RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy5907
         (56 letters)



>d1hsma_ a.21.1.1 (A:) High mobility group protein 1, HMG1
          {Hamster (Cricetulus griseus) [TaxId: 10029]}
          Length = 79

 Score = 43.7 bits (103), Expect = 1e-08
 Identities = 10/52 (19%), Positives = 25/52 (48%)

Query: 2  PYMRYSRKVWDQVKAQNLDLKLWEIGKIIGQMWRDLPEDQKTEYVEDYEQEK 53
           +  +  +   ++K ++  L + ++ K +G+MW +   D K  Y +   + K
Sbjct: 9  AFFLFCSEYRPKIKGEHPGLSIGDVAKKLGEMWNNTAADDKQPYEKKAAKLK 60


>d1j46a_ a.21.1.1 (A:) SRY {Human (Homo sapiens) [TaxId: 9606]}
          Length = 85

 Score = 42.9 bits (101), Expect = 4e-08
 Identities = 11/52 (21%), Positives = 28/52 (53%)

Query: 2  PYMRYSRKVWDQVKAQNLDLKLWEIGKIIGQMWRDLPEDQKTEYVEDYEQEK 53
           ++ +SR    ++  +N  ++  EI K +G  W+ L E +K  + ++ ++ +
Sbjct: 11 AFIVWSRDQRRKMALENPRMRNSEISKQLGYQWKMLTEAEKWPFFQEAQKLQ 62


>d1i11a_ a.21.1.1 (A:) Sox-5 {Mouse (Mus musculus) [TaxId: 10090]}
          Length = 70

 Score = 42.5 bits (100), Expect = 4e-08
 Identities = 10/52 (19%), Positives = 23/52 (44%)

Query: 2  PYMRYSRKVWDQVKAQNLDLKLWEIGKIIGQMWRDLPEDQKTEYVEDYEQEK 53
           +M +++    ++     D+    I KI+G  W+ +   +K  Y E+  +  
Sbjct: 9  AFMVWAKDERRKILQAFPDMHNSNISKILGSRWKAMTNLEKQPYYEEQARLS 60


>d2lefa_ a.21.1.1 (A:) Lymphoid enhancer-binding factor, LEF1
          {Mouse (Mus musculus) [TaxId: 10090]}
          Length = 86

 Score = 42.2 bits (99), Expect = 8e-08
 Identities = 12/52 (23%), Positives = 28/52 (53%)

Query: 2  PYMRYSRKVWDQVKAQNLDLKLWEIGKIIGQMWRDLPEDQKTEYVEDYEQEK 53
           +M Y +++   V A++   +   I +I+G+ W  L  +++ +Y E   +E+
Sbjct: 9  AFMLYMKEMRANVVAESTLKESAAINQILGRRWHALSREEQAKYYELARKER 60


>d1v63a_ a.21.1.1 (A:) Nucleolar transcription factor 1 (Upstream
          binding factor 1, UBF-1) {Mouse (Mus musculus) [TaxId:
          10090]}
          Length = 101

 Score = 41.8 bits (98), Expect = 1e-07
 Identities = 13/52 (25%), Positives = 27/52 (51%), Gaps = 2/52 (3%)

Query: 2  PYMRYSRKVWDQVKAQNLDLKLWEIGKIIGQMWRDLPEDQKTEYVEDYEQEK 53
           Y ++S+++    +  +L LK  E    IG  W+ + + QK  Y +  E+++
Sbjct: 15 GYQKFSQELLSNGELNHLPLK--ERMVEIGSRWQRISQSQKEHYKKLAEEQQ 64


>d1gt0d_ a.21.1.1 (D:) Sox-2 {Mouse (Mus musculus) [TaxId: 10090]}
          Length = 80

 Score = 41.3 bits (97), Expect = 1e-07
 Identities = 12/51 (23%), Positives = 28/51 (54%)

Query: 3  YMRYSRKVWDQVKAQNLDLKLWEIGKIIGQMWRDLPEDQKTEYVEDYEQEK 53
          +M +SR    ++  +N  +   EI K +G  W+ L E +K  ++++ ++ +
Sbjct: 10 FMVWSRGQRRKMAQENPKMHNSEISKRLGAEWKLLSETEKRPFIDEAKRLR 60


>d1wgfa_ a.21.1.1 (A:) Nucleolar transcription factor 1 (Upstream
          binding factor 1, UBF-1) {Mouse (Mus musculus) [TaxId:
          10090]}
          Length = 90

 Score = 40.3 bits (94), Expect = 4e-07
 Identities = 12/52 (23%), Positives = 25/52 (48%)

Query: 2  PYMRYSRKVWDQVKAQNLDLKLWEIGKIIGQMWRDLPEDQKTEYVEDYEQEK 53
              +S +   Q++ +  +L   E+ +++ +MW DL E +K +Y       K
Sbjct: 27 AMFIFSEEKRRQLQEERPELSESELTRLLARMWNDLSEKKKAKYKAREAALK 78


>d1lwma_ a.21.1.1 (A:) NHP6a {Baker's yeast (Saccharomyces
          cerevisiae) [TaxId: 4932]}
          Length = 93

 Score = 39.1 bits (91), Expect = 1e-06
 Identities = 14/52 (26%), Positives = 30/52 (57%)

Query: 2  PYMRYSRKVWDQVKAQNLDLKLWEIGKIIGQMWRDLPEDQKTEYVEDYEQEK 53
           YM ++ +  D V+++N D+   ++GK +G+ W+ L  ++K  Y    + +K
Sbjct: 27 AYMFFANENRDIVRSENPDITFGQVGKKLGEKWKALTPEEKQPYEAKAQADK 78


>d1ckta_ a.21.1.1 (A:) High mobility group protein 1, HMG1 {Rat
          (Rattus norvegicus) [TaxId: 10116]}
          Length = 71

 Score = 36.4 bits (84), Expect = 9e-06
 Identities = 8/54 (14%), Positives = 24/54 (44%), Gaps = 2/54 (3%)

Query: 2  PYMRYSRKVWDQVKAQNLDLKLW--EIGKIIGQMWRDLPEDQKTEYVEDYEQEK 53
           Y  + +   ++ K ++ D  +   E  K   + W+ +   +K ++ +  + +K
Sbjct: 8  SYAFFVQTCREEHKKKHPDASVNFSEFSKKCSERWKTMSAKEKGKFEDMAKADK 61


>d1qrva_ a.21.1.1 (A:) HMG-D {Drosophila melanogaster [TaxId:
          7227]}
          Length = 73

 Score = 35.5 bits (82), Expect = 2e-05
 Identities = 13/52 (25%), Positives = 25/52 (48%), Gaps = 2/52 (3%)

Query: 2  PYMRYSRKVWDQVKAQNLDLKLWEIGKIIGQMWRDLPEDQKTEYVEDYEQEK 53
           YM +     + +K +N  +K+ E+ K  G++WR      K+E+     + K
Sbjct: 10 AYMLWLNSARESIKRENPGIKVTEVAKRGGELWR--AMKDKSEWEAKAAKAK 59


>d1k99a_ a.21.1.1 (A:) Nucleolar transcription factor 1 (Upstream
          binding factor 1, UBF-1) {Human (Homo sapiens) [TaxId:
          9606]}
          Length = 91

 Score = 36.1 bits (83), Expect = 2e-05
 Identities = 13/52 (25%), Positives = 33/52 (63%)

Query: 2  PYMRYSRKVWDQVKAQNLDLKLWEIGKIIGQMWRDLPEDQKTEYVEDYEQEK 53
          PY R+  +   +    + ++   ++ KI+ + +++LPE +K +Y++D+++EK
Sbjct: 17 PYFRFFMEKRAKYAKLHPEMSNLDLTKILSKKYKELPEKKKMKYIQDFQREK 68


>d1v64a_ a.21.1.1 (A:) Nucleolar transcription factor 1 (Upstream
          binding factor 1, UBF-1) {Mouse (Mus musculus) [TaxId:
          10090]}
          Length = 108

 Score = 34.5 bits (79), Expect = 8e-05
 Identities = 12/52 (23%), Positives = 23/52 (44%), Gaps = 4/52 (7%)

Query: 2  PYMRYSRKVWDQVKAQNLDLKLWEIGKIIGQMWRDLPEDQKTEYVEDYEQEK 53
           Y  Y  ++   +K    D+   E   +  Q W+ L + +K  Y +  +Q+K
Sbjct: 24 SYSLYCAELMANMK----DVPSTERMVLCSQQWKLLSQKEKDAYHKKCDQKK 71


>d1gx5a_ e.8.1.4 (A:) Viral RNA polymerase {Hepatitis C virus
           [TaxId: 11103]}
          Length = 530

 Score = 24.0 bits (52), Expect = 1.2
 Identities = 12/46 (26%), Positives = 18/46 (39%), Gaps = 3/46 (6%)

Query: 2   PYMRYSRKVWDQVKAQNLDLKLWEIGKIIGQMWRDLPEDQKTEYVE 47
           P+   S+  +     +NL  K       I  +W+DL ED  T    
Sbjct: 94  PHSAKSKFGYGAKDVRNLSSKAV---NHIHSVWKDLLEDTVTPIDT 136


>d1fnoa3 d.58.19.1 (A:208-320) Peptidase T (tripeptidase)
          {Salmonella typhimurium [TaxId: 90371]}
          Length = 113

 Score = 22.0 bits (47), Expect = 5.4
 Identities = 6/14 (42%), Positives = 8/14 (57%)

Query: 37 LPEDQKTEYVEDYE 50
          +P D+  E  E YE
Sbjct: 38 VPADEAPETTEGYE 51


>d1tlha_ a.150.1.1 (A:) Anti-sigma factor AsiA {Bacteriophage T4
          [TaxId: 10665]}
          Length = 89

 Score = 21.3 bits (45), Expect = 7.3
 Identities = 4/27 (14%), Positives = 16/27 (59%), Gaps = 2/27 (7%)

Query: 32 QMWRDLPEDQKTEYVEDYEQ--EKIYK 56
          ++  +L ++ K   ++++ +  E +Y+
Sbjct: 55 KIVSELTQEDKKTLIDEFNEGFEGVYR 81


  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
   0.317    0.136    0.428 

Gapped
Lambda     K      H
   0.267   0.0615    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 13730
Number of Hits to DB: 236,201
Number of extensions: 7975
Number of successful extensions: 30
Number of sequences better than 10.0: 1
Number of HSP's gapped: 30
Number of HSP's successfully gapped: 17
Length of query: 56
Length of database: 2,407,596
Length adjustment: 27
Effective length of query: 29
Effective length of database: 2,036,886
Effective search space: 59069694
Effective search space used: 59069694
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 (21.6 bits)
S2: 47 (22.1 bits)