BMRB Entry 16145

Name: Structure of SDF-1/CXCL12
Published: 2009-06-25

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PDB ID: 2kee
Entry in NMR Restraints Grid
Validation report in NRG-CING
Chem Shift validation: AVS_full, LACS, SPARTA
BMRB Entry DOI: doi:10.13018/BMR16145
MolProbity Validation Chart

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Nicholas Rego and David Koes
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Bioinformatics (2015) 31 (8): 1322-1324 doi:10.1093/bioinformatics/btu829

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Title:

Structure of SDF-1/CXCL12

Deposition date:

2009-01-28

Original release date:

2009-06-25

Authors:

Volkman, B.; Veldkamp, C.; Peterson, F.

Citation:

Citation: Veldkamp, C.; Ziarek, J.; Su, J.; Basnet, H.; Lennertz, R.; Weiner, J.; Peterson, F.; Baker, J.; Volkman, B.. "Monomeric structure of the cardioprotective chemokine SDF-1/CXCL12" Protein Sci. 18, 1359-1369 (2009).
PubMed: 19551879

Assembly members:

Assembly members:
CXCL12/SDF1-alpha, polymer, 70 residues, 8122.656 Da.

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 Vector: pQE30

Entity Sequences (FASTA):

Entity Sequences (FASTA):
CXCL12/SDF1-alpha: GSKPVSLSYRCPCRFFESHV ARANVKHLKILNTPNCALQI VARLKNNNRQVCIDPKLKWI QEYLEKALNK

Data sets:

assigned_chemical_shifts
- assigned_chem_shift_list_1

Data type	Count
13C chemical shifts	319
15N chemical shifts	76
1H chemical shifts	528

Additional metadata:

Assembly
Samples and Experiments
Software
Spectrometers
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Assembly:

Entity Assembly ID	Entity Name	Entity ID
1	CXCL12/SDF1-alpha	1

Entities:

Entity 1, CXCL12/SDF1-alpha 70 residues - 8122.656 Da.

1	GLY	SER	LYS	PRO	VAL	SER	LEU	SER	TYR	ARG
2	CYS	PRO	CYS	ARG	PHE	PHE	GLU	SER	HIS	VAL
3	ALA	ARG	ALA	ASN	VAL	LYS	HIS	LEU	LYS	ILE
4	LEU	ASN	THR	PRO	ASN	CYS	ALA	LEU	GLN	ILE
5	VAL	ALA	ARG	LEU	LYS	ASN	ASN	ASN	ARG	GLN
6	VAL	CYS	ILE	ASP	PRO	LYS	LEU	LYS	TRP	ILE
7	GLN	GLU	TYR	LEU	GLU	LYS	ALA	LEU	ASN	LYS

Name	Sample	Sample state	Sample conditions
3D_15N-separated_NOESY	sample_1	isotropic	sample_conditions_1
3D_13C-separated_NOESY	sample_1	isotropic	sample_conditions_1
3D_13C-separated_NOESY (AROMATIC)	sample_1	isotropic	sample_conditions_1

BMRB	16142 16143 16519
PDB	1A15 1QG7 1SDF 1VMC 2J7Z 2KEC 2KED 2KEE 2KOL 2NWG 2SDF 3GV3 3HP3 4LMQ 4UAI
DBJ	BAA28601 BAA28602 BAF85317 BAG11056 BAG34757
EMBL	CAE11785 CAG29279
GB	AAA97434 AAB39332 AAB39333 AAB40516 AAH39893
REF	NP_000600 NP_001009580 NP_001009847 NP_001012495 NP_001028106
SP	O62657 P48061
AlphaFold	O62657 P48061

BMRB Entry 16145

Additional metadata:

Assembly:

Entities:

Samples:

Experiments:

Software:

NMR spectrometers:

Related Database Links:

1	GLY	SER	LYS	PRO	VAL	SER	LEU	SER	TYR	ARG
2	CYS	PRO	CYS	ARG	PHE	PHE	GLU	SER	HIS	VAL
3	ALA	ARG	ALA	ASN	VAL	LYS	HIS	LEU	LYS	ILE
4	LEU	ASN	THR	PRO	ASN	CYS	ALA	LEU	GLN	ILE
5	VAL	ALA	ARG	LEU	LYS	ASN	ASN	ASN	ARG	GLN
6	VAL	CYS	ILE	ASP	PRO	LYS	LEU	LYS	TRP	ILE
7	GLN	GLU	TYR	LEU	GLU	LYS	ALA	LEU	ASN	LYS

1	GLY	SER	LYS	PRO	VAL	SER	LEU	SER	TYR	ARG
2	CYS	PRO	CYS	ARG	PHE	PHE	GLU	SER	HIS	VAL
3	ALA	ARG	ALA	ASN	VAL	LYS	HIS	LEU	LYS	ILE
4	LEU	ASN	THR	PRO	ASN	CYS	ALA	LEU	GLN	ILE
5	VAL	ALA	ARG	LEU	LYS	ASN	ASN	ASN	ARG	GLN
6	VAL	CYS	ILE	ASP	PRO	LYS	LEU	LYS	TRP	ILE
7	GLN	GLU	TYR	LEU	GLU	LYS	ALA	LEU	ASN	LYS

1	GLY	SER	LYS	PRO	VAL	SER	LEU	SER	TYR	ARG
2	CYS	PRO	CYS	ARG	PHE	PHE	GLU	SER	HIS	VAL
3	ALA	ARG	ALA	ASN	VAL	LYS	HIS	LEU	LYS	ILE
4	LEU	ASN	THR	PRO	ASN	CYS	ALA	LEU	GLN	ILE
5	VAL	ALA	ARG	LEU	LYS	ASN	ASN	ASN	ARG	GLN
6	VAL	CYS	ILE	ASP	PRO	LYS	LEU	LYS	TRP	ILE
7	GLN	GLU	TYR	LEU	GLU	LYS	ALA	LEU	ASN	LYS