RPS-BLAST 2.2.22 [Sep-27-2009]

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

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

Query= gi|254780437|ref|YP_003064850.1| 30S ribosomal protein S21
[Candidatus Liberibacter asiaticus str. psy62]
         (95 letters)



>3bbn_U Ribosomal protein S21; small ribosomal subunit, spinach
           chloroplast ribosome, ribonucleoprotein particle,
           macromolecular complex; 9.40A {Cucumis sativus} (U:)
          Length = 190

 Score = 72.8 bits (178), Expect = 1e-14
 Identities = 16/92 (17%), Positives = 33/92 (35%)

Query: 4   FNAFRGIFSEGREISAVYVLVRDNNVEQALRVLKKKMQGEGVLRELKMRGHYEKPSQKRV 63
             A+          +   V+  +   E+ L   ++++   GV++E K R  +E     R 
Sbjct: 82  SLAYANTMFFRSAYNVQVVVDDNEPEERLLNRFRREVMRAGVIQECKRRRFFENTQDVRK 141

Query: 64  RLKSEAIRRSRKLMRKIAQREGAPVSRLRQHR 95
           R   EA +R+R+   +               +
Sbjct: 142 RKTREAAKRNRRRRPQARFTPQNKQDVPATKQ 173


>3i1m_U 30S ribosomal protein S21; ribosome structure, protein-RNA
          complex, ribonucleoprotein, ribosomal protein,
          RNA-binding, rRNA-binding, antibiotic resistance; 3.19A
          {Escherichia coli k-12} PDB: 1vs7_U* 2avy_U 2aw7_U
          2vho_U 2vhp_U 3df1_U* 3df3_U* 3e1a_Q 3e1c_Q 1vs5_U
          3i1o_U 3i1q_U 3i1s_U 3i1z_U 3i21_U 2qal_U* 2i2u_U
          2i2p_U* 2qan_U* 2qb9_U* ... (U:)
          Length = 71

 Score = 48.9 bits (117), Expect = 2e-07
 Identities = 23/64 (35%), Positives = 37/64 (57%), Gaps = 1/64 (1%)

Query: 22 VLVRDN-NVEQALRVLKKKMQGEGVLRELKMRGHYEKPSQKRVRLKSEAIRRSRKLMRKI 80
          + VR+N   + ALR  K+  +  GVL E++ R  YEKP+ +R R K+ A++R  K + + 
Sbjct: 4  IKVRENEPFDVALRRFKRSCEKAGVLAEVRRREFYEKPTTERKRAKASAVKRHAKKLARE 63

Query: 81 AQRE 84
            R 
Sbjct: 64 NARR 67


>1msw_D DNA-directed RNA polymerase, bacteriophage T7 RNA; T7RNAP
           elongation complex, transcription/DNA/RNA complex; 2.10A
           {Enterobacteria phage T7}
           (D:540-565,D:690-779,D:840-883)
          Length = 160

 Score = 24.9 bits (54), Expect = 4.3
 Identities = 8/39 (20%), Positives = 16/39 (41%), Gaps = 3/39 (7%)

Query: 55  YEKPSQKRVRLKSEAIRRSRKLMRKIAQREGAPVSRLRQ 93
           Y+KP Q R+ L      R +  +      + + +   +Q
Sbjct: 76  YKKPIQTRLNLMFLGQFRLQPTIN---TNKDSEIDAHKQ 111


>1w36_D RECD, exodeoxyribonuclease V alpha chain; recombination,
          helicase, hydrolase, DNA repair; HET: DNA; 3.1A
          {Escherichia coli} (D:361-595)
          Length = 235

 Score = 24.5 bits (51), Expect = 5.4
 Identities = 5/85 (5%), Positives = 15/85 (17%)

Query: 11 FSEGREISAVYVLVRDNNVEQALRVLKKKMQGEGVLRELKMRGHYEKPSQKRVRLKSEAI 70
          F     I  +   +   +      V ++               +     +          
Sbjct: 1  FGSDSGIGQLAAAINRGDKTAVKTVFQQDFTDIEKRLLQSGEDYIAMLEEALAGYGRYLD 60

Query: 71 RRSRKLMRKIAQREGAPVSRLRQHR 95
              +    +  +       L   R
Sbjct: 61 LLQARAEPDLIIQAFNEYQLLCALR 85


>1zvp_A Hypothetical protein VC0802; structural genomics, PSI,
          protein structure initiative, midwest center for
          structural genomics, MCSG; 2.20A {Vibrio cholerae}
          (A:1-22,A:68-133)
          Length = 88

 Score = 24.4 bits (53), Expect = 5.7
 Identities = 6/22 (27%), Positives = 12/22 (54%)

Query: 21 YVLVRDNNVEQALRVLKKKMQG 42
          ++ V+    +QAL+ L +  Q 
Sbjct: 67 HIFVQKEKAQQALQALGEFAQA 88


>2jxx_A Nfatc2-interacting protein; nuclear factor of activated
          T-cells, cytoplasmic 2- interacting protein, ubiquitin
          like homologue; NMR {Homo sapiens} (A:)
          Length = 97

 Score = 23.7 bits (51), Expect = 8.1
 Identities = 4/19 (21%), Positives = 7/19 (36%)

Query: 74 RKLMRKIAQREGAPVSRLR 92
          + LM    +  G    +L 
Sbjct: 50 KTLMSHYEEAMGLSGRKLS 68


>3bu8_A Telomeric repeat-binding factor 2; TRF2 TRFH domain TRF2
           dimerization domain TIN2 peptide, alternative splicing,
           cell cycle, chromosomal protein; 2.15A {Homo sapiens}
           (A:50-189)
          Length = 140

 Score = 23.6 bits (51), Expect = 9.6
 Identities = 9/36 (25%), Positives = 22/36 (61%)

Query: 16  EISAVYVLVRDNNVEQALRVLKKKMQGEGVLRELKM 51
           + +AV + +++   E+A ++LKK M  +   ++L+ 
Sbjct: 68  KEAAVIICIKNKEFEKASKILKKHMSKDPTTQKLRN 103


  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
   0.323    0.136    0.367 

Gapped
Lambda     K      H
   0.267   0.0701    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 33805
Number of Hits to DB: 687,025
Number of extensions: 27450
Number of successful extensions: 168
Number of sequences better than 10.0: 1
Number of HSP's gapped: 168
Number of HSP's successfully gapped: 19
Length of query: 95
Length of database: 4,956,049
Length adjustment: 55
Effective length of query: 40
Effective length of database: 3,096,774
Effective search space: 123870960
Effective search space used: 123870960
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: 40 (21.5 bits)
S2: 50 (23.1 bits)