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= 035653
         (87 letters)

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

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



>pdb|1WII|A Chain A, Solution Structure Of Rsgi Ruh-025, A Duf701 Domain From
          Mouse Cdna
          Length = 85

 Score = 69.3 bits (168), Expect = 5e-13,   Method: Compositional matrix adjust.
 Identities = 30/65 (46%), Positives = 41/65 (63%)

Query: 23 LDTQFQCPFCGHGTSVECRIDKKIQIGEAFCWNCLERFCTQIHALTEPIDIYAEWIDECE 82
          L+TQF CPFC H  S + ++D+    G   C  CLE F T I  L+EP+D+Y++WID CE
Sbjct: 20 LETQFTCPFCNHEKSCDVKMDRARNTGVISCTVCLEEFQTPITYLSEPVDVYSDWIDACE 79

Query: 83 RANNS 87
             +S
Sbjct: 80 SGPSS 84


>pdb|3H0G|A Chain A, Rna Polymerase Ii From Schizosaccharomyces Pombe
 pdb|3H0G|M Chain M, Rna Polymerase Ii From Schizosaccharomyces Pombe
          Length = 1752

 Score = 26.2 bits (56), Expect = 5.0,   Method: Composition-based stats.
 Identities = 15/51 (29%), Positives = 20/51 (39%), Gaps = 18/51 (35%)

Query: 23  LDTQFQCPFCGHGTSVECR-----------------IDKKIQIGEAFCWNC 56
           +D QF+C  CG  T  +C                  + K  +I E  CWNC
Sbjct: 63  IDRQFKCQTCGE-TMADCPGHFGHIELAKPVFHIGFLSKIKKILECVCWNC 112


>pdb|3FAY|A Chain A, Crystal Structure Of The Gap-Related Domain Of Iqgap1
          Length = 387

 Score = 25.8 bits (55), Expect = 6.1,   Method: Composition-based stats.
 Identities = 7/15 (46%), Positives = 12/15 (80%)

Query: 68  TEPIDIYAEWIDECE 82
           T+P+DIY  W+++ E
Sbjct: 131 TDPVDIYKSWVNQXE 145


  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    0.138    0.471 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 2,245,185
Number of Sequences: 62578
Number of extensions: 67466
Number of successful extensions: 171
Number of sequences better than 100.0: 4
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 167
Number of HSP's gapped (non-prelim): 4
length of query: 87
length of database: 14,973,337
effective HSP length: 55
effective length of query: 32
effective length of database: 11,531,547
effective search space: 369009504
effective search space used: 369009504
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)