RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy12844
         (121 letters)



>d1h95a_ b.40.4.5 (A:) Y-box protein 1 cold shock domain (YB1-CSD)
          {Human (Homo sapiens) [TaxId: 9606]}
          Length = 79

 Score = 54.4 bits (131), Expect = 9e-12
 Identities = 23/70 (32%), Positives = 37/70 (52%), Gaps = 4/70 (5%)

Query: 14 VSGVIQFFNKERGFGFINRIGDDGRKDYFFHFSEIQG-GTDNILRAIKYSLLVIFDIGVT 72
          V G +++FN   G+GFINR  +D ++D F H + I+       LR++     V FD+   
Sbjct: 9  VLGTVKWFNVRNGYGFINR--NDTKEDVFVHQTAIKKNNPRKYLRSVGDGETVEFDVVEG 66

Query: 73 PGGRREAVHI 82
            G  EA ++
Sbjct: 67 EKG-AEAANV 75


>d1mjca_ b.40.4.5 (A:) Major cold shock protein {Escherichia coli
          [TaxId: 562]}
          Length = 69

 Score = 50.1 bits (120), Expect = 4e-10
 Identities = 24/71 (33%), Positives = 38/71 (53%), Gaps = 6/71 (8%)

Query: 14 VSGVIQFFNKERGFGFINRIGDDGRKDYFFHFSEIQGGTDNILRAIKYSLLVIFDIGVTP 73
          ++G++++FN ++GFGFI    DDG KD F HFS IQ    +  +++     V F I    
Sbjct: 4  MTGIVKWFNADKGFGFITP--DDGSKDVFVHFSAIQN---DGYKSLDEGQKVSFTIESGA 58

Query: 74 GGRREAVHIKI 84
           G   A ++  
Sbjct: 59 KGPA-AGNVTS 68


>d1wfqa_ b.40.4.5 (A:) Cold shock domain protein E1 (UNR) {Human
          (Homo sapiens) [TaxId: 9606]}
          Length = 89

 Score = 46.5 bits (110), Expect = 1e-08
 Identities = 16/69 (23%), Positives = 27/69 (39%), Gaps = 9/69 (13%)

Query: 16 GVIQFFNKERGFGFINRIGDDGRKDYFFHFSEIQGGTDNILRAIKYSLLVIFDIGVTP-G 74
          GVI+       +GFI     + +   FFH S+  G   ++         V F++      
Sbjct: 21 GVIEKLLT--SYGFIQC--SERQARLFFHCSQYNGNLQDLKVGDD----VEFEVSSDRRT 72

Query: 75 GRREAVHIK 83
          G+  AV + 
Sbjct: 73 GKPIAVKLV 81


>d1g6pa_ b.40.4.5 (A:) Major cold shock protein {Thermotoga
          maritima [TaxId: 2336]}
          Length = 66

 Score = 42.8 bits (101), Expect = 2e-07
 Identities = 20/71 (28%), Positives = 38/71 (53%), Gaps = 7/71 (9%)

Query: 16 GVIQFFNKERGFGFINRIGDDGRKDYFFHFSEIQGGTDNILRAIKYSLLVIFDIGVTPGG 75
          G +++F+ ++G+GFI +   D   D F H+S I+       + +K   +V F+I     G
Sbjct: 3  GKVKWFDSKKGYGFITK---DEGGDVFVHWSAIEM---EGFKTLKEGQVVEFEIQEGKKG 56

Query: 76 RREAVHIKIFD 86
            +A H+K+ +
Sbjct: 57 -PQAAHVKVVE 66


>d1c9oa_ b.40.4.5 (A:) Major cold shock protein {Bacillus
          caldolyticus [TaxId: 1394]}
          Length = 66

 Score = 42.9 bits (101), Expect = 2e-07
 Identities = 21/68 (30%), Positives = 35/68 (51%), Gaps = 7/68 (10%)

Query: 16 GVIQFFNKERGFGFINRIGDDGRKDYFFHFSEIQGGTDNILRAIKYSLLVIFDIGVTPGG 75
          G +++FN E+G+GFI     +G  D F HF+ IQG      + ++    V F+I     G
Sbjct: 4  GKVKWFNNEKGYGFIEV---EGGSDVFVHFTAIQG---EGFKTLEEGQEVSFEIVQGNRG 57

Query: 76 RREAVHIK 83
            +A ++ 
Sbjct: 58 -PQAANVV 64


>d1h4pa_ c.1.8.3 (A:) Exo-beta-(1,3)-glucanase {Baker's yeast
           (Saccharomyces cerevisiae) [TaxId: 4932]}
          Length = 408

 Score = 25.2 bits (54), Expect = 2.3
 Identities = 16/77 (20%), Positives = 26/77 (33%), Gaps = 7/77 (9%)

Query: 23  KERGFGFINRIG------DDGRKDYFFHFSEIQGGTDNILRAIKYSLLVIFDIGVTPGGR 76
             +GF  + RI            D +    +       I  A   SL V  D+    G +
Sbjct: 83  ASQGFNLV-RIPIGYWAFQILDDDPYVSGLQESYLDQAIGWARNNSLKVWVDLHGAAGSQ 141

Query: 77  REAVHIKIFDTRLYLED 93
               +  + D+  +LED
Sbjct: 142 NGFDNSGLRDSYKFLED 158


>d2ia1a1 d.359.1.1 (A:1-166) Uncharacterized protein BH3703
          {Bacillus halodurans [TaxId: 86665]}
          Length = 166

 Score = 23.1 bits (50), Expect = 9.0
 Identities = 7/19 (36%), Positives = 10/19 (52%)

Query: 29 FINRIGDDGRKDYFFHFSE 47
          F  +   DG K +FFH+  
Sbjct: 29 FYAQEDHDGWKIFFFHYLS 47


  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
   0.328    0.146    0.445 

Gapped
Lambda     K      H
   0.267   0.0432    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 13730
Number of Hits to DB: 499,366
Number of extensions: 22982
Number of successful extensions: 60
Number of sequences better than 10.0: 1
Number of HSP's gapped: 57
Number of HSP's successfully gapped: 10
Length of query: 121
Length of database: 2,407,596
Length adjustment: 75
Effective length of query: 46
Effective length of database: 1,377,846
Effective search space: 63380916
Effective search space used: 63380916
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.7 bits)
S2: 47 (22.6 bits)