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Receptor Information

>7tfj Chain D (length=331) Species: 4932 (Saccharomyces cerevisiae) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]

AQQPWVEKYRPKNLDEVTAQDHAVTVLKKTLKSANLPHMLFYGPPGTGKT
STILALTKELYGPDLMKSRILELNASDERGISIVREKVKNFARLTVSKPS
KHDLENYPCPPYKIIILDEADSMTADAQSALRRTMETYSGVTRFCLICNY
VTRIIDPLASRCSKFRFKALDASNAIDRLRFISEQENVKCDDGVLERILD
ISAGDLRRGITLLQSASKGAQYLGDGKNITSTQVEELAGVVPHDILIEIV
EKVKSGDFDEIKKYVNTFMKSGWSAASVVNQLHEYYITNDNFDTNFKNQI
SWLLFTTDSRLNNGTNEHIQLLNLLVKISQL

Ligand ID

AGS

InChI

InChI=1S/C10H16N5O12P3S/c11-8-5-9(13-2-12-8)15(3-14-5)10-7(17)6(16)4(25-10)1-24-28(18,19)26-29(20,21)27-30(22,23)31/h2-4,6-7,10,16-17H,1H2,(H,18,19)(H,20,21)(H2,11,12,13)(H2,22,23,31)/t4-,6-,7-,10-/m1/s1

InChIKey

NLTUCYMLOPLUHL-KQYNXXCUSA-N

SMILES

Software	SMILES
OpenEye OEToolkits 1.7.6	c1nc(c2c(n1)n(cn2)C3C(C(C(O3)COP(=O)(O)OP(=O)(O)OP(=S)(O)O)O)O)N
CACTVS 3.370	Nc1ncnc2n(cnc12)[C@@H]3O[C@H](CO[P](O)(=O)O[P](O)(=O)O[P](O)(O)=S)[C@@H](O)[C@H]3O
CACTVS 3.370	Nc1ncnc2n(cnc12)[CH]3O[CH](CO[P](O)(=O)O[P](O)(=O)O[P](O)(O)=S)[CH](O)[CH]3O
OpenEye OEToolkits 1.7.6	c1nc(c2c(n1)n(cn2)[C@H]3[C@@H]([C@@H]([C@H](O3)COP(=O)(O)OP(=O)(O)OP(=S)(O)O)O)O)N
ACDLabs 12.01	O=P(O)(OP(=S)(O)O)OP(=O)(O)OCC3OC(n2cnc1c(ncnc12)N)C(O)C3O

Formula

C10 H16 N5 O12 P3 S

Name

PHOSPHOTHIOPHOSPHORIC ACID-ADENYLATE ESTER;
ATP-GAMMA-S;
ADENOSINE 5'-(3-THIOTRIPHOSPHATE);
ADENOSINE 5'-(GAMMA-THIOTRIPHOSPHATE);
ADENOSINE-5'-DIPHOSPHATE MONOTHIOPHOSPHATE

PDB chain

7tfj Chain D Residue 401 [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]

Receptor-Ligand Complex Structure

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Structure summary

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PDB	7tfj Cryo-EM structures reveal that RFC recognizes both the 3'- and 5'-DNA ends to load PCNA onto gaps for DNA repair.
Resolution	3.3 Å
Binding residue (original residue number in PDB)	V28 P33 V39 T40 P67 G68 T69 G70 K71 T72 S73 N171 R229
Binding residue (residue number reindexed from 1)	V6 P11 V17 T18 P45 G46 T47 G48 K49 T50 S51 N149 R207
Annotation score	4

Enzyme Commision number

	Molecular Function
GO:0003677	DNA binding
GO:0003689	DNA clamp loader activity
GO:0005515	protein binding
GO:0005524	ATP binding
GO:0016887	ATP hydrolysis activity

	Biological Process
GO:0000076	DNA replication checkpoint signaling
GO:0000077	DNA damage checkpoint signaling
GO:0006260	DNA replication
GO:0006261	DNA-templated DNA replication
GO:0006271	DNA strand elongation involved in DNA replication
GO:0006272	leading strand elongation
GO:0006281	DNA repair
GO:0006298	mismatch repair
GO:0007062	sister chromatid cohesion
GO:0007064	mitotic sister chromatid cohesion
GO:0090618	DNA clamp unloading

	Cellular Component
GO:0005634	nucleus
GO:0005663	DNA replication factor C complex
GO:0031389	Rad17 RFC-like complex
GO:0031390	Ctf18 RFC-like complex
GO:0031391	Elg1 RFC-like complex

PDB	RCSB:7tfj, PDBe:7tfj, PDBj:7tfj
PDBsum	7tfj
PubMed	35829698
UniProt	P40348\|RFC2_YEAST Replication factor C subunit 2 (Gene Name=RFC2)

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Structure of PDB 7tfj Chain D Binding Site BS02