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BMRB: 16129

2KE4

The NMR structure of the TC10 and Cdc42 interacting domain of CIP4

Authors

Kumeta, H., Kanoh, D., Kobashigawa, Y., Inagaki, F.

Assembly

CIP4

Entity

1. CIP4 (polymer, Thiol state: not present), 98 monomers, 11515.77 Da Detail

GPHMTEDFSH LPPEQQRKRL QQQLEERSRE LQKEVDQREA LKKMKDVYEK TPQMGDPASL EPQIAETLSN IERLKLEVQK YEAWLAEAES RVLSNRGD

Formula weight

11515.77 Da

Source organism

Exptl. method

Refine. method

simulated annealing, torsion angle dynamics

Data set

assigned_chemical_shifts

Chem. Shift Complete

Sequence coverage: 100.0 %, Completeness: 97.9 %, Completeness (bb): 97.9 % Detail

Polymer type: polypeptide(L)

	Total	¹H	¹³C	¹⁵N
All	97.9 % (1164 of 1189)	98.7 % (630 of 638)	96.2 % (429 of 446)	100.0 % (105 of 105)
Backbone	97.9 % (564 of 576)	99.5 % (192 of 193)	96.2 % (280 of 291)	100.0 % (92 of 92)
Sidechain	98.0 % (694 of 708)	98.4 % (438 of 445)	97.2 % (243 of 250)	100.0 % (13 of 13)
Aromatic	87.0 % (40 of 46)	100.0 % (23 of 23)	72.7 % (16 of 22)	100.0 % (1 of 1)
Methyl	100.0 % (86 of 86)	100.0 % (43 of 43)	100.0 % (43 of 43)

1. TC10 and Cdc42

GPHMTEDFSH LPPEQQRKRL QQQLEERSRE LQKEVDQREA LKKMKDVYEK TPQMGDPASL EPQIAETLSN IERLKLEVQK YEAWLAEAES RVLSNRGD

Show sample condition

Sample

Solvent system 90% H2O/10% D2O, Pressure 1 atm, Temperature 298 K, pH 6.3

#	Name	Isotope labeling	Type	Concentration
1	entity	[U-13C; U-15N]		0.0 ~ 0.0 mM
2	MES	natural abundance		20 mM
3	sodium chloride	natural abundance		150 mM
4	DTT	natural abundance		1 mM

Protein Blocks Logo

Calculated from 20 models in PDB: 2KE4, Strand ID: A Detail

Release date

2009-05-05

Citation

The NMR structure of the TC10- and Cdc42-interacting domain of CIP4
Kobashigawa, Y., Kumeta, H., Kanoh, D., Inagaki, F.
J. Biomol. NMR (2009), 44, 113-118, PubMed 19387844 , DOI 10.1007/s10858-009-9317-z

Entries sharing articles Swiss-Prot: 1 entries Detail

Swiss-Prot: Q15642 released on 1997-11-01
Title CIP4_HUMAN Entity Cdc42-interacting protein 4

Related entities 1. CIP4, : 1 : 33 entities Detail

Interaction partners 1. CIP4, : 25 interactors Detail

More details for 25 interactors identified by 12 citations

Experiments performed 19 experiments Detail

1 2D 1H-15N HSQC

Instrument

Varian INOVA - 800 MHz

Sample

State isotropic, Solvent system 90% H2O/10% D2O, Pressure 1 atm, Temperature 298 K, pH 6.3

#	Name	Isotope labeling	Type	Concentration
1	entity	[U-13C; U-15N]		0.0 ~ 0.0 mM
2	MES	natural abundance		20 mM
3	sodium chloride	natural abundance		150 mM
4	DTT	natural abundance		1 mM

2 2D 1H-13C HSQC

Instrument

Varian INOVA - 800 MHz

Sample

State isotropic, Solvent system 90% H2O/10% D2O, Pressure 1 atm, Temperature 298 K, pH 6.3

#	Name	Isotope labeling	Type	Concentration
1	entity	[U-13C; U-15N]		0.0 ~ 0.0 mM
2	MES	natural abundance		20 mM
3	sodium chloride	natural abundance		150 mM
4	DTT	natural abundance		1 mM

3 3D HNCO

Instrument

Varian INOVA - 600 MHz

Sample

State isotropic, Solvent system 90% H2O/10% D2O, Pressure 1 atm, Temperature 298 K, pH 6.3

#	Name	Isotope labeling	Type	Concentration
1	entity	[U-13C; U-15N]		0.0 ~ 0.0 mM
2	MES	natural abundance		20 mM
3	sodium chloride	natural abundance		150 mM
4	DTT	natural abundance		1 mM

4 3D HN(CO)CA

Instrument

Varian INOVA - 600 MHz

Sample

State isotropic, Solvent system 90% H2O/10% D2O, Pressure 1 atm, Temperature 298 K, pH 6.3

#	Name	Isotope labeling	Type	Concentration
1	entity	[U-13C; U-15N]		0.0 ~ 0.0 mM
2	MES	natural abundance		20 mM
3	sodium chloride	natural abundance		150 mM
4	DTT	natural abundance		1 mM

5 3D HNCA

Instrument

Varian INOVA - 600 MHz

Sample

State isotropic, Solvent system 90% H2O/10% D2O, Pressure 1 atm, Temperature 298 K, pH 6.3

#	Name	Isotope labeling	Type	Concentration
1	entity	[U-13C; U-15N]		0.0 ~ 0.0 mM
2	MES	natural abundance		20 mM
3	sodium chloride	natural abundance		150 mM
4	DTT	natural abundance		1 mM

6 3D CBCA(CO)NH

Instrument

Varian INOVA - 600 MHz

Sample

State isotropic, Solvent system 90% H2O/10% D2O, Pressure 1 atm, Temperature 298 K, pH 6.3

#	Name	Isotope labeling	Type	Concentration
1	entity	[U-13C; U-15N]		0.0 ~ 0.0 mM
2	MES	natural abundance		20 mM
3	sodium chloride	natural abundance		150 mM
4	DTT	natural abundance		1 mM

7 3D HNCACB

Instrument

Varian INOVA - 600 MHz

Sample

State isotropic, Solvent system 90% H2O/10% D2O, Pressure 1 atm, Temperature 298 K, pH 6.3

#	Name	Isotope labeling	Type	Concentration
1	entity	[U-13C; U-15N]		0.0 ~ 0.0 mM
2	MES	natural abundance		20 mM
3	sodium chloride	natural abundance		150 mM
4	DTT	natural abundance		1 mM

8 3D HN(CA)HA

Instrument

Varian INOVA - 600 MHz

Sample

State isotropic, Solvent system 90% H2O/10% D2O, Pressure 1 atm, Temperature 298 K, pH 6.3

#	Name	Isotope labeling	Type	Concentration
1	entity	[U-13C; U-15N]		0.0 ~ 0.0 mM
2	MES	natural abundance		20 mM
3	sodium chloride	natural abundance		150 mM
4	DTT	natural abundance		1 mM

9 3D HBHA(CO)NH

Instrument

Varian INOVA - 600 MHz

Sample

State isotropic, Solvent system 90% H2O/10% D2O, Pressure 1 atm, Temperature 298 K, pH 6.3

#	Name	Isotope labeling	Type	Concentration
1	entity	[U-13C; U-15N]		0.0 ~ 0.0 mM
2	MES	natural abundance		20 mM
3	sodium chloride	natural abundance		150 mM
4	DTT	natural abundance		1 mM

10 3D C(CO)NH

Instrument

Varian INOVA - 600 MHz

Sample

State isotropic, Solvent system 90% H2O/10% D2O, Pressure 1 atm, Temperature 298 K, pH 6.3

#	Name	Isotope labeling	Type	Concentration
1	entity	[U-13C; U-15N]		0.0 ~ 0.0 mM
2	MES	natural abundance		20 mM
3	sodium chloride	natural abundance		150 mM
4	DTT	natural abundance		1 mM

11 3D H(CCO)NH

Instrument

Varian INOVA - 600 MHz

Sample

State isotropic, Solvent system 90% H2O/10% D2O, Pressure 1 atm, Temperature 298 K, pH 6.3

#	Name	Isotope labeling	Type	Concentration
1	entity	[U-13C; U-15N]		0.0 ~ 0.0 mM
2	MES	natural abundance		20 mM
3	sodium chloride	natural abundance		150 mM
4	DTT	natural abundance		1 mM

12 3D HCCH-TOCSY

Instrument

Varian INOVA - 800 MHz

Sample

State isotropic, Solvent system 90% H2O/10% D2O, Pressure 1 atm, Temperature 298 K, pH 6.3

#	Name	Isotope labeling	Type	Concentration
1	entity	[U-13C; U-15N]		0.0 ~ 0.0 mM
2	MES	natural abundance		20 mM
3	sodium chloride	natural abundance		150 mM
4	DTT	natural abundance		1 mM

13 3D 1H-15N NOESY

Instrument

Varian INOVA - 600 MHz

Sample

State isotropic, Solvent system 90% H2O/10% D2O, Pressure 1 atm, Temperature 298 K, pH 6.3

#	Name	Isotope labeling	Type	Concentration
1	entity	[U-13C; U-15N]		0.0 ~ 0.0 mM
2	MES	natural abundance		20 mM
3	sodium chloride	natural abundance		150 mM
4	DTT	natural abundance		1 mM

14 3D 1H-13C NOESY

Instrument

Varian INOVA - 600 MHz

Sample

State isotropic, Solvent system 90% H2O/10% D2O, Pressure 1 atm, Temperature 298 K, pH 6.3

#	Name	Isotope labeling	Type	Concentration
1	entity	[U-13C; U-15N]		0.0 ~ 0.0 mM
2	MES	natural abundance		20 mM
3	sodium chloride	natural abundance		150 mM
4	DTT	natural abundance		1 mM

15 2D (HB)CB(CGCD)HD

Instrument

Varian INOVA - 800 MHz

Sample

State isotropic, Solvent system 90% H2O/10% D2O, Pressure 1 atm, Temperature 298 K, pH 6.3

#	Name	Isotope labeling	Type	Concentration
1	entity	[U-13C; U-15N]		0.0 ~ 0.0 mM
2	MES	natural abundance		20 mM
3	sodium chloride	natural abundance		150 mM
4	DTT	natural abundance		1 mM

16 2D (HB)CB(CGCDCE)HE

Instrument

Varian INOVA - 800 MHz

Sample

State isotropic, Solvent system 90% H2O/10% D2O, Pressure 1 atm, Temperature 298 K, pH 6.3

#	Name	Isotope labeling	Type	Concentration
1	entity	[U-13C; U-15N]		0.0 ~ 0.0 mM
2	MES	natural abundance		20 mM
3	sodium chloride	natural abundance		150 mM
4	DTT	natural abundance		1 mM

17 3D 1H-13C NOESY (Aromatic)

Instrument

Varian INOVA - 800 MHz

Sample

State isotropic, Solvent system 90% H2O/10% D2O, Pressure 1 atm, Temperature 298 K, pH 6.3

#	Name	Isotope labeling	Type	Concentration
1	entity	[U-13C; U-15N]		0.0 ~ 0.0 mM
2	MES	natural abundance		20 mM
3	sodium chloride	natural abundance		150 mM
4	DTT	natural abundance		1 mM

18 3D HCCH-TOCSY (Aromatic)

Instrument

Varian INOVA - 800 MHz

Sample

State isotropic, Solvent system 90% H2O/10% D2O, Pressure 1 atm, Temperature 298 K, pH 6.3

#	Name	Isotope labeling	Type	Concentration
1	entity	[U-13C; U-15N]		0.0 ~ 0.0 mM
2	MES	natural abundance		20 mM
3	sodium chloride	natural abundance		150 mM
4	DTT	natural abundance		1 mM

19 2D 1H-13C HSQC (Aromatic)

Instrument

Varian INOVA - 800 MHz

Sample

State isotropic, Solvent system 90% H2O/10% D2O, Pressure 1 atm, Temperature 298 K, pH 6.3

#	Name	Isotope labeling	Type	Concentration
1	entity	[U-13C; U-15N]		0.0 ~ 0.0 mM
2	MES	natural abundance		20 mM
3	sodium chloride	natural abundance		150 mM
4	DTT	natural abundance		1 mM

NMR combined restraints 3 contents Detail

Properties

Input source #1: NMR data (NEF) - Assigned chemical shifts, Distance restraints	combined_16129_2ke4.nef
Input source #2: Coordindates	2ke4.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	Warning

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

--330-----340-------350-------360-------370-------380-------390-------400-------410-------420-----
GPHMTEDFSHLPPEQQRKRLQQQLEERSRELQKEVDQREALKKMKDVYEKTPQMGDPASLEPQIAETLSNIERLKLEVQKYEAWLAEAESRVLSNRGD
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
GPHMTEDFSHLPPEQQRKRLQQQLEERSRELQKEVDQREALKKMKDVYEKTPQMGDPASLEPQIAETLSNIERLKLEVQKYEAWLAEAESRVLSNRGD
--------10--------20--------30--------40--------50--------60--------70--------80--------90--------

Chain assignments

Entity_assembly_ID (NMR)	Auth_asym_ID (model)	Length	Unmapped	Conflict	Sequence coverage (%)
A	A	98	0	0	100.0

Content subtype: combined_16129_2ke4.nef

#	Content subtype	Saveframe	Status	# of rows (sets)	Experiment type	Sequence coverage (%)
1	Assigned chemical shifts	assigned_chem_shift_list_1	Warning	1195		100.0 (chain: A, length: 98)
1	Distance restraints	DYANA/DIANA_distance_constraints_2	OK	3327 (1)	noe	100.0 (chain: A, length: 98)

Assigned chemical shifts

Saveframe: assigned_chem_shift_list_1

Status: Warning

Sequence coverage of experimental data

Entity_assembly_ID: A, Chain length: 98, Sequence coverage: 100.0%

--330-----340-------350-------360-------370-------380-------390-------400-------410-------420-----
GPHMTEDFSHLPPEQQRKRLQQQLEERSRELQKEVDQREALKKMKDVYEKTPQMGDPASLEPQIAETLSNIERLKLEVQKYEAWLAEAESRVLSNRGD
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
GPHMTEDFSHLPPEQQRKRLQQQLEERSRELQKEVDQREALKKMKDVYEKTPQMGDPASLEPQIAETLSNIERLKLEVQKYEAWLAEAESRVLSNRGD

Total number of assignments
- ¹H chemical shifts: 636
- ¹³C chemical shifts: 449
- ¹⁵N chemical shifts: 110

Completeness of assignments

Entity_assemble_ID: A

Excluded Atom_ID in statistics

Comp_index_ID	Comp_ID	Atom_ID	CS value (ppm)
342	GLN	CD	179.0
343	GLN	CD	178.691
344	ARG	CZ	175.76
346	ARG	CZ	175.466
348	GLN	CD	179.553
349	GLN	CD	180.171
350	GLN	CD	179.366
354	ARG	CZ	175.869
356	ARG	CZ	175.583
359	GLN	CD	180.371
364	GLN	CD	179.995
380	GLN	CD	180.861
390	GLN	CD	179.534
397	ASN	CG	175.887
400	ARG	CZ	175.468
406	GLN	CD	180.201
411	TRP	CE2	171.111
418	ARG	CZ	175.642
422	ASN	CG	177.248
423	ARG	CZ	175.595

All atoms

Atom group	# of target shifts	# of assigned shifts	Completeness (%)
¹H chemical shifts	638	636	99.7
¹³C chemical shifts	446	429	96.2
¹⁵N chemical shifts	113	110	97.3

Backbone atoms

Atom group	# of target shifts	# of assigned shifts	Completeness (%)
¹H chemical shifts	193	192	99.5
¹³C chemical shifts	196	185	94.4
¹⁵N chemical shifts	92	90	97.8

Side chain atoms

Atom group	# of target shifts	# of assigned shifts	Completeness (%)
¹H chemical shifts	445	444	99.8
¹³C chemical shifts	250	244	97.6
¹⁵N chemical shifts	21	20	95.2

Methyl group atoms

Atom group	# of target shifts	# of assigned shifts	Completeness (%)
¹H chemical shifts	46	46	100.0
¹³C chemical shifts	46	46	100.0

Aromatic group atoms

Atom group	# of target shifts	# of assigned shifts	Completeness (%)
¹H chemical shifts	23	23	100.0
¹³C chemical shifts	22	16	72.7
¹⁵N chemical shifts	1	1	100.0

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: A

Distance restraints

Saveframe: DYANA/DIANA_distance_constraints_2
- Status: OK
- Experiment type: noe
- Sequence coverage of experimental data
  - Entity_assembly_ID: A, Chain length: 98, Sequence coverage: 100.0%
- Total number of restraints: 3327
- Weight of restraints: 1.0 (3327)
- Potential type of restraints: upper-bound-parabolic (3327)
- Range of distance target values: 2.22, 5.88 (Å)
- Histogram of distance target values
- Histogram of discrepancy in distance target values
- Distance restraints per residue
  - Chain_ID: A
- Distance restraints on contact map

Keywords Cdc42, CIP4, coiled-coil, TC10