Summary Structural details Experimental details Functional details Sequence Neighbor History Downloads

3NBT

Crystal structure of trimeric cytochrome c from horse heart

Functional Information from GO Data

Chain	GOid	namespace	contents
A	0005515	molecular_function	protein binding
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	0008289	molecular_function	lipid binding
A	0009055	molecular_function	electron transfer activity
A	0018063	biological_process	cytochrome c-heme linkage
A	0020037	molecular_function	heme binding
A	0042802	molecular_function	identical protein binding
A	0043065	biological_process	positive regulation of apoptotic process
A	0043280	biological_process	positive regulation of cysteine-type endopeptidase activity involved in apoptotic process
A	0046872	molecular_function	metal ion binding
A	0070069	cellular_component	cytochrome complex
A	0070469	cellular_component	respirasome
A	2001056	biological_process	positive regulation of cysteine-type endopeptidase activity
B	0005515	molecular_function	protein binding
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	0008289	molecular_function	lipid binding
B	0009055	molecular_function	electron transfer activity
B	0018063	biological_process	cytochrome c-heme linkage
B	0020037	molecular_function	heme binding
B	0042802	molecular_function	identical protein binding
B	0043065	biological_process	positive regulation of apoptotic process
B	0043280	biological_process	positive regulation of cysteine-type endopeptidase activity involved in apoptotic process
B	0046872	molecular_function	metal ion binding
B	0070069	cellular_component	cytochrome complex
B	0070469	cellular_component	respirasome
B	2001056	biological_process	positive regulation of cysteine-type endopeptidase activity
C	0005515	molecular_function	protein binding
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	0008289	molecular_function	lipid binding
C	0009055	molecular_function	electron transfer activity
C	0018063	biological_process	cytochrome c-heme linkage
C	0020037	molecular_function	heme binding
C	0042802	molecular_function	identical protein binding
C	0043065	biological_process	positive regulation of apoptotic process
C	0043280	biological_process	positive regulation of cysteine-type endopeptidase activity involved in apoptotic process
C	0046872	molecular_function	metal ion binding
C	0070069	cellular_component	cytochrome complex
C	0070469	cellular_component	respirasome
C	2001056	biological_process	positive regulation of cysteine-type endopeptidase activity
D	0005515	molecular_function	protein binding
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	0008289	molecular_function	lipid binding
D	0009055	molecular_function	electron transfer activity
D	0018063	biological_process	cytochrome c-heme linkage
D	0020037	molecular_function	heme binding
D	0042802	molecular_function	identical protein binding
D	0043065	biological_process	positive regulation of apoptotic process
D	0043280	biological_process	positive regulation of cysteine-type endopeptidase activity involved in apoptotic process
D	0046872	molecular_function	metal ion binding
D	0070069	cellular_component	cytochrome complex
D	0070469	cellular_component	respirasome
D	2001056	biological_process	positive regulation of cysteine-type endopeptidase activity
E	0005515	molecular_function	protein binding
E	0005739	cellular_component	mitochondrion
E	0005758	cellular_component	mitochondrial intermembrane space
E	0005829	cellular_component	cytosol
E	0006122	biological_process	mitochondrial electron transport, ubiquinol to cytochrome c
E	0006123	biological_process	mitochondrial electron transport, cytochrome c to oxygen
E	0006915	biological_process	apoptotic process
E	0008289	molecular_function	lipid binding
E	0009055	molecular_function	electron transfer activity
E	0018063	biological_process	cytochrome c-heme linkage
E	0020037	molecular_function	heme binding
E	0042802	molecular_function	identical protein binding
E	0043065	biological_process	positive regulation of apoptotic process
E	0043280	biological_process	positive regulation of cysteine-type endopeptidase activity involved in apoptotic process
E	0046872	molecular_function	metal ion binding
E	0070069	cellular_component	cytochrome complex
E	0070469	cellular_component	respirasome
E	2001056	biological_process	positive regulation of cysteine-type endopeptidase activity
F	0005515	molecular_function	protein binding
F	0005739	cellular_component	mitochondrion
F	0005758	cellular_component	mitochondrial intermembrane space
F	0005829	cellular_component	cytosol
F	0006122	biological_process	mitochondrial electron transport, ubiquinol to cytochrome c
F	0006123	biological_process	mitochondrial electron transport, cytochrome c to oxygen
F	0006915	biological_process	apoptotic process
F	0008289	molecular_function	lipid binding
F	0009055	molecular_function	electron transfer activity
F	0018063	biological_process	cytochrome c-heme linkage
F	0020037	molecular_function	heme binding
F	0042802	molecular_function	identical protein binding
F	0043065	biological_process	positive regulation of apoptotic process
F	0043280	biological_process	positive regulation of cysteine-type endopeptidase activity involved in apoptotic process
F	0046872	molecular_function	metal ion binding
F	0070069	cellular_component	cytochrome complex
F	0070469	cellular_component	respirasome
F	2001056	biological_process	positive regulation of cysteine-type endopeptidase activity

Functional Information from PDB Data

site_id	AC1
Number of Residues	24
Details	BINDING SITE FOR RESIDUE HEM A 105

Chain	Residue
A	LYS13
A	TYR48
A	THR49
A	ASN52
A	TRP59
A	TYR67
A	LEU68
A	THR78
A	LYS79
A	MET80
A	HOH201
A	CYS14
A	HOH243
A	HOH437
A	PEG1007
E	PHE82
E	LEU94
A	CYS17
A	HIS18
A	THR28
A	GLY29
A	PRO30
A	THR40
A	GLY41

site_id	AC2
Number of Residues	7
Details	BINDING SITE FOR RESIDUE PG4 A 1001

Chain	Residue
A	LYS55
A	ILE57
A	GLU66
A	LYS73
A	TYR74
A	PRO76
A	HOH305

site_id	AC3
Number of Residues	7
Details	BINDING SITE FOR RESIDUE PEG A 1007

Chain	Residue
A	THR28
A	THR47
A	LYS79
A	GLY84
A	HEC105
A	HOH238
A	HOH496

site_id	AC4
Number of Residues	21
Details	BINDING SITE FOR RESIDUE HEM B 105

Chain	Residue
B	LYS13
B	CYS14
B	CYS17
B	HIS18
B	THR28
B	GLY29
B	ARG38
B	THR40
B	GLY41
B	TYR48
B	THR49
B	ASN52
B	TRP59
B	TYR67
B	THR78
B	LYS79
B	MET80
B	HOH202
B	HOH495
B	PEG1008
C	PHE82

site_id	AC5
Number of Residues	6
Details	BINDING SITE FOR RESIDUE PG4 B 1004

Chain	Residue
B	LYS55
B	ILE57
B	GLU66
B	LYS73
B	TYR74
E	ASP50

site_id	AC6
Number of Residues	8
Details	BINDING SITE FOR RESIDUE PEG B 1008

Chain	Residue
B	THR47
B	TYR48
B	THR49
B	LYS79
B	ILE81
B	GLY84
B	HEC105
B	HOH407

site_id	AC7
Number of Residues	23
Details	BINDING SITE FOR RESIDUE HEM C 105

Chain	Residue
C	LYS13
C	CYS14
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	LEU68
C	THR78
C	LYS79
C	MET80
C	HOH203
C	HOH227
C	HOH265
D	PHE82
D	LEU94

site_id	AC8
Number of Residues	7
Details	BINDING SITE FOR RESIDUE PG4 C 1005

Chain	Residue
C	LYS73
C	TYR74
C	PRO76
C	HOH545
A	ASP50
C	LYS55
C	ILE57

site_id	AC9
Number of Residues	7
Details	BINDING SITE FOR RESIDUE PEG C 1009

Chain	Residue
C	THR28
C	THR47
C	THR49
C	ILE81
C	GLY84
C	HOH419
C	HOH433

site_id	BC1
Number of Residues	21
Details	BINDING SITE FOR RESIDUE HEM D 105

Chain	Residue
B	PHE82
B	LEU94
D	LYS13
D	CYS14
D	CYS17
D	HIS18
D	THR28
D	GLY29
D	THR40
D	GLY41
D	TYR48
D	THR49
D	ASN52
D	TRP59
D	TYR67
D	THR78
D	LYS79
D	MET80
D	HOH204
D	HOH247
D	PGE1010

site_id	BC2
Number of Residues	6
Details	BINDING SITE FOR RESIDUE PG4 D 1006

Chain	Residue
D	LYS55
D	GLU66
D	LYS73
D	TYR74
D	PRO76
F	HOH411

site_id	BC3
Number of Residues	11
Details	BINDING SITE FOR RESIDUE PGE D 1010

Chain	Residue
D	THR28
D	THR47
D	TYR48
D	THR49
D	LYS79
D	ILE81
D	PHE82
D	GLY84
D	HEC105
D	HOH234
D	HOH516

site_id	BC4
Number of Residues	21
Details	BINDING SITE FOR RESIDUE HEM E 105

Chain	Residue
E	LYS13
E	CYS14
E	CYS17
E	HIS18
E	THR28
E	GLY29
E	THR40
E	GLY41
E	TYR48
E	THR49
E	ASN52
E	TRP59
E	LEU64
E	TYR67
E	THR78
E	LYS79
E	MET80
E	HOH205
E	PEG1011
F	PHE82
F	LEU94

site_id	BC5
Number of Residues	7
Details	BINDING SITE FOR RESIDUE PG4 E 1002

Chain	Residue
B	ASP50
E	LYS55
E	GLU66
E	LYS73
E	TYR74
E	PRO76
E	HOH279

site_id	BC6
Number of Residues	7
Details	BINDING SITE FOR RESIDUE PEG E 1011

Chain	Residue
E	THR28
E	THR47
E	THR49
E	LYS79
E	ILE81
E	HEC105
E	HOH288

site_id	BC7
Number of Residues	21
Details	BINDING SITE FOR RESIDUE HEM F 105

Chain	Residue
A	PHE82
A	LEU94
F	LYS13
F	CYS14
F	CYS17
F	HIS18
F	THR28
F	GLY29
F	THR40
F	GLY41
F	TYR48
F	THR49
F	ASN52
F	TRP59
F	TYR67
F	THR78
F	LYS79
F	MET80
F	HOH206
F	HOH289
F	PGE1012

site_id	BC8
Number of Residues	5
Details	BINDING SITE FOR RESIDUE PG4 F 1003

Chain	Residue
D	HOH325
F	LYS55
F	LYS73
F	TYR74
F	PRO76

site_id	BC9
Number of Residues	9
Details	BINDING SITE FOR RESIDUE PGE F 1012

Chain	Residue
F	THR47
F	THR49
F	ILE81
F	PHE82
F	GLY84
F	HEC105
F	HOH253
F	HOH374
F	HOH392

Functional Information from SwissProt/UniProt

site_id	SWS_FT_FI1
Number of Residues	12
Details	BINDING: covalent

Chain	Residue	Details
A	CYS14
E	CYS17
F	CYS14
F	CYS17
A	CYS17
B	CYS14
B	CYS17
C	CYS14
C	CYS17
D	CYS14
D	CYS17
E	CYS14

site_id	SWS_FT_FI2
Number of Residues	6
Details	BINDING: axial binding residue => ECO:0000255\|PROSITE-ProRule:PRU00433, ECO:0000269\|PubMed:5545094

Chain	Residue	Details
A	HIS18
B	HIS18
C	HIS18
D	HIS18
E	HIS18
F	HIS18

site_id	SWS_FT_FI3
Number of Residues	6
Details	BINDING: axial binding residue

Chain	Residue	Details
A	MET80
B	MET80
C	MET80
D	MET80
E	MET80
F	MET80

site_id	SWS_FT_FI4
Number of Residues	6
Details	MOD_RES: N-acetylglycine => ECO:0000269\|PubMed:14469771

Chain	Residue	Details
A	GLY1
B	GLY1
C	GLY1
D	GLY1
E	GLY1
F	GLY1

site_id	SWS_FT_FI5
Number of Residues	12
Details	MOD_RES: Phosphotyrosine => ECO:0000250\|UniProtKB:P62894

Chain	Residue	Details
A	TYR48
E	TYR97
F	TYR48
F	TYR97
A	TYR97
B	TYR48
B	TYR97
C	TYR48
C	TYR97
D	TYR48
D	TYR97
E	TYR48

site_id	SWS_FT_FI6
Number of Residues	6
Details	MOD_RES: N6-succinyllysine => ECO:0000250\|UniProtKB:P62897

Chain	Residue	Details
A	LYS55
B	LYS55
C	LYS55
D	LYS55
E	LYS55
F	LYS55

site_id	SWS_FT_FI7
Number of Residues	6
Details	MOD_RES: N6-succinyllysine; alternate => ECO:0000250\|UniProtKB:P62897

Chain	Residue	Details
A	LYS72
B	LYS72
C	LYS72
D	LYS72
E	LYS72
F	LYS72

site_id	SWS_FT_FI8
Number of Residues	6
Details	MOD_RES: N6-acetyllysine => ECO:0000250\|UniProtKB:P62897

Chain	Residue	Details
A	LYS99
B	LYS99
C	LYS99
D	LYS99
E	LYS99
F	LYS99

		Sequence (fasta)
		PDBx/mmCIF
		PDBML format (no-atom)
		PDB format (full)
		Validation report (PDF)
		EDMap 2fo-fc (MTZ)