8AFM: Crescentin filaments
Cryo-EM structure of crescentin filaments (wildtype, C2 symmetry and small box). Determined by electron microscopy at 4.8 Å resolution. Released 16 Aug 2023.
- Method
- Electron microscopy
- Resolution
- 4.8 Å
- Organisms
- Caulobacter vibrioides, Camelidae
- Chains
- 12
- Atoms
- 7,842
- Mol. weight
- 806.51 kDa
- Released
- 16 Aug 2023
Explore 8AFM in 3D
Show helices and sheets
RCSB PDB
PDBe
Secondary structure: helices and β-sheets
8AFM contains 40 α-helices and 42 β-strands across 12 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 and G: 4 helices, 0 β-strands
| Element | Residues | Length | Sheet |
|---|
| α-helix | 370-418 | 49 | |
| α-helix | 421-433 | 13 | |
| α-helix | 435-437 | 3 | |
| α-helix | 438-442 | 5 | |
Chains B and H: 6 helices, 0 β-strands
| Element | Residues | Length | Sheet |
|---|
| α-helix | 368-400 | 33 | |
| α-helix | 402-425 | 24 | |
| α-helix | 426-430 | 5 | |
| α-helix | 431-433 | 3 | |
| α-helix | 435-438 | 4 | |
| α-helix | 440-442 | 3 | |
Chains C and I: 1 helix, 10 β-strands
| Element | Residues | Length | Sheet |
|---|
| β-strand | 7 | 1 | 4 |
| β-strand | 790-795 | 6 | 4 |
| β-strand | 807-812 | 6 | 5 |
| β-strand | 818-824 | 7 | 5 |
| β-strand | 830-832 | 3 | 5 |
| β-strand | 840-843 | 4 | 4 |
| β-strand | 851-856 | 6 | 4 |
| α-helix | 860-862 | 3 | |
| β-strand | 864-871 | 8 | 5 |
| β-strand | 876-878 | 3 | 5 |
| β-strand | 883-884 | 2 | 5 |
Chains D and J: 2 helices, 11 β-strands
| Element | Residues | Length | Sheet |
|---|
| β-strand | 5-7 | 3 | 1 |
| β-strand | 794-796 | 3 | 1 |
| β-strand | 807-812 | 6 | 2 |
| β-strand | 818-824 | 7 | 2 |
| β-strand | 832 | 1 | 2 |
| α-helix | 834-836 | 3 | |
| β-strand | 840-843 | 4 | 1 |
| β-strand | 850-855 | 6 | 1 |
| α-helix | 860-862 | 3 | |
| β-strand | 864-866 | 3 | 2 |
| β-strand | 869-872 | 4 | 3 |
| β-strand | 875-878 | 4 | 3 |
| β-strand | 882-884 | 3 | 2 |
Chains E and K: 5 helices, 0 β-strands
| Element | Residues | Length | Sheet |
|---|
| α-helix | 97-110 | 14 | |
| α-helix | 111-115 | 5 | |
| α-helix | 116-154 | 39 | |
| α-helix | 156-159 | 4 | |
| α-helix | 160-162 | 3 | |
Chains F and L: 2 helices, 0 β-strands
| Element | Residues | Length | Sheet |
|---|
| α-helix | 97-138 | 42 | |
| α-helix | 140-153 | 14 | |
Molecules and chains
| Molecule | Chains | Type | Length | Organism | UniProt |
|---|
| Crescentin | A, B, E, F, G, H, K, L | protein | 457 | Caulobacter vibrioides | A0A0H3CD98 (AlphaFold model) |
| Crescentin-specific megabody MB13 | C, D, I, J | protein | 907 | Camelidae | P42592 (AlphaFold model) |
Sequence of entity 1 (A, B, E, F, G, H, K, L), FASTA
>8AFM_1 Crescentin (chains A, B, E, F, G, H, K, L)
MRLLSKNSRETKNGKPTVLGDEARAEAMQHQIESTQAIGQRYETIHGGLDSIGRVMEHLK
AIEPLIAEIRGPVSQEFEARRAEHAELIAVRANLDQAQRQIALIQAEEREVSARLAAAET
ALGESDARRQTQDAALEDNALEIDRLRNALLQSDLKVSSLDASLRDATARIEHLVQDVEG
LRVQAQDIDARRGDAEAALARANQDNALLGEEAATLKKRVDQAGLDLARLSRIETDLEAQ
LAAERARVQAVENALAAHQADSGRTIRGLESQVEANRAEISALQTRLETATGRADKLEEM
NGQISARLADSSAQQKAVERRAGDLNVALERALDRIRALEEEADGLRQRHAGVDTARATA
IERADQLAKSAVAQEKALKRAEERAQQLRARLDAMQEAQDQVRRDHEAKIAELQATIERL
TSEAALAEGALEAARRDRSRLQMALLGASDGDVAASA
Sequence of entity 2 (C, D, I, J), FASTA
>8AFM_2 Crescentin-specific megabody MB13 (chains C, D, I, J)
EVQLQESGGGLVYKEETQSGLNNYARVVEKGQYDSLEIPAQVAASWESGRDDAAVFGFID
KEQLDKYVANGGKRSDWTVKFAENRSQDGTLLGYSLLQESVDQASYMYSDNHYLAEMATI
LGKPEEAKRYRQLAQQLADYINTCMFDPTTQFYYDVRIEDKPLANGCAGKPIVERGKGPE
GWSPLFNGAATQANADAVVKVMLDPKEFNTFVPLGTAALTNPAFGADIYWRGRVWVDQFW
FGLKGMERYGYRDDALKLADTFFRHAKGLTADGPIQENYNPLTGAQQGAPNFSWSAAHLY
MLYNDFFRKQASGGGSGGGGSGGGGSGNADNYKNVINRTGAPQYMKDYDYDDHQRFNPFF
DLGAWHGHLLPDGPNTMGGFPGVALLTEEYINFMASNFDRLTVWQDGKKVDFTLEAYSIP
GALVQKLTAKDVQVEMTLRFATPRTSLLETKITSNKPLDLVWDGELLEKLEAKEGKPLSD
KTIAGEYPDYQRKISATRDGLKVTFGKVRATWDLLTSGESEYQVHKSLPVQTEINGNRFT
SKAHINGSTTLYTTYSHLLTAQEVSKEQMQIRDILARPAFYLTASQQRWEEYLKKGLTNP
DATPEQTRVAVKAIETLNGNWRSPGGAVKFNTVTPSVTGRWFSGNQTWPWDTWKQAFAMA
HFNPDIAKENIRAVFSWQIQPGDSVRPQDVGFVPDLIAWNLSPERGGDGGNWNERNTKPS
LAAWSVMEVYNVTQDKTWVAEMYPKLVAYHDWWLRNRDHNGNGVPEYGATRDKAHNTESG
EMLFTVKKDSLRLSCASSRSIDGINIMRWYRQAPGKQRGMVAVVTGWGSTNYVDSVKGRF
IISRDSAKDTVYLQMNNLKPEDTAVYSCNAIYRGSEYWGQGTQVTVSSGENLYFQGSHHH
HHHHHHH
Primary citation
Filament structure and subcellular organization of the bacterial intermediate filament-like protein crescentin. Liu, Y., van den Ent, F., Lowe, J. Proc Natl Acad Sci U S A (2024) 121:e2309984121-e2309984121. DOI 10.1073/pnas.2309984121 · PubMed
Other PDB entries of the same protein (UniProt A0A0H3CD98 (AlphaFold model), which also has an AlphaFold model), best resolution first:
- 8AFE 3.3 Å, Cryo-EM structure of crescentin filaments (stutter mutant, C1 symmetry and small box)
- 8AFH 3.9 Å, Cryo-EM structure of crescentin filaments (stutter mutant, C2, symmetry and small box)
- 8AHL 4.1 Å, Cryo-EM structure of crescentin filaments (stutter mutant, C1 symmetry and large box)
- 8AJB 4.3 Å, Cryo-EM structure of crescentin filaments (stutter mutant, C2 symmetry and large box)
- 8AFL 4.4 Å, Cryo-EM structure of crescentin filaments (wildtype, C1 symmetry and small box)
- 8AIA 5.1 Å, Cryo-EM structure of crescentin filaments (wildtype, C1 symmetry and large box)
- 8AIX 5.8 Å, Cryo-EM structure of crescentin filaments (wildtype, C2 symmetry and large box)
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