RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= 041704
         (86 letters)



>d1vqot1 b.34.5.1 (T:1-119) Ribosomal proteins L24 (L24p)
          {Archaeon Haloarcula marismortui [TaxId: 2238]}
          Length = 119

 Score = 40.8 bits (96), Expect = 1e-06
 Identities = 8/29 (27%), Positives = 16/29 (55%)

Query: 1  MSMSVRKDDEVQVVGGTYKGREGKFVQIF 29
           ++ V   D V+V+ G + G EG+ + + 
Sbjct: 38 RNVRVNAGDTVEVLRGDFAGEEGEVINVD 66


>d2j01y1 b.34.5.1 (Y:2-102) Ribosomal proteins L24 (L24p) {Thermus
          thermophilus [TaxId: 274]}
          Length = 101

 Score = 34.3 bits (79), Expect = 3e-04
 Identities = 13/27 (48%), Positives = 16/27 (59%)

Query: 3  MSVRKDDEVQVVGGTYKGREGKFVQIF 29
          M V+K D V V  G YKGR GK  ++ 
Sbjct: 4  MHVKKGDTVLVASGKYKGRVGKVKEVL 30


>d2zjrr1 b.34.5.1 (R:4-113) Ribosomal proteins L24 (L24p)
          {Deinococcus radiodurans [TaxId: 1299]}
          Length = 110

 Score = 33.2 bits (76), Expect = 0.001
 Identities = 9/27 (33%), Positives = 15/27 (55%)

Query: 3  MSVRKDDEVQVVGGTYKGREGKFVQIF 29
          +  +K D V V+ G +KG+ GK +   
Sbjct: 11 LHFKKGDTVIVLSGKHKGQTGKVLLAL 37


>d2gycs1 b.34.5.1 (S:3-101) Ribosomal proteins L24 (L24p)
          {Escherichia coli [TaxId: 562]}
          Length = 99

 Score = 31.2 bits (71), Expect = 0.004
 Identities = 11/25 (44%), Positives = 16/25 (64%)

Query: 5  VRKDDEVQVVGGTYKGREGKFVQIF 29
          +R+DDEV V+ G  KG+ GK   + 
Sbjct: 2  IRRDDEVIVLTGKDKGKRGKVKNVL 26


>d1dusa_ c.66.1.4 (A:) Hypothetical protein MJ0882 {Archaeon
          Methanococcus jannaschii [TaxId: 2190]}
          Length = 194

 Score = 24.6 bits (52), Expect = 1.7
 Identities = 9/30 (30%), Positives = 16/30 (53%)

Query: 9  DEVQVVGGTYKGREGKFVQIFAIFSGVKRD 38
           +V++V    +G++ KF     +FS  K D
Sbjct: 9  SDVKIVEDILRGKKLKFKTDSGVFSYGKVD 38


>d2de6a2 d.129.3.3 (A:143-384) Terminal oxygenase component of
           carbazole CarAa {Janthinobacterium sp. j3 [TaxId:
           213804]}
          Length = 242

 Score = 23.6 bits (51), Expect = 3.7
 Identities = 9/44 (20%), Positives = 13/44 (29%), Gaps = 4/44 (9%)

Query: 33  SGVKRDLVVSYEPIFDPRIPLEPVGHSSVMSSVGRMSPEVSTSF 76
            GV   +     P+F+  I  E V       + G        S 
Sbjct: 83  KGVYDLIGEHGVPVFEGTIGGEVVR----EGAYGEKIVANDISI 122


>d2do3a1 b.34.5.5 (A:462-523) Transcription elongation factor SPT5
          {Human (Homo sapiens) [TaxId: 9606]}
          Length = 62

 Score = 22.3 bits (48), Expect = 6.0
 Identities = 9/29 (31%), Positives = 16/29 (55%), Gaps = 4/29 (13%)

Query: 4  SVRKD----DEVQVVGGTYKGREGKFVQI 28
           +RK     D V+V+ G ++G  G  V++
Sbjct: 6  ELRKYFKMGDHVKVIAGRFEGDTGLIVRV 34


>d1dmha_ b.3.6.1 (A:) Catechol 1,2-dioxygenase {Acinetobacter
           calcoaceticus [TaxId: 471]}
          Length = 309

 Score = 23.0 bits (49), Expect = 6.5
 Identities = 5/25 (20%), Positives = 7/25 (28%), Gaps = 1/25 (4%)

Query: 30  AIFSGVKRDLVVSYEPIFDPRIPLE 54
             +   +  LVV      DP     
Sbjct: 251 FAY-ATREGLVVDAVEHTDPEAIKA 274


  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
   0.313    0.130    0.355 

Gapped
Lambda     K      H
   0.267   0.0670    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 13730
Number of Hits to DB: 285,138
Number of extensions: 11136
Number of successful extensions: 18
Number of sequences better than 10.0: 1
Number of HSP's gapped: 18
Number of HSP's successfully gapped: 8
Length of query: 86
Length of database: 2,407,596
Length adjustment: 51
Effective length of query: 35
Effective length of database: 1,707,366
Effective search space: 59757810
Effective search space used: 59757810
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 47 (22.0 bits)