Summary Structural details Experimental details Functional details Sequence Neighbor History Downloads

6TZU

Dihydrodipicolinate synthase (DHDPS) from C.jejuni, N84A mutant with pyruvate bound in the active site

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	0008840	molecular_function	4-hydroxy-tetrahydrodipicolinate synthase activity
A	0009085	biological_process	lysine biosynthetic process
A	0009089	biological_process	lysine biosynthetic process via diaminopimelate
A	0016829	molecular_function	lyase activity
A	0019877	biological_process	diaminopimelate biosynthetic process
A	0044281	biological_process	small molecule metabolic process
B	0005737	cellular_component	cytoplasm
B	0005829	cellular_component	cytosol
B	0008652	biological_process	amino acid biosynthetic process
B	0008840	molecular_function	4-hydroxy-tetrahydrodipicolinate synthase activity
B	0009085	biological_process	lysine biosynthetic process
B	0009089	biological_process	lysine biosynthetic process via diaminopimelate
B	0016829	molecular_function	lyase activity
B	0019877	biological_process	diaminopimelate biosynthetic process
B	0044281	biological_process	small molecule metabolic process
C	0005737	cellular_component	cytoplasm
C	0005829	cellular_component	cytosol
C	0008652	biological_process	amino acid biosynthetic process
C	0008840	molecular_function	4-hydroxy-tetrahydrodipicolinate synthase activity
C	0009085	biological_process	lysine biosynthetic process
C	0009089	biological_process	lysine biosynthetic process via diaminopimelate
C	0016829	molecular_function	lyase activity
C	0019877	biological_process	diaminopimelate biosynthetic process
C	0044281	biological_process	small molecule metabolic process
D	0005737	cellular_component	cytoplasm
D	0005829	cellular_component	cytosol
D	0008652	biological_process	amino acid biosynthetic process
D	0008840	molecular_function	4-hydroxy-tetrahydrodipicolinate synthase activity
D	0009085	biological_process	lysine biosynthetic process
D	0009089	biological_process	lysine biosynthetic process via diaminopimelate
D	0016829	molecular_function	lyase activity
D	0019877	biological_process	diaminopimelate biosynthetic process
D	0044281	biological_process	small molecule metabolic process
E	0005737	cellular_component	cytoplasm
E	0005829	cellular_component	cytosol
E	0008652	biological_process	amino acid biosynthetic process
E	0008840	molecular_function	4-hydroxy-tetrahydrodipicolinate synthase activity
E	0009085	biological_process	lysine biosynthetic process
E	0009089	biological_process	lysine biosynthetic process via diaminopimelate
E	0016829	molecular_function	lyase activity
E	0019877	biological_process	diaminopimelate biosynthetic process
E	0044281	biological_process	small molecule metabolic process
F	0005737	cellular_component	cytoplasm
F	0005829	cellular_component	cytosol
F	0008652	biological_process	amino acid biosynthetic process
F	0008840	molecular_function	4-hydroxy-tetrahydrodipicolinate synthase activity
F	0009085	biological_process	lysine biosynthetic process
F	0009089	biological_process	lysine biosynthetic process via diaminopimelate
F	0016829	molecular_function	lyase activity
F	0019877	biological_process	diaminopimelate biosynthetic process
F	0044281	biological_process	small molecule metabolic process

Functional Information from PDB Data

site_id	AC1
Number of Residues	6
Details	binding site for residue MG A 301

Chain	Residue
A	ASP227
A	HOH510
B	HOH417
B	HOH439
B	HOH465
B	HOH517

site_id	AC2
Number of Residues	3
Details	binding site for residue MG A 302

Chain	Residue
A	SER200
A	TYR230
B	TYR196

site_id	AC3
Number of Residues	7
Details	binding site for residue EDO A 303

Chain	Residue
A	LEU199
A	GLY202
A	GLY203
A	LYS204
A	ALA225
A	LEU226
A	TYR230

site_id	AC4
Number of Residues	5
Details	binding site for residue EDO A 304

Chain	Residue
A	ASP238
A	GLU239
A	TYR241
A	ASN242
B	HIS181

site_id	AC5
Number of Residues	4
Details	binding site for residue EDO A 305

Chain	Residue
A	VAL139
A	ARG142
A	PHE248
A	ASN252

site_id	AC6
Number of Residues	6
Details	binding site for residue EDO A 306

Chain	Residue
A	ALA12
A	GLY46
A	THR47
A	THR48
A	TYR137
A	LYS166

site_id	AC7
Number of Residues	5
Details	binding site for residue ACT A 307

Chain	Residue
A	LYS291
A	LYS292
A	TYR293
A	LYS294
D	ARG184

site_id	AC8
Number of Residues	5
Details	binding site for residue PGE A 308

Chain	Residue
A	GLN117
A	TYR120
A	ASP150
A	THR151
A	LYS154

site_id	AC9
Number of Residues	6
Details	binding site for residue MG B 301

Chain	Residue
A	HOH418
A	HOH439
A	HOH507
B	ASP227
B	HOH525
B	HOH546

site_id	AD1
Number of Residues	7
Details	binding site for residue EDO B 302

Chain	Residue
B	ALA12
B	GLY46
B	THR47
B	THR48
B	LEU105
B	TYR137
B	LYS166

site_id	AD2
Number of Residues	1
Details	binding site for residue EDO B 303

Chain	Residue
B	LYS204

site_id	AD3
Number of Residues	3
Details	binding site for residue EDO B 304

Chain	Residue
B	GLN117
B	TYR120
B	LYS124

site_id	AD4
Number of Residues	3
Details	binding site for residue EDO B 305

Chain	Residue
B	ASP150
B	ILE153
B	LYS154

site_id	AD5
Number of Residues	7
Details	binding site for residue EDO B 306

Chain	Residue
A	TYR196
A	TYR230
A	LYS234
B	LEU199
B	SER200
B	GLY202
B	TYR230

site_id	AD6
Number of Residues	6
Details	binding site for residue EDO B 307

Chain	Residue
B	LEU199
B	GLY202
B	GLY203
B	LYS204
B	ALA225
B	TYR230

site_id	AD7
Number of Residues	5
Details	binding site for residue ACT B 308

Chain	Residue
B	ARG157
B	ARG184
E	LYS291
E	TYR293
E	LYS294

site_id	AD8
Number of Residues	5
Details	binding site for residue ACT B 309

Chain	Residue
B	GLU24
B	GLU57
B	GLU58
B	THR61
B	HOH406

site_id	AD9
Number of Residues	9
Details	binding site for residue PEG B 310

Chain	Residue
A	ILE35
A	GLU36
A	GLY38
B	ILE35
B	GLU36
B	GLY38
B	HOH403
B	HOH404
B	HOH590

site_id	AE1
Number of Residues	4
Details	binding site for residue PGE B 311

Chain	Residue
B	GLN117
B	ASP150
B	THR151
B	LYS154

site_id	AE2
Number of Residues	1
Details	binding site for residue ACT C 301

Chain	Residue
C	PHE156

site_id	AE3
Number of Residues	2
Details	binding site for residue ACT C 302

Chain	Residue
C	HOH490
C	HIS87

site_id	AE4
Number of Residues	4
Details	binding site for residue ACT C 303

Chain	Residue
C	TYR137
C	ARG142
C	ASN252
C	PEG307

site_id	AE5
Number of Residues	5
Details	binding site for residue ACT C 304

Chain	Residue
C	SER200
C	GLY202
C	TYR230
C	HOH544
F	LYS231

site_id	AE6
Number of Residues	1
Details	binding site for residue ACT C 305

Chain	Residue
C	ARG272

site_id	AE7
Number of Residues	5
Details	binding site for residue PEG C 306

Chain	Residue
C	GLN117
C	TYR120
C	THR151
C	LYS154
C	HOH416

site_id	AE8
Number of Residues	9
Details	binding site for residue PEG C 307

Chain	Residue
C	ALA12
C	GLY46
C	THR47
C	THR48
C	TYR137
C	LYS166
C	ILE207
C	VAL209
C	ACT303

site_id	AE9
Number of Residues	6
Details	binding site for residue EDO D 301

Chain	Residue
D	ALA12
D	THR47
D	THR48
D	LEU105
D	LYS166
D	HOH402

site_id	AF1
Number of Residues	2
Details	binding site for residue EDO D 302

Chain	Residue
D	PRO140
D	GLY144

site_id	AF2
Number of Residues	4
Details	binding site for residue EDO D 303

Chain	Residue
D	ASP150
D	LYS154
D	PGE308
D	HOH596

site_id	AF3
Number of Residues	2
Details	binding site for residue EDO D 304

Chain	Residue
D	GLN25
D	LYS32

site_id	AF4
Number of Residues	6
Details	binding site for residue EDO D 305

Chain	Residue
D	ARG29
D	LYS32
D	ARG33
D	GLU36
D	PHE298
D	HOH408

site_id	AF5
Number of Residues	6
Details	binding site for residue EDO D 306

Chain	Residue
D	LYS3
D	ASN4
D	ASP131
D	ILE132
D	PRO133
D	HOH426

site_id	AF6
Number of Residues	5
Details	binding site for residue EDO D 307

Chain	Residue
D	ASP238
D	GLU239
D	TYR241
D	ASN242
E	HIS181

site_id	AF7
Number of Residues	6
Details	binding site for residue PGE D 308

Chain	Residue
D	GLN117
D	ASP150
D	THR151
D	LYS154
D	EDO303
D	HOH466

site_id	AF8
Number of Residues	7
Details	binding site for residue GOL D 309

Chain	Residue
D	VAL139
D	ARG142
D	GLY190
D	ASN252
D	HOH402
D	HOH416
D	HOH443

site_id	AF9
Number of Residues	1
Details	binding site for residue EDO E 302

Chain	Residue
E	ARG272

site_id	AG1
Number of Residues	2
Details	binding site for residue EDO E 303

Chain	Residue
B	HOH415
E	ACT306

site_id	AG2
Number of Residues	7
Details	binding site for residue EDO E 304

Chain	Residue
E	GLN128
E	ASP158
E	CYS159
E	HOH423
E	HOH462
E	HOH535
F	PHE224

site_id	AG3
Number of Residues	6
Details	binding site for residue EDO E 305

Chain	Residue
E	ALA12
E	THR47
E	THR48
E	LEU105
E	LYS166
E	GOL311

site_id	AG4
Number of Residues	4
Details	binding site for residue ACT E 306

Chain	Residue
E	TYR261
E	ILE266
E	EDO303
E	HOH441

site_id	AG5
Number of Residues	2
Details	binding site for residue ACT E 307

Chain	Residue
E	HIS87
E	HOH524

site_id	AG6
Number of Residues	5
Details	binding site for residue ACT E 309

Chain	Residue
E	LYS3
E	ARG157
E	GLU160
F	GLU36
F	ASN37

site_id	AG7
Number of Residues	5
Details	binding site for residue PEG E 310

Chain	Residue
E	GLN117
E	TYR120
E	ASP150
E	THR151
E	LYS154

site_id	AG8
Number of Residues	7
Details	binding site for residue GOL E 311

Chain	Residue
E	TYR137
E	VAL139
E	ARG142
E	GLY190
E	PHE248
E	ASN252
E	EDO305

site_id	AG9
Number of Residues	6
Details	binding site for residue MG F 301

Chain	Residue
E	HOH427
E	HOH440
F	ASP40
F	HOH421
F	HOH542
F	HOH547

site_id	AH1
Number of Residues	5
Details	binding site for residue EDO F 302

Chain	Residue
F	ASP40
F	LEU226
F	ACT306
F	HOH421
F	HOH542

site_id	AH2
Number of Residues	4
Details	binding site for residue EDO F 303

Chain	Residue
F	LEU262
F	ALA263
F	ILE295
F	HOH488

site_id	AH3
Number of Residues	6
Details	binding site for residue EDO F 304

Chain	Residue
F	TYR137
F	ARG142
F	KPI166
F	GLY190
F	PHE248
F	ASN252

site_id	AH4
Number of Residues	2
Details	binding site for residue ACT F 305

Chain	Residue
F	ARG272
F	HOH533

site_id	AH5
Number of Residues	5
Details	binding site for residue ACT F 306

Chain	Residue
F	ILE5
F	ILE6
F	ILE7
F	LYS76
F	EDO302

site_id	AH6
Number of Residues	4
Details	binding site for residue ACT F 308

Chain	Residue
E	ARG157
F	LYS32
F	ILE35
F	GLU36

site_id	AH7
Number of Residues	4
Details	binding site for residue PGE F 309

Chain	Residue
F	GLN117
F	ASP150
F	THR151
F	LYS154

Functional Information from PROSITE/UniProt

site_id	PS00665
Number of Residues	18
Details	DHDPS_1 Dihydrodipicolinate synthase signature 1. AVVpvGTTGESatltheE

Chain	Residue	Details
F	ALA41-GLU58
A	ALA41-GLU58

site_id	PS00666
Number of Residues	32
Details	DHDPS_2 Dihydrodipicolinate synthase signature 2. YNVPgrTgceIstdtiiklfrdcenIyGVKEA

Chain	Residue	Details
F	TYR137-ALA168
A	TYR137-ALA168

Functional Information from SwissProt/UniProt

site_id	SWS_FT_FI1
Number of Residues	6
Details	Active site: {"description":"Proton donor/acceptor","evidences":[{"source":"HAMAP-Rule","id":"MF_00418","evidenceCode":"ECO:0000255"}]}

Chain

Residue

Details

site_id	SWS_FT_FI2
Number of Residues	6
Details	Active site: {"description":"Schiff-base intermediate with substrate","evidences":[{"source":"HAMAP-Rule","id":"MF_00418","evidenceCode":"ECO:0000255"}]}

Chain

Residue

Details

site_id	SWS_FT_FI3
Number of Residues	12
Details	Binding site: {"evidences":[{"source":"HAMAP-Rule","id":"MF_00418","evidenceCode":"ECO:0000255"}]}

Chain

Residue

Details

site_id	SWS_FT_FI4
Number of Residues	12
Details	Site: {"description":"Part of a proton relay during catalysis","evidences":[{"source":"HAMAP-Rule","id":"MF_00418","evidenceCode":"ECO:0000255"}]}

Chain

Residue

Details

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