5DFZ

Structure of Vps34 complex II from S. cerevisiae.

Entity

Entity ID	Chain ID	Description	Type	Chain length	Formula weight	Number of molecules	DB Name (Accession)	Biological source	Descriptive keywords
1	A	Vacuolar protein sorting-associated protein 38	polymer	441	51072.9	1	UniProt (Q05919) Pfam (PF17649) In PDB	Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
2	C	Phosphatidylinositol 3-kinase VPS34	polymer	875	100973.1	1	UniProt (P22543) Pfam (PF00792) Pfam (PF00613) Pfam (PF00454) In PDB	Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)	PtdIns-3-kinase VPS34,Carboxypeptidase Y-deficient protein 15,Vacuolar protein sorting-associated protein 34,Vacuolar protein-targeting protein 29
3	B	Serine/threonine-protein kinase VPS15	polymer	1460	167082.5	1	UniProt (P22219) Pfam (PF00069) In PDB	Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)	Golgi-retention defective mutant protein 8,Vacuolar protein sorting-associated protein 15
4	E	Nanobody binding S. cerevisiae Vps34	polymer	124	13772.3	1		Lama glama
5	D	Vacuolar protein sorting-associated protein 30	polymer	559	63400.7	1	UniProt (Q02948) Pfam (PF17675) Pfam (PF04111) In PDB	Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)	Autophagy-related protein 6
6	G	Putative N-terminal domain of S. cerevisiae Vps30	polymer	49	4188.2	1		Saccharomyces cerevisiae (Baker's yeast)

Sequence modifications

A: 1 - 439 (UniProt: Q05919)

PDB	External Database	Details
Gly 440	-	expression tag
Ser 441	-	expression tag

C: 1 - 875 (UniProt: P22543)

PDB	External Database	Details
Ala 2	Ser 2	conflict
Gly 241	Asp 241	conflict

B: 1 - 1454 (UniProt: P22219)

PDB	External Database	Details
-	Ser 559	deletion
-	Met 560	deletion
-	Asp 561	deletion
-	Asn 562	deletion
-	Asn 563	deletion
-	Thr 564	deletion
-	Glu 565	deletion
-	Ile 566	deletion
-	Met 567	deletion
-	Glu 568	deletion
Gly 1455	-	expression tag
Ser 1456	-	expression tag
Ser 1457	-	expression tag
Arg 1458	-	expression tag
Pro 1459	-	expression tag
Thr 1460	-	expression tag
Thr 1461	-	expression tag
Ala 1462	-	expression tag
Ser 1463	-	expression tag
Glu 1464	-	expression tag
Asn 1465	-	expression tag
Leu 1466	-	expression tag
Tyr 1467	-	expression tag
Phe 1468	-	expression tag
Gln 1469	-	expression tag
Gly 1470	-	expression tag

D: 1 - 557 (UniProt: Q02948)

PDB	External Database	Details
Ile 77	Lys 77	conflict
Ala 467	Thr 467	conflict
His 549	Tyr 549	conflict
Gly 558	-	expression tag
Ser 559	-	expression tag

Contents of the asymmetric unit

Polymers	Number of chains	6
	Total formula weight	400489.6
All*	Total formula weight	400489.6

*Water molecules are not included.