6DFF
Structure of the cargo bound AP-1:Arf1:tetherin-Nef monomer
Entity
| Entity ID | Chain ID | Description | Type | Chain length | Formula weight | Number of molecules | DB Name (Accession) | Biological source | Descriptive keywords |
| 1 | A, B (L, T) | Bone marrow stromal antigen 2, Nef protein chimera | polymer | 264 | 29964.3 | 2 | UniProt (Q10589) UniProt (Q90VU7) | Homo sapiens (Human) | BST-2,HM1.24 antigen,Tetherin,3'ORF,Negative factor,F-protein |
| 2 | C (B) | AP-1 complex subunit beta-1 | polymer | 586 | 66152.5 | 1 | UniProt (Q10567) Pfam (PF01602) | 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 | D, F (C, H) | ADP-ribosylation factor 1 | polymer | 193 | 22314.3 | 2 | UniProt (P84077) Pfam (PF00025) | Homo sapiens (Human) | |
| 4 | E (G) | AP-1 complex subunit gamma-1 | polymer | 601 | 68194.1 | 1 | UniProt (P22892) Pfam (PF01602) | 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 | G (M) | AP-1 complex subunit mu-1 | polymer | 423 | 48606.7 | 1 | UniProt (P35585) Pfam (PF01217) Pfam (PF00928) | 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 | H (S) | AP-1 complex subunit sigma-3 | polymer | 154 | 18321.3 | 1 | UniProt (Q96PC3) Pfam (PF01217) | 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 | I, K (C, H) | GUANOSINE-5'-TRIPHOSPHATE | non-polymer | 523.2 | 2 | Chemie (GTP) PubChem (177679032) PubChem (135400627) PubChem (135487750) PubChem (136088935) PubChem (136803486) PubChem (135398633) PubChem (135544356) PubChem (135547949) PubChem (135600366) PubChem (135749822) PubChem (136005188) PubChem (136073923) PubChem (136240914) PubChem (136664747) PubChem (136772743) PubChem (136772744) PubChem (136803487) PubChem (137286749) PubChem (164715984) PubChem (171699466) | |||
| 8 | J, L (C, H) | MAGNESIUM ION | non-polymer | 24.3 | 2 | Chemie (MG) PubChem (888) |
Sequence modifications
L, T: -29 - -10 (UniProt: Q10589)
L, T: 1 - 206 (UniProt: Q90VU7)
B: 1 - 584 (UniProt: Q10567)
C, H: 17 - 181 (UniProt: P84077)
G: 1 - 595 (UniProt: P22892)
S: 1 - 154 (UniProt: Q96PC3)
| PDB | External Database | Details |
|---|---|---|
| Met -57 | - | initiating methionine |
| 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 |
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 |
| PDB | External Database | Details |
|---|---|---|
| Met -11 | - | initiating methionine |
| 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 |
| 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 |
| PDB | External Database | Details |
|---|---|---|
| Cys 148 | Ser 148 | conflict |
Sequence viewer
Contents of the asymmetric unit
| Polymers | Number of chains | 8 |
| Total formula weight | 305831.9 | |
| Non-Polymers* | Number of molecules | 4 |
| Total formula weight | 1095.0 | |
| All* | Total formula weight | 306926.8 |
