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Protein

Hexaprenyl-diphosphate synthase large subunit ((2E,6E)-farnesyl-diphosphate specific)

Gene

hexs-b

Organism
Micrococcus luteus (Micrococcus lysodeikticus)
Status
Reviewed-Annotation score: Annotation score: 4 out of 5-Experimental evidence at protein leveli

Functioni

Catalyzes the condensation of three molecules of isopentenyl diphosphate with farnesyl diphosphate (FPP) to yield (all-E)-hexaprenyl diphosphate (HexPP; C30), the precursor of the prenyl side chain of menaquinone-6. Large subunit Hexs-B catalyzes the condensation reaction and the final product chain length is cooperatively regulated by both the Hexs-A and Hexs-B subunits using the whole size of the hydrophobic cleft as a ruler.3 Publications

Catalytic activityi

(2E,6E)-farnesyl diphosphate + 3 isopentenyl diphosphate = 3 diphosphate + all-trans-hexaprenyl diphosphate.1 Publication

Cofactori

Mg2+By similarityNote: Binds 3 Mg2+ ions per subunit.By similarity

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Binding sitei45 – 451Isopentenyl diphosphateBy similarity
Binding sitei48 – 481Isopentenyl diphosphateBy similarity
Binding sitei77 – 771Isopentenyl diphosphateBy similarity
Metal bindingi84 – 841Magnesium 1
Metal bindingi84 – 841Magnesium 2
Binding sitei84 – 841Hexaprenyl diphosphate
Metal bindingi88 – 881Magnesium 1
Metal bindingi88 – 881Magnesium 2
Binding sitei88 – 881Hexaprenyl diphosphate
Binding sitei93 – 931Hexaprenyl diphosphateBy similarity
Binding sitei94 – 941Isopentenyl diphosphateBy similarity
Binding sitei170 – 1701Hexaprenyl diphosphate
Binding sitei171 – 1711Hexaprenyl diphosphateBy similarity
Binding sitei208 – 2081Hexaprenyl diphosphateBy similarity
Metal bindingi211 – 2111Magnesium 3

GO - Molecular functioni

GO - Biological processi

Complete GO annotation...

Keywords - Molecular functioni

Transferase

Keywords - Biological processi

Menaquinone biosynthesis

Keywords - Ligandi

Magnesium, Metal-binding

Enzyme and pathway databases

BioCyciMetaCyc:MONOMER-13829.
BRENDAi2.5.1.83. 3348.

Names & Taxonomyi

Protein namesi
Recommended name:
Hexaprenyl-diphosphate synthase large subunit ((2E,6E)-farnesyl-diphosphate specific) (EC:2.5.1.83)
Short name:
HexPS
Alternative name(s):
Hexaprenyl diphosphate synthase
Hexaprenyl pyrophosphate synthetase
Gene namesi
Name:hexs-b
OrganismiMicrococcus luteus (Micrococcus lysodeikticus)
Taxonomic identifieri1270 [NCBI]
Taxonomic lineageiBacteriaActinobacteriaMicrococcalesMicrococcaceaeMicrococcus

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 325325Hexaprenyl-diphosphate synthase large subunit ((2E,6E)-farnesyl-diphosphate specific)PRO_0000419164Add
BLAST

Interactioni

Subunit structurei

Dimer of heterodimer or heterotetramer composed of a small (Hexs-a) and large (Hexs-B) subunit.1 Publication

Structurei

Secondary structure

1
325
Legend: HelixTurnBeta strand
Show more details
Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Helixi6 – 2520Combined sources
Helixi30 – 4112Combined sources
Helixi47 – 5610Combined sources
Beta strandi58 – 603Combined sources
Helixi64 – 8825Combined sources
Helixi99 – 1024Combined sources
Helixi105 – 12218Combined sources
Turni123 – 1253Combined sources
Helixi129 – 15123Combined sources
Turni152 – 1543Combined sources
Helixi160 – 17011Combined sources
Helixi172 – 18413Combined sources
Turni185 – 1873Combined sources
Helixi190 – 21728Combined sources
Helixi220 – 2234Combined sources
Helixi229 – 2324Combined sources
Helixi238 – 24912Combined sources
Helixi254 – 2607Combined sources
Helixi268 – 28114Combined sources
Helixi283 – 30220Combined sources
Helixi308 – 32013Combined sources
Turni321 – 3244Combined sources

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
3AQBX-ray2.40B/D1-325[»]
3AQCX-ray2.61B/D1-325[»]
ProteinModelPortaliO66129.
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiO66129.

Family & Domainsi

Sequence similaritiesi

Belongs to the FPP/GGPP synthase family.Curated

Family and domain databases

Gene3Di1.10.600.10. 1 hit.
InterProiIPR008949. Isoprenoid_synthase_dom.
IPR000092. Polyprenyl_synt.
IPR017446. Polyprenyl_synth-rel.
[Graphical view]
PANTHERiPTHR12001. PTHR12001. 1 hit.
PfamiPF00348. polyprenyl_synt. 1 hit.
[Graphical view]
SUPFAMiSSF48576. SSF48576. 1 hit.
PROSITEiPS00723. POLYPRENYL_SYNTHASE_1. 1 hit.
PS00444. POLYPRENYL_SYNTHASE_2. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

O66129-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MIALSYKAFL NPYIIEVEKR LYECIQSDSE TINKAAHHIL SSGGKRVRPM
60 70 80 90 100
FVLLSGFLND TQKDDLIRTA VSLELVHMAS LVHDDYIDNS DMRRGNTSVH
110 120 130 140 150
IAFDKDTAIR TGHFLLARAL QNIATINNSK FHQIFSKTIL EVCFGEFDQM
160 170 180 190 200
ADRFNYPVSF TAYLRRINRK TAILIEASCH LGALSSQLDE QSTYHIKQFG
210 220 230 240 250
HCIGMSYQII DDILDYTSDE ATLGKPVGSD IRNGHITYPL MAAIANLKEQ
260 270 280 290 300
DDDKLEAVVK HLTSTSDDEV YQYIVSQVKQ YGIEPAELLS RKYGDKAKYH
310 320
LSQLQDSNIK DYLEEIHEKM LKRVY
Length:325
Mass (Da):37,083
Last modified:August 1, 1998 - v1
Checksum:iE73A7D6B94DA33F3
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AB003188 Genomic DNA. Translation: BAA25268.1.

Genome annotation databases

KEGGiag:BAA25268.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AB003188 Genomic DNA. Translation: BAA25268.1.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
3AQBX-ray2.40B/D1-325[»]
3AQCX-ray2.61B/D1-325[»]
ProteinModelPortaliO66129.
ModBaseiSearch...
MobiDBiSearch...

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

KEGGiag:BAA25268.

Enzyme and pathway databases

BioCyciMetaCyc:MONOMER-13829.
BRENDAi2.5.1.83. 3348.

Miscellaneous databases

EvolutionaryTraceiO66129.

Family and domain databases

Gene3Di1.10.600.10. 1 hit.
InterProiIPR008949. Isoprenoid_synthase_dom.
IPR000092. Polyprenyl_synt.
IPR017446. Polyprenyl_synth-rel.
[Graphical view]
PANTHERiPTHR12001. PTHR12001. 1 hit.
PfamiPF00348. polyprenyl_synt. 1 hit.
[Graphical view]
SUPFAMiSSF48576. SSF48576. 1 hit.
PROSITEiPS00723. POLYPRENYL_SYNTHASE_1. 1 hit.
PS00444. POLYPRENYL_SYNTHASE_2. 1 hit.
[Graphical view]
ProtoNetiSearch...

Entry informationi

Entry nameiHEXB_MICLU
AccessioniPrimary (citable) accession number: O66129
Entry historyi
Integrated into UniProtKB/Swiss-Prot: October 3, 2012
Last sequence update: August 1, 1998
Last modified: March 16, 2016
This is version 67 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

Documents

  1. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references
  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.