4DRB | pdb_00004drb

The crystal structure of FANCM bound MHF complex

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)
O	SCOP2B Superfamily	Core histone-like	8053222	3001387	SCOP2B (2022-06-29)
N	SCOP2B Superfamily	Core histone-like	8053222	3001387	SCOP2B (2022-06-29)
M	SCOP2B Superfamily	Core histone-like	8053222	3001387	SCOP2B (2022-06-29)
L	SCOP2B Superfamily	Core histone-like	8053222	3001387	SCOP2B (2022-06-29)
K	SCOP2B Superfamily	Core histone-like	8053222	3001387	SCOP2B (2022-06-29)
J	SCOP2B Superfamily	Core histone-like	8053222	3001387	SCOP2B (2022-06-29)
I	SCOP2B Superfamily	FANCM MHF binding domain-like	8092968	3002651	SCOP2B (2022-06-29)
F	SCOP2B Superfamily	FANCM MHF binding domain-like	8092968	3002651	SCOP2B (2022-06-29)
C	SCOP2 Family	FANCM MHF binding domain-like	8046146	4004906	SCOP2 (2022-06-29)
C	SCOP2 Superfamily	FANCM MHF binding domain-like	8092968	3002651	SCOP2 (2022-06-29)
H	SCOP2B Superfamily	Core histone-like	8058042	3001387	SCOP2B (2022-06-29)
G	SCOP2B Superfamily	Core histone-like	8058042	3001387	SCOP2B (2022-06-29)
E	SCOP2B Superfamily	Core histone-like	8058042	3001387	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	Core histone-like	8058042	3001387	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	Core histone-like	8058042	3001387	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	Core histone-like	8058042	3001387	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)
O	CENP-X	e4drbO2	A: alpha arrays	X: Histone-like	H: Histone-related	T: Histone	F: CENP-X	ECOD (1.6)
N	CENP-X	e4drbN2	A: alpha arrays	X: Histone-like	H: Histone-related	T: Histone	F: CENP-X	ECOD (1.6)
M	CENP-X	e4drbM2	A: alpha arrays	X: Histone-like	H: Histone-related	T: Histone	F: CENP-X	ECOD (1.6)
L	CENP-X	e4drbL2	A: alpha arrays	X: Histone-like	H: Histone-related	T: Histone	F: CENP-X	ECOD (1.6)
K	CENP-X	e4drbK2	A: alpha arrays	X: Histone-like	H: Histone-related	T: Histone	F: CENP-X	ECOD (1.6)
J	CENP-X	e4drbJ2	A: alpha arrays	X: Histone-like	H: Histone-related	T: Histone	F: CENP-X	ECOD (1.6)
H	CENP-S	e4drbH1	A: alpha arrays	X: Histone-like	H: Histone-related	T: Histone	F: CENP-S	ECOD (1.6)
G	CENP-S	e4drbG1	A: alpha arrays	X: Histone-like	H: Histone-related	T: Histone	F: CENP-S	ECOD (1.6)
E	CENP-S	e4drbE1	A: alpha arrays	X: Histone-like	H: Histone-related	T: Histone	F: CENP-S	ECOD (1.6)
D	CENP-S	e4drbD1	A: alpha arrays	X: Histone-like	H: Histone-related	T: Histone	F: CENP-S	ECOD (1.6)
B	CENP-S	e4drbB1	A: alpha arrays	X: Histone-like	H: Histone-related	T: Histone	F: CENP-S	ECOD (1.6)
A	CENP-S	e4drbA1	A: alpha arrays	X: Histone-like	H: Histone-related	T: Histone	F: CENP-S	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
O	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)
O	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)
M	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)
M	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)
K	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)
K	6.10.130.30	Special	Helix non-globular	GTP Cyclohydrolase I	Chain A, domain 1	CATH (4.3.0)
J	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)
J	6.10.130.30	Special	Helix non-globular	GTP Cyclohydrolase I	Chain A, domain 1	CATH (4.3.0)
H	1.10.20.10	Mainly Alpha	Orthogonal Bundle	Histone, subunit A	Histone, subunit A	CATH (4.3.0)
G	1.10.20.10	Mainly Alpha	Orthogonal Bundle	Histone, subunit A	Histone, subunit A	CATH (4.3.0)
E	1.10.20.10	Mainly Alpha	Orthogonal Bundle	Histone, subunit A	Histone, subunit A	CATH (4.3.0)
D	1.10.20.10	Mainly Alpha	Orthogonal Bundle	Histone, subunit A	Histone, subunit A	CATH (4.3.0)
B	1.10.20.10	Mainly Alpha	Orthogonal Bundle	Histone, subunit A	Histone, subunit A	CATH (4.3.0)
A	1.10.20.10	Mainly Alpha	Orthogonal Bundle	Histone, subunit A	Histone, subunit A	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
J, K, L, M, N J, K, L, M, N, O	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
C, F, I	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
A, B, D, E, G A, B, D, E, G, H	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

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
J, K, L, M, N J, K, L, M, N, O	Centromere protein X	DNA binding 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 DNA replication metabolic process cellular process macromolecule metabolic process replication fork processing organelle assembly protein-containing complex organization chromosome 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 DNA replication metabolic process cellular process macromolecule metabolic process replication fork processing organelle assembly protein-containing complex organization chromosome organization membraneless organelle assembly cellular component organization cellular component biogenesis organelle organization cellular component assembly kinetochore assembly protein-containing complex assembly kinetochore organization cellular component organization or biogenesis 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 cellular process 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 cellular process positive regulation of protein modification by small protein conjugation or removal positive regulation of protein ubiquitination regulation of biological 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 cellular anatomical structure intracellular anatomical structure organelle nucleus nuclear protein-containing complex intracellular membrane-bounded organelle FANCM-MHF complex cytoplasm cytosol Fanconi anaemia nuclear complex intracellular membraneless organelle membrane-bounded organelle intracellular organelle protein-containing complex cellular anatomical structure intracellular anatomical structure organelle nucleus nuclear protein-containing complex intracellular membrane-bounded organelle FANCM-MHF complex cytoplasm cytosol Fanconi anaemia nuclear complex intracellular membraneless organelle chromosome chromosomal region kinetochore membraneless organelle inner kinetochore chromosome, centromeric region condensed chromosome, centromeric region supramolecular complex condensed chromosome membrane-enclosed lumen intracellular organelle lumen nucleoplasm organelle lumen nuclear lumen chromatin
C, F, I	Fanconi anemia group M protein	nuclease activity catalytic activity, acting on a nucleic acid catalytic activity chromatin binding binding adenyl ribonucleotide binding nucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding ion binding purine nucleotide binding anion binding adenyl nucleotide binding nuclease activity catalytic activity, acting on a nucleic acid catalytic activity chromatin binding binding adenyl ribonucleotide binding nucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding ion binding purine nucleotide binding anion binding adenyl nucleotide binding ATP binding heterocyclic compound binding carbohydrate derivative binding ribonucleotide binding small molecule binding nucleic acid conformation isomerase activity four-way junction helicase activity isomerase activity DNA helicase activity helicase activity ATP-dependent activity ATP-dependent activity, acting on DNA catalytic activity, acting on DNA macromolecular conformation isomerase activity pyrophosphatase activity ATP hydrolysis activity ribonucleoside triphosphate phosphatase activity hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides hydrolase activity 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 DNA replication metabolic process cellular process macromolecule metabolic process replication fork processing sexual reproduction homologous recombination reproductive 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 DNA replication metabolic process cellular 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 response to stimulus response to stimulus cellular response to stress DNA damage response response to stress interstrand cross-link repair DNA repair regulation of cellular process 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 cellular process positive regulation of protein modification by small protein conjugation or removal positive regulation of protein ubiquitination regulation of biological 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	cellular anatomical structure intracellular anatomical structure cytoplasm cytosol membrane-bounded organelle nucleus membrane-enclosed lumen intracellular membrane-bounded organelle intracellular organelle lumen intracellular organelle nucleoplasm organelle lumen organelle nuclear lumen cellular anatomical structure intracellular anatomical structure cytoplasm cytosol membrane-bounded organelle nucleus membrane-enclosed lumen intracellular membrane-bounded organelle intracellular organelle lumen intracellular organelle nucleoplasm organelle lumen organelle nuclear lumen membraneless organelle intracellular membraneless organelle chromatin chromosome protein-containing complex nuclear protein-containing complex FANCM-MHF complex Fanconi anaemia nuclear complex
A, B, D, E, G A, B, D, E, G, H	Centromere protein S	DNA binding binding nucleic acid 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 DNA replication metabolic process 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 DNA replication 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 cellular process 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 cellular process positive regulation of protein modification by small protein conjugation or removal positive regulation of protein ubiquitination regulation of biological 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 cellular anatomical structure intracellular anatomical structure organelle nucleus nuclear protein-containing complex intracellular membrane-bounded organelle FANCM-MHF complex cytoplasm cytosol Fanconi anaemia nuclear complex intracellular membraneless organelle membrane-bounded organelle intracellular organelle protein-containing complex cellular anatomical structure intracellular anatomical structure organelle nucleus nuclear protein-containing complex intracellular membrane-bounded organelle FANCM-MHF complex cytoplasm cytosol Fanconi anaemia nuclear complex intracellular membraneless organelle chromosome chromosomal region kinetochore membraneless organelle inner kinetochore chromosome, centromeric region condensed chromosome, centromeric region supramolecular complex condensed chromosome membrane-enclosed lumen intracellular organelle lumen nucleoplasm organelle lumen nuclear lumen chromatin

InterPro: Protein Family Classification InterPro Database Homepage

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

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
J, K, L, M, N J, K, L, M, N, O	Pharos: A8MT69	attention deficit hyperactivity disorder, inattentive type lung adenocarcinoma tuberculosis breast cancer lung cancer invasive ductal breast carcinoma psoriasis
C, F, I	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
A, B, D, E, G A, B, D, E, G, H	Pharos: Q8N2Z9	breast carcinoma lung cancer osteosarcoma psoriasis estrogen-receptor negative breast cancer malignant ependymoma ovarian cancer invasive ductal breast carcinoma medulloblastoma prostate carcinoma

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 R01GM157729.