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= 045778
(132 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3R6J|A Chain A, Crystal Structure Of The Capsid P Domain From Norwalk
Virus Strain Hiroshima1999
pdb|3R6K|A Chain A, Crystal Structure Of The Capsid P Domain From Norwalk
Virus Strain Hiroshima1999 IN COMPLEX WITH HBGA TYPE B
(TRIGLYCAN)
Length = 305
Score = 26.9 bits (58), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 20/61 (32%), Positives = 25/61 (40%), Gaps = 7/61 (11%)
Query: 20 GIEFWSQPGEIGPANKARRLHQNLAPPLVHLKQGEHLWFKDSHNITRGSTPRGFIPVGTC 79
G W+ P G A L+ LAPP+ GE + F SH +G PV C
Sbjct: 174 GFNQWTLPNYSG----ALTLNMGLAPPVAPTFPGEQILFFRSHIPLKGGVAD---PVIDC 226
Query: 80 L 80
L
Sbjct: 227 L 227
>pdb|1QGU|B Chain B, Nitrogenase Mo-Fe Protein From Klebsiella Pneumoniae,
Dithionite-Reduced State
pdb|1QGU|D Chain D, Nitrogenase Mo-Fe Protein From Klebsiella Pneumoniae,
Dithionite-Reduced State
pdb|1QH8|B Chain B, Nitrogenase Mofe Protein From Klebsiella Pneumoniae, As-
Crystallized (Mixed Oxidation) State
pdb|1QH8|D Chain D, Nitrogenase Mofe Protein From Klebsiella Pneumoniae, As-
Crystallized (Mixed Oxidation) State
pdb|1QH1|B Chain B, Nitrogenase Mofe Protein From Klebsiella Pneumoniae,
Phenosafranin Oxidized State
pdb|1QH1|D Chain D, Nitrogenase Mofe Protein From Klebsiella Pneumoniae,
Phenosafranin Oxidized State
pdb|1H1L|B Chain B, Nitrogenase Mo-Fe Protein From Klebsiella Pneumoniae, Nifv
Mutant
pdb|1H1L|D Chain D, Nitrogenase Mo-Fe Protein From Klebsiella Pneumoniae, Nifv
Mutant
Length = 519
Score = 26.2 bits (56), Expect = 5.8, Method: Compositional matrix adjust.
Identities = 13/41 (31%), Positives = 23/41 (56%)
Query: 87 DGEYTMYSVADTEKEKGERINSIGRAIVQHSRSVTESEVVE 127
DG Y MYS T++E E ++I ++Q + + +VV+
Sbjct: 262 DGHYRMYSGGTTQQEMKEAPDAIDTLLLQPWQLLKSKKVVQ 302
>pdb|1QWL|A Chain A, Structure Of Helicobacter Pylori Catalase
pdb|1QWL|B Chain B, Structure Of Helicobacter Pylori Catalase
pdb|1QWM|A Chain A, Structure Of Helicobacter Pylori Catalase With Formic Acid
Bound
pdb|1QWM|B Chain B, Structure Of Helicobacter Pylori Catalase With Formic Acid
Bound
Length = 505
Score = 25.8 bits (55), Expect = 6.3, Method: Compositional matrix adjust.
Identities = 11/36 (30%), Positives = 20/36 (55%), Gaps = 3/36 (8%)
Query: 22 EFWSQPGEIG---PANKARRLHQNLAPPLVHLKQGE 54
++++QPG+ PA++ RLH + L H+ E
Sbjct: 424 DYYTQPGDYYRSLPADEKERLHDTIGESLAHVTHKE 459
>pdb|2A9E|A Chain A, Helicobacter Pylori Catalase Compound I
pdb|2A9E|B Chain B, Helicobacter Pylori Catalase Compound I
pdb|2IQF|A Chain A, Crystal Structure Of Helicobacter Pylori Catalase Compound
I
pdb|2IQF|B Chain B, Crystal Structure Of Helicobacter Pylori Catalase Compound
I
Length = 505
Score = 25.8 bits (55), Expect = 6.4, Method: Compositional matrix adjust.
Identities = 11/36 (30%), Positives = 20/36 (55%), Gaps = 3/36 (8%)
Query: 22 EFWSQPGEIG---PANKARRLHQNLAPPLVHLKQGE 54
++++QPG+ PA++ RLH + L H+ E
Sbjct: 424 DYYTQPGDYYRSLPADEKERLHDTIGESLAHVTHKE 459
>pdb|3GEX|A Chain A, 1.6 Angstrom Crystal Structure Of Fluorescent Protein
Cypet
pdb|3I19|A Chain A, 1.4 Angstrom Crystal Structure Of Fluorescent Protein
Cypet
Length = 242
Score = 25.8 bits (55), Expect = 6.5, Method: Compositional matrix adjust.
Identities = 17/56 (30%), Positives = 24/56 (42%)
Query: 14 NPVDYKGIEFWSQPGEIGPANKARRLHQNLAPPLVHLKQGEHLWFKDSHNITRGST 69
N ++ KGI+F +G + + N+ K G FK HNIT GS
Sbjct: 125 NRIELKGIDFKEDGNILGHKLEYNYISHNVYITADKQKNGIKANFKARHNITDGSV 180
>pdb|3LA1|A Chain A, High Resolution Crystal Structure Of Cypet Mutant A167i
Length = 237
Score = 25.8 bits (55), Expect = 7.9, Method: Compositional matrix adjust.
Identities = 17/56 (30%), Positives = 24/56 (42%)
Query: 14 NPVDYKGIEFWSQPGEIGPANKARRLHQNLAPPLVHLKQGEHLWFKDSHNITRGST 69
N ++ KGI+F +G + + N+ K G FK HNIT GS
Sbjct: 120 NRIELKGIDFKEDGNILGHKLEYNYISHNVYITADKQKNGIKANFKIRHNITDGSV 175
>pdb|1AHP|A Chain A, Oligosaccharide Substrate Binding In Escherichia Coli
Maltodextrin Phsphorylase
pdb|1AHP|B Chain B, Oligosaccharide Substrate Binding In Escherichia Coli
Maltodextrin Phsphorylase
Length = 797
Score = 25.4 bits (54), Expect = 8.8, Method: Composition-based stats.
Identities = 10/20 (50%), Positives = 12/20 (60%)
Query: 55 HLWFKDSHNITRGSTPRGFI 74
LW HN+T G TPR +I
Sbjct: 439 QLWPNKFHNVTNGITPRRWI 458
>pdb|2ECP|A Chain A, The Crystal Structure Of The E. Coli Maltodextrin
Phosphorylase Complex
pdb|2ECP|B Chain B, The Crystal Structure Of The E. Coli Maltodextrin
Phosphorylase Complex
Length = 796
Score = 25.4 bits (54), Expect = 9.0, Method: Composition-based stats.
Identities = 10/20 (50%), Positives = 12/20 (60%)
Query: 55 HLWFKDSHNITRGSTPRGFI 74
LW HN+T G TPR +I
Sbjct: 438 QLWPNKFHNVTNGITPRRWI 457
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
0.314 0.132 0.411
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,430,348
Number of Sequences: 62578
Number of extensions: 176822
Number of successful extensions: 346
Number of sequences better than 100.0: 14
Number of HSP's better than 100.0 without gapping: 11
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 335
Number of HSP's gapped (non-prelim): 14
length of query: 132
length of database: 14,973,337
effective HSP length: 88
effective length of query: 44
effective length of database: 9,466,473
effective search space: 416524812
effective search space used: 416524812
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 46 (22.3 bits)