RPS-BLAST 2.2.26 [Sep-21-2011]

Database: pdb70 
           27,921 sequences; 6,701,793 total letters

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

Query= psy3545
         (130 letters)



>3nav_A Tryptophan synthase alpha chain; alpha subunit, structural
           genomics, CSG center for structural genomics of
           infectious diseases; 2.10A {Vibrio cholerae o1 biovar el
           tor}
          Length = 271

 Score = 27.5 bits (62), Expect = 1.2
 Identities = 8/20 (40%), Positives = 13/20 (65%)

Query: 109 YQSKFTRQYPASRKAFIPYL 128
           YQ+ F R   A + AF+P++
Sbjct: 7   YQALFQRLSAAQQGAFVPFV 26


>1qop_A Tryptophan synthase alpha chain; lyase, carbon-oxygen lyase,
           tryptophan biosynthesis, pyridoxal phosphate; HET: IPL
           PLP; 1.4A {Salmonella typhimurium} SCOP: c.1.2.4 PDB:
           1k8x_A* 1wbj_A* 2clk_A* 2j9z_A* 3cep_A* 1k8y_A* 1a5s_A*
           1a50_A* 1c29_A* 1c8v_A* 1c9d_A* 1bks_A* 1cx9_A* 1fuy_A*
           1cw2_A* 1k7e_A* 1k7f_A* 1k7x_A* 1k3u_A* 1k8z_A* ...
          Length = 268

 Score = 27.1 bits (61), Expect = 1.6
 Identities = 5/20 (25%), Positives = 11/20 (55%)

Query: 109 YQSKFTRQYPASRKAFIPYL 128
           Y++ F +       AF+P++
Sbjct: 4   YENLFAQLNDRREGAFVPFV 23


>3er6_A Putative transcriptional regulator protein; structural genomics,
           unknown function, DNA-binding, transcription regulation,
           PSI-2; 1.90A {Vibrio parahaemolyticus}
          Length = 209

 Score = 26.4 bits (59), Expect = 2.4
 Identities = 3/14 (21%), Positives = 6/14 (42%)

Query: 106 HWWYQSKFTRQYPA 119
           H ++   F   +P 
Sbjct: 135 HSYFAHLFGELFPE 148


>3gra_A Transcriptional regulator, ARAC family; transcription regulator,
           PSI-II, structural genomics structure initiative; 2.30A
           {Pseudomonas putida}
          Length = 202

 Score = 25.2 bits (56), Expect = 6.1
 Identities = 2/14 (14%), Positives = 6/14 (42%)

Query: 106 HWWYQSKFTRQYPA 119
           H   ++  + + P 
Sbjct: 128 HPEQRASLSERSPQ 141


>2jox_A Churchill protein; zinc, transcription; NMR {Homo sapiens}
          Length = 106

 Score = 24.2 bits (52), Expect = 9.0
 Identities = 13/40 (32%), Positives = 17/40 (42%)

Query: 18 NLKKILMCSSSNIKYFCNVSVYEQSFLNIVTYDHLLPTGG 57
          N     +CS  +     N S+ E+    IVTYDHL     
Sbjct: 25 NFTGCAVCSKRDFMLITNKSLKEEDGEEIVTYDHLCKNCH 64


  Database: pdb70
    Posted date:  Sep 4, 2012  3:40 AM
  Number of letters in database: 6,701,793
  Number of sequences in database:  27,921
  
Lambda     K      H
   0.325    0.137    0.442 

Gapped
Lambda     K      H
   0.267   0.0587    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,943,912
Number of extensions: 95934
Number of successful extensions: 239
Number of sequences better than 10.0: 1
Number of HSP's gapped: 239
Number of HSP's successfully gapped: 15
Length of query: 130
Length of database: 6,701,793
Length adjustment: 83
Effective length of query: 47
Effective length of database: 4,384,350
Effective search space: 206064450
Effective search space used: 206064450
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 52 (24.1 bits)