RPS-BLAST 2.2.22 [Sep-27-2009]

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

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

Query= gi|254780715|ref|YP_003065128.1| 50S ribosomal protein L19
[Candidatus Liberibacter asiaticus str. psy62]
         (141 letters)



>gnl|CDD|144730 pfam01245, Ribosomal_L19, Ribosomal protein L19. 
          Length = 113

 Score =  168 bits (428), Expect = 6e-43
 Identities = 70/116 (60%), Positives = 87/116 (75%), Gaps = 5/116 (4%)

Query: 1   MNIIDELDHEEMVRIESKRSLPKFSPGDTLCVKTIITEGDKSRIQAYEGVCIARSGRGIN 60
           MN+I E++ E++     K+ LP+F  GDT+ V   I EG+K RIQ +EGV IAR GRG+N
Sbjct: 1   MNLIKEIEAEQL-----KKDLPEFRVGDTVRVHVKIKEGNKERIQVFEGVVIARRGRGLN 55

Query: 61  KNFTVRKISYGEGMNRLFPLYSPMIQDITVIRRGKVRRSKLYYLQDLRGKAARIKE 116
             FTVRKIS G G+ R+FPL+SP I  I V+RRGKVRR+KLYYL+DL GKAARIKE
Sbjct: 56  STFTVRKISQGVGVERVFPLHSPRIDSIEVVRRGKVRRAKLYYLRDLSGKAARIKE 111


>gnl|CDD|30683 COG0335, RplS, Ribosomal protein L19 [Translation, ribosomal
           structure and biogenesis].
          Length = 115

 Score =  141 bits (356), Expect = 9e-35
 Identities = 69/117 (58%), Positives = 90/117 (76%), Gaps = 5/117 (4%)

Query: 1   MNIIDELDHEEMVRIESKRSLPKFSPGDTLCVKTIITEGDKSRIQAYEGVCIARSGRGIN 60
           + II +L+ E++     K+ +P F PGDT+ V   I EG K R+QA+EGV IAR GRGI+
Sbjct: 3   IPIIQQLEQEQI-----KKDIPSFRPGDTVRVHVKIVEGSKERVQAFEGVVIARRGRGIS 57

Query: 61  KNFTVRKISYGEGMNRLFPLYSPMIQDITVIRRGKVRRSKLYYLQDLRGKAARIKEN 117
           + FTVRKISYG G+ R+FPL+SP+I+ I V+RRGKVRR+KLYYL++ RGKAARIKE 
Sbjct: 58  ETFTVRKISYGVGVERVFPLHSPLIESIEVVRRGKVRRAKLYYLRERRGKAARIKEK 114


>gnl|CDD|177023 CHL00084, rpl19, ribosomal protein L19.
          Length = 117

 Score =  126 bits (319), Expect = 2e-30
 Identities = 53/115 (46%), Positives = 77/115 (66%), Gaps = 5/115 (4%)

Query: 2   NIIDELDHEEMVRIESKRSLPKFSPGDTLCVKTIITEGDKSRIQAYEGVCIARSGRGINK 61
            ++ E++ E +     K++LPK   GDT+ V  +I EG+K R+Q YEG  IA+   G+N 
Sbjct: 6   QLVKEIESEFL-----KKNLPKIRVGDTVKVGVLIQEGNKERVQFYEGTVIAKKNSGLNT 60

Query: 62  NFTVRKISYGEGMNRLFPLYSPMIQDITVIRRGKVRRSKLYYLQDLRGKAARIKE 116
             TVRK+  G G+ R+F L+SP +  I V+RR KVRR+KLYYL++  GKAAR+K+
Sbjct: 61  TITVRKVFQGIGVERVFLLHSPKLASIEVLRRSKVRRAKLYYLRNRVGKAARLKQ 115


>gnl|CDD|36911 KOG1698, KOG1698, KOG1698, Mitochondrial/chloroplast ribosomal
           protein L19 [Translation, ribosomal structure and
           biogenesis].
          Length = 201

 Score = 80.8 bits (199), Expect = 1e-16
 Identities = 40/127 (31%), Positives = 71/127 (55%), Gaps = 1/127 (0%)

Query: 3   IIDELDHEEMVRIESKRSLPKFSPGDTLCVKTIITEGDKSRIQAYEGVCIARSGRGINKN 62
           I++ LD + ++     R +P+F  G  + V +   E +K ++  ++G+CI R   G+N  
Sbjct: 76  IMEILDRQAVLERRKVRDIPEFKVGSIVRVTSEDPE-NKRKVSRFKGICIRRRNAGLNAT 134

Query: 63  FTVRKISYGEGMNRLFPLYSPMIQDITVIRRGKVRRSKLYYLQDLRGKAARIKENTGKRA 122
           F +R +  G G+  +FPLYSP I++I V++  K RR+KLYYL+D   + +    N   + 
Sbjct: 135 FLLRNVIAGVGVEIVFPLYSPNIKEIKVLKLEKRRRAKLYYLRDALPELSTFDANMRPKK 194

Query: 123 KALNEEV 129
           +    +V
Sbjct: 195 EENGHKV 201


>gnl|CDD|34147 COG4469, CoiA, Competence protein [General function prediction
           only].
          Length = 342

 Score = 26.4 bits (58), Expect = 3.1
 Identities = 14/47 (29%), Positives = 20/47 (42%)

Query: 95  KVRRSKLYYLQDLRGKAARIKENTGKRAKALNEEVRRAALPEKEMSK 141
           +  R KL   +DLRGK   +          L EE R     +K++ K
Sbjct: 173 QKTRLKLLIHEDLRGKHKYLASEVSFGIIHLMEEFRLPYHRQKKLHK 219


>gnl|CDD|133066 cd00596, Peptidase_M14_like, The M14 family of
          metallocarboxypeptidases (MCPs) are zinc-binding
          carboxypeptidases (CPs) which hydrolyze single,
          C-terminal amino acids from polypeptide chains, and
          have a recognition site for the free C-terminal
          carboxyl group, which is a key determinant of
          specificity. Two major subfamilies of the M14 family,
          defined based on sequence and structural homology, are
          the A/B and N/E subfamilies. Enzymes belonging to the
          A/B subfamily are normally synthesized as inactive
          precursors containing preceding signal peptide,
          followed by an N-terminal pro-region linked to the
          enzyme; these proenzymes are called
          procarboxypeptidases. The A/B enzymes can be further
          divided based on their substrate specificity;
          Carboxypeptidase A-like (CPA-like) enzymes favor
          hydrophobic residues while carboxypeptidase B-like
          (CPB-like) enzymes only cleave the basic residues
          lysine or arginine. The A forms have slightly different
          specificities, with Carboxypeptidase A1 (CPA1)
          preferring aliphatic and small aromatic residues, and
          CPA2 preferring the bulky aromatic side chains. Enzymes
          belonging to the N/E subfamily enzymes are not produced
          as inactive precursors and instead rely on their
          substrate specificity and subcellular
          compartmentalization to prevent inappropriate cleavage.
          They contain an extra C-terminal transthyretin-like
          domain, thought to be involved in folding or formation
          of oligomers. MCPs can also be classified based on
          their involvement in specific physiological processes;
          the pancreatic MCPs participate only in alimentary
          digestion and include carboxypeptidase A and B (A/B
          subfamily), while others, namely regulatory MCPs or the
          N/E subfamily, are involved in more selective
          reactions, mainly in non-digestive tissues and fluids,
          acting on blood coagulation/fibrinolysis, inflammation
          and local anaphylaxis, pro-hormone and neuropeptide
          processing, cellular response and others.   Another MCP
          subfamily, is that of succinylglutamate desuccinylase
          /aspartoacylase, which hydrolyzes N-acetyl-L-aspartate
          (NAA), and deficiency in which is the established cause
          of Canavan disease. Another subfamily (referred to as
          subfamily C) includes an exceptional type of activity
          in the MCP family, that of dipeptidyl-peptidase
          activity of gamma-glutamyl-(L)-meso-diaminopimelate
          peptidase I which is involved in bacterial cell wall
          metabolism.
          Length = 196

 Score = 25.9 bits (57), Expect = 3.6
 Identities = 10/38 (26%), Positives = 14/38 (36%), Gaps = 8/38 (21%)

Query: 58 GINKNFTVRKISYGEGMNRLFP-------LYSPMIQDI 88
          G       RK + G  +NR FP       L  P  + +
Sbjct: 51 GYEAVNW-RKNANGVDLNRNFPGLWGKGPLSEPETRAL 87


>gnl|CDD|37391 KOG2180, KOG2180, KOG2180, Late Golgi protein sorting complex,
           subunit Vps53 [Intracellular trafficking, secretion, and
           vesicular transport].
          Length = 793

 Score = 25.0 bits (54), Expect = 6.8
 Identities = 19/77 (24%), Positives = 34/77 (44%), Gaps = 7/77 (9%)

Query: 59  INKNFTVRKISYGEGMNRLFPLYSPM--IQDITVIRRGKVRRSKLYYLQDLRGKAARIKE 116
           IN+     + ++ E +N LFP    +  I  +    +G++RR     L  +R      +E
Sbjct: 10  INQMIPTPEFNFVEYINELFPAEQSLTNIDSLIQKIQGEIRRVDKNLLAVVRT-----QE 64

Query: 117 NTGKRAKALNEEVRRAA 133
           N+G R K    + + A 
Sbjct: 65  NSGTRGKENLADAQAAI 81


  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
   0.318    0.136    0.377 

Gapped
Lambda     K      H
   0.267   0.0828    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21609
Number of Hits to DB: 1,647,592
Number of extensions: 79370
Number of successful extensions: 187
Number of sequences better than 10.0: 1
Number of HSP's gapped: 186
Number of HSP's successfully gapped: 20
Length of query: 141
Length of database: 6,263,737
Length adjustment: 84
Effective length of query: 57
Effective length of database: 4,448,581
Effective search space: 253569117
Effective search space used: 253569117
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 (21.7 bits)
S2: 52 (23.6 bits)