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= psy6569
         (164 letters)

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

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



>pdb|2VRD|A Chain A, The Structure Of The Zinc Finger From The Human
          Spliceosomal Protein U1c
          Length = 61

 Score =  115 bits (288), Expect = 1e-26,   Method: Compositional matrix adjust.
 Identities = 52/61 (85%), Positives = 57/61 (93%)

Query: 1  MPKYYCDYCDTYLTHDSPSVRKTHCQGRKHKDNVKFYYQKWMEEQAQNLIDATTAAYKAG 60
          MPK+YCDYCDTYLTHDSPSVRKTHC GRKHK+NVK YYQKWMEEQAQ+LID TTAA++ G
Sbjct: 1  MPKFYCDYCDTYLTHDSPSVRKTHCSGRKHKENVKDYYQKWMEEQAQSLIDKTTAAFQQG 60

Query: 61 K 61
          K
Sbjct: 61 K 61


>pdb|3CW1|L Chain L, Crystal Structure Of Human Spliceosomal U1 Snrnp
 pdb|3CW1|9 Chain 9, Crystal Structure Of Human Spliceosomal U1 Snrnp
 pdb|3CW1|0 Chain 0, Crystal Structure Of Human Spliceosomal U1 Snrnp
 pdb|3CW1|LL Chain l, Crystal Structure Of Human Spliceosomal U1 Snrnp
          Length = 77

 Score =  114 bits (286), Expect = 2e-26,   Method: Compositional matrix adjust.
 Identities = 52/62 (83%), Positives = 57/62 (91%)

Query: 1  MPKYYCDYCDTYLTHDSPSVRKTHCQGRKHKDNVKFYYQKWMEEQAQNLIDATTAAYKAG 60
          MPK+YCDYCDTYLTHDSPSVRKTHC GRKHK+NVK YY KWMEEQAQ+LID TTAA++ G
Sbjct: 1  MPKFYCDYCDTYLTHDSPSVRKTHCSGRKHKENVKDYYCKWMEEQAQSLIDKTTAAFQQG 60

Query: 61 KI 62
          KI
Sbjct: 61 KI 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
   0.317    0.132    0.423 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 2,848,863
Number of Sequences: 62578
Number of extensions: 92411
Number of successful extensions: 237
Number of sequences better than 100.0: 5
Number of HSP's better than 100.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 233
Number of HSP's gapped (non-prelim): 5
length of query: 164
length of database: 14,973,337
effective HSP length: 91
effective length of query: 73
effective length of database: 9,278,739
effective search space: 677347947
effective search space used: 677347947
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 47 (22.7 bits)