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= 000585
         (1406 letters)

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

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



>pdb|1YB4|A Chain A, Crystal Structure Of The Tartronic Semialdehyde Reductase
           From Salmonella Typhimurium Lt2
 pdb|1YB4|B Chain B, Crystal Structure Of The Tartronic Semialdehyde Reductase
           From Salmonella Typhimurium Lt2
          Length = 295

 Score = 36.2 bits (82), Expect = 0.12,   Method: Composition-based stats.
 Identities = 24/79 (30%), Positives = 39/79 (49%), Gaps = 15/79 (18%)

Query: 506 NLEAIRRISFFSNSLFMDMPSAPKVRNMLSFSVLTPYYSEDVLFSINGLEKPNEDGVSIL 565
           N+E  R+++ F++ +F+ +P  P+V              EDVLF  +G  K +  G +I+
Sbjct: 48  NVETARQVTEFADIIFIXVPDTPQV--------------EDVLFGEHGCAKTSLQGKTIV 93

Query: 566 FYLQKIFPDEWMNFLERVN 584
                I P E   F +RVN
Sbjct: 94  -DXSSISPIETKRFAQRVN 111


>pdb|3S97|A Chain A, Ptprz Cntn1 Complex
 pdb|3S97|B Chain B, Ptprz Cntn1 Complex
          Length = 273

 Score = 33.5 bits (75), Expect = 0.90,   Method: Compositional matrix adjust.
 Identities = 23/78 (29%), Positives = 36/78 (46%), Gaps = 2/78 (2%)

Query: 448 SHGGSYGKTEGMT-PLDQQVHFFGALGFPVYPETEAWKEKIRRLHLLLTV-KESAMDVPS 505
           S  GS    EG   PL+ Q++ F A  F  + E    K K+R L +L  V  E  +D  +
Sbjct: 107 SSDGSEHSLEGQKFPLEMQIYCFDADRFSSFEEAVKGKGKLRALSILFEVGTEENLDFKA 166

Query: 506 NLEAIRRISFFSNSLFMD 523
            ++ +  +S F     +D
Sbjct: 167 IIDGVESVSRFGKQAALD 184


>pdb|3JXF|A Chain A, Ca-Like Domain Of Human Ptprz
 pdb|3JXF|B Chain B, Ca-Like Domain Of Human Ptprz
          Length = 272

 Score = 33.5 bits (75), Expect = 0.92,   Method: Compositional matrix adjust.
 Identities = 23/78 (29%), Positives = 36/78 (46%), Gaps = 2/78 (2%)

Query: 448 SHGGSYGKTEGMT-PLDQQVHFFGALGFPVYPETEAWKEKIRRLHLLLTV-KESAMDVPS 505
           S  GS    EG   PL+ Q++ F A  F  + E    K K+R L +L  V  E  +D  +
Sbjct: 106 SSDGSEHSLEGQKFPLEMQIYCFDADRFSSFEEAVKGKGKLRALSILFEVGTEENLDFKA 165

Query: 506 NLEAIRRISFFSNSLFMD 523
            ++ +  +S F     +D
Sbjct: 166 IIDGVESVSRFGKQAALD 183


>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 = 30.0 bits (66), Expect = 9.1,   Method: Compositional matrix adjust.
 Identities = 15/30 (50%), Positives = 20/30 (66%)

Query: 116 KYTTFWILLIASKLAFSYFVEIKPLVGPTK 145
           +Y   WI LIAS   F+YF+ I PL+G T+
Sbjct: 386 EYPYDWISLIASTYWFAYFLVILPLLGATE 415


  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
   0.325    0.139    0.419 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 37,523,454
Number of Sequences: 62578
Number of extensions: 1473637
Number of successful extensions: 3779
Number of sequences better than 100.0: 4
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 3777
Number of HSP's gapped (non-prelim): 5
length of query: 1406
length of database: 14,973,337
effective HSP length: 111
effective length of query: 1295
effective length of database: 8,027,179
effective search space: 10395196805
effective search space used: 10395196805
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 58 (26.9 bits)