Summary Structural details Experimental details Functional details Sequence Neighbor History Downloads

1W79

Crystal structure of the DD-transpeptidase-carboxypeptidase from Actinomadura R39

Functional Information from GO Data

Chain	GOid	namespace	contents
A	0000270	biological_process	peptidoglycan metabolic process
A	0004180	molecular_function	carboxypeptidase activity
A	0004185	molecular_function	serine-type carboxypeptidase activity
A	0005576	cellular_component	extracellular region
A	0006508	biological_process	proteolysis
A	0008233	molecular_function	peptidase activity
A	0008360	biological_process	regulation of cell shape
A	0009002	molecular_function	serine-type D-Ala-D-Ala carboxypeptidase activity
A	0009252	biological_process	peptidoglycan biosynthetic process
A	0016787	molecular_function	hydrolase activity
A	0046677	biological_process	response to antibiotic
A	0071555	biological_process	cell wall organization
B	0000270	biological_process	peptidoglycan metabolic process
B	0004180	molecular_function	carboxypeptidase activity
B	0004185	molecular_function	serine-type carboxypeptidase activity
B	0005576	cellular_component	extracellular region
B	0006508	biological_process	proteolysis
B	0008233	molecular_function	peptidase activity
B	0008360	biological_process	regulation of cell shape
B	0009002	molecular_function	serine-type D-Ala-D-Ala carboxypeptidase activity
B	0009252	biological_process	peptidoglycan biosynthetic process
B	0016787	molecular_function	hydrolase activity
B	0046677	biological_process	response to antibiotic
B	0071555	biological_process	cell wall organization
C	0000270	biological_process	peptidoglycan metabolic process
C	0004180	molecular_function	carboxypeptidase activity
C	0004185	molecular_function	serine-type carboxypeptidase activity
C	0005576	cellular_component	extracellular region
C	0006508	biological_process	proteolysis
C	0008233	molecular_function	peptidase activity
C	0008360	biological_process	regulation of cell shape
C	0009002	molecular_function	serine-type D-Ala-D-Ala carboxypeptidase activity
C	0009252	biological_process	peptidoglycan biosynthetic process
C	0016787	molecular_function	hydrolase activity
C	0046677	biological_process	response to antibiotic
C	0071555	biological_process	cell wall organization
D	0000270	biological_process	peptidoglycan metabolic process
D	0004180	molecular_function	carboxypeptidase activity
D	0004185	molecular_function	serine-type carboxypeptidase activity
D	0005576	cellular_component	extracellular region
D	0006508	biological_process	proteolysis
D	0008233	molecular_function	peptidase activity
D	0008360	biological_process	regulation of cell shape
D	0009002	molecular_function	serine-type D-Ala-D-Ala carboxypeptidase activity
D	0009252	biological_process	peptidoglycan biosynthetic process
D	0016787	molecular_function	hydrolase activity
D	0046677	biological_process	response to antibiotic
D	0071555	biological_process	cell wall organization

Functional Information from PDB Data

site_id	AC1
Number of Residues	11
Details	BINDING SITE FOR RESIDUE SO4 A 500

Chain	Residue
A	SER49
A	HOH2431
A	HOH2432
A	SER298
A	THR393
A	LYS410
A	THR411
A	GLY412
A	THR413
A	HOH2045
A	HOH2430

site_id	AC2
Number of Residues	6
Details	BINDING SITE FOR RESIDUE SO4 A 501

Chain	Residue
A	HIS282
A	THR283
A	HOH2282
A	HOH2285
A	HOH2286
A	HOH2433

site_id	AC3
Number of Residues	8
Details	BINDING SITE FOR RESIDUE SO4 A 502

Chain	Residue
A	ALA234
A	ARG236
A	HOH2252
A	HOH2434
A	HOH2435
A	HOH2436
A	HOH2437
A	HOH2438

site_id	AC4
Number of Residues	3
Details	BINDING SITE FOR RESIDUE MG A 510

Chain	Residue
A	GLU188
A	HIS247
A	GLU251

site_id	AC5
Number of Residues	2
Details	BINDING SITE FOR RESIDUE MG A 511

Chain	Residue
A	VAL406
A	HIS462

site_id	AC6
Number of Residues	11
Details	BINDING SITE FOR RESIDUE SO4 B 500

Chain	Residue
B	SER49
B	SER298
B	LYS410
B	THR411
B	GLY412
B	THR413
B	HOH2418
B	HOH2457
B	HOH2458
B	HOH2459
B	HOH2460

site_id	AC7
Number of Residues	5
Details	BINDING SITE FOR RESIDUE SO4 B 501

Chain	Residue
B	ASP281
B	HIS282
B	THR283
B	HOH2312
B	HOH2316

site_id	AC8
Number of Residues	3
Details	BINDING SITE FOR RESIDUE SO4 B 502

Chain	Residue
B	ARG236
B	HOH2272
B	HOH2461

site_id	AC9
Number of Residues	10
Details	BINDING SITE FOR RESIDUE SO4 C 500

Chain	Residue
C	SER49
C	SER298
C	THR393
C	LYS410
C	THR411
C	GLY412
C	THR413
C	HOH2045
C	HOH2457
C	HOH2458

site_id	BC1
Number of Residues	6
Details	BINDING SITE FOR RESIDUE SO4 C 501

Chain	Residue
C	ASP281
C	HIS282
C	THR283
C	HOH2317
C	HOH2459
C	HOH2460

site_id	BC2
Number of Residues	5
Details	BINDING SITE FOR RESIDUE SO4 C 502

Chain	Residue
C	ARG236
C	HOH2461
C	HOH2462
C	HOH2463
C	HOH2464

site_id	BC3
Number of Residues	12
Details	BINDING SITE FOR RESIDUE SO4 D 500

Chain	Residue
D	SER49
D	SER298
D	THR393
D	LYS410
D	THR411
D	GLY412
D	THR413
D	HOH2036
D	HOH2410
D	HOH2411
D	HOH2412
D	HOH2413

site_id	BC4
Number of Residues	7
Details	BINDING SITE FOR RESIDUE SO4 D 501

Chain	Residue
D	HIS282
D	THR283
D	HOH2282
D	HOH2283
D	HOH2414
D	HOH2415
D	HOH2416

site_id	BC5
Number of Residues	4
Details	BINDING SITE FOR RESIDUE SO4 D 502

Chain	Residue
D	ALA234
D	ARG236
D	HOH2241
D	HOH2417

site_id	BC6
Number of Residues	1
Details	BINDING SITE FOR RESIDUE MG D 510

Chain	Residue
D	MG511

site_id	BC7
Number of Residues	1
Details	BINDING SITE FOR RESIDUE MG D 511

Chain	Residue
D	MG510

Functional Information from SwissProt/UniProt

site_id	SWS_FT_FI1
Number of Residues	692
Details	Region: {"description":"Absent in class-A beta-lactamases"}

Chain

Residue

Details

site_id	SWS_FT_FI2
Number of Residues	4
Details	Active site: {"description":"Acyl-ester intermediate"}

Chain

Residue

Details

site_id	SWS_FT_FI3
Number of Residues	4
Details	Active site: {"description":"Proton acceptor"}

Chain

Residue

Details

site_id	SWS_FT_FI4
Number of Residues	4
Details	Active site: {"evidences":[{"evidenceCode":"ECO:0000250"}]}

Chain

Residue

Details

site_id	SWS_FT_FI5
Number of Residues	4
Details	Binding site: {}

Chain

Residue

Details

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