BMRB Entry 6177

Name: N-terminal Domain of the Polypyrimidine Tract Binding Protein Contains a New RRM Variant That Contributes to High-Affinity RNA Binding
Published: 2004-11-08

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PDB ID: 1sjr
Entry in NMR Restraints Grid
Validation report in NRG-CING
Chem Shift validation: AVS_full, LACS
BMRB Entry DOI: doi:10.13018/BMR6177
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:

N-terminal Domain of the Polypyrimidine Tract Binding Protein Contains a New RRM Variant That Contributes to High-Affinity RNA Binding

Deposition date:

2004-04-14

Original release date:

2004-11-08

Authors:

Simpson, P.; Monie, T.; Szendroi, A.; Davydova, N.; Tyzack, J.; Conte, M.; Read, C.; Cary, P.; Svergun, D.; V Konarev, P.; V., Petoukhov M.; Curry, S.; Matthews, S.

Citation:

Citation: Simpson, P.; Monie, T.; Szendroi, A.; Davydova, N.; Tyzack, J.; Conte, M.; Read, C.; Cary, P.; Svergun, D.; Konarev, P.; Curry, S.; Matthews, S.. "Structure and RNA interactions of the N-terminal RRM domains of PTB" Structure (Camb) 12, 1631-1643 (2004).
PubMed: 15341728

Assembly members:

Assembly members:
polypyrimidine tract binding protein 1 domain 2, polymer, 164 residues, Formula weight is not available

Natural source:

Natural source: Common Name: Human Taxonomy ID: 9606 Superkingdom: Eukaryota Kingdom: Metazoa Genus/species: Homo sapiens

Experimental source:

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

Entity Sequences (FASTA):

Entity Sequences (FASTA):
polypyrimidine tract binding protein 1 domain 2: MHHHHHHGSAQAALQAVNSV QSGNLALAASAAAVDAGMAM AGQSPVLRIIVENLFYPVTL DVLHQIFSKFGTVLKIITFT KNNQFQALLQYADPVSAQHA KLSLDGQNIYNACCTLRIDF SKLTSLNVKYNNDKSRDYTR PDLPSGDSQPSLDQTMAAAF GLSV

Data sets:

assigned_chemical_shifts
- chemical_shift_set_1

Data type	Count
1H chemical shifts	776
13C chemical shifts	489
15N chemical shifts	115

Additional metadata:

Assembly
Samples and Experiments
Software
Spectrometers
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Assembly:

Entity Assembly ID	Entity Name	Entity ID
1	PTB1-2 monomer	1

Entities:

Entity 1, PTB1-2 monomer 164 residues - Formula weight is not available

1

MET

HIS

GLY

SER

ALA

2

GLN

ALA

LEU

GLN

ALA

VAL

ASN

SER

VAL

3

GLN

SER

GLY

ASN

LEU

ALA

LEU

ALA

SER

4

ALA

VAL

ASP

ALA

GLY

MET

ALA

MET

5

ALA

GLY

GLN

SER

PRO

VAL

LEU

ARG

ILE

6

VAL

GLU

ASN

LEU

PHE

TYR

PRO

VAL

THR

LEU

7

ASP

VAL

LEU

HIS

GLN

ILE

PHE

SER

LYS

PHE

8

GLY

THR

VAL

LEU

LYS

ILE

THR

PHE

THR

9

LYS

ASN

GLN

PHE

GLN

ALA

LEU

GLN

10

TYR

ALA

ASP

PRO

VAL

SER

ALA

GLN

HIS

ALA

11

LYS

LEU

SER

LEU

ASP

GLY

GLN

ASN

ILE

TYR

12

ASN

ALA

CYS

THR

LEU

ARG

ILE

ASP

PHE

13

SER

LYS

LEU

THR

SER

LEU

ASN

VAL

LYS

TYR

14

ASN

ASP

LYS

SER

ARG

ASP

TYR

THR

ARG

15

PRO

ASP

LEU

PRO

SER

GLY

ASP

SER

GLN

PRO

16

SER

LEU

ASP

GLN

THR

MET

ALA

PHE

17

GLY

LEU

SER

VAL

Samples:

sample_1: polypyrimidine tract binding protein 1 domain 2, [U-13C; U-15N], 0.25 mM; Na phosphate 50 mM; NaCl 100 mM; DTT 10 mM; sodium azide 2 mM

sample_cond_1: pH: 6.5; temperature: 310 K; ionic strength: 0.3 M; pressure: 1 atm

Experiments:

Name	Sample	Sample state	Sample conditions
HNCO	sample_1	not available	sample_cond_1
HN(CA)CO	sample_1	not available	sample_cond_1
HNCACB	sample_1	not available	sample_cond_1
CBCA(CO)NH	sample_1	not available	sample_cond_1
HBHA	sample_1	not available	sample_cond_1
H(C)CH-TOCSY	sample_1	not available	sample_cond_1
(H)CCH-TOCSY	sample_1	not available	sample_cond_1
(HB)CB(CGCD)HD	sample_1	not available	sample_cond_1
15N-separated NOESY	sample_1	not available	sample_cond_1
13C-separated NOESY	sample_1	not available	sample_cond_1

Software:

XWINNMR v3.1 - collection

NMRPipe v1 - processing

NMRView v4.1.3 - data analysis

X-PLOR v3.851 - structure solution, refinement

NMR spectrometers:

Varian INOVA 800 MHz
Bruker DRX 500 MHz

BMRB	5409
PDB	1SJR 3ZZY 3ZZZ
DBJ	BAB86943 BAC28230 BAC29560 BAC30837 BAC31665
EMBL	CAA36321 CAA43056 CAA43202 CAA43203 CAA43973
GB	AAC99798 AAH02397 AAH04383 AAH07472 AAH13694
REF	NP_001070831 NP_001257986 NP_001269942 NP_001289713 NP_002810
SP	P17225 P26599 Q00438 Q29099 Q8WN55
TPG	DAA27468
AlphaFold	P17225 P26599 Q00438 Q29099 Q8WN55