6CIB | pdb_00006cib

The structure of YcaO from Methanopyrus kandleri bound with AMPPCP and Mg2+

External Resource: Annotation

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

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
A	YcaO_2nd	e6cibA1	A: a+b two layers	X: dsRBD-like	H: Heterocyclase TruD C-terminal domain (From Topology)	T: Heterocyclase TruD C-terminal domain	F: YcaO_2nd	ECOD (1.6)
A	YcaO_1st	e6cibA3	A: a+b two layers	X: dsRBD-like	H: Heterocyclase TruD C-terminal domain (From Topology)	T: Heterocyclase TruD C-terminal domain	F: YcaO_1st	ECOD (1.6)
A	UNK_F_TYPE	e6cibA2	A: a+b two layers	X: dsRBD-like	H: Heterocyclase TruD C-terminal domain (From Topology)	T: Heterocyclase TruD C-terminal domain	F: UNK_F_TYPE	ECOD (1.6)
B	YcaO_2nd	e6cibB3	A: a+b two layers	X: dsRBD-like	H: Heterocyclase TruD C-terminal domain (From Topology)	T: Heterocyclase TruD C-terminal domain	F: YcaO_2nd	ECOD (1.6)
B	YcaO_1st	e6cibB2	A: a+b two layers	X: dsRBD-like	H: Heterocyclase TruD C-terminal domain (From Topology)	T: Heterocyclase TruD C-terminal domain	F: YcaO_1st	ECOD (1.6)
B	UNK_F_TYPE	e6cibB1	A: a+b two layers	X: dsRBD-like	H: Heterocyclase TruD C-terminal domain (From Topology)	T: Heterocyclase TruD C-terminal domain	F: UNK_F_TYPE	ECOD (1.6)
C	YcaO_2nd	e6cibC1	A: a+b two layers	X: dsRBD-like	H: Heterocyclase TruD C-terminal domain (From Topology)	T: Heterocyclase TruD C-terminal domain	F: YcaO_2nd	ECOD (1.6)
C	YcaO_1st	e6cibC2	A: a+b two layers	X: dsRBD-like	H: Heterocyclase TruD C-terminal domain (From Topology)	T: Heterocyclase TruD C-terminal domain	F: YcaO_1st	ECOD (1.6)
C	UNK_F_TYPE	e6cibC3	A: a+b two layers	X: dsRBD-like	H: Heterocyclase TruD C-terminal domain (From Topology)	T: Heterocyclase TruD C-terminal domain	F: UNK_F_TYPE	ECOD (1.6)
D	YcaO_2nd	e6cibD1	A: a+b two layers	X: dsRBD-like	H: Heterocyclase TruD C-terminal domain (From Topology)	T: Heterocyclase TruD C-terminal domain	F: YcaO_2nd	ECOD (1.6)
D	YcaO_1st	e6cibD3	A: a+b two layers	X: dsRBD-like	H: Heterocyclase TruD C-terminal domain (From Topology)	T: Heterocyclase TruD C-terminal domain	F: YcaO_1st	ECOD (1.6)
D	UNK_F_TYPE	e6cibD2	A: a+b two layers	X: dsRBD-like	H: Heterocyclase TruD C-terminal domain (From Topology)	T: Heterocyclase TruD C-terminal domain	F: UNK_F_TYPE	ECOD (1.6)
F	YcaO_2nd	e6cibF1	A: a+b two layers	X: dsRBD-like	H: Heterocyclase TruD C-terminal domain (From Topology)	T: Heterocyclase TruD C-terminal domain	F: YcaO_2nd	ECOD (1.6)
F	YcaO_1st	e6cibF3	A: a+b two layers	X: dsRBD-like	H: Heterocyclase TruD C-terminal domain (From Topology)	T: Heterocyclase TruD C-terminal domain	F: YcaO_1st	ECOD (1.6)
F	UNK_F_TYPE	e6cibF2	A: a+b two layers	X: dsRBD-like	H: Heterocyclase TruD C-terminal domain (From Topology)	T: Heterocyclase TruD C-terminal domain	F: UNK_F_TYPE	ECOD (1.6)
E	YcaO_2nd	e6cibE3	A: a+b two layers	X: dsRBD-like	H: Heterocyclase TruD C-terminal domain (From Topology)	T: Heterocyclase TruD C-terminal domain	F: YcaO_2nd	ECOD (1.6)
E	YcaO_1st	e6cibE1	A: a+b two layers	X: dsRBD-like	H: Heterocyclase TruD C-terminal domain (From Topology)	T: Heterocyclase TruD C-terminal domain	F: YcaO_1st	ECOD (1.6)
E	UNK_F_TYPE	e6cibE2	A: a+b two layers	X: dsRBD-like	H: Heterocyclase TruD C-terminal domain (From Topology)	T: Heterocyclase TruD C-terminal domain	F: UNK_F_TYPE	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	3.30.160.660	Alpha Beta	2-Layer Sandwich	Double Stranded RNA Binding Domain		CATH (utative)
B	3.30.160.660	Alpha Beta	2-Layer Sandwich	Double Stranded RNA Binding Domain		CATH (utative)
C	3.30.160.660	Alpha Beta	2-Layer Sandwich	Double Stranded RNA Binding Domain		CATH (utative)
D	3.30.160.660	Alpha Beta	2-Layer Sandwich	Double Stranded RNA Binding Domain		CATH (utative)
F	3.30.160.660	Alpha Beta	2-Layer Sandwich	Double Stranded RNA Binding Domain		CATH (utative)
E	3.30.160.660	Alpha Beta	2-Layer Sandwich	Double Stranded RNA Binding Domain		CATH (utative)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B, C, D, E A, B, C, D, E, F	PF02624	YcaO cyclodehydratase, ATP-ad Mg2+-binding (YcaO)	YcaO cyclodehydratase, ATP-ad Mg2+-binding	-	Family

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B, C, D, E A, B, C, D, E, F	YcaO	binding nucleoside phosphate binding nucleotide binding heterocyclic compound binding small molecule binding cation binding ion binding metal ion binding	-	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B, C, D, E A, B, C, D, E, F	IPR003776	YcaO-like domain	Domain
A, B, C, D, E A, B, C, D, E, F	IPR017667	MTH_987/MJ1094	Family

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.