Summary Structural details Experimental details Functional details Sequence Neighbor History Downloads

6QH8

Structure of knotted YibK from P. aeruginosa

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

Functional Information from PDB Data

site_id	AC1
Number of Residues	4
Details	binding site for residue SO4 A 202

Chain	Residue
A	ARG48
A	ARG51
B	GLN69
D	ARG48

site_id	AC2
Number of Residues	6
Details	binding site for residue SO4 A 203

Chain	Residue
A	HOH316
A	ARG79
A	ARG89
A	ALA95
A	HOH305
A	HOH312

site_id	AC3
Number of Residues	4
Details	binding site for residue SO4 A 204

Chain	Residue
A	THR84
A	THR85
A	GLY110
A	LEU111

site_id	AC4
Number of Residues	5
Details	binding site for residue SO4 A 205

Chain	Residue
A	ASN19
A	GLU107
A	ASN137
A	LEU138
C	ARG25

site_id	AC5
Number of Residues	1
Details	binding site for residue SO4 A 206

Chain	Residue
A	GLU113

site_id	AC6
Number of Residues	6
Details	binding site for residue SO4 A 207

Chain	Residue
A	VAL62
A	ARG63
A	ARG64
D	GLU38
D	GLU43
D	ARG64

site_id	AC7
Number of Residues	8
Details	binding site for residue SO4 B 201

Chain	Residue
B	ILE16
B	ASN19
B	GLU107
B	ASN137
B	LEU138
B	HOH302
B	HOH340
D	ARG25

site_id	AC8
Number of Residues	7
Details	binding site for residue SO4 B 202

Chain	Residue
B	ARG89
B	VAL94
B	ALA95
B	HOH319
B	HOH331
C	SO4203
C	HOH309

site_id	AC9
Number of Residues	7
Details	binding site for residue SO4 B 203

Chain	Residue
B	THR84
B	THR85
B	LYS86
B	GLY110
B	LEU111
B	HOH312
B	HOH315

site_id	AD1
Number of Residues	3
Details	binding site for residue PEG B 204

Chain	Residue
B	HIS92
B	ALA95
B	PEG205

site_id	AD2
Number of Residues	3
Details	binding site for residue PEG B 205

Chain	Residue
B	ARG151
B	GLY154
B	PEG204

site_id	AD3
Number of Residues	9
Details	binding site for residue SO4 C 201

Chain	Residue
A	ARG25
B	PRO66
C	ILE16
C	ASN19
C	GLU107
C	ASN137
C	LEU138
C	HOH302
C	HOH308

site_id	AD4
Number of Residues	7
Details	binding site for residue SO4 C 202

Chain	Residue
B	ARG64
C	THR84
C	THR85
C	LYS86
C	ARG109
C	GLY110
C	LEU111

site_id	AD5
Number of Residues	7
Details	binding site for residue SO4 C 203

Chain	Residue
B	SO4202
C	ARG89
C	VAL94
C	ALA95
C	HOH305
C	HOH309
C	HOH317

site_id	AD6
Number of Residues	3
Details	binding site for residue SO4 D 201

Chain	Residue
D	ARG89
D	ALA95
D	HOH311

site_id	AD7
Number of Residues	4
Details	binding site for residue SO4 D 202

Chain	Residue
D	THR84
D	THR85
D	GLY110
D	SER135

site_id	AD8
Number of Residues	6
Details	binding site for residue SO4 D 203

Chain	Residue
B	ARG25
D	ILE16
D	ASN19
D	GLU107
D	ASN137
D	LEU138

site_id	AD9
Number of Residues	2
Details	binding site for residue PEG D 204

Chain	Residue
D	HIS92
D	GLN152

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