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= psy11866
(255 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1LI5|A Chain A, Crystal Structure Of Cysteinyl-Trna Synthetase
pdb|1LI5|B Chain B, Crystal Structure Of Cysteinyl-Trna Synthetase
pdb|1LI7|A Chain A, Crystal Structure Of Cysteinyl-Trna Synthetase With
Cysteine Substrate Bound
pdb|1LI7|B Chain B, Crystal Structure Of Cysteinyl-Trna Synthetase With
Cysteine Substrate Bound
pdb|1U0B|B Chain B, Crystal Structure Of Cysteinyl-Trna Synthetase Binary
Complex With Trnacys
Length = 461
Score = 47.0 bits (110), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 22/67 (32%), Positives = 39/67 (58%)
Query: 10 NNDSWVRYFLHSGHLTIAGCKMSKSLKNFITIQDALNKHTARQLRLAFLLHAWHQTLDYS 69
++ +V Y++HSG + + KMSKSL NF T++D L + A +R + + L+YS
Sbjct: 246 HDGQYVNYWMHSGMVMVDREKMSKSLGNFFTVRDVLKYYDAETVRYFLMSGHYRSQLNYS 305
Query: 70 DNTMEMA 76
+ ++ A
Sbjct: 306 EENLKQA 312
>pdb|3TQO|A Chain A, Structure Of The Cysteinyl-Trna Synthetase (Cyss) From
Coxiella Burnetii
Length = 462
Score = 38.1 bits (87), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 22/60 (36%), Positives = 31/60 (51%)
Query: 15 VRYFLHSGHLTIAGCKMSKSLKNFITIQDALNKHTARQLRLAFLLHAWHQTLDYSDNTME 74
V+ + H+G L I K SKSL N I+I++AL + LR L + L YS +E
Sbjct: 254 VKLWXHAGLLEINKEKXSKSLGNIISIREALKESDVEVLRYFLLSGHYRNPLSYSKENLE 313
>pdb|3SP1|A Chain A, Crystal Structure Of Cysteinyl-Trna Synthetase (Cyss) From
Borrelia Burgdorferi
pdb|3SP1|B Chain B, Crystal Structure Of Cysteinyl-Trna Synthetase (Cyss) From
Borrelia Burgdorferi
Length = 501
Score = 36.2 bits (82), Expect = 0.017, Method: Compositional matrix adjust.
Identities = 25/79 (31%), Positives = 38/79 (48%), Gaps = 2/79 (2%)
Query: 9 FNNDSWVRYFLHSGHLTIAGCKMSKSLKNFITIQDALNKH-TARQLRLAFLLHAWHQTLD 67
F N W F+H L + KMSKS NFIT++D +++ + R L + L
Sbjct: 278 FLNKKWCDVFVHGEFLIMDYNKMSKSRGNFITVKDLEDQNFSPLDFRYLCLTSHYRNQLK 337
Query: 68 YS-DNTMEMAVTYEKLLNE 85
+S DN + E L+N+
Sbjct: 338 FSLDNLQASKIARENLINK 356
>pdb|1WKB|A Chain A, Crystal Structure Of Leucyl-Trna Synthetase From The
Archaeon Pyrococcus Horikoshii Reveals A Novel Editing
Domain Orientation
Length = 810
Score = 33.9 bits (76), Expect = 0.096, Method: Composition-based stats.
Identities = 20/63 (31%), Positives = 31/63 (49%)
Query: 3 FRFQAYFNNDSWVRYFLHSGHLTIAGCKMSKSLKNFITIQDALNKHTARQLRLAFLLHAW 62
F A F + W + +G T+ G KMSKS N + DA+ ++ A +RL + A
Sbjct: 623 FNHVAIFREEHWPKGIAVNGFGTLEGQKMSKSKGNVLNFIDAIEENGADVVRLYIMSLAE 682
Query: 63 HQT 65
H +
Sbjct: 683 HDS 685
>pdb|1WZ2|A Chain A, The Crystal Structure Of Leucyl-Trna Synthetase And
Trna(Leucine) Complex
pdb|1WZ2|B Chain B, The Crystal Structure Of Leucyl-Trna Synthetase And
Trna(Leucine) Complex
Length = 967
Score = 33.9 bits (76), Expect = 0.096, Method: Composition-based stats.
Identities = 20/63 (31%), Positives = 31/63 (49%)
Query: 3 FRFQAYFNNDSWVRYFLHSGHLTIAGCKMSKSLKNFITIQDALNKHTARQLRLAFLLHAW 62
F A F + W + +G T+ G KMSKS N + DA+ ++ A +RL + A
Sbjct: 623 FNHVAIFREEHWPKGIAVNGFGTLEGQKMSKSKGNVLNFIDAIEENGADVVRLYIMSLAE 682
Query: 63 HQT 65
H +
Sbjct: 683 HDS 685
>pdb|1P7P|A Chain A, Methionyl-trna Synthetase From Escherichia Coli Complexed
With Methionine Phosphonate
pdb|1PFU|A Chain A, Methionyl-Trna Synthetase From Escherichia Coli Complexed
With Methionine Phosphinate
pdb|1PFV|A Chain A, Methionyl-Trna Synthetase From Escherichia Coli Complexed
With Difluoromethionine
pdb|1PFW|A Chain A, Methionyl-Trna Synthetase From Escherichia Coli Complexed
With Trifluoromethionine
pdb|1PFY|A Chain A, Methionyl-Trna Synthetase From Escherichia Coli Complexed
With Methionyl Sulphamoyl Adenosine
pdb|1PG0|A Chain A, Methionyl-Trna Synthetase From Escherichia Coli Complexed
With Methioninyl Adenylate
pdb|1PG2|A Chain A, Methionyl-Trna Synthetase From Escherichia Coli Complexed
With Methionine And Adenosine
Length = 551
Score = 31.6 bits (70), Expect = 0.43, Method: Compositional matrix adjust.
Identities = 17/40 (42%), Positives = 22/40 (55%), Gaps = 1/40 (2%)
Query: 18 FLHSGHLTIAGCKMSKSLKNFITIQDALNKHTARQLRLAF 57
F+H G++T+ G KMSKS FI LN A LR +
Sbjct: 321 FVH-GYVTVNGAKMSKSRGTFIKASTWLNHFDADSLRYYY 359
>pdb|1F4L|A Chain A, Crystal Structure Of The E.Coli Methionyl-Trna Synthetase
Complexed With Methionine
Length = 551
Score = 31.6 bits (70), Expect = 0.43, Method: Compositional matrix adjust.
Identities = 17/40 (42%), Positives = 22/40 (55%), Gaps = 1/40 (2%)
Query: 18 FLHSGHLTIAGCKMSKSLKNFITIQDALNKHTARQLRLAF 57
F+H G++T+ G KMSKS FI LN A LR +
Sbjct: 322 FVH-GYVTVNGAKMSKSRGTFIKASTWLNHFDADSLRYYY 360
>pdb|1QQT|A Chain A, Methionyl-Trna Synthetase From Escherichia Coli
Length = 551
Score = 31.6 bits (70), Expect = 0.44, Method: Compositional matrix adjust.
Identities = 17/40 (42%), Positives = 22/40 (55%), Gaps = 1/40 (2%)
Query: 18 FLHSGHLTIAGCKMSKSLKNFITIQDALNKHTARQLRLAF 57
F+H G++T+ G KMSKS FI LN A LR +
Sbjct: 321 FVH-GYVTVNGAKMSKSRGTFIKASTWLNHFDADSLRYYY 359
>pdb|3H97|A Chain A, Structure Of A Mutant Methionyl-trna Synthetase With
Modified Specificity
pdb|3H99|A Chain A, Structure Of A Mutant Methionyl-Trna Synthetase With
Modified Specificity Complexed With Methionine
pdb|3H9B|A Chain A, Structure Of A Mutant Methionyl-Trna Synthetase With
Modified Specificity Complexed With Azidonorleucine
Length = 560
Score = 31.6 bits (70), Expect = 0.44, Method: Compositional matrix adjust.
Identities = 17/40 (42%), Positives = 22/40 (55%), Gaps = 1/40 (2%)
Query: 18 FLHSGHLTIAGCKMSKSLKNFITIQDALNKHTARQLRLAF 57
F+H G++T+ G KMSKS FI LN A LR +
Sbjct: 334 FVH-GYVTVNGAKMSKSRGTFIKASTWLNHFDADSLRYYY 372
>pdb|3H9C|A Chain A, Structure Of Methionyl-Trna Synthetase: Crystal Form 2
Length = 547
Score = 31.6 bits (70), Expect = 0.46, Method: Compositional matrix adjust.
Identities = 17/40 (42%), Positives = 22/40 (55%), Gaps = 1/40 (2%)
Query: 18 FLHSGHLTIAGCKMSKSLKNFITIQDALNKHTARQLRLAF 57
F+H G++T+ G KMSKS FI LN A LR +
Sbjct: 321 FVH-GYVTVNGAKMSKSRGTFIKASTWLNHFDADSLRYYY 359
>pdb|3OQ3|A Chain A, Structural Basis Of Type-I Interferon Sequestration By A
Poxvirus Decoy Receptor
Length = 166
Score = 30.8 bits (68), Expect = 0.73, Method: Compositional matrix adjust.
Identities = 25/85 (29%), Positives = 39/85 (45%), Gaps = 11/85 (12%)
Query: 176 LTVFGCIGDVKNIGFPLGGTGVESTNLEELVLPYLTILSEFRDNIRTE--------ARLI 227
L+ C+ D K+ GFP G + E +P L+ L++ NI T A L+
Sbjct: 24 LSPLSCLKDRKDFGFPQEKVGAQQIQ-EAQAIPVLSELTQQVLNIFTSKDSSAAWNATLL 82
Query: 228 KS--TEILNQCDRLRDEVLPNVGVR 250
S E+ Q + L+ V+ VGV+
Sbjct: 83 DSFCNEVHQQLNDLKACVMQQVGVQ 107
>pdb|4AE7|A Chain A, Crystal Structure Of Human Them5
Length = 220
Score = 30.8 bits (68), Expect = 0.82, Method: Compositional matrix adjust.
Identities = 23/75 (30%), Positives = 33/75 (44%), Gaps = 7/75 (9%)
Query: 87 FLNVKDHIRNLKFPATTVSSFEKWTQADLELSTRFIQTKNNVHAALCDNMDTRSALDSIR 146
F + +DHIR LK P+ S +K D + TR IQ + + T+ S+
Sbjct: 61 FKSNRDHIRGLKLPSGLAVSSDK---GDCRIFTRCIQVEGQGFEYVIFFQPTQKK--SV- 114
Query: 147 DCISQVNIYLRGTPN 161
C+ Q YL G P
Sbjct: 115 -CLFQPGSYLEGPPG 128
>pdb|1W73|A Chain A, Binary Structure Of Human Decr Solved By Semet Sad.
pdb|1W73|B Chain B, Binary Structure Of Human Decr Solved By Semet Sad.
pdb|1W73|C Chain C, Binary Structure Of Human Decr Solved By Semet Sad.
pdb|1W73|D Chain D, Binary Structure Of Human Decr Solved By Semet Sad.
pdb|1W8D|A Chain A, Binary Structure Of Human Decr.
pdb|1W8D|B Chain B, Binary Structure Of Human Decr.
pdb|1W8D|C Chain C, Binary Structure Of Human Decr.
pdb|1W8D|D Chain D, Binary Structure Of Human Decr
Length = 302
Score = 28.9 bits (63), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 16/51 (31%), Positives = 28/51 (54%), Gaps = 5/51 (9%)
Query: 123 QTKNNVHAALCDNMDTRSALDSIRDCISQVNIYLRGTPNQLLLRDIGAYVT 173
QT N VHA CD D D +++ +S++ I + G PN ++ G +++
Sbjct: 73 QTGNKVHAIQCDVRDP----DXVQNTVSEL-IKVAGHPNIVINNAAGNFIS 118
>pdb|3FHN|A Chain A, Structure Of Tip20p
pdb|3FHN|B Chain B, Structure Of Tip20p
pdb|3FHN|C Chain C, Structure Of Tip20p
pdb|3FHN|D Chain D, Structure Of Tip20p
Length = 706
Score = 28.9 bits (63), Expect = 3.1, Method: Compositional matrix adjust.
Identities = 14/67 (20%), Positives = 29/67 (43%)
Query: 122 IQTKNNVHAALCDNMDTRSALDSIRDCISQVNIYLRGTPNQLLLRDIGAYVTKILTVFGC 181
+Q N + ++ +D + Q++ P+Q L D+ A +K+ +VF
Sbjct: 77 LQILNKLEKVAVQQTQXQAGVDKLDSFERQLDELAEQPPDQFTLDDVKALHSKLTSVFAT 136
Query: 182 IGDVKNI 188
+ + NI
Sbjct: 137 VPQINNI 143
>pdb|1W6U|A Chain A, Structure Of Human Decr Ternary Complex
pdb|1W6U|B Chain B, Structure Of Human Decr Ternary Complex
pdb|1W6U|D Chain D, Structure Of Human Decr Ternary Complex
pdb|1W6U|C Chain C, Structure Of Human Decr Ternary Complex
Length = 302
Score = 28.5 bits (62), Expect = 4.1, Method: Compositional matrix adjust.
Identities = 16/51 (31%), Positives = 28/51 (54%), Gaps = 5/51 (9%)
Query: 123 QTKNNVHAALCDNMDTRSALDSIRDCISQVNIYLRGTPNQLLLRDIGAYVT 173
QT N VHA CD D D +++ +S++ I + G PN ++ G +++
Sbjct: 73 QTGNKVHAIQCDVRDP----DMVQNTVSEL-IKVAGHPNIVINNAAGNFIS 118
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
0.323 0.137 0.405
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 7,029,477
Number of Sequences: 62578
Number of extensions: 260371
Number of successful extensions: 568
Number of sequences better than 100.0: 16
Number of HSP's better than 100.0 without gapping: 11
Number of HSP's successfully gapped in prelim test: 5
Number of HSP's that attempted gapping in prelim test: 556
Number of HSP's gapped (non-prelim): 16
length of query: 255
length of database: 14,973,337
effective HSP length: 97
effective length of query: 158
effective length of database: 8,903,271
effective search space: 1406716818
effective search space used: 1406716818
T: 11
A: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 50 (23.9 bits)