1S4D | pdb_00001s4d

Crystal Structure Analysis of the S-adenosyl-L-methionine dependent uroporphyrinogen-III C-methyltransferase SUMT

External Resource: Annotation

Domain Annotation: SCOP/SCOPe Classification
Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
Domain Annotation: CATH
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification

Domain Annotation: SCOP/SCOPe Classification SCOP-e Database Homepage

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
L [auth M]	d1s4dm_	Alpha and beta proteins (a/b)	Tetrapyrrole methylase	Tetrapyrrole methylase	Tetrapyrrole methylase	Uroporphyrin-III C-methyltransferase (SUMT, UROM, CobA)	(Pseudomonas denitrificans (nom. rej.) ) [TaxId: 43306 ],	SCOPe (2.08)
K [auth L]	d1s4dl_	Alpha and beta proteins (a/b)	Tetrapyrrole methylase	Tetrapyrrole methylase	Tetrapyrrole methylase	Uroporphyrin-III C-methyltransferase (SUMT, UROM, CobA)	(Pseudomonas denitrificans (nom. rej.) ) [TaxId: 43306 ],	SCOPe (2.08)
J [auth K]	d1s4dk_	Alpha and beta proteins (a/b)	Tetrapyrrole methylase	Tetrapyrrole methylase	Tetrapyrrole methylase	Uroporphyrin-III C-methyltransferase (SUMT, UROM, CobA)	(Pseudomonas denitrificans (nom. rej.) ) [TaxId: 43306 ],	SCOPe (2.08)
I [auth J]	d1s4dj_	Alpha and beta proteins (a/b)	Tetrapyrrole methylase	Tetrapyrrole methylase	Tetrapyrrole methylase	Uroporphyrin-III C-methyltransferase (SUMT, UROM, CobA)	(Pseudomonas denitrificans (nom. rej.) ) [TaxId: 43306 ],	SCOPe (2.08)
H [auth I]	d1s4di_	Alpha and beta proteins (a/b)	Tetrapyrrole methylase	Tetrapyrrole methylase	Tetrapyrrole methylase	Uroporphyrin-III C-methyltransferase (SUMT, UROM, CobA)	(Pseudomonas denitrificans (nom. rej.) ) [TaxId: 43306 ],	SCOPe (2.08)
G [auth H]	d1s4dh_	Alpha and beta proteins (a/b)	Tetrapyrrole methylase	Tetrapyrrole methylase	Tetrapyrrole methylase	Uroporphyrin-III C-methyltransferase (SUMT, UROM, CobA)	(Pseudomonas denitrificans (nom. rej.) ) [TaxId: 43306 ],	SCOPe (2.08)
F [auth G]	d1s4dg_	Alpha and beta proteins (a/b)	Tetrapyrrole methylase	Tetrapyrrole methylase	Tetrapyrrole methylase	Uroporphyrin-III C-methyltransferase (SUMT, UROM, CobA)	(Pseudomonas denitrificans (nom. rej.) ) [TaxId: 43306 ],	SCOPe (2.08)
E [auth F]	d1s4df_	Alpha and beta proteins (a/b)	Tetrapyrrole methylase	Tetrapyrrole methylase	Tetrapyrrole methylase	Uroporphyrin-III C-methyltransferase (SUMT, UROM, CobA)	(Pseudomonas denitrificans (nom. rej.) ) [TaxId: 43306 ],	SCOPe (2.08)
D [auth E]	d1s4de_	Alpha and beta proteins (a/b)	Tetrapyrrole methylase	Tetrapyrrole methylase	Tetrapyrrole methylase	Uroporphyrin-III C-methyltransferase (SUMT, UROM, CobA)	(Pseudomonas denitrificans (nom. rej.) ) [TaxId: 43306 ],	SCOPe (2.08)
C [auth D]	d1s4dd_	Alpha and beta proteins (a/b)	Tetrapyrrole methylase	Tetrapyrrole methylase	Tetrapyrrole methylase	Uroporphyrin-III C-methyltransferase (SUMT, UROM, CobA)	(Pseudomonas denitrificans (nom. rej.) ) [TaxId: 43306 ],	SCOPe (2.08)
B	d1s4db_	Alpha and beta proteins (a/b)	Tetrapyrrole methylase	Tetrapyrrole methylase	Tetrapyrrole methylase	Uroporphyrin-III C-methyltransferase (SUMT, UROM, CobA)	(Pseudomonas denitrificans (nom. rej.) ) [TaxId: 43306 ],	SCOPe (2.08)
A	d1s4da_	Alpha and beta proteins (a/b)	Tetrapyrrole methylase	Tetrapyrrole methylase	Tetrapyrrole methylase	Uroporphyrin-III C-methyltransferase (SUMT, UROM, CobA)	(Pseudomonas denitrificans (nom. rej.) ) [TaxId: 43306 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
L [auth M]	SCOP2B Superfamily	Tetrapyrrole methylase	8057828	3000017	SCOP2B (2022-06-29)
K [auth L]	SCOP2B Superfamily	Tetrapyrrole methylase	8057828	3000017	SCOP2B (2022-06-29)
J [auth K]	SCOP2B Superfamily	Tetrapyrrole methylase	8057828	3000017	SCOP2B (2022-06-29)
I [auth J]	SCOP2B Superfamily	Tetrapyrrole methylase	8057828	3000017	SCOP2B (2022-06-29)
H [auth I]	SCOP2B Superfamily	Tetrapyrrole methylase	8057828	3000017	SCOP2B (2022-06-29)
G [auth H]	SCOP2B Superfamily	Tetrapyrrole methylase	8057828	3000017	SCOP2B (2022-06-29)
F [auth G]	SCOP2B Superfamily	Tetrapyrrole methylase	8057828	3000017	SCOP2B (2022-06-29)
E [auth F]	SCOP2B Superfamily	Tetrapyrrole methylase	8057828	3000017	SCOP2B (2022-06-29)
D [auth E]	SCOP2B Superfamily	Tetrapyrrole methylase	8057828	3000017	SCOP2B (2022-06-29)
C [auth D]	SCOP2B Superfamily	Tetrapyrrole methylase	8057828	3000017	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	Tetrapyrrole methylase	8057828	3000017	SCOP2B (2022-06-29)
A	SCOP2 Family	Tetrapyrrole methylase	8057827	4000056	SCOP2 (2022-06-29)
A	SCOP2 Superfamily	Tetrapyrrole methylase	8057828	3000017	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)
L [auth M]	TP_methylase	e1s4dM1	A: a/b three-layered sandwiches	X: Tetrapyrrole methylase C-terminal domain-like	H: Tetrapyrrole methylase C-terminal domain	T: Tetrapyrrole methylase C-terminal domain	F: TP_methylase	ECOD (v294.1)
K [auth L]	TP_methylase	e1s4dL1	A: a/b three-layered sandwiches	X: Tetrapyrrole methylase C-terminal domain-like	H: Tetrapyrrole methylase C-terminal domain	T: Tetrapyrrole methylase C-terminal domain	F: TP_methylase	ECOD (v294.1)
J [auth K]	TP_methylase	e1s4dK1	A: a/b three-layered sandwiches	X: Tetrapyrrole methylase C-terminal domain-like	H: Tetrapyrrole methylase C-terminal domain	T: Tetrapyrrole methylase C-terminal domain	F: TP_methylase	ECOD (v294.1)
I [auth J]	TP_methylase	e1s4dJ1	A: a/b three-layered sandwiches	X: Tetrapyrrole methylase C-terminal domain-like	H: Tetrapyrrole methylase C-terminal domain	T: Tetrapyrrole methylase C-terminal domain	F: TP_methylase	ECOD (v294.1)
H [auth I]	TP_methylase	e1s4dI1	A: a/b three-layered sandwiches	X: Tetrapyrrole methylase C-terminal domain-like	H: Tetrapyrrole methylase C-terminal domain	T: Tetrapyrrole methylase C-terminal domain	F: TP_methylase	ECOD (v294.1)
G [auth H]	TP_methylase	e1s4dH1	A: a/b three-layered sandwiches	X: Tetrapyrrole methylase C-terminal domain-like	H: Tetrapyrrole methylase C-terminal domain	T: Tetrapyrrole methylase C-terminal domain	F: TP_methylase	ECOD (v294.1)
F [auth G]	TP_methylase	e1s4dG1	A: a/b three-layered sandwiches	X: Tetrapyrrole methylase C-terminal domain-like	H: Tetrapyrrole methylase C-terminal domain	T: Tetrapyrrole methylase C-terminal domain	F: TP_methylase	ECOD (v294.1)
E [auth F]	TP_methylase	e1s4dF1	A: a/b three-layered sandwiches	X: Tetrapyrrole methylase C-terminal domain-like	H: Tetrapyrrole methylase C-terminal domain	T: Tetrapyrrole methylase C-terminal domain	F: TP_methylase	ECOD (v294.1)
D [auth E]	TP_methylase	e1s4dE1	A: a/b three-layered sandwiches	X: Tetrapyrrole methylase C-terminal domain-like	H: Tetrapyrrole methylase C-terminal domain	T: Tetrapyrrole methylase C-terminal domain	F: TP_methylase	ECOD (v294.1)
C [auth D]	TP_methylase	e1s4dD1	A: a/b three-layered sandwiches	X: Tetrapyrrole methylase C-terminal domain-like	H: Tetrapyrrole methylase C-terminal domain	T: Tetrapyrrole methylase C-terminal domain	F: TP_methylase	ECOD (v294.1)
B	TP_methylase	e1s4dB1	A: a/b three-layered sandwiches	X: Tetrapyrrole methylase C-terminal domain-like	H: Tetrapyrrole methylase C-terminal domain	T: Tetrapyrrole methylase C-terminal domain	F: TP_methylase	ECOD (v294.1)
A	TP_methylase	e1s4dA1	A: a/b three-layered sandwiches	X: Tetrapyrrole methylase C-terminal domain-like	H: Tetrapyrrole methylase C-terminal domain	T: Tetrapyrrole methylase C-terminal domain	F: TP_methylase	ECOD (v294.1)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
L [auth M]	3.40.1010.10	Alpha Beta	3-Layer(aba) Sandwich	Cobalt-precorrin-4 Transmethylase	domain 1	CATH (4.3.0)
L [auth M]	3.30.950.10	Alpha Beta	2-Layer Sandwich	Methyltransferase, Cobalt-precorrin-4 Transmethylase	Domain 2	CATH (4.3.0)
K [auth L]	3.40.1010.10	Alpha Beta	3-Layer(aba) Sandwich	Cobalt-precorrin-4 Transmethylase	domain 1	CATH (4.3.0)
K [auth L]	3.30.950.10	Alpha Beta	2-Layer Sandwich	Methyltransferase, Cobalt-precorrin-4 Transmethylase	Domain 2	CATH (4.3.0)
J [auth K]	3.40.1010.10	Alpha Beta	3-Layer(aba) Sandwich	Cobalt-precorrin-4 Transmethylase	domain 1	CATH (4.3.0)
J [auth K]	3.30.950.10	Alpha Beta	2-Layer Sandwich	Methyltransferase, Cobalt-precorrin-4 Transmethylase	Domain 2	CATH (4.3.0)
I [auth J]	3.40.1010.10	Alpha Beta	3-Layer(aba) Sandwich	Cobalt-precorrin-4 Transmethylase	domain 1	CATH (4.3.0)
I [auth J]	3.30.950.10	Alpha Beta	2-Layer Sandwich	Methyltransferase, Cobalt-precorrin-4 Transmethylase	Domain 2	CATH (4.3.0)
H [auth I]	3.40.1010.10	Alpha Beta	3-Layer(aba) Sandwich	Cobalt-precorrin-4 Transmethylase	domain 1	CATH (4.3.0)
H [auth I]	3.30.950.10	Alpha Beta	2-Layer Sandwich	Methyltransferase, Cobalt-precorrin-4 Transmethylase	Domain 2	CATH (4.3.0)
G [auth H]	3.40.1010.10	Alpha Beta	3-Layer(aba) Sandwich	Cobalt-precorrin-4 Transmethylase	domain 1	CATH (4.3.0)
G [auth H]	3.30.950.10	Alpha Beta	2-Layer Sandwich	Methyltransferase, Cobalt-precorrin-4 Transmethylase	Domain 2	CATH (4.3.0)
F [auth G]	3.40.1010.10	Alpha Beta	3-Layer(aba) Sandwich	Cobalt-precorrin-4 Transmethylase	domain 1	CATH (4.3.0)
F [auth G]	3.30.950.10	Alpha Beta	2-Layer Sandwich	Methyltransferase, Cobalt-precorrin-4 Transmethylase	Domain 2	CATH (4.3.0)
E [auth F]	3.40.1010.10	Alpha Beta	3-Layer(aba) Sandwich	Cobalt-precorrin-4 Transmethylase	domain 1	CATH (4.3.0)
E [auth F]	3.30.950.10	Alpha Beta	2-Layer Sandwich	Methyltransferase, Cobalt-precorrin-4 Transmethylase	Domain 2	CATH (4.3.0)
D [auth E]	3.40.1010.10	Alpha Beta	3-Layer(aba) Sandwich	Cobalt-precorrin-4 Transmethylase	domain 1	CATH (4.3.0)
D [auth E]	3.30.950.10	Alpha Beta	2-Layer Sandwich	Methyltransferase, Cobalt-precorrin-4 Transmethylase	Domain 2	CATH (4.3.0)
C [auth D]	3.40.1010.10	Alpha Beta	3-Layer(aba) Sandwich	Cobalt-precorrin-4 Transmethylase	domain 1	CATH (4.3.0)
C [auth D]	3.30.950.10	Alpha Beta	2-Layer Sandwich	Methyltransferase, Cobalt-precorrin-4 Transmethylase	Domain 2	CATH (4.3.0)
B	3.40.1010.10	Alpha Beta	3-Layer(aba) Sandwich	Cobalt-precorrin-4 Transmethylase	domain 1	CATH (4.3.0)
B	3.30.950.10	Alpha Beta	2-Layer Sandwich	Methyltransferase, Cobalt-precorrin-4 Transmethylase	Domain 2	CATH (4.3.0)
A	3.40.1010.10	Alpha Beta	3-Layer(aba) Sandwich	Cobalt-precorrin-4 Transmethylase	domain 1	CATH (4.3.0)
A	3.30.950.10	Alpha Beta	2-Layer Sandwich	Methyltransferase, Cobalt-precorrin-4 Transmethylase	Domain 2	CATH (4.3.0)

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B, C [auth D], D [auth E], E [auth F], A, B, C [auth D], D [auth E], E [auth F], F [auth G], G [auth H], H [auth I], I [auth J], J [auth K], K [auth L], L [auth M]	Uroporphyrin-III C-methyltransferase	C-methyltransferase activity transferase activity, transferring one-carbon groups transferase activity methyltransferase activity catalytic activity S-adenosylmethionine-dependent methyltransferase activity uroporphyrin-III C-methyltransferase activity	methylation metabolic process cellular process heme metabolic process pigment metabolic process porphyrin-containing compound biosynthetic process tetrapyrrole metabolic process heme biosynthetic process siroheme biosynthetic process pigment biosynthetic process tetrapyrrole biosynthetic process biosynthetic process porphyrin-containing compound metabolic process cobalamin metabolic process methylation metabolic process cellular process heme metabolic process pigment metabolic process porphyrin-containing compound biosynthetic process tetrapyrrole metabolic process heme biosynthetic process siroheme biosynthetic process pigment biosynthetic process tetrapyrrole biosynthetic process biosynthetic process porphyrin-containing compound metabolic process cobalamin metabolic process cobalamin biosynthetic process water-soluble vitamin biosynthetic process small molecule biosynthetic process vitamin biosynthetic process vitamin metabolic process small molecule metabolic process	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B, C [auth D], D [auth E], E [auth F], A, B, C [auth D], D [auth E], E [auth F], F [auth G], G [auth H], H [auth I], I [auth J], J [auth K], K [auth L], L [auth M]	IPR035996	Tetrapyrrole methylase superfamily	Homologous Superfamily
A, B, C [auth D], D [auth E], E [auth F], A, B, C [auth D], D [auth E], E [auth F], F [auth G], G [auth H], H [auth I], I [auth J], J [auth K], K [auth L], L [auth M]	IPR014777	Tetrapyrrole methylase, subdomain 1	Homologous Superfamily
A, B, C [auth D], D [auth E], E [auth F], A, B, C [auth D], D [auth E], E [auth F], F [auth G], G [auth H], H [auth I], I [auth J], J [auth K], K [auth L], L [auth M]	IPR003043	Uroporphiryn-III C-methyltransferase, conserved site	Conserved Site
A, B, C [auth D], D [auth E], E [auth F], A, B, C [auth D], D [auth E], E [auth F], F [auth G], G [auth H], H [auth I], I [auth J], J [auth K], K [auth L], L [auth M]	IPR014776	Tetrapyrrole methylase, subdomain 2	Homologous Superfamily
A, B, C [auth D], D [auth E], E [auth F], A, B, C [auth D], D [auth E], E [auth F], F [auth G], G [auth H], H [auth I], I [auth J], J [auth K], K [auth L], L [auth M]	IPR000878	Tetrapyrrole methylase	Domain
A, B, C [auth D], D [auth E], E [auth F], A, B, C [auth D], D [auth E], E [auth F], F [auth G], G [auth H], H [auth I], I [auth J], J [auth K], K [auth L], L [auth M]	IPR006366	Uroporphyrin-III C-methyltransferase	Domain
A, B, C [auth D], D [auth E], E [auth F], A, B, C [auth D], D [auth E], E [auth F], F [auth G], G [auth H], H [auth I], I [auth J], J [auth K], K [auth L], L [auth M]	IPR050161	Siroheme/cobalamin biosynthesis enzyme	Family