5WHF: Vimentin
Crystal structure of vimentin coil 1B packed in a high-order filamentous form. Determined by X-ray diffraction at 2.25 Å resolution. Released 20 Jun 2018.
- Method
- X-ray diffraction
- Resolution
- 2.25 Å
- Organism
- Homo sapiens
- Chains
- 8
- Atoms
- 5,467
- Mol. weight
- 86.66 kDa
- Released
- 20 Jun 2018
Explore 5WHF in 3D
Show helices and sheets
RCSB PDB
PDBe
Secondary structure: helices and β-sheets
5WHF contains 9 α-helices and 0 β-strands across 8 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.
Chains A, D and H: 1 helix, 0 β-strands
| Element | Residues | Length | Sheet |
|---|
| α-helix | 154-235 | 82 | |
Chain B: 1 helix, 0 β-strands
| Element | Residues | Length | Sheet |
|---|
| α-helix | 156-234 | 79 | |
Chain C: 1 helix, 0 β-strands
| Element | Residues | Length | Sheet |
|---|
| α-helix | 150-235 | 86 | |
Chain E: 2 helices, 0 β-strands
| Element | Residues | Length | Sheet |
|---|
| α-helix | 153-203 | 51 | |
| α-helix | 207-234 | 28 | |
Chain F: 1 helix, 0 β-strands
| Element | Residues | Length | Sheet |
|---|
| α-helix | 153-234 | 82 | |
Chain G: 1 helix, 0 β-strands
| Element | Residues | Length | Sheet |
|---|
| α-helix | 151-235 | 85 | |
Molecules and chains
| Molecule | Chains | Type | Length | Organism | UniProt |
|---|
| Vimentin | A, B, C, D, E, F, G, H | protein | 90 | Homo sapiens | P08670 (AlphaFold model) |
Sequence of entity 1 (A, B, C, D, E, F, G, H), FASTA
>5WHF_1 Vimentin (chains A, B, C, D, E, F, G, H)
GPHMEMRELRRQVDQLTNDKARVEVERDNLAEDIMRLREKLQEEMLQREEAENTLQSFRQ
DVDNASLARLDLERKVESLQEEIAFLKKLH
Primary citation
A crystal structure of coil 1B of vimentin in the filamentous form provides a model of a high-order assembly of a vimentin filament. Pang, A.H., Obiero, J.M., Kulczyk, A.W. et al. FEBS J (2018) 285:2888-2899. DOI 10.1111/febs.14585 · PubMed
Other PDB entries of the same protein (UniProt P08670 (AlphaFold model), which also has an AlphaFold model), best resolution first:
- 1GK7 1.4 Å, Human vimentin coil 1A fragment (1A)
- 4YPC 1.44 Å, Trimeric crystal structure of vimentin coil1B fragment
- 4MD5 1.65 Å, Immune Receptor
- 3SWK 1.7 Å, Crystal structure of vimentin coil1B fragment
- 4MDJ 1.7 Å, Immune Receptor
- 3G1E 1.83 Å, X-ray crystal structure of coil 1A of human vimentin
- 1GK6 1.9 Å, Human vimentin coil 2B fragment linked to GCN4 leucine zipper (Z2B)
- 6ATF 1.9 Å, HLA-DRB1*1402 in complex with Vimentin59-71
- 6ATI 1.98 Å, HLA-DRB1*1402 in complex with Vimentin-64Cit59-71
- 4MDI 2.0 Å, Immune Receptor
- 4YV3 2.0 Å, Trimeric crystal structure of vimentin coil1B fragment
- 6YXK 2.0 Å, Crystal structure of ACPA 3F3 in complex with cit-vimentin 59-74
Browse structure collections
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