RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy13790
         (193 letters)



>gnl|CDD|191163 pfam05018, DUF667, Protein of unknown function (DUF667).  This
           family of proteins are highly conserved in eukaryotes.
           Some proteins in the family are annotated as
           transcription factors. However, there is currently no
           support for this in the literature.
          Length = 190

 Score =  355 bits (913), Expect = e-127
 Identities = 150/190 (78%), Positives = 175/190 (92%)

Query: 1   MFKNTFQSGFLSILYSIGSKPLQIWDKKVRNGHIKRITDNDIQSLVLEIVGTNVSTTFIS 60
           MF+N +QSGFLS+LYS+GSKPLQIWD   +NGHIKR+TD DI+SLVLEI+GTNVST++I+
Sbjct: 1   MFRNAYQSGFLSLLYSVGSKPLQIWDMHTKNGHIKRVTDEDIKSLVLEIMGTNVSTSYIT 60

Query: 61  CPADPKKTLGIKLPFLVMIIKNLKKYFTFEVQVLDDKNVRRRFRASNYQSTTRVKPFICT 120
           CP DPK++LGIKLPFLVM++KN+KKYF+FEVQ+LDDKN RRRFRASNYQS TRVKPFICT
Sbjct: 61  CPEDPKQSLGIKLPFLVMLVKNMKKYFSFEVQILDDKNNRRRFRASNYQSVTRVKPFICT 120

Query: 121 MPMRLDDGWNQIQFNLADFTRRAYGTNYIETLRVQIHANCRIRRVYFSDRLYSEDELPAE 180
           MP+RLD GWNQIQFNL+DFTRRAYGTNYIETLRVQIHANCRIRRVYF DRLY+EDELP E
Sbjct: 121 MPLRLDPGWNQIQFNLSDFTRRAYGTNYIETLRVQIHANCRIRRVYFCDRLYTEDELPPE 180

Query: 181 FKLFLPIQNK 190
            +L+ P + +
Sbjct: 181 LRLYCPKKEE 190


>gnl|CDD|112432 pfam03614, Flag1_repress, Repressor of phase-1 flagellin. 
          Length = 165

 Score = 31.4 bits (71), Expect = 0.18
 Identities = 13/60 (21%), Positives = 21/60 (35%), Gaps = 3/60 (5%)

Query: 15 YSIGSKPLQIWDKKVRNGHIKRITDNDIQSLVLEIVGTNVSTTFISCPADPKKTLGIKLP 74
          YS  ++ LQ       N    R+   + Q ++  I   N S   I      K    I++ 
Sbjct: 15 YSNLARRLQFLRF---NDIPVRLVSENGQVIIGYIQKFNSSENKILASDPFKGENRIEVK 71


>gnl|CDD|224225 COG1306, COG1306, Uncharacterized conserved protein [Function
           unknown].
          Length = 400

 Score = 31.1 bits (70), Expect = 0.31
 Identities = 16/78 (20%), Positives = 29/78 (37%), Gaps = 4/78 (5%)

Query: 24  IWDKKVRNGHIKRITDNDIQSLVLEIVGTNVSTTFISCPADPKKTLGIK----LPFLVMI 79
           +  KK  +   K I DN+I + V+++       T+ S     K T  +     +  ++  
Sbjct: 73  VALKKRLDELFKLIKDNNINAFVIDVKDDYGELTYPSSDEINKYTKSVNKFKDIEPVIKK 132

Query: 80  IKNLKKYFTFEVQVLDDK 97
            K    Y    + V  D 
Sbjct: 133 AKENGIYAIARIVVFKDT 150


>gnl|CDD|233721 TIGR02092, glgD, glucose-1-phosphate adenylyltransferase, GlgD
           subunit.  This family is GlgD, an apparent regulatory
           protein that appears in an alpha2/beta2 heterotetramer
           with GlgC (glucose-1-phosphate adenylyltransferase,
           TIGR02091) in a subset of bacteria that use GlgC for
           glycogen biosynthesis [Energy metabolism, Biosynthesis
           and degradation of polysaccharides].
          Length = 369

 Score = 27.7 bits (62), Expect = 3.6
 Identities = 11/37 (29%), Positives = 20/37 (54%)

Query: 79  IIKNLKKYFTFEVQVLDDKNVRRRFRASNYQSTTRVK 115
            I ++K Y+   + +LD +N +  F +S     T+VK
Sbjct: 238 NINSVKSYYKANMDLLDPQNFQSLFYSSQGPIYTKVK 274


>gnl|CDD|240034 cd04678, Nudix_Hydrolase_19, Members of the Nudix hydrolase
           superfamily catalyze the hydrolysis of NUcleoside
           DIphosphates linked to other moieties, X. Enzymes
           belonging to this superfamily require a divalent cation,
           such as Mg2+ or Mn2+, for their activity and contain a
           highly conserved 23-residue nudix motif
           (GX5EX7REUXEEXGU, where U = I, L or V), which functions
           as a metal binding and catalytic site. Substrates of
           nudix hydrolases include intact and oxidatively damaged
           nucleoside triphosphates, dinucleoside polyphosphates,
           nucleotide-sugars and dinucleotide enzymes. These
           substrates are metabolites or cell signaling molecules
           that require regulation during different stages of the
           cell cycle or during periods of stress. In general, the
           role of the nudix hydrolase is to sanitize the
           nucleotide pools and to maintain cell viability, thereby
           serving as surveillance & "house-cleaning" enzymes.
           Substrate specificity is used to define families within
           the superfamily. Differences in substrate specificity
           are determined by the N-terminal extension or by
           residues in variable loop regions. Mechanistically,
           substrate hydrolysis occurs by a nucleophilic
           substitution reaction, with variation in the numbers and
           roles of divalent cations required.
          Length = 129

 Score = 26.8 bits (60), Expect = 4.0
 Identities = 8/18 (44%), Positives = 13/18 (72%)

Query: 172 YSEDELPAEFKLFLPIQN 189
           +  +ELP+   LFLP++N
Sbjct: 109 FDWEELPSVDPLFLPLKN 126


>gnl|CDD|185092 PRK15138, PRK15138, aldehyde reductase; Provisional.
          Length = 387

 Score = 27.5 bits (61), Expect = 4.7
 Identities = 14/33 (42%), Positives = 17/33 (51%)

Query: 134 FNLADFTRRAYGTNYIETLRVQIHANCRIRRVY 166
           FNL   TR  +G   I  LR QI A+ R+   Y
Sbjct: 4   FNLHTPTRILFGKGAIAGLREQIPADARVLITY 36


>gnl|CDD|237531 PRK13850, PRK13850, type IV secretion system protein VirD4;
           Provisional.
          Length = 670

 Score = 26.8 bits (59), Expect = 8.3
 Identities = 13/44 (29%), Positives = 21/44 (47%), Gaps = 3/44 (6%)

Query: 105 ASNYQSTTRVKPFICTMPMRLDDGWNQIQFNLADFTRRAYGTNY 148
             N+ S T V+ F+ T     D+    I   + D+T +A  T+Y
Sbjct: 440 KQNFLSNTGVQVFMATAD---DETPTYISKAIGDYTFKARSTSY 480


>gnl|CDD|234864 PRK00915, PRK00915, 2-isopropylmalate synthase; Validated.
          Length = 513

 Score = 26.6 bits (60), Expect = 8.4
 Identities = 8/33 (24%), Positives = 14/33 (42%), Gaps = 6/33 (18%)

Query: 26  DKKVRNGHIKRITDNDIQSLVLEIVGTNVSTTF 58
           DKK      K + D D+++LV +         +
Sbjct: 365 DKK------KEVFDEDLEALVEDETQQEEPEHY 391


>gnl|CDD|216874 pfam02099, Josephin, Josephin. 
          Length = 158

 Score = 26.2 bits (58), Expect = 9.2
 Identities = 9/34 (26%), Positives = 14/34 (41%), Gaps = 2/34 (5%)

Query: 4  NTFQSGFLSILYSIGSKPLQIWDKKVRNGHIKRI 37
          N   +G  SI   +    L++W   V   H  R+
Sbjct: 58 NVDDTGNFSI--QVLETALEVWGLSVIPWHSPRV 89


  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
   0.325    0.140    0.418 

Gapped
Lambda     K      H
   0.267   0.0710    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 9,897,465
Number of extensions: 906569
Number of successful extensions: 935
Number of sequences better than 10.0: 1
Number of HSP's gapped: 935
Number of HSP's successfully gapped: 13
Length of query: 193
Length of database: 10,937,602
Length adjustment: 92
Effective length of query: 101
Effective length of database: 6,857,034
Effective search space: 692560434
Effective search space used: 692560434
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 56 (25.4 bits)