3LMM

Crystal Structure of the DIP2311 protein from Corynebacterium diphtheriae, Northeast Structural Genomics Consortium Target CdR35

External Resource: Annotation

Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
Domain Annotation: CATH
Protein Family Annotation
InterPro: Protein Family Classification

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
A	SCOP2 Family	DIP2311 C-terminal domain-like	8091023	4007718	SCOP2 (2022-06-29)
A	SCOP2 Family	DIP2311 ATPase-like domain-like	8049158	4006381	SCOP2 (2022-06-29)
A	SCOP2 Family	NE2525/DIP2311 N-terminal domain-like	8045740	4004653	SCOP2 (2022-06-29)
A	SCOP2 Superfamily	Winged helix DNA-binding domain	8091024	3000034	SCOP2 (2022-06-29)
A	SCOP2 Superfamily	GHKL (Gyrase Hsp90 Histidine Kinase MutL) domain-like	8091022	3000091	SCOP2 (2022-06-29)
A	SCOP2 Superfamily	AlbA-like	8091021	3000507	SCOP2 (2022-06-29)
B	SCOP2B Superfamily	GHKL (Gyrase Hsp90 Histidine Kinase MutL) domain-like	8091022	3000091	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	AlbA-like	8091021	3000507	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	Winged helix DNA-binding domain	8091024	3000034	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	Winged helix DNA-binding domain	8091024	3000034	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	AlbA-like	8091021	3000507	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	GHKL (Gyrase Hsp90 Histidine Kinase MutL) domain-like	8091022	3000091	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	Winged helix DNA-binding domain	8091024	3000034	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	AlbA-like	8091021	3000507	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	GHKL (Gyrase Hsp90 Histidine Kinase MutL) domain-like	8091022	3000091	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	PF18685	e3lmmA5	A: alpha arrays	X: HTH	H: HTH	T: winged	F: PF18685	ECOD (1.6)
A	PF13749	e3lmmA4	A: a+b two layers	X: ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase-like	H: Uncharacterized protein DIP2311 middle domain (From Topology)	T: Uncharacterized protein DIP2311 middle domain	F: PF13749	ECOD (1.6)
A	PF04326	e3lmmA3	A: a+b two layers	X: IF3-like	H: Schlafen 8 (From Topology)	T: Schlafen 8	F: PF04326	ECOD (1.6)
B	PF18685	e3lmmB3	A: alpha arrays	X: HTH	H: HTH	T: winged	F: PF18685	ECOD (1.6)
B	PF22168	e3lmmB4	A: alpha arrays	X: HTH	H: HTH	T: winged	F: PF22168	ECOD (1.6)
B	PF13749	e3lmmB1	A: a+b two layers	X: ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase-like	H: Uncharacterized protein DIP2311 middle domain (From Topology)	T: Uncharacterized protein DIP2311 middle domain	F: PF13749	ECOD (1.6)
B	PF04326	e3lmmB2	A: a+b two layers	X: IF3-like	H: Schlafen 8 (From Topology)	T: Schlafen 8	F: PF04326	ECOD (1.6)
D	PF18685	e3lmmD3	A: alpha arrays	X: HTH	H: HTH	T: winged	F: PF18685	ECOD (1.6)
D	PF22168	e3lmmD4	A: alpha arrays	X: HTH	H: HTH	T: winged	F: PF22168	ECOD (1.6)
D	PF13749	e3lmmD2	A: a+b two layers	X: ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase-like	H: Uncharacterized protein DIP2311 middle domain (From Topology)	T: Uncharacterized protein DIP2311 middle domain	F: PF13749	ECOD (1.6)
D	PF04326	e3lmmD1	A: a+b two layers	X: IF3-like	H: Schlafen 8 (From Topology)	T: Schlafen 8	F: PF04326	ECOD (1.6)
C	PF18685	e3lmmC6	A: alpha arrays	X: HTH	H: HTH	T: winged	F: PF18685	ECOD (1.6)
C	PF13749	e3lmmC4	A: a+b two layers	X: ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase-like	H: Uncharacterized protein DIP2311 middle domain (From Topology)	T: Uncharacterized protein DIP2311 middle domain	F: PF13749	ECOD (1.6)
C	PF04326	e3lmmC5	A: a+b two layers	X: IF3-like	H: Schlafen 8 (From Topology)	T: Schlafen 8	F: PF04326	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	3.30.950.30	Alpha Beta	2-Layer Sandwich	Methyltransferase, Cobalt-precorrin-4 Transmethylase	Domain 2	CATH (4.3.0)
A	6.10.10.130	Special	Helix non-globular	Helicase, Ruva Protein	domain 3	CATH (4.3.0)
A	3.30.565.60	Alpha Beta	2-Layer Sandwich	Heat Shock Protein 90		CATH (4.3.0)
A	1.10.10.2340	Mainly Alpha	Orthogonal Bundle	Arc Repressor Mutant, subunit A		CATH (4.3.0)
B	3.30.950.30	Alpha Beta	2-Layer Sandwich	Methyltransferase, Cobalt-precorrin-4 Transmethylase	Domain 2	CATH (4.3.0)
B	6.10.10.130	Special	Helix non-globular	Helicase, Ruva Protein	domain 3	CATH (4.3.0)
B	3.30.565.60	Alpha Beta	2-Layer Sandwich	Heat Shock Protein 90		CATH (4.3.0)
B	1.10.10.2340	Mainly Alpha	Orthogonal Bundle	Arc Repressor Mutant, subunit A		CATH (4.3.0)
B	1.10.10.10	Mainly Alpha	Orthogonal Bundle	Arc Repressor Mutant, subunit A	Winged helix-like DNA-binding domain superfamily/Winged helix DNA-binding domain	CATH (4.3.0)
D	3.30.950.30	Alpha Beta	2-Layer Sandwich	Methyltransferase, Cobalt-precorrin-4 Transmethylase	Domain 2	CATH (4.3.0)
D	6.10.10.130	Special	Helix non-globular	Helicase, Ruva Protein	domain 3	CATH (4.3.0)
D	3.30.565.60	Alpha Beta	2-Layer Sandwich	Heat Shock Protein 90		CATH (4.3.0)
D	1.10.10.2340	Mainly Alpha	Orthogonal Bundle	Arc Repressor Mutant, subunit A		CATH (4.3.0)
D	1.10.10.10	Mainly Alpha	Orthogonal Bundle	Arc Repressor Mutant, subunit A	Winged helix-like DNA-binding domain superfamily/Winged helix DNA-binding domain	CATH (4.3.0)
C	3.30.950.30	Alpha Beta	2-Layer Sandwich	Methyltransferase, Cobalt-precorrin-4 Transmethylase	Domain 2	CATH (4.3.0)
C	6.10.10.130	Special	Helix non-globular	Helicase, Ruva Protein	domain 3	CATH (4.3.0)
C	3.30.565.60	Alpha Beta	2-Layer Sandwich	Heat Shock Protein 90		CATH (4.3.0)
C	1.10.10.2340	Mainly Alpha	Orthogonal Bundle	Arc Repressor Mutant, subunit A		CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B, C, D	PF18685	Family of unknown function (DUF5635) (DUF5635)	Family of unknown function (DUF5635)	This is a domain of unknown function which is found at the C-terminal region of Pfam:PF13749 in actinobacteria.	Domain
A, B, C, D	PF13749	Putative ATP-dependent DNA helicase recG C-terminal (HATPase_c_4)	Putative ATP-dependent DNA helicase recG C-terminal	This domain may well interact selectively and non-covalently with ATP, adenosine 5'-triphosphate, a universally important coenzyme and enzyme regulator.	Domain
A, B, C, D	PF04326	Schlafen, AlbA_2 (SLFN_AlbA_2)	Schlafen, AlbA_2	This is the AlbA_2 domain from the Schlafen (SLFN) family of proteins which are important in cell differentiation and defense against viruses [1,2]. This domain is present at the N-terminal of all SLFN proteins and includes the SLFN box, a sequence u ...	This is the AlbA_2 domain from the Schlafen (SLFN) family of proteins which are important in cell differentiation and defense against viruses [1,2]. This domain is present at the N-terminal of all SLFN proteins and includes the SLFN box, a sequence unique to these proteins that may form a dimer interface [1]. The AlbA_2 domain is RNA-binding and RNase region as it contains the highly conserved catalytic glutamic acid residues [1].	Domain

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B, C, D	IPR025831	ATP-dependent DNA helicase RecG, C-terminal domain	Domain
A, B, C, D	IPR040728	Domain of unknown function DUF5635	Domain
A, B, C, D	IPR036388	Winged helix-like DNA-binding domain superfamily	Homologous Superfamily
A, B, C, D	IPR007421	Schlafen, AlbA_2 domain	Domain
A, B, C, D	IPR038475	RecG, C-terminal domain superfamily	Homologous Superfamily
A, B, C, D	IPR038461	Schlafen, AlbA_2 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.