7R24: Rat Arc CTD

Crystal structure of rat Arc CTD in complex with two anti-Arc nanobodies. Determined by X-ray diffraction at 2.7 Å resolution. Released 1 Jun 2022.

Method: X-ray diffraction
Resolution: 2.7 Å
Organisms: Rattus norvegicus, Vicugna pacos
Chains: 3
Atoms: 3,168
Mol. weight: 72.26 kDa
Released: 1 Jun 2022

Explore 7R24 in 3D Show helices and sheets RCSB PDB PDBe

Secondary structure: helices and β-sheets

7R24 contains 14 α-helices and 25 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: 11 helices, 1 β-strand

Element	Residues	Length	Sheet
β-strand	215	1	1
α-helix	216-217	2
α-helix	218-232	15
α-helix	236-243	8
α-helix	244-246	3
α-helix	250-258	9
α-helix	259-261	3
α-helix	265-289	25
α-helix	299-313	15
α-helix	319-328	10
α-helix	332-339	8
α-helix	346-359	14

Chain C: 1 helix, 13 β-strands

Element	Residues	Length	Sheet
β-strand	5-9	5	2
β-strand	13-15	3	3
β-strand	19-27	9	2
β-strand	35-41	7	4
β-strand	48-54	7	4
β-strand	60-62	3	4
β-strand	70-74	5	2
β-strand	80-86	7	2
α-helix	90-92	3
β-strand	94	1	5
β-strand	95-101	7	4
β-strand	109-110	2	4
β-strand	116	1	5
β-strand	117-119	3	3

Chain E: 2 helices, 11 β-strands

Element	Residues	Length	Sheet
β-strand	6-9	4	6
β-strand	19-26	8	6
α-helix	31-33	3
β-strand	35-41	7	7
β-strand	48-53	6	7
β-strand	60-62	3	7
β-strand	70-75	6	6
β-strand	80-86	7	6
α-helix	90-92	3
β-strand	95-101	7	7
β-strand	108	1	1
β-strand	117	1	7
β-strand	122-123	2	7

Molecules and chains

Molecule	Chains	Type	Length	Organism	UniProt
Activity-regulated cytoskeleton-associated protein	A	protein	397	Rattus norvegicus	Q63053 (AlphaFold model)
anti-Arc nanobody	C	protein	120	Vicugna pacos
anti-Arc nanobody	E	protein	128	Vicugna pacos

Sequence of entity 1 (A), FASTA

>7R24_1 Activity-regulated cytoskeleton-associated protein (chains A)
SMELDHMTTGGLHAYPAPRGGPAAKPNVILQIGKCRAEMLEHVRRTHRHLLTEVSKQVER
ELKGLHRSVGKLENNLDGYVPTGDSQRWKKSIKACLCRCQETIANLERWVKREAAAAAAA
FYRLERWADRLESMGGKYPVGSEPARHTVSVGVGGPEPYCQEADGYDYTVSPYAITPPPA
AGELPEQESVGAQQYQSWVPGEDGQPSPGVDTQIFEDPREFLSHLEEYLRQVGGSEEYWL
SQIQNHMNGPAKKWWEFKQGSVKNWVEFKKEFLQYSEGTLSREAIQRELDLPQKQGEPLD
QFLWRKRDLYQTLYVDAEEEEIIQYVVGTLQPKFKRFLRHPLPKTLEQLIQRGMEVQDGL
EQAAEPSVTPLPTEDETEALTPALTSESVASDRTQPE

Sequence of entity 2 (C), FASTA

>7R24_2 anti-Arc nanobody (chains C)
GSEVQLVESGGGLVQAGGSLRLSCAASGRTSGALNVAWYRQATGKEREYVARLWWNDGTT
YYSDSVKGRFTISSDNAKKIVYLQMNRLKPDDTAIYYCAVRTPSSQTLYWGQGTQVTVSS

Sequence of entity 3 (E), FASTA

>7R24_3 anti-Arc nanobody (chains E)
GSEVQLLESGGGLVQAGDSLRLSCAASGRTFSAYAMGWFRQAPGKEREFVAAISWSGNST
YYADSVKGRFTISRDNAKNTVYLQMNSLKPEDTAIYYCAARKPMYRVDISKGQNYDYWGQ
GTQVTVSS

Primary citation

Crystal structure of rat Arc CTD in complex with two anti-Arc nanobodies. Markusson, S., Kursula, P. To be published.

Other PDB entries of the same protein (UniProt Q63053 (AlphaFold model), which also has an AlphaFold model), best resolution first:

4X3I 1.8 Å, The crystal structure of Arc N-lobe complexed with CAMK2A fragment
4X3X 2.0 Å, The crystal structure of Arc C-lobe
4X3H 2.4 Å, Crystal structure of arc N-lobe complexed with stargazin peptide
6GSE Solution structure of the capsid domain from the activity-regulated…

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