3SOD

CHANGES IN CRYSTALLOGRAPHIC STRUCTURE AND THERMOSTABILITY OF A CU,ZN SUPEROXIDE DISMUTASE MUTANT RESULTING FROM THE REMOVAL OF BURIED CYSTEINE

Functional Information from GO Data

Chain	GOid	namespace	contents
B	0000209	biological_process	protein polyubiquitination
B	0000303	biological_process	response to superoxide
B	0001541	biological_process	ovarian follicle development
B	0001819	biological_process	positive regulation of cytokine production
B	0001895	biological_process	retina homeostasis
B	0002262	biological_process	myeloid cell homeostasis
B	0004784	molecular_function	superoxide dismutase activity
B	0004842	molecular_function	ubiquitin-protein transferase activity
B	0005507	molecular_function	copper ion binding
B	0005515	molecular_function	protein binding
B	0005634	cellular_component	nucleus
B	0005737	cellular_component	cytoplasm
B	0005739	cellular_component	mitochondrion
B	0005777	cellular_component	peroxisome
B	0005829	cellular_component	cytosol
B	0005886	cellular_component	plasma membrane
B	0006749	biological_process	glutathione metabolic process
B	0006801	biological_process	superoxide metabolic process
B	0006879	biological_process	intracellular iron ion homeostasis
B	0007283	biological_process	spermatogenesis
B	0007566	biological_process	embryo implantation
B	0007605	biological_process	sensory perception of sound
B	0007626	biological_process	locomotory behavior
B	0008217	biological_process	regulation of blood pressure
B	0008270	molecular_function	zinc ion binding
B	0009408	biological_process	response to heat
B	0010033	biological_process	obsolete response to organic substance
B	0016209	molecular_function	antioxidant activity
B	0016491	molecular_function	oxidoreductase activity
B	0019226	biological_process	transmission of nerve impulse
B	0019430	biological_process	removal of superoxide radicals
B	0030346	molecular_function	protein phosphatase 2B binding
B	0031410	cellular_component	cytoplasmic vesicle
B	0032287	biological_process	peripheral nervous system myelin maintenance
B	0032839	cellular_component	dendrite cytoplasm
B	0032991	cellular_component	protein-containing complex
B	0040014	biological_process	regulation of multicellular organism growth
B	0042542	biological_process	response to hydrogen peroxide
B	0042803	molecular_function	protein homodimerization activity
B	0043025	cellular_component	neuronal cell body
B	0043085	biological_process	positive regulation of catalytic activity
B	0043161	biological_process	proteasome-mediated ubiquitin-dependent protein catabolic process
B	0043410	biological_process	positive regulation of MAPK cascade
B	0043524	biological_process	negative regulation of neuron apoptotic process
B	0045471	biological_process	response to ethanol
B	0045541	biological_process	negative regulation of cholesterol biosynthetic process
B	0045859	biological_process	regulation of protein kinase activity
B	0046716	biological_process	muscle cell cellular homeostasis
B	0046872	molecular_function	metal ion binding
B	0048678	biological_process	response to axon injury
B	0050665	biological_process	hydrogen peroxide biosynthetic process
B	0051087	molecular_function	protein-folding chaperone binding
B	0051881	biological_process	regulation of mitochondrial membrane potential
B	0060047	biological_process	heart contraction
B	0060052	biological_process	neurofilament cytoskeleton organization
B	0060087	biological_process	relaxation of vascular associated smooth muscle
B	0060088	biological_process	auditory receptor cell stereocilium organization
B	0072593	biological_process	reactive oxygen species metabolic process
G	0000209	biological_process	protein polyubiquitination
G	0000303	biological_process	response to superoxide
G	0001541	biological_process	ovarian follicle development
G	0001819	biological_process	positive regulation of cytokine production
G	0001895	biological_process	retina homeostasis
G	0002262	biological_process	myeloid cell homeostasis
G	0004784	molecular_function	superoxide dismutase activity
G	0004842	molecular_function	ubiquitin-protein transferase activity
G	0005507	molecular_function	copper ion binding
G	0005515	molecular_function	protein binding
G	0005634	cellular_component	nucleus
G	0005737	cellular_component	cytoplasm
G	0005739	cellular_component	mitochondrion
G	0005777	cellular_component	peroxisome
G	0005829	cellular_component	cytosol
G	0005886	cellular_component	plasma membrane
G	0006749	biological_process	glutathione metabolic process
G	0006801	biological_process	superoxide metabolic process
G	0006879	biological_process	intracellular iron ion homeostasis
G	0007283	biological_process	spermatogenesis
G	0007566	biological_process	embryo implantation
G	0007605	biological_process	sensory perception of sound
G	0007626	biological_process	locomotory behavior
G	0008217	biological_process	regulation of blood pressure
G	0008270	molecular_function	zinc ion binding
G	0009408	biological_process	response to heat
G	0010033	biological_process	obsolete response to organic substance
G	0016209	molecular_function	antioxidant activity
G	0016491	molecular_function	oxidoreductase activity
G	0019226	biological_process	transmission of nerve impulse
G	0019430	biological_process	removal of superoxide radicals
G	0030346	molecular_function	protein phosphatase 2B binding
G	0031410	cellular_component	cytoplasmic vesicle
G	0032287	biological_process	peripheral nervous system myelin maintenance
G	0032839	cellular_component	dendrite cytoplasm
G	0032991	cellular_component	protein-containing complex
G	0040014	biological_process	regulation of multicellular organism growth
G	0042542	biological_process	response to hydrogen peroxide
G	0042803	molecular_function	protein homodimerization activity
G	0043025	cellular_component	neuronal cell body
G	0043085	biological_process	positive regulation of catalytic activity
G	0043161	biological_process	proteasome-mediated ubiquitin-dependent protein catabolic process
G	0043410	biological_process	positive regulation of MAPK cascade
G	0043524	biological_process	negative regulation of neuron apoptotic process
G	0045471	biological_process	response to ethanol
G	0045541	biological_process	negative regulation of cholesterol biosynthetic process
G	0045859	biological_process	regulation of protein kinase activity
G	0046716	biological_process	muscle cell cellular homeostasis
G	0046872	molecular_function	metal ion binding
G	0048678	biological_process	response to axon injury
G	0050665	biological_process	hydrogen peroxide biosynthetic process
G	0051087	molecular_function	protein-folding chaperone binding
G	0051881	biological_process	regulation of mitochondrial membrane potential
G	0060047	biological_process	heart contraction
G	0060052	biological_process	neurofilament cytoskeleton organization
G	0060087	biological_process	relaxation of vascular associated smooth muscle
G	0060088	biological_process	auditory receptor cell stereocilium organization
G	0072593	biological_process	reactive oxygen species metabolic process
O	0000209	biological_process	protein polyubiquitination
O	0000303	biological_process	response to superoxide
O	0001541	biological_process	ovarian follicle development
O	0001819	biological_process	positive regulation of cytokine production
O	0001895	biological_process	retina homeostasis
O	0002262	biological_process	myeloid cell homeostasis
O	0004784	molecular_function	superoxide dismutase activity
O	0004842	molecular_function	ubiquitin-protein transferase activity
O	0005507	molecular_function	copper ion binding
O	0005515	molecular_function	protein binding
O	0005634	cellular_component	nucleus
O	0005737	cellular_component	cytoplasm
O	0005739	cellular_component	mitochondrion
O	0005777	cellular_component	peroxisome
O	0005829	cellular_component	cytosol
O	0005886	cellular_component	plasma membrane
O	0006749	biological_process	glutathione metabolic process
O	0006801	biological_process	superoxide metabolic process
O	0006879	biological_process	intracellular iron ion homeostasis
O	0007283	biological_process	spermatogenesis
O	0007566	biological_process	embryo implantation
O	0007605	biological_process	sensory perception of sound
O	0007626	biological_process	locomotory behavior
O	0008217	biological_process	regulation of blood pressure
O	0008270	molecular_function	zinc ion binding
O	0009408	biological_process	response to heat
O	0010033	biological_process	obsolete response to organic substance
O	0016209	molecular_function	antioxidant activity
O	0016491	molecular_function	oxidoreductase activity
O	0019226	biological_process	transmission of nerve impulse
O	0019430	biological_process	removal of superoxide radicals
O	0030346	molecular_function	protein phosphatase 2B binding
O	0031410	cellular_component	cytoplasmic vesicle
O	0032287	biological_process	peripheral nervous system myelin maintenance
O	0032839	cellular_component	dendrite cytoplasm
O	0032991	cellular_component	protein-containing complex
O	0040014	biological_process	regulation of multicellular organism growth
O	0042542	biological_process	response to hydrogen peroxide
O	0042803	molecular_function	protein homodimerization activity
O	0043025	cellular_component	neuronal cell body
O	0043085	biological_process	positive regulation of catalytic activity
O	0043161	biological_process	proteasome-mediated ubiquitin-dependent protein catabolic process
O	0043410	biological_process	positive regulation of MAPK cascade
O	0043524	biological_process	negative regulation of neuron apoptotic process
O	0045471	biological_process	response to ethanol
O	0045541	biological_process	negative regulation of cholesterol biosynthetic process
O	0045859	biological_process	regulation of protein kinase activity
O	0046716	biological_process	muscle cell cellular homeostasis
O	0046872	molecular_function	metal ion binding
O	0048678	biological_process	response to axon injury
O	0050665	biological_process	hydrogen peroxide biosynthetic process
O	0051087	molecular_function	protein-folding chaperone binding
O	0051881	biological_process	regulation of mitochondrial membrane potential
O	0060047	biological_process	heart contraction
O	0060052	biological_process	neurofilament cytoskeleton organization
O	0060087	biological_process	relaxation of vascular associated smooth muscle
O	0060088	biological_process	auditory receptor cell stereocilium organization
O	0072593	biological_process	reactive oxygen species metabolic process
Y	0000209	biological_process	protein polyubiquitination
Y	0000303	biological_process	response to superoxide
Y	0001541	biological_process	ovarian follicle development
Y	0001819	biological_process	positive regulation of cytokine production
Y	0001895	biological_process	retina homeostasis
Y	0002262	biological_process	myeloid cell homeostasis
Y	0004784	molecular_function	superoxide dismutase activity
Y	0004842	molecular_function	ubiquitin-protein transferase activity
Y	0005507	molecular_function	copper ion binding
Y	0005515	molecular_function	protein binding
Y	0005634	cellular_component	nucleus
Y	0005737	cellular_component	cytoplasm
Y	0005739	cellular_component	mitochondrion
Y	0005777	cellular_component	peroxisome
Y	0005829	cellular_component	cytosol
Y	0005886	cellular_component	plasma membrane
Y	0006749	biological_process	glutathione metabolic process
Y	0006801	biological_process	superoxide metabolic process
Y	0006879	biological_process	intracellular iron ion homeostasis
Y	0007283	biological_process	spermatogenesis
Y	0007566	biological_process	embryo implantation
Y	0007605	biological_process	sensory perception of sound
Y	0007626	biological_process	locomotory behavior
Y	0008217	biological_process	regulation of blood pressure
Y	0008270	molecular_function	zinc ion binding
Y	0009408	biological_process	response to heat
Y	0010033	biological_process	obsolete response to organic substance
Y	0016209	molecular_function	antioxidant activity
Y	0016491	molecular_function	oxidoreductase activity
Y	0019226	biological_process	transmission of nerve impulse
Y	0019430	biological_process	removal of superoxide radicals
Y	0030346	molecular_function	protein phosphatase 2B binding
Y	0031410	cellular_component	cytoplasmic vesicle
Y	0032287	biological_process	peripheral nervous system myelin maintenance
Y	0032839	cellular_component	dendrite cytoplasm
Y	0032991	cellular_component	protein-containing complex
Y	0040014	biological_process	regulation of multicellular organism growth
Y	0042542	biological_process	response to hydrogen peroxide
Y	0042803	molecular_function	protein homodimerization activity
Y	0043025	cellular_component	neuronal cell body
Y	0043085	biological_process	positive regulation of catalytic activity
Y	0043161	biological_process	proteasome-mediated ubiquitin-dependent protein catabolic process
Y	0043410	biological_process	positive regulation of MAPK cascade
Y	0043524	biological_process	negative regulation of neuron apoptotic process
Y	0045471	biological_process	response to ethanol
Y	0045541	biological_process	negative regulation of cholesterol biosynthetic process
Y	0045859	biological_process	regulation of protein kinase activity
Y	0046716	biological_process	muscle cell cellular homeostasis
Y	0046872	molecular_function	metal ion binding
Y	0048678	biological_process	response to axon injury
Y	0050665	biological_process	hydrogen peroxide biosynthetic process
Y	0051087	molecular_function	protein-folding chaperone binding
Y	0051881	biological_process	regulation of mitochondrial membrane potential
Y	0060047	biological_process	heart contraction
Y	0060052	biological_process	neurofilament cytoskeleton organization
Y	0060087	biological_process	relaxation of vascular associated smooth muscle
Y	0060088	biological_process	auditory receptor cell stereocilium organization
Y	0072593	biological_process	reactive oxygen species metabolic process

Functional Information from PDB Data

site_id	AC1
Number of Residues	4
Details	BINDING SITE FOR RESIDUE CU O 152

Chain	Residue
O	HIS44
O	HIS46
O	HIS61
O	HIS118

---

site_id	AC2
Number of Residues	4
Details	BINDING SITE FOR RESIDUE ZN O 153

Chain	Residue
O	HIS61
O	HIS69
O	HIS78
O	ASP81

---

site_id	AC3
Number of Residues	4
Details	BINDING SITE FOR RESIDUE CU Y 152

Chain	Residue
Y	HIS44
Y	HIS46
Y	HIS61
Y	HIS118

---

site_id	AC4
Number of Residues	4
Details	BINDING SITE FOR RESIDUE ZN Y 153

Chain	Residue
Y	HIS61
Y	HIS69
Y	HIS78
Y	ASP81

---

site_id	AC5
Number of Residues	4
Details	BINDING SITE FOR RESIDUE CU G 152

Chain	Residue
G	HIS44
G	HIS46
G	HIS61
G	HIS118

---

site_id	AC6
Number of Residues	4
Details	BINDING SITE FOR RESIDUE ZN G 153

Chain	Residue
G	HIS61
G	HIS69
G	HIS78
G	ASP81

---

site_id	AC7
Number of Residues	4
Details	BINDING SITE FOR RESIDUE CU B 152

Chain	Residue
B	HIS44
B	HIS46
B	HIS61
B	HIS118

---

site_id	AC8
Number of Residues	4
Details	BINDING SITE FOR RESIDUE ZN B 153

Chain	Residue
B	HIS61
B	HIS69
B	HIS78
B	ASP81

---

site_id	CUB
Number of Residues	4
Details

Chain	Residue
B	HIS44
B	HIS46
B	HIS61
B	HIS118

---

site_id	CUG
Number of Residues	4
Details

Chain	Residue
G	HIS44
G	HIS46
G	HIS61
G	HIS118

---

site_id	CUO
Number of Residues	4
Details

Chain	Residue
O	HIS44
O	HIS46
O	HIS61
O	HIS118

---

site_id	CUY
Number of Residues	4
Details

Chain	Residue
Y	HIS46
Y	HIS61
Y	HIS118
Y	HIS44

---

site_id	ZNB
Number of Residues	4
Details

Chain	Residue
B	HIS61
B	HIS69
B	HIS78
B	ASP81

---

site_id	ZNG
Number of Residues	4
Details

Chain	Residue
G	HIS61
G	HIS69
G	HIS78
G	ASP81

---

site_id	ZNO
Number of Residues	4
Details

Chain	Residue
O	HIS61
O	HIS69
O	HIS78
O	ASP81

---

site_id	ZNY
Number of Residues	4
Details

Chain	Residue
Y	HIS61
Y	HIS69
Y	HIS78
Y	ASP81

---

Functional Information from PROSITE/UniProt

site_id	PS00087
Number of Residues	11
Details	SOD_CU_ZN_1 Copper/Zinc superoxide dismutase signature 1. GFHVHQfGDnT

Chain	Residue	Details
O	GLY42-THR52

---

site_id	PS00332
Number of Residues	12
Details	SOD_CU_ZN_2 Copper/Zinc superoxide dismutase signature 2. GNAGsRlACgvI

Chain	Residue	Details
O	GLY136-ILE147

---

site_id	PS00430
Number of Residues	33
Details	TONB_DEPENDENT_REC_1 TonB-dependent receptor (TBDR) proteins signature 1. xatkavavlkgdgpvqgtihfeakg..........................................................................................DTVVVTGS

Chain	Residue	Details
O	ACE0-SER32

---

Functional Information from SwissProt/UniProt

site_id	SWS_FT_FI1
Number of Residues	12
Details	BINDING: BINDING => ECO:0000269|PubMed:1055410, ECO:0000269|PubMed:12906825

Chain	Residue	Details
O	VAL45
B	VAL45
B	GLN47
B	GLU119
O	GLN47
O	GLU119
Y	VAL45
Y	GLN47
Y	GLU119
G	VAL45
G	GLN47
G	GLU119

---

site_id	SWS_FT_FI2
Number of Residues	16
Details	BINDING: BINDING => ECO:0000269|PubMed:1055410

Chain	Residue	Details
O	PHE62
G	GLY70
G	VAL79
G	LEU82
B	PHE62
B	GLY70
B	VAL79
B	LEU82
O	GLY70
O	VAL79
O	LEU82
Y	PHE62
Y	GLY70
Y	VAL79
Y	LEU82
G	PHE62

---

site_id	SWS_FT_FI3
Number of Residues	4
Details	MOD_RES: N-acetylalanine => ECO:0000269|PubMed:4279916

Chain	Residue	Details
O	THR2
Y	THR2
G	THR2
B	THR2

---

site_id	SWS_FT_FI4
Number of Residues	12
Details	MOD_RES: N6-succinyllysine => ECO:0000250|UniProtKB:P08228

Chain	Residue	Details
O	ALA4
B	ALA4
B	GLY10
B	ASN90
O	GLY10
O	ASN90
Y	ALA4
Y	GLY10
Y	ASN90
G	ALA4
G	GLY10
G	ASN90

---

site_id	SWS_FT_FI5
Number of Residues	4
Details	MOD_RES: Phosphoserine => ECO:0000250|UniProtKB:P07632

Chain	Residue	Details
O	LEU104
Y	LEU104
G	LEU104
B	LEU104

---

site_id	SWS_FT_FI6
Number of Residues	4
Details	MOD_RES: Phosphoserine => ECO:0000250|UniProtKB:P08228

Chain	Residue	Details
O	GLY106
Y	GLY106
G	GLY106
B	GLY106

---

site_id	SWS_FT_FI7
Number of Residues	4
Details	MOD_RES: N6-succinyllysine; alternate => ECO:0000250|UniProtKB:P00441

Chain	Residue	Details
O	PRO121
Y	PRO121
G	PRO121
B	PRO121

---

site_id	SWS_FT_FI8
Number of Residues	4
Details	MOD_RES: N6-succinyllysine; alternate => ECO:0000250|UniProtKB:P08228

Chain	Residue	Details
O	THR135
Y	THR135
G	THR135
B	THR135

---

site_id	SWS_FT_FI9
Number of Residues	4
Details	LIPID: S-palmitoyl cysteine => ECO:0000250

Chain	Residue	Details
O	VAL7
Y	VAL7
G	VAL7
B	VAL7

---

Catalytic Information from CSA

site_id	CSA1
Number of Residues	2
Details	Annotated By Reference To The Literature 2jcw

Chain	Residue	Details
O	HIS61
O	ARG141

---

site_id	CSA2
Number of Residues	2
Details	Annotated By Reference To The Literature 2jcw

Chain	Residue	Details
Y	HIS61
Y	ARG141

---

site_id	CSA3
Number of Residues	2
Details	Annotated By Reference To The Literature 2jcw

Chain	Residue	Details
G	HIS61
G	ARG141

---

site_id	CSA4
Number of Residues	2
Details	Annotated By Reference To The Literature 2jcw

Chain	Residue	Details
B	HIS61
B	ARG141

---

site_id	CSA5
Number of Residues	1
Details	Annotated By Reference To The Literature 2jcw

Chain	Residue	Details
O	HIS61

---

site_id	CSA6
Number of Residues	1
Details	Annotated By Reference To The Literature 2jcw

Chain	Residue	Details
Y	HIS61

---

site_id	CSA7
Number of Residues	1
Details	Annotated By Reference To The Literature 2jcw

Chain	Residue	Details
G	HIS61

---

site_id	CSA8
Number of Residues	1
Details	Annotated By Reference To The Literature 2jcw

Chain	Residue	Details
B	HIS61

---