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= psy2203
         (74 letters)

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

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



>pdb|1O0P|A Chain A, Solution Structure Of The Third Rna Recognition Motif
          (Rrm) Of U2af65 In Complex With An N-Terminal Sf1
          Peptide
          Length = 104

 Score = 51.6 bits (122), Expect = 1e-07,   Method: Compositional matrix adjust.
 Identities = 27/56 (48%), Positives = 36/56 (64%)

Query: 15 SVLCLLNMVTPDELXXXXXXXXXXXXXXXXXNKYGIVRSLEIPRPIENVDVPGCGK 70
           VLCL+NMV P+EL                 +KYG+V+S+EIPRP++ V+VPGCGK
Sbjct: 5  EVLCLMNMVLPEELLDDEEYEEIVEDVRDECSKYGLVKSIEIPRPVDGVEVPGCGK 60


>pdb|1OPI|A Chain A, Solution Structure Of The Third Rna Recognition Motif
          (Rrm) Of U2af65 In Complex With An N-Terminal Sf1
          Peptide
 pdb|2M0G|B Chain B, Structure, Phosphorylation And U2af65 Binding Of The
          Nterminal Domain Of Splicing Factor 1 During 3 Splice
          Site Recognition
          Length = 104

 Score = 51.6 bits (122), Expect = 1e-07,   Method: Compositional matrix adjust.
 Identities = 27/56 (48%), Positives = 36/56 (64%)

Query: 15 SVLCLLNMVTPDELXXXXXXXXXXXXXXXXXNKYGIVRSLEIPRPIENVDVPGCGK 70
           VLCL+NMV P+EL                 +KYG+V+S+EIPRP++ V+VPGCGK
Sbjct: 5  EVLCLMNMVLPEELLDDEEYEEIVEDVRDECSKYGLVKSIEIPRPVDGVEVPGCGK 60


>pdb|3V4M|A Chain A, Crystal Structure Of A Rna Binding Domain Of A U2 Small
          Nuclear Ribonucleoprotein Auxiliary Factor 2 (U2af)
          From Mus Musculus At 1.80 A Resolution
 pdb|3V4M|B Chain B, Crystal Structure Of A Rna Binding Domain Of A U2 Small
          Nuclear Ribonucleoprotein Auxiliary Factor 2 (U2af)
          From Mus Musculus At 1.80 A Resolution
          Length = 105

 Score = 48.1 bits (113), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 26/56 (46%), Positives = 34/56 (60%)

Query: 15 SVLCLLNMVTPDELXXXXXXXXXXXXXXXXXNKYGIVRSLEIPRPIENVDVPGCGK 70
           VLCL N V P+EL                 +KYG+V+S+EIPRP++ V+VPGCGK
Sbjct: 6  EVLCLXNXVLPEELLDDEEYEEIVEDVRDECSKYGLVKSIEIPRPVDGVEVPGCGK 61


>pdb|4FXW|A Chain A, Structure Of Phosphorylated Sf1 Complex With U2af65-uhm
          Domain
 pdb|4FXW|C Chain C, Structure Of Phosphorylated Sf1 Complex With U2af65-uhm
          Domain
          Length = 106

 Score = 48.1 bits (113), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 26/56 (46%), Positives = 34/56 (60%)

Query: 15 SVLCLLNMVTPDELXXXXXXXXXXXXXXXXXNKYGIVRSLEIPRPIENVDVPGCGK 70
           VLCL N V P+EL                 +KYG+V+S+EIPRP++ V+VPGCGK
Sbjct: 7  EVLCLXNXVLPEELLDDEEYEEIVEDVRDECSKYGLVKSIEIPRPVDGVEVPGCGK 62


  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
   0.324    0.146    0.475 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 1,753,652
Number of Sequences: 62578
Number of extensions: 33728
Number of successful extensions: 338
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: 330
Number of HSP's gapped (non-prelim): 4
length of query: 74
length of database: 14,973,337
effective HSP length: 44
effective length of query: 30
effective length of database: 12,219,905
effective search space: 366597150
effective search space used: 366597150
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 45 (21.9 bits)