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= 040567
(162 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2LUZ|A Chain A, Solution Nmr Structure Of Calu16 From Micromonospora
Echinospora, Northeast Structural Genomics Consortium
(Nesg) Target Mir12
Length = 192
Score = 32.3 bits (72), Expect = 0.12, Method: Compositional matrix adjust.
Identities = 18/65 (27%), Positives = 33/65 (50%), Gaps = 6/65 (9%)
Query: 30 QGDHVESGNFAFTAAEAGDYTACFWSPEHNPPATVTVEFEWKTGVVSKDWTKVAKKGQVD 89
+GD E GNFA +GD C PP +T+ + ++ S+ +++++G
Sbjct: 65 KGDLREGGNFALQGNASGDILRC------EPPRRLTISWVYEGKPDSEVELRLSEEGDGT 118
Query: 90 MMELE 94
++ELE
Sbjct: 119 LLELE 123
>pdb|4FPW|A Chain A, Crystal Structure Of Calu16 From Micromonospora
Echinospora. Northeast Structural Genomics Consortium
Target Mir12.
pdb|4FPW|B Chain B, Crystal Structure Of Calu16 From Micromonospora
Echinospora. Northeast Structural Genomics Consortium
Target Mir12
Length = 181
Score = 32.3 bits (72), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 18/65 (27%), Positives = 33/65 (50%), Gaps = 6/65 (9%)
Query: 30 QGDHVESGNFAFTAAEAGDYTACFWSPEHNPPATVTVEFEWKTGVVSKDWTKVAKKGQVD 89
+GD E GNFA +GD C PP +T+ + ++ S+ +++++G
Sbjct: 54 KGDLREGGNFALQGNASGDILRC------EPPRRLTISWVYEGKPDSEVELRLSEEGDGT 107
Query: 90 MMELE 94
++ELE
Sbjct: 108 LLELE 112
>pdb|4EG1|A Chain A, Trypanosoma Brucei Methionyl-Trna Synthetase In Complex
With Substrate Methionine
pdb|4EG1|B Chain B, Trypanosoma Brucei Methionyl-Trna Synthetase In Complex
With Substrate Methionine
pdb|4EG3|A Chain A, Trypanosoma Brucei Methionyl-Trna Synthetase In Complex
With Product Methionyl-Adenylate
pdb|4EG3|B Chain B, Trypanosoma Brucei Methionyl-Trna Synthetase In Complex
With Product Methionyl-Adenylate
pdb|4EG6|A Chain A, Trypanosoma Brucei Methionyl-Trna Synthetase In Complex
With Inhibitor Chem 1325
pdb|4EG6|B Chain B, Trypanosoma Brucei Methionyl-Trna Synthetase In Complex
With Inhibitor Chem 1325
pdb|4EG8|A Chain A, Trypanosoma Brucei Methionyl-Trna Synthetase In Complex
With Compound Chem 89
pdb|4EG8|B Chain B, Trypanosoma Brucei Methionyl-Trna Synthetase In Complex
With Compound Chem 89
pdb|3U1E|A Chain A, Trypanosoma Brucei Methionyl-Trna Synthetase In Complex
With Inhibitor Chem 1387
pdb|3U1E|B Chain B, Trypanosoma Brucei Methionyl-Trna Synthetase In Complex
With Inhibitor Chem 1387
pdb|3U1F|A Chain A, Trypanosoma Brucei Methionyl-Trna Synthetase In Complex
With Inhibitor Chem 1392
pdb|3U1F|B Chain B, Trypanosoma Brucei Methionyl-Trna Synthetase In Complex
With Inhibitor Chem 1392
pdb|3U1G|A Chain A, Trypanosoma Brucei Methionyl-Trna Synthetase In Complex
With Inhibitor Chem 1415
pdb|3U1G|B Chain B, Trypanosoma Brucei Methionyl-Trna Synthetase In Complex
With Inhibitor Chem 1415
pdb|3U20|A Chain A, Trypanosoma Brucei Methionyl-Trna Synthetase In Complex
With Inhibitor Chem 1444
pdb|3U20|B Chain B, Trypanosoma Brucei Methionyl-Trna Synthetase In Complex
With Inhibitor Chem 1444
Length = 542
Score = 32.0 bits (71), Expect = 0.17, Method: Compositional matrix adjust.
Identities = 16/56 (28%), Positives = 28/56 (50%)
Query: 39 FAFTAAEAGDYTACFWSPEHNPPATVTVEFEWKTGVVSKDWTKVAKKGQVDMMELE 94
+ FT A AG++ CF +++ + E VV + WTK+ +KG + + E
Sbjct: 74 YDFTTAVAGEFKKCFEQMDYSIDYFIRTTNEQHKAVVKELWTKLEQKGDIYLGRYE 129
>pdb|4EG5|A Chain A, Trypanosoma Brucei Methionyl-Trna Synthetase In Complex
With Inhibitor Chem 1312
pdb|4EG5|B Chain B, Trypanosoma Brucei Methionyl-Trna Synthetase In Complex
With Inhibitor Chem 1312
Length = 542
Score = 32.0 bits (71), Expect = 0.17, Method: Compositional matrix adjust.
Identities = 16/56 (28%), Positives = 28/56 (50%)
Query: 39 FAFTAAEAGDYTACFWSPEHNPPATVTVEFEWKTGVVSKDWTKVAKKGQVDMMELE 94
+ FT A AG++ CF +++ + E VV + WTK+ +KG + + E
Sbjct: 74 YDFTTAVAGEFKKCFEQMDYSIDYFIRTTNEQHKAVVKELWTKLEQKGDIYLGRYE 129
>pdb|1RWA|A Chain A, Crystal Structure Of Arthrobacter Aurescens Chondroitin Ac
Lyase
pdb|1RWC|A Chain A, Crystal Structure Of Arthrobacter Aurescens Chondroitin Ac
Lyase
pdb|1RWF|A Chain A, Crystal Structure Of Arthrobacter Aurescens Chondroitin Ac
Lyase In Complex With Chondroitin Tetrasaccharide
pdb|1RWG|A Chain A, Crystal Structure Of Arthrobacter Aurescens Chondroitin Ac
Lyase In Complex With Chondroitin Tetrasaccharide
pdb|1RWH|A Chain A, Crystal Structure Of Arthrobacter Aurescens Chondroitin Ac
Lyase In Complex With Chondroitin Tetrasaccharide
Length = 757
Score = 29.6 bits (65), Expect = 0.72, Method: Composition-based stats.
Identities = 17/70 (24%), Positives = 28/70 (40%), Gaps = 10/70 (14%)
Query: 29 HQGDHVESGNFAFTAAEAGDYTACFWSPEH----------NPPATVTVEFEWKTGVVSKD 78
++G H SG F ++ G Y FW+ + P VE +W V + +
Sbjct: 414 NRGYHTGSGMTYFYTSDLGQYDDAFWATANYNRLPGITVDTTPLPDKVEGQWGAAVPADE 473
Query: 79 WTKVAKKGQV 88
W+ G+V
Sbjct: 474 WSGATALGEV 483
>pdb|1RW9|A Chain A, Crystal Structure Of The Arthrobacter Aurescens
Chondroitin Ac Lyase
Length = 757
Score = 29.6 bits (65), Expect = 0.72, Method: Composition-based stats.
Identities = 17/70 (24%), Positives = 28/70 (40%), Gaps = 10/70 (14%)
Query: 29 HQGDHVESGNFAFTAAEAGDYTACFWSPEH----------NPPATVTVEFEWKTGVVSKD 78
++G H SG F ++ G Y FW+ + P VE +W V + +
Sbjct: 414 NRGYHTGSGMTYFYTSDLGQYDDAFWATANYNRLPGITVDTTPLPDKVEGQWGAAVPADE 473
Query: 79 WTKVAKKGQV 88
W+ G+V
Sbjct: 474 WSGATALGEV 483
>pdb|3TUN|A Chain A, Trypanosoma Brucei Methionyl-Trna Synthetase In Complex
With Inhibitor Chem 1356
pdb|3TUN|B Chain B, Trypanosoma Brucei Methionyl-Trna Synthetase In Complex
With Inhibitor Chem 1356
pdb|4EG4|A Chain A, Trypanosoma Brucei Methionyl-Trna Synthetase In Complex
With Inhibitor Chem 1289
pdb|4EG4|B Chain B, Trypanosoma Brucei Methionyl-Trna Synthetase In Complex
With Inhibitor Chem 1289
pdb|4EG7|A Chain A, Trypanosoma Brucei Methionyl-Trna Synthetase In Complex
With Inhibitor Chem 1331
pdb|4EG7|B Chain B, Trypanosoma Brucei Methionyl-Trna Synthetase In Complex
With Inhibitor Chem 1331
pdb|4EGA|A Chain A, Trypanosoma Brucei Methionyl-Trna Synthetase In Complex
With Inhibitor Chem 1320
pdb|4EGA|B Chain B, Trypanosoma Brucei Methionyl-Trna Synthetase In Complex
With Inhibitor Chem 1320
pdb|3U1Z|A Chain A, Trypanosoma Brucei Methionyl-Trna Synthetase In Complex
With Inhibitor Chem 1433
pdb|3U1Z|B Chain B, Trypanosoma Brucei Methionyl-Trna Synthetase In Complex
With Inhibitor Chem 1433
Length = 542
Score = 27.3 bits (59), Expect = 3.6, Method: Compositional matrix adjust.
Identities = 15/56 (26%), Positives = 27/56 (48%)
Query: 39 FAFTAAEAGDYTACFWSPEHNPPATVTVEFEWKTGVVSKDWTKVAKKGQVDMMELE 94
+ FT A AG++ F +++ + E VV + WTK+ +KG + + E
Sbjct: 74 YDFTTAVAGEFKKXFEQMDYSIDYFIRTTNEQHKAVVKELWTKLEQKGDIYLGRYE 129
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
0.316 0.131 0.401
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,617,119
Number of Sequences: 62578
Number of extensions: 164450
Number of successful extensions: 311
Number of sequences better than 100.0: 8
Number of HSP's better than 100.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 305
Number of HSP's gapped (non-prelim): 8
length of query: 162
length of database: 14,973,337
effective HSP length: 91
effective length of query: 71
effective length of database: 9,278,739
effective search space: 658790469
effective search space used: 658790469
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: 47 (22.7 bits)