RPS-BLAST 2.2.22 [Sep-27-2009]

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

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

Query= gi|254780786|ref|YP_003065199.1| ribosome-binding factor A
[Candidatus Liberibacter asiaticus str. psy62]
         (128 letters)



>gnl|CDD|145292 pfam02033, RBFA, Ribosome-binding factor A. 
          Length = 104

 Score = 81.0 bits (201), Expect = 8e-17
 Identities = 36/98 (36%), Positives = 54/98 (55%), Gaps = 5/98 (5%)

Query: 11  RALRVGEEVRSALMWVILNNEFQDRLISRDVISISEVCMSVDLRVATVYIS-LPLDVSPD 69
           R  RV E ++  L  ++   E +D  +    ++++EV +S DL  A VY+S L  +   +
Sbjct: 1   RTERVAELIQRELAEILQR-ELKDPRLGL--VTVTEVEVSPDLSHAKVYVSVLGDEEEKE 57

Query: 70  RVISALNCNIKFIRGRIGRSLRNLRYVPELRFRYDTSL 107
             + ALN    FIR  + + LR LRY PELRF YD S+
Sbjct: 58  ETLKALNKAAGFIRSELAKRLR-LRYTPELRFVYDDSI 94


>gnl|CDD|31199 COG0858, RbfA, Ribosome-binding factor A [Translation, ribosomal
           structure and biogenesis].
          Length = 118

 Score = 69.5 bits (170), Expect = 3e-13
 Identities = 41/112 (36%), Positives = 65/112 (58%), Gaps = 6/112 (5%)

Query: 7   KNSRRALRVGEEVRSALMWVILNNEFQDRLISRDVISISEVCMSVDLRVATVYIS-LPLD 65
             S RA RV E+++  L   IL  E +D  +    +++++V +S DL  A VY++ L  +
Sbjct: 2   AKSTRAKRVAEQIQKELA-EILQREIKDPRLGL--VTVTDVEVSKDLSHAKVYVTVLGDE 58

Query: 66  VSP-DRVISALNCNIKFIRGRIGRSLRNLRYVPELRFRYDTSLQSYWKLNAL 116
            S    +++ALN    FIR  +G+ LR LR  PEL F YD S+++  K++AL
Sbjct: 59  ESSKAEILAALNKAKGFIRSELGKRLR-LRKTPELHFVYDDSIENGNKIDAL 109


>gnl|CDD|132860 cd07221, Pat_PNPLA3, Patatin-like phospholipase domain containing
           protein 3.  PNPLA3 is a triacylglycerol lipase that
           mediates triacylglycerol hydrolysis in adipocytes and is
           an indicator of the nutritional state. PNPLA3 is also
           known as adiponutrin (ADPN) or iPLA2-epsilon. Human
           adiponutrins are bound to the cell membrane of
           adipocytes and show transacylase, TG hydrolase, and PLA2
           activity. This family includes patatin-like proteins:
           ADPN (adiponutrin) from mammals, PNPLA3 (Patatin-like
           phospholipase domain-containing protein 3), and
           iPLA2-epsilon (Calcium-independent phospholipase A2)
           from Homo sapiens.
          Length = 252

 Score = 28.2 bits (63), Expect = 0.67
 Identities = 15/32 (46%), Positives = 18/32 (56%), Gaps = 2/32 (6%)

Query: 67  SPDRVISALNCN--IKFIRGRIGRSLRNLRYV 96
           S D V+ AL C+  I F  G I  S R +RYV
Sbjct: 127 SKDEVVDALVCSCFIPFFSGLIPPSFRGVRYV 158


>gnl|CDD|143435 cd07117, ALDH_StaphAldA1, Uncharacterized Staphylococcus aureus
           AldA1 (SACOL0154) aldehyde dehydrogenase-like.
           Uncharacterized aldehyde dehydrogenase from
           Staphylococcus aureus (AldA1, locus SACOL0154) and other
           similar sequences are present in this CD.
          Length = 475

 Score = 27.8 bits (62), Expect = 0.81
 Identities = 10/26 (38%), Positives = 14/26 (53%)

Query: 7   KNSRRALRVGEEVRSALMWVILNNEF 32
           K+  RALRV   V +  +WV   N+ 
Sbjct: 414 KDINRALRVARAVETGRVWVNTYNQI 439


>gnl|CDD|143412 cd07093, ALDH_F8_HMSADH, Human aldehyde dehydrogenase family 8
           member A1-like.  In humans, the  aldehyde dehydrogenase
           family 8 member A1 (ALDH8A1) protein functions to
           convert 9-cis-retinal to 9-cis-retinoic acid and has a
           preference for NAD+. Also included in this CD is the
           2-hydroxymuconic semialdehyde dehydrogenase (HMSADH)
           which catalyzes the conversion of 2-hydroxymuconic
           semialdehyde to 4-oxalocrotonate, a step in the meta
           cleavage pathway of aromatic hydrocarbons in bacteria.
           Such HMSADHs seen here are: XylG of the TOL plasmid pWW0
           of Pseudomonas putida, TomC  of Burkholderia cepacia G4,
           and AphC of Comamonas testosterone.
          Length = 455

 Score = 26.4 bits (59), Expect = 2.4
 Identities = 6/19 (31%), Positives = 10/19 (52%)

Query: 8   NSRRALRVGEEVRSALMWV 26
           +  RA RV   + +  +WV
Sbjct: 397 DLGRAHRVARRLEAGTVWV 415


>gnl|CDD|143471 cd07559, ALDH_ACDHII_AcoD-like, Ralstonia eutrophus NAD+-dependent
           acetaldehyde dehydrogenase II and Staphylococcus aureus
           AldA1 (SACOL0154)-like.  Included in this CD is the
           NAD+-dependent, acetaldehyde dehydrogenase II (AcDHII,
           AcoD, EC=1.2.1.3) from Ralstonia (Alcaligenes) eutrophus
           H16 involved in the catabolism of acetoin and ethanol,
           and similar proteins, such as, the dimeric
           dihydrolipoamide dehydrogenase of the acetoin
           dehydrogenase enzyme system of Klebsiella pneumonia.
           Also included are sequences similar to the
           NAD+-dependent chloroacetaldehyde dehydrogenases (AldA
           and AldB) of Xanthobacter autotrophicus GJ10 which are
           involved in the degradation of 1,2-dichloroethane, as
           well as, the uncharacterized aldehyde dehydrogenase from
           Staphylococcus aureus (AldA1, locus SACOL0154) and other
           similar sequences.
          Length = 480

 Score = 25.8 bits (57), Expect = 3.8
 Identities = 7/20 (35%), Positives = 13/20 (65%)

Query: 7   KNSRRALRVGEEVRSALMWV 26
           ++  RALRV   +++  +WV
Sbjct: 419 RDINRALRVARGIQTGRVWV 438


>gnl|CDD|111092 pfam02160, Peptidase_A3, Cauliflower mosaic virus peptidase (A3).
          
          Length = 201

 Score = 25.2 bits (55), Expect = 5.9
 Identities = 7/32 (21%), Positives = 19/32 (59%)

Query: 25 WVILNNEFQDRLISRDVISISEVCMSVDLRVA 56
          W       + ++ +  +I+I++VC ++ L++A
Sbjct: 44 WENAKKPIEVKIANGSIITITKVCSNLFLKIA 75


>gnl|CDD|31374 COG1181, DdlA, D-alanine-D-alanine ligase and related ATP-grasp
           enzymes [Cell envelope biogenesis, outer membrane].
          Length = 317

 Score = 24.9 bits (54), Expect = 7.5
 Identities = 13/44 (29%), Positives = 20/44 (45%), Gaps = 7/44 (15%)

Query: 61  SLPLDVSPDRVISALNCNIKFIRGRIGRSLRNLRYVPELRFRYD 104
             PL V P R  S++  +   + G       +L+   EL F+YD
Sbjct: 142 GFPLFVKPAREGSSVGRSPVNVEG-------DLQSALELAFKYD 178


>gnl|CDD|143432 cd07114, ALDH_DhaS, Uncharacterized Candidatus pelagibacter
           aldehyde dehydrogenase, DhaS-like.  Uncharacterized
           aldehyde dehydrogenase from Candidatus pelagibacter
           (DhaS) and other related sequences are present in this
           CD.
          Length = 457

 Score = 24.4 bits (54), Expect = 8.5
 Identities = 6/20 (30%), Positives = 11/20 (55%)

Query: 7   KNSRRALRVGEEVRSALMWV 26
           ++  RA RV   + +  +WV
Sbjct: 398 RDLARAHRVARAIEAGTVWV 417


  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
   0.325    0.138    0.406 

Gapped
Lambda     K      H
   0.267   0.0637    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21609
Number of Hits to DB: 1,527,456
Number of extensions: 70366
Number of successful extensions: 237
Number of sequences better than 10.0: 1
Number of HSP's gapped: 234
Number of HSP's successfully gapped: 16
Length of query: 128
Length of database: 6,263,737
Length adjustment: 83
Effective length of query: 45
Effective length of database: 4,470,190
Effective search space: 201158550
Effective search space used: 201158550
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: 52 (24.0 bits)