Structure of PDB 8tlt Chain A

Receptor sequence

>8tltA (length=1272) Species: 4932 (Saccharomyces cerevisiae)

SDYFRIQLNNQDYYMSKPTFLDPSHGESLPLNQFSQVPNIRVFGALPTGH
QVLCHVHGILPYMFIKYDGQITDTSTLRHQRCAQVHKTLEVKIRASFKKL
GNLNFVADVSVVKGIPFYGYHVGWNLFYKISLLNPSCLSRISELIRDGKI
FGKKFEIYESHIPYLLQWTADFNLFGCSWINVDRCYFRSPVLNSILDIDK
LTINDDLQLLLDRFCDFKCNVLSRRDFPRVGNGLIEIDILPQFIKNREKL
QHRDIHHDFLEKLGDIKPYVSSARDMINELTMQREELSLKEYKEPPETKR
HVHQWQSSGEFEAFYKKAQHKTSTFDGQIPNFENFIDKNQKFSAINTPYE
ALPQLWPRLPGLRYGKRAFVYGEPPFGYQDILNKLEDEGFPKIDYKDPFF
SNPVDLENKPYAYAGKRFEISSTHVSTRIPVQFGGETVSVYNKPTFDMFS
SWKYALKPPTYDAVQKWYNKVSSVHDSLTHLTLEIHANTRSDKIPDPAID
EVSMIIWCLEEETFPLDLDIAYEGIMIVHKASEDSTFPTKIQHCINEIPV
MFYESEFEMFEALTDLVLLLDPDILSGFEIHNFSWGYIIERCQKIHQFDI
VRELARVKCQIKLSDTWGYAHSSGIMITGRHMINIWRALRSDVNLTQYTI
ESAAFNILHKRLPHFSFESLTNMWNAKKSTTELKTVLNYWLSRAQINIQL
LRKQDYIARNIEQARLIGIDFHSVYYRGSQFKVESFLIRICKSESFILLS
PGKKDVRKQKALECVPLVMEPESAFYKSPLIVLDFQSLYPSIMIGYNYCY
STMIGRVREINLTENNLGVSKFSLPRNILALLKNDVTIAPNGVVYAKTSV
RKSTLSKMLTDILDVRVMIKKTMNEIGDDNTTLKRLLNNKQLALKLLANV
TYGYTSASFSGRMPCSDLADSIVQTGRETLEKAIDIIEKDETWNAKVVYG
DTDSLFVYLPGKTAIEAFSIGHAMAERVTQNNPKPIFLKFEKVYHPSILI
SKKRYVGFSYESPSQTLPIFDAKGIETVRRDGIPAQQKIIEKCIRLLFQT
KDLSKIKKYLQNEFFKIQIGKVSAQDFCFAKEVKLGAYKSEKTAPAGAVV
VKRRINEDHRAEPQYKERIPYLVVKGKQGQLLRERCVSPEEFLEGENLEL
DSEYYINKILIPPLDRLFNLIGINVGNWAQEIDDCLEKRSTTTLSFLIKK
LKRQKEYQTLKTVCRTCSYRYTSDAGIENDHIASKCNSYDCPVFYSRVKA
ERYLRDNQSVQREEALISLNDW

3D structure

• PDB: 8tlt Cryo-EM structure of the Rev1-Pol zeta holocomplex reveals the mechanism of their cooperativity in translesion DNA synthesis.
• Chain: A
• Resolution: 2.85 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	K1194 Y1196 G1215 R1220 K1272 E1273 Y1279 K1280 R1309	K1003 Y1005 G1024 R1029 K1081 E1082 Y1088 K1089 R1118
BS02	dna	A	T807 W808 R918 G919 S920 Q921 Y1093 G1094 F1100 S1101 K1193 R1324 R1357	T616 W617 R727 G728 S729 Q730 Y902 G903 F909 S910 K1002 R1133 R1166
BS03	SF4	A	P854 C1446 C1449 C1468 C1473 V1475 F1476	P663 C1214 C1217 C1236 C1241 V1243 F1244
BS04	CA	A	F976 D1144	F785 D953
BS05	DCP	A	F976 S978 L979 Y980 R1057 K1086 N1090 Y1093 D1144	F785 S787 L788 Y789 R866 K895 N899 Y902 D953

Gene Ontology

Molecular Function

• GO:0000166 nucleotide binding
• GO:0003676 nucleic acid binding
• GO:0003677 DNA binding
• GO:0003887 DNA-directed DNA polymerase activity
• GO:0005515 protein binding
• GO:0008270 zinc ion binding
• GO:0046872 metal ion binding
• GO:0051539 4 iron, 4 sulfur cluster binding

Biological Process

• GO:0000724 double-strand break repair via homologous recombination
• GO:0006260 DNA replication
• GO:0006281 DNA repair
• GO:0006974 DNA damage response
• GO:0019985 translesion synthesis
• GO:0042276 error-prone translesion synthesis
• GO:0070987 error-free translesion synthesis

Cellular Component

• GO:0005634 nucleus
• GO:0005739 mitochondrion
• GO:0016035 zeta DNA polymerase complex
• GO:0043231 intracellular membrane-bounded organelle

External links

• PDB: RCSB:8tlt, PDBe:8tlt, PDBj:8tlt
• PDBsum: 8tlt
• PubMed: 38720088
• UniProt: P14284|DPOZ_YEAST DNA polymerase zeta catalytic subunit (Gene Name=REV3)