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= psy1870
(264 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>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 = 203 bits (516), Expect = 1e-52, Method: Compositional matrix adjust.
Identities = 104/226 (46%), Positives = 148/226 (65%), Gaps = 9/226 (3%)
Query: 11 CNSKINSKGERSQIYHLEPNYYGNGWCLSGTAEMGIARYLMNQTLPESQLPKQIAAMSKC 70
C N+K SQIY+++P+ + + L+GTAE+G+A Y M+ ++ LP ++ S C
Sbjct: 255 CGMTPNAKP--SQIYNIDPSRFED-LNLAGTAEVGLAGYFMDHSVAFRDLPIRMVCSSTC 311
Query: 71 YRAEISVVADEKGVYRVHCFTKIEMFGVTLP--EDSEKXXXXXXXXXXXXXGELGIHTRT 128
YRAE + G+YRVH FTK+EMFGVT P E S + ELG+H R
Sbjct: 312 YRAETDTGKEPWGLYRVHHFTKVEMFGVTGPGLEQSSELLEEFLSLQMEILTELGLHFRV 371
Query: 129 LNMGANELGAQAYKKYDVEAWMPGRKHWGELSSCSDCTDYQARRLNI--RTEDG--KFAH 184
L+M ELG AY+K+D+EAWMPGR +GE++S S+CTD+Q+RRL+I +TE G +FAH
Sbjct: 372 LDMPTQELGLPAYRKFDIEAWMPGRGRFGEVTSASNCTDFQSRRLHIMFQTEAGELQFAH 431
Query: 185 TLNGTACAIPRLLMALVETHQNQDGTVNIPECLQPFMFNKRIIGDT 230
T+N T CA+PRLL+AL+E++Q +DG+V +P LQP++ RI T
Sbjct: 432 TVNATGCAVPRLLIALLESYQQKDGSVLVPPALQPYLGTDRITTPT 477
>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 = 143 bits (360), Expect = 1e-34, Method: Compositional matrix adjust.
Identities = 80/196 (40%), Positives = 109/196 (55%), Gaps = 6/196 (3%)
Query: 38 LSGTAEMGIARYLMNQTLPESQLPKQIAAMSKCYRAEISVVA-DEKGVYRVHCFTKIEMF 96
L TAE +A N+ L LP +S C+R E D KG++RVH F K+E F
Sbjct: 249 LIPTAEHPLAGMHANEILDGKDLPLLYVGVSPCFRKEAGTAGKDTKGIFRVHQFHKVEQF 308
Query: 97 GVTLPEDSEKXXXXXXXXXXXXXGELGIHTRTLNMGANELGAQAYKKYDVEAWMPGRKHW 156
+ PE+S + EL I R +N+ +LG A KKYD+EAWMPG+ +
Sbjct: 309 VYSRPEESWEWHEKIIRNAEELFQELEIPYRVVNICTGDLGYVAAKKYDIEAWMPGQGKF 368
Query: 157 GELSSCSDCTDYQARRLNIRTED-----GKFAHTLNGTACAIPRLLMALVETHQNQDGTV 211
E+ S S+CTD+QARRLNIR D ++ HTLN TA A R ++A++E HQ +DGTV
Sbjct: 369 REVVSASNCTDWQARRLNIRFRDRTDEKPRYVHTLNSTAIATSRAIVAILENHQEEDGTV 428
Query: 212 NIPECLQPFMFNKRII 227
IP+ L + K I+
Sbjct: 429 RIPKVLWKYTGFKEIV 444
>pdb|2DQ3|A Chain A, Crystal Structure Of Aq_298
pdb|2DQ3|B Chain B, Crystal Structure Of Aq_298
Length = 425
Score = 129 bits (325), Expect = 1e-30, Method: Compositional matrix adjust.
Identities = 67/190 (35%), Positives = 100/190 (52%), Gaps = 6/190 (3%)
Query: 38 LSGTAEMGIARYLMNQTLPESQLPKQIAAMSKCYRAEISVVA-DEKGVYRVHCFTKIEMF 96
L TAE+ + + L E LP + A + CYR E D +G+ R H F K+E+
Sbjct: 228 LIPTAEVPLTNLYREEILKEENLPIYLTAYTPCYRREAGAYGKDIRGIIRQHQFDKVELV 287
Query: 97 GVTLPEDSEKXXXXXXXXXXXXXGELGIHTRTLNMGANELGAQAYKKYDVEAWMPGRKHW 156
+ P+ S LG+ R + + +LG A K YD+E W P + +
Sbjct: 288 KIVHPDTSYDELEKLVKDAEEVLQLLGLPYRVVELCTGDLGFSAAKTYDIEVWFPSQNKY 347
Query: 157 GELSSCSDCTDYQARRLNIRTEDGK-----FAHTLNGTACAIPRLLMALVETHQNQDGTV 211
E+SSCS+C D+QARR N R +D K F HTLNG+ A+ R L A++E +Q +DG+V
Sbjct: 348 REISSCSNCEDFQARRXNTRFKDSKTGKNRFVHTLNGSGLAVGRTLAAILENYQQEDGSV 407
Query: 212 NIPECLQPFM 221
+PE L+ ++
Sbjct: 408 VVPEVLRDYV 417
>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 = 124 bits (312), Expect = 5e-29, Method: Compositional matrix adjust.
Identities = 79/227 (34%), Positives = 113/227 (49%), Gaps = 19/227 (8%)
Query: 19 GERSQIYHLEPNYY-----GNGWCLSGTAEMGIARYLMNQTLPESQLPKQIAAMSKCYRA 73
GE +Q+ + Y G+ L T+EM IA Y + E + P + A MS C+R
Sbjct: 242 GEVAQLSQFDEELYQVSGDGDKKYLIATSEMPIAAYHRGRWFTELKEPLKYAGMSTCFRK 301
Query: 74 EISVVA-DEKGVYRVHCFTKIEMFGVTLP--EDSEKXXXXXXXXXXXXXGELGIHTRTLN 130
E D G++RVH F KIE F V P E+S + LG+ R +N
Sbjct: 302 EAGAHGRDTLGIFRVHQFDKIEQFVVCSPRQEESWRHLEDMITTSEEFNKSLGLPYRVVN 361
Query: 131 MGANELGAQAYKKYDVEAWMPGRKHWGELSSCSDCTDYQARRLNIR----------TEDG 180
+ + L A KKYD+EAW P + EL SCS+CTDYQ++ +N R
Sbjct: 362 ICSGALNNAAAKKYDLEAWFPASGAFRELVSCSNCTDYQSQSVNCRYGPNLRGTAAQNVK 421
Query: 181 KFAHTLNGTACAIPRLLMALVETHQNQDGTVNIPECLQPFMFNKRII 227
++ H LNGT CAI R + + E +Q ++G V IP+ L+P+M +I
Sbjct: 422 EYCHMLNGTLCAITRTMCCICENYQTEEGVV-IPDVLRPYMMGIEMI 467
>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 = 123 bits (308), Expect = 1e-28, Method: Compositional matrix adjust.
Identities = 74/204 (36%), Positives = 108/204 (52%), Gaps = 12/204 (5%)
Query: 28 EPNYYGNGWCLSGTAEMGIARYLMNQTLPESQLPKQIAAMSKCYRAEI-SVVADEKGVYR 86
+ N Y + ++ T+E IA ++ L LP + A +S C+R E+ S D +G++R
Sbjct: 259 DDNSYDEKYLIA-TSEQPIAALHRDEWLRPEDLPIKYAGLSTCFRQEVGSHGRDTRGIFR 317
Query: 87 VHCFTKIEMFGVTLPEDSE--KXXXXXXXXXXXXXGELGIHTRTLNMGANELGAQAYKKY 144
VH F KIE F + P D++ + LGI +N+ + L A KK
Sbjct: 318 VHQFEKIEQFVYSSPHDNKSWEMFEEMITTAEEFYQSLGIPYHIVNIVSGSLNHAASKKL 377
Query: 145 DVEAWMPGRKHWGELSSCSDCTDYQARRLNIR-------TEDGKFAHTLNGTACAIPRLL 197
D+EAW PG + EL SCS+CTDYQARRL IR + +F H LN T CA R +
Sbjct: 378 DLEAWFPGSGAFRELVSCSNCTDYQARRLRIRYGQTKKMMDKVEFVHMLNATMCATTRTI 437
Query: 198 MALVETHQNQDGTVNIPECLQPFM 221
A++E +Q + G + +PE L+ FM
Sbjct: 438 CAILENYQTEKG-ITVPEKLKEFM 460
>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 = 122 bits (307), Expect = 2e-28, Method: Compositional matrix adjust.
Identities = 73/194 (37%), Positives = 103/194 (53%), Gaps = 11/194 (5%)
Query: 38 LSGTAEMGIARYLMNQTL--PESQLPKQIAAMSKCYRAEI-SVVADEKGVYRVHCFTKIE 94
L T+E I+ Y + P QLP + A S C+R E S D G++RVH F KIE
Sbjct: 243 LIATSEQPISAYHAGEWFESPAEQLPVRYAGYSSCFRREAGSHGKDAWGIFRVHAFEKIE 302
Query: 95 MFGVTLPEDSEKXXXXXXXXXXXXXGELGIHTRTLNMGANELGAQAYKKYDVEAWMPGRK 154
F +T PE S + LG+ R + + + EL A KKYD+EAW P ++
Sbjct: 303 QFVLTEPEKSWEEFDRMIGCSEEFYQSLGLPYRVVGIVSGELNNAAAKKYDLEAWFPFQQ 362
Query: 155 HWGELSSCSDCTDYQARRLNIR-------TEDGKFAHTLNGTACAIPRLLMALVETHQNQ 207
+ EL SCS+CTDYQ+R L IR ++ K+ H LN T A R + ++E +Q +
Sbjct: 363 EYKELVSCSNCTDYQSRNLEIRCGIKQQNQQEKKYVHCLNSTLSATERTICCILENYQKE 422
Query: 208 DGTVNIPECLQPFM 221
DG V IPE L+ ++
Sbjct: 423 DGLV-IPEVLRKYI 435
>pdb|3QO5|A Chain A, Crystal Structure Of The Seryl-Trna Synthetase From
Candida Albicans
Length = 485
Score = 122 bits (307), Expect = 2e-28, Method: Compositional matrix adjust.
Identities = 73/194 (37%), Positives = 103/194 (53%), Gaps = 11/194 (5%)
Query: 38 LSGTAEMGIARYLMNQTL--PESQLPKQIAAMSKCYRAEI-SVVADEKGVYRVHCFTKIE 94
L T+E I+ Y + P QLP + A S C+R E S D G++RVH F KIE
Sbjct: 243 LIATSEQPISAYHAGEWFESPAEQLPVRYAGYSSCFRREAGSHGKDAWGIFRVHAFEKIE 302
Query: 95 MFGVTLPEDSEKXXXXXXXXXXXXXGELGIHTRTLNMGANELGAQAYKKYDVEAWMPGRK 154
F +T PE S + LG+ R + + + EL A KKYD+EAW P ++
Sbjct: 303 QFVLTEPEKSWEEFDRMIGCSEEFYQSLGLPYRVVGIVSGELNNAAAKKYDLEAWFPFQQ 362
Query: 155 HWGELSSCSDCTDYQARRLNIR-------TEDGKFAHTLNGTACAIPRLLMALVETHQNQ 207
+ EL SCS+CTDYQ+R L IR ++ K+ H LN T A R + ++E +Q +
Sbjct: 363 EYKELVSCSNCTDYQSRNLEIRCGIKQQNQQEKKYVHCLNSTLSATERTICCILENYQKE 422
Query: 208 DGTVNIPECLQPFM 221
DG V IPE L+ ++
Sbjct: 423 DGLV-IPEVLRKYI 435
>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 = 113 bits (282), Expect = 1e-25, Method: Compositional matrix adjust.
Identities = 67/207 (32%), Positives = 104/207 (50%), Gaps = 14/207 (6%)
Query: 29 PNYYGNGWC-------LSGTAEMGIARYLMNQTLPESQLPKQIAAMSKCYRAEI-SVVAD 80
P Y W L+GTAE+ + + LP LP + A + +R+E S D
Sbjct: 315 PAYRDQVWAIAETDLYLTGTAEVVLNALHSGEILPYEALPLRYAGYAPAFRSEAGSFGKD 374
Query: 81 EKGVYRVHCFTKIEMFGVTLP--EDSEKXXXXXXXXXXXXXGELGIHTRTLNMGANELGA 138
+G+ RVH F K+E + +T E S++ L + R + + ++G
Sbjct: 375 VRGLMRVHQFHKVEQYVLTEASLEASDRAFQELLENAEEILRLLELPYRLVEVATGDMGP 434
Query: 139 QAYKKYDVEAWMPGRKHWGELSSCSDCTDYQARRLNIRTEDG----KFAHTLNGTACAIP 194
+++ D+E ++P + E SCS D+QARR N+R D ++A+TLN TA A P
Sbjct: 435 GKWRQVDIEVYLPSEGRYRETHSCSALLDWQARRANLRYRDPEGRVRYAYTLNNTALATP 494
Query: 195 RLLMALVETHQNQDGTVNIPECLQPFM 221
R+L L+E HQ QDG V +P+ L P+M
Sbjct: 495 RILAMLLENHQLQDGRVRVPQALIPYM 521
>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 = 2e-25, Method: Compositional matrix adjust.
Identities = 67/207 (32%), Positives = 104/207 (50%), Gaps = 14/207 (6%)
Query: 29 PNYYGNGWC-------LSGTAEMGIARYLMNQTLPESQLPKQIAAMSKCYRAEI-SVVAD 80
P Y W L+GTAE+ + + LP LP + A + +R+E S D
Sbjct: 206 PAYRDQVWAIAETDLYLTGTAEVVLNALHSGEILPYEALPLRYAGYAPAFRSEAGSFGKD 265
Query: 81 EKGVYRVHCFTKIEMFGVTLP--EDSEKXXXXXXXXXXXXXGELGIHTRTLNMGANELGA 138
+G+ RVH F K+E + +T E S++ L + R + + ++G
Sbjct: 266 VRGLMRVHQFHKVEQYVLTEASLEASDRAFQELLENAEEILRLLELPYRLVEVATGDMGP 325
Query: 139 QAYKKYDVEAWMPGRKHWGELSSCSDCTDYQARRLNIRTEDG----KFAHTLNGTACAIP 194
+++ D+E ++P + E SCS D+QARR N+R D ++A+TLN TA A P
Sbjct: 326 GKWRQVDIEVYLPSEGRYRETHSCSALLDWQARRANLRYRDPEGRVRYAYTLNNTALATP 385
Query: 195 RLLMALVETHQNQDGTVNIPECLQPFM 221
R+L L+E HQ QDG V +P+ L P+M
Sbjct: 386 RILAMLLENHQLQDGRVRVPQALIPYM 412
Database: pdbaa
Posted date: Mar 3, 2013 10:34 PM
Number of letters in database: 14,973,337
Number of sequences in database: 62,578
Lambda K H
0.318 0.134 0.410
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 7,093,675
Number of Sequences: 62578
Number of extensions: 267914
Number of successful extensions: 512
Number of sequences better than 100.0: 10
Number of HSP's better than 100.0 without gapping: 10
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 476
Number of HSP's gapped (non-prelim): 10
length of query: 264
length of database: 14,973,337
effective HSP length: 97
effective length of query: 167
effective length of database: 8,903,271
effective search space: 1486846257
effective search space used: 1486846257
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: 50 (23.9 bits)