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= psy10035
(102 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 = 110 bits (275), Expect = 2e-25, Method: Compositional matrix adjust.
Identities = 51/86 (59%), Positives = 66/86 (76%)
Query: 1 MVLDLDLFRTEKGGDPEKVRKNQKDRFKNVELVDKVIENDLKWRQFRHKADNFNKFKNLC 60
MVLDLDLFR +KGGDP +R+ Q+ RFK+ LVD++++ D +WR+ R +ADN NK KNLC
Sbjct: 1 MVLDLDLFRVDKGGDPALIRETQEKRFKDPGLVDQLVKADSEWRRCRFRADNLNKLKNLC 60
Query: 61 SKVIGEKMKAKEPVGDSSTLPGETLN 86
SK IGEKMK KEPVGD ++P L+
Sbjct: 61 SKTIGEKMKKKEPVGDDESVPENVLS 86
>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 = 62.8 bits (151), Expect = 5e-11, Method: Composition-based stats.
Identities = 33/75 (44%), Positives = 46/75 (61%)
Query: 2 VLDLDLFRTEKGGDPEKVRKNQKDRFKNVELVDKVIENDLKWRQFRHKADNFNKFKNLCS 61
+LD++ F EKGGDPE ++ +QK R +VELVD++I +W + R D NK N
Sbjct: 1 MLDINAFLVEKGGDPEIIKASQKKRGDSVELVDEIIAEYKEWVKLRFDLDEHNKKLNSVQ 60
Query: 62 KVIGEKMKAKEPVGD 76
K IG++ KAKE D
Sbjct: 61 KEIGKRFKAKEDAKD 75
>pdb|3QO5|A Chain A, Crystal Structure Of The Seryl-Trna Synthetase From
Candida Albicans
Length = 485
Score = 61.2 bits (147), Expect = 1e-10, Method: Compositional matrix adjust.
Identities = 33/75 (44%), Positives = 46/75 (61%)
Query: 2 VLDLDLFRTEKGGDPEKVRKNQKDRFKNVELVDKVIENDLKWRQFRHKADNFNKFKNLCS 61
+LD++ F EKGGDPE ++ +QK R +VELVD++I +W + R D NK N
Sbjct: 1 MLDINAFLVEKGGDPEIIKASQKKRGDSVELVDEIIAEYKEWVKLRFDLDEHNKKLNSVQ 60
Query: 62 KVIGEKMKAKEPVGD 76
K IG++ KAKE D
Sbjct: 61 KEIGKRFKAKEDAKD 75
>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 = 57.4 bits (137), Expect = 2e-09, Method: Composition-based stats.
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 MVLDIQLFRDETGAN--IIRESQRRRFADPDIVDAIIEADKKWRRTQFLTEASKKLINIC 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 = 28.1 bits (61), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 20/75 (26%), Positives = 40/75 (53%), Gaps = 6/75 (8%)
Query: 2 VLDLDLFRTEKGGDPEKVRKN--QKDRFKNVELVDKVIENDLKWRQFRHKADNFNKFKNL 59
+LD+ L R +PE V+ + ++ + V+ VD++++ D +WR + + +N
Sbjct: 1 MLDIKLIRE----NPELVKNDLIKRGELEKVKWVDEILKLDTEWRTKLKEINRLRHERNK 56
Query: 60 CSKVIGEKMKAKEPV 74
+ IG++ K EPV
Sbjct: 57 IAVEIGKRRKKGEPV 71
>pdb|2DQ3|A Chain A, Crystal Structure Of Aq_298
pdb|2DQ3|B Chain B, Crystal Structure Of Aq_298
Length = 425
Score = 26.6 bits (57), Expect = 3.6, Method: Compositional matrix adjust.
Identities = 21/64 (32%), Positives = 34/64 (53%), Gaps = 5/64 (7%)
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 KVIG 65
K IG
Sbjct: 58 KEIG 61
Database: pdbaa
Posted date: Mar 3, 2013 10:34 PM
Number of letters in database: 14,973,337
Number of sequences in database: 62,578
Lambda K H
0.317 0.135 0.405
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,317,389
Number of Sequences: 62578
Number of extensions: 127861
Number of successful extensions: 249
Number of sequences better than 100.0: 8
Number of HSP's better than 100.0 without gapping: 7
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 241
Number of HSP's gapped (non-prelim): 8
length of query: 102
length of database: 14,973,337
effective HSP length: 67
effective length of query: 35
effective length of database: 10,780,611
effective search space: 377321385
effective search space used: 377321385
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 45 (21.9 bits)