5ODC
Heterodisulfide reductase / [NiFe]-hydrogenase complex from Methanothermococcus thermolithotrophicus at 2.3 A resolution
Functional Information from GO Data
Chain | GOid | namespace | contents |
A | 0000166 | molecular_function | nucleotide binding |
A | 0016491 | molecular_function | oxidoreductase activity |
A | 0046872 | molecular_function | metal ion binding |
A | 0051536 | molecular_function | iron-sulfur cluster binding |
A | 0051539 | molecular_function | 4 iron, 4 sulfur cluster binding |
B | 0015948 | biological_process | methanogenesis |
B | 0016491 | molecular_function | oxidoreductase activity |
B | 0051912 | molecular_function | CoB--CoM heterodisulfide reductase activity |
C | 0015948 | biological_process | methanogenesis |
C | 0016491 | molecular_function | oxidoreductase activity |
C | 0046872 | molecular_function | metal ion binding |
C | 0051536 | molecular_function | iron-sulfur cluster binding |
C | 0051539 | molecular_function | 4 iron, 4 sulfur cluster binding |
C | 0051912 | molecular_function | CoB--CoM heterodisulfide reductase activity |
D | 0046872 | molecular_function | metal ion binding |
D | 0051536 | molecular_function | iron-sulfur cluster binding |
D | 0051537 | molecular_function | 2 iron, 2 sulfur cluster binding |
D | 0051912 | molecular_function | CoB--CoM heterodisulfide reductase activity |
E | 0016491 | molecular_function | oxidoreductase activity |
E | 0033748 | molecular_function | hydrogenase (acceptor) activity |
E | 0046872 | molecular_function | metal ion binding |
E | 0047985 | molecular_function | hydrogen dehydrogenase activity |
E | 0051536 | molecular_function | iron-sulfur cluster binding |
E | 0051539 | molecular_function | 4 iron, 4 sulfur cluster binding |
F | 0008901 | molecular_function | ferredoxin hydrogenase activity |
F | 0016151 | molecular_function | nickel cation binding |
F | 0016491 | molecular_function | oxidoreductase activity |
F | 0033748 | molecular_function | hydrogenase (acceptor) activity |
F | 0046872 | molecular_function | metal ion binding |
F | 0047985 | molecular_function | hydrogen dehydrogenase activity |
G | 0000166 | molecular_function | nucleotide binding |
G | 0016491 | molecular_function | oxidoreductase activity |
G | 0046872 | molecular_function | metal ion binding |
G | 0051536 | molecular_function | iron-sulfur cluster binding |
G | 0051539 | molecular_function | 4 iron, 4 sulfur cluster binding |
H | 0015948 | biological_process | methanogenesis |
H | 0016491 | molecular_function | oxidoreductase activity |
H | 0051912 | molecular_function | CoB--CoM heterodisulfide reductase activity |
I | 0015948 | biological_process | methanogenesis |
I | 0016491 | molecular_function | oxidoreductase activity |
I | 0046872 | molecular_function | metal ion binding |
I | 0051536 | molecular_function | iron-sulfur cluster binding |
I | 0051539 | molecular_function | 4 iron, 4 sulfur cluster binding |
I | 0051912 | molecular_function | CoB--CoM heterodisulfide reductase activity |
J | 0046872 | molecular_function | metal ion binding |
J | 0051536 | molecular_function | iron-sulfur cluster binding |
J | 0051537 | molecular_function | 2 iron, 2 sulfur cluster binding |
J | 0051912 | molecular_function | CoB--CoM heterodisulfide reductase activity |
K | 0016491 | molecular_function | oxidoreductase activity |
K | 0033748 | molecular_function | hydrogenase (acceptor) activity |
K | 0046872 | molecular_function | metal ion binding |
K | 0047985 | molecular_function | hydrogen dehydrogenase activity |
K | 0051536 | molecular_function | iron-sulfur cluster binding |
K | 0051539 | molecular_function | 4 iron, 4 sulfur cluster binding |
L | 0008901 | molecular_function | ferredoxin hydrogenase activity |
L | 0016151 | molecular_function | nickel cation binding |
L | 0016491 | molecular_function | oxidoreductase activity |
L | 0033748 | molecular_function | hydrogenase (acceptor) activity |
L | 0046872 | molecular_function | metal ion binding |
L | 0047985 | molecular_function | hydrogen dehydrogenase activity |
Functional Information from PDB Data
site_id | AC1 |
Number of Residues | 40 |
Details | binding site for residue FAD A 701 |
Chain | Residue |
A | ILE149 |
A | GLY180 |
A | ARG181 |
A | LEU185 |
A | LYS187 |
A | THR188 |
A | PHE189 |
A | ALA327 |
A | ILE328 |
A | GLY329 |
A | TYR330 |
A | GLY150 |
A | ALA352 |
A | LEU353 |
A | GLU356 |
A | TYR406 |
A | LYS409 |
A | MET495 |
A | SER500 |
A | VAL504 |
A | GLY539 |
A | ALA540 |
A | GLY151 |
A | LYS545 |
A | ASP546 |
A | ILE547 |
A | PRO548 |
A | SER550 |
A | HOH806 |
A | HOH821 |
A | HOH824 |
A | HOH851 |
A | HOH853 |
A | GLY152 |
A | HOH860 |
A | VAL153 |
A | ALA154 |
A | GLU173 |
A | LYS174 |
A | THR175 |
site_id | AC2 |
Number of Residues | 1 |
Details | binding site for residue NA A 702 |
Chain | Residue |
A | ASP164 |
site_id | AC3 |
Number of Residues | 3 |
Details | binding site for residue ACT A 703 |
Chain | Residue |
A | GLN553 |
G | PRO548 |
G | ALA549 |
site_id | AC4 |
Number of Residues | 5 |
Details | binding site for residue PE3 A 704 |
Chain | Residue |
A | MET165 |
A | PHE167 |
G | MET165 |
G | PHE167 |
G | ALA566 |
site_id | AC5 |
Number of Residues | 7 |
Details | binding site for residue SF4 A 705 |
Chain | Residue |
A | CYS11 |
A | CYS13 |
A | CYS46 |
A | CYS71 |
A | HIS76 |
A | ARG100 |
G | CYS197 |
site_id | AC6 |
Number of Residues | 6 |
Details | binding site for residue SF4 A 706 |
Chain | Residue |
A | CYS246 |
A | THR247 |
A | CYS249 |
A | GLY250 |
A | CYS252 |
A | CYS303 |
site_id | AC7 |
Number of Residues | 4 |
Details | binding site for residue SF4 A 707 |
Chain | Residue |
A | CYS256 |
A | CYS293 |
A | CYS296 |
A | CYS299 |
site_id | AC8 |
Number of Residues | 7 |
Details | binding site for residue SF4 A 708 |
Chain | Residue |
A | GLN385 |
A | CYS386 |
A | SER389 |
A | CYS399 |
A | SER400 |
A | CYS403 |
A | CYS404 |
site_id | AC9 |
Number of Residues | 8 |
Details | binding site for residue SF4 A 709 |
Chain | Residue |
A | CYS584 |
A | CYS587 |
A | GLY588 |
A | CYS590 |
A | ALA610 |
A | CYS627 |
A | SER629 |
A | LEU632 |
site_id | AD1 |
Number of Residues | 6 |
Details | binding site for residue SF4 A 710 |
Chain | Residue |
A | CYS594 |
A | CYS617 |
A | LYS618 |
A | CYS620 |
A | GLY621 |
A | CYS623 |
site_id | AD2 |
Number of Residues | 8 |
Details | binding site for residue GOL A 711 |
Chain | Residue |
A | TYR427 |
A | TYR441 |
A | PHE452 |
A | LEU477 |
A | HOH801 |
C | CYS34 |
C | TYR35 |
C | GLN36 |
site_id | AD3 |
Number of Residues | 7 |
Details | binding site for residue GOL A 712 |
Chain | Residue |
A | HIS636 |
A | PHE637 |
D | ARG39 |
A | GLU77 |
A | ARG81 |
A | GLU573 |
A | ILE575 |
site_id | AD4 |
Number of Residues | 4 |
Details | binding site for residue GOL A 713 |
Chain | Residue |
A | ASP25 |
A | PHE29 |
A | THR32 |
A | LYS119 |
site_id | AD5 |
Number of Residues | 6 |
Details | binding site for residue GOL A 714 |
Chain | Residue |
A | LYS236 |
A | LYS237 |
A | ARG239 |
A | GLN312 |
A | GLU313 |
A | GLU315 |
site_id | AD6 |
Number of Residues | 6 |
Details | binding site for residue 9S8 B 301 |
Chain | Residue |
B | HIS150 |
B | CYS153 |
B | CYS193 |
B | CYS194 |
B | CYS231 |
B | CYS234 |
site_id | AD7 |
Number of Residues | 7 |
Details | binding site for residue 9S8 B 302 |
Chain | Residue |
B | GLY8 |
B | CYS9 |
B | CYS41 |
B | CYS42 |
B | CYS78 |
B | CYS81 |
C | ALA127 |
site_id | AD8 |
Number of Residues | 2 |
Details | binding site for residue ACT B 303 |
Chain | Residue |
B | LYS2 |
B | GLY71 |
site_id | AD9 |
Number of Residues | 3 |
Details | binding site for residue GOL B 304 |
Chain | Residue |
B | GLY46 |
B | GLY198 |
B | PHE233 |
site_id | AE1 |
Number of Residues | 6 |
Details | binding site for residue SF4 C 201 |
Chain | Residue |
C | CYS34 |
C | TYR35 |
C | CYS37 |
C | GLY38 |
C | CYS40 |
C | CYS87 |
site_id | AE2 |
Number of Residues | 9 |
Details | binding site for residue SF4 C 202 |
Chain | Residue |
C | CYS44 |
C | TYR52 |
C | THR54 |
C | CYS77 |
C | THR78 |
C | CYS80 |
C | TYR81 |
C | CYS83 |
C | THR94 |
site_id | AE3 |
Number of Residues | 6 |
Details | binding site for residue GOL C 203 |
Chain | Residue |
C | ARG53 |
C | LYS56 |
C | VAL57 |
C | LYS60 |
C | SER71 |
C | ASP73 |
site_id | AE4 |
Number of Residues | 7 |
Details | binding site for residue FES D 201 |
Chain | Residue |
D | CYS13 |
D | MET41 |
D | CYS42 |
D | SER43 |
D | CYS67 |
D | CYS72 |
D | HIS73 |
site_id | AE5 |
Number of Residues | 7 |
Details | binding site for residue TRS D 202 |
Chain | Residue |
D | TRP4 |
D | LYS7 |
D | GLY58 |
D | ASP60 |
D | CYS132 |
D | LYS133 |
D | GLU136 |
site_id | AE6 |
Number of Residues | 5 |
Details | binding site for residue GOL D 203 |
Chain | Residue |
D | HIS104 |
D | GLU105 |
D | TRP106 |
D | HOH301 |
D | HOH329 |
site_id | AE7 |
Number of Residues | 7 |
Details | binding site for residue SF4 E 301 |
Chain | Residue |
E | CYS12 |
E | GLY14 |
E | CYS15 |
E | THR84 |
E | CYS85 |
E | CYS149 |
F | HIS163 |
site_id | AE8 |
Number of Residues | 6 |
Details | binding site for residue SF4 E 302 |
Chain | Residue |
E | CYS177 |
E | CYS180 |
E | LYS184 |
E | CYS207 |
E | LEU208 |
E | CYS215 |
site_id | AE9 |
Number of Residues | 8 |
Details | binding site for residue SF4 E 303 |
Chain | Residue |
E | LEU176 |
E | CYS224 |
E | CYS228 |
E | CYS235 |
E | SER236 |
E | CYS238 |
E | SER239 |
F | ARG160 |
site_id | AF1 |
Number of Residues | 3 |
Details | binding site for residue GOL E 304 |
Chain | Residue |
E | ALA87 |
E | SER137 |
E | PHE145 |
site_id | AF2 |
Number of Residues | 6 |
Details | binding site for residue CA F 501 |
Chain | Residue |
F | GLU42 |
F | LEU395 |
F | HIS448 |
F | HOH611 |
F | HOH612 |
F | HOH634 |
site_id | AF3 |
Number of Residues | 5 |
Details | binding site for residue MG F 502 |
Chain | Residue |
E | ASP279 |
F | ARG48 |
F | TYR49 |
F | ASP52 |
F | TYR56 |
site_id | AF4 |
Number of Residues | 3 |
Details | binding site for residue ACT F 503 |
Chain | Residue |
F | GLY247 |
F | ASP299 |
F | LYS319 |
site_id | AF5 |
Number of Residues | 12 |
Details | binding site for residue NFU F 504 |
Chain | Residue |
F | CYS61 |
F | CYS64 |
F | HIS68 |
F | ALA373 |
F | PRO374 |
F | ARG375 |
F | LEU378 |
F | VAL397 |
F | ALA398 |
F | THR399 |
F | CYS442 |
F | CYS445 |
site_id | AF6 |
Number of Residues | 39 |
Details | binding site for residue FAD G 701 |
Chain | Residue |
G | GLY150 |
G | GLY152 |
G | VAL153 |
G | ALA154 |
G | VAL172 |
G | GLU173 |
G | LYS174 |
G | THR175 |
G | GLY180 |
G | ARG181 |
G | MET182 |
G | LEU185 |
G | THR188 |
G | PHE189 |
G | ALA327 |
G | ILE328 |
G | GLY329 |
G | TYR330 |
G | LEU353 |
G | GLU356 |
G | TYR406 |
G | LYS409 |
G | MET495 |
G | SER500 |
G | VAL504 |
G | GLY539 |
G | ALA540 |
G | LYS545 |
G | ASP546 |
G | ILE547 |
G | PRO548 |
G | SER550 |
G | HOH803 |
G | HOH808 |
G | HOH811 |
G | HOH858 |
G | HOH864 |
G | HOH885 |
G | HOH931 |
site_id | AF7 |
Number of Residues | 6 |
Details | binding site for residue NA G 702 |
Chain | Residue |
G | VAL206 |
G | ALA207 |
G | LYS208 |
G | HIS209 |
G | VAL212 |
G | HOH876 |
site_id | AF8 |
Number of Residues | 4 |
Details | binding site for residue ACT G 703 |
Chain | Residue |
B | GLU168 |
G | VAL337 |
G | GLU339 |
G | GLU340 |
site_id | AF9 |
Number of Residues | 6 |
Details | binding site for residue ACT G 704 |
Chain | Residue |
A | PRO548 |
A | ALA549 |
A | ALA552 |
A | HOH886 |
G | GLN542 |
G | GLN553 |
site_id | AG1 |
Number of Residues | 7 |
Details | binding site for residue SF4 G 705 |
Chain | Residue |
G | CYS584 |
G | CYS587 |
G | GLY588 |
G | CYS590 |
G | CYS627 |
G | SER629 |
K | ASN175 |
site_id | AG2 |
Number of Residues | 7 |
Details | binding site for residue SF4 G 706 |
Chain | Residue |
A | CYS197 |
G | CYS11 |
G | CYS13 |
G | CYS46 |
G | CYS71 |
G | HIS76 |
G | ARG100 |
site_id | AG3 |
Number of Residues | 6 |
Details | binding site for residue SF4 G 707 |
Chain | Residue |
G | CYS256 |
G | CYS293 |
G | ILE294 |
G | GLU295 |
G | CYS296 |
G | CYS299 |
site_id | AG4 |
Number of Residues | 8 |
Details | binding site for residue SF4 G 708 |
Chain | Residue |
G | CYS386 |
G | SER389 |
G | ARG390 |
G | CYS399 |
G | SER400 |
G | ASN401 |
G | CYS403 |
G | CYS404 |
site_id | AG5 |
Number of Residues | 6 |
Details | binding site for residue SF4 G 709 |
Chain | Residue |
G | CYS246 |
G | THR247 |
G | CYS249 |
G | GLY250 |
G | CYS252 |
G | CYS303 |
site_id | AG6 |
Number of Residues | 6 |
Details | binding site for residue SF4 G 710 |
Chain | Residue |
G | CYS594 |
G | CYS617 |
G | LYS618 |
G | CYS620 |
G | GLY621 |
G | CYS623 |
site_id | AG7 |
Number of Residues | 7 |
Details | binding site for residue GOL G 711 |
Chain | Residue |
G | TYR427 |
G | TYR441 |
G | PHE452 |
G | LEU477 |
I | CYS34 |
I | TYR35 |
I | GLN36 |
site_id | AG8 |
Number of Residues | 5 |
Details | binding site for residue GOL G 712 |
Chain | Residue |
G | GLU77 |
G | ARG81 |
G | GLU573 |
G | HIS636 |
J | ARG39 |
site_id | AG9 |
Number of Residues | 4 |
Details | binding site for residue GOL G 713 |
Chain | Residue |
G | THR175 |
G | ARG181 |
G | PHE264 |
G | HOH887 |
site_id | AH1 |
Number of Residues | 7 |
Details | binding site for residue GOL G 714 |
Chain | Residue |
G | LYS236 |
G | LYS237 |
G | ILE241 |
G | GLU243 |
G | GLN312 |
G | GLU313 |
G | GLU315 |
site_id | AH2 |
Number of Residues | 6 |
Details | binding site for residue 9S8 H 301 |
Chain | Residue |
H | GLY8 |
H | CYS9 |
H | CYS41 |
H | CYS42 |
H | CYS78 |
H | CYS81 |
site_id | AH3 |
Number of Residues | 6 |
Details | binding site for residue 9S8 H 302 |
Chain | Residue |
H | HIS150 |
H | CYS153 |
H | CYS193 |
H | CYS194 |
H | CYS231 |
H | CYS234 |
site_id | AH4 |
Number of Residues | 3 |
Details | binding site for residue MG I 201 |
Chain | Residue |
I | ARG53 |
I | ASP73 |
I | HOH321 |
site_id | AH5 |
Number of Residues | 9 |
Details | binding site for residue SF4 I 202 |
Chain | Residue |
I | CYS44 |
I | TYR52 |
I | THR54 |
I | CYS77 |
I | THR78 |
I | CYS80 |
I | TYR81 |
I | CYS83 |
I | THR94 |
site_id | AH6 |
Number of Residues | 6 |
Details | binding site for residue SF4 I 203 |
Chain | Residue |
I | CYS34 |
I | TYR35 |
I | CYS37 |
I | GLY38 |
I | CYS40 |
I | CYS87 |
site_id | AH7 |
Number of Residues | 8 |
Details | binding site for residue FES J 201 |
Chain | Residue |
J | CYS13 |
J | MET41 |
J | CYS42 |
J | SER43 |
J | CYS67 |
J | CYS72 |
J | HIS73 |
J | TYR74 |
site_id | AH8 |
Number of Residues | 8 |
Details | binding site for residue SF4 K 301 |
Chain | Residue |
K | CYS12 |
K | CYS15 |
K | THR84 |
K | CYS85 |
K | GLY148 |
K | CYS149 |
L | ARG59 |
L | HIS163 |
site_id | AH9 |
Number of Residues | 7 |
Details | binding site for residue SF4 K 302 |
Chain | Residue |
K | LEU176 |
K | CYS224 |
K | CYS228 |
K | CYS235 |
K | SER236 |
K | CYS238 |
L | ARG160 |
site_id | AI1 |
Number of Residues | 6 |
Details | binding site for residue SF4 K 303 |
Chain | Residue |
K | CYS177 |
K | CYS180 |
K | LYS184 |
K | CYS207 |
K | LEU208 |
K | CYS215 |
site_id | AI2 |
Number of Residues | 7 |
Details | binding site for residue GOL K 304 |
Chain | Residue |
K | PHE88 |
K | ARG221 |
K | PRO241 |
K | THR242 |
K | VAL245 |
K | VAL246 |
K | GOL305 |
site_id | AI3 |
Number of Residues | 4 |
Details | binding site for residue GOL K 305 |
Chain | Residue |
K | ALA87 |
K | SER137 |
K | PHE145 |
K | GOL304 |
site_id | AI4 |
Number of Residues | 5 |
Details | binding site for residue GOL K 306 |
Chain | Residue |
K | THR7 |
K | HIS37 |
K | LYS45 |
K | ILE68 |
L | PRO8 |
site_id | AI5 |
Number of Residues | 6 |
Details | binding site for residue CA L 501 |
Chain | Residue |
L | GLU42 |
L | LEU395 |
L | HIS448 |
L | HOH606 |
L | HOH613 |
L | HOH623 |
site_id | AI6 |
Number of Residues | 12 |
Details | binding site for residue NFU L 502 |
Chain | Residue |
L | CYS61 |
L | CYS64 |
L | HIS68 |
L | ALA373 |
L | PRO374 |
L | ARG375 |
L | LEU378 |
L | VAL397 |
L | ALA398 |
L | THR399 |
L | CYS442 |
L | CYS445 |
Functional Information from PROSITE/UniProt
site_id | PS00507 |
Number of Residues | 26 |
Details | NI_HGENASE_L_1 Nickel-dependent hydrogenases large subunit signature 1. RGFEkflegryvedapiytPRiCGIC |
Chain | Residue | Details |
F | ARG39-CYS64 |
site_id | PS00508 |
Number of Residues | 10 |
Details | NI_HGENASE_L_2 Nickel-dependent hydrogenases large subunit signature 2. YDPCLSCat.H |
Chain | Residue | Details |
F | TYR439-HIS448 |
site_id | PS00198 |
Number of Residues | 12 |
Details | 4FE4S_FER_1 4Fe-4S ferredoxin-type iron-sulfur binding region signature. CyQCGtCTgSCP |
Chain | Residue | Details |
C | CYS34-PRO45 | |
C | CYS77-PRO88 | |
A | CYS246-PRO257 | |
A | CYS293-GLY304 | |
A | CYS584-PRO595 |