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Entry version 152 (07 Oct 2020)
Sequence version 3 (01 Feb 1996)
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Protein

Uroporphyrinogen decarboxylase

Gene

hemE

Organism
Escherichia coli (strain K12)
Status
Reviewed-Annotation score:

Annotation score:4 out of 5

<p>The annotation score provides a heuristic measure of the annotation content of a UniProtKB entry or proteome. This score <strong>cannot</strong> be used as a measure of the accuracy of the annotation as we cannot define the 'correct annotation' for any given protein.<p><a href='/help/annotation_score' target='_top'>More...</a></p>
-Protein inferred from homologyi <p>This indicates the type of evidence that supports the existence of the protein. Note that the 'protein existence' evidence does not give information on the accuracy or correctness of the sequence(s) displayed.<p><a href='/help/protein_existence' target='_top'>More...</a></p>

<p>This section provides any useful information about the protein, mostly biological knowledge.<p><a href='/help/function_section' target='_top'>More...</a></p>Functioni

Catalyzes the decarboxylation of four acetate groups of uroporphyrinogen-III to yield coproporphyrinogen-III.UniRule annotation

<p>This subsection of the <a href="http://www.uniprot.org/help/function%5Fsection">Function</a> section describes the catalytic activity of an enzyme, i.e. a chemical reaction that the enzyme catalyzes.<p><a href='/help/catalytic_activity' target='_top'>More...</a></p>Catalytic activityi

<p>This subsection of the <a href="http://www.uniprot.org/help/function%5Fsection">'Function'</a> section describes the metabolic pathway(s) associated with a protein.<p><a href='/help/pathway' target='_top'>More...</a></p>Pathwayi: protoporphyrin-IX biosynthesis

This protein is involved in step 4 of the subpathway that synthesizes coproporphyrinogen-III from 5-aminolevulinate.UniRule annotation
Proteins known to be involved in the 4 steps of the subpathway in this organism are:
  1. Delta-aminolevulinic acid dehydratase (hemB), Delta-aminolevulinic acid dehydratase (hemB)
  2. Porphobilinogen deaminase (hemC), Porphobilinogen deaminase (hemC)
  3. Uroporphyrinogen-III synthase (hemD), Uroporphyrinogen-III synthase (hemD)
  4. Uroporphyrinogen decarboxylase (hemE), Uroporphyrinogen decarboxylase (hemE)
This subpathway is part of the pathway protoporphyrin-IX biosynthesis, which is itself part of Porphyrin-containing compound metabolism.
View all proteins of this organism that are known to be involved in the subpathway that synthesizes coproporphyrinogen-III from 5-aminolevulinate, the pathway protoporphyrin-IX biosynthesis and in Porphyrin-containing compound metabolism.

Sites

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the <a href="http://www.uniprot.org/help/function%5Fsection">Function</a> section describes the interaction between a single amino acid and another chemical entity. Priority is given to the annotation of physiological ligands.<p><a href='/help/binding' target='_top'>More...</a></p>Binding sitei46SubstrateUniRule annotation1
Binding sitei77SubstrateUniRule annotation1
<p>This subsection describes interesting single amino acid sites on the sequence that are not defined in any other subsection. This subsection can be displayed in different sections ('Function', 'PTM / Processing', 'Pathology and Biotech') according to its content.<p><a href='/help/site' target='_top'>More...</a></p>Sitei77Transition state stabilizerUniRule annotation1
Binding sitei154SubstrateUniRule annotation1
Binding sitei209SubstrateUniRule annotation1
Binding sitei327SubstrateUniRule annotation1

<p>The <a href="http://www.geneontology.org/">Gene Ontology (GO)</a> project provides a set of hierarchical controlled vocabulary split into 3 categories:<p><a href='/help/gene_ontology' target='_top'>More...</a></p>GO - Molecular functioni

GO - Biological processi

<p>UniProtKB Keywords constitute a <a href="http://www.uniprot.org/keywords">controlled vocabulary</a> with a hierarchical structure. Keywords summarise the content of a UniProtKB entry and facilitate the search for proteins of interest.<p><a href='/help/keywords' target='_top'>More...</a></p>Keywordsi

Molecular functionDecarboxylase, Lyase
Biological processPorphyrin biosynthesis

Enzyme and pathway databases

BioCyc Collection of Pathway/Genome Databases

More...
BioCyci
EcoCyc:UROGENDECARBOX-MONOMER
MetaCyc:UROGENDECARBOX-MONOMER

UniPathway: a resource for the exploration and annotation of metabolic pathways

More...
UniPathwayi
UPA00251;UER00321

<p>This section provides information about the protein and gene name(s) and synonym(s) and about the organism that is the source of the protein sequence.<p><a href='/help/names_and_taxonomy_section' target='_top'>More...</a></p>Names & Taxonomyi

<p>This subsection of the <a href="http://www.uniprot.org/help/names%5Fand%5Ftaxonomy%5Fsection">Names and taxonomy</a> section provides an exhaustive list of all names of the protein, from commonly used to obsolete, to allow unambiguous identification of a protein.<p><a href='/help/protein_names' target='_top'>More...</a></p>Protein namesi
Recommended name:
Uroporphyrinogen decarboxylaseUniRule annotation (EC:4.1.1.37UniRule annotation)
Short name:
UPDUniRule annotation
Short name:
URO-DUniRule annotation
<p>This subsection of the <a href="http://www.uniprot.org/help/names%5Fand%5Ftaxonomy%5Fsection">Names and taxonomy</a> section indicates the name(s) of the gene(s) that code for the protein sequence(s) described in the entry. Four distinct tokens exist: 'Name', 'Synonyms', 'Ordered locus names' and 'ORF names'.<p><a href='/help/gene_name' target='_top'>More...</a></p>Gene namesi
Name:hemEUniRule annotation
Ordered Locus Names:b3997, JW3961
<p>This subsection of the <a href="http://www.uniprot.org/help/names%5Fand%5Ftaxonomy%5Fsection">Names and taxonomy</a> section provides information on the name(s) of the organism that is the source of the protein sequence.<p><a href='/help/organism-name' target='_top'>More...</a></p>OrganismiEscherichia coli (strain K12)
<p>This subsection of the <a href="http://www.uniprot.org/help/names%5Fand%5Ftaxonomy%5Fsection">Names and taxonomy</a> section shows the unique identifier assigned by the NCBI to the source organism of the protein. This is known as the 'taxonomic identifier' or 'taxid'.<p><a href='/help/taxonomic_identifier' target='_top'>More...</a></p>Taxonomic identifieri83333 [NCBI]
<p>This subsection of the <a href="http://www.uniprot.org/help/names%5Fand%5Ftaxonomy%5Fsection">Names and taxonomy</a> section contains the taxonomic hierarchical classification lineage of the source organism. It lists the nodes as they appear top-down in the taxonomic tree, with the more general grouping listed first.<p><a href='/help/taxonomic_lineage' target='_top'>More...</a></p>Taxonomic lineageiBacteriaProteobacteriaGammaproteobacteriaEnterobacteralesEnterobacteriaceaeEscherichia
<p>This subsection of the <a href="http://www.uniprot.org/help/names%5Fand%5Ftaxonomy%5Fsection">Names and taxonomy</a> section is present for entries that are part of a <a href="http://www.uniprot.org/proteomes">proteome</a>, i.e. of a set of proteins thought to be expressed by organisms whose genomes have been completely sequenced.<p><a href='/help/proteomes_manual' target='_top'>More...</a></p>Proteomesi
  • UP000000318 <p>A UniProt <a href="http://www.uniprot.org/manual/proteomes%5Fmanual">proteome</a> can consist of several components.<br></br>The component name refers to the genomic component encoding a set of proteins.<p><a href='/help/proteome_component' target='_top'>More...</a></p> Componenti: Chromosome
  • UP000000625 Componenti: Chromosome

<p>This section provides information on the location and the topology of the mature protein in the cell.<p><a href='/help/subcellular_location_section' target='_top'>More...</a></p>Subcellular locationi

GO - Cellular componenti

Keywords - Cellular componenti

Cytoplasm

<p>This section describes post-translational modifications (PTMs) and/or processing events.<p><a href='/help/ptm_processing_section' target='_top'>More...</a></p>PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the 'PTM / Processing' section describes the extent of a polypeptide chain in the mature protein following processing or proteolytic cleavage.<p><a href='/help/chain' target='_top'>More...</a></p>ChainiPRO_00001876031 – 354Uroporphyrinogen decarboxylaseAdd BLAST354

Proteomic databases

jPOST - Japan Proteome Standard Repository/Database

More...
jPOSTi
P29680

PaxDb, a database of protein abundance averages across all three domains of life

More...
PaxDbi
P29680

PRoteomics IDEntifications database

More...
PRIDEi
P29680

<p>This section provides information on the quaternary structure of a protein and on interaction(s) with other proteins or protein complexes.<p><a href='/help/interaction_section' target='_top'>More...</a></p>Interactioni

<p>This subsection of the <a href="http://www.uniprot.org/help/interaction%5Fsection">'Interaction'</a> section provides information about the protein quaternary structure and interaction(s) with other proteins or protein complexes (with the exception of physiological receptor-ligand interactions which are annotated in the <a href="http://www.uniprot.org/help/function%5Fsection">'Function'</a> section).<p><a href='/help/subunit_structure' target='_top'>More...</a></p>Subunit structurei

Homodimer.

UniRule annotation

Protein-protein interaction databases

The Biological General Repository for Interaction Datasets (BioGRID)

More...
BioGRIDi
4263218, 2 interactors

Protein interaction database and analysis system

More...
IntActi
P29680, 5 interactors

STRING: functional protein association networks

More...
STRINGi
511145.b3997

<p>This section provides information on the tertiary and secondary structure of a protein.<p><a href='/help/structure_section' target='_top'>More...</a></p>Structurei

3D structure databases

SWISS-MODEL Repository - a database of annotated 3D protein structure models

More...
SMRi
P29680

Database of comparative protein structure models

More...
ModBasei
Search...

<p>This section provides information on sequence similarities with other proteins and the domain(s) present in a protein.<p><a href='/help/family_and_domains_section' target='_top'>More...</a></p>Family & Domainsi

Region

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the 'Family and Domains' section describes a region of interest that cannot be described in other subsections.<p><a href='/help/region' target='_top'>More...</a></p>Regioni27 – 31Substrate bindingUniRule annotation5

<p>This subsection of the 'Family and domains' section provides information about the sequence similarity with other proteins.<p><a href='/help/sequence_similarities' target='_top'>More...</a></p>Sequence similaritiesi

Belongs to the uroporphyrinogen decarboxylase family.UniRule annotation

Phylogenomic databases

evolutionary genealogy of genes: Non-supervised Orthologous Groups

More...
eggNOGi
COG0407, Bacteria

The HOGENOM Database of Homologous Genes from Fully Sequenced Organisms

More...
HOGENOMi
CLU_040933_0_0_6

InParanoid: Eukaryotic Ortholog Groups

More...
InParanoidi
P29680

KEGG Orthology (KO)

More...
KOi
K01599

Database for complete collections of gene phylogenies

More...
PhylomeDBi
P29680

Family and domain databases

Conserved Domains Database

More...
CDDi
cd00717, URO-D, 1 hit

Gene3D Structural and Functional Annotation of Protein Families

More...
Gene3Di
3.20.20.210, 1 hit

HAMAP database of protein families

More...
HAMAPi
MF_00218, URO_D, 1 hit

Integrated resource of protein families, domains and functional sites

More...
InterProi
View protein in InterPro
IPR038071, UROD/MetE-like_sf
IPR006361, Uroporphyrinogen_deCO2ase_HemE
IPR000257, Uroporphyrinogen_deCOase

Pfam protein domain database

More...
Pfami
View protein in Pfam
PF01208, URO-D, 1 hit

Superfamily database of structural and functional annotation

More...
SUPFAMi
SSF51726, SSF51726, 1 hit

TIGRFAMs; a protein family database

More...
TIGRFAMsi
TIGR01464, hemE, 1 hit

PROSITE; a protein domain and family database

More...
PROSITEi
View protein in PROSITE
PS00906, UROD_1, 1 hit
PS00907, UROD_2, 1 hit

<p>This section displays by default the canonical protein sequence and upon request all isoforms described in the entry. It also includes information pertinent to the sequence(s), including <a href="http://www.uniprot.org/help/sequence%5Flength">length</a> and <a href="http://www.uniprot.org/help/sequences">molecular weight</a>. The information is filed in different subsections. The current subsections and their content are listed below:<p><a href='/help/sequences_section' target='_top'>More...</a></p>Sequencei

<p>This subsection of the <a href="http://www.uniprot.org/help/sequences%5Fsection">Sequence</a> section indicates if the <a href="http://www.uniprot.org/help/canonical%5Fand%5Fisoforms">canonical sequence</a> displayed by default in the entry is complete or not.<p><a href='/help/sequence_status' target='_top'>More...</a></p>Sequence statusi: Complete.

P29680-1 [UniParc]FASTAAdd to basket
« Hide
        10         20         30         40         50
MTELKNDRYL RALLRQPVDV TPVWMMRQAG RYLPEYKATR AQAGDFMSLC
60 70 80 90 100
KNAELACEVT LQPLRRYPLD AAILFSDILT VPDAMGLGLY FEAGEGPRFT
110 120 130 140 150
SPVTCKADVD KLPIPDPEDE LGYVMNAVRT IRRELKGEVP LIGFSGSPWT
160 170 180 190 200
LATYMVEGGS SKAFTVIKKM MYADPQALHA LLDKLAKSVT LYLNAQIKAG
210 220 230 240 250
AQAVMIFDTW GGVLTGRDYQ QFSLYYMHKI VDGLLRENDG RRVPVTLFTK
260 270 280 290 300
GGGQWLEAMA ETGCDALGLD WTTDIADARR RVGNKVALQG NMDPSMLYAP
310 320 330 340 350
PARIEEEVAT ILAGFGHGEG HVFNLGHGIH QDVPPEHAGV FVEAVHRLSE

QYHR
Length:354
Mass (Da):39,248
Last modified:February 1, 1996 - v3
<p>The checksum is a form of redundancy check that is calculated from the sequence. It is useful for tracking sequence updates.</p> <p>It should be noted that while, in theory, two different sequences could have the same checksum value, the likelihood that this would happen is extremely low.</p> <p>However UniProtKB may contain entries with identical sequences in case of multiple genes (paralogs).</p> <p>The checksum is computed as the sequence 64-bit Cyclic Redundancy Check value (CRC64) using the generator polynomial: x<sup>64</sup> + x<sup>4</sup> + x<sup>3</sup> + x + 1. The algorithm is described in the ISO 3309 standard. </p> <p class="publication">Press W.H., Flannery B.P., Teukolsky S.A. and Vetterling W.T.<br /> <strong>Cyclic redundancy and other checksums</strong><br /> <a href="http://www.nrbook.com/b/bookcpdf.php">Numerical recipes in C 2nd ed., pp896-902, Cambridge University Press (1993)</a>)</p> Checksum:i604933C50080260C
GO

Experimental Info

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the 'Sequence' section reports difference(s) between the canonical sequence (displayed by default in the entry) and the different sequence submissions merged in the entry. These various submissions may originate from different sequencing projects, different types of experiments, or different biological samples. Sequence conflicts are usually of unknown origin.<p><a href='/help/conflict' target='_top'>More...</a></p>Sequence conflicti72 – 78AILFSDI → RSSFRY in BAA02148 (PubMed:8224882).Curated7
Sequence conflicti83D → I in BAA02148 (PubMed:8224882).Curated1
Sequence conflicti89 – 103LYFEA…FTSPV → SSILKPEKVRVLPRQI in BAA02148 (PubMed:8224882).CuratedAdd BLAST15
Sequence conflicti251 – 256GGGQWL → SATVA in BAA02148 (PubMed:8224882).Curated6

Sequence databases

Select the link destinations:

EMBL nucleotide sequence database

More...
EMBLi

GenBank nucleotide sequence database

More...
GenBanki

DNA Data Bank of Japan; a nucleotide sequence database

More...
DDBJi
Links Updated
D12624 Genomic DNA Translation: BAA02148.1
U00006 Genomic DNA Translation: AAC43095.1
U00096 Genomic DNA Translation: AAC76971.1
AP009048 Genomic DNA Translation: BAE77322.1

Protein sequence database of the Protein Information Resource

More...
PIRi
H65206

NCBI Reference Sequences

More...
RefSeqi
NP_418425.1, NC_000913.3
WP_000137657.1, NZ_SSZK01000047.1

Genome annotation databases

Ensembl bacterial and archaeal genome annotation project

More...
EnsemblBacteriai
AAC76971; AAC76971; b3997
BAE77322; BAE77322; BAE77322

Database of genes from NCBI RefSeq genomes

More...
GeneIDi
48090507
948497

KEGG: Kyoto Encyclopedia of Genes and Genomes

More...
KEGGi
ecj:JW3961
eco:b3997

Pathosystems Resource Integration Center (PATRIC)

More...
PATRICi
fig|1411691.4.peg.2714

<p>This section provides links to proteins that are similar to the protein sequence(s) described in this entry at different levels of sequence identity thresholds (100%, 90% and 50%) based on their membership in UniProt Reference Clusters (<a href="http://www.uniprot.org/help/uniref">UniRef</a>).<p><a href='/help/similar_proteins_section' target='_top'>More...</a></p>Similar proteinsi

<p>This section is used to point to information related to entries and found in data collections other than UniProtKB.<p><a href='/help/cross_references_section' target='_top'>More...</a></p>Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
D12624 Genomic DNA Translation: BAA02148.1
U00006 Genomic DNA Translation: AAC43095.1
U00096 Genomic DNA Translation: AAC76971.1
AP009048 Genomic DNA Translation: BAE77322.1
PIRiH65206
RefSeqiNP_418425.1, NC_000913.3
WP_000137657.1, NZ_SSZK01000047.1

3D structure databases

SMRiP29680
ModBaseiSearch...

Protein-protein interaction databases

BioGRIDi4263218, 2 interactors
IntActiP29680, 5 interactors
STRINGi511145.b3997

Proteomic databases

jPOSTiP29680
PaxDbiP29680
PRIDEiP29680

Genome annotation databases

EnsemblBacteriaiAAC76971; AAC76971; b3997
BAE77322; BAE77322; BAE77322
GeneIDi48090507
948497
KEGGiecj:JW3961
eco:b3997
PATRICifig|1411691.4.peg.2714

Organism-specific databases

EchoBASE - an integrated post-genomic database for E. coli

More...
EchoBASEi
EB1505

Phylogenomic databases

eggNOGiCOG0407, Bacteria
HOGENOMiCLU_040933_0_0_6
InParanoidiP29680
KOiK01599
PhylomeDBiP29680

Enzyme and pathway databases

UniPathwayiUPA00251;UER00321
BioCyciEcoCyc:UROGENDECARBOX-MONOMER
MetaCyc:UROGENDECARBOX-MONOMER

Miscellaneous databases

Protein Ontology

More...
PROi
PR:P29680

Family and domain databases

CDDicd00717, URO-D, 1 hit
Gene3Di3.20.20.210, 1 hit
HAMAPiMF_00218, URO_D, 1 hit
InterProiView protein in InterPro
IPR038071, UROD/MetE-like_sf
IPR006361, Uroporphyrinogen_deCO2ase_HemE
IPR000257, Uroporphyrinogen_deCOase
PfamiView protein in Pfam
PF01208, URO-D, 1 hit
SUPFAMiSSF51726, SSF51726, 1 hit
TIGRFAMsiTIGR01464, hemE, 1 hit
PROSITEiView protein in PROSITE
PS00906, UROD_1, 1 hit
PS00907, UROD_2, 1 hit

ProtoNet; Automatic hierarchical classification of proteins

More...
ProtoNeti
Search...

MobiDB: a database of protein disorder and mobility annotations

More...
MobiDBi
Search...

<p>This section provides general information on the entry.<p><a href='/help/entry_information_section' target='_top'>More...</a></p>Entry informationi

<p>This subsection of the 'Entry information' section provides a mnemonic identifier for a UniProtKB entry, but it is not a stable identifier. Each reviewed entry is assigned a unique entry name upon integration into UniProtKB/Swiss-Prot.<p><a href='/help/entry_name' target='_top'>More...</a></p>Entry nameiDCUP_ECOLI
<p>This subsection of the 'Entry information' section provides one or more accession number(s). These are stable identifiers and should be used to cite UniProtKB entries. Upon integration into UniProtKB, each entry is assigned a unique accession number, which is called 'Primary (citable) accession number'.<p><a href='/help/accession_numbers' target='_top'>More...</a></p>AccessioniPrimary (citable) accession number: P29680
Secondary accession number(s): P78135, Q2M8T4
<p>This subsection of the 'Entry information' section shows the date of integration of the entry into UniProtKB, the date of the last sequence update and the date of the last annotation modification ('Last modified'). The version number for both the entry and the <a href="http://www.uniprot.org/help/canonical%5Fand%5Fisoforms">canonical sequence</a> are also displayed.<p><a href='/help/entry_history' target='_top'>More...</a></p>Entry historyiIntegrated into UniProtKB/Swiss-Prot: April 1, 1993
Last sequence update: February 1, 1996
Last modified: October 7, 2020
This is version 152 of the entry and version 3 of the sequence. See complete history.
<p>This subsection of the 'Entry information' section indicates whether the entry has been manually annotated and reviewed by UniProtKB curators or not, in other words, if the entry belongs to the Swiss-Prot section of UniProtKB (<strong>reviewed</strong>) or to the computer-annotated TrEMBL section (<strong>unreviewed</strong>).<p><a href='/help/entry_status' target='_top'>More...</a></p>Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic Protein Annotation Program

<p>This section contains any relevant information that doesn't fit in any other defined sections<p><a href='/help/miscellaneous_section' target='_top'>More...</a></p>Miscellaneousi

Keywords - Technical termi

Reference proteome

Documents

  1. Escherichia coli
    Escherichia coli (strain K12): entries and cross-references to EcoGene
  2. PATHWAY comments
    Index of metabolic and biosynthesis pathways
  3. SIMILARITY comments
    Index of protein domains and families
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