RPS-BLAST 2.2.26 [Sep-21-2011]

Database: CDD.v3.10 
           44,354 sequences; 10,937,602 total letters

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

Query= psy10276
         (172 letters)



>gnl|CDD|223337 COG0259, PdxH, Pyridoxamine-phosphate oxidase [Coenzyme
           metabolism].
          Length = 214

 Score = 28.8 bits (65), Expect = 1.2
 Identities = 15/53 (28%), Positives = 26/53 (49%), Gaps = 4/53 (7%)

Query: 8   YASVLFFFK----NVRVEGELEILTRDRFEDLYNREPLYCKIRAHLCHPSSRL 56
           YA++LF +K     VRVEG +E ++ +  +  +   P   +I A     S  +
Sbjct: 94  YAALLFPWKELERQVRVEGRVERVSDEESDAYFASRPRGSQIGAWASKQSRPI 146


>gnl|CDD|224338 COG1420, HrcA, Transcriptional regulator of heat shock gene
           [Transcription].
          Length = 346

 Score = 28.4 bits (64), Expect = 1.7
 Identities = 14/67 (20%), Positives = 23/67 (34%), Gaps = 6/67 (8%)

Query: 57  FRFLFLHVRVEGELEILTRDRFEDLYNREPLYCKIRAHLCHPFWMASKRVRVEGELEILT 116
                +  ++E EL    R   E + N   L     +           R+ V G+  +L 
Sbjct: 190 TTLNEIRTKLEKELPEFRRILGELVDNLLELGLHFFSL------DGDSRLLVGGKANLLN 243

Query: 117 QDRFEDL 123
           Q  F D+
Sbjct: 244 QPEFSDI 250


>gnl|CDD|149650 pfam08664, YcbB, YcbB domain.  YcbB is a DNA-binding domain.
          Length = 133

 Score = 26.8 bits (60), Expect = 3.7
 Identities = 11/19 (57%), Positives = 11/19 (57%)

Query: 3   SVFLVYASVLFFFKNVRVE 21
             F  YAS LF FK VR E
Sbjct: 92  PKFEEYASKLFDFKEVRQE 110


>gnl|CDD|237799 PRK14715, PRK14715, DNA polymerase II large subunit; Provisional.
          Length = 1627

 Score = 27.1 bits (60), Expect = 6.7
 Identities = 12/51 (23%), Positives = 22/51 (43%), Gaps = 11/51 (21%)

Query: 88  YCKIRAHLCHPFWMASKR-----------VRVEGELEILTQDRFEDLYNRE 127
           Y        HP++ A+KR           V ++G +E +T     +L++ E
Sbjct: 876 YSDALVGYAHPYFHAAKRRNCFPGDTRILVNIDGNVERITLRELYELFDDE 926


>gnl|CDD|176198 cd08236, sugar_DH, NAD(P)-dependent sugar dehydrogenases.  This
           group contains proteins identified as sorbitol
           dehydrogenases and other sugar dehydrogenases of the
           medium-chain dehydrogenase/reductase family (MDR), which
           includes zinc-dependent alcohol dehydrogenase and
           related proteins. Sorbitol and aldose reductase are
           NAD(+) binding proteins of the polyol pathway, which
           interconverts glucose and fructose. Sorbitol
           dehydrogenase is tetrameric and has a single catalytic
           zinc per subunit. NAD(P)(H)-dependent oxidoreductases
           are the major enzymes in the interconversion of alcohols
           and aldehydes, or ketones. Related proteins include
           threonine dehydrogenase, formaldehyde dehydrogenase, and
           butanediol dehydrogenase. The medium chain alcohol
           dehydrogenase family (MDR) has a NAD(P)(H)-binding
           domain in a Rossmann fold of a beta-alpha form. The
           N-terminal region typically has an all-beta catalytic
           domain. These proteins typically form dimers (typically
           higher plants, mammals) or tetramers (yeast, bacteria),
           and have 2 tightly bound zinc atoms per subunit. Horse
           liver alcohol dehydrogenase is a dimeric enzyme and each
           subunit has two domains. The NAD binding domain is in a
           Rossmann fold and the catalytic domain contains a zinc
           ion to which substrates bind. There is a cleft between
           the domains that closes upon formation of the ternary
           complex.
          Length = 343

 Score = 26.4 bits (59), Expect = 7.7
 Identities = 12/40 (30%), Positives = 18/40 (45%), Gaps = 7/40 (17%)

Query: 100 WMASKRVRVEG------ELEILTQDRFEDLYNREPLYCKI 133
            +AS +++VE        LE      FE L +RE    K+
Sbjct: 303 LLASGKIKVEPLITHRLPLEDG-PAAFERLADREEFSGKV 341


>gnl|CDD|153135 cd01585, AcnA_Bact, Aconitase catalyzes the reversible
           isomerization of citrate and isocitrate as part of the
           TCA cycle.  Bacterial Aconitase-like catalytic domain.
           Aconitase (aconitate hydratase or citrate hydrolyase)
           catalyzes the reversible isomerization of citrate and
           isocitrate as part of the TCA cycle. Cis-aconitate is
           formed as an intermediate product during the course of
           the reaction. This distinct subfamily is found only in
           bacteria and Archaea. Its exact characteristics are not
           known.
          Length = 380

 Score = 26.6 bits (59), Expect = 7.9
 Identities = 11/25 (44%), Positives = 12/25 (48%)

Query: 134 RAHLCHQDQATDWDEAKATHDAIYD 158
           R  L  Q +  DW E  A  DA YD
Sbjct: 202 REFLAAQGREDDWVELAADADAEYD 226


  Database: CDD.v3.10
    Posted date:  Mar 20, 2013  7:55 AM
  Number of letters in database: 10,937,602
  Number of sequences in database:  44,354
  
Lambda     K      H
   0.330    0.144    0.467 

Gapped
Lambda     K      H
   0.267   0.0778    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 8,996,001
Number of extensions: 825956
Number of successful extensions: 835
Number of sequences better than 10.0: 1
Number of HSP's gapped: 835
Number of HSP's successfully gapped: 19
Length of query: 172
Length of database: 10,937,602
Length adjustment: 90
Effective length of query: 82
Effective length of database: 6,945,742
Effective search space: 569550844
Effective search space used: 569550844
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.8 bits)
S2: 55 (24.9 bits)