3IQF
Structure of F420 dependent methylene-tetrahydromethanopterin dehydrogenase in complex with methenyl-tetrahydromethanopterin
Functional Information from GO Data
Chain | GOid | namespace | contents |
A | 0006730 | biological_process | one-carbon metabolic process |
A | 0008901 | molecular_function | ferredoxin hydrogenase activity |
A | 0015948 | biological_process | methanogenesis |
A | 0016491 | molecular_function | oxidoreductase activity |
A | 0019386 | biological_process | methanogenesis, from carbon dioxide |
A | 0030268 | molecular_function | methylenetetrahydromethanopterin dehydrogenase activity |
B | 0006730 | biological_process | one-carbon metabolic process |
B | 0008901 | molecular_function | ferredoxin hydrogenase activity |
B | 0015948 | biological_process | methanogenesis |
B | 0016491 | molecular_function | oxidoreductase activity |
B | 0019386 | biological_process | methanogenesis, from carbon dioxide |
B | 0030268 | molecular_function | methylenetetrahydromethanopterin dehydrogenase activity |
C | 0006730 | biological_process | one-carbon metabolic process |
C | 0008901 | molecular_function | ferredoxin hydrogenase activity |
C | 0015948 | biological_process | methanogenesis |
C | 0016491 | molecular_function | oxidoreductase activity |
C | 0019386 | biological_process | methanogenesis, from carbon dioxide |
C | 0030268 | molecular_function | methylenetetrahydromethanopterin dehydrogenase activity |
D | 0006730 | biological_process | one-carbon metabolic process |
D | 0008901 | molecular_function | ferredoxin hydrogenase activity |
D | 0015948 | biological_process | methanogenesis |
D | 0016491 | molecular_function | oxidoreductase activity |
D | 0019386 | biological_process | methanogenesis, from carbon dioxide |
D | 0030268 | molecular_function | methylenetetrahydromethanopterin dehydrogenase activity |
E | 0006730 | biological_process | one-carbon metabolic process |
E | 0008901 | molecular_function | ferredoxin hydrogenase activity |
E | 0015948 | biological_process | methanogenesis |
E | 0016491 | molecular_function | oxidoreductase activity |
E | 0019386 | biological_process | methanogenesis, from carbon dioxide |
E | 0030268 | molecular_function | methylenetetrahydromethanopterin dehydrogenase activity |
F | 0006730 | biological_process | one-carbon metabolic process |
F | 0008901 | molecular_function | ferredoxin hydrogenase activity |
F | 0015948 | biological_process | methanogenesis |
F | 0016491 | molecular_function | oxidoreductase activity |
F | 0019386 | biological_process | methanogenesis, from carbon dioxide |
F | 0030268 | molecular_function | methylenetetrahydromethanopterin dehydrogenase activity |
G | 0006730 | biological_process | one-carbon metabolic process |
G | 0008901 | molecular_function | ferredoxin hydrogenase activity |
G | 0015948 | biological_process | methanogenesis |
G | 0016491 | molecular_function | oxidoreductase activity |
G | 0019386 | biological_process | methanogenesis, from carbon dioxide |
G | 0030268 | molecular_function | methylenetetrahydromethanopterin dehydrogenase activity |
H | 0006730 | biological_process | one-carbon metabolic process |
H | 0008901 | molecular_function | ferredoxin hydrogenase activity |
H | 0015948 | biological_process | methanogenesis |
H | 0016491 | molecular_function | oxidoreductase activity |
H | 0019386 | biological_process | methanogenesis, from carbon dioxide |
H | 0030268 | molecular_function | methylenetetrahydromethanopterin dehydrogenase activity |
I | 0006730 | biological_process | one-carbon metabolic process |
I | 0008901 | molecular_function | ferredoxin hydrogenase activity |
I | 0015948 | biological_process | methanogenesis |
I | 0016491 | molecular_function | oxidoreductase activity |
I | 0019386 | biological_process | methanogenesis, from carbon dioxide |
I | 0030268 | molecular_function | methylenetetrahydromethanopterin dehydrogenase activity |
J | 0006730 | biological_process | one-carbon metabolic process |
J | 0008901 | molecular_function | ferredoxin hydrogenase activity |
J | 0015948 | biological_process | methanogenesis |
J | 0016491 | molecular_function | oxidoreductase activity |
J | 0019386 | biological_process | methanogenesis, from carbon dioxide |
J | 0030268 | molecular_function | methylenetetrahydromethanopterin dehydrogenase activity |
K | 0006730 | biological_process | one-carbon metabolic process |
K | 0008901 | molecular_function | ferredoxin hydrogenase activity |
K | 0015948 | biological_process | methanogenesis |
K | 0016491 | molecular_function | oxidoreductase activity |
K | 0019386 | biological_process | methanogenesis, from carbon dioxide |
K | 0030268 | molecular_function | methylenetetrahydromethanopterin dehydrogenase activity |
L | 0006730 | biological_process | one-carbon metabolic process |
L | 0008901 | molecular_function | ferredoxin hydrogenase activity |
L | 0015948 | biological_process | methanogenesis |
L | 0016491 | molecular_function | oxidoreductase activity |
L | 0019386 | biological_process | methanogenesis, from carbon dioxide |
L | 0030268 | molecular_function | methylenetetrahydromethanopterin dehydrogenase activity |
Functional Information from PDB Data
site_id | AC1 |
Number of Residues | 18 |
Details | BINDING SITE FOR RESIDUE E4M A 284 |
Chain | Residue |
A | ASN13 |
A | GLU130 |
A | ASN141 |
A | LEU144 |
A | CYS221 |
A | TYR230 |
A | HOH440 |
D | GLU26 |
D | ARG27 |
D | ALA28 |
A | LEU14 |
A | GLY15 |
A | VAL42 |
A | MET124 |
A | LEU125 |
A | ALA127 |
A | ARG128 |
A | ARG129 |
site_id | AC2 |
Number of Residues | 20 |
Details | BINDING SITE FOR RESIDUE E4M B 284 |
Chain | Residue |
B | ASN13 |
B | GLY15 |
B | VAL42 |
B | MET124 |
B | LEU125 |
B | ALA127 |
B | ARG128 |
B | ARG129 |
B | GLU130 |
B | ASN141 |
B | LEU144 |
B | CYS221 |
B | TYR230 |
B | HOH304 |
B | HOH576 |
B | HOH769 |
B | HOH1248 |
F | GLU26 |
F | ARG27 |
F | ALA28 |
site_id | AC3 |
Number of Residues | 20 |
Details | BINDING SITE FOR RESIDUE E4M C 284 |
Chain | Residue |
C | ASN13 |
C | GLY15 |
C | VAL42 |
C | MET124 |
C | LEU125 |
C | ALA127 |
C | ARG128 |
C | ARG129 |
C | GLU130 |
C | MET137 |
C | ASN141 |
C | LEU144 |
C | CYS221 |
C | TYR230 |
C | HOH286 |
C | HOH299 |
C | HOH1047 |
E | GLU26 |
E | ARG27 |
E | ALA28 |
site_id | AC4 |
Number of Residues | 19 |
Details | BINDING SITE FOR RESIDUE E4M D 284 |
Chain | Residue |
A | GLU26 |
A | ARG27 |
A | ALA28 |
D | ASN13 |
D | GLY15 |
D | VAL42 |
D | MET124 |
D | LEU125 |
D | ALA127 |
D | ARG128 |
D | ARG129 |
D | GLU130 |
D | ASN141 |
D | LEU144 |
D | CYS221 |
D | TYR230 |
D | HOH296 |
D | HOH777 |
D | HOH1172 |
site_id | AC5 |
Number of Residues | 20 |
Details | BINDING SITE FOR RESIDUE E4M E 284 |
Chain | Residue |
C | GLU26 |
C | ARG27 |
C | ALA28 |
C | HOH306 |
E | ASN13 |
E | GLY15 |
E | VAL42 |
E | MET124 |
E | LEU125 |
E | ALA127 |
E | ARG128 |
E | ARG129 |
E | GLU130 |
E | ASN141 |
E | LEU144 |
E | CYS221 |
E | TYR230 |
E | HOH305 |
E | HOH358 |
E | HOH578 |
site_id | AC6 |
Number of Residues | 4 |
Details | BINDING SITE FOR RESIDUE CA E 285 |
Chain | Residue |
E | GLU47 |
E | GLU50 |
B | GLU85 |
B | ASP89 |
site_id | AC7 |
Number of Residues | 18 |
Details | BINDING SITE FOR RESIDUE E4M F 284 |
Chain | Residue |
B | GLU26 |
B | ARG27 |
B | ALA28 |
B | HOH822 |
F | ASN13 |
F | GLY15 |
F | VAL42 |
F | MET124 |
F | LEU125 |
F | ALA127 |
F | ARG128 |
F | ARG129 |
F | GLU130 |
F | ASN141 |
F | CYS221 |
F | TYR230 |
F | HOH286 |
F | HOH1100 |
site_id | AC8 |
Number of Residues | 1 |
Details | BINDING SITE FOR RESIDUE NA F 285 |
Chain | Residue |
F | HOH1159 |
site_id | AC9 |
Number of Residues | 20 |
Details | BINDING SITE FOR RESIDUE E4M G 284 |
Chain | Residue |
G | ASN13 |
G | GLY15 |
G | VAL42 |
G | MET124 |
G | LEU125 |
G | ALA127 |
G | ARG128 |
G | ARG129 |
G | GLU130 |
G | ASN141 |
G | LEU144 |
G | CYS221 |
G | TYR230 |
G | HOH294 |
G | HOH303 |
G | HOH417 |
G | HOH947 |
J | GLU26 |
J | ARG27 |
J | ALA28 |
site_id | BC1 |
Number of Residues | 18 |
Details | BINDING SITE FOR RESIDUE E4M H 284 |
Chain | Residue |
H | ASN13 |
H | GLY15 |
H | MET124 |
H | LEU125 |
H | ALA127 |
H | ARG128 |
H | ARG129 |
H | GLU130 |
H | ASN141 |
H | LEU144 |
H | CYS221 |
H | TYR230 |
H | HOH306 |
H | HOH310 |
H | HOH735 |
H | HOH1237 |
L | GLU26 |
L | ARG27 |
site_id | BC2 |
Number of Residues | 20 |
Details | BINDING SITE FOR RESIDUE E4M I 284 |
Chain | Residue |
I | ASN13 |
I | GLY15 |
I | VAL42 |
I | MET124 |
I | LEU125 |
I | ALA127 |
I | ARG128 |
I | ARG129 |
I | GLU130 |
I | MET137 |
I | ASN141 |
I | LEU144 |
I | CYS221 |
I | TYR230 |
I | HOH306 |
I | HOH529 |
I | HOH764 |
I | HOH1225 |
K | GLU26 |
K | ARG27 |
site_id | BC3 |
Number of Residues | 7 |
Details | BINDING SITE FOR RESIDUE CA I 285 |
Chain | Residue |
I | ARG129 |
I | GLU130 |
I | PHE131 |
I | LEU132 |
I | ASP133 |
K | ARG263 |
K | PRO265 |
site_id | BC4 |
Number of Residues | 17 |
Details | BINDING SITE FOR RESIDUE E4M J 284 |
Chain | Residue |
G | GLU26 |
G | ARG27 |
J | ASN13 |
J | GLY15 |
J | MET124 |
J | LEU125 |
J | ALA127 |
J | ARG128 |
J | ARG129 |
J | GLU130 |
J | ASN141 |
J | LEU144 |
J | CYS221 |
J | TYR230 |
J | HOH298 |
J | HOH661 |
J | HOH684 |
site_id | BC5 |
Number of Residues | 6 |
Details | BINDING SITE FOR RESIDUE CA J 285 |
Chain | Residue |
J | SER257 |
J | ASN258 |
K | SER257 |
K | ASN258 |
L | SER257 |
L | ASN258 |
site_id | BC6 |
Number of Residues | 19 |
Details | BINDING SITE FOR RESIDUE E4M K 284 |
Chain | Residue |
I | GLU26 |
I | ARG27 |
I | ALA28 |
K | ASN13 |
K | GLY15 |
K | VAL42 |
K | MET124 |
K | LEU125 |
K | ALA127 |
K | ARG128 |
K | ARG129 |
K | GLU130 |
K | ASN141 |
K | LEU144 |
K | CYS221 |
K | TYR230 |
K | HOH295 |
K | HOH430 |
K | HOH783 |
site_id | BC7 |
Number of Residues | 4 |
Details | BINDING SITE FOR RESIDUE CA K 285 |
Chain | Residue |
H | GLU47 |
H | GLU50 |
K | GLU85 |
K | ASP89 |
site_id | BC8 |
Number of Residues | 6 |
Details | BINDING SITE FOR RESIDUE CA K 286 |
Chain | Residue |
K | ASP259 |
K | ALA260 |
K | VAL261 |
K | ARG276 |
K | PHE278 |
L | TYR198 |
site_id | BC9 |
Number of Residues | 19 |
Details | BINDING SITE FOR RESIDUE E4M L 284 |
Chain | Residue |
H | GLU26 |
H | ARG27 |
H | HOH305 |
L | ASN13 |
L | GLY15 |
L | VAL42 |
L | MET124 |
L | LEU125 |
L | ALA127 |
L | ARG128 |
L | ARG129 |
L | GLU130 |
L | ASN141 |
L | LEU144 |
L | CYS221 |
L | TYR230 |
L | HOH293 |
L | HOH808 |
L | HOH817 |
site_id | CC1 |
Number of Residues | 7 |
Details | BINDING SITE FOR RESIDUE CA L 285 |
Chain | Residue |
J | TYR198 |
L | ASP259 |
L | ALA260 |
L | VAL261 |
L | ARG276 |
L | PHE278 |
L | HOH1218 |