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= 010877
(498 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3EEA|A Chain A, The Crystal Structure Of The Gaf DomainHD DOMAIN PROTEIN
From Geobacter Sulfurreducens
pdb|3EEA|B Chain B, The Crystal Structure Of The Gaf DomainHD DOMAIN PROTEIN
From Geobacter Sulfurreducens
Length = 162
Score = 33.1 bits (74), Expect = 0.33, Method: Composition-based stats.
Identities = 17/57 (29%), Positives = 27/57 (47%)
Query: 231 NLLPHQDEGVSCKFFLQMLKMAMVYNASPALISELEKRVGMMLEDANANDLLIPNYK 287
+ P + G+ F +M + + P L S L KR +ML D ++DLL P +
Sbjct: 45 DFAPARSTGLPASFLPVFREMPLAPDKIPLLKSMLRKRQHLMLTDPGSSDLLTPKLR 101
>pdb|3K17|A Chain A, Crystal Structure Of A Lin0012 Protein From Listeria
Innocua
pdb|3K17|B Chain B, Crystal Structure Of A Lin0012 Protein From Listeria
Innocua
pdb|3K17|C Chain C, Crystal Structure Of A Lin0012 Protein From Listeria
Innocua
pdb|3K17|D Chain D, Crystal Structure Of A Lin0012 Protein From Listeria
Innocua
Length = 365
Score = 31.6 bits (70), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 12/37 (32%), Positives = 25/37 (67%)
Query: 252 AMVYNASPALISELEKRVGMMLEDANANDLLIPNYKN 288
A+V + A+++ + + + + LED+ N+L IP+Y+N
Sbjct: 22 AVVESGHTAILTAVNRYITLTLEDSERNELWIPHYEN 58
>pdb|3HTO|A Chain A, The Hemagglutinin Structure Of An Avian H1n1 Influenza A
Virus
pdb|3HTP|A Chain A, The Hemagglutinin Structure Of An Avian H1n1 Influenza A
Virus In Complex With Lsta
pdb|3HTQ|A Chain A, The Hemagglutinin Structure Of An Avian H1n1 Influenza A
Virus In Complex With Lstc
pdb|3HTT|A Chain A, The Hemagglutinin Structure Of An Avian H1n1 Influenza A
Virus In Complex With 2,3-Sialyllactose
Length = 324
Score = 28.9 bits (63), Expect = 6.4, Method: Compositional matrix adjust.
Identities = 24/99 (24%), Positives = 40/99 (40%), Gaps = 11/99 (11%)
Query: 328 NMGKTNSHPSLSEHDRRRLCKLMNCEKLSLDACTHAAQNDRLPLRTVVQVLFSEQVKMRT 387
N+ T+S L ++ +LCKL L L C A +L + + +
Sbjct: 23 NVTVTHSVNLLEDNHNGKLCKLNGIAPLQLGKCNVAGW-----------LLGNPECDLLL 71
Query: 388 AMQETEPALQCDNSEQGDTQPSTSIEIKNLREELENVKT 426
++ NSE G P I+ + LRE+L +V +
Sbjct: 72 TANSWSYIIETSNSENGTCYPGEFIDYEELREQLSSVSS 110
>pdb|1RD8|A Chain A, Crystal Sructure Of The 1918 Human H1 Hemagglutinin
Precursor (Ha0)
pdb|1RD8|C Chain C, Crystal Sructure Of The 1918 Human H1 Hemagglutinin
Precursor (Ha0)
pdb|1RD8|E Chain E, Crystal Sructure Of The 1918 Human H1 Hemagglutinin
Precursor (Ha0)
Length = 335
Score = 28.5 bits (62), Expect = 7.9, Method: Compositional matrix adjust.
Identities = 24/99 (24%), Positives = 39/99 (39%), Gaps = 11/99 (11%)
Query: 328 NMGKTNSHPSLSEHDRRRLCKLMNCEKLSLDACTHAAQNDRLPLRTVVQVLFSEQVKMRT 387
N+ T+S L + +LCKL L L C A +L + + +
Sbjct: 31 NVTVTHSVNLLEDSHNGKLCKLKGIAPLQLGKCNIAGW-----------LLGNPECDLLL 79
Query: 388 AMQETEPALQCDNSEQGDTQPSTSIEIKNLREELENVKT 426
++ NSE G P I+ + LRE+L +V +
Sbjct: 80 TASSWSYIVETSNSENGTCYPGDFIDYEELREQLSSVSS 118
>pdb|4GXX|A Chain A, Crystal Structure Of The "avianized" 1918 Influenza Virus
Hemagglutinin
pdb|4GXX|C Chain C, Crystal Structure Of The "avianized" 1918 Influenza Virus
Hemagglutinin
pdb|4GXX|E Chain E, Crystal Structure Of The "avianized" 1918 Influenza Virus
Hemagglutinin
Length = 331
Score = 28.5 bits (62), Expect = 8.6, Method: Compositional matrix adjust.
Identities = 24/99 (24%), Positives = 39/99 (39%), Gaps = 11/99 (11%)
Query: 328 NMGKTNSHPSLSEHDRRRLCKLMNCEKLSLDACTHAAQNDRLPLRTVVQVLFSEQVKMRT 387
N+ T+S L + +LCKL L L C A +L + + +
Sbjct: 27 NVTVTHSVNLLEDSHNGKLCKLKGIAPLQLGKCNIAGW-----------LLGNPECDLLL 75
Query: 388 AMQETEPALQCDNSEQGDTQPSTSIEIKNLREELENVKT 426
++ NSE G P I+ + LRE+L +V +
Sbjct: 76 TASSWSYIVETSNSENGTCYPGDFIDYEELREQLSSVSS 114
>pdb|1RUZ|H Chain H, 1918 H1 Hemagglutinin
pdb|1RUZ|J Chain J, 1918 H1 Hemagglutinin
pdb|1RUZ|L Chain L, 1918 H1 Hemagglutinin
Length = 328
Score = 28.5 bits (62), Expect = 8.9, Method: Compositional matrix adjust.
Identities = 24/99 (24%), Positives = 39/99 (39%), Gaps = 11/99 (11%)
Query: 328 NMGKTNSHPSLSEHDRRRLCKLMNCEKLSLDACTHAAQNDRLPLRTVVQVLFSEQVKMRT 387
N+ T+S L + +LCKL L L C A +L + + +
Sbjct: 27 NVTVTHSVNLLEDSHNGKLCKLKGIAPLQLGKCNIAGW-----------LLGNPECDLLL 75
Query: 388 AMQETEPALQCDNSEQGDTQPSTSIEIKNLREELENVKT 426
++ NSE G P I+ + LRE+L +V +
Sbjct: 76 TASSWSYIVETSNSENGTCYPGDFIDYEELREQLSSVSS 114
>pdb|2WRG|H Chain H, Structure Of H1 1918 Hemagglutinin With Human Receptor
pdb|2WRG|J Chain J, Structure Of H1 1918 Hemagglutinin With Human Receptor
pdb|2WRG|L Chain L, Structure Of H1 1918 Hemagglutinin With Human Receptor
Length = 326
Score = 28.5 bits (62), Expect = 8.9, Method: Compositional matrix adjust.
Identities = 24/99 (24%), Positives = 39/99 (39%), Gaps = 11/99 (11%)
Query: 328 NMGKTNSHPSLSEHDRRRLCKLMNCEKLSLDACTHAAQNDRLPLRTVVQVLFSEQVKMRT 387
N+ T+S L + +LCKL L L C A +L + + +
Sbjct: 23 NVTVTHSVNLLEDSHNGKLCKLKGIAPLQLGKCNIAGW-----------LLGNPECDLLL 71
Query: 388 AMQETEPALQCDNSEQGDTQPSTSIEIKNLREELENVKT 426
++ NSE G P I+ + LRE+L +V +
Sbjct: 72 TASSWSYIVETSNSENGTCYPGDFIDYEELREQLSSVSS 110
>pdb|3GBN|A Chain A, Crystal Structure Of Fab Cr6261 In Complex With The 1918
H1n1 Influenza Virus Hemagglutinin
pdb|3LZF|A Chain A, Crystal Structure Of Fab 2d1 In Complex With The 1918
Influenza Virus Hemagglutinin
pdb|3R2X|A Chain A, Crystal Structure Of The De Novo Designed Binding Protein
Hb36.3 In Complex The The 1918 Influenza Virus
Hemagglutinin
pdb|4EEF|A Chain A, Crystal Structure Of The Designed Inhibitor Protein
F-Hb80.4 In Complex With The 1918 Influenza Virus
Hemagglutinin.
pdb|4EEF|C Chain C, Crystal Structure Of The Designed Inhibitor Protein
F-Hb80.4 In Complex With The 1918 Influenza Virus
Hemagglutinin.
pdb|4EEF|E Chain E, Crystal Structure Of The Designed Inhibitor Protein
F-Hb80.4 In Complex With The 1918 Influenza Virus
Hemagglutinin.
pdb|4GXU|A Chain A, Crystal Structure Of Antibody 1f1 Bound To The 1918
Influenza Hemagglutinin
pdb|4GXU|C Chain C, Crystal Structure Of Antibody 1f1 Bound To The 1918
Influenza Hemagglutinin
pdb|4GXU|E Chain E, Crystal Structure Of Antibody 1f1 Bound To The 1918
Influenza Hemagglutinin
pdb|4GXU|G Chain G, Crystal Structure Of Antibody 1f1 Bound To The 1918
Influenza Hemagglutinin
pdb|4GXU|I Chain I, Crystal Structure Of Antibody 1f1 Bound To The 1918
Influenza Hemagglutinin
pdb|4GXU|K Chain K, Crystal Structure Of Antibody 1f1 Bound To The 1918
Influenza Hemagglutinin
Length = 331
Score = 28.5 bits (62), Expect = 8.9, Method: Compositional matrix adjust.
Identities = 24/99 (24%), Positives = 39/99 (39%), Gaps = 11/99 (11%)
Query: 328 NMGKTNSHPSLSEHDRRRLCKLMNCEKLSLDACTHAAQNDRLPLRTVVQVLFSEQVKMRT 387
N+ T+S L + +LCKL L L C A +L + + +
Sbjct: 27 NVTVTHSVNLLEDSHNGKLCKLKGIAPLQLGKCNIAGW-----------LLGNPECDLLL 75
Query: 388 AMQETEPALQCDNSEQGDTQPSTSIEIKNLREELENVKT 426
++ NSE G P I+ + LRE+L +V +
Sbjct: 76 TASSWSYIVETSNSENGTCYPGDFIDYEELREQLSSVSS 114
>pdb|2VT2|A Chain A, Structure And Functional Properties Of The Bacillus
Subtilis Transcriptional Repressor Rex
pdb|2VT2|B Chain B, Structure And Functional Properties Of The Bacillus
Subtilis Transcriptional Repressor Rex
pdb|2VT3|A Chain A, Structure And Functional Properties Of The Bacillus
Subtilis Transcriptional Repressor Rex
pdb|2VT3|B Chain B, Structure And Functional Properties Of The Bacillus
Subtilis Transcriptional Repressor Rex
Length = 215
Score = 28.5 bits (62), Expect = 9.5, Method: Compositional matrix adjust.
Identities = 13/29 (44%), Positives = 19/29 (65%), Gaps = 2/29 (6%)
Query: 292 AKLNSPEHNTMHNIDVVQRI--MDYFLMH 318
A+LN PEH +H+ID+ + + YFL H
Sbjct: 179 ARLNVPEHIRIHHIDLAVELQSLVYFLKH 207
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
0.317 0.132 0.393
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 13,827,025
Number of Sequences: 62578
Number of extensions: 551963
Number of successful extensions: 1394
Number of sequences better than 100.0: 24
Number of HSP's better than 100.0 without gapping: 7
Number of HSP's successfully gapped in prelim test: 17
Number of HSP's that attempted gapping in prelim test: 1381
Number of HSP's gapped (non-prelim): 29
length of query: 498
length of database: 14,973,337
effective HSP length: 103
effective length of query: 395
effective length of database: 8,527,803
effective search space: 3368482185
effective search space used: 3368482185
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: 53 (25.0 bits)