Summary Structural details Experimental details Functional details Sequence Neighbor History Downloads

3PK7

Crystal structure of D-mannonate dehydratase from Chromohalobacter salexigens with MG and Glycerol bound in the active site

Functional Information from GO Data

Chain	GOid	namespace	contents
A	0000287	molecular_function	magnesium ion binding
A	0008927	molecular_function	mannonate dehydratase activity
A	0009063	biological_process	amino acid catabolic process
A	0016052	biological_process	carbohydrate catabolic process
A	0016829	molecular_function	lyase activity
A	0046872	molecular_function	metal ion binding
A	0047929	molecular_function	gluconate dehydratase activity
B	0000287	molecular_function	magnesium ion binding
B	0008927	molecular_function	mannonate dehydratase activity
B	0009063	biological_process	amino acid catabolic process
B	0016052	biological_process	carbohydrate catabolic process
B	0016829	molecular_function	lyase activity
B	0046872	molecular_function	metal ion binding
B	0047929	molecular_function	gluconate dehydratase activity
C	0000287	molecular_function	magnesium ion binding
C	0008927	molecular_function	mannonate dehydratase activity
C	0009063	biological_process	amino acid catabolic process
C	0016052	biological_process	carbohydrate catabolic process
C	0016829	molecular_function	lyase activity
C	0046872	molecular_function	metal ion binding
C	0047929	molecular_function	gluconate dehydratase activity
D	0000287	molecular_function	magnesium ion binding
D	0008927	molecular_function	mannonate dehydratase activity
D	0009063	biological_process	amino acid catabolic process
D	0016052	biological_process	carbohydrate catabolic process
D	0016829	molecular_function	lyase activity
D	0046872	molecular_function	metal ion binding
D	0047929	molecular_function	gluconate dehydratase activity
E	0000287	molecular_function	magnesium ion binding
E	0008927	molecular_function	mannonate dehydratase activity
E	0009063	biological_process	amino acid catabolic process
E	0016052	biological_process	carbohydrate catabolic process
E	0016829	molecular_function	lyase activity
E	0046872	molecular_function	metal ion binding
E	0047929	molecular_function	gluconate dehydratase activity
F	0000287	molecular_function	magnesium ion binding
F	0008927	molecular_function	mannonate dehydratase activity
F	0009063	biological_process	amino acid catabolic process
F	0016052	biological_process	carbohydrate catabolic process
F	0016829	molecular_function	lyase activity
F	0046872	molecular_function	metal ion binding
F	0047929	molecular_function	gluconate dehydratase activity
G	0000287	molecular_function	magnesium ion binding
G	0008927	molecular_function	mannonate dehydratase activity
G	0009063	biological_process	amino acid catabolic process
G	0016052	biological_process	carbohydrate catabolic process
G	0016829	molecular_function	lyase activity
G	0046872	molecular_function	metal ion binding
G	0047929	molecular_function	gluconate dehydratase activity
H	0000287	molecular_function	magnesium ion binding
H	0008927	molecular_function	mannonate dehydratase activity
H	0009063	biological_process	amino acid catabolic process
H	0016052	biological_process	carbohydrate catabolic process
H	0016829	molecular_function	lyase activity
H	0046872	molecular_function	metal ion binding
H	0047929	molecular_function	gluconate dehydratase activity

Functional Information from PDB Data

site_id	AC1
Number of Residues	6
Details	BINDING SITE FOR RESIDUE MG A 406

Chain	Residue
A	ASP213
A	GLU239
A	GLU265
A	HOH409
A	HOH423
A	HOH458

site_id	AC2
Number of Residues	9
Details	BINDING SITE FOR RESIDUE GOL A 407

Chain	Residue
A	HIS315
A	PRO317
A	ASP319
A	TRP405
A	HOH423
B	TRP78
A	ASN39
A	HIS215
A	GLU265

site_id	AC3
Number of Residues	6
Details	BINDING SITE FOR RESIDUE MG B 406

Chain	Residue
B	ASP213
B	GLU239
B	GLU265
B	HOH411
B	HOH426
B	HOH455

site_id	AC4
Number of Residues	8
Details	BINDING SITE FOR RESIDUE GOL B 407

Chain	Residue
A	TYR77
A	TRP78
B	ASN39
B	HIS215
B	HIS315
B	PRO317
B	ASP319
B	HOH426

site_id	AC5
Number of Residues	6
Details	BINDING SITE FOR RESIDUE MG C 406

Chain	Residue
C	ASP213
C	GLU239
C	GLU265
C	HOH408
C	HOH442
C	HOH445

site_id	AC6
Number of Residues	8
Details	BINDING SITE FOR RESIDUE GOL C 407

Chain	Residue
C	ASN39
C	TYR161
C	GLU265
C	HIS315
C	PRO317
C	ASP319
C	HOH2889
D	TRP78

site_id	AC7
Number of Residues	7
Details	BINDING SITE FOR RESIDUE MG D 406

Chain	Residue
D	ASP213
D	GLU239
D	GLU265
D	ARG286
D	HOH413
D	HOH441
D	HOH942

site_id	AC8
Number of Residues	7
Details	BINDING SITE FOR RESIDUE GOL D 407

Chain	Residue
C	TRP78
D	ASN39
D	HIS215
D	GLU265
D	HIS315
D	PRO317
D	ASP319

site_id	AC9
Number of Residues	6
Details	BINDING SITE FOR RESIDUE MG D 408

Chain	Residue
D	HOH1862
D	HOH2559
D	HOH2745
D	HOH3071
D	HOH3072
D	HOH3073

site_id	BC1
Number of Residues	6
Details	BINDING SITE FOR RESIDUE MG E 406

Chain	Residue
E	ASP213
E	GLU239
E	GLU265
E	HOH416
E	HOH428
E	HOH437

site_id	BC2
Number of Residues	9
Details	BINDING SITE FOR RESIDUE GOL E 407

Chain	Residue
E	ASN39
E	TYR161
E	HIS215
E	HIS315
E	PRO317
E	ASP319
E	TRP405
H	TYR77
H	TRP78

site_id	BC3
Number of Residues	6
Details	BINDING SITE FOR RESIDUE MG F 406

Chain	Residue
F	ASP213
F	GLU239
F	GLU265
F	HOH414
F	HOH420
F	HOH458

site_id	BC4
Number of Residues	7
Details	BINDING SITE FOR RESIDUE GOL F 407

Chain	Residue
F	ASN39
F	HIS215
F	HIS315
F	PRO317
F	ASP319
F	TRP405
G	TRP78

site_id	BC5
Number of Residues	6
Details	BINDING SITE FOR RESIDUE MG G 406

Chain	Residue
G	ASP213
G	GLU239
G	GLU265
G	HOH414
G	HOH421
G	HOH441

site_id	BC6
Number of Residues	8
Details	BINDING SITE FOR RESIDUE GOL G 407

Chain	Residue
G	HIS215
G	GLU265
G	HIS315
G	PRO317
G	ASP319
G	TRP405
F	TRP78
G	ASN39

site_id	BC7
Number of Residues	6
Details	BINDING SITE FOR RESIDUE MG H 406

Chain	Residue
H	ASP213
H	GLU239
H	GLU265
H	HOH416
H	HOH418
H	HOH574

site_id	BC8
Number of Residues	10
Details	BINDING SITE FOR RESIDUE GOL H 407

Chain	Residue
E	TRP78
H	ASN39
H	TYR161
H	PRO173
H	HIS215
H	HIS315
H	PRO317
H	ASP319
H	TRP405
H	HOH574

Functional Information from PROSITE/UniProt

site_id	PS00908
Number of Residues	26
Details	MR_MLE_1 Mandelate racemase / muconate lactonizing enzyme family signature 1. AiAAVDmALwDIkAKaagmPLyqLLG

Chain	Residue	Details
A	ALA87-GLY112

Functional Information from SwissProt/UniProt

site_id	SWS_FT_FI1
Number of Residues	13
Details	Active site: {"description":"Proton donor/acceptor","evidences":[{"evidenceCode":"ECO:0000250"}]}

Chain

Residue

Details

site_id	SWS_FT_FI2
Number of Residues	48
Details	Binding site: {}

Chain

Residue

Details

site_id	SWS_FT_FI3
Number of Residues	8
Details	Binding site: {"evidences":[{"evidenceCode":"ECO:0000250"}]}

Chain

Residue

Details

site_id	SWS_FT_FI4
Number of Residues	16
Details	Binding site: {"evidences":[{"source":"Reference","evidenceCode":"ECO:0000269","citation":{"citationType":"submission","publicationDate":"FEB-2011","submissionDatabase":"PDB data bank","title":"Crystal structure of the mutant P317A of D-mannonate dehydratase from Chromohalobacter salexigens complexed with Mg and D-Gluconate.","authors":["Fedorov A.A.","Fedorov E.V.","Wichelecki D.","Gerlt J.A.","Almo S.C."]}}]}

Chain

Residue

Details

site_id	SWS_FT_FI5
Number of Residues	8
Details	Site: {"description":"Important for activity and substrate specificity; Pro is observed in family members with low D-mannonate dehydratase activity"}

Chain

Residue

Details

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