BMRB Entry 10137

Name: Lipocalin-type Prostaglandin D synthase
Published: 2008-02-20

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PDB ID: 2e4j
Entry in NMR Restraints Grid
Validation report in NRG-CING
Chem Shift validation: AVS_anomalous, AVS_full, LACS
BMRB Entry DOI: doi:10.13018/BMR10137
MolProbity Validation Chart

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Bioinformatics (2015) 31 (8): 1322-1324 doi:10.1093/bioinformatics/btu829

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Title:

Lipocalin-type Prostaglandin D synthase

Deposition date:

2007-05-16

Original release date:

2008-02-20

Authors:

Shimamoto, Shigeru

Citation:

Citation: Shimamoto, Shigeru; Yoshida, T.; Inui, T.; Gohda, K.; Kobayashi, Y.; Fujimori, K.; Tsurumura, T.; Aritake, K.; Urade, Y.; Ohkubo, T.. "NMR solution structure of lipocalin-type prostaglandin D synthase: evidence for partial overlapping of catalytic pocket and retinoic acid-binding pocket within the central cavity." J. Biol. Chem. 282, 31373-31379 (2007).
PubMed: 17715133

Assembly members:

Assembly members:
L-PGDS, polymer, 167 residues, Formula weight is not available

Natural source:

Natural source: Common Name: mouse Taxonomy ID: 10090 Superkingdom: Eukaryota Kingdom: Metazoa Genus/species: Mus musculus

Experimental source:

Experimental source: Production method: recombinant technology Vector: pGEX-2T

Entity Sequences (FASTA):

Entity Sequences (FASTA):
L-PGDS: GSQGHDTVQPNFQQDKFLGR WYSAGLASNSSWFREKKAVL YMCKTVVAPSTEGGLNLTST FLRKNQCETKIMVLQPAGAP GHYTYSSPHSGSIHSVSVVE ANYDEYALLFSRGTKGPGQD FRMATLYSRTQTLKDELKEK FTTFSKAQGLTEEDIVFLPQ PDKCIQE

Data sets:

assigned_chemical_shifts
- L-PGDS_assigned_chemical_shift

Data type	Count
13C chemical shifts	351
15N chemical shifts	107
1H chemical shifts	674

Additional metadata:

Assembly
Samples and Experiments
Software
Spectrometers
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Assembly:

Entity Assembly ID	Entity Name	Entity ID
1	Lipocalin-type Prostaglandin D synthase	1

Entities:

Entity 1, Lipocalin-type Prostaglandin D synthase 167 residues - Formula weight is not available

1

GLY

SER

GLN

GLY

HIS

ASP

THR

VAL

GLN

PRO

2

ASN

PHE

GLN

ASP

LYS

PHE

LEU

GLY

ARG

3

TRP

TYR

SER

ALA

GLY

LEU

ALA

SER

ASN

SER

4

SER

TRP

PHE

ARG

GLU

LYS

ALA

VAL

LEU

5

TYR

MET

CYS

LYS

THR

VAL

ALA

PRO

SER

6

THR

GLU

GLY

LEU

ASN

LEU

THR

SER

THR

7

PHE

LEU

ARG

LYS

ASN

GLN

CYS

GLU

THR

LYS

8

ILE

MET

VAL

LEU

GLN

PRO

ALA

GLY

ALA

PRO

9

GLY

HIS

TYR

THR

TYR

SER

PRO

HIS

SER

10

GLY

SER

ILE

HIS

SER

VAL

SER

VAL

GLU

11

ALA

ASN

TYR

ASP

GLU

TYR

ALA

LEU

PHE

12

SER

ARG

GLY

THR

LYS

GLY

PRO

GLY

GLN

ASP

13

PHE

ARG

MET

ALA

THR

LEU

TYR

SER

ARG

THR

14

GLN

THR

LEU

LYS

ASP

GLU

LEU

LYS

GLU

LYS

15

PHE

THR

PHE

SER

LYS

ALA

GLN

GLY

LEU

16

THR

GLU

ASP

ILE

VAL

PHE

LEU

PRO

GLN

17

PRO

ASP

LYS

CYS

ILE

GLN

GLU

Samples:

sample_1: Lipocalin-type Prostaglandin D synthase, [U-13C; U-15N], 1.0 ± 0.15 mM

condition_1: pH: 6.5; temperature: 303 K

Experiments:

Name	Sample	Sample state	Sample conditions
2D 1H15N HSQC	sample_1	isotropic	condition_1
2D 1H13C HSQC	sample_1	isotropic	condition_1
3D HNCO	sample_1	isotropic	condition_1
3D HNCA	sample_1	isotropic	condition_1
3D HN(CO)CA	sample_1	isotropic	condition_1
3D HNCACB	sample_1	isotropic	condition_1
3D CBCA(CO)NH	sample_1	isotropic	condition_1
3D HBHA(CBCACO)NH	sample_1	isotropic	condition_1
3D HCCH-TOCSY	sample_1	isotropic	condition_1

Software:

No software information available

NMR spectrometers:

Varian INOVA 600 MHz

BMRB	11062 18473
PDB	2CZT 2CZU 2E4J 2KTD 2RQ0
DBJ	BAA74461 BAE20833
EMBL	CAA61506 CAA71226
GB	AAH38083 AAH43015 EDL08248 EDL08250 EDL08251
REF	NP_032989 XP_006497849 XP_006497850
SP	O09114
AlphaFold	O09114