Summary Structural details Experimental details Functional details Sequence Neighbor History Downloads

3E9I

Lysyl-tRNA synthetase from Bacillus stearothermophilus complexed with L-Lysine hydroxamate-AMP

Functional Information from GO Data

Chain	GOid	namespace	contents
A	0000049	molecular_function	tRNA binding
A	0000166	molecular_function	nucleotide binding
A	0000287	molecular_function	magnesium ion binding
A	0003676	molecular_function	nucleic acid binding
A	0003877	molecular_function	ATP:ADP adenylyltransferase activity
A	0004812	molecular_function	aminoacyl-tRNA ligase activity
A	0004824	molecular_function	lysine-tRNA ligase activity
A	0005524	molecular_function	ATP binding
A	0005615	cellular_component	extracellular space
A	0005737	cellular_component	cytoplasm
A	0005829	cellular_component	cytosol
A	0006412	biological_process	translation
A	0006418	biological_process	tRNA aminoacylation for protein translation
A	0006430	biological_process	lysyl-tRNA aminoacylation
A	0015966	biological_process	diadenosine tetraphosphate biosynthetic process
A	0016740	molecular_function	transferase activity
A	0017101	cellular_component	aminoacyl-tRNA synthetase multienzyme complex
A	0043032	biological_process	positive regulation of macrophage activation
A	0046872	molecular_function	metal ion binding
B	0000049	molecular_function	tRNA binding
B	0000166	molecular_function	nucleotide binding
B	0000287	molecular_function	magnesium ion binding
B	0003676	molecular_function	nucleic acid binding
B	0003877	molecular_function	ATP:ADP adenylyltransferase activity
B	0004812	molecular_function	aminoacyl-tRNA ligase activity
B	0004824	molecular_function	lysine-tRNA ligase activity
B	0005524	molecular_function	ATP binding
B	0005615	cellular_component	extracellular space
B	0005737	cellular_component	cytoplasm
B	0005829	cellular_component	cytosol
B	0006412	biological_process	translation
B	0006418	biological_process	tRNA aminoacylation for protein translation
B	0006430	biological_process	lysyl-tRNA aminoacylation
B	0015966	biological_process	diadenosine tetraphosphate biosynthetic process
B	0016740	molecular_function	transferase activity
B	0017101	cellular_component	aminoacyl-tRNA synthetase multienzyme complex
B	0043032	biological_process	positive regulation of macrophage activation
B	0046872	molecular_function	metal ion binding
C	0000049	molecular_function	tRNA binding
C	0000166	molecular_function	nucleotide binding
C	0000287	molecular_function	magnesium ion binding
C	0003676	molecular_function	nucleic acid binding
C	0003877	molecular_function	ATP:ADP adenylyltransferase activity
C	0004812	molecular_function	aminoacyl-tRNA ligase activity
C	0004824	molecular_function	lysine-tRNA ligase activity
C	0005524	molecular_function	ATP binding
C	0005615	cellular_component	extracellular space
C	0005737	cellular_component	cytoplasm
C	0005829	cellular_component	cytosol
C	0006412	biological_process	translation
C	0006418	biological_process	tRNA aminoacylation for protein translation
C	0006430	biological_process	lysyl-tRNA aminoacylation
C	0015966	biological_process	diadenosine tetraphosphate biosynthetic process
C	0016740	molecular_function	transferase activity
C	0017101	cellular_component	aminoacyl-tRNA synthetase multienzyme complex
C	0043032	biological_process	positive regulation of macrophage activation
C	0046872	molecular_function	metal ion binding
D	0000049	molecular_function	tRNA binding
D	0000166	molecular_function	nucleotide binding
D	0000287	molecular_function	magnesium ion binding
D	0003676	molecular_function	nucleic acid binding
D	0003877	molecular_function	ATP:ADP adenylyltransferase activity
D	0004812	molecular_function	aminoacyl-tRNA ligase activity
D	0004824	molecular_function	lysine-tRNA ligase activity
D	0005524	molecular_function	ATP binding
D	0005615	cellular_component	extracellular space
D	0005737	cellular_component	cytoplasm
D	0005829	cellular_component	cytosol
D	0006412	biological_process	translation
D	0006418	biological_process	tRNA aminoacylation for protein translation
D	0006430	biological_process	lysyl-tRNA aminoacylation
D	0015966	biological_process	diadenosine tetraphosphate biosynthetic process
D	0016740	molecular_function	transferase activity
D	0017101	cellular_component	aminoacyl-tRNA synthetase multienzyme complex
D	0043032	biological_process	positive regulation of macrophage activation
D	0046872	molecular_function	metal ion binding

Functional Information from PDB Data

site_id	AC1
Number of Residues	4
Details	BINDING SITE FOR RESIDUE MG A 1000

Chain	Residue
A	GLU404
A	GLU411
A	ASN414
A	XAH1001

site_id	AC2
Number of Residues	24
Details	BINDING SITE FOR RESIDUE XAH A 1001

Chain	Residue
A	GLU255
A	ARG260
A	HIS261
A	ASN262
A	PHE265
A	MET267
A	GLU269
A	TYR271
A	GLU411
A	HIS412
A	ALA413
A	ASN414
A	PHE416
A	GLU418
A	GLY467
A	ARG470
A	ILE481
A	HOH581
A	MG1000
A	GLY207
A	ALA208
A	ALA229
A	GLU231
A	ARG253

site_id	AC3
Number of Residues	9
Details	BINDING SITE FOR RESIDUE 1PE A 494

Chain	Residue
A	ARG186
A	ASP189
A	SER190
A	TYR193
A	LEU194
A	GLU195
A	HOH545
B	GLN182
B	HOH977

site_id	AC4
Number of Residues	4
Details	BINDING SITE FOR RESIDUE MG B 1100

Chain	Residue
B	GLU404
B	GLU411
B	ASN414
B	XAH1101

site_id	AC5
Number of Residues	22
Details	BINDING SITE FOR RESIDUE XAH B 1101

Chain	Residue
B	GLY207
B	ALA208
B	ALA229
B	GLU231
B	ARG253
B	GLU255
B	ARG260
B	HIS261
B	ASN262
B	PHE265
B	GLU269
B	TYR271
B	GLU411
B	HIS412
B	ALA413
B	ASN414
B	PHE416
B	GLU418
B	GLY467
B	ARG470
B	HOH706
B	MG1100

site_id	AC6
Number of Residues	8
Details	BINDING SITE FOR RESIDUE 1PE B 494

Chain	Residue
A	LEU179
A	GLN182
A	ARG186
A	GLU294
B	ASP189
B	TYR193
B	LEU194
B	GLU195

site_id	AC7
Number of Residues	4
Details	BINDING SITE FOR RESIDUE MG C 1200

Chain	Residue
C	GLU404
C	GLU411
C	ASN414
C	XAH1201

site_id	AC8
Number of Residues	25
Details	BINDING SITE FOR RESIDUE XAH C 1201

Chain	Residue
C	MG1200
C	GLY207
C	ALA208
C	GLU231
C	ARG253
C	ARG260
C	HIS261
C	ASN262
C	PHE265
C	MET267
C	GLU269
C	TYR271
C	GLU411
C	HIS412
C	ALA413
C	ASN414
C	PHE416
C	GLU418
C	GLY465
C	GLY467
C	ARG470
C	ILE481
C	HOH780
C	HOH788
C	HOH925

site_id	AC9
Number of Residues	10
Details	BINDING SITE FOR RESIDUE 1PE C 494

Chain	Residue
C	LEU179
C	GLN182
C	ARG186
C	GLU294
D	ASP189
D	SER190
D	TYR193
D	LEU194
D	GLU195
D	HOH930

site_id	BC1
Number of Residues	7
Details	BINDING SITE FOR RESIDUE 1PE C 1202

Chain	Residue
C	ARG186
C	ASP189
C	SER190
C	TYR193
C	LEU194
C	GLU195
D	GLN182

site_id	BC2
Number of Residues	4
Details	BINDING SITE FOR RESIDUE MG D 1300

Chain	Residue
D	GLU404
D	GLU411
D	ASN414
D	XAH1301

site_id	BC3
Number of Residues	22
Details	BINDING SITE FOR RESIDUE XAH D 1301

Chain	Residue
D	GLY207
D	ALA208
D	ALA229
D	GLU231
D	ARG253
D	GLU255
D	ARG260
D	HIS261
D	ASN262
D	PHE265
D	GLU269
D	TYR271
D	GLU411
D	HIS412
D	ASN414
D	PHE416
D	GLU418
D	GLY467
D	ARG470
D	ILE481
D	HOH870
D	MG1300

Functional Information from SwissProt/UniProt

site_id	SWS_FT_FI1
Number of Residues	8
Details	BINDING: BINDING => ECO:0000250

Chain	Residue	Details
A	GLU404
C	GLU404
C	GLU411
D	GLU404
D	GLU411
A	GLU411
B	GLU404
B	GLU411

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