7NDY: PDB entry 7NDY

Di-phosphorylated Barrier-to-Autointegration Factor (BAF) in complex with LEM domain of Emerin. Determined by X-ray diffraction at 1.44 Å resolution. Released 7 Apr 2021.

Method: X-ray diffraction
Resolution: 1.44 Å
Organism: Homo sapiens
Chains: 3
Atoms: 2,008
Mol. weight: 41.67 kDa
Released: 7 Apr 2021

Explore 7NDY in 3D Show helices and sheets RCSB PDB PDBe

Secondary structure: helices and β-sheets

7NDY contains 15 α-helices and 2 β-strands across 3 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: 6 helices, 2 β-strands

Element	Residues	Length	Sheet
α-helix	3-11	9
β-strand	19	1	1
α-helix	20-22	3
α-helix	28-36	9
β-strand	41	1	1
α-helix	42-51	10
α-helix	56-67	12
α-helix	71-88	18

Chain B: 6 helices, 0 β-strands

Element	Residues	Length
α-helix	3-11	9
α-helix	20-22	3
α-helix	28-36	9
α-helix	42-51	10
α-helix	56-67	12
α-helix	71-88	18

Chain G: 3 helices, 0 β-strands

Element	Residues	Length
α-helix	4-6	3
α-helix	9-18	10
α-helix	31-43	13

Molecules and chains

Molecule	Chains	Type	Length	Organism	UniProt
Barrier-to-autointegration factor, N-terminally processed	A, B	protein	89	Homo sapiens	O75531 (AlphaFold model)
Emerin	G	protein	187	Homo sapiens	P50402 (AlphaFold model)

Sequence of entity 1 (A, B), FASTA

>7NDY_1 Barrier-to-autointegration factor, N-terminally processed (chains A, B)
GTTSQKHRDFVAEPMGEKPVGSLAGIGEVLGKKLEERGFDKAYVVLGQFLVLKKDEDLFR
EWLKDTAGANAKQSRDAFGALREWADAFL

Sequence of entity 2 (G), FASTA

>7NDY_2 Emerin (chains G)
GDNYADLSDTELTTLLRRYNIPHGPVVGSTRRLYEKKIFEYETQRRRLSPPSSSAASSYS
FSDLNSTRGDADMYDLPKKEDALLYQSKGYNDDYYEESYFTTRTYGEPESAGPSRAVRQS
VTSFPDADAFHHQVHDDDLLSSSEEECKDRERPMYGRDSAYQSITHYRPVSASRSSLDLS
YYPTSSS

Primary citation

Di-phosphorylated BAF shows altered structural dynamics and binding to DNA, but interacts with its nuclear envelope partners. Marcelot, A., Petitalot, A., Ropars, V. et al. Nucleic Acids Res (2021) 49:3841-3855. DOI 10.1093/nar/gkab184 · PubMed

Other PDB entries of the same protein (UniProt O75531 (AlphaFold model), which also has an AlphaFold model), best resolution first:

7Z21 1.63 Å, BAF A12T bound to the lamin A/C Ig-fold domain
6URE 1.65 Å, Barrier-to-autointegration factor Aqueous: 1 of 14 in MSCS set
6URJ 1.65 Å, Barrier-to-autointegration factor soaked in Acetone: 1 of 14 in MSCS set
6URZ 1.65 Å, Barrier-to-autointegration factor soaked in methanol: 1 of 14 in MSCS set
6US0 1.65 Å, Barrier-to-autointegration factor soaked in R,S,R-bisfuranol (RSR): 1 of 14 in MSCS set
6US1 1.65 Å, Barrier-to-autointegration factor soaked in isobutanol: 1 of 14 in MSCS set
6US7 1.65 Å, Barrier-to-autointegration factor soaked in TMAO: 1 of 14 in MSCS set
6USD 1.65 Å, Barrier-to-autointegration factor soaked in ethanol: 1 of 14 in MSCS set
6USI 1.65 Å, Barrier-to-autointegration factor soaked in 1,6-hexanediol: 1 of 14 in MSCS set
6URN 1.68 Å, Barrier-to-autointegration factor t-butanol: 1 of 14 in MSCS set
6USB 1.68 Å, Barrier-to-autointegration factor soaked in urea: 1 of 14 in MSCS set
6URL 1.72 Å, Barrier-to-autointegration factor soaked in isopropanol: 1 of 14 in MSCS set

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