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= psy9260
         (217 letters)

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

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



>pdb|4I43|B Chain B, Crystal Structure Of Prp8:aar2 Complex
          Length = 1564

 Score =  261 bits (667), Expect = 2e-70,   Method: Compositional matrix adjust.
 Identities = 129/209 (61%), Positives = 149/209 (71%), Gaps = 41/209 (19%)

Query: 29  EKASGFEESMKYKKLTNAQRSGLNQIPNRRFTLWWSPTINRANVYVGFQVQLDLTGIFMH 88
           EKASGFE+SM++KKLT+AQR+GL+QIPNRRFTLWWSPTINRANVYVGF VQLDLTGIF+H
Sbjct: 727 EKASGFEDSMQFKKLTHAQRTGLSQIPNRRFTLWWSPTINRANVYVGFLVQLDLTGIFLH 786

Query: 89  GKIPTLKISLIQIFRAHLWQKVHESIVMDLCQ------------------------HSIN 124
           GKIPTLKISLIQIFRAHLWQK+HESIV D+CQ                        + +N
Sbjct: 787 GKIPTLKISLIQIFRAHLWQKIHESIVFDICQILDGELDVLQIESVTKETVHPRKSYKMN 846

Query: 125 FSP-----------------LMFISRDTMDSTTTQKYWLDVQLRWGDYDSHDIERYARAK 167
            S                  L+  + D+     T K W DVQLR+GDYDSHDI RY RAK
Sbjct: 847 SSAADITMESVHEWEVSKPSLLHETNDSFKGLITNKMWFDVQLRYGDYDSHDISRYVRAK 906

Query: 168 FLDYTTDNMSIYPSPTGVLIAIDLAYNLH 196
           FLDYTTDN+S+YPSPTGV+I IDLAYN++
Sbjct: 907 FLDYTTDNVSMYPSPTGVMIGIDLAYNMY 935


>pdb|3ZEF|B Chain B, Crystal Structure Of Prp8:aar2 Complex: Second Crystal
           Form At 3.1 Angstrom Resolution
 pdb|3ZEF|E Chain E, Crystal Structure Of Prp8:aar2 Complex: Second Crystal
           Form At 3.1 Angstrom Resolution
          Length = 1531

 Score =  261 bits (667), Expect = 2e-70,   Method: Compositional matrix adjust.
 Identities = 129/209 (61%), Positives = 149/209 (71%), Gaps = 41/209 (19%)

Query: 29  EKASGFEESMKYKKLTNAQRSGLNQIPNRRFTLWWSPTINRANVYVGFQVQLDLTGIFMH 88
           EKASGFE+SM++KKLT+AQR+GL+QIPNRRFTLWWSPTINRANVYVGF VQLDLTGIF+H
Sbjct: 694 EKASGFEDSMQFKKLTHAQRTGLSQIPNRRFTLWWSPTINRANVYVGFLVQLDLTGIFLH 753

Query: 89  GKIPTLKISLIQIFRAHLWQKVHESIVMDLCQ------------------------HSIN 124
           GKIPTLKISLIQIFRAHLWQK+HESIV D+CQ                        + +N
Sbjct: 754 GKIPTLKISLIQIFRAHLWQKIHESIVFDICQILDGELDVLQIESVTKETVHPRKSYKMN 813

Query: 125 FSP-----------------LMFISRDTMDSTTTQKYWLDVQLRWGDYDSHDIERYARAK 167
            S                  L+  + D+     T K W DVQLR+GDYDSHDI RY RAK
Sbjct: 814 SSAADITMESVHEWEVSKPSLLHETNDSFKGLITNKMWFDVQLRYGDYDSHDISRYVRAK 873

Query: 168 FLDYTTDNMSIYPSPTGVLIAIDLAYNLH 196
           FLDYTTDN+S+YPSPTGV+I IDLAYN++
Sbjct: 874 FLDYTTDNVSMYPSPTGVMIGIDLAYNMY 902


  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
   0.323    0.135    0.412 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,961,053
Number of Sequences: 62578
Number of extensions: 225955
Number of successful extensions: 523
Number of sequences better than 100.0: 2
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 519
Number of HSP's gapped (non-prelim): 4
length of query: 217
length of database: 14,973,337
effective HSP length: 95
effective length of query: 122
effective length of database: 9,028,427
effective search space: 1101468094
effective search space used: 1101468094
T: 11
A: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.5 bits)
S2: 49 (23.5 bits)