3KDN
Crystal structure of Type III Rubisco SP4 mutant complexed with 2-CABP
Functional Information from GO Data
Chain | GOid | namespace | contents |
A | 0000287 | molecular_function | magnesium ion binding |
A | 0006196 | biological_process | AMP catabolic process |
A | 0015977 | biological_process | carbon fixation |
A | 0016491 | molecular_function | oxidoreductase activity |
A | 0016829 | molecular_function | lyase activity |
A | 0016984 | molecular_function | ribulose-bisphosphate carboxylase activity |
A | 0046872 | molecular_function | metal ion binding |
B | 0000287 | molecular_function | magnesium ion binding |
B | 0006196 | biological_process | AMP catabolic process |
B | 0015977 | biological_process | carbon fixation |
B | 0016491 | molecular_function | oxidoreductase activity |
B | 0016829 | molecular_function | lyase activity |
B | 0016984 | molecular_function | ribulose-bisphosphate carboxylase activity |
B | 0046872 | molecular_function | metal ion binding |
C | 0000287 | molecular_function | magnesium ion binding |
C | 0006196 | biological_process | AMP catabolic process |
C | 0015977 | biological_process | carbon fixation |
C | 0016491 | molecular_function | oxidoreductase activity |
C | 0016829 | molecular_function | lyase activity |
C | 0016984 | molecular_function | ribulose-bisphosphate carboxylase activity |
C | 0046872 | molecular_function | metal ion binding |
D | 0000287 | molecular_function | magnesium ion binding |
D | 0006196 | biological_process | AMP catabolic process |
D | 0015977 | biological_process | carbon fixation |
D | 0016491 | molecular_function | oxidoreductase activity |
D | 0016829 | molecular_function | lyase activity |
D | 0016984 | molecular_function | ribulose-bisphosphate carboxylase activity |
D | 0046872 | molecular_function | metal ion binding |
E | 0000287 | molecular_function | magnesium ion binding |
E | 0006196 | biological_process | AMP catabolic process |
E | 0015977 | biological_process | carbon fixation |
E | 0016491 | molecular_function | oxidoreductase activity |
E | 0016829 | molecular_function | lyase activity |
E | 0016984 | molecular_function | ribulose-bisphosphate carboxylase activity |
E | 0046872 | molecular_function | metal ion binding |
F | 0000287 | molecular_function | magnesium ion binding |
F | 0006196 | biological_process | AMP catabolic process |
F | 0015977 | biological_process | carbon fixation |
F | 0016491 | molecular_function | oxidoreductase activity |
F | 0016829 | molecular_function | lyase activity |
F | 0016984 | molecular_function | ribulose-bisphosphate carboxylase activity |
F | 0046872 | molecular_function | metal ion binding |
G | 0000287 | molecular_function | magnesium ion binding |
G | 0006196 | biological_process | AMP catabolic process |
G | 0015977 | biological_process | carbon fixation |
G | 0016491 | molecular_function | oxidoreductase activity |
G | 0016829 | molecular_function | lyase activity |
G | 0016984 | molecular_function | ribulose-bisphosphate carboxylase activity |
G | 0046872 | molecular_function | metal ion binding |
H | 0000287 | molecular_function | magnesium ion binding |
H | 0006196 | biological_process | AMP catabolic process |
H | 0015977 | biological_process | carbon fixation |
H | 0016491 | molecular_function | oxidoreductase activity |
H | 0016829 | molecular_function | lyase activity |
H | 0016984 | molecular_function | ribulose-bisphosphate carboxylase activity |
H | 0046872 | molecular_function | metal ion binding |
I | 0000287 | molecular_function | magnesium ion binding |
I | 0006196 | biological_process | AMP catabolic process |
I | 0015977 | biological_process | carbon fixation |
I | 0016491 | molecular_function | oxidoreductase activity |
I | 0016829 | molecular_function | lyase activity |
I | 0016984 | molecular_function | ribulose-bisphosphate carboxylase activity |
I | 0046872 | molecular_function | metal ion binding |
J | 0000287 | molecular_function | magnesium ion binding |
J | 0006196 | biological_process | AMP catabolic process |
J | 0015977 | biological_process | carbon fixation |
J | 0016491 | molecular_function | oxidoreductase activity |
J | 0016829 | molecular_function | lyase activity |
J | 0016984 | molecular_function | ribulose-bisphosphate carboxylase activity |
J | 0046872 | molecular_function | metal ion binding |
Functional Information from PDB Data
site_id | AC1 |
Number of Residues | 6 |
Details | BINDING SITE FOR RESIDUE MG A 500 |
Chain | Residue |
A | LYS165 |
A | KCX189 |
A | ASP191 |
A | GLU192 |
A | CAP600 |
H | ASN111 |
site_id | AC2 |
Number of Residues | 26 |
Details | BINDING SITE FOR RESIDUE CAP A 600 |
Chain | Residue |
A | KCX189 |
A | ASP191 |
A | GLU192 |
A | HIS281 |
A | ARG282 |
A | HIS314 |
A | LYS322 |
A | LEU323 |
A | SER367 |
A | GLY368 |
A | GLY369 |
A | GLN389 |
A | GLY391 |
A | GLY392 |
A | HOH495 |
A | MG500 |
A | HOH645 |
A | HOH1278 |
A | HOH1893 |
A | HOH2850 |
H | THR54 |
H | TRP55 |
H | ASN111 |
A | VAL161 |
A | LYS163 |
A | LYS165 |
site_id | AC3 |
Number of Residues | 4 |
Details | BINDING SITE FOR RESIDUE MG B 500 |
Chain | Residue |
B | KCX189 |
B | ASP191 |
B | GLU192 |
B | CAP600 |
site_id | AC4 |
Number of Residues | 28 |
Details | BINDING SITE FOR RESIDUE CAP B 600 |
Chain | Residue |
B | LYS163 |
B | LYS165 |
B | KCX189 |
B | ASP191 |
B | GLU192 |
B | HIS281 |
B | ARG282 |
B | HIS314 |
B | LYS322 |
B | LEU323 |
B | SER367 |
B | GLY368 |
B | GLY369 |
B | GLN389 |
B | GLY391 |
B | GLY392 |
B | HOH467 |
B | HOH468 |
B | HOH472 |
B | HOH499 |
B | MG500 |
B | HOH2398 |
B | HOH2720 |
B | HOH2839 |
G | GLU49 |
G | TRP55 |
G | ASN111 |
G | HOH466 |
site_id | AC5 |
Number of Residues | 5 |
Details | BINDING SITE FOR RESIDUE MG C 500 |
Chain | Residue |
C | KCX189 |
C | ASP191 |
C | GLU192 |
C | CAP600 |
F | ASN111 |
site_id | AC6 |
Number of Residues | 29 |
Details | BINDING SITE FOR RESIDUE CAP C 600 |
Chain | Residue |
C | LYS163 |
C | LYS165 |
C | KCX189 |
C | ASP191 |
C | GLU192 |
C | HIS281 |
C | ARG282 |
C | HIS314 |
C | LYS322 |
C | LEU323 |
C | SER367 |
C | GLY368 |
C | GLY369 |
C | GLN389 |
C | GLY391 |
C | GLY392 |
C | HOH445 |
C | HOH457 |
C | HOH461 |
C | HOH487 |
C | MG500 |
C | HOH616 |
C | HOH691 |
C | HOH2321 |
F | GLU49 |
F | TRP55 |
F | ASN111 |
F | HOH503 |
F | HOH1009 |
site_id | AC7 |
Number of Residues | 4 |
Details | BINDING SITE FOR RESIDUE MG D 500 |
Chain | Residue |
D | ASP191 |
D | GLU192 |
D | CAP600 |
D | KCX189 |
site_id | AC8 |
Number of Residues | 28 |
Details | BINDING SITE FOR RESIDUE CAP D 600 |
Chain | Residue |
D | LYS163 |
D | LYS165 |
D | KCX189 |
D | ASP191 |
D | GLU192 |
D | HIS281 |
D | ARG282 |
D | HIS314 |
D | LYS322 |
D | LEU323 |
D | SER367 |
D | GLY368 |
D | GLY369 |
D | GLN389 |
D | GLY391 |
D | GLY392 |
D | HOH445 |
D | HOH452 |
D | HOH458 |
D | MG500 |
D | HOH510 |
D | HOH1721 |
D | HOH2695 |
D | HOH2855 |
J | GLU49 |
J | TRP55 |
J | ASN111 |
J | HOH2762 |
site_id | AC9 |
Number of Residues | 4 |
Details | BINDING SITE FOR RESIDUE MG E 500 |
Chain | Residue |
E | KCX189 |
E | ASP191 |
E | GLU192 |
E | CAP600 |
site_id | BC1 |
Number of Residues | 28 |
Details | BINDING SITE FOR RESIDUE CAP E 600 |
Chain | Residue |
E | LYS163 |
E | LYS165 |
E | KCX189 |
E | ASP191 |
E | GLU192 |
E | HIS281 |
E | ARG282 |
E | HIS314 |
E | LYS322 |
E | LEU323 |
E | SER367 |
E | GLY368 |
E | GLY369 |
E | GLN389 |
E | GLY391 |
E | GLY392 |
E | HOH483 |
E | HOH494 |
E | MG500 |
E | HOH654 |
E | HOH676 |
E | HOH1879 |
E | HOH2240 |
I | GLU49 |
I | TRP55 |
I | ASN111 |
I | HOH463 |
I | HOH465 |
site_id | BC2 |
Number of Residues | 5 |
Details | BINDING SITE FOR RESIDUE MG F 500 |
Chain | Residue |
C | ASN111 |
F | KCX189 |
F | ASP191 |
F | GLU192 |
F | CAP600 |
site_id | BC3 |
Number of Residues | 28 |
Details | BINDING SITE FOR RESIDUE CAP F 600 |
Chain | Residue |
C | GLU49 |
C | THR54 |
C | TRP55 |
C | ASN111 |
C | HOH451 |
C | HOH478 |
F | LYS163 |
F | LYS165 |
F | KCX189 |
F | ASP191 |
F | GLU192 |
F | HIS281 |
F | ARG282 |
F | HIS314 |
F | LYS322 |
F | LEU323 |
F | SER367 |
F | GLY368 |
F | GLY369 |
F | GLN389 |
F | GLY391 |
F | GLY392 |
F | HOH445 |
F | HOH464 |
F | HOH490 |
F | HOH495 |
F | HOH498 |
F | MG500 |
site_id | BC4 |
Number of Residues | 5 |
Details | BINDING SITE FOR RESIDUE MG G 500 |
Chain | Residue |
B | ASN111 |
G | KCX189 |
G | ASP191 |
G | GLU192 |
G | CAP600 |
site_id | BC5 |
Number of Residues | 28 |
Details | BINDING SITE FOR RESIDUE CAP G 600 |
Chain | Residue |
B | GLU49 |
B | TRP55 |
B | ASN111 |
B | HOH448 |
B | HOH454 |
G | LYS163 |
G | LYS165 |
G | KCX189 |
G | ASP191 |
G | GLU192 |
G | HIS281 |
G | ARG282 |
G | HIS314 |
G | LYS322 |
G | LEU323 |
G | SER367 |
G | GLY368 |
G | GLY369 |
G | GLN389 |
G | GLY391 |
G | GLY392 |
G | HOH446 |
G | HOH456 |
G | HOH469 |
G | HOH485 |
G | MG500 |
G | HOH530 |
G | HOH1761 |
site_id | BC6 |
Number of Residues | 4 |
Details | BINDING SITE FOR RESIDUE MG H 500 |
Chain | Residue |
H | KCX189 |
H | ASP191 |
H | GLU192 |
H | CAP600 |
site_id | BC7 |
Number of Residues | 25 |
Details | BINDING SITE FOR RESIDUE CAP H 600 |
Chain | Residue |
A | TRP55 |
A | ASN111 |
A | HOH1659 |
H | LYS163 |
H | LYS165 |
H | KCX189 |
H | ASP191 |
H | GLU192 |
H | HIS281 |
H | ARG282 |
H | HIS314 |
H | LYS322 |
H | LEU323 |
H | SER367 |
H | GLY368 |
H | GLY369 |
H | GLN389 |
H | GLY391 |
H | GLY392 |
H | HOH457 |
H | MG500 |
H | HOH1169 |
H | HOH1230 |
H | HOH2657 |
H | HOH2710 |
site_id | BC8 |
Number of Residues | 4 |
Details | BINDING SITE FOR RESIDUE MG I 500 |
Chain | Residue |
I | KCX189 |
I | ASP191 |
I | GLU192 |
I | CAP600 |
site_id | BC9 |
Number of Residues | 28 |
Details | BINDING SITE FOR RESIDUE CAP I 600 |
Chain | Residue |
E | GLU49 |
E | TRP55 |
E | ASN111 |
E | HOH505 |
I | LYS163 |
I | LYS165 |
I | KCX189 |
I | ASP191 |
I | GLU192 |
I | HIS281 |
I | ARG282 |
I | HIS314 |
I | LYS322 |
I | LEU323 |
I | SER367 |
I | GLY368 |
I | GLY369 |
I | GLN389 |
I | GLY391 |
I | GLY392 |
I | HOH445 |
I | HOH451 |
I | HOH471 |
I | HOH478 |
I | HOH482 |
I | HOH483 |
I | HOH491 |
I | MG500 |
site_id | CC1 |
Number of Residues | 5 |
Details | BINDING SITE FOR RESIDUE MG J 500 |
Chain | Residue |
D | ASN111 |
J | KCX189 |
J | ASP191 |
J | GLU192 |
J | CAP600 |
site_id | CC2 |
Number of Residues | 28 |
Details | BINDING SITE FOR RESIDUE CAP J 600 |
Chain | Residue |
D | GLU49 |
D | TRP55 |
D | ASN111 |
D | HOH482 |
D | HOH484 |
J | LYS163 |
J | LYS165 |
J | KCX189 |
J | ASP191 |
J | GLU192 |
J | HIS281 |
J | ARG282 |
J | HIS314 |
J | LYS322 |
J | LEU323 |
J | SER367 |
J | GLY368 |
J | GLY369 |
J | GLN389 |
J | GLY391 |
J | GLY392 |
J | HOH445 |
J | HOH481 |
J | MG500 |
J | HOH578 |
J | HOH602 |
J | HOH1892 |
J | HOH1895 |
Functional Information from SwissProt/UniProt
site_id | SWS_FT_FI1 |
Number of Residues | 20 |
Details | ACT_SITE: Proton acceptor => ECO:0000255|HAMAP-Rule:MF_01133 |
Chain | Residue | Details |
A | LYS163 | |
E | HIS281 | |
F | LYS163 | |
F | HIS281 | |
G | LYS163 | |
G | HIS281 | |
H | LYS163 | |
H | HIS281 | |
I | LYS163 | |
I | HIS281 | |
J | LYS163 | |
A | HIS281 | |
J | HIS281 | |
B | LYS163 | |
B | HIS281 | |
C | LYS163 | |
C | HIS281 | |
D | LYS163 | |
D | HIS281 | |
E | LYS163 |
site_id | SWS_FT_FI2 |
Number of Residues | 50 |
Details | BINDING: BINDING => ECO:0000305 |
Chain | Residue | Details |
A | LYS165 | |
B | GLN389 | |
C | LYS165 | |
C | ARG282 | |
C | HIS314 | |
C | SER367 | |
C | GLN389 | |
D | LYS165 | |
D | ARG282 | |
D | HIS314 | |
D | SER367 | |
A | ARG282 | |
D | GLN389 | |
E | LYS165 | |
E | ARG282 | |
E | HIS314 | |
E | SER367 | |
E | GLN389 | |
F | LYS165 | |
F | ARG282 | |
F | HIS314 | |
F | SER367 | |
A | HIS314 | |
F | GLN389 | |
G | LYS165 | |
G | ARG282 | |
G | HIS314 | |
G | SER367 | |
G | GLN389 | |
H | LYS165 | |
H | ARG282 | |
H | HIS314 | |
H | SER367 | |
A | SER367 | |
H | GLN389 | |
I | LYS165 | |
I | ARG282 | |
I | HIS314 | |
I | SER367 | |
I | GLN389 | |
J | LYS165 | |
J | ARG282 | |
J | HIS314 | |
J | SER367 | |
A | GLN389 | |
J | GLN389 | |
B | LYS165 | |
B | ARG282 | |
B | HIS314 | |
B | SER367 |
site_id | SWS_FT_FI3 |
Number of Residues | 10 |
Details | BINDING: via carbamate group => ECO:0000255|HAMAP-Rule:MF_01133, ECO:0000269|PubMed:20926376 |
Chain | Residue | Details |
A | KCX189 | |
J | KCX189 | |
B | KCX189 | |
C | KCX189 | |
D | KCX189 | |
E | KCX189 | |
F | KCX189 | |
G | KCX189 | |
H | KCX189 | |
I | KCX189 |
site_id | SWS_FT_FI4 |
Number of Residues | 20 |
Details | BINDING: BINDING => ECO:0000255|HAMAP-Rule:MF_01133, ECO:0000269|PubMed:20926376 |
Chain | Residue | Details |
A | ASP191 | |
E | GLU192 | |
F | ASP191 | |
F | GLU192 | |
G | ASP191 | |
G | GLU192 | |
H | ASP191 | |
H | GLU192 | |
I | ASP191 | |
I | GLU192 | |
J | ASP191 | |
A | GLU192 | |
J | GLU192 | |
B | ASP191 | |
B | GLU192 | |
C | ASP191 | |
C | GLU192 | |
D | ASP191 | |
D | GLU192 | |
E | ASP191 |
site_id | SWS_FT_FI5 |
Number of Residues | 10 |
Details | SITE: Transition state stabilizer => ECO:0000255|HAMAP-Rule:MF_01133 |
Chain | Residue | Details |
A | LYS322 | |
J | LYS322 | |
B | LYS322 | |
C | LYS322 | |
D | LYS322 | |
E | LYS322 | |
F | LYS322 | |
G | LYS322 | |
H | LYS322 | |
I | LYS322 |
site_id | SWS_FT_FI6 |
Number of Residues | 10 |
Details | MOD_RES: N6-carboxylysine => ECO:0000255|HAMAP-Rule:MF_01133, ECO:0000269|PubMed:20926376 |
Chain | Residue | Details |
A | KCX189 | |
J | KCX189 | |
B | KCX189 | |
C | KCX189 | |
D | KCX189 | |
E | KCX189 | |
F | KCX189 | |
G | KCX189 | |
H | KCX189 | |
I | KCX189 |