Structure of PDB 5lfa Chain A

Receptor sequence

>5lfaA (length=500) Species: 176299 (Agrobacterium fabrum str. C58)

SQLVLILGDQLSPSIAALDGVDKKQDTIVLCEVMAEASYVGHHKKKIAFI
FSAMRHFAEELRGEGYRVRYTRIDDADNAGSFTGEVKRAIDDLTPSRICV
TEPGEWRVRSEMDGFAGAFGIQVDIRSDRRFLSSHGEFRNWAAGRKSLTM
EYFYREMRRKTGLLMNGEQPVGGRWNFDRPKHPVFAPDKITKEVIDTVER
LFPDNFGKLENFGFAVTRTDAERALSAFIDDFLCNFGATQDAMLQDDPNL
NHSLLSFYINCGLLDALDVCKAAERAYHEGGAPLNAVEGFIRQIIGWREY
MRGIYWLAGPDYVDSNFFENDRSLPVFYWTGKTHMNCMAKVITETIENAY
AHHIQRLMITGNFALLAGIDPKAVHRWYLEVYADAYEWVELPNVIGMSQF
ADGGFLGTKPFAASGNYINRMSDYCDTCRYDPKERLGDNACPFNALYWDF
LARNREKLKSNHRLAQPYATWARMSEDVRHDLRAKAAAFLRKLDAAALEH

3D structure

• PDB: 5lfa Crystal Structures of Bacterial (6-4) Photolyase Mutants with Impaired DNA Repair Activity.
• Chain: A
• Resolution: 2.5 Å

Enzymatic activity

• Enzyme Commision number: 4.1.99.13: (6-4)DNA photolyase.

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	A	F249 H265 S266 L267 S269 N273 F303 Q306 I307 R311 Y363 H365 H366 R369 L370 Y391 D397 A398 V402 E403 N406	F236 H252 S253 L254 S256 N260 F290 Q293 I294 R298 Y350 H352 H353 R356 L357 Y378 D384 A385 V389 E390 N393
BS02	DLZ	A	L8 G9 D10 E33 E37 Y40 H43 I51 M55 F83 G105 E106	L7 G8 D9 E32 E36 Y39 H42 I50 M54 F82 G104 E105
BS03	SF4	A	C350 I431 C438 C441 Y443 C454 F456	C337 I418 C425 C428 Y430 C441 F443

Gene Ontology

Molecular Function

• GO:0000166 nucleotide binding
• GO:0003677 DNA binding
• GO:0003914 DNA (6-4) photolyase activity
• GO:0016829 lyase activity
• GO:0046872 metal ion binding
• GO:0051539 4 iron, 4 sulfur cluster binding
• GO:0071949 FAD binding

Biological Process

• GO:0000719 photoreactive repair
• GO:0006281 DNA repair

External links

• PDB: RCSB:5lfa, PDBe:5lfa, PDBj:5lfa
• PDBsum: 5lfa
• PubMed: 27992645
• UniProt: A9CH39|PHRB_AGRFC (6-4) photolyase (Gene Name=phrB)