RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy10166
         (104 letters)



>3nvs_A 3-phosphoshikimate 1-carboxyvinyltransferase; structural genomics,
           center for structural genomics of infec diseases, csgid;
           HET: S3P SKM GPJ EPE; 1.02A {Vibrio cholerae} PDB:
           1g6s_A* 1g6t_A* 1x8r_A* 1x8t_A* 2aa9_A* 2aay_A* 2pq9_A*
           1eps_A 1mi4_A* 3fjz_A* 3fjx_A* 2qfs_A* 2qft_A* 2qfq_A*
           2qfu_A* 3fk0_A* 3fk1_A* 1q36_A* 3ti2_A* 1p88_A ...
          Length = 450

 Score = 31.0 bits (71), Expect = 0.041
 Identities = 13/32 (40%), Positives = 20/32 (62%), Gaps = 1/32 (3%)

Query: 4   LRRQDCDFHIVSMSHELRKLGGRKRKGEDLIV 35
            R ++ D  + +M+ ELRK+G    +GED IV
Sbjct: 362 WRVKETD-RLAAMATELRKVGATVEEGEDFIV 392


>2o0b_A 3-phosphoshikimate 1-carboxyvinyltransferase; shikimate pathway,
           EPSP synthase, structural genomics; HET: S3P; 1.15A
           {Mycobacterium tuberculosis} PDB: 2o0d_A* 2o0e_A*
           2o0x_A* 2o0z_A* 2o15_A 2bjb_A
          Length = 450

 Score = 29.5 bits (67), Expect = 0.15
 Identities = 12/40 (30%), Positives = 21/40 (52%), Gaps = 3/40 (7%)

Query: 4   LRRQDCDFHIVSMSHELRKLGGRKRKGEDLIVKDVDGNSL 43
           LR  + D  + ++S E+ +LGG  R+  D +V  +    L
Sbjct: 337 LRGHETD-RLAALSTEINRLGGTCRETPDGLV--ITATPL 373


>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis,
           programmed cell death; HET: DTP; 6.90A {Drosophila
           melanogaster} PDB: 3iz8_A*
          Length = 1221

 Score = 29.1 bits (64), Expect = 0.27
 Identities = 20/87 (22%), Positives = 34/87 (39%), Gaps = 12/87 (13%)

Query: 11  FHIVSMSHELRKLGGRKRKGEDLIV-KDV---------DGNS--LVSDSQQWLTKQLSTE 58
             I S+  ELR+L   K     L+V  +V         + +   L++   + +T  LS  
Sbjct: 225 LRIHSIQAELRRLLKSKPYENCLLVLLNVQNAKAWNAFNLSCKILLTTRFKQVTDFLSAA 284

Query: 59  TTYRPSHNSKHDGPTSQQKRKHQITYL 85
           TT   S +      T  + +   + YL
Sbjct: 285 TTTHISLDHHSMTLTPDEVKSLLLKYL 311


>2akl_A PHNA-like protein PA0128; two domains, Zn binding protein,
          beta-strand protein, structural genomics, PSI; NMR
          {Pseudomonas aeruginosa PAO1} SCOP: b.34.11.2 g.41.3.5
          Length = 138

 Score = 24.1 bits (52), Expect = 8.6
 Identities = 9/39 (23%), Positives = 14/39 (35%)

Query: 17 SHELRKLGGRKRKGEDLIVKDVDGNSLVSDSQQWLTKQL 55
          +HE           +  ++KD  GN L       + K L
Sbjct: 51 AHEWSPNEAATASDDGKVIKDSVGNVLQDGDTITVIKDL 89


  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
   0.316    0.130    0.397 

Gapped
Lambda     K      H
   0.267   0.0799    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,503,396
Number of extensions: 67760
Number of successful extensions: 111
Number of sequences better than 10.0: 1
Number of HSP's gapped: 111
Number of HSP's successfully gapped: 7
Length of query: 104
Length of database: 6,701,793
Length adjustment: 69
Effective length of query: 35
Effective length of database: 4,775,244
Effective search space: 167133540
Effective search space used: 167133540
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 51 (23.3 bits)