RPS-BLAST 2.2.22 [Sep-27-2009]

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

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

Query= 537021.9.peg.1064_1
         (238 letters)



>gnl|CDD|182091 PRK09814, PRK09814, beta-1,6-galactofuranosyltransferase;
           Provisional.
          Length = 333

 Score = 28.8 bits (65), Expect = 1.2
 Identities = 8/31 (25%), Positives = 20/31 (64%)

Query: 134 ASLEERKEILYNYPTMGSQQYEKAFLDRLQS 164
           ASL+    +++ +PT    ++++ F+D+L+ 
Sbjct: 60  ASLKPGDIVIFQFPTWNGFEFDRLFVDKLKK 90


>gnl|CDD|129792 TIGR00709, dat, 2,4-diaminobutyrate 4-transaminases.  This family
           consists of L-diaminobutyric acid transaminases. This
           general designation covers both 2.6.1.76
           (diaminobutyrate-2-oxoglutarate transaminase, which uses
           glutamate as the amino donor in DABA biosynthesis), and
           2.6.1.46 (diaminobutyrate--pyruvate transaminase, which
           uses alanine as the amino donor). Most members with
           known function are 2.6.1.76, and at least some
           annotations as 2.6.1.46 in current databases at time of
           model revision are incorrect. A distinct branch of this
           family contains examples of 2.6.1.76 nearly all of which
           are involved in ectoine biosynthesis. A related enzyme
           is 4-aminobutyrate aminotransferase (EC 2.6.1.19), also
           called GABA transaminase. These enzymes all are
           pyridoxal phosphate-containing class III
           aminotransferase.
          Length = 442

 Score = 28.4 bits (63), Expect = 1.6
 Identities = 16/56 (28%), Positives = 29/56 (51%), Gaps = 2/56 (3%)

Query: 151 SQQYEKAFLDRLQSSLQQDRE-DLETKLHNQGLVSGSVAWNRAIDETNRKLHDVRL 205
           S +Y + F++ ++S + +     LE      G+V+    W + I E  RK HD++L
Sbjct: 189 SIEYFENFIEDVESGVDKPAAVILEAIQGEGGVVAAPSEWLQKIREVTRK-HDIKL 243


>gnl|CDD|119294 pfam10774, BssS, Biofilm regulator BssS.  BssS (also known as YliH)
           regulates Escherichia coli K-12 biofilm formation
           through quorum sensing. BssS is also involved in
           motility regulation as it represses motility 7 fold by
           decreasing transcription of the flagella and motility
           loci.
          Length = 112

 Score = 28.2 bits (63), Expect = 1.8
 Identities = 12/35 (34%), Positives = 21/35 (60%)

Query: 190 NRAIDETNRKLHDVRLAAMLKASDEQERLDNIQEK 224
           + A  E +R+L +  L+A   A + + RLD IQ++
Sbjct: 21  HSASSEADRQLVEALLSAHTSAVEGRRRLDAIQQE 55


>gnl|CDD|184289 PRK13737, PRK13737, conjugal transfer pilus assembly protein TraU;
           Provisional.
          Length = 330

 Score = 27.8 bits (62), Expect = 2.8
 Identities = 13/32 (40%), Positives = 19/32 (59%), Gaps = 1/32 (3%)

Query: 162 LQSSLQQDREDLETKLHNQGLVSGSVAWNRAI 193
           LQSSL    E +  KLH QG++  ++  N A+
Sbjct: 236 LQSSLLVS-ERMAFKLHRQGMIMETIGKNNAV 266


>gnl|CDD|161756 TIGR00194, uvrC, excinuclease ABC, C subunit.  This family consists
           of the DNA repair enzyme UvrC, an ABC excinuclease
           subunit which interacts with the UvrA/UvrB complex to
           excise UV-damaged nucleotide segments.
          Length = 574

 Score = 27.3 bits (61), Expect = 3.8
 Identities = 12/48 (25%), Positives = 24/48 (50%), Gaps = 6/48 (12%)

Query: 53  DKIIDSFIGREISIPHYLQSYSLHPIQQQIH-NRQNINNLLLSDLLTQ 99
           D+++++F+ +      Y Q Y    I  +I  +    +  LL DLL++
Sbjct: 282 DELVETFLIQ-----FYQQGYQNRLIPSEILVSLSLEDLKLLEDLLSE 324


>gnl|CDD|185134 PRK15212, PRK15212, virulence protein SpvA; Provisional.
          Length = 255

 Score = 27.1 bits (59), Expect = 4.7
 Identities = 15/43 (34%), Positives = 25/43 (58%), Gaps = 1/43 (2%)

Query: 70  LQSYSLHPIQQQIHNRQNINNLLL-SDLLTQRIQDLLPHHHTH 111
           L S ++  IQ Q   R ++  L++ +D + Q+I  LLP+H  H
Sbjct: 97  LSSSAVGGIQGQAERRPDLATLMVVNDAINQQIPTLLPYHFPH 139


>gnl|CDD|184888 PRK14894, PRK14894, glycyl-tRNA synthetase; Provisional.
          Length = 539

 Score = 26.9 bits (59), Expect = 4.9
 Identities = 12/38 (31%), Positives = 21/38 (55%), Gaps = 1/38 (2%)

Query: 119 PPQQLRDNDVPEKPNASLEERK-EILYNYPTMGSQQYE 155
           P  ++   DVP    A   +R  +++Y+YP +G Q+ E
Sbjct: 226 PRSRITIYDVPPDELAHYSKRTFDLMYDYPNIGVQEIE 263


>gnl|CDD|184064 PRK13461, PRK13461, F0F1 ATP synthase subunit B; Provisional.
          Length = 159

 Score = 26.6 bits (59), Expect = 6.7
 Identities = 22/83 (26%), Positives = 38/83 (45%), Gaps = 17/83 (20%)

Query: 134 ASLEERKEILYNYPTMGSQQYE----------KAFLDRLQSSLQQDREDLETKLHNQG-- 181
            + EE K+I+  Y +     YE             ++R +   Q+++E  E ++ NQ   
Sbjct: 68  NAKEEGKKIVEEYKSKAENVYEEIVKEAHEEADLIIERAKLEAQREKEKAEYEIKNQAVD 127

Query: 182 ---LVSGSVAWNRAIDE-TNRKL 200
              L+S S A   +IDE  +R+L
Sbjct: 128 LAVLLS-SKALEESIDESEHRRL 149


>gnl|CDD|150824 pfam10209, DUF2340, Uncharacterized conserved protein (DUF2340).
           This is a family of small proteins of approximately 150
           amino acids of unknown function.
          Length = 122

 Score = 26.1 bits (58), Expect = 8.0
 Identities = 9/36 (25%), Positives = 14/36 (38%), Gaps = 2/36 (5%)

Query: 87  NINNLLLS--DLLTQRIQDLLPHHHTHVNTTKDFPP 120
           N+ N++    DL     +DLL      + T     P
Sbjct: 13  NVKNVVFHDIDLKDTTAKDLLEDVKADIQTRGSLRP 48


>gnl|CDD|184853 PRK14851, PRK14851, hypothetical protein; Provisional.
          Length = 679

 Score = 26.0 bits (57), Expect = 9.0
 Identities = 12/40 (30%), Positives = 18/40 (45%), Gaps = 3/40 (7%)

Query: 189 WNRAIDETNRKLHDVRLAAMLKASDEQERLDNIQEKHAYF 228
           W R    TNRK +  R       +D + R+ +I   H +F
Sbjct: 432 WKR---CTNRKPYSKRPLPEWVLNDLKTRIRSIPGAHLHF 468


  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
   0.314    0.130    0.369 

Gapped
Lambda     K      H
   0.267   0.0659    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21608
Number of Hits to DB: 3,851,590
Number of extensions: 238835
Number of successful extensions: 400
Number of sequences better than 10.0: 1
Number of HSP's gapped: 400
Number of HSP's successfully gapped: 21
Length of query: 238
Length of database: 5,994,473
Length adjustment: 91
Effective length of query: 147
Effective length of database: 4,028,145
Effective search space: 592137315
Effective search space used: 592137315
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: 42 (22.0 bits)
S2: 56 (25.5 bits)