6URI

HIV-1 Nef in complex with the CD4 cytoplasmic domain and the AP2 clathrin adaptor complex

Entity

Entity ID	Chain ID	Description	Type	Chain length	Formula weight	Number of molecules	DB Name (Accession)	Biological source	Descriptive keywords
1	A (A)	AP-2 complex subunit alpha	polymer	641	72069.8	1	UniProt (Q66HM2) Pfam (PF01602) UniProt (by SIFTS) (P18484)	Rattus norvegicus (Rat)
2	B (S)	AP-2 complex subunit sigma	polymer	142	17066.7	1	UniProt (P53680) Pfam (PF01217)	Homo sapiens (Human)	Adaptor protein complex AP-2 subunit sigma,Adaptor-related protein complex 2 subunit sigma,Clathrin assembly protein 2 sigma small chain,Clathrin coat assembly protein AP17,Clathrin coat-associated protein AP17,HA2 17 kDa subunit,Plasma membrane adaptor AP-2 17 kDa protein,Sigma2-adaptin
3	C (N)	Protein Nef	polymer	186	21032.5	1	UniProt (Q90VU7) Pfam (PF00469) UniProt (by SIFTS) (P03406)	Human immunodeficiency virus 1	3'ORF,Negative factor,F-protein
4	D (B)	AP-2 complex subunit beta	polymer	615	69473.8	1	UniProt (P63010) Pfam (PF01602)	Homo sapiens (Human)	AP105B,Adaptor protein complex AP-2 subunit beta,Adaptor-related protein complex 2 subunit beta,Beta-2-adaptin,Beta-adaptin,Clathrin assembly protein complex 2 beta large chain,Plasma membrane adaptor HA2/AP2 adaptin beta subunit
5	E (M)	AP-2 complex subunit mu	polymer	135	15518.8	1	UniProt (Q96CW1) Pfam (PF01217)	Homo sapiens (Human)	AP-2 mu chain,Adaptin-mu2,Adaptor protein complex AP-2 subunit mu,Adaptor-related protein complex 2 subunit mu,Clathrin assembly protein complex 2 mu medium chain,Clathrin coat assembly protein AP50,Clathrin coat-associated protein AP50,HA2 50 kDa subunit,Plasma membrane adaptor AP-2 50 kDa protein
6	F (D)	cDNA FLJ50658, highly similar to T-cell surface glycoprotein CD4	polymer	62	6881.8	1	UniProt (B4DT49) Pfam (PF12104) UniProt (by SIFTS) (P01730)	Homo sapiens (Human)	cDNA,FLJ79360,highly similar to T-cell surface glycoprotein CD4,FLJ79361
7	G, H (A, N)	water	water		18.0	2	Chemie (HOH)

Sequence modifications

A: 1 - 621 (UniProt: Q66HM2)

PDB	External Database	Details
Met -13	-	initiating methionine
Gly -12	-	expression tag
Ser -11	-	expression tag
Ser -10	-	expression tag
His -9	-	expression tag
His -8	-	expression tag
His -7	-	expression tag
His -6	-	expression tag
His -5	-	expression tag
His -4	-	expression tag
Ser -3	-	expression tag
Gln -2	-	expression tag
Asp -1	-	expression tag
Pro 0	-	expression tag
Glu 622	-	expression tag
Asn 623	-	expression tag
Leu 624	-	expression tag
Tyr 625	-	expression tag
Phe 626	-	expression tag
Gln 627	-	expression tag

S: 1 - 142 (UniProt: P53680)

PDB	External Database	Details
Arg 45	Lys 45	conflict

N: 26 - 206 (UniProt: Q90VU7)

PDB	External Database	Details
Ala 21	-	expression tag
Gly 22	-	expression tag
Phe 23	-	expression tag
Ser 24	-	expression tag
Met 25	-	expression tag

B: 1 - 591 (UniProt: P63010)

PDB	External Database	Details
Met -23	-	initiating methionine
Gly -22	-	expression tag
Ser -21	-	expression tag
Ser -20	-	expression tag
His -19	-	expression tag
His -18	-	expression tag
His -17	-	expression tag
His -16	-	expression tag
His -15	-	expression tag
His -14	-	expression tag
Ser -13	-	expression tag
Gln -12	-	expression tag
Asp -11	-	expression tag
Pro -10	-	expression tag
Asn -9	-	expression tag
Ser -8	-	expression tag
Ser -7	-	expression tag
Ser -6	-	expression tag
Ala -5	-	expression tag
Arg -4	-	expression tag
Leu -3	-	expression tag
Gln -2	-	expression tag
Val -1	-	expression tag
Asp 0	-	expression tag
Ser 16	Phe 16	variant
His 421	Tyr 421	variant
Gly 434	Glu 434	variant

D: 394 - 419 (UniProt: B4DT49)

PDB	External Database	Details
Gly 358	-	expression tag
Val 359	-	expression tag
Asp 360	-	expression tag
Gly 361	-	expression tag
Ser 362	-	expression tag
Asp 363	-	expression tag
Glu 364	-	expression tag
Ala 365	-	expression tag
Ser 366	-	expression tag
Glu 367	-	expression tag
Leu 368	-	expression tag
Ala 369	-	expression tag
Cys 370	-	expression tag
Pro 371	-	expression tag
Thr 372	-	expression tag
Pro 373	-	expression tag
Lys 374	-	expression tag
Glu 375	-	expression tag
Asp 376	-	expression tag
Gly 377	-	expression tag
Leu 378	-	expression tag
Ala 379	-	expression tag
Gln 380	-	expression tag
Gln 381	-	expression tag
Gln 382	-	expression tag
Thr 383	-	expression tag
Gln 384	-	expression tag
Leu 385	-	expression tag
Asn 386	-	expression tag
Leu 387	-	expression tag
Arg 388	-	expression tag
Gly 389	-	expression tag
Ser 390	-	expression tag
Gly 391	-	expression tag
Ser 392	-	expression tag
Gly 393	-	expression tag

Contents of the asymmetric unit

Polymers	Number of chains	6
	Total formula weight	202043.5
All*	Total formula weight	202043.5

*Water molecules are not included.