3UZS: C13.28 RNA Aptamer

Structure of the C13.28 RNA Aptamer Bound to the G Protein-Coupled Receptor Kinase 2-Heterotrimeric G Protein Beta 1 and Gamma 2 Subunit Complex. Determined by X-ray diffraction at 4.52 Å resolution. Released 11 Jul 2012.

Method: X-ray diffraction
Resolution: 4.52 Å
Organism: Bos taurus
Chains: 4
Atoms: 8,535
Mol. weight: 134.68 kDa
Ligands: MG
Released: 11 Jul 2012

Explore 3UZS in 3D Show helices and sheets RCSB PDB PDBe

Secondary structure: helices and β-sheets

3UZS contains 33 α-helices and 47 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: 25 helices, 17 β-strands

Element	Residues	Length	Sheet
α-helix	39-48	10
α-helix	55-59	5
α-helix	62-74	13
α-helix	80-93	14
α-helix	101-108	8
α-helix	109-113	5
α-helix	114-118	5
α-helix	126-137	12
α-helix	143-145	3
α-helix	147-157	11
α-helix	160-166	7
α-helix	169-183	15
β-strand	191	1	1
β-strand	195-200	6	2
β-strand	203-209	7	2
β-strand	210	1	1
β-strand	216-223	8	2
α-helix	225-230	6
α-helix	233-246	14
β-strand	257-263	7	2
β-strand	266-272	7	2
β-strand	278	1	3
α-helix	279-285	7
α-helix	291-310	20
β-strand	323-325	3	3
β-strand	331-333	3	3
α-helix	371-383	13
α-helix	419-428	10
α-helix	445-448	4
α-helix	461-463	3
α-helix	467-468	2
α-helix	514-523	10
α-helix	526-546	21
β-strand	562-568	7	4
β-strand	576-583	8	4
β-strand	587-591	5	4
β-strand	599-602	4	4
β-strand	606-613	8	5
β-strand	618-624	7	5
β-strand	628	1	5
α-helix	637-656	20
α-helix	666-669	4

Chain B: 4 helices, 30 β-strands

Element	Residues	Length	Sheet
α-helix	3-25	23
α-helix	30-34	5
α-helix	38-39	2
β-strand	47-50	4	6
β-strand	58-63	6	7
β-strand	69-74	6	7
β-strand	78-83	6	7
β-strand	88-94	7	7
β-strand	100-103	4	8
β-strand	111-116	6	8
β-strand	121-125	5	8
β-strand	134-139	6	8
β-strand	146-151	6	9
β-strand	156-161	6	9
β-strand	165-170	6	9
β-strand	175-181	7	9
α-helix	186	1
β-strand	187-192	6	10
β-strand	198-203	6	10
β-strand	207-212	6	10
β-strand	217-223	7	10
β-strand	233-234	2	11
β-strand	240-244	5	11
β-strand	250-254	5	11
β-strand	259-264	6	11
β-strand	273-278	6	12
β-strand	284-289	6	12
β-strand	295-298	4	12
β-strand	304-307	4	12
β-strand	309	1	13
β-strand	311	1	13
β-strand	315-320	6	6
β-strand	327-331	5	6
β-strand	336-339	4	6

Chain G: 4 helices, 0 β-strands

Element	Residues	Length
α-helix	4-24	21
α-helix	30-44	15
α-helix	45-47	3
α-helix	60-63	4

Molecules and chains

Molecule	Chains	Type	Length	Organism	UniProt
Beta-adrenergic receptor kinase 1	A	protein	689	Bos taurus	P21146 (AlphaFold model)
Guanine nucleotide-binding protein G(I)/G(S)/G(T) subunit beta-1	B	protein	340	Bos taurus	P62871 (AlphaFold model)
Guanine nucleotide-binding protein G(I)/G(S)/G(O) subunit gamma-2	G	protein	74	Bos taurus	P63212 (AlphaFold model)
C13.28 RNA Aptamer	C	RNA	28

Sequence of entity 1 (A), FASTA

>3UZS_1 Beta-adrenergic receptor kinase 1 (chains A)
MADLEAVLADVSYLMAMEKSKATPAARASKKILLPEPSIRSVMQKYLEDRGEVTFEKIFS
QKLGYLLFRDFCLKHLEEAKPLVEFYEEIKKYEKLETEEERLVCSREIFDTYIMKELLAC
SHPFSKSAIEHVQGHLVKKQVPPDLFQPYIEEICQNLRGDVFQKFIESDKFTRFCQWKNV
ELNIHLTMNDFSVHRIIGRGGFGEVYGCRKADTGKMYAMKCLDKKRIKMKQGETLALNER
IMLSLVSTGDCPFIVCMSYAFHTPDKLSFILDLMNGGDLHYHLSQHGVFSEADMRFYAAE
IILGLEHMHNRFVVYRDLKPANILLDEHGHVRISDLGLACDFSKKKPHASVGTHGYMAPE
VLQKGVAYDSSADWFSLGCMLFKLLRGHSPFRQHKTKDKHEIDRMTLTMAVELPDSFSPE
LRSLLEGLLQRDVNRRLGCLGRGAQEVKESPFFRSLDWQMVFLQKYPPPLIPPRGEVNAA
DAFDIGSFDEEDTKGIKLLDSDQELYRNFPLTISERWQQEVAETVFDTINAETDRLEARK
KTKNKQLGHEEDYALGKDCIMHGYMSKMGNPFLTQWQRRYFYLFPNRLEWRGEGEAPQSL
LTMEEIQSVEETQIKERKCLLLKIRGGKQFVLQCDSDPELVQWKKELRDAYREAQQLVQR
VPKMKNKPRAPVVELSKVPLIQRGSANGL

Sequence of entity 2 (B), FASTA

>3UZS_2 Guanine nucleotide-binding protein G(I)/G(S)/G(T) subunit beta-1 (chains B)
MSELDQLRQEAEQLKNQIRDARKACADATLSQITNNIDPVGRIQMRTRRTLRGHLAKIYA
MHWGTDSRLLVSASQDGKLIIWDSYTTNKVHAIPLRSSWVMTCAYAPSGNYVACGGLDNI
CSIYNLKTREGNVRVSRELAGHTGYLSCCRFLDDNQIVTSSGDTTCALWDIETGQQTTTF
TGHTGDVMSLSLAPDTRLFVSGACDASAKLWDVREGMCRQTFTGHESDINAICFFPNGNA
FATGSDDATCRLFDLRADQELMTYSHDNIICGITSVSFSKSGRLLLAGYDDFNCNVWDAL
KADRAGVLAGHDNRVSCLGVTDDGMAVATGSWDSFLKIWN

Sequence of entity 3 (G), FASTA

>3UZS_3 Guanine nucleotide-binding protein G(I)/G(S)/G(O) subunit gamma-2 (chains G)
HHHHHHMASNNTASIAQARKLVEQLKMEANIDRIKVSKAAADLMAYCEAHAKEDPLLTPV
PASENPFREKKFFC

Sequence of entity 4 (C), FASTA

>3UZS_4 C13.28 RNA Aptamer (chains C)
GGCAGACCAUACGGGAGAGAAACUUGCC

Ligands and cofactors

ID	Name	Formula	Copies
MG	Magnesium ion	Mg	1

Primary citation

Molecular mechanism for inhibition of g protein-coupled receptor kinase 2 by a selective RNA aptamer. Tesmer, V.M., Lennarz, S., Mayer, G. et al. Structure (2012) 20:1300-1309. DOI 10.1016/j.str.2012.05.002 · PubMed

Other PDB entries of the same protein (UniProt P21146 (AlphaFold model), which also has an AlphaFold model), best resolution first:

3PVU 2.48 Å, Bovine GRK2 in complex with Gbetagamma subunits and a selective kinase inhibitor (CMPD101)
3PVW 2.49 Å, Bovine GRK2 in complex with Gbetagamma subunits and a selective kinase inhibitor…
1OMW 2.5 Å, Crystal Structure of the complex between G Protein-Coupled Receptor Kinase 2 and…
5HE0 2.56 Å, Bovine GRK2 in complex with Gbetagamma subunits and CCG215022
3PSC 2.67 Å, Bovine GRK2 in complex with Gbetagamma subunits
5HE3 2.74 Å, Bovine GRK2 in complex with Gbetagamma subunits and CCG224411
5HE2 2.79 Å, Bovine GRK2 in complex with Gbetagamma subunits and CCG224406
8JPD 2.81 Å, Focused refinement structure of GRK2 in NTSR1-GRK2-Galpha(q) complexes
5UKM 3.03 Å, bovine GRK2 in complex with human Gbetagamma subunits and CCG258208 (14as)
2BCJ 3.06 Å, Crystal Structure of G Protein-Coupled Receptor Kinase 2 in Complex with Galpha-q and…
8JPB 3.07 Å, cryo-EM structure of NTSR1-GRK2-Galpha(q) complexes 1
8JPC 3.07 Å, cryo-EM structure of NTSR1-GRK2-Galpha(q) complexes 2

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