RPS-BLAST 2.2.22 [Sep-27-2009]

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

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

Query= gi|254780253|ref|YP_003064666.1| ribosomal protein L29
[Candidatus Liberibacter asiaticus str. psy62]
         (67 letters)



>gnl|CDD|144430 pfam00831, Ribosomal_L29, Ribosomal L29 protein. 
          Length = 58

 Score = 62.1 bits (152), Expect = 3e-11
 Identities = 30/57 (52%), Positives = 44/57 (77%)

Query: 5  KDISVMSIDQLTEKLIQLKKDQMSLRFQKASGQIEKPFRMREVSRDIARIKTMMNSR 61
          K++  +S ++L EKL +LKK+  +LRFQKA+GQ+E P R++EV RDIARI T++  R
Sbjct: 2  KELRELSDEELKEKLKELKKELFNLRFQKATGQLENPHRIKEVRRDIARILTVLRER 58


>gnl|CDD|88602 cd00427, Ribosomal_L29_HIP, Ribosomal L29 protein/HIP.  L29 is a
          protein of the large ribosomal Subunit. A homolog,
          called heparin/heparan sulfate interacting protein
          (HIP), has also been identified in mammals.  L29 is
          located on the surface of the large ribosomal subunit,
          where it participates in forming a protein ring that
          surrounds the polypeptide exit channel, providing
          structural support for the ribosome.  L29 is involved
          in forming the translocon binding site, along with L19,
          L22, L23, L24, and L31e.  In addition, L29 and L23 form
          the interaction site for trigger factor (TF) on the
          ribosomal surface, adjacent to the exit tunnel.  L29
          forms numerous interactions with L23 and with the 23S
          rRNA. In some eukaryotes, L29 is referred to as L35,
          which is distinct from L35 found in bacteria and some
          eukaryotes (primarily plastids and mitochondria).  The
          mammalian homolog, HIP, is found on the surface of many
          tissues and cell lines. It is believed to play a role
          in cell adhesion and modulation of blood coagulation.
          It has also been shown to inhibit apoptosis in cancer
          cells..
          Length = 57

 Score = 57.0 bits (138), Expect = 1e-09
 Identities = 30/57 (52%), Positives = 45/57 (78%)

Query: 5  KDISVMSIDQLTEKLIQLKKDQMSLRFQKASGQIEKPFRMREVSRDIARIKTMMNSR 61
          K++   S ++L EKL +LKK+  +LRFQKA+GQ+E P R+R+V +DIARIKT++N +
Sbjct: 1  KELREKSDEELQEKLDELKKELFNLRFQKATGQLENPHRIRKVRKDIARIKTVLNEK 57


>gnl|CDD|30604 COG0255, RpmC, Ribosomal protein L29 [Translation, ribosomal
          structure and biogenesis].
          Length = 69

 Score = 56.0 bits (135), Expect = 2e-09
 Identities = 29/61 (47%), Positives = 44/61 (72%)

Query: 1  MLKFKDISVMSIDQLTEKLIQLKKDQMSLRFQKASGQIEKPFRMREVSRDIARIKTMMNS 60
            K K++   S+++L E+L +LKK+  +LRFQ A+GQ+E P R+REV RDIARI T++  
Sbjct: 2  KAKRKELREKSVEELEEELRELKKELFNLRFQLATGQLENPHRIREVRRDIARILTVLRE 61

Query: 61 R 61
          +
Sbjct: 62 K 62


>gnl|CDD|177071 CHL00154, rpl29, ribosomal protein L29; Validated.
          Length = 67

 Score = 33.6 bits (77), Expect = 0.013
 Identities = 18/61 (29%), Positives = 37/61 (60%)

Query: 1  MLKFKDISVMSIDQLTEKLIQLKKDQMSLRFQKASGQIEKPFRMREVSRDIARIKTMMNS 60
          + K  DI  ++  +++E++I+ KK+   LR +KA+ Q  KP   +     +A++ T+++S
Sbjct: 3  LPKITDIIDLTDSEISEEIIKTKKELFDLRLKKATRQNFKPHLFKHKKHRLAQLLTLLSS 62

Query: 61 R 61
          R
Sbjct: 63 R 63


>gnl|CDD|38646 KOG3436, KOG3436, KOG3436, 60S ribosomal protein L35
          [Translation, ribosomal structure and biogenesis].
          Length = 123

 Score = 25.0 bits (54), Expect = 4.9
 Identities = 18/61 (29%), Positives = 35/61 (57%), Gaps = 1/61 (1%)

Query: 2  LKFKDISVMSIDQLTEKLIQLKKDQMSLRFQKASGQI-EKPFRMREVSRDIARIKTMMNS 60
          +K +++   S +QL ++L  LK +   LR  K +G    K  +++ V + IAR+ T++N 
Sbjct: 4  IKARELRGKSKEQLLKQLDDLKVELAQLRVAKVTGGAASKLSKIKVVRKSIARVLTVINE 63

Query: 61 R 61
          +
Sbjct: 64 K 64


  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
   0.322    0.132    0.338 

Gapped
Lambda     K      H
   0.267   0.0790    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21609
Number of Hits to DB: 678,985
Number of extensions: 25001
Number of successful extensions: 79
Number of sequences better than 10.0: 1
Number of HSP's gapped: 79
Number of HSP's successfully gapped: 12
Length of query: 67
Length of database: 6,263,737
Length adjustment: 38
Effective length of query: 29
Effective length of database: 5,442,595
Effective search space: 157835255
Effective search space used: 157835255
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 51 (23.3 bits)