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= 048683
(398 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 = 61.2 bits (147), Expect = 9e-10, Method: Compositional matrix adjust.
Identities = 58/226 (25%), Positives = 91/226 (40%), Gaps = 61/226 (26%)
Query: 203 QHAMTFKDLALDSELKKMIIKDLDIFRNGKEYYRRVGRVWKRGYLLFGPPGTGKSNLIAS 262
Q TF D+A E K+ + + ++ R + + G++ K G L+ GPPGTGK+ L +
Sbjct: 6 QIKTTFADVAGCDEAKEEVAELVEYLREPSRFQKLGGKIPK-GVLMVGPPGTGKTLLAKA 64
Query: 263 MANHLKFDIYHLDLTDIQFSSDLQFLLLTMPSRV--------TLSGLLNFID-----GSW 309
+A K + + +D ++ + SRV + + FID G
Sbjct: 65 IAGEAKVPFFTISGSDF-----VEMFVGVGASRVRDMFEQAKKAAPCIIFIDEIDAVGRQ 119
Query: 310 SWCG-------------------------EGRIILFWTNHKEKLDPALLRPGRMDQRAFN 344
G EG I++ TN + LDPALLRPGR D++
Sbjct: 120 RGAGLGGGHDEREQTLNQMLVEMDGFEGNEGIIVIAATNRPDVLDPALLRPGRFDRQV-- 177
Query: 345 YLGISHHHLYEQMLIMEM---------------NGTPAEAAGELAN 375
+G+ EQ+L + M GTP + +LAN
Sbjct: 178 VVGLPDVRGREQILKVHMRRVPLAPDIDAAIIARGTPGFSGADLAN 223
>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 = 60.1 bits (144), Expect = 2e-09, Method: Compositional matrix adjust.
Identities = 50/175 (28%), Positives = 74/175 (42%), Gaps = 48/175 (27%)
Query: 208 FKDLALDSELKKMIIKDLDIFRNGKEYYRRVGRVWKRGYLLFGPPGTGKSNLIASMANHL 267
FKD+A + E K+ +++ +D + E Y +G +G LL GPPGTGK+ L ++A
Sbjct: 10 FKDMAGNEEAKEEVVEIVDFLKY-PERYANLGAKIPKGVLLVGPPGTGKTLLAKAVAGE- 67
Query: 268 KFDIYHLDLTDIQFSSDLQFLLLTMPSRV------------------------------- 296
H+ + SS ++ + SRV
Sbjct: 68 ----AHVPFFSMGGSSFIEMFVGLGASRVRDLFETAKKQAPSIIFIDEIDAIGKSRAAGG 123
Query: 297 ----------TLSGLLNFIDGSWSWCGEGRIILFWTNHKEKLDPALLRPGRMDQR 341
TL+ LL +DG S I+L TN E LDPAL+RPGR D++
Sbjct: 124 VVSGNDEREQTLNQLLAEMDGFGSENAP-VIVLAATNRPEILDPALMRPGRFDRQ 177
>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 = 58.2 bits (139), Expect = 8e-09, Method: Compositional matrix adjust.
Identities = 48/176 (27%), Positives = 74/176 (42%), Gaps = 48/176 (27%)
Query: 206 MTFKDLALDSELKKMIIKDLDIFRNGKEYYRRVGRVWKRGYLLFGPPGTGKSNLIASMAN 265
+TFKD+ E + + K++ F + R+G +G LL GPPGTGK+ L ++A
Sbjct: 13 VTFKDVGGAEEAIEEL-KEVVEFLKDPSKFNRIGARMPKGILLVGPPGTGKTLLARAVAG 71
Query: 266 HLKFDIYHLDLTDIQFSSDLQFLLLTMPSRV----------------------------- 296
+H+ +D ++ + +RV
Sbjct: 72 EANVPFFHISGSDF-----VELFVGVGAARVRDLFAQAKAHAPCIVFIDEIDAVGRHRGA 126
Query: 297 -----------TLSGLLNFIDGSWSWCGEGRIILFWTNHKEKLDPALLRPGRMDQR 341
TL+ LL +DG S EG I++ TN + LDPALLRPGR D++
Sbjct: 127 GLGGGHDEREQTLNQLLVEMDGFDSK--EGIIVMAATNRPDILDPALLRPGRFDKK 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 = 56.2 bits (134), Expect = 3e-08, Method: Compositional matrix adjust.
Identities = 47/176 (26%), Positives = 73/176 (41%), Gaps = 48/176 (27%)
Query: 206 MTFKDLALDSELKKMIIKDLDIFRNGKEYYRRVGRVWKRGYLLFGPPGTGKSNLIASMAN 265
+TFKD+ E + + K++ F + R+G +G LL GPPGTG + L ++A
Sbjct: 13 VTFKDVGGAEEAIEEL-KEVVEFLKDPSKFNRIGARMPKGILLVGPPGTGATLLARAVAG 71
Query: 266 HLKFDIYHLDLTDIQFSSDLQFLLLTMPSRV----------------------------- 296
+H+ +D ++ + +RV
Sbjct: 72 EANVPFFHISGSDF-----VELFVGVGAARVRDLFAQAKAHAPCIVFIDEIDAVGRHRGA 126
Query: 297 -----------TLSGLLNFIDGSWSWCGEGRIILFWTNHKEKLDPALLRPGRMDQR 341
TL+ LL +DG S EG I++ TN + LDPALLRPGR D++
Sbjct: 127 GLGGGHDEREQTLNQLLVEMDGFDSK--EGIIVMAATNRPDILDPALLRPGRFDKK 180
>pdb|4B4T|K Chain K, Near-Atomic Resolution Structural Model Of The Yeast 26s
Proteasome
Length = 428
Score = 53.1 bits (126), Expect = 3e-07, Method: Compositional matrix adjust.
Identities = 43/144 (29%), Positives = 66/144 (45%), Gaps = 37/144 (25%)
Query: 233 EYYRRVGRVWKRGYLLFGPPGTGKSNLIASMANHLKF----------------------- 269
+ Y ++G RG LL+GPPGTGK+ L+ ++AN K
Sbjct: 196 DLYEQIGIDPPRGVLLYGPPGTGKTMLVKAVANSTKAAFIRVNGSEFVHKYLGEGPRMVR 255
Query: 270 DIYHL---DLTDIQFSSDL------QFLLLTMPSRVT---LSGLLNFIDGSWSWCGEGRI 317
D++ L + I F ++ +F T R L LL +DG + ++
Sbjct: 256 DVFRLARENAPSIIFIDEVDSIATKRFDAQTGSDREVQRILIELLTQMDG-FDQSTNVKV 314
Query: 318 ILFWTNHKEKLDPALLRPGRMDQR 341
I+ TN + LDPALLRPGR+D++
Sbjct: 315 IM-ATNRADTLDPALLRPGRLDRK 337
>pdb|4B4T|L Chain L, Near-Atomic Resolution Structural Model Of The Yeast 26s
Proteasome
Length = 437
Score = 51.6 bits (122), Expect = 7e-07, Method: Compositional matrix adjust.
Identities = 52/209 (24%), Positives = 90/209 (43%), Gaps = 41/209 (19%)
Query: 172 LKKAKAVKEDCNTVKLHTVLRNCWDA----NNVVLQHAMTFKDLALDSELKKMIIKDLDI 227
LKK V D T+ + +L D Q +TF + +E + + + +++
Sbjct: 140 LKKGVRVTLDITTLTIMRILPRETDPLVYNMTSFEQGEITFDGIGGLTEQIRELREVIEL 199
Query: 228 FRNGKEYYRRVGRVWKRGYLLFGPPGTGKSNLIASMANHLKFDIYHLDLTDI-------- 279
E ++RVG +G LL+GPPGTGK+ L ++A + + + I
Sbjct: 200 PLKNPEIFQRVGIKPPKGVLLYGPPGTGKTLLAKAVAATIGANFIFSPASGIVDKYIGES 259
Query: 280 --------QFSSDLQFLLLTMPS-------------------RVTLSGLLNFIDGSWSWC 312
++ + + ++ M + TL LL +DG +
Sbjct: 260 ARIIREMFAYAKEHEPCIIFMDEVDAIGGRRFSEGTSADREIQRTLMELLTQMDG-FDNL 318
Query: 313 GEGRIILFWTNHKEKLDPALLRPGRMDQR 341
G+ +II+ TN + LDPALLRPGR+D++
Sbjct: 319 GQTKIIM-ATNRPDTLDPALLRPGRLDRK 346
>pdb|4B4T|J Chain J, Near-Atomic Resolution Structural Model Of The Yeast 26s
Proteasome
Length = 405
Score = 50.1 bits (118), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 44/144 (30%), Positives = 64/144 (44%), Gaps = 37/144 (25%)
Query: 233 EYYRRVGRVWKRGYLLFGPPGTGKSNLIASMANHLKFDIYHLDLTD-----IQFSSDLQF 287
E + +G +G +L+GPPGTGK+ L ++A+H + + I S +
Sbjct: 172 ELFESLGIAQPKGVILYGPPGTGKTLLARAVAHHTDCKFIRVSGAELVQKYIGEGSRMVR 231
Query: 288 LLLTM-----PS-------------RVTLSG------------LLNFIDGSWSWCGEGRI 317
L M PS RV SG LLN +DG + +I
Sbjct: 232 ELFVMAREHAPSIIFMDEIDSIGSTRVEGSGGGDSEVQRTMLELLNQLDG-FETSKNIKI 290
Query: 318 ILFWTNHKEKLDPALLRPGRMDQR 341
I+ TN + LDPALLRPGR+D++
Sbjct: 291 IM-ATNRLDILDPALLRPGRIDRK 313
>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 = 48.1 bits (113), Expect = 9e-06, Method: Compositional matrix adjust.
Identities = 46/143 (32%), Positives = 64/143 (44%), Gaps = 37/143 (25%)
Query: 233 EYYRRVGRVWKRGYLLFGPPGTGKSNLIASMANHL--------------KF--------- 269
E + +VG +G LL+GPPGTGK+ L ++A KF
Sbjct: 41 ELFEKVGIEPPKGILLYGPPGTGKTLLAKAVATETNATFIRVVGSELVKKFIGEGASLVK 100
Query: 270 DIYHL---DLTDIQFSSDLQFL------LLTMPSRV---TLSGLLNFIDGSWSWCGEGRI 317
DI+ L I F ++ + LT R TL LL +DG + G+ +I
Sbjct: 101 DIFKLAKEKAPSIIFIDEIDAIAAKRTDALTGGDREVQRTLMQLLAEMDG-FDARGDVKI 159
Query: 318 ILFWTNHKEKLDPALLRPGRMDQ 340
I TN + LDPA+LRPGR D+
Sbjct: 160 I-GATNRPDILDPAILRPGRFDR 181
>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 = 47.4 bits (111), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 48/195 (24%), Positives = 79/195 (40%), Gaps = 38/195 (19%)
Query: 206 MTFKDLALDSELKKMIIKDLDIFRNGKEYYRRVGRVWKRGYLLFGPPGTGKSNLIASMAN 265
+TFKD+A E K+ + + ++ +N ++ R+ K G LL GPPG GK++L ++A
Sbjct: 28 VTFKDVAGAEEAKEELKEIVEFLKNPSRFHEMGARIPK-GVLLVGPPGVGKTHLARAVAG 86
Query: 266 HLKFDIYHLDLTDI------QFSSDLQFLLLTMPSRVTLSGLLNFIDGSWSWCGEGR--- 316
+ +D ++ ++ L T ++ ID G G
Sbjct: 87 EARVPFITASGSDFVEMFVGVGAARVRDLFETAKRHAPCIVFIDEIDAVGRKRGSGVGGG 146
Query: 317 ------------------------IILFWTNHKEKLDPALLRPGRMD-QRAFNYLGISHH 351
+++ TN + LDPALLRPGR D Q A + +
Sbjct: 147 NDEREQTLNQLLVEMDGFEKDTAIVVMAATNRPDILDPALLRPGRFDRQIAIDAPDVKGR 206
Query: 352 HLYEQMLIMEMNGTP 366
EQ+L + G P
Sbjct: 207 ---EQILRIHARGKP 218
>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 = 47.0 bits (110), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 48/195 (24%), Positives = 79/195 (40%), Gaps = 38/195 (19%)
Query: 206 MTFKDLALDSELKKMIIKDLDIFRNGKEYYRRVGRVWKRGYLLFGPPGTGKSNLIASMAN 265
+TFKD+A E K+ + + ++ +N ++ R+ K G LL GPPG GK++L ++A
Sbjct: 37 VTFKDVAGAEEAKEELKEIVEFLKNPSRFHEMGARIPK-GVLLVGPPGVGKTHLARAVAG 95
Query: 266 HLKFDIYHLDLTDI------QFSSDLQFLLLTMPSRVTLSGLLNFIDGSWSWCGEGR--- 316
+ +D ++ ++ L T ++ ID G G
Sbjct: 96 EARVPFITASGSDFVEMFVGVGAARVRDLFETAKRHAPCIVFIDEIDAVGRKRGSGVGGG 155
Query: 317 ------------------------IILFWTNHKEKLDPALLRPGRMD-QRAFNYLGISHH 351
+++ TN + LDPALLRPGR D Q A + +
Sbjct: 156 NDEREQTLNQLLVEMDGFEKDTAIVVMAATNRPDILDPALLRPGRFDRQIAIDAPDVKGR 215
Query: 352 HLYEQMLIMEMNGTP 366
EQ+L + G P
Sbjct: 216 ---EQILRIHARGKP 227
>pdb|1IY2|A Chain A, Crystal Structure Of The Ftsh Atpase Domain From Thermus
Thermophilus
Length = 278
Score = 46.2 bits (108), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 49/195 (25%), Positives = 80/195 (41%), Gaps = 38/195 (19%)
Query: 206 MTFKDLALDSELKKMIIKDLDIFRNGKEYYRRVGRVWKRGYLLFGPPGTGKSNLIASMAN 265
+TFKD+A E K+ + + ++ +N ++ R+ K G LL GPPG GK++L ++A
Sbjct: 37 VTFKDVAGAEEAKEELKEIVEFLKNPSRFHEMGARIPK-GVLLVGPPGVGKTHLARAVAG 95
Query: 266 HLKFDIYHLDLTDI------QFSSDLQFLLLTMPSRVTLSGLLNFIDG----SWSWCGEG 315
+ +D ++ ++ L T ++ ID S G G
Sbjct: 96 EARVPFITASGSDFVEMFVGVGAARVRDLFETAKRHAPCIVFIDEIDAVGRKRGSGVGGG 155
Query: 316 R-----------------------IILFWTNHKEKLDPALLRPGRMD-QRAFNYLGISHH 351
+++ TN + LDPALLRPGR D Q A + +
Sbjct: 156 NDEREQTLNQLLVEMDGFEKDTAIVVMAATNRPDILDPALLRPGRFDRQIAIDAPDVKGR 215
Query: 352 HLYEQMLIMEMNGTP 366
EQ+L + G P
Sbjct: 216 ---EQILRIHARGKP 227
>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 = 49/195 (25%), Positives = 80/195 (41%), Gaps = 38/195 (19%)
Query: 206 MTFKDLALDSELKKMIIKDLDIFRNGKEYYRRVGRVWKRGYLLFGPPGTGKSNLIASMAN 265
+TFKD+A E K+ + + ++ +N ++ R+ K G LL GPPG GK++L ++A
Sbjct: 13 VTFKDVAGAEEAKEELKEIVEFLKNPSRFHEMGARIPK-GVLLVGPPGVGKTHLARAVAG 71
Query: 266 HLKFDIYHLDLTDI------QFSSDLQFLLLTMPSRVTLSGLLNFIDG----SWSWCGEG 315
+ +D ++ ++ L T ++ ID S G G
Sbjct: 72 EARVPFITASGSDFVEMFVGVGAARVRDLFETAKRHAPCIVFIDEIDAVGRKRGSGVGGG 131
Query: 316 R-----------------------IILFWTNHKEKLDPALLRPGRMD-QRAFNYLGISHH 351
+++ TN + LDPALLRPGR D Q A + +
Sbjct: 132 NDEREQTLNQLLVEMDGFEKDTAIVVMAATNRPDILDPALLRPGRFDRQIAIDAPDVKGR 191
Query: 352 HLYEQMLIMEMNGTP 366
EQ+L + G P
Sbjct: 192 ---EQILRIHARGKP 203
>pdb|4B4T|I Chain I, Near-Atomic Resolution Structural Model Of The Yeast 26s
Proteasome
Length = 437
Score = 45.8 bits (107), Expect = 4e-05, Method: Compositional matrix adjust.
Identities = 40/144 (27%), Positives = 65/144 (45%), Gaps = 37/144 (25%)
Query: 233 EYYRRVGRVWKRGYLLFGPPGTGKSNLIASMANHLKFDIYHLDLTDI--QFSSDLQFLLL 290
E Y +G +G +L+G PGTGK+ L ++AN + +++ ++ D L
Sbjct: 206 ELYEEMGIKPPKGVILYGAPGTGKTLLAKAVANQTSATFLRIVGSELIQKYLGDGPRLCR 265
Query: 291 TM--------PSRV-------------------------TLSGLLNFIDGSWSWCGEGRI 317
+ PS V T+ LLN +DG + G+ ++
Sbjct: 266 QIFKVAGENAPSIVFIDEIDAIGTKRYDSNSGGEREIQRTMLELLNQLDG-FDDRGDVKV 324
Query: 318 ILFWTNHKEKLDPALLRPGRMDQR 341
I+ TN E LDPAL+RPGR+D++
Sbjct: 325 IM-ATNKIETLDPALIRPGRIDRK 347
>pdb|2QZ4|A Chain A, Human Paraplegin, Aaa Domain In Complex With Adp
Length = 262
Score = 45.1 bits (105), Expect = 7e-05, Method: Compositional matrix adjust.
Identities = 42/175 (24%), Positives = 75/175 (42%), Gaps = 39/175 (22%)
Query: 205 AMTFKDLALDSELKKMIIKDLDIFRNGKEYYRRVGRVWKRGYLLFGPPGTGKSNLIASMA 264
++FKD+A E K + + +D ++ E + ++G +G LL GPPG GK+ L ++A
Sbjct: 2 GVSFKDVAGMHEAKLEVREFVDYLKS-PERFLQLGAKVPKGALLLGPPGCGKTLLAKAVA 60
Query: 265 NHLKFDIYHLDLTDIQF--------SSDLQFLLLTMPSRV------------------TL 298
+ + L + +F ++ ++ L +R T+
Sbjct: 61 TEAQ--VPFLAMAGAEFVEVIGGLGAARVRSLFKEARARAPCIVYIDEIDAVGKKRSTTM 118
Query: 299 SGLLN----------FIDGSWSWCGEGRIILFWTNHKEKLDPALLRPGRMDQRAF 343
SG N ++ + I+L TN + LD AL+RPGR+D+ F
Sbjct: 119 SGFSNTEEEQTLNQLLVEMDGMGTTDHVIVLASTNRADILDGALMRPGRLDRHVF 173
>pdb|2X8A|A Chain A, Human Nuclear Valosin Containing Protein Like (Nvl), C-
Terminal Aaa-Atpase Domain
Length = 274
Score = 42.7 bits (99), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 42/171 (24%), Positives = 74/171 (43%), Gaps = 36/171 (21%)
Query: 206 MTFKDL-ALDSELKKMIIKDLDIFRNGKEYYRRVGRVWKRGYLLFGPPGTGKSNLIASMA 264
+T+ D+ AL+ +++ + L RN + ++ +G V G LL GPPG GK+ L ++A
Sbjct: 7 VTWADIGALEDIREELTMAILAPVRN-PDQFKALGLVTPAGVLLAGPPGCGKTLLAKAVA 65
Query: 265 NHLKFDIYHLDLTD--------------------------IQFSSDLQFLLLTMPSRVT- 297
N + + + + F ++ L R T
Sbjct: 66 NESGLNFISVKGPELLNMYVGESERAVRQVFQRAKNSAPCVIFFDEVDALCPRRSDRETG 125
Query: 298 -----LSGLLNFIDGSWSWCGEGRIILFWTNHKEKLDPALLRPGRMDQRAF 343
++ LL +DG + + I+ TN + +DPA+LRPGR+D+ F
Sbjct: 126 ASVRVVNQLLTEMDGLEAR--QQVFIMAATNRPDIIDPAILRPGRLDKTLF 174
>pdb|4B4T|H Chain H, Near-Atomic Resolution Structural Model Of The Yeast 26s
Proteasome
Length = 467
Score = 41.6 bits (96), Expect = 8e-04, Method: Compositional matrix adjust.
Identities = 36/142 (25%), Positives = 59/142 (41%), Gaps = 33/142 (23%)
Query: 233 EYYRRVGRVWKRGYLLFGPPGTGKSNLIASMANHLKFDIYHLDLTDI---------QFSS 283
E + +G +G LL+GPPGTGK+ ++AN + +++ +
Sbjct: 233 ERFATLGIDPPKGILLYGPPGTGKTLCARAVANRTDATFIRVIGSELVQKYVGEGARMVR 292
Query: 284 DLQFLLLTMPS------RVTLSGLLNFIDGSWS-----------------WCGEGRI-IL 319
+L + T + + G F DG+ + G I ++
Sbjct: 293 ELFEMARTKKACIIFFDEIDAVGGARFDDGAGGDNEVQRTMLELITQLDGFDPRGNIKVM 352
Query: 320 FWTNHKEKLDPALLRPGRMDQR 341
F TN LDPALLRPGR+D++
Sbjct: 353 FATNRPNTLDPALLRPGRIDRK 374
>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 = 40.8 bits (94), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 32/141 (22%), Positives = 56/141 (39%), Gaps = 37/141 (26%)
Query: 235 YRRVGRVWKRGYLLFGPPGTGKSNLIASMANHLK-------------------------- 268
+ + G +G L +GPPG GK+ L ++AN +
Sbjct: 41 FLKFGMTPSKGVLFYGPPGCGKTLLAKAIANECQANFISIKGPELLTMWFGESEANVREI 100
Query: 269 FD---------IYHLDLTDIQFSSDLQFLLLTMPSRVTLSGLLNFIDGSWSWCGEGRIIL 319
FD ++ +L I + + ++ +L +DG + + I+
Sbjct: 101 FDKARQAAPCVLFFDELDSIAKARGGNIGDGGGAADRVINQILTEMDGMST--KKNVFII 158
Query: 320 FWTNHKEKLDPALLRPGRMDQ 340
TN + +DPA+LRPGR+DQ
Sbjct: 159 GATNRPDIIDPAILRPGRLDQ 179
>pdb|1R7R|A Chain A, The Crystal Structure Of Murine P97VCP AT 3.6A
Length = 816
Score = 40.8 bits (94), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 32/143 (22%), Positives = 57/143 (39%), Gaps = 37/143 (25%)
Query: 233 EYYRRVGRVWKRGYLLFGPPGTGKSNLIASMANHLK------------------------ 268
+ + + G +G L +GPPG GK+ L ++AN +
Sbjct: 501 DKFLKFGMTPSKGVLFYGPPGCGKTLLAKAIANECQANFISIKGPELLTMWFGESEANVR 560
Query: 269 --FD---------IYHLDLTDIQFSSDLQFLLLTMPSRVTLSGLLNFIDGSWSWCGEGRI 317
FD ++ +L I + + ++ +L +DG + +
Sbjct: 561 EIFDKARQAAPCVLFFDELDSIAKARGGNIGDGGGAADRVINQILTEMDGMSTK--KNVF 618
Query: 318 ILFWTNHKEKLDPALLRPGRMDQ 340
I+ TN + +DPA+LRPGR+DQ
Sbjct: 619 IIGATNRPDIIDPAILRPGRLDQ 641
Score = 39.3 bits (90), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 35/138 (25%), Positives = 53/138 (38%), Gaps = 34/138 (24%)
Query: 235 YRRVGRVWKRGYLLFGPPGTGKSNLIASMANHL--------------------------K 268
++ +G RG LL+GPPGTGK+ + ++AN
Sbjct: 230 FKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESESNLRKA 289
Query: 269 FDIYHLDLTDIQFSSDLQFLLLTMP------SRVTLSGLLNFIDGSWSWCGEGRIILFWT 322
F+ + I F +L + R +S LL +DG I++ T
Sbjct: 290 FEEAEKNAPAIIFIDELDAIAPKREKTHGEVERRIVSQLLTLMDGLKQRA--HVIVMAAT 347
Query: 323 NHKEKLDPALLRPGRMDQ 340
N +DPAL R GR D+
Sbjct: 348 NRPNSIDPALRRFGRFDR 365
>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 = 40.8 bits (94), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 32/143 (22%), Positives = 57/143 (39%), Gaps = 37/143 (25%)
Query: 233 EYYRRVGRVWKRGYLLFGPPGTGKSNLIASMANHLK------------------------ 268
+ + + G +G L +GPPG GK+ L ++AN +
Sbjct: 501 DKFLKFGMTPSKGVLFYGPPGCGKTLLAKAIANECQANFISIKGPELLTMWFGESEANVR 560
Query: 269 --FD---------IYHLDLTDIQFSSDLQFLLLTMPSRVTLSGLLNFIDGSWSWCGEGRI 317
FD ++ +L I + + ++ +L +DG + +
Sbjct: 561 EIFDKARQAAPCVLFFDELDSIAKARGGNIGDGGGAADRVINQILTEMDGMSTK--KNVF 618
Query: 318 ILFWTNHKEKLDPALLRPGRMDQ 340
I+ TN + +DPA+LRPGR+DQ
Sbjct: 619 IIGATNRPDIIDPAILRPGRLDQ 641
Score = 38.9 bits (89), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 35/138 (25%), Positives = 53/138 (38%), Gaps = 34/138 (24%)
Query: 235 YRRVGRVWKRGYLLFGPPGTGKSNLIASMANHL--------------------------K 268
++ +G RG LL+GPPGTGK+ + ++AN
Sbjct: 230 FKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESESNLRKA 289
Query: 269 FDIYHLDLTDIQFSSDLQFLLLTMP------SRVTLSGLLNFIDGSWSWCGEGRIILFWT 322
F+ + I F +L + R +S LL +DG I++ T
Sbjct: 290 FEEAEKNAPAIIFIDELDAIAPKREKTHGEVERRIVSQLLTLMDGLKQRA--HVIVMAAT 347
Query: 323 NHKEKLDPALLRPGRMDQ 340
N +DPAL R GR D+
Sbjct: 348 NRPNSIDPALRRFGRFDR 365
>pdb|4B4T|M Chain M, Near-Atomic Resolution Structural Model Of The Yeast 26s
Proteasome
Length = 434
Score = 39.7 bits (91), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 40/145 (27%), Positives = 62/145 (42%), Gaps = 39/145 (26%)
Query: 233 EYYRRVGRVWKRGYLLFGPPGTGKSNLIASMANH-----LKFDIYHLDLTDIQFSSDL-- 285
+ ++ +G +G L++GPPGTGK+ L + A LK L I + L
Sbjct: 205 DKFKDMGIRAPKGALMYGPPGTGKTLLARACAAQTNATFLKLAAPQLVQMYIGEGAKLVR 264
Query: 286 -QFLLLT--MPSRV-------------------------TLSGLLNFIDGSWSWCGEGRI 317
F L P+ + T+ LLN +DG + + R+
Sbjct: 265 DAFALAKEKAPTIIFIDELDAIGTKRFDSEKSGDREVQRTMLELLNQLDG---FSSDDRV 321
Query: 318 -ILFWTNHKEKLDPALLRPGRMDQR 341
+L TN + LDPALLR GR+D++
Sbjct: 322 KVLAATNRVDVLDPALLRSGRLDRK 346
>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 = 39.7 bits (91), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 35/138 (25%), Positives = 53/138 (38%), Gaps = 34/138 (24%)
Query: 235 YRRVGRVWKRGYLLFGPPGTGKSNLIASMANHL--------------------------K 268
++ +G RG LL+GPPGTGK+ + ++AN
Sbjct: 230 FKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESESNLRKA 289
Query: 269 FDIYHLDLTDIQFSSDLQFLLLTMP------SRVTLSGLLNFIDGSWSWCGEGRIILFWT 322
F+ + I F +L + R +S LL +DG I++ T
Sbjct: 290 FEEAEKNAPAIIFIDELDAIAPKREKTHGEVERRIVSQLLTLMDGLKQRA--HVIVMAAT 347
Query: 323 NHKEKLDPALLRPGRMDQ 340
N +DPAL R GR D+
Sbjct: 348 NRPNSIDPALRRFGRFDR 365
>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 = 39.3 bits (90), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 35/138 (25%), Positives = 53/138 (38%), Gaps = 34/138 (24%)
Query: 235 YRRVGRVWKRGYLLFGPPGTGKSNLIASMANHL--------------------------K 268
++ +G RG LL+GPPGTGK+ + ++AN
Sbjct: 230 FKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESESNLRKA 289
Query: 269 FDIYHLDLTDIQFSSDLQFLLLTMP------SRVTLSGLLNFIDGSWSWCGEGRIILFWT 322
F+ + I F +L + R +S LL +DG I++ T
Sbjct: 290 FEEAEKNAPAIIFIDELDAIAPKREKTHGEVERRIVSQLLTLMDGLKQRA--HVIVMAAT 347
Query: 323 NHKEKLDPALLRPGRMDQ 340
N +DPAL R GR D+
Sbjct: 348 NRPNSIDPALRRFGRFDR 365
>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 = 39.3 bits (90), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 35/138 (25%), Positives = 53/138 (38%), Gaps = 34/138 (24%)
Query: 235 YRRVGRVWKRGYLLFGPPGTGKSNLIASMANHL--------------------------K 268
++ +G RG LL+GPPGTGK+ + ++AN
Sbjct: 230 FKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESESNLRKA 289
Query: 269 FDIYHLDLTDIQFSSDLQFLLLTMP------SRVTLSGLLNFIDGSWSWCGEGRIILFWT 322
F+ + I F +L + R +S LL +DG I++ T
Sbjct: 290 FEEAEKNAPAIIFIDELDAIAPKREKTHGEVERRIVSQLLTLMDGLKQRA--HVIVMAAT 347
Query: 323 NHKEKLDPALLRPGRMDQ 340
N +DPAL R GR D+
Sbjct: 348 NRPNSIDPALRRFGRFDR 365
>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 = 39.3 bits (90), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 35/138 (25%), Positives = 53/138 (38%), Gaps = 34/138 (24%)
Query: 235 YRRVGRVWKRGYLLFGPPGTGKSNLIASMANHL--------------------------K 268
++ +G RG LL+GPPGTGK+ + ++AN
Sbjct: 230 FKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESESNLRKA 289
Query: 269 FDIYHLDLTDIQFSSDLQFLLLTMP------SRVTLSGLLNFIDGSWSWCGEGRIILFWT 322
F+ + I F +L + R +S LL +DG I++ T
Sbjct: 290 FEEAEKNAPAIIFIDELDAIAPKREKTHGEVERRIVSQLLTLMDGLKQRA--HVIVMAAT 347
Query: 323 NHKEKLDPALLRPGRMDQ 340
N +DPAL R GR D+
Sbjct: 348 NRPNSIDPALRRFGRFDR 365
>pdb|3VFD|A Chain A, Human Spastin Aaa Domain
Length = 389
Score = 38.5 bits (88), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 26/76 (34%), Positives = 40/76 (52%), Gaps = 4/76 (5%)
Query: 205 AMTFKDLALDSELKKMIIKDLDIFRNGKEYYRRVGRVWKRGYLLFGPPGTGKSNL---IA 261
A+ F D+A +L K ++++ I + + R RG LLFGPPG GK+ L +A
Sbjct: 111 AVKFDDIA-GQDLAKQALQEIVILPSLRPELFTGLRAPARGLLLFGPPGNGKTMLAKAVA 169
Query: 262 SMANHLKFDIYHLDLT 277
+ +N F+I LT
Sbjct: 170 AESNATFFNISAASLT 185
>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 = 37.0 bits (84), Expect = 0.019, Method: Compositional matrix adjust.
Identities = 18/29 (62%), Positives = 21/29 (72%), Gaps = 3/29 (10%)
Query: 244 RGYLLFGPPGTGKSNL---IASMANHLKF 269
RG LLFGPPGTGKS L +A+ AN+ F
Sbjct: 168 RGILLFGPPGTGKSYLAKAVATEANNSTF 196
>pdb|1XWI|A Chain A, Crystal Structure Of Vps4b
Length = 322
Score = 36.6 bits (83), Expect = 0.029, Method: Compositional matrix adjust.
Identities = 20/37 (54%), Positives = 22/37 (59%), Gaps = 4/37 (10%)
Query: 244 RGYLLFGPPGTGKSNLIASMA----NHLKFDIYHLDL 276
RG LLFGPPGTGKS L ++A N F I DL
Sbjct: 46 RGILLFGPPGTGKSYLAKAVATEANNSTFFSISSSDL 82
>pdb|3EIE|A Chain A, Crystal Structure Of S.Cerevisiae Vps4 In The So4-Bound
State
Length = 322
Score = 35.8 bits (81), Expect = 0.044, Method: Compositional matrix adjust.
Identities = 18/35 (51%), Positives = 22/35 (62%), Gaps = 3/35 (8%)
Query: 245 GYLLFGPPGTGKSNL---IASMANHLKFDIYHLDL 276
G LL+GPPGTGKS L +A+ AN F + DL
Sbjct: 53 GILLYGPPGTGKSYLAKAVATEANSTFFSVSSSDL 87
>pdb|2RKO|A Chain A, Crystal Structure Of The Vps4p-Dimer
Length = 331
Score = 35.8 bits (81), Expect = 0.044, Method: Compositional matrix adjust.
Identities = 18/35 (51%), Positives = 22/35 (62%), Gaps = 3/35 (8%)
Query: 245 GYLLFGPPGTGKSNL---IASMANHLKFDIYHLDL 276
G LL+GPPGTGKS L +A+ AN F + DL
Sbjct: 62 GILLYGPPGTGKSYLAKAVATEANSTFFSVSSSDL 96
>pdb|2QP9|X Chain X, Crystal Structure Of S.Cerevisiae Vps4
pdb|2QPA|A Chain A, Crystal Structure Of S.Cerevisiae Vps4 In The Presence Of
Adp
pdb|2QPA|B Chain B, Crystal Structure Of S.Cerevisiae Vps4 In The Presence Of
Adp
pdb|2QPA|C Chain C, Crystal Structure Of S.Cerevisiae Vps4 In The Presence Of
Adp
Length = 355
Score = 35.8 bits (81), Expect = 0.044, Method: Compositional matrix adjust.
Identities = 18/35 (51%), Positives = 22/35 (62%), Gaps = 3/35 (8%)
Query: 245 GYLLFGPPGTGKSNL---IASMANHLKFDIYHLDL 276
G LL+GPPGTGKS L +A+ AN F + DL
Sbjct: 86 GILLYGPPGTGKSYLAKAVATEANSTFFSVSSSDL 120
>pdb|3EIH|A Chain A, Crystal Structure Of S.Cerevisiae Vps4 In The Presence Of
Atpgammas
pdb|3EIH|B Chain B, Crystal Structure Of S.Cerevisiae Vps4 In The Presence Of
Atpgammas
pdb|3EIH|C Chain C, Crystal Structure Of S.Cerevisiae Vps4 In The Presence Of
Atpgammas
Length = 340
Score = 35.8 bits (81), Expect = 0.046, Method: Compositional matrix adjust.
Identities = 18/35 (51%), Positives = 22/35 (62%), Gaps = 3/35 (8%)
Query: 245 GYLLFGPPGTGKSNL---IASMANHLKFDIYHLDL 276
G LL+GPPGTGKS L +A+ AN F + DL
Sbjct: 71 GILLYGPPGTGKSYLAKAVATEANSTFFSVSSSDL 105
>pdb|3QMZ|A Chain A, Crystal Structure Of The Cytoplasmic Dynein Heavy Chain
Motor Domain
pdb|3QMZ|B Chain B, Crystal Structure Of The Cytoplasmic Dynein Heavy Chain
Motor Domain
Length = 2486
Score = 35.8 bits (81), Expect = 0.048, Method: Compositional matrix adjust.
Identities = 22/65 (33%), Positives = 36/65 (55%), Gaps = 6/65 (9%)
Query: 220 MIIKDLDIFRNGKEYYRRVGRVWKRGYLLFGPPGTGKSNLIASMANHLKFDIYHLDLTDI 279
++I +D ++ K +Y + KRG +L GPPG+GK+ + M N L+ + D+ I
Sbjct: 1027 IVIPTIDTIKHEKIFYDLLNS--KRGIILCGPPGSGKTMI---MNNALRNSSLY-DVVGI 1080
Query: 280 QFSSD 284
FS D
Sbjct: 1081 NFSKD 1085
>pdb|4AI6|A Chain A, Dynein Motor Domain - Adp Complex
pdb|4AI6|B Chain B, Dynein Motor Domain - Adp Complex
pdb|4AKG|A Chain A, Dynein Motor Domain - Atp Complex
pdb|4AKG|B Chain B, Dynein Motor Domain - Atp Complex
pdb|4AKH|A Chain A, Dynein Motor Domain - Amppnp Complex
pdb|4AKH|B Chain B, Dynein Motor Domain - Amppnp Complex
pdb|4AKI|A Chain A, Dynein Motor Domain - Luac Derivative
pdb|4AKI|B Chain B, Dynein Motor Domain - Luac Derivative
Length = 2695
Score = 35.4 bits (80), Expect = 0.056, Method: Compositional matrix adjust.
Identities = 22/65 (33%), Positives = 36/65 (55%), Gaps = 6/65 (9%)
Query: 220 MIIKDLDIFRNGKEYYRRVGRVWKRGYLLFGPPGTGKSNLIASMANHLKFDIYHLDLTDI 279
++I +D ++ K +Y + KRG +L GPPG+GK+ + M N L+ + D+ I
Sbjct: 1246 IVIPTIDTIKHEKIFYDLLNS--KRGIILCGPPGSGKTMI---MNNALRNSSLY-DVVGI 1299
Query: 280 QFSSD 284
FS D
Sbjct: 1300 NFSKD 1304
>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 = 0.058, Method: Compositional matrix adjust.
Identities = 18/45 (40%), Positives = 27/45 (60%)
Query: 233 EYYRRVGRVWKRGYLLFGPPGTGKSNLIASMANHLKFDIYHLDLT 277
E ++RV V + L+ GP G+GKS +A+M ++L YH LT
Sbjct: 113 EVFKRVSDVPRGLVLVTGPTGSGKSTTLAAMLDYLNNTKYHHILT 157
>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 = 35.0 bits (79), Expect = 0.075, Method: Compositional matrix adjust.
Identities = 27/84 (32%), Positives = 41/84 (48%), Gaps = 6/84 (7%)
Query: 199 NVVLQHA--MTFKDLALDSELKKMIIKDLDIFRNGKEYYRRVGRVWKRGYLLFGPPGTGK 256
N ++ H + ++D+A E K IK++ ++ + R +G LLFGPPGTGK
Sbjct: 72 NEIMDHGPPVNWEDIA-GVEFAKATIKEIVVWPMLRPDIFTGLRGPPKGILLFGPPGTGK 130
Query: 257 S---NLIASMANHLKFDIYHLDLT 277
+ IAS + F I LT
Sbjct: 131 TLIGKCIASQSGATFFSISASSLT 154
>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 = 0.17, Method: Compositional matrix adjust.
Identities = 13/37 (35%), Positives = 22/37 (59%)
Query: 244 RGYLLFGPPGTGKSNLIASMANHLKFDIYHLDLTDIQ 280
R +L+GPPG GK+ +A L +DI + +D++
Sbjct: 78 RAAMLYGPPGIGKTTAAHLVAQELGYDILEQNASDVR 114
>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 = 0.25, Method: Compositional matrix adjust.
Identities = 14/34 (41%), Positives = 19/34 (55%)
Query: 237 RVGRVWKRGYLLFGPPGTGKSNLIASMANHLKFD 270
R G++ R L+ G PGTGK+ + MA L D
Sbjct: 64 REGKIAGRAVLIAGQPGTGKTAIAMGMAQALGPD 97
>pdb|3B9P|A Chain A, Spastin
Length = 297
Score = 32.7 bits (73), Expect = 0.41, Method: Compositional matrix adjust.
Identities = 13/27 (48%), Positives = 17/27 (62%)
Query: 240 RVWKRGYLLFGPPGTGKSNLIASMANH 266
R +G LLFGPPG GK+ L ++A
Sbjct: 51 RAPAKGLLLFGPPGNGKTLLARAVATE 77
>pdb|4HSE|A Chain A, Crystal Structure Of Clpb Nbd1 In Complex With Guanidinium
Chloride And Adp
Length = 397
Score = 32.3 bits (72), Expect = 0.45, Method: Compositional matrix adjust.
Identities = 21/74 (28%), Positives = 37/74 (50%), Gaps = 5/74 (6%)
Query: 199 NVVLQHAMTFKDLALDSELKKMIIKDLDIFRNGKEYYRRVGRVWKRGYLLFGPPGTGKSN 258
N + Q+ + LA + +L +I +D +I R + RR K +L G PG GK+
Sbjct: 14 NALEQYGIDLTRLAAEGKLDPVIGRDEEIRRVIQILLRRT----KNNPVLIGEPGVGKTA 69
Query: 259 LIASMANHL-KFDI 271
++ +A + K D+
Sbjct: 70 IVEGLAQRIVKGDV 83
>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 = 32.3 bits (72), Expect = 0.49, Method: Compositional matrix adjust.
Identities = 13/28 (46%), Positives = 18/28 (64%)
Query: 240 RVWKRGYLLFGPPGTGKSNLIASMANHL 267
++ R LL GPPGTGK+ L ++A L
Sbjct: 60 KMAGRAVLLAGPPGTGKTALALAIAQEL 87
>pdb|1QVR|A Chain A, Crystal Structure Analysis Of Clpb
pdb|1QVR|B Chain B, Crystal Structure Analysis Of Clpb
pdb|1QVR|C Chain C, Crystal Structure Analysis Of Clpb
Length = 854
Score = 32.3 bits (72), Expect = 0.50, Method: Compositional matrix adjust.
Identities = 21/74 (28%), Positives = 37/74 (50%), Gaps = 5/74 (6%)
Query: 199 NVVLQHAMTFKDLALDSELKKMIIKDLDIFRNGKEYYRRVGRVWKRGYLLFGPPGTGKSN 258
N + Q+ + LA + +L +I +D +I R + RR K +L G PG GK+
Sbjct: 151 NALEQYGIDLTRLAAEGKLDPVIGRDEEIRRVIQILLRRT----KNNPVLIGEPGVGKTA 206
Query: 259 LIASMANHL-KFDI 271
++ +A + K D+
Sbjct: 207 IVEGLAQRIVKGDV 220
>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 = 32.0 bits (71), Expect = 0.61, Method: Compositional matrix adjust.
Identities = 16/53 (30%), Positives = 27/53 (50%), Gaps = 4/53 (7%)
Query: 248 LFGPPGTGKSNLIASMANHLKFDIYHLDLTDIQFSSDL----QFLLLTMPSRV 296
L GPPG GK++L S+A L + L ++ S++ + + MP R+
Sbjct: 113 LAGPPGVGKTSLAKSIAKSLGRKFVRISLGGVRDESEIRGHRRTYVGAMPGRI 165
>pdb|1IXR|C Chain C, Ruva-Ruvb Complex
Length = 312
Score = 32.0 bits (71), Expect = 0.69, Method: Compositional matrix adjust.
Identities = 16/43 (37%), Positives = 23/43 (53%)
Query: 247 LLFGPPGTGKSNLIASMANHLKFDIYHLDLTDIQFSSDLQFLL 289
LLFGPPG GK+ L +A+ L ++ I+ DL +L
Sbjct: 42 LLFGPPGLGKTTLAHVIAHELGVNLRVTSGPAIEKPGDLAAIL 84
>pdb|1IXS|B Chain B, Structure Of Ruvb Complexed With Ruva Domain Iii
Length = 318
Score = 32.0 bits (71), Expect = 0.69, Method: Compositional matrix adjust.
Identities = 16/43 (37%), Positives = 23/43 (53%)
Query: 247 LLFGPPGTGKSNLIASMANHLKFDIYHLDLTDIQFSSDLQFLL 289
LLFGPPG GK+ L +A+ L ++ I+ DL +L
Sbjct: 42 LLFGPPGLGKTTLAHVIAHELGVNLRVTSGPAIEKPGDLAAIL 84
>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 = 31.6 bits (70), Expect = 0.75, Method: Compositional matrix adjust.
Identities = 16/43 (37%), Positives = 23/43 (53%)
Query: 247 LLFGPPGTGKSNLIASMANHLKFDIYHLDLTDIQFSSDLQFLL 289
LLFGPPG GK+ L +A+ L ++ I+ DL +L
Sbjct: 42 LLFGPPGLGKTTLAHVIAHELGVNLRVTSGPAIEKPGDLAAIL 84
>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 = 31.6 bits (70), Expect = 0.85, Method: Compositional matrix adjust.
Identities = 13/24 (54%), Positives = 16/24 (66%)
Query: 244 RGYLLFGPPGTGKSNLIASMANHL 267
R LL GPPGTGK+ L ++A L
Sbjct: 78 RAVLLAGPPGTGKTALALAIAQEL 101
>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 = 30.8 bits (68), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 10/21 (47%), Positives = 16/21 (76%)
Query: 247 LLFGPPGTGKSNLIASMANHL 267
L +GPPGTGK++ I ++A +
Sbjct: 50 LFYGPPGTGKTSTIVALAREI 70
>pdb|2OXQ|A Chain A, Structure Of The Ubch5 :chip U-Box Complex
pdb|2OXQ|B Chain B, Structure Of The Ubch5 :chip U-Box Complex
Length = 152
Score = 30.4 bits (67), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 15/60 (25%), Positives = 29/60 (48%), Gaps = 1/60 (1%)
Query: 190 VLRNCWDANNVVLQHAMTFKDLALDSELKKMIIKDLD-IFRNGKEYYRRVGRVWKRGYLL 248
+LR+ W V + ++ L D ++ D+ I+++ KE Y R+ R W + Y +
Sbjct: 93 ILRSQWSPALTVSKVLLSICSLLCDPNPDDPLVPDIAHIYKSDKEKYNRLAREWTQKYAM 152
>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 = 30.4 bits (67), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 13/33 (39%), Positives = 16/33 (48%)
Query: 243 KRGYLLFGPPGTGKSNLIASMANHLKFDIYHLD 275
KR L GP G GKS + +A L + Y D
Sbjct: 4 KRNIFLVGPMGAGKSTIGRQLAQQLNMEFYDSD 36
>pdb|1UM8|A Chain A, Crystal Structure Of Helicobacter Pylori Clpx
Length = 376
Score = 30.4 bits (67), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 14/37 (37%), Positives = 20/37 (54%)
Query: 243 KRGYLLFGPPGTGKSNLIASMANHLKFDIYHLDLTDI 279
K LL GP G+GK+ + ++A HL I D T +
Sbjct: 72 KSNILLIGPTGSGKTLMAQTLAKHLDIPIAISDATSL 108
>pdb|3PVS|A Chain A, Structure And Biochemical Activities Of Escherichia Coli
Mgsa
pdb|3PVS|B Chain B, Structure And Biochemical Activities Of Escherichia Coli
Mgsa
pdb|3PVS|C Chain C, Structure And Biochemical Activities Of Escherichia Coli
Mgsa
pdb|3PVS|D Chain D, Structure And Biochemical Activities Of Escherichia Coli
Mgsa
Length = 447
Score = 30.0 bits (66), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 11/28 (39%), Positives = 18/28 (64%)
Query: 247 LLFGPPGTGKSNLIASMANHLKFDIYHL 274
+L+GPPGTGK+ L +A + D+ +
Sbjct: 54 ILWGPPGTGKTTLAEVIARYANADVERI 81
>pdb|1COJ|A Chain A, Fe-Sod From Aquifex Pyrophilus, A Hyperthermophilic
Bacterium
Length = 212
Score = 30.0 bits (66), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 13/30 (43%), Positives = 17/30 (56%)
Query: 340 QRAFNYLGISHHHLYEQMLIMEMNGTPAEA 369
+ FNY+G+ H LY ML G P+EA
Sbjct: 70 EETFNYMGVVLHELYFGMLTPGGKGEPSEA 99
>pdb|3K1J|A Chain A, Crystal Structure Of Lon Protease From Thermococcus
Onnurineus Na1
pdb|3K1J|B Chain B, Crystal Structure Of Lon Protease From Thermococcus
Onnurineus Na1
Length = 604
Score = 29.6 bits (65), Expect = 3.4, Method: Compositional matrix adjust.
Identities = 15/26 (57%), Positives = 16/26 (61%)
Query: 242 WKRGYLLFGPPGTGKSNLIASMANHL 267
KR LL G PGTGKS L +MA L
Sbjct: 59 QKRHVLLIGEPGTGKSMLGQAMAELL 84
>pdb|3LSQ|A Chain A, Trypanosoma Brucei Seryl-Trna Synthetase
pdb|3LSQ|B Chain B, Trypanosoma Brucei Seryl-Trna Synthetase
pdb|3LSS|A Chain A, Trypanosoma Brucei Seryl-Trna Synthetase In Complex With
Atp
pdb|3LSS|B Chain B, Trypanosoma Brucei Seryl-Trna Synthetase In Complex With
Atp
Length = 484
Score = 29.6 bits (65), Expect = 3.4, Method: Compositional matrix adjust.
Identities = 46/205 (22%), Positives = 84/205 (40%), Gaps = 35/205 (17%)
Query: 107 EMVDVFEDVTLKWKLICTQVPLSVEYINPDLEDHNASLRSEVRHYELSFHKKHTDTVLNL 166
++ + +E+ TLK + + L ++ ++ DL D A L E + E K L L
Sbjct: 86 QVKEAYENGTLKGEQVEQLCVLQLKQLSKDLSDQVAGLAKEAQQLEEERDK------LML 139
Query: 167 YLPHVLKKAKAVKEDCNTVKLHTVLRNCWDANN-VVLQHAMTFKDLAL-DSELKKMIIKD 224
+ ++L ++ + +D T +TV+R + L H + L + D+ K
Sbjct: 140 NVGNILHESVPIAQDEETG--NTVVRTFGNTTKRAKLNHVSIMERLGMMDTS------KA 191
Query: 225 LDIFRNGKEYYRRVGRVW--------------KRGYLLFGPPGTGKSNLIASMANHLKFD 270
+ G+ Y + G V KRGY F PP +++ +A +FD
Sbjct: 192 VTSMAGGRSYVLKGGLVQLQVALVSYSLDFLVKRGYTPFYPPFFLNRDVMGEVAQLSQFD 251
Query: 271 IYHLDLTDIQFSSDLQFLLLT--MP 293
+L + D ++L+ T MP
Sbjct: 252 ---EELYQVSGDGDKKYLIATSEMP 273
>pdb|2J28|T Chain T, Model Of E. Coli Srp Bound To 70s Rncs
pdb|3IY9|T Chain T, Leishmania Tarentolae Mitochondrial Large Ribosomal
Subunit Model
pdb|3E1B|M Chain M, Structure Of The 50s Subunit Of E. Coli Ribosome In
Pre-Accommodation State
pdb|3E1D|M Chain M, Structure Of The 50s Subunit Of E. Coli Ribosome In
Post-Accommodation State
Length = 99
Score = 29.3 bits (64), Expect = 4.3, Method: Composition-based stats.
Identities = 23/82 (28%), Positives = 39/82 (47%), Gaps = 7/82 (8%)
Query: 166 LYLPHVLKKAKAVKEDCNTVKLHTVLRNCWDANNVVLQHAMTFKDLALDSELKKMIIKDL 225
L PHV +KA E NT+ VL+ DA ++ A+ K ++ E+ ++
Sbjct: 11 LRAPHVSEKASTAMEKSNTI----VLKVAKDATKAEIKAAVQ-KLFEVEVEVVNTLVVKG 65
Query: 226 DIFRNGKEYYRRVGRVWKRGYL 247
+ R+G+ RR WK+ Y+
Sbjct: 66 KVKRHGQRIGRRSD--WKKAYV 85
>pdb|2GYA|R Chain R, Structure Of The 50s Subunit Of A Pre-Translocational E.
Coli Ribosome Obtained By Fitting Atomic Models For Rna
And Protein Components Into Cryo-Em Map Emd-1056
pdb|2GYC|R Chain R, Structure Of The 50s Subunit Of A Secm-Stalled E. Coli
Ribosome Complex Obtained By Fitting Atomic Models For
Rna And Protein Components Into Cryo-Em Map Emd-1143
Length = 92
Score = 29.3 bits (64), Expect = 4.4, Method: Composition-based stats.
Identities = 23/82 (28%), Positives = 39/82 (47%), Gaps = 7/82 (8%)
Query: 166 LYLPHVLKKAKAVKEDCNTVKLHTVLRNCWDANNVVLQHAMTFKDLALDSELKKMIIKDL 225
L PHV +KA E NT+ VL+ DA ++ A+ K ++ E+ ++
Sbjct: 5 LRAPHVSEKASTAMEKSNTI----VLKVAKDATKAEIKAAVQ-KLFEVEVEVVNTLVVKG 59
Query: 226 DIFRNGKEYYRRVGRVWKRGYL 247
+ R+G+ RR WK+ Y+
Sbjct: 60 KVKRHGQRIGRRSD--WKKAYV 79
>pdb|1P85|R Chain R, Real Space Refined Coordinates Of The 50s Subunit Fitted
Into The Low Resolution Cryo-Em Map Of The Ef-G.Gtp
State Of E. Coli 70s Ribosome
pdb|1P86|R Chain R, Real Space Refined Coordinates Of The 50s Subunit Fitted
Into The Low Resolution Cryo-Em Map Of The
Initiation-Like State Of E. Coli 70s Ribosome
pdb|2AW4|T Chain T, Crystal Structure Of The Bacterial Ribosome From
Escherichia Coli At 3.5 A Resolution. This File Contains
The 50s Subunit Of One 70s Ribosome. The Entire Crystal
Structure Contains Two 70s Ribosomes And Is Described In
Remark 400.
pdb|2AWB|T Chain T, Crystal Structure Of The Bacterial Ribosome From
Escherichia Coli At 3.5 A Resolution. This File Contains
The 50s Subunit Of The Second 70s Ribosome. The Entire
Crystal Structure Contains Two 70s Ribosomes And Is
Described In Remark 400.
pdb|1VS6|T Chain T, Crystal Structure Of The Bacterial Ribosome From
Escherichia Coli In Complex With The Antibiotic
Kasugamyin At 3.5a Resolution. This File Contains The
50s Subunit Of One 70s Ribosome. The Entire Crystal
Structure Contains Two 70s Ribosomes And Is Described In
Remark 400.
pdb|1VS8|T Chain T, Crystal Structure Of The Bacterial Ribosome From
Escherichia Coli In Complex With The Antibiotic
Kasugamyin At 3.5a Resolution. This File Contains The
50s Subunit Of One 70s Ribosome. The Entire Crystal
Structure Contains Two 70s Ribosomes And Is Described In
Remark 400.
pdb|2I2T|T Chain T, Crystal Structure Of Ribosome With Messenger Rna And The
Anticodon Stem-Loop Of P-Site Trna. This File Contains
The 50s Subunit Of One 70s Ribosome. The Entire Crystal
Structure Contains Two 70s Ribosomes And Is Described In
Remark 400.
pdb|2I2V|T Chain T, Crystal Structure Of Ribosome With Messenger Rna And The
Anticodon Stem-Loop Of P-Site Trna. This File Contains
The 50s Subunit Of One 70s Ribosome. The Entire Crystal
Structure Contains Two 70s Ribosomes And Is Described In
Remark 400.
pdb|2QOV|T Chain T, Crystal Structure Of The Bacterial Ribosome From
Escherichia Coli In Complex With Spectinomycin. This
File Contains The 50s Subunit Of The First 70s Ribosome.
The Entire Crystal Structure Contains Two 70s Ribosomes.
pdb|2QOX|T Chain T, Crystal Structure Of The Bacterial Ribosome From
Escherichia Coli In Complex With Spectinomycin. This
File Contains The 50s Subunit Of The Second 70s
Ribosome. The Entire Crystal Structure Contains Two 70s
Ribosomes.
pdb|2QOZ|T Chain T, Crystal Structure Of The Bacterial Ribosome From
Escherichia Coli In Complex With Spectinomycin And
Neomycin. This File Contains The 50s Subunit Of The
First 70s Ribosome, With Neomycin Bound. The Entire
Crystal Structure Contains Two 70s Ribosomes.
pdb|2QP1|T Chain T, Crystal Structure Of The Bacterial Ribosome From
Escherichia Coli In Complex With Spectinomycin And
Neomycin. This File Contains The 50s Subunit Of The
Second 70s Ribosome, With Neomycin Bound. The Entire
Crystal Structure Contains Two 70s Ribosomes.
pdb|2QAM|T Chain T, Crystal Structure Of The Bacterial Ribosome From
Escherichia Coli In Complex With Neomycin. This File
Contains The 50s Subunit Of The First 70s Ribosome, With
Neomycin Bound. The Entire Crystal Structure Contains
Two 70s Ribosomes And Is Described In Remark 400.
pdb|2QAO|T Chain T, Crystal Structure Of The Bacterial Ribosome From
Escherichia Coli In Complex With Neomycin. This File
Contains The 50s Subunit Of The Second 70s Ribosome,
With Neomycin Bound. The Entire Crystal Structure
Contains Two 70s Ribosomes And Is Described In Remark
400.
pdb|2QBA|T Chain T, Crystal Structure Of The Bacterial Ribosome From
Escherichia Coli In Complex With Gentamicin. This File
Contains The 50s Subunit Of The First 70s Ribosome, With
Gentamicin Bound. The Entire Crystal Structure Contains
Two 70s Ribosomes And Is Described In Remark 400.
pdb|2QBC|T Chain T, Crystal Structure Of The Bacterial Ribosome From
Escherichia Coli In Complex With Gentamicin. This File
Contains The 50s Subunit Of The Second 70s Ribosome,
With Gentamicin Bound. The Entire Crystal Structure
Contains Two 70s Ribosomes And Is Described In Remark
400.
pdb|2QBE|T Chain T, Crystal Structure Of The Bacterial Ribosome From
Escherichia Coli In Complex With Ribosome Recycling
Factor (Rrf). This File Contains The 50s Subunit Of The
First 70s Ribosome, With Rrf Bound. The Entire Crystal
Structure Contains Two 70s Ribosomes And Is Described In
Remark 400.
pdb|2QBG|T Chain T, Crystal Structure Of The Bacterial Ribosome From
Escherichia Coli In Complex With Ribosome Recycling
Factor (Rrf). This File Contains The 50s Subunit Of The
Second 70s Ribosome, With Rrf Bound. The Entire Crystal
Structure Contains Two 70s Ribosomes And Is Described In
Remark 400.
pdb|2QBI|T Chain T, Crystal Structure Of The Bacterial Ribosome From
Escherichia Coli In Complex With Gentamicin And Ribosome
Recycling Factor (Rrf). This File Contains The 50s
Subunit Of The First 70s Ribosome, With Gentamicin And
Rrf Bound. The Entire Crystal Structure Contains Two 70s
Ribosomes And Is Described In Remark 400.
pdb|2QBK|T Chain T, Crystal Structure Of The Bacterial Ribosome From
Escherichia Coli In Complex With Gentamicin And Ribosome
Recycling Factor (Rrf). This File Contains The 50s
Subunit Of The Second 70s Ribosome, With Gentamicin And
Rrf Bound. The Entire Crystal Structure Contains Two 70s
Ribosomes And Is Described In Remark 400.
pdb|2Z4L|T Chain T, Crystal Structure Of The Bacterial Ribosome From
Escherichia Coli In Complex With Paromomycin And
Ribosome Recycling Factor (Rrf). This File Contains The
50s Subunit Of The First 70s Ribosome, With Paromomycin
And Rrf Bound. The Entire Crystal Structure Contains Two
70s Ribosomes And Is Described In Remark 400.
pdb|2Z4N|T Chain T, Crystal Structure Of The Bacterial Ribosome From
Escherichia Coli In Complex With Paromomycin And
Ribosome Recycling Factor (Rrf). This File Contains The
50s Subunit Of The Second 70s Ribosome, With Paromomycin
And Rrf Bound. The Entire Crystal Structure Contains Two
70s Ribosomes And Is Described In Remark 400.
pdb|2VHM|T Chain T, Structure Of Pdf Binding Helix In Complex With The
Ribosome (Part 1 Of 4)
pdb|2VHN|T Chain T, Structure Of Pdf Binding Helix In Complex With The
Ribosome. (Part 2 Of 4)
pdb|2RDO|T Chain T, 50s Subunit With Ef-G(Gdpnp) And Rrf Bound
pdb|2VRH|B Chain B, Structure Of The E. Coli Trigger Factor Bound To A
Translating Ribosome
pdb|3DF2|T Chain T, Crystal Structure Of The Bacterial Ribosome From
Escherichia Coli In Complex With Hygromycin B. This File
Contains The 50s Subunit Of The First 70s Ribosome. The
Entire Crystal Structure Contains Two 70s Ribosomes.
pdb|3DF4|T Chain T, Crystal Structure Of The Bacterial Ribosome From
Escherichia Coli In Complex With Hygromycin B. This File
Contains The 50s Subunit Of The Second 70s Ribosome. The
Entire Crystal Structure Contains Two 70s Ribosomes.
pdb|3BBX|T Chain T, The Hsp15 Protein Fitted Into The Low Resolution Cryo-Em
Map 50s.Nc-Trna.Hsp15 Complex
pdb|3I1N|T Chain T, Crystal Structure Of The E. Coli 70s Ribosome In An
Intermediate State Of Ratcheting
pdb|3I1P|T Chain T, Crystal Structure Of The E. Coli 70s Ribosome In An
Intermediate State Of Ratcheting
pdb|3I1R|T Chain T, Crystal Structure Of The E. Coli 70s Ribosome In An
Intermediate State Of Ratcheting
pdb|3I1T|T Chain T, Crystal Structure Of The E. Coli 70s Ribosome In An
Intermediate State Of Ratcheting
pdb|3I20|T Chain T, Crystal Structure Of The E. Coli 70s Ribosome In An
Intermediate State Of Ratcheting
pdb|3I22|T Chain T, Crystal Structure Of The E. Coli 70s Ribosome In An
Intermediate State Of Ratcheting
pdb|3KCR|T Chain T, Ribosome-Secy Complex. This Entry 3kcr Contains 50s
Ribosomal Subnit. The 30s Ribosomal Subunit Can Be Found
In Pdb Entry 3kc4
pdb|1VT2|T Chain T, Crystal Structure Of The E. Coli Ribosome Bound To
Cem-101. This File Contains The 50s Subunit Of The
Second 70s Ribosome.
pdb|3ORB|T Chain T, Crystal Structure Of The E. Coli Ribosome Bound To
Cem-101. This File Contains The 50s Subunit Of The First
70s Ribosome Bound To Cem-101.
pdb|3IZT|U Chain U, Structural Insights Into Cognate Vs. Near-Cognate
Discrimination During Decoding. This Entry Contains The
Large Subunit Of A Ribosome Programmed With A
Near-Cognate Codon.
pdb|3IZU|U Chain U, Structural Insights Into Cognate Vs. Near-Cognate
Discrimination During Decoding. This Entry Contains The
Large Subunit Of A Ribosome Programmed With A Cognate
Codon
pdb|3J01|T Chain T, Structure Of The Ribosome-Secye Complex In The Membrane
Environment
pdb|3SGF|X Chain X, Crystal Structure Of Release Factor Rf3 Trapped In The Gtp
State On A Rotated Conformation Of The Ribosome
pdb|3UOS|X Chain X, Crystal Structure Of Release Factor Rf3 Trapped In The Gtp
State On A Rotated Conformation Of The Ribosome (Without
Viomycin)
pdb|3J0T|V Chain V, Structural Characterization Of Mrna-Trna Translocation
Intermediates (50s Ribosome Of Class2 Of The Six
Classes)
pdb|3J0W|V Chain V, Structural Characterization Of Mrna-Trna Translocation
Intermediates (50s Ribosome Of Class 4a Of The Six
Classes)
pdb|3J0Y|V Chain V, Structural Characterization Of Mrna-Trna Translocation
Intermediates (50s Ribosome Of Class 4b Of The Six
Classes)
pdb|3J11|V Chain V, Structural Characterization Of Mrna-Trna Translocation
Intermediates (50s Ribosome Of Class 3 Of The Six
Classes)
pdb|3J12|V Chain V, Structural Characterization Of Mrna-Trna Translocation
Intermediates (50s Ribosome Of Class 5 Of The Six
Classes)
pdb|3J14|V Chain V, Structural Characterization Of Mrna-Trna Translocation
Intermediates (50s Ribosome Of Class 6 Of The Six
Classes)
pdb|4GAR|T Chain T, Allosteric Control Of The Ribosome By Small-Molecule
Antibiotics
pdb|4GAU|T Chain T, Allosteric Control Of The Ribosome By Small-Molecule
Antibiotics
Length = 100
Score = 28.9 bits (63), Expect = 4.6, Method: Composition-based stats.
Identities = 23/82 (28%), Positives = 39/82 (47%), Gaps = 7/82 (8%)
Query: 166 LYLPHVLKKAKAVKEDCNTVKLHTVLRNCWDANNVVLQHAMTFKDLALDSELKKMIIKDL 225
L PHV +KA E NT+ VL+ DA ++ A+ K ++ E+ ++
Sbjct: 11 LRAPHVSEKASTAMEKSNTI----VLKVAKDATKAEIKAAVQ-KLFEVEVEVVNTLVVKG 65
Query: 226 DIFRNGKEYYRRVGRVWKRGYL 247
+ R+G+ RR WK+ Y+
Sbjct: 66 KVKRHGQRIGRRSD--WKKAYV 85
>pdb|3FIK|T Chain T, Ternary Complex-Bound E.Coli 70s Ribosome. This Entry
Consists Of The 50s Subunit.
pdb|2WWQ|T Chain T, E.Coli 70s Ribosome Stalled During Translation Of Tnac
Leader Peptide. This File Contains The 50s, The P-Site
Trna And The Tnac Leader Peptide (Part 2 Of 2).
pdb|3OFQ|T Chain T, Crystal Structure Of The E. Coli Ribosome Bound To
Erythromycin. This File Contains The 50s Subunit Of The
Second 70s Ribosome.
pdb|3OFR|T Chain T, Crystal Structure Of The E. Coli Ribosome Bound To
Erythromycin. This File Contains The 50s Subunit Of The
First 70s Ribosome With Erthromycin Bound.
pdb|3OFC|T Chain T, Crystal Structure Of The E. Coli Ribosome Bound To
Chloramphenicol. This File Contains The 50s Subunit Of
The First 70s Ribosome With Chloramphenicol Bound.
pdb|3OFD|T Chain T, Crystal Structure Of The E. Coli Ribosome Bound To
Chloramphenicol. This File Contains The 50s Subunit Of
The Second 70s Ribosome.
pdb|3OFZ|T Chain T, Crystal Structure Of The E. Coli Ribosome Bound To
Clindamycin. This File Contains The 50s Subunit Of The
First 70s Ribosome Bound To Clindamycin.
pdb|3OG0|T Chain T, Crystal Structure Of The E. Coli Ribosome Bound To
Clindamycin. This File Contains The 50s Subunit Of The
Second 70s Ribosome.
pdb|3OAS|T Chain T, Crystal Structure Of The E. Coli Ribosome Bound To
Telithromycin. This File Contains The 50s Subunit Of The
Second 70s Ribosome.
pdb|3OAT|T Chain T, Crystal Structure Of The E. Coli Ribosome Bound To
Telithromycin. This File Contains The 50s Subunit Of The
First 70s Ribosome With Telithromycin Bound.
pdb|3R8S|T Chain T, Structures Of The Bacterial Ribosome In Classical And
Hybrid States Of Trna Binding
pdb|3R8T|T Chain T, Structures Of The Bacterial Ribosome In Classical And
Hybrid States Of Trna Binding
pdb|3J19|T Chain T, Structure Of The Bacterial Ribosome Complexed By
Tmrna-Smpb And Ef-G During Translocation And Mld-Loading
(50s Subunit)
Length = 93
Score = 28.5 bits (62), Expect = 6.6, Method: Composition-based stats.
Identities = 23/82 (28%), Positives = 39/82 (47%), Gaps = 7/82 (8%)
Query: 166 LYLPHVLKKAKAVKEDCNTVKLHTVLRNCWDANNVVLQHAMTFKDLALDSELKKMIIKDL 225
L PHV +KA E NT+ VL+ DA ++ A+ K ++ E+ ++
Sbjct: 11 LRAPHVSEKASTAMEKSNTI----VLKVAKDATKAEIKAAVQ-KLFEVEVEVVNTLVVKG 65
Query: 226 DIFRNGKEYYRRVGRVWKRGYL 247
+ R+G+ RR WK+ Y+
Sbjct: 66 KVKRHGQRIGRRSD--WKKAYV 85
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
0.321 0.136 0.408
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 11,183,504
Number of Sequences: 62578
Number of extensions: 461108
Number of successful extensions: 1281
Number of sequences better than 100.0: 61
Number of HSP's better than 100.0 without gapping: 48
Number of HSP's successfully gapped in prelim test: 13
Number of HSP's that attempted gapping in prelim test: 1191
Number of HSP's gapped (non-prelim): 99
length of query: 398
length of database: 14,973,337
effective HSP length: 101
effective length of query: 297
effective length of database: 8,652,959
effective search space: 2569928823
effective search space used: 2569928823
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 52 (24.6 bits)