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= psy2686
         (139 letters)

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

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



>pdb|3MKR|B Chain B, Crystal Structure Of Yeast AlphaEPSILON-Cop Subcomplex Of
           The Copi Vesicular Coat
          Length = 320

 Score =  182 bits (461), Expect = 6e-47,   Method: Compositional matrix adjust.
 Identities = 85/139 (61%), Positives = 101/139 (72%)

Query: 1   MGLQMETYRKEQLKSNESSQVRICELAAYFTHSKLQPVHQILTLRTATNLFFKLKNYKTT 60
           +GL MET RK+  K     Q RICE+AAYFTHS LQPVH IL LRTA NLFFKLKN++T 
Sbjct: 158 VGLSMETERKKLPKETLEQQKRICEMAAYFTHSNLQPVHMILVLRTALNLFFKLKNFRTA 217

Query: 61  ASFAHRLLELGPSMEVATQARKLLAICNANPTDEHTIDYDEHNPFQICARSYTPIYHGRE 120
           A+FA RLLELGP  EVA Q RK+L+ C  NPTD + ++YD HNPF ICA SY PIY G+ 
Sbjct: 218 AAFARRLLELGPKPEVAQQTRKILSACEKNPTDAYQLNYDMHNPFDICAASYRPIYRGKP 277

Query: 121 SEACVYCGASYLPKYKGEL 139
            E C   GA Y P++KG++
Sbjct: 278 VEKCPLSGACYSPEFKGQI 296


>pdb|3MV2|A Chain A, Crystal Structure Of A-Cop In Complex With E-Cop
 pdb|3MV2|C Chain C, Crystal Structure Of A-Cop In Complex With E-Cop
 pdb|3MV2|E Chain E, Crystal Structure Of A-Cop In Complex With E-Cop
          Length = 325

 Score = 84.3 bits (207), Expect = 2e-17,   Method: Compositional matrix adjust.
 Identities = 50/132 (37%), Positives = 74/132 (56%), Gaps = 3/132 (2%)

Query: 1   MGLQMETYRKEQLKSNESSQVRICELAAYFTHSKLQPVHQILTLRTATNLFFKLKNYKTT 60
           +GL +E  R+  LK  E + VR+ ELAAYFT +KL P+H+   L+ A +  FK KN+   
Sbjct: 170 LGLSIELERR-SLK--EGNTVRMLELAAYFTKAKLSPIHRTNALQVAMSQHFKHKNFLQA 226

Query: 61  ASFAHRLLELGPSMEVATQARKLLAICNANPTDEHTIDYDEHNPFQICARSYTPIYHGRE 120
           + FA   L++  S   A QARK+    ++  +D   ID+D +  F ICA +Y PIY    
Sbjct: 227 SYFAGEFLKIISSGPRAEQARKIKNKADSMASDAIPIDFDPYAKFDICAATYKPIYEDTP 286

Query: 121 SEACVYCGASYL 132
           S +    G+ Y+
Sbjct: 287 SVSDPLTGSKYV 298


>pdb|3MV3|A Chain A, Crystal Structure Of A-Cop In Complex With E-Cop
 pdb|3MV3|C Chain C, Crystal Structure Of A-Cop In Complex With E-Cop
 pdb|3MV3|E Chain E, Crystal Structure Of A-Cop In Complex With E-Cop
          Length = 325

 Score = 84.0 bits (206), Expect = 2e-17,   Method: Compositional matrix adjust.
 Identities = 50/132 (37%), Positives = 73/132 (55%), Gaps = 3/132 (2%)

Query: 1   MGLQMETYRKEQLKSNESSQVRICELAAYFTHSKLQPVHQILTLRTATNLFFKLKNYKTT 60
           +GL +E  R+  LK  E + VR  ELAAYFT +KL P+H+   L+ A +  FK KN+   
Sbjct: 170 LGLSIELERR-SLK--EGNTVRXLELAAYFTKAKLSPIHRTNALQVAXSQHFKHKNFLQA 226

Query: 61  ASFAHRLLELGPSMEVATQARKLLAICNANPTDEHTIDYDEHNPFQICARSYTPIYHGRE 120
           + FA   L++  S   A QARK+    ++  +D   ID+D +  F ICA +Y PIY    
Sbjct: 227 SYFAGEFLKIISSGPRAEQARKIKNKADSXASDAIPIDFDPYAKFDICAATYKPIYEDTP 286

Query: 121 SEACVYCGASYL 132
           S +    G+ Y+
Sbjct: 287 SVSDPLTGSKYV 298


>pdb|1A17|A Chain A, Tetratricopeptide Repeats Of Protein Phosphatase 5
          Length = 166

 Score = 29.6 bits (65), Expect = 0.57,   Method: Compositional matrix adjust.
 Identities = 14/40 (35%), Positives = 21/40 (52%)

Query: 44 LRTATNLFFKLKNYKTTASFAHRLLELGPSMEVATQARKL 83
          L+T  N +FK K+Y+    F  + +EL PS  +    R L
Sbjct: 16 LKTQANDYFKAKDYENAIKFYSQAIELNPSNAIYYGNRSL 55


>pdb|2BUG|A Chain A, Solution Structure Of The Tpr Domain From Protein
          Phosphatase 5 In Complex With Hsp90 Derived Peptide
          Length = 140

 Score = 29.6 bits (65), Expect = 0.62,   Method: Compositional matrix adjust.
 Identities = 14/40 (35%), Positives = 21/40 (52%)

Query: 44 LRTATNLFFKLKNYKTTASFAHRLLELGPSMEVATQARKL 83
          L+T  N +FK K+Y+    F  + +EL PS  +    R L
Sbjct: 24 LKTQANDYFKAKDYENAIKFYSQAIELNPSNAIYYGNRSL 63


>pdb|1WAO|1 Chain 1, Pp5 Structure
 pdb|1WAO|2 Chain 2, Pp5 Structure
 pdb|1WAO|3 Chain 3, Pp5 Structure
 pdb|1WAO|4 Chain 4, Pp5 Structure
          Length = 477

 Score = 29.3 bits (64), Expect = 0.71,   Method: Compositional matrix adjust.
 Identities = 14/40 (35%), Positives = 21/40 (52%)

Query: 44 LRTATNLFFKLKNYKTTASFAHRLLELGPSMEVATQARKL 83
          L+T  N +FK K+Y+    F  + +EL PS  +    R L
Sbjct: 9  LKTQANDYFKAKDYENAIKFYSQAIELNPSNAIYYGNRSL 48


  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
   0.319    0.132    0.392 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,850,297
Number of Sequences: 62578
Number of extensions: 132499
Number of successful extensions: 233
Number of sequences better than 100.0: 7
Number of HSP's better than 100.0 without gapping: 6
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 226
Number of HSP's gapped (non-prelim): 7
length of query: 139
length of database: 14,973,337
effective HSP length: 89
effective length of query: 50
effective length of database: 9,403,895
effective search space: 470194750
effective search space used: 470194750
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: 46 (22.3 bits)