RPS-BLAST 2.2.22 [Sep-27-2009]

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

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

Query= gi|254780331|ref|YP_003064744.1| 50S ribosomal protein L9
[Candidatus Liberibacter asiaticus str. psy62]
         (179 letters)



>3i1n_H 50S ribosomal protein L9; ribosome structure, protein-RNA
           complex, acetylation, ribonucleoprotein, ribosomal
           protein, RNA-binding, rRNA- binding, methylation; 3.19A
           {Escherichia coli k-12} PDB: 1p85_F 1p86_F 1vs8_H 2aw4_H
           2awb_H 2gya_F 2gyc_F 1vs6_H 2i2v_H 2j28_H 2i2t_H*
           2qao_H* 2qba_H* 2qbc_H* 2qbe_H 2qbg_H 2qbi_H* 2qbk_H*
           2qov_H 2qox_H ... (H:)
          Length = 149

 Score =  131 bits (332), Expect = 4e-32
 Identities = 55/146 (37%), Positives = 87/146 (59%), Gaps = 2/146 (1%)

Query: 14  MEVILLQNVTNLGPMGEVVKVKNGYARNYLLPKKKALRANKENKILFESQRSVLEAANLE 73
           M+VILL  V NLG +G+ V VK GYARN+L+P+ KA+ A K+N   FE++R+ LEA   E
Sbjct: 1   MQVILLDKVANLGSLGDQVNVKAGYARNFLVPQGKAVPATKKNIEFFEARRAELEAKLAE 60

Query: 74  KKAKYEGISKDLAKKNFSLIRA-AGDTGYLYGSVSSRDIADLLIEEGFDVNRGQINL-KS 131
             A     ++ +       I + AGD G L+GS+ +RDIAD +   G +V + ++ L   
Sbjct: 61  VLAAANARAEKINALETVTIASKAGDEGKLFGSIGTRDIADAVTAAGVEVAKSEVRLPNG 120

Query: 132 PIKSVGIHNIMISLHADVSTTITLNV 157
            +++ G H +   +H++V   + +NV
Sbjct: 121 VLRTTGEHEVSFQVHSEVFAKVIVNV 146


>1nkw_F 50S ribosomal protein L9; ribosome, large subunit, X- RAY
           structure, peptidyl-transferase, peptide bond formation;
           3.10A {Deinococcus radiodurans} (F:)
          Length = 146

 Score =  129 bits (327), Expect = 2e-31
 Identities = 54/144 (37%), Positives = 86/144 (59%), Gaps = 2/144 (1%)

Query: 14  MEVILLQNVTNLGPMGEVVKVKNGYARNYLLPKKKALRANKENKILFESQRSVLEAANLE 73
           M+VILL+    LG  GEVV VK+GYARN+L+P+  A+ A + N    E+Q   +E    +
Sbjct: 1   MQVILLEPS-RLGKTGEVVSVKDGYARNWLIPQGLAVSATRTNMKTLEAQLRSIEKRQAQ 59

Query: 74  KKAKYEGISKDLAKKNFSLIRAAGDTGYLYGSVSSRDIADLLIEEGFDVNRGQINLKSPI 133
           +KA  E ++  L      L   AG+ G +YG+V+ +D+A+ L + GFDV+R +I++   +
Sbjct: 60  EKAVAEDLASRLNGVAVELSVRAGE-GKIYGAVTHQDVANSLDQLGFDVDRRKIDMPKTV 118

Query: 134 KSVGIHNIMISLHADVSTTITLNV 157
           K VG ++I    H +V+  + L V
Sbjct: 119 KEVGEYDIAYRAHPEVTIPMKLVV 142


>1div_A Ribosomal protein L9; rRNA-binding; 2.60A {Bacillus
           stearothermophilus} (A:40-149)
          Length = 110

 Score = 87.8 bits (218), Expect = 7e-19
 Identities = 28/107 (26%), Positives = 57/107 (53%), Gaps = 1/107 (0%)

Query: 54  KENKILFESQRSVLEAANLEKKAKYEGISKDLAKKNFSLIRAAGDTGYLYGSVSSRDIAD 113
             N    E+Q+   +    E+ A  + + + L K   ++   AG+ G L+GS++S+ IA+
Sbjct: 2   PANLKALEAQKQKEQRQAAEELANAKKLKEQLEKLTVTIPAKAGEGGRLFGSITSKQIAE 61

Query: 114 LLIE-EGFDVNRGQINLKSPIKSVGIHNIMISLHADVSTTITLNVAR 159
            L    G  +++ +I L   I+++G  N+ + LH +V+ T+ ++V  
Sbjct: 62  SLQAQHGLKLDKRKIELADAIRALGYTNVPVKLHPEVTATLKVHVTE 108


>2j01_I 50S ribosomal protein L9; ribosome, tRNA, paromomycin, mRNA,
           translation; 2.8A {Thermus thermophilus} (I:41-148)
          Length = 106

 Score = 83.2 bits (206), Expect = 2e-17
 Identities = 26/105 (24%), Positives = 54/105 (51%), Gaps = 2/105 (1%)

Query: 54  KENKILFESQRSVLEAANLEKKAKYEGISKDLAKKNFSLIRAAGDTGYLYGSVSSRDIAD 113
           + N    E++         E+KA+ E + + L     ++   AG+   +YGSV+++DIA+
Sbjct: 1   ESNLKALEARIRAQAKRLAERKAEAERLKEILENLTLTIPVRAGE-TKIYGSVTAKDIAE 59

Query: 114 LLIEE-GFDVNRGQINLKSPIKSVGIHNIMISLHADVSTTITLNV 157
            L  + G  ++  ++ L+ PIK +G + +    H +V   + ++V
Sbjct: 60  ALSRQHGVTIDPKRLALEKPIKELGEYVLTYKPHPEVPIQLKVSV 104


>3bbo_J Ribosomal protein L9; large ribosomal subunit, spinach
           chloroplast ribosome, ribonucleoprotein particle,
           macromolecular complex; 9.40A {Arabidopsis thaliana}
           (J:122-197)
          Length = 76

 Score = 69.6 bits (171), Expect = 2e-13
 Identities = 18/71 (25%), Positives = 39/71 (54%), Gaps = 2/71 (2%)

Query: 88  KNFSLIRAAGDTGYLYGSVSSRDIADLLIEE-GFDVNRGQINLKSPIKSVGIHNIMISLH 146
             F + R  G    ++GSV+++D+ D++  +   D+++  ++L   I+  G +   + LH
Sbjct: 4   GAFKVKRKGGKGKLIFGSVTAQDLVDIIKSQLQKDIDKRLVSLP-EIRETGEYIAELKLH 62

Query: 147 ADVSTTITLNV 157
            DV+  + +NV
Sbjct: 63  PDVTARVKINV 73


>2j01_I 50S ribosomal protein L9; ribosome, tRNA, paromomycin,
          mRNA, translation; 2.8A {Thermus thermophilus} (I:1-40)
          Length = 40

 Score = 67.6 bits (166), Expect = 1e-12
 Identities = 24/40 (60%), Positives = 31/40 (77%)

Query: 14 MEVILLQNVTNLGPMGEVVKVKNGYARNYLLPKKKALRAN 53
          M+VILL+ + NLG +G+VV VK GYARNYLLP+  A+ A 
Sbjct: 1  MKVILLEPLENLGDVGQVVDVKPGYARNYLLPRGLAVLAT 40


>2hba_A BL17, 50S ribosomal protein L9; NTL9, K12M, RNA binding
          protein; 1.25A {Geobacillus stearothermophilus}
          (A:1-39)
          Length = 39

 Score = 67.2 bits (165), Expect = 1e-12
 Identities = 16/39 (41%), Positives = 25/39 (64%)

Query: 14 MEVILLQNVTNLGPMGEVVKVKNGYARNYLLPKKKALRA 52
          M+VI L++V  +G  GE+  V +GYA N+L  +  A+ A
Sbjct: 1  MKVIFLKDVKGMGKKGEIKNVADGYANNFLFKQGLAIEA 39


>1div_A Ribosomal protein L9; rRNA-binding; 2.60A {Bacillus
          stearothermophilus} (A:1-39)
          Length = 39

 Score = 67.2 bits (165), Expect = 1e-12
 Identities = 16/39 (41%), Positives = 24/39 (61%)

Query: 14 MEVILLQNVTNLGPMGEVVKVKNGYARNYLLPKKKALRA 52
          M+VI L++V   G  GE+  V +GYA N+L  +  A+ A
Sbjct: 1  MKVIFLKDVKGKGKKGEIKNVADGYANNFLFKQGLAIEA 39


>2etb_A Transient receptor potential cation channel subfamily V
           member 2; TRPV2, ankyrin repeat domain, transport
           protein; 1.65A {Rattus norvegicus} PDB: 2eta_A 2etc_A
           2f37_A (A:132-256)
          Length = 125

 Score = 26.2 bits (56), Expect = 2.4
 Identities = 2/20 (10%), Positives = 7/20 (35%)

Query: 110 DIADLLIEEGFDVNRGQINL 129
           +I   +++  F       + 
Sbjct: 104 EIFRHILQREFSGAAAHHHH 123


>3fhm_A Uncharacterized protein ATU1752; CBS domain, prokaryotic,
           bound nucleotide, AMP, NADH, structural genomics, PSI-2;
           HET: AMP NAI; 2.70A {Agrobacterium tumefaciens str}
           (A:37-98)
          Length = 62

 Score = 26.1 bits (58), Expect = 2.7
 Identities = 10/57 (17%), Positives = 17/57 (29%), Gaps = 12/57 (21%)

Query: 65  SVLEAANLEKKAKYEGISKDLAKKNFSLIRAAGDTGYLYGSVSSRDIADLLIEEGFD 121
           S+ EAA              L       +      G + G  + RD+   +  +G  
Sbjct: 9   SIGEAAGT------------LHAHKIGAVVVTDADGVVLGIFTERDLVKAVAGQGAA 53


>1cjc_A Protein (adrenodoxin reductase); flavoenzyme, MAD analysis,
           electron transferase; HET: FAD; 1.70A {Bos taurus}
           (A:114-329)
          Length = 216

 Score = 26.2 bits (57), Expect = 2.8
 Identities = 3/44 (6%), Positives = 10/44 (22%)

Query: 81  ISKDLAKKNFSLIRAAGDTGYLYGSVSSRDIADLLIEEGFDVNR 124
                   + ++I   G+       +       L   +  +   
Sbjct: 25  ELAPDLSCDTAVILGQGNVALDVARILLTPPDHLEKTDITEAAL 68


>1y5h_A Hypothetical protein RV2626C; CBS domain, unknown function;
           1.50A {Mycobacterium tuberculosis} (A:19-74)
          Length = 56

 Score = 26.1 bits (58), Expect = 3.3
 Identities = 12/59 (20%), Positives = 21/59 (35%), Gaps = 12/59 (20%)

Query: 65  SVLEAANLEKKAKYEGISKDLAKKNFSLIRAAGDTGYLYGSVSSRDIADLLIEEGFDVN 123
           ++  AA                + +   +   GD   L+G ++ RDI    +  G D N
Sbjct: 8   TLTAAAQYX------------REHDIGALPICGDDDRLHGXLTDRDIVIKGLAAGLDPN 54


>2dvw_A 26S proteasome non-ATPase regulatory subunit 10; ankyrin
           repeats, A-helical domain, structural genomics, NPPSFA;
           2.30A {Mus musculus} PDB: 2dwz_A* 1tr4_A 1uoh_A 1qym_A
           (A:99-231)
          Length = 133

 Score = 25.9 bits (55), Expect = 3.5
 Identities = 3/22 (13%), Positives = 8/22 (36%)

Query: 102 LYGSVSSRDIADLLIEEGFDVN 123
           L  +     +    + EG + +
Sbjct: 111 LQVAKGGLGLILKRLAEGEEAS 132


>2nyc_A Nuclear protein SNF4; bateman2 domain, AMP kinase, protein
           binding; 1.90A {Saccharomyces cerevisiae} (A:16-89)
          Length = 74

 Score = 25.2 bits (55), Expect = 4.9
 Identities = 7/37 (18%), Positives = 15/37 (40%)

Query: 85  LAKKNFSLIRAAGDTGYLYGSVSSRDIADLLIEEGFD 121
           L +   S +    + GYL     + D+  L+    ++
Sbjct: 22  LTQGRVSSVPIIDENGYLINVYEAYDVLGLIKGGIYN 58


>2hyv_A Annexin A2; calcium-binding protein, membrane-binding
           protein, helix bundle, heparin, hexasaccharide, metal
           binding protein; HET: UAP SGN IDS; 1.42A {Homo sapiens}
           PDB: 2hyu_A* 2hyw_A 1w7b_A 1xjl_A (A:1-73,A:234-308)
          Length = 148

 Score = 24.8 bits (54), Expect = 6.8
 Identities = 10/59 (16%), Positives = 31/59 (52%), Gaps = 1/59 (1%)

Query: 120 FDVNRGQINLKSPIKSVGIHNI-MISLHADVSTTITLNVARSTEEMVKQDILGEHEEEI 177
           FD  R  +N+++ IK+ G+  + ++++  + S     ++A + +   K+++    +  +
Sbjct: 2   FDAERDALNIETAIKTKGVDEVTIVNILTNRSNAQRQDIAFAYQRRTKKELASALKSAL 60


>2rc3_A CBS domain; in SITU proteolysis, BR, structural genomics,
           PSI-2, protein structure initiative; HET: NAD; 1.60A
           {Nitrosomonas europaea atcc 19718} (A:18-74)
          Length = 57

 Score = 24.6 bits (54), Expect = 7.6
 Identities = 5/26 (19%), Positives = 8/26 (30%)

Query: 98  DTGYLYGSVSSRDIADLLIEEGFDVN 123
               L G ++ RD +         V 
Sbjct: 30  KDEKLVGILTERDFSRKSYLLDKPVK 55


>3a2k_A TRNA(Ile)-lysidine synthase; ligase, pseudo-knot, ligase/RNA
           complex; 3.65A {Geobacillus kaustophilus} (A:333-464)
          Length = 132

 Score = 24.5 bits (53), Expect = 8.1
 Identities = 10/40 (25%), Positives = 17/40 (42%), Gaps = 3/40 (7%)

Query: 84  DLAKKNFSLI---RAAGDTGYLYGSVSSRDIADLLIEEGF 120
           D A  +  L    R  GD   L G+  ++ + ++ IE   
Sbjct: 44  DPASVSLPLRVRTRRRGDRMVLKGTGGTKKLKEIFIEAKI 83


>3dyj_A Talin-1; helix bundles, cytoskeletal protein,
           integrin-bindin site, IBS2, cell membrane, cell
           projection, cytoplasm, cytoskeleton, membrane; 1.85A
           {Mus musculus} (A:179-332)
          Length = 154

 Score = 24.7 bits (54), Expect = 8.4
 Identities = 12/38 (31%), Positives = 18/38 (47%)

Query: 59  LFESQRSVLEAANLEKKAKYEGISKDLAKKNFSLIRAA 96
           L +     L+  N + K +  G SK +A     LI+AA
Sbjct: 111 LLDHVLLTLQKPNPDLKQQLTGHSKRVAGSVTELIQAA 148


  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
   0.312    0.131    0.345 

Gapped
Lambda     K      H
   0.267   0.0576    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 33805
Number of Hits to DB: 1,200,157
Number of extensions: 48669
Number of successful extensions: 174
Number of sequences better than 10.0: 1
Number of HSP's gapped: 166
Number of HSP's successfully gapped: 27
Length of query: 179
Length of database: 4,956,049
Length adjustment: 83
Effective length of query: 96
Effective length of database: 2,150,234
Effective search space: 206422464
Effective search space used: 206422464
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 (21.8 bits)
S2: 52 (24.1 bits)