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Entry version 133 (16 Oct 2019)
Sequence version 3 (13 Apr 2004)
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Protein

Protein PyrBI

Gene

pyrBI

Organism
Treponema denticola (strain ATCC 35405 / CIP 103919 / DSM 14222)
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

<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: UMP biosynthesis via de novo pathway

This protein is involved in step 2 of the subpathway that synthesizes (S)-dihydroorotate from bicarbonate.
Proteins known to be involved in the 3 steps of the subpathway in this organism are:
  1. no protein annotated in this organism
  2. Protein PyrBI (pyrBI)
  3. no protein annotated in this organism
This subpathway is part of the pathway UMP biosynthesis via de novo pathway, which is itself part of Pyrimidine metabolism.
View all proteins of this organism that are known to be involved in the subpathway that synthesizes (S)-dihydroorotate from bicarbonate, the pathway UMP biosynthesis via de novo pathway and in Pyrimidine metabolism.

Sites

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the <a href="http://www.uniprot.org/help/function_section">Function</a> section indicates at which position the protein binds a given metal ion. The nature of the metal is indicated in the ‘Description’ field.<p><a href='/help/metal' target='_top'>More...</a></p>Metal bindingi488ZincBy similarity1
Metal bindingi493ZincBy similarity1
Metal bindingi517ZincBy similarity1
Metal bindingi520ZincBy similarity1

<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 functionMultifunctional enzyme, Transferase
Biological processPyrimidine biosynthesis
LigandMetal-binding, Zinc

Enzyme and pathway databases

BioCyc Collection of Pathway/Genome Databases

More...
BioCyci
TDEN243275:G1G0Q-130-MONOMER

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

More...
UniPathwayi
UPA00070;UER00116

<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:
Protein PyrBI
Including the following 2 domains:
Aspartate carbamoyltransferase (EC:2.1.3.2)
Alternative name(s):
Aspartate transcarbamylase
Short name:
ATCase
Aspartate carbamoyltransferase regulatory region
<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:pyrBI
Synonyms:pyrB
Ordered Locus Names:TDE_0129
<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>OrganismiTreponema denticola (strain ATCC 35405 / CIP 103919 / DSM 14222)
<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 identifieri243275 [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 lineageiBacteriaSpirochaetesSpirochaetalesSpirochaetaceaeTreponema
<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
  • UP000008212 <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

<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_00001132411 – 535Protein PyrBIAdd BLAST535

<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

Protein-protein interaction databases

STRING: functional protein association networks

More...
STRINGi
243275.TDE_0129

<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
Q04595

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>Regioni1 – 341Aspartate carbamoyltransferaseAdd BLAST341
Regioni342 – 370LinkerAdd BLAST29
Regioni371 – 535Aspartate carbamoyltransferase regulatory regionAdd BLAST165

<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

In the N-terminal section; belongs to the ATCase/OTCase family.Curated
In the C-terminal section; belongs to the PyrI family.Curated

Phylogenomic databases

evolutionary genealogy of genes: Non-supervised Orthologous Groups

More...
eggNOGi
ENOG4105CXT Bacteria
COG0540 LUCA
COG1781 LUCA

KEGG Orthology (KO)

More...
KOi
K00608

Identification of Orthologs from Complete Genome Data

More...
OMAi
QAINGYW

Database of Orthologous Groups

More...
OrthoDBi
477078at2

Family and domain databases

Gene3D Structural and Functional Annotation of Protein Families

More...
Gene3Di
3.30.70.140, 1 hit
3.40.50.1370, 2 hits

Integrated resource of protein families, domains and functional sites

More...
InterProi
View protein in InterPro
IPR006132 Asp/Orn_carbamoyltranf_P-bd
IPR006130 Asp/Orn_carbamoylTrfase
IPR036901 Asp/Orn_carbamoylTrfase_sf
IPR002082 Asp_carbamoyltransf
IPR006131 Asp_carbamoyltransf_Asp/Orn-bd
IPR020545 Asp_carbamoyltransf_reg_N
IPR020542 Asp_carbamoyltrfase_reg_C
IPR036792 Asp_carbatrfase_reg_C_sf
IPR036793 Asp_carbatrfase_reg_N_sf

The PANTHER Classification System

More...
PANTHERi
PTHR11405:SF16 PTHR11405:SF16, 1 hit

Pfam protein domain database

More...
Pfami
View protein in Pfam
PF00185 OTCace, 1 hit
PF02729 OTCace_N, 1 hit
PF01948 PyrI, 1 hit
PF02748 PyrI_C, 1 hit

Protein Motif fingerprint database; a protein domain database

More...
PRINTSi
PR00100 AOTCASE

Superfamily database of structural and functional annotation

More...
SUPFAMi
SSF53671 SSF53671, 1 hit
SSF54893 SSF54893, 1 hit
SSF57825 SSF57825, 1 hit

TIGRFAMs; a protein family database

More...
TIGRFAMsi
TIGR00670 asp_carb_tr, 1 hit

PROSITE; a protein domain and family database

More...
PROSITEi
View protein in PROSITE
PS00097 CARBAMOYLTRANSFERASE, 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.

Q04595-1 [UniParc]FASTAAdd to basket
« Hide
        10         20         30         40         50
MENKFMGRSL TVIDDLSIDE RKYLFDKTKR LKKAIQEDDQ KVMDEFRIND
60 70 80 90 100
KDFGIYEVFL EPSTRTKESF RNAAKFHQVK LSDLAAESSS FNKGESYADT
110 120 130 140 150
FNTLAGYQNS IFIVRSKVEG VCRWLEDEAQ AFYQRNNLKR KPAFINAGDG
160 170 180 190 200
KHEHPTQELL DEFTFIEDNN WSFDKIHIAL VGDLYHGRTV HSKADGLKIF
210 220 230 240 250
KSVKVDLIAP AELAMPEYYK VRMQENGFTV REFSSIEEYL RQADVALIWY
260 270 280 290 300
FTRPQLERMG EQVLKKQDEL RRSITFRKEF IEKLPENTRF YHPLPRHRVH
310 320 330 340 350
PTIPTFLDAT PLNGWERQSI NGMYVRMVLL SMIAGKIGDD YKGPEPKSCE
360 370 380 390 400
RVEDEDYIVE VPINNSKESK VETFSEGVRP IQNGIVIDHI CRGDKPSVIR
410 420 430 440 450
HHMSKIINVM GLEEGKGGEW VSTSTKDKGT FKGIIFRPGE YKFSRADLKR
460 470 480 490 500
LSAVASSCTL NLIKDGKIQS KYRTHLPPRI YNFEDLICKN EACISHPAQS
510 520 530
EGVPAIFYRT IDNRYACQYC GTIHTFKEIW GEKKN
Length:535
Mass (Da):61,944
Last modified:April 13, 2004 - 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:i15BDF8A8F5D57A81
GO

<p>This subsection of the ‘Sequence’ section reports difference(s) between the protein sequence shown in the UniProtKB entry and other available protein sequences derived from the same gene.<p><a href='/help/sequence_caution' target='_top'>More...</a></p>Sequence cautioni

The sequence BAA00941 differs from that shown. Reason: Frameshift.Curated

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 conflicti117K → E in BAA00941 (PubMed:1444372).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
D10052 Genomic DNA Translation: BAA00941.1 Frameshift.
AE017226 Genomic DNA Translation: AAS10627.1

Protein sequence database of the Protein Information Resource

More...
PIRi
A48948

NCBI Reference Sequences

More...
RefSeqi
NP_970746.1, NC_002967.9
WP_002666669.1, NC_002967.9

Genome annotation databases

Ensembl bacterial and archaeal genome annotation project

More...
EnsemblBacteriai
AAS10627; AAS10627; TDE_0129

Database of genes from NCBI RefSeq genomes

More...
GeneIDi
2739612

KEGG: Kyoto Encyclopedia of Genes and Genomes

More...
KEGGi
tde:TDE0129

Pathosystems Resource Integration Center (PATRIC)

More...
PATRICi
fig|243275.7.peg.129

<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
D10052 Genomic DNA Translation: BAA00941.1 Frameshift.
AE017226 Genomic DNA Translation: AAS10627.1
PIRiA48948
RefSeqiNP_970746.1, NC_002967.9
WP_002666669.1, NC_002967.9

3D structure databases

SMRiQ04595
ModBaseiSearch...

Protein-protein interaction databases

STRINGi243275.TDE_0129

Genome annotation databases

EnsemblBacteriaiAAS10627; AAS10627; TDE_0129
GeneIDi2739612
KEGGitde:TDE0129
PATRICifig|243275.7.peg.129

Phylogenomic databases

eggNOGiENOG4105CXT Bacteria
COG0540 LUCA
COG1781 LUCA
KOiK00608
OMAiQAINGYW
OrthoDBi477078at2

Enzyme and pathway databases

UniPathwayiUPA00070;UER00116
BioCyciTDEN243275:G1G0Q-130-MONOMER

Family and domain databases

Gene3Di3.30.70.140, 1 hit
3.40.50.1370, 2 hits
InterProiView protein in InterPro
IPR006132 Asp/Orn_carbamoyltranf_P-bd
IPR006130 Asp/Orn_carbamoylTrfase
IPR036901 Asp/Orn_carbamoylTrfase_sf
IPR002082 Asp_carbamoyltransf
IPR006131 Asp_carbamoyltransf_Asp/Orn-bd
IPR020545 Asp_carbamoyltransf_reg_N
IPR020542 Asp_carbamoyltrfase_reg_C
IPR036792 Asp_carbatrfase_reg_C_sf
IPR036793 Asp_carbatrfase_reg_N_sf
PANTHERiPTHR11405:SF16 PTHR11405:SF16, 1 hit
PfamiView protein in Pfam
PF00185 OTCace, 1 hit
PF02729 OTCace_N, 1 hit
PF01948 PyrI, 1 hit
PF02748 PyrI_C, 1 hit
PRINTSiPR00100 AOTCASE
SUPFAMiSSF53671 SSF53671, 1 hit
SSF54893 SSF54893, 1 hit
SSF57825 SSF57825, 1 hit
TIGRFAMsiTIGR00670 asp_carb_tr, 1 hit
PROSITEiView protein in PROSITE
PS00097 CARBAMOYLTRANSFERASE, 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 nameiPYRB_TREDE
<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: Q04595
<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: October 1, 1993
Last sequence update: April 13, 2004
Last modified: October 16, 2019
This is version 133 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

Complete proteome, Reference proteome

Documents

  1. SIMILARITY comments
    Index of protein domains and families
  2. PATHWAY comments
    Index of metabolic and biosynthesis pathways
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