Summary Structural details Experimental details Functional details Sequence Neighbor History Downloads

4KGN

Crystal structure of a tRNA (cytidine(34)-2'-O)-methyltransferase bound to S-adenosyl homocysteine

Functional Information from GO Data

Chain	GOid	namespace	contents
A	0001510	biological_process	RNA methylation
A	0002131	biological_process	wobble position cytosine ribose methylation
A	0002132	biological_process	wobble position uridine ribose methylation
A	0003723	molecular_function	RNA binding
A	0005737	cellular_component	cytoplasm
A	0006396	biological_process	RNA processing
A	0008033	biological_process	tRNA processing
A	0008168	molecular_function	methyltransferase activity
A	0008173	molecular_function	RNA methyltransferase activity
A	0008175	molecular_function	tRNA methyltransferase activity
A	0008757	molecular_function	S-adenosylmethionine-dependent methyltransferase activity
A	0030488	biological_process	tRNA methylation
A	0032259	biological_process	methylation
A	0141098	molecular_function	tRNA (cytidine(34)-2'-O)-methyltransferase activity
A	0141102	molecular_function	tRNA (5-carboxymethylaminomethyluridine(34)-2'-O)-methyltransferase activity
B	0001510	biological_process	RNA methylation
B	0002131	biological_process	wobble position cytosine ribose methylation
B	0002132	biological_process	wobble position uridine ribose methylation
B	0003723	molecular_function	RNA binding
B	0005737	cellular_component	cytoplasm
B	0006396	biological_process	RNA processing
B	0008033	biological_process	tRNA processing
B	0008168	molecular_function	methyltransferase activity
B	0008173	molecular_function	RNA methyltransferase activity
B	0008175	molecular_function	tRNA methyltransferase activity
B	0008757	molecular_function	S-adenosylmethionine-dependent methyltransferase activity
B	0030488	biological_process	tRNA methylation
B	0032259	biological_process	methylation
B	0141098	molecular_function	tRNA (cytidine(34)-2'-O)-methyltransferase activity
B	0141102	molecular_function	tRNA (5-carboxymethylaminomethyluridine(34)-2'-O)-methyltransferase activity
C	0001510	biological_process	RNA methylation
C	0002131	biological_process	wobble position cytosine ribose methylation
C	0002132	biological_process	wobble position uridine ribose methylation
C	0003723	molecular_function	RNA binding
C	0005737	cellular_component	cytoplasm
C	0006396	biological_process	RNA processing
C	0008033	biological_process	tRNA processing
C	0008168	molecular_function	methyltransferase activity
C	0008173	molecular_function	RNA methyltransferase activity
C	0008175	molecular_function	tRNA methyltransferase activity
C	0008757	molecular_function	S-adenosylmethionine-dependent methyltransferase activity
C	0030488	biological_process	tRNA methylation
C	0032259	biological_process	methylation
C	0141098	molecular_function	tRNA (cytidine(34)-2'-O)-methyltransferase activity
C	0141102	molecular_function	tRNA (5-carboxymethylaminomethyluridine(34)-2'-O)-methyltransferase activity
D	0001510	biological_process	RNA methylation
D	0002131	biological_process	wobble position cytosine ribose methylation
D	0002132	biological_process	wobble position uridine ribose methylation
D	0003723	molecular_function	RNA binding
D	0005737	cellular_component	cytoplasm
D	0006396	biological_process	RNA processing
D	0008033	biological_process	tRNA processing
D	0008168	molecular_function	methyltransferase activity
D	0008173	molecular_function	RNA methyltransferase activity
D	0008175	molecular_function	tRNA methyltransferase activity
D	0008757	molecular_function	S-adenosylmethionine-dependent methyltransferase activity
D	0030488	biological_process	tRNA methylation
D	0032259	biological_process	methylation
D	0141098	molecular_function	tRNA (cytidine(34)-2'-O)-methyltransferase activity
D	0141102	molecular_function	tRNA (5-carboxymethylaminomethyluridine(34)-2'-O)-methyltransferase activity
E	0001510	biological_process	RNA methylation
E	0002131	biological_process	wobble position cytosine ribose methylation
E	0002132	biological_process	wobble position uridine ribose methylation
E	0003723	molecular_function	RNA binding
E	0005737	cellular_component	cytoplasm
E	0006396	biological_process	RNA processing
E	0008033	biological_process	tRNA processing
E	0008168	molecular_function	methyltransferase activity
E	0008173	molecular_function	RNA methyltransferase activity
E	0008175	molecular_function	tRNA methyltransferase activity
E	0008757	molecular_function	S-adenosylmethionine-dependent methyltransferase activity
E	0030488	biological_process	tRNA methylation
E	0032259	biological_process	methylation
E	0141098	molecular_function	tRNA (cytidine(34)-2'-O)-methyltransferase activity
E	0141102	molecular_function	tRNA (5-carboxymethylaminomethyluridine(34)-2'-O)-methyltransferase activity
F	0001510	biological_process	RNA methylation
F	0002131	biological_process	wobble position cytosine ribose methylation
F	0002132	biological_process	wobble position uridine ribose methylation
F	0003723	molecular_function	RNA binding
F	0005737	cellular_component	cytoplasm
F	0006396	biological_process	RNA processing
F	0008033	biological_process	tRNA processing
F	0008168	molecular_function	methyltransferase activity
F	0008173	molecular_function	RNA methyltransferase activity
F	0008175	molecular_function	tRNA methyltransferase activity
F	0008757	molecular_function	S-adenosylmethionine-dependent methyltransferase activity
F	0030488	biological_process	tRNA methylation
F	0032259	biological_process	methylation
F	0141098	molecular_function	tRNA (cytidine(34)-2'-O)-methyltransferase activity
F	0141102	molecular_function	tRNA (5-carboxymethylaminomethyluridine(34)-2'-O)-methyltransferase activity
G	0001510	biological_process	RNA methylation
G	0002131	biological_process	wobble position cytosine ribose methylation
G	0002132	biological_process	wobble position uridine ribose methylation
G	0003723	molecular_function	RNA binding
G	0005737	cellular_component	cytoplasm
G	0006396	biological_process	RNA processing
G	0008033	biological_process	tRNA processing
G	0008168	molecular_function	methyltransferase activity
G	0008173	molecular_function	RNA methyltransferase activity
G	0008175	molecular_function	tRNA methyltransferase activity
G	0008757	molecular_function	S-adenosylmethionine-dependent methyltransferase activity
G	0030488	biological_process	tRNA methylation
G	0032259	biological_process	methylation
G	0141098	molecular_function	tRNA (cytidine(34)-2'-O)-methyltransferase activity
G	0141102	molecular_function	tRNA (5-carboxymethylaminomethyluridine(34)-2'-O)-methyltransferase activity
H	0001510	biological_process	RNA methylation
H	0002131	biological_process	wobble position cytosine ribose methylation
H	0002132	biological_process	wobble position uridine ribose methylation
H	0003723	molecular_function	RNA binding
H	0005737	cellular_component	cytoplasm
H	0006396	biological_process	RNA processing
H	0008033	biological_process	tRNA processing
H	0008168	molecular_function	methyltransferase activity
H	0008173	molecular_function	RNA methyltransferase activity
H	0008175	molecular_function	tRNA methyltransferase activity
H	0008757	molecular_function	S-adenosylmethionine-dependent methyltransferase activity
H	0030488	biological_process	tRNA methylation
H	0032259	biological_process	methylation
H	0141098	molecular_function	tRNA (cytidine(34)-2'-O)-methyltransferase activity
H	0141102	molecular_function	tRNA (5-carboxymethylaminomethyluridine(34)-2'-O)-methyltransferase activity

Functional Information from PDB Data

site_id	AC1
Number of Residues	20
Details	BINDING SITE FOR RESIDUE SAH A 201

Chain	Residue
A	PHE80
A	LEU108
A	VAL122
A	ARG123
A	LEU124
A	MET126
A	SER132
A	LEU133
A	THR138
A	HOH341
A	HOH342
A	THR81
E	ASN130
A	THR82
A	PHE101
A	GLY102
A	ALA103
A	GLU104
A	THR105
A	GLY107

site_id	AC2
Number of Residues	6
Details	BINDING SITE FOR RESIDUE CL A 202

Chain	Residue
A	LEU133
A	ASN134
A	ASN137
B	LEU21
B	ASN24
B	HOH315

site_id	AC3
Number of Residues	3
Details	BINDING SITE FOR RESIDUE CL B 201

Chain	Residue
B	GLU10
B	ILE11
B	GLU104

site_id	AC4
Number of Residues	18
Details	BINDING SITE FOR RESIDUE SAH C 201

Chain	Residue
C	PHE80
C	THR81
C	PHE101
C	GLY102
C	ALA103
C	GLU104
C	THR105
C	GLY107
C	LEU108
C	VAL122
C	ARG123
C	LEU124
C	MET126
C	SER132
C	LEU133
C	THR138
C	HOH341
C	HOH360

site_id	AC5
Number of Residues	6
Details	BINDING SITE FOR RESIDUE CL C 202

Chain	Residue
C	LEU133
C	ASN134
C	ASN137
D	LEU21
D	ASN24
D	HOH205

site_id	AC6
Number of Residues	21
Details	BINDING SITE FOR RESIDUE SAH E 201

Chain	Residue
A	ASN130
E	PHE80
E	THR81
E	THR82
E	PHE101
E	GLY102
E	ALA103
E	GLU104
E	THR105
E	ARG106
E	GLY107
E	LEU108
E	VAL122
E	ARG123
E	LEU124
E	MET126
E	SER132
E	LEU133
E	THR138
E	HOH321
E	HOH336

site_id	AC7
Number of Residues	6
Details	BINDING SITE FOR RESIDUE CL E 202

Chain	Residue
E	LEU133
E	ASN134
E	ASN137
F	LEU21
F	ASN24
F	HOH309

site_id	AC8
Number of Residues	4
Details	BINDING SITE FOR RESIDUE CL F 201

Chain	Residue
F	GLU10
F	ILE11
F	GLU104
F	HOH303

site_id	AC9
Number of Residues	15
Details	BINDING SITE FOR RESIDUE SAH G 201

Chain	Residue
G	PHE80
G	THR81
G	PHE101
G	GLY102
G	ALA103
G	GLU104
G	GLY107
G	VAL122
G	ARG123
G	LEU124
G	MET126
G	SER132
G	LEU133
G	THR138
G	HOH332

site_id	BC1
Number of Residues	6
Details	BINDING SITE FOR RESIDUE CL G 202

Chain	Residue
G	LEU133
G	ASN134
G	ASN137
H	LEU21
H	ASN24
H	HOH214

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