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= psy12164
         (57 letters)

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

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



>pdb|3DWD|A Chain A, Crystal Structure Of The Arfgap Domain Of Human Arfgap1
 pdb|3DWD|B Chain B, Crystal Structure Of The Arfgap Domain Of Human Arfgap1
          Length = 147

 Score = 43.1 bits (100), Expect = 4e-05,   Method: Compositional matrix adjust.
 Identities = 16/27 (59%), Positives = 23/27 (85%)

Query: 2   TIQQKYNTKAAALYRDKIATLARGEEW 28
           ++Q+KYN++AAAL+RDK+  LA G EW
Sbjct: 117 SLQEKYNSRAAALFRDKVVALAEGREW 143


>pdb|3O47|A Chain A, Crystal Structure Of Arfgap1-Arf1 Fusion Protein
 pdb|3O47|B Chain B, Crystal Structure Of Arfgap1-Arf1 Fusion Protein
          Length = 329

 Score = 42.0 bits (97), Expect = 8e-05,   Method: Composition-based stats.
 Identities = 16/27 (59%), Positives = 23/27 (85%)

Query: 2   TIQQKYNTKAAALYRDKIATLARGEEW 28
           ++Q+KYN++AAAL+RDK+  LA G EW
Sbjct: 116 SLQEKYNSRAAALFRDKVVALAEGREW 142


>pdb|2CRW|A Chain A, Solution Structure Of The Arfgap Domain Of
           Adp-Ribosylation Factor Gtpaseactivating Protein 3
           (Arfgap 3)
          Length = 149

 Score = 29.3 bits (64), Expect = 0.61,   Method: Compositional matrix adjust.
 Identities = 12/18 (66%), Positives = 16/18 (88%)

Query: 6   KYNTKAAALYRDKIATLA 23
           KYN++AA LYR+KI +LA
Sbjct: 111 KYNSRAAQLYREKIKSLA 128


>pdb|2P57|A Chain A, Gap Domain Of Znf289, An Id1-Regulated Zinc Finger Protein
          Length = 144

 Score = 25.4 bits (54), Expect = 7.8,   Method: Compositional matrix adjust.
 Identities = 10/18 (55%), Positives = 14/18 (77%)

Query: 6   KYNTKAAALYRDKIATLA 23
           KYN++AA +YR+KI  L 
Sbjct: 119 KYNSRAAQMYREKIRQLG 136


  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    0.128    0.366 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 776,636
Number of Sequences: 62578
Number of extensions: 9143
Number of successful extensions: 24
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: 20
Number of HSP's gapped (non-prelim): 4
length of query: 57
length of database: 14,973,337
effective HSP length: 29
effective length of query: 28
effective length of database: 13,158,575
effective search space: 368440100
effective search space used: 368440100
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 45 (21.9 bits)