Summary Structural details Experimental details Functional details Sequence Neighbor History Downloads

6GCS

Cryo-EM structure of respiratory complex I from Yarrowia lipolytica

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	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	0008137	molecular_function	NADH dehydrogenase (ubiquinone) activity
2	0016020	cellular_component	membrane
2	0022904	biological_process	respiratory electron transport chain
2	0045271	cellular_component	respiratory chain complex I
2	1902600	biological_process	proton transmembrane transport
3	0005739	cellular_component	mitochondrion
3	0008137	molecular_function	NADH dehydrogenase (ubiquinone) activity
3	0016020	cellular_component	membrane
3	0031966	cellular_component	mitochondrial membrane
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	0008137	molecular_function	NADH dehydrogenase (ubiquinone) activity
4	0009060	biological_process	aerobic respiration
4	0015990	biological_process	electron transport coupled proton transport
4	0016020	cellular_component	membrane
4	0031966	cellular_component	mitochondrial membrane
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	0015990	biological_process	electron transport coupled proton transport
5	0016020	cellular_component	membrane
5	0042773	biological_process	ATP synthesis coupled electron transport
5	0045271	cellular_component	respiratory chain complex I
6	0005739	cellular_component	mitochondrion
6	0008137	molecular_function	NADH dehydrogenase (ubiquinone) activity
6	0016020	cellular_component	membrane
6	0031966	cellular_component	mitochondrial membrane
6	1902600	biological_process	proton transmembrane transport
8	0005739	cellular_component	mitochondrion
8	0005743	cellular_component	mitochondrial inner membrane
8	0005758	cellular_component	mitochondrial intermembrane space
8	0016020	cellular_component	membrane
8	0045271	cellular_component	respiratory chain complex I
9	0005739	cellular_component	mitochondrion
9	0005743	cellular_component	mitochondrial inner membrane
9	0005758	cellular_component	mitochondrial intermembrane space
9	0016020	cellular_component	membrane
9	0032981	biological_process	mitochondrial respiratory chain complex I assembly
9	0045271	cellular_component	respiratory chain complex I
A	0008137	molecular_function	NADH dehydrogenase (ubiquinone) activity
A	0016020	cellular_component	membrane
A	0016491	molecular_function	oxidoreductase activity
A	0016651	molecular_function	oxidoreductase activity, acting on NAD(P)H
A	0042773	biological_process	ATP synthesis coupled electron transport
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	0005739	cellular_component	mitochondrion
B	0005743	cellular_component	mitochondrial inner membrane
B	0008137	molecular_function	NADH dehydrogenase (ubiquinone) activity
B	0010181	molecular_function	FMN binding
B	0016020	cellular_component	membrane
B	0016491	molecular_function	oxidoreductase activity
B	0046872	molecular_function	metal ion binding
B	0051287	molecular_function	NAD binding
B	0051536	molecular_function	iron-sulfur cluster binding
B	0051539	molecular_function	4 iron, 4 sulfur cluster binding
B	1902600	biological_process	proton transmembrane transport
c	0005739	cellular_component	mitochondrion
c	0005743	cellular_component	mitochondrial inner membrane
c	0016020	cellular_component	membrane
c	0022900	biological_process	electron transport chain
c	0045271	cellular_component	respiratory chain complex I
C	0005739	cellular_component	mitochondrion
C	0006120	biological_process	mitochondrial electron transport, NADH to ubiquinone
C	0016491	molecular_function	oxidoreductase activity
C	0016651	molecular_function	oxidoreductase activity, acting on NAD(P)H
C	0048038	molecular_function	quinone binding
C	0051287	molecular_function	NAD binding
d	0005739	cellular_component	mitochondrion
d	0005743	cellular_component	mitochondrial inner membrane
d	0016020	cellular_component	membrane
d	0045271	cellular_component	respiratory chain complex I
D	0005739	cellular_component	mitochondrion
D	0005743	cellular_component	mitochondrial inner membrane
D	0016020	cellular_component	membrane
D	0045271	cellular_component	respiratory chain complex I
E	0005739	cellular_component	mitochondrion
E	0006744	biological_process	ubiquinone biosynthetic process
E	0044877	molecular_function	protein-containing complex binding
f	0005739	cellular_component	mitochondrion
f	0005743	cellular_component	mitochondrial inner membrane
f	0045271	cellular_component	respiratory chain complex I
F	0005739	cellular_component	mitochondrion
F	0005743	cellular_component	mitochondrial inner membrane
F	0016020	cellular_component	membrane
F	0022904	biological_process	respiratory electron transport chain
F	0045271	cellular_component	respiratory chain complex I
G	0005739	cellular_component	mitochondrion
G	0008137	molecular_function	NADH dehydrogenase (ubiquinone) activity
G	0016020	cellular_component	membrane
G	0016491	molecular_function	oxidoreductase activity
G	0016651	molecular_function	oxidoreductase activity, acting on NAD(P)H
G	1902600	biological_process	proton transmembrane transport
h	0005739	cellular_component	mitochondrion
h	0005743	cellular_component	mitochondrial inner membrane
h	0016020	cellular_component	membrane
h	0045271	cellular_component	respiratory chain complex I
H	0005743	cellular_component	mitochondrial inner membrane
H	0006120	biological_process	mitochondrial electron transport, NADH to ubiquinone
H	0008137	molecular_function	NADH dehydrogenase (ubiquinone) activity
H	0016491	molecular_function	oxidoreductase activity
H	0046872	molecular_function	metal ion binding
H	0051536	molecular_function	iron-sulfur cluster binding
H	0051537	molecular_function	2 iron, 2 sulfur cluster binding
H	0098796	cellular_component	membrane protein complex
H	1902494	cellular_component	catalytic complex
H	1902600	biological_process	proton transmembrane transport
I	0003954	molecular_function	NADH dehydrogenase activity
I	0005739	cellular_component	mitochondrion
I	0006120	biological_process	mitochondrial electron transport, NADH to ubiquinone
I	0009060	biological_process	aerobic respiration
I	0016020	cellular_component	membrane
I	0016491	molecular_function	oxidoreductase activity
I	0016651	molecular_function	oxidoreductase activity, acting on NAD(P)H
I	0032981	biological_process	mitochondrial respiratory chain complex I assembly
I	0046872	molecular_function	metal ion binding
I	0051536	molecular_function	iron-sulfur cluster binding
I	0051539	molecular_function	4 iron, 4 sulfur cluster binding
j	0016020	cellular_component	membrane
j	0016491	molecular_function	oxidoreductase activity
J	0005739	cellular_component	mitochondrion
J	0005743	cellular_component	mitochondrial inner membrane
J	0005744	cellular_component	TIM23 mitochondrial import inner membrane translocase complex
J	0006120	biological_process	mitochondrial electron transport, NADH to ubiquinone
J	0008320	molecular_function	protein transmembrane transporter activity
J	0016020	cellular_component	membrane
J	0030150	biological_process	protein import into mitochondrial matrix
J	0045271	cellular_component	respiratory chain complex I
K	0005739	cellular_component	mitochondrion
K	0008137	molecular_function	NADH dehydrogenase (ubiquinone) activity
K	0009060	biological_process	aerobic respiration
K	0015990	biological_process	electron transport coupled proton transport
K	0016491	molecular_function	oxidoreductase activity
K	0032981	biological_process	mitochondrial respiratory chain complex I assembly
K	0045271	cellular_component	respiratory chain complex I
K	0046872	molecular_function	metal ion binding
K	0048038	molecular_function	quinone binding
K	0051536	molecular_function	iron-sulfur cluster binding
K	0051539	molecular_function	4 iron, 4 sulfur cluster binding
L	0005739	cellular_component	mitochondrion
L	0008137	molecular_function	NADH dehydrogenase (ubiquinone) activity
L	0016020	cellular_component	membrane
L	0016651	molecular_function	oxidoreductase activity, acting on NAD(P)H
L	0031966	cellular_component	mitochondrial membrane
L	0042773	biological_process	ATP synthesis coupled electron transport
L	0045271	cellular_component	respiratory chain complex I
L	1902600	biological_process	proton transmembrane transport
M	0005739	cellular_component	mitochondrion
M	0006120	biological_process	mitochondrial electron transport, NADH to ubiquinone
M	0045271	cellular_component	respiratory chain complex I
O	0000035	molecular_function	acyl binding
O	0000036	molecular_function	acyl carrier activity
O	0005739	cellular_component	mitochondrion
O	0006629	biological_process	lipid metabolic process
O	0006631	biological_process	fatty acid metabolic process
O	0006633	biological_process	fatty acid biosynthetic process
O	0009107	biological_process	lipoate biosynthetic process
O	0016226	biological_process	iron-sulfur cluster assembly
O	0099128	cellular_component	mitochondrial [2Fe-2S] assembly complex
P	0005739	cellular_component	mitochondrion
P	0005743	cellular_component	mitochondrial inner membrane
P	0016020	cellular_component	membrane
P	0045271	cellular_component	respiratory chain complex I
Q	0000035	molecular_function	acyl binding
Q	0000036	molecular_function	acyl carrier activity
Q	0005739	cellular_component	mitochondrion
Q	0006629	biological_process	lipid metabolic process
Q	0006631	biological_process	fatty acid metabolic process
Q	0006633	biological_process	fatty acid biosynthetic process
Q	0099128	cellular_component	mitochondrial [2Fe-2S] assembly complex
R	0005739	cellular_component	mitochondrion
R	0005743	cellular_component	mitochondrial inner membrane
R	0006120	biological_process	mitochondrial electron transport, NADH to ubiquinone
R	0016020	cellular_component	membrane
R	0045271	cellular_component	respiratory chain complex I
U	0005739	cellular_component	mitochondrion
U	0005743	cellular_component	mitochondrial inner membrane
U	0006120	biological_process	mitochondrial electron transport, NADH to ubiquinone
U	0016020	cellular_component	membrane
U	0045271	cellular_component	respiratory chain complex I
W	0005739	cellular_component	mitochondrion
W	0005743	cellular_component	mitochondrial inner membrane
W	0016020	cellular_component	membrane
W	0045271	cellular_component	respiratory chain complex I
X	0016020	cellular_component	membrane
X	0045271	cellular_component	respiratory chain complex I
Y	0005739	cellular_component	mitochondrion
Y	0005743	cellular_component	mitochondrial inner membrane
Y	0016020	cellular_component	membrane
Y	0022900	biological_process	electron transport chain
Y	0045271	cellular_component	respiratory chain complex I

Functional Information from PDB Data

site_id	AC1
Number of Residues	11
Details	binding site for residue SF4 A 801

Chain	Residue
A	HIS129
A	VAL235
A	GLY236
A	ASP132
A	CYS133
A	CYS136
A	GLN138
A	CYS142
A	LEU144
A	GLN145
A	ARG182

site_id	AC2
Number of Residues	7
Details	binding site for residue SF4 A 802

Chain	Residue
A	CYS183
A	CYS186
A	THR187
A	CYS189
A	CYS233
A	ALA237
A	LEU238

site_id	AC3
Number of Residues	8
Details	binding site for residue FES A 803

Chain	Residue
A	CYS69
A	TYR70
A	ALA77
A	CYS80
A	ARG81
A	MET82
A	CYS83
A	CYS97

site_id	AC4
Number of Residues	8
Details	binding site for residue SF4 B 501

Chain	Residue
B	VAL207
B	CYS381
B	GLY382
B	CYS384
B	CYS387
B	CYS427
B	LEU429
B	GLY430

site_id	AC5
Number of Residues	17
Details	binding site for residue FMN B 502

Chain	Residue
B	GLY86
B	ARG87
B	GLY88
B	LYS97
B	ASN118
B	ASP120
B	GLU121
B	GLY122
B	TYR206
B	GLY209
B	GLU210
B	VAL244
B	THR245
B	ASN246
B	THR249
B	ALA428
B	LEU429

site_id	AC6
Number of Residues	19
Details	binding site for residue NDP E 401

Chain	Residue
E	GLY60
E	ASN62
E	GLY63
E	PHE64
E	LEU65
E	ARG85
E	LEU109
E	ILE129
E	GLY130
E	ARG131
E	GLU132
E	PHE138
E	PHE169
E	LYS183
E	PRO202
E	ALA203
E	MET205
E	LYS211
K	ARG209

site_id	AC7
Number of Residues	8
Details	binding site for residue FES H 301

Chain	Residue
H	CYS127
H	PRO131
H	CYS132
H	CYS168
H	LEU169
H	GLY170
H	ALA171
H	CYS172

site_id	AC8
Number of Residues	11
Details	binding site for residue SF4 I 301

Chain	Residue
I	HIS118
I	CYS140
I	PRO141
I	ILE145
I	CYS169
I	ILE170
I	CYS172
I	GLY173
I	TYR174
I	CYS175
I	GLU186

site_id	AC9
Number of Residues	9
Details	binding site for residue SF4 I 302

Chain	Residue
I	CYS130
I	ILE131
I	ALA132
I	CYS133
I	LYS134
I	CYS136
I	ILE147
I	TYR162
I	CYS179

site_id	AD1
Number of Residues	10
Details	binding site for residue SF4 K 301

Chain	Residue
K	ALA84
K	CYS85
K	CYS86
K	GLY121
K	THR122
K	SER149
K	CYS150
K	CYS180
K	PRO181
C	ARG141

site_id	AD2
Number of Residues	4
Details	binding site for residue ZN M 201

Chain	Residue
M	CYS97
M	HIS110
M	CYS125
M	CYS128

site_id	AD3
Number of Residues	11
Details	binding site for residue ZMP O 201

Chain	Residue
O	SER66
O	LEU67
P	GLN22
P	PHE32
P	PHE60
P	HIS63
P	ARG64
P	GLN72
P	LEU75
P	GLY79
P	TYR99

site_id	AD4
Number of Residues	13
Details	binding site for residue CDL g 201

Chain	Residue
2	SER8
2	THR11
2	PHE12
2	MET15
X	PRO20
X	PHE74
X	ARG76
X	VAL77
X	MET80
g	TRP9
g	TYR15
g	PHE30
g	3PE202

site_id	AD5
Number of Residues	9
Details	binding site for residue 3PE g 202

Chain	Residue
3	ILE99
3	VAL103
3	ASN107
g	TYR15
g	SER19
g	ARG23
g	LEU26
g	PHE30
g	CDL201

site_id	AD6
Number of Residues	15
Details	binding site for residue 3PE 1 401

Chain	Residue
1	PRO184
1	LEU185
1	ILE188
1	PHE190
1	ILE191
1	PHE303
1	ASN310
1	PHE311
1	ILE323
C	LEU273
I	TYR77
I	PHE78
I	LEU80
I	MET83
W	CYS41

site_id	AD7
Number of Residues	4
Details	binding site for residue 3PE 4 501

Chain	Residue
2	LEU362
4	ASN112
4	LEU113
4	THR116

Functional Information from PROSITE/UniProt

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

Chain	Residue	Details
O	ASP61-ILE76
Q	ASP84-ILE99

site_id	PS00133
Number of Residues	11
Details	CARBOXYPEPT_ZN_2 Zinc carboxypeptidases, zinc-binding region 2 signature. HSIAGLFiFPW

Chain	Residue	Details
X	HIS145-TRP155

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

Chain	Residue	Details
I	CYS130-PRO141
I	CYS169-PRO180

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

Chain	Residue	Details
C	LEU119-LYS130

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

Chain	Residue	Details
G	GLU179-MET200

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

Chain	Residue	Details
A	PRO66-CYS83

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

Chain	Residue	Details
A	CYS133-GLN145

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

Chain	Residue	Details
A	ARG182-PHE192

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

Chain	Residue	Details
B	GLY202-SER217

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

Chain	Residue	Details
B	GLU379-GLY390

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

Chain	Residue	Details
1	GLY46-GLU61

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

Chain	Residue	Details
1	PRO201-GLY214

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

Chain	Residue	Details
H	ASP158-PRO176

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

Chain	Residue	Details
K	GLY166-PRO182

Functional Information from SwissProt/UniProt

site_id	SWS_FT_FI1
Number of Residues	100
Details	TRANSMEM: Helical => ECO:0000255

Chain	Residue	Details
6	LEU4-ILE24
5	ILE304-LEU322
5	LEU332-LEU354
5	LEU370-LEU390
5	VAL413-LEU433
5	ILE456-LEU476
5	ILE516-PHE536
5	LEU629-ILE649
6	ILE33-GLY53
6	ILE54-ILE74
6	LEU94-ASN114
6	ALA159-ILE179
5	PHE180-ILE200
5	ALA204-MET224
5	THR244-LEU264
5	VAL276-ILE296

		Sequence (fasta)
		PDBx/mmCIF
		PDBML format (no-atom)
		PDB format (full)
		Validation report (PDF)