MG1655
W3110
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Gene Report : ribD
PEC Original Annotations
Essentiality
     Class essential
     References (PMID)
Escherichia coli and Salmonella, Cellular and Molecular Biology Second Edition. ASM Press. 1996
Neidhart, F.C.
     Deletion OCR39 (D)  
Related gene (W3110 PEC)
     Gene Search Search MG1655 PEC by gene name:  ribD
Related strains
     Strains Search Search strains by gene name:  ribD   Search strains by all related name:  ribD b0414 ECK0408 JW0404 ribG ybaE

General information  (Go to Linear View:)
 Gene Name ribD  
 Alternative name b0414,ECK0408,JW0404,ribG,ybaE  
 Location, Length 432,679 - 433,782 (  +  ) ;   9.33 min ; 1104 (bp) ,   367 (aa) Go to Linear View
 Product fused diaminohydroxyphosphoribosylaminopyrimidine deaminase and 5-amino-6-(5-phosphoribosylamino) uracil reductase  
 Operon Name nrdR-ribDE-nusB-thiL-pgpA  
 Note  
 Function enzyme; Biosynthesis of cofactors, carriers: Riboflavin  
 Gene Ontology GO:0003824 ; catalytic activity ( ribD )
GO:0005215 ; transporter activity ( ybaE )
GO:0006810 ; transport ( ybaE )
GO:0008270 ; zinc ion binding ( ribD )
GO:0008703 ; 5-amino-6-(5-phosphoribosylamino)uracil reductase activity ( ribD )
GO:0008835 ; diaminohydroxyphosphoribosylaminopyrimidine deaminase activity ( ribD )
GO:0009231 ; riboflavin biosynthetic process ( ribD )
GO:0016491 ; oxidoreductase activity ( ribD )
GO:0016787 ; hydrolase activity ( ribD )
GO:0046872 ; metal ion binding ( ribD )
GO:0050661 ; NADP binding ( ribD )
 PID 1786616  
 EC number
  (KEGG Pathway)   		1.1.1.193   3.5.4.26  
SWISS-PROT  ( Show details [ 2 more] )
  botton Entry name(Acc.no) RIBD_ECOLI ( P25539 )
    -  Protein name Riboflavin biosynthesis protein ribD  
    -  Synonyms  
    -  Gene name Name=ribD; Synonyms=ribG; OrderedLocusNames=b0414;  

 Linear View (Whole Mode)
View Location
   420.0  –  445.0 (KBP)

Homology Analysis
BLAST
    Bacteria
         GTOP ribD (  homologous genes of other bacterias  )   ybaE (  homologous genes of other bacterias  )  
    PDB     (database updated : 2007.02.20 )
         PSI-BLAST Chain A, Crystal Structure Of A Bifunctional Deaminase And Reductase Involved In Riboflavin Biosynthesis  
    SWISS-PROT     (database updated : 2007.02.20 )
         BLAST Riboflavin biosynthesis protein ribD [Includes: Diaminohydroxyphosphoribosylaminopyrimidine deaminase  
         PSI-BLAST Riboflavin biosynthesis protein ribD [Includes: Diaminohydroxyphosphoribosylaminopyrimidine deaminase
    nr     (database updated : 2007.02.20 )
         BLAST fused diaminohydroxyphosphoribosylaminopyrimidine deaminase and 5-amino-6-(5-phosphoribosylamino) uracil reductase [Escherichia coli K12]  
Pfam 28.0   (database updated : 2015-05 )
    Pfam
PROSITE
    PROSITE PKC_PHOSPHO_SITE    CK2_PHOSPHO_SITE    MYRISTYL    CYT_DCMP_DEAMINASES     

Other Cross-Reference
    COG COG0117H  COG1985H 
    EcoCyc ribD 

MMBR References
J Bacteriol. 1997;179:2022-2028
Biosynthesis of riboflavin: characterization of the bifunctional deaminase-reductase of Escherichia coli and Bacillus subtilis.
Richter, G., M. Fischer, C. Krieger, S. Eberhardt, H. Luttgen, I. Gerstenschlager, and A. Bacher.
Mol Gen Genet. 1992;234(3):429-32.
Insertional disruption of the nusB (ssyB) gene leads to cold-sensitive growth of Escherichia coli and suppression of the secY24 mutation.
Taura T, Ueguchi C, Shiba K, Ito K. ( 1406588 )

Sequences
Amino acid
FASTA format 
0001 MQDEYYMARA LKLAQRGRFT THPNPNVGCV IVKDGEIVGE GYHQRAGEPH AEVHALRMAG EKAKGATAYV 
0071 TLEPCSHHGR TPPCCDALIA AGVARVVASM QDPNPQVAGR GLYRLQQAGI DVSHGLMMSE AEQLNKGFLK 
0141 RMRTGFPYIQ LKLGASLDGR TAMASGESQW ITSPQARRDV QLLRAQSHAI LTSSATVLAD DPALTVRWSE 
0211 LDEQTQALYP QQNLRQPIRI VIDSQNRVTP VHRIVQQPGE TWFARTQEDS REWPETVRTL LIPEHKGHLD 
0281 LVVLMMQLGK QQINSIWVEA GPTLAGALLQ AGLVDELIVY IAPKLLGSDA RGLCTLPGLE KLADAPQFKF 
0351 KEIRHVGPDV CLHLVGA
Nucleotide
FASTA format

View sequence out neighbor 100bp 
-100                                             GCTCGATAAA GTCGCCTATA TCCGTTTTGC 
-070 CTCTGTCTAC CGCAGTTTCG AAGATATCAA AGAATTTGGC GAAGAGATCG CGCGCCTGGA GGACTAAGCC 
0001 gtgcaggacg agtattacat ggcgcgggcg ctaaagctgg cgcaacgagg acgttttacc acgcatccca 
0071 acccgaatgt cgggtgcgtc attgtcaaag atggcgaaat tgtcggtgaa ggttaccacc aacgtgcggg 
0141 tgaaccacat gccgaagtac acgcgttgcg tatggcgggt gaaaaagcca aaggtgcgac cgcctatgtc 
0211 acactcgaac cctgtagcca tcatggtcgt acgccaccgt gctgtgacgc actcatcgcc gctggcgtag 
0281 cgcgcgtggt tgcctcgatg caagatccta acccgcaggt cgctgggcgt ggactttacc gtctgcaaca 
0351 ggctggcatt gacgtcagcc acggcctgat gatgagtgaa gccgagcaat tgaataaagg ctttctcaag 
0421 cggatgcgca ccggctttcc ttatattcag ttaaaacttg gcgcatcgct tgatggtcgc acggcgatgg 
0491 cgagcggcga aagccagtgg atcacttcgc cccaggcgcg gcgtgatgta caactactgc gcgcgcaaag 
0561 tcatgccatt ttaaccagca gcgccacggt gctggcggat gatcctgcct taacggtgcg ttggtctgaa 
0631 ctggatgaac aaactcaggc gctctatccg caacaaaatc tccgtcagcc gatacgtatt gtgattgata 
0701 gccaaaatcg cgtgacgccg gtacatcgca ttgtgcagca gcccggcgaa acctggttcg cgcgtacgca 
0771 ggaagattct cgtgagtggc cggaaacggt gcgtaccttg ctgattccag agcataaagg tcatctggat 
0841 ctggttgtac tgatgatgca actgggtaaa cagcaaatta acagcatctg ggtggaagcg gggccaacgc 
0911 tcgctggcgc attgctgcag gcgggtttag tcgatgagct gattgtctat atcgcaccta aactattagg 
0981 cagcgacgcc cgcggattat gcacgctgcc agggcttgag aaattagccg acgcccccca atttaaattc 
1051 aaagagatac gtcatgtagg cccggatgtt tgcctgcatt tagtgggtgc atgaTCTCCC GGCTCGAAAG 
1121 GGAAGCAGCG CACGAAATAT TATGCTAAAA TCCGCCCCCC TGCGGGGCCA TACTCGAACC CGAAGGAAGA 
1191 AAATGAACAT TATT