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= psy10302
         (125 letters)

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

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



>pdb|1XR5|A Chain A, Crystal Structure Of The Rna-Dependent Rna Polymerase 3d
           From Human Rhinovirus Serotype 14
          Length = 466

 Score = 27.3 bits (59), Expect = 2.4,   Method: Compositional matrix adjust.
 Identities = 10/22 (45%), Positives = 14/22 (63%)

Query: 68  FGSNIIPPKPSKTFLQLVWEAL 89
           +G  I PP  S+TF ++ WE L
Sbjct: 349 YGLTITPPDKSETFTKMTWENL 370


>pdb|3G0T|A Chain A, Crystal Structure Of Putative Aspartate Aminotransferase
           (Np_905498.1) From Porphyromonas Gingivalis W83 At 1.75
           A Resolution
 pdb|3G0T|B Chain B, Crystal Structure Of Putative Aspartate Aminotransferase
           (Np_905498.1) From Porphyromonas Gingivalis W83 At 1.75
           A Resolution
          Length = 437

 Score = 26.6 bits (57), Expect = 4.0,   Method: Compositional matrix adjust.
 Identities = 14/45 (31%), Positives = 21/45 (46%)

Query: 20  ELMEVRGREGIAKINEYGGVPEICKKLYTSPNEGLGGSQTDLEHR 64
           +L E RG +   K+  Y    + C  +Y++PN       TD E R
Sbjct: 161 DLFEYRGEKLREKLESYLQTGQFCSIIYSNPNNPTWQCXTDEELR 205


>pdb|2EYQ|A Chain A, Crystal Structure Of Escherichia Coli Transcription-Repair
            Coupling Factor
 pdb|2EYQ|B Chain B, Crystal Structure Of Escherichia Coli Transcription-Repair
            Coupling Factor
          Length = 1151

 Score = 26.2 bits (56), Expect = 5.0,   Method: Compositional matrix adjust.
 Identities = 18/51 (35%), Positives = 26/51 (50%), Gaps = 4/51 (7%)

Query: 15   LRQLRELMEVRGREGIAKINEYGGVPEICKKLYTSPNEGLGGSQTDLEHRR 65
            LRQ  + + +R  EG    NE GGV E  +K + +P   +G  Q   +H R
Sbjct: 1069 LRQQAQKLGIRKLEG----NEKGGVIEFAEKNHVNPAWLIGLLQKQPQHYR 1115


  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
   0.316    0.138    0.400 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,071,359
Number of Sequences: 62578
Number of extensions: 156896
Number of successful extensions: 263
Number of sequences better than 100.0: 5
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 261
Number of HSP's gapped (non-prelim): 5
length of query: 125
length of database: 14,973,337
effective HSP length: 86
effective length of query: 39
effective length of database: 9,591,629
effective search space: 374073531
effective search space used: 374073531
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (22.0 bits)
S2: 45 (21.9 bits)