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= 002258
         (946 letters)

Database: pdbaa 
           62,578 sequences; 14,973,337 total letters

Searching..................................................done



>pdb|3K6S|A Chain A, Structure Of Integrin Alphaxbeta2 Ectodomain
 pdb|3K6S|C Chain C, Structure Of Integrin Alphaxbeta2 Ectodomain
 pdb|3K6S|E Chain E, Structure Of Integrin Alphaxbeta2 Ectodomain
 pdb|3K6S|G Chain G, Structure Of Integrin Alphaxbeta2 Ectodomain
 pdb|3K71|A Chain A, Structure Of Integrin Alphax Beta2 Ectodomain
 pdb|3K71|C Chain C, Structure Of Integrin Alphax Beta2 Ectodomain
 pdb|3K71|E Chain E, Structure Of Integrin Alphax Beta2 Ectodomain
 pdb|3K71|G Chain G, Structure Of Integrin Alphax Beta2 Ectodomain
 pdb|3K72|A Chain A, Structure Of Integrin Alphax Beta2
 pdb|3K72|C Chain C, Structure Of Integrin Alphax Beta2
          Length = 1095

 Score = 32.0 bits (71), Expect = 1.7,   Method: Compositional matrix adjust.
 Identities = 20/52 (38%), Positives = 29/52 (55%), Gaps = 3/52 (5%)

Query: 659 IYLKGEKYQLRGHINVQSRSPIGVHELP--ENIIVDILNGDGSISNRTTATL 708
           +YL G  + L G   +  R P+   E P  E  IV +++G GSIS+R  AT+
Sbjct: 101 MYLTGLCF-LLGPTQLTQRLPVSRQECPRQEQDIVFLIDGSGSISSRNFATM 151


>pdb|1OX4|A Chain A, Towards Understanding The Mechanism Of The Complex
           Cyclization Reaction Catalyzed By Imidazole
           Glycerophosphate Synthase
 pdb|1OX6|A Chain A, Towards Understanding The Mechanism Of The Complex
           Cyclization Reaction Catalyzed By Imidazole
           Glycerophosphate Synthase
 pdb|1OX6|B Chain B, Towards Understanding The Mechanism Of The Complex
           Cyclization Reaction Catalyzed By Imidazole
           Glycerophosphate Synthase
          Length = 555

 Score = 29.6 bits (65), Expect = 9.4,   Method: Compositional matrix adjust.
 Identities = 22/71 (30%), Positives = 35/71 (49%), Gaps = 4/71 (5%)

Query: 122 RFTGFTLLGRVVGAIG-GE---SCLDKGGGPSNVNVELLSHSGDLISSVITSSEGSYLFK 177
           R  G   L R   A+G GE   +C+DK G  S  ++EL+ H  D +   + +S G+ + +
Sbjct: 450 RDLGVWELTRACEALGAGEILLNCIDKDGSNSGYDLELIEHVKDAVKIPVIASSGAGVPE 509

Query: 178 NIIPGKYKLRA 188
           +      K RA
Sbjct: 510 HFEEAFLKTRA 520


>pdb|1JVN|A Chain A, Crystal Structure Of Imidazole Glycerol Phosphate
           Synthase: A Tunnel Through A (BetaALPHA)8 BARREL JOINS
           TWO ACTIVE SITES
 pdb|1JVN|B Chain B, Crystal Structure Of Imidazole Glycerol Phosphate
           Synthase: A Tunnel Through A (BetaALPHA)8 BARREL JOINS
           TWO ACTIVE SITES
 pdb|1OX4|B Chain B, Towards Understanding The Mechanism Of The Complex
           Cyclization Reaction Catalyzed By Imidazole
           Glycerophosphate Synthase
 pdb|1OX5|A Chain A, Towards Understanding The Mechanism Of The Complex
           Cyclization Reaction Catalyzed By Imidazole
           Glycerophosphate Synthase
 pdb|1OX5|B Chain B, Towards Understanding The Mechanism Of The Complex
           Cyclization Reaction Catalyzed By Imidazole
           Glycerophosphate Synthase
          Length = 555

 Score = 29.3 bits (64), Expect = 9.8,   Method: Compositional matrix adjust.
 Identities = 22/71 (30%), Positives = 35/71 (49%), Gaps = 4/71 (5%)

Query: 122 RFTGFTLLGRVVGAIG-GE---SCLDKGGGPSNVNVELLSHSGDLISSVITSSEGSYLFK 177
           R  G   L R   A+G GE   +C+DK G  S  ++EL+ H  D +   + +S G+ + +
Sbjct: 450 RDLGVWELTRACEALGAGEILLNCIDKDGSNSGYDLELIEHVKDAVKIPVIASSGAGVPE 509

Query: 178 NIIPGKYKLRA 188
           +      K RA
Sbjct: 510 HFEEAFLKTRA 520


  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    0.137    0.410 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 30,110,451
Number of Sequences: 62578
Number of extensions: 1397248
Number of successful extensions: 2939
Number of sequences better than 100.0: 8
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 6
Number of HSP's that attempted gapping in prelim test: 2930
Number of HSP's gapped (non-prelim): 16
length of query: 946
length of database: 14,973,337
effective HSP length: 108
effective length of query: 838
effective length of database: 8,214,913
effective search space: 6884097094
effective search space used: 6884097094
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 56 (26.2 bits)