BMRB Entry 17989

Name: NMR resonance assignment of the UUP protein C-terminal domain
Published: 2012-01-31

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PDB ID: 2lw1
Entry in NMR Restraints Grid
Validation report in NRG-CING
Chem Shift validation: AVS_full, LACS
BMRB Entry DOI: doi:10.13018/BMR17989
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Bioinformatics (2015) 31 (8): 1322-1324 doi:10.1093/bioinformatics/btu829

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Title:

NMR resonance assignment of the UUP protein C-terminal domain

Deposition date:

2011-10-11

Original release date:

2012-01-31

Authors:

Carlier, Ludovic; Haase, Sander; Lequin, Olivier

Citation:

Citation: Carlier, Ludovic; Haase, A. Sander; Burgos Zepeda, Monica; Dassa, Elie; Lequin, Olivier. "Secondary structure and NMR resonance assignments of the C-terminal DNA-binding domain of Uup protein." Biomol. NMR Assignments 6, 197-200 (2012).
PubMed: 22287065

Assembly members:

Assembly members:
UUP, polymer, 112 residues, 12563 Da.

Natural source:

Natural source: Common Name: E. coli Taxonomy ID: 562 Superkingdom: Bacteria Kingdom: not available Genus/species: Escherichia coli

Experimental source:

Experimental source: Production method: recombinant technology Host organism: Escherichia coli Vector: pET-15b

Entity Sequences (FASTA):

Entity Sequences (FASTA):
UUP: GSHMGQQEQYVALKQPAVKK TEEAAAAKAETVKRSSSKLS YKLQRELEQLPQLLEDLEAK LEALQTQVADASFFSQPHEQ TQKVLADMAAAEQELEQAFE RWEYLEALKNGG

Data sets:

assigned_chemical_shifts
- assigned_chem_shift_list_1

Data type	Count
13C chemical shifts	478
15N chemical shifts	113
1H chemical shifts	771

Additional metadata:

Assembly
Samples and Experiments
Software
Spectrometers
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Assembly:

Entity Assembly ID	Entity Name	Entity ID
1	UUP protein C-terminal domain	1

Entities:

Entity 1, UUP protein C-terminal domain 112 residues - 12563 Da.

Residues 1-4 represent a non-native affinity tag. Gly-5 corresponds to Gly-528 in the native UUP protein sequence.

1

GLY

SER

HIS

MET

GLY

GLN

GLU

GLN

TYR

2

VAL

ALA

LEU

LYS

GLN

PRO

ALA

VAL

LYS

3

THR

GLU

ALA

LYS

ALA

GLU

4

THR

VAL

LYS

ARG

SER

LYS

LEU

SER

5

TYR

LYS

LEU

GLN

ARG

GLU

LEU

GLU

GLN

LEU

6

PRO

GLN

LEU

GLU

ASP

LEU

GLU

ALA

LYS

7

LEU

GLU

ALA

LEU

GLN

THR

GLN

VAL

ALA

ASP

8

ALA

SER

PHE

SER

GLN

PRO

HIS

GLU

GLN

9

THR

GLN

LYS

VAL

LEU

ALA

ASP

MET

ALA

10

ALA

GLU

GLN

GLU

LEU

GLU

GLN

ALA

PHE

GLU

11

ARG

TRP

GLU

TYR

LEU

GLU

ALA

LEU

LYS

ASN

12

GLY

Samples:

sample_1: UUP, [U-100% 15N], 0.7 mM; sodium chloride 170 mM; sodium phosphate 30 mM; DSS 0.111 mM; leupeptine 1 uM; pepstatine 1 uM; sodium azide 0.02%; H2O 90%; D2O 10%

sample_2: UUP, [U-100% 13C; U-100% 15N], 0.9 mM; sodium chloride 170 mM; sodium phosphate 30 mM; DSS 0.111 mM; leupeptine 1 uM; pepstatine A 1 uM; sodium azide 0.02%; H2O 90%; D2O 10%

sample_3: UUP, [U-100% 13C; U-100% 15N], 0.8 mM; sodium chloride 170 mM; sodium phosphate 30 mM; leupeptine 1 uM; pepstatine A 1 uM; sodium azide 0.02%; D2O 100%

sample_conditions_1: ionic strength: 0.2 M; pH: 7.0; pressure: 1 atm; temperature: 303 K

Experiments:

Name	Sample	Sample state	Sample conditions
2D 1H-15N HSQC	sample_1	isotropic	sample_conditions_1
3D 1H-15N TOCSY	sample_1	isotropic	sample_conditions_1
2D 1H-15N HSQC	sample_2	isotropic	sample_conditions_1
3D HNCO	sample_2	isotropic	sample_conditions_1
3D HN(CA)CO	sample_2	isotropic	sample_conditions_1
3D CBCA(CO)NH	sample_2	isotropic	sample_conditions_1
3D HNCACB	sample_2	isotropic	sample_conditions_1
3D HBHA(CO)NH	sample_2	isotropic	sample_conditions_1
3D HCCH-TOCSY	sample_3	isotropic	sample_conditions_1
3D C(CO)NH	sample_2	isotropic	sample_conditions_1
3D H(CCO)NH	sample_2	isotropic	sample_conditions_1
2D 1H-13C HSQC	sample_3	isotropic	sample_conditions_1
3D 1H-15N NOESY	sample_1	isotropic	sample_conditions_1
3D 1H-13C NOESY aliphatic	sample_3	isotropic	sample_conditions_1
3D 1H-13C NOESY aromatic	sample_3	isotropic	sample_conditions_1

Software:

NMRPipe, Delaglio, Grzesiek, Vuister, Zhu, Pfeifer and Bax - processing

SPARKY, Goddard - chemical shift assignment, collection, peak picking

TOPSPIN v2.0, Bruker Biospin - geometry optimization

NMR spectrometers:

Bruker Avance III 500 MHz
Bruker Avance 800 MHz

PDB	2LW1
DBJ	BAA35707 BAB34456 BAG76534 BAI24392 BAI29842
EMBL	CAA70589 CAP75412 CAQ31477 CAQ88615 CAQ97854
GB	AAC74035 AAG55435 AAN42579 AAN79553 AAP16463
REF	NP_309060 NP_415469 NP_706872 WP_000053029 WP_000053031
SP	P43672
AlphaFold	P43672