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Entry version 92 (02 Jun 2021)
Sequence version 1 (24 May 2005)
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Protein

CRISPR-associated endonuclease/helicase Cas3

Gene

cas3

Organism
Thermus thermophilus (strain ATCC 27634 / DSM 579 / HB8)
Status
Reviewed-Annotation score:

Annotation score:5 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>
-Experimental evidence at protein leveli <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

CRISPR (clustered regularly interspaced short palindromic repeat), is an adaptive immune system that provides protection against mobile genetic elements (viruses, transposable elements and conjugative plasmids). CRISPR clusters contain sequences complementary to antecedent mobile elements and target invading nucleic acids. CRISPR clusters are transcribed and processed into CRISPR RNA (crRNA). Cas3 plus Cascade participate in CRISPR interference, the third stage of CRISPR immunity. The N-terminal domain (residues 6-260) acts as a ssDNA endonuclease, has no activity on dsDNA.

1 Publication

<p>This subsection of the 'Function' section provides information relevant to cofactors. A cofactor is any non-protein substance required for a protein to be catalytically active. Some cofactors are inorganic, such as the metal atoms zinc, iron, and copper in various oxidation states. Others, such as most vitamins, are organic.<p><a href='/help/cofactor' target='_top'>More...</a></p>Cofactori

Mn2+1 Publication, Co2+1 Publication, Ni2+1 Publication, Cu2+1 Publication, Zn2+1 PublicationNote: The ssDNA endonuclease activity (residues 6-260) is stimulated by Mn2+, Co2+, Ni2+, Cu2+ and Zn2+, but not by Mg2+ or Ca2+. A Ni2+ ion is seen in crystals upon soaking.1 Publication

<p>This subsection of the <a href="http://www.uniprot.org/help/function%5Fsection">Function</a> section describes regulatory mechanisms for enzymes, transporters or microbial transcription factors, and reports the components which regulate (by activation or inhibition) the reaction.<p><a href='/help/activity_regulation' target='_top'>More...</a></p>Activity regulationi

Inhibited by EDTA, Mg2+ and Ca2+.1 Publication

Sites

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the <a href="http://www.uniprot.org/help/function%5Fsection">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 bindingi24Divalent metal cation1
Metal bindingi69Divalent metal cation1
Metal bindingi70Divalent metal cation1
Metal bindingi205Divalent metal cation1

Regions

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the <a href="http://www.uniprot.org/help/function%5Fsection">Function</a> section describes a region in the protein which binds nucleotide phosphates. It always involves more than one amino acid and includes all residues involved in nucleotide-binding.<p><a href='/help/np_bind' target='_top'>More...</a></p>Nucleotide bindingi287 – 294ATPBy similarity8

<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 functionEndonuclease, Helicase, Hydrolase, Nuclease
Biological processAntiviral defense
LigandATP-binding, Metal-binding, Nucleotide-binding

<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:
CRISPR-associated endonuclease/helicase Cas3 (EC:3.1.-.-, EC:3.6.4.-)
Alternative name(s):
CRISPR-associated ssDNA endonuclease/helicase Cas3
<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:cas3
Ordered Locus Names:TTHB187
<p>This subsection of the <a href="http://www.uniprot.org/help/names%5Fand%5Ftaxonomy%5Fsection">Names and taxonomy</a> section indicates if the gene coding for the protein originates from the hydrogenosome, the mitochondrion, the nucleomorph, different plastids or a plasmid. The absence of this section means that the gene is located in one of the main chromosomal element(s).<p><a href='/help/encoded_on' target='_top'>More...</a></p>Encoded oniPlasmid pTT27
<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>OrganismiThermus thermophilus (strain ATCC 27634 / DSM 579 / HB8)
<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 identifieri300852 [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 lineageiBacteriaDeinococcus-ThermusDeinococciThermalesThermaceaeThermus
<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
  • UP000000532 <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: Plasmid pTT27

<p>This section provides information on the disease(s) and phenotype(s) associated with a protein.<p><a href='/help/pathology_and_biotech_section' target='_top'>More...</a></p>Pathology & Biotechi

Mutagenesis

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the <a href="http://www.uniprot.org/manual/pathology%5Fand%5Fbiotech%5Fsection">'Pathology and Biotech'</a> section describes the effect of the experimental mutation of one or more amino acid(s) on the biological properties of the protein.<p><a href='/help/mutagen' target='_top'>More...</a></p>Mutagenesisi24H → A: Loss of endonuclease activity. 1 Publication1
Mutagenesisi69H → A: Loss of endonuclease activity. 1 Publication1
Mutagenesisi70D → A: Loss of endonuclease activity. 1 Publication1
Mutagenesisi73K → A: Loss of endonuclease activity. 1 Publication1
Mutagenesisi105H → A: Loss of endonuclease activity. 1 Publication1
Mutagenesisi137H → A: Loss of endonuclease activity. 1 Publication1
Mutagenesisi138H → A: Loss of endonuclease activity. 1 Publication1
Mutagenesisi205D → A: Loss of endonuclease activity. 1 Publication1

<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_00004176091 – 920CRISPR-associated endonuclease/helicase Cas3Add BLAST920

<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

Secondary structure

1920
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details

3D structure databases

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

More...
SMRi
Q53VY2

Database of comparative protein structure models

More...
ModBasei
Search...

Protein Data Bank in Europe - Knowledge Base

More...
PDBe-KBi
Search...

Miscellaneous databases

Relative evolutionary importance of amino acids within a protein sequence

More...
EvolutionaryTracei
Q53VY2

<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

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the <a href="http://www.uniprot.org/help/family%5Fand%5Fdomains%5Fsection">Family and Domains</a> section describes the position and type of a domain, which is defined as a specific combination of secondary structures organized into a characteristic three-dimensional structure or fold.<p><a href='/help/domain' target='_top'>More...</a></p>Domaini14 – 207HD Cas3-typePROSITE-ProRule annotationAdd BLAST194
Domaini274 – 480Helicase ATP-bindingAdd BLAST207

Motif

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the 'Family and Domains' section describes a short (usually not more than 20 amino acids) conserved sequence motif of biological significance.<p><a href='/help/motif' target='_top'>More...</a></p>Motifi428 – 431DEAH box4

<p>This subsection of the 'Family and domains' section provides general information on the biological role of a domain. The term 'domain' is intended here in its wide acceptation, it may be a structural domain, a transmembrane region or a functional domain. Several domains are described in this subsection.<p><a href='/help/domain_cc' target='_top'>More...</a></p>Domaini

Proteins of this family have an N-terminal nuclease domain and a C-terminal helicase/ATPase domain. In some CRISPR/Cas systems the domains are swapped, in others they are encoded separately.

<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 CRISPR-associated nuclease Cas3-HD family.Curated
In the central section; belongs to the CRISPR-associated helicase Cas3 family.Curated

Phylogenomic databases

The HOGENOM Database of Homologous Genes from Fully Sequenced Organisms

More...
HOGENOMi
CLU_013924_1_0_0

Identification of Orthologs from Complete Genome Data

More...
OMAi
CVCWIRN

Database for complete collections of gene phylogenies

More...
PhylomeDBi
Q53VY2

Family and domain databases

Gene3D Structural and Functional Annotation of Protein Families

More...
Gene3Di
1.10.3210.30, 1 hit

Integrated resource of protein families, domains and functional sites

More...
InterProi
View protein in InterPro
IPR035011, Cas3
IPR041372, Cas3_C
IPR006483, CRISPR-assoc_Cas3_HD
IPR038257, CRISPR-assoc_Cas3_HD_sf
IPR014001, Helicase_ATP-bd
IPR006474, Helicase_Cas3_CRISPR-ass_core
IPR027417, P-loop_NTPase

The PANTHER Classification System

More...
PANTHERi
PTHR47959:SF5, PTHR47959:SF5, 2 hits

Pfam protein domain database

More...
Pfami
View protein in Pfam
PF18395, Cas3_C, 1 hit
PF18019, HD_6, 1 hit

Simple Modular Architecture Research Tool; a protein domain database

More...
SMARTi
View protein in SMART
SM00487, DEXDc, 1 hit

Superfamily database of structural and functional annotation

More...
SUPFAMi
SSF52540, SSF52540, 1 hit

TIGRFAMs; a protein family database

More...
TIGRFAMsi
TIGR01587, cas3_core, 1 hit
TIGR01596, cas3_HD, 1 hit

PROSITE; a protein domain and family database

More...
PROSITEi
View protein in PROSITE
PS51643, HD_CAS3, 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.

Q53VY2-1 [UniParc]FASTAAdd to basket
« Hide
        10         20         30         40         50
MSVEEAALAL WAKSGNPFHP LLAHMLDTAA VALAVLRMEP PRTRALYAED
60 70 80 90 100
WGLPEEGALA WAAALVGLHD LGKASPVFQA GWEEGKERVQ RAGLPFGELL
110 120 130 140 150
DWVAHGVFTE LFLRRLLKEK GLPERAANDL AAALGAHHGF PANAEEKSRA
160 170 180 190 200
RRHLRTEDPL WKEARRWLLE EVFRRLGAPL PPSQGNGEAR PEAVLRVMAL
210 220 230 240 250
ASFADWVASD PSLFPYGRDP RRGDYLKEAL RLAQEALNRL GWPAFAKAQR
260 270 280 290 300
REFGELFPYI PKPNALQESV PALLEGACTP VLLLVEAPMG MGKTEAALYA
310 320 330 340 350
HHLLQAGLGH RGLYVALPTQ ATANGLFPRV RGFLERLGEG SRLELQLQHG
360 370 380 390 400
TALLNPHYAG LLERAAPRQV GEEEEGGAVA SAWFSARKRA MLAPYGVGTL
410 420 430 440 450
DQALLGVLRV KHHFVRLWGL MNRVVVLDEV HAYDVYTSGL LQALLRWLRA
460 470 480 490 500
LGSSAVVMTA TLPPSRRRAL LEAWAGEEVE GQDLGPYPRV VLVGEGVKAR
510 520 530 540 550
SLPPAREVEV ALEVLREVDV EPLAQRLKGA LPGAVGAIVN TVDRAQDLYR
560 570 580 590 600
ALGEGTPLTL EELARRLGGI SGGQAWEEVR QALPERGGEV VGKVLTDGTL
610 620 630 640 650
VFLLHARFPA EERALRGSVV LALFGKGGPR PPRAILVATQ VAEQSLDLDF
660 670 680 690 700
DLLYTDLAPI DLLFQRSGRL HRHERPRPEE HARPRLLLGV PEDLDFGKPL
710 720 730 740 750
YWDKVYEDYV LLATWRALSG RDRLRVPGDL EALLEEIYEG ENPESFPEGL
760 770 780 790 800
RERAKKSLKA LQERRDREAN TARRLSLSEL DRLLAYWDEG ALVAQERLED
810 820 830 840 850
DEEKAETQRL LTRLGDPSVA VVPLFRVGEG LFLDREGRRR APLKGEVSRE
860 870 880 890 900
EAEALFRRAV RLSRFPLPQE LLKEEPPPAW RKSGLLRGLR PLEVGRVFRS
910 920
GERAFQVELD PELGVVYLPV
Length:920
Mass (Da):102,127
Last modified:May 24, 2005 - 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:iD0A13064DD5B8191
GO

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
AP008227 Genomic DNA Translation: BAD71983.1

NCBI Reference Sequences

More...
RefSeqi
WP_011229117.1, NC_006462.1
YP_145426.1, NC_006462.1

Genome annotation databases

Ensembl bacterial and archaeal genome annotation project

More...
EnsemblBacteriai
BAD71983; BAD71983; BAD71983

Database of genes from NCBI RefSeq genomes

More...
GeneIDi
3167883

KEGG: Kyoto Encyclopedia of Genes and Genomes

More...
KEGGi
ttj:TTHB187

Pathosystems Resource Integration Center (PATRIC)

More...
PATRICi
fig|300852.9.peg.2138

<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
AP008227 Genomic DNA Translation: BAD71983.1
RefSeqiWP_011229117.1, NC_006462.1
YP_145426.1, NC_006462.1

3D structure databases

Select the link destinations:

Protein Data Bank Europe

More...
PDBei

Protein Data Bank RCSB

More...
RCSB PDBi

Protein Data Bank Japan

More...
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
3SK9X-ray1.80A6-260[»]
3SKDX-ray2.00A6-260[»]
SMRiQ53VY2
ModBaseiSearch...
PDBe-KBiSearch...

Genome annotation databases

EnsemblBacteriaiBAD71983; BAD71983; BAD71983
GeneIDi3167883
KEGGittj:TTHB187
PATRICifig|300852.9.peg.2138

Phylogenomic databases

HOGENOMiCLU_013924_1_0_0
OMAiCVCWIRN
PhylomeDBiQ53VY2

Miscellaneous databases

EvolutionaryTraceiQ53VY2

Family and domain databases

Gene3Di1.10.3210.30, 1 hit
InterProiView protein in InterPro
IPR035011, Cas3
IPR041372, Cas3_C
IPR006483, CRISPR-assoc_Cas3_HD
IPR038257, CRISPR-assoc_Cas3_HD_sf
IPR014001, Helicase_ATP-bd
IPR006474, Helicase_Cas3_CRISPR-ass_core
IPR027417, P-loop_NTPase
PANTHERiPTHR47959:SF5, PTHR47959:SF5, 2 hits
PfamiView protein in Pfam
PF18395, Cas3_C, 1 hit
PF18019, HD_6, 1 hit
SMARTiView protein in SMART
SM00487, DEXDc, 1 hit
SUPFAMiSSF52540, SSF52540, 1 hit
TIGRFAMsiTIGR01587, cas3_core, 1 hit
TIGR01596, cas3_HD, 1 hit
PROSITEiView protein in PROSITE
PS51643, HD_CAS3, 1 hit

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 nameiCAS3_THET8
<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: Q53VY2
<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: June 13, 2012
Last sequence update: May 24, 2005
Last modified: June 2, 2021
This is version 92 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

3D-structure, Plasmid, Reference proteome

Documents

  1. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references
  2. SIMILARITY comments
    Index of protein domains and families
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