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= psy8677
         (99 letters)

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

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



>pdb|3I42|A Chain A, Structure Of Response Regulator Receiver Domain
          (Chey-Like) From Methylobacillus Flagellatus
          Length = 127

 Score = 27.3 bits (59), Expect = 2.3,   Method: Compositional matrix adjust.
 Identities = 11/19 (57%), Positives = 14/19 (73%)

Query: 45 VNCQDYAGLQLIKSLRALP 63
          +N  D +GL L+K LRALP
Sbjct: 55 LNLPDTSGLALVKQLRALP 73


>pdb|2G80|A Chain A, Crystal Structure Of Utr4 Protein (Unknown Transcript 4
           Protein) (Yel038w) From Saccharomyces Cerevisiae At 2.28
           A Resolution
 pdb|2G80|B Chain B, Crystal Structure Of Utr4 Protein (Unknown Transcript 4
           Protein) (Yel038w) From Saccharomyces Cerevisiae At 2.28
           A Resolution
 pdb|2G80|C Chain C, Crystal Structure Of Utr4 Protein (Unknown Transcript 4
           Protein) (Yel038w) From Saccharomyces Cerevisiae At 2.28
           A Resolution
 pdb|2G80|D Chain D, Crystal Structure Of Utr4 Protein (Unknown Transcript 4
           Protein) (Yel038w) From Saccharomyces Cerevisiae At 2.28
           A Resolution
          Length = 253

 Score = 25.8 bits (55), Expect = 5.7,   Method: Compositional matrix adjust.
 Identities = 11/37 (29%), Positives = 20/37 (54%), Gaps = 3/37 (8%)

Query: 59  LRALPDDIMKHAYIAQHQGRFQTAVYCDIIEYLRRRK 95
           L+ L   +  H Y     G+ +  VY D I++++R+K
Sbjct: 105 LKQLQGYVWAHGY---ESGQIKAPVYADAIDFIKRKK 138


  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    0.137    0.414 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 2,346,684
Number of Sequences: 62578
Number of extensions: 61922
Number of successful extensions: 186
Number of sequences better than 100.0: 2
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 185
Number of HSP's gapped (non-prelim): 2
length of query: 99
length of database: 14,973,337
effective HSP length: 65
effective length of query: 34
effective length of database: 10,905,767
effective search space: 370796078
effective search space used: 370796078
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: 45 (21.9 bits)