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= 013083
(450 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1LV7|A Chain A, Crystal Structure Of The Aaa Domain Of Ftsh
Length = 257
Score = 67.0 bits (162), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 52/188 (27%), Positives = 82/188 (43%), Gaps = 15/188 (7%)
Query: 206 NFNTLALDSELKKAIMEDLDNFMNGKEYYTRVGKAWKRGYLLYGPPGTGKSSLIAAMANH 265
F +A E K+ + E L ++ + ++G +G L+ GPPGTGK+ L A+A
Sbjct: 10 TFADVAGCDEAKEEVAE-LVEYLREPSRFQKLGGKIPKGVLMVGPPGTGKTLLAKAIAGE 68
Query: 266 LKFDIYDLDLTDV--------QSNXXXXXXXXXXXXXXXXVIEDIDCSITLENRDSKDQA 317
K + + +D S I++ID R +
Sbjct: 69 AKVPFFTISGSDFVEMFVGVGASRVRDMFEQAKKAAPCIIFIDEIDA--VGRQRGAGLGG 126
Query: 318 GHNQGDNKVTLSGLLNFIDGLWSCCSEGRIIIFTTNHKEKLDPALLRPGRMDMHIHMSYC 377
GH++ + TL+ +L +DG +EG I+I TN + LDPALLRPGR D + +
Sbjct: 127 GHDE--REQTLNQMLVEMDGFEG--NEGIIVIAATNRPDVLDPALLRPGRFDRQVVVGLP 182
Query: 378 TASVFEQL 385
EQ+
Sbjct: 183 DVRGREQI 190
>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 = 66.6 bits (161), Expect = 3e-11, Method: Compositional matrix adjust.
Identities = 47/160 (29%), Positives = 73/160 (45%), Gaps = 14/160 (8%)
Query: 221 MEDLDNFMNGKEYYTRVGKAWKRGYLLYGPPGTGKSSLIAAMANHLKFDIYDLDLTDV-- 278
++++ F+ + R+G +G LL GPPGTGK+ L A+A + + +D
Sbjct: 28 LKEVVEFLKDPSKFNRIGARMPKGILLVGPPGTGKTLLARAVAGEANVPFFHISGSDFVE 87
Query: 279 ------QSNXXXXXXXXXXXXXXXXVIEDIDCSITLENRDSKDQAGHNQGDNKVTLSGLL 332
+ I++ID +R + GH++ + TL+ LL
Sbjct: 88 LFVGVGAARVRDLFAQAKAHAPCIVFIDEIDA--VGRHRGAGLGGGHDEREQ--TLNQLL 143
Query: 333 NFIDGLWSCCSEGRIIIFTTNHKEKLDPALLRPGRMDMHI 372
+DG S EG I++ TN + LDPALLRPGR D I
Sbjct: 144 VEMDGFDS--KEGIIVMAATNRPDILDPALLRPGRFDKKI 181
>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 = 65.9 bits (159), Expect = 4e-11, Method: Compositional matrix adjust.
Identities = 52/181 (28%), Positives = 80/181 (44%), Gaps = 17/181 (9%)
Query: 202 KHPMNFNTLALDSELKKAIMEDLDNFMNGKEYYTRVGKAWKRGYLLYGPPGTGKSSLIAA 261
K + F +A + E K+ ++E +D F+ E Y +G +G LL GPPGTGK+ L A
Sbjct: 5 KPNVRFKDMAGNEEAKEEVVEIVD-FLKYPERYANLGAKIPKGVLLVGPPGTGKTLLAKA 63
Query: 262 MANHLKFDIYDLDLTDV--------QSNXXXXXXXXXXXXXXXXVIEDIDCSITLENRDS 313
+A + + + S I++ID S
Sbjct: 64 VAGEAHVPFFSMGGSSFIEMFVGLGASRVRDLFETAKKQAPSIIFIDEIDAI-----GKS 118
Query: 314 KDQAGHNQGDNKV--TLSGLLNFIDGLWSCCSEGRIIIFTTNHKEKLDPALLRPGRMDMH 371
+ G G+++ TL+ LL +DG S + I++ TN E LDPAL+RPGR D
Sbjct: 119 RAAGGVVSGNDEREQTLNQLLAEMDGFGSENAP-VIVLAATNRPEILDPALMRPGRFDRQ 177
Query: 372 I 372
+
Sbjct: 178 V 178
>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 = 64.7 bits (156), Expect = 1e-10, Method: Compositional matrix adjust.
Identities = 46/160 (28%), Positives = 72/160 (45%), Gaps = 14/160 (8%)
Query: 221 MEDLDNFMNGKEYYTRVGKAWKRGYLLYGPPGTGKSSLIAAMANHLKFDIYDLDLTDV-- 278
++++ F+ + R+G +G LL GPPGTG + L A+A + + +D
Sbjct: 28 LKEVVEFLKDPSKFNRIGARMPKGILLVGPPGTGATLLARAVAGEANVPFFHISGSDFVE 87
Query: 279 ------QSNXXXXXXXXXXXXXXXXVIEDIDCSITLENRDSKDQAGHNQGDNKVTLSGLL 332
+ I++ID +R + GH++ + TL+ LL
Sbjct: 88 LFVGVGAARVRDLFAQAKAHAPCIVFIDEIDA--VGRHRGAGLGGGHDEREQ--TLNQLL 143
Query: 333 NFIDGLWSCCSEGRIIIFTTNHKEKLDPALLRPGRMDMHI 372
+DG S EG I++ TN + LDPALLRPGR D I
Sbjct: 144 VEMDGFDS--KEGIIVMAATNRPDILDPALLRPGRFDKKI 181
>pdb|4B4T|K Chain K, Near-Atomic Resolution Structural Model Of The Yeast 26s
Proteasome
Length = 428
Score = 64.3 bits (155), Expect = 1e-10, Method: Compositional matrix adjust.
Identities = 49/165 (29%), Positives = 77/165 (46%), Gaps = 14/165 (8%)
Query: 217 KKAIMEDLDNFMNGKEYYTRVGKAWKRGYLLYGPPGTGKSSLIAAMANHLKFDIYDLD-- 274
K+ I E ++ + + Y ++G RG LLYGPPGTGK+ L+ A+AN K ++
Sbjct: 181 KQEIREAVELPLVQADLYEQIGIDPPRGVLLYGPPGTGKTMLVKAVANSTKAAFIRVNGS 240
Query: 275 ------LTDVQSNXXXXXXXXXXXXXXXXVIEDIDCSITLENRDSKDQAGHNQGDNKVTL 328
L + I+++D SI + D+ Q G ++ ++ +
Sbjct: 241 EFVHKYLGEGPRMVRDVFRLARENAPSIIFIDEVD-SIATKRFDA--QTGSDREVQRILI 297
Query: 329 SGLLNFIDGLWSCCSEGRIIIFTTNHKEKLDPALLRPGRMDMHIH 373
LL +DG + +I TN + LDPALLRPGR+D I
Sbjct: 298 E-LLTQMDGFDQSTNVK--VIMATNRADTLDPALLRPGRLDRKIE 339
>pdb|4B4T|J Chain J, Near-Atomic Resolution Structural Model Of The Yeast 26s
Proteasome
Length = 405
Score = 63.2 bits (152), Expect = 3e-10, Method: Compositional matrix adjust.
Identities = 51/162 (31%), Positives = 78/162 (48%), Gaps = 10/162 (6%)
Query: 218 KAIMEDLDNFMNGKEYYTRVGKAWKRGYLLYGPPGTGKSSLIAAMANHLKFDIYDLDLTD 277
K I E ++ + E + +G A +G +LYGPPGTGK+ L A+A+H D + ++
Sbjct: 158 KEIKEVIELPVKHPELFESLGIAQPKGVILYGPPGTGKTLLARAVAHHT--DCKFIRVSG 215
Query: 278 VQSNXXXXXXXXXXXXXXXXVIEDIDCSIT----LENRDSKDQAGHNQGDNKV--TLSGL 331
+ + + SI +++ S G GD++V T+ L
Sbjct: 216 AELVQKYIGEGSRMVRELFVMAREHAPSIIFMDEIDSIGSTRVEGSGGGDSEVQRTMLEL 275
Query: 332 LNFIDGLWSCCSEGRIIIFTTNHKEKLDPALLRPGRMDMHIH 373
LN +DG + S+ II TN + LDPALLRPGR+D I
Sbjct: 276 LNQLDGFET--SKNIKIIMATNRLDILDPALLRPGRIDRKIE 315
>pdb|2QZ4|A Chain A, Human Paraplegin, Aaa Domain In Complex With Adp
Length = 262
Score = 60.1 bits (144), Expect = 2e-09, Method: Compositional matrix adjust.
Identities = 49/192 (25%), Positives = 89/192 (46%), Gaps = 18/192 (9%)
Query: 205 MNFNTLALDSELKKAIMEDLDNFMNGKEYYTRVGKAWKRGYLLYGPPGTGKSSLIAAMAN 264
++F +A E K + E +D ++ E + ++G +G LL GPPG GK+ L A+A
Sbjct: 3 VSFKDVAGMHEAKLEVREFVD-YLKSPERFLQLGAKVPKGALLLGPPGCGKTLLAKAVAT 61
Query: 265 HLKFDIYDL---DLTDVQSNXXXXXXXXXXXXXXXXV-----IEDIDCSITLENRDSKDQ 316
+ + + +V I++ID + + S
Sbjct: 62 EAQVPFLAMAGAEFVEVIGGLGAARVRSLFKEARARAPCIVYIDEIDA---VGKKRSTTM 118
Query: 317 AGHNQGDNKVTLSGLLNFIDGLWSCCSEGRIIIFTTNHKEKLDPALLRPGRMDMHIHMSY 376
+G + + + TL+ LL +DG+ + ++ I++ +TN + LD AL+RPGR+D H+ +
Sbjct: 119 SGFSNTEEEQTLNQLLVEMDGMGT--TDHVIVLASTNRADILDGALMRPGRLDRHVFIDL 176
Query: 377 CT----ASVFEQ 384
T +FEQ
Sbjct: 177 PTLQERREIFEQ 188
>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 = 48/176 (27%), Positives = 79/176 (44%), Gaps = 8/176 (4%)
Query: 205 MNFNTLALDSELKKAIMEDLDNFMNGKEYYTRVGKAWKRGYLLYGPPGTGKSSLIAAMAN 264
+ F+ + +E + + E ++ + E + RVG +G LLYGPPGTGK+ L A+A
Sbjct: 178 ITFDGIGGLTEQIRELREVIELPLKNPEIFQRVGIKPPKGVLLYGPPGTGKTLLAKAVAA 237
Query: 265 HLKFDIYDLDLTDVQSNXXXXXXXXXXXXXXXXVIEDIDCSITLENRDSKDQAGHNQG-- 322
+ + + + + E C I ++ D+ ++G
Sbjct: 238 TIGANFIFSPASGI-VDKYIGESARIIREMFAYAKEHEPCIIFMDEVDAIGGRRFSEGTS 296
Query: 323 -DNKV--TLSGLLNFIDGLWSCCSEGRIIIFTTNHKEKLDPALLRPGRMDMHIHMS 375
D ++ TL LL +DG + II TN + LDPALLRPGR+D + +
Sbjct: 297 ADREIQRTLMELLTQMDGFDNLGQTK--IIMATNRPDTLDPALLRPGRLDRKVEIP 350
>pdb|4B4T|H Chain H, Near-Atomic Resolution Structural Model Of The Yeast 26s
Proteasome
Length = 467
Score = 56.2 bits (134), Expect = 3e-08, Method: Compositional matrix adjust.
Identities = 49/155 (31%), Positives = 65/155 (41%), Gaps = 20/155 (12%)
Query: 232 EYYTRVGKAWKRGYLLYGPPGTGKSSLIAAMANHLKFDIYDLDLTDVQSNXXXXXXXXXX 291
E + +G +G LLYGPPGTGK+ A+AN D V +
Sbjct: 233 ERFATLGIDPPKGILLYGPPGTGKTLCARAVANRT-----DATFIRVIGSELVQKYVGEG 287
Query: 292 XXXXXXVIE----DIDCSITLENRDS------KDQAGHNQGDNKVTLSGLLNFIDGLWSC 341
+ E C I + D+ D AG GDN+V + +L I L
Sbjct: 288 ARMVRELFEMARTKKACIIFFDEIDAVGGARFDDGAG---GDNEVQRT-MLELITQLDGF 343
Query: 342 CSEGRI-IIFTTNHKEKLDPALLRPGRMDMHIHMS 375
G I ++F TN LDPALLRPGR+D + S
Sbjct: 344 DPRGNIKVMFATNRPNTLDPALLRPGRIDRKVEFS 378
>pdb|4B4T|I Chain I, Near-Atomic Resolution Structural Model Of The Yeast 26s
Proteasome
Length = 437
Score = 54.3 bits (129), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 51/173 (29%), Positives = 82/173 (47%), Gaps = 21/173 (12%)
Query: 211 ALDSELKKAIMEDLDNFMNGKEYYTRVGKAWKRGYLLYGPPGTGKSSLIAAMANH----- 265
L+S++++ I E ++ + E Y +G +G +LYG PGTGK+ L A+AN
Sbjct: 186 GLESQIQE-IKESVELPLTHPELYEEMGIKPPKGVILYGAPGTGKTLLAKAVANQTSATF 244
Query: 266 ---LKFDIYDLDLTDVQSNXXXXXXXXXXXXXXXXVIEDIDCSITLENRDSKDQAGHNQG 322
+ ++ L D I++ID +I + DS ++ G
Sbjct: 245 LRIVGSELIQKYLGDGPRLCRQIFKVAGENAPSIVFIDEID-AIGTKRYDS-----NSGG 298
Query: 323 DNKV--TLSGLLNFIDGLWSCCSEGRI-IIFTTNHKEKLDPALLRPGRMDMHI 372
+ ++ T+ LLN +DG G + +I TN E LDPAL+RPGR+D I
Sbjct: 299 EREIQRTMLELLNQLDGFD---DRGDVKVIMATNKIETLDPALIRPGRIDRKI 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 = 53.9 bits (128), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 48/155 (30%), Positives = 70/155 (45%), Gaps = 20/155 (12%)
Query: 232 EYYTRVGKAWKRGYLLYGPPGTGKSSLIAAMANH--------LKFDIYDLDLTDVQSNXX 283
E + +VG +G LLYGPPGTGK+ L A+A + ++ + + S
Sbjct: 41 ELFEKVGIEPPKGILLYGPPGTGKTLLAKAVATETNATFIRVVGSELVKKFIGEGASLVK 100
Query: 284 XXXXXXXXXXXXXXVIEDIDCSITLENRDSKDQAGHNQGDNKV--TLSGLLNFIDGLWSC 341
I++ID +I + D+ GD +V TL LL +DG
Sbjct: 101 DIFKLAKEKAPSIIFIDEID-AIAAKRTDA-----LTGGDREVQRTLMQLLAEMDGFD-- 152
Query: 342 CSEGRI-IIFTTNHKEKLDPALLRPGRMDMHIHMS 375
+ G + II TN + LDPA+LRPGR D I +
Sbjct: 153 -ARGDVKIIGATNRPDILDPAILRPGRFDRIIEVP 186
>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 = 53.9 bits (128), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 42/168 (25%), Positives = 64/168 (38%), Gaps = 14/168 (8%)
Query: 226 NFMNGKEYYTRVGKAWKRGYLLYGPPGTGKSSLIAAMANHLKFDIYDLDLTDV------- 278
F+ + +G +G LL GPPG GK+ L A+A + +D
Sbjct: 48 EFLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGEARVPFITASGSDFVEMFVGV 107
Query: 279 -QSNXXXXXXXXXXXXXXXXVIEDIDCSITLENRDSKDQAGHNQGDNKVTLSGLLNFIDG 337
+ I++ID R G + + TL+ LL +DG
Sbjct: 108 GAARVRDLFETAKRHAPCIVFIDEIDAV----GRKRGSGVGGGNDEREQTLNQLLVEMDG 163
Query: 338 LWSCCSEGRIIIFTTNHKEKLDPALLRPGRMDMHIHMSYCTASVFEQL 385
+ +++ TN + LDPALLRPGR D I + EQ+
Sbjct: 164 FEKDTAI--VVMAATNRPDILDPALLRPGRFDRQIAIDAPDVKGREQI 209
>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 = 53.5 bits (127), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 44/165 (26%), Positives = 63/165 (38%), Gaps = 8/165 (4%)
Query: 226 NFMNGKEYYTRVGKAWKRGYLLYGPPGTGKSSLIAAMANHLKFDIYDLDLTD-----VQS 280
F+ + +G +G LL GPPG GK+ L A+A + +D V
Sbjct: 57 EFLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGEARVPFITASGSDFVEMFVGV 116
Query: 281 NXXXXXXXXXXXXXXXXVIEDIDCSITLENRDSKDQAGHNQGDNKVTLSGLLNFIDGLWS 340
I ID I R G + + TL+ LL +DG
Sbjct: 117 GAARVRDLFETAKRHAPCIVFID-EIDAVGRKRGSGVGGGNDEREQTLNQLLVEMDGFEK 175
Query: 341 CCSEGRIIIFTTNHKEKLDPALLRPGRMDMHIHMSYCTASVFEQL 385
+ +++ TN + LDPALLRPGR D I + EQ+
Sbjct: 176 DTAI--VVMAATNRPDILDPALLRPGRFDRQIAIDAPDVKGREQI 218
>pdb|1R7R|A Chain A, The Crystal Structure Of Murine P97VCP AT 3.6A
Length = 816
Score = 53.5 bits (127), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 40/155 (25%), Positives = 67/155 (43%), Gaps = 17/155 (10%)
Query: 234 YTRVGKAWKRGYLLYGPPGTGKSSLIAAMANHLKFDIYDLDLTDV--------QSNXXXX 285
+ +G RG LLYGPPGTGK+ + A+AN + ++ ++ +SN
Sbjct: 230 FKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESESNLRKA 289
Query: 286 XXXXXXXXXXXXVIEDIDCSITLENRDSKDQAGHNQGDNKVTLSGLLNFIDGLWSCCSEG 345
I+++D K + H + + ++ +S LL +DGL
Sbjct: 290 FEEAEKNAPAIIFIDELDAIA------PKREKTHGEVERRI-VSQLLTLMDGLKQRAH-- 340
Query: 346 RIIIFTTNHKEKLDPALLRPGRMDMHIHMSYCTAS 380
I++ TN +DPAL R GR D + + A+
Sbjct: 341 VIVMAATNRPNSIDPALRRFGRFDREVDIGIPDAT 375
Score = 48.5 bits (114), Expect = 7e-06, Method: Compositional matrix adjust.
Identities = 40/169 (23%), Positives = 75/169 (44%), Gaps = 14/169 (8%)
Query: 215 ELKKAIMEDLDNFMNGKEYYTRVGKAWKRGYLLYGPPGTGKSSLIAAMANHLKFDIYDLD 274
++K+ + E + + + + + G +G L YGPPG GK+ L A+AN + + +
Sbjct: 484 DVKRELQELVQYPVEHPDKFLKFGMTPSKGVLFYGPPGCGKTLLAKAIANECQANFISIK 543
Query: 275 --------LTDVQSNXXXXXXXXXXXXXXXXVIEDIDCSITLENRDSKDQAGHNQGDNKV 326
+ ++N +++D SI + R G D
Sbjct: 544 GPELLTMWFGESEANVREIFDKARQAAPCVLFFDELD-SIA-KARGGNIGDGGGAADR-- 599
Query: 327 TLSGLLNFIDGLWSCCSEGRIIIFTTNHKEKLDPALLRPGRMDMHIHMS 375
++ +L +DG+ + + II TN + +DPA+LRPGR+D I++
Sbjct: 600 VINQILTEMDGMST--KKNVFIIGATNRPDIIDPAILRPGRLDQLIYIP 646
>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 = 53.5 bits (127), Expect = 3e-07, Method: Compositional matrix adjust.
Identities = 40/155 (25%), Positives = 67/155 (43%), Gaps = 17/155 (10%)
Query: 234 YTRVGKAWKRGYLLYGPPGTGKSSLIAAMANHLKFDIYDLDLTDV--------QSNXXXX 285
+ +G RG LLYGPPGTGK+ + A+AN + ++ ++ +SN
Sbjct: 230 FKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESESNLRKA 289
Query: 286 XXXXXXXXXXXXVIEDIDCSITLENRDSKDQAGHNQGDNKVTLSGLLNFIDGLWSCCSEG 345
I+++D K + H + + ++ +S LL +DGL
Sbjct: 290 FEEAEKNAPAIIFIDELDAIA------PKREKTHGEVERRI-VSQLLTLMDGLKQRAHV- 341
Query: 346 RIIIFTTNHKEKLDPALLRPGRMDMHIHMSYCTAS 380
I++ TN +DPAL R GR D + + A+
Sbjct: 342 -IVMAATNRPNSIDPALRRFGRFDREVDIGIPDAT 375
Score = 48.5 bits (114), Expect = 8e-06, Method: Compositional matrix adjust.
Identities = 40/169 (23%), Positives = 75/169 (44%), Gaps = 14/169 (8%)
Query: 215 ELKKAIMEDLDNFMNGKEYYTRVGKAWKRGYLLYGPPGTGKSSLIAAMANHLKFDIYDLD 274
++K+ + E + + + + + G +G L YGPPG GK+ L A+AN + + +
Sbjct: 484 DVKRELQELVQYPVEHPDKFLKFGMTPSKGVLFYGPPGCGKTLLAKAIANECQANFISIK 543
Query: 275 --------LTDVQSNXXXXXXXXXXXXXXXXVIEDIDCSITLENRDSKDQAGHNQGDNKV 326
+ ++N +++D SI + R G D
Sbjct: 544 GPELLTMWFGESEANVREIFDKARQAAPCVLFFDELD-SIA-KARGGNIGDGGGAADR-- 599
Query: 327 TLSGLLNFIDGLWSCCSEGRIIIFTTNHKEKLDPALLRPGRMDMHIHMS 375
++ +L +DG+ + + II TN + +DPA+LRPGR+D I++
Sbjct: 600 VINQILTEMDGMST--KKNVFIIGATNRPDIIDPAILRPGRLDQLIYIP 646
>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 = 53.1 bits (126), Expect = 3e-07, Method: Compositional matrix adjust.
Identities = 40/155 (25%), Positives = 67/155 (43%), Gaps = 17/155 (10%)
Query: 234 YTRVGKAWKRGYLLYGPPGTGKSSLIAAMANHLKFDIYDLDLTDV--------QSNXXXX 285
+ +G RG LLYGPPGTGK+ + A+AN + ++ ++ +SN
Sbjct: 230 FKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESESNLRKA 289
Query: 286 XXXXXXXXXXXXVIEDIDCSITLENRDSKDQAGHNQGDNKVTLSGLLNFIDGLWSCCSEG 345
I+++D K + H + + ++ +S LL +DGL
Sbjct: 290 FEEAEKNAPAIIFIDELDAIA------PKREKTHGEVERRI-VSQLLTLMDGLKQRAHV- 341
Query: 346 RIIIFTTNHKEKLDPALLRPGRMDMHIHMSYCTAS 380
I++ TN +DPAL R GR D + + A+
Sbjct: 342 -IVMAATNRPNSIDPALRRFGRFDREVDIGIPDAT 375
>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 = 53.1 bits (126), Expect = 3e-07, Method: Compositional matrix adjust.
Identities = 40/155 (25%), Positives = 67/155 (43%), Gaps = 17/155 (10%)
Query: 234 YTRVGKAWKRGYLLYGPPGTGKSSLIAAMANHLKFDIYDLDLTDV--------QSNXXXX 285
+ +G RG LLYGPPGTGK+ + A+AN + ++ ++ +SN
Sbjct: 230 FKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESESNLRKA 289
Query: 286 XXXXXXXXXXXXVIEDIDCSITLENRDSKDQAGHNQGDNKVTLSGLLNFIDGLWSCCSEG 345
I+++D K + H + + ++ +S LL +DGL
Sbjct: 290 FEEAEKNAPAIIFIDELDAIA------PKREKTHGEVERRI-VSQLLTLMDGLKQRAH-- 340
Query: 346 RIIIFTTNHKEKLDPALLRPGRMDMHIHMSYCTAS 380
I++ TN +DPAL R GR D + + A+
Sbjct: 341 VIVMAATNRPNSIDPALRRFGRFDREVDIGIPDAT 375
>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 = 53.1 bits (126), Expect = 3e-07, Method: Compositional matrix adjust.
Identities = 40/155 (25%), Positives = 67/155 (43%), Gaps = 17/155 (10%)
Query: 234 YTRVGKAWKRGYLLYGPPGTGKSSLIAAMANHLKFDIYDLDLTDV--------QSNXXXX 285
+ +G RG LLYGPPGTGK+ + A+AN + ++ ++ +SN
Sbjct: 230 FKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESESNLRKA 289
Query: 286 XXXXXXXXXXXXVIEDIDCSITLENRDSKDQAGHNQGDNKVTLSGLLNFIDGLWSCCSEG 345
I+++D K + H + + ++ +S LL +DGL
Sbjct: 290 FEEAEKNAPAIIFIDELDAIA------PKREKTHGEVERRI-VSQLLTLMDGLKQRAH-- 340
Query: 346 RIIIFTTNHKEKLDPALLRPGRMDMHIHMSYCTAS 380
I++ TN +DPAL R GR D + + A+
Sbjct: 341 VIVMAATNRPNSIDPALRRFGRFDREVDIGIPDAT 375
>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 = 53.1 bits (126), Expect = 3e-07, Method: Compositional matrix adjust.
Identities = 40/155 (25%), Positives = 67/155 (43%), Gaps = 17/155 (10%)
Query: 234 YTRVGKAWKRGYLLYGPPGTGKSSLIAAMANHLKFDIYDLDLTDV--------QSNXXXX 285
+ +G RG LLYGPPGTGK+ + A+AN + ++ ++ +SN
Sbjct: 230 FKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESESNLRKA 289
Query: 286 XXXXXXXXXXXXVIEDIDCSITLENRDSKDQAGHNQGDNKVTLSGLLNFIDGLWSCCSEG 345
I+++D K + H + + ++ +S LL +DGL
Sbjct: 290 FEEAEKNAPAIIFIDELDAIA------PKREKTHGEVERRI-VSQLLTLMDGLKQRAH-- 340
Query: 346 RIIIFTTNHKEKLDPALLRPGRMDMHIHMSYCTAS 380
I++ TN +DPAL R GR D + + A+
Sbjct: 341 VIVMAATNRPNSIDPALRRFGRFDREVDIGIPDAT 375
>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 = 53.1 bits (126), Expect = 3e-07, Method: Compositional matrix adjust.
Identities = 44/164 (26%), Positives = 63/164 (38%), Gaps = 8/164 (4%)
Query: 227 FMNGKEYYTRVGKAWKRGYLLYGPPGTGKSSLIAAMANHLKFDIYDLDLTD-----VQSN 281
F+ + +G +G LL GPPG GK+ L A+A + +D V
Sbjct: 34 FLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGEARVPFITASGSDFVEMFVGVG 93
Query: 282 XXXXXXXXXXXXXXXXVIEDIDCSITLENRDSKDQAGHNQGDNKVTLSGLLNFIDGLWSC 341
I ID I R G + + TL+ LL +DG
Sbjct: 94 AARVRDLFETAKRHAPCIVFID-EIDAVGRKRGSGVGGGNDEREQTLNQLLVEMDGFEKD 152
Query: 342 CSEGRIIIFTTNHKEKLDPALLRPGRMDMHIHMSYCTASVFEQL 385
+ +++ TN + LDPALLRPGR D I + EQ+
Sbjct: 153 TAI--VVMAATNRPDILDPALLRPGRFDRQIAIDAPDVKGREQI 194
>pdb|1IY2|A Chain A, Crystal Structure Of The Ftsh Atpase Domain From Thermus
Thermophilus
Length = 278
Score = 52.4 bits (124), Expect = 5e-07, Method: Compositional matrix adjust.
Identities = 44/164 (26%), Positives = 63/164 (38%), Gaps = 8/164 (4%)
Query: 227 FMNGKEYYTRVGKAWKRGYLLYGPPGTGKSSLIAAMANHLKFDIYDLDLTD-----VQSN 281
F+ + +G +G LL GPPG GK+ L A+A + +D V
Sbjct: 58 FLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGEARVPFITASGSDFVEMFVGVG 117
Query: 282 XXXXXXXXXXXXXXXXVIEDIDCSITLENRDSKDQAGHNQGDNKVTLSGLLNFIDGLWSC 341
I ID I R G + + TL+ LL +DG
Sbjct: 118 AARVRDLFETAKRHAPCIVFID-EIDAVGRKRGSGVGGGNDEREQTLNQLLVEMDGFEKD 176
Query: 342 CSEGRIIIFTTNHKEKLDPALLRPGRMDMHIHMSYCTASVFEQL 385
+ +++ TN + LDPALLRPGR D I + EQ+
Sbjct: 177 TAI--VVMAATNRPDILDPALLRPGRFDRQIAIDAPDVKGREQI 218
>pdb|4B4T|M Chain M, Near-Atomic Resolution Structural Model Of The Yeast 26s
Proteasome
Length = 434
Score = 49.7 bits (117), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 48/166 (28%), Positives = 68/166 (40%), Gaps = 14/166 (8%)
Query: 228 MNGKEYYTRVGKAWKRGYLLYGPPGTGKSSLIAAMANH-----LKFDIYDLDLTDVQSNX 282
M + + +G +G L+YGPPGTGK+ L A A LK L +
Sbjct: 201 MKRADKFKDMGIRAPKGALMYGPPGTGKTLLARACAAQTNATFLKLAAPQLVQMYIGEGA 260
Query: 283 XXXXXXXXXXXXXXXVIEDIDCSITLENRDSKDQAGHNQGDNKV--TLSGLLNFIDGLWS 340
I ID L+ +K GD +V T+ LLN +DG
Sbjct: 261 KLVRDAFALAKEKAPTIIFID---ELDAIGTKRFDSEKSGDREVQRTMLELLNQLDGF-- 315
Query: 341 CCSEGRI-IIFTTNHKEKLDPALLRPGRMDMHIHMSYCTASVFEQL 385
S+ R+ ++ TN + LDPALLR GR+D I + Q+
Sbjct: 316 -SSDDRVKVLAATNRVDVLDPALLRSGRLDRKIEFPLPSEDSRAQI 360
>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 = 49.7 bits (117), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 40/169 (23%), Positives = 75/169 (44%), Gaps = 14/169 (8%)
Query: 215 ELKKAIMEDLDNFMNGKEYYTRVGKAWKRGYLLYGPPGTGKSSLIAAMANHLKFDIYDLD 274
++K+ + E + + + + + G +G L YGPPG GK+ L A+AN + + +
Sbjct: 22 DVKRELQELVQYPVEHPDKFLKFGMTPSKGVLFYGPPGCGKTLLAKAIANECQANFISIK 81
Query: 275 --------LTDVQSNXXXXXXXXXXXXXXXXVIEDIDCSITLENRDSKDQAGHNQGDNKV 326
+ ++N +++D SI + R G D
Sbjct: 82 GPELLTMWFGESEANVREIFDKARQAAPCVLFFDELD-SIA-KARGGNIGDGGGAADR-- 137
Query: 327 TLSGLLNFIDGLWSCCSEGRIIIFTTNHKEKLDPALLRPGRMDMHIHMS 375
++ +L +DG+ + + II TN + +DPA+LRPGR+D I++
Sbjct: 138 VINQILTEMDGMST--KKNVFIIGATNRPDIIDPAILRPGRLDQLIYIP 184
>pdb|2X8A|A Chain A, Human Nuclear Valosin Containing Protein Like (Nvl), C-
Terminal Aaa-Atpase Domain
Length = 274
Score = 49.7 bits (117), Expect = 4e-06, Method: Compositional matrix adjust.
Identities = 41/157 (26%), Positives = 67/157 (42%), Gaps = 9/157 (5%)
Query: 215 ELKKAIMEDLDNFMNGKEYYTRVGKAWKRGYLLYGPPGTGKSSLIAAMANHLKFDIYDLD 274
EL AI+ + N + + +G G LL GPPG GK+ L A+AN + +
Sbjct: 21 ELTMAILAPVRN----PDQFKALGLVTPAGVLLAGPPGCGKTLLAKAVANESGLNFISVK 76
Query: 275 LTDVQSNXXXXXXXXXXXXXXXXVIEDIDCSITLENRDS--KDQAGHNQGDNKVTLSGLL 332
++ N C I + D+ ++ G + ++ LL
Sbjct: 77 GPELL-NMYVGESERAVRQVFQRAKNSAPCVIFFDEVDALCPRRSDRETGASVRVVNQLL 135
Query: 333 NFIDGLWSCCSEGRIIIFTTNHKEKLDPALLRPGRMD 369
+DGL + + I+ TN + +DPA+LRPGR+D
Sbjct: 136 TEMDGLEA--RQQVFIMAATNRPDIIDPAILRPGRLD 170
>pdb|3VFD|A Chain A, Human Spastin Aaa Domain
Length = 389
Score = 42.7 bits (99), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 37/134 (27%), Positives = 61/134 (45%), Gaps = 15/134 (11%)
Query: 239 KAWKRGYLLYGPPGTGKSSL---IAAMANHLKFDIYDLDLT-----DVQSNXXXXXXXXX 290
+A RG LL+GPPG GK+ L +AA +N F+I LT + +
Sbjct: 145 RAPARGLLLFGPPGNGKTMLAKAVAAESNATFFNISAASLTSKYVGEGEKLVRALFAVAR 204
Query: 291 XXXXXXXVIEDIDCSITLENRDSKDQAGHNQGDNKVTLSGLLNFIDGLWSCCSEGRIIIF 350
I+ +D S+ E R+ G + ++ L+ F DG+ S + +++
Sbjct: 205 ELQPSIIFIDQVD-SLLCERRE-----GEHDASRRLKTEFLIEF-DGVQSAGDDRVLVMG 257
Query: 351 TTNHKEKLDPALLR 364
TN ++LD A+LR
Sbjct: 258 ATNRPQELDEAVLR 271
>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 = 39.3 bits (90), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 54/237 (22%), Positives = 102/237 (43%), Gaps = 25/237 (10%)
Query: 204 PMNFNTLALDSELKKAIMEDLDNFMNGKEYYTRVGKAWKRGYLLYGPPGTGKSSL---IA 260
P+N+ +A K I E + M + +T + + +G LL+GPPGTGK+ + IA
Sbjct: 80 PVNWEDIAGVEFAKATIKEIVVWPMLRPDIFTGL-RGPPKGILLFGPPGTGKTLIGKCIA 138
Query: 261 AMANHLKFDIYDLDLT-----DVQSNXXXXXXXXXXXXXXXXVIEDIDCSITLENRDSKD 315
+ + F I LT + + I++ID + S+
Sbjct: 139 SQSGATFFSISASSLTSKWVGEGEKMVRALFAVARCQQPAVIFIDEIDSLL------SQR 192
Query: 316 QAGHNQGDNKVTLSGLLNFIDGLWSCCSEGRIIIF-TTNHKEKLDPALLRPGRMDMHIHM 374
G ++ ++ L+ +DG + SE RI++ TN +++D A R R+ +++
Sbjct: 193 GDGEHESSRRIKTEFLVQ-LDGA-TTSSEDRILVVGATNRPQEIDEAARR--RLVKRLYI 248
Query: 375 SYCTASVFEQLAFNYLGISHHHLF-EQIEEMLMKVNVTPAEVAGELMKSKCKYAEIS 430
AS +Q+ N + L E+IE+++ + + +G M C+ A +
Sbjct: 249 PLPEASARKQIVINLMSKEQCCLSEEEIEQIVQQSDA----FSGADMTQLCREASLG 301
>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 = 38.9 bits (89), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 17/43 (39%), Positives = 26/43 (60%)
Query: 238 GKAWKRGYLLYGPPGTGKSSLIAAMANHLKFDIYDLDLTDVQS 280
G R +LYGPPG GK++ +A L +DI + + +DV+S
Sbjct: 73 GSGVFRAAMLYGPPGIGKTTAAHLVAQELGYDILEQNASDVRS 115
>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 = 37.7 bits (86), Expect = 0.012, Method: Compositional matrix adjust.
Identities = 21/49 (42%), Positives = 24/49 (48%), Gaps = 4/49 (8%)
Query: 222 EDLDNFMNGKEYYTRVGKAWKRG----YLLYGPPGTGKSSLIAAMANHL 266
E LD E T V K G L YGPPGTGK+S I A+A +
Sbjct: 22 ETLDEVYGQNEVITTVRKFVDEGKLPHLLFYGPPGTGKTSTIVALAREI 70
>pdb|3EIE|A Chain A, Crystal Structure Of S.Cerevisiae Vps4 In The So4-Bound
State
Length = 322
Score = 37.7 bits (86), Expect = 0.014, Method: Compositional matrix adjust.
Identities = 17/37 (45%), Positives = 22/37 (59%)
Query: 244 GYLLYGPPGTGKSSLIAAMANHLKFDIYDLDLTDVQS 280
G LLYGPPGTGKS L A+A + + +D+ S
Sbjct: 53 GILLYGPPGTGKSYLAKAVATEANSTFFSVSSSDLVS 89
>pdb|2RKO|A Chain A, Crystal Structure Of The Vps4p-Dimer
Length = 331
Score = 37.7 bits (86), Expect = 0.014, Method: Compositional matrix adjust.
Identities = 17/37 (45%), Positives = 22/37 (59%)
Query: 244 GYLLYGPPGTGKSSLIAAMANHLKFDIYDLDLTDVQS 280
G LLYGPPGTGKS L A+A + + +D+ S
Sbjct: 62 GILLYGPPGTGKSYLAKAVATEANSTFFSVSSSDLVS 98
>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 = 37.7 bits (86), Expect = 0.014, Method: Compositional matrix adjust.
Identities = 17/37 (45%), Positives = 22/37 (59%)
Query: 244 GYLLYGPPGTGKSSLIAAMANHLKFDIYDLDLTDVQS 280
G LLYGPPGTGKS L A+A + + +D+ S
Sbjct: 86 GILLYGPPGTGKSYLAKAVATEANSTFFSVSSSDLVS 122
>pdb|2ZAM|A Chain A, Crystal Structure Of Mouse Skd1VPS4B APO-Form
pdb|2ZAN|A Chain A, Crystal Structure Of Mouse Skd1VPS4B ATP-Form
pdb|2ZAO|A Chain A, Crystal Structure Of Mouse Skd1VPS4B ADP-Form
Length = 444
Score = 37.7 bits (86), Expect = 0.015, Method: Compositional matrix adjust.
Identities = 22/46 (47%), Positives = 25/46 (54%), Gaps = 5/46 (10%)
Query: 234 YTRVGKAWKRGYLLYGPPGTGKSSLIAAMA----NHLKFDIYDLDL 275
+T W RG LL+GPPGTGKS L A+A N F I DL
Sbjct: 160 FTGKRTPW-RGILLFGPPGTGKSYLAKAVATEANNSTFFSISSSDL 204
>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 = 37.4 bits (85), Expect = 0.016, Method: Compositional matrix adjust.
Identities = 17/37 (45%), Positives = 22/37 (59%)
Query: 244 GYLLYGPPGTGKSSLIAAMANHLKFDIYDLDLTDVQS 280
G LLYGPPGTGKS L A+A + + +D+ S
Sbjct: 71 GILLYGPPGTGKSYLAKAVATEANSTFFSVSSSDLVS 107
>pdb|1XWI|A Chain A, Crystal Structure Of Vps4b
Length = 322
Score = 37.4 bits (85), Expect = 0.019, Method: Compositional matrix adjust.
Identities = 22/46 (47%), Positives = 25/46 (54%), Gaps = 5/46 (10%)
Query: 234 YTRVGKAWKRGYLLYGPPGTGKSSLIAAMA----NHLKFDIYDLDL 275
+T W RG LL+GPPGTGKS L A+A N F I DL
Sbjct: 38 FTGKRTPW-RGILLFGPPGTGKSYLAKAVATEANNSTFFSISSSDL 82
>pdb|3L0O|A Chain A, Structure Of Rna-Free Rho Transcription Termination Factor
From Thermotoga Maritima
pdb|3L0O|B Chain B, Structure Of Rna-Free Rho Transcription Termination Factor
From Thermotoga Maritima
Length = 427
Score = 37.0 bits (84), Expect = 0.020, Method: Compositional matrix adjust.
Identities = 57/232 (24%), Positives = 109/232 (46%), Gaps = 53/232 (22%)
Query: 51 QITIVIEEFQGLSINEVFDAANVYLGSMATTSSAQR---FQVMKSEKEKRIGTTLNRNEE 107
Q TI I E + ++I ++++ A LG TS +R F ++K++ E T E
Sbjct: 5 QKTISISELESMNIKQLYEIAK-SLGIPRYTSMRKRDLIFAILKAQTE---STGYFFGEG 60
Query: 108 IVDV----FGDLKLKWKFVCKQVQATKNRNLLQQDNNARLR-SEVRHYELSFHRKQKDVV 162
++++ FG L+ +++ NLL +++ + S++R + L+ D++
Sbjct: 61 VLEIHPEGFGFLR--------RIED----NLLPSNDDIYISPSQIRKFNLN----TGDII 104
Query: 163 LNLYLPHVLEKAKAIKEENHMVKLHTVEYGCWDA-NDMVLKHPMNFNTLALDSELKKAIM 221
V+ K K ++ M+K+ + Y +A ND V NF+ L D ++ I+
Sbjct: 105 SG-----VIRKPKEGEKYFAMIKIEAINYRPVEAVNDRV-----NFDNLTPDYPRERFIL 154
Query: 222 EDLDNFMNGKEYYTR-------VGKAWKRGYLLYGPPGTGKSSLIAAMANHL 266
E + K Y TR +GK +RG ++ PP GK++++ +AN +
Sbjct: 155 E-----TDPKIYSTRLIDLFAPIGKG-QRG-MIVAPPKAGKTTILKEIANGI 199
>pdb|3BWH|A Chain A, Atomic Resolution Structure Of Cucurmosin, A Novel Type 1
Rip From The Sarcocarp Of Cucurbita Moschata
Length = 245
Score = 35.8 bits (81), Expect = 0.053, Method: Compositional matrix adjust.
Identities = 20/64 (31%), Positives = 34/64 (53%), Gaps = 4/64 (6%)
Query: 70 AANVYLGSMATTSSAQRFQVMKSEKEKRIGTTLNRNEEIVDVFGDLKLKWKFVCKQVQAT 129
AA+ L + TTS A RF+ ++ + +GT ++ I+ L+ W + KQ+Q
Sbjct: 145 AASALLVLIQTTSEAARFRYIELQIANNVGTKFKPSQTII----SLENNWSALSKQIQIA 200
Query: 130 KNRN 133
KN+N
Sbjct: 201 KNKN 204
>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 = 35.0 bits (79), Expect = 0.094, Method: Compositional matrix adjust.
Identities = 15/28 (53%), Positives = 18/28 (64%)
Query: 239 KAWKRGYLLYGPPGTGKSSLIAAMANHL 266
K R LL GPPGTGK++L A+A L
Sbjct: 74 KXAGRAVLLAGPPGTGKTALALAIAQEL 101
>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 = 34.7 bits (78), Expect = 0.10, Method: Compositional matrix adjust.
Identities = 15/28 (53%), Positives = 18/28 (64%)
Query: 239 KAWKRGYLLYGPPGTGKSSLIAAMANHL 266
K R LL GPPGTGK++L A+A L
Sbjct: 60 KMAGRAVLLAGPPGTGKTALALAIAQEL 87
>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 = 34.3 bits (77), Expect = 0.16, Method: Compositional matrix adjust.
Identities = 15/35 (42%), Positives = 19/35 (54%)
Query: 240 AWKRGYLLYGPPGTGKSSLIAAMANHLKFDIYDLD 274
A KR L GP G GKS++ +A L + YD D
Sbjct: 2 AEKRNIFLVGPMGAGKSTIGRQLAQQLNMEFYDSD 36
>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 = 33.9 bits (76), Expect = 0.20, Method: Compositional matrix adjust.
Identities = 13/21 (61%), Positives = 15/21 (71%)
Query: 246 LLYGPPGTGKSSLIAAMANHL 266
L YGPPGTGK+S I A+ L
Sbjct: 62 LFYGPPGTGKTSTILALTKEL 82
>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 = 0.29, Method: Compositional matrix adjust.
Identities = 15/34 (44%), Positives = 19/34 (55%)
Query: 236 RVGKAWKRGYLLYGPPGTGKSSLIAAMANHLKFD 269
R GK R L+ G PGTGK+++ MA L D
Sbjct: 64 REGKIAGRAVLIAGQPGTGKTAIAMGMAQALGPD 97
>pdb|1NIO|A Chain A, Crystal Structure Of Beta-Luffin, A Ribosome Inactivating
Protein At 2.0a Resolution
Length = 247
Score = 33.1 bits (74), Expect = 0.29, Method: Compositional matrix adjust.
Identities = 24/78 (30%), Positives = 37/78 (47%), Gaps = 11/78 (14%)
Query: 70 AANVYLGSMATTSSAQRFQVMKSEKEKRIGTTLNRNEEIVDVFGDLKLKWKFVCKQVQAT 129
AA +L + TT+ A RF+ ++ + KRI +NE L+ +W + KQ+Q
Sbjct: 147 AAGAFLVIIQTTAEASRFKYIEGQIIKRIP----KNEVPSPAALSLENEWSALSKQIQ-- 200
Query: 130 KNRNLLQQDNNARLRSEV 147
L Q NN R+ V
Sbjct: 201 -----LAQTNNGAFRTPV 213
>pdb|3B9P|A Chain A, Spastin
Length = 297
Score = 33.1 bits (74), Expect = 0.34, Method: Compositional matrix adjust.
Identities = 13/27 (48%), Positives = 18/27 (66%)
Query: 239 KAWKRGYLLYGPPGTGKSSLIAAMANH 265
+A +G LL+GPPG GK+ L A+A
Sbjct: 51 RAPAKGLLLFGPPGNGKTLLARAVATE 77
>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 = 32.3 bits (72), Expect = 0.61, Method: Compositional matrix adjust.
Identities = 16/57 (28%), Positives = 27/57 (47%), Gaps = 15/57 (26%)
Query: 203 HPMNFNTLALDSELKKAIMEDLDNFMNGKEYYTRVGKAWKRGYLLYGPPGTGKSSLI 259
HP+ F LD+ K+A++ L K +++GPPGTGK++ +
Sbjct: 181 HPLTFFNTCLDTSQKEAVLFALSQ---------------KELAIIHGPPGTGKTTTV 222
>pdb|4B3F|X Chain X, Crystal Structure Of 1ghmbp2 Helicase
Length = 646
Score = 32.3 bits (72), Expect = 0.61, Method: Compositional matrix adjust.
Identities = 16/57 (28%), Positives = 27/57 (47%), Gaps = 15/57 (26%)
Query: 203 HPMNFNTLALDSELKKAIMEDLDNFMNGKEYYTRVGKAWKRGYLLYGPPGTGKSSLI 259
HP+ F LD+ K+A++ L K +++GPPGTGK++ +
Sbjct: 181 HPLTFFNTCLDTSQKEAVLFALSQ---------------KELAIIHGPPGTGKTTTV 222
>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 = 0.62, Method: Compositional matrix adjust.
Identities = 19/57 (33%), Positives = 32/57 (56%), Gaps = 9/57 (15%)
Query: 222 EDLDNFMNGKEYYTRVGKAWKR----GYL----LYGPPGTGKSSLIAAMANHLKFDI 270
E+L ++ G+++ GK R G+L L+GPPGTGK++L +A + D+
Sbjct: 23 ENLAQYI-GQQHLLAAGKPLPRAIEAGHLHSMILWGPPGTGKTTLAEVIARYANADV 78
>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 = 32.3 bits (72), Expect = 0.62, Method: Compositional matrix adjust.
Identities = 14/35 (40%), Positives = 22/35 (62%)
Query: 232 EYYTRVGKAWKRGYLLYGPPGTGKSSLIAAMANHL 266
E + RV + L+ GP G+GKS+ +AAM ++L
Sbjct: 113 EVFKRVSDVPRGLVLVTGPTGSGKSTTLAAMLDYL 147
>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 = 32.3 bits (72), Expect = 0.63, Method: Compositional matrix adjust.
Identities = 19/46 (41%), Positives = 25/46 (54%), Gaps = 3/46 (6%)
Query: 221 MEDLDNFMNGKEYYTRVGKAWKRGYLLYGPPGTGKSSLIAAMANHL 266
ME ++ E Y A ++G LYG G GKS L+AAMA+ L
Sbjct: 134 MEAFSAILDFVEQYP---SAEQKGLYLYGDMGIGKSYLLAAMAHEL 176
>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 = 32.0 bits (71), Expect = 0.78, Method: Compositional matrix adjust.
Identities = 16/58 (27%), Positives = 33/58 (56%), Gaps = 3/58 (5%)
Query: 220 IMEDLDNFMNGKEYYTRVGKAWKRGYLLYGPPGTGKSSLI-AAMANHLKFDIYDLDLT 276
++ +D + K +Y + KRG +L GPPG+GK+ ++ A+ N +D+ ++ +
Sbjct: 1028 VIPTIDTIKHEKIFYDLLNS--KRGIILCGPPGSGKTMIMNNALRNSSLYDVVGINFS 1083
>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 = 0.86, Method: Compositional matrix adjust.
Identities = 16/58 (27%), Positives = 33/58 (56%), Gaps = 3/58 (5%)
Query: 220 IMEDLDNFMNGKEYYTRVGKAWKRGYLLYGPPGTGKSSLI-AAMANHLKFDIYDLDLT 276
++ +D + K +Y + KRG +L GPPG+GK+ ++ A+ N +D+ ++ +
Sbjct: 1247 VIPTIDTIKHEKIFYDLLNS--KRGIILCGPPGSGKTMIMNNALRNSSLYDVVGINFS 1302
>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 = 0.91, Method: Compositional matrix adjust.
Identities = 22/50 (44%), Positives = 27/50 (54%), Gaps = 3/50 (6%)
Query: 220 IMEDLDNFMNGKEYYTRVGKA---WKRGYLLYGPPGTGKSSLIAAMANHL 266
+ E L + + G+E+ V K KR LL G PGTGKS L AMA L
Sbjct: 35 VPEKLIDQVIGQEHAVEVIKTAANQKRHVLLIGEPGTGKSMLGQAMAELL 84
>pdb|1UM8|A Chain A, Crystal Structure Of Helicobacter Pylori Clpx
Length = 376
Score = 29.3 bits (64), Expect = 4.9, Method: Compositional matrix adjust.
Identities = 14/37 (37%), Positives = 19/37 (51%)
Query: 242 KRGYLLYGPPGTGKSSLIAAMANHLKFDIYDLDLTDV 278
K LL GP G+GK+ + +A HL I D T +
Sbjct: 72 KSNILLIGPTGSGKTLMAQTLAKHLDIPIAISDATSL 108
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
0.320 0.134 0.394
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 11,752,895
Number of Sequences: 62578
Number of extensions: 452538
Number of successful extensions: 1373
Number of sequences better than 100.0: 55
Number of HSP's better than 100.0 without gapping: 45
Number of HSP's successfully gapped in prelim test: 10
Number of HSP's that attempted gapping in prelim test: 1294
Number of HSP's gapped (non-prelim): 68
length of query: 450
length of database: 14,973,337
effective HSP length: 102
effective length of query: 348
effective length of database: 8,590,381
effective search space: 2989452588
effective search space used: 2989452588
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 53 (25.0 bits)