RPS-BLAST 2.2.22 [Sep-27-2009]

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

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

Query= gi|254780626|ref|YP_003065039.1| 30S ribosomal protein S20
[Candidatus Liberibacter asiaticus str. psy62]
         (90 letters)



>2vqe_T 30S ribosomal protein S20; tRNA-binding, rRNA-binding,
          metal-binding, zinc-finger, translation; HET: TM2 PAR;
          2.5A {Thermus thermophilus} (T:)
          Length = 106

 Score = 77.0 bits (190), Expect = 8e-16
 Identities = 33/90 (36%), Positives = 54/90 (60%)

Query: 1  MANKDSAKKMIRKIARRTLINKSRRSSVRSFMRHANEAITFGKIEEATEACRKAESVIQK 60
               SA K  R+  +R L NK+++S++++  + A +    GK EEA +  RKAES+I K
Sbjct: 6  PKRNLSALKRHRQSLKRRLRNKAKKSAIKTLSKKAVQLAQEGKAEEALKIMRKAESLIDK 65

Query: 61 AKSKGIFHGNAASRKVSRLSKRLKGILTSA 90
          A      H NAA+R+ SRL ++++ +L +A
Sbjct: 66 AAKGSTLHKNAAARRKSRLMRKVRQLLEAA 95


>3i1m_T 30S ribosomal protein S20; ribosome structure, protein-RNA
          complex, ribonucleoprotein, ribosomal protein,
          RNA-binding, rRNA-binding, antibiotic resistance; 3.19A
          {Escherichia coli k-12} PDB: 1vs7_T* 3e1a_N 3e1c_N
          1vs5_T 3i1o_T 3i1q_T 3i1s_T 3i1z_T 3i21_T 2qal_T*
          1p6g_T 1p87_T 2aw7_T 2avy_T 2i2u_T 2i2p_T* 2qan_T*
          2qb9_T* 2qbb_T* 2qbd_T ... (T:)
          Length = 87

 Score = 72.7 bits (179), Expect = 2e-14
 Identities = 26/86 (30%), Positives = 46/86 (53%)

Query: 1  MANKDSAKKMIRKIARRTLINKSRRSSVRSFMRHANEAITFGKIEEATEACRKAESVIQK 60
          MAN  SAKK   +  +    N SRRS +R+F++    AI  G    A +A  + + ++ +
Sbjct: 1  MANIKSAKKRAIQSEKARKHNASRRSMMRTFIKKVYAAIEAGDKAAAQKAFNEMQPIVDR 60

Query: 61 AKSKGIFHGNAASRKVSRLSKRLKGI 86
            +KG+ H N A+R  + L+ ++  +
Sbjct: 61 QAAKGLIHKNKAARHKANLTAQINKL 86


>3bbn_T Ribosomal protein S20; small ribosomal subunit, spinach
           chloroplast ribosome, ribonucleoprotein particle,
           macromolecular complex; 9.40A {Arabidopsis thaliana}
           (T:)
          Length = 202

 Score = 65.8 bits (160), Expect = 2e-12
 Identities = 29/99 (29%), Positives = 44/99 (44%), Gaps = 9/99 (9%)

Query: 1   MANKDSAKKMIRKIARRTLINKSRRSSVRSFMRHANEAITFGK---------IEEATEAC 51
               DSA K  R+  +R + NKS++S  R+ M+   EA+   K         I    +  
Sbjct: 84  TKKADSAAKRARQAEKRRVYNKSKKSEARTRMKKVLEALEGLKKKTDAQADEIVTVEKLI 143

Query: 52  RKAESVIQKAKSKGIFHGNAASRKVSRLSKRLKGILTSA 90
            +A S I KA      H N  +R+ SRL++R K +    
Sbjct: 144 GEAYSAIDKAVKVKALHKNTGARRKSRLARRKKAVEIHH 182


>1uc2_A PH1602, hypothetical protein PH1602; structural genomics,
           unknown function; HET: SUC; 2.15A {Pyrococcus
           horikoshii} (A:)
          Length = 481

 Score = 25.8 bits (56), Expect = 1.9
 Identities = 15/74 (20%), Positives = 30/74 (40%), Gaps = 6/74 (8%)

Query: 6   SAKKMIRKIARRTLINKSRRSSVRSFMRHANEAITFGKIEEATEACRKAESVIQKAKSKG 65
           + + + RK A R       R  + +   +   A      EEA  A +  ++V++     G
Sbjct: 406 AGRVLSRKAATRQYRGDRIRQELLNRGIYVRAASMRVVAEEAPGAYKNVDNVVKVVSEAG 465

Query: 66  IFHGNAASRKVSRL 79
           I      ++ V+R+
Sbjct: 466 I------AKLVARM 473


>1p9r_A General secretion pathway protein E; bacterial type II
           secretion system cytoplasmic protein - GSPE, putative
           ATPase/ ATP binding protein; 2.50A {Vibrio cholerae}
           (A:147-418)
          Length = 272

 Score = 25.8 bits (55), Expect = 2.0
 Identities = 10/57 (17%), Positives = 19/57 (33%), Gaps = 2/57 (3%)

Query: 1   MANKDSAKKMIRKIARRTLINKSRRSSVRSFMRHANEAITFGKI--EEATEACRKAE 55
           +   D+ +++I   A      K  R++  S      + +  G    EE     R   
Sbjct: 212 LLVDDALQELIHSEAGEQAXEKHIRATTPSIRDDGLDKVRQGITSLEEVXRGSRSHH 268


>2pff_A Fatty acid synthase subunit alpha,
          3-oxoacyl-[acyl-carrier-; fatty acid synthase,
          acyl-carrier-protein, beta-ketoacyl reductase,
          beta-ketoacyl synthase, dehydratase; 4.00A
          {Saccharomyces cerevisiae} (A:1221-1330,A:1541-1688)
          Length = 258

 Score = 23.7 bits (51), Expect = 9.4
 Identities = 6/7 (85%), Positives = 7/7 (100%)

Query: 84 KGILTSA 90
          KGILT+A
Sbjct: 4  KGILTTA 10


  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    0.124    0.319 

Gapped
Lambda     K      H
   0.267   0.0731    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 33805
Number of Hits to DB: 537,796
Number of extensions: 18722
Number of successful extensions: 129
Number of sequences better than 10.0: 1
Number of HSP's gapped: 128
Number of HSP's successfully gapped: 10
Length of query: 90
Length of database: 4,956,049
Length adjustment: 52
Effective length of query: 38
Effective length of database: 3,198,189
Effective search space: 121531182
Effective search space used: 121531182
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 (21.7 bits)
S2: 50 (23.0 bits)