RPS-BLAST 2.2.22 [Sep-27-2009]

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

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

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



>gnl|CDD|30617 COG0268, RpsT, Ribosomal protein S20 [Translation, ribosomal
          structure and biogenesis].
          Length = 88

 Score = 56.8 bits (137), Expect = 1e-09
 Identities = 38/88 (43%), Positives = 54/88 (61%)

Query: 1  MANKDSAKKMIRKIARRTLINKSRRSSVRSFMRHANEAITFGKIEEATEACRKAESVIQK 60
          MAN  SAKK  R+  +R L NKSR+S++R+ ++    AI  G  E A  A ++A+  I K
Sbjct: 1  MANIKSAKKRARQSEKRRLRNKSRKSALRTAIKKVEAAIEAGDKEAAKAALKEAQKKIDK 60

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


>gnl|CDD|145013 pfam01649, Ribosomal_S20p, Ribosomal protein S20.  Bacterial
          ribosomal protein S20 interacts with 16S rRNA.
          Length = 84

 Score = 53.9 bits (130), Expect = 1e-08
 Identities = 37/83 (44%), Positives = 53/83 (63%)

Query: 2  ANKDSAKKMIRKIARRTLINKSRRSSVRSFMRHANEAITFGKIEEATEACRKAESVIQKA 61
          AN  SAKK IR+  +R L NKS +S +R+ ++   EAI  G+ ++A EA ++ +S I KA
Sbjct: 1  ANIKSAKKRIRQNEKRRLRNKSYKSKMRTLIKKVREAIEAGEKDKAKEALKEVQSKIDKA 60

Query: 62 KSKGIFHGNAASRKVSRLSKRLK 84
            KG+ H N A+RK SRL+  L 
Sbjct: 61 AKKGVIHKNTAARKKSRLAAILN 83


>gnl|CDD|177031 CHL00102, rps20, ribosomal protein S20.
          Length = 93

 Score = 44.0 bits (104), Expect = 1e-05
 Identities = 33/91 (36%), Positives = 48/91 (52%), Gaps = 7/91 (7%)

Query: 1  MANKDSAKKMIRKIARRTLINKSRRSSVRSFMRHANEAITFGKI-------EEATEACRK 53
          MAN  SA K I+   R  L NK+ +SSV++ ++   + +   K        ++  E    
Sbjct: 1  MANNKSAIKRIKISERNRLRNKAYKSSVKTLIKKYLKNLEDYKTSPNSNNKKKVQETLSS 60

Query: 54 AESVIQKAKSKGIFHGNAASRKVSRLSKRLK 84
            S I KA  KG+FH N A+RK S+L+K LK
Sbjct: 61 VYSKIDKAVKKGVFHKNTAARKKSKLAKALK 91


>gnl|CDD|37043 KOG1832, KOG1832, KOG1832, HIV-1 Vpr-binding protein [Cell cycle
           control, cell division, chromosome partitioning].
          Length = 1516

 Score = 27.4 bits (60), Expect = 0.94
 Identities = 16/83 (19%), Positives = 34/83 (40%), Gaps = 12/83 (14%)

Query: 11  IRKIARRTLINKSRRSSVRSFMRH------------ANEAITFGKIEEATEACRKAESVI 58
           IR +A R L+  +R  +VR  +                E +T+ K  E  + C+ A +++
Sbjct: 760 IRALACRVLLGLARDDTVRQILTKLPLVTNERAQILMAEPVTYDKRHEHLQFCKLASALL 819

Query: 59  QKAKSKGIFHGNAASRKVSRLSK 81
           ++A+   +      S      ++
Sbjct: 820 KEAQGTPLPSSAGPSSIAYSTTQ 842


>gnl|CDD|37287 KOG2076, KOG2076, KOG2076, RNA polymerase III transcription factor
           TFIIIC [Transcription].
          Length = 895

 Score = 25.3 bits (55), Expect = 3.5
 Identities = 11/52 (21%), Positives = 19/52 (36%), Gaps = 5/52 (9%)

Query: 3   NKDSAKKMIRKIARRTLINKSRRSSVRSFMRHANEAITFGKIEEATEACRKA 54
           +  + K+  R   +  L        +R  +  AN     G +EEA E   + 
Sbjct: 119 STGTKKRGRRSRGKSKL-----APELRQLLGEANNLFARGDLEEAEEILMEV 165


>gnl|CDD|146650 pfam04121, Nup84_Nup100, Nuclear pore protein 84 / 107.  Nup84p
           forms a complex with five proteins, of which Nup120p,
           Nup85p, Sec13p, and a Sec13p homologues. This Nup84p
           complex in conjunction with Sec13-type proteins is
           required for correct nuclear pore biogenesis.
          Length = 685

 Score = 24.2 bits (53), Expect = 8.2
 Identities = 8/23 (34%), Positives = 12/23 (52%)

Query: 31  FMRHANEAITFGKIEEATEACRK 53
             ++  E I  G+I+EA E C  
Sbjct: 132 LFKYIFELIRAGRIDEALELCEL 154


>gnl|CDD|146587 pfam04029, 2-ph_phosp, 2-phosphosulpholactate phosphatase.
          Thought to catalyse 2-phosphosulpholactate =
          sulpholactate + phosphate. Probable magnesium cofactor.
          Involved in the second step of coenzyme M biosynthesis.
          Inhibited by vanadate in Methanococcus jannaschii. Also
          known as the ComB family.
          Length = 231

 Score = 24.1 bits (53), Expect = 8.5
 Identities = 8/28 (28%), Positives = 10/28 (35%)

Query: 31 FMRHANEAITFGKIEEATEACRKAESVI 58
              A   I    IEEA    +K E  +
Sbjct: 34 LANGARAIIPVADIEEALALKKKIEGYL 61


  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
   0.316    0.124    0.319 

Gapped
Lambda     K      H
   0.267   0.0695    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21609
Number of Hits to DB: 846,565
Number of extensions: 33179
Number of successful extensions: 145
Number of sequences better than 10.0: 1
Number of HSP's gapped: 144
Number of HSP's successfully gapped: 25
Length of query: 90
Length of database: 6,263,737
Length adjustment: 59
Effective length of query: 31
Effective length of database: 4,988,806
Effective search space: 154652986
Effective search space used: 154652986
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: 51 (23.5 bits)