4Y66

Crystal structure of Giardia lamblia Hop2-Mnd1 complex

External Resource: Annotation

Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
A	SCOP2B Superfamily	Mnd1/Hop2-like	8089880	3002398	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	Mnd1/Hop2-like	8089880	3002398	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	Winged helix DNA-binding domain	8089878	3000034	SCOP2B (2022-06-29)
E	SCOP2 Family	Mnd1 N-terminal domain-like	8045250	4004373	SCOP2 (2022-06-29)
E	SCOP2 Family	Mnd1 coiled coil region-like	8089879	4007688	SCOP2 (2022-06-29)
E	SCOP2 Superfamily	Winged helix DNA-binding domain	8089878	3000034	SCOP2 (2022-06-29)
E	SCOP2 Superfamily	Mnd1/Hop2-like	8089880	3002398	SCOP2 (2022-06-29)
B	SCOP2B Superfamily	Mnd1/Hop2-like	8089883	3002398	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	Winged helix DNA-binding domain	8089881	3000034	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	Mnd1/Hop2-like	8089883	3002398	SCOP2B (2022-06-29)
F	SCOP2 Family	Hop2 N-terminal domain-like	8049070	4006330	SCOP2 (2022-06-29)
F	SCOP2 Family	Hop2 coiled coil region-like	8089882	4007689	SCOP2 (2022-06-29)
F	SCOP2 Superfamily	Winged helix DNA-binding domain	8089881	3000034	SCOP2 (2022-06-29)
F	SCOP2 Superfamily	Mnd1/Hop2-like	8089883	3002398	SCOP2 (2022-06-29)

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
C	PF03962	e4y66C1	A: alpha arrays	X: HTH	H: HTH	T: winged	F: PF03962	ECOD (1.6)
E	PF03962	e4y66E1	A: alpha arrays	X: HTH	H: HTH	T: winged	F: PF03962	ECOD (1.6)
D	PF07106	e4y66D1	A: alpha arrays	X: HTH	H: HTH	T: winged	F: PF07106	ECOD (1.6)
F	PF07106	e4y66F1	A: alpha arrays	X: HTH	H: HTH	T: winged	F: PF07106	ECOD (1.6)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, C, E	PF18517	Leucine zipper with capping helix domain (LZ3wCH)	Leucine zipper with capping helix domain	This domain is found at the C-terminal region of Hop2 and Mnd1 proteins. In meiotic DNA recombination, the Hop2-Mnd1 complex promotes Dmc1-mediated single-stranded DNA (ssDNA) invasion into homologous chromosomes to form a synaptic complex. Hop2 (fo ...	This domain is found at the C-terminal region of Hop2 and Mnd1 proteins. In meiotic DNA recombination, the Hop2-Mnd1 complex promotes Dmc1-mediated single-stranded DNA (ssDNA) invasion into homologous chromosomes to form a synaptic complex. Hop2 (for homologous pairing; also known as TBPIP) is expressed specifically during meiosis, same as Mnd1 (for meiotic nuclear divisions 1). The C-terminal region of both Hop2 and Mnd1, folds into three alpha-helices that are interrupted by two short non-helical regions. These alpha-helices of the two proteins together form a parallel coiled coil that provides the major interface for heterodimer formation. The non-helical regions form substantially kinked junctions between adjacent leucine zippers: the LZ1-LZ2 and LZ2-LZ3 junctions.This domain is the C-terminal segment of Hop2 and Mnd1 which folds back onto the C-terminal leucine zipper (LZ3) to form a helical bundle-like structure, hence designated LZ3wCH (for LZ3 with capping helices). The LZ3wCH region plays a role in interacting with the Dmc1 nucleofilament [1].	Domain
A, C, E	PF03962	Mnd1 HTH domain (Mnd1)	Mnd1 HTH domain	This family of proteins includes MND1 from S. cerevisiae. The mnd1 protein forms a complex with hop2 to promote homologous chromosome pairing and meiotic double-strand break repair [1].	Domain
B, D, F	PF07106	TBPIP/Hop2 winged helix domain (TBPIP)	TBPIP/Hop2 winged helix domain	This family consists of several eukaryotic TBP-1 interacting protein (TBPIP) sequences. TBP-1 has been demonstrated to interact with the human immunodeficiency virus type 1 (HIV-1) viral protein Tat, then modulate the essential replication process of ...	This family consists of several eukaryotic TBP-1 interacting protein (TBPIP) sequences. TBP-1 has been demonstrated to interact with the human immunodeficiency virus type 1 (HIV-1) viral protein Tat, then modulate the essential replication process of HIV. In addition, TBP-1 has been shown to be a component of the 26S proteasome, a basic multiprotein complex that degrades ubiquitinated proteins in an ATP-dependent fashion. Human TBPIP interacts with human TBP-1 then modulates the inhibitory action of human TBP-1 on HIV-Tat-mediated transactivation [1]. TBPIP was found to be an activator that specifically stimulates the homologous pairing catalyzed by DMC1. Family members also include yeast homologous-pairing protein 2 (Hop2) and its homologues from animals and plants. They are required for proper homologous pairing and efficient cross-over and intragenic recombination during meiosis [2, 3, 4, 5].	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, C, E	Mnd1	DNA binding double-stranded DNA binding binding organic cyclic compound binding nucleic acid binding	homologous recombination sexual reproduction reproductive process meiotic cell cycle process nucleobase-containing compound metabolic process cellular component organization organic substance metabolic process meiosis I meiotic nuclear division cell cycle cellular component organization or biogenesis reciprocal homologous recombination cell cycle process DNA recombination homologous recombination sexual reproduction reproductive process meiotic cell cycle process nucleobase-containing compound metabolic process cellular component organization organic substance metabolic process meiosis I meiotic nuclear division cell cycle cellular component organization or biogenesis reciprocal homologous recombination cell cycle process DNA recombination meiotic cell cycle organelle fission primary metabolic process DNA metabolic process nucleic acid metabolic process reciprocal meiotic recombination organic cyclic compound metabolic process nuclear division organelle organization meiosis I cell cycle process metabolic process cellular process macromolecule metabolic process	membrane-bounded organelle intracellular organelle intracellular anatomical structure organelle nucleus intracellular membrane-bounded organelle cellular anatomical entity
B, D, F	Putative tbpip family protein	-	cellular component organization cellular process cellular component organization or biogenesis sexual reproduction reproductive process meiotic cell cycle cell cycle	membrane-bounded organelle intracellular organelle intracellular anatomical structure organelle nucleus intracellular membrane-bounded organelle cellular anatomical entity

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, C, E	IPR040661	Leucine zipper with capping helix domain	Domain
A, C, E	IPR005647	Meiotic nuclear division protein 1	Family
A, C, E	IPR036388	Winged helix-like DNA-binding domain superfamily	Homologous Superfamily
A, C, E	IPR040453	Mnd1, HTH domain	Domain
A, C, E	IPR036390	Winged helix DNA-binding domain superfamily	Homologous Superfamily
B, D, F	IPR010776	Homologous-pairing protein 2, winged helix domain	Domain
B, D, F	IPR036388	Winged helix-like DNA-binding domain superfamily	Homologous Superfamily

RCSB PDB Core Operations are funded by the U.S. National Science Foundation (DBI-2321666), the US Department of Energy (DE-SC0019749), and the National Cancer Institute, National Institute of Allergy and Infectious Diseases, and National Institute of General Medical Sciences of the National Institutes of Health under grant R01GM133198.