RPS-BLAST 2.2.22 [Sep-27-2009]

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

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

Query= gi|254780318|ref|YP_003064731.1| ribosomal protein L20
[Candidatus Liberibacter asiaticus str. psy62]
         (123 letters)



>2ftc_L MRPL20 protein; mitochondrial ribosome, large ribosomal
           subunit, ribosomal RNA; 12.10A {Bos taurus} (L:)
          Length = 118

 Score =  127 bits (321), Expect = 5e-31
 Identities = 41/116 (35%), Positives = 63/116 (54%), Gaps = 1/116 (0%)

Query: 3   RVK-RGVVSSAKHKKVLKSAKGFYGRRKNTIRAAKAAVDRSQQYAYRDRRVKKRDFRSLW 61
            ++ R      + ++VLK A+ F GR+    R A   V R+     + R +KK++ R+LW
Sbjct: 2   WLRNRVTDRYFRIQEVLKHARHFRGRKNRCYRLAVRTVIRAFVKCTKARYLKKKNMRTLW 61

Query: 62  IQRINAAVRVYDLNYSQFINGLHKAGIVLDRKVLSDLAITQLDSFKKIVELSRSRL 117
           I RI AA + + L Y   I  L K  + L+RKVL+DLAI +  +FK +  L+  R 
Sbjct: 62  INRITAASQEHGLKYPALIGNLVKCQVELNRKVLADLAIYEPKTFKSLAALASRRR 117


>2ghj_A 50S ribosomal protein L20; folding intermediate, ribosomal
           protein extension, structural protein; 2.90A {Aquifex
           aeolicus} PDB: 1gyz_A (A:)
          Length = 118

 Score =  127 bits (320), Expect = 7e-31
 Identities = 62/115 (53%), Positives = 80/115 (69%)

Query: 6   RGVVSSAKHKKVLKSAKGFYGRRKNTIRAAKAAVDRSQQYAYRDRRVKKRDFRSLWIQRI 65
           +G  S  K KK+LK AKG+ G+R  + R AK AV R+  Y YRDR+++KR+FR LWI RI
Sbjct: 4   KGPSSRRKKKKILKLAKGYRGQRSRSYRRAKEAVXRALYYQYRDRKLRKREFRRLWIARI 63

Query: 66  NAAVRVYDLNYSQFINGLHKAGIVLDRKVLSDLAITQLDSFKKIVELSRSRLLVD 120
           NAAVR Y LNYS FINGL KAGI LDRK+L+D A+    +F+++V   +  L V 
Sbjct: 64  NAAVRAYGLNYSTFINGLKKAGIELDRKILADXAVRDPQAFEQVVNKVKEALQVQ 118


>2j01_U 50S ribosomal protein L20; ribosome, tRNA, paromomycin,
           mRNA, translation; 2.8A {Thermus thermophilus}
           (U:47-118)
          Length = 72

 Score =  100 bits (251), Expect = 7e-23
 Identities = 38/71 (53%), Positives = 51/71 (71%)

Query: 47  YRDRRVKKRDFRSLWIQRINAAVRVYDLNYSQFINGLHKAGIVLDRKVLSDLAITQLDSF 106
           Y  R+ +KRDFR LWI RINAA R + LNYS FI+GL KAGI +DRK L+DLA+ +   F
Sbjct: 1   YAHRKRRKRDFRRLWIVRINAACRQHGLNYSTFIHGLKKAGIEVDRKNLADLAVREPQVF 60

Query: 107 KKIVELSRSRL 117
            ++VE +++  
Sbjct: 61  AELVERAKAAQ 71


>3bbo_S Ribosomal protein L20; large ribosomal subunit, spinach
          chloroplast ribosome, ribonucleoprotein particle,
          macromolecular complex; 9.40A {Spinacea oleracea}
          (S:1-74)
          Length = 74

 Score = 99.6 bits (249), Expect = 1e-22
 Identities = 32/74 (43%), Positives = 41/74 (55%)

Query: 1  MTRVKRGVVSSAKHKKVLKSAKGFYGRRKNTIRAAKAAVDRSQQYAYRDRRVKKRDFRSL 60
          MTRVKRG ++  + KK+   A  F G      R       R+   A+RDR  +KRDFR L
Sbjct: 1  MTRVKRGYIARRRRKKIRFFASSFRGAHSRLTRTIAQQKIRALVSAHRDRDRQKRDFRRL 60

Query: 61 WIQRINAAVRVYDL 74
          WI RINAA+R   +
Sbjct: 61 WITRINAAIRERGV 74


>3i1n_Q 50S ribosomal protein L20; ribosome structure, protein-RNA
           complex, acetylation, ribonucleoprotein, ribosomal
           protein, RNA-binding, rRNA- binding, methylation; 3.19A
           {Escherichia coli k-12} PDB: 1vs8_Q 3e1b_J 3e1d_J 1vs6_Q
           3i1p_Q 3i1r_Q 3i1t_Q 3i20_Q 3i22_Q 2qam_Q* 1p85_O 1p86_O
           2awb_Q 2aw4_Q 2i2v_Q 2j28_Q 2i2t_Q* 2qao_Q* 2qba_Q*
           2qbc_Q* ... (Q:50-118)
          Length = 69

 Score = 98.5 bits (246), Expect = 3e-22
 Identities = 34/68 (50%), Positives = 49/68 (72%)

Query: 50  RRVKKRDFRSLWIQRINAAVRVYDLNYSQFINGLHKAGIVLDRKVLSDLAITQLDSFKKI 109
           RR +KR FR LWI RINAA R   ++YS+FINGL KA + +DRK+L+D+A+    +F  +
Sbjct: 1   RRQRKRQFRQLWIARINAAARQNGISYSKFINGLKKASVEIDRKILADIAVFDKVAFTAL 60

Query: 110 VELSRSRL 117
           VE +++ L
Sbjct: 61  VEKAKAAL 68


>2zjr_N 50S ribosomal protein L20; ribosome, large ribosomal
           subunit, ribonucleoprotein, RNA-binding, rRNA-binding,
           tRNA-binding, methylation; 2.91A {Deinococcus
           radiodurans} (N:52-118)
          Length = 67

 Score = 97.0 bits (242), Expect = 8e-22
 Identities = 37/65 (56%), Positives = 50/65 (76%)

Query: 53  KKRDFRSLWIQRINAAVRVYDLNYSQFINGLHKAGIVLDRKVLSDLAITQLDSFKKIVEL 112
           KKRDFR LWIQRINA  R++ +NYS FINGL +A I L+RKVL+D+A  + ++FK +V+ 
Sbjct: 2   KKRDFRRLWIQRINAGARLHGMNYSTFINGLKRANIDLNRKVLADIAAREPEAFKALVDA 61

Query: 113 SRSRL 117
           SR+  
Sbjct: 62  SRNAR 66


>2zjr_N 50S ribosomal protein L20; ribosome, large ribosomal
          subunit, ribonucleoprotein, RNA-binding, rRNA-binding,
          tRNA-binding, methylation; 2.91A {Deinococcus
          radiodurans} (N:1-51)
          Length = 51

 Score = 66.5 bits (163), Expect = 1e-12
 Identities = 25/51 (49%), Positives = 30/51 (58%)

Query: 1  MTRVKRGVVSSAKHKKVLKSAKGFYGRRKNTIRAAKAAVDRSQQYAYRDRR 51
          M R K G+V   +HKKVLK AKGF+G R    R A   +  +  Y YRDRR
Sbjct: 1  MPRAKTGIVRRRRHKKVLKRAKGFWGSRSKQYRNAFQTLLNAATYEYRDRR 51


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

 Score = 27.7 bits (61), Expect = 0.62
 Identities = 5/55 (9%), Positives = 13/55 (23%)

Query: 14  HKKVLKSAKGFYGRRKNTIRAAKAAVDRSQQYAYRDRRVKKRDFRSLWIQRINAA 68
              V +S +  + +            D +      +          + + R  A 
Sbjct: 300 THWVRESFQEVFKQDPEGDLGMDIVYDVAHNIGKVEEHEVDGKRVKVIVHRKGAT 354


>1x1n_A 4-alpha-glucanotransferase; disproportionating enzyme,
           amylomaltase, D-enzyme; 1.80A {Solanum tuberosum}
           (A:1-83,A:235-524)
          Length = 373

 Score = 25.2 bits (55), Expect = 3.1
 Identities = 8/29 (27%), Positives = 15/29 (51%), Gaps = 1/29 (3%)

Query: 46  AYRDRRVKKRDFRSLWIQRINAAVRVYDL 74
            Y  + ++K  F   W++RI  A  ++D 
Sbjct: 139 LYDWKAMEKDGFSW-WVRRIQRATDLFDE 166


>1tz7_A 4-alpha-glucanotransferase; (beta, alpha)8- barrel; 2.15A
           {Aquifex aeolicus} (A:1-78,A:221-505)
          Length = 363

 Score = 25.2 bits (55), Expect = 3.4
 Identities = 8/29 (27%), Positives = 15/29 (51%), Gaps = 1/29 (3%)

Query: 46  AYRDRRVKKRDFRSLWIQRINAAVRVYDL 74
            Y     +K  FR  WI+R+   ++++D 
Sbjct: 133 VYNWEEHEKEGFRW-WIRRVLHNLKLFDF 160


>1esw_A Amylomaltase; (beta,alpha)8-barrel, glucanotransferase,
           alpha-amylase family, acarbose; HET: ACR; 1.90A {Thermus
           aquaticus} (A:1-61,A:208-500)
          Length = 354

 Score = 24.8 bits (54), Expect = 4.2
 Identities = 8/29 (27%), Positives = 16/29 (55%), Gaps = 1/29 (3%)

Query: 46  AYRDRRVKKRDFRSLWIQRINAAVRVYDL 74
            YR   +++  F   WI+R+  A+ ++ L
Sbjct: 116 LYRWDVLEREGFSF-WIRRLEKALELFHL 143


>1lg4_A Doppel protein, prion-like protein; scrapie, prion
          protein; NMR {Homo sapiens} (A:)
          Length = 129

 Score = 24.5 bits (53), Expect = 5.6
 Identities = 9/18 (50%), Positives = 12/18 (66%)

Query: 70 RVYDLNYSQFINGLHKAG 87
          R Y+ NY QF +G+H  G
Sbjct: 53 RYYEANYWQFPDGIHYNG 70


  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    0.134    0.366 

Gapped
Lambda     K      H
   0.267   0.0745    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 33805
Number of Hits to DB: 841,837
Number of extensions: 33516
Number of successful extensions: 153
Number of sequences better than 10.0: 1
Number of HSP's gapped: 153
Number of HSP's successfully gapped: 23
Length of query: 123
Length of database: 4,956,049
Length adjustment: 73
Effective length of query: 50
Effective length of database: 2,488,284
Effective search space: 124414200
Effective search space used: 124414200
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 (21.6 bits)
S2: 50 (23.0 bits)