BMRB Entry 25336

Name: Backbone assignments for cyclophilin from Geobacillus Kaustophilus with saturating concentrations of the model peptide GSFGPDLRAGD
Published: 2014-12-16

Chem Shift validation: AVS_full, LACS
BMRB Entry DOI: doi:10.13018/BMR25336

NMR-STAR file interactive viewer.
NMR-STAR v3 text file.
XML gzip file.
RDF gzip file.
All files associated with the entry

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

Select model:

I am color blind

Download raw data. Direct link to this display. Help

Title:

Backbone assignments for cyclophilin from Geobacillus Kaustophilus with saturating concentrations of the model peptide GSFGPDLRAGD

Deposition date:

2014-11-13

Original release date:

2014-12-16

Authors:

Holliday, Michael; Camilloni, Carlo; Armstrong, Geoffrey; Isern, Nancy; Zhang, Fengli; Vendruscolo, Michele; Eisenmesser, Elan

Citation:

Citation: Holliday, Michael; Camilloni, Carlo; Geoffrey, Armstrong; Isern, Nancy; Zhang, Fengli; Vendruscolo, Michele; Eisenmesser, Elan. "Structure and Dynamics of GeoCyp: A Thermophilic Cyclophilin with a Novel Substrate Binding Mechanism That Functions Efficiently at Low Temperatures" Biochemistry 54, 3207-3217 (2015).
PubMed: 25923019

Assembly members:

Assembly members:
GeoCyp, polymer, 148 residues, 16116.1 Da.
GSFGPDLRAGD, polymer, 11 residues, Formula weight is not available

Natural source:

Natural source: Common Name: firmicutes Taxonomy ID: 1462 Superkingdom: Bacteria Kingdom: not available Genus/species: Geobacillus Kaustophilus

Experimental source:

Experimental source: Production method: recombinant technology Host organism: Escherichia coli Vector: pJ401

Entity Sequences (FASTA):

Entity Sequences (FASTA):
GeoCyp: GSMAKKGYILMENGGKIEFE LFPNEAPVTVANFEKLANEG FYNGLTFHRVIPGFVSQGGC PRGNGTGDAGYTIPCETDNN PHRHVTGAMSMAHRGRDTGS CQFFIVHEPQPHLDGVHTVF GQVTSGMDVVRTMKNGDVMK EVKVFDEP
GSFGPDLRAGD: GSFGPDLRAGD

Data sets:

assigned_chemical_shifts
- assigned_chem_shift_list
spectral_peak_list

Data type	Count
13C chemical shifts	265
15N chemical shifts	132
1H chemical shifts	132

Additional metadata:

Assembly
Samples and Experiments
Software
Spectrometers
Hide all

Assembly:

Entity Assembly ID	Entity Name	Entity ID
1	GeoCyp	1
2	GSFGPDLRAGD	2

Entities:

Entity 1, GeoCyp 148 residues - 16116.1 Da.

Full length GeoCyp, with two additional N-terminal residues, Gly-Ser-, remaining after removal of affinity tag

1

GLY

SER

MET

ALA

LYS

GLY

TYR

ILE

LEU

2

MET

GLU

ASN

GLY

LYS

ILE

GLU

PHE

GLU

3

LEU

PHE

PRO

ASN

GLU

ALA

PRO

VAL

THR

VAL

4

ALA

ASN

PHE

GLU

LYS

LEU

ALA

ASN

GLU

GLY

5

PHE

TYR

ASN

GLY

LEU

THR

PHE

HIS

ARG

VAL

6

ILE

PRO

GLY

PHE

VAL

SER

GLN

GLY

CYS

7

PRO

ARG

GLY

ASN

GLY

THR

GLY

ASP

ALA

GLY

8

TYR

THR

ILE

PRO

CYS

GLU

THR

ASP

ASN

9

PRO

HIS

ARG

HIS

VAL

THR

GLY

ALA

MET

SER

10

MET

ALA

HIS

ARG

GLY

ARG

ASP

THR

GLY

SER

11

CYS

GLN

PHE

ILE

VAL

HIS

GLU

PRO

GLN

12

PRO

HIS

LEU

ASP

GLY

VAL

HIS

THR

VAL

PHE

13

GLY

GLN

VAL

THR

SER

GLY

MET

ASP

VAL

14

ARG

THR

MET

LYS

ASN

GLY

ASP

VAL

MET

LYS

15

GLU

VAL

LYS

VAL

PHE

ASP

GLU

PRO

Entity 2, GSFGPDLRAGD 11 residues - Formula weight is not available

1

GLY

SER

PHE

GLY

PRO

ASP

LEU

ARG

ALA

GLY

2

ASP

Samples:

GeoCyp-GSFGPDLRAGD: GeoCyp, [U-100% 13C; U-100% 15N], 1 mM; GSFGPDLRAGD 4 mM; sodium phosphate 50 mM; EDTA 1 mM; DTT 1 mM; H2O 93%; D2O 7%

sample_conditions_1: ionic strength: 0.05 M; pH: 6.5; pressure: 1 atm; temperature: 283 K

Experiments:

Name	Sample	Sample state	Sample conditions
2D 1H-15N HSQC	GeoCyp-GSFGPDLRAGD	isotropic	sample_conditions_1
3D HNCACB	GeoCyp-GSFGPDLRAGD	isotropic	sample_conditions_1
3D HNCA	GeoCyp-GSFGPDLRAGD	isotropic	sample_conditions_1
3D CBCA(CO)NH	GeoCyp-GSFGPDLRAGD	isotropic	sample_conditions_1

Software:

CcpNmr_Analysis v2.1, CCPN - chemical shift assignment, peak picking

nmrPipe vany, Delaglio, Grzesiek, Vuister, Zhu, Pfeifer and Bax, Varian - Spectrum processing, collection

NMR spectrometers:

Varian INOVA 600 MHz
Varian INOVA 800 MHz

BMRB	18628
PDB	2MVZ
DBJ	BAD76583 GAD12357 GAJ58355
GB	ABO67576 ACX77066 ADI26232 ADU94680 AEV19889
REF	WP_008879707 WP_011231780 WP_012820689 WP_013144839 WP_025948556