6CM9

Structure of the cargo bound AP-1:Arf1:tetherin-Nef closed trimer monomeric subunit

Entity

Entity ID	Chain ID	Description	Type	Chain length	Formula weight	Number of molecules	DB Name (Accession)	Biological source	Descriptive keywords
1	L, T, N	Bone marrow stromal antigen 2, Protein Nef chimera	polymer	264	29964.3	3	UniProt (Q10589) UniProt (Q90VU7) Pfam (PF00469) In PDB	Homo sapiens (Human)	BST-2,HM1.24 antigen,Tetherin
2	B	AP-1 complex subunit beta-1	polymer	586	66152.5	1	UniProt (Q10567) Pfam (PF01602) In PDB	Homo sapiens (Human)	Adaptor protein complex AP-1 subunit beta-1,Adaptor-related protein complex 1 subunit beta-1,Beta-1-adaptin,Beta-adaptin 1,Clathrin assembly protein complex 1 beta large chain,Golgi adaptor HA1/AP1 adaptin beta subunit
3	C, H	ADP-ribosylation factor 1	polymer	193	22314.3	2	UniProt (P84077) Pfam (PF00025) In PDB	Homo sapiens (Human)
4	G	AP-1 complex subunit gamma-1	polymer	601	68194.1	1	UniProt (P22892) Pfam (PF01602) In PDB	Mus musculus (Mouse)	Adaptor protein complex AP-1 subunit gamma-1,Adaptor-related protein complex 1 subunit gamma-1,Clathrin assembly protein complex 1 gamma-1 large chain,Gamma-adaptin,Gamma1-adaptin,Golgi adaptor HA1/AP1 adaptin subunit gamma-1
5	M	AP-1 complex subunit mu-1	polymer	423	48606.7	1	UniProt (P35585) Pfam (PF01217) Pfam (PF00928) In PDB	Mus musculus (Mouse)	AP-mu chain family member mu1A,Adaptor protein complex AP-1 subunit mu-1,Adaptor-related protein complex 1 subunit mu-1,Clathrin assembly protein complex 1 mu-1 medium chain 1,Clathrin coat assembly protein AP47,Clathrin coat-associated protein AP47,Golgi adaptor HA1/AP1 adaptin mu-1 subunit,Mu-adaptin 1,Mu1A-adaptin
6	S	AP-1 complex subunit sigma-3	polymer	154	18321.3	1	UniProt (Q96PC3) Pfam (PF01217) In PDB	Homo sapiens (Human)	Adaptor protein complex AP-1 subunit sigma-1C,Adaptor-related protein complex 1 subunit sigma-1C,Clathrin assembly protein complex 1 sigma-1C small chain,Golgi adaptor HA1/AP1 adaptin sigma-1C subunit,Sigma 1C subunit of AP-1 clathrin,Sigma-adaptin 1C,Sigma1C-adaptin
7	C, H	GUANOSINE-5'-TRIPHOSPHATE	non-polymer		523.2	2	Chemie (GTP)
8	C, H	MAGNESIUM ION	non-polymer		24.3	2	Chemie (MG)

Sequence modifications

L, T, N: -29 - -10 (UniProt: Q10589)

PDB	External Database	Details
Met -57	-	expression tag
Ser -56	-	expression tag
Tyr -55	-	expression tag
Tyr -54	-	expression tag
His -53	-	expression tag
His -52	-	expression tag
His -51	-	expression tag
His -50	-	expression tag
His -49	-	expression tag
His -48	-	expression tag
Asp -47	-	expression tag
Tyr -46	-	expression tag
Asp -45	-	expression tag
Ile -44	-	expression tag
Pro -43	-	expression tag
Thr -42	-	expression tag
Thr -41	-	expression tag
Glu -40	-	expression tag
Asn -39	-	expression tag
Leu -38	-	expression tag
Tyr -37	-	expression tag
Phe -36	-	expression tag
Gln -35	-	expression tag
Gly -34	-	expression tag
Ala -33	-	expression tag
Met -32	-	expression tag
Gly -31	-	expression tag
Ser -30	-	expression tag
Gly -9	-	linker
Ser -8	-	linker
Asp -7	-	linker
Glu -6	-	linker
Ala -5	-	linker
Ser -4	-	linker
Glu -3	-	linker
Gly -2	-	linker
Ser -1	-	linker
Gly 0	-	linker

L, T, N: 1 - 206 (UniProt: Q90VU7)
B: 1 - 584 (UniProt: Q10567)

PDB	External Database	Details
Gly -1	-	expression tag
Ser 0	-	expression tag
Arg 359	Lys 359	engineered mutation
Lys 476	Glu 476	engineered mutation

C, H: 17 - 181 (UniProt: P84077)

PDB	External Database	Details
Met -11	-	expression tag
Ser -10	-	expression tag
Tyr -9	-	expression tag
Tyr -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
Asp -1	-	expression tag
Tyr 0	-	expression tag
Asp 1	-	expression tag
Ile 2	-	expression tag
Pro 3	-	expression tag
Thr 4	-	expression tag
Thr 5	-	expression tag
Glu 6	-	expression tag
Asn 7	-	expression tag
Leu 8	-	expression tag
Tyr 9	-	expression tag
Phe 10	-	expression tag
Gln 11	-	expression tag
Gly 12	-	expression tag
Ala 13	-	expression tag
Met 14	-	expression tag
Gly 15	-	expression tag
Ser 16	-	expression tag
Leu 71	Gln 71	engineered mutation

G: 1 - 595 (UniProt: P22892)

PDB	External Database	Details
Glu 596	-	expression tag
Asn 597	-	expression tag
Leu 598	-	expression tag
Tyr 599	-	expression tag
Phe 600	-	expression tag
Gln 601	-	expression tag

S: 1 - 154 (UniProt: Q96PC3)

PDB	External Database	Details
Cys 148	Ser 148	conflict

Contents of the asymmetric unit

Polymers	Number of chains	9
	Total formula weight	335796.2
Non-Polymers*	Number of molecules	4
	Total formula weight	1095.0
All*	Total formula weight	336891.2

*Water molecules are not included.