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= 045658
(188 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2XET|A Chain A, Conserved Hydrophobic Clusters On The Surface Of The Caf1a
Usher C-Terminal Domain Are Important For F1 Antigen
Assembly
pdb|2XET|B Chain B, Conserved Hydrophobic Clusters On The Surface Of The Caf1a
Usher C-Terminal Domain Are Important For F1 Antigen
Assembly
Length = 89
Score = 30.0 bits (66), Expect = 0.89, Method: Compositional matrix adjust.
Identities = 14/42 (33%), Positives = 24/42 (57%), Gaps = 5/42 (11%)
Query: 63 NLTDGDKSPTPFGSVFAVDDALRVGPESNSEIIGNAQGLYVS 104
+L D P PFGS+ ++ G S+S I+G+ G+Y++
Sbjct: 7 HLKRSDNKPVPFGSIVTIE-----GQSSSSGIVGDNSGVYLT 43
>pdb|3L44|A Chain A, Crystal Structure Of Bacillus Anthracis Heml-1, Glutamate
Semialdehyde Aminotransferase
pdb|3L44|B Chain B, Crystal Structure Of Bacillus Anthracis Heml-1, Glutamate
Semialdehyde Aminotransferase
Length = 434
Score = 29.3 bits (64), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 17/42 (40%), Positives = 20/42 (47%), Gaps = 4/42 (9%)
Query: 140 VSEPSRELAVVGGRGKFRMARGFAVLKTAYFNGTNGDAIIDY 181
V+ PSR VGG RG K AYF +G+ IDY
Sbjct: 23 VNSPSRSFKAVGGGAPIAXERG----KGAYFWDVDGNKYIDY 60
>pdb|1ZRT|C Chain C, Rhodobacter Capsulatus Cytochrome Bc1 Complex With
Stigmatellin Bound
pdb|1ZRT|P Chain P, Rhodobacter Capsulatus Cytochrome Bc1 Complex With
Stigmatellin Bound
Length = 437
Score = 28.1 bits (61), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 12/45 (26%), Positives = 19/45 (42%)
Query: 38 VTKLHFFLHDILSGQNPSAVMVARANLTDGDKSPTPFGSVFAVDD 82
+ +H + NP+ V V R + D +K PF F + D
Sbjct: 208 LVAIHIWAFHTTGNNNPTGVEVRRTSKADAEKDTLPFWPYFVIKD 252
>pdb|3KBO|A Chain A, 2.14 Angstrom Crystal Structure Of Putative Oxidoreductase
(ycdw) From Salmonella Typhimurium In Complex With Nadp
pdb|3KBO|B Chain B, 2.14 Angstrom Crystal Structure Of Putative Oxidoreductase
(ycdw) From Salmonella Typhimurium In Complex With Nadp
pdb|3KBO|C Chain C, 2.14 Angstrom Crystal Structure Of Putative Oxidoreductase
(ycdw) From Salmonella Typhimurium In Complex With Nadp
pdb|3KBO|D Chain D, 2.14 Angstrom Crystal Structure Of Putative Oxidoreductase
(ycdw) From Salmonella Typhimurium In Complex With Nadp
pdb|3PP8|A Chain A, 2.1 Angstrom Crystal Structure Of Putative Oxidoreductase
(Ycdw) From Salmonella Typhimurium
Length = 315
Score = 27.7 bits (60), Expect = 3.6, Method: Compositional matrix adjust.
Identities = 17/51 (33%), Positives = 29/51 (56%), Gaps = 10/51 (19%)
Query: 94 IIGNAQGLYVSSSQDANNFAIVMYIDFALTSGEFKGSSFSVFSRNPVSEPS 144
++ A+G++V Q+A+ A AL SG+ KG+ VFS+ P+ + S
Sbjct: 225 VLNLARGVHV---QEADLLA-------ALDSGKLKGAXLDVFSQEPLPQES 265
>pdb|1Y8A|A Chain A, Structure Of Gene Product Af1437 From Archaeoglobus
Fulgidus
Length = 332
Score = 27.3 bits (59), Expect = 5.7, Method: Compositional matrix adjust.
Identities = 16/51 (31%), Positives = 25/51 (49%)
Query: 133 SVFSRNPVSEPSRELAVVGGRGKFRMARGFAVLKTAYFNGTNGDAIIDYNV 183
+FSR+ V + + VG K ++ RG+ K F GD+I DY +
Sbjct: 186 ELFSRSEVRKIVESVKAVGAGEKAKIMRGYCESKGIDFPVVVGDSISDYKM 236
>pdb|2FYF|A Chain A, Structure Of A Putative Phosphoserine Aminotransferase
From Mycobacterium Tuberculosis
pdb|2FYF|B Chain B, Structure Of A Putative Phosphoserine Aminotransferase
From Mycobacterium Tuberculosis
pdb|3VOM|A Chain A, Structure Of A Putative Phosphoserine Aminotransferase
From Mycobacterium Tuberculosis
pdb|3VOM|B Chain B, Structure Of A Putative Phosphoserine Aminotransferase
From Mycobacterium Tuberculosis
Length = 398
Score = 26.6 bits (57), Expect = 9.4, Method: Compositional matrix adjust.
Identities = 19/57 (33%), Positives = 26/57 (45%), Gaps = 4/57 (7%)
Query: 88 PESNSEIIGNAQGLYVSSSQDANNFAIVMYIDFALTSGEFKGSSFSVFSRNP-VSEP 143
P+ I+GN ++ DA F ++ LT GEF S S+NP V EP
Sbjct: 94 PDGYEVILGNGGA---TAFWDAAAFGLIDKRSLHLTYGEFSAKFASAVSKNPFVGEP 147
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
0.320 0.134 0.386
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,500,261
Number of Sequences: 62578
Number of extensions: 214317
Number of successful extensions: 380
Number of sequences better than 100.0: 13
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 11
Number of HSP's that attempted gapping in prelim test: 378
Number of HSP's gapped (non-prelim): 13
length of query: 188
length of database: 14,973,337
effective HSP length: 93
effective length of query: 95
effective length of database: 9,153,583
effective search space: 869590385
effective search space used: 869590385
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: 48 (23.1 bits)