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= psy11122
         (212 letters)

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

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



>pdb|3RLS|A Chain A, Crystal Structure Of Yeast Af-9 Homolog Protein Yaf9
 pdb|3RLS|B Chain B, Crystal Structure Of Yeast Af-9 Homolog Protein Yaf9
          Length = 175

 Score = 64.3 bits (155), Expect = 5e-11,   Method: Compositional matrix adjust.
 Identities = 35/96 (36%), Positives = 52/96 (54%), Gaps = 7/96 (7%)

Query: 93  GTMCKSLGS----PACGQSTHKWTVYVRNCESNPENIVRHIAHVKFMLHESYAPNNVVIV 148
           G   K +GS     A  + TH WT++VR  ++  E+I   I  V F LH++Y PN V  +
Sbjct: 13  GNTAKKMGSVKPPNAPAEHTHLWTIFVRGPQN--EDISYFIKKVVFKLHDTY-PNPVRSI 69

Query: 149 RKAPFKITREGWGEFPMKITIGFVDRENNRNVELVH 184
              PF++T  GWGEF + I + FV+  N + +   H
Sbjct: 70  EAPPFELTETGWGEFDINIKVYFVEEANEKVLNFYH 105


>pdb|3FK3|A Chain A, Structure Of The Yeats Domain, Yaf9
 pdb|3FK3|B Chain B, Structure Of The Yeats Domain, Yaf9
 pdb|3FK3|C Chain C, Structure Of The Yeats Domain, Yaf9
          Length = 164

 Score = 62.8 bits (151), Expect = 1e-10,   Method: Compositional matrix adjust.
 Identities = 35/96 (36%), Positives = 51/96 (53%), Gaps = 7/96 (7%)

Query: 93  GTMCKSLGS----PACGQSTHKWTVYVRNCESNPENIVRHIAHVKFMLHESYAPNNVVIV 148
           G   K  GS     A  + TH WT++VR  ++  E+I   I  V F LH++Y PN V  +
Sbjct: 16  GNTAKKXGSVKPPNAPAEHTHLWTIFVRGPQN--EDISYFIKKVVFKLHDTY-PNPVRSI 72

Query: 149 RKAPFKITREGWGEFPMKITIGFVDRENNRNVELVH 184
              PF++T  GWGEF + I + FV+  N + +   H
Sbjct: 73  EAPPFELTETGWGEFDINIKVYFVEEANEKVLNFYH 108


>pdb|3QRL|A Chain A, Crystal Structure Of The Taf14 Yeats Domain
          Length = 140

 Score = 39.7 bits (91), Expect = 0.001,   Method: Compositional matrix adjust.
 Identities = 20/60 (33%), Positives = 33/60 (55%), Gaps = 5/60 (8%)

Query: 132 VKFMLHESYA-PNNVVIVRKAPFKITREGWGEFPMKITIGFVDRENNRNVELVHPVNFLH 190
           V + LH ++A PN        PF+I  +GWG FP+ I++  +++   R +   H +NFL 
Sbjct: 57  VIYHLHPTFANPNRTFT--DPPFRIEEQGWGGFPLDISVFLLEKAGERKIP--HDLNFLQ 112


>pdb|2L7E|A Chain A, The Structure Of A Domain From Yeast
          Length = 131

 Score = 39.3 bits (90), Expect = 0.002,   Method: Compositional matrix adjust.
 Identities = 20/60 (33%), Positives = 33/60 (55%), Gaps = 5/60 (8%)

Query: 132 VKFMLHESYA-PNNVVIVRKAPFKITREGWGEFPMKITIGFVDRENNRNVELVHPVNFLH 190
           V + LH ++A PN        PF+I  +GWG FP+ I++  +++   R +   H +NFL 
Sbjct: 54  VIYHLHPTFANPNRTF--TDPPFRIEEQGWGGFPLDISVFLLEKAGERKIP--HDLNFLQ 109


  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
   0.321    0.136    0.411 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,588,892
Number of Sequences: 62578
Number of extensions: 201532
Number of successful extensions: 417
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: 411
Number of HSP's gapped (non-prelim): 4
length of query: 212
length of database: 14,973,337
effective HSP length: 95
effective length of query: 117
effective length of database: 9,028,427
effective search space: 1056325959
effective search space used: 1056325959
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 49 (23.5 bits)