rfc1 (SPBC23E6.07c)


Gene Standard Namerfc1 Characterisation Statuspublished
Systematic IDSPBC23E6.07c Feature Typeprotein coding
Synonyms Name Description
ProductDNA replication factor C complex subunit Rfc1 Product Size934aa, 103.49 kDa
Genomic Location Chromosome II, 3856111-3852657 (3455nt); CDS:3855942-3852962 (2981nt)

Ensembl Gene Location
GO Molecular Function
Term NameCount
ATP binding558
Annotation ExtensionEvidenceWith/FromReference
DNA clamp loader activity11
Annotation ExtensionEvidenceWith/FromReference
GO Biological Process

GO Slim Terms

DNA replication


Term NameCount
leading strand elongation3
Annotation ExtensionEvidenceWith/FromReference
mitotic DNA replication72
Annotation ExtensionEvidenceWith/FromReference
GO Cellular Component
Term NameCount
Ctf18 RFC-like complex8
Annotation ExtensionEvidenceWith/FromReference
Elg1 RFC-like complex6
Annotation ExtensionEvidenceWith/FromReference
nuclear chromatin307
Annotation ExtensionEvidenceWith/FromReference
nuclear DNA replication factor C complex6
Annotation ExtensionEvidenceWith/FromReference
nuclear replication fork63
Annotation ExtensionEvidenceWith/FromReference
nucleolus359
Annotation ExtensionEvidenceWith/FromReference
nucleus2697
Annotation ExtensionEvidenceWith/FromReference
Rad17 RFC-like complex6
Annotation ExtensionEvidenceWith/FromReference
Fission Yeast Phenotype Ontology
Gene Deletion Viability: Inviable

Population Phenotype

Term NameAlleleExpressionCount
inviable vegetative cell populationrfc1ΔNull1428
unnamed (unrecorded)

Cell Phenotype

Term NameAlleleExpressionCount
abnormal mitotic cell cyclerfc1ΔNull808
elongated vegetative cellrfc1ΔNull705
inviable after spore germination, multiple cell divisions, cell cycle arrest in mitotic interphase, elongated cellsrfc1ΔNull87
Transcript
Ensembl transcript structure with UTRs, exons and introns

Exons

Exon Start End
138561113855871
238558023855684
338556353855576
438555153852657

UTRs

Region Coordinates Reference
five_prime_UTR3856111..3855943PMID:21511999
three_prime_UTR3852961..3852657PMID:21511999
exon3855942..3855871,3855802..3855684,3855635..3855576,3855515..3852962
mRNA3856111..3852657
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
PF00533 Pfam IPR001357 BRCT domain 237 313 8
PF00004 Pfam IPR003959 ATPase, AAA-type, core 412 520 32
PF08519 Pfam IPR013725 DNA replication factor RFC1, C-terminal 688 843 1
SM00382 SMART IPR003593 AAA+ ATPase domain 408 542 70
SM00292 SMART IPR001357 BRCT domain 238 316 10
PS50172 Prosite Profiles IPR001357 BRCT domain 236 310 13
PTHR23389 HMMPANTHER 221 933 3
PTHR23389:SF4 HMMPANTHER 221 933 1
3.40.50.300 Gene3D IPR027417 P-loop containing nucleoside triphosphate hydrolase 359 532 288
1.10.8.60 Gene3D 541 611 35
3.40.50.10190 Gene3D IPR001357 BRCT domain 236 314 13
1.20.272.10 Gene3D 613 732 6
SSF52113 SuperFamily IPR001357 BRCT domain 235 314 12
SSF52540 SuperFamily IPR027417 P-loop containing nucleoside triphosphate hydrolase 359 603 294
SSF48019 SuperFamily IPR008921 DNA polymerase III, clamp loader complex, gamma/delta/delta subunit, C-terminal 612 760 6
PIRSF036578 PIRSF IPR012178 DNA replication factor C, large subunit 1 932 1
Coil ncoils Rabaptin coiled-coil domain 326 347 968

View domain organization at Pfam

Manually Curated Family or Sub-families

Term IDTerm NameReferenceCount
PBO:0000443BRCT domainTemporary processing gif - replaced by AJAX with count of genes annotated with the term PBO:0000443
PBO:0000539AAA family ATPaseTemporary processing gif - replaced by AJAX with count of genes annotated with the term PBO:0000539

Protein Properties

Ave. residue weight 110.80 Da
Charge 30.00
Isoelectric point 9.62
Molecular weight 103.49 kDa
Number of residues 934
Modifications

Protein Modifications

Term NameResidueCount
O-phospho-L-serine 1670
present during mitotic M phaseS22
present during mitotic M phaseS27
present during mitotic M phaseS887
present during mitotic M phaseS42
present during mitotic M phaseS885
S42
Annotation ExtensionEvidenceResidueReference
present during mitotic M phase experimental evidence S22 PMID:21712547
present during mitotic M phase experimental evidence S27 PMID:21712547
experimental evidence S42 PMID:24763107
present during mitotic M phase experimental evidence S42 PMID:21712547
present during mitotic M phase experimental evidence S885 PMID:21712547
present during mitotic M phase experimental evidence S887 PMID:21712547
O-phospho-L-threonine 694
present during mitotic M phaseT26
present during mitotic M phaseT24
Annotation ExtensionEvidenceResidueReference
present during mitotic M phase experimental evidence T24 PMID:21712547
present during mitotic M phase experimental evidence T26 PMID:21712547
phosphorylated residue 1923
Annotation ExtensionEvidenceResidueReference
IDA PMID:19547744
Sequence
Gene Expression

Quantitative Gene Expression

Protein Level

Molecules/Cell (average)ExtensionConditionScaleEvidenceReference
4814during GO:0000080PECO:0000126,
PECO:0000005
single cellmass spectrometry evidencePMID:24763107
4491during GO:0000084PECO:0000126,
PECO:0000005
single cellmass spectrometry evidencePMID:24763107
4530during GO:0000085PECO:0000126,
PECO:0000005
single cellmass spectrometry evidencePMID:24763107
4145during GO:0000087PECO:0000126,
PECO:0000005
single cellmass spectrometry evidencePMID:24763107
3262.17during GO:0072690PECO:0000005,
PECO:0000014
population wideexperimental evidencePMID:23101633
4893during GO:0072690PECO:0000126,
PECO:0000005
single cellmass spectrometry evidencePMID:24763107
2403.74during cell quiescence following G1 arrest due to nitrogen limitationPECO:0000005,
PECO:0000014,
PECO:0000127
population wideexperimental evidencePMID:23101633

RNA Level

Molecules/Cell (average)ExtensionConditionScaleEvidenceReference
3during GO:0072690PECO:0000005,
PECO:0000014
population wideexperimental evidencePMID:23101633
0.91during cell quiescence following G1 arrest due to nitrogen limitationPECO:0000005,
PECO:0000014,
PECO:0000127
population wideexperimental evidencePMID:23101633
Species Distribution
DescriptionQualifierReferenceCount
predominantly single copy (one to one)3092
conserved in fungi4604
conserved in eukaryotes4516
conserved in metazoa3432
conserved in vertebrates3407
conserved in eukaryotes only2503
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
affinity captured bycdc24DNA replication protein Cdc24 Affinity Capture-WesternPMID:9891039
affinity captured byepe1Jmjc domain chromatin associated protein Epe1 Affinity Capture-MSPMID:24013502
affinity captured byhhp1serine/threonine protein kinase Hhp1 Affinity Capture-MSPMID:24055157
affinity captured byhhp2serine/threonine protein kinase Hhp2 Affinity Capture-MSPMID:24055157
Genetic Interactions

Source: BioGRID

View these interactions in esyN

Gene Product Evidence Reference
overexpression rescuescdc24DNA replication protein Cdc24 Dosage RescuePMID:9891039
synthetic lethal withctf18RFC-like complex subunit Ctf18 Synthetic LethalityPMID:16040599
synthetic lethal withdcc1Ctf18 RFC-like complex subunit Dcc1 Synthetic LethalityPMID:16040599
inviable in presence of overexpressedelg1DNA replication factor C complex subunit Elg1 Dosage LethalityPMID:16040599
synthetically rescued byrfc5DNA replication factor C complex subunit Rfc5 (predicted) Synthetic RescuePMID:16040599
External References
Database Identifier Description
NBRP SPBC23E6.07c Fission yeast strain database, National BioResource Project (Japan)
YOGY SPBC23E6.07c Retrieval of eukaryotic orthologs (Bähler Lab)
BioGrid SPBC23E6.07c BioGRID Interaction Datasets
Expression Viewer SPBC23E6.07c Cell Cycle Expression Profile (Bähler Lab)
Expression Viewer SPBC23E6.07c Meiosis/Sporulation Expression Profies (Bähler Lab)
Expression Viewer SPBC23E6.07c Pheromone response/mating expression profiles (Bähler Lab)
Expression Viewer SPBC23E6.07c Environmental stress expression profiles (Bähler Lab)
Pomb(A) SPBC23E6.07c Polyadenylation Viewer (Gullerova lab)
pombeTV SPBC23E6.07c Transcriptome Viewer (Bähler Lab)
Cyclebase SPBC23E6.07c Cell Cycle Data
GEO SPBC23E6.07c GEO profiles
PInt SPBC23E6.07c Protein-Protein Interaction Predictor (Bähler Lab)
PeptideAtlas SPBC23E6.07c Peptides identified in tandem mass spectrometry proteomics experiments
SYSGRO SPBC23E6.07c Fission yeast phenotypic data & analysis
SPD / RIKEN29/29G10Orfeome Localization Data
UniProtKB/SwissProtO60182Replication factor C subunit 1
ModBaseO60182Database of comparative protein structure models
STRINGO60182Network display of known and predicted interactions and functional associations
RefSeq PeptideNP_596607DNA replication factor C complex subunit Rfc1
RefSeq mRNANM_001022528972h- DNA replication factor C complex subunit Rfc1 (rfc1), mRNA
European Nucleotide ArchiveBAA87235.1ENA Protein Mapping
European Nucleotide ArchiveCAA18875.1ENA Protein Mapping
UniParcUPI000006C6D3UniProt Archive

Literature for rfc1

Search: Europe PMC or PubMed

Release Version: PomBase:25_49 - 02 Feb 2015