7KZG

Human MBD4 glycosylase domain bound to DNA containing oxacarbenium-ion analog 1-aza-2'-deoxyribose

Entity

Entity ID	Chain ID	Description	Type	Chain length	Formula weight	Number of molecules	DB Name (Accession)	Biological source	Descriptive keywords
1	A (A)	Methyl-CpG-binding domain protein 4	polymer	174	20560.6	1	UniProt (O95243)	Homo sapiens (Human)	Methyl-CpG-binding endonuclease 1,Methyl-CpG-binding protein MBD4,Mismatch-specific DNA N-glycosylase
2	B (C)	DNA (5'-D(*CP*CP*AP*GP*CP*GP*(NR1)P*GP*CP*AP*GP*C)-3')	polymer	12	3524.3	1		Homo sapiens
3	C (D)	DNA (5'-D(*GP*CP*TP*GP*CP*GP*CP*GP*CP*TP*GP*G)-3')	polymer	12	3695.4	1		Homo sapiens
4	D, G, J, K (A, C, D)	GLYCEROL	non-polymer		92.1	4	Chemie (GOL) PubChem (753)
5	E (A)	DI(HYDROXYETHYL)ETHER	non-polymer		106.1	1	Chemie (PEG) PubChem (8117)
6	F (A)	1,2-ETHANEDIOL	non-polymer		62.1	1	Chemie (EDO)
7	H (A)	SODIUM ION	non-polymer		23.0	1	Chemie (NA) PubChem (923)
8	I (A)	CHLORIDE ION	non-polymer		35.5	1	Chemie (CL) PubChem (312)
9	L, M, N (A, C, D)	water	water		18.0	235	Chemie (HOH)

Sequence modifications

A: 426 - 580 (UniProt: O95243)

PDB	External Database	Details
Met 407	-	expression tag
Gly 408	-	expression tag
Ser 409	-	expression tag
Ser 410	-	expression tag
His 411	-	expression tag
His 412	-	expression tag
His 413	-	expression tag
His 414	-	expression tag
His 415	-	expression tag
His 416	-	expression tag
Ser 417	-	expression tag
Ser 418	-	expression tag
Gly 419	-	expression tag
Leu 420	-	expression tag
Val 421	-	expression tag
Pro 422	-	expression tag
Arg 423	-	expression tag
Gly 424	-	expression tag
Ser 425	-	expression tag

Contents of the asymmetric unit

Polymers	Number of chains	3
	Total formula weight	27780.3
Non-Polymers*	Number of molecules	8
	Total formula weight	595.0
All*	Total formula weight	28375.3

*Water molecules are not included.