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Protein

Non-symbiotic hemoglobin 1

Gene

HB1

Organism
Oryza sativa subsp. japonica (Rice)
Status
Reviewed-Annotation score: Annotation score: 4 out of 5-Experimental evidence at protein leveli

Functioni

May not function as an oxygen storage or transport protein, but might act as an oxygen sensor or play a role in electron transfer, possibly to a bound oxygen molecule. Has an unusually high affinity for O2 because of a very low dissociation constant.

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Metal bindingi74 – 741Iron (heme distal ligand)
Metal bindingi109 – 1091Iron (heme proximal ligand)

GO - Molecular functioni

Complete GO annotation...

Keywords - Ligandi

Heme, Iron, Metal-binding

Names & Taxonomyi

Protein namesi
Recommended name:
Non-symbiotic hemoglobin 1
Alternative name(s):
ORYsa GLB1a
rHb1
Gene namesi
Name:HB1
Synonyms:GLB1A
Ordered Locus Names:Os03g0233900, LOC_Os03g13140
ORF Names:OJ1175C11.5, OsJ_10047Imported
OrganismiOryza sativa subsp. japonica (Rice)
Taxonomic identifieri39947 [NCBI]
Taxonomic lineageiEukaryotaViridiplantaeStreptophytaEmbryophytaTracheophytaSpermatophytaMagnoliophytaLiliopsidaPoalesPoaceaeBOP cladeOryzoideaeOryzeaeOryzinaeOryza
Proteomesi
  • UP000059680 Componenti: Chromosome 3, cultivar: Nipponbare

Pathology & Biotechi

Mutagenesis

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Mutagenesisi47 – 471V → N: Prevents subunit association, but has little effect on ligand binding. 1 Publication
Mutagenesisi50 – 501S → A: Prevents subunit association, but has little effect on ligand binding. 1 Publication
Mutagenesisi74 – 741H → L: Increases 1000 times the dissociation constant of O(2). 1 Publication
Mutagenesisi120 – 1201E → V: Prevents subunit association, but has little effect on ligand binding. 1 Publication
Mutagenesisi121 – 1211V → N: Prevents subunit association, but has little effect on ligand binding. 1 Publication

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 166166Non-symbiotic hemoglobin 1PRO_0000193021Add
BLAST

Proteomic databases

PaxDbiO04986.

Expressioni

Tissue specificityi

Expressed in coleoptiles, embryos, leaves and roots.

Inductioni

By flooding and etiolating but not by oxidative, nitrosative or hormonal stresses.1 Publication

Gene expression databases

ExpressionAtlasiO04986. baseline and differential.
GenevisibleiO04986. OS.

Interactioni

Subunit structurei

Homodimer.

Protein-protein interaction databases

STRINGi39947.LOC_Os03g13140.1.

Structurei

Secondary structure

1
166
Legend: HelixTurnBeta strand
Show more details
Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Beta strandi7 – 93Combined sources
Helixi16 – 2914Combined sources
Helixi30 – 323Combined sources
Helixi33 – 4715Combined sources
Helixi49 – 535Combined sources
Turni58 – 603Combined sources
Helixi65 – 673Combined sources
Helixi69 – 9224Combined sources
Helixi99 – 11113Combined sources
Helixi116 – 13318Combined sources
Turni136 – 1383Combined sources
Helixi141 – 16020Combined sources

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
1D8UX-ray2.35A/B1-166[»]
2GNVX-ray2.30A/B2-166[»]
2GNWX-ray2.40A/B2-166[»]
ProteinModelPortaliO04986.
SMRiO04986. Positions 2-166.
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiO04986.

Family & Domainsi

Sequence similaritiesi

Belongs to the plant globin family.Curated

Phylogenomic databases

eggNOGiKOG3378. Eukaryota.
COG1018. LUCA.
HOGENOMiHOG000233101.
InParanoidiO04986.
OMAiNSNFASH.

Family and domain databases

Gene3Di1.10.490.10. 1 hit.
InterProiIPR000971. Globin.
IPR009050. Globin-like.
IPR012292. Globin/Proto.
IPR001032. Leghaemoglobin.
IPR019824. Leghaemoglobin_Fe_BS.
[Graphical view]
PfamiPF00042. Globin. 1 hit.
[Graphical view]
PRINTSiPR00188. PLANTGLOBIN.
SUPFAMiSSF46458. SSF46458. 1 hit.
PROSITEiPS01033. GLOBIN. 1 hit.
PS00208. PLANT_GLOBIN. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

O04986-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MALVEDNNAV AVSFSEEQEA LVLKSWAILK KDSANIALRF FLKIFEVAPS
60 70 80 90 100
ASQMFSFLRN SDVPLEKNPK LKTHAMSVFV MTCEAAAQLR KAGKVTVRDT
110 120 130 140 150
TLKRLGATHL KYGVGDAHFE VVKFALLDTI KEEVPADMWS PAMKSAWSEA
160
YDHLVAAIKQ EMKPAE
Length:166
Mass (Da):18,444
Last modified:July 1, 1997 - v1
Checksum:iC1FE2CA4701682EF
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
U76030 mRNA. Translation: AAC49883.1.
U76029 Genomic DNA. Translation: AAC49882.1.
AF335504 Genomic DNA. Translation: AAK72229.1.
AC103891 Genomic DNA. Translation: AAM19125.1.
DP000009 Genomic DNA. Translation: ABF94821.1.
AP008209 Genomic DNA. Translation: BAF11390.1.
AP014959 Genomic DNA. Translation: BAS83133.1.
CM000140 Genomic DNA. Translation: EAZ26180.1.
AK064054 mRNA. Translation: BAG88986.1.
PIRiT04163.
RefSeqiXP_015629794.1. XM_015774308.1.
UniGeneiOs.80096.

Genome annotation databases

EnsemblPlantsiOS03T0233900-01; OS03T0233900-01; OS03G0233900.
GeneIDi4332166.
GrameneiOS03T0233900-01; OS03T0233900-01; OS03G0233900.
KEGGiosa:4332166.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
U76030 mRNA. Translation: AAC49883.1.
U76029 Genomic DNA. Translation: AAC49882.1.
AF335504 Genomic DNA. Translation: AAK72229.1.
AC103891 Genomic DNA. Translation: AAM19125.1.
DP000009 Genomic DNA. Translation: ABF94821.1.
AP008209 Genomic DNA. Translation: BAF11390.1.
AP014959 Genomic DNA. Translation: BAS83133.1.
CM000140 Genomic DNA. Translation: EAZ26180.1.
AK064054 mRNA. Translation: BAG88986.1.
PIRiT04163.
RefSeqiXP_015629794.1. XM_015774308.1.
UniGeneiOs.80096.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
1D8UX-ray2.35A/B1-166[»]
2GNVX-ray2.30A/B2-166[»]
2GNWX-ray2.40A/B2-166[»]
ProteinModelPortaliO04986.
SMRiO04986. Positions 2-166.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi39947.LOC_Os03g13140.1.

Proteomic databases

PaxDbiO04986.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblPlantsiOS03T0233900-01; OS03T0233900-01; OS03G0233900.
GeneIDi4332166.
GrameneiOS03T0233900-01; OS03T0233900-01; OS03G0233900.
KEGGiosa:4332166.

Phylogenomic databases

eggNOGiKOG3378. Eukaryota.
COG1018. LUCA.
HOGENOMiHOG000233101.
InParanoidiO04986.
OMAiNSNFASH.

Miscellaneous databases

EvolutionaryTraceiO04986.

Gene expression databases

ExpressionAtlasiO04986. baseline and differential.
GenevisibleiO04986. OS.

Family and domain databases

Gene3Di1.10.490.10. 1 hit.
InterProiIPR000971. Globin.
IPR009050. Globin-like.
IPR012292. Globin/Proto.
IPR001032. Leghaemoglobin.
IPR019824. Leghaemoglobin_Fe_BS.
[Graphical view]
PfamiPF00042. Globin. 1 hit.
[Graphical view]
PRINTSiPR00188. PLANTGLOBIN.
SUPFAMiSSF46458. SSF46458. 1 hit.
PROSITEiPS01033. GLOBIN. 1 hit.
PS00208. PLANT_GLOBIN. 1 hit.
[Graphical view]
ProtoNetiSearch...

Publicationsi

« Hide 'large scale' publications
  1. "Rice hemoglobins. Gene cloning, analysis, and O2-binding kinetics of a recombinant protein synthesized in Escherichia coli."
    Arredondo-Peter R., Hargrove M.S., Sarath G., Moran J.F., Lohrman J., Olson J.S., Klucas R.V.
    Plant Physiol. 115:1259-1266(1997) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA / MRNA], CHARACTERIZATION, MUTAGENESIS OF HIS-74.
    Strain: cv. Jackson.
  2. "Mapping and analysis of a hemoglobin gene family from rice (Oryza sativa)."
    Lira-Ruan V., Ross E.J.H., Sarath G., Klucas R.V., Arredondo-Peter R.
    Plant Physiol. Biochem. 40:199-202(2002)
    Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].
    Strain: cv. Nipponbare.
  3. "Sequence, annotation, and analysis of synteny between rice chromosome 3 and diverged grass species."
    The rice chromosome 3 sequencing consortium
    Buell C.R., Yuan Q., Ouyang S., Liu J., Zhu W., Wang A., Maiti R., Haas B., Wortman J., Pertea M., Jones K.M., Kim M., Overton L., Tsitrin T., Fadrosh D., Bera J., Weaver B., Jin S.
    , Johri S., Reardon M., Webb K., Hill J., Moffat K., Tallon L., Van Aken S., Lewis M., Utterback T., Feldblyum T., Zismann V., Iobst S., Hsiao J., de Vazeille A.R., Salzberg S.L., White O., Fraser C.M., Yu Y., Kim H., Rambo T., Currie J., Collura K., Kernodle-Thompson S., Wei F., Kudrna K., Ammiraju J.S.S., Luo M., Goicoechea J.L., Wing R.A., Henry D., Oates R., Palmer M., Pries G., Saski C., Simmons J., Soderlund C., Nelson W., de la Bastide M., Spiegel L., Nascimento L., Huang E., Preston R., Zutavern T., Palmer L., O'Shaughnessy A., Dike S., McCombie W.R., Minx P., Cordum H., Wilson R., Jin W., Lee H.R., Jiang J., Jackson S.
    Genome Res. 15:1284-1291(2005) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: cv. Nipponbare.
  4. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: cv. Nipponbare.
  5. "The rice annotation project database (RAP-DB): 2008 update."
    The rice annotation project (RAP)
    Nucleic Acids Res. 36:D1028-D1033(2008) [PubMed] [Europe PMC] [Abstract]
    Cited for: GENOME REANNOTATION.
    Strain: cv. Nipponbare.
  6. Cited for: GENOME REANNOTATION.
    Strain: cv. Nipponbare.
  7. "The genomes of Oryza sativa: a history of duplications."
    Yu J., Wang J., Lin W., Li S., Li H., Zhou J., Ni P., Dong W., Hu S., Zeng C., Zhang J., Zhang Y., Li R., Xu Z., Li S., Li X., Zheng H., Cong L.
    , Lin L., Yin J., Geng J., Li G., Shi J., Liu J., Lv H., Li J., Wang J., Deng Y., Ran L., Shi X., Wang X., Wu Q., Li C., Ren X., Wang J., Wang X., Li D., Liu D., Zhang X., Ji Z., Zhao W., Sun Y., Zhang Z., Bao J., Han Y., Dong L., Ji J., Chen P., Wu S., Liu J., Xiao Y., Bu D., Tan J., Yang L., Ye C., Zhang J., Xu J., Zhou Y., Yu Y., Zhang B., Zhuang S., Wei H., Liu B., Lei M., Yu H., Li Y., Xu H., Wei S., He X., Fang L., Zhang Z., Zhang Y., Huang X., Su Z., Tong W., Li J., Tong Z., Li S., Ye J., Wang L., Fang L., Lei T., Chen C.-S., Chen H.-C., Xu Z., Li H., Huang H., Zhang F., Xu H., Li N., Zhao C., Li S., Dong L., Huang Y., Li L., Xi Y., Qi Q., Li W., Zhang B., Hu W., Zhang Y., Tian X., Jiao Y., Liang X., Jin J., Gao L., Zheng W., Hao B., Liu S.-M., Wang W., Yuan L., Cao M., McDermott J., Samudrala R., Wang J., Wong G.K.-S., Yang H.
    PLoS Biol. 3:266-281(2005) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: cv. Nipponbare.
  8. "Collection, mapping, and annotation of over 28,000 cDNA clones from japonica rice."
    The rice full-length cDNA consortium
    Science 301:376-379(2003) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA].
    Strain: cv. Nipponbare.
  9. "Quaternary structure of rice nonsymbiotic hemoglobin."
    Goodman M.D., Hargrove M.S.
    J. Biol. Chem. 276:6834-6839(2001) [PubMed] [Europe PMC] [Abstract]
    Cited for: CHARACTERIZATION, MUTAGENESIS OF VAL-47; SER-50; GLU-120 AND VAL-121.
  10. "Synthesis of hemoglobins in rice (Oryza sativa var. Jackson) plants growing in normal and stress conditions."
    Lira-Ruan V., Sarath G., Klucas R.V., Arredondo-Peter R.
    Plant Sci. 161:279-287(2001) [PubMed] [Europe PMC] [Abstract]
    Cited for: INDUCTION.
    Strain: cv. Jackson.
  11. Cited for: X-RAY CRYSTALLOGRAPHY (2.35 ANGSTROMS).

Entry informationi

Entry nameiHBL1_ORYSJ
AccessioniPrimary (citable) accession number: O04986
Secondary accession number(s): Q10PH5, Q7G715
Entry historyi
Integrated into UniProtKB/Swiss-Prot: November 16, 2001
Last sequence update: July 1, 1997
Last modified: May 11, 2016
This is version 112 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programPlant Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

3D-structure, Complete proteome, Reference proteome

Documents

  1. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references
  2. Oryza sativa (rice)
    Index of Oryza sativa entries and their corresponding gene designations
  3. SIMILARITY comments
    Index of protein domains and families

Similar proteinsi

Links to similar proteins from the UniProt Reference Clusters (UniRef) at 100%, 90% and 50% sequence identity:
100%UniRef100 combines identical sequences and sub-fragments with 11 or more residues from any organism into one UniRef entry.
90%UniRef90 is built by clustering UniRef100 sequences that have at least 90% sequence identity to, and 80% overlap with, the longest sequence (a.k.a seed sequence).
50%UniRef50 is built by clustering UniRef90 seed sequences that have at least 50% sequence identity to, and 80% overlap with, the longest sequence in the cluster.