6YCS
Human Transcription Cofactor PC4 DNA-binding domain in complex with full phosphorothioate 5-10-5 2'-O-methyl DNA gapmer antisense oligonucleotide.
Functional Information from GO Data
| Chain | GOid | namespace | contents |
| A | 0003677 | molecular_function | DNA binding |
| A | 0003713 | molecular_function | transcription coactivator activity |
| A | 0006355 | biological_process | regulation of DNA-templated transcription |
| A | 0060261 | biological_process | positive regulation of transcription initiation by RNA polymerase II |
| B | 0003677 | molecular_function | DNA binding |
| B | 0003713 | molecular_function | transcription coactivator activity |
| B | 0006355 | biological_process | regulation of DNA-templated transcription |
| B | 0060261 | biological_process | positive regulation of transcription initiation by RNA polymerase II |
| C | 0003677 | molecular_function | DNA binding |
| C | 0003713 | molecular_function | transcription coactivator activity |
| C | 0006355 | biological_process | regulation of DNA-templated transcription |
| C | 0060261 | biological_process | positive regulation of transcription initiation by RNA polymerase II |
| D | 0003677 | molecular_function | DNA binding |
| D | 0003713 | molecular_function | transcription coactivator activity |
| D | 0006355 | biological_process | regulation of DNA-templated transcription |
| D | 0060261 | biological_process | positive regulation of transcription initiation by RNA polymerase II |
Functional Information from PDB Data
| site_id | AC1 |
| Number of Residues | 2 |
| Details | binding site for residue SO4 A 201 |
| Chain | Residue |
| A | ARG100 |
| E | HOH201 |
| site_id | AC2 |
| Number of Residues | 3 |
| Details | binding site for residue NA E 101 |
| Chain | Residue |
| A | ARG100 |
| E | GS13 |
| E | GS14 |
| site_id | AC3 |
| Number of Residues | 11 |
| Details | binding site for residues OKT E 2 and RFJ E 3 |
| Chain | Residue |
| B | ARG100 |
| C | ARG100 |
| D | ARG100 |
| E | OKQ4 |
| F | OKN8 |
| F | PST10 |
| F | PST12 |
| B | ARG86 |
| B | TRP89 |
| B | PRO98 |
| B | GLY99 |
| site_id | AC4 |
| Number of Residues | 14 |
| Details | binding site for residues RFJ E 3 and OKQ E 4 |
| Chain | Residue |
| A | ARG100 |
| A | LYS101 |
| B | LEU82 |
| B | ARG86 |
| B | PRO98 |
| B | GLY99 |
| B | ARG100 |
| C | ARG100 |
| D | ARG100 |
| E | OKT2 |
| E | OKT5 |
| F | GS7 |
| F | OKN8 |
| F | PST10 |
| site_id | AC5 |
| Number of Residues | 11 |
| Details | binding site for residues OKQ E 4 and OKT E 5 |
| Chain | Residue |
| A | ARG70 |
| A | ARG100 |
| A | LYS101 |
| B | PHE77 |
| B | LEU82 |
| B | ARG86 |
| E | RFJ3 |
| E | PPS6 |
| F | PPS6 |
| F | GS7 |
| F | OKN8 |
| site_id | AC6 |
| Number of Residues | 12 |
| Details | binding site for residues GS E 7 and OKN E 8 |
| Chain | Residue |
| A | ILE66 |
| A | GLY67 |
| A | LYS68 |
| B | ASN106 |
| B | GLU108 |
| B | GLN109 |
| E | PPS6 |
| E | OKN9 |
| E | HOH201 |
| F | RFJ3 |
| F | OKQ4 |
| F | OKT5 |
| site_id | AC7 |
| Number of Residues | 15 |
| Details | binding site for residues OKN E 8 and OKN E 9 |
| Chain | Residue |
| A | GLN65 |
| A | ILE66 |
| A | GLY67 |
| A | LYS68 |
| B | ASN106 |
| B | GLU108 |
| B | GLN109 |
| B | GLN112 |
| C | PHE77 |
| E | GS7 |
| E | PST10 |
| E | OKN11 |
| E | HOH202 |
| F | OKT2 |
| F | RFJ3 |
| site_id | AC8 |
| Number of Residues | 12 |
| Details | binding site for residues OKN E 9 and PST E 10 |
| Chain | Residue |
| A | GLN65 |
| A | ILE66 |
| A | GLY67 |
| B | GLN112 |
| C | ARG75 |
| C | PHE77 |
| C | LYS78 |
| E | OKN8 |
| E | OKN11 |
| E | HOH202 |
| F | OKT2 |
| F | RFJ3 |
| site_id | AC9 |
| Number of Residues | 6 |
| Details | binding site for residues PST E 10 and OKN E 11 |
| Chain | Residue |
| C | ARG75 |
| C | PHE77 |
| C | LYS78 |
| E | OKN9 |
| E | PST12 |
| F | OKT2 |
| site_id | AD1 |
| Number of Residues | 8 |
| Details | binding site for residues OKN E 11 and PST E 12 |
| Chain | Residue |
| A | TRP89 |
| A | MET90 |
| A | PRO92 |
| C | LYS97 |
| E | OKN9 |
| E | PST10 |
| E | GS13 |
| F | OKT2 |
| site_id | AD2 |
| Number of Residues | 14 |
| Details | binding site for residues PST E 12 and GS E 13 |
| Chain | Residue |
| C | ASP91 |
| C | PRO92 |
| C | GLU95 |
| C | LYS97 |
| E | OKN11 |
| E | GS14 |
| E | NA101 |
| F | OKQ1 |
| F | OKT2 |
| A | TRP89 |
| A | MET90 |
| A | PRO92 |
| A | PRO98 |
| A | ARG100 |
| site_id | AD3 |
| Number of Residues | 15 |
| Details | binding site for residues GS E 13 and GS E 14 |
| Chain | Residue |
| A | SER73 |
| A | ARG75 |
| A | ARG86 |
| A | TYR88 |
| A | TRP89 |
| A | PRO98 |
| A | GLY99 |
| A | ARG100 |
| C | ASP91 |
| C | PRO92 |
| C | GLU95 |
| E | PST12 |
| E | PPS15 |
| E | NA101 |
| F | OKQ1 |
| site_id | AD4 |
| Number of Residues | 6 |
| Details | binding site for residues OKT E 16 and OKT E 17 |
| Chain | Residue |
| A | LYS80 |
| A | LEU82 |
| A | ASN106 |
| B | ARG70 |
| B | LYS101 |
| E | PPS15 |
| site_id | AD5 |
| Number of Residues | 11 |
| Details | binding site for residues OKQ F 1 and OKT F 2 |
| Chain | Residue |
| A | ARG100 |
| C | ARG86 |
| C | TRP89 |
| C | PRO98 |
| C | GLY99 |
| C | ARG100 |
| E | OKN9 |
| E | OKN11 |
| E | PST12 |
| E | GS13 |
| F | RFJ3 |
| site_id | AD6 |
| Number of Residues | 11 |
| Details | binding site for residues OKQ F 1 and OKT F 2 |
| Chain | Residue |
| A | ARG100 |
| C | ARG86 |
| C | TRP89 |
| C | PRO98 |
| C | GLY99 |
| C | ARG100 |
| E | OKN9 |
| E | OKN11 |
| E | PST12 |
| E | GS13 |
| F | RFJ3 |
| site_id | AD7 |
| Number of Residues | 15 |
| Details | binding site for residues OKT F 2 and RFJ F 3 |
| Chain | Residue |
| C | ARG75 |
| C | PHE77 |
| C | LEU82 |
| C | ARG86 |
| C | GLY99 |
| C | ARG100 |
| C | SER104 |
| C | HOH201 |
| E | GS7 |
| E | OKN8 |
| E | OKN9 |
| E | OKN11 |
| E | PST12 |
| F | OKQ1 |
| F | OKQ4 |
| site_id | AD8 |
| Number of Residues | 13 |
| Details | binding site for residues RFJ F 3 and OKQ F 4 |
| Chain | Residue |
| C | ARG75 |
| C | PHE77 |
| C | LEU82 |
| C | ARG86 |
| C | SER104 |
| C | HOH201 |
| D | ARG70 |
| D | LYS101 |
| E | GS7 |
| E | OKN8 |
| E | OKN9 |
| F | OKT2 |
| F | OKT5 |
| site_id | AD9 |
| Number of Residues | 8 |
| Details | binding site for residues OKQ F 4 and OKT F 5 |
| Chain | Residue |
| C | PHE77 |
| C | SER104 |
| D | ARG70 |
| D | LYS101 |
| E | PPS6 |
| E | GS7 |
| F | RFJ3 |
| F | PPS6 |
| site_id | AE1 |
| Number of Residues | 5 |
| Details | binding site for residues GS F 7 and OKN F 8 |
| Chain | Residue |
| E | RFJ3 |
| E | OKQ4 |
| E | OKT5 |
| F | PPS6 |
| F | PST10 |
| site_id | AE2 |
| Number of Residues | 12 |
| Details | binding site for residues PST F 10 and OKN F 11 |
| Chain | Residue |
| B | GLU93 |
| B | LYS97 |
| D | ARG75 |
| D | ASP84 |
| D | ARG86 |
| D | TRP89 |
| D | PRO98 |
| D | GLY99 |
| D | ARG100 |
| E | RFJ3 |
| F | OKN8 |
| F | PST12 |
| site_id | AE3 |
| Number of Residues | 14 |
| Details | binding site for residues OKN F 11 and PST F 12 |
| Chain | Residue |
| B | GLU93 |
| B | LYS97 |
| C | ARG100 |
| D | ARG75 |
| D | PHE77 |
| D | ASP84 |
| D | ARG86 |
| D | PRO98 |
| D | GLY99 |
| D | ARG100 |
| D | SER104 |
| E | OKT2 |
| F | PST10 |
| F | GS13 |
| site_id | AE4 |
| Number of Residues | 10 |
| Details | binding site for residues PST F 12 and GS F 13 |
| Chain | Residue |
| B | GLU93 |
| C | ARG70 |
| C | ARG100 |
| C | LYS101 |
| D | ARG75 |
| D | PHE77 |
| D | ARG86 |
| D | SER104 |
| E | OKT2 |
| F | OKN11 |
Functional Information from SwissProt/UniProt
| site_id | SWS_FT_FI1 |
| Number of Residues | 4 |
| Details | MOD_RES: N6-acetyllysine; alternate => ECO:0007744|PubMed:19608861 |
| Chain | Residue | Details |
| A | LYS68 | |
| B | LYS68 | |
| C | LYS68 | |
| D | LYS68 |
| site_id | SWS_FT_FI2 |
| Number of Residues | 4 |
| Details | MOD_RES: Phosphoserine => ECO:0007744|PubMed:19690332, ECO:0007744|PubMed:20068231, ECO:0007744|PubMed:21406692, ECO:0007744|PubMed:23186163, ECO:0007744|PubMed:24275569 |
| Chain | Residue | Details |
| A | SER118 | |
| B | SER118 | |
| C | SER118 | |
| D | SER118 |
| site_id | SWS_FT_FI3 |
| Number of Residues | 8 |
| Details | CROSSLNK: Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in SUMO2); alternate => ECO:0007744|PubMed:28112733 |
| Chain | Residue | Details |
| C | LYS68 | |
| D | LYS68 | |
| A | LYS68 | |
| B | LYS68 |
