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Entry version 130 (08 May 2019)
Sequence version 1 (01 Jan 1998)
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Protein

DNA damage-binding protein 1

Gene

ddb1

Organism
Schizosaccharomyces pombe (strain 972 / ATCC 24843) (Fission yeast)
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

Component of an E3 ubiquitin-protein ligase that includes cul4 (By similarity). Required for ubiquitination and the subsequent degradation of the DNA replication licensing factor cdt1 and of the ribonucleotide reductase inhibitor spd1. Also required for transcription-coupled nucleotide excision repair.By similarity7 Publications

<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: protein ubiquitination

This protein is involved in the pathway protein ubiquitination, which is part of Protein modification.
View all proteins of this organism that are known to be involved in the pathway protein ubiquitination and in Protein modification.

<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 functionDNA-binding
Biological processCell cycle, DNA damage, DNA repair, Ubl conjugation pathway

Enzyme and pathway databases

Reactome - a knowledgebase of biological pathways and processes

More...
Reactomei
R-SPO-110314 Recognition of DNA damage by PCNA-containing replication complex
R-SPO-5696395 Formation of Incision Complex in GG-NER
R-SPO-5696400 Dual Incision in GG-NER
R-SPO-6781823 Formation of TC-NER Pre-Incision Complex
R-SPO-6782135 Dual incision in TC-NER
R-SPO-6782210 Gap-filling DNA repair synthesis and ligation in TC-NER
R-SPO-8951664 Neddylation

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

More...
UniPathwayi
UPA00143

<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:
DNA damage-binding protein 1
Alternative name(s):
Damage-specific DNA-binding protein 1
<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:ddb1
ORF Names:SPAC17H9.10c
<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>OrganismiSchizosaccharomyces pombe (strain 972 / ATCC 24843) (Fission yeast)
<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 identifieri284812 [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 lineageiEukaryotaFungiDikaryaAscomycotaTaphrinomycotinaSchizosaccharomycetesSchizosaccharomycetalesSchizosaccharomycetaceaeSchizosaccharomyces
<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
  • UP000002485 <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 I

Organism-specific databases

Eukaryotic Pathogen Database Resources

More...
EuPathDBi
FungiDB:SPAC17H9.10c

Schizosaccharomyces pombe database

More...
PomBasei
SPAC17H9.10c ddb1

<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

Extracellular region or secreted Cytosol Plasma membrane Cell wall Cytoskeleton Vacuole Endosome Peroxisome ER Golgi apparatus Nucleus Mitochondrion Manual annotation Automatic computational assertionGraphics by Christian Stolte & Seán O’Donoghue; Source: COMPARTMENTS

Keywords - Cellular componenti

Nucleus

<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_00000798431 – 1072DNA damage-binding protein 1Add BLAST1072

Proteomic databases

MaxQB - The MaxQuant DataBase

More...
MaxQBi
O13807

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

More...
PaxDbi
O13807

PRoteomics IDEntifications database

More...
PRIDEi
O13807

<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

Interacts with csn1, csn2, cdt2, ckn1, iqw1 and wdr21.

3 Publications

<p>This subsection of the '<a href="http://www.uniprot.org/help/interaction_section%27">Interaction</a> section provides information about binary protein-protein interactions. The data presented in this section are a quality-filtered subset of binary interactions automatically derived from the <a href="http://www.ebi.ac.uk/intact/">IntAct database</a>. It is updated on a monthly basis. Each binary interaction is displayed on a separate line.<p><a href='/help/binary_interactions' target='_top'>More...</a></p>Binary interactionsi

WithEntry#Exp.IntActNotes
cdt2Q109904EBI-3647902,EBI-3505190

Protein-protein interaction databases

The Biological General Repository for Interaction Datasets (BioGrid)

More...
BioGridi
278682, 278 interactors

Protein interaction database and analysis system

More...
IntActi
O13807, 2 interactors

STRING: functional protein association networks

More...
STRINGi
4896.SPAC17H9.10c.1

<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 DDB1 family.Curated

Phylogenomic databases

InParanoid: Eukaryotic Ortholog Groups

More...
InParanoidi
O13807

KEGG Orthology (KO)

More...
KOi
K10610

Identification of Orthologs from Complete Genome Data

More...
OMAi
NHMCSLN

Database for complete collections of gene phylogenies

More...
PhylomeDBi
O13807

Family and domain databases

Gene3D Structural and Functional Annotation of Protein Families

More...
Gene3Di
2.130.10.10, 3 hits

Integrated resource of protein families, domains and functional sites

More...
InterProi
View protein in InterPro
IPR004871 Cleavage/polyA-sp_fac_asu_C
IPR031297 DDB1
IPR011047 Quinoprotein_ADH-like_supfam
IPR015943 WD40/YVTN_repeat-like_dom_sf

The PANTHER Classification System

More...
PANTHERi
PTHR10644:SF3 PTHR10644:SF3, 1 hit

Pfam protein domain database

More...
Pfami
View protein in Pfam
PF03178 CPSF_A, 1 hit

Superfamily database of structural and functional annotation

More...
SUPFAMi
SSF50998 SSF50998, 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.

O13807-1 [UniParc]FASTAAdd to basket
« Hide
        10         20         30         40         50
MTYVTYLHKP SSIRNAVFCK FVNASSWNVI VAKVNCLEVY SYENNRLCLI
60 70 80 90 100
TSANIFAKIV NVKAFKPVSS PTDHIIVATD SFRYFTLFWD ANDNTVSNGI
110 120 130 140 150
KIQDCSERSL RESQSGPLLL VDPFQRVICL HVYQGLLTII PIFKSKKRFM
160 170 180 190 200
TSHNNPSLHD NFSVRIQELN VVDIAMLYNS SRPSLAVLYK DSKSIVHLST
210 220 230 240 250
YKINVREQEI DEDDVVCHDI EEGKLIPSEN GGVFVFGEMY VYYISKDIQV
260 270 280 290 300
SKLLLTYPIT AFSPSISNDP ETGLDSSIYI VADESGMLYK FKALFTDETV
310 320 330 340 350
SMELEKLGES SIASCLIALP DNHLFVGSHF NNSVLLQLPS ITKNNHKLEI
360 370 380 390 400
LQNFVNIAPI SDFIIDDDQT GSSIITCSGA YKDGTLRIIR NSINIENVAL
410 420 430 440 450
IEMEGIKDFF SVSFRANYDN YIFLSLICET RAIIVSPEGV FSANHDLSCE
460 470 480 490 500
ESTIFVSTIY GNSQILQITT KEIRLFDGKK LHSWISPMSI TCGSSFADNV
510 520 530 540 550
CVAVAGGLIL FFEGITEVGR YQCDTEVSSL CFTEENVVYV GLWSADIIML
560 570 580 590 600
TYCQDGISLT HSLKLTDIPR SIVYSQKYGD DGGTLYVSTN NGYVLMFNFQ
610 620 630 640 650
NGQVIEHSLR RNQLGVAPII LKHFDSKEKN AIFALGEKPQ LMYYESDKLV
660 670 680 690 700
ITPLSCTEML NISSYVNPSL GVNMLYCTNS YISLAKMSEI RSLNVQTVSV
710 720 730 740 750
KGFPRRICSN SLFYFVLCMQ LEESIGTQEQ RLLSFLRVYE KNTLSEIAHH
760 770 780 790 800
KFNEYEMVES IILMNDDKRV VVGTGFNFPD QDAPDSGRLM VFEMTSDNNI
810 820 830 840 850
EMQAEHKVQG SVNTLVLYKH LIVAGINASV CIFEYEHGTM HVRNSIRTPT
860 870 880 890 900
YTIDISVNQD EIIAADLMKS ITVLQFIDDQ LIEVARDYHP LWATSVEILS
910 920 930 940 950
ERKYFVTEAD GNAVILLRDN VSPQLSDRKK LRWYKKFYLG ELINKTRHCT
960 970 980 990 1000
FIEPQDKSLV TPQLLCATVD GSLMIVGDAG MSNTPLLLQL QDNIRKVIPS
1010 1020 1030 1040 1050
FGGLSHKEWK EYRGENETSP SDLIDGSLIE SILGLREPIL NEIVNGGHEG
1060 1070
TKLDISVQDL KSIIENLEKL HP
Length:1,072
Mass (Da):120,655
Last modified:January 1, 1998 - 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:i70AB463DE14351F3
GO

Sequence databases

Select the link destinations:

EMBL nucleotide sequence database

More...
EMBLi

GenBank nucleotide sequence database

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GenBanki

DNA Data Bank of Japan; a nucleotide sequence database

More...
DDBJi
Links Updated
CU329670 Genomic DNA Translation: CAB11219.1

Protein sequence database of the Protein Information Resource

More...
PIRi
T37876

NCBI Reference Sequences

More...
RefSeqi
NP_593580.1, NM_001019012.2

Genome annotation databases

Ensembl fungal genome annotation project

More...
EnsemblFungii
SPAC17H9.10c.1; SPAC17H9.10c.1:pep; SPAC17H9.10c

Database of genes from NCBI RefSeq genomes

More...
GeneIDi
2542207

KEGG: Kyoto Encyclopedia of Genes and Genomes

More...
KEGGi
spo:SPAC17H9.10c

<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
CU329670 Genomic DNA Translation: CAB11219.1
PIRiT37876
RefSeqiNP_593580.1, NM_001019012.2

3D structure databases

Database of comparative protein structure models

More...
ModBasei
Search...

SWISS-MODEL Interactive Workspace

More...
SWISS-MODEL-Workspacei
Submit a new modelling project...

Protein-protein interaction databases

BioGridi278682, 278 interactors
IntActiO13807, 2 interactors
STRINGi4896.SPAC17H9.10c.1

Proteomic databases

MaxQBiO13807
PaxDbiO13807
PRIDEiO13807

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblFungiiSPAC17H9.10c.1; SPAC17H9.10c.1:pep; SPAC17H9.10c
GeneIDi2542207
KEGGispo:SPAC17H9.10c

Organism-specific databases

EuPathDBiFungiDB:SPAC17H9.10c
PomBaseiSPAC17H9.10c ddb1

Phylogenomic databases

InParanoidiO13807
KOiK10610
OMAiNHMCSLN
PhylomeDBiO13807

Enzyme and pathway databases

UniPathwayiUPA00143
ReactomeiR-SPO-110314 Recognition of DNA damage by PCNA-containing replication complex
R-SPO-5696395 Formation of Incision Complex in GG-NER
R-SPO-5696400 Dual Incision in GG-NER
R-SPO-6781823 Formation of TC-NER Pre-Incision Complex
R-SPO-6782135 Dual incision in TC-NER
R-SPO-6782210 Gap-filling DNA repair synthesis and ligation in TC-NER
R-SPO-8951664 Neddylation

Miscellaneous databases

Protein Ontology

More...
PROi
PR:O13807

Family and domain databases

Gene3Di2.130.10.10, 3 hits
InterProiView protein in InterPro
IPR004871 Cleavage/polyA-sp_fac_asu_C
IPR031297 DDB1
IPR011047 Quinoprotein_ADH-like_supfam
IPR015943 WD40/YVTN_repeat-like_dom_sf
PANTHERiPTHR10644:SF3 PTHR10644:SF3, 1 hit
PfamiView protein in Pfam
PF03178 CPSF_A, 1 hit
SUPFAMiSSF50998 SSF50998, 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 nameiDDB1_SCHPO
<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: O13807
<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: April 13, 2004
Last sequence update: January 1, 1998
Last modified: May 8, 2019
This is version 130 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 programFungal 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. PATHWAY comments
    Index of metabolic and biosynthesis pathways
  2. SIMILARITY comments
    Index of protein domains and families
  3. Schizosaccharomyces pombe
    Schizosaccharomyces pombe: entries and gene names
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