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UniProtKB - P09126 (HEM4_ECOLI)

Entry version 137 (13 Nov 2019)
Sequence version 1 (01 Jul 1989)
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Protein

Uroporphyrinogen-III synthase

Gene

hemD

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

Annotation score:3 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 cyclization of the linear tetrapyrrole, hydroxymethylbilane, to the macrocyclic uroporphyrinogen III.By similarity

<p>This subsection of the <a href="http://www.uniprot.org/help/function_section">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_section">'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 3 of the subpathway that synthesizes coproporphyrinogen-III from 5-aminolevulinate.
Proteins known to be involved in the 4 steps of the subpathway in this organism are:
  1. Delta-aminolevulinic acid dehydratase (hemB)
  2. Porphobilinogen deaminase (hemC), Porphobilinogen deaminase (hemC), Porphobilinogen deaminase (hemC), Porphobilinogen deaminase (hemC)
  3. Uroporphyrinogen-III synthase (hemD), Uroporphyrinogen-III synthase (hemD), Uroporphyrinogen-III synthase (hemD), Uroporphyrinogen-III synthase (hemD), Uroporphyrinogen-III synthase (hemD)
  4. Uroporphyrinogen decarboxylase (hemE), 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.

<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

Complete GO annotation on QuickGO ...

GO - Biological processi

Complete GO annotation on QuickGO ...

<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 functionLyase
Biological processPorphyrin biosynthesis

Enzyme and pathway databases

BioCyc Collection of Pathway/Genome Databases

More...BioCyci		EcoCyc:UROGENIIISYN-MONOMER
ECOL316407:JW3776-MONOMER
MetaCyc:UROGENIIISYN-MONOMER

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

More...UniPathwayi		UPA00251;UER00320

<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_and_taxonomy_section">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-III synthase (EC:4.2.1.75)
Short name:
UROS
Alternative name(s):
Hydroxymethylbilane hydrolyase [cyclizing]
Uroporphyrinogen-III cosynthase
<p>This subsection of the <a href="http://www.uniprot.org/help/names_and_taxonomy_section">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:hemD
Ordered Locus Names:b3804, JW3776
<p>This subsection of the <a href="http://www.uniprot.org/help/names_and_taxonomy_section">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_and_taxonomy_section">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_and_taxonomy_section">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 lineageiBacteria › Proteobacteria › Gammaproteobacteria › Enterobacterales › Enterobacteriaceae › Escherichia ›
<p>This subsection of the <a href="http://www.uniprot.org/help/names_and_taxonomy_section">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_manual">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 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.<p><a href='/help/chain' target='_top'>More...</a></p>ChainiPRO_00001352431 – 246Uroporphyrinogen-III synthaseAdd BLAST246

Proteomic databases

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

More...PaxDbi		P09126

PRoteomics IDEntifications database

More...PRIDEi		P09126

<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_section">'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_section">'Function'</a> section).<p><a href='/help/subunit_structure' target='_top'>More...</a></p>Subunit structurei

Monomer.

Protein-protein interaction databases

The Biological General Repository for Interaction Datasets (BioGrid)

More...BioGridi		4262609, 4 interactors

Protein interaction database and analysis system

More...IntActi		P09126, 3 interactors

STRING: functional protein association networks

More...STRINGi		511145.b3804

<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		P09126

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

<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-III synthase family.Curated

Phylogenomic databases

evolutionary genealogy of genes: Non-supervised Orthologous Groups

More...eggNOGi		ENOG41076E6 Bacteria
COG1587 LUCA

The HOGENOM Database of Homologous Genes from Fully Sequenced Organisms

More...HOGENOMi		HOG000247993

InParanoid: Eukaryotic Ortholog Groups

More...InParanoidi		P09126

KEGG Orthology (KO)

More...KOi		K01719

Database for complete collections of gene phylogenies

More...PhylomeDBi		P09126

Family and domain databases

Conserved Domains Database

More...CDDi		cd06578 HemD, 1 hit

Gene3D Structural and Functional Annotation of Protein Families

More...Gene3Di		3.40.50.10090, 2 hits

Integrated resource of protein families, domains and functional sites

More...InterProi		View protein in InterPro
IPR036108 4pyrrol_syn_uPrphyn_synt_sf
IPR003754 4pyrrol_synth_uPrphyn_synth
IPR039793 UROS/Hem4

The PANTHER Classification System

More...PANTHERi		PTHR38042 PTHR38042, 1 hit

Pfam protein domain database

More...Pfami		View protein in Pfam
PF02602 HEM4, 1 hit

Superfamily database of structural and functional annotation

More...SUPFAMi		SSF69618 SSF69618, 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_length">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_section">Sequence</a> section indicates if the <a href="http://www.uniprot.org/help/canonical_and_isoforms">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.

P09126-1 [UniParc]FASTAAdd to basket
« Hide
        10         20         30         40         50
MSILVTRPSP AGEELVSRLR TLGQVAWHFP LIEFSPGQQL PQLADQLAAL 
        60         70         80         90        100
GESDLLFALS QHAVAFAQSQ LHQQDRKWPR LPDYFAIGRT TALALHTVSG 
       110        120        130        140        150
QKILYPQDRE ISEVLLQLPE LQNIAGKRAL ILRGNGGREL IGDTLTARGA 
       160        170        180        190        200
EVTFCECYQR CAIHYDGAEE AMRWQAREVT MVVVTSGEML QQLWSLIPQW 
       210        220        230        240 
YREHWLLHCR LLVVSERLAK LARELGWQDI KVADNADNDA LLRALQ
Length:246
Mass (Da):27,798
Last modified:July 1, 1989 - v1
<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:i0BF7453C72395A0C
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 conflicti146T → A in AAA23956 (PubMed:3040684).Curated1
Sequence conflicti236A → R (PubMed:3320969).Curated1
Sequence conflicti236A → R (PubMed:3277628).Curated1

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
X12614 Genomic DNA Translation: CAA31133.1
Y00883 Genomic DNA Translation: CAA68776.1
M17360 Genomic DNA Translation: AAA23956.1
M87049 Genomic DNA Translation: AAA67600.1
U00096 Genomic DNA Translation: AAC76807.1
AP009048 Genomic DNA Translation: BAE77497.1

Protein sequence database of the Protein Information Resource

More...PIRi		E65184

NCBI Reference Sequences

More...RefSeqi		NP_418248.1, NC_000913.3
WP_000026046.1, NZ_SSZK01000025.1

Genome annotation databases

Ensembl bacterial and archaeal genome annotation project

More...EnsemblBacteriai		AAC76807; AAC76807; b3804
BAE77497; BAE77497; BAE77497

Database of genes from NCBI RefSeq genomes

More...GeneIDi		948587

KEGG: Kyoto Encyclopedia of Genes and Genomes

More...KEGGi		ecj:JW3776
eco:b3804

Pathosystems Resource Integration Center (PATRIC)

More...PATRICi		fig|1411691.4.peg.2904

<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
X12614 Genomic DNA Translation: CAA31133.1
Y00883 Genomic DNA Translation: CAA68776.1
M17360 Genomic DNA Translation: AAA23956.1
M87049 Genomic DNA Translation: AAA67600.1
U00096 Genomic DNA Translation: AAC76807.1
AP009048 Genomic DNA Translation: BAE77497.1
PIRiE65184
RefSeqiNP_418248.1, NC_000913.3
WP_000026046.1, NZ_SSZK01000025.1

3D structure databases

SMRiP09126
ModBaseiSearch...

Protein-protein interaction databases

BioGridi4262609, 4 interactors
IntActiP09126, 3 interactors
STRINGi511145.b3804

Proteomic databases

PaxDbiP09126
PRIDEiP09126

Protocols and materials databases

The DNASU plasmid repository

More...DNASUi		948587

Genome annotation databases

EnsemblBacteriaiAAC76807; AAC76807; b3804
BAE77497; BAE77497; BAE77497
GeneIDi948587
KEGGiecj:JW3776
eco:b3804
PATRICifig|1411691.4.peg.2904

Organism-specific databases

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

More...EchoBASEi		EB0425

Phylogenomic databases

eggNOGiENOG41076E6 Bacteria
COG1587 LUCA
HOGENOMiHOG000247993
InParanoidiP09126
KOiK01719
PhylomeDBiP09126

Enzyme and pathway databases

UniPathwayiUPA00251;UER00320
BioCyciEcoCyc:UROGENIIISYN-MONOMER
ECOL316407:JW3776-MONOMER
MetaCyc:UROGENIIISYN-MONOMER

Miscellaneous databases

Protein Ontology

More...PROi		PR:P09126

Family and domain databases

CDDicd06578 HemD, 1 hit
Gene3Di3.40.50.10090, 2 hits
InterProiView protein in InterPro
IPR036108 4pyrrol_syn_uPrphyn_synt_sf
IPR003754 4pyrrol_synth_uPrphyn_synth
IPR039793 UROS/Hem4
PANTHERiPTHR38042 PTHR38042, 1 hit
PfamiView protein in Pfam
PF02602 HEM4, 1 hit
SUPFAMiSSF69618 SSF69618, 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 nameiHEM4_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: P09126
Secondary accession number(s): Q2M8A9, Q47250
<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_and_isoforms">canonical sequence</a> are also displayed.<p><a href='/help/entry_history' target='_top'>More...</a></p>Entry historyiIntegrated into UniProtKB/Swiss-Prot: July 1, 1989
Last sequence update: July 1, 1989
Last modified: November 13, 2019
This is version 137 of the entry and version 1 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

Complete proteome, Reference proteome

Documents

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