BMRB Entry 17024

Name: Solution structure of the non-covalent complex of the ZNF216 A20 domain with ubiquitin
Published: 2012-08-02

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PDB ID: 2l00
Entry in NMR Restraints Grid
Validation report in NRG-CING
Chem Shift validation: AVS_full, LACS
BMRB Entry DOI: doi:10.13018/BMR17024
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Bioinformatics (2015) 31 (8): 1322-1324 doi:10.1093/bioinformatics/btu829

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Title: Solution structure of the non-covalent complex of the ZNF216 A20 domain with ubiquitin

Deposition date: 2010-06-29 Original release date: 2012-08-02

Authors: Garner, Thomas; Long, Jed; Searle, Mark; Layfield, Robert

Citation: Garner, Thomas; Strachan, Joanna; Long, Jed; Layfield, Robert; Searle, Mark. "Co-localisation of ubiquitin receptors ZNF216 and p62 in a ubiquitin-mediated ternary complex" Nat. Struct. Biol. ., .-..

Assembly members:
ZNF216-A20, polymer, 62 residues, 3868.3 Da.
ubiquitin, polymer, 76 residues, 8017.1 Da.
ZN, non-polymer, 65.409 Da.

Natural source: Common Name: Norway rat Taxonomy ID: 10116 Superkingdom: Eukaryota Kingdom: Metazoa Genus/species: Rattus norvegicus

Experimental source: Production method: recombinant technology Host organism: Escherichia coli

Entity Sequences (FASTA):
ZNF216-A20: GSMAQETNQTPGPMLCSTGC GFYGNPRTNGMCSVCYKEHL QRQQNSGRMSPMGTASGSNS PT
ubiquitin: MQIFVKTLTGKTITLEVESS DTIDNVKSKIQDKEGIPPDQ QRLIFAGKQLEDGRTLSDYN IQKESTLHLVLRLRGG

Data sets:

assigned_chemical_shifts
- assigned_chem_shift_list_1

Data type	Count
13C chemical shifts	178
15N chemical shifts	65
1H chemical shifts	210

Additional metadata:

Assembly
Samples and Experiments
Software
Spectrometers
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Entity Assembly ID	Entity Name	Entity ID
1	Znf_A20	1
2	Zinc	3
3	Ubiquitin	2

Samples:

sample_1: ZNF216-A20 4 ± 0.1 mM; ZnCl2 50 ± 0.2 uM; DSS 0.1 ± 0.01 mM; TRIS 5 ± 0.5 mM; sodium chloride 50 ± 5 mM; ubiquitin, [U-100% 15N], 1 ± 0.1 mM; H2O 90%; D2O 10%

sample_2: ZNF216-A20, [U-100% 15N], 1.0 ± 0.1 mM; ZnCl2 50 ± 0.2 uM; MTSL 4 ± 0.1 mM; TRIS 5 ± 0.5 mM; sodium chloride 50 ± 5 mM; ubiquitin 4 ± 0.1 mM; H2O 90%; D2O 10%

sample_3: ZNF216-A20, [U-100% 13C; U-100% 15N], 0.8 ± 0.2 mM; ZnCl2 50 ± 0.2 uM; DSS 0.1 ± 0.01 mM; TRIS 5 ± 0.5 mM; sodium chloride 50 ± 5 mM; ubiquitin 2 ± 0.1 mM; H2O 90%; D2O 10%

sample_4: ZNF216-A20, [U-100% 15N], 1.0 ± 0.1 mM; ZnCl2 50 ± 0.2 uM; DSS 0.1 ± 0.01 mM; TRIS 5 ± 0.5 mM; sodium chloride 50 ± 5 mM; Polyacrylamide gel 5 ± 0.5 %; ubiquitin 4 ± 0.1 mM; H2O 90%; D2O 10%

sample_5: ZNF216-A20 4 ± 0.1 mM; ZnCl2 50 ± 0.2 uM; DSS 0.1 ± 0.01 mM; TRIS 5 ± 0.5 mM; sodium chloride 50 ± 5 mM; Polyacrylamide gel 5 ± 0.5 %; ubiquitin, [U-100% 15N], 1 ± 0.1 mM; H2O 90%; D2O 10%

sample_6: ZNF216-A20 2 ± 0.2 mM; ZnCl2 50 ± 0.2 uM; DSS 0.1 ± 0.01 mM; TRIS 5 ± 0.5 mM; sodium chloride 50 ± 5 mM; ubiquitin, [U-100% 13C; U-100% 15N], 1 ± 0.1 mM; H2O 90%; D2O 10%

sample_2a: ZNF216-A20, [U-100% 15N], 1 ± 0.1 mM; ZnCl2 50 ± 0.2 uM; DSS 0.1 ± 0.01 mM; TRIS 5 ± 0.5 mM; sodium chloride 50 ± 5 mM; ubiquitin 4 ± 0.1 mM; H2O 90%; D2O 10%

sample_conditions_1: ionic strength: 0.1 M; pH: 7; pressure: 1 atm; temperature: 298 K

Experiments:

Name	Sample	Sample state	Sample conditions
2D 1H-15N HSQC	sample_2a	isotropic	sample_conditions_1
2D 1H-15N HSQC	sample_2	isotropic	sample_conditions_1
3D 1H-15N NOESY	sample_1	isotropic	sample_conditions_1
3D 1H-15N NOESY	sample_2a	isotropic	sample_conditions_1
3D CBCA(CO)NH	sample_3	isotropic	sample_conditions_1
3D HNCO	sample_3	isotropic	sample_conditions_1
2D 1H-15N HSQC IPAP	sample_4	anisotropic	sample_conditions_1
2D 1H-15N HSQC IPAP	sample_5	anisotropic	sample_conditions_1
15N, 13C Half filtered NOESY	sample_3	isotropic	sample_conditions_1
15N, 13C Half filtered NOESY	sample_6	isotropic	sample_conditions_1

Related Database Links:

UNP	B5DF11-1
BMRB	17023 15592 4769 4983
PDB	2KZY 2L00 1OTR 1Q0W 1VW8 1VW9 1VWU 1VWV 1VXV 1VXW 1VXY 1VXZ 1WR1 2G3Q 2JT4 2JWZ 2L00 3CMM 3J60 3J80 3J81 3L0W 3L10 3OLM 3U5C 3U5E 3U5G 3U5I 4B6A 4BYL 4BYN 4BYT 4BYU 4CUW 4HCN 4II3 4NNJ 4Q5E 4Q5H
DBJ	BAC36321 BAF83538 BAG73932 BAA02154 BAA03764 BAA05085 BAA05670 BAA76889
GB	AAC42600 AAC42601 AAC42602 AAC61801 AAH11018 AAA03351 AAA19247 AAA32904 AAA32905 AAA32906
REF	NP_001090975 NP_001094515 NP_001095890 NP_001095891 NP_001157077 NP_001031585 NP_001031824 NP_001042915 NP_001045980 NP_001049479
SP	B5DF11 O76080 O88878 B9DHA6 P05759 P0C016 P0C224 P0C8R3
TPG	DAA26877 DAA08405 DAA09244 DAA09283 DAA09489 DAA39608
EMBL	CAA07773 CAA10056 CAA11267 CAA11268 CAA21278
PIR	G85036 JS0657 S28426 S42643 S49332
PRF	1101405A 1207189A 1515347A 1603402A 1604470A
TPD	FAA00316 FAA00317 FAA00318 FAA00319
TPE	CBF76581 CBF85986

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Biological Magnetic Resonance Data Bank

BMRB Entry 17024

Title: Solution structure of the non-covalent complex of the ZNF216 A20 domain with ubiquitin

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