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= 001004
         (1192 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 = 0.10,   Method: Composition-based stats.
 Identities = 24/79 (30%), Positives = 39/79 (49%), Gaps = 15/79 (18%)

Query: 292 NLEAIRRISFFSNSLFMDMPSAPKVRNMLSFSVLTPYYSEDVLFSINGLEKPNEDGVSIL 351
           N+E  R+++ F++ +F+ +P  P+V              EDVLF  +G  K +  G +I+
Sbjct: 48  NVETARQVTEFADIIFIXVPDTPQV--------------EDVLFGEHGCAKTSLQGKTIV 93

Query: 352 FYLQKIFPDEWMNFLERVN 370
                I P E   F +RVN
Sbjct: 94  -DXSSISPIETKRFAQRVN 111


>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 = 32.7 bits (73), Expect = 1.1,   Method: Compositional matrix adjust.
 Identities = 23/78 (29%), Positives = 36/78 (46%), Gaps = 2/78 (2%)

Query: 234 SHGGSYGKTEGMT-PLDQQVHFFGALGFPVYPETEAWKEKIRRLHLLLTV-KESAMDVPS 291
           S  GS    EG   PL+ Q++ F A  F  + E    K K+R L +L  V  E  +D  +
Sbjct: 106 SSDGSEHSLEGQKFPLEMQIYCFDADRFSSFEEAVKGKGKLRALSILFEVGTEENLDFKA 165

Query: 292 NLEAIRRISFFSNSLFMD 309
            ++ +  +S F     +D
Sbjct: 166 IIDGVESVSRFGKQAALD 183


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

 Score = 32.7 bits (73), Expect = 1.2,   Method: Compositional matrix adjust.
 Identities = 23/78 (29%), Positives = 36/78 (46%), Gaps = 2/78 (2%)

Query: 234 SHGGSYGKTEGMT-PLDQQVHFFGALGFPVYPETEAWKEKIRRLHLLLTV-KESAMDVPS 291
           S  GS    EG   PL+ Q++ F A  F  + E    K K+R L +L  V  E  +D  +
Sbjct: 107 SSDGSEHSLEGQKFPLEMQIYCFDADRFSSFEEAVKGKGKLRALSILFEVGTEENLDFKA 166

Query: 292 NLEAIRRISFFSNSLFMD 309
            ++ +  +S F     +D
Sbjct: 167 IIDGVESVSRFGKQAALD 184


  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
   0.324    0.139    0.414 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 31,778,438
Number of Sequences: 62578
Number of extensions: 1253421
Number of successful extensions: 3307
Number of sequences better than 100.0: 3
Number of HSP's better than 100.0 without gapping: 0
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 3307
Number of HSP's gapped (non-prelim): 3
length of query: 1192
length of database: 14,973,337
effective HSP length: 110
effective length of query: 1082
effective length of database: 8,089,757
effective search space: 8753117074
effective search space used: 8753117074
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.5 bits)
S2: 57 (26.6 bits)