RPS-BLAST 2.2.22 [Sep-27-2009]

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

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

Query= gi|254781008|ref|YP_003065421.1| hypothetical protein
CLIBASIA_04550 [Candidatus Liberibacter asiaticus str. psy62]
         (99 letters)



>gnl|CDD|32787 COG2967, ApaG, Uncharacterized protein affecting Mg2+/Co2+
           transport [Inorganic ion transport and metabolism].
          Length = 126

 Score = 26.4 bits (58), Expect = 1.7
 Identities = 8/24 (33%), Positives = 11/24 (45%)

Query: 11  IGEHDAKFDITIPIGVLDSPRSIR 34
           I E    FD+ IP+  L  P  + 
Sbjct: 103 IDEDGETFDVAIPVFRLAVPGLLH 126


>gnl|CDD|30866 COG0520, CsdB, Selenocysteine lyase [Amino acid transport and
           metabolism].
          Length = 405

 Score = 25.7 bits (56), Expect = 2.8
 Identities = 10/26 (38%), Positives = 14/26 (53%)

Query: 73  RLSSVVYATREDCQKILRALSEVSKL 98
           R S  +Y T ED  ++L AL +   L
Sbjct: 380 RASLHLYNTEEDVDRLLEALKKALAL 405


>gnl|CDD|29469 cd02773, MopB_Res-Cmplx1_Nad11, MopB_Res_Cmplx1_Nad11: The second
           domain of the Nad11/75-kDa subunit of the NADH-quinone
           oxidoreductase/respiratory complex I/NADH
           dehydrogenase-1(NDH-1) of eukaryotes and the Nqo3/G
           subunit of alphaproteobacteria NDH-1. The NADH-quinone
           oxidoreductase is the first energy-transducting complex
           in the respiratory chains of many prokaryotes and
           eukaryotes. Mitochondrial complex I and its bacterial
           counterpart, NDH-1, function as a redox pump that uses
           the redox energy to translocate H+ ions across the
           membrane, resulting in a significant contribution to
           energy production. The nad11 gene codes for the largest
           (75 kDa) subunit of the mitochondrial NADH:ubiquinone
           oxidoreductase, it constitutes the electron input part
           of the enzyme, or the so-called NADH dehydrogenase
           fragment. In Paracoccus denitrificans, this subunit is
           encoded by the nqo3 gene, and is part of the 14 distinct
           subunits constituting the 'minimal' functional enzyme.
           The Nad11/Nqo3 subunit is made of two domains: the first
           contains three binding sites for FeS clusters (the fer2
           domain), the second domain (this CD), is of unknown
           function or, as postulated, has lost an ancestral
           formate dehydrogenase activity that became redundant
           during the evolution of the complex I enzyme. Although
           only vestigial sequence evidence remains of a
           molybdopterin binding site, this protein domain belongs
           to the molybdopterin_binding (MopB) superfamily of
           proteins..
          Length = 375

 Score = 24.4 bits (53), Expect = 7.0
 Identities = 12/14 (85%), Positives = 12/14 (85%), Gaps = 1/14 (7%)

Query: 82  REDCQKILRALSEV 95
           RED  KILRALSEV
Sbjct: 362 RED-WKILRALSEV 374


  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
   0.323    0.135    0.398 

Gapped
Lambda     K      H
   0.267   0.0662    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21609
Number of Hits to DB: 1,135,845
Number of extensions: 50422
Number of successful extensions: 113
Number of sequences better than 10.0: 1
Number of HSP's gapped: 113
Number of HSP's successfully gapped: 6
Length of query: 99
Length of database: 6,263,737
Length adjustment: 67
Effective length of query: 32
Effective length of database: 4,815,934
Effective search space: 154109888
Effective search space used: 154109888
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 (23.6 bits)