6H0F
Structure of DDB1-CRBN-pomalidomide complex bound to IKZF1(ZF2)
Functional Information from GO Data
Chain | GOid | namespace | contents |
A | 0003676 | molecular_function | nucleic acid binding |
A | 0005634 | cellular_component | nucleus |
B | 0005515 | molecular_function | protein binding |
B | 0005634 | cellular_component | nucleus |
B | 0005737 | cellular_component | cytoplasm |
B | 0005829 | cellular_component | cytosol |
B | 0016020 | cellular_component | membrane |
B | 0016567 | biological_process | protein ubiquitination |
B | 0030177 | biological_process | positive regulation of Wnt signaling pathway |
B | 0031333 | biological_process | negative regulation of protein-containing complex assembly |
B | 0031334 | biological_process | positive regulation of protein-containing complex assembly |
B | 0031464 | cellular_component | Cul4A-RING E3 ubiquitin ligase complex |
B | 0034766 | biological_process | negative regulation of monoatomic ion transmembrane transport |
B | 0035641 | biological_process | locomotory exploration behavior |
B | 0043161 | biological_process | proteasome-mediated ubiquitin-dependent protein catabolic process |
B | 0044325 | molecular_function | transmembrane transporter binding |
B | 0046872 | molecular_function | metal ion binding |
B | 0048471 | cellular_component | perinuclear region of cytoplasm |
B | 0060173 | biological_process | limb development |
D | 0003676 | molecular_function | nucleic acid binding |
D | 0005634 | cellular_component | nucleus |
E | 0005515 | molecular_function | protein binding |
E | 0005634 | cellular_component | nucleus |
E | 0005737 | cellular_component | cytoplasm |
E | 0005829 | cellular_component | cytosol |
E | 0016020 | cellular_component | membrane |
E | 0016567 | biological_process | protein ubiquitination |
E | 0030177 | biological_process | positive regulation of Wnt signaling pathway |
E | 0031333 | biological_process | negative regulation of protein-containing complex assembly |
E | 0031334 | biological_process | positive regulation of protein-containing complex assembly |
E | 0031464 | cellular_component | Cul4A-RING E3 ubiquitin ligase complex |
E | 0034766 | biological_process | negative regulation of monoatomic ion transmembrane transport |
E | 0035641 | biological_process | locomotory exploration behavior |
E | 0043161 | biological_process | proteasome-mediated ubiquitin-dependent protein catabolic process |
E | 0044325 | molecular_function | transmembrane transporter binding |
E | 0046872 | molecular_function | metal ion binding |
E | 0048471 | cellular_component | perinuclear region of cytoplasm |
E | 0060173 | biological_process | limb development |
G | 0003676 | molecular_function | nucleic acid binding |
G | 0005634 | cellular_component | nucleus |
H | 0005515 | molecular_function | protein binding |
H | 0005634 | cellular_component | nucleus |
H | 0005737 | cellular_component | cytoplasm |
H | 0005829 | cellular_component | cytosol |
H | 0016020 | cellular_component | membrane |
H | 0016567 | biological_process | protein ubiquitination |
H | 0030177 | biological_process | positive regulation of Wnt signaling pathway |
H | 0031333 | biological_process | negative regulation of protein-containing complex assembly |
H | 0031334 | biological_process | positive regulation of protein-containing complex assembly |
H | 0031464 | cellular_component | Cul4A-RING E3 ubiquitin ligase complex |
H | 0034766 | biological_process | negative regulation of monoatomic ion transmembrane transport |
H | 0035641 | biological_process | locomotory exploration behavior |
H | 0043161 | biological_process | proteasome-mediated ubiquitin-dependent protein catabolic process |
H | 0044325 | molecular_function | transmembrane transporter binding |
H | 0046872 | molecular_function | metal ion binding |
H | 0048471 | cellular_component | perinuclear region of cytoplasm |
H | 0060173 | biological_process | limb development |
J | 0003676 | molecular_function | nucleic acid binding |
J | 0005634 | cellular_component | nucleus |
K | 0005515 | molecular_function | protein binding |
K | 0005634 | cellular_component | nucleus |
K | 0005737 | cellular_component | cytoplasm |
K | 0005829 | cellular_component | cytosol |
K | 0016020 | cellular_component | membrane |
K | 0016567 | biological_process | protein ubiquitination |
K | 0030177 | biological_process | positive regulation of Wnt signaling pathway |
K | 0031333 | biological_process | negative regulation of protein-containing complex assembly |
K | 0031334 | biological_process | positive regulation of protein-containing complex assembly |
K | 0031464 | cellular_component | Cul4A-RING E3 ubiquitin ligase complex |
K | 0034766 | biological_process | negative regulation of monoatomic ion transmembrane transport |
K | 0035641 | biological_process | locomotory exploration behavior |
K | 0043161 | biological_process | proteasome-mediated ubiquitin-dependent protein catabolic process |
K | 0044325 | molecular_function | transmembrane transporter binding |
K | 0046872 | molecular_function | metal ion binding |
K | 0048471 | cellular_component | perinuclear region of cytoplasm |
K | 0060173 | biological_process | limb development |
Functional Information from PDB Data
site_id | AC1 |
Number of Residues | 4 |
Details | binding site for residue ZN B 501 |
Chain | Residue |
B | CYS323 |
B | CYS326 |
B | CYS391 |
B | CYS394 |
site_id | AC2 |
Number of Residues | 15 |
Details | binding site for residue Y70 B 502 |
Chain | Residue |
B | TRP380 |
B | TRP386 |
B | TRP400 |
B | PHE402 |
C | GLN146 |
C | CYS147 |
C | ASN148 |
C | GLN149 |
C | CYS150 |
C | GLY151 |
B | ASN351 |
B | PRO352 |
B | HIS353 |
B | GLU377 |
B | HIS378 |
site_id | AC3 |
Number of Residues | 4 |
Details | binding site for residue ZN C 201 |
Chain | Residue |
C | CYS147 |
C | CYS150 |
C | HIS163 |
C | HIS167 |
site_id | AC4 |
Number of Residues | 4 |
Details | binding site for residue ZN E 501 |
Chain | Residue |
E | CYS323 |
E | CYS326 |
E | CYS391 |
E | CYS394 |
site_id | AC5 |
Number of Residues | 16 |
Details | binding site for residue Y70 E 502 |
Chain | Residue |
E | ASN351 |
E | PRO352 |
E | HIS353 |
E | GLU377 |
E | HIS378 |
E | TRP380 |
E | TRP386 |
E | TRP400 |
E | PHE402 |
E | HOH602 |
F | GLN146 |
F | CYS147 |
F | ASN148 |
F | GLN149 |
F | CYS150 |
F | GLY151 |
site_id | AC6 |
Number of Residues | 4 |
Details | binding site for residue ZN F 201 |
Chain | Residue |
F | CYS147 |
F | CYS150 |
F | HIS163 |
F | HIS167 |
site_id | AC7 |
Number of Residues | 4 |
Details | binding site for residue ZN H 501 |
Chain | Residue |
H | CYS323 |
H | CYS326 |
H | CYS391 |
H | CYS394 |
site_id | AC8 |
Number of Residues | 16 |
Details | binding site for residue Y70 H 502 |
Chain | Residue |
H | ASN351 |
H | PRO352 |
H | HIS353 |
H | GLU377 |
H | HIS378 |
H | SER379 |
H | TRP380 |
H | TRP386 |
H | TRP400 |
H | PHE402 |
I | GLN146 |
I | CYS147 |
I | ASN148 |
I | GLN149 |
I | CYS150 |
I | GLY151 |
site_id | AC9 |
Number of Residues | 4 |
Details | binding site for residue ZN I 201 |
Chain | Residue |
I | CYS147 |
I | CYS150 |
I | HIS163 |
I | HIS167 |
site_id | AD1 |
Number of Residues | 4 |
Details | binding site for residue ZN K 501 |
Chain | Residue |
K | CYS323 |
K | CYS326 |
K | CYS391 |
K | CYS394 |
site_id | AD2 |
Number of Residues | 15 |
Details | binding site for residue Y70 K 502 |
Chain | Residue |
K | ASN351 |
K | PRO352 |
K | HIS353 |
K | GLU377 |
K | HIS378 |
K | TRP380 |
K | TRP386 |
K | TRP400 |
K | PHE402 |
L | GLN146 |
L | CYS147 |
L | ASN148 |
L | GLN149 |
L | CYS150 |
L | GLY151 |
site_id | AD3 |
Number of Residues | 4 |
Details | binding site for residue ZN L 201 |
Chain | Residue |
L | CYS147 |
L | CYS150 |
L | HIS163 |
L | HIS167 |
Functional Information from PROSITE/UniProt
site_id | PS00028 |
Number of Residues | 21 |
Details | ZINC_FINGER_C2H2_1 Zinc finger C2H2 type domain signature. Cnq..CgasFtqkgnllrHikl..H |
Chain | Residue | Details |
C | CYS147-HIS167 |
Functional Information from SwissProt/UniProt
site_id | SWS_FT_FI1 |
Number of Residues | 1372 |
Details | Region: {"description":"WD repeat beta-propeller A"} |
Chain | Residue | Details |
site_id | SWS_FT_FI2 |
Number of Residues | 1002 |
Details | Region: {"description":"WD repeat beta-propeller C"} |
Chain | Residue | Details |
site_id | SWS_FT_FI3 |
Number of Residues | 1107 |
Details | Region: {"description":"Interaction with CDT1 and CUL4A","evidences":[{"source":"PubMed","id":"15448697","evidenceCode":"ECO:0000269"}]} |
Chain | Residue | Details |
site_id | SWS_FT_FI4 |
Number of Residues | 4 |
Details | Modified residue: {"description":"N-acetylserine","evidences":[{"source":"PubMed","id":"19413330","evidenceCode":"ECO:0007744"}]} |
Chain | Residue | Details |
site_id | SWS_FT_FI5 |
Number of Residues | 4 |
Details | Modified residue: {"description":"N6-acetyllysine","evidences":[{"source":"PubMed","id":"19608861","evidenceCode":"ECO:0007744"}]} |
Chain | Residue | Details |
site_id | SWS_FT_FI6 |
Number of Residues | 4 |
Details | Modified residue: {"description":"Phosphothreonine","evidences":[{"source":"UniProtKB","id":"Q9ESW0","evidenceCode":"ECO:0000250"}]} |
Chain | Residue | Details |
site_id | SWS_FT_FI7 |
Number of Residues | 8 |
Details | Cross-link: {"description":"Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in SUMO2)","evidences":[{"source":"PubMed","id":"28112733","evidenceCode":"ECO:0007744"}]} |
Chain | Residue | Details |
site_id | SWS_FT_FI8 |
Number of Residues | 952 |
Details | Domain: {"description":"Lon N-terminal","evidences":[{"source":"PROSITE-ProRule","id":"PRU01123","evidenceCode":"ECO:0000255"}]} |
Chain | Residue | Details |
site_id | SWS_FT_FI9 |
Number of Residues | 432 |
Details | Domain: {"description":"CULT","evidences":[{"source":"PROSITE-ProRule","id":"PRU01124","evidenceCode":"ECO:0000255"}]} |
Chain | Residue | Details |
site_id | SWS_FT_FI10 |
Number of Residues | 28 |
Details | Binding site: {"evidences":[{"source":"PubMed","id":"25108355","evidenceCode":"ECO:0000269"},{"source":"PDB","id":"4TZ4","evidenceCode":"ECO:0007744"}]} |
Chain | Residue | Details |
site_id | SWS_FT_FI11 |
Number of Residues | 88 |
Details | Zinc finger: {"description":"C2H2-type 2","evidences":[{"source":"PROSITE-ProRule","id":"PRU00042","evidenceCode":"ECO:0000255"}]} |
Chain | Residue | Details |
site_id | SWS_FT_FI12 |
Number of Residues | 36 |
Details | Region: {"description":"Required for both high-affinity DNA binding and pericentromeric heterochromatin localization","evidences":[{"evidenceCode":"ECO:0000250"}]} |
Chain | Residue | Details |
site_id | SWS_FT_FI13 |
Number of Residues | 8 |
Details | Site: {"description":"Required for both pericentromeric heterochromatin localization and complete DNA binding","evidences":[{"evidenceCode":"ECO:0000250"}]} |
Chain | Residue | Details |
site_id | SWS_FT_FI14 |
Number of Residues | 4 |
Details | Modified residue: {"description":"Phosphoserine","evidences":[{"source":"UniProtKB","id":"Q03267","evidenceCode":"ECO:0000250"}]} |
Chain | Residue | Details |