BMRB Entry 6439

Chem Shift validation: AVS_anomalous, AVS_full, LACS
BMRB Entry DOI: doi:10.13018/BMR6439

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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:

Backbone 1H, 15N and 13C and side-chain 1H and 13C assignments of the rice phytochrome B PAS1 domain

Deposition date:

2004-12-21

Original release date:

2005-04-08

Authors:

Kobayashi, Toshitatsu; Mishima, Masaki; Akagi, Kayo; Sakai, Nobuya; Katoh, Etsuko; Takano, Makoto; Yamazaki, Toshimasa; Kojima, Chojiro

Citation:

Citation: Kobayashi, Toshitatsu; Mishima, Masaki; Akagi, Kayo; Sakai, Nobuya; Katoh, Etsuko; Takano, Makoto; Yamazaki, Toshimasa; Kojima, Chojiro. "Letter to the Editor: 1H, 15N and 13C backbone and side-chain assignments of the rice phytochrome B PAS1 domain and backbone assignments of the PAS1-PAS2 domain" J. Biomol. NMR 31, 269-270 (2005).

Assembly members:

Assembly members:
Rice phytochrome B PAS1 domain, polymer, 117 residues, Formula weight is not available

Natural source:

Natural source: Common Name: Rice Taxonomy ID: 4530 Superkingdom: Eukaryota Kingdom: Plantae Genus/species: Oryza sativa

Experimental source:

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

Entity Sequences (FASTA):

Entity Sequences (FASTA):
Rice phytochrome B PAS1 domain: VRLIETATVPIFAVDTDGCI NGWNAKVAELTGLSVEEAMG KSLVNDLIFKESEETVNKLL SRALRGDEDKNVEIKLKTFG PEQSKGPIFVIVNACSSRDY TKNIVGVCFVGQDVTGQ

Data sets:

assigned_chemical_shifts
- chem_shift_list_1

Data type	Count
13C chemical shifts	459
15N chemical shifts	114
1H chemical shifts	754

Additional metadata:

Assembly
Samples and Experiments
Software
Spectrometers
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Assembly:

Entity Assembly ID	Entity Name	Entity ID
1	Rice phytochrome B PAS1 domain	1

Entities:

Entity 1, Rice phytochrome B PAS1 domain 117 residues - Formula weight is not available

1

VAL

ARG

LEU

ILE

GLU

THR

ALA

THR

VAL

PRO

2

ILE

PHE

ALA

VAL

ASP

THR

ASP

GLY

CYS

ILE

3

ASN

GLY

TRP

ASN

ALA

LYS

VAL

ALA

GLU

LEU

4

THR

GLY

LEU

SER

VAL

GLU

ALA

MET

GLY

5

LYS

SER

LEU

VAL

ASN

ASP

LEU

ILE

PHE

LYS

6

GLU

SER

GLU

THR

VAL

ASN

LYS

LEU

7

SER

ARG

ALA

LEU

ARG

GLY

ASP

GLU

ASP

LYS

8

ASN

VAL

GLU

ILE

LYS

LEU

LYS

THR

PHE

GLY

9

PRO

GLU

GLN

SER

LYS

GLY

PRO

ILE

PHE

VAL

10

ILE

VAL

ASN

ALA

CYS

SER

ARG

ASP

TYR

11

THR

LYS

ASN

ILE

VAL

GLY

VAL

CYS

PHE

VAL

12

GLY

GLN

ASP

VAL

THR

GLY

GLN

Samples:

sample_1: Rice phytochrome B PAS1 domain, [U-13C; U-15N], 0.8 mM; potassium phosphate 50 mM; potassium chloride 20 mM; dithiothreitol 5 mM; deuterium oxide, [U-2H], 10%

conditions_1: ionic strength: 0.05 M; pH: 6.8; temperature: 303 K

Experiments:

Name	Sample	Sample state	Sample conditions
1H-15N HSQC	not available	not available	not available
3D-HNCACB	not available	not available	not available
3D-HN(CO)CACB	not available	not available	not available
3D-HNCO	not available	not available	not available
3D-HN(CA)CO	not available	not available	not available
3D-C(CO)NH	not available	not available	not available
3D-H(CCO)NH	not available	not available	not available
4D-HC(CO)NH	not available	not available	not available
3D-HCCH-TOCSY	not available	not available	not available
15N-edited TOCSY-HSQC	not available	not available	not available
2D-NOESY	not available	not available	not available

Software:

xwinnmr v3.5 - data aquisition

NMRPipe - data processing

SPARKY v3.106 - assignments, peak picking

NMR spectrometers:

Bruker AVANCE 500 MHz
Bruker DRX 800 MHz