Structure of PDB 4yry Chain D

Receptor sequence

>4yryD (length=468) Species: 2336 (Thermotoga maritima)

MKNRKTPMKEQSPESRRRNFEEVALGYTLEEALEEAQRCLQCPTHPCVSG
CPVEIDIPGFIRKLRDGKLEESYRILKSYNNLPAVCGRVCPQEVQCESRC
VVGKMKDSEPVAIGRLERFVADWAAENLEEDVKPLAGSKKEKVAVVGSGP
AGLTAAADLAKMGYHVDIFEAFHKPGGVLVYGIPEFRLPKRIVEREVSYI
RKLGVNFHLNTVVGKTVKVKELLSEYDAVFIGTGAGTPKFMGIPGTNLNG
VYSANEFLTRVNLMKAYLFPEYDTPIRVGKKVAVIGAGNTAMDAARSALR
LGAEKVYIVYRRTEREMPARREEYHHALEEGIEFLWLTLPIRYIGDANGN
VEAMECVRMELKEADGSGRPRPVPIEGSNFVLEVDMVIEAIGQGPNRVLL
SEFPGLELNERGYIKADEDTGATSVKGVFAGGDIVTGAATVIKAMGAGKK
AAQFIHSYLTGEWNPWQK

3D structure

• PDB: 4yry Insights into Flavin-based Electron Bifurcation via the NADH-dependent Reduced Ferredoxin:NADP Oxidoreductase Structure.
• Chain: D
• Resolution: 2.4 Å

Enzymatic activity

• Catalytic site (original residue number in PDB): R118 L179 F186 V261 Y272 D273 D293 I442 G446
• Catalytic site (residue number reindexed from 1): R118 L179 F186 V261 Y272 D273 D293 I442 G446

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	D	C39 L40 C42 C47 C100 V101 V111	C39 L40 C42 C47 C100 V101 V111
BS02	SF4	D	C51 C90 Q92 Q95 C96 I113 E117 I442	C51 C90 Q92 Q95 C96 I113 E117 I442
BS03	FAD	D	V89 G147 G149 P150 A151 F169 E170 A171 V178 G182 I183 R187 V213 T233 G234 N289 T290 D293 G432 D433 A439 T440 V441	V89 G147 G149 P150 A151 F169 E170 A171 V178 G182 I183 R187 V213 T233 G234 N289 T290 D293 G432 D433 A439 T440 V441
BS04	NAD	D	K239 G288 N289 T290 R311 R371 P372 I391 G392	K239 G288 N289 T290 R311 R371 P372 I391 G392

Gene Ontology

Molecular Function

• GO:0000166 nucleotide binding
• GO:0016491 oxidoreductase activity
• GO:0046872 metal ion binding
• GO:0051536 iron-sulfur cluster binding
• GO:0051539 4 iron, 4 sulfur cluster binding

External links

• PDB: RCSB:4yry, PDBe:4yry, PDBj:4yry
• PDBsum: 4yry
• PubMed: 26139605
• UniProt: Q9X1X5