Structure of PDB 6jum Chain A

Receptor sequence

>6jumA (length=347) Species: 246196 (Mycolicibacterium smegmatis MC2 155)

MTKWVLHVDLDQFLASVELRRRPDLRGQPVIVGGSGDPSEPRKVVTTASY
EAREFGVHAGMPLRAAARRCPDATFLPSDPAAYDEASEQVMGLLRDLGHP
LEVWGWDEAYLGADLPDESDPVEVAERIRTVVAAETGLSCSVGISDNKQR
AKVATGFAKPAGIYVLTEANWMTVMGDRPPDALWGVGPKTTKKLAAMGIT
TVADLAVTDPSVLTTAFGPSTGLWLLLLAKGGGDTEVSSEPWVPRSRSHV
VTFPQDLTERREMDSAVRDLALQTLAEIVEQGRIVTRVAVTVRTSTFYTR
TKIRKLPAPSTDAGQIVDTALAVLDQFELDRPVRLLGVRLELAMDDV

3D structure

• PDB: 6jum A polar filter in DNA polymerases prevents ribonucleotide incorporation.
• Chain: A
• Resolution: 1.78 Å

Enzymatic activity

• Enzyme Commision number: 2.7.7.7: DNA-directed DNA polymerase.

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	dna	A	K193 A196 M197 A216	K193 A196 M197 A216
BS02	dna	A	W104 E108 K152 G185 V186 G187 P188 K189 T190 R287 K302 I303 R304 K305	W104 E108 K152 G185 V186 G187 P188 K189 T190 R287 K302 I303 R304 K305
BS03	dna	A	R42 V44 W242 R245 S246 R247 S248 H249 V250 T252 F297 R334	R42 V44 W242 R245 S246 R247 S248 H249 V250 T252 F297 R334
BS04	0KX	A	D9 L10 D11 Q12 F13 T46 T47 Y50 R53 A59 D107 K159	D9 L10 D11 Q12 F13 T46 T47 Y50 R53 A59 D107 K159
BS05	MG	A	D9 L10 D107	D9 L10 D107
BS06	MG	A	D9 D107 E108	D9 D107 E108

Gene Ontology

Molecular Function

• GO:0000287 magnesium ion binding
• GO:0003677 DNA binding
• GO:0003684 damaged DNA binding
• GO:0003887 DNA-directed DNA polymerase activity
• GO:0046872 metal ion binding

Biological Process

• GO:0006260 DNA replication
• GO:0006261 DNA-templated DNA replication
• GO:0006281 DNA repair
• GO:0006974 DNA damage response
• GO:0009432 SOS response
• GO:0042276 error-prone translesion synthesis

Cellular Component

• GO:0005737 cytoplasm
• GO:0005829 cytosol

External links

• PDB: RCSB:6jum, PDBe:6jum, PDBj:6jum
• PDBsum: 6jum
• PubMed: 31544946
• UniProt: A0QR77