4OXD

Structure of the LdcB LD-carboxypeptidase reveals the molecular basis of peptidoglycan recognition

Entity

Entity ID	Chain ID	Description	Type	Chain length	Formula weight	Number of molecules	DB Name (Accession)	Biological source	Descriptive keywords
1	A, B, C, D, E (A, B, C, D, E)	LdcB LD-carboxypeptidase	polymer	187	21196.2	5	UniProt (Q8DQQ1) Pfam (PF02557)	Streptococcus pneumoniae R6
2	F (H)	MUB-ALA-ZGL-LYS-DSG	polymer	4	460.5	1		Lactobacillus acidophilus
3	AA, BA, G, H, I... (E, A, B, C, D)	ZINC ION	non-polymer		65.4	18	Chemie (ZN)
4	J (A)	MAGNESIUM ION	non-polymer		24.3	1	Chemie (MG) PubChem (888)
5	Q (B)	LYSINE	non-polymer		147.2	1	Chemie (LYS) PubChem (4477687) PubChem (641599)
6	V, Y (C, D)	CHLORIDE ION	non-polymer		35.5	2	Chemie (CL) PubChem (312)
7	CA (H)	N-acetyl-alpha-muramic acid	non-polymer		293.3	1	Chemie (MUB) PubChem (439789) PubChem (440822) PubChem (542212) PubChem (5462244) PubChem (6323218) PubChem (6713944) PubChem (7058171) PubChem (12917651) PubChem (12917652) PubChem (71191327) PubChem (23988681) PubChem (45934204) PubChem (2724352) PubChem (51399526) PubChem (6604336) PubChem (58852883) PubChem (92215929) PubChem (92332568) PubChem (92332569) PubChem (92336176) PubChem (94936197) PubChem (96559697) PubChem (135342243) PubChem (138107680) PubChem (139024455) PubChem (154701375)
8	DA, EA, FA, GA, HA... (A, B, C, D, E...)	water	water		18.0	111	Chemie (HOH)

Sequence modifications

A, B, C, D, E: 56 - 238 (UniProt: Q8DQQ1)

PDB	External Database	Details
Gly -4	-	expression tag
Ser -3	-	expression tag
His -2	-	expression tag
Met -1	-	expression tag

Contents of the asymmetric unit

Polymers	Number of chains	6
	Total formula weight	106441.7
Non-Polymers*	Number of molecules	23
	Total formula weight	1713.0
All*	Total formula weight	108154.8

*Water molecules are not included.