3VJA: Human squalene synthase

Crystal structure of the human squalene synthase. Determined by X-ray diffraction at 1.76 Å resolution. Released 11 Apr 2012.

Method: X-ray diffraction
Resolution: 1.76 Å
Organism: Homo sapiens
Chains: 2
Atoms: 5,974
Mol. weight: 79.02 kDa
Ligands: NI
Released: 11 Apr 2012

Explore 3VJA in 3D Show helices and sheets RCSB PDB PDBe

Secondary structure: helices and β-sheets

3VJA contains 49 α-helices and 0 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: 24 helices, 0 β-strands

Element	Residues	Length
α-helix	38-51	14
α-helix	55-59	5
α-helix	64-84	21
α-helix	90-98	9
α-helix	100-103	4
α-helix	120-123	4
α-helix	125-133	9
α-helix	137-156	20
α-helix	165-172	8
α-helix	173-177	5
α-helix	178-190	13
α-helix	195-199	5
α-helix	201-218	18
α-helix	220-225	6
α-helix	233-236	4
α-helix	243-247	5
α-helix	249-251	3
α-helix	252-267	16
α-helix	270-278	9
α-helix	283-303	21
α-helix	307-310	4
α-helix	318-327	10
α-helix	331-346	16
α-helix	356-367	12

Chain B: 25 helices, 0 β-strands

Element	Residues	Length
α-helix	38-51	14
α-helix	52-54	3
α-helix	55-59	5
α-helix	64-84	21
α-helix	90-103	14
α-helix	120-123	4
α-helix	125-133	9
α-helix	137-156	20
α-helix	160-162	3
α-helix	165-172	8
α-helix	173-177	5
α-helix	178-189	12
α-helix	195-199	5
α-helix	201-218	18
α-helix	220-225	6
α-helix	233-236	4
α-helix	243-247	5
α-helix	249-251	3
α-helix	252-267	16
α-helix	270-278	9
α-helix	283-303	21
α-helix	308-311	4
α-helix	318-327	10
α-helix	331-346	16
α-helix	356-368	13

Molecules and chains

Molecule	Chains	Type	Length	Organism	UniProt
Squalene synthase	A, B	protein	343	Homo sapiens	P37268 (AlphaFold model)

Sequence of entity 1 (A, B), FASTA

>3VJA_1 Squalene synthase (chains A, B)
GSHMDQDSLSSSLKTCYKYLNQTSRSFAAVIQALDGEMRNAVCIFYLVLRALDTLEDDMT
ISVEKKVPLLHNFHSFLYQPDWRFMESKEKDRQVLEDFPTISLEFRNLAEKYQTVIADIC
RRMGIGMAEFLDKHVTSEQEWDKYCHYVAGLVGIGLSRLFSASEFEDPLVGEDTERANSM
GLFLQKTNIIRDYLEDQQGGREFWPQEVWSRYVKKLGDFAKPENIDLAVQCLNELITNAL
HHIPDVITYLSRLRNQSVFNFCAIPQVMAIATLAACYNNQQVFKGAVKIRKGQAVTLMMD
ATNMPAVKAIIYQYMEEIYHRIPDSDPSSSKTRQIISTIRTQN

Ligands and cofactors

ID	Name	Formula	Copies
NI	Nickel (II) ion	Ni	2

Primary citation

Binding modes of zaragozic acid A to human squalene synthase and staphylococcal dehydrosqualene synthase. Liu, C.I., Jeng, W.Y., Chang, W.J. et al. J Biol Chem (2012) 287:18750-18757. DOI 10.1074/jbc.M112.351254 · PubMed

Other PDB entries of the same protein (UniProt P37268 (AlphaFold model), which also has an AlphaFold model), best resolution first:

6PYW 1.38 Å, Crystal Structure of HLA-B*2705-W60A in complex with LRN, a self-peptide
6PYJ 1.44 Å, Crystal Structure of HLA-B*2705 in complex with LRN, a self-peptide
6PYV 1.45 Å, Crystal Structure of HLA-B*2703-P47G in complex with LRN, a self-peptide
3VJ8 1.52 Å, Crystal structure of the human squalene synthase
3VJ9 1.52 Å, Crystal structure of the human squalene synthase
6PZ5 1.53 Å, Crystal Structure of HLA-B*2703 in complex with LRN, a self-peptide
3WEG 1.75 Å, Crystal structure of the human squalene synthase in complex with farnesyl…
3WEI 1.79 Å, Crystal structure of the human squalene synthase Y73A mutant in complex with presqualene…
3V66 1.8 Å, HUMAN SQUALENE SYNTHASE IN COMPLEX WITH 2-(1-{2-[(4R,6S)-8-chloro-6-(2,3-dimethoxyphenyl)…
3WEK 1.85 Å, Crystal structure of the human squalene synthase F288L mutant in complex with…
3WEH 1.87 Å, Crystal structure of the human squalene synthase in complex with presqualene pyrophosphate
3VJC 1.89 Å, Crystal structure of the human squalene synthase in complex with zaragozic acid A

Browse structure collections

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