scc-2 Nipped-B-like protein scc-2 [Caenorhabditis elegans] - Gene

Summary

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Official Symbol: scc-2
Official Full Name: Nipped-B-like protein scc-2
Primary source: WormBase:WBGene00004166
Locus tag: CELE_Y43H11AL.3
See related: AllianceGenome:WB:WBGene00004166
Gene type: protein coding
RefSeq status: REVIEWED
Organism: Caenorhabditis elegans (strain: Bristol N2)
Lineage: Eukaryota; Metazoa; Ecdysozoa; Nematoda; Chromadorea; Rhabditida; Rhabditina; Rhabditomorpha; Rhabditoidea; Rhabditidae; Peloderinae; Caenorhabditis
Summary: Enables cohesin loader activity. Involved in several processes, including chromosome organization; double-strand break repair involved in meiotic recombination; and regulation of cell cycle process. Located in chromosome and nucleus. Human ortholog(s) of this gene implicated in Cornelia de Lange syndrome and Cornelia de Lange syndrome 1. Orthologous to human NIPBL (NIPBL cohesin loading factor). [provided by Alliance of Genome Resources, Dec 2024]
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Genomic context

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See scc-2 in Genome Data Viewer

Location:: chromosome: II

Exon count:: 26

Sequence:: Chromosome: II; NC_003280.10 (240722..255196, complement)

Chromosome II - NC_003280.10 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:: NC_003280.10

Go to nucleotide: Graphics FASTA GenBank

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

The kleisin subunit controls the function of C. elegans meiotic cohesins by determining the mode of DNA binding and differential regulation by SCC-2 and WAPL-1.
Title: The kleisin subunit controls the function of C. elegans meiotic cohesins by determining the mode of DNA binding and differential regulation by SCC-2 and WAPL-1.
During Caenorhabditis elegans meiosis, loading of cohesin requires SCC-2, whereas the cohesin-related complexes condensin and SMC-5/6 can be loaded by mechanisms independent of both SCC-2 and cohesin.
Title: Loading of meiotic cohesin by SCC-2 is required for early processing of DSBs and for the DNA damage checkpoint.

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Pathways from PubChem

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Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Markers

Y43H11_157.a (e-PCR)
- UniSTS:322871

Y43H11_158.a (e-PCR)
- UniSTS:323667

Y43H11_159.b (e-PCR)
- UniSTS:324605

Homology

Orthologs from OrthoDB

Gene Ontology Provided by WormBase

Function	Evidence Code	Pubs
enables chromatin binding	IBA Inferred from Biological aspect of Ancestor more info
enables chromatin binding	IEA Inferred from Electronic Annotation more info
enables cohesin loader activity	IMP Inferred from Mutant Phenotype more info	PubMed

Process	Evidence Code	Pubs
involved_in cell cycle	IEA Inferred from Electronic Annotation more info
involved_in chromosome organization involved in meiotic cell cycle	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in double-strand break repair involved in meiotic recombination	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in embryo development	IEA Inferred from Electronic Annotation more info
involved_in embryo development ending in birth or egg hatching	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in establishment of mitotic sister chromatid cohesion	IBA Inferred from Biological aspect of Ancestor more info
involved_in establishment of protein localization to chromatin	IBA Inferred from Biological aspect of Ancestor more info
involved_in maintenance of mitotic sister chromatid cohesion	ISS Inferred from Sequence or Structural Similarity more info
involved_in meiotic sister chromatid cohesion	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in mitotic sister chromatid segregation	IGI Inferred from Genetic Interaction more info	PubMed
involved_in mitotic sister chromatid segregation	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in positive regulation of synaptonemal complex assembly	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in regulation of DNA damage checkpoint	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in regulation of gene expression	IEA Inferred from Electronic Annotation more info
involved_in replication-born double-strand break repair via sister chromatid exchange	IBA Inferred from Biological aspect of Ancestor more info

Component	Evidence Code	Pubs
part_of SMC loading complex	ISS Inferred from Sequence or Structural Similarity more info
part_of Scc2-Scc4 cohesin loading complex	IBA Inferred from Biological aspect of Ancestor more info
located_in chromosome	IDA Inferred from Direct Assay more info	PubMed
located_in chromosome	IEA Inferred from Electronic Annotation more info
located_in nucleus	IDA Inferred from Direct Assay more info	PubMed
located_in nucleus	IEA Inferred from Electronic Annotation more info

General protein information

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Preferred Names: Nipped-B-like protein scc-2

NP_001300604.1

Confirmed by transcript evidence

NP_001364775.1

Confirmed by transcript evidence

NCBI Reference Sequences (RefSeq)

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Genome Annotation

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference assembly

Genomic

NC_003280.10 Reference assembly

Range

240722..255196 complement

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GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

NM_001377684.4 → NP_001364775.1 Nipped-B-like protein scc-2 [Caenorhabditis elegans]

Status: REVIEWED

UniProtKB/Swiss-Prot

A0A0K3AU30, Q95XZ5

Conserved Domains (5) summary

sd00044
Location:1321 → 1351

HEAT; HEAT repeat [structural motif]

pfam17380
Location:185 → 302

DUF5401; Family of unknown function (DUF5401)

pfam12765
Location:1304 → 1345

Cohesin_HEAT; HEAT repeat associated with sister chromatid cohesion

pfam12830
Location:1800 → 1995

Nipped-B_C; Sister chromatid cohesion C-terminus

cd19953
Location:1359 → 1385

PDS5; HEAT repeat [structural motif]
NM_001313675.3 → NP_001300604.1 Nipped-B-like protein scc-2 [Caenorhabditis elegans]

Status: REVIEWED

UniProtKB/TrEMBL

A0A0K3AU30

Conserved Domains (1) summary

pfam12830
Location:38 → 235

Nipped-B_C; Sister chromatid cohesion C-terminus