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Found 1 Document (0.819 seconds)

BMRB: 26026

2NCJ

Solution Structure of the PriC DNA replication restart protein

Authors

Cornilescu, C.C., Cornilescu, G., Wessel, S.R., Keck, J.L., Markley, J.L.

Assembly

PriC DNA replication restart protein

Entity

1. PriC DNA replication restart protein (polymer), 171 monomers, 19697.17 Da Detail

MRTPLLLQSL KTRVAALHTL IGPLASQRHF SPRFDRQLFA CRGARLGDYL TEAEESLTHL EAAVNQGDAT RVAWLAERLA AQIEALQREA ATATLRRHEN AHLPGGRLHA RLAEYQEYER RLLAMKNERE QRYAERHDPQ LAREITALDE RLTRCRTAIA RTERALERIT R

Formula weight

19697.17 Da

Source organism

Escherichia coli

Exptl. method

solution NMR

Refine. method

simulated annealing

Data set

assigned_chemical_shifts

Chem. Shift Complete

Sequence coverage: 93.0 %, Completeness: 73.2 %, Completeness (bb): 85.6 % Detail

Polymer type: polypeptide(L)

	Total	¹H	¹³C	¹⁵N
All	73.2 % (1454 of 1987)	68.0 % (708 of 1041)	78.9 % (605 of 767)	78.8 % (141 of 179)
Backbone	85.6 % (870 of 1016)	83.7 % (287 of 343)	87.4 % (443 of 507)	84.3 % (140 of 166)
Sidechain	63.5 % (721 of 1136)	59.2 % (413 of 698)	72.2 % (307 of 425)	7.7 % (1 of 13)
Aromatic	22.5 % (23 of 102)	35.3 % (18 of 51)	8.0 % (4 of 50)	100.0 % (1 of 1)
Methyl	83.5 % (177 of 212)	81.1 % (86 of 106)	85.8 % (91 of 106)

1. PriC

MRTPLLLQSL KTRVAALHTL IGPLASQRHF SPRFDRQLFA CRGARLGDYL TEAEESLTHL EAAVNQGDAT RVAWLAERLA AQIEALQREA ATATLRRHEN AHLPGGRLHA RLAEYQEYER RLLAMKNERE QRYAERHDPQ LAREITALDE RLTRCRTAIA RTERALERIT R

Show sample condition

Sample #1

Solvent system 95% H2O/5% D2O, Pressure 1 atm, Temperature 273 K, pH 6.5 (±0.1), Details 20 mM MES, pH 6.5, 5 mM DTT, 1 mM EDTA, 1x EDTA-free protease inhibitor cocktail (Roche), 5% D2O, isotropic NMR data at 37 C.

#	Name	Isotope labeling	Concentration
1	PriC	[U-13C; U-15N]	0.5 mM
2	MES	natural abundance	20 mM
3	DTT	natural abundance	5 mM
4	EDTA	natural abundance	1 mM

Sample #2

Solvent system 95% H2O/5% D2O, Pressure 1 atm, Temperature 273 K, pH 6.5 (±0.1), Details 3.1:1 DMPC: DHPC (1,2-Dimyristoyl-sn-Glycero-3-Phosphocholine:1,2-Dihexanoyl-sn-Glycero-3-Phosphocholine bicelles) at 37 C.

#	Name	Isotope labeling	Type	Concentration
5	PriC	[U-13C; U-15N]		0.5 mM

LACS Plot; CA

Atom type	Mol. common name	Atom group	Value	Ref. method	Ref. type	Shift ratio
¹³C	water	protons	4.658 ppm	internal	indirect	0.2514495
¹H	water	protons	4.658 ppm	internal	direct	1.0
¹⁵N	water	protons	4.658 ppm	internal	indirect	0.1013291

Referencing offset: -0.26 ppm, Outliers: 2 Detail

LACS Plot; CB

Atom type	Mol. common name	Atom group	Value	Ref. method	Ref. type	Shift ratio
¹³C	water	protons	4.658 ppm	internal	indirect	0.2514495
¹H	water	protons	4.658 ppm	internal	direct	1.0
¹⁵N	water	protons	4.658 ppm	internal	indirect	0.1013291

Referencing offset: -0.26 ppm, Outliers: 2 Detail

LACS Plot; HA

Atom type	Mol. common name	Atom group	Value	Ref. method	Ref. type	Shift ratio
¹³C	water	protons	4.658 ppm	internal	indirect	0.2514495
¹H	water	protons	4.658 ppm	internal	direct	1.0
¹⁵N	water	protons	4.658 ppm	internal	indirect	0.1013291

Referencing offset: 0.1 ppm, Outliers: 1 Detail

LACS Plot; CO

Atom type	Mol. common name	Atom group	Value	Ref. method	Ref. type	Shift ratio
¹³C	water	protons	4.658 ppm	internal	indirect	0.2514495
¹H	water	protons	4.658 ppm	internal	direct	1.0
¹⁵N	water	protons	4.658 ppm	internal	indirect	0.1013291

Referencing offset: -0.25 ppm, Outliers: 2 Detail

Protein Blocks Logo

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

Release date

2016-07-04

Citation

Structure and Function of the PriC DNA Replication Restart Protein
Wessel, S.R., Cornilescu, C.C., Cornilescu, G., Hu, K., Sandler, S.J., Markley, J.L., Keck, J.L.
J. Biol. Chem. (2016), 291, 18384-18396, PubMed 27382050 , DOI 10.1074/jbc.M116.738781 , Abstract

Related entities 1. PriC DNA replication restart protein, : 1 : 3 entities Detail

Experiments performed 18 experiments Detail

1 2D 1H-15N HSQC

Instrument

Bruker Avance - 600 MHz

Sample

State isotropic, Solvent system 95% H2O/5% D2O, Pressure 1 atm, Temperature 273 K, pH 6.5 (±0.1), Details 20 mM MES, pH 6.5, 5 mM DTT, 1 mM EDTA, 1x EDTA-free protease inhibitor cocktail (Roche), 5% D2O, isotropic NMR data at 37 C.

#	Name	Isotope labeling	Concentration
1	PriC	[U-13C; U-15N]	0.5 mM
2	MES	natural abundance	20 mM
3	DTT	natural abundance	5 mM
4	EDTA	natural abundance	1 mM

2 3D HNCO

Instrument

Bruker Avance - 600 MHz

Sample

#	Name	Isotope labeling	Concentration
1	PriC	[U-13C; U-15N]	0.5 mM
2	MES	natural abundance	20 mM
3	DTT	natural abundance	5 mM
4	EDTA	natural abundance	1 mM

3 3D CBCA(CO)NH

Instrument

Bruker Avance - 600 MHz

Sample

#	Name	Isotope labeling	Concentration
1	PriC	[U-13C; U-15N]	0.5 mM
2	MES	natural abundance	20 mM
3	DTT	natural abundance	5 mM
4	EDTA	natural abundance	1 mM

4 3D HNCACB

Instrument

Bruker Avance - 600 MHz

Sample

#	Name	Isotope labeling	Concentration
1	PriC	[U-13C; U-15N]	0.5 mM
2	MES	natural abundance	20 mM
3	DTT	natural abundance	5 mM
4	EDTA	natural abundance	1 mM

5 3D C(CO)NH

Instrument

Bruker Avance - 600 MHz

Sample

#	Name	Isotope labeling	Concentration
1	PriC	[U-13C; U-15N]	0.5 mM
2	MES	natural abundance	20 mM
3	DTT	natural abundance	5 mM
4	EDTA	natural abundance	1 mM

6 3D H(CCO)NH

Instrument

Bruker Avance - 600 MHz

Sample

#	Name	Isotope labeling	Concentration
1	PriC	[U-13C; U-15N]	0.5 mM
2	MES	natural abundance	20 mM
3	DTT	natural abundance	5 mM
4	EDTA	natural abundance	1 mM

7 3D HBHA(CO)NH

Instrument

Bruker Avance - 600 MHz

Sample

#	Name	Isotope labeling	Concentration
1	PriC	[U-13C; U-15N]	0.5 mM
2	MES	natural abundance	20 mM
3	DTT	natural abundance	5 mM
4	EDTA	natural abundance	1 mM

8 3D HCCH-TOCSY

Instrument

Bruker Avance - 600 MHz

Sample

#	Name	Isotope labeling	Concentration
1	PriC	[U-13C; U-15N]	0.5 mM
2	MES	natural abundance	20 mM
3	DTT	natural abundance	5 mM
4	EDTA	natural abundance	1 mM

9 3D 1H-15N NOESY

Instrument

Bruker Avance - 700 MHz

Sample

#	Name	Isotope labeling	Concentration
1	PriC	[U-13C; U-15N]	0.5 mM
2	MES	natural abundance	20 mM
3	DTT	natural abundance	5 mM
4	EDTA	natural abundance	1 mM

10 3D 1H-13C NOESY aliphatic

Instrument

Bruker Avance - 700 MHz

Sample

#	Name	Isotope labeling	Concentration
1	PriC	[U-13C; U-15N]	0.5 mM
2	MES	natural abundance	20 mM
3	DTT	natural abundance	5 mM
4	EDTA	natural abundance	1 mM

11 3D 1H-13C NOESY aromatic

Instrument

Varian INOVA - 600 MHz

Sample

#	Name	Isotope labeling	Concentration
1	PriC	[U-13C; U-15N]	0.5 mM
2	MES	natural abundance	20 mM
3	DTT	natural abundance	5 mM
4	EDTA	natural abundance	1 mM

12 (HB)CB(CGCD)HD

Instrument

Varian INOVA - 600 MHz

Sample

#	Name	Isotope labeling	Concentration
1	PriC	[U-13C; U-15N]	0.5 mM
2	MES	natural abundance	20 mM
3	DTT	natural abundance	5 mM
4	EDTA	natural abundance	1 mM

13 (HB)CB(CGCDCE)HE

Instrument

Varian INOVA - 600 MHz

Sample

#	Name	Isotope labeling	Concentration
1	PriC	[U-13C; U-15N]	0.5 mM
2	MES	natural abundance	20 mM
3	DTT	natural abundance	5 mM
4	EDTA	natural abundance	1 mM

14 2D 1H-13C HSQC aliphatic

Instrument

Bruker Avance - 700 MHz

Sample

#	Name	Isotope labeling	Concentration
1	PriC	[U-13C; U-15N]	0.5 mM
2	MES	natural abundance	20 mM
3	DTT	natural abundance	5 mM
4	EDTA	natural abundance	1 mM

15 2D ARTSY

Instrument

Varian INOVA - 900 MHz

Sample

#	Name	Isotope labeling	Concentration
1	PriC	[U-13C; U-15N]	0.5 mM
2	MES	natural abundance	20 mM
3	DTT	natural abundance	5 mM
4	EDTA	natural abundance	1 mM

16 2D ARTSY

Instrument

Varian INOVA - 900 MHz

Sample

State anisotropic, Solvent system 95% H2O/5% D2O, Pressure 1 atm, Temperature 273 K, pH 6.5 (±0.1), Details 3.1:1 DMPC: DHPC (1,2-Dimyristoyl-sn-Glycero-3-Phosphocholine:1,2-Dihexanoyl-sn-Glycero-3-Phosphocholine bicelles) at 37 C.

#	Name	Isotope labeling	Type	Concentration
5	PriC	[U-13C; U-15N]		0.5 mM

17 3D HCA(CO)N

Instrument

Bruker Avance - 750 MHz

Sample

#	Name	Isotope labeling	Concentration
1	PriC	[U-13C; U-15N]	0.5 mM
2	MES	natural abundance	20 mM
3	DTT	natural abundance	5 mM
4	EDTA	natural abundance	1 mM

18 3D HCA(CO)N

Instrument

Bruker Avance - 750 MHz

Sample

#	Name	Isotope labeling	Type	Concentration
5	PriC	[U-13C; U-15N]		0.5 mM

NMR combined restraints 2 contents Detail

Properties

Input source #1: NMR data (NEF) - Assigned chemical shifts	combined_26026_2ncj.nef
Input source #2: Coordindates	2ncj.cif
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	Error

Disulfide bonds

None

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

None

Non-standard residues

None

Sequence alignments

Entity_assembly_ID (NMR): A vs Auth_asym_ID (model): A

--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100
MRTPLLLQSLKTRVAALHTLIGPLASQRHFSPRFDRQLFACRGARLGDYLTEAEESLTHLEAAVNQGDATRVAWLAERLAAQIEALQREAATATLRRHEN
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
MRTPLLLQSLKTRVAALHTLIGPLASQRHFSPRFDRQLFACRGARLGDYLTEAEESLTHLEAAVNQGDATRVAWLAERLAAQIEALQREAATATLRRHEN

-------110-------120-------130-------140-------150-------160-------170-
AHLPGGRLHARLAEYQEYERRLLAMKNEREQRYAERHDPQLAREITALDERLTRCRTAIARTERALERITR
|||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
AHLPGGRLHARLAEYQEYERRLLAMKNEREQRYAERHDPQLAREITALDERLTRCRTAIARTERALERITR

Chain assignments

Entity_assembly_ID (NMR)	Auth_asym_ID (model)	Length	Unmapped	Conflict	Sequence coverage (%)
A	A	171	0	0	100.0

Content subtype: combined_26026_2ncj.nef

#	Content subtype	Saveframe	Status	# of rows	Experiment type	Sequence coverage (%)
1	Assigned chemical shifts	assigned_chem_shift_list_1	Warning	1336		88.3 (chain: A, length: 171)

Assigned chemical shifts

Saveframe: assigned_chem_shift_list_1
- Status: Warning
- Sequence coverage of experimental data
  - Entity_assembly_ID: A, Chain length: 171, Sequence coverage: 88.3%
- Total number of assignments
  - ¹H chemical shifts: 634
  - ¹³C chemical shifts: 568
  - ¹⁵N chemical shifts: 134
- Completeness of assignments
  - Entity_assemble_ID: A
- 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: A

Atom group	# of target shifts	# of assigned shifts	Completeness (%)
¹H chemical shifts	1041	634	60.9
¹³C chemical shifts	767	568	74.1
¹⁵N chemical shifts	206	134	65.0

Atom group	# of target shifts	# of assigned shifts	Completeness (%)
¹H chemical shifts	343	271	79.0
¹³C chemical shifts	342	283	82.7
¹⁵N chemical shifts	166	133	80.1

Atom group	# of target shifts	# of assigned shifts	Completeness (%)
¹H chemical shifts	698	363	52.0
¹³C chemical shifts	425	285	67.1
¹⁵N chemical shifts	40	1	2.5

Atom group	# of target shifts	# of assigned shifts	Completeness (%)
¹H chemical shifts	108	80	74.1
¹³C chemical shifts	108	86	79.6

Atom group	# of target shifts	# of assigned shifts	Completeness (%)
¹H chemical shifts	51	17	33.3
¹³C chemical shifts	50	2	4.0
¹⁵N chemical shifts	1	1	100.0

Keywords DNA replication restart, NMR, PriC, solution structure

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Found 1 Document (0.819 seconds)

BMRB: 26026

Sample #1

Sample #2

Chemical shift reference

Chemical shift reference

Chemical shift reference

Chemical shift reference

Related entities 1. PriC DNA replication restart protein, : 1 : 3 entities Detail

Experiments performed 18 experiments Detail

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NMR combined restraints 2 contents Detail