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Protein

3-methyl-2-oxobutanoate hydroxymethyltransferase 2

Gene

panB2

Organism
Bradyrhizobium diazoefficiens (strain JCM 10833 / IAM 13628 / NBRC 14792 / USDA 110)
Status
Reviewed-Annotation score: Annotation score: 3 out of 5-Protein inferred from homologyi

Functioni

Catalyzes the reversible reaction in which hydroxymethyl group from 5,10-methylenetetrahydrofolate is tranferred onto alpha-ketoisovalerate to form ketopantoate.UniRule annotation

Catalytic activityi

5,10-methylenetetrahydrofolate + 3-methyl-2-oxobutanoate + H2O = tetrahydrofolate + 2-dehydropantoate.UniRule annotation

Cofactori

Mg2+UniRule annotationNote: Binds 1 Mg2+ ion per subunit.UniRule annotation

Pathwayi: (R)-pantothenate biosynthesis

This protein is involved in step 1 of the subpathway that synthesizes (R)-pantoate from 3-methyl-2-oxobutanoate.UniRule annotation
Proteins known to be involved in the 2 steps of the subpathway in this organism are:
  1. 3-methyl-2-oxobutanoate hydroxymethyltransferase 1 (panB1), 3-methyl-2-oxobutanoate hydroxymethyltransferase 2 (panB2), 3-methyl-2-oxobutanoate hydroxymethyltransferase 3 (panB3)
  2. 2-dehydropantoate 2-reductase (bll6396), 2-dehydropantoate 2-reductase (blr0589), 2-dehydropantoate 2-reductase (bll4604), 2-dehydropantoate 2-reductase (bll0134)
This subpathway is part of the pathway (R)-pantothenate biosynthesis, which is itself part of Cofactor biosynthesis.
View all proteins of this organism that are known to be involved in the subpathway that synthesizes (R)-pantoate from 3-methyl-2-oxobutanoate, the pathway (R)-pantothenate biosynthesis and in Cofactor biosynthesis.

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Metal bindingi52 – 521MagnesiumUniRule annotation
Metal bindingi91 – 911MagnesiumUniRule annotation
Binding sitei91 – 911Alpha-ketoisovalerateUniRule annotation
Binding sitei120 – 1201Alpha-ketoisovalerateUniRule annotation
Metal bindingi122 – 1221MagnesiumUniRule annotation
Active sitei189 – 1891Proton acceptorUniRule annotation

GO - Molecular functioni

GO - Biological processi

Complete GO annotation...

Keywords - Molecular functioni

Transferase

Keywords - Biological processi

Pantothenate biosynthesis

Keywords - Ligandi

Magnesium, Metal-binding

Enzyme and pathway databases

BioCyciBJAP224911:GJEJ-2121-MONOMER.
UniPathwayiUPA00028; UER00003.

Names & Taxonomyi

Protein namesi
Recommended name:
3-methyl-2-oxobutanoate hydroxymethyltransferase 2UniRule annotation (EC:2.1.2.11UniRule annotation)
Alternative name(s):
Ketopantoate hydroxymethyltransferase 2UniRule annotation
Short name:
KPHMT 2UniRule annotation
Gene namesi
Name:panB2UniRule annotation
Ordered Locus Names:blr2101
ORF Names:id910
OrganismiBradyrhizobium diazoefficiens (strain JCM 10833 / IAM 13628 / NBRC 14792 / USDA 110)
Taxonomic identifieri224911 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaAlphaproteobacteriaRhizobialesBradyrhizobiaceaeBradyrhizobium
Proteomesi
  • UP000002526 Componenti: Chromosome

Subcellular locationi

  • Cytoplasm UniRule annotation

GO - Cellular componenti

Complete GO annotation...

Keywords - Cellular componenti

Cytoplasm

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 2922923-methyl-2-oxobutanoate hydroxymethyltransferase 2PRO_0000184824Add
BLAST

Interactioni

Subunit structurei

Homodecamer; pentamer of dimers.UniRule annotation

Protein-protein interaction databases

STRINGi224911.blr2101.

Structurei

3D structure databases

ProteinModelPortaliQ9AMS0.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Region

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Regioni52 – 532Alpha-ketoisovalerate bindingUniRule annotation

Sequence similaritiesi

Belongs to the PanB family.UniRule annotation

Phylogenomic databases

eggNOGiENOG4105CCG. Bacteria.
COG0413. LUCA.
HOGENOMiHOG000078427.
InParanoidiQ9AMS0.
KOiK00606.
OrthoDBiEOG63C0WN.

Family and domain databases

Gene3Di3.20.20.60. 1 hit.
HAMAPiMF_00156. PanB.
InterProiIPR003700. Pantoate_hydroxy_MeTrfase.
IPR015813. Pyrv/PenolPyrv_Kinase-like_dom.
[Graphical view]
PANTHERiPTHR20881. PTHR20881. 1 hit.
PfamiPF02548. Pantoate_transf. 1 hit.
[Graphical view]
PIRSFiPIRSF000388. Pantoate_hydroxy_MeTrfase. 1 hit.
SUPFAMiSSF51621. SSF51621. 1 hit.
TIGRFAMsiTIGR00222. panB. 1 hit.

Sequencei

Sequence statusi: Complete.

Q9AMS0-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MSHSSEQPLE RVTIPALQQW KDKGRRVVMT TAYDAVAARI ADPIVDIILV
60 70 80 90 100
GDSVGNVCLG FDNTLPVSVA MMNHHLEAVA RTRPHALLVA DMPFLSFHVG
110 120 130 140 150
SEDTIRNAGG FLQRGADAVK LEGGAKRIEM VRALVDCDIP VMGHLGLTPQ
160 170 180 190 200
SVNVMGGFKV QGRTTDTALR LLDDAHRLQE AGCFALVLEG IPAELAARAT
210 220 230 240 250
ESLTIPTIGI GAGADCSGQV LVFHDVLGLT EGHRPKFVRA YTNGFQLFQE
260 270 280 290
ALSRWAADIR KGAFPGSEEC YRLPDQLRHA VANWVPSSST SR
Length:292
Mass (Da):31,515
Last modified:March 1, 2004 - v2
Checksum:i439C07685557F503
GO

Sequence cautioni

The sequence AAG61077.1 differs from that shown. Reason: Erroneous initiation. Curated
The sequence BAC47366.1 differs from that shown. Reason: Erroneous initiation. Curated

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AF322013 Genomic DNA. Translation: AAG61077.1. Different initiation.
BA000040 Genomic DNA. Translation: BAC47366.1. Different initiation.
RefSeqiNP_768741.1. NC_004463.1.

Genome annotation databases

EnsemblBacteriaiBAC47366; BAC47366; BAC47366.
GeneIDi1055446.
KEGGibja:blr2101.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AF322013 Genomic DNA. Translation: AAG61077.1. Different initiation.
BA000040 Genomic DNA. Translation: BAC47366.1. Different initiation.
RefSeqiNP_768741.1. NC_004463.1.

3D structure databases

ProteinModelPortaliQ9AMS0.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi224911.blr2101.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiBAC47366; BAC47366; BAC47366.
GeneIDi1055446.
KEGGibja:blr2101.

Phylogenomic databases

eggNOGiENOG4105CCG. Bacteria.
COG0413. LUCA.
HOGENOMiHOG000078427.
InParanoidiQ9AMS0.
KOiK00606.
OrthoDBiEOG63C0WN.

Enzyme and pathway databases

UniPathwayiUPA00028; UER00003.
BioCyciBJAP224911:GJEJ-2121-MONOMER.

Family and domain databases

Gene3Di3.20.20.60. 1 hit.
HAMAPiMF_00156. PanB.
InterProiIPR003700. Pantoate_hydroxy_MeTrfase.
IPR015813. Pyrv/PenolPyrv_Kinase-like_dom.
[Graphical view]
PANTHERiPTHR20881. PTHR20881. 1 hit.
PfamiPF02548. Pantoate_transf. 1 hit.
[Graphical view]
PIRSFiPIRSF000388. Pantoate_hydroxy_MeTrfase. 1 hit.
SUPFAMiSSF51621. SSF51621. 1 hit.
TIGRFAMsiTIGR00222. panB. 1 hit.
ProtoNetiSearch...

Publicationsi

« Hide 'large scale' publications
  1. "Potential symbiosis-specific genes uncovered by sequencing a 410-kb DNA region of the Bradyrhizobium japonicum chromosome."
    Goettfert M., Roethlisberger S., Kuendig C., Beck C., Marty R., Hennecke H.
    J. Bacteriol. 183:1405-1412(2001) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].
    Strain: USDA 110spc4.
  2. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: JCM 10833 / IAM 13628 / NBRC 14792 / USDA 110.

Entry informationi

Entry nameiPANB2_BRADU
AccessioniPrimary (citable) accession number: Q9AMS0
Entry historyi
Integrated into UniProtKB/Swiss-Prot: April 23, 2003
Last sequence update: March 1, 2004
Last modified: November 11, 2015
This is version 80 of the entry and version 2 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. PATHWAY comments
    Index of metabolic and biosynthesis pathways
  2. 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.