RPS-BLAST 2.2.22 [Sep-27-2009]

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

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

Query= gi|254780800|ref|YP_003065213.1| hypothetical protein
CLIBASIA_03455 [Candidatus Liberibacter asiaticus str. psy62]
         (192 letters)



>gnl|CDD|148070 pfam06242, DUF1013, Protein of unknown function (DUF1013).  Family
           of uncharacterized proteins found in Proteobacteria.
          Length = 141

 Score =  232 bits (594), Expect = 4e-62
 Identities = 88/140 (62%), Positives = 108/140 (77%)

Query: 35  LEVMAIADGESLQGIKGFNLISSGQLSAEEIALGEKDKNYKLKISKPKSYILESTKKKKR 94
           LEV  IADGE  QGIKG + I++GQL+ EEI   EKD NY+LK+SK K  +    +K  R
Sbjct: 1   LEVQGIADGEVAQGIKGLDPIANGQLTREEIERCEKDPNYRLKLSKSKVIVPRRKRKGPR 60

Query: 95  YTPVSKRQDRPNAILWLIRNYPRLKDAQISHLVGTTGSTIEQIRNRTHWNTANLVPMDPV 154
           YTPVSKRQDRP+AI WL+RN+P L DAQIS L+GTT +TIE IR+R+HWN+AN+ P DPV
Sbjct: 61  YTPVSKRQDRPDAIAWLLRNHPELSDAQISKLIGTTKTTIEAIRDRSHWNSANIKPRDPV 120

Query: 155 TLGLCAQIDLDREIEKCSKN 174
           TLGLC+QIDLD  +EK +K 
Sbjct: 121 TLGLCSQIDLDAAVEKAAKR 140



 Score = 26.8 bits (60), Expect = 3.9
 Identities = 9/33 (27%), Positives = 17/33 (51%), Gaps = 4/33 (12%)

Query: 146 ANLVPMDPVTLGLCAQIDLDREIEKCSKNTEAK 178
             +  +DP+  G   Q+  + EIE+C K+   +
Sbjct: 13  QGIKGLDPIANG---QLTRE-EIERCEKDPNYR 41


>gnl|CDD|181228 PRK08097, ligB, NAD-dependent DNA ligase LigB; Reviewed.
          Length = 562

 Score = 28.7 bits (65), Expect = 1.1
 Identities = 13/30 (43%), Positives = 16/30 (53%), Gaps = 2/30 (6%)

Query: 25  QIAEFCGLHLLEVMAIADGESLQGIKGFNL 54
           Q+  F  L   EV A+AD  + QGI GF  
Sbjct: 535 QLIAF--LQHPEVKALADWLAAQGITGFEP 562


>gnl|CDD|165997 PLN02356, PLN02356, phosphateglycerate kinase.
          Length = 423

 Score = 28.4 bits (63), Expect = 1.4
 Identities = 17/52 (32%), Positives = 31/52 (59%), Gaps = 4/52 (7%)

Query: 83  SYILESTKKKKRYTPVSKRQDRPNAILWLIRNYPRLKDAQISHLVGTTGSTI 134
           S++L +++K+K   P+SK++ R N ++  I N P ++   I+ L   TG  I
Sbjct: 23  SFLLCNSRKRKTKKPLSKKKPR-NGLIDAIGNTPLIR---INSLSEATGCEI 70


>gnl|CDD|183432 PRK12316, PRK12316, peptide synthase; Provisional.
          Length = 5163

 Score = 26.8 bits (59), Expect = 4.0
 Identities = 11/27 (40%), Positives = 15/27 (55%), Gaps = 4/27 (14%)

Query: 135  EQIRNRTHWNTANLV----PMDPVTLG 157
            + I  R HWN + L+    P+DP  LG
Sbjct: 1113 QAIPQRQHWNQSLLLQARQPLDPDRLG 1139


>gnl|CDD|148871 pfam07506, RepB, RepB plasmid partitioning protein.  This family
           includes proteins with sequence similarity to the RepB
           partitioning protein of the large Ti (tumour-inducing)
           plasmids of Agrobacterium tumefaciens.
          Length = 185

 Score = 26.3 bits (58), Expect = 4.6
 Identities = 7/64 (10%), Positives = 13/64 (20%), Gaps = 3/64 (4%)

Query: 55  ISSGQLSAEEIALGEKDKNYKLKISKPKSYILESTKKKKRYTPVSKRQDRPNAILWLIRN 114
           +S    +  E                     L     +     + +         +L RN
Sbjct: 121 VSGKSAARPEGKWARLQTAVLAIYEDEGRQTLHLKAAE---GYLDRLLFNTRFGRYLARN 177

Query: 115 YPRL 118
              L
Sbjct: 178 LDEL 181


>gnl|CDD|179998 PRK05294, carB, carbamoyl phosphate synthase large subunit;
           Reviewed.
          Length = 1066

 Score = 26.6 bits (60), Expect = 4.8
 Identities = 7/21 (33%), Positives = 13/21 (61%)

Query: 120 DAQISHLVGTTGSTIEQIRNR 140
           DA+I+ L+G T   + ++R  
Sbjct: 495 DARIAKLLGVTEDEVRKLRKA 515


>gnl|CDD|184272 PRK13719, PRK13719, conjugal transfer transcriptional regulator
           TraJ; Provisional.
          Length = 217

 Score = 26.2 bits (58), Expect = 5.4
 Identities = 7/20 (35%), Positives = 8/20 (40%)

Query: 150 PMDPVTLGLCAQIDLDREIE 169
           PMD        QIDL   + 
Sbjct: 3   PMDRRERATIRQIDLPESLT 22


>gnl|CDD|183386 PRK11930, PRK11930, putative bifunctional
           UDP-N-acetylmuramoyl-tripeptide:D-alanyl-D-alanine
           ligase/alanine racemase; Provisional.
          Length = 822

 Score = 26.1 bits (58), Expect = 5.5
 Identities = 7/25 (28%), Positives = 10/25 (40%)

Query: 115 YPRLKDAQISHLVGTTGSTIEQIRN 139
                  Q    V T  +TI QI++
Sbjct: 684 SASGAGQQALRNVSTLKTTILQIKH 708


>gnl|CDD|181818 PRK09393, ftrA, transcriptional activator FtrA; Provisional.
          Length = 322

 Score = 26.1 bits (58), Expect = 5.6
 Identities = 10/24 (41%), Positives = 16/24 (66%)

Query: 15  LIDNTSLSFDQIAEFCGLHLLEVM 38
           L+++++LS DQIAE  G    E +
Sbjct: 278 LLESSALSIDQIAERAGFGSEESL 301


>gnl|CDD|114630 pfam05918, API5, Apoptosis inhibitory protein 5 (API5).  This
           family consists of apoptosis inhibitory protein 5 (API5)
           sequences from several organisms. Apoptosis or
           programmed cell death is a physiological form of cell
           death that occurs in embryonic development and organ
           formation. It is characterized by biochemical and
           morphological changes such as DNA fragmentation and cell
           volume shrinkage. API5 is an anti apoptosis gene located
           in human chromosome 11, whose expression prevents the
           programmed cell death that occurs upon the deprivation
           of growth factors.
          Length = 543

 Score = 25.8 bits (56), Expect = 7.6
 Identities = 13/58 (22%), Positives = 25/58 (43%), Gaps = 1/58 (1%)

Query: 100 KRQDRPNAILWLIRNYPRLKDAQISHLVGTTGSTIEQIRNRT-HWNTANLVPMDPVTL 156
           +R     A++ LIR   +     +   +  T +T EQIR +   +    ++P+    L
Sbjct: 112 ERDAVHKALMSLIRQDTKASITALFQHISATLTTDEQIREKVLKFIRDKVLPLKGELL 169


>gnl|CDD|132372 TIGR03329, Phn_aa_oxid, putative aminophosphonate oxidoreductase.
           This clade of sequences are members of the pfam01266
           family of FAD-dependent oxidoreductases. Characterized
           proteins within this family include glycerol-3-phosphate
           dehydrogenase (1.1.99.5), sarcosine oxidase beta subunit
           (1.5.3.1) and a number of deaminating amino acid
           oxidases (1.4.-.-). These genes have been consistently
           observed in a genomic context including genes for the
           import and catabolism of 2-aminoethylphosphonate (AEP).
           If the substrate of this oxidoreductase is AEP itself,
           then it is probably acting in the manner of a
           deaminating oxidase, resulting in the same product
           (phosphonoacetaldehyde) as the transaminase PhnW
           (TIGR02326), but releasing ammonia instead of coupling
           to pyruvate:alanine. Alternatively, it is reasonable to
           suppose that the various ABC cassette transporters which
           are also associated with these loci allow the import of
           phosphonates closely related to AEP which may not be
           substrates for PhnW.
          Length = 460

 Score = 25.5 bits (56), Expect = 8.7
 Identities = 9/28 (32%), Positives = 14/28 (50%)

Query: 6   LMPKASAVWLIDNTSLSFDQIAEFCGLH 33
           L  +A A  L+  +  +  +IA FC  H
Sbjct: 85  LFGEAEAARLVKASEQAVLEIAAFCEQH 112


  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
   0.316    0.132    0.383 

Gapped
Lambda     K      H
   0.267   0.0819    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21608
Number of Hits to DB: 3,054,160
Number of extensions: 179998
Number of successful extensions: 337
Number of sequences better than 10.0: 1
Number of HSP's gapped: 337
Number of HSP's successfully gapped: 22
Length of query: 192
Length of database: 5,994,473
Length adjustment: 88
Effective length of query: 104
Effective length of database: 4,092,969
Effective search space: 425668776
Effective search space used: 425668776
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 54 (24.4 bits)