Summary Structural details Experimental details Functional details Sequence Neighbor History Downloads

5TEN

Structure of 4-Hydroxy-tetrahydrodipicolinate Reductase from Vibrio vulnificus with 2,5 Furan Dicarboxylic and NADH with Intact Polyhistidine Tag

Functional Information from GO Data

Chain	GOid	namespace	contents
A	0005737	cellular_component	cytoplasm
A	0005829	cellular_component	cytosol
A	0008652	biological_process	amino acid biosynthetic process
A	0008839	molecular_function	4-hydroxy-tetrahydrodipicolinate reductase activity
A	0009085	biological_process	L-lysine biosynthetic process
A	0009089	biological_process	L-lysine biosynthetic process via diaminopimelate
A	0016491	molecular_function	oxidoreductase activity
A	0016726	molecular_function	oxidoreductase activity, acting on CH or CH2 groups, NAD or NADP as acceptor
A	0019877	biological_process	diaminopimelate biosynthetic process
A	0050661	molecular_function	NADP binding
A	0051287	molecular_function	NAD binding
B	0005737	cellular_component	cytoplasm
B	0005829	cellular_component	cytosol
B	0008652	biological_process	amino acid biosynthetic process
B	0008839	molecular_function	4-hydroxy-tetrahydrodipicolinate reductase activity
B	0009085	biological_process	L-lysine biosynthetic process
B	0009089	biological_process	L-lysine biosynthetic process via diaminopimelate
B	0016491	molecular_function	oxidoreductase activity
B	0016726	molecular_function	oxidoreductase activity, acting on CH or CH2 groups, NAD or NADP as acceptor
B	0019877	biological_process	diaminopimelate biosynthetic process
B	0050661	molecular_function	NADP binding
B	0051287	molecular_function	NAD binding
C	0005737	cellular_component	cytoplasm
C	0005829	cellular_component	cytosol
C	0008652	biological_process	amino acid biosynthetic process
C	0008839	molecular_function	4-hydroxy-tetrahydrodipicolinate reductase activity
C	0009085	biological_process	L-lysine biosynthetic process
C	0009089	biological_process	L-lysine biosynthetic process via diaminopimelate
C	0016491	molecular_function	oxidoreductase activity
C	0016726	molecular_function	oxidoreductase activity, acting on CH or CH2 groups, NAD or NADP as acceptor
C	0019877	biological_process	diaminopimelate biosynthetic process
C	0050661	molecular_function	NADP binding
C	0051287	molecular_function	NAD binding
D	0005737	cellular_component	cytoplasm
D	0005829	cellular_component	cytosol
D	0008652	biological_process	amino acid biosynthetic process
D	0008839	molecular_function	4-hydroxy-tetrahydrodipicolinate reductase activity
D	0009085	biological_process	L-lysine biosynthetic process
D	0009089	biological_process	L-lysine biosynthetic process via diaminopimelate
D	0016491	molecular_function	oxidoreductase activity
D	0016726	molecular_function	oxidoreductase activity, acting on CH or CH2 groups, NAD or NADP as acceptor
D	0019877	biological_process	diaminopimelate biosynthetic process
D	0050661	molecular_function	NADP binding
D	0051287	molecular_function	NAD binding
E	0005737	cellular_component	cytoplasm
E	0005829	cellular_component	cytosol
E	0008652	biological_process	amino acid biosynthetic process
E	0008839	molecular_function	4-hydroxy-tetrahydrodipicolinate reductase activity
E	0009085	biological_process	L-lysine biosynthetic process
E	0009089	biological_process	L-lysine biosynthetic process via diaminopimelate
E	0016491	molecular_function	oxidoreductase activity
E	0016726	molecular_function	oxidoreductase activity, acting on CH or CH2 groups, NAD or NADP as acceptor
E	0019877	biological_process	diaminopimelate biosynthetic process
E	0050661	molecular_function	NADP binding
E	0051287	molecular_function	NAD binding
F	0005737	cellular_component	cytoplasm
F	0005829	cellular_component	cytosol
F	0008652	biological_process	amino acid biosynthetic process
F	0008839	molecular_function	4-hydroxy-tetrahydrodipicolinate reductase activity
F	0009085	biological_process	L-lysine biosynthetic process
F	0009089	biological_process	L-lysine biosynthetic process via diaminopimelate
F	0016491	molecular_function	oxidoreductase activity
F	0016726	molecular_function	oxidoreductase activity, acting on CH or CH2 groups, NAD or NADP as acceptor
F	0019877	biological_process	diaminopimelate biosynthetic process
F	0050661	molecular_function	NADP binding
F	0051287	molecular_function	NAD binding
G	0005737	cellular_component	cytoplasm
G	0005829	cellular_component	cytosol
G	0008652	biological_process	amino acid biosynthetic process
G	0008839	molecular_function	4-hydroxy-tetrahydrodipicolinate reductase activity
G	0009085	biological_process	L-lysine biosynthetic process
G	0009089	biological_process	L-lysine biosynthetic process via diaminopimelate
G	0016491	molecular_function	oxidoreductase activity
G	0016726	molecular_function	oxidoreductase activity, acting on CH or CH2 groups, NAD or NADP as acceptor
G	0019877	biological_process	diaminopimelate biosynthetic process
G	0050661	molecular_function	NADP binding
G	0051287	molecular_function	NAD binding
H	0005737	cellular_component	cytoplasm
H	0005829	cellular_component	cytosol
H	0008652	biological_process	amino acid biosynthetic process
H	0008839	molecular_function	4-hydroxy-tetrahydrodipicolinate reductase activity
H	0009085	biological_process	L-lysine biosynthetic process
H	0009089	biological_process	L-lysine biosynthetic process via diaminopimelate
H	0016491	molecular_function	oxidoreductase activity
H	0016726	molecular_function	oxidoreductase activity, acting on CH or CH2 groups, NAD or NADP as acceptor
H	0019877	biological_process	diaminopimelate biosynthetic process
H	0050661	molecular_function	NADP binding
H	0051287	molecular_function	NAD binding

Functional Information from PDB Data

site_id	AC1
Number of Residues	12
Details	binding site for residue NAD A 1001

Chain	Residue
A	GLY8
A	THR100
A	PHE239
A	HOH1103
A	GLY11
A	ARG12
A	MET13
A	SER33
A	GLU34
A	ARG35
A	PHE75
A	THR76

site_id	AC2
Number of Residues	4
Details	binding site for residue SO4 A 1002

Chain	Residue
A	HIS156
A	LYS159
A	ARG236
A	SO41003

site_id	AC3
Number of Residues	7
Details	binding site for residue SO4 A 1003

Chain	Residue
A	LYS159
A	SER164
A	GLY165
A	THR166
A	SO41002
A	HOH1101
A	HOH1109

site_id	AC4
Number of Residues	3
Details	binding site for residue SO4 A 1004

Chain	Residue
A	ARG12
A	ASN16
A	ARG236

site_id	AC5
Number of Residues	2
Details	binding site for residue SO4 A 1005

Chain	Residue
A	HIS158
A	ARG236

site_id	AC6
Number of Residues	22
Details	binding site for residue NAD B 1001

Chain	Residue
B	GLY8
B	ALA10
B	GLY11
B	ARG12
B	MET13
B	SER33
B	GLU34
B	ARG35
B	PHE75
B	THR76
B	SER80
B	GLY98
B	THR100
B	ALA122
B	PRO123
B	ASN124
B	TYR125
B	LYS159
B	PHE239
B	7FN1002
B	HOH1108
B	HOH1112

site_id	AC7
Number of Residues	11
Details	binding site for residue 7FN B 1002

Chain	Residue
B	THR100
B	PRO123
B	HIS155
B	HIS156
B	LYS159
B	SER164
B	GLY165
B	THR166
B	NAD1001
B	HOH1106
B	HOH1111

site_id	AC8
Number of Residues	2
Details	binding site for residue SO4 B 1003

Chain	Residue
B	ASN16
B	ARG236

site_id	AC9
Number of Residues	22
Details	binding site for residue NAD C 1001

Chain	Residue
C	GLY8
C	GLY11
C	ARG12
C	MET13
C	SER33
C	GLU34
C	ARG35
C	PHE75
C	THR76
C	SER80
C	GLY98
C	THR100
C	ALA122
C	PRO123
C	ASN124
C	TYR125
C	LYS159
C	PHE239
C	7FN1002
C	HOH1105
C	HOH1108
C	HOH1110

site_id	AD1
Number of Residues	10
Details	binding site for residue 7FN C 1002

Chain	Residue
C	THR100
C	PRO123
C	HIS156
C	LYS159
C	SER164
C	GLY165
C	THR166
C	NAD1001
C	HOH1105
C	HOH1110

site_id	AD2
Number of Residues	2
Details	binding site for residue SO4 C 1003

Chain	Residue
C	ARG157
C	HIS158

site_id	AD3
Number of Residues	2
Details	binding site for residue SO4 C 1004

Chain	Residue
C	ASN16
C	ARG236

site_id	AD4
Number of Residues	4
Details	binding site for residue SO4 C 1005

Chain	Residue
B	ILE223
C	MET237
C	THR238
C	ASN241

site_id	AD5
Number of Residues	5
Details	binding site for residue 7FN C 1006

Chain	Residue
C	HIS22
C	LYS28
C	VAL29
C	LYS53
C	PHE54

site_id	AD6
Number of Residues	21
Details	binding site for residue NAD D 1001

Chain	Residue
D	GLY8
D	GLY11
D	ARG12
D	MET13
D	SER33
D	GLU34
D	ARG35
D	PHE75
D	THR76
D	SER80
D	GLY98
D	THR100
D	ALA122
D	PRO123
D	ASN124
D	TYR125
D	LYS159
D	PHE239
D	7FN1002
D	HOH1109
D	HOH1114

site_id	AD7
Number of Residues	11
Details	binding site for residue 7FN D 1002

Chain	Residue
D	THR100
D	PRO123
D	HIS155
D	HIS156
D	LYS159
D	SER164
D	GLY165
D	THR166
D	NAD1001
D	HOH1109
D	HOH1112

site_id	AD8
Number of Residues	4
Details	binding site for residue SO4 D 1003

Chain	Residue
D	ARG12
D	ASN16
D	ARG236
D	HOH1101

site_id	AD9
Number of Residues	20
Details	binding site for residue NAD E 1001

Chain	Residue
E	GLY8
E	ALA10
E	GLY11
E	ARG12
E	MET13
E	SER33
E	GLU34
E	PHE75
E	THR76
E	SER80
E	GLY98
E	THR100
E	ALA122
E	PRO123
E	ASN124
E	TYR125
E	LYS159
E	PHE239
E	7FN1002
E	HOH1101

site_id	AE1
Number of Residues	8
Details	binding site for residue 7FN E 1002

Chain	Residue
E	THR100
E	PRO123
E	HIS155
E	HIS156
E	LYS159
E	GLY165
E	THR166
E	NAD1001

site_id	AE2
Number of Residues	9
Details	binding site for residue SO4 E 1003

Chain	Residue
E	ASP211
E	ILE212
E	VAL213
E	GLY214
E	ALA233
E	THR234
E	HOH1102
F	ARG226
G	THR234

site_id	AE3
Number of Residues	2
Details	binding site for residue SO4 E 1004

Chain	Residue
E	ASN16
E	ARG236

site_id	AE4
Number of Residues	21
Details	binding site for residue NAD F 1001

Chain	Residue
F	GLY8
F	GLY11
F	ARG12
F	MET13
F	SER33
F	GLU34
F	ARG35
F	PHE75
F	THR76
F	SER80
F	GLY98
F	THR100
F	ALA122
F	PRO123
F	ASN124
F	TYR125
F	LYS159
F	PHE239
F	7FN1002
F	HOH1102
F	HOH1105

site_id	AE5
Number of Residues	9
Details	binding site for residue 7FN F 1002

Chain	Residue
F	THR100
F	PRO123
F	HIS155
F	HIS156
F	LYS159
F	GLY165
F	THR166
F	NAD1001
F	HOH1103

site_id	AE6
Number of Residues	2
Details	binding site for residue SO4 F 1003

Chain	Residue
F	ASN16
F	ARG236

site_id	AE7
Number of Residues	2
Details	binding site for residue SO4 F 1004

Chain	Residue
F	THR198
F	LYS199

site_id	AE8
Number of Residues	1
Details	binding site for residue SO4 F 1005

Chain	Residue
F	PRO254

site_id	AE9
Number of Residues	20
Details	binding site for residue NAD G 1001

Chain	Residue
G	GLY8
G	ALA10
G	GLY11
G	ARG12
G	MET13
G	SER33
G	GLU34
G	ARG35
G	PHE75
G	THR76
G	SER80
G	GLY98
G	THR100
G	ALA122
G	PRO123
G	ASN124
G	TYR125
G	LYS159
G	PHE239
G	7FN1002

site_id	AF1
Number of Residues	10
Details	binding site for residue 7FN G 1002

Chain	Residue
G	THR100
G	PRO123
G	HIS155
G	HIS156
G	LYS159
G	SER164
G	GLY165
G	THR166
G	NAD1001
G	HOH1103

site_id	AF2
Number of Residues	5
Details	binding site for residue SO4 G 1003

Chain	Residue
G	ALA21
G	HIS22
G	LYS28
G	VAL29
G	PHE54

site_id	AF3
Number of Residues	6
Details	binding site for residue SO4 G 1004

Chain	Residue
G	THR100
G	GLY101
G	PHE102
G	ARG107
G	MET121
G	GLY165

site_id	AF4
Number of Residues	23
Details	binding site for residue NAD H 1001

Chain	Residue
H	GLY8
H	GLY11
H	ARG12
H	MET13
H	SER33
H	GLU34
H	ARG35
H	PHE75
H	THR76
H	SER80
H	GLY98
H	THR100
H	ALA122
H	PRO123
H	ASN124
H	TYR125
H	LYS159
H	PHE239
H	7FN1002
H	HOH1103
H	HOH1104
H	HOH1111
H	HOH1120

site_id	AF5
Number of Residues	11
Details	binding site for residue 7FN H 1002

Chain	Residue
H	THR100
H	PRO123
H	HIS155
H	HIS156
H	LYS159
H	SER164
H	GLY165
H	THR166
H	NAD1001
H	HOH1104
H	HOH1111

site_id	AF6
Number of Residues	6
Details	binding site for residue SO4 H 1003

Chain	Residue
H	THR100
H	GLY101
H	PHE102
H	ARG107
H	GLY165
H	HOH1117

site_id	AF7
Number of Residues	2
Details	binding site for residue SO4 H 1004

Chain	Residue
H	ASN16
H	ARG236

site_id	AF8
Number of Residues	3
Details	binding site for residue SO4 H 1005

Chain	Residue
H	MET237
H	THR238
H	ASN241

Functional Information from PROSITE/UniProt

site_id	PS01298
Number of Residues	18
Details	DAPB Dihydrodipicolinate reductase signature. EIvEaHhrhKvDapSGTA

Chain	Residue	Details
A	GLU150-ALA167

Functional Information from SwissProt/UniProt

site_id	SWS_FT_FI1
Number of Residues	8
Details	Active site: {"description":"Proton donor/acceptor","evidences":[{"source":"HAMAP-Rule","id":"MF_00102","evidenceCode":"ECO:0000255"}]}

Chain

Residue

Details

site_id	SWS_FT_FI2
Number of Residues	8
Details	Active site: {"description":"Proton donor","evidences":[{"source":"HAMAP-Rule","id":"MF_00102","evidenceCode":"ECO:0000255"}]}

Chain

Residue

Details

site_id	SWS_FT_FI3
Number of Residues	112
Details	Binding site: {"evidences":[{"source":"HAMAP-Rule","id":"MF_00102","evidenceCode":"ECO:0000255"}]}

Chain

Residue

Details

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