Summary Structural details Experimental details Functional details Sequence Neighbor History Downloads

6G94

Structure of E. coli hydrogenase-1 C19G variant in complex with cytochrome b

Functional Information from GO Data

Chain	GOid	namespace	contents
A	0005506	molecular_function	iron ion binding
A	0005515	molecular_function	protein binding
A	0005886	cellular_component	plasma membrane
A	0006113	biological_process	fermentation
A	0009055	molecular_function	electron transfer activity
A	0009061	biological_process	anaerobic respiration
A	0009267	biological_process	cellular response to starvation
A	0016020	cellular_component	membrane
A	0019645	biological_process	anaerobic electron transport chain
A	0020037	molecular_function	heme binding
A	0022904	biological_process	respiratory electron transport chain
A	0033748	molecular_function	hydrogenase (acceptor) activity
A	0044569	cellular_component	[Ni-Fe] hydrogenase complex
A	0046872	molecular_function	metal ion binding
A	0098567	cellular_component	periplasmic side of plasma membrane
A	1902421	biological_process	hydrogen metabolic process
B	0005506	molecular_function	iron ion binding
B	0005515	molecular_function	protein binding
B	0005886	cellular_component	plasma membrane
B	0006113	biological_process	fermentation
B	0009055	molecular_function	electron transfer activity
B	0009061	biological_process	anaerobic respiration
B	0009267	biological_process	cellular response to starvation
B	0016020	cellular_component	membrane
B	0019645	biological_process	anaerobic electron transport chain
B	0020037	molecular_function	heme binding
B	0022904	biological_process	respiratory electron transport chain
B	0033748	molecular_function	hydrogenase (acceptor) activity
B	0044569	cellular_component	[Ni-Fe] hydrogenase complex
B	0046872	molecular_function	metal ion binding
B	0098567	cellular_component	periplasmic side of plasma membrane
B	1902421	biological_process	hydrogen metabolic process
J	0005515	molecular_function	protein binding
J	0005886	cellular_component	plasma membrane
J	0006113	biological_process	fermentation
J	0008901	molecular_function	ferredoxin hydrogenase activity
J	0009055	molecular_function	electron transfer activity
J	0009061	biological_process	anaerobic respiration
J	0009267	biological_process	cellular response to starvation
J	0016020	cellular_component	membrane
J	0016151	molecular_function	nickel cation binding
J	0016491	molecular_function	oxidoreductase activity
J	0019645	biological_process	anaerobic electron transport chain
J	0030288	cellular_component	outer membrane-bounded periplasmic space
J	0033748	molecular_function	hydrogenase (acceptor) activity
J	0044569	cellular_component	[Ni-Fe] hydrogenase complex
J	0046872	molecular_function	metal ion binding
J	0098567	cellular_component	periplasmic side of plasma membrane
J	1902421	biological_process	hydrogen metabolic process
K	0005515	molecular_function	protein binding
K	0005886	cellular_component	plasma membrane
K	0006113	biological_process	fermentation
K	0008901	molecular_function	ferredoxin hydrogenase activity
K	0009055	molecular_function	electron transfer activity
K	0009061	biological_process	anaerobic respiration
K	0009267	biological_process	cellular response to starvation
K	0016020	cellular_component	membrane
K	0016151	molecular_function	nickel cation binding
K	0016491	molecular_function	oxidoreductase activity
K	0019645	biological_process	anaerobic electron transport chain
K	0030288	cellular_component	outer membrane-bounded periplasmic space
K	0033748	molecular_function	hydrogenase (acceptor) activity
K	0044569	cellular_component	[Ni-Fe] hydrogenase complex
K	0046872	molecular_function	metal ion binding
K	0098567	cellular_component	periplasmic side of plasma membrane
K	1902421	biological_process	hydrogen metabolic process
L	0005515	molecular_function	protein binding
L	0005886	cellular_component	plasma membrane
L	0006113	biological_process	fermentation
L	0008901	molecular_function	ferredoxin hydrogenase activity
L	0009055	molecular_function	electron transfer activity
L	0009061	biological_process	anaerobic respiration
L	0009267	biological_process	cellular response to starvation
L	0016020	cellular_component	membrane
L	0016151	molecular_function	nickel cation binding
L	0016491	molecular_function	oxidoreductase activity
L	0019645	biological_process	anaerobic electron transport chain
L	0030288	cellular_component	outer membrane-bounded periplasmic space
L	0033748	molecular_function	hydrogenase (acceptor) activity
L	0044569	cellular_component	[Ni-Fe] hydrogenase complex
L	0046872	molecular_function	metal ion binding
L	0098567	cellular_component	periplasmic side of plasma membrane
L	1902421	biological_process	hydrogen metabolic process
M	0005515	molecular_function	protein binding
M	0005886	cellular_component	plasma membrane
M	0006113	biological_process	fermentation
M	0008901	molecular_function	ferredoxin hydrogenase activity
M	0009055	molecular_function	electron transfer activity
M	0009061	biological_process	anaerobic respiration
M	0009267	biological_process	cellular response to starvation
M	0016020	cellular_component	membrane
M	0016151	molecular_function	nickel cation binding
M	0016491	molecular_function	oxidoreductase activity
M	0019645	biological_process	anaerobic electron transport chain
M	0030288	cellular_component	outer membrane-bounded periplasmic space
M	0033748	molecular_function	hydrogenase (acceptor) activity
M	0044569	cellular_component	[Ni-Fe] hydrogenase complex
M	0046872	molecular_function	metal ion binding
M	0098567	cellular_component	periplasmic side of plasma membrane
M	1902421	biological_process	hydrogen metabolic process
Q	0005515	molecular_function	protein binding
Q	0005886	cellular_component	plasma membrane
Q	0006113	biological_process	fermentation
Q	0008901	molecular_function	ferredoxin hydrogenase activity
Q	0009055	molecular_function	electron transfer activity
Q	0009061	biological_process	anaerobic respiration
Q	0009267	biological_process	cellular response to starvation
Q	0009375	cellular_component	ferredoxin hydrogenase complex
Q	0016020	cellular_component	membrane
Q	0016491	molecular_function	oxidoreductase activity
Q	0019645	biological_process	anaerobic electron transport chain
Q	0033748	molecular_function	hydrogenase (acceptor) activity
Q	0044569	cellular_component	[Ni-Fe] hydrogenase complex
Q	0046872	molecular_function	metal ion binding
Q	0051536	molecular_function	iron-sulfur cluster binding
Q	0051538	molecular_function	3 iron, 4 sulfur cluster binding
Q	0051539	molecular_function	4 iron, 4 sulfur cluster binding
Q	0098567	cellular_component	periplasmic side of plasma membrane
Q	1902421	biological_process	hydrogen metabolic process
R	0005515	molecular_function	protein binding
R	0005886	cellular_component	plasma membrane
R	0006113	biological_process	fermentation
R	0008901	molecular_function	ferredoxin hydrogenase activity
R	0009055	molecular_function	electron transfer activity
R	0009061	biological_process	anaerobic respiration
R	0009267	biological_process	cellular response to starvation
R	0009375	cellular_component	ferredoxin hydrogenase complex
R	0016020	cellular_component	membrane
R	0016491	molecular_function	oxidoreductase activity
R	0019645	biological_process	anaerobic electron transport chain
R	0033748	molecular_function	hydrogenase (acceptor) activity
R	0044569	cellular_component	[Ni-Fe] hydrogenase complex
R	0046872	molecular_function	metal ion binding
R	0051536	molecular_function	iron-sulfur cluster binding
R	0051538	molecular_function	3 iron, 4 sulfur cluster binding
R	0051539	molecular_function	4 iron, 4 sulfur cluster binding
R	0098567	cellular_component	periplasmic side of plasma membrane
R	1902421	biological_process	hydrogen metabolic process
S	0005515	molecular_function	protein binding
S	0005886	cellular_component	plasma membrane
S	0006113	biological_process	fermentation
S	0008901	molecular_function	ferredoxin hydrogenase activity
S	0009055	molecular_function	electron transfer activity
S	0009061	biological_process	anaerobic respiration
S	0009267	biological_process	cellular response to starvation
S	0009375	cellular_component	ferredoxin hydrogenase complex
S	0016020	cellular_component	membrane
S	0016491	molecular_function	oxidoreductase activity
S	0019645	biological_process	anaerobic electron transport chain
S	0033748	molecular_function	hydrogenase (acceptor) activity
S	0044569	cellular_component	[Ni-Fe] hydrogenase complex
S	0046872	molecular_function	metal ion binding
S	0051536	molecular_function	iron-sulfur cluster binding
S	0051538	molecular_function	3 iron, 4 sulfur cluster binding
S	0051539	molecular_function	4 iron, 4 sulfur cluster binding
S	0098567	cellular_component	periplasmic side of plasma membrane
S	1902421	biological_process	hydrogen metabolic process
T	0005515	molecular_function	protein binding
T	0005886	cellular_component	plasma membrane
T	0006113	biological_process	fermentation
T	0008901	molecular_function	ferredoxin hydrogenase activity
T	0009055	molecular_function	electron transfer activity
T	0009061	biological_process	anaerobic respiration
T	0009267	biological_process	cellular response to starvation
T	0009375	cellular_component	ferredoxin hydrogenase complex
T	0016020	cellular_component	membrane
T	0016491	molecular_function	oxidoreductase activity
T	0019645	biological_process	anaerobic electron transport chain
T	0033748	molecular_function	hydrogenase (acceptor) activity
T	0044569	cellular_component	[Ni-Fe] hydrogenase complex
T	0046872	molecular_function	metal ion binding
T	0051536	molecular_function	iron-sulfur cluster binding
T	0051538	molecular_function	3 iron, 4 sulfur cluster binding
T	0051539	molecular_function	4 iron, 4 sulfur cluster binding
T	0098567	cellular_component	periplasmic side of plasma membrane
T	1902421	biological_process	hydrogen metabolic process

Functional Information from PDB Data

site_id	AC1
Number of Residues	6
Details	binding site for residue SF4 S 401

Chain	Residue
S	HIS187
S	CYS190
S	ARG193
S	CYS215
S	LEU216
S	CYS221

site_id	AC2
Number of Residues	8
Details	binding site for residue F3S S 402

Chain	Residue
S	CYS230
S	PRO242
S	CYS249
S	LEU250
S	CYS252
L	LYS226
S	THR226
S	ASN228

site_id	AC3
Number of Residues	11
Details	binding site for residue ER2 S 403

Chain	Residue
L	HIS229
S	GLU16
S	CYS17
S	GLY19
S	CYS20
S	THR114
S	CYS115
S	CYS120
S	GLY148
S	CYS149
S	PRO150

site_id	AC4
Number of Residues	13
Details	binding site for residue FCO L 601

Chain	Residue
L	CYS79
L	VAL82
L	HIS83
L	ALA507
L	PRO508
L	ARG509
L	LEU512
L	VAL530
L	PRO531
L	THR532
L	CYS579
L	NI602
L	HOH808

site_id	AC5
Number of Residues	6
Details	binding site for residue NI L 602

Chain	Residue
L	CYS76
L	CYS79
L	CYS576
L	CYS579
L	FCO601
L	HOH808

site_id	AC6
Number of Residues	6
Details	binding site for residue MG L 603

Chain	Residue
L	GLU57
L	CYS528
L	HIS582
L	HOH745
L	HOH770
L	HOH799

site_id	AC7
Number of Residues	2
Details	binding site for residue CL L 604

Chain	Residue
L	PHE212
L	ARG266

site_id	AC8
Number of Residues	8
Details	binding site for residue SF4 T 401

Chain	Residue
T	HIS187
T	CYS190
T	ARG192
T	ARG193
T	CYS215
T	LEU216
T	CYS221
T	ILE243

site_id	AC9
Number of Residues	9
Details	binding site for residue F3S T 402

Chain	Residue
M	LYS226
T	ASN228
T	CYS230
T	TRP235
T	PRO242
T	CYS249
T	LEU250
T	CYS252
T	HOH550

site_id	AD1
Number of Residues	10
Details	binding site for residue ER2 T 403

Chain	Residue
M	ARG74
M	HIS229
T	CYS17
T	GLY19
T	CYS20
T	THR114
T	CYS115
T	CYS120
T	CYS149
T	PRO150

site_id	AD2
Number of Residues	13
Details	binding site for residue FCO M 601

Chain	Residue
M	CYS79
M	VAL82
M	HIS83
M	ALA507
M	PRO508
M	ARG509
M	LEU512
M	VAL530
M	PRO531
M	THR532
M	CYS579
M	NI602
M	HOH812

site_id	AD3
Number of Residues	6
Details	binding site for residue NI M 602

Chain	Residue
M	CYS76
M	CYS79
M	CYS576
M	CYS579
M	FCO601
M	HOH812

site_id	AD4
Number of Residues	6
Details	binding site for residue MG M 603

Chain	Residue
M	CYS528
M	HIS582
M	HOH755
M	HOH770
M	HOH784
M	GLU57

site_id	AD5
Number of Residues	2
Details	binding site for residue CL M 604

Chain	Residue
M	PHE212
M	ARG266

site_id	AD6
Number of Residues	7
Details	binding site for residue SF4 Q 401

Chain	Residue
Q	HIS187
Q	CYS190
Q	ARG193
Q	CYS215
Q	LEU216
Q	CYS221
Q	ILE243

site_id	AD7
Number of Residues	9
Details	binding site for residue F3S Q 402

Chain	Residue
Q	THR226
Q	ASN228
Q	CYS230
Q	TRP235
Q	PRO242
Q	CYS249
Q	LEU250
Q	CYS252
Q	HOH547

site_id	AD8
Number of Residues	11
Details	binding site for residue ER2 Q 403

Chain	Residue
J	HIS229
Q	GLU16
Q	CYS17
Q	GLY19
Q	CYS20
Q	THR114
Q	CYS115
Q	CYS120
Q	GLY148
Q	CYS149
Q	PRO150

site_id	AD9
Number of Residues	13
Details	binding site for residue FCO J 601

Chain	Residue
J	CYS79
J	VAL82
J	HIS83
J	ALA507
J	PRO508
J	ARG509
J	LEU512
J	VAL530
J	PRO531
J	THR532
J	CYS579
J	NI602
J	HOH806

site_id	AE1
Number of Residues	6
Details	binding site for residue NI J 602

Chain	Residue
J	CYS76
J	CYS79
J	CYS576
J	CYS579
J	FCO601
J	HOH806

site_id	AE2
Number of Residues	6
Details	binding site for residue MG J 603

Chain	Residue
J	GLU57
J	CYS528
J	HIS582
J	HOH707
J	HOH738
J	HOH788

site_id	AE3
Number of Residues	2
Details	binding site for residue CL J 604

Chain	Residue
J	PHE212
J	ARG266

site_id	AE4
Number of Residues	9
Details	binding site for residue SF4 R 401

Chain	Residue
R	HIS187
R	CYS190
R	ARG192
R	ARG193
R	CYS215
R	LEU216
R	TYR217
R	CYS221
R	ILE243

site_id	AE5
Number of Residues	10
Details	binding site for residue F3S R 402

Chain	Residue
K	LYS226
R	ASN228
R	CYS230
R	TRP235
R	PRO242
R	CYS249
R	LEU250
R	GLY251
R	CYS252
R	HOH549

site_id	AE6
Number of Residues	10
Details	binding site for residue ER2 R 403

Chain	Residue
K	HIS229
R	CYS17
R	GLY19
R	CYS20
R	THR114
R	CYS115
R	CYS120
R	GLY148
R	CYS149
R	PRO150

site_id	AE7
Number of Residues	13
Details	binding site for residue FCO K 601

Chain	Residue
K	CYS79
K	VAL82
K	HIS83
K	ALA507
K	PRO508
K	ARG509
K	LEU512
K	VAL530
K	PRO531
K	THR532
K	CYS579
K	NI602
K	HOH805

site_id	AE8
Number of Residues	6
Details	binding site for residue NI K 602

Chain	Residue
K	CYS76
K	CYS79
K	CYS576
K	CYS579
K	FCO601
K	HOH805

site_id	AE9
Number of Residues	6
Details	binding site for residue MG K 603

Chain	Residue
K	GLU57
K	CYS528
K	HIS582
K	HOH731
K	HOH769
K	HOH802

site_id	AF1
Number of Residues	2
Details	binding site for residue CL K 604

Chain	Residue
K	PHE212
K	ARG266

site_id	AF2
Number of Residues	20
Details	binding site for residue HEM A 301

Chain	Residue
A	MET29
A	LEU32
A	GLY36
A	TYR37
A	ILE39
A	GLY40
A	ARG60
A	HIS63
A	PHE64
A	GLY67
A	THR71
A	MET143
A	GLY147
A	PHE148
A	LEU150
A	TYR151
A	HIS181
A	HIS184
A	ARG185
A	MET188

site_id	AF3
Number of Residues	18
Details	binding site for residue HEM B 301

Chain	Residue
B	MET29
B	LEU32
B	GLY36
B	ILE39
B	GLY40
B	ARG60
B	HIS63
B	PHE64
B	GLY67
B	MET143
B	GLY147
B	PHE148
B	LEU150
B	HIS181
B	HIS184
B	ARG185
B	MET188
R	HOH548

Functional Information from PROSITE/UniProt

site_id	PS00507
Number of Residues	26
Details	NI_HGENASE_L_1 Nickel-dependent hydrogenases large subunit signature 1. RGLEiilqgrdprdawafvERiCGVC

Chain	Residue	Details
L	ARG54-CYS79

site_id	PS00508
Number of Residues	10
Details	NI_HGENASE_L_2 Nickel-dependent hydrogenases large subunit signature 2. FDPCLACst.H

Chain	Residue	Details
L	PHE573-HIS582

site_id	PS00882
Number of Residues	18
Details	NI_HGENASE_CYTB_1 Nickel-dependent hydrogenases b-type cytochrome subunit signature 1. RIwHWLtvLCMavLmVTG

Chain	Residue	Details
A	ARG19-GLY36

site_id	PS00883
Number of Residues	18
Details	NI_HGENASE_CYTB_2 Nickel-dependent hydrogenases b-type cytochrome subunit signature 2. HSWHRLgmWlIgaFvigH

Chain	Residue	Details
A	HIS181-HIS198

Functional Information from SwissProt/UniProt

site_id	SWS_FT_FI1
Number of Residues	188
Details	TOPO_DOM: Cytoplasmic => ECO:0000255

Chain	Residue	Details
A	MET1-ARG19
J	CYS79
J	CYS576
J	CYS579
K	CYS76
K	CYS79
K	CYS576
K	CYS579
A	ASN85-GLN130
A	ARG204-SER235
B	MET1-ARG19
B	ASN85-GLN130
B	ARG204-SER235
M	CYS576
M	CYS579
J	CYS76

site_id	SWS_FT_FI2
Number of Residues	154
Details	TRANSMEM: Helical => ECO:0000255

Chain	Residue	Details
A	ILE20-GLY40
A	PHE64-GLY84
A	ALA131-TYR151
A	LEU186-LEU203
B	ILE20-GLY40
B	PHE64-GLY84
B	ALA131-TYR151
B	LEU186-LEU203

site_id	SWS_FT_FI3
Number of Residues	110
Details	TOPO_DOM: Periplasmic => ECO:0000255

Chain	Residue	Details
A	LYS41-HIS63
A	SER152-ARG185
B	LYS41-HIS63
B	SER152-ARG185

site_id	SWS_FT_FI4
Number of Residues	44
Details	BINDING: BINDING => ECO:0000250\|UniProtKB:P21853

Chain	Residue	Details
S	CYS17
S	CYS249
S	CYS252
T	CYS17
T	CYS20
T	CYS115
T	CYS149
T	HIS187
T	CYS190
T	CYS215
T	CYS221
S	CYS20
T	CYS230
T	CYS249
T	CYS252
Q	CYS17
Q	CYS20
Q	CYS115
Q	CYS149
Q	HIS187
Q	CYS190
Q	CYS215
S	CYS115
Q	CYS221
Q	CYS230
Q	CYS249
Q	CYS252
R	CYS17
R	CYS20
R	CYS115
R	CYS149
R	HIS187
R	CYS190
S	CYS149
R	CYS215
R	CYS221
R	CYS230
R	CYS249
R	CYS252
S	HIS187
S	CYS190
S	CYS215
S	CYS221
S	CYS230

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