BMRBj - BMREntryMaster

Found 1 Document (1.309 seconds)

BMRB: 6653

1ZW8

Solution Structure of a Zap1 Zinc-Responsive Domain Provides Insights into Metalloregulatory Transcriptional Repression in Saccharomyces cerevisiae

Authors

Wang, Z., Feng, L.S., Venkataraman, K., Matskevich, V.A., Parasuram, P., Laity, J.H.

Assembly

zzf1L

Entity

1. zzf1L (polymer, Thiol state: free and other bound), 38 monomers, 4556.181 Da Detail

DLKCKWKECP ESCSSLFDLQ RHLLKDHVSQ DFKHPMEP

2. ZN (non-polymer), 65.409 Da

Total weight

4621.5903 Da

Max. entity weight

4556.181 Da

Entity Connection

metal coordination 4 Detail

ID	Type	Value order	Atom ID 1	Atom ID 2
1	metal coordination	sing	1:CYS4:SG	2:ZN1:ZN
2	metal coordination	sing	1:CYS9:SG	2:ZN1:ZN
3	metal coordination	sing	1:HIS22:NE2	2:ZN1:ZN
4	metal coordination	sing	1:HIS27:NE2	2:ZN1:ZN

Source organism

Saccharomyces cerevisiae

Exptl. method

NMR

Data set

assigned_chemical_shifts

Chem. Shift Complete

Sequence coverage: 84.2 %, Completeness: 32.3 %, Completeness (bb): 65.3 % Detail

Polymer type: polypeptide(L)

	Total	¹H	¹³C	¹⁵N
All	32.3 % (152 of 471)	12.7 % (32 of 251)	51.6 % (94 of 182)	68.4 % (26 of 38)
Backbone	65.3 % (145 of 222)	37.0 % (27 of 73)	80.7 % (92 of 114)	74.3 % (26 of 35)
Sidechain	13.6 % (39 of 287)	2.8 % (5 of 178)	32.1 % (34 of 106)	0.0 % (0 of 3)
Aromatic	0.0 % (0 of 44)	0.0 % (0 of 22)	0.0 % (0 of 21)	0.0 % (0 of 1)
Methyl	0.0 % (0 of 24)	0.0 % (0 of 12)	0.0 % (0 of 12)

1. zzf1L

DLKCKWKECP ESCSSLFDLQ RHLLKDHVSQ DFKHPMEP

Show sample condition

Sample

Temperature 293 (±0.1) K, pH 6.9 (±0.03), Details zzf1L, Zn(II), MES, DSS, NaN2,THP

#	Name	Isotope labeling	Concentration
1	zzf1L	[U-13C; U-15N]	0.8 mM
2	ZN		0.9 mM
3	MES		20 mM
4	Tri(2-carboxyethyl)-phosphine hydrochloride		0.5 mM
5	DSS		0.2 mM
6	NaN2		1 mM

LACS Plot; CA

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

Referencing offset: -0.71 ppm, Outliers: 2 Detail

LACS Plot; CB

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

Referencing offset: -0.71 ppm, Outliers: 2 Detail

LACS Plot; CO

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

Referencing offset: 0.15 ppm, Outliers: 2 Detail

Release date

2006-04-23

Citation 1

Zap1p, a metalloregulatory protein involved in zinc-responsive transcriptional regulation in Saccharomyces cerevisiae
Zhao, H., Eide, D.J.
Mol. Cell (1997), 17, 5044-5052, PubMed , DOI:

Show more 4 citaions

Citation 2

Solution structure of a Zap1 zinc-responsive domain provides insights into metalloregulatory transcriptional repression in Saccharomyces cerevisiae
Wang, Z., Feng, L.S., Matskevich, V.A., Venkataraman, K., Parasuram, P., Laity, J.H.
J. Mol. Biol. (2006), 357, 1167-1183, PubMed 16483601 , DOI 10.1016/j.jmb.2006.01.010 , Abstract

Citation 3

Zinc fingers can act as Zn2+ sensors to regulate transcriptional activation domain function
Bird, A.J., McCall, M., Kramer, M., Blankman, E., Winge, D.R., Eide, D.J.
EMBO J. (2003), 22, 5137-5146, PubMed 14517251 , DOI 10.1093/emboj/cdg484 , Abstract

Citation 4

NMRView: A computer program for the visualization and analysis of NMR Data
Johnson, B.A., Blevins, R.A.
J. Biomol. NMR (1994), 6, 603-614

Citation 5

NMRPipe: a multidimensional spectral processing system based on UNIX pipes
Delaglio, F., Grzesiek, S., Vuister, G.W., Zhu, G., Pfeifer, J., Bax, A.
J. Biomol. NMR (1995), 6, 277-293, PubMed 8520220 , Abstract

Hide non-primary 4 citaions

Related entities 1. zzf1L, : 1 : 2 : 1 entities Detail

Interaction partners 1. zzf1L, : 7 interactors Detail

More details for 7 interactors identified by 6 citations

Experiments performed 4 experiments Detail

Chemical shift validation 4 contents Detail

Properties

Input source #1: Assigned chemical shifts - Assigned chemical shifts	bmr6653_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	OK

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)
1:4:CYS:SG	2:1:ZN:ZN	reduced, CA 61.945, CB 30.348 ppm	unknown	n/a
1:9:CYS:SG	2:1:ZN:ZN	reduced, CA 57.894, CB 31.766 ppm	unknown	n/a
1:22:HIS:NE2	2:1:ZN:ZN	unknown	unknown	n/a
1:27:HIS:NE2	2:1:ZN:ZN	unknown	unknown	n/a

Non-standard residues

None

Content subtype: bmr6653_3.str

#	Content subtype	Saveframe	Status	# of rows	Experiment type	Sequence coverage (%)
1	Assigned chemical shifts	chem_shift_list_1	OK	141		81.6 (chain: 1, length: 38)
1	Chemical shift references	chemical_shift_referencing	OK	3		No information

Assigned chemical shifts

Saveframe: chem_shift_list_1
- Status: OK
- Sequence coverage of experimental data
  - Entity_assembly_ID: 1, Chain length: 38, Sequence coverage: 81.6%
- Total number of assignments
  - ¹³C chemical shifts: 89
  - ¹H chemical shifts: 26
  - ¹⁵N chemical shifts: 26
- Completeness of assignments
  - Entity_assemble_ID: 1
- Redox state of CYS
- Peptide bond of PRO
- 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 (%)
¹³C chemical shifts	182	89	48.9
¹H chemical shifts	251	26	10.4
¹⁵N chemical shifts	39	26	66.7

Atom group	# of target shifts	# of assigned shifts	Completeness (%)
¹³C chemical shifts	76	58	76.3
¹H chemical shifts	73	26	35.6
¹⁵N chemical shifts	35	26	74.3

Atom group	# of target shifts	# of assigned shifts	Completeness (%)
¹³C chemical shifts	106	31	29.2
¹H chemical shifts	178	0	0.0
¹⁵N chemical shifts	4	0	0.0

Atom group	# of target shifts	# of assigned shifts	Completeness (%)
¹³C chemical shifts	13	0	0.0
¹H chemical shifts	13	0	0.0

Atom group	# of target shifts	# of assigned shifts	Completeness (%)
¹³C chemical shifts	21	0	0.0
¹H chemical shifts	22	0	0.0
¹⁵N chemical shifts	1	0	0.0

Keywords zinc finger, transcription factor, metalloregulatory protein, one finger

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Found 1 Document (1.309 seconds)

BMRB: 6653

Sample

Chemical shift reference

Chemical shift reference

Chemical shift reference

Related entities 1. zzf1L, : 1 : 2 : 1 entities Detail

Interaction partners 1. zzf1L, : 7 interactors Detail

Experiments performed 4 experiments Detail

Instrument

Sample

Instrument

Sample

Instrument

Sample

Instrument

Sample

Chemical shift validation 4 contents Detail