2XS8: ALIX

Crystal Structure of ALIX in complex with the SIVagmTan-1 AYDPARKLL Late Domain. Determined by X-ray diffraction at 2.5 Å resolution. Released 3 Nov 2010.

Method: X-ray diffraction
Resolution: 2.5 Å
Organisms: HOMO SAPIENS, SIMIAN IMMUNODEFICIENCY VIRUS
Chains: 2
Atoms: 5,581
Mol. weight: 80.83 kDa
Released: 3 Nov 2010

Explore 2XS8 in 3D Show helices and sheets RCSB PDB PDBe

Secondary structure: helices and β-sheets

2XS8 contains 35 α-helices and 3 β-strands across 2 chains. Residue ranges use author residue numbering, as in the PDB file, from PDBe. To see them in 3D, choose the Cartoon representation with Secondary structure coloring: helices, sheets and coils get different colors.

Chain A: 34 helices, 3 β-strands

Element	Residues	Length	Sheet
α-helix	8-11	4
β-strand	12	1	1
α-helix	19-27	9
α-helix	34-50	17
α-helix	51-55	5
α-helix	57-58	2
α-helix	62-76	15
α-helix	79-81	3
β-strand	93-96	4	1
β-strand	110-113	4	1
α-helix	116-136	21
α-helix	143-164	22
α-helix	174-176	3
α-helix	177-179	3
α-helix	181-205	25
α-helix	210-232	23
α-helix	241-265	25
α-helix	270-290	21
α-helix	298-314	17
α-helix	315-319	5
α-helix	321-325	5
α-helix	326-328	3
α-helix	330-332	3
α-helix	340-342	3
α-helix	361-398	38
α-helix	415-426	12
α-helix	430-471	42
α-helix	481-484	4
α-helix	486-514	29
α-helix	517-523	7
α-helix	527-531	5
α-helix	541-543	3
α-helix	547-575	29
α-helix	581-589	9
α-helix	596-607	12
α-helix	611-636	26
α-helix	644-695	52

Chain B: 1 helix, 0 β-strands

Element	Residues	Length	Sheet
α-helix	29-32	4

Molecules and chains

Molecule	Chains	Type	Length	Organism	UniProt
Programmed cell death 6-interacting protein	A	protein	704	HOMO SAPIENS	Q8WUM4 (AlphaFold model)
Sivagmtan-1 gag P6	B	protein	18	SIMIAN IMMUNODEFICIENCY VIRUS	Q02843 (AlphaFold model)

Sequence of entity 1 (A), FASTA

>2XS8_1 PROGRAMMED CELL DEATH 6-INTERACTING PROTEIN (chains A)
GIDPFTMATFISVQLKKTSEVDLAKPLVKFIQQTYPSGGEEQAQYCRAAEELSKLRRAAV
GRPLDKHEGALETLLRYYDQICSIEPKFPFSENQICLTFTWKDAFDKGSLFGGSVKLALA
SLGYEKSCVLFNCAALASQIAAEQNLDNDEGLKIAAKHYQFASGAFLHIKETVLSALSRE
PTVDISPDTVGTLSLIMLAQAQEVFFLKATRDKMKDAIIAKLANQAADYFGDAFKQCQYK
DTLPKEVFPVLAAKHCIMQANAEYHQSILAKQQYYFGEEIARLQHAAELIKTVASRYDEY
VNVKDFSDKINRALAAAKKDNDFIYHDRVPDLKDLDPIGKATLVKSTPVNVPISQKFTDL
FEKMVPVSVQQSLAAYNQRKADLVNRSIAQMREATTLANGVLASLNLPAAIEDVSGDTVP
QSILTKSRSVIEQGGIQTVDQLIKELPELLQRNREILDESLRLLDEEEATDNDLRAKFKE
RWQRTPSNELYKPLRAEGTNFRTVLDKAVQADGQVKECYQSHRDTIVLLCKPEPELNAAI
PSANPAKTMQGSEVVNVLKSLLSNLDEVKKEREGLENDLKSVNFDMTSKFLTALAQDGVI
NEEALSVTELDRVYGGLTTKVQESLKKQEGLLKNIQVSHQEFSKMKQSNNEANLREEVLK
NLATAYDNFVELVANLKEGTKFYNELTEILVRFQNKCSDIVFAR

Sequence of entity 2 (B), FASTA

>2XS8_2 SIVAGMTAN-1 GAG P6 (chains B)
AAGAYDPARKLLEQYAKK

Primary citation

Identification and Structural Characterization of the Alix-Binding Late Domains of Sivmac239 and Sivagmtan-1. Zhai, Q., Landesman, M., Robinson, H. et al. J Virol (2011) 85:632. DOI 10.1128/JVI.01683-10 · PubMed

Other PDB entries of the same protein (UniProt Q8WUM4 (AlphaFold model), which also has an AlphaFold model), best resolution first:

5WA1 1.87 Å, CHMP4C A232T in complex with ALIX BRO1
5V3R 1.91 Å, CHMP4C in complex with ALIX BRO1
3E1R 2.0 Å, Midbody targeting of the ESCRT machinery by a non-canonical coiled-coil in CEP55
3C3R 2.02 Å, ALIX BRO1 CHMP4C complex
3C3Q 2.1 Å, ALIX Bro1-domain:CHMIP4B co-crystal structure
3C3O 2.15 Å, ALIX Bro1-domain:CHMIP4A co-crystal structure
2ZNE 2.2 Å, Crystal structure of Zn2+-bound form of des3-23ALG-2 complexed with Alix ABS peptide
6KP3 2.2 Å, Structure of sendai virus Y3/ALIX-BRO1 domain complex
2XS1 2.3 Å, Crystal Structure of ALIX in complex with the SIVmac239 PYKEVTEDL Late Domain
2OEW 2.55 Å, Structure of ALIX/AIP1 Bro1 Domain
2R05 2.55 Å, Crystal Structure of ALIX/AIP1 in complex with the HIV-1 YPLASL Late Domain
2OEX 2.58 Å, Structure of ALIX/AIP1 V Domain

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