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= 034735
         (85 letters)

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

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



>pdb|1PCF|A Chain A, Human Transcriptional Coactivator Pc4 C-Terminal Domain
 pdb|1PCF|B Chain B, Human Transcriptional Coactivator Pc4 C-Terminal Domain
 pdb|1PCF|C Chain C, Human Transcriptional Coactivator Pc4 C-Terminal Domain
 pdb|1PCF|D Chain D, Human Transcriptional Coactivator Pc4 C-Terminal Domain
 pdb|1PCF|E Chain E, Human Transcriptional Coactivator Pc4 C-Terminal Domain
 pdb|1PCF|F Chain F, Human Transcriptional Coactivator Pc4 C-Terminal Domain
 pdb|1PCF|G Chain G, Human Transcriptional Coactivator Pc4 C-Terminal Domain
 pdb|1PCF|H Chain H, Human Transcriptional Coactivator Pc4 C-Terminal Domain
 pdb|2C62|A Chain A, Crystal Structure Of The Human Transcription Cofactor
          Pc4 In Complex With Single-Stranded Dna
 pdb|2C62|B Chain B, Crystal Structure Of The Human Transcription Cofactor
          Pc4 In Complex With Single-Stranded Dna
 pdb|2PHE|A Chain A, Model For Vp16 Binding To Pc4
 pdb|2PHE|B Chain B, Model For Vp16 Binding To Pc4
          Length = 66

 Score = 40.0 bits (92), Expect = 4e-04,   Method: Compositional matrix adjust.
 Identities = 21/44 (47%), Positives = 33/44 (75%), Gaps = 1/44 (2%)

Query: 42 VCEISKNRRVSVRNWQGKVWVDIREFYVK-EGKKFPGKKGSLLS 84
          + +I K R VSVR+++GKV +DIRE+++  EG+  PG+KG  L+
Sbjct: 2  MFQIGKMRYVSVRDFKGKVLIDIREYWMDPEGEMKPGRKGISLN 45


>pdb|4AGH|A Chain A, Structural Features Of Ssdna Binding Protein Mosub1 From
          Magnaporthe Oryzae
          Length = 158

 Score = 35.4 bits (80), Expect = 0.009,   Method: Compositional matrix adjust.
 Identities = 29/86 (33%), Positives = 41/86 (47%), Gaps = 7/86 (8%)

Query: 6  KRKEEEEYDSDGSVDGHAP-PKKASKTXXXXXXXXIVVCE------ISKNRRVSVRNWQG 58
          KR  +EE  S GS     P P K +K+         V  E      IS  RRV +  ++ 
Sbjct: 5  KRARDEEAQSGGSEAETKPAPVKKAKSKASNPGGSQVDAEGNPFWEISDKRRVGISQFKK 64

Query: 59 KVWVDIREFYVKEGKKFPGKKGSLLS 84
            +++IRE+Y   G+  PGKKG  L+
Sbjct: 65 MDFINIREYYEAGGEMKPGKKGIGLT 90


  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
   0.312    0.132    0.394 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 2,559,523
Number of Sequences: 62578
Number of extensions: 67971
Number of successful extensions: 70
Number of sequences better than 100.0: 4
Number of HSP's better than 100.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 66
Number of HSP's gapped (non-prelim): 4
length of query: 85
length of database: 14,973,337
effective HSP length: 53
effective length of query: 32
effective length of database: 11,656,703
effective search space: 373014496
effective search space used: 373014496
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.8 bits)
S2: 45 (21.9 bits)