Structure of PDB 2yqu Chain B

Receptor sequence

>2yquB (length=455) Species: 300852 (Thermus thermophilus HB8)

MYDLLVIGAGPGGYVAAIRAAQLGMKVGVVEKEKALGGTCLRVGCIPSKA
LLETTERIYEAKKGLLGAKVKGVELDLPALMAHKDKVVQANTQGVEFLFK
KNGIARHQGTARFLSERKVLVEETGEELEARYILIATGSAPLIPPWAQVD
YERVVTSTEALSFPEVPKRLIVVGGGVIGLELGVVWHRLGAEVIVLEYMD
RILPTMDLEVSRAAERVFKKQGLTIRTGVRVTAVVPEAKGARVELEGGEV
LEADRVLVAVGRRPYTEGLSLENAGLSTDERGRIPVDEHLRTRVPHIYAI
GDVVRGPMLAHKASEEGIAAVEHMVRGFGHVDYQAIPSVVYTHPEIAAVG
YTEEELKAQGIPYKVGKFPYSASGRARAMGETEGFIKVLAHAKTDRILGV
HGIGARVGDVLAEAALALFFKASAEDLGRAPHAHPSLSEILKEAALAAWE
RPIHL

3D structure

• PDB: 2yqu Crystal structures and evolutionary relationship of two different lipoamide dehydrogenase(E3s) from Thermus thermophilus
• Chain: B
• Resolution: 1.7 Å

Enzymatic activity

• Catalytic site (original residue number in PDB): P11 L36 C40 C45 S48 G72 V73 V177 E181 S314 H432 H434 E439
• Catalytic site (residue number reindexed from 1): P11 L36 C40 C45 S48 G72 V73 V177 E181 S314 H432 H434 E439
• Enzyme Commision number: 1.8.1.4: dihydrolipoyl dehydrogenase.

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	CO3	B	S423 D426	S423 D426
BS02	CO3	B	A310 S314	A310 S314
BS03	FAD	B	G8 G10 P11 G12 E31 K32 G38 T39 C40 R42 G44 C45 K49 T110 A111 T137 G138 I178 Y265 G301 D302 M308 L309 A310 H311	G8 G10 P11 G12 E31 K32 G38 T39 C40 R42 G44 C45 K49 T110 A111 T137 G138 I178 Y265 G301 D302 M308 L309 A310 H311

Gene Ontology

Molecular Function

• GO:0000166 nucleotide binding
• GO:0004148 dihydrolipoyl dehydrogenase activity
• GO:0016491 oxidoreductase activity
• GO:0016668 oxidoreductase activity, acting on a sulfur group of donors, NAD(P) as acceptor
• GO:0050660 flavin adenine dinucleotide binding

External links

• PDB: RCSB:2yqu, PDBe:2yqu, PDBj:2yqu
• PDBsum: 2yqu
• UniProt: Q5SLK6