1FA0
STRUCTURE OF YEAST POLY(A) POLYMERASE BOUND TO MANGANATE AND 3'-DATP
Functional Information from GO Data
| Chain | GOid | namespace | contents |
| A | 0000166 | molecular_function | nucleotide binding |
| A | 0000287 | molecular_function | magnesium ion binding |
| A | 0003723 | molecular_function | RNA binding |
| A | 0005515 | molecular_function | protein binding |
| A | 0005524 | molecular_function | ATP binding |
| A | 0005634 | cellular_component | nucleus |
| A | 0005847 | cellular_component | mRNA cleavage and polyadenylation specificity factor complex |
| A | 0006397 | biological_process | mRNA processing |
| A | 0016740 | molecular_function | transferase activity |
| A | 0016779 | molecular_function | nucleotidyltransferase activity |
| A | 0030846 | biological_process | termination of RNA polymerase II transcription, poly(A)-coupled |
| A | 0031123 | biological_process | RNA 3'-end processing |
| A | 0031124 | biological_process | mRNA 3'-end processing |
| A | 0031126 | biological_process | sno(s)RNA 3'-end processing |
| A | 0043631 | biological_process | obsolete RNA polyadenylation |
| A | 0046872 | molecular_function | metal ion binding |
| A | 1990817 | molecular_function | poly(A) RNA polymerase activity |
| B | 0000166 | molecular_function | nucleotide binding |
| B | 0000287 | molecular_function | magnesium ion binding |
| B | 0003723 | molecular_function | RNA binding |
| B | 0005515 | molecular_function | protein binding |
| B | 0005524 | molecular_function | ATP binding |
| B | 0005634 | cellular_component | nucleus |
| B | 0005847 | cellular_component | mRNA cleavage and polyadenylation specificity factor complex |
| B | 0006397 | biological_process | mRNA processing |
| B | 0016740 | molecular_function | transferase activity |
| B | 0016779 | molecular_function | nucleotidyltransferase activity |
| B | 0030846 | biological_process | termination of RNA polymerase II transcription, poly(A)-coupled |
| B | 0031123 | biological_process | RNA 3'-end processing |
| B | 0031124 | biological_process | mRNA 3'-end processing |
| B | 0031126 | biological_process | sno(s)RNA 3'-end processing |
| B | 0043631 | biological_process | obsolete RNA polyadenylation |
| B | 0046872 | molecular_function | metal ion binding |
| B | 1990817 | molecular_function | poly(A) RNA polymerase activity |
Functional Information from PDB Data
| site_id | AC1 |
| Number of Residues | 5 |
| Details | BINDING SITE FOR RESIDUE MN A 600 |
| Chain | Residue |
| A | ASP100 |
| A | ASP102 |
| A | MN601 |
| A | 3AT604 |
| A | HOH871 |
| site_id | AC2 |
| Number of Residues | 6 |
| Details | BINDING SITE FOR RESIDUE MN A 601 |
| Chain | Residue |
| A | 3AT604 |
| A | 3AD606 |
| A | ASP100 |
| A | ASP102 |
| A | ASP154 |
| A | MN600 |
| site_id | AC3 |
| Number of Residues | 4 |
| Details | BINDING SITE FOR RESIDUE MN B 602 |
| Chain | Residue |
| B | SER89 |
| B | ASP100 |
| B | ASP102 |
| B | 3AT605 |
| site_id | AC4 |
| Number of Residues | 5 |
| Details | BINDING SITE FOR RESIDUE MN B 603 |
| Chain | Residue |
| B | ASP100 |
| B | ASP102 |
| B | ASP154 |
| B | 3AT605 |
| B | 3AD607 |
| site_id | AC5 |
| Number of Residues | 11 |
| Details | BINDING SITE FOR RESIDUE 3AT A 604 |
| Chain | Residue |
| A | TYR87 |
| A | GLY88 |
| A | SER89 |
| A | SER99 |
| A | ASP100 |
| A | ASP102 |
| A | MN600 |
| A | MN601 |
| A | 3AD606 |
| A | POP817 |
| A | HOH871 |
| site_id | AC6 |
| Number of Residues | 12 |
| Details | BINDING SITE FOR RESIDUE 3AT B 605 |
| Chain | Residue |
| B | SER89 |
| B | SER99 |
| B | ASP100 |
| B | ASP102 |
| B | PHE140 |
| B | LYS215 |
| B | VAL234 |
| B | MN602 |
| B | MN603 |
| B | 3AD607 |
| B | HOH619 |
| B | HOH635 |
| site_id | AC7 |
| Number of Residues | 8 |
| Details | BINDING SITE FOR RESIDUE 3AD A 606 |
| Chain | Residue |
| A | TYR87 |
| A | ASP102 |
| A | VAL141 |
| A | ASP154 |
| A | ILE156 |
| A | ARG186 |
| A | MN601 |
| A | 3AT604 |
| site_id | AC8 |
| Number of Residues | 8 |
| Details | BINDING SITE FOR RESIDUE 3AD B 607 |
| Chain | Residue |
| B | TYR87 |
| B | ASP102 |
| B | PHE140 |
| B | VAL141 |
| B | ASP154 |
| B | ARG186 |
| B | MN603 |
| B | 3AT605 |
| site_id | AC9 |
| Number of Residues | 12 |
| Details | BINDING SITE FOR RESIDUE POP A 817 |
| Chain | Residue |
| A | GLY88 |
| A | SER89 |
| A | LEU92 |
| A | VAL94 |
| A | THR194 |
| A | LEU211 |
| A | LYS215 |
| A | TYR224 |
| A | GLY233 |
| A | VAL234 |
| A | 3AT604 |
| A | HOH862 |
Functional Information from PROSITE/UniProt
| site_id | PS00430 |
| Number of Residues | 109 |
| Details | TONB_DEPENDENT_REC_1 TonB-dependent receptor (TBDR) proteins signature 1. mssqkvfgitgpvstvgataaenklndsliqelkkegsfeteqetanrvqvlkilqelaqrfvyevskkknmsdgmardaggkiftygsyrlgvhgpgsdi..............DTLVVVPK |
| Chain | Residue | Details |
| A | MET1-LYS109 |
Functional Information from SwissProt/UniProt
| site_id | SWS_FT_FI1 |
| Number of Residues | 20 |
| Details | Binding site: {"evidences":[{"source":"PubMed","id":"17850751","evidenceCode":"ECO:0000269"}]} |
| Chain | Residue | Details |
| site_id | SWS_FT_FI2 |
| Number of Residues | 6 |
| Details | Binding site: {} |
| Chain | Residue | Details |
| site_id | SWS_FT_FI3 |
| Number of Residues | 16 |
| Details | Site: {"description":"Interaction with RNA"} |
| Chain | Residue | Details |
| site_id | SWS_FT_FI4 |
| Number of Residues | 1 |
| Details | Modified residue: {"description":"Phosphoserine","evidences":[{"source":"PubMed","id":"18407956","evidenceCode":"ECO:0007744"}]} |
| Chain | Residue | Details |
Catalytic Information from CSA
| site_id | CSA1 |
| Number of Residues | 1 |
| Details | a catalytic site defined by CSA, PubMed 10958780, 9519297, 9914251 |
| Chain | Residue | Details |
| A | LYS215 |
| site_id | CSA2 |
| Number of Residues | 1 |
| Details | a catalytic site defined by CSA, PubMed 10958780, 9519297, 9914251 |
| Chain | Residue | Details |
| B | LYS215 |
| site_id | MCSA1 |
| Number of Residues | 6 |
| Details | M-CSA 796 |
| Chain | Residue | Details |
| A | SER89 | electrostatic stabiliser, polar interaction |
| A | ASP100 | metal ligand |
| A | ASP102 | metal ligand |
| A | ASP154 | metal ligand |
| A | LYS215 | electrostatic stabiliser, polar interaction |
| A | TYR224 | electrostatic stabiliser, polar interaction |
| site_id | MCSA2 |
| Number of Residues | 6 |
| Details | M-CSA 796 |
| Chain | Residue | Details |
| B | SER89 | electrostatic stabiliser, polar interaction |
| B | ASP100 | metal ligand |
| B | ASP102 | metal ligand |
| B | ASP154 | metal ligand |
| B | LYS215 | electrostatic stabiliser, polar interaction |
| B | TYR224 | electrostatic stabiliser, polar interaction |
