Structure of PDB 6vjr Chain B

Receptor sequence

>6vjrB (length=501) Species: 436308 (Nitrosopumilus maritimus SCM1)

TIRSGDDYIESLRGRDLKVYLFGELVKEPVDHPMIRPSINAVAETYDLAL
REEALASADSSITGLKVNRFLHIAESAEDLVLQNKMQRKLGQNTGTCFQR
CVGMDAMNSLHSTTFEIDEKHGTDYHKRFLEFVKMVQQENLVIGGAMTDP
KGDRSKGPSEQDDPDLFTRIVDTDEKGVYVSGAKAHQTGCINSHWIILMP
TIRLTESDKDWAIVGAIPADAKGVTYIYGRQSCDTRSMEEGDIDDGNAKF
GGQEALIILDRVFIPWDKVFMHGEYEFASMLVERFTCYHRRSYVCKTGLG
DVLIGAAATIADYNGVPKVSHIKDKIIEMTHLNETIFAAGIASSHQGQKM
KSGVYLNDDMLAQVCKHNVTRFPYEISRLAQDIAGGLVVTLPSEKDFRHP
EAGPLLKKYLAGRKGVDVENRMRILRLIENMTLGRNAVGYLTESMHGAGS
PQAQRIQIQRQMQVGYKKNLAKNLAGITNDVEEPKESSEYFKRVFKTKDS
V

3D structure

• PDB: 6vjr Structural adaptation of oxygen tolerance in a key archaeal carbon fixation enzyme
• Chain: B
• Resolution: 1.55 Å

Enzymatic activity

• Enzyme Commision number: 5.3.3.3: vinylacetyl-CoA Delta-isomerase.

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	SF4	B	C103 F104 C107 H295 Y299 C301 K302 E449	C97 F98 C101 H289 Y293 C295 K296 E443
BS02	FAD	B	M153 T154 K157 R160 H192 Q193 T194 E449 H452 S456	M147 T148 K151 R154 H186 Q187 T188 E443 H446 S450
BS03	FE	B	H295 Y299 E449	H289 Y293 E443
BS04	FAD	B	H327 D388 I389 G391 G392	H321 D382 I383 G385 G386

Gene Ontology

Molecular Function

• GO:0000166 nucleotide binding
• GO:0016491 oxidoreductase activity
• GO:0016627 oxidoreductase activity, acting on the CH-CH group of donors
• GO:0016853 isomerase activity
• GO:0046872 metal ion binding
• GO:0050393 vinylacetyl-CoA delta-isomerase activity
• GO:0051539 4 iron, 4 sulfur cluster binding

External links

• PDB: RCSB:6vjr, PDBe:6vjr, PDBj:6vjr
• PDBsum: 6vjr
• UniProt: A9A1Y2