BMRB Entry 16311

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PDB ID:
Entry in NMR Restraints Grid
Validation report in NRG-CING
Chem Shift validation: AVS_anomalous, AVS_full, SPARTA
BMRB Entry DOI: doi:10.13018/BMR16311
MolProbity Validation Chart

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Title:
Solution structure of the complex of VEK-30 and plasminogen kringle 2
Deposition date:
2009-05-21
Original release date:
2009-10-14
Authors:
Wang, Min; Zajicek, Jaroslav; Prorok, Mary; Castellin, Francis
Citation:

Citation: Wang, Min; Zajicek, Jaroslav; Geiger, James; Prorok, Mary; Castellino, Francis. "Solution structure of the complex of VEK-30 and plasminogen kringle 2."  J. Struct. Biol. 169, 349-359 (2010).
PubMed: 19800007

Assembly members:

Assembly members:
plasminogen kringle 2, polymer, 87 residues, 10166.405 Da.
VEK-30, polymer, 32 residues, 3779.188 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: Pichia pastoris   Vector: pPIC9K

Entity Sequences (FASTA):

Entity Sequences (FASTA):
plasminogen kringle 2: YVEFSEECMHGSGENYDGKI SKTMSGLECQAWDSQSPHAH GYIPSKFPNKNLKKNYCRNP DRDLRPWCFTTDPNKRWEYC DIPRCAA
VEK-30: GSVEKLTADAELQRLKNERH EEAELERLKSEY

Data sets:
Data typeCount
13C chemical shifts523
15N chemical shifts128
1H chemical shifts815

Additional metadata:

  • Assembly
  • Samples and Experiments
  • Software
  • Spectrometers
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Assembly:

Entity Assembly IDEntity NameEntity ID
1plasminogen kringle 21
2VEK-302

Entities:

Entity 1, plasminogen kringle 2 87 residues - 10166.405 Da.

1   TYRVALGLUPHESERGLUGLUCYSMETHIS
2   GLYSERGLYGLUASNTYRASPGLYLYSILE
3   SERLYSTHRMETSERGLYLEUGLUCYSGLN
4   ALATRPASPSERGLNSERPROHISALAHIS
5   GLYTYRILEPROSERLYSPHEPROASNLYS
6   ASNLEULYSLYSASNTYRCYSARGASNPRO
7   ASPARGASPLEUARGPROTRPCYSPHETHR
8   THRASPPROASNLYSARGTRPGLUTYRCYS
9   ASPILEPROARGCYSALAALA

Entity 2, VEK-30 32 residues - 3779.188 Da.

1   GLYSERVALGLULYSLEUTHRALAASPALA
2   GLULEUGLNARGLEULYSASNGLUARGHIS
3   GLUGLUALAGLULEUGLUARGLEULYSSER
4   GLUTYR

Samples:

sample_1: entity_1, [U-13C; U-15N], 1 ± 0.1 mM; entity_2 1 ± 0.1 mM; HEPES, [U-100% 2H], 50 mM; sodium chloride 200 mM; sodium azide 3 mM; DSS 0.2 mM; H2O 90%; D2O 10%

sample_2: entity_1 1 mM; entity_2, [U-15N], 1 mM; HEPES, [U-100% 2H], 50 mM; sodium chloride 200 mM; sodium azide 3 mM; DSS 0.2 mM; H2O 90%; D2O 10%

sample_conditions_1: ionic strength: 0.2 M; pH: 7.0; pressure: 1 atm; temperature: 298 K

Experiments:

NameSampleSample stateSample conditions
2D 1H-15N HSQCsample_1isotropicsample_conditions_1
3D 1H-15N NOESYsample_1isotropicsample_conditions_1
3D 1H-15N TOCSYsample_1isotropicsample_conditions_1
2D 1H-15N HSQCsample_2isotropicsample_conditions_1
3D 1H-15N NOESYsample_2isotropicsample_conditions_1
2D 1H-1H TOCSYsample_2isotropicsample_conditions_1
3D CBCA(CO)NHsample_1isotropicsample_conditions_1
3D HNCAsample_1isotropicsample_conditions_1
3D HNCOsample_1isotropicsample_conditions_1
3D HBHA(CO)NHsample_1isotropicsample_conditions_1

Software:

CNS v1.1, Brunger, Adams, Clore, Gros, Nilges and Read - structure solution

NMRPipe, Delaglio, Grzesiek, Vuister, Zhu, Pfeifer and Bax - processing

NMRView, Johnson, One Moon Scientific - data analysis

NMR spectrometers:

  • Bruker Avance 800 MHz

Related Database Links:

PDB
EMBL CAA80222
GB AAN64682 AAQ64516 AAQ64518 AAQ64521 AEQ25265
REF WP_014635750 WP_023609730 YP_006072819
SP P49054
AlphaFold P49054

Download HSQC peak lists in one of the following formats:
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SPARKY: Backbone or all simulated peaks