7DGZ

Activity optimized complex I (closed form)

Functional Information from GO Data

Chain	GOid	namespace	contents
1	0003954	molecular_function	NADH dehydrogenase activity
1	0005739	cellular_component	mitochondrion
1	0005743	cellular_component	mitochondrial inner membrane
1	0008137	molecular_function	NADH dehydrogenase (ubiquinone) activity
1	0009060	biological_process	aerobic respiration
1	0016020	cellular_component	membrane
1	0032981	biological_process	mitochondrial respiratory chain complex I assembly
1	0045271	cellular_component	respiratory chain complex I
1	1902600	biological_process	proton transmembrane transport
2	0005739	cellular_component	mitochondrion
2	0005743	cellular_component	mitochondrial inner membrane
2	0006120	biological_process	mitochondrial electron transport, NADH to ubiquinone
2	0008137	molecular_function	NADH dehydrogenase (ubiquinone) activity
2	0032981	biological_process	mitochondrial respiratory chain complex I assembly
2	0045271	cellular_component	respiratory chain complex I
2	1902600	biological_process	proton transmembrane transport
3	0005739	cellular_component	mitochondrion
3	0005743	cellular_component	mitochondrial inner membrane
3	0006120	biological_process	mitochondrial electron transport, NADH to ubiquinone
3	0008137	molecular_function	NADH dehydrogenase (ubiquinone) activity
3	0045271	cellular_component	respiratory chain complex I
3	1902600	biological_process	proton transmembrane transport
4	0003954	molecular_function	NADH dehydrogenase activity
4	0005739	cellular_component	mitochondrion
4	0005743	cellular_component	mitochondrial inner membrane
4	0006120	biological_process	mitochondrial electron transport, NADH to ubiquinone
4	0008137	molecular_function	NADH dehydrogenase (ubiquinone) activity
4	0009060	biological_process	aerobic respiration
4	0015990	biological_process	electron transport coupled proton transport
4	0032981	biological_process	mitochondrial respiratory chain complex I assembly
4	0042773	biological_process	ATP synthesis coupled electron transport
4	0045271	cellular_component	respiratory chain complex I
4	0048039	molecular_function	ubiquinone binding
5	0005739	cellular_component	mitochondrion
5	0005743	cellular_component	mitochondrial inner membrane
5	0008137	molecular_function	NADH dehydrogenase (ubiquinone) activity
5	0016651	molecular_function	oxidoreductase activity, acting on NAD(P)H
5	0042773	biological_process	ATP synthesis coupled electron transport
5	0045271	cellular_component	respiratory chain complex I
5	1902600	biological_process	proton transmembrane transport
6	0003954	molecular_function	NADH dehydrogenase activity
6	0005739	cellular_component	mitochondrion
6	0005743	cellular_component	mitochondrial inner membrane
6	0006120	biological_process	mitochondrial electron transport, NADH to ubiquinone
6	0008137	molecular_function	NADH dehydrogenase (ubiquinone) activity
6	0015990	biological_process	electron transport coupled proton transport
6	0032981	biological_process	mitochondrial respiratory chain complex I assembly
6	0042773	biological_process	ATP synthesis coupled electron transport
6	0045271	cellular_component	respiratory chain complex I
7	0005739	cellular_component	mitochondrion
7	0005743	cellular_component	mitochondrial inner membrane
7	0006120	biological_process	mitochondrial electron transport, NADH to ubiquinone
7	0008137	molecular_function	NADH dehydrogenase (ubiquinone) activity
7	0032981	biological_process	mitochondrial respiratory chain complex I assembly
7	1902600	biological_process	proton transmembrane transport
8	0005739	cellular_component	mitochondrion
8	0005743	cellular_component	mitochondrial inner membrane
8	0006120	biological_process	mitochondrial electron transport, NADH to ubiquinone
8	0008137	molecular_function	NADH dehydrogenase (ubiquinone) activity
8	0010181	molecular_function	FMN binding
8	0016491	molecular_function	oxidoreductase activity
8	0045271	cellular_component	respiratory chain complex I
8	0046872	molecular_function	metal ion binding
8	0051287	molecular_function	NAD binding
8	0051539	molecular_function	4 iron, 4 sulfur cluster binding
8	1902600	biological_process	proton transmembrane transport
9	0016491	molecular_function	oxidoreductase activity
A	0005739	cellular_component	mitochondrion
A	0005743	cellular_component	mitochondrial inner membrane
A	0005758	cellular_component	mitochondrial intermembrane space
A	0006120	biological_process	mitochondrial electron transport, NADH to ubiquinone
A	0008137	molecular_function	NADH dehydrogenase (ubiquinone) activity
A	0009055	molecular_function	electron transfer activity
A	0016020	cellular_component	membrane
A	0016491	molecular_function	oxidoreductase activity
A	0016651	molecular_function	oxidoreductase activity, acting on NAD(P)H
A	0032981	biological_process	mitochondrial respiratory chain complex I assembly
A	0042773	biological_process	ATP synthesis coupled electron transport
A	0045271	cellular_component	respiratory chain complex I
A	0045333	biological_process	cellular respiration
A	0046872	molecular_function	metal ion binding
A	0051536	molecular_function	iron-sulfur cluster binding
A	0051537	molecular_function	2 iron, 2 sulfur cluster binding
A	0051539	molecular_function	4 iron, 4 sulfur cluster binding
A	1902600	biological_process	proton transmembrane transport
B	0003954	molecular_function	NADH dehydrogenase activity
B	0005654	cellular_component	nucleoplasm
B	0005739	cellular_component	mitochondrion
B	0005743	cellular_component	mitochondrial inner membrane
B	0006120	biological_process	mitochondrial electron transport, NADH to ubiquinone
B	0008137	molecular_function	NADH dehydrogenase (ubiquinone) activity
B	0016491	molecular_function	oxidoreductase activity
B	0016651	molecular_function	oxidoreductase activity, acting on NAD(P)H
B	0019826	molecular_function	oxygen sensor activity
B	0022008	biological_process	neurogenesis
B	0031625	molecular_function	ubiquitin protein ligase binding
B	0032981	biological_process	mitochondrial respiratory chain complex I assembly
B	0042063	biological_process	gliogenesis
B	0042775	biological_process	mitochondrial ATP synthesis coupled electron transport
B	0045271	cellular_component	respiratory chain complex I
B	0046872	molecular_function	metal ion binding
B	0048038	molecular_function	quinone binding
B	0051287	molecular_function	NAD binding
B	0051539	molecular_function	4 iron, 4 sulfur cluster binding
B	0061351	biological_process	neural precursor cell proliferation
B	0071453	biological_process	cellular response to oxygen levels
B	1902600	biological_process	proton transmembrane transport
C	0008137	molecular_function	NADH dehydrogenase (ubiquinone) activity
C	0016651	molecular_function	oxidoreductase activity, acting on NAD(P)H
D	0008137	molecular_function	NADH dehydrogenase (ubiquinone) activity
D	0048038	molecular_function	quinone binding
D	0051536	molecular_function	iron-sulfur cluster binding
D	0051539	molecular_function	4 iron, 4 sulfur cluster binding
E	0016020	cellular_component	membrane
E	0016651	molecular_function	oxidoreductase activity, acting on NAD(P)H
E	0051539	molecular_function	4 iron, 4 sulfur cluster binding
F	0005739	cellular_component	mitochondrion
F	0045271	cellular_component	respiratory chain complex I
G	0022900	biological_process	electron transport chain
H	0005739	cellular_component	mitochondrion
H	0005743	cellular_component	mitochondrial inner membrane
H	0005758	cellular_component	mitochondrial intermembrane space
H	0032981	biological_process	mitochondrial respiratory chain complex I assembly
H	0045271	cellular_component	respiratory chain complex I
I	0006120	biological_process	mitochondrial electron transport, NADH to ubiquinone
J	0005739	cellular_component	mitochondrion
J	0005743	cellular_component	mitochondrial inner membrane
J	0032981	biological_process	mitochondrial respiratory chain complex I assembly
J	0045271	cellular_component	respiratory chain complex I
K	0005739	cellular_component	mitochondrion
K	0005743	cellular_component	mitochondrial inner membrane
K	0031966	cellular_component	mitochondrial membrane
K	0032981	biological_process	mitochondrial respiratory chain complex I assembly
K	0045271	cellular_component	respiratory chain complex I
L	0005739	cellular_component	mitochondrion
L	0005743	cellular_component	mitochondrial inner membrane
L	0032981	biological_process	mitochondrial respiratory chain complex I assembly
L	0045271	cellular_component	respiratory chain complex I
M	0006633	biological_process	fatty acid biosynthetic process
N	0005739	cellular_component	mitochondrion
N	0005743	cellular_component	mitochondrial inner membrane
N	0022904	biological_process	respiratory electron transport chain
N	0032981	biological_process	mitochondrial respiratory chain complex I assembly
N	0045271	cellular_component	respiratory chain complex I
O	0005739	cellular_component	mitochondrion
O	0005743	cellular_component	mitochondrial inner membrane
O	0006979	biological_process	response to oxidative stress
O	0032981	biological_process	mitochondrial respiratory chain complex I assembly
O	0045271	cellular_component	respiratory chain complex I
P	0005739	cellular_component	mitochondrion
P	0005743	cellular_component	mitochondrial inner membrane
P	0006120	biological_process	mitochondrial electron transport, NADH to ubiquinone
P	0016491	molecular_function	oxidoreductase activity
P	0042773	biological_process	ATP synthesis coupled electron transport
P	0045271	cellular_component	respiratory chain complex I
Q	0005739	cellular_component	mitochondrion
Q	0005743	cellular_component	mitochondrial inner membrane
Q	0005758	cellular_component	mitochondrial intermembrane space
Q	0006120	biological_process	mitochondrial electron transport, NADH to ubiquinone
Q	0032981	biological_process	mitochondrial respiratory chain complex I assembly
Q	0045271	cellular_component	respiratory chain complex I
R	0005739	cellular_component	mitochondrion
R	0005759	cellular_component	mitochondrial matrix
R	0032981	biological_process	mitochondrial respiratory chain complex I assembly
R	0044877	molecular_function	protein-containing complex binding
R	0045271	cellular_component	respiratory chain complex I
R	1901006	biological_process	ubiquinone-6 biosynthetic process
S	0005737	cellular_component	cytoplasm
S	0005739	cellular_component	mitochondrion
S	0005759	cellular_component	mitochondrial matrix
S	0006120	biological_process	mitochondrial electron transport, NADH to ubiquinone
S	0032981	biological_process	mitochondrial respiratory chain complex I assembly
S	0045271	cellular_component	respiratory chain complex I
T	0005739	cellular_component	mitochondrion
T	0005743	cellular_component	mitochondrial inner membrane
T	0032981	biological_process	mitochondrial respiratory chain complex I assembly
T	0045271	cellular_component	respiratory chain complex I
U	0005739	cellular_component	mitochondrion
U	0005743	cellular_component	mitochondrial inner membrane
U	0006979	biological_process	response to oxidative stress
U	0016020	cellular_component	membrane
U	0032981	biological_process	mitochondrial respiratory chain complex I assembly
U	0045271	cellular_component	respiratory chain complex I
V	0005634	cellular_component	nucleus
V	0005654	cellular_component	nucleoplasm
V	0005737	cellular_component	cytoplasm
V	0005739	cellular_component	mitochondrion
V	0005743	cellular_component	mitochondrial inner membrane
V	0006915	biological_process	apoptotic process
V	0008137	molecular_function	NADH dehydrogenase (ubiquinone) activity
V	0032981	biological_process	mitochondrial respiratory chain complex I assembly
V	0045271	cellular_component	respiratory chain complex I
V	0045892	biological_process	negative regulation of DNA-templated transcription
V	1902600	biological_process	proton transmembrane transport
W	0006633	biological_process	fatty acid biosynthetic process
X	0005739	cellular_component	mitochondrion
X	0005743	cellular_component	mitochondrial inner membrane
X	0032981	biological_process	mitochondrial respiratory chain complex I assembly
X	0045271	cellular_component	respiratory chain complex I
Y	0005743	cellular_component	mitochondrial inner membrane
Y	0045271	cellular_component	respiratory chain complex I
Z	0005739	cellular_component	mitochondrion
Z	0005743	cellular_component	mitochondrial inner membrane
Z	0022900	biological_process	electron transport chain
Z	0032981	biological_process	mitochondrial respiratory chain complex I assembly
Z	0045271	cellular_component	respiratory chain complex I
a	0005739	cellular_component	mitochondrion
a	0005743	cellular_component	mitochondrial inner membrane
a	0032981	biological_process	mitochondrial respiratory chain complex I assembly
a	0045271	cellular_component	respiratory chain complex I
c	0005654	cellular_component	nucleoplasm
c	0005739	cellular_component	mitochondrion
c	0005743	cellular_component	mitochondrial inner membrane
c	0006120	biological_process	mitochondrial electron transport, NADH to ubiquinone
c	0031966	cellular_component	mitochondrial membrane
c	0032981	biological_process	mitochondrial respiratory chain complex I assembly
c	0042775	biological_process	mitochondrial ATP synthesis coupled electron transport
c	0045271	cellular_component	respiratory chain complex I
d	0005739	cellular_component	mitochondrion
d	0005743	cellular_component	mitochondrial inner membrane
d	0005758	cellular_component	mitochondrial intermembrane space
d	0008137	molecular_function	NADH dehydrogenase (ubiquinone) activity
d	0032981	biological_process	mitochondrial respiratory chain complex I assembly
d	0045271	cellular_component	respiratory chain complex I
d	1902600	biological_process	proton transmembrane transport
e	0005739	cellular_component	mitochondrion
e	0006120	biological_process	mitochondrial electron transport, NADH to ubiquinone
f	0005739	cellular_component	mitochondrion
f	0005743	cellular_component	mitochondrial inner membrane
f	0006120	biological_process	mitochondrial electron transport, NADH to ubiquinone
f	0032981	biological_process	mitochondrial respiratory chain complex I assembly
f	0045271	cellular_component	respiratory chain complex I
g	0005739	cellular_component	mitochondrion
g	0005743	cellular_component	mitochondrial inner membrane
g	0032981	biological_process	mitochondrial respiratory chain complex I assembly
g	0045271	cellular_component	respiratory chain complex I
i	0005739	cellular_component	mitochondrion
i	0045271	cellular_component	respiratory chain complex I
j	0005739	cellular_component	mitochondrion
j	0005743	cellular_component	mitochondrial inner membrane
j	0006120	biological_process	mitochondrial electron transport, NADH to ubiquinone
j	0032981	biological_process	mitochondrial respiratory chain complex I assembly
j	0045271	cellular_component	respiratory chain complex I

Functional Information from PDB Data

site_id	AC1
Number of Residues	3
Details	binding site for residue 3PE 2 401

Chain	Residue
2	PRO238
2	ILE239
4	TRP16

---

site_id	AC2
Number of Residues	8
Details	binding site for residue CDL 4 501

Chain	Residue
h	VAL106
h	ALA107
4	LEU446
4	LEU449
4	ASN450
6	MET20
6	TRP66
b	ALA83

---

site_id	AC3
Number of Residues	4
Details	binding site for residue 3PE 4 502

Chain	Residue
2	ILE276
4	TYR166
4	SER191
T	TRP133

---

site_id	AC4
Number of Residues	14
Details	binding site for residue FMN 8 501

Chain	Residue
8	GLY89
8	LYS98
8	ASN116
8	ASP118
8	GLU119
8	GLY120
8	GLU121
8	CYS206
8	GLY207
8	GLU208
8	VAL242
8	ALA243
8	ASN244
8	SER322

---

site_id	AC5
Number of Residues	10
Details	binding site for residue SF4 8 502

Chain	Residue
8	TYR204
8	PRO223
8	CYS379
8	GLY380
8	CYS382
8	CYS385
8	THR423
8	ILE424
8	CYS425
8	GLY428

---

site_id	AC6
Number of Residues	8
Details	binding site for residue FES 9 301

Chain	Residue
9	CYS135
9	THR137
9	CYS140
9	CYS176
9	LEU177
9	GLY178
9	ALA179
9	CYS180

---

site_id	AC7
Number of Residues	8
Details	binding site for residue SF4 A 801

Chain	Residue
A	HIS124
A	ASP127
A	CYS128
A	CYS131
A	CYS137
A	GLN140
A	VAL228
A	GLY229

---

site_id	AC8
Number of Residues	10
Details	binding site for residue SF4 A 802

Chain	Residue
A	CYS176
A	GLN178
A	CYS179
A	ARG181
A	CYS182
A	VAL206
A	CYS226
A	PRO227
A	VAL228
A	ALA230

---

site_id	AC9
Number of Residues	7
Details	binding site for residue FES A 803

Chain	Residue
A	CYS64
A	ALA72
A	GLY73
A	CYS75
A	MET77
A	CYS78
A	CYS92

---

site_id	AD1
Number of Residues	7
Details	binding site for residue 3PE B 501

Chain	Residue
1	PHE186
1	PHE198
1	TYR277
B	ARG266
E	THR60
E	LEU61
E	TRP63

---

site_id	AD2
Number of Residues	7
Details	binding site for residue SF4 D 301

Chain	Residue
B	ARG138
D	ALA90
D	CYS91
D	CYS92
D	CYS156
D	CYS186
D	PRO187

---

site_id	AD3
Number of Residues	7
Details	binding site for residue SF4 E 301

Chain	Residue
E	CYS123
E	CYS152
E	ILE153
E	TYR154
E	CYS155
E	CYS158
E	GLU169

---

site_id	AD4
Number of Residues	8
Details	binding site for residue SF4 E 302

Chain	Residue
E	ALA166
E	ILE167
E	CYS113
E	ILE114
E	CYS116
E	LYS117
E	CYS119
E	CYS162

---

site_id	AD5
Number of Residues	4
Details	binding site for residue ZN I 300

Chain	Residue
I	CYS87
I	HIS96
I	CYS112
I	CYS115

---

site_id	AD6
Number of Residues	9
Details	binding site for residue CDL J 101

Chain	Residue
J	TRP2
J	PHE3
P	ARG6
P	PHE7
P	ILE8
P	TRP10
U	GLU2
U	VAL6
U	LEU7

---

site_id	AD7
Number of Residues	5
Details	binding site for residue PC1 L 200

Chain	Residue
3	TRP106
L	VAL12
L	GLU16
L	LEU19
L	PHE23

---

site_id	AD8
Number of Residues	8
Details	binding site for residue PC1 Q 201

Chain	Residue
2	PRO256
4	PHE105
Q	PHE169
Q	TRP170
Q	THR171
Q	MET172
j	PRO29
j	ARG30

---

site_id	AD9
Number of Residues	16
Details	binding site for residue NAP R 601

Chain	Residue
R	THR62
R	GLY63
R	PHE64
R	LEU65
R	ARG85
R	GLU87
R	LEU129
R	VAL130
R	GLY131
R	ARG132
R	PHE139
R	ILE167
R	HIS169
R	TYR180
R	PRO203
R	ALA204

---

site_id	AE1
Number of Residues	2
Details	binding site for residue PC1 S 401

Chain	Residue
3	THR107
S	MET284

---

site_id	AE2
Number of Residues	9
Details	binding site for residue 3PE V 201

Chain	Residue
1	ASN99
3	PHE11
7	LEU45
7	LEU54
7	PHE57
J	ALA39
V	PHE140
V	TRP142
V	TYR143

---

site_id	AE3
Number of Residues	7
Details	binding site for residue PC1 j 201

Chain	Residue
2	LEU343
2	SER344
H	PHE4
j	PHE11
j	GLN12
j	PHE13
j	ARG78

---

Functional Information from PROSITE/UniProt

site_id	PS00012
Number of Residues	16
Details	PHOSPHOPANTETHEINE Phosphopantetheine attachment site. DLGLDSLDQVEIIMAM

Chain	Residue	Details
W	ASP107-MET122

---

site_id	PS00018
Number of Residues	13
Details	EF_HAND_1 EF-hand calcium-binding domain. DIDAEKLMCpqEI

Chain	Residue	Details
W	ASP132-ILE144

---

site_id	PS00198
Number of Residues	12
Details	4FE4S_FER_1 4Fe-4S ferredoxin-type iron-sulfur binding region signature. CiACKlCEaVCP

Chain	Residue	Details
E	CYS113-PRO124
E	CYS152-PRO163

---

site_id	PS00535
Number of Residues	12
Details	COMPLEX1_49K Respiratory chain NADH dehydrogenase 49 Kd subunit signature. LHRGtEKLiEyK

Chain	Residue	Details
B	LEU116-LYS127

---

site_id	PS00542
Number of Residues	22
Details	COMPLEX1_30K Respiratory chain NADH dehydrogenase 30 Kd subunit signature. EREiwDMFgvffanHpdlRrIL

Chain	Residue	Details
C	GLU169-LEU190

---

site_id	PS00641
Number of Residues	18
Details	COMPLEX1_75K_1 Respiratory-chain NADH dehydrogenase 75 Kd subunit signature 1. PrfCYherlsvaGnCRmC

Chain	Residue	Details
A	PRO61-CYS78

---

site_id	PS00642
Number of Residues	13
Details	COMPLEX1_75K_2 Respiratory-chain NADH dehydrogenase 75 Kd subunit signature 2. CPiCDqGGeCdLQ

Chain	Residue	Details
A	CYS128-GLN140

---

site_id	PS00643
Number of Residues	11
Details	COMPLEX1_75K_3 Respiratory-chain NADH dehydrogenase 75 Kd subunit signature 3. RCIqCtRCIrF

Chain	Residue	Details
A	ARG175-PHE185

---

site_id	PS00644
Number of Residues	16
Details	COMPLEX1_51K_1 Respiratory-chain NADH dehydrogenase 51 Kd subunit signature 1. GAGAYICGEETALIES

Chain	Residue	Details
8	GLY200-SER215

---

site_id	PS00645
Number of Residues	12
Details	COMPLEX1_51K_2 Respiratory-chain NADH dehydrogenase 51 Kd subunit signature 2. ESCGqCtPCReG

Chain	Residue	Details
8	GLU377-GLY388

---

site_id	PS00667
Number of Residues	16
Details	COMPLEX1_ND1_1 Respiratory-chain NADH dehydrogenase subunit 1 signature 1. GLLQpIaDAIKLFiKE

Chain	Residue	Details
1	GLY44-GLU59

---

site_id	PS00668
Number of Residues	14
Details	COMPLEX1_ND1_2 Respiratory-chain NADH dehydrogenase subunit 1 signature 2. PFDLTEGEseLVs.G

Chain	Residue	Details
1	PRO197-GLY210

---

site_id	PS01099
Number of Residues	19
Details	COMPLEX1_24K Respiratory-chain NADH dehydrogenase 24 Kd subunit signature. DklFTlieveCLGaCvnAP

Chain	Residue	Details
9	ASP166-PRO184

---

site_id	PS01150
Number of Residues	17
Details	COMPLEX1_20K Respiratory-chain NADH dehydrogenase 20 Kd subunit signature. GcDRIVPVDIYvPgCPP

Chain	Residue	Details
D	GLY172-PRO188

---

Functional Information from SwissProt/UniProt

site_id	SWS_FT_FI1
Number of Residues	3
Details	BINDING: BINDING => ECO:0000255

Chain	Residue	Details
B	CYS326
6	LEU310-CYS330
6	MET366-LEU386
6	LEU413-GLY433
6	LEU457-ILE477
6	MET482-LEU502
6	GLY582-PHE602
B	CYS332
B	CYS347
A	CYS92
A	CYS176
A	CYS179
A	CYS182
A	CYS226
6	ILE273-LEU293

---

site_id	SWS_FT_FI2
Number of Residues	1
Details	MOD_RES: N6-acetyllysine => ECO:0000250|UniProtKB:Q91WD5

Chain	Residue	Details
B	LYS62
A	CYS128
A	CYS131
A	CYS137

---

site_id	SWS_FT_FI3
Number of Residues	1
Details	MOD_RES: Symmetric dimethylarginine => ECO:0000269|PubMed:23836892

Chain	Residue	Details
B	ARG118
A	LYS499
A	LYS709

---

site_id	SWS_FT_FI4
Number of Residues	2
Details	MOD_RES: N6-acetyllysine => ECO:0000250|UniProtKB:Q91YT0

Chain	Residue	Details
8	LYS104
8	LYS375

---

site_id	SWS_FT_FI5
Number of Residues	1
Details	MOD_RES: Omega-N-methylarginine => ECO:0000250|UniProtKB:Q91YT0

Chain	Residue	Details
8	ARG257

---