RPS-BLAST 2.2.22 [Sep-27-2009]

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

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

Query= gi|254780242|ref|YP_003064655.1| 50S ribosomal protein L15
[Candidatus Liberibacter asiaticus str. psy62]
         (151 letters)



>3i1n_L 50S ribosomal protein L15; ribosome structure, protein-RNA
           complex, acetylation, ribonucleoprotein, ribosomal
           protein, RNA-binding, rRNA- binding, methylation; 3.19A
           {Escherichia coli k-12} PDB: 1p85_J 1p86_J 1vs8_L 2aw4_L
           2awb_L 1vs6_L 2i2v_L 2j28_L 2i2t_L* 2qao_L* 2qba_L*
           2qbc_L* 2qbe_L 2qbg_L 2qbi_L* 2qbk_L* 2qov_L 2qox_L
           2qoz_L* 2qp1_L* ... (L:)
          Length = 144

 Score =  128 bits (324), Expect = 2e-31
 Identities = 61/149 (40%), Positives = 82/149 (55%), Gaps = 8/149 (5%)

Query: 1   MKLNEISYDKGSCKVKKRVARGIGSGTGKTAGRGVKGQKSRSGVSVR-GFEGGQMPLYRR 59
           M+LN +S  +GS K  KR+ RGIGSG GKT GRG KGQKSRSG  VR GFEGGQMPLYRR
Sbjct: 1   MRLNTLSPAEGSKKAGKRLGRGIGSGLGKTGGRGHKGQKSRSGGGVRRGFEGGQMPLYRR 60

Query: 60  LPKRGFVNIAGSDFVTISLGLLQAYIDKDRLDCSSEIDASVLVASGLVRRSQRGIRILSD 119
           LPK GF +   +    I L  L              +D + L A+ ++       +++  
Sbjct: 61  LPKFGFTSRKAAITAEIRLSDLAKVEGG-------VVDLNTLKAANIIGIQIEFAKVILA 113

Query: 120 GDLKAKVVLRVSGASASAVEKVEKLGGQV 148
           G++   V +R    +  A   +E  GG++
Sbjct: 114 GEVTTPVTVRGLRVTKGARAAIEAAGGKI 142


>3bbo_N Ribosomal protein L15; large ribosomal subunit, spinach
           chloroplast ribosome, ribonucleoprotein particle,
           macromolecular complex; 9.40A {Pisum sativum} (N:)
          Length = 257

 Score =  127 bits (319), Expect = 1e-30
 Identities = 58/156 (37%), Positives = 88/156 (56%), Gaps = 5/156 (3%)

Query: 1   MKLNEISYDKGSCKVKKRVARGIGSGTGKTAGRGVKGQKSRSGVSVR-GFEGGQMPLYRR 59
            +L+ +    GS K  KR  RGI +G G + G G++GQKSRSG  +  GFEGGQMPLYRR
Sbjct: 65  FRLDNLGPQPGSRKRPKRKGRGIAAGQGASCGFGMRGQKSRSGPGIMRGFEGGQMPLYRR 124

Query: 60  LPK----RGFVNIAGSDFVTISLGLLQAYIDKDRLDCSSEIDASVLVASGLVRRSQRGIR 115
           LPK     G ++     +V ++L  ++    +D  + S E   +  V +   R  +  ++
Sbjct: 125 LPKLRGIAGGMHAGLPKYVNVNLTDIENAGFQDGEEVSLETLKAKRVINPSGRERKLPLK 184

Query: 116 ILSDGDLKAKVVLRVSGASASAVEKVEKLGGQVIVI 151
           IL+DG+L  K+ ++    S SA EK+E  G  +IV+
Sbjct: 185 ILADGELSKKLTIKAGAFSTSAKEKLEYAGCSLIVL 220


>2j01_P 50S ribosomal protein L15; ribosome, tRNA, paromomycin,
           mRNA, translation; 2.8A {Thermus thermophilus} (P:)
          Length = 150

 Score =  121 bits (305), Expect = 4e-29
 Identities = 54/153 (35%), Positives = 82/153 (53%), Gaps = 7/153 (4%)

Query: 1   MKLNEISYDKGSCKVKKRVARGIGSGTGKTAGRGVKGQKSRSGVSV--RGFEGGQMPLYR 58
           MKL+++  + G+ K +KRV RG GSG GKTA RG KGQKSRSG     R FEGG+     
Sbjct: 1   MKLSDLRPNPGANKRRKRVGRGPGSGHGKTATRGHKGQKSRSGGLKDPRRFEGGRSTTLM 60

Query: 59  RLPKRGFVNIAGSDFVTISLGLLQAYIDKDRLDCSSEIDASVLVASGLVRRSQRGIRILS 118
           RLPKRG       +        +             E+   +LV +GL+++    ++IL 
Sbjct: 61  RLPKRGMQGQVPGEIKRPRYQGVNLKDLARFEG---EVTPELLVRAGLLKK-GYRLKILG 116

Query: 119 DGDLKAKVVLRVSGASASAVEKVEKLGGQVIVI 151
           +G+ K  + +     S SA+EK++  GG+ +++
Sbjct: 117 EGEAK-PLKVVAHAFSKSALEKLKAAGGEPVLL 148


>2zjr_I 50S ribosomal protein L15; ribosome, large ribosomal
           subunit, ribonucleoprotein, RNA-binding, rRNA-binding,
           tRNA-binding, methylation; 2.91A {Deinococcus
           radiodurans} (I:)
          Length = 156

 Score =  115 bits (290), Expect = 2e-27
 Identities = 64/152 (42%), Positives = 86/152 (56%), Gaps = 10/152 (6%)

Query: 1   MKLNEISYDKGSCKVKKRVARGIGSGTGKTAGRGVKGQKSRSGVSVR-GFEGGQMPLYRR 59
           MKL+++    GS K +KRV RG G    KTAGRG KGQKSRSG      FEGG+  L  R
Sbjct: 1   MKLHDLKPTPGSRKDRKRVGRGPGGT-DKTAGRGHKGQKSRSGAGKGAFFEGGRSRLIAR 59

Query: 60  LPKRGFVNIAGSDFVTISLGLLQAYIDKDRLDCSSEIDASVLVASGLVRRSQRGIRILSD 119
           LPKRGF N+  + +  + L  LQ   D          D   L A  LVRR  R +++L+ 
Sbjct: 60  LPKRGFNNVG-TTYEVVKLSQLQDLEDT-------TFDRDTLEAYRLVRRKNRPVKLLAS 111

Query: 120 GDLKAKVVLRVSGASASAVEKVEKLGGQVIVI 151
           G++   V + V  ASA+A++ VE  GG+V++ 
Sbjct: 112 GEISRAVTVHVDAASAAAIKAVEAAGGRVVLP 143


>1vq8_L 50S ribosomal protein L15P; ribosome 50S, protein-protein
           complex, RNA-RNA complex, protein-RNA complex, peptidyl
           transferase reaction; HET: 1MA OMU OMG UR3 PSU SPS;
           2.20A {Haloarcula marismortui} (L:)
          Length = 165

 Score =  109 bits (273), Expect = 2e-25
 Identities = 27/147 (18%), Positives = 52/147 (35%), Gaps = 12/147 (8%)

Query: 12  SCKVKKRVARGIGSGTGKTA-GRGVKGQKSRSGVSVRGFEGGQMPLYRRLPKRGFVNIAG 70
           S K ++R +R  G G+ K   G G +G +  +G      +  +   +  L K GF     
Sbjct: 3   SKKKRQRGSRTHGGGSHKNRRGAGHRGGRGDAG-----RDKHEFHNHEPLGKSGFKRPQK 57

Query: 71  SDFVTISLGLLQAYIDKD------RLDCSSEIDASVLVASGLVRRSQRGIRILSDGDLKA 124
                 ++ + +   +          +         +            +++L  G ++ 
Sbjct: 58  VQEEAATIDVREIDENVTLLAADDVAEVEDGGFRVDVRDVVEEADDADYVKVLGAGQVRH 117

Query: 125 KVVLRVSGASASAVEKVEKLGGQVIVI 151
           ++ L     S  A EKVE  GG V + 
Sbjct: 118 ELTLIADDFSEGAREKVEGAGGSVELT 144


>2zkr_l 60S ribosomal protein L27A; protein-RNA complex, 60S
           ribosomal subunit, ribosomal protein/RNA complex; 8.70A
           {Canis familiaris} (l:)
          Length = 148

 Score = 92.7 bits (230), Expect = 2e-20
 Identities = 29/150 (19%), Positives = 51/150 (34%), Gaps = 15/150 (10%)

Query: 12  SCKVKKRVARGIGSGTGKTAGRGVKGQKSRSGVSVR-GFEGGQMPLYRRLPKRG------ 64
           S   K R  RG  S      GR  K +K   G     G    ++   +  P         
Sbjct: 3   SRLRKTRKLRGHVSHGH---GRIGKHRKHPGGRGNAGGMHHHRINFDKYHPGYFGKVGMK 59

Query: 65  --FVNIAGSDFVTISLGLLQAYIDKDRLDCSSEIDASVLVASGLVRRSQRGIRILSDGDL 122
              +    S   T++L      + +      +       VA  +        ++L  G L
Sbjct: 60  HYHLKRNQSFCPTVNLDKPWTLVSEQTRV--NAAKNKTGVAPIIDVVRSGYYKVLGKGKL 117

Query: 123 -KAKVVLRVSGASASAVEKVEKLGGQVIVI 151
            K  V+++    S  A EK++ +GG  +++
Sbjct: 118 PKQPVIVKAKFFSRRAEEKIKSVGGACVLV 147


>3jyw_O 60S ribosomal protein L18(A); eukaryotic ribosome, RACK1
           protein, flexible fitting; 8.90A {Thermomyces
           lanuginosus} PDB: 1s1i_O (O:)
          Length = 121

 Score = 74.1 bits (182), Expect = 8e-15
 Identities = 12/104 (11%), Positives = 32/104 (30%), Gaps = 15/104 (14%)

Query: 48  GFEGGQMPLYRRLPKRGFVNIAGSDFVTISLGLLQAYIDKDRLDCSSEIDASVLVASGLV 107
                  P  + + K  F++    +   +S+  +   + ++     + +    +     +
Sbjct: 16  LARRTDAPFNKVVLKALFLSK--INRPPVSVSRIARALKQEGAANKTVVVVGTVTDDARI 73

Query: 108 RRSQRGIRILSDGDLKAKVVLRVSGASASAVEKVEKLGGQVIVI 151
                            K  +     +A A  K+ K GG+ I +
Sbjct: 74  FEF-------------PKTTVAALRFTAGARAKIVKAGGECITL 104


>3jyw_V 60S ribosomal protein L28; eukaryotic ribosome, RACK1
           protein, flexible fitting; 8.90A {Thermomyces
           lanuginosus} PDB: 1s1i_V (V:49-142)
          Length = 94

 Score = 69.4 bits (170), Expect = 2e-13
 Identities = 19/95 (20%), Positives = 34/95 (35%), Gaps = 3/95 (3%)

Query: 59  RLPKRGFVNIAGS-DFVTISLGLLQAYIDKDRLDCSSEIDASVLVASGLVRRSQRGIRIL 117
           ++  R F           ++L  L   I +D+ D   +  +                +IL
Sbjct: 1   KVGMRYFHKQQAHFWKPVLNLDKLWTLIPEDKRDQYLKSASKETAPVIDTLA-AGYGKIL 59

Query: 118 SDGDL-KAKVVLRVSGASASAVEKVEKLGGQVIVI 151
             G +    V+++    S  A EK+   GG V +I
Sbjct: 60  GKGRIPNVPVIVKARFVSKLAEEKIRAAGGVVELI 94


>1vq8_O 50S ribosomal protein L18E; ribosome 50S, protein-protein
           complex, RNA-RNA complex, protein-RNA complex, peptidyl
           transferase reaction; HET: 1MA OMU OMG UR3 PSU SPS;
           2.20A {Haloarcula marismortui} (O:39-116)
          Length = 78

 Score = 41.5 bits (98), Expect = 6e-05
 Identities = 9/39 (23%), Positives = 19/39 (48%)

Query: 113 GIRILSDGDLKAKVVLRVSGASASAVEKVEKLGGQVIVI 151
             ++L  G L+  V +     S +A  K++++G  V + 
Sbjct: 24  PGKVLGSGVLQKDVTVAAVDFSGTAETKIDQVGEAVSLE 62


>2nm0_A Probable 3-oxacyl-(acyl-carrier-protein) reductase;
           oxidoreductase; 1.99A {Streptomyces coelicolor A3} (A:)
          Length = 253

 Score = 31.2 bits (68), Expect = 0.066
 Identities = 7/47 (14%), Positives = 14/47 (29%), Gaps = 5/47 (10%)

Query: 108 RRSQRGIRILSDGDLKAKVVLRVSGAS----ASAVEKVEKLGGQVIV 150
                    L      ++ VL V+G +     +        G +V +
Sbjct: 5   HHHHHHSSGLVPRSHMSRSVL-VTGGNRGIGLAIARAFADAGDKVAI 50


>1sny_A Sniffer CG10964-PA; alpha and beta protein, rossmann fold,
           dinucleotide binding motif, oxidoreductase; HET: NAP;
           1.75A {Drosophila melanogaster} (A:)
          Length = 267

 Score = 30.9 bits (67), Expect = 0.079
 Identities = 3/27 (11%), Positives = 7/27 (25%), Gaps = 1/27 (3%)

Query: 108 RRSQRGIRILSDGDLKAKVVLRVSGAS 134
                    L         +L ++G +
Sbjct: 5   HHHHHHSSGLVPRGSHXNSIL-ITGCN 30


>3hve_A Gigaxonin; ubiquitin, cytoplasm, cytoskeleton, disease
          mutation, kelch repeat, neurodegeneration,
          phosphoprotein, polymorphism, UBL conjugation; 2.80A
          {Homo sapiens} PDB: 3hve_B (A:170-256)
          Length = 87

 Score = 27.5 bits (61), Expect = 0.81
 Identities = 6/26 (23%), Positives = 14/26 (53%)

Query: 72 DFVTISLGLLQAYIDKDRLDCSSEID 97
          +F+ +S   L+  I  ++L+  +E  
Sbjct: 2  EFLELSPQKLKEVISLEKLNVGNERY 27


>3c4n_A Uncharacterized protein DR_0571; alpha-beta protein,
           structural genomics, PSI-2, protein structure
           initiative; HET: ADP; 2.40A {Deinococcus radiodurans R1}
           (A:77-170,A:247-357)
          Length = 205

 Score = 26.6 bits (58), Expect = 1.4
 Identities = 15/32 (46%), Positives = 16/32 (50%)

Query: 82  QAYIDKDRLDCSSEIDASVLVASGLVRRSQRG 113
           +AY    RLD  S     VL ASGL  R Q G
Sbjct: 100 RAYRQFPRLDLLSGAQTPVLRASGLTLRPQNG 131


>2o16_A Acetoin utilization protein ACUB, putative; structural
          genomics, unknown function, PSI-2, protein structure
          initiative; 1.90A {Vibrio cholerae} (A:110-160)
          Length = 51

 Score = 26.4 bits (58), Expect = 2.0
 Identities = 10/30 (33%), Positives = 17/30 (56%)

Query: 68 IAGSDFVTISLGLLQAYIDKDRLDCSSEID 97
          I  SDFVTI++ LL+   + +  +   E +
Sbjct: 15 ITDSDFVTIAINLLELQEESEPDELDEEQE 44


>3fho_A ATP-dependent RNA helicase DBP5; mRNA export, ATPase,
           translation termination, ATP-binding, cytoplasm,
           hydrolase, membrane; 2.80A {Schizosaccharomyces pombe}
           (A:1-326)
          Length = 326

 Score = 25.9 bits (56), Expect = 2.3
 Identities = 7/8 (87%), Positives = 7/8 (87%)

Query: 25  SGTGKTAG 32
           SGTGKTA 
Sbjct: 167 SGTGKTAA 174


>3i3n_A Kelch-like protein 11; structural genomics, BTB, KLHL11A,
          SGC, structural genomics consortium, kelch repeat,
          secreted, protein binding; 2.60A {Homo sapiens}
          (A:178-234)
          Length = 57

 Score = 25.8 bits (57), Expect = 2.4
 Identities = 5/26 (19%), Positives = 12/26 (46%)

Query: 72 DFVTISLGLLQAYIDKDRLDCSSEID 97
          +F T+   L++ ++    +   SE  
Sbjct: 2  EFYTLPFHLIRDWLSDLEITVDSEEV 27


>2aua_A Hypothetical protein; dimer, structural genomics, PSI,
          protein structure initiative, midwest center for
          structural genomics, MCSG; 2.35A {Bacillus cereus} (A:)
          Length = 224

 Score = 25.6 bits (56), Expect = 3.0
 Identities = 7/22 (31%), Positives = 10/22 (45%)

Query: 56 LYRRLPKRGFVNIAGSDFVTIS 77
          LY    +R  +N  G D + I 
Sbjct: 57 LYHFFFEREQLNANGEDGIQIL 78


>2wwb_H 60S ribosomal protein L4-B; ribosome, protein EXIT tunnel,
          cotranslational protein translocation, protein
          conducting channel; 6.48A {Triticum aestivum} PDB:
          2wwa_H 2ww9_H 1s1i_D (H:139-362)
          Length = 224

 Score = 24.0 bits (52), Expect = 8.8
 Identities = 13/67 (19%), Positives = 25/67 (37%), Gaps = 9/67 (13%)

Query: 17 KRVARGIGSGTGKTAGRGVKGQKSRSGVSVRGFEGGQMPLYRRLPKRGFVNIAGSDFVTI 76
           +V +      GK   R  +  + R  + V   + G +        +   N+ G +   +
Sbjct: 41 LKVLKSKKLRAGKGKYRNRRWTQRRGPLVVYAEDNGIV--------KALRNVPGVETANV 92

Query: 77 S-LGLLQ 82
          + L LLQ
Sbjct: 93 ASLNLLQ 99


  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
   0.317    0.137    0.372 

Gapped
Lambda     K      H
   0.267   0.0647    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 33805
Number of Hits to DB: 1,065,022
Number of extensions: 44555
Number of successful extensions: 141
Number of sequences better than 10.0: 1
Number of HSP's gapped: 125
Number of HSP's successfully gapped: 24
Length of query: 151
Length of database: 4,956,049
Length adjustment: 81
Effective length of query: 70
Effective length of database: 2,217,844
Effective search space: 155249080
Effective search space used: 155249080
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: 51 (23.6 bits)