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Found 1 Document (0.627 seconds)

BMRB: 34545

6ZYC

Solution structure of the C-terminal domain of the vaccinia virus DNA polymerase processivity factor component A20.

Authors

Bersch, B., Iseni, F., Burmeister, W., Tarbouriech, N.

Assembly

DNA polymerase processivity factor component A20,Phosphoenolpyruvate-protein phosphotransferase (E.C.2.7.3.9)

Entity

1. DNA polymerase processivity factor component A20,Phosphoenolpyruvate-protein phosphotransferase (E.C.2.7.3.9) (polymer), 148 monomers, 16649.54 Da Detail

GNGKYFSKVG SAGLKQLTNK LDINECATVD ELVDEINKSG TVKRKIKNQS AFDLSRECLG YPEADFITLV NNMRFKIENC KVVNFNIENT NCLNNPSIET IYRNFNQFVS IFNVVTDVKK RLFENASGNG SGGGLNDIFE AQKIEWHE

Formula weight

16649.54 Da

Source organism

Vaccinia virus Copenhagen

Exptl. method

solution NMR

Data set

assigned_chemical_shifts, heteronucl_NOEs, heteronucl_T1_relaxation, heteronucl_T2_relaxation, spectral_peak_list

Chem. Shift Complete

Sequence coverage: 99.3 %, Completeness: 86.9 %, Completeness (bb): 96.6 % Detail

Polymer type: polypeptide(L)

	Total	¹H	¹³C	¹⁵N
All	86.9 % (1523 of 1752)	88.7 % (808 of 911)	83.2 % (553 of 665)	92.0 % (162 of 176)
Backbone	96.6 % (854 of 884)	95.4 % (291 of 305)	96.8 % (419 of 433)	98.6 % (144 of 146)
Sidechain	79.8 % (802 of 1005)	85.3 % (517 of 606)	72.4 % (267 of 369)	60.0 % (18 of 30)
Aromatic	46.4 % (65 of 140)	91.4 % (64 of 70)	0.0 % (0 of 69)	100.0 % (1 of 1)
Methyl	100.0 % (154 of 154)	100.0 % (77 of 77)	100.0 % (77 of 77)

1. entity 1

GNGKYFSKVG SAGLKQLTNK LDINECATVD ELVDEINKSG TVKRKIKNQS AFDLSRECLG YPEADFITLV NNMRFKIENC KVVNFNIENT NCLNNPSIET IYRNFNQFVS IFNVVTDVKK RLFENASGNG SGGGLNDIFE AQKIEWHE

Show sample condition

Sample #1

Solvent system 90% H2O/10% D2O, Pressure 1 atm, Temperature 298 K, pH 6 (±0.1), Details 1 mM [U-15N] A20-BAP, 50 mM sodium citrate, 300 mM sodium chloride, 2 mM TCEP, 90% H2O/10% D2O

#	Name	Isotope labeling	Concentration
1	A20-BAP	[U-15N]	1 mM
2	sodium citrate	natural abundance	50 mM
3	sodium chloride	natural abundance	300 mM
4	TCEP	natural abundance	2 mM

Sample #2

Solvent system 100% D2O, Pressure 1 atm, Temperature 298 K, pH 6 (±0.1), Details 1 mM [U-15N] A20-BAP, 50 mM potassium phosphate, 300 mM sodium chloride, 1.2 mM TCEP, 100% D2O

#	Name	Isotope labeling	Concentration
5	A20-BAP	[U-15N]	1 mM
6	sodium chloride	natural abundance	300 mM
7	TCEP	natural abundance	1.2 mM
8	potassium phosphate	natural abundance	50 mM

Sample #3

Solvent system 90% H2O/10% D2O, Pressure 1 atm, Temperature 298 K, pH 6 (±0.1), Details 1 mM [U-15N13C] A20-BAP, 50 mM potassium phosphate, 300 mM sodium chloride, 1.2 mM TCEP, 90% H2O/10% D2O

#	Name	Isotope labeling	Concentration
9	A20-BAP	[U-15N; U-13C]	1 mM
10	sodium chloride	natural abundance	300 mM
11	TCEP	natural abundance	1.2 mM
12	potassium phosphate	natural abundance	50 mM

Sample #4

Solvent system 90% H2O/10% D2O, Pressure 1 atm, Temperature 298 K, pH 6 (±0.1), Details 1 mM [U-15N13C] A20-BAP, 50 mM sodium citrate, 300 mM sodium chloride, 2 mM TCEP, 90% H2O/10% D2O

#	Name	Isotope labeling	Concentration
13	A20-BAP	[U-15N; U-13C]	1 mM
14	sodium citrate	natural abundance	50 mM
15	sodium chloride	natural abundance	300 mM
16	TCEP	natural abundance	2 mM

Heteronucl. T₁

133 T₁ values in 1 lists
Coherence Sz, Field strength (¹H) 700.2533 MHz, Pressure 1 atm, Temperature 298 K, pH 6 (±0.1) Detail

Heteronucl. T₂

133 T₂ values in 1 lists
Coherence S(+,-), Field strength (¹H) 700.2533 MHz, Pressure 1 atm, Temperature 298 K, pH 6 (±0.1) Detail

Heteronucl. NOE

133 NOE values in 1 lists
Value type peak height, Field strength (¹H) 700 MHz, Pressure 1 atm, Temperature 298 K, pH 6 (±0.1) Detail

Heteronucl. T₁/T₂

133 T₁/T₂ values in 1 lists
Field strength (¹H) 700.2533 MHz, Pressure 1 atm, Temperature 298 K, pH 6 (±0.1) Detail

Release date

2020-08-27

Citation 1

The vaccinia virus DNA polymerase structure provides insights into the mode of processivity factor binding
Tarbouriech, N., Ducournau, C., Hutin, S., Mas, P.J., Man, P., Forest, E., Hart, D.J., Peyrefitte, C.N., Burmeister, W., Iseni, F.
Nat. Commun. (2017), 8, 1455-1455, PubMed 29129932 , DOI 10.1038/s41467-017-01542-z , Abstract

Show more 1 citaion

Citation 2

Solution Structure of the C-terminal Domain of A20, the Missing Brick for the Characterization of the Interface between Vaccinia Virus DNA Polymerase and its Processivity Factor
Bersch, B., Tarbouriech, N., Burmeister, W., Iseni, F.
J. Mol. Biol. (2021), 433, 167009-167009, PubMed 33901538 , DOI 10.1016/j.jmb.2021.167009 , Abstract

Hide non-primary 1 citaion

Entries sharing articles BMRB: 1 entries Detail

BMRB: 34544 released on 2020-08-27
Title Solution structure of the C-terminal domain of the vaccinia virus DNA polymerase processivity factor component A20 fused to a short peptide from the viral DNA polymerase E9.

Related entities 1. DNA polymerase processivity factor component A20,Phosphoenolpyruvate-protein phosphotransferase (E.C.2.7.3.9), : 1 : 1 : 3 entities Detail

Interaction partners 1. DNA polymerase processivity factor component A20,Phosphoenolpyruvate-protein phosphotransferase (E.C.2.7.3.9), : 4 interactors Detail

More details for 4 interactors identified by 2 citations

Experiments performed 12 experiments Detail

1 2D 15N-TROSY

Instrument

Bruker AVANCE - 950 MHz

Sample

State isotropic, Solvent system 90% H2O/10% D2O, Pressure 1 atm, Temperature 298 K, pH 6 (±0.1), Details 1 mM [U-15N] A20-BAP, 50 mM sodium citrate, 300 mM sodium chloride, 2 mM TCEP, 90% H2O/10% D2O

#	Name	Isotope labeling	Concentration
1	A20-BAP	[U-15N]	1 mM
2	sodium citrate	natural abundance	50 mM
3	sodium chloride	natural abundance	300 mM
4	TCEP	natural abundance	2 mM

2 2D 13C-HSQC

Instrument

Bruker AVANCE - 950 MHz

Sample

State isotropic, Solvent system 90% H2O/10% D2O, Pressure 1 atm, Temperature 298 K, pH 6 (±0.1), Details 1 mM [U-15N13C] A20-BAP, 50 mM potassium phosphate, 300 mM sodium chloride, 1.2 mM TCEP, 90% H2O/10% D2O

#	Name	Isotope labeling	Concentration
9	A20-BAP	[U-15N; U-13C]	1 mM
10	sodium chloride	natural abundance	300 mM
11	TCEP	natural abundance	1.2 mM
12	potassium phosphate	natural abundance	50 mM

3 3D HNCO

Instrument

Bruker AVANCE - 600 MHz

Sample

State isotropic, Solvent system 90% H2O/10% D2O, Pressure 1 atm, Temperature 298 K, pH 6 (±0.1), Details 1 mM [U-15N13C] A20-BAP, 50 mM sodium citrate, 300 mM sodium chloride, 2 mM TCEP, 90% H2O/10% D2O

#	Name	Isotope labeling	Concentration
13	A20-BAP	[U-15N; U-13C]	1 mM
14	sodium citrate	natural abundance	50 mM
15	sodium chloride	natural abundance	300 mM
16	TCEP	natural abundance	2 mM

4 3D HNCACB

Instrument

Bruker AVANCE - 950 MHz

Sample

#	Name	Isotope labeling	Concentration
13	A20-BAP	[U-15N; U-13C]	1 mM
14	sodium citrate	natural abundance	50 mM
15	sodium chloride	natural abundance	300 mM
16	TCEP	natural abundance	2 mM

5 3D HCCH-TOCSY

Instrument

Bruker AVANCE - 850 MHz

Sample

#	Name	Isotope labeling	Concentration
9	A20-BAP	[U-15N; U-13C]	1 mM
10	sodium chloride	natural abundance	300 mM
11	TCEP	natural abundance	1.2 mM
12	potassium phosphate	natural abundance	50 mM

6 2D-NOESY

Instrument

Bruker AVANCE - 950 MHz

Sample

State isotropic, Solvent system 100% D2O, Pressure 1 atm, Temperature 298 K, pH 6 (±0.1), Details 1 mM [U-15N] A20-BAP, 50 mM potassium phosphate, 300 mM sodium chloride, 1.2 mM TCEP, 100% D2O

#	Name	Isotope labeling	Concentration
5	A20-BAP	[U-15N]	1 mM
6	sodium chloride	natural abundance	300 mM
7	TCEP	natural abundance	1.2 mM
8	potassium phosphate	natural abundance	50 mM

7 13C-NOESY

Instrument

Bruker AVANCE - 950 MHz

Sample

#	Name	Isotope labeling	Concentration
9	A20-BAP	[U-15N; U-13C]	1 mM
10	sodium chloride	natural abundance	300 mM
11	TCEP	natural abundance	1.2 mM
12	potassium phosphate	natural abundance	50 mM

8 15N-NOESY

Instrument

Bruker AVANCE - 950 MHz

Sample

#	Name	Isotope labeling	Concentration
1	A20-BAP	[U-15N]	1 mM
2	sodium citrate	natural abundance	50 mM
3	sodium chloride	natural abundance	300 mM
4	TCEP	natural abundance	2 mM

9 13C-13C-methyl-NOESY

Instrument

Bruker AVANCE - 950 MHz

Sample

#	Name	Isotope labeling	Concentration
9	A20-BAP	[U-15N; U-13C]	1 mM
10	sodium chloride	natural abundance	300 mM
11	TCEP	natural abundance	1.2 mM
12	potassium phosphate	natural abundance	50 mM

10 15N hetNOE

Instrument

Bruker AVANCE - 950 MHz

Sample

#	Name	Isotope labeling	Concentration
1	A20-BAP	[U-15N]	1 mM
2	sodium citrate	natural abundance	50 mM
3	sodium chloride	natural abundance	300 mM
4	TCEP	natural abundance	2 mM

11 15N-R2

Instrument

Bruker AVANCE - 950 MHz

Sample

#	Name	Isotope labeling	Concentration
1	A20-BAP	[U-15N]	1 mM
2	sodium citrate	natural abundance	50 mM
3	sodium chloride	natural abundance	300 mM
4	TCEP	natural abundance	2 mM

12 15N-R1

Instrument

Bruker AVANCE - 950 MHz

Sample

#	Name	Isotope labeling	Concentration
1	A20-BAP	[U-15N]	1 mM
2	sodium citrate	natural abundance	50 mM
3	sodium chloride	natural abundance	300 mM
4	TCEP	natural abundance	2 mM

Chemical shift validation 3 contents Detail

Properties

Input source #1: Assigned chemical shifts - Assigned chemical shifts, Heteronucl NOE exptl data, Heteronucl T1 relaxation data, Heteronucl T2 relaxation data	bmr34545_3.str
Diamagnetism of the molecular assembly	True (excluding Oxygen atoms)
Whether the assembly has a disulfide bond	None
Whether the assembly has a other bond	None
Whether the assembly contains a cyclic polymer	None
Overall data processing status	Warning

Disulfide bonds

None

Other bonds (neither disulfide, covalent nor hydrogen bonds, e.g. Zinc–sulphur bond)

None

Non-standard residues

None

Content subtype: bmr34545_3.str

#	Content subtype	Saveframe	Status	# of rows	Experiment type	Sequence coverage (%)
1	Assigned chemical shifts	assigned_chemical_shifts_1	Warning	1674		99.3 (chain: 1, length: 148)
1	Chemical shift references	chem_shift_reference_1	OK	3		No information

Assigned chemical shifts

Saveframe: assigned_chemical_shifts_1
- Status: Warning
- Sequence coverage of experimental data
  - Entity_assembly_ID: 1, Chain length: 148, Sequence coverage: 99.3%
- Total number of assignments
  - ¹H chemical shifts: 961
  - ¹³C chemical shifts: 551
  - ¹⁵N chemical shifts: 162
- Completeness of assignments
  - Entity_assemble_ID: 1
- Redox state of CYS
- Peptide bond of PRO
- Rotameric state of ILE , LEU, and VAL
- Histogram of normalized assigned chemical shifts
- Random coil index and derived parameters (S² and NMR RMSD)
  - Chain_ID: 1

Atom group	# of target shifts	# of assigned shifts	Completeness (%)
¹H chemical shifts	911	805	88.4
¹³C chemical shifts	665	551	82.9
¹⁵N chemical shifts	176	162	92.0

Atom group	# of target shifts	# of assigned shifts	Completeness (%)
¹H chemical shifts	305	291	95.4
¹³C chemical shifts	296	285	96.3
¹⁵N chemical shifts	146	144	98.6

Atom group	# of target shifts	# of assigned shifts	Completeness (%)
¹H chemical shifts	606	514	84.8
¹³C chemical shifts	369	266	72.1
¹⁵N chemical shifts	30	18	60.0

Atom group	# of target shifts	# of assigned shifts	Completeness (%)
¹H chemical shifts	78	78	100.0
¹³C chemical shifts	78	78	100.0

Atom group	# of target shifts	# of assigned shifts	Completeness (%)
¹H chemical shifts	70	64	91.4
¹³C chemical shifts	69	0	0.0
¹⁵N chemical shifts	1	1	100.0

Keywords DNA polymerase holoenzyme, Poxviridae, REPLICATION, processivity factor binding

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Found 1 Document (0.627 seconds)

BMRB: 34545

Sample #1

Sample #2

Sample #3

Sample #4

Entries sharing articles BMRB: 1 entries Detail

Related entities 1. DNA polymerase processivity factor component A20,Phosphoenolpyruvate-protein phosphotransferase (E.C.2.7.3.9), : 1 : 1 : 3 entities Detail

Interaction partners 1. DNA polymerase processivity factor component A20,Phosphoenolpyruvate-protein phosphotransferase (E.C.2.7.3.9), : 4 interactors Detail

Experiments performed 12 experiments Detail

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Chemical shift validation 3 contents Detail