RPS-BLAST 2.2.22 [Sep-27-2009]

Database: mmdb70 
           33,805 sequences; 4,956,049 total letters

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

Query= gi|254780785|ref|YP_003065198.1| 30S ribosomal protein S15
[Candidatus Liberibacter asiaticus str. psy62]
         (89 letters)



>2vqe_O 30S ribosomal protein S15; tRNA-binding, rRNA-binding,
          metal-binding, zinc-finger, translation; HET: TM2 PAR;
          2.5A {Thermus thermophilus} (O:)
          Length = 89

 Score =  103 bits (258), Expect = 1e-23
 Identities = 44/88 (50%), Positives = 62/88 (70%)

Query: 1  MSITLERKRELMKEYAVSPGDTGSPEVQVAVCTERIANLTEHFKSAKKDVNSKIGLGRLI 60
          M IT E K+++++E+A  PGDTGS EVQVA+ T RI  L+EH K  KKD +S  GL  ++
Sbjct: 1  MPITKEEKQKVIQEFARFPGDTGSTEVQVALLTLRINRLSEHLKVHKKDHHSHRGLLMMV 60

Query: 61 SLRSSLLKYLERKDVERYKRLVQSLKLR 88
            R  LL+YL+R+D ERY+ L++ L +R
Sbjct: 61 GQRRRLLRYLQREDPERYRALIEKLGIR 88


>3i1m_O 30S ribosomal protein S15; ribosome structure, protein-RNA
          complex, ribonucleoprotein, ribosomal protein,
          RNA-binding, rRNA-binding, antibiotic resistance; 3.19A
          {Escherichia coli k-12} PDB: 2qan_O* 2qb9_O* 2qbb_O*
          2qbd_O 2qbf_O 2qbh_O* 2qbj_O* 2qou_O* 2qow_O* 2qoy_O*
          2qp0_O* 2vaz_F 2z4k_O* 2z4m_O* 2qal_O 3i1o_O 3i1q_O
          3i1s_O 3i1z_O 3i21_O ... (O:)
          Length = 89

 Score =  102 bits (256), Expect = 2e-23
 Identities = 42/89 (47%), Positives = 59/89 (66%)

Query: 1  MSITLERKRELMKEYAVSPGDTGSPEVQVAVCTERIANLTEHFKSAKKDVNSKIGLGRLI 60
          MS++ E   +++ E+     DTGS EVQVA+ T +I +L  HF   KKD +S+ GL R++
Sbjct: 1  MSLSTEATAKIVSEFGRDANDTGSTEVQVALLTAQINHLQGHFAEHKKDHHSRRGLLRMV 60

Query: 61 SLRSSLLKYLERKDVERYKRLVQSLKLRR 89
          S R  LL YL+RKDV RY +L++ L LRR
Sbjct: 61 SQRRKLLDYLKRKDVARYTQLIERLGLRR 89


>3bbn_O Ribosomal protein S15; small ribosomal subunit, spinach
          chloroplast ribosome, ribonucleoprotein particle,
          macromolecular complex; 9.40A {Spinacea oleracea} (O:)
          Length = 90

 Score = 91.4 bits (227), Expect = 4e-20
 Identities = 27/83 (32%), Positives = 40/83 (48%)

Query: 6  ERKRELMKEYAVSPGDTGSPEVQVAVCTERIANLTEHFKSAKKDVNSKIGLGRLISLRSS 65
          +     +        + GS E QV   T +I  LT H +  KKD +S+ GL + +  R  
Sbjct: 3  KNSFISVISDEKKEENKGSVEFQVFCFTNKIRRLTLHLELHKKDYSSQRGLRKTLGKRQR 62

Query: 66 LLKYLERKDVERYKRLVQSLKLR 88
          LL YL + +  RYK L+  L +R
Sbjct: 63 LLAYLLKINGVRYKELISKLNIR 85


>1a32_A Ribosomal protein S15; multiwavelength anomalous
          diffraction, protein-RNA, ribosomal protein
          interactions, ribosome, RNA-binding; 2.10A {Bacillus
          stearothermophilus} (A:20-88)
          Length = 69

 Score = 85.1 bits (211), Expect = 3e-18
 Identities = 37/69 (53%), Positives = 49/69 (71%)

Query: 21 DTGSPEVQVAVCTERIANLTEHFKSAKKDVNSKIGLGRLISLRSSLLKYLERKDVERYKR 80
          DTGSPEVQ+A+ TE+I NL EH +  KKD +S+ GL +++  R  LL YL  KDV RY+ 
Sbjct: 1  DTGSPEVQIAILTEQINNLNEHLRVHKKDHHSRRGLLKMVGKRRRLLAYLRNKDVARYRE 60

Query: 81 LVQSLKLRR 89
          +V+ L LRR
Sbjct: 61 IVEKLGLRR 69


>3jyv_O 40S ribosomal protein S13; eukaryotic ribosome, RACK1
          protein, flexible fitting; HET: 2MG H2U M2G OMC OMG YYG
          PSU 5MC 7MG 5MU 1MA; 8.90A {Thermomyces lanuginosus}
          PDB: 1ysh_E 1s1h_O (O:)
          Length = 84

 Score = 77.1 bits (190), Expect = 7e-16
 Identities = 11/66 (16%), Positives = 24/66 (36%)

Query: 10 ELMKEYAVSPGDTGSPEVQVAVCTERIANLTEHFKSAKKDVNSKIGLGRLISLRSSLLKY 69
            +     S G        +    ++  ++ +H +  +KD ++K  L  + S    L +Y
Sbjct: 4  NKIMRILKSNGLAPEIPEDLYYLIKKAVSVRKHLERNRKDKDAKFRLILIESRIHRLARY 63

Query: 70 LERKDV 75
               V
Sbjct: 64 YRTVAV 69


>3h12_A Mandelate racemase; structural genomics, protein structure
          initiative, NEW YORK structural genomix research
          consortium nysgxrc; 1.50A {Bordetella bronchiseptica}
          (A:131-348)
          Length = 218

 Score = 27.9 bits (61), Expect = 0.49
 Identities = 5/37 (13%), Positives = 10/37 (27%)

Query: 8  KRELMKEYAVSPGDTGSPEVQVAVCTERIANLTEHFK 44
              ++ YA S     +P+         +       K
Sbjct: 5  HTRGVRAYASSIYWDLTPDQAADELAGWVEQGFTAAK 41


>2ovl_A Putative racemase; structural genomics, PSI-2, protein
          structure initiative, NEW YORK SGX research center for
          structural genomics; 2.13A {Streptomyces coelicolor A3}
          PDB: 3ck5_A (A:126-371)
          Length = 246

 Score = 27.6 bits (60), Expect = 0.68
 Identities = 4/39 (10%), Positives = 7/39 (17%)

Query: 8  KRELMKEYAVSPGDTGSPEVQVAVCTERIANLTEHFKSA 46
             ++  YA                   +A      K  
Sbjct: 5  YDPVVPVYAGGIDLELPVADLKTQADRFLAGGFRAIKXK 43


>2hai_A Hepatitis C virus NS5B RNA polymerase; HCV RNA polymerase,
           transferase; HET: CME PFI; 1.58A {Hepatitis c virus}
           PDB: 1os5_A* 3frz_A* 2d3z_A* 2d3u_A* 2d41_A* 2gc8_A*
           1quv_A* 2qe2_A* 2qe5_A* 3e51_A* 3bsa_A* 3bsc_A* 3br9_A*
           3co9_A* 3cvk_A* 3cwj_A* 3d28_A* 3d5m_A* 3cde_A* 2zku_A
           ... (A:1-357)
          Length = 357

 Score = 24.2 bits (52), Expect = 7.2
 Identities = 8/17 (47%), Positives = 9/17 (52%)

Query: 10  ELMKEYAVSPGDTGSPE 26
           E M  Y+  PGD   PE
Sbjct: 341 EAMTRYSAPPGDPPQPE 357


  Database: mmdb70
    Posted date:  Jun 20, 2010  3:12 AM
  Number of letters in database: 4,956,049
  Number of sequences in database:  33,805
  
Lambda     K      H
   0.316    0.132    0.348 

Gapped
Lambda     K      H
   0.267   0.0676    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 33805
Number of Hits to DB: 608,624
Number of extensions: 21720
Number of successful extensions: 84
Number of sequences better than 10.0: 1
Number of HSP's gapped: 84
Number of HSP's successfully gapped: 10
Length of query: 89
Length of database: 4,956,049
Length adjustment: 51
Effective length of query: 38
Effective length of database: 3,231,994
Effective search space: 122815772
Effective search space used: 122815772
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: 50 (23.1 bits)