BMRB Entry 16124

Name: Solution structure of RppH from Escherichia coli
Published: 2009-04-14

Chem Shift validation: AVS_anomalous, AVS_full, LACS
BMRB Entry DOI: doi:10.13018/BMR16124

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Nicholas Rego and David Koes
3Dmol.js: molecular visualization with WebGL
Bioinformatics (2015) 31 (8): 1322-1324 doi:10.1093/bioinformatics/btu829

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Title:

Solution structure of RppH from Escherichia coli

Deposition date:

2009-01-18

Original release date:

2009-04-14

Authors:

Bi, Yunchen; Li, Hongwei; Jin, Changwen

Citation:

Citation: Bi, Yunchen; Li, Hongwei; Fan, Shoujin; Xia, Bin; Jin, Changwen. "1H, 13C and 15N resonance assignments of RNA pyrophosphohydrolase RppH from Escherichia coli" Biomol. NMR Assignments 3, 149-151 (2009).
PubMed: 19636968

Assembly members:

Assembly members:
RppH, polymer, 164 residues, Formula weight is not available

Natural source:

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

Experimental source:

Experimental source: Production method: recombinant technology Host organism: Escherichia coli Vector: pet21

Entity Sequences (FASTA):

Entity Sequences (FASTA):
RppH: MIDDDGYRPNVGIVICNRQG QVMWARRFGQHSWQFPQGGI NPGESAEQAMYRELFEEVGL SRKDVRILASTRNWLRYKLP KRLVRWDTKPVCIGQKQKWF LLQLVSGDAEINMQTSSTPE FDGWRWVSYWYPVRQVVSFK RDVYRRVMKEFASVVMSLQE NTPK

Data sets:

assigned_chemical_shifts
- assigned_chem_shift_list_1

Data type	Count
13C chemical shifts	717
15N chemical shifts	187
1H chemical shifts	1107

Additional metadata:

Assembly
Samples and Experiments
Software
Spectrometers
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Assembly:

Entity Assembly ID	Entity Name	Entity ID
1	RppH	1

Entities:

Entity 1, RppH 164 residues - Formula weight is not available

1

MET

ILE

ASP

GLY

TYR

ARG

PRO

ASN

2

VAL

GLY

ILE

VAL

ILE

CYS

ASN

ARG

GLN

GLY

3

GLN

VAL

MET

TRP

ALA

ARG

PHE

GLY

GLN

4

HIS

SER

TRP

GLN

PHE

PRO

GLN

GLY

ILE

5

ASN

PRO

GLY

GLU

SER

ALA

GLU

GLN

ALA

MET

6

TYR

ARG

GLU

LEU

PHE

GLU

VAL

GLY

LEU

7

SER

ARG

LYS

ASP

VAL

ARG

ILE

LEU

ALA

SER

8

THR

ARG

ASN

TRP

LEU

ARG

TYR

LYS

LEU

PRO

9

LYS

ARG

LEU

VAL

ARG

TRP

ASP

THR

LYS

PRO

10

VAL

CYS

ILE

GLY

GLN

LYS

GLN

LYS

TRP

PHE

11

LEU

GLN

LEU

VAL

SER

GLY

ASP

ALA

GLU

12

ILE

ASN

MET

GLN

THR

SER

THR

PRO

GLU

13

PHE

ASP

GLY

TRP

ARG

TRP

VAL

SER

TYR

TRP

14

TYR

PRO

VAL

ARG

GLN

VAL

SER

PHE

LYS

15

ARG

ASP

VAL

TYR

ARG

VAL

MET

LYS

GLU

16

PHE

ALA

SER

VAL

MET

SER

LEU

GLN

GLU

17

ASN

THR

PRO

LYS

Samples:

sample_1: sodium acetate 50 mM; sodium chloride 20 mM; DTT 40 mM; arginine 10 mM; glutamic 10 mM; RppH protein, [U-13C; U-15N], 0.8 mM

sample_conditions_1: ionic strength: 90 mM; pH: 5; 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 NOESY	sample_1	isotropic	sample_conditions_1
3D 1H-13C NOESY	sample_1	isotropic	sample_conditions_1

Software:

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

NMRView, Johnson, One Moon Scientific - data analysis

xwinnmr, Bruker Biospin - collection

AMBER, Case, Darden, Cheatham, III, Simmerling, Wang, Duke, Luo, ... and Kollm - refinement

NMR spectrometers:

Bruker Avance 600 MHz
Bruker Avance 800 MHz

PDB	2KDV 2KDW 4S2V 4S2W 4S2X 4S2Y
DBJ	BAB37110 BAE76899 BAG78611 BAI27093 BAI32136
EMBL	CAD02829 CAP77286 CAQ33156 CAQ90258 CAQ99756
GB	AAB40477 AAC75869 AAG57941 AAL21880 AAN44326
PIR	AE0866
REF	NP_311714 NP_417307 NP_457398 NP_461921 NP_708619
SP	A7ZQT6 A8A3W3 A9MS78 A9N2M1 B1IU14
AlphaFold	A7ZQT6 A8A3W3 A9MS78 A9N2M1 B1IU14