BMRB

Biological Magnetic Resonance Data Bank


A Repository for Data from NMR Spectroscopy on Proteins, Peptides, Nucleic Acids, and other Biomolecules
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BMRB Entry 18800

Title: Backbone assignments of the apo and Zn(II) protoporphyrin IX-bound states of the soluble form of rat heme oxygenase-1   PubMed: 25209143

Deposition date: 2012-10-22 Original release date: 2015-05-07

Authors: Harada, Erisa; Sugishima, Masakazu; Harada, Jiro; Noguchi, Masato; Fukuyama, Keiichi; Sugase, Kenji

Citation: Harada, Erisa; Sugishima, Masakazu; Harada, Jiro; Noguchi, Masato; Fukuyama, Keiichi; Sugase, Kenji. "Backbone assignments of the apo and Zn(II) protoporphyrin IX-bound states of the soluble form of rat heme oxygenase-1"  Biomol. NMR Assign. 9, 197-200 (2015).

Assembly members:
HO-1_complex, polymer, 232 residues, 26800 Da.
PROTOPORPHYRIN IX CONTAINING ZN, non-polymer, 626.051 Da.

Natural source:   Common Name: Rat   Taxonomy ID: 10116   Superkingdom: Eukaryota   Kingdom: Metazoa   Genus/species: Rattus norvegicus

Experimental source:   Production method: recombinant technology   Host organism: Escherichia coli   Vector: pET21a

Entity Sequences (FASTA):
HO-1_complex: MERPQLDSMSQDLSEALKEA TKEVHIRAENSEFMRNFQKG QVSREGFKLVMASLYHIYTA LEEEIERNKQNPVYAPLYFP EELHRRAALEQDMAFWYGPH WQEAIPYTPATQHYVKRLHE VGGTHPELLVAHAYTRYLGD LSGGQVLKKIAQKAMALPSS GEGLAFFTFPSIDNPTKFKQ LYRARMNTLEMTPEVKHRVT EEAKTAFLLNIELFEELQAL LTEEHKDQSPSQ

Data sets:
Data typeCount
13C chemical shifts666
15N chemical shifts214
1H chemical shifts214

Additional metadata:

  • Assembly
  • Samples and Experiments
  • Software
  • Spectrometers
  • Hide all

Assembly:

Entity Assembly IDEntity NameEntity ID
1HO-1_complex1
2zinc_protoporphyrin_IX2

Entities:

Entity 1, HO-1_complex 232 residues - 26800 Da.

1   METGLUARGPROGLNLEUASPSERMETSER
2   GLNASPLEUSERGLUALALEULYSGLUALA
3   THRLYSGLUVALHISILEARGALAGLUASN
4   SERGLUPHEMETARGASNPHEGLNLYSGLY
5   GLNVALSERARGGLUGLYPHELYSLEUVAL
6   METALASERLEUTYRHISILETYRTHRALA
7   LEUGLUGLUGLUILEGLUARGASNLYSGLN
8   ASNPROVALTYRALAPROLEUTYRPHEPRO
9   GLUGLULEUHISARGARGALAALALEUGLU
10   GLNASPMETALAPHETRPTYRGLYPROHIS
11   TRPGLNGLUALAILEPROTYRTHRPROALA
12   THRGLNHISTYRVALLYSARGLEUHISGLU
13   VALGLYGLYTHRHISPROGLULEULEUVAL
14   ALAHISALATYRTHRARGTYRLEUGLYASP
15   LEUSERGLYGLYGLNVALLEULYSLYSILE
16   ALAGLNLYSALAMETALALEUPROSERSER
17   GLYGLUGLYLEUALAPHEPHETHRPHEPRO
18   SERILEASPASNPROTHRLYSPHELYSGLN
19   LEUTYRARGALAARGMETASNTHRLEUGLU
20   METTHRPROGLUVALLYSHISARGVALTHR
21   GLUGLUALALYSTHRALAPHELEULEUASN
22   ILEGLULEUPHEGLUGLULEUGLNALALEU
23   LEUTHRGLUGLUHISLYSASPGLNSERPRO
24   SERGLN

Entity 2, zinc_protoporphyrin_IX - C34 H32 N4 O4 Zn - 626.051 Da.

1   ZNH

Samples:

sample_1: heme oxygenase 1, [U-100% 13C; U-100% 15N; U-80% 2H], 1.0 mM; potassium phosphate 50 mM; H2O 95%; D2O 5%

sample_conditions_1: pH: 7; pressure: 1 atm; temperature: 298 K

Experiments:

NameSampleSample stateSample conditions
2D 1H-15N HSQCsample_1isotropicsample_conditions_1
3D HNCOsample_1isotropicsample_conditions_1
3D HNCAsample_1isotropicsample_conditions_1
3D HN(CO)CAsample_1isotropicsample_conditions_1
3D HNCACBsample_1isotropicsample_conditions_1
3D HN(CA)COsample_1isotropicsample_conditions_1
3D HN(CO)CACBsample_1isotropicsample_conditions_1
3D 1H-15N NOESYsample_1isotropicsample_conditions_1

Software:

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

NMRView, Johnson, One Moon Scientific - data analysis

Kujira, RIKEN, Naohiro Kobayashi - automated peak assignment, chemical shift assignment

NMR spectrometers:

  • Bruker DRX 600 MHz
  • Bruker DMX 750 MHz

Related Database Links:

PDB
BMRB 18798 18799
GB AAA41346 AAH91164 ADD84876 EDL87376
REF NP_036712
SP P06762

Download simulated HSQC data in one of the following formats:
CSV: Backbone or all simulated shifts
SPARKY: Backbone or all simulated shifts