7DFA: Crystal of Arrestin2-V2Rpp-4-Fab30 complex

Crystal of Arrestin2-V2Rpp-4-Fab30 complex. Determined by X-ray diffraction at 2.54 Å resolution. Released 28 Jul 2021.

Method: X-ray diffraction
Resolution: 2.54 Å
Organisms: Bos taurus, Mus musculus, synthetic construct
Chains: 4
Atoms: 6,015
Mol. weight: 102.76 kDa
Released: 28 Jul 2021

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

Secondary structure: helices and β-sheets

7DFA contains 30 α-helices and 73 β-strands across 4 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: 16 helices, 26 β-strands

Element	Residues	Length	Sheet
β-strand	7-12	6	1
β-strand	18-22	5	1
β-strand	26-28	3	2
β-strand	29-30	2	3
β-strand	33-34	2	3
α-helix	35-36	2
β-strand	37-43	7	1
β-strand	53-63	11	4
β-strand	73-87	15	4
α-helix	89-90	2
α-helix	96-98	3
α-helix	99-108	10
β-strand	112-117	6	1
α-helix	119-120	2
α-helix	123-126	4
β-strand	127-129	3	4
α-helix	130-131	2
α-helix	139-140	2
β-strand	141-150	10	4
α-helix	157-159	3
β-strand	163-168	6	4
β-strand	169-171	3	2
α-helix	181-182	2
β-strand	183-188	6	5
β-strand	197-203	7	5
β-strand	207-208	2	6
β-strand	214-222	9	5
β-strand	228-242	15	7
β-strand	246-258	13	7
β-strand	262	1	7
β-strand	266-274	9	5
α-helix	279-281	3
β-strand	288-290	3	4
α-helix	291-292	2
α-helix	299	1
β-strand	300	1	4
α-helix	301-305	5
β-strand	316-329	14	7
β-strand	343-349	7	7
β-strand	350-351	2	6
α-helix	353-355	3
α-helix	359-361	3

Chain H: 4 helices, 22 β-strands

Element	Residues	Length	Sheet
β-strand	20-22	3	8
β-strand	26-27	2	9
β-strand	32-38	7	8
α-helix	44-46	3
β-strand	49-54	6	10
β-strand	60-67	8	10
β-strand	72-75	4	10
α-helix	77-79	3
β-strand	83-88	6	8
β-strand	93-99	7	8
β-strand	107-113	7	10
β-strand	124-125	2	10
β-strand	129-131	3	10
β-strand	132-133	2	9
α-helix	139-141	3
β-strand	142-146	5	11
β-strand	153-154	2	12
β-strand	157-158	2	12
β-strand	159-167	9	11
β-strand	172-176	5	13
β-strand	186-187	2	11
α-helix	188-190	3
β-strand	191-192	2	11
β-strand	198-205	8	11
β-strand	217-222	6	13
β-strand	227-232	6	13

Chain L: 8 helices, 23 β-strands

Element	Residues	Length	Sheet
α-helix	14-16	3
β-strand	17-20	4	14
β-strand	23-26	4	15
β-strand	32-38	7	14
β-strand	46-51	6	15
β-strand	58-62	5	15
β-strand	66-67	2	15
α-helix	68	1
β-strand	75-80	6	14
β-strand	83-88	6	14
α-helix	93-95	3
β-strand	98-103	6	15
α-helix	109	1
β-strand	110-111	2	15
β-strand	115-119	5	15
α-helix	120	1
β-strand	124	1	16
β-strand	127-131	5	17
α-helix	132-134	3
α-helix	135-138	4
β-strand	142-152	11	17
β-strand	153	1	16
β-strand	158-160	3	18
β-strand	174-176	3	17
β-strand	186-195	10	17
α-helix	196-200	5
β-strand	206-207	2	19
β-strand	208-210	3	18
β-strand	211	1	20
β-strand	214	1	20
β-strand	220-221	2	19

Chain V: 2 helices, 2 β-strands

Element	Residues	Length	Sheet
α-helix	3-4	2
β-strand	5-7	3	4
α-helix	9-11	3
β-strand	17-20	4	1

Molecules and chains

Molecule	Chains	Type	Length	Organism	UniProt
Beta-arrestin-1	A	protein	426	Bos taurus	P17870 (AlphaFold model)
FAB30 heavy chain	H	protein	249	Mus musculus
FAB30 light chain	L	protein	227	Mus musculus
VaRpp-4	V	protein	23	synthetic construct	P30518 (AlphaFold model)

Sequence of entity 1 (A), FASTA

>7DFA_1 Beta-arrestin-1 (chains A)
MGDKGTRVFKKASPNGKLTVYLGKRDFVDHIDLVEPVDGVVLVDPEYLKERRVYVTLTCA
FRYGREDLDVLGLTFRKDLFVANVQSFPPAPEDKKPLTRLQERLIKKLGEHAYPFTFEIP
PNLPCSVTLQPGPEDTGKACGVDYEVKAFCAENLEEKIHKRNSVRLVIRKVQYAPERPGP
QPTAETTRQFLMSDKPLHLEASLDKEIYYHGEPISVNVHVTNNTNKTVKKIKISVRQYAD
ICLFNTAQYKCPVAMEEADDTVAPSSTFCKVYTLTPFLANNREKRGLALDGKLKHEDTNL
ASSTLLREGANREILGIIVSYKVKVKLVVSRGGLLGDLASSDVAVELPFTLMHPKPKEEP
PHREVPEHETPVDTNLIELDTNDDDIVFEDFARQRLKGMKDDKEEEEDGTGSPRLNDRLE
HHHHHH

Sequence of entity 2 (H), FASTA

>7DFA_2 FAB30 HEAVY CHAIN (chains H)
MFVFSIATNAYAEISEVQLVESGGGLVQPGGSLRLSCAASGFNVYSSSIHWVRQAPGKGL
EWVASISSYYGYTYYADSVKGRFTISADTSKNTAYLQMNSLRAEDTAVYYCARSRQFWYS
GLDYWGQGTLVTVSSASTKGPSVFPLAPSSKSTSGGTAALGCLVKDYFPEPVTVSWNSGA
LTSGVHTFPAVLQSSGLYSLSSVVTVPSSSLGTQTYICNVNHKPSNTKVDKKVEPKSCDK
THHHHHHHH

Sequence of entity 3 (L), FASTA

>7DFA_3 FAB30 LIGHT CHAIN (chains L)
MFVFSIATNAYASDIQMTQSPSSLSASVGDRVTITCRASQSVSSAVAWYQQKPGKAPKLL
IYSASSLYSGVPSRFSGSRSGTDFTLTISSLQPEDFATYYCQQYKYVPVTFGQGTKVEIK
RTVAAPSVFIFPPSDSQLKSGTASVVCLLNNFYPREAKVQWKVDNALQSGNSQESVTEQD
SKDSTYSLSSTLTLSKADYEKHKVYACEVTHQGLSSPVTKSFNRGEC

Sequence of entity 4 (V), FASTA

>7DFA_4 VaRpp-4 (chains V)
RTPPSLGPQDESCTTASSSLAKD

Primary citation

Structural studies of phosphorylation-dependent interactions between the V2R receptor and arrestin-2. He, Q.T., Xiao, P., Huang, S.M. et al. Nat Commun (2021) 12:2396-2396. DOI 10.1038/s41467-021-22731-x · PubMed

Other PDB entries of the same protein (UniProt P17870 (AlphaFold model), which also has an AlphaFold model), best resolution first:

1G4M 1.9 Å, Crystal structure of bovine beta-arrestin 1
1G4R 2.2 Å, Crystal structure of bovine beta-arrestin 1
3GC3 2.2 Å, Crystal Structure of Arrestin2S and Clathrin
7DFC 2.49 Å, Crystal of Arrestin2-V2Rpp-3-Fab30 complex
22GM 2.7 Å, C5a bound C5aR1 in complex with beta-arrestin1
9WSV 2.8 Å, Cryo-EM structure of DAMGO-muOR-arrestin-1-Fab30 complex
9WSX 2.8 Å, Cryo-EM structure of endomorphin-1-muOR-arrestin2-Fab30 complex
22GK 2.84 Å, C5a bound C5aR2 in complex with beta-arrestin1
1JSY 2.9 Å, Crystal structure of bovine arrestin-2
1ZSH 2.9 Å, Crystal structure of bovine arrestin-2 in complex with inositol hexakisphosphate (IP6)
22CR 2.9 Å, C5a-desArg bound C5aR2 in complex with beta-arrestin1
2WTR 2.9 Å, Full length Arrestin2

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