Summary Structural details Experimental details Functional details Sequence Neighbor History Downloads

3CJT

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

Functional Information from GO Data

Chain	GOid	namespace	contents
A	0005515	molecular_function	protein binding
A	0005737	cellular_component	cytoplasm
A	0006479	biological_process	protein methylation
A	0008168	molecular_function	methyltransferase activity
A	0008276	molecular_function	protein methyltransferase activity
A	0016279	molecular_function	protein-lysine N-methyltransferase activity
A	0016740	molecular_function	transferase activity
A	0032259	biological_process	methylation
B	0003723	molecular_function	RNA binding
B	0003735	molecular_function	structural constituent of ribosome
B	0005515	molecular_function	protein binding
B	0005840	cellular_component	ribosome
B	0006412	biological_process	translation
B	0015934	cellular_component	large ribosomal subunit
B	0019843	molecular_function	rRNA binding
B	0022625	cellular_component	cytosolic large ribosomal subunit
B	0070180	molecular_function	large ribosomal subunit rRNA binding
B	1990904	cellular_component	ribonucleoprotein complex
C	0005515	molecular_function	protein binding
C	0005737	cellular_component	cytoplasm
C	0006479	biological_process	protein methylation
C	0008168	molecular_function	methyltransferase activity
C	0008276	molecular_function	protein methyltransferase activity
C	0016279	molecular_function	protein-lysine N-methyltransferase activity
C	0016740	molecular_function	transferase activity
C	0032259	biological_process	methylation
D	0003723	molecular_function	RNA binding
D	0003735	molecular_function	structural constituent of ribosome
D	0005515	molecular_function	protein binding
D	0005840	cellular_component	ribosome
D	0006412	biological_process	translation
D	0015934	cellular_component	large ribosomal subunit
D	0019843	molecular_function	rRNA binding
D	0022625	cellular_component	cytosolic large ribosomal subunit
D	0070180	molecular_function	large ribosomal subunit rRNA binding
D	1990904	cellular_component	ribonucleoprotein complex
E	0005515	molecular_function	protein binding
E	0005737	cellular_component	cytoplasm
E	0006479	biological_process	protein methylation
E	0008168	molecular_function	methyltransferase activity
E	0008276	molecular_function	protein methyltransferase activity
E	0016279	molecular_function	protein-lysine N-methyltransferase activity
E	0016740	molecular_function	transferase activity
E	0032259	biological_process	methylation
F	0003723	molecular_function	RNA binding
F	0003735	molecular_function	structural constituent of ribosome
F	0005515	molecular_function	protein binding
F	0005840	cellular_component	ribosome
F	0006412	biological_process	translation
F	0015934	cellular_component	large ribosomal subunit
F	0019843	molecular_function	rRNA binding
F	0022625	cellular_component	cytosolic large ribosomal subunit
F	0070180	molecular_function	large ribosomal subunit rRNA binding
F	1990904	cellular_component	ribonucleoprotein complex
G	0005515	molecular_function	protein binding
G	0005737	cellular_component	cytoplasm
G	0006479	biological_process	protein methylation
G	0008168	molecular_function	methyltransferase activity
G	0008276	molecular_function	protein methyltransferase activity
G	0016279	molecular_function	protein-lysine N-methyltransferase activity
G	0016740	molecular_function	transferase activity
G	0032259	biological_process	methylation
H	0003723	molecular_function	RNA binding
H	0003735	molecular_function	structural constituent of ribosome
H	0005515	molecular_function	protein binding
H	0005840	cellular_component	ribosome
H	0006412	biological_process	translation
H	0015934	cellular_component	large ribosomal subunit
H	0019843	molecular_function	rRNA binding
H	0022625	cellular_component	cytosolic large ribosomal subunit
H	0070180	molecular_function	large ribosomal subunit rRNA binding
H	1990904	cellular_component	ribonucleoprotein complex
I	0005515	molecular_function	protein binding
I	0005737	cellular_component	cytoplasm
I	0006479	biological_process	protein methylation
I	0008168	molecular_function	methyltransferase activity
I	0008276	molecular_function	protein methyltransferase activity
I	0016279	molecular_function	protein-lysine N-methyltransferase activity
I	0016740	molecular_function	transferase activity
I	0032259	biological_process	methylation
J	0003723	molecular_function	RNA binding
J	0003735	molecular_function	structural constituent of ribosome
J	0005515	molecular_function	protein binding
J	0005840	cellular_component	ribosome
J	0006412	biological_process	translation
J	0015934	cellular_component	large ribosomal subunit
J	0019843	molecular_function	rRNA binding
J	0022625	cellular_component	cytosolic large ribosomal subunit
J	0070180	molecular_function	large ribosomal subunit rRNA binding
J	1990904	cellular_component	ribonucleoprotein complex
K	0005515	molecular_function	protein binding
K	0005737	cellular_component	cytoplasm
K	0006479	biological_process	protein methylation
K	0008168	molecular_function	methyltransferase activity
K	0008276	molecular_function	protein methyltransferase activity
K	0016279	molecular_function	protein-lysine N-methyltransferase activity
K	0016740	molecular_function	transferase activity
K	0032259	biological_process	methylation
L	0003723	molecular_function	RNA binding
L	0003735	molecular_function	structural constituent of ribosome
L	0005515	molecular_function	protein binding
L	0005840	cellular_component	ribosome
L	0006412	biological_process	translation
L	0015934	cellular_component	large ribosomal subunit
L	0019843	molecular_function	rRNA binding
L	0022625	cellular_component	cytosolic large ribosomal subunit
L	0070180	molecular_function	large ribosomal subunit rRNA binding
L	1990904	cellular_component	ribonucleoprotein complex
M	0005515	molecular_function	protein binding
M	0005737	cellular_component	cytoplasm
M	0006479	biological_process	protein methylation
M	0008168	molecular_function	methyltransferase activity
M	0008276	molecular_function	protein methyltransferase activity
M	0016279	molecular_function	protein-lysine N-methyltransferase activity
M	0016740	molecular_function	transferase activity
M	0032259	biological_process	methylation
N	0003723	molecular_function	RNA binding
N	0003735	molecular_function	structural constituent of ribosome
N	0005515	molecular_function	protein binding
N	0005840	cellular_component	ribosome
N	0006412	biological_process	translation
N	0015934	cellular_component	large ribosomal subunit
N	0019843	molecular_function	rRNA binding
N	0022625	cellular_component	cytosolic large ribosomal subunit
N	0070180	molecular_function	large ribosomal subunit rRNA binding
N	1990904	cellular_component	ribonucleoprotein complex
O	0005515	molecular_function	protein binding
O	0005737	cellular_component	cytoplasm
O	0006479	biological_process	protein methylation
O	0008168	molecular_function	methyltransferase activity
O	0008276	molecular_function	protein methyltransferase activity
O	0016279	molecular_function	protein-lysine N-methyltransferase activity
O	0016740	molecular_function	transferase activity
O	0032259	biological_process	methylation
P	0003723	molecular_function	RNA binding
P	0003735	molecular_function	structural constituent of ribosome
P	0005515	molecular_function	protein binding
P	0005840	cellular_component	ribosome
P	0006412	biological_process	translation
P	0015934	cellular_component	large ribosomal subunit
P	0019843	molecular_function	rRNA binding
P	0022625	cellular_component	cytosolic large ribosomal subunit
P	0070180	molecular_function	large ribosomal subunit rRNA binding
P	1990904	cellular_component	ribonucleoprotein complex

Functional Information from PDB Data

site_id	AC1
Number of Residues	5
Details	BINDING SITE FOR RESIDUE NO3 B 148

Chain	Residue
A	TYR193
B	LYS2
B	HOH193
G	ARG223
G	LEU226

site_id	AC2
Number of Residues	7
Details	BINDING SITE FOR RESIDUE NO3 A 255

Chain	Residue
A	TRP247
A	HOH462
B	HOH184
A	PHE99
A	ALA104
A	GLU105
A	THR106

site_id	AC3
Number of Residues	5
Details	BINDING SITE FOR RESIDUE NO3 F 148

Chain	Residue
C	ARG223
C	LEU226
E	TYR193
F	LYS2
F	HOH756

site_id	AC4
Number of Residues	8
Details	BINDING SITE FOR RESIDUE NO3 E 255

Chain	Residue
E	PHE99
E	ALA104
E	GLU105
E	THR106
E	TRP247
E	HOH379
E	HOH380
F	ALA61

site_id	AC5
Number of Residues	3
Details	BINDING SITE FOR RESIDUE NO3 I 255

Chain	Residue
I	TYR193
J	LYS2
O	ARG223

site_id	AC6
Number of Residues	8
Details	BINDING SITE FOR RESIDUE NO3 I 256

Chain	Residue
I	PHE99
I	ALA104
I	GLU105
I	THR106
I	TRP247
I	HOH353
J	ALA61
J	HOH164

site_id	AC7
Number of Residues	3
Details	BINDING SITE FOR RESIDUE NO3 N 148

Chain	Residue
K	ARG223
K	LEU226
N	LYS2

site_id	AC8
Number of Residues	8
Details	BINDING SITE FOR RESIDUE NO3 M 255

Chain	Residue
M	PHE99
M	ALA104
M	GLU105
M	THR106
M	TRP247
M	HOH323
M	HOH418
N	ALA61

site_id	AC9
Number of Residues	2
Details	BINDING SITE FOR RESIDUE CL A 256

Chain	Residue
A	ARG170
E	ARG170

site_id	BC1
Number of Residues	2
Details	BINDING SITE FOR RESIDUE CL A 257

Chain	Residue
A	ARG170
E	ARG170

site_id	BC2
Number of Residues	2
Details	BINDING SITE FOR RESIDUE CL I 257

Chain	Residue
I	ARG170
M	ARG170

site_id	BC3
Number of Residues	2
Details	BINDING SITE FOR RESIDUE CL I 258

Chain	Residue
I	ARG170
M	ARG170

site_id	BC4
Number of Residues	18
Details	BINDING SITE FOR RESIDUE SAM C 302

Chain	Residue
C	HIS103
C	THR107
C	GLY128
C	THR129
C	LEU134
C	ASP149
C	ILE150
C	ASP151
C	GLY174
C	SER175
C	ASN191
C	LEU192
C	LEU196
C	HOH311
C	HOH314
C	HOH330
C	HOH404
C	HOH449

site_id	BC5
Number of Residues	18
Details	BINDING SITE FOR RESIDUE SAM G 302

Chain	Residue
A	HOH391
G	HIS103
G	GLY128
G	THR129
G	GLY130
G	SER131
G	LEU134
G	ASP149
G	ILE150
G	ASP151
G	GLY174
G	SER175
G	ASN191
G	LEU196
G	HOH316
G	HOH369
G	HOH378
G	HOH471

site_id	BC6
Number of Residues	22
Details	BINDING SITE FOR RESIDUE SAM K 302

Chain	Residue
K	GLY174
K	SER175
K	ASN191
K	LEU192
K	LEU196
K	HOH317
K	HOH325
K	HOH326
K	HOH354
K	HOH386
K	HOH413
K	HOH414
M	HOH385
M	HOH392
K	HIS103
K	GLY128
K	THR129
K	SER131
K	LEU134
K	ASP149
K	ILE150
K	ASP151

site_id	BC7
Number of Residues	20
Details	BINDING SITE FOR RESIDUE SAM O 302

Chain	Residue
I	HOH445
O	HIS103
O	GLY128
O	THR129
O	SER131
O	LEU134
O	ASP149
O	ILE150
O	ASP151
O	GLY174
O	SER175
O	ASN191
O	LEU192
O	LEU196
O	HOH309
O	HOH313
O	HOH322
O	HOH342
O	HOH438
O	HOH440

site_id	BC8
Number of Residues	20
Details	BINDING SITE FOR RESIDUE SAH A 258

Chain	Residue
A	PHE99
A	GLY100
A	THR107
A	GLY128
A	THR129
A	GLY130
A	LEU134
A	ASP149
A	ILE150
A	ASP151
A	GLY174
A	SER175
A	ASN191
A	LEU192
A	LEU196
A	HOH315
A	HOH377
A	HOH426
A	HOH429
A	HOH481

site_id	BC9
Number of Residues	22
Details	BINDING SITE FOR RESIDUE SAH E 256

Chain	Residue
E	PHE99
E	GLY100
E	THR107
E	LEU127
E	GLY128
E	THR129
E	GLY130
E	LEU134
E	ASP149
E	ILE150
E	ASP151
E	SER175
E	ASN191
E	LEU192
E	LEU196
E	HOH378
E	HOH383
E	HOH384
E	HOH411
E	HOH412
E	HOH500
F	HOH1158

site_id	CC1
Number of Residues	21
Details	BINDING SITE FOR RESIDUE SAH I 259

Chain	Residue
I	PHE99
I	GLY100
I	THR107
I	GLY128
I	THR129
I	GLY130
I	LEU134
I	ASP149
I	ILE150
I	ASP151
I	GLY174
I	SER175
I	ASN191
I	LEU192
I	LEU196
I	HOH265
I	HOH267
I	HOH278
I	HOH284
I	HOH309
I	HOH347

site_id	CC2
Number of Residues	22
Details	BINDING SITE FOR RESIDUE SAH M 256

Chain	Residue
M	PHE99
M	GLY100
M	THR107
M	GLY128
M	THR129
M	GLY130
M	LEU134
M	ASP149
M	ILE150
M	ASP151
M	GLY174
M	SER175
M	ASN191
M	LEU192
M	LEU196
M	HOH270
M	HOH279
M	HOH302
M	HOH320
M	HOH382
M	HOH430
N	HOH162

site_id	CC3
Number of Residues	10
Details	BINDING SITE FOR RESIDUE 2MM B 149

Chain	Residue
A	THR106
A	ASN191
A	LEU192
A	TYR193
A	GLY218
A	LEU220
A	TRP247
B	LYS2
B	LYS3
B	HOH184

site_id	CC4
Number of Residues	10
Details	BINDING SITE FOR RESIDUE 2MM F 149

Chain	Residue
E	THR106
E	ASN191
E	LEU192
E	GLY218
E	LEU220
E	TRP247
E	HOH380
E	HOH415
F	LYS2
F	LYS3

site_id	CC5
Number of Residues	10
Details	BINDING SITE FOR RESIDUE 2MM J 148

Chain	Residue
I	THR106
I	ASN191
I	LEU192
I	TYR193
I	GLY218
I	LEU220
I	TRP247
J	LYS2
J	LYS3
J	HOH164

site_id	CC6
Number of Residues	9
Details	BINDING SITE FOR RESIDUE 2MM M 257

Chain	Residue
M	THR106
M	ASN191
M	LEU192
M	TYR193
M	GLY218
M	LEU220
M	TRP247
N	LYS2
N	LYS3

site_id	CC7
Number of Residues	3
Details	BINDING SITE FOR RESIDUE EDO B 150

Chain	Residue
B	PRO13
B	ASP50
B	HOH189

site_id	CC8
Number of Residues	2
Details	BINDING SITE FOR RESIDUE EDO A 259

Chain	Residue
A	PRO210
A	GLY211

Functional Information from PROSITE/UniProt

site_id	PS00359
Number of Residues	16
Details	RIBOSOMAL_L11 Ribosomal protein L11 signature. RmIaGSarSMGvEVvG

Chain	Residue	Details
B	ARG125-GLY140

Functional Information from SwissProt/UniProt

site_id	SWS_FT_FI1
Number of Residues	32
Details	Binding site: {"evidences":[{"source":"HAMAP-Rule","id":"MF_00735","evidenceCode":"ECO:0000255"},{"source":"PubMed","id":"17215866","evidenceCode":"ECO:0000269"},{"source":"PubMed","id":"18611379","evidenceCode":"ECO:0000269"},{"source":"Reference","evidenceCode":"ECO:0000269","citation":{"citationType":"submission","publicationDate":"OCT-2007","submissionDatabase":"PDB data bank","title":"Crystal structure of ribosomal protein L11 methyltransferase from Thermus thermophilus.","authors":["Kaminishi T.","Sakai H.","Takemoto-Hori C.","Terada T.","Nakagawa N.","Maoka N.","Kuramitsu S.","Shirouzu M.","Yokoyama S."]}}]}

Chain

Residue

Details

site_id	SWS_FT_FI2
Number of Residues	8
Details	Binding site: {"evidences":[{"source":"PubMed","id":"17215866","evidenceCode":"ECO:0000269"},{"source":"PubMed","id":"18611379","evidenceCode":"ECO:0000269"},{"source":"Reference","evidenceCode":"ECO:0000269","citation":{"citationType":"submission","publicationDate":"OCT-2007","submissionDatabase":"PDB data bank","title":"Crystal structure of ribosomal protein L11 methyltransferase from Thermus thermophilus.","authors":["Kaminishi T.","Sakai H.","Takemoto-Hori C.","Terada T.","Nakagawa N.","Maoka N.","Kuramitsu S.","Shirouzu M.","Yokoyama S."]}}]}

Chain

Residue

Details

Catalytic Information from CSA

site_id	CSA1
Number of Residues	3
Details	Annotated By Reference To The Literature 1qam

Chain	Residue	Details
A	ASP149
A	ASN191
A	GLY128

site_id	CSA2
Number of Residues	3
Details	Annotated By Reference To The Literature 1qam

Chain	Residue	Details
C	ASP149
C	ASN191
C	GLY128

site_id	CSA3
Number of Residues	3
Details	Annotated By Reference To The Literature 1qam

Chain	Residue	Details
E	ASP149
E	ASN191
E	GLY128

site_id	CSA4
Number of Residues	3
Details	Annotated By Reference To The Literature 1qam

Chain	Residue	Details
G	ASP149
G	ASN191
G	GLY128

site_id	CSA5
Number of Residues	3
Details	Annotated By Reference To The Literature 1qam

Chain	Residue	Details
I	ASP149
I	ASN191
I	GLY128

site_id	CSA6
Number of Residues	3
Details	Annotated By Reference To The Literature 1qam

Chain	Residue	Details
K	ASP149
K	ASN191
K	GLY128

site_id	CSA7
Number of Residues	3
Details	Annotated By Reference To The Literature 1qam

Chain	Residue	Details
M	ASP149
M	ASN191
M	GLY128

site_id	CSA8
Number of Residues	3
Details	Annotated By Reference To The Literature 1qam

Chain	Residue	Details
O	ASP149
O	ASN191
O	GLY128

		Sequence (fasta)
		PDBx/mmCIF
		PDBML format (no-atom)
		PDB format (full)
		Validation report (PDF)
		EDMap 2fo-fc (MTZ)