3ITK
Crystal structure of human UDP-glucose dehydrogenase Thr131Ala, apo form.
Functional Information from GO Data
Chain | GOid | namespace | contents |
A | 0001702 | biological_process | gastrulation with mouth forming second |
A | 0003979 | molecular_function | UDP-glucose 6-dehydrogenase activity |
A | 0005634 | cellular_component | nucleus |
A | 0005654 | cellular_component | nucleoplasm |
A | 0005829 | cellular_component | cytosol |
A | 0006024 | biological_process | glycosaminoglycan biosynthetic process |
A | 0006065 | biological_process | UDP-glucuronate biosynthetic process |
A | 0015012 | biological_process | heparan sulfate proteoglycan biosynthetic process |
A | 0016491 | molecular_function | oxidoreductase activity |
A | 0016616 | molecular_function | oxidoreductase activity, acting on the CH-OH group of donors, NAD or NADP as acceptor |
A | 0030206 | biological_process | chondroitin sulfate biosynthetic process |
A | 0034214 | biological_process | protein hexamerization |
A | 0042802 | molecular_function | identical protein binding |
A | 0048666 | biological_process | neuron development |
A | 0051287 | molecular_function | NAD binding |
A | 0070062 | cellular_component | extracellular exosome |
B | 0001702 | biological_process | gastrulation with mouth forming second |
B | 0003979 | molecular_function | UDP-glucose 6-dehydrogenase activity |
B | 0005634 | cellular_component | nucleus |
B | 0005654 | cellular_component | nucleoplasm |
B | 0005829 | cellular_component | cytosol |
B | 0006024 | biological_process | glycosaminoglycan biosynthetic process |
B | 0006065 | biological_process | UDP-glucuronate biosynthetic process |
B | 0015012 | biological_process | heparan sulfate proteoglycan biosynthetic process |
B | 0016491 | molecular_function | oxidoreductase activity |
B | 0016616 | molecular_function | oxidoreductase activity, acting on the CH-OH group of donors, NAD or NADP as acceptor |
B | 0030206 | biological_process | chondroitin sulfate biosynthetic process |
B | 0034214 | biological_process | protein hexamerization |
B | 0042802 | molecular_function | identical protein binding |
B | 0048666 | biological_process | neuron development |
B | 0051287 | molecular_function | NAD binding |
B | 0070062 | cellular_component | extracellular exosome |
C | 0001702 | biological_process | gastrulation with mouth forming second |
C | 0003979 | molecular_function | UDP-glucose 6-dehydrogenase activity |
C | 0005634 | cellular_component | nucleus |
C | 0005654 | cellular_component | nucleoplasm |
C | 0005829 | cellular_component | cytosol |
C | 0006024 | biological_process | glycosaminoglycan biosynthetic process |
C | 0006065 | biological_process | UDP-glucuronate biosynthetic process |
C | 0015012 | biological_process | heparan sulfate proteoglycan biosynthetic process |
C | 0016491 | molecular_function | oxidoreductase activity |
C | 0016616 | molecular_function | oxidoreductase activity, acting on the CH-OH group of donors, NAD or NADP as acceptor |
C | 0030206 | biological_process | chondroitin sulfate biosynthetic process |
C | 0034214 | biological_process | protein hexamerization |
C | 0042802 | molecular_function | identical protein binding |
C | 0048666 | biological_process | neuron development |
C | 0051287 | molecular_function | NAD binding |
C | 0070062 | cellular_component | extracellular exosome |
D | 0001702 | biological_process | gastrulation with mouth forming second |
D | 0003979 | molecular_function | UDP-glucose 6-dehydrogenase activity |
D | 0005634 | cellular_component | nucleus |
D | 0005654 | cellular_component | nucleoplasm |
D | 0005829 | cellular_component | cytosol |
D | 0006024 | biological_process | glycosaminoglycan biosynthetic process |
D | 0006065 | biological_process | UDP-glucuronate biosynthetic process |
D | 0015012 | biological_process | heparan sulfate proteoglycan biosynthetic process |
D | 0016491 | molecular_function | oxidoreductase activity |
D | 0016616 | molecular_function | oxidoreductase activity, acting on the CH-OH group of donors, NAD or NADP as acceptor |
D | 0030206 | biological_process | chondroitin sulfate biosynthetic process |
D | 0034214 | biological_process | protein hexamerization |
D | 0042802 | molecular_function | identical protein binding |
D | 0048666 | biological_process | neuron development |
D | 0051287 | molecular_function | NAD binding |
D | 0070062 | cellular_component | extracellular exosome |
E | 0001702 | biological_process | gastrulation with mouth forming second |
E | 0003979 | molecular_function | UDP-glucose 6-dehydrogenase activity |
E | 0005634 | cellular_component | nucleus |
E | 0005654 | cellular_component | nucleoplasm |
E | 0005829 | cellular_component | cytosol |
E | 0006024 | biological_process | glycosaminoglycan biosynthetic process |
E | 0006065 | biological_process | UDP-glucuronate biosynthetic process |
E | 0015012 | biological_process | heparan sulfate proteoglycan biosynthetic process |
E | 0016491 | molecular_function | oxidoreductase activity |
E | 0016616 | molecular_function | oxidoreductase activity, acting on the CH-OH group of donors, NAD or NADP as acceptor |
E | 0030206 | biological_process | chondroitin sulfate biosynthetic process |
E | 0034214 | biological_process | protein hexamerization |
E | 0042802 | molecular_function | identical protein binding |
E | 0048666 | biological_process | neuron development |
E | 0051287 | molecular_function | NAD binding |
E | 0070062 | cellular_component | extracellular exosome |
F | 0001702 | biological_process | gastrulation with mouth forming second |
F | 0003979 | molecular_function | UDP-glucose 6-dehydrogenase activity |
F | 0005634 | cellular_component | nucleus |
F | 0005654 | cellular_component | nucleoplasm |
F | 0005829 | cellular_component | cytosol |
F | 0006024 | biological_process | glycosaminoglycan biosynthetic process |
F | 0006065 | biological_process | UDP-glucuronate biosynthetic process |
F | 0015012 | biological_process | heparan sulfate proteoglycan biosynthetic process |
F | 0016491 | molecular_function | oxidoreductase activity |
F | 0016616 | molecular_function | oxidoreductase activity, acting on the CH-OH group of donors, NAD or NADP as acceptor |
F | 0030206 | biological_process | chondroitin sulfate biosynthetic process |
F | 0034214 | biological_process | protein hexamerization |
F | 0042802 | molecular_function | identical protein binding |
F | 0048666 | biological_process | neuron development |
F | 0051287 | molecular_function | NAD binding |
F | 0070062 | cellular_component | extracellular exosome |
Functional Information from PDB Data
site_id | AC1 |
Number of Residues | 9 |
Details | BINDING SITE FOR RESIDUE PG4 A 467 |
Chain | Residue |
A | PHE265 |
A | PHE272 |
A | GLY273 |
A | PHE277 |
A | PHE338 |
A | LYS339 |
A | HOH678 |
A | HOH761 |
A | HOH805 |
site_id | AC2 |
Number of Residues | 3 |
Details | BINDING SITE FOR RESIDUE EDO A 468 |
Chain | Residue |
A | GLN390 |
A | ARG393 |
C | TYR96 |
site_id | AC3 |
Number of Residues | 7 |
Details | BINDING SITE FOR RESIDUE PG4 C 467 |
Chain | Residue |
C | PHE265 |
C | LYS267 |
C | PHE272 |
C | GLY273 |
C | PHE277 |
C | HOH477 |
C | HOH1147 |
site_id | AC4 |
Number of Residues | 5 |
Details | BINDING SITE FOR RESIDUE PG4 C 468 |
Chain | Residue |
C | MET358 |
C | ASP359 |
C | GLN390 |
C | ARG393 |
E | TYR96 |
site_id | AC5 |
Number of Residues | 2 |
Details | BINDING SITE FOR RESIDUE EDO C 469 |
Chain | Residue |
C | HIS201 |
C | HOH790 |
site_id | AC6 |
Number of Residues | 6 |
Details | BINDING SITE FOR RESIDUE PG4 D 467 |
Chain | Residue |
D | PHE265 |
D | LYS267 |
D | GLY273 |
D | PHE277 |
D | PHE338 |
D | HOH1163 |
site_id | AC7 |
Number of Residues | 5 |
Details | BINDING SITE FOR RESIDUE EDO D 468 |
Chain | Residue |
B | TYR96 |
D | MET358 |
D | GLN390 |
D | HOH806 |
D | HOH991 |
site_id | AC8 |
Number of Residues | 4 |
Details | BINDING SITE FOR RESIDUE EDO D 470 |
Chain | Residue |
D | PHE162 |
D | ASP171 |
D | ASP176 |
D | ARG177 |
site_id | AC9 |
Number of Residues | 4 |
Details | BINDING SITE FOR RESIDUE EDO D 471 |
Chain | Residue |
D | TYR96 |
F | MET358 |
F | GLN390 |
F | ARG393 |
site_id | BC1 |
Number of Residues | 2 |
Details | BINDING SITE FOR RESIDUE EDO E 468 |
Chain | Residue |
A | TYR96 |
E | GLN390 |
site_id | BC2 |
Number of Residues | 1 |
Details | BINDING SITE FOR RESIDUE EDO B 467 |
Chain | Residue |
B | HOH721 |
site_id | BC3 |
Number of Residues | 4 |
Details | BINDING SITE FOR RESIDUE EDO B 468 |
Chain | Residue |
B | GLU29 |
B | ARG31 |
B | LYS67 |
B | HOH538 |
site_id | BC4 |
Number of Residues | 2 |
Details | BINDING SITE FOR RESIDUE EDO B 469 |
Chain | Residue |
B | ASP171 |
B | ASP176 |
site_id | BC5 |
Number of Residues | 12 |
Details | BINDING SITE FOR RESIDUE PG4 F 467 |
Chain | Residue |
F | LEU163 |
F | GLU165 |
F | PHE272 |
F | GLY273 |
F | PHE277 |
F | PHE338 |
F | LYS339 |
F | ARG442 |
F | HOH491 |
F | HOH654 |
F | HOH717 |
F | HOH1093 |
site_id | BC6 |
Number of Residues | 3 |
Details | BINDING SITE FOR RESIDUE EDO F 468 |
Chain | Residue |
F | GLY13 |
F | TYR14 |
F | ARG346 |
site_id | BC7 |
Number of Residues | 3 |
Details | BINDING SITE FOR RESIDUE EDO F 469 |
Chain | Residue |
F | ARG41 |
F | PRO51 |
F | ILE52 |
site_id | BC8 |
Number of Residues | 2 |
Details | BINDING SITE FOR RESIDUE EDO F 470 |
Chain | Residue |
F | HIS201 |
F | HOH863 |
Functional Information from SwissProt/UniProt
site_id | SWS_FT_FI1 |
Number of Residues | 12 |
Details | ACT_SITE: Proton donor/acceptor => ECO:0000269|PubMed:22123821 |
Chain | Residue | Details |
A | GLU161 | |
E | LYS220 | |
F | GLU161 | |
F | LYS220 | |
A | LYS220 | |
B | GLU161 | |
B | LYS220 | |
C | GLU161 | |
C | LYS220 | |
D | GLU161 | |
D | LYS220 | |
E | GLU161 |
site_id | SWS_FT_FI2 |
Number of Residues | 6 |
Details | ACT_SITE: Nucleophile => ECO:0000269|PubMed:21502315, ECO:0000269|PubMed:21984906, ECO:0000269|PubMed:22123821 |
Chain | Residue | Details |
A | CYS276 | |
B | CYS276 | |
C | CYS276 | |
D | CYS276 | |
E | CYS276 | |
F | CYS276 |
site_id | SWS_FT_FI3 |
Number of Residues | 30 |
Details | BINDING: BINDING => ECO:0000269|PubMed:21502315, ECO:0000269|PubMed:21595445, ECO:0000269|PubMed:21984906, ECO:0007744|PDB:2Q3E, ECO:0007744|PDB:2QG4, ECO:0007744|PDB:3PRJ, ECO:0007744|PDB:3PTZ, ECO:0007744|PDB:3TDK |
Chain | Residue | Details |
A | GLY11 | |
B | CYS276 | |
C | GLY11 | |
C | ASP36 | |
C | ARG41 | |
C | VAL89 | |
C | CYS276 | |
D | GLY11 | |
D | ASP36 | |
D | ARG41 | |
D | VAL89 | |
A | ASP36 | |
D | CYS276 | |
E | GLY11 | |
E | ASP36 | |
E | ARG41 | |
E | VAL89 | |
E | CYS276 | |
F | GLY11 | |
F | ASP36 | |
F | ARG41 | |
F | VAL89 | |
A | ARG41 | |
F | CYS276 | |
A | VAL89 | |
A | CYS276 | |
B | GLY11 | |
B | ASP36 | |
B | ARG41 | |
B | VAL89 |
site_id | SWS_FT_FI4 |
Number of Residues | 6 |
Details | BINDING: BINDING => ECO:0000269|PubMed:21502315, ECO:0000269|PubMed:21595445 |
Chain | Residue | Details |
A | SER130 | |
B | SER130 | |
C | SER130 | |
D | SER130 | |
E | SER130 | |
F | SER130 |
site_id | SWS_FT_FI5 |
Number of Residues | 24 |
Details | BINDING: BINDING => ECO:0000269|PubMed:23106432, ECO:0000305|PubMed:21502315, ECO:0000305|PubMed:21595445, ECO:0007744|PDB:2QG4, ECO:0007744|PDB:3PRJ, ECO:0007744|PDB:3PTZ, ECO:0007744|PDB:4EDF |
Chain | Residue | Details |
A | GLU161 | |
C | LYS220 | |
C | LYS267 | |
C | PHE338 | |
D | GLU161 | |
D | LYS220 | |
D | LYS267 | |
D | PHE338 | |
E | GLU161 | |
E | LYS220 | |
E | LYS267 | |
A | LYS220 | |
E | PHE338 | |
F | GLU161 | |
F | LYS220 | |
F | LYS267 | |
F | PHE338 | |
A | LYS267 | |
A | PHE338 | |
B | GLU161 | |
B | LYS220 | |
B | LYS267 | |
B | PHE338 | |
C | GLU161 |
site_id | SWS_FT_FI6 |
Number of Residues | 6 |
Details | BINDING: BINDING => ECO:0000269|PubMed:21502315, ECO:0007744|PDB:2Q3E, ECO:0007744|PDB:2QG4 |
Chain | Residue | Details |
A | GLU165 | |
B | GLU165 | |
C | GLU165 | |
D | GLU165 | |
E | GLU165 | |
F | GLU165 |
site_id | SWS_FT_FI7 |
Number of Residues | 6 |
Details | BINDING: BINDING => ECO:0000269|PubMed:23106432, ECO:0000269|PubMed:27966912, ECO:0000305|PubMed:21502315, ECO:0000305|PubMed:21595445, ECO:0007744|PDB:2QG4, ECO:0007744|PDB:3PRJ, ECO:0007744|PDB:3PTZ, ECO:0007744|PDB:4EDF, ECO:0007744|PDB:5TJH |
Chain | Residue | Details |
A | ARG260 | |
B | ARG260 | |
C | ARG260 | |
D | ARG260 | |
E | ARG260 | |
F | ARG260 |
site_id | SWS_FT_FI8 |
Number of Residues | 6 |
Details | BINDING: BINDING => ECO:0000269|PubMed:21502315, ECO:0000269|PubMed:21595445, ECO:0000269|PubMed:21984906, ECO:0000269|PubMed:22123821, ECO:0007744|PDB:2Q3E, ECO:0007744|PDB:2QG4, ECO:0007744|PDB:3PRJ, ECO:0007744|PDB:3PTZ, ECO:0007744|PDB:3TDK |
Chain | Residue | Details |
A | ARG346 | |
B | ARG346 | |
C | ARG346 | |
D | ARG346 | |
E | ARG346 | |
F | ARG346 |
site_id | SWS_FT_FI9 |
Number of Residues | 6 |
Details | BINDING: BINDING => ECO:0000269|PubMed:22123821, ECO:0000269|PubMed:23106432, ECO:0000305|PubMed:21502315, ECO:0000305|PubMed:21595445, ECO:0007744|PDB:2QG4, ECO:0007744|PDB:3KHU, ECO:0007744|PDB:3PRJ, ECO:0007744|PDB:3PTZ, ECO:0007744|PDB:4EDF |
Chain | Residue | Details |
A | ARG442 | |
B | ARG442 | |
C | ARG442 | |
D | ARG442 | |
E | ARG442 | |
F | ARG442 |
site_id | SWS_FT_FI10 |
Number of Residues | 6 |
Details | MOD_RES: N6-acetyllysine => ECO:0007744|PubMed:19608861 |
Chain | Residue | Details |
A | LYS107 | |
B | LYS107 | |
C | LYS107 | |
D | LYS107 | |
E | LYS107 | |
F | LYS107 |
Catalytic Information from CSA
site_id | CSA1 |
Number of Residues | 6 |
Details | Annotated By Reference To The Literature 1dli |
Chain | Residue | Details |
A | ASP280 | |
A | ASN224 | |
A | CYS276 | |
A | LYS220 | |
A | SER130 | |
A | GLU165 |
site_id | CSA2 |
Number of Residues | 6 |
Details | Annotated By Reference To The Literature 1dli |
Chain | Residue | Details |
B | ASP280 | |
B | ASN224 | |
B | CYS276 | |
B | LYS220 | |
B | SER130 | |
B | GLU165 |
site_id | CSA3 |
Number of Residues | 6 |
Details | Annotated By Reference To The Literature 1dli |
Chain | Residue | Details |
C | ASP280 | |
C | ASN224 | |
C | CYS276 | |
C | LYS220 | |
C | SER130 | |
C | GLU165 |
site_id | CSA4 |
Number of Residues | 6 |
Details | Annotated By Reference To The Literature 1dli |
Chain | Residue | Details |
D | ASP280 | |
D | ASN224 | |
D | CYS276 | |
D | LYS220 | |
D | SER130 | |
D | GLU165 |
site_id | CSA5 |
Number of Residues | 6 |
Details | Annotated By Reference To The Literature 1dli |
Chain | Residue | Details |
E | ASP280 | |
E | ASN224 | |
E | CYS276 | |
E | LYS220 | |
E | SER130 | |
E | GLU165 |
site_id | CSA6 |
Number of Residues | 6 |
Details | Annotated By Reference To The Literature 1dli |
Chain | Residue | Details |
F | ASP280 | |
F | ASN224 | |
F | CYS276 | |
F | LYS220 | |
F | SER130 | |
F | GLU165 |