5LUF

Cryo-EM of bovine respirasome

Functional Information from GO Data

Chain	GOid	namespace	contents
0	0006123	biological_process	mitochondrial electron transport, cytochrome c to oxygen
0	0045277	cellular_component	respiratory chain complex IV
1	0006123	biological_process	mitochondrial electron transport, cytochrome c to oxygen
1	0045277	cellular_component	respiratory chain complex IV
2	0005743	cellular_component	mitochondrial inner membrane
2	0006123	biological_process	mitochondrial electron transport, cytochrome c to oxygen
2	0045277	cellular_component	respiratory chain complex IV
3	0005740	cellular_component	mitochondrial envelope
3	0006123	biological_process	mitochondrial electron transport, cytochrome c to oxygen
3	0045277	cellular_component	respiratory chain complex IV
4	0005743	cellular_component	mitochondrial inner membrane
5	0005739	cellular_component	mitochondrion
5	0005743	cellular_component	mitochondrial inner membrane
5	0006119	biological_process	oxidative phosphorylation
5	0045277	cellular_component	respiratory chain complex IV
6	0005739	cellular_component	mitochondrion
6	0005743	cellular_component	mitochondrial inner membrane
6	0006119	biological_process	oxidative phosphorylation
6	0045277	cellular_component	respiratory chain complex IV
7	0006123	biological_process	mitochondrial electron transport, cytochrome c to oxygen
7	0045277	cellular_component	respiratory chain complex IV
8	0006123	biological_process	mitochondrial electron transport, cytochrome c to oxygen
9	0006123	biological_process	mitochondrial electron transport, cytochrome c to oxygen
9	0045277	cellular_component	respiratory chain complex IV
G	0016020	cellular_component	membrane
b	0005739	cellular_component	mitochondrion
b	0005743	cellular_component	mitochondrial inner membrane
b	0006122	biological_process	mitochondrial electron transport, ubiquinol to cytochrome c
b	0008121	molecular_function	ubiquinol-cytochrome-c reductase activity
b	0009055	molecular_function	electron transfer activity
b	0016020	cellular_component	membrane
b	0016491	molecular_function	oxidoreductase activity
b	0020037	molecular_function	heme binding
b	0022904	biological_process	respiratory electron transport chain
b	0031966	cellular_component	mitochondrial membrane
b	0045275	cellular_component	respiratory chain complex III
b	0046872	molecular_function	metal ion binding
b	0048039	molecular_function	ubiquinone binding
b	1902600	biological_process	proton transmembrane transport
c	0005739	cellular_component	mitochondrion
c	0005743	cellular_component	mitochondrial inner membrane
c	0046872	molecular_function	metal ion binding
d	0009055	molecular_function	electron transfer activity
d	0020037	molecular_function	heme binding
e	0008121	molecular_function	ubiquinol-cytochrome-c reductase activity
e	0016020	cellular_component	membrane
e	0051537	molecular_function	2 iron, 2 sulfur cluster binding
f	0005739	cellular_component	mitochondrion
f	0005743	cellular_component	mitochondrial inner membrane
f	0006122	biological_process	mitochondrial electron transport, ubiquinol to cytochrome c
f	0045275	cellular_component	respiratory chain complex III
g	0005739	cellular_component	mitochondrion
g	0005743	cellular_component	mitochondrial inner membrane
g	0006122	biological_process	mitochondrial electron transport, ubiquinol to cytochrome c
g	0045275	cellular_component	respiratory chain complex III
h	0006122	biological_process	mitochondrial electron transport, ubiquinol to cytochrome c
i	0008121	molecular_function	ubiquinol-cytochrome-c reductase activity
j	0005739	cellular_component	mitochondrion
j	0005743	cellular_component	mitochondrial inner membrane
j	0006122	biological_process	mitochondrial electron transport, ubiquinol to cytochrome c
j	0045275	cellular_component	respiratory chain complex III
k	0005739	cellular_component	mitochondrion
k	0005743	cellular_component	mitochondrial inner membrane
k	0006122	biological_process	mitochondrial electron transport, ubiquinol to cytochrome c
l	0005739	cellular_component	mitochondrion
l	0005743	cellular_component	mitochondrial inner membrane
l	0046872	molecular_function	metal ion binding
m	0004222	molecular_function	metalloendopeptidase activity
m	0005739	cellular_component	mitochondrion
m	0005743	cellular_component	mitochondrial inner membrane
m	0006508	biological_process	proteolysis
m	0046872	molecular_function	metal ion binding
n	0004222	molecular_function	metalloendopeptidase activity
n	0005739	cellular_component	mitochondrion
n	0005743	cellular_component	mitochondrial inner membrane
n	0006508	biological_process	proteolysis
n	0046872	molecular_function	metal ion binding
o	0005739	cellular_component	mitochondrion
o	0005743	cellular_component	mitochondrial inner membrane
o	0006122	biological_process	mitochondrial electron transport, ubiquinol to cytochrome c
o	0008121	molecular_function	ubiquinol-cytochrome-c reductase activity
o	0009055	molecular_function	electron transfer activity
o	0016020	cellular_component	membrane
o	0016491	molecular_function	oxidoreductase activity
o	0020037	molecular_function	heme binding
o	0022904	biological_process	respiratory electron transport chain
o	0031966	cellular_component	mitochondrial membrane
o	0045275	cellular_component	respiratory chain complex III
o	0046872	molecular_function	metal ion binding
o	0048039	molecular_function	ubiquinone binding
o	1902600	biological_process	proton transmembrane transport
p	0009055	molecular_function	electron transfer activity
p	0020037	molecular_function	heme binding
q	0008121	molecular_function	ubiquinol-cytochrome-c reductase activity
q	0016020	cellular_component	membrane
q	0051537	molecular_function	2 iron, 2 sulfur cluster binding
r	0005739	cellular_component	mitochondrion
r	0005743	cellular_component	mitochondrial inner membrane
r	0006122	biological_process	mitochondrial electron transport, ubiquinol to cytochrome c
r	0045275	cellular_component	respiratory chain complex III
s	0005739	cellular_component	mitochondrion
s	0005743	cellular_component	mitochondrial inner membrane
s	0006122	biological_process	mitochondrial electron transport, ubiquinol to cytochrome c
s	0045275	cellular_component	respiratory chain complex III
t	0006122	biological_process	mitochondrial electron transport, ubiquinol to cytochrome c
u	0008121	molecular_function	ubiquinol-cytochrome-c reductase activity
v	0005739	cellular_component	mitochondrion
v	0005743	cellular_component	mitochondrial inner membrane
v	0006122	biological_process	mitochondrial electron transport, ubiquinol to cytochrome c
v	0045275	cellular_component	respiratory chain complex III
w	0005739	cellular_component	mitochondrion
w	0005743	cellular_component	mitochondrial inner membrane
w	0006122	biological_process	mitochondrial electron transport, ubiquinol to cytochrome c
x	0004129	molecular_function	cytochrome-c oxidase activity
x	0005739	cellular_component	mitochondrion
x	0005743	cellular_component	mitochondrial inner membrane
x	0006119	biological_process	oxidative phosphorylation
x	0006123	biological_process	mitochondrial electron transport, cytochrome c to oxygen
x	0009060	biological_process	aerobic respiration
x	0015990	biological_process	electron transport coupled proton transport
x	0016020	cellular_component	membrane
x	0020037	molecular_function	heme binding
x	0045277	cellular_component	respiratory chain complex IV
x	0046872	molecular_function	metal ion binding
y	0004129	molecular_function	cytochrome-c oxidase activity
y	0005507	molecular_function	copper ion binding
y	0005739	cellular_component	mitochondrion
y	0005743	cellular_component	mitochondrial inner membrane
y	0016020	cellular_component	membrane
y	0016491	molecular_function	oxidoreductase activity
y	0022900	biological_process	electron transport chain
y	0042773	biological_process	ATP synthesis coupled electron transport
y	0045277	cellular_component	respiratory chain complex IV
y	0046872	molecular_function	metal ion binding
y	1902600	biological_process	proton transmembrane transport
z	0004129	molecular_function	cytochrome-c oxidase activity
z	0005739	cellular_component	mitochondrion
z	0005743	cellular_component	mitochondrial inner membrane
z	0006123	biological_process	mitochondrial electron transport, cytochrome c to oxygen
z	0008535	biological_process	respiratory chain complex IV assembly
z	0009055	molecular_function	electron transfer activity
z	0016020	cellular_component	membrane
z	0019646	biological_process	aerobic electron transport chain
z	0022904	biological_process	respiratory electron transport chain
z	0045277	cellular_component	respiratory chain complex IV
z	1902600	biological_process	proton transmembrane transport

Functional Information from PROSITE/UniProt

site_id	PS00077
Number of Residues	56
Details	COX1_CUB Heme-copper oxidase catalytic subunit, copper B binding region signature. WFFGHPeVyililpgfgmishivtyysgkkepfgymgmvwammsigflgfivwa.HH

Chain	Residue	Details
x	TRP236-HIS291

---

site_id	PS00078
Number of Residues	49
Details	COX2 CO II and nitrous oxide reductase dinuclear copper centers signature. VlHswavpslglktdaipgrlnqttlmssrpglyygq......CseiCgsnHsfM

Chain	Residue	Details
y	VAL159-MET207

---

site_id	PS00143
Number of Residues	24
Details	INSULINASE Insulinase family, zinc-binding region signature. GsryensnnlGtSHLLRLAsSlTT

Chain	Residue	Details
m	GLY54-THR77

---

site_id	PS00848
Number of Residues	23
Details	COX5B_1 Cytochrome c oxidase subunit Vb, zinc binding region signature. VIWfwlhkgeaqrCpsCGthYKL

Chain	Residue	Details
3	VAL69-LEU91

---

site_id	PS01329
Number of Residues	18
Details	COX6A Cytochrome c oxidase subunit VIa signature. IRtKpFsWGDGnHTfFhN

Chain	Residue	Details
4	ILE55-ASN72

---

Functional Information from SwissProt/UniProt

site_id	SWS_FT_FI1
Number of Residues	10
Details	TOPO_DOM: Mitochondrial matrix => ECO:0000269|PubMed:27605664

Chain	Residue	Details
6	SER1-GLY11
o	TRP77-VAL98
o	TRP113-LEU133
o	PHE178-LEU198
o	ILE226-ALA246
o	LEU288-HIS308
o	LEU320-GLY340
o	TYR347-PRO367
3	CYS62
3	CYS82
3	CYS85
x	SER401-ASN406
x	LYS479-LYS514
b	LEU320-GLY340
b	TYR347-PRO367
o	PHE33-MET53

---

site_id	SWS_FT_FI2
Number of Residues	40
Details	TRANSMEM: Helical => ECO:0000269|PubMed:27605664

Chain	Residue	Details
6	LEU12-ARG52
3	LYS55
3	LYS90
r	LYS18
r	LYS82
r	LYS95

---

site_id	SWS_FT_FI3
Number of Residues	20
Details	TOPO_DOM: Mitochondrial intermembrane => ECO:0000269|PubMed:27605664

Chain	Residue	Details
6	ASN53-LYS73
z	LEU106-GLU128
z	ALA184-ASP190
z	TYR257-SER261

---

site_id	SWS_FT_FI4
Number of Residues	2
Details	MOD_RES: N6-succinyllysine; alternate => ECO:0000250|UniProtKB:P19783

Chain	Residue	Details
1	LYS7
q	SER163
1	LYS38
e	CYS158
e	HIS161
e	SER163
q	CYS139
q	HIS141
q	CYS158
q	HIS161

---

site_id	SWS_FT_FI5
Number of Residues	1
Details	MOD_RES: N6-acetyllysine => ECO:0000250|UniProtKB:P13073

Chain	Residue	Details
1	LYS31
y	CYS196
y	GLU198
y	CYS200
y	HIS204
y	MET207

---

site_id	SWS_FT_FI6
Number of Residues	2
Details	MOD_RES: Phosphoserine => ECO:0000250|UniProtKB:P10888

Chain	Residue	Details
1	SER34
1	SER36
x	VAL287-ASP298

---

site_id	SWS_FT_FI7
Number of Residues	1
Details	MOD_RES: N6-acetyllysine => ECO:0000250|UniProtKB:P19783

Chain	Residue	Details
1	LYS45

---

site_id	SWS_FT_FI8
Number of Residues	32
Details	TRANSMEM: Helical; Name=VI => ECO:0000269|PubMed:27605664

Chain	Residue	Details
z	GLY191-LEU223

---

site_id	SWS_FT_FI9
Number of Residues	23
Details	TRANSMEM: Helical; Name=VII => ECO:0000269|PubMed:27605664

Chain	Residue	Details
z	PHE233-ILE256

---

site_id	SWS_FT_FI10
Number of Residues	16
Details	TRANSMEM: Helical; Name=VII => ECO:0000269|PubMed:27605664

Chain	Residue	Details
x	TYR270-ILE286

---

site_id	SWS_FT_FI11
Number of Residues	28
Details	TRANSMEM: Helical; Name=VIII => ECO:0000269|PubMed:27605664

Chain	Residue	Details
x	VAL299-LEU327

---

site_id	SWS_FT_FI12
Number of Residues	7
Details	TOPO_DOM: Mitochondrial matrix => ECO:0000269|PubMed:27605664

Chain	Residue	Details
x	HIS328-SER335

---

site_id	SWS_FT_FI13
Number of Residues	21
Details	TRANSMEM: Helical; Name=IX => ECO:0000269|PubMed:27605664

Chain	Residue	Details
x	PRO336-VAL357

---

site_id	SWS_FT_FI14
Number of Residues	24
Details	TOPO_DOM: Mitochondrial intermembrane => ECO:0000269|PubMed:27605664

Chain	Residue	Details
x	LEU358-THR370
x	SER434-ALA446

---

site_id	SWS_FT_FI15
Number of Residues	29
Details	TRANSMEM: Helical; Name=X => ECO:0000269|PubMed:27605664

Chain	Residue	Details
x	TYR371-PHE400

---

site_id	SWS_FT_FI16
Number of Residues	26
Details	TRANSMEM: Helical; Name=XI => ECO:0000269|PubMed:27605664

Chain	Residue	Details
x	ASP407-LEU433

---

site_id	SWS_FT_FI17
Number of Residues	31
Details	TRANSMEM: Helical; Name=XII => ECO:0000269|PubMed:27605664

Chain	Residue	Details
x	TYR447-SER478

---

site_id	SWS_FT_FI18
Number of Residues	3
Details	BINDING: BINDING => ECO:0000269|PubMed:27605664, ECO:0000305|PubMed:23537388

Chain	Residue	Details
x	GLU40
x	GLY45
x	SER441

---

site_id	SWS_FT_FI19
Number of Residues	3
Details	BINDING: axial binding residue => ECO:0000269|PubMed:20385840, ECO:0000269|PubMed:8638158

Chain	Residue	Details
x	HIS61
x	HIS376
x	HIS378

---

site_id	SWS_FT_FI20
Number of Residues	5
Details	BINDING: BINDING => ECO:0000269|PubMed:20385840, ECO:0000269|PubMed:8638158

Chain	Residue	Details
x	HIS240
x	HIS290
x	HIS291
x	HIS368
x	ASP369

---

site_id	SWS_FT_FI21
Number of Residues	1
Details	BINDING: BINDING => ECO:0000305

Chain	Residue	Details
x	TYR244

---

site_id	SWS_FT_FI22
Number of Residues	1
Details	MOD_RES: N-formylmethionine => ECO:0000269|PubMed:2165784

Chain	Residue	Details
x	MET1

---

site_id	SWS_FT_FI23
Number of Residues	2
Details	CROSSLNK: 1'-histidyl-3'-tyrosine (His-Tyr) => ECO:0000269|PubMed:10338009

Chain	Residue	Details
x	HIS240
x	TYR244

---

Catalytic Information from CSA

site_id	MCSA1
Number of Residues	14
Details	M-CSA 124

Chain	Residue	Details
x	HIS61	metal ligand
x	HIS290	metal ligand
x	HIS291	metal ligand, proton acceptor, proton donor
x	THR316	proton acceptor, proton donor, proton relay
x	LYS319	proton acceptor, proton donor, proton relay
x	ARG438	proton acceptor, proton donor, proton relay
x	ASP91	proton acceptor, proton donor, proton relay
x	TRP126	proton acceptor, proton donor, proton relay
x	SER156	proton acceptor, proton donor, proton relay
x	SER157	proton acceptor, proton donor, proton relay
x	HIS240	covalently attached, electrostatic stabiliser, metal ligand, radical stabiliser
x	GLU242	proton acceptor, proton donor, proton relay
x	TYR244	covalently attached, hydrogen radical donor, proton acceptor, proton donor, proton relay, single electron acceptor
x	SER255	proton acceptor, proton donor, proton relay

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