RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy5589
         (60 letters)



>1q4g_A Prostaglandin G/H synthase 1; cyclooxygenase, non-steroidal
           anti-inflammatory drug, peroxi prostaglandin synthase,
           EGF-like domain; HET: BOG NAG NDG BMA MAN BFL HEM; 2.00A
           {Ovis aries} SCOP: a.93.1.2 g.3.11.1 PDB: 1diy_A*
           2ayl_A* 3kk6_A* 3n8v_A* 3n8w_A* 3n8x_A* 3n8y_A* 3n8z_A*
           2oyu_P* 2oye_P* 1eqg_A* 1cqe_A* 1eqh_A* 1igz_A* 1igx_A*
           1fe2_A* 1pge_A* 1pgf_A* 1pgg_A* 3n8w_B* ...
          Length = 553

 Score = 49.3 bits (117), Expect = 4e-09
 Identities = 12/56 (21%), Positives = 17/56 (30%), Gaps = 3/56 (5%)

Query: 2   TRKTPPAYSDGVYMLAGMD---RPSPRTLSTLFMKGEDGQPSMKNRTALLAFFGKF 54
           TR  P    D    +        P    LS  F+      P  +    + AFF + 
Sbjct: 118 TRILPSVPRDCPTPMGTKGKKQLPDAEFLSRRFLLRRKFIPDPQGTNLMFAFFAQH 173


>3nt1_A Prostaglandin-endoperoxide synthase 2; prostaglandin H2 synthase,
           cyclooxygenase-2, naproxen, oxido; HET: NAG BOG NPS HEM;
           1.73A {Mus musculus} PDB: 3ln1_A* 3mqe_A* 3ln0_A*
           3ntb_A* 3q7d_A* 1pxx_A* 3pgh_A* 1cx2_A* 4cox_A* 5cox_A*
           6cox_A* 3qh0_A* 3qmo_A* 4e1g_A* 3olu_A* 3olt_A* 3hs5_A*
           3hs6_A* 3hs7_A* 3krk_A* ...
          Length = 587

 Score = 46.3 bits (109), Expect = 5e-08
 Identities = 10/58 (17%), Positives = 20/58 (34%), Gaps = 3/58 (5%)

Query: 1   MTRKTPPAYSDGVY---MLAGMDRPSPRTLSTLFMKGEDGQPSMKNRTALLAFFGKFW 55
            TR  PP   D      +    + P  + +    +   +  P  +    + AFF + +
Sbjct: 117 YTRALPPVADDCPTPMGVKGNKELPDSKEVLEKVLLRREFIPDPQGSNMMFAFFAQHF 174


>1d2v_A Myeloperoxidase; heme-protein, oxidoreductase,
          peroxidase-bromide; HET: NAG BMA MAN FUC HEM; 1.75A
          {Homo sapiens} SCOP: a.93.1.2 PDB: 1cxp_A* 1d5l_A*
          1d7w_A* 1dnu_A* 1dnw_A* 4dl1_A* 3zs1_A* 3f9p_A* 1mhl_A*
          1myp_A* 3zs0_A*
          Length = 104

 Score = 36.9 bits (85), Expect = 4e-05
 Identities = 11/64 (17%), Positives = 20/64 (31%), Gaps = 10/64 (15%)

Query: 1  MTRKTPPAYSDGVYMLA---------GMDRPSPRTLSTLFMKG-EDGQPSMKNRTALLAF 50
            R  P  Y DG  +           G      R +S   ++   D     + R+ +   
Sbjct: 29 FVRWLPAEYEDGFSLPYGWTPGVKRNGFPVALARAVSNEIVRFPTDQLTPDQERSLMFMQ 88

Query: 51 FGKF 54
          +G+ 
Sbjct: 89 WGQL 92


>1rku_A Homoserine kinase; phosphoserine phosphatase,
          phosphoserine:homoserine phosphotransferase, THRH,
          phosphoserine phosphoryl donor; 1.47A {Pseudomonas
          aeruginosa} SCOP: c.108.1.11 PDB: 1rkv_A
          Length = 206

 Score = 24.1 bits (53), Expect = 3.3
 Identities = 6/22 (27%), Positives = 8/22 (36%), Gaps = 1/22 (4%)

Query: 32 MKGE-DGQPSMKNRTALLAFFG 52
           +   D    MK R  +L   G
Sbjct: 34 TRDIPDYDVLMKQRLRILDEHG 55


>3k59_A POL II, DNA polymerase II; protein-DNA complex, DNA damage, DNA
           repair, DNA-binding; HET: DNA DOC DCP; 1.92A
           {Escherichia coli} PDB: 3k57_A* 3k58_A* 3k5l_A* 3k5m_A*
           3k5n_A* 3k5o_A* 3maq_A* 1q8i_A*
          Length = 786

 Score = 23.2 bits (50), Expect = 6.6
 Identities = 8/57 (14%), Positives = 18/57 (31%), Gaps = 7/57 (12%)

Query: 8   AYSDGVYMLAGMDRPSPRTLSTLFMKGEDGQP------SMKNRTALLAFFGKFWRKI 58
                +Y + G++    R +  L  +  D          + +R  LL     ++   
Sbjct: 163 TRHGELYCI-GLEGCGQRIVYMLGPENGDASSLDFELEYVASRPQLLEKLNAWFANY 218


  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
   0.322    0.136    0.419 

Gapped
Lambda     K      H
   0.267   0.0515    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 911,872
Number of extensions: 36824
Number of successful extensions: 57
Number of sequences better than 10.0: 1
Number of HSP's gapped: 56
Number of HSP's successfully gapped: 5
Length of query: 60
Length of database: 6,701,793
Length adjustment: 31
Effective length of query: 29
Effective length of database: 5,836,242
Effective search space: 169251018
Effective search space used: 169251018
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 51 (23.9 bits)