RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy5411
         (88 letters)



>2uur_A Collagen alpha-1(IX) chain; glycoprotein, hydroxylation, structural
           protein, NC4, collagen IX, polymorphism, extracellular
           matrix; 1.8A {Homo sapiens}
          Length = 245

 Score = 35.6 bits (81), Expect = 6e-04
 Identities = 14/78 (17%), Positives = 28/78 (35%), Gaps = 4/78 (5%)

Query: 2   NLTLLYTDVTKFSTTQPIASFLIPAP-TGKYFKFALKVTLDGVTAFVNCEEIESTRVVRN 60
             +++++      + Q  A   + +    ++ K  + V     T FV+C  IES  +   
Sbjct: 127 TQSVVFSYKGLDGSLQTAAFSNLSSLFDSQWHKIMIGVERSSATLFVDCNRIESLPIKPR 186

Query: 61  PQELLFDSASTLYLGQAG 78
                 D      LG+  
Sbjct: 187 GP---IDIDGFAVLGKLA 201


>1za4_A Thrombospondin 1; TSP-1, NTSP-1, HBD, arixtra, cell adhesion; HET:
           SGN; 1.90A {Homo sapiens} SCOP: b.29.1.4 PDB: 2ouh_A
           2ouj_A
          Length = 251

 Score = 33.6 bits (76), Expect = 0.003
 Identities = 16/81 (19%), Positives = 31/81 (38%), Gaps = 6/81 (7%)

Query: 2   NLTLLYTDVTKFSTTQPIASFLIPAPTGKYFKFALKVTLDGVTAFVNCEEIESTRVVRNP 61
            L L  T   K      ++       TG++    L V  D    +++CE++E+  +    
Sbjct: 113 TLDLSLTVQGK---QHVVSVEEALLATGQWKSITLFVQEDRAQLYIDCEKMENAELDVPI 169

Query: 62  QELL---FDSASTLYLGQAGP 79
           Q +      S + L + + G 
Sbjct: 170 QSVFTRDLASIARLRIAKGGV 190


>1cru_A Protein (soluble quinoprotein glucose dehydrogena; beta-propeller,
           superbarrel; HET: PQQ; 1.50A {Acinetobacter
           calcoaceticus} SCOP: b.68.2.1 PDB: 1c9u_A* 1cq1_A*
           1qbi_A
          Length = 454

 Score = 24.9 bits (54), Expect = 4.0
 Identities = 9/21 (42%), Positives = 10/21 (47%)

Query: 59  RNPQELLFDSASTLYLGQAGP 79
           RNPQ L F     L   + GP
Sbjct: 228 RNPQGLAFTPNGKLLQSEQGP 248


>3das_A Putative oxidoreductase; aldose sugar dehydrogenase, beta
           propellor, PQQ, SGDH; HET: MSE ARA PQQ; 1.60A
           {Streptomyces coelicolor}
          Length = 347

 Score = 24.2 bits (53), Expect = 7.7
 Identities = 7/21 (33%), Positives = 10/21 (47%)

Query: 59  RNPQELLFDSASTLYLGQAGP 79
           RN Q L +D    L+  + G 
Sbjct: 202 RNVQGLAWDDKQRLFASEFGQ 222


  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    0.138    0.390 

Gapped
Lambda     K      H
   0.267   0.0408    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,254,471
Number of extensions: 60373
Number of successful extensions: 108
Number of sequences better than 10.0: 1
Number of HSP's gapped: 108
Number of HSP's successfully gapped: 7
Length of query: 88
Length of database: 6,701,793
Length adjustment: 56
Effective length of query: 32
Effective length of database: 5,138,217
Effective search space: 164422944
Effective search space used: 164422944
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 (24.3 bits)