RPS-BLAST 2.2.22 [Sep-27-2009]

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

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

Query= gi|254780699|ref|YP_003065112.1| hypothetical protein
CLIBASIA_02930 [Candidatus Liberibacter asiaticus str. psy62]
         (97 letters)



>gnl|CDD|180950 PRK07373, PRK07373, DNA polymerase III subunit alpha; Reviewed.
          Length = 449

 Score = 25.4 bits (56), Expect = 3.3
 Identities = 15/33 (45%), Positives = 18/33 (54%), Gaps = 3/33 (9%)

Query: 8   IENILKEDREDNNIKSLAQL-QRIAIRTVLANR 39
           IE+ILK   E    KSLA    R+ +R V  NR
Sbjct: 127 IESILKAREEGGEFKSLADFCDRVDLRVV--NR 157


>gnl|CDD|147814 pfam05861, PhnI, Bacterial phosphonate metabolism protein (PhnI).
           This family consists of several Proteobacterial
          phosphonate metabolism protein (PhnI) sequences.
          Bacteria that use phosphonates as a phosphorus source
          must be able to break the stable carbon-phosphorus
          bond. In Escherichia coli phosphonates are broken down
          by a C-P lyase that has a broad substrate specificity.
          The genes for phosphonate uptake and degradation in E.
          coli are organized in an operon of 14 genes, named phnC
          to phnP. Three gene products (PhnC, PhnD and PhnE)
          comprise a binding protein-dependent phosphonate
          transporter, which also transports phosphate,
          phosphite, and certain phosphate esters such as
          phosphoserine; two gene products (PhnF and PhnO) may
          have a role in gene regulation; and nine gene products
          (PhnG, PhnH, PhnI, PhnJ, PhnK, PhnL, PhnM, PhnN, and
          PhnP) probably comprise a membrane-associated C-P lyase
          enzyme complex.
          Length = 356

 Score = 24.9 bits (55), Expect = 4.7
 Identities = 6/11 (54%), Positives = 8/11 (72%)

Query: 60 RAWRTSKPRTY 70
          RA+RT+ PR  
Sbjct: 79 RAYRTTLPRLG 89


>gnl|CDD|148772 pfam07352, Phage_Mu_Gam, Bacteriophage Mu Gam like protein.  This
          family consists of bacterial and phage Gam proteins.
          The gam gene of bacteriophage Mu encodes a protein
          which protects linear double stranded DNA from
          exonuclease degradation in vitro and in vivo.
          Length = 147

 Score = 24.9 bits (55), Expect = 5.0
 Identities = 9/46 (19%), Positives = 18/46 (39%)

Query: 5  NQFIENILKEDREDNNIKSLAQLQRIAIRTVLANRTKNIKSITKEF 50
          N  +  I +  RE   I++ A  +   I+   A   + +K   +  
Sbjct: 6  NWALRKIGELKREIEEIETEANDEIARIKEWYAPELEPLKDEIEYL 51


>gnl|CDD|114764 pfam06060, Mesothelin, Pre-pro-megakaryocyte potentiating factor
           precursor (Mesothelin).  This family consists of several
           mammalian pre-pro-megakaryocyte potentiating factor
           precursor (MPF) or mesothelin proteins. Mesothelin is a
           glycosylphosphatidylinositol-linked glycoprotein highly
           expressed in mesothelial cells, mesotheliomas, and
           ovarian cancer, but the biological function of the
           protein is not known.
          Length = 625

 Score = 24.9 bits (54), Expect = 5.1
 Identities = 8/26 (30%), Positives = 14/26 (53%), Gaps = 2/26 (7%)

Query: 43  IKSITKEFMEYWIAHSSR--AWRTSK 66
           ++SI K+ +  W+   SR  +   SK
Sbjct: 262 VRSIPKDVVAEWLQRISRDPSRLGSK 287


>gnl|CDD|162066 TIGR00845, caca, sodium/calcium exchanger 1.  This model is
           specific for the eukaryotic sodium ion/calcium ion
           exchangers of the Caca family.
          Length = 928

 Score = 24.8 bits (54), Expect = 5.9
 Identities = 13/36 (36%), Positives = 21/36 (58%), Gaps = 1/36 (2%)

Query: 6   QFIENILKEDREDNNIKSLAQLQRIAIRTVLANRTK 41
           + I  ILKE ++ +  K L QL+ +A   VL+ + K
Sbjct: 318 EMIR-ILKELKQKHPDKDLEQLEEMANYQVLSRQQK 352


>gnl|CDD|163484 TIGR03772, anch_rpt_subst, anchored repeat ABC transporter,
           substrate-binding protein.  Members of this protein
           family are ABC transporter permease subunits as
           identified by pfam00950, but additionally contain the
           Actinobacterial insert domain described by TIGR03769.
           Some homologs (lacking the insert) have been described
           as transporters of manganese or of chelated iron.
           Members of this family typically are found along with an
           ATP-binding cassette protein, a permease, and an
           LPXTG-anchored protein with two or three copies of the
           TIGR03769 insert that occurs just once in this protein
           family.
          Length = 479

 Score = 24.4 bits (53), Expect = 6.5
 Identities = 10/23 (43%), Positives = 13/23 (56%), Gaps = 1/23 (4%)

Query: 56  AHSSRAWRTSKPRTYLNLHIASQ 78
           AH+  +W  SKP  Y  L  A+Q
Sbjct: 171 AHTHMSWAFSKPGIY-RLSFAAQ 192


>gnl|CDD|168927 PRK07374, dnaE, DNA polymerase III subunit alpha; Validated.
          Length = 1170

 Score = 24.3 bits (53), Expect = 6.9
 Identities = 12/33 (36%), Positives = 15/33 (45%), Gaps = 3/33 (9%)

Query: 8   IENILKEDREDNNIKSLAQL-QRIAIRTVLANR 39
           I NI+     D   KSLA L  R+    +  NR
Sbjct: 848 IRNIIAARDSDGPFKSLADLCDRLPSNVL--NR 878


>gnl|CDD|161979 TIGR00653, GlnA, glutamine synthetase, type I.  Alternate name:
           glutamate--ammonia ligase. This model represents the
           dodecameric form, which can be subdivided into 1-alpha
           and 1-beta forms. The phylogeny of the 1-alpha and
           1-beta forms appears polyphyletic. E. coli,
           Synechocystis PCC6803, Aquifex aeolicus, and the
           crenarcheon Sulfolobus acidocaldarius have form 1-beta,
           while Bacillus subtilis, Thermotoga maritima, and
           various euryarchaea has form 1-alpha. The 1-beta
           dodecamer from the crenarcheon Sulfolobus acidocaldarius
           differs from that in E. coli in that it is not regulated
           by adenylylation.
          Length = 460

 Score = 24.2 bits (53), Expect = 7.0
 Identities = 9/50 (18%), Positives = 19/50 (38%)

Query: 13  KEDREDNNIKSLAQLQRIAIRTVLANRTKNIKSITKEFMEYWIAHSSRAW 62
            E+  +  I  L      A+  + ++         +EF+E +I    + W
Sbjct: 394 PEELREKGIPQLPGSLEEALDELESDHLVEGGVFGEEFIEAFIELKRKEW 443


>gnl|CDD|184560 PRK14190, PRK14190, bifunctional 5,10-methylene-tetrahydrofolate
           dehydrogenase/ 5,10-methylene-tetrahydrofolate
           cyclohydrolase; Provisional.
          Length = 284

 Score = 24.2 bits (53), Expect = 7.9
 Identities = 10/29 (34%), Positives = 15/29 (51%), Gaps = 2/29 (6%)

Query: 22  KSLAQL--QRIAIRTVLANRTKNIKSITK 48
           K + QL     A  T   ++TKN+  +TK
Sbjct: 172 KPVGQLLLNENATVTYCHSKTKNLAELTK 200


  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
   0.319    0.131    0.367 

Gapped
Lambda     K      H
   0.267   0.0615    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21608
Number of Hits to DB: 1,474,812
Number of extensions: 72840
Number of successful extensions: 204
Number of sequences better than 10.0: 1
Number of HSP's gapped: 204
Number of HSP's successfully gapped: 24
Length of query: 97
Length of database: 5,994,473
Length adjustment: 65
Effective length of query: 32
Effective length of database: 4,589,953
Effective search space: 146878496
Effective search space used: 146878496
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 (21.8 bits)
S2: 50 (23.3 bits)