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= psy5045
         (407 letters)

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

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



>pdb|2K8Q|A Chain A, Nmr Structure Of Shq1p N-Terminal Domain
          Length = 134

 Score = 60.8 bits (146), Expect = 1e-09,   Method: Composition-based stats.
 Identities = 36/98 (36%), Positives = 53/98 (54%), Gaps = 6/98 (6%)

Query: 2  LTPMFELLQSEEDVTIIIKAPYANI----ADTEVYVEDTDFRFSSSPYYLRLNFPGPIKE 57
          +TP F + Q EE   I +K   +NI       E+ +++    F  SPYYLRL FP  + +
Sbjct: 2  ITPRFSITQDEE--FIFLKIFISNIRFSAVGLEIIIQENMIIFHLSPYYLRLRFPHELID 59

Query: 58 TDHTSGKYDSDKGQFTFTVIKVNTGEHFPDLDLISKLL 95
           + ++ +YDS        V K+N  E+F DLDL +KLL
Sbjct: 60 DERSTAQYDSKDECINVKVAKLNKNEYFEDLDLPTKLL 97


>pdb|3EUD|A Chain A, Structure Of The Cs Domain Of The Essential HACA RNP
           Assembly Protein Shq1p
 pdb|3EUD|B Chain B, Structure Of The Cs Domain Of The Essential HACA RNP
           Assembly Protein Shq1p
 pdb|3EUD|C Chain C, Structure Of The Cs Domain Of The Essential HACA RNP
           Assembly Protein Shq1p
 pdb|3EUD|D Chain D, Structure Of The Cs Domain Of The Essential HACA RNP
           Assembly Protein Shq1p
 pdb|3EUD|E Chain E, Structure Of The Cs Domain Of The Essential HACA RNP
           Assembly Protein Shq1p
 pdb|3EUD|F Chain F, Structure Of The Cs Domain Of The Essential HACA RNP
           Assembly Protein Shq1p
          Length = 115

 Score = 56.6 bits (135), Expect = 3e-08,   Method: Composition-based stats.
 Identities = 36/98 (36%), Positives = 53/98 (54%), Gaps = 6/98 (6%)

Query: 2   LTPMFELLQSEEDVTIIIKAPYANIADTEV----YVEDTDFRFSSSPYYLRLNFPGPIKE 57
           +TP F + Q EE   I +K   +NI  + V     +++    F  SPYYLRL FP  + +
Sbjct: 16  ITPRFSITQDEE--FIFLKIFISNIRFSAVGLEIIIQENXIIFHLSPYYLRLRFPHELID 73

Query: 58  TDHTSGKYDSDKGQFTFTVIKVNTGEHFPDLDLISKLL 95
            + ++ +YDS        V K+N  E+F DLDL +KLL
Sbjct: 74  DERSTAQYDSKDECINVKVAKLNKNEYFEDLDLPTKLL 111


>pdb|3ZUZ|A Chain A, Structure Of Shq1p C-Terminal Domain
          Length = 365

 Score = 45.4 bits (106), Expect = 5e-05,   Method: Compositional matrix adjust.
 Identities = 29/109 (26%), Positives = 53/109 (48%), Gaps = 27/109 (24%)

Query: 254 LGNREYLLSSEEKCAVLLSLVNILYAYCYDVRTTMGEHTVESGWTVNKLSSALCWLQSFT 313
           L  + YL+  E+   + ++++++L++Y ++     G HT ES WT+ KL   + +L    
Sbjct: 143 LPKKSYLV--EDIKPLYVTILSVLFSYVFEQIENEGTHTTESAWTMGKLCPQISFLDQ-- 198

Query: 314 SLKQV-----------------------LISSMRRSLCYPLYREWRLSC 339
            LKQV                       +I+ +RR+L YPL+R + L+ 
Sbjct: 199 QLKQVNELQDGMKEISKVNKDSSLIKIAIITGIRRALSYPLHRNYDLAM 247


>pdb|3UAH|A Chain A, Structure Of The Shq1 Specific Domain From Saccharomyces
           Cerevisiae
 pdb|3UAI|D Chain D, Structure Of The Shq1-Cbf5-Nop10-Gar1 Complex From
           Saccharomyces Cerevisiae
          Length = 366

 Score = 45.4 bits (106), Expect = 6e-05,   Method: Compositional matrix adjust.
 Identities = 29/109 (26%), Positives = 53/109 (48%), Gaps = 27/109 (24%)

Query: 254 LGNREYLLSSEEKCAVLLSLVNILYAYCYDVRTTMGEHTVESGWTVNKLSSALCWLQSFT 313
           L  + YL+  E+   + ++++++L++Y ++     G HT ES WT+ KL   + +L    
Sbjct: 144 LPKKSYLV--EDIKPLYVTILSVLFSYVFEQIENEGTHTTESAWTMGKLCPQISFLDQ-- 199

Query: 314 SLKQV-----------------------LISSMRRSLCYPLYREWRLSC 339
            LKQV                       +I+ +RR+L YPL+R + L+ 
Sbjct: 200 QLKQVNELQDGMKEISKVNKDSSLIKIAIITGIRRALSYPLHRNYDLAM 248


>pdb|3ZV0|A Chain A, Structure Of The Shq1p-Cbf5p Complex
 pdb|3ZV0|B Chain B, Structure Of The Shq1p-Cbf5p Complex
          Length = 369

 Score = 45.4 bits (106), Expect = 6e-05,   Method: Compositional matrix adjust.
 Identities = 29/109 (26%), Positives = 53/109 (48%), Gaps = 27/109 (24%)

Query: 254 LGNREYLLSSEEKCAVLLSLVNILYAYCYDVRTTMGEHTVESGWTVNKLSSALCWLQSFT 313
           L  + YL+  E+   + ++++++L++Y ++     G HT ES WT+ KL   + +L    
Sbjct: 141 LPKKSYLV--EDIKPLYVTILSVLFSYVFEQIENEGTHTTESAWTMGKLCPQISFLDQ-- 196

Query: 314 SLKQV-----------------------LISSMRRSLCYPLYREWRLSC 339
            LKQV                       +I+ +RR+L YPL+R + L+ 
Sbjct: 197 QLKQVNELQDGMKEISKVNKDSSLIKIAIITGIRRALSYPLHRNYDLAM 245


  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
   0.318    0.133    0.393 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 10,005,052
Number of Sequences: 62578
Number of extensions: 364585
Number of successful extensions: 707
Number of sequences better than 100.0: 7
Number of HSP's better than 100.0 without gapping: 5
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 699
Number of HSP's gapped (non-prelim): 7
length of query: 407
length of database: 14,973,337
effective HSP length: 101
effective length of query: 306
effective length of database: 8,652,959
effective search space: 2647805454
effective search space used: 2647805454
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: 53 (25.0 bits)