Gene: RFC1

Basic information

Tag Content
Uniprot ID P35251; A8K6E7; Q5XKF5; Q6PKU0; Q86V41; Q86V46;
Entrez ID 5981
Genbank protein ID AAA16121.1; CAA80355.1; AAS94325.1; EAW92923.1; AAB99788.1; AAH51751.1; AAH51786.1; AAH35297.1; BAF84301.1;
Genbank nucleotide ID NM_001204747.1; NM_002913.4;
Ensembl protein ID ENSP00000261424; ENSP00000371321;
Ensembl nucleotide ID ENSG00000035928
Gene name Replication factor C subunit 1
Gene symbol RFC1
Organism Homo sapiens
NCBI taxa ID 9606
Cleft type
Developmental stage
Data sources Manually collected
Reference 24749799; 24942095; 14755461;
Functional description The elongation of primed DNA templates by DNA polymerase delta and epsilon requires the action of the accessory proteins PCNA and activator 1. This subunit binds to the primer-template junction. Binds the PO-B transcription element as well as other GA rich DNA sequences. Could play a role in DNA transcription regulation as well as DNA replication and/or repair. Can bind single- or double-stranded DNA.
Sequence
MDIRKFFGVI PSGKKLVSET VKKNEKTKSD EETLKAKKGI KEIKVNSSRK EDDFKQKQPS 60
KKKRIIYDSD SESEETLQVK NAKKPPEKLP VSSKPGKISR QDPVTYISET DEEDDFMCKK 120
AASKSKENGR STNSHLGTSN MKKNEENTKT KNKPLSPIKL TPTSVLDYFG TGSVQRSNKK 180
MVASKRKELS QNTDESGLND EAIAKQLQLD EDAELERQLH EDEEFARTLA MLDEEPKTKK 240
ARKDTEAGET FSSVQANLSK AEKHKYPHKV KTAQVSDERK SYSPRKQSKY ESSKESQQHS 300
KSSADKIGEV SSPKASSKLA IMKRKEESSY KEIEPVASKR KENAIKLKGE TKTPKKTKSS 360
PAKKESVSPE DSEKKRTNYQ AYRSYLNREG PKALGSKEIP KGAENCLEGL IFVITGVLES 420
IERDEAKSLI ERYGGKVTGN VSKKTNYLVM GRDSGQSKSD KAAALGTKII DEDGLLNLIR 480
TMPGKKSKYE IAVETEMKKE SKLERTPQKN VQGKRKISPS KKESESKKSR PTSKRDSLAK 540
TIKKETDVFW KSLDFKEQVA EETSGDSKAR NLADDSSENK VENLLWVDKY KPTSLKTIIG 600
QQGDQSCANK LLRWLRNWQK SSSEDKKHAA KFGKFSGKDD GSSFKAALLS GPPGVGKTTT 660
ASLVCQELGY SYVELNASDT RSKSSLKAIV AESLNNTSIK GFYSNGAASS VSTKHALIMD 720
EVDGMAGNED RGGIQELIGL IKHTKIPIIC MCNDRNHPKI RSLVHYCFDL RFQRPRVEQI 780
KGAMMSIAFK EGLKIPPPAM NEIILGANQD IRQVLHNLSM WCARSKALTY DQAKADSHRA 840
KKDIKMGPFD VARKVFAAGE ETAHMSLVDK SDLFFHDYSI APLFVQENYI HVKPVAAGGD 900
MKKHLMLLSR AADSICDGDL VDSQIRSKQN WSLLPAQAIY ASVLPGELMR GYMTQFPTFP 960
SWLGKHSSTG KHDRIVQDLA LHMSLRTYSS KRTVNMDYLS LLRDALVQPL TSQGVDGVQD 1020
VVALMDTYYL MKEDFENIME ISSWGGKPSP FSKLDPKVKA AFTRAYNKEA HLTPYSLQAI 1080
KASRHSTSPS LDSEYNEELN EDDSQSDEKD QDAIETDAMI KKKTKSSKPS KPEKDKEPRK 1140
GKGKSSKK 1148

Abbreviation :
CLO : cleft lip only. CPO : cleft palate only. CLP : cleft lip and palate. CL/P : cleft lip with/without cleft palate.
For humans: CL/P, CLO, CPO, and CLP. For mice: CLO, CLP, and CPO.

Gene expression information

Gene expression in different tissues (GTEx V7)

  

Gene expression in different tissues (ENCODE)

  

Protein structural annotations

3D structure in PDB database

Protein disorder information

Orthologous information

Relation Gene symbol Entrez ID UniProt ID Cleft type Developmental stage Species Evidence Details
1:1 orthologRFC1479112E2QW76Canis lupus familiarisPredictionMore>>
1:1 orthologRFC1102170128A0A452FBS8Capra hircusPredictionMore>>
1:1 orthologRFC15981P35251Homo sapiensPublicationMore>>
1:1 orthologRfc119687Q5U4B1Mus musculusPredictionMore>>
1:1 orthologRFC1A0A2I3TIE6Pan troglodytesPredictionMore>>
1:1 orthologRfc1D3ZFT1Rattus norvegicusPredictionMore>>
1:1 orthologrfc1100037336F1Q5P6Danio rerioPredictionMore>>

Identified variants/mutations related to cleft phenotype

Gene symbol Significant Variants/SNPS Methods PubMed ID
RFC1c.80A>GPCR-RFLP29435434
RFC1c.80A>Gmeta analysis32042737
RFC1c.80A>G (incease risk)meta analysis30579244
RFC180A>GPCR-RFLP24749799
RFC1rs4818789A>CLinkage analysis24942095
RFC1rs3788205A>GLinkage analysis24942095

Other genetic variants/mutations

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Disease or phenotype associated information

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Gene Ontology (GO)/biological pathways

GO:Molecular Function

GO ID GO Term Evidence
GO:0003677 DNA bindingIBA
GO:0003689 DNA clamp loader activityIEA
GO:0003690 double-stranded DNA bindingIEA
GO:0005515 protein bindingIPI
GO:0005524 ATP bindingIEA
GO:0008047 enzyme activator activityTAS
GO:0019904 protein domain specific bindingIEA
GO:0043565 sequence-specific DNA bindingIEA
GO:0061860 DNA clamp unloader activityIMP

GO:Biological Process

GO ID GO Term Evidence
GO:0000122 negative regulation of transcription by RNA polymerase IIIEA
GO:0006261 DNA-dependent DNA replicationTAS
GO:0006283 transcription-coupled nucleotide-excision repairTAS
GO:0006296 nucleotide-excision repair, DNA incision, 5'-to lesionTAS
GO:0006297 nucleotide-excision repair, DNA gap fillingTAS
GO:0007004 telomere maintenance via telomeraseTAS
GO:0019985 translesion synthesisTAS
GO:0032201 telomere maintenance via semi-conservative replicationTAS
GO:0033683 nucleotide-excision repair, DNA incisionTAS
GO:0042276 error-prone translesion synthesisTAS
GO:0042769 DNA damage response, detection of DNA damageTAS
GO:0043085 positive regulation of catalytic activityIEA
GO:0045893 positive regulation of transcription, DNA-templatedIEA
GO:0070987 error-free translesion synthesisTAS
GO:0090618 DNA clamp unloadingIMP

GO:Cellular Component

GO ID GO Term Evidence
GO:0005634 nucleusIBA
GO:0005654 nucleoplasmIDA
GO:0005654 nucleoplasmTAS
GO:0005663 DNA replication factor C complexIDA
GO:0005730 nucleolusIEA
GO:0005737 cytoplasmIEA
GO:0031391 Elg1 RFC-like complexIDA
GO:0070062 extracellular exosomeHDA

Reactome Pathway

Reactome ID Reactome Term Evidence
R-HSA-110312 Translesion synthesis by REV1TAS
R-HSA-110313 Translesion synthesis by Y family DNA polymerases bypasses lesions on DNA templateTAS
R-HSA-110314 Recognition of DNA damage by PCNA-containing replication complexTAS
R-HSA-110320 Translesion Synthesis by POLHTAS
R-HSA-110373 Resolution of AP sites via the multiple-nucleotide patch replacement pathwayTAS
R-HSA-157579 Telomere MaintenanceTAS
R-HSA-1640170 Cell CycleTAS
R-HSA-174411 Polymerase switching on the C-strand of the telomereTAS
R-HSA-174417 Telomere C-strand (Lagging Strand) SynthesisTAS
R-HSA-180786 Extension of TelomeresTAS
R-HSA-5651801 PCNA-Dependent Long Patch Base Excision RepairTAS
R-HSA-5655862 Translesion synthesis by POLKTAS
R-HSA-5656121 Translesion synthesis by POLITAS
R-HSA-5656169 Termination of translesion DNA synthesisTAS
R-HSA-5685942 HDR through Homologous Recombination (HRR)TAS
R-HSA-5693532 DNA Double-Strand Break RepairTAS
R-HSA-5693538 Homology Directed RepairTAS
R-HSA-5693567 HDR through Homologous Recombination (HRR) or Single Strand Annealing (SSA)TAS
R-HSA-5696397 Gap-filling DNA repair synthesis and ligation in GG-NERTAS
R-HSA-5696398 Nucleotide Excision RepairTAS
R-HSA-5696399 Global Genome Nucleotide Excision Repair (GG-NER)TAS
R-HSA-5696400 Dual Incision in GG-NERTAS
R-HSA-6781827 Transcription-Coupled Nucleotide Excision Repair (TC-NER)TAS
R-HSA-6782135 Dual incision in TC-NERTAS
R-HSA-6782210 Gap-filling DNA repair synthesis and ligation in TC-NERTAS
R-HSA-69091 Polymerase switchingTAS
R-HSA-69109 Leading Strand SynthesisTAS
R-HSA-69186 Lagging Strand SynthesisTAS
R-HSA-69190 DNA strand elongationTAS
R-HSA-69239 Synthesis of DNATAS
R-HSA-69242 S PhaseTAS
R-HSA-69278 Cell Cycle, MitoticTAS
R-HSA-69306 DNA ReplicationTAS
R-HSA-73884 Base Excision RepairTAS
R-HSA-73886 Chromosome MaintenanceTAS
R-HSA-73893 DNA Damage BypassTAS
R-HSA-73894 DNA RepairTAS
R-HSA-73933 Resolution of Abasic Sites (AP sites)TAS

Drugs and compounds information

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Functional annotations

Keywords

Keyword ID Keyword Term
KW-0002 3D-structure
KW-0010 Activator
KW-0025 Alternative splicing
KW-0067 ATP-binding
KW-0903 Direct protein sequencing
KW-0235 DNA replication
KW-0238 DNA-binding
KW-1017 Isopeptide bond
KW-0622 Neuropathy
KW-0547 Nucleotide-binding
KW-0539 Nucleus
KW-0597 Phosphoprotein
KW-0621 Polymorphism
KW-1185 Reference proteome
KW-0804 Transcription
KW-0805 Transcription regulation
KW-0832 Ubl conjugation

Interpro

InterPro ID InterPro Term
IPR003593 AAA+_ATPase
IPR003959 ATPase_AAA_core
IPR001357 BRCT_dom
IPR036420 BRCT_dom_sf
IPR008921 DNA_pol3_clamp-load_cplx_C
IPR013725 DNA_replication_fac_RFC1_C
IPR027417 P-loop_NTPase
IPR012178 RFC1

PROSITE

PROSITE ID PROSITE Term
PS50172 BRCT

Pfam

Pfam ID Pfam Term
PF00004 AAA
PF00533 BRCT
PF08519 RFC1

Protein-protein interaction

Protein-miRNA interaction