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Escherichia coli K-12 substr. MG1655 Enzyme: uroporphyrinogen decarboxylase



Gene: hemE Accession Numbers: EG11543 (EcoCyc), b3997, ECK3989

Synonyms: hemC

Regulation Summary Diagram: ?

Summary:
Uroporphyrinogen decarboxylase catalyzes the decarboxylation of all four acetate residues of uroporphyrinogen III to generate coproporphyrinogen III. This is the first committed step after the branch point between heme and siroheme biosynthesis. The E. coli enzyme has not been studied. [Sasarman75, Nishimura93, Ineichen93]

Locations: cytosol

Map Position: [4,195,739 -> 4,196,803] (90.43 centisomes)
Length: 1065 bp / 354 aa

Molecular Weight of Polypeptide: 39.248 kD (from nucleotide sequence)

pI: 6.25

Unification Links: ASAP:ABE-0013066 , CGSC:644 , EchoBASE:EB1505 , EcoGene:EG11543 , EcoliWiki:b3997 , ModBase:P29680 , OU-Microarray:b3997 , PortEco:hemE , Pride:P29680 , Protein Model Portal:P29680 , RefSeq:NP_418425 , RegulonDB:EG11543 , SMR:P29680 , String:511145.b3997 , Swiss-Model:P29680 , UniProt:P29680

Relationship Links: InterPro:IN-FAMILY:IPR000257 , InterPro:IN-FAMILY:IPR006361 , Panther:IN-FAMILY:PTHR21091:SF2 , Pfam:IN-FAMILY:PF01208 , Prosite:IN-FAMILY:PS00906 , Prosite:IN-FAMILY:PS00907

Gene-Reaction Schematic: ?

GO Terms:

Biological Process: GO:0006779 - porphyrin-containing compound biosynthetic process Inferred from experiment Inferred by computational analysis [UniProtGOA11a, GOA06, GOA01a, Sasarman75]
GO:0006780 - uroporphyrinogen III biosynthetic process Inferred from experiment [Sasarman75]
GO:0006783 - heme biosynthetic process Inferred from experiment [Sasarman75]
GO:0019353 - protoporphyrinogen IX biosynthetic process from glutamate Inferred from experiment [Sasarman75]
GO:0006782 - protoporphyrinogen IX biosynthetic process Inferred by computational analysis [UniProtGOA12]
Molecular Function: GO:0004853 - uroporphyrinogen decarboxylase activity Inferred from experiment Inferred by computational analysis [GOA06, GOA01, GOA01a, Sasarman75, Pido94]
GO:0016829 - lyase activity Inferred by computational analysis [UniProtGOA11a]
GO:0016831 - carboxy-lyase activity Inferred by computational analysis [UniProtGOA11a]
Cellular Component: GO:0005829 - cytosol Inferred from experiment Inferred by computational analysis [DiazMejia09, Ishihama08, LopezCampistrou05]
GO:0005737 - cytoplasm Inferred by computational analysis [UniProtGOA11, UniProtGOA11a, GOA06]

MultiFun Terms: metabolism biosynthesis of building blocks cofactors, small molecule carriers heme, porphyrine

Essentiality data for hemE knockouts: ?

Growth Medium Growth? T (°C) O2 pH Osm/L Growth Observations
LB Lennox No 37 Aerobic 7   No [Baba06, Yamamoto09]

Credits:
Curated 19-Sep-2006 by Shearer A , SRI International
Last-Curated ? 09-Jul-2009 by Keseler I , SRI International


Enzymatic reaction of: uroporphyrinogen decarboxylase

Synonyms: uroporphyrinogen III carboxy-lyase, UPD

EC Number: 4.1.1.37

uroporphyrinogen-III + 4 H+ <=> 4 CO2 + coproporphyrinogen III

The reaction direction shown, that is, A + B ↔ C + D versus C + D ↔ A + B, is in accordance with the Enzyme Commission system.

The reaction is favored in the direction shown.

In Pathways: superpathway of heme biosynthesis from uroporphyrinogen-III , heme biosynthesis I (aerobic) , heme biosynthesis II (anaerobic)


Sequence Features

Feature Class Location Citations Comment
Protein-Segment 27 -> 31
[UniProt10]
UniProt: Substrate binding; Sequence Annotation Type: region of interest; Non-Experimental Qualifier: by similarity;
Amino-Acid-Sites-That-Bind 46
[UniProt10]
UniProt: Substrate; Non-Experimental Qualifier: by similarity;
Sequence-Conflict 72 -> 78
[Nishimura93, UniProt10a]
Alternate sequence: AILFSDI → RSSFRY; UniProt: (in Ref. 1; BAA02148);
Amino-Acid-Sites-That-Bind 77
[UniProt10]
UniProt: Substrate; Non-Experimental Qualifier: by similarity;
Sequence-Conflict 83
[Nishimura93, UniProt10a]
Alternate sequence: D → I; UniProt: (in Ref. 1; BAA02148);
Sequence-Conflict 89 -> 103
[Nishimura93, UniProt10a]
Alternate sequence: LYFEAGEGPRFTSPV → SSILKPEKVRVLPRQI; UniProt: (in Ref. 1; BAA02148);
Amino-Acid-Sites-That-Bind 154
[UniProt10]
UniProt: Substrate; Non-Experimental Qualifier: by similarity;
Amino-Acid-Sites-That-Bind 209
[UniProt10]
UniProt: Substrate; Non-Experimental Qualifier: by similarity;
Sequence-Conflict 251 -> 256
[Nishimura93, UniProt10a]
Alternate sequence: GGGQWL → SATVA; UniProt: (in Ref. 1; BAA02148);
Amino-Acid-Sites-That-Bind 327
[UniProt10]
UniProt: Substrate; Non-Experimental Qualifier: by similarity;


Gene Local Context (not to scale): ?

Transcription Unit:

Notes:

History:
10/20/97 Gene b3997 from Blattner lab Genbank (v. M52) entry merged into EcoCyc gene EG11543; confirmed by SwissProt match.


References

Baba06: Baba T, Ara T, Hasegawa M, Takai Y, Okumura Y, Baba M, Datsenko KA, Tomita M, Wanner BL, Mori H (2006). "Construction of Escherichia coli K-12 in-frame, single-gene knockout mutants: the Keio collection." Mol Syst Biol 2;2006.0008. PMID: 16738554

DiazMejia09: Diaz-Mejia JJ, Babu M, Emili A (2009). "Computational and experimental approaches to chart the Escherichia coli cell-envelope-associated proteome and interactome." FEMS Microbiol Rev 33(1);66-97. PMID: 19054114

GOA01: GOA, MGI (2001). "Gene Ontology annotation based on Enzyme Commission mapping." Genomics 74;121-128.

GOA01a: GOA, DDB, FB, MGI, ZFIN (2001). "Gene Ontology annotation through association of InterPro records with GO terms."

GOA06: GOA, SIB (2006). "Electronic Gene Ontology annotations created by transferring manual GO annotations between orthologous microbial proteins."

Ineichen93: Ineichen G, Biel AJ (1993). "Location of the hemE gene on the physical map of Escherichia coli." J Bacteriol 175(23);7749-50. PMID: 8244953

Ishihama08: Ishihama Y, Schmidt T, Rappsilber J, Mann M, Hartl FU, Kerner MJ, Frishman D (2008). "Protein abundance profiling of the Escherichia coli cytosol." BMC Genomics 9;102. PMID: 18304323

LopezCampistrou05: Lopez-Campistrous A, Semchuk P, Burke L, Palmer-Stone T, Brokx SJ, Broderick G, Bottorff D, Bolch S, Weiner JH, Ellison MJ (2005). "Localization, annotation, and comparison of the Escherichia coli K-12 proteome under two states of growth." Mol Cell Proteomics 4(8);1205-9. PMID: 15911532

Nishimura93: Nishimura K, Nakayashiki T, Inokuchi H (1993). "Cloning and sequencing of the hemE gene encoding uroporphyrinogen III decarboxylase (UPD) from Escherichia coli K-12." Gene 133(1);109-13. PMID: 8224882

Pido94: Pido S, Tsoi KW, Umanoff H, Cosloy SD, Russell CS (1994). "Characterization of a hemA/hemE mutant of E. coli and regulation of hemE." Cell Mol Biol (Noisy-le-grand) 40(7);945-56. PMID: 7849561

Sasarman75: Sasarman A, Chartrand P, Proschek R, Desrochers M, Tardif D, Lapointe C (1975). "Uroporphyrin-accumulating mutant of Escherichia coli K-12." J Bacteriol 124(3);1205-12. PMID: 1104578

UniProt10: UniProt Consortium (2010). "UniProt version 2010-07 released on 2010-06-15 00:00:00." Database.

UniProt10a: UniProt Consortium (2010). "UniProt version 2010-11 released on 2010-11-02 00:00:00." Database.

UniProtGOA11: UniProt-GOA (2011). "Gene Ontology annotation based on the manual assignment of UniProtKB Subcellular Location terms in UniProtKB/Swiss-Prot entries."

UniProtGOA11a: UniProt-GOA (2011). "Gene Ontology annotation based on manual assignment of UniProtKB keywords in UniProtKB/Swiss-Prot entries."

UniProtGOA12: UniProt-GOA (2012). "Gene Ontology annotation based on UniPathway vocabulary mapping."

Yamamoto09: Yamamoto N, Nakahigashi K, Nakamichi T, Yoshino M, Takai Y, Touda Y, Furubayashi A, Kinjyo S, Dose H, Hasegawa M, Datsenko KA, Nakayashiki T, Tomita M, Wanner BL, Mori H (2009). "Update on the Keio collection of Escherichia coli single-gene deletion mutants." Mol Syst Biol 5;335. PMID: 20029369


Report Errors or Provide Feedback
Please cite the following article in publications resulting from the use of EcoCyc: Nucleic Acids Research 41:D605-12 2013
Page generated by SRI International Pathway Tools version 18.5 on Sun Nov 23, 2014, BIOCYC13A.