RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= 029201
         (197 letters)



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

 Score =  115 bits (289), Expect = 3e-34
 Identities = 70/87 (80%), Positives = 72/87 (82%)

Query: 14  DGVFFAELNEVLTRELAEDGYSGVEVRVTPVRTEIIIRATRTQNVLGEKGRRIRELTSVV 73
              F AELNE LTRELAEDGYSGVEVRVTP RTEIII ATRTQNVLGEKGRRIRELT+VV
Sbjct: 5   SSGFKAELNEFLTRELAEDGYSGVEVRVTPTRTEIIILATRTQNVLGEKGRRIRELTAVV 64

Query: 74  QKRFKFPENSVELYAEKVNNRGLCAIA 100
           QKRF FPE SVELYAEKV  RG    +
Sbjct: 65  QKRFGFPEGSVELYAEKVATRGSGPSS 91


>d2uubc2 d.53.1.1 (C:107-207) Ribosomal protein S3 C-terminal domain
           {Thermus thermophilus [TaxId: 274]}
          Length = 101

 Score = 52.9 bits (127), Expect = 3e-10
 Identities = 23/87 (26%), Positives = 37/87 (42%), Gaps = 1/87 (1%)

Query: 93  NRGLCAIAQAESLRYKLLGGLAVRRACYGVLRFIMESGAKGCEVIVSGKLRAQRAKSMKF 152
           N  L A   A+ +  ++    AVRRA    ++ +MESGAKG +VIVSG++        ++
Sbjct: 2   NPNLSAPLVAQRVAEQIERRFAVRRAIKQAVQRVMESGAKGAKVIVSGRIGGAEQARTEW 61

Query: 153 KDGYMISSGQPVNEYIDSAVRHVLLRQ 179
                +     +   ID          
Sbjct: 62  AAQGRVPL-HTLRANIDYGFALARTTY 87


>d2qalc2 d.53.1.1 (C:106-206) Ribosomal protein S3 C-terminal domain
           {Escherichia coli [TaxId: 562]}
          Length = 101

 Score = 39.8 bits (93), Expect = 2e-05
 Identities = 20/83 (24%), Positives = 32/83 (38%), Gaps = 1/83 (1%)

Query: 96  LCAIAQAESLRYKLLGGLAVRRACYGVLRFIMESGAKGCEVIVSGKLRAQRAKSMKFKDG 155
           L A   A+S+  +L   +  RRA    ++  M  GAKG +V VSG+L        ++   
Sbjct: 5   LDAKLVADSITSQLERRVMFRRAMKRAVQNAMRLGAKGIKVEVSGRLGGAEIARTEWYRE 64

Query: 156 YMISSGQPVNEYIDSAVRHVLLR 178
             +     +   ID         
Sbjct: 65  GRVPL-HTLRADIDYNTSEAHTT 86


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

 Score = 36.7 bits (85), Expect = 2e-04
 Identities = 13/54 (24%), Positives = 22/54 (40%)

Query: 25 LTRELAEDGYSGVEVRVTPVRTEIIIRATRTQNVLGEKGRRIRELTSVVQKRFK 78
          L +EL   G + V++        + +   +   V+G  G RIR L   + K   
Sbjct: 42 LEKELYSAGLARVDIERAADNVAVTVHVAKPGVVIGRGGERIRVLREELAKLTG 95


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

 Score = 34.8 bits (80), Expect = 0.001
 Identities = 15/54 (27%), Positives = 24/54 (44%)

Query: 25 LTRELAEDGYSGVEVRVTPVRTEIIIRATRTQNVLGEKGRRIRELTSVVQKRFK 78
          LT+ELA+   S + +        + I   R   V+G+KG  + +L  VV     
Sbjct: 42 LTKELAKASVSRIVIERPAKSIRVTIHTARPGIVIGKKGEDVEKLRKVVADIAG 95


>d2a3la1 c.1.9.1 (A:212-839) AMP deaminase (AMPD), catalytic domain
           {Thale cress (Arabidopsis thaliana) [TaxId: 3702]}
          Length = 628

 Score = 29.1 bits (65), Expect = 0.35
 Identities = 7/30 (23%), Positives = 13/30 (43%)

Query: 14  DGVFFAELNEVLTRELAEDGYSGVEVRVTP 43
            G F  E+ + +  +L    Y   E R++ 
Sbjct: 276 QGRFLGEITKQVFSDLEASKYQMAEYRISI 305


>d2pjua1 c.92.3.1 (A:11-196) Propionate catabolism operon regulatory
           protein PrpR {Escherichia coli [TaxId: 562]}
          Length = 186

 Score = 28.1 bits (63), Expect = 0.58
 Identities = 11/43 (25%), Positives = 15/43 (34%), Gaps = 1/43 (2%)

Query: 131 AKGCEVIVSGKLRAQRAKSMKFKDGYMISSGQPVNEYIDSAVR 173
           A G E +V   L    A+      G  I S   V +    A+ 
Sbjct: 140 ANGTEAVVGAGLITDLAEEAGMT-GIFIYSAATVRQAFSDALD 181


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

 Score = 26.3 bits (57), Expect = 2.5
 Identities = 10/31 (32%), Positives = 12/31 (38%), Gaps = 1/31 (3%)

Query: 11 FVADGVFFAELNEVLTRELAEDGYSGVEVRV 41
          + AD V        L   LA  G   VE+R 
Sbjct: 11 YGADLVRSRGQASFL-PLLAMAGAQRVELRE 40


>d1pd3a_ a.30.3.1 (A:) Nonstructural protein ns2, Nep, M1-binding
          domain {Influenza A virus [TaxId: 11320]}
          Length = 54

 Score = 22.9 bits (49), Expect = 9.2
 Identities = 13/27 (48%), Positives = 15/27 (55%)

Query: 59 LGEKGRRIRELTSVVQKRFKFPENSVE 85
          LG+K   IR L   V+ R K  ENS E
Sbjct: 7  LGQKFEEIRWLIEEVRHRLKITENSFE 33


>d1ihna_ c.103.1.1 (A:) Hypothetical protein MT938 (MTH938)
           {Archaeon Methanobacterium thermoautotrophicum [TaxId:
           145262]}
          Length = 113

 Score = 23.8 bits (51), Expect = 9.8
 Identities = 7/31 (22%), Positives = 9/31 (29%), Gaps = 7/31 (22%)

Query: 36  GVEVRVTPVRTEIIIRATRTQNVLGEKGRRI 66
              V  T         A +  N     GRR+
Sbjct: 82  DATVLPTC-------EAIKRYNEERSAGRRV 105


  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
   0.323    0.137    0.376 

Gapped
Lambda     K      H
   0.267   0.0622    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 13730
Number of Hits to DB: 687,968
Number of extensions: 30659
Number of successful extensions: 92
Number of sequences better than 10.0: 1
Number of HSP's gapped: 92
Number of HSP's successfully gapped: 23
Length of query: 197
Length of database: 2,407,596
Length adjustment: 81
Effective length of query: 116
Effective length of database: 1,295,466
Effective search space: 150274056
Effective search space used: 150274056
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 50 (23.3 bits)