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Protein

3-hexulose-6-phosphate isomerase

Gene

hxlB

Organism
Bacillus subtilis (strain 168)
Status
Reviewed-Annotation score: Annotation score: 4 out of 5-Experimental evidence at protein leveli

Functioni

Catalyzes the isomerization between 3-hexulose 6-phosphate and fructose 6-phosphate. Together with HxlA, may act as a formaldehyde detoxification system.

Catalytic activityi

D-arabino-hex-3-ulose 6-phosphate = D-fructose 6-phosphate.

Pathwayi: formaldehyde assimilation via RuMP pathway

This protein is involved in step 2 of the subpathway that synthesizes D-fructose 6-phosphate from D-ribulose 5-phosphate and formaldehyde.
Proteins known to be involved in the 2 steps of the subpathway in this organism are:
  1. 3-hexulose-6-phosphate synthase (hxlA)
  2. 3-hexulose-6-phosphate isomerase (hxlB)
This subpathway is part of the pathway formaldehyde assimilation via RuMP pathway, which is itself part of One-carbon metabolism.
View all proteins of this organism that are known to be involved in the subpathway that synthesizes D-fructose 6-phosphate from D-ribulose 5-phosphate and formaldehyde, the pathway formaldehyde assimilation via RuMP pathway and in One-carbon metabolism.

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Binding sitei47 – 471SubstrateSequence analysis
Active sitei152 – 1521Proton acceptorCurated

GO - Molecular functioni

GO - Biological processi

Complete GO annotation...

Keywords - Molecular functioni

Isomerase

Keywords - Biological processi

Carbohydrate metabolism, Detoxification

Enzyme and pathway databases

BioCyciBSUB:BSU03450-MONOMER.
BRENDAi5.3.1.27. 658.
UniPathwayiUPA00294; UER00435.

Names & Taxonomyi

Protein namesi
Recommended name:
3-hexulose-6-phosphate isomerase (EC:5.3.1.27)
Alternative name(s):
6-phospho-3-hexuloisomerase
Short name:
PHI
Gene namesi
Name:hxlB
Synonyms:yckF
Ordered Locus Names:BSU03450
OrganismiBacillus subtilis (strain 168)
Taxonomic identifieri224308 [NCBI]
Taxonomic lineageiBacteriaFirmicutesBacilliBacillalesBacillaceaeBacillus
Proteomesi
  • UP000001570 Componenti: Chromosome

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 1851853-hexulose-6-phosphate isomerasePRO_0000136566Add
BLAST

Proteomic databases

PaxDbiP42404.

Expressioni

Inductioni

By formaldehyde, under the control of HxlR. Not induced by methanol, formate, or methylamine.

Interactioni

Subunit structurei

Homotetramer.1 Publication

Protein-protein interaction databases

STRINGi224308.Bsubs1_010100001928.

Structurei

Secondary structure

1
185
Legend: HelixTurnBeta strand
Show more details
Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Helixi3 – 1816Combined sources
Helixi23 – 3513Combined sources
Beta strandi39 – 424Combined sources
Helixi45 – 6016Combined sources
Beta strandi65 – 673Combined sources
Beta strandi81 – 855Combined sources
Beta strandi87 – 893Combined sources
Helixi92 – 10312Combined sources
Beta strandi107 – 1137Combined sources
Helixi118 – 1225Combined sources
Beta strandi124 – 1285Combined sources
Helixi133 – 1375Combined sources
Helixi149 – 16921Combined sources
Turni174 – 1763Combined sources

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
1M3SX-ray1.95A/B1-185[»]
1VIVX-ray2.60A/B2-185[»]
ProteinModelPortaliP42404.
SMRiP42404. Positions 1-184.
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiP42404.

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini29 – 172144SISPROSITE-ProRule annotationAdd
BLAST

Region

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Regioni86 – 916Substrate-bindingSequence analysis

Sequence similaritiesi

Belongs to the SIS family. PHI subfamily.Curated
Contains 1 SIS domain.PROSITE-ProRule annotation

Phylogenomic databases

eggNOGiENOG41080HJ. Bacteria.
COG0794. LUCA.
HOGENOMiHOG000251683.
InParanoidiP42404.
KOiK08094.
OMAiFAMRLRH.
OrthoDBiEOG6JTCFS.
PhylomeDBiP42404.

Family and domain databases

InterProiIPR017552. PHI/rmpB.
IPR001347. SIS.
[Graphical view]
PfamiPF01380. SIS. 1 hit.
[Graphical view]
TIGRFAMsiTIGR03127. RuMP_HxlB. 1 hit.
PROSITEiPS51464. SIS. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

P42404-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MKTTEYVAEI LNELHNSAAY ISNEEADQLA DHILSSHQIF TAGAGRSGLM
60 70 80 90 100
AKSFAMRLMH MGFNAHIVGE ILTPPLAEGD LVIIGSGSGE TKSLIHTAAK
110 120 130 140 150
AKSLHGIVAA LTINPESSIG KQADLIIRMP GSPKDQSNGS YKTIQPMGSL
160 170 180
FEQTLLLFYD AVILKLMEKK GLDSETMFTH HANLE
Length:185
Mass (Da):19,963
Last modified:November 1, 1995 - v1
Checksum:i18593390B7CDA79A
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
D30762 Genomic DNA. Translation: BAA06433.1.
D50453 Genomic DNA. Translation: BAA08979.1.
AL009126 Genomic DNA. Translation: CAB12139.1.
Z34005 Genomic DNA. No translation available.
PIRiH69760.
RefSeqiNP_388227.1. NC_000964.3.
WP_003246343.1. NZ_JNCM01000030.1.

Genome annotation databases

EnsemblBacteriaiCAB12139; CAB12139; BSU03450.
GeneIDi938313.
KEGGibsu:BSU03450.
PATRICi18972253. VBIBacSub10457_0355.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
D30762 Genomic DNA. Translation: BAA06433.1.
D50453 Genomic DNA. Translation: BAA08979.1.
AL009126 Genomic DNA. Translation: CAB12139.1.
Z34005 Genomic DNA. No translation available.
PIRiH69760.
RefSeqiNP_388227.1. NC_000964.3.
WP_003246343.1. NZ_JNCM01000030.1.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
1M3SX-ray1.95A/B1-185[»]
1VIVX-ray2.60A/B2-185[»]
ProteinModelPortaliP42404.
SMRiP42404. Positions 1-184.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi224308.Bsubs1_010100001928.

Proteomic databases

PaxDbiP42404.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiCAB12139; CAB12139; BSU03450.
GeneIDi938313.
KEGGibsu:BSU03450.
PATRICi18972253. VBIBacSub10457_0355.

Phylogenomic databases

eggNOGiENOG41080HJ. Bacteria.
COG0794. LUCA.
HOGENOMiHOG000251683.
InParanoidiP42404.
KOiK08094.
OMAiFAMRLRH.
OrthoDBiEOG6JTCFS.
PhylomeDBiP42404.

Enzyme and pathway databases

UniPathwayiUPA00294; UER00435.
BioCyciBSUB:BSU03450-MONOMER.
BRENDAi5.3.1.27. 658.

Miscellaneous databases

EvolutionaryTraceiP42404.

Family and domain databases

InterProiIPR017552. PHI/rmpB.
IPR001347. SIS.
[Graphical view]
PfamiPF01380. SIS. 1 hit.
[Graphical view]
TIGRFAMsiTIGR03127. RuMP_HxlB. 1 hit.
PROSITEiPS51464. SIS. 1 hit.
[Graphical view]
ProtoNetiSearch...

Publicationsi

« Hide 'large scale' publications
  1. "A 10 kb nucleotide sequence at the 5' flanking region (32 degrees) of srfAA of the Bacillus subtilis chromosome."
    Fujishima Y., Yamane K.
    Microbiology 141:277-279(1995) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].
    Strain: 168.
  2. "The 25 degrees-36 degrees region of the Bacillus subtilis chromosome: determination of the sequence of a 146 kb segment and identification of 113 genes."
    Yamane K., Kumano M., Kurita K.
    Microbiology 142:3047-3056(1996) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].
    Strain: 168.
  3. "The complete genome sequence of the Gram-positive bacterium Bacillus subtilis."
    Kunst F., Ogasawara N., Moszer I., Albertini A.M., Alloni G., Azevedo V., Bertero M.G., Bessieres P., Bolotin A., Borchert S., Borriss R., Boursier L., Brans A., Braun M., Brignell S.C., Bron S., Brouillet S., Bruschi C.V.
    , Caldwell B., Capuano V., Carter N.M., Choi S.-K., Codani J.-J., Connerton I.F., Cummings N.J., Daniel R.A., Denizot F., Devine K.M., Duesterhoeft A., Ehrlich S.D., Emmerson P.T., Entian K.-D., Errington J., Fabret C., Ferrari E., Foulger D., Fritz C., Fujita M., Fujita Y., Fuma S., Galizzi A., Galleron N., Ghim S.-Y., Glaser P., Goffeau A., Golightly E.J., Grandi G., Guiseppi G., Guy B.J., Haga K., Haiech J., Harwood C.R., Henaut A., Hilbert H., Holsappel S., Hosono S., Hullo M.-F., Itaya M., Jones L.-M., Joris B., Karamata D., Kasahara Y., Klaerr-Blanchard M., Klein C., Kobayashi Y., Koetter P., Koningstein G., Krogh S., Kumano M., Kurita K., Lapidus A., Lardinois S., Lauber J., Lazarevic V., Lee S.-M., Levine A., Liu H., Masuda S., Mauel C., Medigue C., Medina N., Mellado R.P., Mizuno M., Moestl D., Nakai S., Noback M., Noone D., O'Reilly M., Ogawa K., Ogiwara A., Oudega B., Park S.-H., Parro V., Pohl T.M., Portetelle D., Porwollik S., Prescott A.M., Presecan E., Pujic P., Purnelle B., Rapoport G., Rey M., Reynolds S., Rieger M., Rivolta C., Rocha E., Roche B., Rose M., Sadaie Y., Sato T., Scanlan E., Schleich S., Schroeter R., Scoffone F., Sekiguchi J., Sekowska A., Seror S.J., Serror P., Shin B.-S., Soldo B., Sorokin A., Tacconi E., Takagi T., Takahashi H., Takemaru K., Takeuchi M., Tamakoshi A., Tanaka T., Terpstra P., Tognoni A., Tosato V., Uchiyama S., Vandenbol M., Vannier F., Vassarotti A., Viari A., Wambutt R., Wedler E., Wedler H., Weitzenegger T., Winters P., Wipat A., Yamamoto H., Yamane K., Yasumoto K., Yata K., Yoshida K., Yoshikawa H.-F., Zumstein E., Yoshikawa H., Danchin A.
    Nature 390:249-256(1997) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: 168.
  4. "Identification of TlpC, a novel 62 kDa MCP-like protein from Bacillus subtilis."
    Hanlon D.W., Rosario M.M.L., Ordal G.W., Venema G., van Sinderen D.
    Microbiology 140:1847-1854(1994) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA] OF 173-185.
    Strain: 168 / OI1085.
  5. "Bacillus subtilis yckG and yckF encode two key enzymes of the ribulose monophosphate pathway used by methylotrophs, and yckH is required for their expression."
    Yasueda H., Kawahara Y., Sugimoto S.
    J. Bacteriol. 181:7154-7160(1999) [PubMed] [Europe PMC] [Abstract]
    Cited for: CHARACTERIZATION.
    Strain: 168.
  6. "Crystal structure of Bacillus subtilis YckF: structural and functional evolution."
    Sanishvili R., Wu R., Kim D.E., Watson J.D., Collart F., Joachimiak A.
    J. Struct. Biol. 148:98-109(2004) [PubMed] [Europe PMC] [Abstract]
    Cited for: X-RAY CRYSTALLOGRAPHY (1.95 ANGSTROMS), SUBUNIT.
  7. Cited for: X-RAY CRYSTALLOGRAPHY (2.6 ANGSTROMS) OF 2-185.

Entry informationi

Entry nameiPHI_BACSU
AccessioniPrimary (citable) accession number: P42404
Entry historyi
Integrated into UniProtKB/Swiss-Prot: November 1, 1995
Last sequence update: November 1, 1995
Last modified: June 8, 2016
This is version 112 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

3D-structure, Complete proteome, Reference proteome

Documents

  1. Bacillus subtilis
    Bacillus subtilis (strain 168): entries, gene names and cross-references to SubtiList
  2. PATHWAY comments
    Index of metabolic and biosynthesis pathways
  3. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references
  4. 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.