RPS-BLAST 2.2.22 [Sep-27-2009]

Database: CddA 
           21,609 sequences; 6,263,737 total letters

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

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



>gnl|CDD|36064 KOG0846, KOG0846, KOG0846, Mitochondrial/chloroplast ribosomal
           protein L15/L10 [Translation, ribosomal structure and
           biogenesis].
          Length = 274

 Score =  118 bits (297), Expect = 5e-28
 Identities = 70/139 (50%), Positives = 86/139 (61%), Gaps = 4/139 (2%)

Query: 14  KVKKRVARGIGSGTGKTAGRGVKGQKSRSGVSVRGFEGGQMPLYRRLPKRGFVNIAGSDF 73
           K KKR  RGI SG GKT+GRG KGQK R G  + GFEGGQ PLYRR PK GF N     +
Sbjct: 34  KKKKRKGRGISSGLGKTSGRGHKGQKQRGGRKILGFEGGQTPLYRRFPKFGFGNGGRRQY 93

Query: 74  VTISLGLLQAYIDKDRLDCSSEIDASVLVASGLVRRSQR--GIRILSDG--DLKAKVVLR 129
           + +SLG LQ  ID  R+D S  ID   L  SGL+    R  G+++ +DG  + KAK+ + 
Sbjct: 94  LPLSLGRLQKLIDTGRIDPSQPIDMKTLKDSGLINPKGREYGVQLTADGADEFKAKINIE 153

Query: 130 VSGASASAVEKVEKLGGQV 148
           VS AS  A+  +EK GG V
Sbjct: 154 VSRASVQAIAAIEKAGGSV 172


>gnl|CDD|30549 COG0200, RplO, Ribosomal protein L15 [Translation, ribosomal
           structure and biogenesis].
          Length = 152

 Score =  116 bits (293), Expect = 2e-27
 Identities = 71/154 (46%), Positives = 98/154 (63%), Gaps = 6/154 (3%)

Query: 1   MKLNEISYDKGSCKVKKRVARGIGSGTGKTAGRGVKGQKSRSGVSV--RGFEGGQMPLYR 58
           M+LN++   +GS K +KRV RGIGSG GKT GRG KGQK+RSG      GFEGGQMPLYR
Sbjct: 1   MRLNDLKPARGSKKTRKRVGRGIGSGLGKTGGRGHKGQKARSGHKWVRPGFEGGQMPLYR 60

Query: 59  RLPKRGFVNIAGSDFVTISLGLLQAYIDKDRLDCSSEIDASVLVASGLVRRSQRGIRILS 118
           RLPKRGF N   S F  +   ++      + L    E+  + L A+G++R+ +  +++L 
Sbjct: 61  RLPKRGFTN---SKFKKVEYAVVNLGKLAELLPEGEEVTLASLKAAGVIRKLKDLVKVLG 117

Query: 119 DGDLKAKVVLRVS-GASASAVEKVEKLGGQVIVI 151
           +G L   V ++V   AS SA+EK+E  GG+V +I
Sbjct: 118 NGKLTKAVPVKVKAKASKSAIEKIEAAGGKVELI 151


>gnl|CDD|144427 pfam00828, Ribosomal_L18e, Ribosomal protein L18e/L15.  This family
           includes eukaryotic L18 as well as prokaryotic L15.
          Length = 122

 Score = 89.6 bits (223), Expect = 3e-19
 Identities = 49/126 (38%), Positives = 71/126 (56%), Gaps = 9/126 (7%)

Query: 28  GKTAGRGVKGQKSRSGVSVRGFEGGQMPLYRRLPKRGFVNIAGS--DFVTISLGLLQAYI 85
           GKT GRG KG + R+G     FEGGQ+PLYRRL KRGF  +  S  +   ++L      +
Sbjct: 4   GKTRGRGRKGGRGRAGGQKHPFEGGQVPLYRRLGKRGFRRLFKSRKNRPPVNLS----KL 59

Query: 86  DKDRLDCSSEIDASVLVASGLVRRSQRGIRILSDGDLKAKVVLRVSGASASAVEKVEKLG 145
           D+  L    E+D   LV  G V      +++L +G+L   + ++    S SA EK+EK G
Sbjct: 60  DRKMLKDGEEVDGETLVVVGTVT---DDVKVLGNGELTKPLTVKALKFSKSAREKIEKAG 116

Query: 146 GQVIVI 151
           G+VI++
Sbjct: 117 GEVILL 122


>gnl|CDD|176671 cd07247, SgaA_N_like, N-terminal domain of Streptomyces griseus
           SgaA (suppression of growth disturbance caused by
           A-factor at a high concentration under high osmolality
           during early growth phase), and similar domains.  SgaA
           suppresses the growth disturbances caused by high
           osmolarity and a high concentration of A-factor, a
           microbial hormone, during the early growth phase in
           Streptomyces griseus. A-factor
           (2-isocapryloyl-3R-hydroxymethyl-gamma-butyrolactone)
           controls morphological differentiation and secondary
           metabolism in Streptomyces griseus. It is a chemical
           signaling molecule that at a very low concentration acts
           as a switch for yellow pigment production, aerial
           mycelium formation, streptomycin production, and
           streptomycin resistance. The structure and amino acid
           sequence of SgaA are closely related to a group of
           antibiotics resistance proteins, including bleomycin
           resistance protein, mitomycin resistance protein, and
           fosfomycin resistance proteins. SgaA might also function
           as a streptomycin resistance protein.
          Length = 114

 Score = 27.6 bits (62), Expect = 1.3
 Identities = 10/25 (40%), Positives = 13/25 (52%), Gaps = 1/25 (4%)

Query: 126 VVLRVSGASASAVEKVEKLGGQVIV 150
           V   V    A A  +VE  GG+V+V
Sbjct: 65  VYFAVDDVDA-AAARVEAAGGKVLV 88


>gnl|CDD|146467 pfam03849, Tfb2, Transcription factor Tfb2. 
          Length = 365

 Score = 26.5 bits (59), Expect = 2.9
 Identities = 9/22 (40%), Positives = 15/22 (68%)

Query: 99  SVLVASGLVRRSQRGIRILSDG 120
           ++L   GL+ RS  G+RI ++G
Sbjct: 159 NLLKHGGLMERSDGGLRITNEG 180


>gnl|CDD|36653 KOG1440, KOG1440, KOG1440, CDP-diacylglycerol synthase [Lipid
           transport and metabolism].
          Length = 432

 Score = 26.4 bits (58), Expect = 3.3
 Identities = 13/38 (34%), Positives = 21/38 (55%)

Query: 48  GFEGGQMPLYRRLPKRGFVNIAGSDFVTISLGLLQAYI 85
           GF  G+ PL +  PK+ +    G  F T+  G+L +Y+
Sbjct: 240 GFFFGKTPLIKLSPKKTWEGFIGGTFGTVVFGILFSYV 277


>gnl|CDD|37983 KOG2772, KOG2772, KOG2772, Transaldolase [Carbohydrate transport
           and metabolism].
          Length = 337

 Score = 26.5 bits (58), Expect = 3.5
 Identities = 11/50 (22%), Positives = 20/50 (40%), Gaps = 8/50 (16%)

Query: 67  NIAGSDFVTISLGLLQAYIDKDRLDCSSEIDASVLVASGLVRRSQRGIRI 116
           N+AG D++TIS  LL            +  +   L  S    + +   ++
Sbjct: 247 NLAGVDYLTISPALLP--------QLVNSTEDQPLELSASHAKLKDLEKV 288


>gnl|CDD|144518 pfam00946, Paramyx_RNA_pol, Paramyxovirus RNA dependent RNA
           polymerase.  Paramyxoviridae, like other non-segmented
           negative strand RNA viruses, have an RNA-dependent RNA
           polymerase composed of two subunits, a large protein L
           and a phosphoprotein P. This is a protein family of the
           L protein. The L protein confers the RNA polymerase
           activity on the complex. The P protein acts as a
           transcription factor.
          Length = 1161

 Score = 26.1 bits (58), Expect = 4.3
 Identities = 12/40 (30%), Positives = 15/40 (37%), Gaps = 6/40 (15%)

Query: 54  MPLYRRLPKRGFVNIAGSDFVTISLGLLQAYIDKDRLDCS 93
           + L R L  R        D VT +L  L+  I    LD  
Sbjct: 888 LNLSR-LFYRNI-----GDPVTEALADLKRLIKAGLLDSW 921


>gnl|CDD|144500 pfam00923, Transaldolase, Transaldolase. 
          Length = 244

 Score = 25.2 bits (56), Expect = 7.9
 Identities = 7/18 (38%), Positives = 9/18 (50%)

Query: 69  AGSDFVTISLGLLQAYID 86
           AG D +TI    L+A   
Sbjct: 211 AGCDTITIPPDTLEALAK 228


>gnl|CDD|29746 cd01143, YvrC, Periplasmic binding protein YvrC.  These proteins
           are predicted to function as initial receptors in ABC
           transport of metal ions in eubacteria and archaea.  They
           belong to the TroA superfamily of periplasmic metal
           binding proteins that share a distinct fold and ligand
           binding mechanism. A typical TroA protein is comprised
           of two globular subdomains connected by a single helix
           and can bind the metal ion in the cleft between these
           domains..
          Length = 195

 Score = 24.8 bits (54), Expect = 9.8
 Identities = 10/31 (32%), Positives = 18/31 (58%)

Query: 121 DLKAKVVLRVSGASASAVEKVEKLGGQVIVI 151
            LK  +V+  S + A  +EK++  G  V+V+
Sbjct: 58  ALKPDLVIVSSSSLAELLEKLKDAGIPVVVL 88


  Database: CddA
    Posted date:  Feb 4, 2011  9:38 PM
  Number of letters in database: 6,263,737
  Number of sequences in database:  21,609
  
Lambda     K      H
   0.317    0.137    0.372 

Gapped
Lambda     K      H
   0.267   0.0748    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21609
Number of Hits to DB: 1,617,540
Number of extensions: 78296
Number of successful extensions: 168
Number of sequences better than 10.0: 1
Number of HSP's gapped: 163
Number of HSP's successfully gapped: 16
Length of query: 151
Length of database: 6,263,737
Length adjustment: 85
Effective length of query: 66
Effective length of database: 4,426,972
Effective search space: 292180152
Effective search space used: 292180152
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: 53 (24.2 bits)