RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy7660
         (250 letters)



>d1mu2a1 c.55.3.1 (A:430-555) HIV RNase H (Domain of reverse
           transcriptase) {Human immunodeficiency virus type 2
           [TaxId: 11709]}
          Length = 126

 Score = 32.6 bits (73), Expect = 0.017
 Identities = 11/36 (30%), Positives = 15/36 (41%)

Query: 80  NTWYSLKSCGKNVAFLWCPSHTGISGNEIVDRATRQ 115
           N         + +   W P+H GI GN+ VD    Q
Sbjct: 89  NQIIEEMIKKEAIYVAWVPAHKGIGGNQEVDHLVSQ 124


>d1rila_ c.55.3.1 (A:) RNase H (RNase HI) {Thermus thermophilus
           [TaxId: 274]}
          Length = 147

 Score = 31.5 bits (70), Expect = 0.042
 Identities = 22/116 (18%), Positives = 34/116 (29%), Gaps = 14/116 (12%)

Query: 12  VYAGGTTKSYILNNINSIFTAELLAIVFCLDSVKNRPDVNTLIVCDSMSALTSIAN---- 67
            +              +    EL A +  L ++K   +V+  +  DS     +       
Sbjct: 26  RFHAHEKLLSGGEACTTNNRMELKAAIEGLKALKEPCEVD--LYTDSHYLKKAFTEGWLE 83

Query: 68  --------KNTTIPLIAHILNTWYSLKSCGKNVAFLWCPSHTGISGNEIVDRATRQ 115
                        P+    L     L      V F +   HTG   NE VDR  R+
Sbjct: 84  GWRKRGWRTAEGKPVKNRDLWEALLLAMAPHRVRFHFVKGHTGHPENERVDREARR 139


>d1jl1a_ c.55.3.1 (A:) RNase H (RNase HI) {Escherichia coli [TaxId:
           562]}
          Length = 152

 Score = 31.1 bits (69), Expect = 0.071
 Identities = 7/34 (20%), Positives = 9/34 (26%)

Query: 82  WYSLKSCGKNVAFLWCPSHTGISGNEIVDRATRQ 115
                     + + W   H G   NE  D   R 
Sbjct: 104 RLDAALGQHQIKWEWVKGHAGHPENERADELARA 137


>d1wosa1 b.44.2.1 (A:279-361) Glycine cleavage system T protein,
           GcvT {Thermotoga maritima [TaxId: 2336]}
          Length = 83

 Score = 26.3 bits (58), Expect = 1.4
 Identities = 10/50 (20%), Positives = 18/50 (36%), Gaps = 1/50 (2%)

Query: 75  IAHILNTWYSLKSCGKNVAFLWCPSHTGISGNEIVDRATRQLDGAEIVNL 124
           +  I +  +S  + GK++A         I     V     +L  A +V  
Sbjct: 27  VGEITSGNFS-PTLGKSIALALVSKSVKIGDQLGVVFPGGKLVEALVVKK 75


>d1u5ea1 b.55.1.1 (A:14-222) Src-associated adaptor protein Skap2
           {Mouse (Mus musculus) [TaxId: 10090]}
          Length = 209

 Score = 26.4 bits (57), Expect = 2.7
 Identities = 13/71 (18%), Positives = 23/71 (32%), Gaps = 5/71 (7%)

Query: 134 GKKYLLEKWQKSWTELINNKL-----KRIKPTIGPWNVSDCNSRYEESISWSGNKCFIDH 188
              +L  +WQK W  L           + K   G + +   + R   ++   G K     
Sbjct: 116 DHSFLGFEWQKRWCALSKTVFYYYGSDKDKQQKGEFAIDGYDVRMNNTLRKDGKKDCCFE 175

Query: 189 YSHPYLKVLPF 199
              P  ++  F
Sbjct: 176 ICAPDKRIYQF 186


>d1u5da1 b.55.1.1 (A:108-213) Src kinase-associated phosphoprotein
           SKAP55 (SCAP1) {Human (Homo sapiens) [TaxId: 9606]}
          Length = 106

 Score = 25.2 bits (54), Expect = 3.6
 Identities = 9/71 (12%), Positives = 20/71 (28%), Gaps = 5/71 (7%)

Query: 134 GKKYLLEKWQKSWTELINNKL-----KRIKPTIGPWNVSDCNSRYEESISWSGNKCFIDH 188
              +   +WQK W  +          ++ K   G + +   + R    +     K     
Sbjct: 13  DHSFFGSEWQKRWCVVSRGLFYYYANEKSKQPKGTFLIKGYSVRMAPHLRRDSKKESCFE 72

Query: 189 YSHPYLKVLPF 199
            +    +   F
Sbjct: 73  LTSQDRRTYEF 83


>d1u5fa1 b.55.1.1 (A:109-219) Src-associated adaptor protein Skap2
           {Mouse (Mus musculus) [TaxId: 10090]}
          Length = 111

 Score = 24.2 bits (51), Expect = 9.9
 Identities = 13/71 (18%), Positives = 23/71 (32%), Gaps = 5/71 (7%)

Query: 134 GKKYLLEKWQKSWTELINNKL-----KRIKPTIGPWNVSDCNSRYEESISWSGNKCFIDH 188
              +L  +WQK W  L           + K   G + +   + R   ++   G K     
Sbjct: 21  DHSFLGFEWQKRWCALSKTVFYYYGSDKDKQQKGEFAIDGYDVRMNNTLRKDGKKDCCFE 80

Query: 189 YSHPYLKVLPF 199
              P  ++  F
Sbjct: 81  ICAPDKRIYQF 91


  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
   0.320    0.133    0.414 

Gapped
Lambda     K      H
   0.267   0.0447    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 13730
Number of Hits to DB: 925,437
Number of extensions: 40396
Number of successful extensions: 114
Number of sequences better than 10.0: 1
Number of HSP's gapped: 114
Number of HSP's successfully gapped: 10
Length of query: 250
Length of database: 2,407,596
Length adjustment: 83
Effective length of query: 167
Effective length of database: 1,268,006
Effective search space: 211757002
Effective search space used: 211757002
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: 52 (24.5 bits)