Structure of PDB 6v0a Chain D

Receptor sequence

>6v0aD (length=444) Species: 398767 (Trichlorobacter lovleyi SZ)

IPDGTIDPAVWGNYPEEYQTWKDTALPTPEGKSKYKKGNDGGKVYDKLSE
YPFIALLFNGWGFGIEYNEPRGHVYMMKDQKEIDPSRLKGGGACLTCKTP
YAPQLAQKQGVTYFSQSYADAVNQIPKEHQEMGVACIDCHNNKDMGLKIS
RGFTLVKALDKMGVDQTKLTNQDKRSLVCAQCHVTYTIPKDANMKSQDVF
FPWDESKWGKISIENIIKKMRSDKSYGEWTQAVTGFKMAYIRHPEFEMYS
NQSVHWMAGVSCADCHMPYTKVGSKISDHRIMSPLKNDFKGCKQCHSESS
EWLKNQVITIQDRAASQYIRSGYALATVAKLFEMTHKQQAAGKQIDQKMY
DQAKFYYEEGFYRNLFFGAENSIGFHNPTEAMRILGDATMYAGKADGLLR
QALTKAGVDVPVKIDLELSKYTNNRGAKKLMFKPEQELKDPYGP

3D structure

• PDB: 6v0a Cytochromecnitrite reductase from the bacteriumGeobacter lovleyirepresents a new NrfA subclass.
• Chain: D
• Resolution: 2.55 Å

Enzymatic activity

• Enzyme Commision number: 1.7.2.2: nitrite reductase (cytochrome; ammonia-forming).

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	HEC	D	H332 E334	H296 E298
BS02	HEC	D	N103 P105 Q115 I118 R122 C129 C132 K133 C217 H218 Y221 H278 N407	N68 P70 Q80 I83 R87 C94 C97 K98 C182 H183 Y186 H243 N371
BS03	HEC	D	Y49 E52 W56 A170 C171 C174 H175 M180 L182 N206 R210 M302 K311 I312 S313 H315	Y14 E17 W21 A135 C136 C139 H140 M145 L147 N171 R175 M267 K275 I276 S277 H279
BS04	HEC	D	P105 R106 G107 H108 Y110 M111 D114 C132 C214 C217 H218 H301 I317 M318	P70 R71 G72 H73 Y75 M76 D79 C97 C179 C182 H183 H266 I281 M282
BS05	HEC	D	S68 K71 H218 E280 Y284 H290 C297 C300 H301 S319 Q347 N407 F411 H412	S33 K36 H183 E245 Y249 H255 C262 C265 H266 S283 Q311 N371 F375 H376
BS06	HEC	D	V289 H290 V295 D299 C300 P320 C328 C331 H332 Q342 F411	V254 H255 V260 D264 C265 P284 C292 C295 H296 Q306 F375

Gene Ontology

Molecular Function

• GO:0042279 nitrite reductase (cytochrome, ammonia-forming) activity

Cellular Component

• GO:0042597 periplasmic space

External links

• PDB: RCSB:6v0a, PDBe:6v0a, PDBj:6v0a
• PDBsum: 6v0a
• PubMed: 32518164
• UniProt: B3E641