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= 041981
         (379 letters)

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

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



>pdb|3OJY|B Chain B, Crystal Structure Of Human Complement Component C8
          Length = 537

 Score = 28.5 bits (62), Expect = 6.2,   Method: Compositional matrix adjust.
 Identities = 12/48 (25%), Positives = 20/48 (41%)

Query: 187 YEYITLEDLMFDSNYRGGAISVINSLRTSIDNCYIARFTSNGILVQSG 234
           YE +T  D  + S  R      +   +  + +C+ A    NG+ V  G
Sbjct: 417 YELVTATDFAYSSTVRQNMKQALEEFQKEVSSCHCAPCQGNGVPVLKG 464


>pdb|2EHG|A Chain A, Crystal Structure Of Hyperthermophilic Archaeal Rnase Hi
          Length = 149

 Score = 28.5 bits (62), Expect = 6.8,   Method: Compositional matrix adjust.
 Identities = 15/42 (35%), Positives = 26/42 (61%), Gaps = 2/42 (4%)

Query: 325 NSYMDYTGIVA--EDPVQLHISSSFFLGDAFIVLKSINGVAK 364
           N+  +Y+G++   E  ++L ISS    GD+ +V+K +NG  K
Sbjct: 48  NNVAEYSGLICLMETMLRLGISSPIIKGDSQLVIKQMNGEYK 89


>pdb|3ALY|A Chain A, Crystal Structure Of Rnase Hi From Sulfolobus Tokodaii
           With C-Terminal Deletion
 pdb|3ALY|B Chain B, Crystal Structure Of Rnase Hi From Sulfolobus Tokodaii
           With C-Terminal Deletion
          Length = 143

 Score = 28.5 bits (62), Expect = 6.9,   Method: Compositional matrix adjust.
 Identities = 15/42 (35%), Positives = 26/42 (61%), Gaps = 2/42 (4%)

Query: 325 NSYMDYTGIVA--EDPVQLHISSSFFLGDAFIVLKSINGVAK 364
           N+  +Y+G++   E  ++L ISS    GD+ +V+K +NG  K
Sbjct: 48  NNVAEYSGLICLMETMLRLGISSPIIKGDSQLVIKQMNGEYK 89


>pdb|1RU4|A Chain A, Crystal Structure Of Pectate Lyase Pel9a
          Length = 400

 Score = 27.7 bits (60), Expect = 9.8,   Method: Compositional matrix adjust.
 Identities = 20/46 (43%), Positives = 25/46 (54%), Gaps = 5/46 (10%)

Query: 197 FDSNYRGGAISVINSLRTSIDNCYIARFTSNGILVQSGHETYIRNS 242
           FD N   G ++VIN+  TS  N     F SN   VQSG + Y RN+
Sbjct: 273 FDQNNNAGGVTVINN--TSYKNGINYGFGSN---VQSGQKHYFRNN 313


  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
   0.318    0.137    0.396 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 11,142,170
Number of Sequences: 62578
Number of extensions: 467226
Number of successful extensions: 925
Number of sequences better than 100.0: 6
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 5
Number of HSP's that attempted gapping in prelim test: 924
Number of HSP's gapped (non-prelim): 6
length of query: 379
length of database: 14,973,337
effective HSP length: 100
effective length of query: 279
effective length of database: 8,715,537
effective search space: 2431634823
effective search space used: 2431634823
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: 52 (24.6 bits)