Structure of PDB 6sdr Chain A

Receptor sequence

>6sdrA (length=963) Species: 882 (Nitratidesulfovibrio vulgaris str. Hildenborough)

ELQKLQWAKQTTSICCYCAVGCGLIVHTAKDGQGRAVNVEGDPDHPINEG
SLCPKGASIFQLGENDQRGTQPLYRAPFSDTWKPVTWDFALTEIAKRIKK
TRDASFTEKNAAGDLVNRTEAIASFGSAAMDNEECWAYGNILRSLGLVYI
EHQARICHSPTVPALAESFGRGAMTNHWNDLANSDCILIMGSNAAENHPI
AFKWVLRAKDKGATLIHVDPRFTRTSARCDVYAPIRSGADIPFLGGLIKY
ILDNKLYFTDYVREYTNASLIVGEKFSFKDGLFSGYDAANKKYDKSMWAF
ELDANGVPKRDPALKHPRCVINLLKKHYERYNLDKVAAITGTSKEQLQQV
YKAYAATGKPDKAGTIMYAMGWTQHSVGVQNIRAMAMIQLLLGNIGVAGG
GVNALRGESNVQGSTDQGLLAHIWPGYNPVPNSKAATLELYNAATPQSKD
PMSVNWWQNRPKYVASYLKALYPDEEPAAAYDYLPRIDAGRKLTDYFWLN
IFEKMDKGEFKGLFAWGMNPACGGANANKNRKAMGKLEWLVNVNLFENET
SSFWKGPGMNPAEIGTEVFFLPCCVSIEKEGSVANSGRWMQWRYRGPKPY
AETKPDGDIMLDMFKKVRELYAKEGGAYPAPIAKLNIADWEEHNEFSPTK
VAKLMNGYFLKDTEVGGKQFKKGQQVPSFAFLTADGSTCSGNWLHAGSFT
DAGNLMARRDKTQTPEQARIGLFPNWSFCWPVNRRILYNRASVDKTGKPW
NPAKAVIEWKDGKWVGDVVDGGGDPGTKHPFIMQTHGFGALYGPGREEGP
FPEHYEPLECPVSKNPFSKQLHNPVAKAVCDPRYPFIGTTYRVTEHWQTG
LMTRRCAWLVEAEPQIFCEISKELAKLRGIGNGDTVKVSSLRGALEAVAI
VTERIRPFKIEGVDVHMVGLPWHYGWMVPKNGGDTANLLTPSAGDPNTGI
PETKAFMVDVRKV

3D structure

• PDB: 6sdr Towards the mechanistic understanding of enzymatic CO2 reduction
• Chain: A
• Resolution: 2.1 Å

Enzymatic activity

• Catalytic site (original residue number in PDB): K90 C192 H193 M405 G442 E443
• Catalytic site (residue number reindexed from 1): K55 C157 H158 M370 G407 E408
• Enzyme Commision number: 1.2.1.2: Transferred entry: 1.17.1.9.

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	MGD	A	K90 U192 S227 N228 N232 D254 P255 R256 D275 A404 M405 G406 W407 G442 Y883 R884 V885 T886 H888 W889 Q890 H965 K996	K55 U157 S192 N193 N197 D219 P220 R221 D240 A369 M370 G371 W372 G407 Y841 R842 V843 T844 H846 W847 Q848 H923 K954
BS02	MGD	A	A164 Q188 U192 M405 G552 M553 N554 G558 N579 L580 C608 D641 T882 R884 Q890 T891 L893 M894 W964 N979 T995	A129 Q153 U157 M370 G517 M518 N519 G523 N544 L545 C573 D606 T840 R842 Q848 T849 L851 M852 W922 N937 T953
BS03	SF4	A	C50 Y52 C53 V55 C57 C88 K90 P234 I235	C15 Y17 C18 V20 C22 C53 K55 P199 I200

Gene Ontology

Molecular Function

• GO:0005515 protein binding
• GO:0008863 formate dehydrogenase (NAD+) activity
• GO:0009055 electron transfer activity
• GO:0016491 oxidoreductase activity
• GO:0030151 molybdenum ion binding
• GO:0043546 molybdopterin cofactor binding
• GO:0046872 metal ion binding
• GO:0047111 formate dehydrogenase (cytochrome-c-553) activity
• GO:0051539 4 iron, 4 sulfur cluster binding

Biological Process

• GO:0009061 anaerobic respiration
• GO:0045333 cellular respiration

Cellular Component

• GO:0042597 periplasmic space

External links

• PDB: RCSB:6sdr, PDBe:6sdr, PDBj:6sdr
• PDBsum: 6sdr
• UniProt: Q72EJ1