BMRB Entry 4452

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PDB ID: 2afp
Entry in NMR Restraints Grid
Validation report in NRG-CING
Chem Shift validation: AVS_full
BMRB Entry DOI: doi:10.13018/BMR4452
MolProbity Validation Chart

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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:

The Solution structure of Type II Antifreeze Protein Reveals a New Member of the Lectin Family

Deposition date:

1999-11-08

Original release date:

2000-01-12

Authors:

Gronwald, W.; Loewen, M.; Lix, B.; Daugulis, A.; Sonnichsen, F.; Davies, P.; Sykes, B.

Citation:

Citation: Gronwald, W.; Loewen, M.; Lix, B.; Daugulis, A.; Sonnichsen, F.; Davies, P.; Sykes, B.. "The Solution Structure of Type II Antifreeze Protein Reveals a New Member of the Lectin Family" Biochemistry 37, 4712-4721 (1998).

Assembly members:

Assembly members:
sea raven Type II antifreeze protein, polymer, 129 residues, 13993 Da.

Natural source:

Natural source: Common Name: Sea raven Taxonomy ID: 8094 Superkingdom: Eukaryota Kingdom: Metazoa Genus/species: Hemitripterus americanus

Experimental source:

Experimental source: Production method: recombinant technology Host organism: Pichia Pastoris

Entity Sequences (FASTA):

Entity Sequences (FASTA):
sea raven Type II antifreeze protein: QRAGPNCPAGWQPLGDRCIY YETTAMTWALAETNCMKLGG HLASIHSQEEHSFIQTLNAG VVWIGGSACLQAGAWTWSDG TPMNFRSWCSTKPDDVLAAC CMQMTAAADQCWDDLPCPAS HKSVCAMTF

Data sets:

assigned_chemical_shifts
- afp2.shift.ascii

Data type	Count
15N chemical shifts	120
1H chemical shifts	662

Additional metadata:

Assembly
Samples and Experiments
Software
Spectrometers
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Assembly:

Entity Assembly ID	Entity Name	Entity ID
1	SRAFP	1

Entities:

Entity 1, SRAFP 129 residues - 13993 Da.

1

GLN

ARG

ALA

GLY

PRO

ASN

CYS

PRO

ALA

GLY

2

TRP

GLN

PRO

LEU

GLY

ASP

ARG

CYS

ILE

TYR

3

TYR

GLU

THR

ALA

MET

THR

TRP

ALA

LEU

4

ALA

GLU

THR

ASN

CYS

MET

LYS

LEU

GLY

5

HIS

LEU

ALA

SER

ILE

HIS

SER

GLN

GLU

6

HIS

SER

PHE

ILE

GLN

THR

LEU

ASN

ALA

GLY

7

VAL

TRP

ILE

GLY

SER

ALA

CYS

LEU

8

GLN

ALA

GLY

ALA

TRP

THR

TRP

SER

ASP

GLY

9

THR

PRO

MET

ASN

PHE

ARG

SER

TRP

CYS

SER

10

THR

LYS

PRO

ASP

VAL

LEU

ALA

CYS

11

CYS

MET

GLN

MET

THR

ALA

ASP

GLN

12

CYS

TRP

ASP

LEU

PRO

CYS

PRO

ALA

SER

13

HIS

LYS

SER

VAL

CYS

ALA

MET

THR

PHE

Samples:

sample_1: sea raven Type II antifreeze protein, [U-15N], 0.5 – 1.2 mM

sample_cond_1: pH: 5.6; temperature: 308 K

Experiments:

Name	Sample	Sample state	Sample conditions
2D-DQF-COSY	sample_1	not available	sample_cond_1
2D-TOCSY	sample_1	not available	sample_cond_1
2D-NOESY	sample_1	not available	sample_cond_1
3D-TOCSY-HSQC	sample_1	not available	sample_cond_1
3D-NOESY-HSQC	sample_1	not available	sample_cond_1
3D-HNHA	sample_1	not available	sample_cond_1

Software:

X-PLOR v3.1 - structure calculation

VNMR v5.1 - Acquisition and processing of NMR spectra

NMRPipe - Processing of NMR spectra

PIPP - Analysis of NMR spectra

NMR spectrometers:

Varian Unity 600 MHz
Varian UnityPlus 600 MHz

PDB	2AFP
GB	AAA49617 AAA49618
SP	P05140
AlphaFold	P05140