RPS-BLAST 2.2.22 [Sep-27-2009]

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

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

Query= gi|254781187|ref|YP_003065600.1| putative phage terminase,
large subunit [Candidatus Liberibacter asiaticus str. psy62]
         (367 letters)



>gnl|CDD|180989 PRK07471, PRK07471, DNA polymerase III subunit delta'; Validated.
          Length = 365

 Score = 28.8 bits (65), Expect = 2.5
 Identities = 12/29 (41%), Positives = 17/29 (58%), Gaps = 2/29 (6%)

Query: 82  ISAGRGIGKTTLNAWMML-WLISTRPGMS 109
           I   +GIGK TL A+ M  +L++T P   
Sbjct: 46  IGGPQGIGKATL-AYRMARFLLATPPPGG 73


>gnl|CDD|130381 TIGR01314, gntK_FGGY, gluconate kinase, FGGY type.  Gluconate is
           derived from glucose in two steps. This model describes
           one form of gluconate kinase, belonging to the FGGY
           family of carbohydrate kinases. Gluconate kinase
           phosphoryates gluconate for entry into the
           Entner-Douderoff pathway.
          Length = 505

 Score = 28.7 bits (64), Expect = 2.5
 Identities = 18/73 (24%), Positives = 28/73 (38%), Gaps = 14/73 (19%)

Query: 237 FYDIFNIPLEDWKRYQIDTRTVEGIDSGFHEGIISRYGLDSDVARIEILGQFPQQEVNNF 296
           F  +F         Y+ID  T          G+ + + LD D   +E+ G    Q +   
Sbjct: 160 FQRLFG-------TYKIDYSTASAT------GMFNLFELDWDKEALELTGIKESQ-LPKL 205

Query: 297 IPHNYIEEAMSRE 309
           +P   IEE +  E
Sbjct: 206 VPTTEIEENLPHE 218


>gnl|CDD|162162 TIGR01026, fliI_yscN, ATPase FliI/YscN family.  This family of
           ATPases demonstrates extensive homology with ATP
           synthase F1, beta subunit. It is a mixture of members
           with two different protein functions. The first group is
           exemplified by Salmonella typhimurium FliI protein. It
           is needed for flagellar assembly, its ATPase activity is
           required for flagellation, and it may be involved in a
           specialized protein export pathway that proceeds without
           signal peptide cleavage. The second group of proteins
           function in the export of virulence proteins;
           exemplified by Yersinia sp. YscN protein an ATPase
           involved in the type III secretory pathway for the
           antihost Yops proteins.
          Length = 440

 Score = 28.1 bits (63), Expect = 3.8
 Identities = 15/44 (34%), Positives = 26/44 (59%), Gaps = 2/44 (4%)

Query: 268 GIISRYGLDSDVARIEILGQFPQQEVNNFIPHNYIEEAMSREAI 311
           G+I+R   ++DV  I ++G+   +EV  FI H+  EE + R  +
Sbjct: 181 GMIARNT-EADVNVIALIGE-RGREVREFIEHDLGEEGLKRSVV 222


>gnl|CDD|150543 pfam09883, DUF2110, Uncharacterized protein conserved in archaea
           (DUF2110).  This domain, found in various hypothetical
           archaeal proteins, has no known function.
          Length = 226

 Score = 27.7 bits (62), Expect = 4.3
 Identities = 12/42 (28%), Positives = 16/42 (38%)

Query: 245 LEDWKRYQIDTRTVEGIDSGFHEGIISRYGLDSDVARIEILG 286
           L +W R   D   V           ++R G   D+  IE LG
Sbjct: 153 LYEWTRGPTDRLNVNSATRSEVRAALNRAGHGRDIVTIERLG 194


>gnl|CDD|182491 PRK10481, PRK10481, hypothetical protein; Provisional.
          Length = 224

 Score = 27.6 bits (62), Expect = 4.7
 Identities = 19/66 (28%), Positives = 28/66 (42%), Gaps = 20/66 (30%)

Query: 280 ARIEIL--GQFPQQEV----NNFIPHNYIEEA-----MSREAIDDLYAPLIMGCDIAGEG 328
           A + IL  GQ P+ +V      ++  + I  A     +SRE I   YAP         E 
Sbjct: 3   ASLAILTIGQSPRSDVLPLLTEYLDEDEITHAGLLDGLSREEIMAAYAP---------EA 53

Query: 329 GDKTVV 334
           G+  +V
Sbjct: 54  GEDVLV 59


>gnl|CDD|181823 PRK09401, PRK09401, reverse gyrase; Reviewed.
          Length = 1176

 Score = 27.6 bits (62), Expect = 4.8
 Identities = 11/21 (52%), Positives = 13/21 (61%)

Query: 81  AISAGRGIGKTTLNAWMMLWL 101
           AI A  G+GKTT    M L+L
Sbjct: 99  AIIAPTGVGKTTFGLVMSLYL 119


>gnl|CDD|162365 TIGR01447, recD, exodeoxyribonuclease V, alpha subunit.  This
           family describes the exodeoxyribonuclease V alpha
           subunit, RecD. RecD is part of a RecBCD complex. A
           related family in the Gram-positive bacteria separates
           in a phylogenetic tree, has an additional N-terminal
           extension of about 200 residues, and is not supported as
           a member of a RecBCD complex by neighboring genes. The
           related family is consequently described by a different
           model.
          Length = 586

 Score = 27.4 bits (61), Expect = 6.5
 Identities = 13/35 (37%), Positives = 18/35 (51%)

Query: 80  CAISAGRGIGKTTLNAWMMLWLISTRPGMSIICIA 114
             I+ G G GKTT  A ++L L+   P    + IA
Sbjct: 163 SLITGGPGTGKTTTVARLLLALVKQSPKQGKLRIA 197


>gnl|CDD|184912 PRK14948, PRK14948, DNA polymerase III subunits gamma and tau;
           Provisional.
          Length = 620

 Score = 26.8 bits (60), Expect = 7.8
 Identities = 13/26 (50%), Positives = 16/26 (61%), Gaps = 5/26 (19%)

Query: 115 NSETQLKNT----LWAEVSKWLSMLP 136
            SE QLKN+    LW EV+  L +LP
Sbjct: 337 GSEYQLKNSTQPRLWLEVT-LLGLLP 361


>gnl|CDD|131121 TIGR02066, dsrB, sulfite reductase, dissimilatory-type beta
           subunit.  This model describes the beta subunit of
           sulfite reductase.
          Length = 341

 Score = 27.1 bits (60), Expect = 8.4
 Identities = 16/46 (34%), Positives = 22/46 (47%), Gaps = 4/46 (8%)

Query: 322 CDIAGEGGDKTVVVFRRGNIIEHIFDWSAK---LIQETNQEGCPVG 364
           CDIA +  D  +    R N +E +    +K   LI E  + G PVG
Sbjct: 50  CDIADKYSDGYLRWTIRNN-VEFLVSDESKIQPLIDELEEVGFPVG 94


  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
   0.322    0.137    0.440 

Gapped
Lambda     K      H
   0.267   0.0625    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21608
Number of Hits to DB: 6,191,727
Number of extensions: 396726
Number of successful extensions: 710
Number of sequences better than 10.0: 1
Number of HSP's gapped: 710
Number of HSP's successfully gapped: 14
Length of query: 367
Length of database: 5,994,473
Length adjustment: 95
Effective length of query: 272
Effective length of database: 3,941,713
Effective search space: 1072145936
Effective search space used: 1072145936
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 (21.9 bits)
S2: 58 (26.3 bits)