5C0Z
The structure of oxidized rat cytochrome c at 1.13 angstroms resolution
Functional Information from GO Data
Chain | GOid | namespace | contents |
A | 0002931 | biological_process | response to ischemia |
A | 0005739 | cellular_component | mitochondrion |
A | 0005758 | cellular_component | mitochondrial intermembrane space |
A | 0005829 | cellular_component | cytosol |
A | 0006122 | biological_process | mitochondrial electron transport, ubiquinol to cytochrome c |
A | 0006123 | biological_process | mitochondrial electron transport, cytochrome c to oxygen |
A | 0006915 | biological_process | apoptotic process |
A | 0006979 | biological_process | response to oxidative stress |
A | 0009055 | molecular_function | electron transfer activity |
A | 0009629 | biological_process | response to gravity |
A | 0010730 | biological_process | negative regulation of hydrogen peroxide biosynthetic process |
A | 0019899 | molecular_function | enzyme binding |
A | 0020037 | molecular_function | heme binding |
A | 0034349 | biological_process | glial cell apoptotic process |
A | 0034465 | biological_process | response to carbon monoxide |
A | 0042743 | biological_process | hydrogen peroxide metabolic process |
A | 0043293 | cellular_component | apoptosome |
A | 0046688 | biological_process | response to copper ion |
A | 0046872 | molecular_function | metal ion binding |
A | 0070469 | cellular_component | respirasome |
A | 1901857 | biological_process | positive regulation of cellular respiration |
B | 0002931 | biological_process | response to ischemia |
B | 0005739 | cellular_component | mitochondrion |
B | 0005758 | cellular_component | mitochondrial intermembrane space |
B | 0005829 | cellular_component | cytosol |
B | 0006122 | biological_process | mitochondrial electron transport, ubiquinol to cytochrome c |
B | 0006123 | biological_process | mitochondrial electron transport, cytochrome c to oxygen |
B | 0006915 | biological_process | apoptotic process |
B | 0006979 | biological_process | response to oxidative stress |
B | 0009055 | molecular_function | electron transfer activity |
B | 0009629 | biological_process | response to gravity |
B | 0010730 | biological_process | negative regulation of hydrogen peroxide biosynthetic process |
B | 0019899 | molecular_function | enzyme binding |
B | 0020037 | molecular_function | heme binding |
B | 0034349 | biological_process | glial cell apoptotic process |
B | 0034465 | biological_process | response to carbon monoxide |
B | 0042743 | biological_process | hydrogen peroxide metabolic process |
B | 0043293 | cellular_component | apoptosome |
B | 0046688 | biological_process | response to copper ion |
B | 0046872 | molecular_function | metal ion binding |
B | 0070469 | cellular_component | respirasome |
B | 1901857 | biological_process | positive regulation of cellular respiration |
C | 0002931 | biological_process | response to ischemia |
C | 0005739 | cellular_component | mitochondrion |
C | 0005758 | cellular_component | mitochondrial intermembrane space |
C | 0005829 | cellular_component | cytosol |
C | 0006122 | biological_process | mitochondrial electron transport, ubiquinol to cytochrome c |
C | 0006123 | biological_process | mitochondrial electron transport, cytochrome c to oxygen |
C | 0006915 | biological_process | apoptotic process |
C | 0006979 | biological_process | response to oxidative stress |
C | 0009055 | molecular_function | electron transfer activity |
C | 0009629 | biological_process | response to gravity |
C | 0010730 | biological_process | negative regulation of hydrogen peroxide biosynthetic process |
C | 0019899 | molecular_function | enzyme binding |
C | 0020037 | molecular_function | heme binding |
C | 0034349 | biological_process | glial cell apoptotic process |
C | 0034465 | biological_process | response to carbon monoxide |
C | 0042743 | biological_process | hydrogen peroxide metabolic process |
C | 0043293 | cellular_component | apoptosome |
C | 0046688 | biological_process | response to copper ion |
C | 0046872 | molecular_function | metal ion binding |
C | 0070469 | cellular_component | respirasome |
C | 1901857 | biological_process | positive regulation of cellular respiration |
D | 0002931 | biological_process | response to ischemia |
D | 0005739 | cellular_component | mitochondrion |
D | 0005758 | cellular_component | mitochondrial intermembrane space |
D | 0005829 | cellular_component | cytosol |
D | 0006122 | biological_process | mitochondrial electron transport, ubiquinol to cytochrome c |
D | 0006123 | biological_process | mitochondrial electron transport, cytochrome c to oxygen |
D | 0006915 | biological_process | apoptotic process |
D | 0006979 | biological_process | response to oxidative stress |
D | 0009055 | molecular_function | electron transfer activity |
D | 0009629 | biological_process | response to gravity |
D | 0010730 | biological_process | negative regulation of hydrogen peroxide biosynthetic process |
D | 0019899 | molecular_function | enzyme binding |
D | 0020037 | molecular_function | heme binding |
D | 0034349 | biological_process | glial cell apoptotic process |
D | 0034465 | biological_process | response to carbon monoxide |
D | 0042743 | biological_process | hydrogen peroxide metabolic process |
D | 0043293 | cellular_component | apoptosome |
D | 0046688 | biological_process | response to copper ion |
D | 0046872 | molecular_function | metal ion binding |
D | 0070469 | cellular_component | respirasome |
D | 1901857 | biological_process | positive regulation of cellular respiration |
Functional Information from PDB Data
site_id | AC1 |
Number of Residues | 20 |
Details | binding site for residue HEC A 201 |
Chain | Residue |
A | LYS13 |
A | TYR48 |
A | THR49 |
A | ASN52 |
A | TRP59 |
A | TYR67 |
A | THR78 |
A | LYS79 |
A | MET80 |
A | ILE81 |
A | PHE82 |
A | CYS14 |
A | HOH318 |
A | CYS17 |
A | HIS18 |
A | THR28 |
A | GLY29 |
A | PRO30 |
A | THR40 |
A | GLY41 |
site_id | AC2 |
Number of Residues | 20 |
Details | binding site for residue FC6 A 202 |
Chain | Residue |
A | LYS13 |
A | GLY84 |
A | ILE85 |
A | LYS86 |
A | LYS87 |
A | HOH328 |
A | HOH334 |
A | HOH335 |
A | HOH345 |
D | LYS13 |
D | ILE85 |
D | LYS86 |
D | LYS87 |
D | HOH301 |
D | HOH302 |
D | HOH304 |
D | HOH307 |
D | HOH324 |
D | HOH332 |
D | HOH378 |
site_id | AC3 |
Number of Residues | 9 |
Details | binding site for residue FC6 B 202 |
Chain | Residue |
A | LYS87 |
A | LYS88 |
A | GLY89 |
A | GLU90 |
B | LYS87 |
B | LYS88 |
B | GLY89 |
B | GLU90 |
B | HOH308 |
site_id | AC4 |
Number of Residues | 16 |
Details | binding site for residue FC6 B 203 |
Chain | Residue |
B | LYS13 |
B | ILE85 |
B | LYS86 |
B | LYS87 |
B | HOH326 |
B | HOH336 |
C | LYS13 |
C | ILE85 |
C | LYS86 |
C | LYS87 |
C | HOH301 |
C | HOH302 |
C | HOH304 |
C | HOH325 |
C | HOH336 |
C | HOH357 |
site_id | AC5 |
Number of Residues | 14 |
Details | binding site for residue FC6 C 202 |
Chain | Residue |
C | LYS87 |
C | LYS88 |
C | GLY89 |
C | HOH348 |
C | HOH361 |
C | HOH365 |
C | HOH372 |
C | HOH396 |
C | HOH397 |
D | LYS87 |
D | LYS88 |
D | GLY89 |
D | HOH363 |
D | HOH420 |
site_id | AC6 |
Number of Residues | 22 |
Details | binding site for Di-peptide HEC B 201 and CYS B 14 |
Chain | Residue |
B | HOH311 |
B | HOH325 |
B | PHE10 |
B | LYS13 |
B | ALA15 |
B | GLN16 |
B | CYS17 |
B | HIS18 |
B | THR28 |
B | GLY29 |
B | PRO30 |
B | THR40 |
B | GLY41 |
B | TYR48 |
B | THR49 |
B | ASN52 |
B | TRP59 |
B | TYR67 |
B | THR78 |
B | LYS79 |
B | MET80 |
B | PHE82 |
site_id | AC7 |
Number of Residues | 23 |
Details | binding site for Di-peptide HEC B 201 and CYS B 17 |
Chain | Residue |
B | LYS13 |
B | CYS14 |
B | ALA15 |
B | GLN16 |
B | HIS18 |
B | LYS27 |
B | THR28 |
B | GLY29 |
B | PRO30 |
B | THR40 |
B | GLY41 |
B | TYR48 |
B | THR49 |
B | ASN52 |
B | TRP59 |
B | TYR67 |
B | THR78 |
B | LYS79 |
B | MET80 |
B | PHE82 |
B | HOH311 |
B | HOH325 |
C | ILE81 |
site_id | AC8 |
Number of Residues | 24 |
Details | binding site for Di-peptide HEC C 201 and CYS C 17 |
Chain | Residue |
B | ILE81 |
C | LYS13 |
C | CYS14 |
C | ALA15 |
C | GLN16 |
C | HIS18 |
C | LYS27 |
C | THR28 |
C | GLY29 |
C | PRO30 |
C | THR40 |
C | GLY41 |
C | TYR48 |
C | THR49 |
C | ASN52 |
C | TRP59 |
C | TYR67 |
C | THR78 |
C | LYS79 |
C | MET80 |
C | ILE81 |
C | PHE82 |
C | HOH323 |
C | HOH367 |
site_id | AC9 |
Number of Residues | 23 |
Details | binding site for Di-peptide HEC C 201 and CYS C 14 |
Chain | Residue |
C | PHE10 |
C | LYS13 |
C | ALA15 |
C | GLN16 |
C | CYS17 |
C | HIS18 |
C | THR28 |
C | GLY29 |
C | PRO30 |
C | THR40 |
C | GLY41 |
C | TYR48 |
C | THR49 |
C | ASN52 |
C | TRP59 |
C | TYR67 |
C | THR78 |
C | LYS79 |
C | MET80 |
C | ILE81 |
C | PHE82 |
C | HOH323 |
C | HOH367 |
site_id | AD1 |
Number of Residues | 24 |
Details | binding site for Di-peptide HEC D 201 and CYS D 17 |
Chain | Residue |
A | ILE81 |
D | LYS13 |
D | CYS14 |
D | ALA15 |
D | GLN16 |
D | HIS18 |
D | LYS27 |
D | THR28 |
D | GLY29 |
D | PRO30 |
D | THR40 |
D | GLY41 |
D | TYR48 |
D | THR49 |
D | ASN52 |
D | TRP59 |
D | TYR67 |
D | THR78 |
D | LYS79 |
D | MET80 |
D | ILE81 |
D | PHE82 |
D | HOH325 |
D | HOH336 |
site_id | AD2 |
Number of Residues | 22 |
Details | binding site for Di-peptide HEC D 201 and CYS D 14 |
Chain | Residue |
D | PHE10 |
D | LYS13 |
D | ALA15 |
D | GLN16 |
D | CYS17 |
D | HIS18 |
D | THR28 |
D | PRO30 |
D | THR40 |
D | GLY41 |
D | TYR48 |
D | THR49 |
D | ASN52 |
D | TRP59 |
D | TYR67 |
D | THR78 |
D | LYS79 |
D | MET80 |
D | ILE81 |
D | PHE82 |
D | HOH325 |
D | HOH336 |
Functional Information from SwissProt/UniProt
site_id | SWS_FT_FI1 |
Number of Residues | 8 |
Details | BINDING: covalent |
Chain | Residue | Details |
A | CYS14 | |
A | CYS17 | |
B | CYS14 | |
B | CYS17 | |
C | CYS14 | |
C | CYS17 | |
D | CYS14 | |
D | CYS17 |
site_id | SWS_FT_FI2 |
Number of Residues | 8 |
Details | BINDING: axial binding residue |
Chain | Residue | Details |
A | HIS18 | |
A | MET80 | |
B | HIS18 | |
B | MET80 | |
C | HIS18 | |
C | MET80 | |
D | HIS18 | |
D | MET80 |
site_id | SWS_FT_FI3 |
Number of Residues | 4 |
Details | MOD_RES: N-acetylglycine => ECO:0000269|PubMed:191069 |
Chain | Residue | Details |
A | GLY1 | |
B | GLY1 | |
C | GLY1 | |
D | GLY1 |
site_id | SWS_FT_FI4 |
Number of Residues | 8 |
Details | MOD_RES: Phosphotyrosine => ECO:0000250|UniProtKB:P62894 |
Chain | Residue | Details |
A | TYR48 | |
A | TYR97 | |
B | TYR48 | |
B | TYR97 | |
C | TYR48 | |
C | TYR97 | |
D | TYR48 | |
D | TYR97 |
site_id | SWS_FT_FI5 |
Number of Residues | 4 |
Details | MOD_RES: N6-succinyllysine => ECO:0000250|UniProtKB:P62897 |
Chain | Residue | Details |
A | LYS55 | |
B | LYS55 | |
C | LYS55 | |
D | LYS55 |
site_id | SWS_FT_FI6 |
Number of Residues | 4 |
Details | MOD_RES: N6-succinyllysine; alternate => ECO:0000250|UniProtKB:P62897 |
Chain | Residue | Details |
A | LYS72 | |
B | LYS72 | |
C | LYS72 | |
D | LYS72 |
site_id | SWS_FT_FI7 |
Number of Residues | 4 |
Details | MOD_RES: N6-acetyllysine => ECO:0000250|UniProtKB:P62897 |
Chain | Residue | Details |
A | LYS99 | |
B | LYS99 | |
C | LYS99 | |
D | LYS99 |