3EXE
Crystal structure of the pyruvate dehydrogenase (E1p) component of human pyruvate dehydrogenase complex
Functional Information from GO Data
Chain | GOid | namespace | contents |
A | 0004738 | molecular_function | pyruvate dehydrogenase activity |
A | 0004739 | molecular_function | pyruvate dehydrogenase (acetyl-transferring) activity |
A | 0005515 | molecular_function | protein binding |
A | 0005634 | cellular_component | nucleus |
A | 0005730 | cellular_component | nucleolus |
A | 0005739 | cellular_component | mitochondrion |
A | 0005759 | cellular_component | mitochondrial matrix |
A | 0006006 | biological_process | glucose metabolic process |
A | 0006086 | biological_process | acetyl-CoA biosynthetic process from pyruvate |
A | 0006090 | biological_process | pyruvate metabolic process |
A | 0006099 | biological_process | tricarboxylic acid cycle |
A | 0016491 | molecular_function | oxidoreductase activity |
A | 0016624 | molecular_function | oxidoreductase activity, acting on the aldehyde or oxo group of donors, disulfide as acceptor |
A | 0034604 | molecular_function | pyruvate dehydrogenase (NAD+) activity |
A | 0043231 | cellular_component | intracellular membrane-bounded organelle |
A | 0045254 | cellular_component | pyruvate dehydrogenase complex |
A | 0046872 | molecular_function | metal ion binding |
A | 1902494 | cellular_component | catalytic complex |
B | 0003824 | molecular_function | catalytic activity |
B | 0004739 | molecular_function | pyruvate dehydrogenase (acetyl-transferring) activity |
B | 0005515 | molecular_function | protein binding |
B | 0005634 | cellular_component | nucleus |
B | 0005654 | cellular_component | nucleoplasm |
B | 0005739 | cellular_component | mitochondrion |
B | 0005759 | cellular_component | mitochondrial matrix |
B | 0006006 | biological_process | glucose metabolic process |
B | 0006086 | biological_process | acetyl-CoA biosynthetic process from pyruvate |
B | 0006099 | biological_process | tricarboxylic acid cycle |
B | 0016491 | molecular_function | oxidoreductase activity |
B | 0034604 | molecular_function | pyruvate dehydrogenase (NAD+) activity |
B | 0045254 | cellular_component | pyruvate dehydrogenase complex |
B | 0046872 | molecular_function | metal ion binding |
C | 0004738 | molecular_function | pyruvate dehydrogenase activity |
C | 0004739 | molecular_function | pyruvate dehydrogenase (acetyl-transferring) activity |
C | 0005515 | molecular_function | protein binding |
C | 0005634 | cellular_component | nucleus |
C | 0005730 | cellular_component | nucleolus |
C | 0005739 | cellular_component | mitochondrion |
C | 0005759 | cellular_component | mitochondrial matrix |
C | 0006006 | biological_process | glucose metabolic process |
C | 0006086 | biological_process | acetyl-CoA biosynthetic process from pyruvate |
C | 0006090 | biological_process | pyruvate metabolic process |
C | 0006099 | biological_process | tricarboxylic acid cycle |
C | 0016491 | molecular_function | oxidoreductase activity |
C | 0016624 | molecular_function | oxidoreductase activity, acting on the aldehyde or oxo group of donors, disulfide as acceptor |
C | 0034604 | molecular_function | pyruvate dehydrogenase (NAD+) activity |
C | 0043231 | cellular_component | intracellular membrane-bounded organelle |
C | 0045254 | cellular_component | pyruvate dehydrogenase complex |
C | 0046872 | molecular_function | metal ion binding |
C | 1902494 | cellular_component | catalytic complex |
D | 0003824 | molecular_function | catalytic activity |
D | 0004739 | molecular_function | pyruvate dehydrogenase (acetyl-transferring) activity |
D | 0005515 | molecular_function | protein binding |
D | 0005634 | cellular_component | nucleus |
D | 0005654 | cellular_component | nucleoplasm |
D | 0005739 | cellular_component | mitochondrion |
D | 0005759 | cellular_component | mitochondrial matrix |
D | 0006006 | biological_process | glucose metabolic process |
D | 0006086 | biological_process | acetyl-CoA biosynthetic process from pyruvate |
D | 0006099 | biological_process | tricarboxylic acid cycle |
D | 0016491 | molecular_function | oxidoreductase activity |
D | 0034604 | molecular_function | pyruvate dehydrogenase (NAD+) activity |
D | 0045254 | cellular_component | pyruvate dehydrogenase complex |
D | 0046872 | molecular_function | metal ion binding |
E | 0004738 | molecular_function | pyruvate dehydrogenase activity |
E | 0004739 | molecular_function | pyruvate dehydrogenase (acetyl-transferring) activity |
E | 0005515 | molecular_function | protein binding |
E | 0005634 | cellular_component | nucleus |
E | 0005730 | cellular_component | nucleolus |
E | 0005739 | cellular_component | mitochondrion |
E | 0005759 | cellular_component | mitochondrial matrix |
E | 0006006 | biological_process | glucose metabolic process |
E | 0006086 | biological_process | acetyl-CoA biosynthetic process from pyruvate |
E | 0006090 | biological_process | pyruvate metabolic process |
E | 0006099 | biological_process | tricarboxylic acid cycle |
E | 0016491 | molecular_function | oxidoreductase activity |
E | 0016624 | molecular_function | oxidoreductase activity, acting on the aldehyde or oxo group of donors, disulfide as acceptor |
E | 0034604 | molecular_function | pyruvate dehydrogenase (NAD+) activity |
E | 0043231 | cellular_component | intracellular membrane-bounded organelle |
E | 0045254 | cellular_component | pyruvate dehydrogenase complex |
E | 0046872 | molecular_function | metal ion binding |
E | 1902494 | cellular_component | catalytic complex |
F | 0003824 | molecular_function | catalytic activity |
F | 0004739 | molecular_function | pyruvate dehydrogenase (acetyl-transferring) activity |
F | 0005515 | molecular_function | protein binding |
F | 0005634 | cellular_component | nucleus |
F | 0005654 | cellular_component | nucleoplasm |
F | 0005739 | cellular_component | mitochondrion |
F | 0005759 | cellular_component | mitochondrial matrix |
F | 0006006 | biological_process | glucose metabolic process |
F | 0006086 | biological_process | acetyl-CoA biosynthetic process from pyruvate |
F | 0006099 | biological_process | tricarboxylic acid cycle |
F | 0016491 | molecular_function | oxidoreductase activity |
F | 0034604 | molecular_function | pyruvate dehydrogenase (NAD+) activity |
F | 0045254 | cellular_component | pyruvate dehydrogenase complex |
F | 0046872 | molecular_function | metal ion binding |
G | 0004738 | molecular_function | pyruvate dehydrogenase activity |
G | 0004739 | molecular_function | pyruvate dehydrogenase (acetyl-transferring) activity |
G | 0005515 | molecular_function | protein binding |
G | 0005634 | cellular_component | nucleus |
G | 0005730 | cellular_component | nucleolus |
G | 0005739 | cellular_component | mitochondrion |
G | 0005759 | cellular_component | mitochondrial matrix |
G | 0006006 | biological_process | glucose metabolic process |
G | 0006086 | biological_process | acetyl-CoA biosynthetic process from pyruvate |
G | 0006090 | biological_process | pyruvate metabolic process |
G | 0006099 | biological_process | tricarboxylic acid cycle |
G | 0016491 | molecular_function | oxidoreductase activity |
G | 0016624 | molecular_function | oxidoreductase activity, acting on the aldehyde or oxo group of donors, disulfide as acceptor |
G | 0034604 | molecular_function | pyruvate dehydrogenase (NAD+) activity |
G | 0043231 | cellular_component | intracellular membrane-bounded organelle |
G | 0045254 | cellular_component | pyruvate dehydrogenase complex |
G | 0046872 | molecular_function | metal ion binding |
G | 1902494 | cellular_component | catalytic complex |
H | 0003824 | molecular_function | catalytic activity |
H | 0004739 | molecular_function | pyruvate dehydrogenase (acetyl-transferring) activity |
H | 0005515 | molecular_function | protein binding |
H | 0005634 | cellular_component | nucleus |
H | 0005654 | cellular_component | nucleoplasm |
H | 0005739 | cellular_component | mitochondrion |
H | 0005759 | cellular_component | mitochondrial matrix |
H | 0006006 | biological_process | glucose metabolic process |
H | 0006086 | biological_process | acetyl-CoA biosynthetic process from pyruvate |
H | 0006099 | biological_process | tricarboxylic acid cycle |
H | 0016491 | molecular_function | oxidoreductase activity |
H | 0034604 | molecular_function | pyruvate dehydrogenase (NAD+) activity |
H | 0045254 | cellular_component | pyruvate dehydrogenase complex |
H | 0046872 | molecular_function | metal ion binding |
Functional Information from PDB Data
site_id | AC1 |
Number of Residues | 5 |
Details | BINDING SITE FOR RESIDUE MN C 1001 |
Chain | Residue |
C | ASP167 |
C | ASN196 |
C | TYR198 |
C | TPP1002 |
C | HOH2234 |
site_id | AC2 |
Number of Residues | 24 |
Details | BINDING SITE FOR RESIDUE TPP C 1002 |
Chain | Residue |
B | GLN88 |
C | TYR89 |
C | ARG90 |
C | GLY136 |
C | VAL138 |
C | GLY166 |
C | ASP167 |
C | GLY168 |
C | ALA169 |
C | ASN196 |
C | TYR198 |
C | GLY199 |
C | MET200 |
C | HIS263 |
C | MN1001 |
C | HOH2200 |
C | HOH2222 |
C | HOH2234 |
C | HOH2277 |
C | HOH2489 |
B | GLU28 |
B | ILE57 |
B | GLU59 |
B | PHE85 |
site_id | AC3 |
Number of Residues | 5 |
Details | BINDING SITE FOR RESIDUE K B 1003 |
Chain | Residue |
B | ALA160 |
B | ILE161 |
B | ASP163 |
B | HOH2133 |
B | HOH2301 |
site_id | AC4 |
Number of Residues | 5 |
Details | BINDING SITE FOR RESIDUE MN A 1004 |
Chain | Residue |
A | ASP167 |
A | ASN196 |
A | TYR198 |
A | TPP1005 |
A | HOH2039 |
site_id | AC5 |
Number of Residues | 23 |
Details | BINDING SITE FOR RESIDUE TPP A 1005 |
Chain | Residue |
A | TYR89 |
A | ARG90 |
A | GLY136 |
A | VAL138 |
A | GLY166 |
A | ASP167 |
A | GLY168 |
A | ALA169 |
A | ASN196 |
A | TYR198 |
A | GLY199 |
A | HIS263 |
A | MN1004 |
A | HOH2039 |
A | HOH2043 |
A | HOH2122 |
A | HOH2149 |
A | HOH2346 |
D | GLU28 |
D | ILE57 |
D | GLU59 |
D | PHE85 |
D | GLN88 |
site_id | AC6 |
Number of Residues | 6 |
Details | BINDING SITE FOR RESIDUE K D 1006 |
Chain | Residue |
D | ARG75 |
D | ALA160 |
D | ILE161 |
D | ASP163 |
D | HOH2065 |
D | HOH2159 |
site_id | AC7 |
Number of Residues | 5 |
Details | BINDING SITE FOR RESIDUE MN G 1007 |
Chain | Residue |
G | ASP167 |
G | ASN196 |
G | TYR198 |
G | TPP1008 |
G | HOH2294 |
site_id | AC8 |
Number of Residues | 25 |
Details | BINDING SITE FOR RESIDUE TPP G 1008 |
Chain | Residue |
F | GLU28 |
F | ILE57 |
F | GLU59 |
F | MET81 |
F | PHE85 |
F | GLN88 |
G | TYR89 |
G | ARG90 |
G | GLY136 |
G | VAL138 |
G | GLY166 |
G | ASP167 |
G | GLY168 |
G | ALA169 |
G | ASN196 |
G | TYR198 |
G | GLY199 |
G | MET200 |
G | HIS263 |
G | MN1007 |
G | HOH2062 |
G | HOH2249 |
G | HOH2294 |
G | HOH2355 |
G | HOH2447 |
site_id | AC9 |
Number of Residues | 6 |
Details | BINDING SITE FOR RESIDUE K F 1009 |
Chain | Residue |
F | ALA160 |
F | ILE161 |
F | ASP163 |
F | HOH2116 |
F | HOH2636 |
F | ARG75 |
site_id | BC1 |
Number of Residues | 5 |
Details | BINDING SITE FOR RESIDUE MN E 1010 |
Chain | Residue |
E | ASP167 |
E | ASN196 |
E | TYR198 |
E | TPP1011 |
E | HOH2223 |
site_id | BC2 |
Number of Residues | 24 |
Details | BINDING SITE FOR RESIDUE TPP E 1011 |
Chain | Residue |
E | TYR89 |
E | ARG90 |
E | GLY136 |
E | VAL138 |
E | GLY166 |
E | ASP167 |
E | GLY168 |
E | ALA169 |
E | ASN196 |
E | TYR198 |
E | GLY199 |
E | MET200 |
E | HIS263 |
E | MN1010 |
E | HOH2130 |
E | HOH2179 |
E | HOH2223 |
E | HOH2391 |
E | HOH2500 |
H | GLU28 |
H | ILE57 |
H | GLU59 |
H | PHE85 |
H | GLN88 |
site_id | BC3 |
Number of Residues | 5 |
Details | BINDING SITE FOR RESIDUE K H 1012 |
Chain | Residue |
H | ALA160 |
H | ILE161 |
H | ASP163 |
H | HOH2386 |
H | HOH2397 |
site_id | BC4 |
Number of Residues | 8 |
Details | BINDING SITE FOR RESIDUE GOL A 1101 |
Chain | Residue |
A | LYS153 |
A | TRP185 |
A | LEU187 |
A | HOH2650 |
A | HOH2946 |
A | HOH3205 |
B | ASP49 |
B | ILE53 |
site_id | BC5 |
Number of Residues | 8 |
Details | BINDING SITE FOR RESIDUE GOL C 1102 |
Chain | Residue |
C | LYS153 |
C | TRP185 |
C | HOH2477 |
C | HOH2998 |
C | HOH3876 |
D | ASP49 |
D | ILE53 |
D | HOH2905 |
site_id | BC6 |
Number of Residues | 7 |
Details | BINDING SITE FOR RESIDUE GOL E 1103 |
Chain | Residue |
E | LYS153 |
E | LEU187 |
E | HOH2656 |
E | HOH3689 |
E | HOH3731 |
F | ASP49 |
F | ILE53 |
site_id | BC7 |
Number of Residues | 7 |
Details | BINDING SITE FOR RESIDUE GOL G 1104 |
Chain | Residue |
G | LYS153 |
G | LEU187 |
G | HOH3129 |
G | HOH3379 |
H | ASP49 |
H | ILE53 |
H | HOH2848 |
Functional Information from SwissProt/UniProt
site_id | SWS_FT_FI1 |
Number of Residues | 4 |
Details | BINDING: BINDING => ECO:0000269|PubMed:12651851 |
Chain | Residue | Details |
B | GLU59 | |
G | LYS34 | |
G | LYS215 | |
G | LYS284 | |
D | GLU59 | |
F | GLU59 | |
H | GLU59 | |
C | LYS215 | |
C | LYS284 | |
E | LYS34 | |
E | LYS215 | |
E | LYS284 |
site_id | SWS_FT_FI2 |
Number of Residues | 4 |
Details | SITE: Important for interaction with DLAT => ECO:0000269|PubMed:20160912 |
Chain | Residue | Details |
B | ASP289 | |
D | ASP289 | |
F | ASP289 | |
H | ASP289 |
site_id | SWS_FT_FI3 |
Number of Residues | 4 |
Details | MOD_RES: Phosphotyrosine => ECO:0000250|UniProtKB:Q9D051 |
Chain | Residue | Details |
B | TYR37 | |
D | TYR37 | |
F | TYR37 | |
H | TYR37 | |
E | LYS248 | |
E | LYS356 | |
G | LYS248 | |
G | LYS356 |
site_id | SWS_FT_FI4 |
Number of Residues | 4 |
Details | MOD_RES: N6-acetyllysine => ECO:0000250|UniProtKB:Q9D051 |
Chain | Residue | Details |
B | LYS324 | |
D | LYS324 | |
F | LYS324 | |
H | LYS324 |
site_id | SWS_FT_FI5 |
Number of Residues | 4 |
Details | MOD_RES: Phosphoserine => ECO:0000250|UniProtKB:P35486 |
Chain | Residue | Details |
A | SER266 | |
C | SER266 | |
E | SER266 | |
G | SER266 |
site_id | SWS_FT_FI6 |
Number of Residues | 4 |
Details | MOD_RES: Phosphoserine; by PDK1, PDK2, PDK3 and PDK4 => ECO:0000269|PubMed:11486000, ECO:0000269|PubMed:19081061 |
Chain | Residue | Details |
A | SER271 | |
C | SER271 | |
E | SER271 | |
G | SER271 |
site_id | SWS_FT_FI7 |
Number of Residues | 4 |
Details | MOD_RES: Phosphotyrosine => ECO:0000250|UniProtKB:P35486 |
Chain | Residue | Details |
A | TYR272 | |
C | TYR272 | |
E | TYR272 | |
G | TYR272 |
site_id | SWS_FT_FI8 |
Number of Residues | 4 |
Details | MOD_RES: N6-acetyllysine => ECO:0007744|PubMed:19608861 |
Chain | Residue | Details |
A | LYS292 | |
C | LYS292 | |
E | LYS292 | |
G | LYS292 |
site_id | SWS_FT_FI9 |
Number of Residues | 4 |
Details | MOD_RES: N6-acetyllysine => ECO:0000250|UniProtKB:P35486 |
Chain | Residue | Details |
A | LYS307 | |
C | LYS307 | |
E | LYS307 | |
G | LYS307 |
Catalytic Information from CSA
site_id | CSA1 |
Number of Residues | 1 |
Details | Annotated By Reference To The Literature 1dtw |
Chain | Residue | Details |
A | HIS263 |
site_id | CSA10 |
Number of Residues | 2 |
Details | Annotated By Reference To The Literature 1dtw |
Chain | Residue | Details |
D | GLU59 | |
D | HIS128 |
site_id | CSA11 |
Number of Residues | 2 |
Details | Annotated By Reference To The Literature 1dtw |
Chain | Residue | Details |
F | GLU59 | |
F | HIS128 |
site_id | CSA12 |
Number of Residues | 2 |
Details | Annotated By Reference To The Literature 1dtw |
Chain | Residue | Details |
H | GLU59 | |
H | HIS128 |
site_id | CSA2 |
Number of Residues | 1 |
Details | Annotated By Reference To The Literature 1dtw |
Chain | Residue | Details |
C | HIS263 |
site_id | CSA3 |
Number of Residues | 1 |
Details | Annotated By Reference To The Literature 1dtw |
Chain | Residue | Details |
E | HIS263 |
site_id | CSA4 |
Number of Residues | 1 |
Details | Annotated By Reference To The Literature 1dtw |
Chain | Residue | Details |
G | HIS263 |
site_id | CSA5 |
Number of Residues | 1 |
Details | Annotated By Reference To The Literature 1dtw |
Chain | Residue | Details |
B | GLU59 |
site_id | CSA6 |
Number of Residues | 1 |
Details | Annotated By Reference To The Literature 1dtw |
Chain | Residue | Details |
D | GLU59 |
site_id | CSA7 |
Number of Residues | 1 |
Details | Annotated By Reference To The Literature 1dtw |
Chain | Residue | Details |
F | GLU59 |
site_id | CSA8 |
Number of Residues | 1 |
Details | Annotated By Reference To The Literature 1dtw |
Chain | Residue | Details |
H | GLU59 |
site_id | CSA9 |
Number of Residues | 2 |
Details | Annotated By Reference To The Literature 1dtw |
Chain | Residue | Details |
B | GLU59 | |
B | HIS128 |