orc4 (SPBP23A10.13)


Gene Standard Nameorc4 Characterisation Statuspublished
Systematic IDSPBP23A10.13 Feature Typeprotein coding
Synonymsorp4 Name Description
Productorigin recognition complex subunit Orc4 Product Size972aa, 108.61 kDa
Genomic Location Chromosome II, 2025363-2028676 (3314nt); CDS:2025543-2028461 (2919nt)

Ensembl Gene Location
GO Molecular Function
Term NameCount
ATP binding558
Annotation ExtensionEvidenceWith/FromReference
ATPase activity232
Annotation ExtensionEvidenceWith/FromReference
DNA replication origin binding8
GO Biological Process

GO Slim Terms

DNA replication


Term NameCount
mitotic DNA replication initiation34
Annotation ExtensionEvidenceWith/FromReference
positive regulation of DNA replication origin binding1
Annotation ExtensionEvidenceWith/FromReference
GO Cellular Component
Term NameCount
DNA replication preinitiation complex21
Annotation ExtensionEvidenceWith/FromReference
nuclear origin of replication recognition complex6
nuclear pre-replicative complex14
Annotation ExtensionEvidenceWith/FromReference
nuclear replication fork64
Annotation ExtensionEvidenceWith/FromReference
nucleus2740
Annotation ExtensionEvidenceWith/FromReference
Fission Yeast Phenotype Ontology
Gene Deletion Viability: Inviable

Population Phenotype

Term IDTerm NameEvidenceAlleleExpressionConditionReferenceCount
FYPO:0002061inviable vegetative cell populationMicroscopyorc4ΔNullPMID:204732891338
Microscopyorc4Δ::ura4+NullPMID:10077566
Cell growth assayorc4ΔN (1-435)Not specifiedPMID:11850415
Microscopyorc4ΔNullPECO:0000005, PECO:0000137PMID:23697806

Cell Phenotype

Term IDTerm NameEvidenceAlleleExpressionConditionReferenceCount
FYPO:0000059abnormal mitotic cell cycleMicroscopyorc4ΔNullPECO:0000005, PECO:0000137PMID:23697806686
FYPO:0000141abnormal mitotic sister chromatid segregationFlow cytometry datanot recorded (487-972)OverexpressionPMID:10077566161
FYPO:0000062abnormal nuclear morphology during vegetative growthMicroscopyorc4ΔN (1-435)OverexpressionPMID:1007756650
Microscopyorc4Δ::ura4+NullPMID:10077566
Microscopyorc4+ (wild type)OverexpressionPMID:10077566
FYPO:0001095abolished DNA replication origin bindingOthernot recorded (1-515)Not specifiedPMID:117174253
FYPO:0003165cutMicroscopyorc4Δ::ura4+NullPMID:1007756689
Microscopynot recorded (487-972)OverexpressionPMID:10077566
Microscopyorc4+ (wild type)OverexpressionPMID:10077566
Microscopyorc4ΔN (1-435)OverexpressionPMID:10077566
FYPO:0000158DNA content increased during vegetative growth18
penetrance FYPO_EXT:0000002Flow cytometry dataorc4+ (wild type)OverexpressionPMID:10077566
penetrance FYPO_EXT:0000002Flow cytometry dataorc4ΔN (1-435)OverexpressionPMID:10077566
FYPO:0002281inviable after spore germination with abnormal germ tube morphologyMicroscopyorc4ΔNullPECO:0000004, PECO:0000137PMID:23697806165
FYPO:0000839inviable elongated mononucleate aseptate cellMicroscopyorc4Δ::ura4+NullPMID:1007756631
Microscopyorc4+ (wild type)OverexpressionPMID:10077566
FYPO:0001490inviable elongated vegetative cellMicroscopyorc4Δ::ura4+NullPMID:10077566393
penetrance FYPO_EXT:0000003Microscopyorc4ΔNullPECO:0000005, PECO:0000137PMID:23697806
FYPO:0002273inviable vegetative cell with abnormal cell morphologyMicroscopyorc4ΔNullPECO:0000005, PECO:0000137PMID:23697806743
FYPO:0002974normal origin recognition complex assemblyGel electrophoresis evidencenot recorded (1-515)Not specifiedPMID:117174251
Transcript
Ensembl transcript structure with UTRs, exons and introns

Exons

Exon Start End
120253632028676

UTRs

Region Coordinates Reference
five_prime_UTR2025363..2025542PMID:21511999
three_prime_UTR2028462..2028676PMID:21511999
Protein Features

Graphical View

Ensembl protein image with mapped locations of structural domains

Protein Families and Domains

Feature ID Database InterPro Description Start End Count
PF13191 Pfam 552 716 2
PF14629 Pfam 754 951 1
PF02178 Pfam IPR017956 AT hook, DNA-binding motif 364 374 1
PF02178 Pfam IPR017956 AT hook, DNA-binding motif 425 435 1
PF02178 Pfam IPR017956 AT hook, DNA-binding motif 201 212 1
PF02178 Pfam IPR017956 AT hook, DNA-binding motif 310 321 1
PF02178 Pfam IPR017956 AT hook, DNA-binding motif 231 240 1
PF02178 Pfam IPR017956 AT hook, DNA-binding motif 100 111 1
PF02178 Pfam IPR017956 AT hook, DNA-binding motif 123 133 1
PF02178 Pfam IPR017956 AT hook, DNA-binding motif 339 346 1
PF02178 Pfam IPR017956 AT hook, DNA-binding motif 148 156 1
SM00382 SMART IPR003593 AAA+ ATPase domain 574 747 70
SM00384 SMART IPR017956 AT hook, DNA-binding motif 425 437 1
SM00384 SMART IPR017956 AT hook, DNA-binding motif 364 376 1
SM00384 SMART IPR017956 AT hook, DNA-binding motif 148 160 1
SM00384 SMART IPR017956 AT hook, DNA-binding motif 310 322 1
SM00384 SMART IPR017956 AT hook, DNA-binding motif 100 112 1
SM00384 SMART IPR017956 AT hook, DNA-binding motif 339 351 1
SM00384 SMART IPR017956 AT hook, DNA-binding motif 201 213 1
SM00384 SMART IPR017956 AT hook, DNA-binding motif 231 243 1
SM00384 SMART IPR017956 AT hook, DNA-binding motif 123 135 1
PTHR12087:SF0 HMMPANTHER 162 972 1
PTHR12087 HMMPANTHER 162 972 1
3.40.50.300 Gene3D 553 741 288
SSF52540 SuperFamily IPR027417 P-loop containing nucleoside triphosphate hydrolase 674 779 294
SSF52540 SuperFamily IPR027417 P-loop containing nucleoside triphosphate hydrolase 552 636 294
PR00929 PRINTS IPR020478 AT hook-like 229 239 1
PR00929 PRINTS IPR020478 AT hook-like 199 210 1
PR00929 PRINTS IPR020478 AT hook-like 123 133 1

View domain organization at Pfam

Manually Curated Family or Sub-families

Term IDTerm NameReferenceCount
PBO:0000539AAA family ATPaseTemporary processing gif - replaced by AJAX with count of genes annotated with the term PBO:0000539
PBO:0002147AT hook proteinPMID:10077566Temporary processing gif - replaced by AJAX with count of genes annotated with the term PBO:0002147

Protein Properties

Ave. residue weight 111.74 Da
Charge 31.00
Isoelectric point 9.79
Molecular weight 108.61 kDa
Number of residues 972
Modifications

Protein Modifications

Term IDTerm NameEvidenceResidueReferenceCount
MOD:00046O-phospho-L-serineexperimental evidenceS223PMID:217125471670
present during mitotic M phase
present during mitotic M phaseexperimental evidenceS420PMID:21712547
present during mitotic M phaseexperimental evidenceS406PMID:21712547
present during mitotic M phaseexperimental evidenceS503PMID:21712547
experimental evidenceS223PMID:24763107
present during mitotic M phaseexperimental evidenceS4PMID:21712547
present during mitotic M phaseexperimental evidenceS531PMID:21712547
present during mitotic M phaseexperimental evidenceS519PMID:21712547
experimental evidenceS503PMID:24763107
present during cellular response to thiabendazoleIDAS503PMID:18257517
MOD:00047O-phospho-L-threonineexperimental evidenceT384PMID:21712547692
present during mitotic M phase
present during mitotic M phaseexperimental evidenceT535PMID:21712547
present during mitotic M phaseexperimental evidenceT405PMID:21712547
MOD:00696phosphorylated residueNASPMID:182575171922
Sequence
Gene Expression

Quantitative Gene Expression

Protein Level

Molecules/Cell (average)ExtensionConditionScaleEvidenceReference
NDduring cell quiescence following G1 arrest due to nitrogen limitationPECO:0000005,
PECO:0000014,
PECO:0000127
population_wideexperimental evidencePMID:23101633

RNA Level

Molecules/Cell (average)ExtensionConditionScaleEvidenceReference
1.9during GO:0072690PECO:0000005,
PECO:0000014
population_wideexperimental evidencePMID:23101633
0.78during cell quiescence following G1 arrest due to nitrogen limitationPECO:0000005,
PECO:0000014,
PECO:0000127
population_wideexperimental evidencePMID:23101633
Misc
DescriptionQualifierReferenceCount
Orc4 determines sequence specificity of ORC binding to DNA replication origins PMID:116896991
Orc4 binds to the T-rich strand of replication origins throughout the cell cycle PMID:123747571
Orc4 binding footprint at replication origins is extended in G1 in the presence of Cdc1 and the MCM complex PMID:123747571
Species Distribution
DescriptionQualifierReferenceCount
predominantly single copy (one to one)3092
conserved in fungi4600
conserved in eukaryotes4514
conserved in metazoa3425
conserved in vertebrates3400
conserved in eukaryotes only2497
Orthologs

Manually curated orthologous groups

SpeciesGeneDescriptionLinksCount

Orthologs in Compara


Physical Interactions

Source: BioGRID

View all interactions in esyN
View the HCPIN interactions in esyN

Gene Product Evidence Reference
orc5origin recognition complex subunit Orc5 Reconstituted ComplexPMID:11717425
Reconstituted ComplexPMID:18723846
Reconstituted ComplexPMID:10535928
Reconstituted ComplexPMID:11850415
orc1origin recognition complex subunit Orc1 Reconstituted ComplexPMID:11689699
Reconstituted ComplexPMID:11717425
Reconstituted ComplexPMID:12840006
Affinity Capture-WesternPMID:11683912
Reconstituted ComplexPMID:11850415
Reconstituted ComplexPMID:10535928
cbf11CBF1/Su(H)/LAG-1 family transcription factor Cbf11 Affinity Capture-MSPMID:22540037
cdc18MCM loader Reconstituted ComplexPMID:11850415
orc3origin recognition complex subunit Orp3 Reconstituted ComplexPMID:11717425
Reconstituted ComplexPMID:10535928
Reconstituted ComplexPMID:11850415
orc2origin recognition complex subunit Orc2 Reconstituted ComplexPMID:11689699
Reconstituted ComplexPMID:11717425
Co-purification
Reconstituted ComplexPMID:12840006
Affinity Capture-WesternPMID:11683912
Reconstituted ComplexPMID:11850415
Reconstituted ComplexPMID:10535928
orc6origin recognition complex subunit Orc6 Reconstituted ComplexPMID:11717425
Reconstituted ComplexPMID:11689699
Reconstituted ComplexPMID:10535928
Reconstituted ComplexPMID:11850415
External References
Database Identifier Description
NBRP SPBP23A10.13 Fission yeast strain database, National BioResource Project (Japan)
YOGY SPBP23A10.13 Retrieval of eukaryotic orthologs (Bähler Lab)
BioGrid SPBP23A10.13 BioGRID Interaction Datasets
Expression Viewer SPBP23A10.13 Cell Cycle Expression Profile (Bähler Lab)
Expression Viewer SPBP23A10.13 Meiosis/Sporulation Expression Profies (Bähler Lab)
Expression Viewer SPBP23A10.13 Pheromone response/mating expression profiles (Bähler Lab)
Expression Viewer SPBP23A10.13 Environmental stress expression profiles (Bähler Lab)
Pomb(A) SPBP23A10.13 Polyadenylation Viewer (Gullerova lab)
pombeTV SPBP23A10.13 Transcriptome Viewer (Bähler Lab)
Cyclebase SPBP23A10.13 Cell Cycle Data
GEO SPBP23A10.13 GEO profiles
PInt SPBP23A10.13 Protein-Protein Interaction Predictor (Bähler Lab)
PeptideAtlas SPBP23A10.13 Peptides identified in tandem mass spectrometry proteomics experiments
SYSGRO SPBP23A10.13 Fission yeast phenotypic data & analysis
SPD / RIKEN34/34A02Orfeome Localization Data
UniProtKB/SwissProtQ9Y794Origin recognition complex subunit 4
ModBaseQ9Y794Database of comparative protein structure models
STRINGQ9Y794Network display of known and predicted interactions and functional associations
RefSeq PeptideNP_595825origin recognition complex subunit Orc4
RefSeq mRNANM_001021729972h- origin recognition complex subunit Orc4 (orc4), mRNA
European Nucleotide ArchiveAF125185ENA EMBL mapping
European Nucleotide ArchiveCAB66441.1ENA Protein Mapping
UniParcUPI0000130E60UniProt Archive

Literature for orc4

Search: Europe PMC or PubMed

Release Version: PomBase:23_47 - 27 Oct 2014