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= psy10034
(399 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3VBB|A Chain A, Crystal Structure Of Seryl-Trna Synthetase From Human At
2.9 Angstroms
pdb|3VBB|B Chain B, Crystal Structure Of Seryl-Trna Synthetase From Human At
2.9 Angstroms
pdb|3VBB|C Chain C, Crystal Structure Of Seryl-Trna Synthetase From Human At
2.9 Angstroms
pdb|3VBB|D Chain D, Crystal Structure Of Seryl-Trna Synthetase From Human At
2.9 Angstroms
pdb|3VBB|E Chain E, Crystal Structure Of Seryl-Trna Synthetase From Human At
2.9 Angstroms
pdb|3VBB|F Chain F, Crystal Structure Of Seryl-Trna Synthetase From Human At
2.9 Angstroms
Length = 522
Score = 427 bits (1099), Expect = e-120, Method: Compositional matrix adjust.
Identities = 235/484 (48%), Positives = 293/484 (60%), Gaps = 109/484 (22%)
Query: 1 MVLDLDLFRTEKGGDPEKVRKNQKDRFKNVELVDKVIENDLKWRQFRHKA---------- 50
MVLDLDLFR +KGGDP +R+ Q+ RFK+ LVD++++ D +WR+ R +A
Sbjct: 1 MVLDLDLFRVDKGGDPALIRETQEKRFKDPGLVDQLVKADSEWRRCRFRADNLNKLKNLC 60
Query: 51 ---------------------DNFNKFKNLCSKVIG-----------------------E 66
+N F +L + + E
Sbjct: 61 SKTIGEKMKKKEPVGDDESVPENVLSFDDLTADALANLKVSQIKKVRLLIDEAILKCDAE 120
Query: 67 KMKAKEPVGDSSTLPGNHLHPSVPVSNNED-ENGIVRTKGDTEVRKKYSHVDLITMIDGV 125
++K + ++ GN LHPSVP+SN+ED +N + R GD VRKKYSHVDL+ M+DG
Sbjct: 121 RIKLEAERFENLREIGNLLHPSVPISNDEDVDNKVERIWGDCTVRKKYSHVDLVVMVDGF 180
Query: 126 DSEAGAIVAGGRGYFLKGPAVCLQVGLVQYALSKWIEKGYTPLYTPFFMRKEVMQEVAQL 185
+ E GA+VAG RGYFLKG V L+ L+QYAL +GY P+YTPFFMRKEVMQEVAQL
Sbjct: 181 EGEKGAVVAGSRGYFLKGVLVFLEQALIQYALRTLGSRGYIPIYTPFFMRKEVMQEVAQL 240
Query: 186 AQFDEELYKVIGKGEKVGDSAPEKDELDDKYLIATSEQPICAVHRDSWLPEASLPIRYLG 245
+QFDEELYKVIGKG + D + D+KYLIATSEQPI A+HRD WL LPI+Y G
Sbjct: 241 SQFDEELYKVIGKGSEKSDD----NSYDEKYLIATSEQPIAALHRDEWLRPEDLPIKYAG 296
Query: 246 VSTCFRQ---------------------------------------------EDLTKS-- 258
+STCFRQ E+ +S
Sbjct: 297 LSTCFRQEVGSHGRDTRGIFRVHQFEKIEQFVYSSPHDNKSWEMFEEMITTAEEFYQSLG 356
Query: 259 IAYRVVNIVSGALNHAAAKKLDLEAWFPGSGAFRELVSCSNCLDYQSRRLLVRYGQTKKM 318
I Y +VNIVSG+LNHAA+KKLDLEAWFPGSGAFRELVSCSNC DYQ+RRL +RYGQTKKM
Sbjct: 357 IPYHIVNIVSGSLNHAASKKLDLEAWFPGSGAFRELVSCSNCTDYQARRLRIRYGQTKKM 416
Query: 319 NEKIEFVHMLNATACATTRVICAILETHQTETGVRIPDCLRKFVPAVYVNEAGEIPFVKT 378
+K+EFVHMLNAT CATTR ICAILE +QTE G+ +P+ L++F+P + E IPFVK
Sbjct: 417 MDKVEFVHMLNATMCATTRTICAILENYQTEKGITVPEKLKEFMPP-GLQEL--IPFVKP 473
Query: 379 APID 382
API+
Sbjct: 474 APIE 477
>pdb|3QNE|A Chain A, Candida Albicans Seryl-Trna Synthetase
pdb|3QO7|A Chain A, Crystal Structure Of The Seryl-Trna Synthetase From
Candida Albicans
pdb|3QO8|A Chain A, Crystal Structure Of Seryl-Trna Synthetase From Candida
Albicans
Length = 485
Score = 293 bits (751), Expect = 9e-80, Method: Compositional matrix adjust.
Identities = 183/466 (39%), Positives = 234/466 (50%), Gaps = 104/466 (22%)
Query: 2 VLDLDLFRTEKGGDPEKVRKNQKDRFKNVELVDKVIENDLKWRQFRHKADNFNKFKNLCS 61
+LD++ F EKGGDPE ++ +QK R +VELVD++I +W + R D NK N
Sbjct: 1 MLDINAFLVEKGGDPEIIKASQKKRGDSVELVDEIIAEYKEWVKLRFDLDEHNKKLNSVQ 60
Query: 62 KVIGEKMKAKEPVGD----------------------------SSTLPGNHLHPSVPVSN 93
K IG++ KAKE D GN +H SV S
Sbjct: 61 KEIGKRFKAKEDAKDLIAEKEKLSNEKKEIIEKEAEADKNLRSKINQVGNIVHESVVDSQ 120
Query: 94 NEDENGIVRTKGDTEVRK------------KYSHVDLITMIDGVDSEAGAIVAGGRGYFL 141
+E+ N +VRT +K K SH +++ +DG D E G + G RGYFL
Sbjct: 121 DEENNELVRTWTPENYKKPEQIAAATGAPAKLSHHEVLLRLDGYDPERGVRIVGHRGYFL 180
Query: 142 KGPAVCLQVGLVQYALSKWIEKGYTPLYTPFFMRKEVMQEVAQLAQFDEELYKVIGKGEK 201
+ V L L+ Y LS KGY PL P M KEVM + AQL+QFDEELYKVI
Sbjct: 181 RNYGVFLNQALINYGLSFLSSKGYVPLQAPVMMNKEVMAKTAQLSQFDEELYKVI----- 235
Query: 202 VGDSAPEKDELDDKYLIATSEQPICAVHRDSWL--PEASLPIRYLGVSTCFRQED----- 254
D D+KYLIATSEQPI A H W P LP+RY G S+CFR+E
Sbjct: 236 --------DGEDEKYLIATSEQPISAYHAGEWFESPAEQLPVRYAGYSSCFRREAGSHGK 287
Query: 255 ------------------LTK----------------------SIAYRVVNIVSGALNHA 274
LT+ + YRVV IVSG LN+A
Sbjct: 288 DAWGIFRVHAFEKIEQFVLTEPEKSWEEFDRMIGCSEEFYQSLGLPYRVVGIVSGELNNA 347
Query: 275 AAKKLDLEAWFPGSGAFRELVSCSNCLDYQSRRLLVRYGQTKKMNEKIEFVHMLNATACA 334
AAKK DLEAWFP ++ELVSCSNC DYQSR L +R G ++ ++ ++VH LN+T A
Sbjct: 348 AAKKYDLEAWFPFQQEYKELVSCSNCTDYQSRNLEIRCGIKQQNQQEKKYVHCLNSTLSA 407
Query: 335 TTRVICAILETHQTETGVRIPDCLRKFVPAVYVNEAGEIPFVKTAP 380
T R IC ILE +Q E G+ IP+ LRK++P E IP++K P
Sbjct: 408 TERTICCILENYQKEDGLVIPEVLRKYIPG----EPEFIPYIKELP 449
>pdb|3QO5|A Chain A, Crystal Structure Of The Seryl-Trna Synthetase From
Candida Albicans
Length = 485
Score = 291 bits (745), Expect = 5e-79, Method: Compositional matrix adjust.
Identities = 182/466 (39%), Positives = 233/466 (50%), Gaps = 104/466 (22%)
Query: 2 VLDLDLFRTEKGGDPEKVRKNQKDRFKNVELVDKVIENDLKWRQFRHKADNFNKFKNLCS 61
+LD++ F EKGGDPE ++ +QK R +VELVD++I +W + R D NK N
Sbjct: 1 MLDINAFLVEKGGDPEIIKASQKKRGDSVELVDEIIAEYKEWVKLRFDLDEHNKKLNSVQ 60
Query: 62 KVIGEKMKAKEPVGD----------------------------SSTLPGNHLHPSVPVSN 93
K IG++ KAKE D GN +H SV S
Sbjct: 61 KEIGKRFKAKEDAKDLIAEKEKLSNEKKEIIEKEAEADKNLRSKINQVGNIVHESVVDSQ 120
Query: 94 NEDENGIVRTKGDTEVRK------------KYSHVDLITMIDGVDSEAGAIVAGGRGYFL 141
+E+ N +VRT +K K SH +++ +DG D E G + G RGYFL
Sbjct: 121 DEENNELVRTWTPENYKKPEQIAAATGAPAKLSHHEVLLRLDGYDPERGVRIVGHRGYFL 180
Query: 142 KGPAVCLQVGLVQYALSKWIEKGYTPLYTPFFMRKEVMQEVAQLAQFDEELYKVIGKGEK 201
+ V L L+ Y L KGY PL P M KEVM + AQL+QFDEELYKVI
Sbjct: 181 RNYGVFLNQALINYGLLFLSSKGYVPLQAPVMMNKEVMAKTAQLSQFDEELYKVI----- 235
Query: 202 VGDSAPEKDELDDKYLIATSEQPICAVHRDSWL--PEASLPIRYLGVSTCFRQED----- 254
D D+KYLIATSEQPI A H W P LP+RY G S+CFR+E
Sbjct: 236 --------DGEDEKYLIATSEQPISAYHAGEWFESPAEQLPVRYAGYSSCFRREAGSHGK 287
Query: 255 ------------------LTK----------------------SIAYRVVNIVSGALNHA 274
LT+ + YRVV IVSG LN+A
Sbjct: 288 DAWGIFRVHAFEKIEQFVLTEPEKSWEEFDRMIGCSEEFYQSLGLPYRVVGIVSGELNNA 347
Query: 275 AAKKLDLEAWFPGSGAFRELVSCSNCLDYQSRRLLVRYGQTKKMNEKIEFVHMLNATACA 334
AAKK DLEAWFP ++ELVSCSNC DYQSR L +R G ++ ++ ++VH LN+T A
Sbjct: 348 AAKKYDLEAWFPFQQEYKELVSCSNCTDYQSRNLEIRCGIKQQNQQEKKYVHCLNSTLSA 407
Query: 335 TTRVICAILETHQTETGVRIPDCLRKFVPAVYVNEAGEIPFVKTAP 380
T R IC ILE +Q E G+ IP+ LRK++P E IP++K P
Sbjct: 408 TERTICCILENYQKEDGLVIPEVLRKYIPG----EPEFIPYIKELP 449
>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 = 279 bits (714), Expect = 2e-75, Method: Compositional matrix adjust.
Identities = 158/337 (46%), Positives = 196/337 (58%), Gaps = 67/337 (19%)
Query: 82 GNHLHPSVPVSNNEDE-NGIVRTKGDTEVRKKYSHVDLITMIDGVD-SEAGAIVAGGRGY 139
GN LH SVP++ +E+ N +VRT G+T R K +HV ++ + +D S+A +AGGR Y
Sbjct: 142 GNILHESVPIAQDEETGNTVVRTFGNTTKRAKLNHVSIMERLGMMDTSKAVTSMAGGRSY 201
Query: 140 FLKGPAVCLQVGLVQYALSKWIEKGYTPLYTPFFMRKEVMQEVAQLAQFDEELYKVIGKG 199
LKG V LQV LV Y+L +++GYTP Y PFF+ ++VM EVAQL+QFDEELY+V G G
Sbjct: 202 VLKGGLVQLQVALVSYSLDFLVKRGYTPFYPPFFLNRDVMGEVAQLSQFDEELYQVSGDG 261
Query: 200 EKVGDSAPEKDELDDKYLIATSEQPICAVHRDSWLPEASLPIRYLGVSTCFRQ------- 252
+K KYLIATSE PI A HR W E P++Y G+STCFR+
Sbjct: 262 DK-------------KYLIATSEMPIAAYHRGRWFTELKEPLKYAGMSTCFRKEAGAHGR 308
Query: 253 --------------------------------------EDLTKSIA--YRVVNIVSGALN 272
E+ KS+ YRVVNI SGALN
Sbjct: 309 DTLGIFRVHQFDKIEQFVVCSPRQEESWRHLEDMITTSEEFNKSLGLPYRVVNICSGALN 368
Query: 273 HAAAKKLDLEAWFPGSGAFRELVSCSNCLDYQSRRLLVRYGQ----TKKMNEKIEFVHML 328
+AAAKK DLEAWFP SGAFRELVSCSNC DYQS+ + RYG T N K E+ HML
Sbjct: 369 NAAAKKYDLEAWFPASGAFRELVSCSNCTDYQSQSVNCRYGPNLRGTAAQNVK-EYCHML 427
Query: 329 NATACATTRVICAILETHQTETGVRIPDCLRKFVPAV 365
N T CA TR +C I E +QTE GV IPD LR ++ +
Sbjct: 428 NGTLCAITRTMCCICENYQTEEGVVIPDVLRPYMMGI 464
Score = 57.0 bits (136), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 36/81 (44%), Positives = 53/81 (65%), Gaps = 2/81 (2%)
Query: 1 MVLDLDLFRTEKGGDPEKVRKNQKDRFKNVELVDKVIENDLKWRQFRHKADNFNKFKNLC 60
MVLD+ LFR E G + +R++Q+ RF + ++VD +IE D KWR+ + + K N+C
Sbjct: 6 MVLDIQLFRDETGANI--IRESQRRRFADPDIVDAIIEADKKWRRTQFLTEASKKLINIC 63
Query: 61 SKVIGEKMKAKEPVGDSSTLP 81
SK +G K KAKE GD+S +P
Sbjct: 64 SKAVGAKKKAKEADGDTSEIP 84
>pdb|2DQ0|A Chain A, Crystal Structure Of Seryl-Trna Synthetase From Pyrococcus
Horikoshii Complexed With A Seryl-Adenylate Analog
pdb|2DQ0|B Chain B, Crystal Structure Of Seryl-Trna Synthetase From Pyrococcus
Horikoshii Complexed With A Seryl-Adenylate Analog
pdb|2ZR2|A Chain A, Crystal Structure Of Seryl-Trna Synthetase From Pyrococcus
Horikoshii Complexed With Atp
pdb|2ZR2|B Chain B, Crystal Structure Of Seryl-Trna Synthetase From Pyrococcus
Horikoshii Complexed With Atp
pdb|2ZR3|A Chain A, Crystal Structure Of Seryl-Trna Synthetase From Pyrococcus
Horikoshii
pdb|2ZR3|B Chain B, Crystal Structure Of Seryl-Trna Synthetase From Pyrococcus
Horikoshii
Length = 455
Score = 209 bits (532), Expect = 2e-54, Method: Compositional matrix adjust.
Identities = 146/459 (31%), Positives = 213/459 (46%), Gaps = 121/459 (26%)
Query: 2 VLDLDLFRTEKGGDPEKVRKN--QKDRFKNVELVDKVIENDLKWRQFRHKADNFNKFKNL 59
+LD+ L R +PE V+ + ++ + V+ VD++++ D +WR + + +N
Sbjct: 1 MLDIKLIRE----NPELVKNDLIKRGELEKVKWVDEILKLDTEWRTKLKEINRLRHERNK 56
Query: 60 CSKVIGEKMKAKEPVGDSST-----------------------------LPGNHLHPSVP 90
+ IG++ K EPV + LP N HPSVP
Sbjct: 57 IAVEIGKRRKKGEPVDELLAKSREIVKRIGELENEVEELKKKIDYYLWRLP-NITHPSVP 115
Query: 91 VSNNEDENGIVRTKGDTEVRKKYS----------------------HVDLITMIDGVDSE 128
V +E++N +R G V K + HVDL+ ++ G D
Sbjct: 116 VGKDENDNVPIRFWGKARVWKGHLERFLEQSQGKMEYEILEWKPKLHVDLLEILGGADFA 175
Query: 129 AGAIVAGGRGYFLKGPAVCLQVGLVQYALSKWIEKGYTPLYTPFFMRKEVMQEVAQLAQF 188
A V+G R Y+L V L + L+++AL + IEKG+TP+ P+ +R+ V + F
Sbjct: 176 RAAKVSGSRFYYLLNEIVILDLALIRFALDRLIEKGFTPVIPPYMVRRFVEEGSTSFEDF 235
Query: 189 DEELYKVIGKGEKVGDSAPEKDELDDKYLIATSEQPICAVHRDSWLPEASLPIRYLGVST 248
++ +YKV E +D YLI T+E P+ +H + L LP+ Y+GVS
Sbjct: 236 EDVIYKV---------------EDEDLYLIPTAEHPLAGMHANEILDGKDLPLLYVGVSP 280
Query: 249 CFRQEDLTK---------------------------------------------SIAYRV 263
CFR+E T I YRV
Sbjct: 281 CFRKEAGTAGKDTKGIFRVHQFHKVEQFVYSRPEESWEWHEKIIRNAEELFQELEIPYRV 340
Query: 264 VNIVSGALNHAAAKKLDLEAWFPGSGAFRELVSCSNCLDYQSRRLLVRYGQTKKMNEKIE 323
VNI +G L + AAKK D+EAW PG G FRE+VS SNC D+Q+RRL +R+ + +EK
Sbjct: 341 VNICTGDLGYVAAKKYDIEAWMPGQGKFREVVSASNCTDWQARRLNIRF--RDRTDEKPR 398
Query: 324 FVHMLNATACATTRVICAILETHQTETG-VRIPDCLRKF 361
+VH LN+TA AT+R I AILE HQ E G VRIP L K+
Sbjct: 399 YVHTLNSTAIATSRAIVAILENHQEEDGTVRIPKVLWKY 437
>pdb|2DQ3|A Chain A, Crystal Structure Of Aq_298
pdb|2DQ3|B Chain B, Crystal Structure Of Aq_298
Length = 425
Score = 154 bits (390), Expect = 6e-38, Method: Compositional matrix adjust.
Identities = 125/443 (28%), Positives = 194/443 (43%), Gaps = 110/443 (24%)
Query: 3 LDLDLFRTEKGGDPEKVRKNQKDRFKN-VELVDKVIENDLKWRQFRHKADNFNKFKNLCS 61
+D++L R + P+ V++ R K V LVDKV+E D + R+ + + +N S
Sbjct: 2 IDINLIREK----PDYVKERLATRDKELVSLVDKVLELDKRRREIIKRLEALRSERNKLS 57
Query: 62 KVIGEKMKAKEPVGDSSTLPG-------------------------------NHLHPSVP 90
K IG K K D++ + N HPSVP
Sbjct: 58 KEIG---KLKREGKDTTEIQNRVKELKEEIDRLEEELRKVEEELKNTLLWIPNLPHPSVP 114
Query: 91 VSNNEDENGIVRTKGDTEVRKKYS-----HVDLITMIDGVDSEAGAIVAGGRGYFLKGPA 145
V +E +N VR G+ +K+ H ++ + +D + GA ++G R + G
Sbjct: 115 VGEDEKDNVEVRRWGEP---RKFDFEPKPHWEIGERLGILDFKRGAKLSGSRFTVIAGWG 171
Query: 146 VCLQVGLVQYALSKWIEKGYTPLYTPFFMRKEVMQEVAQLAQFDEELYKVIGKGEKVGDS 205
L+ L+ + L +KGY + P ++ E++ QL +F+E+LYK
Sbjct: 172 ARLERALINFXLDLHTKKGYKEICPPHLVKPEILIGTGQLPKFEEDLYKC---------- 221
Query: 206 APEKDELDDKYLIATSEQPICAVHRDSWLPEASLPIRYLGVSTCFRQE------------ 253
E D+ YLI T+E P+ ++R+ L E +LPI + C+R+E
Sbjct: 222 -----ERDNLYLIPTAEVPLTNLYREEILKEENLPIYLTAYTPCYRREAGAYGKDIRGII 276
Query: 254 --------DLTK-------------------------SIAYRVVNIVSGALNHAAAKKLD 280
+L K + YRVV + +G L +AAK D
Sbjct: 277 RQHQFDKVELVKIVHPDTSYDELEKLVKDAEEVLQLLGLPYRVVELCTGDLGFSAAKTYD 336
Query: 281 LEAWFPGSGAFRELVSCSNCLDYQSRRLLVRYGQTKKMNEKIEFVHMLNATACATTRVIC 340
+E WFP +RE+ SCSNC D+Q+RR R+ +K K FVH LN + A R +
Sbjct: 337 IEVWFPSQNKYREISSCSNCEDFQARRXNTRFKDSK--TGKNRFVHTLNGSGLAVGRTLA 394
Query: 341 AILETHQTETG-VRIPDCLRKFV 362
AILE +Q E G V +P+ LR +V
Sbjct: 395 AILENYQQEDGSVVVPEVLRDYV 417
>pdb|1WLE|A Chain A, Crystal Structure Of Mammalian Mitochondrial Seryl-Trna
Synthetase Complexed With Seryl-Adenylate
pdb|1WLE|B Chain B, Crystal Structure Of Mammalian Mitochondrial Seryl-Trna
Synthetase Complexed With Seryl-Adenylate
Length = 501
Score = 132 bits (331), Expect = 5e-31, Method: Compositional matrix adjust.
Identities = 92/347 (26%), Positives = 153/347 (44%), Gaps = 64/347 (18%)
Query: 83 NHLHPSVPVSNNEDENGIVRTKGDTEVR--KKYSHVDLITMIDGVDSEAGAIVAGGRGYF 140
N HP VPV +E + ++ GD + H+++ +D + + + V+G R Y+
Sbjct: 155 NQTHPDVPV-GDESQARVLHVVGDKPAFSFQPRGHLEIAEKLDIIRQKRLSHVSGHRSYY 213
Query: 141 LKGPAVCLQVGLVQYALSKWIEKGYTPLYTPFFMRKEVMQEVAQLAQFDEELYKVIGKGE 200
L+G LQ GLV + L+K I +G+TP+ P +R V + K
Sbjct: 214 LRGAGALLQHGLVNFTLNKLIHRGFTPMTVPDLLRGVVFEGCGMTPN---------AKPS 264
Query: 201 KVGDSAPEKDELDDKYLIATSEQPICAVHRDSWLPEASLPIRYLGVSTCFRQEDLTK--- 257
++ + P + +D L T+E + D + LPIR + STC+R E T
Sbjct: 265 QIYNIDPSR--FEDLNLAGTAEVGLAGYFMDHSVAFRDLPIRMVCSSTCYRAETDTGKEP 322
Query: 258 -------------------------------------------SIAYRVVNIVSGALNHA 274
+ +RV+++ + L
Sbjct: 323 WGLYRVHHFTKVEMFGVTGPGLEQSSELLEEFLSLQMEILTELGLHFRVLDMPTQELGLP 382
Query: 275 AAKKLDLEAWFPGSGAFRELVSCSNCLDYQSRRLLVRYGQTKKMNEKIEFVHMLNATACA 334
A +K D+EAW PG G F E+ S SNC D+QSRRL + + QT+ +++F H +NAT CA
Sbjct: 383 AYRKFDIEAWMPGRGRFGEVTSASNCTDFQSRRLHIMF-QTEA--GELQFAHTVNATGCA 439
Query: 335 TTRVICAILETHQTETG-VRIPDCLRKFVPAVYVNEAGEIPFVKTAP 380
R++ A+LE++Q + G V +P L+ ++ + +P P
Sbjct: 440 VPRLLIALLESYQQKDGSVLVPPALQPYLGTDRITTPTHVPLQYIGP 486
>pdb|1SRY|A Chain A, Refined Crystal Structure Of The Seryl-Trna Synthetase
From Thermus Thermophilus At 2.5 Angstroms Resolution
pdb|1SRY|B Chain B, Refined Crystal Structure Of The Seryl-Trna Synthetase
From Thermus Thermophilus At 2.5 Angstroms Resolution
pdb|1SER|A Chain A, The 2.9 Angstroms Crystal Structure Of T. Thermophilus
Seryl-Trna Synthetase Complexed With Trna Ser
pdb|1SER|B Chain B, The 2.9 Angstroms Crystal Structure Of T. Thermophilus
Seryl-Trna Synthetase Complexed With Trna Ser
pdb|1SES|A Chain A, Crystal Structures At 2.5 Angstroms Resolution Of
Seryl-Trna Synthetase Complexed With Two Different
Analogues Of Seryl-Adenylate
pdb|1SES|B Chain B, Crystal Structures At 2.5 Angstroms Resolution Of
Seryl-Trna Synthetase Complexed With Two Different
Analogues Of Seryl-Adenylate
pdb|1SET|A Chain A, Crystal Structures At 2.5 Angstroms Resolution Of
Seryl-Trna Synthetase Complexed With Two Different
Analogues Of Seryl-Adenylate
pdb|1SET|B Chain B, Crystal Structures At 2.5 Angstroms Resolution Of
Seryl-Trna Synthetase Complexed With Two Different
Analogues Of Seryl-Adenylate
Length = 421
Score = 112 bits (281), Expect = 3e-25, Method: Compositional matrix adjust.
Identities = 78/322 (24%), Positives = 136/322 (42%), Gaps = 70/322 (21%)
Query: 87 PSVPVSNNEDENGIVRTKGDTEVRKKYSHVDLITMID--GVDSEAGAIVAGGRGYFLKGP 144
P PV E I R G E + +D + +++ G + V+G R Y LKG
Sbjct: 107 PGAPVGGEEANREIKRVGGPPEF--SFPPLDHVALMEKNGWWEPRISQVSGSRSYALKGD 164
Query: 145 AVCLQVGLVQYALSKWIEKGYTPLYTPFFMRKEVMQEVAQLAQFDEELYKVIGKGEKVGD 204
++ L+++A+ +G+ P+ P + R++ + ++++ +
Sbjct: 165 LALYELALLRFAMDFMARRGFLPMTLPSYAREKAFLGTGHFPAYRDQVWAIAE------- 217
Query: 205 SAPEKDELDDKYLIATSEQPICAVHRDSWLPEASLPIRYLGVSTCFRQED---------- 254
D YL T+E + A+H LP +LP+RY G + FR E
Sbjct: 218 --------TDLYLTGTAEVVLNALHSGEILPYEALPLRYAGYAPAFRSEAGSFGKDVRGL 269
Query: 255 -------------LTKS------------------------IAYRVVNIVSGALNHAAAK 277
LT++ + YR+V + +G + +
Sbjct: 270 MRVHQFHKVEQYVLTEASLEASDRAFQELLENAEEILRLLELPYRLVEVATGDMGPGKWR 329
Query: 278 KLDLEAWFPGSGAFRELVSCSNCLDYQSRRLLVRYGQTKKMNEKIEFVHMLNATACATTR 337
++D+E + P G +RE SCS LD+Q+RR +RY + ++ + + LN TA AT R
Sbjct: 330 QVDIEVYLPSEGRYRETHSCSALLDWQARRANLRY---RDPEGRVRYAYTLNNTALATPR 386
Query: 338 VICAILETHQTETG-VRIPDCL 358
++ +LE HQ + G VR+P L
Sbjct: 387 ILAMLLENHQLQDGRVRVPQAL 408
>pdb|3ERR|A Chain A, Microtubule Binding Domain From Mouse Cytoplasmic Dynein
As A Fusion With Seryl-Trna Synthetase
pdb|3ERR|B Chain B, Microtubule Binding Domain From Mouse Cytoplasmic Dynein
As A Fusion With Seryl-Trna Synthetase
Length = 536
Score = 112 bits (280), Expect = 4e-25, Method: Compositional matrix adjust.
Identities = 78/326 (23%), Positives = 138/326 (42%), Gaps = 70/326 (21%)
Query: 87 PSVPVSNNEDENGIVRTKGDTEVRKKYSHVDLITMID--GVDSEAGAIVAGGRGYFLKGP 144
P PV E I R G E + +D + +++ G + V+G R Y LKG
Sbjct: 216 PGAPVGGEEANREIKRVGGPPEF--SFPPLDHVALMEKNGWWEPRISQVSGSRSYALKGD 273
Query: 145 AVCLQVGLVQYALSKWIEKGYTPLYTPFFMRKEVMQEVAQLAQFDEELYKVIGKGEKVGD 204
++ L+++A+ +G+ P+ P + R++ + ++++ +
Sbjct: 274 LALYELALLRFAMDFMARRGFLPMTLPSYAREKAFLGTGHFPAYRDQVWAIAET------ 327
Query: 205 SAPEKDELDDKYLIATSEQPICAVHRDSWLPEASLPIRYLGVSTCFRQED---------- 254
D YL T+E + A+H LP +LP+RY G + FR E
Sbjct: 328 ---------DLYLTGTAEVVLNALHSGEILPYEALPLRYAGYAPAFRSEAGSFGKDVRGL 378
Query: 255 -------------LTKS------------------------IAYRVVNIVSGALNHAAAK 277
LT++ + YR+V + +G + +
Sbjct: 379 MRVHQFHKVEQYVLTEASLEASDRAFQELLENAEEILRLLELPYRLVEVATGDMGPGKWR 438
Query: 278 KLDLEAWFPGSGAFRELVSCSNCLDYQSRRLLVRYGQTKKMNEKIEFVHMLNATACATTR 337
++D+E + P G +RE SCS LD+Q+RR +RY + ++ + + LN TA AT R
Sbjct: 439 QVDIEVYLPSEGRYRETHSCSALLDWQARRANLRY---RDPEGRVRYAYTLNNTALATPR 495
Query: 338 VICAILETHQTETG-VRIPDCLRKFV 362
++ +LE HQ + G VR+P L ++
Sbjct: 496 ILAMLLENHQLQDGRVRVPQALIPYM 521
Database: pdbaa
Posted date: Mar 3, 2013 10:34 PM
Number of letters in database: 14,973,337
Number of sequences in database: 62,578
Lambda K H
0.318 0.136 0.403
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 12,156,821
Number of Sequences: 62578
Number of extensions: 528076
Number of successful extensions: 1065
Number of sequences better than 100.0: 10
Number of HSP's better than 100.0 without gapping: 9
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 1014
Number of HSP's gapped (non-prelim): 24
length of query: 399
length of database: 14,973,337
effective HSP length: 101
effective length of query: 298
effective length of database: 8,652,959
effective search space: 2578581782
effective search space used: 2578581782
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 52 (24.6 bits)