RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy17938
         (307 letters)



>d1wh9a_ d.52.3.1 (A:) Ribosomal protein S3 N-terminal domain
          {Mouse (Mus musculus) [TaxId: 10090]}
          Length = 92

 Score =  126 bits (319), Expect = 2e-37
 Identities = 66/87 (75%), Positives = 76/87 (87%)

Query: 8  DGVFRAELDEFLTRELAEDGYSGVEIRFTPARTEIIIMATRTQNVLGDKGRRIRELTSVV 67
             F+AEL+EFLTRELAEDGYSGVE+R TP RTEIII+ATRTQNVLG+KGRRIRELT+VV
Sbjct: 5  SSGFKAELNEFLTRELAEDGYSGVEVRVTPTRTEIIILATRTQNVLGEKGRRIRELTAVV 64

Query: 68 QKRFKFADGAIELYAEKVATRGLCAIA 94
          QKRF F +G++ELYAEKVATRG    +
Sbjct: 65 QKRFGFPEGSVELYAEKVATRGSGPSS 91


>d2uubc1 d.52.3.1 (C:2-106) Ribosomal protein S3 N-terminal domain
          {Thermus thermophilus [TaxId: 274]}
          Length = 105

 Score = 38.7 bits (90), Expect = 1e-04
 Identities = 14/56 (25%), Positives = 22/56 (39%)

Query: 17 EFLTRELAEDGYSGVEIRFTPARTEIIIMATRTQNVLGDKGRRIRELTSVVQKRFK 72
            L +EL   G + V+I        + +   +   V+G  G RIR L   + K   
Sbjct: 40 GLLEKELYSAGLARVDIERAADNVAVTVHVAKPGVVIGRGGERIRVLREELAKLTG 95


>d2qalc1 d.52.3.1 (C:1-105) Ribosomal protein S3 N-terminal domain
          {Escherichia coli [TaxId: 562]}
          Length = 105

 Score = 37.5 bits (87), Expect = 3e-04
 Identities = 16/56 (28%), Positives = 25/56 (44%)

Query: 17 EFLTRELAEDGYSGVEIRFTPARTEIIIMATRTQNVLGDKGRRIRELTSVVQKRFK 72
          ++LT+ELA+   S + I        + I   R   V+G KG  + +L  VV     
Sbjct: 40 QYLTKELAKASVSRIVIERPAKSIRVTIHTARPGIVIGKKGEDVEKLRKVVADIAG 95


>d1yx1a1 c.1.15.7 (A:3-252) Hypothetical protein PA2260
          {Pseudomonas aeruginosa [TaxId: 287]}
          Length = 250

 Score = 29.0 bits (64), Expect = 0.54
 Identities = 11/32 (34%), Positives = 14/32 (43%), Gaps = 1/32 (3%)

Query: 3  AKFVADGVFRAELDEFLTRELAEDGYSGVEIR 34
          + + AD V       FL   LA  G   VE+R
Sbjct: 9  SSYGADLVRSRGQASFL-PLLAMAGAQRVELR 39


>d1z60a1 g.49.1.2 (A:328-386) TFIIH p44 subunit cysteine-rich domain
           {Human (Homo sapiens) [TaxId: 9606]}
          Length = 59

 Score = 25.2 bits (55), Expect = 2.3
 Identities = 6/8 (75%), Positives = 7/8 (87%)

Query: 139 TLHQCPGC 146
           +LH CPGC
Sbjct: 51  SLHSCPGC 58


>d2f9zc1 d.194.1.3 (C:1-157) Chemoreceptor glutamine deamidase CheD
           {Thermotoga maritima [TaxId: 2336]}
          Length = 157

 Score = 25.8 bits (57), Expect = 4.5
 Identities = 12/45 (26%), Positives = 23/45 (51%), Gaps = 4/45 (8%)

Query: 72  KFADGAIELYAEKVATRGLCAIAQAESLRYKLIGGLAVRRYPAID 116
           K+AD A++   E++   G    A+ E L  K+ GG ++     ++
Sbjct: 59  KYADTAVKTLVEELKKMG----AKVERLEAKIAGGASMFESKGMN 99


>d1knva_ c.52.1.7 (A:) Restriction endonuclease Bse634I {Bacillus
           stearothermophilus [TaxId: 1422]}
          Length = 290

 Score = 25.3 bits (55), Expect = 9.6
 Identities = 9/32 (28%), Positives = 14/32 (43%)

Query: 170 IIIALWEYFHKRLNSNFVLKSMPFAYTLSCLN 201
           I I  W Y  KR  +++++  MP   T     
Sbjct: 80  IAIQSWNYRVKRELNDYLIIKMPNVKTFDFRK 111


  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
   0.327    0.140    0.423 

Gapped
Lambda     K      H
   0.267   0.0623    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 13730
Number of Hits to DB: 1,161,616
Number of extensions: 53627
Number of successful extensions: 166
Number of sequences better than 10.0: 1
Number of HSP's gapped: 166
Number of HSP's successfully gapped: 11
Length of query: 307
Length of database: 2,407,596
Length adjustment: 85
Effective length of query: 222
Effective length of database: 1,240,546
Effective search space: 275401212
Effective search space used: 275401212
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: 53 (24.4 bits)