RPS-BLAST 2.2.26 [Sep-21-2011]

Database: scop70_1_75 
           13,730 sequences; 2,407,596 total letters

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

Query= psy17942
         (90 letters)



>d1v54h_ a.51.1.1 (H:) Cytochrome c oxidase subunit h {Cow (Bos
          taurus) [TaxId: 9913]}
          Length = 79

 Score = 26.3 bits (58), Expect = 0.23
 Identities = 12/45 (26%), Positives = 20/45 (44%), Gaps = 3/45 (6%)

Query: 12 CWSARDKYWEC---LDSHEGNADSCKEFRTSYEQFCPGQWVKHFD 53
          CW     +  C   + +  G+   C+ +R  Y+  CP  WV  +D
Sbjct: 23 CWQNYLDFHRCEKAMTAKGGDVSVCEWYRRVYKSLCPISWVSTWD 67


>d2fm8a1 d.198.1.1 (A:1-134) Surface presentation of antigens
           protein SpaK (Spa15) {Salmonella typhimurium [TaxId:
           90371]}
          Length = 134

 Score = 24.7 bits (54), Expect = 1.3
 Identities = 5/24 (20%), Positives = 8/24 (33%)

Query: 21  ECLDSHEGNADSCKEFRTSYEQFC 44
           + L   E  + +   F    E F 
Sbjct: 107 DFLSDGEKFSTALNGFYNYLEVFS 130


>d1ry9a_ d.198.1.1 (A:) Surface presentation of antigens protein
           SpaK (Spa15) {Shigella flexneri [TaxId: 623]}
          Length = 133

 Score = 24.3 bits (53), Expect = 2.3
 Identities = 4/23 (17%), Positives = 7/23 (30%)

Query: 21  ECLDSHEGNADSCKEFRTSYEQF 43
           + +      A+   EF    E  
Sbjct: 107 DYVHDGIVFAEILHEFYQRMEIL 129


>d1ltla_ b.40.4.11 (A:) DNA replication initiator (cdc21/cdc54)
           N-terminal domain {Archaeon Methanobacterium
           thermoautotrophicum [TaxId: 145262]}
          Length = 239

 Score = 23.1 bits (49), Expect = 7.7
 Identities = 9/65 (13%), Positives = 20/65 (30%)

Query: 19  YWECLDSHEGNADSCKEFRTSYEQFCPGQWVKHFDRRYHFLKFKNKIETEGFEKFDSKQE 78
            +EC      +A +      +    C     + F       +F +    +  E  ++   
Sbjct: 126 VFECRGCMRHHAVTQSTNMITEPSLCSECGGRSFRLLQDESEFLDTQTLKLQEPLENLSG 185

Query: 79  YELPK 83
            E P+
Sbjct: 186 GEQPR 190


  Database: scop70_1_75
    Posted date:  Mar 27, 2010  6:21 PM
  Number of letters in database: 2,407,596
  Number of sequences in database:  13,730
  
Lambda     K      H
   0.318    0.133    0.436 

Gapped
Lambda     K      H
   0.267   0.0664    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 13730
Number of Hits to DB: 362,774
Number of extensions: 15610
Number of successful extensions: 64
Number of sequences better than 10.0: 1
Number of HSP's gapped: 64
Number of HSP's successfully gapped: 11
Length of query: 90
Length of database: 2,407,596
Length adjustment: 54
Effective length of query: 36
Effective length of database: 1,666,176
Effective search space: 59982336
Effective search space used: 59982336
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 (21.7 bits)
S2: 47 (22.0 bits)