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= psy9172
         (80 letters)

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

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



>pdb|1SJR|A Chain A, Nmr Structure Of Rrm2 From Human Polypyrimidine Tract
          Binding Protein Isoform 1 (Ptb1)
          Length = 164

 Score = 38.9 bits (89), Expect = 8e-04,   Method: Compositional matrix adjust.
 Identities = 17/32 (53%), Positives = 25/32 (78%), Gaps = 1/32 (3%)

Query: 24 GGPNTVLRVIIEHMLYPITLDVLYQFDNYKFG 55
           G + VLR+I+E++ YP+TLDVL+Q  + KFG
Sbjct: 41 AGQSPVLRIIVENLFYPVTLDVLHQIFS-KFG 71


>pdb|3ZZY|A Chain A, Crystal Structure Of A Raver1 Pri3 Peptide In Complex
          With Polypyrimidine Tract Binding Protein Rrm2
 pdb|3ZZY|B Chain B, Crystal Structure Of A Raver1 Pri3 Peptide In Complex
          With Polypyrimidine Tract Binding Protein Rrm2
 pdb|3ZZZ|A Chain A, Crystal Structure Of A Raver1 Pri4 Peptide In Complex
          With Polypyrimidine Tract Binding Protein Rrm2
 pdb|3ZZZ|B Chain B, Crystal Structure Of A Raver1 Pri4 Peptide In Complex
          With Polypyrimidine Tract Binding Protein Rrm2
          Length = 130

 Score = 38.1 bits (87), Expect = 0.001,   Method: Compositional matrix adjust.
 Identities = 17/32 (53%), Positives = 25/32 (78%), Gaps = 1/32 (3%)

Query: 24 GGPNTVLRVIIEHMLYPITLDVLYQFDNYKFG 55
           G + VLR+I+E++ YP+TLDVL+Q  + KFG
Sbjct: 23 AGQSPVLRIIVENLFYPVTLDVLHQIFS-KFG 53


>pdb|2ADB|A Chain A, Solution Structure Of Polypyrimidine Tract Binding
          Protein Rbd2 Complexed With Cucucu Rna
          Length = 148

 Score = 38.1 bits (87), Expect = 0.001,   Method: Compositional matrix adjust.
 Identities = 17/32 (53%), Positives = 25/32 (78%), Gaps = 1/32 (3%)

Query: 24 GGPNTVLRVIIEHMLYPITLDVLYQFDNYKFG 55
           G + VLR+I+E++ YP+TLDVL+Q  + KFG
Sbjct: 28 AGQSPVLRIIVENLFYPVTLDVLHQIFS-KFG 58


>pdb|2E5I|A Chain A, Solution Structure Of Rna Binding Domain 2 In
          Heterogeneous Nuclear Ribonucleoprotein L-Like
          Length = 124

 Score = 37.0 bits (84), Expect = 0.003,   Method: Compositional matrix adjust.
 Identities = 18/34 (52%), Positives = 22/34 (64%)

Query: 18 GQTDTQGGPNTVLRVIIEHMLYPITLDVLYQFDN 51
          G TD   G N VL + I++ LYPIT+DVLY   N
Sbjct: 14 GNTDDPSGGNKVLLLSIQNPLYPITVDVLYTVCN 47


>pdb|1PX5|A Chain A, Crystal Structure Of The 2'-Specific And Double-Stranded
           Rna-Activated Interferon-Induced Antiviral Protein
           2'-5'- Oligoadenylate Synthetase
 pdb|1PX5|B Chain B, Crystal Structure Of The 2'-Specific And Double-Stranded
           Rna-Activated Interferon-Induced Antiviral Protein
           2'-5'- Oligoadenylate Synthetase
          Length = 349

 Score = 25.8 bits (55), Expect = 7.1,   Method: Composition-based stats.
 Identities = 14/45 (31%), Positives = 19/45 (42%)

Query: 22  TQGGPNTVLRVIIEHMLYPITLDVLYQFDNYKFGHAFSTSLAMPR 66
           T  G  TVL ++++H    I  +  Y F N   G      L  PR
Sbjct: 251 TAQGFQTVLELVLKHQKLCIFWEAYYDFTNPVVGRCMLQQLKKPR 295


  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
   0.320    0.136    0.397 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 1,881,654
Number of Sequences: 62578
Number of extensions: 55337
Number of successful extensions: 69
Number of sequences better than 100.0: 6
Number of HSP's better than 100.0 without gapping: 6
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 63
Number of HSP's gapped (non-prelim): 6
length of query: 80
length of database: 14,973,337
effective HSP length: 49
effective length of query: 31
effective length of database: 11,907,015
effective search space: 369117465
effective search space used: 369117465
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 45 (21.9 bits)