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 IDTerm NameEvidenceWith/FromReferenceCount
GO:0005524ATP bindingIEAUniProtKB-KW:KW-0067GO_REF:0000037557
GO:0003689DNA clamp loader activityIEAIPR012178GO_REF:000000211
GO Biological Process
Term IDTerm NameEvidenceWith/FromReferenceCount
GO:0006272leading strand elongationISOSGD:S000005743GO_REF:00000243
GO:1902969mitotic cell cycle DNA replicationIMPPMID:1604059916
GO Cellular Component
Term IDTerm NameEvidenceWith/FromReferenceCount
GO:0031390Ctf18 RFC-like complexTASPMID:160405998
GO:0031391Elg1 RFC-like complexIDAPMID:160405996
GO:0031389Rad17 RFC-like complexTASPMID:160405996
GO:0043599nuclear DNA replication factor C complexIEAIPR012178GO_REF:00000026
GO:0000790nuclear chromatinICGO:0005663GO_REF:0000001279
GO:0043596nuclear replication forkICGO:0005663GO_REF:000000164
GO:0005730nucleolusIEASL-0188GO_REF:0000039355
GO:0005634nucleusIMPPMID:160405992740
IDAPMID:16823372
Fission Yeast Phenotype Ontology

Population Phenotype

Term IDTerm NameEvidenceAlleleExpressionConditionReferenceCount
FYPO:0002061inviable vegetative cell populationMicroscopyrfc1ΔNullPECO:0000005, PECO:0000137PMID:236978061331
Microscopyrfc1ΔNullPMID:20473289
Microscopynot recorded (unrecorded)PMID:16040599

Cell Phenotype

Term IDTerm NameEvidenceAlleleExpressionConditionReferenceCount
FYPO:0000059abnormal mitotic cell cycleMicroscopyrfc1ΔNullPECO:0000005, PECO:0000137PMID:23697806638
FYPO:0001122elongated vegetative cellMicroscopyrfc1ΔNullPMID:11313445657
FYPO:0002262inviable after spore germination, multiple cell divisions, elongated cell94
penetrance FYPO_EXT:0000001Microscopyrfc1ΔNullPECO:0000005, PECO:0000137PMID:23697806
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
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
PF08519 Pfam IPR013725 DNA replication factor RFC1, C-terminal 688 843 1
PF00004 Pfam IPR003959 ATPase, AAA-type, core 412 520 32
PF00533 Pfam IPR001357 BRCT domain 237 313 8
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:SF4 HMMPANTHER 221 933 1
PTHR23389 HMMPANTHER 221 933 3
3.40.50.10190 Gene3D IPR001357 BRCT domain 236 314 13
1.10.8.60 Gene3D 541 611 35
3.40.50.300 Gene3D IPR027417 P-loop containing nucleoside triphosphate hydrolase 359 532 288
1.20.272.10 Gene3D 613 732 6
SSF48019 SuperFamily IPR008921 DNA polymerase III, clamp loader complex, gamma/delta/delta subunit, C-terminal 612 760 6
SSF52113 SuperFamily IPR001357 BRCT domain 235 314 12
SSF52540 SuperFamily IPR027417 P-loop containing nucleoside triphosphate hydrolase 359 603 294
Coil ncoils Rabaptin coiled-coil domain 326 347 968
PIRSF036578 PIRSF IPR012178 DNA replication factor C, large subunit 1 932 1

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 IDTerm NameEvidenceResidueReferenceCount
MOD:00046O-phospho-L-serineS27PMID:217125471669
present during mitotic M phase
present during mitotic M phaseS42PMID:21712547
S42PMID:24763107
present during mitotic M phaseS887PMID:21712547
present during mitotic M phaseS885PMID:21712547
present during mitotic M phaseS22PMID:21712547
MOD:00047O-phospho-L-threonineT24PMID:21712547689
present during mitotic M phase
present during mitotic M phaseT26PMID:21712547
MOD:00696phosphorylated residueNASPMID:195477441921
Sequence
Gene Expression

Quantitative Gene Expression

Protein Level

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

RNA Level

Molecules/Cell (average)DuringConditionScaleEvidenceReference
3during GO:0072690PECO:0000014,
PECO:0000005
experimental evidencePMID:23101633
0.91during cell quiescence following G1 arrest due to nitrogen limitationPECO:0000014,
PECO:0000127,
PECO:0000005
experimental evidencePMID:23101633
Species Distribution
DescriptionQualifierReferenceCount
predominantly single copy (one to one)3080
conserved in fungi4569
conserved in eukaryotes4482
conserved in metazoa3419
conserved in vertebrates3393
conserved in eukaryotes only2487
Orthologs

Manually curated orthologous groups

SpeciesGeneDescriptionLinksCount

Orthologs in Compara


Genetic Interactions

Source: BioGRID

Gene Product Evidence Reference
rfc5DNA replication factor C complex subunit Rfc5 (predicted) Synthetic RescuePMID:16040599
dcc1Ctf18 RFC-like complex subunit Dcc1 Synthetic LethalityPMID:16040599
cdc24DNA replication protein Cdc24 Dosage RescuePMID:9891039
elg1DNA replication factor C complex subunit Elg1 Dosage LethalityPMID:16040599
ctf18RFC-like complex subunit Ctf18 Synthetic LethalityPMID:16040599
Physical Interactions

Source: BioGRID

Gene Product Evidence Reference
cdc24DNA replication protein Cdc24 Affinity Capture-WesternPMID:9891039
epe1Jmjc domain chromatin associated protein Epe1 Affinity Capture-MSPMID:24013502
hhp2serine/threonine protein kinase Hhp2 Affinity Capture-MSPMID:24055157
hhp1serine/threonine protein kinase Hhp1 Affinity Capture-MSPMID:24055157
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
EntrezGene2540426DNA replication factor C complex subunit Rfc1
WikiGene2540426DNA replication factor C complex subunit Rfc1
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 ArchiveBAA87235ENA Protein Mapping
European Nucleotide ArchiveBAA87235.1ENA Protein Mapping
European Nucleotide ArchiveCAA18875ENA Protein Mapping
European Nucleotide ArchiveCAA18875.1ENA Protein Mapping
ReactomeREACT_214096
UniParcUPI000006C6D3UniProt Archive

Literature for rfc1

Search: Europe PMC or PubMed

Release Version: PomBase:22_45 - 08 Aug 2014