4E45

Crystal structure of the hMHF1/hMHF2 Histone-Fold Tetramer in Complex with Fanconi Anemia Associated Helicase hFANCM

External Resource: Annotation

Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
Domain Annotation: CATH
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification
Pharos: Disease Associations

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
A	SCOP2 Family	Kinetochore component CENP-S -like	8019160	4004034	SCOP2 (2022-06-29)
A	SCOP2 Superfamily	Core histone-like	8058042	3001387	SCOP2 (2022-06-29)
F	SCOP2B Superfamily	Core histone-like	8058042	3001387	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	Core histone-like	8058042	3001387	SCOP2B (2022-06-29)
H	SCOP2B Superfamily	Core histone-like	8058042	3001387	SCOP2B (2022-06-29)
K	SCOP2B Superfamily	Core histone-like	8058042	3001387	SCOP2B (2022-06-29)
M	SCOP2B Superfamily	Core histone-like	8058042	3001387	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	Core histone-like	8053222	3001387	SCOP2B (2022-06-29)
L	SCOP2B Superfamily	Core histone-like	8053222	3001387	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	Core histone-like	8053222	3001387	SCOP2B (2022-06-29)
G	SCOP2B Superfamily	Core histone-like	8053222	3001387	SCOP2B (2022-06-29)
I	SCOP2B Superfamily	Core histone-like	8053222	3001387	SCOP2B (2022-06-29)
N	SCOP2B Superfamily	Core histone-like	8053222	3001387	SCOP2B (2022-06-29)
J	SCOP2B Superfamily	FANCM MHF binding domain-like	8092968	3002651	SCOP2B (2022-06-29)
E	SCOP2B Superfamily	FANCM MHF binding domain-like	8092968	3002651	SCOP2B (2022-06-29)
O	SCOP2B Superfamily	FANCM MHF binding domain-like	8092968	3002651	SCOP2B (2022-06-29)

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
A	PF15630	e4e45A2	A: alpha arrays	X: Histone-like	H: Histone-related	T: Histone	F: PF15630	ECOD (1.6)
F	PF15630	e4e45F2	A: alpha arrays	X: Histone-like	H: Histone-related	T: Histone	F: PF15630	ECOD (1.6)
C	PF15630	e4e45C2	A: alpha arrays	X: Histone-like	H: Histone-related	T: Histone	F: PF15630	ECOD (1.6)
H	PF15630	e4e45H2	A: alpha arrays	X: Histone-like	H: Histone-related	T: Histone	F: PF15630	ECOD (1.6)
K	PF15630	e4e45K2	A: alpha arrays	X: Histone-like	H: Histone-related	T: Histone	F: PF15630	ECOD (1.6)
M	PF15630	e4e45M2	A: alpha arrays	X: Histone-like	H: Histone-related	T: Histone	F: PF15630	ECOD (1.6)
D	PF09415	e4e45D2	A: alpha arrays	X: Histone-like	H: Histone-related	T: Histone	F: PF09415	ECOD (1.6)
L	PF09415	e4e45L2	A: alpha arrays	X: Histone-like	H: Histone-related	T: Histone	F: PF09415	ECOD (1.6)
B	PF09415	e4e45B2	A: alpha arrays	X: Histone-like	H: Histone-related	T: Histone	F: PF09415	ECOD (1.6)
G	PF09415	e4e45G2	A: alpha arrays	X: Histone-like	H: Histone-related	T: Histone	F: PF09415	ECOD (1.6)
I	PF09415	e4e45I2	A: alpha arrays	X: Histone-like	H: Histone-related	T: Histone	F: PF09415	ECOD (1.6)
N	PF09415	e4e45N2	A: alpha arrays	X: Histone-like	H: Histone-related	T: Histone	F: PF09415	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	1.10.20.10	Mainly Alpha	Orthogonal Bundle	Histone, subunit A	Histone, subunit A	CATH (4.3.0)
F	1.10.20.10	Mainly Alpha	Orthogonal Bundle	Histone, subunit A	Histone, subunit A	CATH (4.3.0)
C	1.10.20.10	Mainly Alpha	Orthogonal Bundle	Histone, subunit A	Histone, subunit A	CATH (4.3.0)
H	1.10.20.10	Mainly Alpha	Orthogonal Bundle	Histone, subunit A	Histone, subunit A	CATH (4.3.0)
K	1.10.20.10	Mainly Alpha	Orthogonal Bundle	Histone, subunit A	Histone, subunit A	CATH (4.3.0)
M	1.10.20.10	Mainly Alpha	Orthogonal Bundle	Histone, subunit A	Histone, subunit A	CATH (4.3.0)
D	1.20.5.4980	Mainly Alpha	Up-down Bundle	Single alpha-helices involved in coiled-coils or other helix-helix interfaces		CATH (4.3.0)
D	6.10.130.30	Special	Helix non-globular	GTP Cyclohydrolase I	Chain A, domain 1	CATH (4.3.0)
L	1.20.5.4980	Mainly Alpha	Up-down Bundle	Single alpha-helices involved in coiled-coils or other helix-helix interfaces		CATH (4.3.0)
L	6.10.130.30	Special	Helix non-globular	GTP Cyclohydrolase I	Chain A, domain 1	CATH (4.3.0)
B	1.20.5.4980	Mainly Alpha	Up-down Bundle	Single alpha-helices involved in coiled-coils or other helix-helix interfaces		CATH (4.3.0)
B	6.10.130.30	Special	Helix non-globular	GTP Cyclohydrolase I	Chain A, domain 1	CATH (4.3.0)
G	1.20.5.4980	Mainly Alpha	Up-down Bundle	Single alpha-helices involved in coiled-coils or other helix-helix interfaces		CATH (4.3.0)
G	6.10.130.30	Special	Helix non-globular	GTP Cyclohydrolase I	Chain A, domain 1	CATH (4.3.0)
I	1.20.5.4980	Mainly Alpha	Up-down Bundle	Single alpha-helices involved in coiled-coils or other helix-helix interfaces		CATH (4.3.0)
I	6.10.130.30	Special	Helix non-globular	GTP Cyclohydrolase I	Chain A, domain 1	CATH (4.3.0)
N	1.20.5.4980	Mainly Alpha	Up-down Bundle	Single alpha-helices involved in coiled-coils or other helix-helix interfaces		CATH (4.3.0)
N	6.10.130.30	Special	Helix non-globular	GTP Cyclohydrolase I	Chain A, domain 1	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, C, F, H, K A, C, F, H, K, M	PF15630	CENP-S protein (CENP-S)	CENP-S protein	CENP-S is a family of vertebral and fungal kinetochore component proteins. CENP-S complexes with CENP-X to form a stable CENP-T-W-S-X heterotetramer.	Domain
B, D, G, I, L B, D, G, I, L, N	PF09415	CENP-S associating Centromere protein X (CENP-X)	CENP-S associating Centromere protein X	The centromere, essential for faithful chromosome segregation during mitosis, has a network of constitutive centromere-associated (CCAN) proteins associating with it during mitosis. So far in vertebrates at least 15 centromere proteins have been iden ...	The centromere, essential for faithful chromosome segregation during mitosis, has a network of constitutive centromere-associated (CCAN) proteins associating with it during mitosis. So far in vertebrates at least 15 centromere proteins have been identified, which are divided into several subclasses based on functional and biochemical analyses. These provide a platform for the formation of a functional kinetochore during mitosis. CENP-S is one that does not associate with the CENP-H-containing complex but rather interacts with CENP-X to form a stable assembly of outer kinetochore proteins that functions downstream of other components of the CCAN. This complex may directly allow efficient and stable formation of the outer kinetochore on the CCAN platform.	Domain
E, J, O	PF16783	FANCM to MHF binding domain (FANCM-MHF_bd)	FANCM to MHF binding domain	FANCM-MHF_bd is a structured region on Fanconi anaemia complementation group protein M that binds to a two-histone-fold-containing protein complex MHF. MHF binds double-strand DNA, stimulates the DNA-binding activity of FANCM, and contributes to the ...	FANCM-MHF_bd is a structured region on Fanconi anaemia complementation group protein M that binds to a two-histone-fold-containing protein complex MHF. MHF binds double-strand DNA, stimulates the DNA-binding activity of FANCM, and contributes to the targeting of FANCM to chromatin [1].	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, C, F, H, K A, C, F, H, K, M	Centromere protein S	DNA binding binding organic cyclic compound binding nucleic acid binding protein-containing complex binding chromatin binding protein heterodimerization activity protein binding protein dimerization activity	cellular response to stimulus cellular response to stress response to stimulus DNA damage response response to stress cellular process DNA-templated DNA replication DNA-templated DNA replication maintenance of fidelity primary metabolic process DNA metabolic process nucleic acid metabolic process nucleobase-containing compound metabolic process organic cyclic compound metabolic process DNA replication cellular response to stimulus cellular response to stress response to stimulus DNA damage response response to stress cellular process DNA-templated DNA replication DNA-templated DNA replication maintenance of fidelity primary metabolic process DNA metabolic process nucleic acid metabolic process nucleobase-containing compound metabolic process organic cyclic compound metabolic process DNA replication organic substance metabolic process metabolic process macromolecule metabolic process replication fork processing DNA repair cell division sexual reproduction homologous recombination reproductive process resolution of meiotic recombination intermediates meiotic cell cycle process cellular component organization meiosis I meiotic nuclear division cell cycle cellular component organization or biogenesis reciprocal homologous recombination cell cycle process meiotic cell cycle DNA recombination organelle fission reciprocal meiotic recombination nuclear division organelle organization meiosis I cell cycle process chromosome segregation interstrand cross-link repair regulation of protein modification process positive regulation of protein metabolic process positive regulation of biological process regulation of protein ubiquitination positive regulation of post-translational protein modification regulation of primary metabolic process positive regulation of metabolic process positive regulation of protein modification process protein ubiquitination positive regulation of macromolecule metabolic process protein metabolic process regulation of protein modification by small protein conjugation or removal protein modification process positive regulation of protein modification by small protein conjugation or removal positive regulation of protein ubiquitination regulation of biological process organonitrogen compound metabolic process regulation of post-translational protein modification regulation of protein metabolic process biological regulation regulation of macromolecule metabolic process macromolecule modification post-translational protein modification regulation of metabolic process protein modification by small protein conjugation protein modification by small protein conjugation or removal	membrane-bounded organelle intracellular organelle protein-containing complex intracellular anatomical structure organelle nucleus nuclear protein-containing complex intracellular membrane-bounded organelle cellular anatomical entity FANCM-MHF complex cytoplasm cytosol Fanconi anaemia nuclear complex chromosome membrane-bounded organelle intracellular organelle protein-containing complex intracellular anatomical structure organelle nucleus nuclear protein-containing complex intracellular membrane-bounded organelle cellular anatomical entity FANCM-MHF complex cytoplasm cytosol Fanconi anaemia nuclear complex chromosome chromosomal region kinetochore intracellular non-membrane-bounded organelle inner kinetochore chromosome, centromeric region condensed chromosome, centromeric region supramolecular complex condensed chromosome non-membrane-bounded organelle membrane-enclosed lumen intracellular organelle lumen nucleoplasm organelle lumen nuclear lumen protein-DNA complex chromatin
B, D, G, I, L B, D, G, I, L, N	Centromere protein X	DNA binding binding organic cyclic compound binding nucleic acid binding	DNA-templated DNA replication DNA-templated DNA replication maintenance of fidelity primary metabolic process DNA metabolic process nucleic acid metabolic process nucleobase-containing compound metabolic process organic cyclic compound metabolic process DNA replication organic substance metabolic process metabolic process macromolecule metabolic process replication fork processing organelle assembly protein-containing complex organization DNA-templated DNA replication DNA-templated DNA replication maintenance of fidelity primary metabolic process DNA metabolic process nucleic acid metabolic process nucleobase-containing compound metabolic process organic cyclic compound metabolic process DNA replication organic substance metabolic process metabolic process macromolecule metabolic process replication fork processing organelle assembly protein-containing complex organization non-membrane-bounded organelle assembly chromosome organization protein-DNA complex assembly cellular component organization cellular component biogenesis protein-DNA complex organization organelle organization cellular component assembly kinetochore assembly protein-containing complex assembly kinetochore organization cellular process cellular component organization or biogenesis centromere complex assembly cell division sexual reproduction homologous recombination reproductive process resolution of meiotic recombination intermediates meiotic cell cycle process meiosis I meiotic nuclear division cell cycle reciprocal homologous recombination cell cycle process meiotic cell cycle DNA recombination organelle fission reciprocal meiotic recombination nuclear division meiosis I cell cycle process chromosome segregation cellular response to stimulus response to stimulus cellular response to stress DNA damage response response to stress interstrand cross-link repair DNA repair regulation of protein modification process positive regulation of protein metabolic process positive regulation of biological process regulation of protein ubiquitination positive regulation of post-translational protein modification regulation of primary metabolic process positive regulation of metabolic process positive regulation of protein modification process protein ubiquitination positive regulation of macromolecule metabolic process protein metabolic process regulation of protein modification by small protein conjugation or removal protein modification process positive regulation of protein modification by small protein conjugation or removal positive regulation of protein ubiquitination regulation of biological process organonitrogen compound metabolic process regulation of post-translational protein modification regulation of protein metabolic process biological regulation regulation of macromolecule metabolic process macromolecule modification post-translational protein modification regulation of metabolic process protein modification by small protein conjugation protein modification by small protein conjugation or removal	membrane-bounded organelle intracellular organelle protein-containing complex intracellular anatomical structure organelle nucleus nuclear protein-containing complex intracellular membrane-bounded organelle cellular anatomical entity FANCM-MHF complex cytoplasm cytosol Fanconi anaemia nuclear complex chromosome membrane-bounded organelle intracellular organelle protein-containing complex intracellular anatomical structure organelle nucleus nuclear protein-containing complex intracellular membrane-bounded organelle cellular anatomical entity FANCM-MHF complex cytoplasm cytosol Fanconi anaemia nuclear complex chromosome chromosomal region kinetochore intracellular non-membrane-bounded organelle inner kinetochore chromosome, centromeric region condensed chromosome, centromeric region supramolecular complex condensed chromosome non-membrane-bounded organelle membrane-enclosed lumen intracellular organelle lumen nucleoplasm organelle lumen nuclear lumen protein-DNA complex chromatin
E, J, O	Fanconi anemia group M protein	nuclease activity hydrolase activity, acting on ester bonds hydrolase activity catalytic activity protein-containing complex binding chromatin binding binding adenyl ribonucleotide binding nucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding ion binding purine nucleotide binding nuclease activity hydrolase activity, acting on ester bonds hydrolase activity catalytic activity protein-containing complex binding chromatin binding binding adenyl ribonucleotide binding nucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding ion binding purine nucleotide binding organic cyclic compound binding anion binding adenyl nucleotide binding ATP binding heterocyclic compound binding carbohydrate derivative binding ribonucleotide binding small molecule binding ATP-dependent activity, acting on DNA four-way junction helicase activity DNA helicase activity catalytic activity, acting on DNA catalytic activity, acting on a nucleic acid helicase activity ATP-dependent activity pyrophosphatase activity ATP hydrolysis activity ribonucleoside triphosphate phosphatase activity hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides hydrolase activity, acting on acid anhydrides catalytic activity, acting on RNA RNA helicase activity ATP-dependent activity, acting on RNA DNA secondary structure binding DNA binding four-way junction DNA binding nucleic acid binding 3'-5' DNA helicase activity	DNA-templated DNA replication DNA-templated DNA replication maintenance of fidelity primary metabolic process DNA metabolic process nucleic acid metabolic process nucleobase-containing compound metabolic process organic cyclic compound metabolic process DNA replication organic substance metabolic process metabolic process macromolecule metabolic process replication fork processing sexual reproduction homologous recombination DNA-templated DNA replication DNA-templated DNA replication maintenance of fidelity primary metabolic process DNA metabolic process nucleic acid metabolic process nucleobase-containing compound metabolic process organic cyclic compound metabolic process DNA replication organic substance metabolic process metabolic process macromolecule metabolic process replication fork processing sexual reproduction homologous recombination reproductive process resolution of meiotic recombination intermediates meiotic cell cycle process cellular component organization meiosis I meiotic nuclear division cell cycle cellular component organization or biogenesis reciprocal homologous recombination cell cycle process meiotic cell cycle DNA recombination organelle fission reciprocal meiotic recombination nuclear division organelle organization meiosis I cell cycle process cellular process cellular response to stimulus response to stimulus cellular response to stress DNA damage response response to stress interstrand cross-link repair DNA repair regulation of protein modification process positive regulation of protein metabolic process positive regulation of biological process regulation of protein ubiquitination positive regulation of post-translational protein modification regulation of primary metabolic process positive regulation of metabolic process positive regulation of protein modification process protein ubiquitination positive regulation of macromolecule metabolic process protein metabolic process regulation of protein modification by small protein conjugation or removal protein modification process positive regulation of protein monoubiquitination positive regulation of protein modification by small protein conjugation or removal positive regulation of protein ubiquitination regulation of biological process organonitrogen compound metabolic process regulation of post-translational protein modification regulation of protein metabolic process biological regulation regulation of macromolecule metabolic process protein monoubiquitination macromolecule modification regulation of protein monoubiquitination post-translational protein modification regulation of metabolic process protein modification by small protein conjugation protein modification by small protein conjugation or removal double-strand break repair double-strand break repair via synthesis-dependent strand annealing recombinational repair double-strand break repair via homologous recombination	intracellular anatomical structure cytoplasm cellular anatomical entity cytosol membrane-bounded organelle nucleus membrane-enclosed lumen intracellular membrane-bounded organelle intracellular organelle lumen intracellular organelle nucleoplasm organelle lumen organelle nuclear lumen intracellular anatomical structure cytoplasm cellular anatomical entity cytosol membrane-bounded organelle nucleus membrane-enclosed lumen intracellular membrane-bounded organelle intracellular organelle lumen intracellular organelle nucleoplasm organelle lumen organelle nuclear lumen protein-containing complex protein-DNA complex intracellular non-membrane-bounded organelle chromatin chromosome non-membrane-bounded organelle nuclear protein-containing complex FANCM-MHF complex Fanconi anaemia nuclear complex

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, C, F, H, K A, C, F, H, K, M	IPR009072	Histone-fold	Homologous Superfamily
A, C, F, H, K A, C, F, H, K, M	IPR029003	CENP-S/Mhf1	Family
B, D, G, I, L B, D, G, I, L, N	IPR018552	Centromere protein X	Family
E, J, O	IPR047418	Fanconi anemia group M protein, XPF-like nuclease domain	Domain
E, J, O	IPR011335	Restriction endonuclease type II-like	Homologous Superfamily
E, J, O	IPR010994	RuvA domain 2-like	Homologous Superfamily
E, J, O	IPR006166	ERCC4 domain	Domain
E, J, O	IPR011545	DEAD/DEAH box helicase domain	Domain
E, J, O	IPR027417	P-loop containing nucleoside triphosphate hydrolase	Homologous Superfamily
E, J, O	IPR044749	FANCM, DEAH-box helicase domain	Domain
E, J, O	IPR001650	Helicase, C-terminal domain-like	Domain
E, J, O	IPR014001	Helicase superfamily 1/2, ATP-binding domain	Domain
E, J, O	IPR031879	Fanconi anemia group M protein, MHF binding domain	Domain
E, J, O	IPR039686	FANCM/Mph1-like, insert domain	Domain

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
A, C, F, H, K A, C, F, H, K, M	Pharos: Q8N2Z9	breast carcinoma lung cancer osteosarcoma psoriasis estrogen-receptor negative breast cancer malignant ependymoma ovarian cancer invasive ductal breast carcinoma medulloblastoma prostate carcinoma
B, D, G, I, L B, D, G, I, L, N	Pharos: A8MT69	attention deficit hyperactivity disorder, inattentive type lung adenocarcinoma tuberculosis breast cancer lung cancer invasive ductal breast carcinoma psoriasis
E, J, O	Pharos: Q8IYD8	Fanconi anemia anemia Cytopenia inherited aplastic anemia neurofibromatosis type 1 pituitary cancer aplastic anemia head and neck cancer medulloblastoma osteosarcoma tuberculosis congenital anemia esophageal atresia/tracheoesophageal fistula hematopoietic and lymphoid system neoplasm ovarian cancer Fanconi anemia anemia Cytopenia inherited aplastic anemia neurofibromatosis type 1 pituitary cancer aplastic anemia head and neck cancer medulloblastoma osteosarcoma tuberculosis congenital anemia esophageal atresia/tracheoesophageal fistula hematopoietic and lymphoid system neoplasm ovarian cancer primary ovarian failure

RCSB PDB Core Operations are funded by the National Science Foundation (DBI-1832184), 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.