RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy17724
         (128 letters)



>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 = 29.8 bits (66), Expect = 0.24
 Identities = 7/75 (9%), Positives = 26/75 (34%), Gaps = 14/75 (18%)

Query: 5   VQTKIIVEGRFRPIIAAVTGRLKARVVMVTKMVSMGGPHWWSRERHHELPHHHVGVYA-W 63
           +  KI++  RF+ +   ++      + +    +++            E+      +   +
Sbjct: 264 LSCKILLTTRFKQVTDFLSAATTTHISLDHHSMTLT---------PDEV----KSLLLKY 310

Query: 64  VSCSNGEVPANAVKV 78
           + C   ++P   +  
Sbjct: 311 LDCRPQDLPREVLTT 325


>2y6p_A 3-deoxy-manno-octulosonate cytidylyltransferase; lipid A; HET: CTP;
           2.10A {Aquifex aeolicus}
          Length = 234

 Score = 27.8 bits (63), Expect = 0.88
 Identities = 6/19 (31%), Positives = 10/19 (52%)

Query: 45  WSRERHHELPHHHVGVYAW 63
           + R+     P  HVG+Y +
Sbjct: 154 YFRKNDTFYPLKHVGIYGF 172


>2pff_B Fatty acid synthase subunit beta; fatty acid synthase,
           acyl-carrier-protein, beta-ketoacyl RED beta-ketoacyl
           synthase, dehydratase; 4.00A {Saccharomyces cerevisiae}
          Length = 2006

 Score = 28.1 bits (62), Expect = 0.98
 Identities = 12/79 (15%), Positives = 25/79 (31%), Gaps = 12/79 (15%)

Query: 13  GRFRPIIAAVTGRLKARVVMVTKMVSMGGPHWWSRERHHELPHHHVGVYAWVSC------ 66
           G  R  +   TG  +  V  V   ++       S E         + V  ++        
Sbjct: 261 GELRSYLKGATGHSQGLVTAV--AIAETD----SWESFFVSVRKAITVLFFIGVRCYEAY 314

Query: 67  SNGEVPANAVKVGRDEDGG 85
            N  +P + ++   + + G
Sbjct: 315 PNTSLPPSILEDSLENNEG 333


>1h7e_A 3-deoxy-manno-octulosonate cytidylyltransferase;
           nucleotidyltransferase, CMP-KDO synthetase, nucleoside
           monophosphate glycosides; 1.83A {Escherichia coli} SCOP:
           c.68.1.13 PDB: 1gqc_A* 1gq9_A 1h6j_A 1h7f_A* 1h7g_A*
           1h7h_A* 1h7t_A*
          Length = 245

 Score = 27.1 bits (61), Expect = 1.7
 Identities = 6/19 (31%), Positives = 9/19 (47%)

Query: 45  WSRERHHELPHHHVGVYAW 63
           + R         HVG+YA+
Sbjct: 160 YPRNAEKARYLKHVGIYAY 178


>3pu2_A Uncharacterized protein; SRPBCC superfamily, PSI-biology, NESG,
           RHR263, structural GE protein structure initiative; HET:
           MSE; 2.61A {Rhodobacter sphaeroides}
          Length = 164

 Score = 24.8 bits (54), Expect = 9.0
 Identities = 6/61 (9%), Positives = 13/61 (21%), Gaps = 1/61 (1%)

Query: 36  MVSMGGPHWWSRERHHELPHHHVGVYAWVSCSNGEVPANAVKVGRDEDGGRT-YVGRARH 94
                G       R       H  +++ +   +       V +      G T       +
Sbjct: 66  WTGPEGRTRGLTGRVILAEPPHRLIHSELYDEDWTGGETLVTLQLLPVEGGTELAMAVDY 125

Query: 95  E 95
            
Sbjct: 126 A 126


  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
   0.321    0.137    0.446 

Gapped
Lambda     K      H
   0.267   0.0781    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 2,219,690
Number of extensions: 129606
Number of successful extensions: 403
Number of sequences better than 10.0: 1
Number of HSP's gapped: 402
Number of HSP's successfully gapped: 12
Length of query: 128
Length of database: 6,701,793
Length adjustment: 83
Effective length of query: 45
Effective length of database: 4,384,350
Effective search space: 197295750
Effective search space used: 197295750
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 (21.8 bits)
S2: 51 (23.3 bits)