RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy4173
         (61 letters)



>gnl|CDD|214733 smart00584, TLDc, domain in TBC and LysM domain containing
           proteins. 
          Length = 165

 Score = 78.1 bits (193), Expect = 2e-20
 Identities = 31/60 (51%), Positives = 39/60 (65%), Gaps = 1/60 (1%)

Query: 2   YFIKGNNESLSIGAGDGKFGLWLDGDLYQGRSEPCSTYGNEPLSP-QQDFVVKTLECWAF 60
           Y+I G  +SL IG G G FGLW+D DL  G S  C T+GN PLS  Q+DF++  +E W F
Sbjct: 105 YYINGTPDSLPIGGGGGGFGLWIDEDLNHGSSSHCKTFGNPPLSTKQEDFLILDIEVWGF 164


>gnl|CDD|219457 pfam07534, TLD, TLD.  This domain is predicted to be an enzyme and
           is often found associated with pfam01476.
          Length = 136

 Score = 54.6 bits (132), Expect = 1e-11
 Identities = 25/55 (45%), Positives = 29/55 (52%), Gaps = 2/55 (3%)

Query: 7   NNESLSIGAGDGKFGLWLDGDLYQGRSEPCSTYGNEPLSP-QQDFVVKTLECWAF 60
               L  G G GKF LW+D DL  G S  C T+GN PLS  Q+ F +  LE W  
Sbjct: 82  ATSGLGFG-GGGKFALWIDSDLEFGYSRHCGTFGNPPLSGSQERFKILDLEVWGL 135


>gnl|CDD|227471 COG5142, OXR1, Oxidation resistance protein [DNA replication,
           recombination, and repair].
          Length = 212

 Score = 54.1 bits (130), Expect = 7e-11
 Identities = 21/64 (32%), Positives = 29/64 (45%), Gaps = 8/64 (12%)

Query: 3   FIKGNN-------ESLSIGAGDGKFGLWLDGDLYQGRSEPCSTYGNEPLSPQQDFV-VKT 54
              G         + L+ G G G++GL +D  L  G S P  T+GN  LS +  F  +  
Sbjct: 146 ISGGKGFGIYCTPDFLAFGCGGGRYGLLIDKSLLDGESHPVETFGNCLLSSKGHFFRIVY 205

Query: 55  LECW 58
           LE W
Sbjct: 206 LELW 209


>gnl|CDD|236924 PRK11539, PRK11539, ComEC family competence protein; Provisional.
          Length = 755

 Score = 28.4 bits (64), Expect = 0.13
 Identities = 12/24 (50%), Positives = 14/24 (58%)

Query: 5   KGNNESLSIGAGDGKFGLWLDGDL 28
            GNN+S  I   DGK  + L GDL
Sbjct: 617 AGNNDSCVIRVDDGKHSILLTGDL 640


>gnl|CDD|184296 PRK13746, PRK13746, aminoglycoside resistance protein; Provisional.
          Length = 262

 Score = 26.5 bits (59), Expect = 0.61
 Identities = 8/16 (50%), Positives = 9/16 (56%)

Query: 20  FGLWLDGDLYQGRSEP 35
           FG WL  D+  G  EP
Sbjct: 109 FGEWLRNDILAGIFEP 124


>gnl|CDD|181109 PRK07769, PRK07769, long-chain-fatty-acid--CoA ligase; Validated.
          Length = 631

 Score = 25.1 bits (55), Expect = 2.1
 Identities = 13/33 (39%), Positives = 19/33 (57%), Gaps = 8/33 (24%)

Query: 8   NESLSIGAGD-------GKFGLWLDGDLY-QGR 32
           +ES + GA D       G +G++ DG+LY  GR
Sbjct: 452 SESHAEGAPDDALWVRTGDYGVYFDGELYITGR 484


>gnl|CDD|130457 TIGR01390, CycNucDiestase, 2',3'-cyclic-nucleotide
           2'-phosphodiesterase.  2',3'-cyclic-nucleotide
           2'-phosphodiesterase is a bifunctional enzyme localized
           to the periplasm of Gram-negative bacteria.
           2',3'-cyclic-nucleotide 2'-phosphodiesters are
           intermediates formed during the hydrolysis of RNA by the
           ribonuclease I, which is also found to the periplasm,
           and other enzymes of the RNAse T2 family. Bacteria are
           unable to transport 2',3'-cyclic-nucleotides into the
           cytoplasm. 2',3'-cyclic-nucleotide 2'-phosphodiesterase
           contains 2 active sites which catalyze the reactions
           that convert the 2',3'-cyclic-nucleotide into a
           3'-nucleotide, which is then converted into nucleic acid
           and phosphate. Both final products can be transported
           into the cytoplasm. Thus, it has been suggested that
           2',3'-cyclic-nucleotide 2'-phosphodiesterase has a
           'scavenging' function. Experimental evidence indicates
           that 2',3'-cyclic-nucleotide 2'-phosphodiesterase
           enables Yersinia enterocolitica O:8 to grow on 2'3'-cAMP
           as a sole source of carbon and energy (PMID:11160814)
           [Purines, pyrimidines, nucleosides, and nucleotides,
           Other].
          Length = 626

 Score = 25.2 bits (55), Expect = 2.2
 Identities = 7/17 (41%), Positives = 10/17 (58%)

Query: 38  TYGNEPLSPQQDFVVKT 54
           TY  +P+ P   F+V T
Sbjct: 504 TYQGKPIDPAAQFLVAT 520


>gnl|CDD|236506 PRK09420, cpdB, bifunctional 2',3'-cyclic nucleotide
           2'-phosphodiesterase/3'-nucleotidase periplasmic
           precursor protein; Reviewed.
          Length = 649

 Score = 24.5 bits (54), Expect = 4.0
 Identities = 6/17 (35%), Positives = 11/17 (64%)

Query: 38  TYGNEPLSPQQDFVVKT 54
           T+  +P+ P+  F+V T
Sbjct: 527 TFNGKPIDPKATFLVAT 543


  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
   0.319    0.141    0.462 

Gapped
Lambda     K      H
   0.267   0.0724    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 2,987,250
Number of extensions: 194208
Number of successful extensions: 137
Number of sequences better than 10.0: 1
Number of HSP's gapped: 135
Number of HSP's successfully gapped: 9
Length of query: 61
Length of database: 10,937,602
Length adjustment: 32
Effective length of query: 29
Effective length of database: 9,518,274
Effective search space: 276029946
Effective search space used: 276029946
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 (24.2 bits)