Structure of PDB 7tom Chain A

Receptor sequence

>7tomA (length=498) Species: 2190 (Methanocaldococcus jannaschii)

GSHMEKKTLSLCPICLKRIPATILEEDGKIIIKKTCPEHGEFKDIYWGDA
ELYKKFDKYEFIGKIEVTNTKVKNGCPYDCGLCPNHKSTTILANIDVTNR
CNLNCPICFANANKSGKVYEPSFEDIKRMMENLRKEIPPTPAIQFAGGEP
TVRSDLPELIKLARDMGFLHVQLATNGIKLKNINYLKKLKEAGLSTIYLQ
FDGISEKPYLVARGKNLLPIKQKVIENCKKVGFDSVVLVPTLVRGVNDNE
VGGIIRYAAENVDVVRGINFQPVSFTGRVDEKTLLEGRITIPDFIKLVEE
QTDGEITEEDFYPVPSVAPISVLVEKLTNDRKPTLSSHQHCGTSTYVFVD
EDGKLIPITRFIDVEGFLEIVKEKIEEIDVKVLGEIALKLPSLIDLDKAP
KSVNIKKIIDLILSVLKSDYSALAELHYHMLMISCMHFMDAYNFDVKRVM
RCCIHYATPDDRIIPFCTYNTLHRQEVEEKFSIPLEEWKRMHKIGGED

3D structure

• PDB: 7tom Discovery, structure and mechanism of a tetraether lipid synthase.
• Chain: A
• Resolution: 1.85 Å

Enzymatic activity

• Enzyme Commision number: 2.1.1.-

Interaction with ligand

Site #	Ligand	Ligand chain	Binding residues on receptor (original residue number in PDB)	Binding residues on receptor (residue number reindexed from 1)	Binding affinity
BS01	FE	A	C9 C12 C33 H36	C12 C15 C36 H39
BS02	SF4	A	C98 C102 C105 A109 G145 N173 Q197	C101 C105 C108 A112 G148 N176 Q200
BS03	SF4	A	C73 P74 D76 C77 C80 H83	C76 P77 D79 C80 C83 H86
BS04	SF4	A	C338 F441 R451 C455 F469 C470	C341 F438 R448 C452 F466 C467
BS05	MET	A	F106 G144 G145 E146 T172 N173 Q197	F109 G147 G148 E149 T175 N176 Q200

Gene Ontology

Molecular Function

• GO:0003824 catalytic activity
• GO:0008168 methyltransferase activity
• GO:0046872 metal ion binding
• GO:0051536 iron-sulfur cluster binding
• GO:0051539 4 iron, 4 sulfur cluster binding

Biological Process

• GO:0032259 methylation

External links

• PDB: RCSB:7tom, PDBe:7tom, PDBj:7tom
• PDBsum: 7tom
• PubMed: 35882349
• UniProt: Q58036|HMPTM_METJA 7,8-dihydro-6-hydroxymethylpterin dimethyltransferase (Gene Name=MJ0619)