6T8H

Cryo-EM structure of the DNA-bound PolD-PCNA processive complex from P. abyssi

Entity

Entity ID	Chain ID	Description	Type	Chain length	Formula weight	Number of molecules	DB Name (Accession)	Biological source	Descriptive keywords
1	E, C, D	DNA polymerase sliding clamp	polymer	261	29471.8	3	UniProt (Q9UYX8) Pfam (PF00705) Pfam (PF02747) In PDB	Pyrococcus abyssi (strain GE5 / Orsay)	Proliferating cell nuclear antigen homolog,PCNA
2	A	DNA polymerase II small subunit	polymer	619	69408.0	1	UniProt (Q9V2F3) Pfam (PF00149) In PDB	Pyrococcus abyssi (strain GE5 / Orsay)	Pol II,Exodeoxyribonuclease small subunit
3	B	DP2 subunit of D-family DNA-polymerase	polymer	1275	144762.2	1	Pfam (PF03833) UniProt (by SIFTS) (Q9V2F4) In PDB	Pyrococcus abyssi
4	P	DNA primer	polymer	18	5519.5	1		synthetic construct
5	T	DNA template	polymer	25	7717.9	1		synthetic construct
6	A	FE (III) ION	non-polymer		55.8	1	Chemie (FE)
7	A, B	ZINC ION	non-polymer		65.4	4	Chemie (ZN)

Sequence modifications

E, C, D: 1 - 249 (UniProt: Q9UYX8)

PDB	External Database	Details
Met -11	-	initiating methionine
Arg -10	-	expression tag
Gly -9	-	expression tag
Ser -8	-	expression tag
His -7	-	expression tag
His -6	-	expression tag
His -5	-	expression tag
His -4	-	expression tag
His -3	-	expression tag
His -2	-	expression tag
Gly -1	-	expression tag
Ser 0	-	expression tag

A: 1 - 619 (UniProt: Q9V2F3)

PDB	External Database	Details
Ala 451	His 451	engineered mutation

Contents of the asymmetric unit

Polymers	Number of chains	7
	Total formula weight	315823.0
Non-Polymers*	Number of molecules	5
	Total formula weight	317.5
All*	Total formula weight	316140.4

*Water molecules are not included.