3CJT

Ribosomal protein L11 methyltransferase (PrmA) in complex with dimethylated ribosomal protein L11

External Resource: Annotation

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

Domain Annotation: SCOP/SCOPe Classification SCOP Database Homepage

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
B	d3cjtb1	All alpha proteins	DNA/RNA-binding 3-helical bundle	Ribosomal protein L11, C-terminal domain	Ribosomal protein L11, C-terminal domain	Ribosomal protein L11, C-terminal domain	(Thermus thermophilus ) [TaxId: 274 ],	SCOPe (2.08)
B	d3cjtb2	Alpha and beta proteins (a+b)	Ribosomal L11/L12e N-terminal domain	Ribosomal L11/L12e N-terminal domain	Ribosomal L11/L12e N-terminal domain	Ribosomal protein L11, N-terminal domain	(Thermus thermophilus ) [TaxId: 274 ],	SCOPe (2.08)
F	d3cjtf1	All alpha proteins	DNA/RNA-binding 3-helical bundle	Ribosomal protein L11, C-terminal domain	Ribosomal protein L11, C-terminal domain	Ribosomal protein L11, C-terminal domain	(Thermus thermophilus ) [TaxId: 274 ],	SCOPe (2.08)
F	d3cjtf2	Alpha and beta proteins (a+b)	Ribosomal L11/L12e N-terminal domain	Ribosomal L11/L12e N-terminal domain	Ribosomal L11/L12e N-terminal domain	Ribosomal protein L11, N-terminal domain	(Thermus thermophilus ) [TaxId: 274 ],	SCOPe (2.08)
J	d3cjtj1	All alpha proteins	DNA/RNA-binding 3-helical bundle	Ribosomal protein L11, C-terminal domain	Ribosomal protein L11, C-terminal domain	Ribosomal protein L11, C-terminal domain	(Thermus thermophilus ) [TaxId: 274 ],	SCOPe (2.08)
J	d3cjtj2	Alpha and beta proteins (a+b)	Ribosomal L11/L12e N-terminal domain	Ribosomal L11/L12e N-terminal domain	Ribosomal L11/L12e N-terminal domain	Ribosomal protein L11, N-terminal domain	(Thermus thermophilus ) [TaxId: 274 ],	SCOPe (2.08)
N	d3cjtn1	All alpha proteins	DNA/RNA-binding 3-helical bundle	Ribosomal protein L11, C-terminal domain	Ribosomal protein L11, C-terminal domain	Ribosomal protein L11, C-terminal domain	(Thermus thermophilus ) [TaxId: 274 ],	SCOPe (2.08)
N	d3cjtn2	Alpha and beta proteins (a+b)	Ribosomal L11/L12e N-terminal domain	Ribosomal L11/L12e N-terminal domain	Ribosomal L11/L12e N-terminal domain	Ribosomal protein L11, N-terminal domain	(Thermus thermophilus ) [TaxId: 274 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
A	SCOP2B Superfamily	S-adenosyl-L-methionine-dependent methyltransferases	8041051	3000118	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	S-adenosyl-L-methionine-dependent methyltransferases	8041051	3000118	SCOP2B (2022-06-29)
E	SCOP2B Superfamily	S-adenosyl-L-methionine-dependent methyltransferases	8041051	3000118	SCOP2B (2022-06-29)
G	SCOP2B Superfamily	S-adenosyl-L-methionine-dependent methyltransferases	8041051	3000118	SCOP2B (2022-06-29)
I	SCOP2B Superfamily	S-adenosyl-L-methionine-dependent methyltransferases	8041051	3000118	SCOP2B (2022-06-29)
K	SCOP2B Superfamily	S-adenosyl-L-methionine-dependent methyltransferases	8041051	3000118	SCOP2B (2022-06-29)
M	SCOP2B Superfamily	S-adenosyl-L-methionine-dependent methyltransferases	8041051	3000118	SCOP2B (2022-06-29)
O	SCOP2B Superfamily	S-adenosyl-L-methionine-dependent methyltransferases	8041051	3000118	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	Ribosomal L11/L12e N-terminal domain-like	8040122	3000950	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	Ribosomal protein L11 C-terminal domain	8034177	3001186	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	Ribosomal L11/L12e N-terminal domain-like	8040122	3000950	SCOP2B (2022-06-29)
F	SCOP2B Superfamily	Ribosomal protein L11 C-terminal domain	8034177	3001186	SCOP2B (2022-06-29)
F	SCOP2B Superfamily	Ribosomal L11/L12e N-terminal domain-like	8040122	3000950	SCOP2B (2022-06-29)
H	SCOP2B Superfamily	Ribosomal L11/L12e N-terminal domain-like	8040122	3000950	SCOP2B (2022-06-29)
J	SCOP2B Superfamily	Ribosomal L11/L12e N-terminal domain-like	8040122	3000950	SCOP2B (2022-06-29)
J	SCOP2B Superfamily	Ribosomal protein L11 C-terminal domain	8034177	3001186	SCOP2B (2022-06-29)
L	SCOP2B Superfamily	Ribosomal L11/L12e N-terminal domain-like	8040122	3000950	SCOP2B (2022-06-29)
N	SCOP2B Superfamily	Ribosomal L11/L12e N-terminal domain-like	8040122	3000950	SCOP2B (2022-06-29)
N	SCOP2B Superfamily	Ribosomal protein L11 C-terminal domain	8034177	3001186	SCOP2B (2022-06-29)
P	SCOP2B Superfamily	Ribosomal L11/L12e N-terminal domain-like	8040122	3000950	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	prmA_like	e3cjtA2	A: a+b two layers	X: Alpha-beta plaits	H: Ribosomal protein L11 methyltransferase PrmA N-terminal ferredoxin-like domain (From Topology)	T: Ribosomal protein L11 methyltransferase PrmA N-terminal ferredoxin-like domain	F: prmA_like	ECOD (1.6)
A	Methyltransf_11_4	e3cjtA3	A: a/b three-layered sandwiches	X: Rossmann-like	H: Rossmann-related	T: S-adenosyl-L-methionine-dependent methyltransferases	F: Methyltransf_11_4	ECOD (1.6)
C	prmA_like	e3cjtC2	A: a+b two layers	X: Alpha-beta plaits	H: Ribosomal protein L11 methyltransferase PrmA N-terminal ferredoxin-like domain (From Topology)	T: Ribosomal protein L11 methyltransferase PrmA N-terminal ferredoxin-like domain	F: prmA_like	ECOD (1.6)
C	Methyltransf_11_4	e3cjtC3	A: a/b three-layered sandwiches	X: Rossmann-like	H: Rossmann-related	T: S-adenosyl-L-methionine-dependent methyltransferases	F: Methyltransf_11_4	ECOD (1.6)
E	prmA_like	e3cjtE2	A: a+b two layers	X: Alpha-beta plaits	H: Ribosomal protein L11 methyltransferase PrmA N-terminal ferredoxin-like domain (From Topology)	T: Ribosomal protein L11 methyltransferase PrmA N-terminal ferredoxin-like domain	F: prmA_like	ECOD (1.6)
E	Methyltransf_11_4	e3cjtE3	A: a/b three-layered sandwiches	X: Rossmann-like	H: Rossmann-related	T: S-adenosyl-L-methionine-dependent methyltransferases	F: Methyltransf_11_4	ECOD (1.6)
G	prmA_like	e3cjtG2	A: a+b two layers	X: Alpha-beta plaits	H: Ribosomal protein L11 methyltransferase PrmA N-terminal ferredoxin-like domain (From Topology)	T: Ribosomal protein L11 methyltransferase PrmA N-terminal ferredoxin-like domain	F: prmA_like	ECOD (1.6)
G	Methyltransf_11_4	e3cjtG3	A: a/b three-layered sandwiches	X: Rossmann-like	H: Rossmann-related	T: S-adenosyl-L-methionine-dependent methyltransferases	F: Methyltransf_11_4	ECOD (1.6)
I	prmA_like	e3cjtI2	A: a+b two layers	X: Alpha-beta plaits	H: Ribosomal protein L11 methyltransferase PrmA N-terminal ferredoxin-like domain (From Topology)	T: Ribosomal protein L11 methyltransferase PrmA N-terminal ferredoxin-like domain	F: prmA_like	ECOD (1.6)
I	Methyltransf_11_4	e3cjtI3	A: a/b three-layered sandwiches	X: Rossmann-like	H: Rossmann-related	T: S-adenosyl-L-methionine-dependent methyltransferases	F: Methyltransf_11_4	ECOD (1.6)
K	prmA_like	e3cjtK2	A: a+b two layers	X: Alpha-beta plaits	H: Ribosomal protein L11 methyltransferase PrmA N-terminal ferredoxin-like domain (From Topology)	T: Ribosomal protein L11 methyltransferase PrmA N-terminal ferredoxin-like domain	F: prmA_like	ECOD (1.6)
K	Methyltransf_11_4	e3cjtK3	A: a/b three-layered sandwiches	X: Rossmann-like	H: Rossmann-related	T: S-adenosyl-L-methionine-dependent methyltransferases	F: Methyltransf_11_4	ECOD (1.6)
M	prmA_like	e3cjtM2	A: a+b two layers	X: Alpha-beta plaits	H: Ribosomal protein L11 methyltransferase PrmA N-terminal ferredoxin-like domain (From Topology)	T: Ribosomal protein L11 methyltransferase PrmA N-terminal ferredoxin-like domain	F: prmA_like	ECOD (1.6)
M	Methyltransf_11_4	e3cjtM3	A: a/b three-layered sandwiches	X: Rossmann-like	H: Rossmann-related	T: S-adenosyl-L-methionine-dependent methyltransferases	F: Methyltransf_11_4	ECOD (1.6)
O	prmA_like	e3cjtO2	A: a+b two layers	X: Alpha-beta plaits	H: Ribosomal protein L11 methyltransferase PrmA N-terminal ferredoxin-like domain (From Topology)	T: Ribosomal protein L11 methyltransferase PrmA N-terminal ferredoxin-like domain	F: prmA_like	ECOD (1.6)
O	Methyltransf_11_4	e3cjtO3	A: a/b three-layered sandwiches	X: Rossmann-like	H: Rossmann-related	T: S-adenosyl-L-methionine-dependent methyltransferases	F: Methyltransf_11_4	ECOD (1.6)
B	Ribosomal_L11	e3cjtB4	A: alpha arrays	X: HTH	H: HTH	T: Ribosomal protein L11, C-terminal domain	F: Ribosomal_L11	ECOD (1.6)
B	Ribosomal_L11_N	e3cjtB3	A: a+b two layers	X: Ribosomal protein L11/L12e N-terminal domain-like	H: Ribosomal protein L11/L12e N-terminal domain (From Topology)	T: Ribosomal protein L11/L12e N-terminal domain	F: Ribosomal_L11_N	ECOD (1.6)
D	Ribosomal_L11_N	e3cjtD1	A: a+b two layers	X: Ribosomal protein L11/L12e N-terminal domain-like	H: Ribosomal protein L11/L12e N-terminal domain (From Topology)	T: Ribosomal protein L11/L12e N-terminal domain	F: Ribosomal_L11_N	ECOD (1.6)
F	Ribosomal_L11	e3cjtF1	A: alpha arrays	X: HTH	H: HTH	T: Ribosomal protein L11, C-terminal domain	F: Ribosomal_L11	ECOD (1.6)
F	Ribosomal_L11_N	e3cjtF2	A: a+b two layers	X: Ribosomal protein L11/L12e N-terminal domain-like	H: Ribosomal protein L11/L12e N-terminal domain (From Topology)	T: Ribosomal protein L11/L12e N-terminal domain	F: Ribosomal_L11_N	ECOD (1.6)
H	Ribosomal_L11_N	e3cjtH1	A: a+b two layers	X: Ribosomal protein L11/L12e N-terminal domain-like	H: Ribosomal protein L11/L12e N-terminal domain (From Topology)	T: Ribosomal protein L11/L12e N-terminal domain	F: Ribosomal_L11_N	ECOD (1.6)
J	Ribosomal_L11	e3cjtJ4	A: alpha arrays	X: HTH	H: HTH	T: Ribosomal protein L11, C-terminal domain	F: Ribosomal_L11	ECOD (1.6)
J	Ribosomal_L11_N	e3cjtJ3	A: a+b two layers	X: Ribosomal protein L11/L12e N-terminal domain-like	H: Ribosomal protein L11/L12e N-terminal domain (From Topology)	T: Ribosomal protein L11/L12e N-terminal domain	F: Ribosomal_L11_N	ECOD (1.6)
L	Ribosomal_L11_N	e3cjtL1	A: a+b two layers	X: Ribosomal protein L11/L12e N-terminal domain-like	H: Ribosomal protein L11/L12e N-terminal domain (From Topology)	T: Ribosomal protein L11/L12e N-terminal domain	F: Ribosomal_L11_N	ECOD (1.6)
N	Ribosomal_L11	e3cjtN4	A: alpha arrays	X: HTH	H: HTH	T: Ribosomal protein L11, C-terminal domain	F: Ribosomal_L11	ECOD (1.6)
N	Ribosomal_L11_N	e3cjtN3	A: a+b two layers	X: Ribosomal protein L11/L12e N-terminal domain-like	H: Ribosomal protein L11/L12e N-terminal domain (From Topology)	T: Ribosomal protein L11/L12e N-terminal domain	F: Ribosomal_L11_N	ECOD (1.6)
P	Ribosomal_L11_N	e3cjtP1	A: a+b two layers	X: Ribosomal protein L11/L12e N-terminal domain-like	H: Ribosomal protein L11/L12e N-terminal domain (From Topology)	T: Ribosomal protein L11/L12e N-terminal domain	F: Ribosomal_L11_N	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	3.30.70.1170	Alpha Beta	2-Layer Sandwich	Alpha-Beta Plaits	Sun protein	CATH (4.3.0)
A	3.40.50.150	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	Vaccinia Virus protein VP39	CATH (4.3.0)
C	3.30.70.1170	Alpha Beta	2-Layer Sandwich	Alpha-Beta Plaits	Sun protein	CATH (4.3.0)
C	3.40.50.150	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	Vaccinia Virus protein VP39	CATH (4.3.0)
E	3.30.70.1170	Alpha Beta	2-Layer Sandwich	Alpha-Beta Plaits	Sun protein	CATH (4.3.0)
E	3.40.50.150	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	Vaccinia Virus protein VP39	CATH (4.3.0)
G	3.30.70.1170	Alpha Beta	2-Layer Sandwich	Alpha-Beta Plaits	Sun protein	CATH (4.3.0)
G	3.40.50.150	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	Vaccinia Virus protein VP39	CATH (4.3.0)
I	3.30.70.1170	Alpha Beta	2-Layer Sandwich	Alpha-Beta Plaits	Sun protein	CATH (4.3.0)
I	3.40.50.150	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	Vaccinia Virus protein VP39	CATH (4.3.0)
K	3.30.70.1170	Alpha Beta	2-Layer Sandwich	Alpha-Beta Plaits	Sun protein	CATH (4.3.0)
K	3.40.50.150	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	Vaccinia Virus protein VP39	CATH (4.3.0)
M	3.30.70.1170	Alpha Beta	2-Layer Sandwich	Alpha-Beta Plaits	Sun protein	CATH (4.3.0)
M	3.40.50.150	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	Vaccinia Virus protein VP39	CATH (4.3.0)
O	3.30.70.1170	Alpha Beta	2-Layer Sandwich	Alpha-Beta Plaits	Sun protein	CATH (4.3.0)
O	3.40.50.150	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	Vaccinia Virus protein VP39	CATH (4.3.0)
B	3.30.1550.10	Alpha Beta	2-Layer Sandwich	Ribosomal protein L11, N-terminal domain	Ribosomal protein L11/L12, N-terminal domain	CATH (4.3.0)
B	1.10.10.250	Mainly Alpha	Orthogonal Bundle	Arc Repressor Mutant, subunit A	Ribosomal protein L11/L12, C-terminal domain	CATH (4.3.0)
D	3.30.1550.10	Alpha Beta	2-Layer Sandwich	Ribosomal protein L11, N-terminal domain	Ribosomal protein L11/L12, N-terminal domain	CATH (4.3.0)
F	3.30.1550.10	Alpha Beta	2-Layer Sandwich	Ribosomal protein L11, N-terminal domain	Ribosomal protein L11/L12, N-terminal domain	CATH (4.3.0)
F	1.10.10.250	Mainly Alpha	Orthogonal Bundle	Arc Repressor Mutant, subunit A	Ribosomal protein L11/L12, C-terminal domain	CATH (4.3.0)
H	3.30.1550.10	Alpha Beta	2-Layer Sandwich	Ribosomal protein L11, N-terminal domain	Ribosomal protein L11/L12, N-terminal domain	CATH (4.3.0)
J	3.30.1550.10	Alpha Beta	2-Layer Sandwich	Ribosomal protein L11, N-terminal domain	Ribosomal protein L11/L12, N-terminal domain	CATH (4.3.0)
J	1.10.10.250	Mainly Alpha	Orthogonal Bundle	Arc Repressor Mutant, subunit A	Ribosomal protein L11/L12, C-terminal domain	CATH (4.3.0)
L	3.30.1550.10	Alpha Beta	2-Layer Sandwich	Ribosomal protein L11, N-terminal domain	Ribosomal protein L11/L12, N-terminal domain	CATH (4.3.0)
N	3.30.1550.10	Alpha Beta	2-Layer Sandwich	Ribosomal protein L11, N-terminal domain	Ribosomal protein L11/L12, N-terminal domain	CATH (4.3.0)
N	1.10.10.250	Mainly Alpha	Orthogonal Bundle	Arc Repressor Mutant, subunit A	Ribosomal protein L11/L12, C-terminal domain	CATH (4.3.0)
P	3.30.1550.10	Alpha Beta	2-Layer Sandwich	Ribosomal protein L11, N-terminal domain	Ribosomal protein L11/L12, N-terminal domain	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, C, E, G, I A, C, E, G, I, K, M, O	PF06325	Ribosomal protein L11 methyltransferase (PrmA) (PrmA)	Ribosomal protein L11 methyltransferase (PrmA)	-	Family
B, D, F, H, J B, D, F, H, J, L, N, P	PF03946	Ribosomal protein L11, N-terminal domain (Ribosomal_L11_N)	Ribosomal protein L11, N-terminal domain	The N-terminal domain of Ribosomal protein L11 adopts an alpha/beta fold and is followed by the RNA binding C-terminal domain.	Domain
B, D, F, H, J B, D, F, H, J, L, N, P	PF00298	Ribosomal protein L11, RNA binding domain (Ribosomal_L11)	Ribosomal protein L11, RNA binding domain	-	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, C, E, G, I A, C, E, G, I, K, M, O	Ribosomal protein L11 methyltransferase	catalytic activity, acting on a protein transferase activity, transferring one-carbon groups protein methyltransferase activity histone modifying activity transferase activity methyltransferase activity catalytic activity histone methyltransferase activity	methylation metabolic process	intracellular anatomical structure cytoplasm cellular anatomical entity
B, D, F, H, J B, D, F, H, J, L, N, P	50S ribosomal protein L11	structural molecule activity structural constituent of ribosome RNA binding binding organic cyclic compound binding rRNA binding nucleic acid binding large ribosomal subunit rRNA binding	organonitrogen compound metabolic process cellular biosynthetic process cellular metabolic process organonitrogen compound biosynthetic process primary metabolic process translation gene expression macromolecule biosynthetic process organic substance metabolic process biosynthetic process organic substance biosynthetic process metabolic process cellular process protein metabolic process organonitrogen compound metabolic process cellular biosynthetic process cellular metabolic process organonitrogen compound biosynthetic process primary metabolic process translation gene expression macromolecule biosynthetic process organic substance metabolic process biosynthetic process organic substance biosynthetic process metabolic process cellular process protein metabolic process macromolecule metabolic process	protein-containing complex ribonucleoprotein complex intracellular organelle intracellular anatomical structure organelle intracellular non-membrane-bounded organelle ribosome cellular anatomical entity non-membrane-bounded organelle

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, C, E, G, I A, C, E, G, I, K, M, O	IPR029063	S-adenosyl-L-methionine-dependent methyltransferase superfamily	Homologous Superfamily
A, C, E, G, I A, C, E, G, I, K, M, O	IPR004498	Ribosomal protein L11 methyltransferase	Family
B, D, F, H, J B, D, F, H, J, L, N, P	IPR020785	Large ribosomal subunit protein uL11, conserved site	Conserved Site
B, D, F, H, J B, D, F, H, J, L, N, P	IPR020783	Large ribosomal subunit protein uL11, C-terminal	Domain
B, D, F, H, J B, D, F, H, J, L, N, P	IPR000911	Ribosomal protein uL11	Family
B, D, F, H, J B, D, F, H, J, L, N, P	IPR036769	Large ribosomal subunit protein uL11, C-terminal domain superfamily	Homologous Superfamily
B, D, F, H, J B, D, F, H, J, L, N, P	IPR006519	Large ribosomal subunit protein uL11, bacterial-type	Family
B, D, F, H, J B, D, F, H, J, L, N, P	IPR020784	Large ribosomal subunit protein uL11, N-terminal	Domain
B, D, F, H, J B, D, F, H, J, L, N, P	IPR036796	Large ribosomal subunit protein uL11, N-terminal domain superfamily	Homologous Superfamily