RPS-BLAST 2.2.22 [Sep-27-2009]

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

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

Query= gi|254781025|ref|YP_003065438.1| deoxyuridine 5 27-triphosphate
nucleotidohydrolase [Candidatus Liberibacter asiaticus str. psy62]
         (154 letters)



>gnl|CDD|31099 COG0756, Dut, dUTPase [Nucleotide transport and metabolism].
          Length = 148

 Score =  158 bits (400), Expect = 8e-40
 Identities = 76/152 (50%), Positives = 98/152 (64%), Gaps = 6/152 (3%)

Query: 1   MQSIDIPFLQLPHAHGIPLPEYKTSGSSGMDLFAALPEDEPVELLPGMRSLIPGGYIIAI 60
           M+  ++   +  +  G PLP+Y T GS+G DL AA  E   V + PG R L+P G  I +
Sbjct: 1   MRGFEMKLDKRLNE-GAPLPKYATEGSAGYDLRAAEDE---VTIAPGERKLVPTGLAIEL 56

Query: 61  PPGYEGQVRSRSGLALNYGVACLNSPGTIDSDYRGEIKILLINLGQENFLIMRGMRIAQL 120
           P GYE QVR RSGLAL +G+   NSPGTIDSDYRGEIK+LLINLG E+F+I +G RIAQL
Sbjct: 57  PEGYEAQVRPRSGLALKHGITLGNSPGTIDSDYRGEIKVLLINLGDEDFVIEKGDRIAQL 116

Query: 121 IIANSVRAHPSLISAMPMGKNERNEKGFGSTG 152
           +    ++A    +    + + ER   GFGSTG
Sbjct: 117 VFVKVLQAEFDEVEN--LDETERGTGGFGSTG 146


>gnl|CDD|143638 cd07557, trimeric_dUTPase, Trimeric dUTP diphosphatases.  Trimeric
           dUTP diphosphatases, or dUTPases, are the most common
           family of dUTPase, found in bacteria, eukaryotes, and
           archaea. They catalyze the hydrolysis of the dUTP-Mg
           complex (dUTP-Mg) into dUMP and pyrophosphate. This
           reaction is crucial for the preservation of chromosomal
           integrity as it removes dUTP and therefore reduces the
           cellular dUTP/dTTP ratio, and prevents dUTP from being
           incorporated into DNA.  It also provides dUMP as the
           precursor for dTTP synthesis via the thymidylate
           synthase pathway. dUTPases are homotrimeric, except some
           monomeric viral dUTPases, which have been shown to mimic
           a trimer. Active sites are located at the subunit
           interface.
          Length = 92

 Score =  100 bits (251), Expect = 2e-22
 Identities = 42/95 (44%), Positives = 52/95 (54%), Gaps = 3/95 (3%)

Query: 28  SGMDLFAALPEDEPVELLPGMRSLIPGGYIIAIPPGYEGQVRSRSGLALNYGVACLNSPG 87
           +G DL     + E + L PG   L+P G  I +P GY G V  RS LA   G+   N  G
Sbjct: 1   AGYDLRLG-EDFEGIVLPPGETVLVPTGEAIELPEGYVGLVFPRSSLARK-GITVHN-AG 57

Query: 88  TIDSDYRGEIKILLINLGQENFLIMRGMRIAQLII 122
            ID  YRGEI + L NLG E  +I +G RIAQL+ 
Sbjct: 58  VIDPGYRGEITLELYNLGPEPVVIKKGDRIAQLVF 92


>gnl|CDD|144334 pfam00692, dUTPase, dUTPase.  dUTPase hydrolyses dUTP to dUMP and
           pyrophosphate.
          Length = 129

 Score = 93.5 bits (233), Expect = 2e-20
 Identities = 56/136 (41%), Positives = 73/136 (53%), Gaps = 9/136 (6%)

Query: 17  IPLPEYKTSGSSGMDLFAALPEDEPVELLPGMRSLIPGGYIIAIPPGYEGQVRSRSGLAL 76
             +P  K  G +G DL A         L PG   L+P    I +PPG  G +  RS LA 
Sbjct: 3   GEIPTRKRPGDAGYDLCAP----YDFTLPPGGTVLVPTDIRIPLPPGTFGLILGRSSLAA 58

Query: 77  NYGVACLNSPGTIDSDYRGEIKILLINLGQENFLIMRGMRIAQLIIANSVRAHPSLISAM 136
              +     PG IDSDYRGEIK++L N G+++F I +G RIAQLI+   V  HP L    
Sbjct: 59  KGLIVL---PGIIDSDYRGEIKVVLFNSGKKDFTIKKGDRIAQLILLPCV--HPELEPVE 113

Query: 137 PMGKNERNEKGFGSTG 152
            + + ER + GFGS+G
Sbjct: 114 NLERTERGDSGFGSSG 129


>gnl|CDD|38580 KOG3370, KOG3370, KOG3370, dUTPase [Nucleotide transport and
           metabolism].
          Length = 140

 Score = 81.9 bits (202), Expect = 6e-17
 Identities = 45/133 (33%), Positives = 70/133 (52%), Gaps = 8/133 (6%)

Query: 20  PEYKTSGSSGMDLFAALPEDEPVELLPGMRSLIPGGYIIAIPPGYEGQVRSRSGLALNYG 79
           P   ++G++G DL++A    +   +    ++++     IA+P GY G+V  RSGLA  + 
Sbjct: 15  PTRGSAGAAGYDLYSA----QDGTVPARGKAVVDTDLQIAVPSGYYGRVAPRSGLAWKHF 70

Query: 80  VACLNSPGTIDSDYRGEIKILLINLGQENFLIMRGMRIAQLIIANSVRAHPSLISAMPMG 139
           +      G +D DYRGE+ +LL N    +F   +G RIAQLI+       P ++    + 
Sbjct: 71  IDVGA--GVVDPDYRGEVGVLLFNHSDRDFEYKKGDRIAQLIV--EKIVTPEIVLVSSLE 126

Query: 140 KNERNEKGFGSTG 152
             ER   GFGSTG
Sbjct: 127 ATERGAGGFGSTG 139


>gnl|CDD|31061 COG0717, Dcd, Deoxycytidine deaminase [Nucleotide transport and
           metabolism].
          Length = 183

 Score = 48.7 bits (116), Expect = 7e-07
 Identities = 26/85 (30%), Positives = 34/85 (40%), Gaps = 3/85 (3%)

Query: 37  PEDEPVELLPGMRSLIPGGYIIAIPPGYEGQVRSRSGLALNYGVACLNSPGTIDSDYRGE 96
            ED    L PG   L      + IP         RS LA    +  +   G ID  + G 
Sbjct: 70  LEDGEFILPPGEFYLAVTLEYVEIPEDVAAFCTGRSSLA---RLGLIVHVGVIDPGFEGR 126

Query: 97  IKILLINLGQENFLIMRGMRIAQLI 121
           I + L+N G     +  G RIAQL+
Sbjct: 127 ITLELVNSGPLPIRLYPGERIAQLV 151


>gnl|CDD|31604 COG1414, IclR, Transcriptional regulator [Transcription].
          Length = 246

 Score = 28.3 bits (63), Expect = 1.0
 Identities = 23/80 (28%), Positives = 31/80 (38%), Gaps = 9/80 (11%)

Query: 14  AHGIPLPEYKTSGSSGMDLFAALPEDEPVELLPGMRSLIPGGYIIAIPPGYEGQVRS--R 71
             G  LP Y T+  SG  L A LPE+E   LL            I  P     ++     
Sbjct: 123 RVGRRLPLYATA--SGKALLAFLPEEEREALLEEEELRPFTPRTITDPEALLEELAEIRA 180

Query: 72  SGLALN-----YGVACLNSP 86
            G A++      GV C+ +P
Sbjct: 181 RGYAVDDEELEPGVRCIAAP 200


>gnl|CDD|146721 pfam04234, CopC, Copper resistance protein CopC.  CopC is a
           bacterial blue copper protein that binds 1 atom of
           copper per protein molecule. Along with CopA, CopC
           mediates copper resistance by sequestration of copper in
           the periplasm.
          Length = 120

 Score = 25.7 bits (57), Expect = 6.2
 Identities = 7/18 (38%), Positives = 12/18 (66%)

Query: 120 LIIANSVRAHPSLISAMP 137
           L++A +  AH  L+S+ P
Sbjct: 15  LLLAGAASAHAKLVSSTP 32


>gnl|CDD|143613 cd07347, harmonin_N_like, N-terminal protein-binding module of
          harmonin and similar domains.  This domain is found in
          harmonin, and similar proteins such as delphilin, and
          whirlin. These are postsynaptic
          density-95/discs-large/ZO-1 (PDZ) domain-containing
          scaffold proteins. Harmonin and whirlin are organizers
          of the Usher protein network of the inner ear and the
          retina, delphilin is found at the cerebellar parallel
          fiber-Purkinje cell synapses. This harmonin_N_like
          domain is found in either one or two copies. Harmonin
          contains a single copy, which is found at its
          N-terminus and binds specifically to a short internal
          peptide fragment of the cadherin 23 cytoplasmic domain;
          cadherin 23 is a component of the Usher protein
          network. Whirlin contains two copies of the
          harmonin_N_like domain; the first of these has been
          assayed for interaction with the cytoplasmic domain of
          cadherin 23 and no interaction could be detected.
          Length = 78

 Score = 25.4 bits (56), Expect = 6.4
 Identities = 8/24 (33%), Positives = 12/24 (50%)

Query: 30 MDLFAALPEDEPVELLPGMRSLIP 53
           DL+  L     + LL  +R +IP
Sbjct: 42 RDLYLVLDTPAKLPLLQFLRQVIP 65


  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
   0.319    0.141    0.412 

Gapped
Lambda     K      H
   0.267   0.0762    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21609
Number of Hits to DB: 1,928,024
Number of extensions: 99293
Number of successful extensions: 196
Number of sequences better than 10.0: 1
Number of HSP's gapped: 189
Number of HSP's successfully gapped: 11
Length of query: 154
Length of database: 6,263,737
Length adjustment: 86
Effective length of query: 68
Effective length of database: 4,405,363
Effective search space: 299564684
Effective search space used: 299564684
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 (21.7 bits)
S2: 53 (24.1 bits)