RPS-BLAST 2.2.22 [Sep-27-2009]

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

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

Query= gi|254781036|ref|YP_003065449.1| hypothetical protein
CLIBASIA_04690 [Candidatus Liberibacter asiaticus str. psy62]
         (65 letters)



>gnl|CDD|162505 TIGR01730, RND_mfp, RND family efflux transporter, MFP subunit.
           This model represents the MFP (membrane fusion protein)
           component of the RND family of transporters. RND refers
           to Resistance, Nodulation, and cell Division. It is, in
           part, a subfamily of pfam00529 (Pfam release 7.5) but
           hits substantial numbers of proteins missed by that
           model. The related HlyD secretion protein, for which
           pfam00529 is named, is outside the scope of this model.
           Attributed functions imply outward transport. These
           functions include nodulation, acriflavin resistance,
           heavy metal efflux, and multidrug resistance proteins.
           Most members of this family are found in Gram-negative
           bacteria. The proposed function of MFP proteins is to
           bring the inner and outer membranes together and enable
           transport to the outside of the outer membrane. Note,
           however, that a few members of this family are found in
           Gram-positive bacteria, where there is no outer
           membrane.
          Length = 322

 Score = 28.4 bits (64), Expect = 0.46
 Identities = 15/44 (34%), Positives = 24/44 (54%), Gaps = 8/44 (18%)

Query: 3   IAPF-GSLGVAVLSR--YVKSG-----VFNLDSLLVDFSVSLKE 38
            APF G++G  ++    YV +G     + +LD L  DFSV  ++
Sbjct: 138 RAPFDGTIGRRLVEVGAYVTAGQTLATIVDLDPLEADFSVPERD 181


>gnl|CDD|118864 pfam10343, DUF2419, Protein of unknown function (DUF2419).  This is
           a family of conserved proteins found from plants to
           humans. The function is not known. A few members are
           annotated as being cobyrinic acid a,c-diamide synthetase
           but this could not be confirmed.
          Length = 282

 Score = 25.3 bits (56), Expect = 3.9
 Identities = 12/34 (35%), Positives = 19/34 (55%), Gaps = 5/34 (14%)

Query: 25  LDSLLVDFSV--SLKEHFFDTYSIPWH---SIFY 53
           ++++L+DF +    KE   D   IP H   SI+Y
Sbjct: 249 VNAILIDFFLWDYGKELEADGEKIPHHRTRSIYY 282


>gnl|CDD|162958 TIGR02639, ClpA, ATP-dependent Clp protease ATP-binding subunit
           clpA. 
          Length = 731

 Score = 25.0 bits (55), Expect = 4.6
 Identities = 10/46 (21%), Positives = 18/46 (39%), Gaps = 3/46 (6%)

Query: 3   IAPFGSLGVAVLSRYVKSGVFNLDSLLVDFSVSLKEHFFDTYSIPW 48
           I  F  L   VL + V+  V  L   L + ++ L+       +  +
Sbjct: 643 IIHFNPLSEEVLEKIVQKFVDELSKQLNEKNIKLE---LTDDAKKY 685


>gnl|CDD|163523 TIGR03811, tyr_de_CO2_Ent, tyrosine decarboxylase, Enterococcus
          type.  This model represents tyrosine decarboxylases in
          the family of the Enterococcus faecalis enzyme Tdc.
          These enzymes often are encoded next to
          tyrosine/tyramine antiporter, together comprising a
          system in which tyrosine decarboxylation can protect
          against exposure to acid conditions. This clade differs
          from the archaeal tyrosine decarboxylases associated
          with methanofuran biosynthesis.
          Length = 608

 Score = 24.4 bits (53), Expect = 7.6
 Identities = 12/36 (33%), Positives = 18/36 (50%), Gaps = 5/36 (13%)

Query: 15 SRYVKSGVFNLDSLLVDFSVSLKEHFFDTYSIPWHS 50
          S+     V N+  +L + S  L+     T S+PWHS
Sbjct: 52 SKSFTKTVNNMKDVLDELSSRLR-----TESVPWHS 82


  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
   0.325    0.139    0.442 

Gapped
Lambda     K      H
   0.267   0.0622    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21608
Number of Hits to DB: 1,043,189
Number of extensions: 48662
Number of successful extensions: 145
Number of sequences better than 10.0: 1
Number of HSP's gapped: 145
Number of HSP's successfully gapped: 5
Length of query: 65
Length of database: 5,994,473
Length adjustment: 36
Effective length of query: 29
Effective length of database: 5,216,585
Effective search space: 151280965
Effective search space used: 151280965
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 50 (23.3 bits)