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= psy5133
         (313 letters)

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

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



>pdb|1D4U|A Chain A, Interactions Of Human Nucleotide Excision Repair Protein
           Xpa With Rpa70 And Dna: Chemical Shift Mapping And 15n
           Nmr Relaxation Studies
          Length = 111

 Score =  128 bits (321), Expect = 4e-30,   Method: Compositional matrix adjust.
 Identities = 57/99 (57%), Positives = 73/99 (73%)

Query: 128 LESEQPTCVECKKKFPQSFLYDKFGHSVCDSCRDGESKHCLVTRTDAKNEYLLKDCDLDK 187
           +E +   C EC K+F  S+L D F    CD CRD + KH L+T+T+AK EYLLKDCDL+K
Sbjct: 1   MEFDYVICEECGKEFMDSYLMDHFDLPTCDDCRDADDKHKLITKTEAKQEYLLKDCDLEK 60

Query: 188 REPVLRFLRAKNPHNKHWGDMKLYLSLQVEQRAIEVWGS 226
           REP L+F+  KNPH+  WGDMKLYL LQ+ +R++EVWGS
Sbjct: 61  REPPLKFIVKKNPHHSQWGDMKLYLKLQIVKRSLEVWGS 99


>pdb|1XPA|A Chain A, Solution Structure Of The Dna-And Rpa-Binding Domain Of
           The Human Repair Factor Xpa, Nmr, 1 Structure
          Length = 122

 Score =  127 bits (319), Expect = 8e-30,   Method: Compositional matrix adjust.
 Identities = 56/99 (56%), Positives = 74/99 (74%)

Query: 128 LESEQPTCVECKKKFPQSFLYDKFGHSVCDSCRDGESKHCLVTRTDAKNEYLLKDCDLDK 187
           +E +   C EC K+F  S+L + F    CD+CRD + KH L+T+T+AK EYLLKDCDL+K
Sbjct: 1   MEFDYVICEECGKEFMDSYLMNHFDLPTCDNCRDADDKHKLITKTEAKQEYLLKDCDLEK 60

Query: 188 REPVLRFLRAKNPHNKHWGDMKLYLSLQVEQRAIEVWGS 226
           REP L+F+  KNPH+  WGDMKLYL LQ+ +R++EVWGS
Sbjct: 61  REPPLKFIVKKNPHHSQWGDMKLYLKLQIVKRSLEVWGS 99


>pdb|2ENK|A Chain A, Solution Structure Of A Putativ Dna-Binding Domain Of The
           Humansolute Carrier Family 30 (Zinc Transporter) Protein
          Length = 101

 Score = 39.3 bits (90), Expect = 0.003,   Method: Compositional matrix adjust.
 Identities = 22/63 (34%), Positives = 36/63 (57%), Gaps = 5/63 (7%)

Query: 164 SKHCLVTRTDAKNEYLLKDCDLDKREPVLRFLRAKNPHNKHWGDMKLYLSLQVEQRAIEV 223
           +++  +T   A NE+ LK  DL++    LR +R ++PH        +YL   VE +++EV
Sbjct: 10  TQNNFITGVRAINEFCLKSSDLEQ----LRKIRRRSPHEDT-ESFTVYLRSDVEAKSLEV 64

Query: 224 WGS 226
           WGS
Sbjct: 65  WGS 67


  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
   0.315    0.131    0.390 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 8,502,089
Number of Sequences: 62578
Number of extensions: 318438
Number of successful extensions: 711
Number of sequences better than 100.0: 6
Number of HSP's better than 100.0 without gapping: 5
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 705
Number of HSP's gapped (non-prelim): 6
length of query: 313
length of database: 14,973,337
effective HSP length: 99
effective length of query: 214
effective length of database: 8,778,115
effective search space: 1878516610
effective search space used: 1878516610
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 51 (24.3 bits)