RPS-BLAST 2.2.22 [Sep-27-2009]

Database: CddB 
           21,608 sequences; 5,994,473 total letters

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

Query= gi|254780626|ref|YP_003065039.1| 30S ribosomal protein S20
[Candidatus Liberibacter asiaticus str. psy62]
         (90 letters)



>gnl|CDD|178943 PRK00239, rpsT, 30S ribosomal protein S20; Reviewed.
          Length = 88

 Score = 79.4 bits (197), Expect = 2e-16
 Identities = 41/88 (46%), Positives = 55/88 (62%)

Query: 1  MANKDSAKKMIRKIARRTLINKSRRSSVRSFMRHANEAITFGKIEEATEACRKAESVIQK 60
          MAN  SAKK IR+  +R L NKSR+S VR+ ++    AI  G  E A EA + A+S I K
Sbjct: 1  MANIKSAKKRIRQNEKRRLRNKSRKSRVRTAIKKVEAAIAAGDKEAAEEALKAAQSKIDK 60

Query: 61 AKSKGIFHGNAASRKVSRLSKRLKGILT 88
          A SKG+ H N A+RK SRL+ ++  +  
Sbjct: 61 AASKGVIHKNKAARKKSRLAAKVNALAA 88


>gnl|CDD|129140 TIGR00029, S20, ribosomal protein S20.  This family consists of
          bacterial (and chloroplast) examples of the bacteria
          ribosomal small subunit protein S20.
          Length = 87

 Score = 44.8 bits (106), Expect = 5e-06
 Identities = 33/87 (37%), Positives = 53/87 (60%)

Query: 1  MANKDSAKKMIRKIARRTLINKSRRSSVRSFMRHANEAITFGKIEEATEACRKAESVIQK 60
          MAN  SA+K IR+  +R L N S++S +++ ++    AI  G  ++A EA ++A   + +
Sbjct: 1  MANIKSAEKRIRQNEKRRLHNASQKSKMKTIIKKVYAAIAAGDKDKAQEAFKEAAKKLDR 60

Query: 61 AKSKGIFHGNAASRKVSRLSKRLKGIL 87
          A  KGI H N A+RK SRL+ +L  + 
Sbjct: 61 AARKGIIHKNKAARKKSRLAAQLNKLA 87


>gnl|CDD|150899 pfam10300, IML2, Putative mitochondrial outer membrane protein.
          This is a family of proteins conserved from fungi to
          humans. Members of this family also carry a TPR_2
          domain pfam07719 at their C-terminus. Many of them are
          annotated as being mitochondrial outer membrane protein
          IML2.
          Length = 446

 Score = 26.9 bits (60), Expect = 1.3
 Identities = 12/54 (22%), Positives = 23/54 (42%), Gaps = 2/54 (3%)

Query: 26 SSVRSFMRHANEAITF--GKIEEATEACRKAESVIQKAKSKGIFHGNAASRKVS 77
          +     +      +TF    I++A+EA ++AE   Q+ + K   +      K S
Sbjct: 28 ALGYGVIAFIQAVLTFEPEDIKKASEALKEAEKTCQRFRKKAQKNETIQGLKSS 81


>gnl|CDD|162277 TIGR01271, CFTR_protein, cystic fibrosis transmembrane conductor
           regulator (CFTR).  The model describes the cystis
           fibrosis transmembrane conductor regulator (CFTR) in
           eukaryotes. The principal role of this protein is
           chloride ion conductance. The protein is predicted to
           consist of 12 transmembrane domains. Mutations or
           lesions in the genetic loci have been linked to the
           aetiology of asthma, bronchiectasis, chronic obstructive
           pulmonary disease etc. Disease-causing mutations have
           been studied by 36Cl efflux assays in vitro cell
           cultures and electrophysiology, all of which point to
           the impairment of chloride channel stability and not the
           biosynthetic processing per se.
          Length = 1490

 Score = 26.0 bits (57), Expect = 2.2
 Identities = 12/36 (33%), Positives = 17/36 (47%), Gaps = 2/36 (5%)

Query: 24  RRSSVRSFMRHANEAITFGKIEEATEACRKAESVIQ 59
           RR SV   M H+N      + E+   + RK  S+ Q
Sbjct: 771 RRQSVLQLMTHSNRGE--NRREQLQTSFRKKSSITQ 804


>gnl|CDD|185649 PTZ00470, PTZ00470, glycoside hydrolase family 47 protein;
          Provisional.
          Length = 522

 Score = 25.5 bits (56), Expect = 2.8
 Identities = 9/15 (60%), Positives = 10/15 (66%)

Query: 21 NKSRRSSVRSFMRHA 35
          N  RR SVR  M+HA
Sbjct: 69 NIKRRESVREAMKHA 83


>gnl|CDD|181387 PRK08322, PRK08322, acetolactate synthase; Reviewed.
          Length = 547

 Score = 25.6 bits (57), Expect = 3.3
 Identities = 11/27 (40%), Positives = 15/27 (55%)

Query: 49  EACRKAESVIQKAKSKGIFHGNAASRK 75
           +A  +A   IQ AK+  I  G  A+RK
Sbjct: 184 KAIERAAEAIQAAKNPLILIGAGANRK 210


>gnl|CDD|183441 PRK12326, PRK12326, preprotein translocase subunit SecA; Reviewed.
          Length = 764

 Score = 24.9 bits (55), Expect = 4.2
 Identities = 12/46 (26%), Positives = 21/46 (45%), Gaps = 5/46 (10%)

Query: 12  RKIARRTLINKSRRSSVRSFMRHANEAITFGKIEEATEACRKAESV 57
           R + R+  +++  R +V +F   A +A     +E A E    AE  
Sbjct: 681 RALGRQNPLDEFHRMAVDAFKSLAADA-----VERAQETFETAEIT 721


>gnl|CDD|182091 PRK09814, PRK09814, beta-1,6-galactofuranosyltransferase;
          Provisional.
          Length = 333

 Score = 24.9 bits (55), Expect = 4.6
 Identities = 12/28 (42%), Positives = 15/28 (53%)

Query: 62 KSKGIFHGNAASRKVSRLSKRLKGILTS 89
          +  GI+  N     +S  SKRL GIL S
Sbjct: 34 EELGIYFYNIKRDSLSERSKRLDGILAS 61


>gnl|CDD|163500 TIGR03788, marine_srt_targ, marine proteobacterial sortase target
          protein.  Members of this protein family are restricted
          to the Proteobacteria. Each contains a C-terminal
          sortase-recognition motif, transmembrane domain, and
          basic residues cluster at the the C-terminus, and is
          encoded adjacent to a sortase gene. This protein is
          frequently the only sortase target in its genome, which
          is as unusual its occurrence in Gram-negative rather
          than Gram-positive genomes. Many bacteria with this
          system are marine. In addition to the LPXTG signal,
          members carry a vault protein inter-alpha-trypsin
          inhibitor domain (pfam08487) and a von Willebrand
          factor type A domain (pfam00092).
          Length = 596

 Score = 24.7 bits (54), Expect = 5.5
 Identities = 10/40 (25%), Positives = 20/40 (50%), Gaps = 4/40 (10%)

Query: 26 SSVRSFMRHANEAITFGKIEEATEACRKAESVIQKAKSKG 65
          ++V S   H  E +  G+I         A ++ ++AK++G
Sbjct: 42 AAVDSLTMHIGERVIVGQIMPK----AAARAIYEQAKAEG 77


>gnl|CDD|162999 TIGR02750, TraN_Ftype, type-F conjugative transfer system
           mating-pair stabilization protein TraN.  TraN is a large
           cysteine-rich outer membrane protein involved in the
           mating-pair stabilization (adhesin) component of the
           F-type conjugative plamid transfer system. TraN is
           believed to interact with the core type IV secretion
           system apparatus through the TraV protein.
          Length = 572

 Score = 24.4 bits (53), Expect = 6.5
 Identities = 9/28 (32%), Positives = 13/28 (46%), Gaps = 2/28 (7%)

Query: 51  CRKAESVIQKAKSKGIFH--GNAASRKV 76
           C  AE  + KAK   +    G   ++KV
Sbjct: 457 CSDAEKALGKAKENKLTVYLGEYCAKKV 484


  Database: CddB
    Posted date:  Feb 4, 2011  9:54 PM
  Number of letters in database: 5,994,473
  Number of sequences in database:  21,608
  
Lambda     K      H
   0.316    0.124    0.319 

Gapped
Lambda     K      H
   0.267   0.0694    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21608
Number of Hits to DB: 1,250,912
Number of extensions: 61047
Number of successful extensions: 174
Number of sequences better than 10.0: 1
Number of HSP's gapped: 174
Number of HSP's successfully gapped: 26
Length of query: 90
Length of database: 5,994,473
Length adjustment: 59
Effective length of query: 31
Effective length of database: 4,719,601
Effective search space: 146307631
Effective search space used: 146307631
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: 50 (23.1 bits)