BMRBj - BMREntryMaster

Found 1 Document (0.641 seconds)

BMRB: 30571

6NZL

Solution structure of POS-1, a CCCH-type Tandem Zinc Finger protein from C. elegans

Authors

Ertekin, A., Massi, F.

Assembly

Cytoplasmic zinc-finger protein

Entity

1. Cytoplasmic zinc-finger protein, entity 1 (polymer, Thiol state: all other bound), 78 monomers, 8858.059 Da Detail

SDAFKTALCD AYKRSQACSY GDQCRFAHGV HELRLPMNPR GRNHPKYKTV LCDKFSMTGN CKYGTRCQFI HKIVDGNA

2. Cytoplasmic zinc-finger protein, entity ZN (non-polymer), 65.409 × 2 Da

Total weight

8988.877 Da

Max. entity weight

8858.059 Da

Entity Connection

na 8 Detail

ID	Type	Value order	Atom ID 1	Atom ID 2
1	na	sing	1:CYS9:SG	2:ZN1:ZN
2	na	sing	1:CYS18:SG	2:ZN1:ZN
3	na	sing	1:CYS24:SG	2:ZN1:ZN
4	na	sing	1:HIS28:NE2	2:ZN1:ZN
5	na	sing	1:CYS52:SG	2:ZN1:ZN
6	na	sing	1:CYS61:SG	2:ZN1:ZN
7	na	sing	1:CYS67:SG	2:ZN1:ZN
8	na	sing	1:HIS71:NE2	2:ZN1:ZN

Source organism

Caenorhabditis elegans

Exptl. method

solution NMR

Refine. method

simulated annealing

Data set

assigned_chemical_shifts

Chem. Shift Complete

Sequence coverage: 100.0 %, Completeness: 89.8 %, Completeness (bb): 93.5 % Detail

Polymer type: polypeptide(L)

	Total	¹H	¹³C	¹⁵N
All	89.8 % (816 of 909)	89.0 % (422 of 474)	93.7 % (325 of 347)	78.4 % (69 of 88)
Backbone	93.5 % (432 of 462)	93.1 % (148 of 159)	95.2 % (217 of 228)	89.3 % (67 of 75)
Sidechain	87.5 % (454 of 519)	87.0 % (274 of 315)	93.2 % (178 of 191)	15.4 % (2 of 13)
Aromatic	79.5 % (70 of 88)	77.3 % (34 of 44)	81.8 % (36 of 44)
Methyl	100.0 % (56 of 56)	100.0 % (28 of 28)	100.0 % (28 of 28)

1. entity 1

SDAFKTALCD AYKRSQACSY GDQCRFAHGV HELRLPMNPR GRNHPKYKTV LCDKFSMTGN CKYGTRCQFI HKIVDGNA

Show sample condition

Sample

Solvent system 92% H2O/8% D2O, Pressure 1 atm, Temperature 293 K, pH 6.3, Details 0.4 mM [U-100% 13C; U-100% 15N] POS-1, 50 mM Tris-HCl pH 6.3, 100 mM potassium chloride, 100 uM Zinc Acetate, 1 mM DTT, 10 mM DSS, 92% H2O/8% D2O

#	Name	Isotope labeling	Concentration
1	POS-1	[U-100% 13C; U-100% 15N]	0.4 mM
2	Tris-HCl pH 6.3	natural abundance	50 mM
3	potassium chloride	natural abundance	100 mM
4	Zinc Acetate	natural abundance	100 uM
5	DTT	natural abundance	1 mM
6	DSS	natural abundance	10 mM

Protein Blocks Logo

Calculated from 20 models in PDB: 6NZL, Strand ID: A Detail

Release date

2020-06-15

Citation

Solution structure of POS-1, a CCCH-type Tandem Zinc Finger protein from C. elegans
Ertekin, A., Massi, F.

Related entities 1. Cytoplasmic zinc-finger protein, entity 1, : 1 : 1 : 229 entities Detail

Experiments performed 18 experiments Detail

1 2D 1H-15N HSQC

Instrument

Varian INOVA - 600 MHz

Sample

State isotropic, Solvent system 92% H2O/8% D2O, Pressure 1 atm, Temperature 293 K, pH 6.3, Details 0.4 mM [U-100% 13C; U-100% 15N] POS-1, 50 mM Tris-HCl pH 6.3, 100 mM potassium chloride, 100 uM Zinc Acetate, 1 mM DTT, 10 mM DSS, 92% H2O/8% D2O

#	Name	Isotope labeling	Concentration
1	POS-1	[U-100% 13C; U-100% 15N]	0.4 mM
2	Tris-HCl pH 6.3	natural abundance	50 mM
3	potassium chloride	natural abundance	100 mM
4	Zinc Acetate	natural abundance	100 uM
5	DTT	natural abundance	1 mM
6	DSS	natural abundance	10 mM

2 2D 1H-13C HSQC

Instrument

Varian INOVA - 600 MHz

Sample

#	Name	Isotope labeling	Concentration
1	POS-1	[U-100% 13C; U-100% 15N]	0.4 mM
2	Tris-HCl pH 6.3	natural abundance	50 mM
3	potassium chloride	natural abundance	100 mM
4	Zinc Acetate	natural abundance	100 uM
5	DTT	natural abundance	1 mM
6	DSS	natural abundance	10 mM

3 2D 1H-13C HSQC aliphatic

Instrument

Varian INOVA - 600 MHz

Sample

#	Name	Isotope labeling	Concentration
1	POS-1	[U-100% 13C; U-100% 15N]	0.4 mM
2	Tris-HCl pH 6.3	natural abundance	50 mM
3	potassium chloride	natural abundance	100 mM
4	Zinc Acetate	natural abundance	100 uM
5	DTT	natural abundance	1 mM
6	DSS	natural abundance	10 mM

4 2D 1H-13C HSQC aromatic

Instrument

Varian INOVA - 600 MHz

Sample

#	Name	Isotope labeling	Concentration
1	POS-1	[U-100% 13C; U-100% 15N]	0.4 mM
2	Tris-HCl pH 6.3	natural abundance	50 mM
3	potassium chloride	natural abundance	100 mM
4	Zinc Acetate	natural abundance	100 uM
5	DTT	natural abundance	1 mM
6	DSS	natural abundance	10 mM

5 3D CBCA(CO)NH

Instrument

Varian INOVA - 600 MHz

Sample

#	Name	Isotope labeling	Concentration
1	POS-1	[U-100% 13C; U-100% 15N]	0.4 mM
2	Tris-HCl pH 6.3	natural abundance	50 mM
3	potassium chloride	natural abundance	100 mM
4	Zinc Acetate	natural abundance	100 uM
5	DTT	natural abundance	1 mM
6	DSS	natural abundance	10 mM

6 3D HCCH-TOCSY

Instrument

Varian INOVA - 600 MHz

Sample

#	Name	Isotope labeling	Concentration
1	POS-1	[U-100% 13C; U-100% 15N]	0.4 mM
2	Tris-HCl pH 6.3	natural abundance	50 mM
3	potassium chloride	natural abundance	100 mM
4	Zinc Acetate	natural abundance	100 uM
5	DTT	natural abundance	1 mM
6	DSS	natural abundance	10 mM

7 3D HBHA(CO)NH

Instrument

Varian INOVA - 600 MHz

Sample

#	Name	Isotope labeling	Concentration
1	POS-1	[U-100% 13C; U-100% 15N]	0.4 mM
2	Tris-HCl pH 6.3	natural abundance	50 mM
3	potassium chloride	natural abundance	100 mM
4	Zinc Acetate	natural abundance	100 uM
5	DTT	natural abundance	1 mM
6	DSS	natural abundance	10 mM

8 3D HCCH-COSY

Instrument

Varian INOVA - 600 MHz

Sample

#	Name	Isotope labeling	Concentration
1	POS-1	[U-100% 13C; U-100% 15N]	0.4 mM
2	Tris-HCl pH 6.3	natural abundance	50 mM
3	potassium chloride	natural abundance	100 mM
4	Zinc Acetate	natural abundance	100 uM
5	DTT	natural abundance	1 mM
6	DSS	natural abundance	10 mM

9 3D HCCH-TOCSY

Instrument

Varian INOVA - 600 MHz

Sample

#	Name	Isotope labeling	Concentration
1	POS-1	[U-100% 13C; U-100% 15N]	0.4 mM
2	Tris-HCl pH 6.3	natural abundance	50 mM
3	potassium chloride	natural abundance	100 mM
4	Zinc Acetate	natural abundance	100 uM
5	DTT	natural abundance	1 mM
6	DSS	natural abundance	10 mM

10 3D HN(CA)CO

Instrument

Varian INOVA - 600 MHz

Sample

#	Name	Isotope labeling	Concentration
1	POS-1	[U-100% 13C; U-100% 15N]	0.4 mM
2	Tris-HCl pH 6.3	natural abundance	50 mM
3	potassium chloride	natural abundance	100 mM
4	Zinc Acetate	natural abundance	100 uM
5	DTT	natural abundance	1 mM
6	DSS	natural abundance	10 mM

11 3D HNCA

Instrument

Varian INOVA - 600 MHz

Sample

#	Name	Isotope labeling	Concentration
1	POS-1	[U-100% 13C; U-100% 15N]	0.4 mM
2	Tris-HCl pH 6.3	natural abundance	50 mM
3	potassium chloride	natural abundance	100 mM
4	Zinc Acetate	natural abundance	100 uM
5	DTT	natural abundance	1 mM
6	DSS	natural abundance	10 mM

12 3D HNCACB

Instrument

Varian INOVA - 600 MHz

Sample

#	Name	Isotope labeling	Concentration
1	POS-1	[U-100% 13C; U-100% 15N]	0.4 mM
2	Tris-HCl pH 6.3	natural abundance	50 mM
3	potassium chloride	natural abundance	100 mM
4	Zinc Acetate	natural abundance	100 uM
5	DTT	natural abundance	1 mM
6	DSS	natural abundance	10 mM

13 3D HNCO

Instrument

Varian INOVA - 600 MHz

Sample

#	Name	Isotope labeling	Concentration
1	POS-1	[U-100% 13C; U-100% 15N]	0.4 mM
2	Tris-HCl pH 6.3	natural abundance	50 mM
3	potassium chloride	natural abundance	100 mM
4	Zinc Acetate	natural abundance	100 uM
5	DTT	natural abundance	1 mM
6	DSS	natural abundance	10 mM

14 3D HN(CO)CA

Instrument

Varian INOVA - 600 MHz

Sample

#	Name	Isotope labeling	Concentration
1	POS-1	[U-100% 13C; U-100% 15N]	0.4 mM
2	Tris-HCl pH 6.3	natural abundance	50 mM
3	potassium chloride	natural abundance	100 mM
4	Zinc Acetate	natural abundance	100 uM
5	DTT	natural abundance	1 mM
6	DSS	natural abundance	10 mM

15 3D 1H-15N NOESY

Instrument

Varian Agilent VNMRS - 800 MHz

Sample

#	Name	Isotope labeling	Concentration
1	POS-1	[U-100% 13C; U-100% 15N]	0.4 mM
2	Tris-HCl pH 6.3	natural abundance	50 mM
3	potassium chloride	natural abundance	100 mM
4	Zinc Acetate	natural abundance	100 uM
5	DTT	natural abundance	1 mM
6	DSS	natural abundance	10 mM

16 3D 1H-13C NOESY

Instrument

Varian Agilent VNMRS - 800 MHz

Sample

#	Name	Isotope labeling	Concentration
1	POS-1	[U-100% 13C; U-100% 15N]	0.4 mM
2	Tris-HCl pH 6.3	natural abundance	50 mM
3	potassium chloride	natural abundance	100 mM
4	Zinc Acetate	natural abundance	100 uM
5	DTT	natural abundance	1 mM
6	DSS	natural abundance	10 mM

17 (HB)CB(CGCDCE)HE

Instrument

Varian Agilent VNMRS - 800 MHz

Sample

#	Name	Isotope labeling	Concentration
1	POS-1	[U-100% 13C; U-100% 15N]	0.4 mM
2	Tris-HCl pH 6.3	natural abundance	50 mM
3	potassium chloride	natural abundance	100 mM
4	Zinc Acetate	natural abundance	100 uM
5	DTT	natural abundance	1 mM
6	DSS	natural abundance	10 mM

18 (HB)CB(CGCD)HD

Instrument

Varian Agilent VNMRS - 800 MHz

Sample

#	Name	Isotope labeling	Concentration
1	POS-1	[U-100% 13C; U-100% 15N]	0.4 mM
2	Tris-HCl pH 6.3	natural abundance	50 mM
3	potassium chloride	natural abundance	100 mM
4	Zinc Acetate	natural abundance	100 uM
5	DTT	natural abundance	1 mM
6	DSS	natural abundance	10 mM

Chemical shift validation 4 contents Detail

Properties

Input source #1: Assigned chemical shifts - Assigned chemical shifts	bmr30571_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	True (see coodinates for details)
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)

Ptnr_site_1	Ptnr_site_2	Redox_state_prediction_1	Redox_state_prediction_2	Distance (Å)
1:9:CYS:SG	2:1:ZN:ZN	oxidized 4.6%, reduced 95.4%, CA 59.977, CB 32.045 ppm	unknown	n/a
1:18:CYS:SG	2:1:ZN:ZN	reduced, CA 59.157, CB 31.591 ppm	unknown	n/a
1:24:CYS:SG	2:1:ZN:ZN	reduced, CA 61.813, CB 31.147 ppm	unknown	n/a
1:28:HIS:NE2	2:1:ZN:ZN	unknown	unknown	n/a
1:52:CYS:SG	3:1:ZN:ZN	reduced, CA 60.183, CB 31.837 ppm	unknown	n/a
1:61:CYS:SG	3:1:ZN:ZN	oxidized 16.6%, reduced 83.4%, CA 59.184, CB 32.691 ppm	unknown	n/a
1:67:CYS:SG	3:1:ZN:ZN	reduced, CA 61.788, CB 30.619 ppm	unknown	n/a
1:71:HIS:NE2	3:1:ZN:ZN	unknown	unknown	n/a

Non-standard residues

None

Content subtype: bmr30571_3.str

#	Content subtype	Saveframe	Status	# of rows	Experiment type	Sequence coverage (%)
1	Assigned chemical shifts	assigned_chemical_shifts_1	Warning	871		98.7 (chain: 1, length: 78)
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: 78, Sequence coverage: 98.7%
- Total number of assignments
  - ¹H chemical shifts: 482
  - ¹³C chemical shifts: 322
  - ¹⁵N chemical shifts: 67
- Completeness of assignments
  - Entity_assemble_ID: 1
- Redox state of CYS
- Peptide bond of PRO
- Tautomeric state of HIS
- 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	474	422	89.0
¹³C chemical shifts	347	322	92.8
¹⁵N chemical shifts	88	67	76.1

Atom group	# of target shifts	# of assigned shifts	Completeness (%)
¹H chemical shifts	159	148	93.1
¹³C chemical shifts	156	145	92.9
¹⁵N chemical shifts	75	66	88.0

Atom group	# of target shifts	# of assigned shifts	Completeness (%)
¹H chemical shifts	315	274	87.0
¹³C chemical shifts	191	177	92.7
¹⁵N chemical shifts	13	1	7.7

Atom group	# of target shifts	# of assigned shifts	Completeness (%)
¹H chemical shifts	30	30	100.0
¹³C chemical shifts	30	30	100.0

Atom group	# of target shifts	# of assigned shifts	Completeness (%)
¹H chemical shifts	44	36	81.8
¹³C chemical shifts	44	36	81.8

Keywords CCCH-type Tandem Zinc Finger protein, RNA BINDING PROTEIN

Search

Query history

Resources

Search for primary databases

Search for subsidiary databases

Display

Hits per page

Statistics

Query Changes will take effect after "OK" button is selected.

Maximum hits

Default conjunction operator

Omni-box

Search filter

Sequence search (BLAST)

E-value

Query sequence coverage

Miscellaneous

The number of previewed publications

Completeness of assigned chemical shift

Sequence chart about top aligned regions

Sequence chart about interacting regions

Hit context with highlight

Link destinations for BMRB, PDB and EMDB

Found 1 Document (0.641 seconds)

BMRB: 30571

Sample

Related entities 1. Cytoplasmic zinc-finger protein, entity 1, : 1 : 1 : 229 entities Detail

Experiments performed 18 experiments Detail

Instrument

Sample

Instrument

Sample

Instrument

Sample

Instrument

Sample

Instrument

Sample

Instrument

Sample

Instrument

Sample

Instrument

Sample

Instrument

Sample

Instrument

Sample

Instrument

Sample

Instrument

Sample

Instrument

Sample

Instrument

Sample

Instrument

Sample

Instrument

Sample

Instrument

Sample

Instrument

Sample

Chemical shift validation 4 contents Detail