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= 008937
         (548 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 = 0.39,   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 = 1.2,   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|1ICX|A Chain A, Crystal Structure Of Pathogenesis-Related Protein
           Llpr10.1a From Yellow Lupine
          Length = 155

 Score = 29.6 bits (65), Expect = 4.8,   Method: Composition-based stats.
 Identities = 13/33 (39%), Positives = 23/33 (69%)

Query: 354 TKFQVLAESLPENARTCHDGLYRAIDTYLKSHP 386
           TK  VL+E++ + A+    GL++AI+ Y+ +HP
Sbjct: 121 TKGDVLSETVRDQAKFKGLGLFKAIEGYVLAHP 153


>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 = 28.5 bits (62), Expect = 9.5,   Method: Compositional matrix adjust.
 Identities = 21/89 (23%), Positives = 35/89 (39%), Gaps = 11/89 (12%)

Query: 388 LSEHDRRRLCKLMNCEKLSLDACTHAAQNDRLPLRTVVQVLFSEQVKMRTAMQETEPALQ 447
           L ++   +LCKL     L L  C  A             +L + +  +          ++
Sbjct: 33  LEDNHNGKLCKLNGIAPLQLGKCNVAGW-----------LLGNPECDLLLTANSWSYIIE 81

Query: 448 CDNSEQGDTQPSTSIEIKNLREELENVKT 476
             NSE G   P   I+ + LRE+L +V +
Sbjct: 82  TSNSENGTCYPGEFIDYEELREQLSSVSS 110


  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    0.392 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 15,169,728
Number of Sequences: 62578
Number of extensions: 607018
Number of successful extensions: 1506
Number of sequences better than 100.0: 20
Number of HSP's better than 100.0 without gapping: 8
Number of HSP's successfully gapped in prelim test: 12
Number of HSP's that attempted gapping in prelim test: 1495
Number of HSP's gapped (non-prelim): 22
length of query: 548
length of database: 14,973,337
effective HSP length: 104
effective length of query: 444
effective length of database: 8,465,225
effective search space: 3758559900
effective search space used: 3758559900
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: 54 (25.4 bits)