1JWH
Crystal Structure of Human Protein Kinase CK2 Holoenzyme
Functional Information from GO Data
| Chain | GOid | namespace | contents |
| A | 0004672 | molecular_function | protein kinase activity |
| A | 0004674 | molecular_function | protein serine/threonine kinase activity |
| A | 0005524 | molecular_function | ATP binding |
| A | 0006468 | biological_process | protein phosphorylation |
| B | 0004672 | molecular_function | protein kinase activity |
| B | 0004674 | molecular_function | protein serine/threonine kinase activity |
| B | 0005524 | molecular_function | ATP binding |
| B | 0006468 | biological_process | protein phosphorylation |
| C | 0000785 | cellular_component | chromatin |
| C | 0001650 | cellular_component | fibrillar center |
| C | 0003682 | molecular_function | chromatin binding |
| C | 0004674 | molecular_function | protein serine/threonine kinase activity |
| C | 0005102 | molecular_function | signaling receptor binding |
| C | 0005515 | molecular_function | protein binding |
| C | 0005576 | cellular_component | extracellular region |
| C | 0005634 | cellular_component | nucleus |
| C | 0005654 | cellular_component | nucleoplasm |
| C | 0005737 | cellular_component | cytoplasm |
| C | 0005829 | cellular_component | cytosol |
| C | 0005886 | cellular_component | plasma membrane |
| C | 0005956 | cellular_component | protein kinase CK2 complex |
| C | 0007165 | biological_process | signal transduction |
| C | 0008285 | biological_process | negative regulation of cell population proliferation |
| C | 0016055 | biological_process | Wnt signaling pathway |
| C | 0016605 | cellular_component | PML body |
| C | 0018107 | biological_process | peptidyl-threonine phosphorylation |
| C | 0019046 | biological_process | release from viral latency |
| C | 0019887 | molecular_function | protein kinase regulator activity |
| C | 0019904 | molecular_function | protein domain specific binding |
| C | 0030674 | molecular_function | protein-macromolecule adaptor activity |
| C | 0031519 | cellular_component | PcG protein complex |
| C | 0032435 | biological_process | negative regulation of proteasomal ubiquitin-dependent protein catabolic process |
| C | 0032927 | biological_process | positive regulation of activin receptor signaling pathway |
| C | 0033211 | biological_process | adiponectin-activated signaling pathway |
| C | 0034774 | cellular_component | secretory granule lumen |
| C | 0042802 | molecular_function | identical protein binding |
| C | 0043537 | biological_process | negative regulation of blood vessel endothelial cell migration |
| C | 0046872 | molecular_function | metal ion binding |
| C | 0060391 | biological_process | positive regulation of SMAD protein signal transduction |
| C | 0061154 | biological_process | endothelial tube morphogenesis |
| C | 0061629 | molecular_function | RNA polymerase II-specific DNA-binding transcription factor binding |
| C | 0065003 | biological_process | protein-containing complex assembly |
| C | 0070062 | cellular_component | extracellular exosome |
| C | 0075342 | biological_process | symbiont-mediated disruption of host cell PML body |
| C | 1903901 | biological_process | negative regulation of viral life cycle |
| C | 1904813 | cellular_component | ficolin-1-rich granule lumen |
| D | 0000785 | cellular_component | chromatin |
| D | 0001650 | cellular_component | fibrillar center |
| D | 0003682 | molecular_function | chromatin binding |
| D | 0004674 | molecular_function | protein serine/threonine kinase activity |
| D | 0005102 | molecular_function | signaling receptor binding |
| D | 0005515 | molecular_function | protein binding |
| D | 0005576 | cellular_component | extracellular region |
| D | 0005634 | cellular_component | nucleus |
| D | 0005654 | cellular_component | nucleoplasm |
| D | 0005737 | cellular_component | cytoplasm |
| D | 0005829 | cellular_component | cytosol |
| D | 0005886 | cellular_component | plasma membrane |
| D | 0005956 | cellular_component | protein kinase CK2 complex |
| D | 0007165 | biological_process | signal transduction |
| D | 0008285 | biological_process | negative regulation of cell population proliferation |
| D | 0016055 | biological_process | Wnt signaling pathway |
| D | 0016605 | cellular_component | PML body |
| D | 0018107 | biological_process | peptidyl-threonine phosphorylation |
| D | 0019046 | biological_process | release from viral latency |
| D | 0019887 | molecular_function | protein kinase regulator activity |
| D | 0019904 | molecular_function | protein domain specific binding |
| D | 0030674 | molecular_function | protein-macromolecule adaptor activity |
| D | 0031519 | cellular_component | PcG protein complex |
| D | 0032435 | biological_process | negative regulation of proteasomal ubiquitin-dependent protein catabolic process |
| D | 0032927 | biological_process | positive regulation of activin receptor signaling pathway |
| D | 0033211 | biological_process | adiponectin-activated signaling pathway |
| D | 0034774 | cellular_component | secretory granule lumen |
| D | 0042802 | molecular_function | identical protein binding |
| D | 0043537 | biological_process | negative regulation of blood vessel endothelial cell migration |
| D | 0046872 | molecular_function | metal ion binding |
| D | 0060391 | biological_process | positive regulation of SMAD protein signal transduction |
| D | 0061154 | biological_process | endothelial tube morphogenesis |
| D | 0061629 | molecular_function | RNA polymerase II-specific DNA-binding transcription factor binding |
| D | 0065003 | biological_process | protein-containing complex assembly |
| D | 0070062 | cellular_component | extracellular exosome |
| D | 0075342 | biological_process | symbiont-mediated disruption of host cell PML body |
| D | 1903901 | biological_process | negative regulation of viral life cycle |
| D | 1904813 | cellular_component | ficolin-1-rich granule lumen |
Functional Information from PDB Data
| site_id | AC1 |
| Number of Residues | 4 |
| Details | BINDING SITE FOR RESIDUE PO4 A 350 |
| Chain | Residue |
| A | HIS234 |
| A | ARG244 |
| A | HOH394 |
| A | HOH397 |
| site_id | AC2 |
| Number of Residues | 2 |
| Details | BINDING SITE FOR RESIDUE PO4 B 351 |
| Chain | Residue |
| B | ARG244 |
| B | HOH365 |
| site_id | AC3 |
| Number of Residues | 4 |
| Details | BINDING SITE FOR RESIDUE PO4 B 352 |
| Chain | Residue |
| B | HOH375 |
| B | ARG195 |
| B | LYS198 |
| B | ASN238 |
| site_id | AC4 |
| Number of Residues | 5 |
| Details | BINDING SITE FOR RESIDUE PO4 C 353 |
| Chain | Residue |
| C | LYS147 |
| C | SER148 |
| C | ARG150 |
| C | HOH358 |
| C | HOH366 |
| site_id | AC5 |
| Number of Residues | 6 |
| Details | BINDING SITE FOR RESIDUE PO4 D 354 |
| Chain | Residue |
| D | ARG17 |
| D | SER148 |
| D | SER149 |
| D | PO4355 |
| D | HOH359 |
| D | HOH364 |
| site_id | AC6 |
| Number of Residues | 4 |
| Details | BINDING SITE FOR RESIDUE PO4 D 355 |
| Chain | Residue |
| C | GLU57 |
| D | LYS147 |
| D | ARG150 |
| D | PO4354 |
| site_id | AC7 |
| Number of Residues | 4 |
| Details | BINDING SITE FOR RESIDUE PO4 D 356 |
| Chain | Residue |
| D | GLU20 |
| D | LYS100 |
| D | ASP105 |
| D | HOH361 |
| site_id | AC8 |
| Number of Residues | 5 |
| Details | BINDING SITE FOR RESIDUE ZN C 357 |
| Chain | Residue |
| C | CYS109 |
| C | CYS114 |
| C | CYS137 |
| C | CYS140 |
| C | TYR144 |
| site_id | AC9 |
| Number of Residues | 5 |
| Details | BINDING SITE FOR RESIDUE ZN D 358 |
| Chain | Residue |
| D | CYS109 |
| D | CYS114 |
| D | CYS137 |
| D | CYS140 |
| D | TYR144 |
| site_id | BC1 |
| Number of Residues | 9 |
| Details | BINDING SITE FOR RESIDUE ANP A 340 |
| Chain | Residue |
| A | SER51 |
| A | VAL66 |
| A | LYS68 |
| A | GLU114 |
| A | VAL116 |
| A | HIS160 |
| A | MET163 |
| A | ASP175 |
| A | HOH384 |
Functional Information from PROSITE/UniProt
| site_id | PS00107 |
| Number of Residues | 24 |
| Details | PROTEIN_KINASE_ATP Protein kinases ATP-binding region signature. LGRGKYSEVFeAinitnnek..........VVVK |
| Chain | Residue | Details |
| A | LEU45-LYS68 |
| site_id | PS00108 |
| Number of Residues | 13 |
| Details | PROTEIN_KINASE_ST Serine/Threonine protein kinases active-site signature. ImHrDVKphNVMI |
| Chain | Residue | Details |
| A | ILE152-ILE164 |
| site_id | PS01101 |
| Number of Residues | 32 |
| Details | CK2_BETA Casein kinase II regulatory subunit signature. CPrVyCenqpmLPIGlsdipgeamVKlyCPkC |
| Chain | Residue | Details |
| C | CYS109-CYS140 |
Functional Information from SwissProt/UniProt
| site_id | SWS_FT_FI1 |
| Number of Residues | 8 |
| Details | BINDING: |
| Chain | Residue | Details |
| C | CYS109 | |
| C | CYS114 | |
| C | CYS137 | |
| C | CYS140 | |
| D | CYS109 | |
| D | CYS114 | |
| D | CYS137 | |
| D | CYS140 |
| site_id | SWS_FT_FI2 |
| Number of Residues | 4 |
| Details | MOD_RES: Phosphoserine; by autocatalysis => ECO:0000269|PubMed:11574463 |
| Chain | Residue | Details |
| C | SER2 | |
| C | SER3 | |
| D | SER2 | |
| D | SER3 |
| site_id | SWS_FT_FI3 |
| Number of Residues | 4 |
| Details | MOD_RES: Phosphoserine => ECO:0007744|PubMed:18691976 |
| Chain | Residue | Details |
| C | SER8 | |
| C | SER69 | |
| D | SER8 | |
| D | SER69 |
| site_id | SWS_FT_FI4 |
| Number of Residues | 2 |
| Details | MOD_RES: Phosphothreonine => ECO:0007744|PubMed:23186163 |
| Chain | Residue | Details |
| C | THR37 | |
| D | THR37 |
| site_id | SWS_FT_FI5 |
| Number of Residues | 2 |
| Details | MOD_RES: Phosphoserine => ECO:0007744|PubMed:18691976, ECO:0007744|PubMed:19369195, ECO:0007744|PubMed:20068231, ECO:0007744|PubMed:21406692, ECO:0007744|PubMed:23186163 |
| Chain | Residue | Details |
| C | SER209 | |
| D | SER209 |
| site_id | SWS_FT_FI6 |
| Number of Residues | 2 |
| Details | MOD_RES: N6-acetyllysine; alternate => ECO:0007744|PubMed:19608861 |
| Chain | Residue | Details |
| C | LYS212 | |
| D | LYS212 |
| site_id | SWS_FT_FI7 |
| Number of Residues | 4 |
| Details | CROSSLNK: Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in SUMO2); alternate => ECO:0007744|PubMed:25755297 |
| Chain | Residue | Details |
| C | LYS212 | |
| D | LYS212 |
Catalytic Information from CSA
| site_id | CSA1 |
| Number of Residues | 2 |
| Details | Annotated By Reference To The Literature 1ir3 |
| Chain | Residue | Details |
| A | ASP156 | |
| A | HIS160 |
| site_id | CSA2 |
| Number of Residues | 2 |
| Details | Annotated By Reference To The Literature 1ir3 |
| Chain | Residue | Details |
| B | ASP156 | |
| B | HIS160 |
| site_id | CSA3 |
| Number of Residues | 2 |
| Details | Annotated By Reference To The Literature 1ir3 |
| Chain | Residue | Details |
| A | ASP156 | |
| A | LYS158 |
| site_id | CSA4 |
| Number of Residues | 2 |
| Details | Annotated By Reference To The Literature 1ir3 |
| Chain | Residue | Details |
| B | ASP156 | |
| B | LYS158 |
| site_id | CSA5 |
| Number of Residues | 3 |
| Details | Annotated By Reference To The Literature 1ir3 |
| Chain | Residue | Details |
| A | ASP156 | |
| A | LYS158 | |
| A | SER194 |
| site_id | CSA6 |
| Number of Residues | 3 |
| Details | Annotated By Reference To The Literature 1ir3 |
| Chain | Residue | Details |
| B | ASP156 | |
| B | LYS158 | |
| B | SER194 |
| site_id | CSA7 |
| Number of Residues | 3 |
| Details | Annotated By Reference To The Literature 1ir3 |
| Chain | Residue | Details |
| A | ASP156 | |
| A | ASN161 | |
| A | LYS158 |
| site_id | CSA8 |
| Number of Residues | 3 |
| Details | Annotated By Reference To The Literature 1ir3 |
| Chain | Residue | Details |
| B | ASP156 | |
| B | ASN161 | |
| B | LYS158 |
