Structure of PDB 6pfz Chain D

Receptor sequence

>6pfzD (length=536) Species: 224325 (Archaeoglobus fulgidus DSM 4304)

MNVVVIGGGAAGLKAASRIRRKDGDASITVVEAGKYVSLGRCGLPYYVGG
LVHEVDNLRETTVRDEAYFKKLKNIDVLTETVATEIDRSRKTVKIVRNGS
EDELNYDYLVIATGARPAKPPIEGIEAEGVVTLTSAEEAEKIIEMWEEGA
EKAVVIGAGFIGLESAEALKNLDMEVTVIEMMDRVAPAMLDREMAVLVEN
HLREKGVNVVTSTRVEKIVSQKVRAVIANGKEYPADVVVVATGIKPNSEL
AEKAGLKIGETGAIWVDEYMRTSDESIYAGGDCVETTCLVTGKKIIAPFG
DVANKQGRVIGENITGGRAVFPGVIRTAIFKVFDFTAASAGVNEQMAKEA
GLDYFTVIAPSPDRAHYYPQANYIRLKLIVEKGSWRVIGAQGVGMGEVAK
RIDVLSTAIQAGMTIDQLANLDLAYAPPYSPALDPVITIANVAMNKRDGL
FEGINVFEKEDIVILDVRSEEERIESEKVIHIPILELRERLDEIPRDKEI
VVVCAIGLRSFEASRILKHAGFEKVKILEGGMAFWF

3D structure

• PDB: 6pfz Structural and Kinetic Characterization of Hyperthermophilic NADH-Dependent Persulfide Reductase from Archaeoglobus fulgidus .
• Chain: D
• Resolution: 3.10004 Å

Enzymatic activity

• Catalytic site (original residue number in PDB): V37 C42 L455 F456
• Catalytic site (residue number reindexed from 1): V37 C42 L450 F451

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	FAD	D	G7 G9 E32 A33 R41 C42 A86 T116 G117 L136 I164 G286 D287 P303 F304 G305 A308	G7 G9 E32 A33 R41 C42 A83 T113 G114 L133 I161 G281 D282 P298 F299 G300 A303
BS02	COA	D	K14 S17 R18 R21 S38 G40 C42 K76 R313	K14 S17 R18 R21 S38 G40 C42 K73 R308
BS03	FAD	D	Y430 A431	Y425 A426
BS04	COA	D	A364 Y372 Y430 T443 V447 N450 G522 L523 F526	A359 Y367 Y425 T438 V442 N445 G507 L508 F511
BS05	CA	D	D306 T332	D301 T327
BS06	CA	D	D427 L428	D422 L423

Gene Ontology

Molecular Function

• GO:0000166 nucleotide binding
• GO:0016491 oxidoreductase activity
• GO:0046872 metal ion binding

External links

• PDB: RCSB:6pfz, PDBe:6pfz, PDBj:6pfz
• PDBsum: 6pfz
• PubMed: 33776585
• UniProt: O29847