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= 019840
(335 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1G67|A Chain A, Thiamin Phosphate Synthase
pdb|1G67|B Chain B, Thiamin Phosphate Synthase
Length = 225
Score = 30.4 bits (67), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 14/35 (40%), Positives = 21/35 (60%), Gaps = 8/35 (22%)
Query: 210 DGPDSMGFGPLVPTESER--------SLMERVRHE 236
DG D +G GP+ PTE+++ SL+E VR +
Sbjct: 133 DGADYVGLGPIYPTETKKDTRAVQGVSLIEAVRRQ 167
>pdb|1G4E|A Chain A, Thiamin Phosphate Synthase
pdb|1G4E|B Chain B, Thiamin Phosphate Synthase
pdb|1G6C|A Chain A, Thiamin Phosphate Synthase
pdb|1G6C|B Chain B, Thiamin Phosphate Synthase
Length = 227
Score = 30.0 bits (66), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 14/35 (40%), Positives = 21/35 (60%), Gaps = 8/35 (22%)
Query: 210 DGPDSMGFGPLVPTESER--------SLMERVRHE 236
DG D +G GP+ PTE+++ SL+E VR +
Sbjct: 135 DGADYVGLGPIYPTETKKDTRAVQGVSLIEAVRRQ 169
>pdb|1G4P|A Chain A, Thiamin Phosphate Synthase
pdb|1G4P|B Chain B, Thiamin Phosphate Synthase
pdb|1G4S|A Chain A, Thiamin Phosphate Synthase
pdb|1G4S|B Chain B, Thiamin Phosphate Synthase
Length = 226
Score = 30.0 bits (66), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 14/35 (40%), Positives = 21/35 (60%), Gaps = 8/35 (22%)
Query: 210 DGPDSMGFGPLVPTESER--------SLMERVRHE 236
DG D +G GP+ PTE+++ SL+E VR +
Sbjct: 134 DGADYVGLGPIYPTETKKDTRAVQGVSLIEAVRRQ 168
>pdb|2TPS|A Chain A, Thiamin Phosphate Synthase
pdb|2TPS|B Chain B, Thiamin Phosphate Synthase
pdb|1G4T|A Chain A, Thiamin Phosphate Synthase
pdb|1G4T|B Chain B, Thiamin Phosphate Synthase
Length = 227
Score = 30.0 bits (66), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 14/35 (40%), Positives = 21/35 (60%), Gaps = 8/35 (22%)
Query: 210 DGPDSMGFGPLVPTESER--------SLMERVRHE 236
DG D +G GP+ PTE+++ SL+E VR +
Sbjct: 135 DGADYVGLGPIYPTETKKDTRAVQGVSLIEAVRRQ 169
>pdb|3O15|A Chain A, Crystal Structure Of Bacillus Subtilis Thiamin Phosphate
Synthase Complexed With A Carboxylated Thiazole
Phosphate
Length = 235
Score = 30.0 bits (66), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 14/35 (40%), Positives = 21/35 (60%), Gaps = 8/35 (22%)
Query: 210 DGPDSMGFGPLVPTESER--------SLMERVRHE 236
DG D +G GP+ PTE+++ SL+E VR +
Sbjct: 143 DGADYVGLGPIYPTETKKDTRAVQGVSLIEAVRRQ 177
>pdb|1G69|A Chain A, Thiamin Phosphate Synthase
pdb|1G69|B Chain B, Thiamin Phosphate Synthase
Length = 228
Score = 30.0 bits (66), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 14/35 (40%), Positives = 21/35 (60%), Gaps = 8/35 (22%)
Query: 210 DGPDSMGFGPLVPTESER--------SLMERVRHE 236
DG D +G GP+ PTE+++ SL+E VR +
Sbjct: 136 DGADYVGLGPIYPTETKKDTRAVQGVSLIEAVRRQ 170
>pdb|1USD|A Chain A, Human Vasp Tetramerisation Domain L352m
Length = 45
Score = 29.6 bits (65), Expect = 2.2, Method: Composition-based stats.
Identities = 17/42 (40%), Positives = 27/42 (64%), Gaps = 3/42 (7%)
Query: 222 PTESERSLMERVRHELKHELK---QGYKEKIVDIREEILRKR 260
P+ S+ S ++RV+ EL E+K Q KE+I++ + LRKR
Sbjct: 1 PSSSDYSDLQRVKQELMEEVKKELQKVKEEIIEAFVQELRKR 42
>pdb|3O16|A Chain A, Crystal Structure Of Bacillus Subtilis Thiamin Phosphate
Synthase K159a
Length = 235
Score = 29.6 bits (65), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 14/35 (40%), Positives = 20/35 (57%), Gaps = 8/35 (22%)
Query: 210 DGPDSMGFGPLVPTESER--------SLMERVRHE 236
DG D +G GP+ PTE+ + SL+E VR +
Sbjct: 143 DGADYVGLGPIYPTETAKDTRAVQGVSLIEAVRRQ 177
>pdb|1USE|A Chain A, Human Vasp Tetramerisation Domain
Length = 45
Score = 29.3 bits (64), Expect = 2.9, Method: Composition-based stats.
Identities = 17/42 (40%), Positives = 27/42 (64%), Gaps = 3/42 (7%)
Query: 222 PTESERSLMERVRHELKHELK---QGYKEKIVDIREEILRKR 260
P+ S+ S ++RV+ EL E+K Q KE+I++ + LRKR
Sbjct: 1 PSSSDYSDLQRVKQELLEEVKKELQKVKEEIIEAFVQELRKR 42
>pdb|1X2N|A Chain A, Solution Structure Of The Homeobox Domain Of Human
Homeobox Protein Pknox1
Length = 73
Score = 29.3 bits (64), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 11/29 (37%), Positives = 17/29 (58%)
Query: 259 KRRAGKLPGDTTSLLKAWWLSHAKWPYPT 287
K + G LP T+++++W H PYPT
Sbjct: 8 KNKRGVLPKHATNVMRSWLFQHIGHPYPT 36
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 0.133 0.399
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 8,876,907
Number of Sequences: 62578
Number of extensions: 344442
Number of successful extensions: 874
Number of sequences better than 100.0: 11
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 9
Number of HSP's that attempted gapping in prelim test: 872
Number of HSP's gapped (non-prelim): 11
length of query: 335
length of database: 14,973,337
effective HSP length: 99
effective length of query: 236
effective length of database: 8,778,115
effective search space: 2071635140
effective search space used: 2071635140
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 52 (24.6 bits)