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BMRB: 19510

2MDZ

NMR structure of the Paracoccus denitrificans Z-subunit determined in the presence of ADP

Authors

Serrano, P., Geralt, M., Wuthrich, K., Morales-Rios, E., Zarco-Zavala, M., Garcia-Trejo, J.J., Dutta, S., JCSG, J.

Assembly

Z-subunit

Entity

1. Z-subunit (polymer, Thiol state: not present), 104 monomers, 11668.80 Da Detail

MTTFDDRERA HEAKFAHDAE LNFKAEARRN RLLGEWAAGL LGKTGDDARA YALTVVTSDF DEPGDEDVFR KLAADLEGKA DEETIRAKMV ELRATAREQI ISEI

2. ADENOSINE-5'-DIPHOSPHATE (non-polymer), 427.201 Da

Total weight

12096.001 Da

Max. entity weight

11668.8 Da

Source organism

Paracoccus denitrificans

Exptl. method

solution NMR

Refine. method

torsion angle dynamics

Data set

assigned_chemical_shifts

Chem. Shift Complete

Sequence coverage: 93.3 %, Completeness: 84.6 %, Completeness (bb): 87.0 % Detail

Polymer type: polypeptide(L)

	Total	¹H	¹³C	¹⁵N
All	84.6 % (987 of 1167)	83.3 % (503 of 604)	84.4 % (385 of 456)	92.5 % (99 of 107)
Backbone	87.0 % (541 of 622)	89.7 % (191 of 213)	83.3 % (255 of 306)	92.2 % (95 of 103)
Sidechain	82.3 % (529 of 643)	79.0 % (309 of 391)	87.1 % (216 of 248)	100.0 % (4 of 4)
Aromatic	67.9 % (53 of 78)	66.7 % (26 of 39)	68.4 % (26 of 38)	100.0 % (1 of 1)
Methyl	94.8 % (110 of 116)	94.8 % (55 of 58)	94.8 % (55 of 58)

1. Z-subunit

MTTFDDRERA HEAKFAHDAE LNFKAEARRN RLLGEWAAGL LGKTGDDARA YALTVVTSDF DEPGDEDVFR KLAADLEGKA DEETIRAKMV ELRATAREQI ISEI

Show sample condition

Sample

Solvent system 95% H2O/5% D2O, Pressure 1 atm, Temperature 298 K, pH 6.0

#	Name	Isotope labeling	Concentration
1	Z-subunit	[U-98% 13C; U-98% 15N]	1.5 mM
2	sodium chloride	natural abundance	50 mM
3	sodium phosphate	natural abundance	25 mM
4	sodium azide	natural abundance	5 mM
5	ADP	natural abundance	10 mM
6	H2O	natural abundance	95 %
7	D2O	natural abundance	5 %

LACS Plot; CA

Atom type	Mol. common name	Atom group	Ref. method	Ref. type	Shift ratio
¹³C	DSS	methyl protons	na	indirect	0.2514495
¹H	DSS	methyl protons	internal	direct	1.0
¹⁵N	DSS	methyl protons	na	indirect	0.1013291

Referencing offset: 1.35 ppm, Outliers: 1 Detail

LACS Plot; CB

Atom type	Mol. common name	Atom group	Ref. method	Ref. type	Shift ratio
¹³C	DSS	methyl protons	na	indirect	0.2514495
¹H	DSS	methyl protons	internal	direct	1.0
¹⁵N	DSS	methyl protons	na	indirect	0.1013291

Referencing offset: 1.35 ppm, Outliers: 1 Detail

LACS Plot; HA

Atom type	Mol. common name	Atom group	Ref. method	Ref. type	Shift ratio
¹³C	DSS	methyl protons	na	indirect	0.2514495
¹H	DSS	methyl protons	internal	direct	1.0
¹⁵N	DSS	methyl protons	na	indirect	0.1013291

Referencing offset: -0.13 ppm, Outliers: 2 Detail

LACS Plot; CO

Atom type	Mol. common name	Atom group	Ref. method	Ref. type	Shift ratio
¹³C	DSS	methyl protons	na	indirect	0.2514495
¹H	DSS	methyl protons	internal	direct	1.0
¹⁵N	DSS	methyl protons	na	indirect	0.1013291

Referencing offset: 0.6 ppm, Outliers: 1 Detail

Protein Blocks Logo

Calculated from 20 models in PDB: 2MDZ, Strand ID: A Detail

Release date

2013-10-07

Citation

NMR structure of the putative ATPase regulatory protein YP_916642.1 from Paracoccus denitrificans
Serrano, P., Geralt, M., Wuthrich, K., Dutta, S., Morales-Rios, E., Garcia-Trejo, J.J., Zarco-Zavala, M.
Not known

Related entities 1. Z-subunit, : 1 : 2 : 2 entities Detail

Experiments performed 7 experiments Detail

1 2D 1H-15N HSQC