
Length = 437
Score = 51.6 bits (122), Expect = 9e-07, Method: Compositional matrix adjust.
Identities = 45/159 (28%), Positives = 66/159 (41%), Gaps = 46/159 (28%)
Query: 222 QMILDDLDRFLRRKEFYRRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLSVE-------- 273
Q I + ++ L E Y +G +G +LYG PGTGK+ L A+AN S
Sbjct: 192 QEIKESVELPLTHPELYEEMGIKPPKGVILYGAPGTGKTLLAKAVANQTSATFLRIVGSE 251
Query: 274 -MKDRQNDGASV--------GSNT---------------------------KLTLSGILN 297
++ DG + G N + T+ +LN
Sbjct: 252 LIQKYLGDGPRLCRQIFKVAGENAPSIVFIDEIDAIGTKRYDSNSGGEREIQRTMLELLN 311
Query: 298 FIDGLWSSCGDERIIVFTTNHKERIDPALLRPGRMDVHI 336
+DG + GD ++I TN E +DPAL+RPGR+D I
Sbjct: 312 QLDG-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 = 50.8 bits (120), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 44/146 (30%), Positives = 66/146 (45%), Gaps = 46/146 (31%)
Query: 232 LRRKEFYRRVGKAWKRGYLLYGPPGTGKSSLIAAM-----ANYLSVE----MKDRQNDGA 282
L+ E + +VG +G LLYGPPGTGK+ L A+ A ++ V +K +GA
Sbjct: 37 LKHPELFEKVGIEPPKGILLYGPPGTGKTLLAKAVATETNATFIRVVGSELVKKFIGEGA 96
Query: 283 SV---------------------------------GSNTKL--TLSGILNFIDGLWSSCG 307
S+ G + ++ TL +L +DG + + G
Sbjct: 97 SLVKDIFKLAKEKAPSIIFIDEIDAIAAKRTDALTGGDREVQRTLMQLLAEMDG-FDARG 155
Query: 308 DERIIVFTTNHKERIDPALLRPGRMD 333
D +II TN + +DPA+LRPGR D
Sbjct: 156 DVKII-GATNRPDILDPAILRPGRFD 180
>pdb|4B4T|H Chain H, Near-Atomic Resolution Structural Model Of The Yeast 26s
Proteasome
Length = 467
Score = 50.4 bits (119), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 47/172 (27%), Positives = 72/172 (41%), Gaps = 50/172 (29%)
Query: 236 EFYRRVGKAWKRGYLLYGPPGTGKSSLIAAMAN-----YLSV------------------ 272
E + +G +G LLYGPPGTGK+ A+AN ++ V
Sbjct: 233 ERFATLGIDPPKGILLYGPPGTGKTLCARAVANRTDATFIRVIGSELVQKYVGEGARMVR 292
Query: 273 ---EMK------------------DRQNDGASVGSNTKLTLSGILNFIDGLWSSCGDERI 311
EM R +DGA + + T+ ++ +DG + G+ ++
Sbjct: 293 ELFEMARTKKACIIFFDEIDAVGGARFDDGAGGDNEVQRTMLELITQLDG-FDPRGNIKV 351
Query: 312 IVFTTNHKERIDPALLRPGRMDVHINMSYCTVHGFKVLASNYLGIKGKSHSL 363
+ F TN +DPALLRPGR+D + S + G +N I KS S+
Sbjct: 352 M-FATNRPNTLDPALLRPGRIDRKVEFSLPDLEG----RANIFRIHSKSMSV 398
>pdb|2QZ4|A Chain A, Human Paraplegin, Aaa Domain In Complex With Adp
Length = 262
Score = 50.1 bits (118), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 40/159 (25%), Positives = 67/159 (42%), Gaps = 47/159 (29%)
Query: 231 FLRRKEFYRRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLSV------------------ 272
+L+ E + ++G +G LL GPPG GK+ L A+A V
Sbjct: 24 YLKSPERFLQLGAKVPKGALLLGPPGCGKTLLAKAVATEAQVPFLAMAGAEFVEVIGGLG 83
Query: 273 ---------EMKDRQ------NDGASVGSNTKLTLSGILNF------------IDGLWSS 305
E + R ++ +VG T+SG N +DG+ ++
Sbjct: 84 AARVRSLFKEARARAPCIVYIDEIDAVGKKRSTTMSGFSNTEEEQTLNQLLVEMDGMGTT 143
Query: 306 CGDERIIVFTTNHKERIDPALLRPGRMDVHINMSYCTVH 344
D I++ +TN + +D AL+RPGR+D H+ + T+
Sbjct: 144 --DHVIVLASTNRADILDGALMRPGRLDRHVFIDLPTLQ 180
>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 = 49.7 bits (117), Expect = 4e-06, Method: Compositional matrix adjust.
Identities = 47/173 (27%), Positives = 72/173 (41%), Gaps = 51/173 (29%)
Query: 219 ELKQMILDDLDRFLRRKEFYRRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLSV------ 272
ELK+++ FL+ + R+G +G LL GPPGTG + L A+A +V
Sbjct: 27 ELKEVV-----EFLKDPSKFNRIGARMPKGILLVGPPGTGATLLARAVAGEANVPFFHIS 81
Query: 273 --------------EMKD---------------------RQNDGASVGSN---TKLTLSG 294
++D ++ GA +G + TL+
Sbjct: 82 GSDFVELFVGVGAARVRDLFAQAKAHAPCIVFIDEIDAVGRHRGAGLGGGHDEREQTLNQ 141
Query: 295 ILNFIDGLWSSCGDERIIVFTTNHKERIDPALLRPGRMDVHINMSYCTVHGFK 347
+L +DG S G I++ TN + +DPALLRPGR D I + + G K
Sbjct: 142 LLVEMDGFDSKEG--IIVMAATNRPDILDPALLRPGRFDKKIVVDPPDMLGRK 192
>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 = 48.5 bits (114), Expect = 7e-06, Method: Compositional matrix adjust.
Identities = 38/155 (24%), Positives = 59/155 (38%), Gaps = 43/155 (27%)
Query: 232 LRRKEFYRRVGKAWKRGYLLYGPPGTGKSSLIAAMANY---------------------- 269
LR ++ +G RG LLYGPPGTGK+ + A+AN
Sbjct: 224 LRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESE 283
Query: 270 --LSVEMKDRQNDGASV-----------------GSNTKLTLSGILNFIDGLWSSCGDER 310
L ++ + + ++ G + +S +L +DGL
Sbjct: 284 SNLRKAFEEAEKNAPAIIFIDELDAIAPKREKTHGEVERRIVSQLLTLMDGLKQRA--HV 341
Query: 311 IIVFTTNHKERIDPALLRPGRMDVHINMSYCTVHG 345
I++ TN IDPAL R GR D +++ G
Sbjct: 342 IVMAATNRPNSIDPALRRFGRFDREVDIGIPDATG 376
Score = 45.4 bits (106), Expect = 5e-05, Method: Compositional matrix adjust.
Identities = 43/159 (27%), Positives = 63/159 (39%), Gaps = 53/159 (33%)
Query: 219 ELKQMILDDLDRFLRRKEFYRRVGKAWKRGYLLYGPPGTGKSSLIAAM-----ANYLSV- 272
EL Q ++ D+FL+ G +G L YGPPG GK+ L A+ AN++S+
Sbjct: 491 ELVQYPVEHPDKFLK-------FGMTPSKGVLFYGPPGCGKTLLAKAIANECQANFISIK 543
Query: 273 -----------------EMKDRQNDGASV---------------------GSNTKLTLSG 294
E+ D+ A G ++
Sbjct: 544 GPELLTMWFGESEANVREIFDKARQAAPCVLFFDELDSIAKARGGNIGDGGGAADRVINQ 603
Query: 295 ILNFIDGLWSSCGDERIIVFTTNHKERIDPALLRPGRMD 333
IL +DG+ S I+ TN + IDPA+LRPGR+D
Sbjct: 604 ILTEMDGM--STKKNVFIIGATNRPDIIDPAILRPGRLD 640
>pdb|1R7R|A Chain A, The Crystal Structure Of Murine P97VCP AT 3.6A
Length = 816
Score = 48.5 bits (114), Expect = 8e-06, Method: Compositional matrix adjust.
Identities = 38/155 (24%), Positives = 59/155 (38%), Gaps = 43/155 (27%)
Query: 232 LRRKEFYRRVGKAWKRGYLLYGPPGTGKSSLIAAMANY---------------------- 269
LR ++ +G RG LLYGPPGTGK+ + A+AN
Sbjct: 224 LRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESE 283
Query: 270 --LSVEMKDRQNDGASV-----------------GSNTKLTLSGILNFIDGLWSSCGDER 310
L ++ + + ++ G + +S +L +DGL
Sbjct: 284 SNLRKAFEEAEKNAPAIIFIDELDAIAPKREKTHGEVERRIVSQLLTLMDGLKQRA--HV 341
Query: 311 IIVFTTNHKERIDPALLRPGRMDVHINMSYCTVHG 345
I++ TN IDPAL R GR D +++ G
Sbjct: 342 IVMAATNRPNSIDPALRRFGRFDREVDIGIPDATG 376
Score = 45.4 bits (106), Expect = 6e-05, Method: Compositional matrix adjust.
Identities = 43/159 (27%), Positives = 63/159 (39%), Gaps = 53/159 (33%)
Query: 219 ELKQMILDDLDRFLRRKEFYRRVGKAWKRGYLLYGPPGTGKSSLIAAM-----ANYLSV- 272
EL Q ++ D+FL+ G +G L YGPPG GK+ L A+ AN++S+
Sbjct: 491 ELVQYPVEHPDKFLK-------FGMTPSKGVLFYGPPGCGKTLLAKAIANECQANFISIK 543
Query: 273 -----------------EMKDRQNDGASV---------------------GSNTKLTLSG 294
E+ D+ A G ++
Sbjct: 544 GPELLTMWFGESEANVREIFDKARQAAPCVLFFDELDSIAKARGGNIGDGGGAADRVINQ 603
Query: 295 ILNFIDGLWSSCGDERIIVFTTNHKERIDPALLRPGRMD 333
IL +DG+ S I+ TN + IDPA+LRPGR+D
Sbjct: 604 ILTEMDGM--STKKNVFIIGATNRPDIIDPAILRPGRLD 640
>pdb|4B4T|M Chain M, Near-Atomic Resolution Structural Model Of The Yeast 26s
Proteasome
Length = 434
Score = 48.5 bits (114), Expect = 8e-06, Method: Compositional matrix adjust.
Identities = 40/150 (26%), Positives = 63/150 (42%), Gaps = 48/150 (32%)
Query: 232 LRRKEFYRRVGKAWKRGYLLYGPPGTGKSSLI---AAMANYLSVEMKDRQNDGASVGSNT 288
++R + ++ +G +G L+YGPPGTGK+ L AA N +++ Q +G
Sbjct: 201 MKRADKFKDMGIRAPKGALMYGPPGTGKTLLARACAAQTNATFLKLAAPQLVQMYIGEGA 260
Query: 289 KL-----------------------------------------TLSGILNFIDGLWSSCG 307
KL T+ +LN +DG S
Sbjct: 261 KLVRDAFALAKEKAPTIIFIDELDAIGTKRFDSEKSGDREVQRTMLELLNQLDGFSS--- 317
Query: 308 DERI-IVFTTNHKERIDPALLRPGRMDVHI 336
D+R+ ++ TN + +DPALLR GR+D I
Sbjct: 318 DDRVKVLAATNRVDVLDPALLRSGRLDRKI 347
>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 = 48.1 bits (113), Expect = 9e-06, Method: Compositional matrix adjust.
Identities = 38/155 (24%), Positives = 59/155 (38%), Gaps = 43/155 (27%)
Query: 232 LRRKEFYRRVGKAWKRGYLLYGPPGTGKSSLIAAMANY---------------------- 269
LR ++ +G RG LLYGPPGTGK+ + A+AN
Sbjct: 224 LRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESE 283
Query: 270 --LSVEMKDRQNDGASV-----------------GSNTKLTLSGILNFIDGLWSSCGDER 310
L ++ + + ++ G + +S +L +DGL
Sbjct: 284 SNLRKAFEEAEKNAPAIIFIDELDAIAPKREKTHGEVERRIVSQLLTLMDGLKQRA--HV 341
Query: 311 IIVFTTNHKERIDPALLRPGRMDVHINMSYCTVHG 345
I++ TN IDPAL R GR D +++ G
Sbjct: 342 IVMAATNRPNSIDPALRRFGRFDREVDIGIPDATG 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 = 48.1 bits (113), Expect = 9e-06, Method: Compositional matrix adjust.
Identities = 38/155 (24%), Positives = 59/155 (38%), Gaps = 43/155 (27%)
Query: 232 LRRKEFYRRVGKAWKRGYLLYGPPGTGKSSLIAAMANY---------------------- 269
LR ++ +G RG LLYGPPGTGK+ + A+AN
Sbjct: 224 LRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESE 283
Query: 270 --LSVEMKDRQNDGASV-----------------GSNTKLTLSGILNFIDGLWSSCGDER 310
L ++ + + ++ G + +S +L +DGL
Sbjct: 284 SNLRKAFEEAEKNAPAIIFIDELDAIAPKREKTHGEVERRIVSQLLTLMDGLKQRA--HV 341
Query: 311 IIVFTTNHKERIDPALLRPGRMDVHINMSYCTVHG 345
I++ TN IDPAL R GR D +++ G
Sbjct: 342 IVMAATNRPNSIDPALRRFGRFDREVDIGIPDATG 376
>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 = 48.1 bits (113), Expect = 9e-06, Method: Compositional matrix adjust.
Identities = 38/155 (24%), Positives = 59/155 (38%), Gaps = 43/155 (27%)
Query: 232 LRRKEFYRRVGKAWKRGYLLYGPPGTGKSSLIAAMANY---------------------- 269
LR ++ +G RG LLYGPPGTGK+ + A+AN
Sbjct: 224 LRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESE 283
Query: 270 --LSVEMKDRQNDGASV-----------------GSNTKLTLSGILNFIDGLWSSCGDER 310
L ++ + + ++ G + +S +L +DGL
Sbjct: 284 SNLRKAFEEAEKNAPAIIFIDELDAIAPKREKTHGEVERRIVSQLLTLMDGLKQRA--HV 341
Query: 311 IIVFTTNHKERIDPALLRPGRMDVHINMSYCTVHG 345
I++ TN IDPAL R GR D +++ G
Sbjct: 342 IVMAATNRPNSIDPALRRFGRFDREVDIGIPDATG 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 = 48.1 bits (113), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 38/155 (24%), Positives = 59/155 (38%), Gaps = 43/155 (27%)
Query: 232 LRRKEFYRRVGKAWKRGYLLYGPPGTGKSSLIAAMANY---------------------- 269
LR ++ +G RG LLYGPPGTGK+ + A+AN
Sbjct: 224 LRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESE 283
Query: 270 --LSVEMKDRQNDGASV-----------------GSNTKLTLSGILNFIDGLWSSCGDER 310
L ++ + + ++ G + +S +L +DGL
Sbjct: 284 SNLRKAFEEAEKNAPAIIFIDELDAIAPKREKTHGEVERRIVSQLLTLMDGLKQRA--HV 341
Query: 311 IIVFTTNHKERIDPALLRPGRMDVHINMSYCTVHG 345
I++ TN IDPAL R GR D +++ G
Sbjct: 342 IVMAATNRPNSIDPALRRFGRFDREVDIGIPDATG 376
>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 = 46.6 bits (109), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 43/159 (27%), Positives = 63/159 (39%), Gaps = 53/159 (33%)
Query: 219 ELKQMILDDLDRFLRRKEFYRRVGKAWKRGYLLYGPPGTGKSSLIAAM-----ANYLSV- 272
EL Q ++ D+FL+ G +G L YGPPG GK+ L A+ AN++S+
Sbjct: 29 ELVQYPVEHPDKFLK-------FGMTPSKGVLFYGPPGCGKTLLAKAIANECQANFISIK 81
Query: 273 -----------------EMKDRQNDGASV---------------------GSNTKLTLSG 294
E+ D+ A G ++
Sbjct: 82 GPELLTMWFGESEANVREIFDKARQAAPCVLFFDELDSIAKARGGNIGDGGGAADRVINQ 141
Query: 295 ILNFIDGLWSSCGDERIIVFTTNHKERIDPALLRPGRMD 333
IL +DG+ S I+ TN + IDPA+LRPGR+D
Sbjct: 142 ILTEMDGM--STKKNVFIIGATNRPDIIDPAILRPGRLD 178
>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 = 46.2 bits (108), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 44/160 (27%), Positives = 62/160 (38%), Gaps = 48/160 (30%)
Query: 231 FLRRKEFYRRVGKAWKRGYLLYGPPGTGKSSLIAAMAN-----YLSVEMKD--------- 276
FL+ + +G +G LL GPPG GK+ L A+A +++ D
Sbjct: 34 FLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGEARVPFITASGSDFVEMFVGVG 93
Query: 277 --RQND-------------------------GASVGSNT---KLTLSGILNFIDGLWSSC 306
R D G+ VG + TL+ +L +DG
Sbjct: 94 AARVRDLFETAKRHAPCIVFIDEIDAVGRKRGSGVGGGNDEREQTLNQLLVEMDGFEK-- 151
Query: 307 GDERIIVF-TTNHKERIDPALLRPGRMDVHINMSYCTVHG 345
D I+V TN + +DPALLRPGR D I + V G
Sbjct: 152 -DTAIVVMAATNRPDILDPALLRPGRFDRQIAIDAPDVKG 190
>pdb|1IY2|A Chain A, Crystal Structure Of The Ftsh Atpase Domain From Thermus
Thermophilus
Length = 278
Score = 46.2 bits (108), Expect = 4e-05, Method: Compositional matrix adjust.
Identities = 44/160 (27%), Positives = 62/160 (38%), Gaps = 48/160 (30%)
Query: 231 FLRRKEFYRRVGKAWKRGYLLYGPPGTGKSSLIAAMAN-----YLSVEMKD--------- 276
FL+ + +G +G LL GPPG GK+ L A+A +++ D
Sbjct: 58 FLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGEARVPFITASGSDFVEMFVGVG 117
Query: 277 --RQND-------------------------GASVGSNT---KLTLSGILNFIDGLWSSC 306
R D G+ VG + TL+ +L +DG
Sbjct: 118 AARVRDLFETAKRHAPCIVFIDEIDAVGRKRGSGVGGGNDEREQTLNQLLVEMDGFEK-- 175
Query: 307 GDERIIVF-TTNHKERIDPALLRPGRMDVHINMSYCTVHG 345
D I+V TN + +DPALLRPGR D I + V G
Sbjct: 176 -DTAIVVMAATNRPDILDPALLRPGRFDRQIAIDAPDVKG 214
>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 = 45.8 bits (107), Expect = 4e-05, Method: Compositional matrix adjust.
Identities = 44/160 (27%), Positives = 62/160 (38%), Gaps = 48/160 (30%)
Query: 231 FLRRKEFYRRVGKAWKRGYLLYGPPGTGKSSLIAAMAN-----YLSVEMKD--------- 276
FL+ + +G +G LL GPPG GK+ L A+A +++ D
Sbjct: 58 FLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGEARVPFITASGSDFVEMFVGVG 117
Query: 277 --RQND-------------------------GASVGSNT---KLTLSGILNFIDGLWSSC 306
R D G+ VG + TL+ +L +DG
Sbjct: 118 AARVRDLFETAKRHAPCIVFIDEIDAVGRKRGSGVGGGNDEREQTLNQLLVEMDGFEK-- 175
Query: 307 GDERIIVF-TTNHKERIDPALLRPGRMDVHINMSYCTVHG 345
D I+V TN + +DPALLRPGR D I + V G
Sbjct: 176 -DTAIVVMAATNRPDILDPALLRPGRFDRQIAIDAPDVKG 214
>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 = 45.8 bits (107), Expect = 4e-05, Method: Compositional matrix adjust.
Identities = 44/160 (27%), Positives = 62/160 (38%), Gaps = 48/160 (30%)
Query: 231 FLRRKEFYRRVGKAWKRGYLLYGPPGTGKSSLIAAMAN-----YLSVEMKD--------- 276
FL+ + +G +G LL GPPG GK+ L A+A +++ D
Sbjct: 49 FLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGEARVPFITASGSDFVEMFVGVG 108
Query: 277 --RQND-------------------------GASVGSNT---KLTLSGILNFIDGLWSSC 306
R D G+ VG + TL+ +L +DG
Sbjct: 109 AARVRDLFETAKRHAPCIVFIDEIDAVGRKRGSGVGGGNDEREQTLNQLLVEMDGFEK-- 166
Query: 307 GDERIIVF-TTNHKERIDPALLRPGRMDVHINMSYCTVHG 345
D I+V TN + +DPALLRPGR D I + V G
Sbjct: 167 -DTAIVVMAATNRPDILDPALLRPGRFDRQIAIDAPDVKG 205
>pdb|2X8A|A Chain A, Human Nuclear Valosin Containing Protein Like (Nvl), C-
Terminal Aaa-Atpase Domain
Length = 274
Score = 44.7 bits (104), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 40/148 (27%), Positives = 63/148 (42%), Gaps = 53/148 (35%)
Query: 232 LRRKEFYRRVGKAWKRGYLLYGPPGTGKSSLIAAMAN-----YLSVE------------- 273
+R + ++ +G G LL GPPG GK+ L A+AN ++SV+
Sbjct: 30 VRNPDQFKALGLVTPAGVLLAGPPGCGKTLLAKAVANESGLNFISVKGPELLNMYVGESE 89
Query: 274 -------------------------MKDRQND---GASVGSNTKLTLSGILNFIDGLWSS 305
+ R++D GASV ++ +L +DGL +
Sbjct: 90 RAVRQVFQRAKNSAPCVIFFDEVDALCPRRSDRETGASV-----RVVNQLLTEMDGLEAR 144
Query: 306 CGDERIIVFTTNHKERIDPALLRPGRMD 333
+ I+ TN + IDPA+LRPGR+D
Sbjct: 145 --QQVFIMAATNRPDIIDPAILRPGRLD 170
>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 = 35.8 bits (81), Expect = 0.050, Method: Compositional matrix adjust.
Identities = 15/21 (71%), Positives = 17/21 (80%)
Query: 247 RGYLLYGPPGTGKSSLIAAMA 267
RG LL+GPPGTGKS L A+A
Sbjct: 168 RGILLFGPPGTGKSYLAKAVA 188
>pdb|3VFD|A Chain A, Human Spastin Aaa Domain
Length = 389
Score = 35.4 bits (80), Expect = 0.059, Method: Compositional matrix adjust.
Identities = 42/159 (26%), Positives = 62/159 (38%), Gaps = 42/159 (26%)
Query: 211 FDTLAMDPELKQMILDDLDRFLRRKEFYRRVGKAWKRGYLLYGPPGTGKSSL---IAAMA 267
FD +A KQ + + + R E + + +A RG LL+GPPG GK+ L +AA +
Sbjct: 114 FDDIAGQDLAKQALQEIVILPSLRPELFTGL-RAPARGLLLFGPPGNGKTMLAKAVAAES 172
Query: 268 NYLSVEMKDRQNDGASVGSNTKLT---------LSGILNFIDGLWS-------------- 304
N + VG KL L + FID + S
Sbjct: 173 NATFFNISAASLTSKYVGEGEKLVRALFAVARELQPSIIFIDQVDSLLCERREGEHDASR 232
Query: 305 --------------SCGDERIIVF-TTNHKERIDPALLR 328
S GD+R++V TN + +D A+LR
Sbjct: 233 RLKTEFLIEFDGVQSAGDDRVLVMGATNRPQELDEAVLR 271
>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 = 0.059, Method: Compositional matrix adjust.
Identities = 15/36 (41%), Positives = 24/36 (66%)
Query: 236 EFYRRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLS 271
E ++RV + L+ GP G+GKS+ +AAM +YL+
Sbjct: 113 EVFKRVSDVPRGLVLVTGPTGSGKSTTLAAMLDYLN 148
>pdb|1XWI|A Chain A, Crystal Structure Of Vps4b
Length = 322
Score = 35.4 bits (80), Expect = 0.060, Method: Compositional matrix adjust.
Identities = 15/22 (68%), Positives = 17/22 (77%)
Query: 247 RGYLLYGPPGTGKSSLIAAMAN 268
RG LL+GPPGTGKS L A+A
Sbjct: 46 RGILLFGPPGTGKSYLAKAVAT 67
>pdb|3EIE|A Chain A, Crystal Structure Of S.Cerevisiae Vps4 In The So4-Bound
State
Length = 322
Score = 35.0 bits (79), Expect = 0.088, Method: Compositional matrix adjust.
Identities = 15/21 (71%), Positives = 16/21 (76%)
Query: 248 GYLLYGPPGTGKSSLIAAMAN 268
G LLYGPPGTGKS L A+A
Sbjct: 53 GILLYGPPGTGKSYLAKAVAT 73
>pdb|2QP9|X Chain X, Crystal Structure Of S.Cerevisiae Vps4
pdb|2QPA|A Chain A, Crystal Structure Of S.Cerevisiae Vps4 In The Presence Of
Adp
pdb|2QPA|B Chain B, Crystal Structure Of S.Cerevisiae Vps4 In The Presence Of
Adp
pdb|2QPA|C Chain C, Crystal Structure Of S.Cerevisiae Vps4 In The Presence Of
Adp
Length = 355
Score = 35.0 bits (79), Expect = 0.088, Method: Compositional matrix adjust.
Identities = 15/20 (75%), Positives = 16/20 (80%)
Query: 248 GYLLYGPPGTGKSSLIAAMA 267
G LLYGPPGTGKS L A+A
Sbjct: 86 GILLYGPPGTGKSYLAKAVA 105
>pdb|2RKO|A Chain A, Crystal Structure Of The Vps4p-Dimer
Length = 331
Score = 35.0 bits (79), Expect = 0.091, Method: Compositional matrix adjust.
Identities = 15/21 (71%), Positives = 16/21 (76%)
Query: 248 GYLLYGPPGTGKSSLIAAMAN 268
G LLYGPPGTGKS L A+A
Sbjct: 62 GILLYGPPGTGKSYLAKAVAT 82
>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 = 34.7 bits (78), Expect = 0.096, Method: Compositional matrix adjust.
Identities = 15/20 (75%), Positives = 16/20 (80%)
Query: 248 GYLLYGPPGTGKSSLIAAMA 267
G LLYGPPGTGKS L A+A
Sbjct: 71 GILLYGPPGTGKSYLAKAVA 90
>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 = 34.3 bits (77), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 17/36 (47%), Positives = 23/36 (63%)
Query: 236 EFYRRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLS 271
+F + A ++G LYG G GKS L+AAMA+ LS
Sbjct: 142 DFVEQYPSAEQKGLYLYGDMGIGKSYLLAAMAHELS 177
>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 = 0.14, 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|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 = 33.9 bits (76), Expect = 0.16, Method: Compositional matrix adjust.
Identities = 15/29 (51%), Positives = 18/29 (62%)
Query: 243 KAWKRGYLLYGPPGTGKSSLIAAMANYLS 271
K R LL GPPGTGK++L A+A L
Sbjct: 74 KXAGRAVLLAGPPGTGKTALALAIAQELG 102
>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 = 15/29 (51%), Positives = 18/29 (62%)
Query: 243 KAWKRGYLLYGPPGTGKSSLIAAMANYLS 271
K R LL GPPGTGK++L A+A L
Sbjct: 60 KMAGRAVLLAGPPGTGKTALALAIAQELG 88
>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 = 32.7 bits (73), Expect = 0.37, Method: Compositional matrix adjust.
Identities = 17/28 (60%), Positives = 17/28 (60%)
Query: 246 KRGYLLYGPPGTGKSSLIAAMANYLSVE 273
KR LL G PGTGKS L AMA L E
Sbjct: 60 KRHVLLIGEPGTGKSMLGQAMAELLPTE 87
>pdb|1S3G|A Chain A, Crystal Structure Of Adenylate Kinase From Bacillus
Globisporus
Length = 217
Score = 32.7 bits (73), Expect = 0.39, 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|3B9P|A Chain A, Spastin
Length = 297
Score = 32.7 bits (73), Expect = 0.42, Method: Compositional matrix adjust.
Identities = 14/29 (48%), Positives = 19/29 (65%)
Query: 243 KAWKRGYLLYGPPGTGKSSLIAAMANYLS 271
+A +G LL+GPPG GK+ L A+A S
Sbjct: 51 RAPAKGLLLFGPPGNGKTLLARAVATECS 79
>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 = 41/82 (50%), Gaps = 12/82 (14%)
Query: 229 DRFLRRKEFYRRVGKAWKRGY---LLYGPPGTGKSSLIAAMANYLSVEMK-------DRQ 278
+R ++ Y KA K LL+GPPG GK++L +A+ L V ++ ++
Sbjct: 18 ERLKQKLRVYLEAAKARKEPLEHLLLFGPPGLGKTTLAHVIAHELGVNLRVTSGPAIEKP 77
Query: 279 NDGASVGSNTKLTLSGILNFID 300
D A++ +N+ G + FID
Sbjct: 78 GDLAAILANS--LEEGDILFID 97
>pdb|1IXR|C Chain C, Ruva-Ruvb Complex
Length = 312
Score = 32.7 bits (73), Expect = 0.45, Method: Compositional matrix adjust.
Identities = 24/82 (29%), Positives = 41/82 (50%), Gaps = 12/82 (14%)
Query: 229 DRFLRRKEFYRRVGKAWKRGY---LLYGPPGTGKSSLIAAMANYLSVEMK-------DRQ 278
+R ++ Y KA K LL+GPPG GK++L +A+ L V ++ ++
Sbjct: 18 ERLKQKLRVYLEAAKARKEPLEHLLLFGPPGLGKTTLAHVIAHELGVNLRVTSGPAIEKP 77
Query: 279 NDGASVGSNTKLTLSGILNFID 300
D A++ +N+ G + FID
Sbjct: 78 GDLAAILANS--LEEGDILFID 97
>pdb|1IXS|B Chain B, Structure Of Ruvb Complexed With Ruva Domain Iii
Length = 318
Score = 32.3 bits (72), Expect = 0.46, Method: Compositional matrix adjust.
Identities = 24/82 (29%), Positives = 41/82 (50%), Gaps = 12/82 (14%)
Query: 229 DRFLRRKEFYRRVGKAWKRGY---LLYGPPGTGKSSLIAAMANYLSVEMK-------DRQ 278
+R ++ Y KA K LL+GPPG GK++L +A+ L V ++ ++
Sbjct: 18 ERLKQKLRVYLEAAKARKEPLEHLLLFGPPGLGKTTLAHVIAHELGVNLRVTSGPAIEKP 77
Query: 279 NDGASVGSNTKLTLSGILNFID 300
D A++ +N+ G + FID
Sbjct: 78 GDLAAILANS--LEEGDILFID 97
>pdb|3UK6|A Chain A, Crystal Structure Of The Tip48 (Tip49b) Hexamer
pdb|3UK6|B Chain B, Crystal Structure Of The Tip48 (Tip49b) Hexamer
pdb|3UK6|C Chain C, Crystal Structure Of The Tip48 (Tip49b) Hexamer
pdb|3UK6|D Chain D, Crystal Structure Of The Tip48 (Tip49b) Hexamer
pdb|3UK6|E Chain E, Crystal Structure Of The Tip48 (Tip49b) Hexamer
pdb|3UK6|F Chain F, Crystal Structure Of The Tip48 (Tip49b) Hexamer
pdb|3UK6|G Chain G, Crystal Structure Of The Tip48 (Tip49b) Hexamer
pdb|3UK6|H Chain H, Crystal Structure Of The Tip48 (Tip49b) Hexamer
pdb|3UK6|I Chain I, Crystal Structure Of The Tip48 (Tip49b) Hexamer
pdb|3UK6|J Chain J, Crystal Structure Of The Tip48 (Tip49b) Hexamer
pdb|3UK6|K Chain K, Crystal Structure Of The Tip48 (Tip49b) Hexamer
pdb|3UK6|L Chain L, Crystal Structure Of The Tip48 (Tip49b) Hexamer
Length = 368
Score = 32.3 bits (72), Expect = 0.48, Method: Compositional matrix adjust.
Identities = 14/31 (45%), Positives = 18/31 (58%)
Query: 240 RVGKAWKRGYLLYGPPGTGKSSLIAAMANYL 270
R GK R L+ G PGTGK+++ MA L
Sbjct: 64 REGKIAGRAVLIAGQPGTGKTAIAMGMAQAL 94
>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 = 0.56, 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|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 = 32.3 bits (72), Expect = 0.59, Method: Compositional matrix adjust.
Identities = 20/69 (28%), Positives = 32/69 (46%), Gaps = 2/69 (2%)
Query: 209 STFDTLA--MDPELKQMILDDLDRFLRRKEFYRRVGKAWKRGYLLYGPPGTGKSSLIAAM 266
+TF LA M PE + K R + +L+GPPGTGK++L +
Sbjct: 11 NTFQPLAARMRPENLAQYIGQQHLLAAGKPLPRAIEAGHLHSMILWGPPGTGKTTLAEVI 70
Query: 267 ANYLSVEMK 275
A Y + +++
Sbjct: 71 ARYANADVE 79
>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 = 31.6 bits (70), Expect = 0.80, Method: Compositional matrix adjust.
Identities = 16/49 (32%), Positives = 27/49 (55%), Gaps = 5/49 (10%)
Query: 215 AMDPELKQMILDDLDRFLRRKEFYRRVGKAWKRGYLLYGPPGTGKSSLI 263
M P++ ++ +D K FY + KRG +L GPPG+GK+ ++
Sbjct: 1022 VMRPDI---VIPTIDTIKHEKIFYDLLNS--KRGIILCGPPGSGKTMIM 1065
>pdb|1SXJ|A Chain A, Crystal Structure Of The Eukaryotic Clamp Loader
(Replication Factor C, Rfc) Bound To The Dna Sliding
Clamp (Proliferating Cell Nuclear Antigen, Pcna)
Length = 516
Score = 31.6 bits (70), Expect = 0.85, Method: Compositional matrix adjust.
Identities = 21/72 (29%), Positives = 38/72 (52%), Gaps = 6/72 (8%)
Query: 234 RKEFYRRVGKAWK---RGYLLYGPPGTGKSSLIAAMANYLSVEMKDRQNDGASVGSNTKL 290
+K ++ GK R +LYGPPG GK++ +A L ++ ++ + + V S T L
Sbjct: 62 KKNSFKHAGKDGSGVFRAAMLYGPPGIGKTTAAHLVAQELGYDILEQ--NASDVRSKTLL 119
Query: 291 TLSGILNFIDGL 302
+G+ N +D +
Sbjct: 120 N-AGVKNALDNM 130
>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 = 31.6 bits (70), Expect = 0.91, Method: Compositional matrix adjust.
Identities = 16/49 (32%), Positives = 27/49 (55%), Gaps = 5/49 (10%)
Query: 215 AMDPELKQMILDDLDRFLRRKEFYRRVGKAWKRGYLLYGPPGTGKSSLI 263
M P++ ++ +D K FY + KRG +L GPPG+GK+ ++
Sbjct: 1241 VMRPDI---VIPTIDTIKHEKIFYDLLNS--KRGIILCGPPGSGKTMIM 1284
>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 = 31.2 bits (69), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 18/47 (38%), Positives = 24/47 (51%), Gaps = 5/47 (10%)
Query: 244 AWKRGYLLYGPPGTGKSSLIAAMANYLSVEMKDRQND-----GASVG 285
A KR L GP G GKS++ +A L++E D + GA VG
Sbjct: 2 AEKRNIFLVGPMGAGKSTIGRQLAQQLNMEFYDSDQEIEKRTGADVG 48
>pdb|2XZL|A Chain A, Upf1-Rna Complex
Length = 802
Score = 30.4 bits (67), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 14/28 (50%), Positives = 18/28 (64%)
Query: 250 LLYGPPGTGKSSLIAAMANYLSVEMKDR 277
L+ GPPGTGK+ A + +LS KDR
Sbjct: 379 LIQGPPGTGKTVTSATIVYHLSKIHKDR 406
>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 = 2.6, 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|2EWV|A Chain A, Crystal Structure Of The Pilus Retraction Motor Pilt And
Bound Adp
Length = 372
Score = 29.6 bits (65), Expect = 3.1, Method: Compositional matrix adjust.
Identities = 11/22 (50%), Positives = 18/22 (81%)
Query: 250 LLYGPPGTGKSSLIAAMANYLS 271
L+ GP G+GKS+ IA+M +Y++
Sbjct: 140 LVTGPTGSGKSTTIASMIDYIN 161
>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 = 29.6 bits (65), Expect = 3.2, Method: Compositional matrix adjust.
Identities = 11/22 (50%), Positives = 17/22 (77%)
Query: 247 RGYLLYGPPGTGKSSLIAAMAN 268
+G LL+GPPGTGK+ + +A+
Sbjct: 118 KGILLFGPPGTGKTLIGKCIAS 139
>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 = 3.7, 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 = 4.8, 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|4B3F|X Chain X, Crystal Structure Of 1ghmbp2 Helicase
Length = 646
Score = 29.3 bits (64), Expect = 5.0, 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
0.317 0.133 0.389
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 12,611,536
Number of Sequences: 62578
Number of extensions: 512245
Number of successful extensions: 1538
Number of sequences better than 100.0: 62
Number of HSP's better than 100.0 without gapping: 51
Number of HSP's successfully gapped in prelim test: 11
Number of HSP's that attempted gapping in prelim test: 1453
Number of HSP's gapped (non-prelim): 95
length of query: 436
length of database: 14,973,337
effective HSP length: 102
effective length of query: 334
effective length of database: 8,590,381
effective search space: 2869187254
effective search space used: 2869187254
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)