2YRS

Human hemoglobin D Los Angeles: crystal structure

Functional Information from GO Data

Chain	GOid	namespace	contents
A	0004601	molecular_function	peroxidase activity
A	0005344	molecular_function	oxygen carrier activity
A	0005506	molecular_function	iron ion binding
A	0005515	molecular_function	protein binding
A	0005576	cellular_component	extracellular region
A	0005615	cellular_component	extracellular space
A	0005829	cellular_component	cytosol
A	0005833	cellular_component	hemoglobin complex
A	0015670	biological_process	carbon dioxide transport
A	0015671	biological_process	oxygen transport
A	0016020	cellular_component	membrane
A	0019825	molecular_function	oxygen binding
A	0020037	molecular_function	heme binding
A	0030185	biological_process	nitric oxide transport
A	0031720	molecular_function	haptoglobin binding
A	0031838	cellular_component	haptoglobin-hemoglobin complex
A	0042542	biological_process	response to hydrogen peroxide
A	0042744	biological_process	hydrogen peroxide catabolic process
A	0043177	molecular_function	organic acid binding
A	0046872	molecular_function	metal ion binding
A	0070062	cellular_component	extracellular exosome
A	0071682	cellular_component	endocytic vesicle lumen
A	0072562	cellular_component	blood microparticle
A	0098869	biological_process	cellular oxidant detoxification
B	0004601	molecular_function	peroxidase activity
B	0005344	molecular_function	oxygen carrier activity
B	0005515	molecular_function	protein binding
B	0005576	cellular_component	extracellular region
B	0005615	cellular_component	extracellular space
B	0005829	cellular_component	cytosol
B	0005833	cellular_component	hemoglobin complex
B	0008217	biological_process	regulation of blood pressure
B	0015670	biological_process	carbon dioxide transport
B	0015671	biological_process	oxygen transport
B	0019825	molecular_function	oxygen binding
B	0020037	molecular_function	heme binding
B	0030185	biological_process	nitric oxide transport
B	0030492	molecular_function	hemoglobin binding
B	0031720	molecular_function	haptoglobin binding
B	0031721	molecular_function	hemoglobin alpha binding
B	0031838	cellular_component	haptoglobin-hemoglobin complex
B	0042542	biological_process	response to hydrogen peroxide
B	0042744	biological_process	hydrogen peroxide catabolic process
B	0043177	molecular_function	organic acid binding
B	0045429	biological_process	positive regulation of nitric oxide biosynthetic process
B	0046872	molecular_function	metal ion binding
B	0070062	cellular_component	extracellular exosome
B	0070293	biological_process	renal absorption
B	0070527	biological_process	platelet aggregation
B	0071682	cellular_component	endocytic vesicle lumen
B	0072562	cellular_component	blood microparticle
B	0097746	biological_process	blood vessel diameter maintenance
B	0098869	biological_process	cellular oxidant detoxification
B	1904724	cellular_component	tertiary granule lumen
B	1904813	cellular_component	ficolin-1-rich granule lumen
C	0004601	molecular_function	peroxidase activity
C	0005344	molecular_function	oxygen carrier activity
C	0005506	molecular_function	iron ion binding
C	0005515	molecular_function	protein binding
C	0005576	cellular_component	extracellular region
C	0005615	cellular_component	extracellular space
C	0005829	cellular_component	cytosol
C	0005833	cellular_component	hemoglobin complex
C	0015670	biological_process	carbon dioxide transport
C	0015671	biological_process	oxygen transport
C	0016020	cellular_component	membrane
C	0019825	molecular_function	oxygen binding
C	0020037	molecular_function	heme binding
C	0030185	biological_process	nitric oxide transport
C	0031720	molecular_function	haptoglobin binding
C	0031838	cellular_component	haptoglobin-hemoglobin complex
C	0042542	biological_process	response to hydrogen peroxide
C	0042744	biological_process	hydrogen peroxide catabolic process
C	0043177	molecular_function	organic acid binding
C	0046872	molecular_function	metal ion binding
C	0070062	cellular_component	extracellular exosome
C	0071682	cellular_component	endocytic vesicle lumen
C	0072562	cellular_component	blood microparticle
C	0098869	biological_process	cellular oxidant detoxification
D	0004601	molecular_function	peroxidase activity
D	0005344	molecular_function	oxygen carrier activity
D	0005515	molecular_function	protein binding
D	0005576	cellular_component	extracellular region
D	0005615	cellular_component	extracellular space
D	0005829	cellular_component	cytosol
D	0005833	cellular_component	hemoglobin complex
D	0008217	biological_process	regulation of blood pressure
D	0015670	biological_process	carbon dioxide transport
D	0015671	biological_process	oxygen transport
D	0019825	molecular_function	oxygen binding
D	0020037	molecular_function	heme binding
D	0030185	biological_process	nitric oxide transport
D	0030492	molecular_function	hemoglobin binding
D	0031720	molecular_function	haptoglobin binding
D	0031721	molecular_function	hemoglobin alpha binding
D	0031838	cellular_component	haptoglobin-hemoglobin complex
D	0042542	biological_process	response to hydrogen peroxide
D	0042744	biological_process	hydrogen peroxide catabolic process
D	0043177	molecular_function	organic acid binding
D	0045429	biological_process	positive regulation of nitric oxide biosynthetic process
D	0046872	molecular_function	metal ion binding
D	0070062	cellular_component	extracellular exosome
D	0070293	biological_process	renal absorption
D	0070527	biological_process	platelet aggregation
D	0071682	cellular_component	endocytic vesicle lumen
D	0072562	cellular_component	blood microparticle
D	0097746	biological_process	blood vessel diameter maintenance
D	0098869	biological_process	cellular oxidant detoxification
D	1904724	cellular_component	tertiary granule lumen
D	1904813	cellular_component	ficolin-1-rich granule lumen
I	0004601	molecular_function	peroxidase activity
I	0005344	molecular_function	oxygen carrier activity
I	0005506	molecular_function	iron ion binding
I	0005515	molecular_function	protein binding
I	0005576	cellular_component	extracellular region
I	0005615	cellular_component	extracellular space
I	0005829	cellular_component	cytosol
I	0005833	cellular_component	hemoglobin complex
I	0015670	biological_process	carbon dioxide transport
I	0015671	biological_process	oxygen transport
I	0016020	cellular_component	membrane
I	0019825	molecular_function	oxygen binding
I	0020037	molecular_function	heme binding
I	0030185	biological_process	nitric oxide transport
I	0031720	molecular_function	haptoglobin binding
I	0031838	cellular_component	haptoglobin-hemoglobin complex
I	0042542	biological_process	response to hydrogen peroxide
I	0042744	biological_process	hydrogen peroxide catabolic process
I	0043177	molecular_function	organic acid binding
I	0046872	molecular_function	metal ion binding
I	0070062	cellular_component	extracellular exosome
I	0071682	cellular_component	endocytic vesicle lumen
I	0072562	cellular_component	blood microparticle
I	0098869	biological_process	cellular oxidant detoxification
K	0004601	molecular_function	peroxidase activity
K	0005344	molecular_function	oxygen carrier activity
K	0005515	molecular_function	protein binding
K	0005576	cellular_component	extracellular region
K	0005615	cellular_component	extracellular space
K	0005829	cellular_component	cytosol
K	0005833	cellular_component	hemoglobin complex
K	0008217	biological_process	regulation of blood pressure
K	0015670	biological_process	carbon dioxide transport
K	0015671	biological_process	oxygen transport
K	0019825	molecular_function	oxygen binding
K	0020037	molecular_function	heme binding
K	0030185	biological_process	nitric oxide transport
K	0030492	molecular_function	hemoglobin binding
K	0031720	molecular_function	haptoglobin binding
K	0031721	molecular_function	hemoglobin alpha binding
K	0031838	cellular_component	haptoglobin-hemoglobin complex
K	0042542	biological_process	response to hydrogen peroxide
K	0042744	biological_process	hydrogen peroxide catabolic process
K	0043177	molecular_function	organic acid binding
K	0045429	biological_process	positive regulation of nitric oxide biosynthetic process
K	0046872	molecular_function	metal ion binding
K	0070062	cellular_component	extracellular exosome
K	0070293	biological_process	renal absorption
K	0070527	biological_process	platelet aggregation
K	0071682	cellular_component	endocytic vesicle lumen
K	0072562	cellular_component	blood microparticle
K	0097746	biological_process	blood vessel diameter maintenance
K	0098869	biological_process	cellular oxidant detoxification
K	1904724	cellular_component	tertiary granule lumen
K	1904813	cellular_component	ficolin-1-rich granule lumen
M	0004601	molecular_function	peroxidase activity
M	0005344	molecular_function	oxygen carrier activity
M	0005506	molecular_function	iron ion binding
M	0005515	molecular_function	protein binding
M	0005576	cellular_component	extracellular region
M	0005615	cellular_component	extracellular space
M	0005829	cellular_component	cytosol
M	0005833	cellular_component	hemoglobin complex
M	0015670	biological_process	carbon dioxide transport
M	0015671	biological_process	oxygen transport
M	0016020	cellular_component	membrane
M	0019825	molecular_function	oxygen binding
M	0020037	molecular_function	heme binding
M	0030185	biological_process	nitric oxide transport
M	0031720	molecular_function	haptoglobin binding
M	0031838	cellular_component	haptoglobin-hemoglobin complex
M	0042542	biological_process	response to hydrogen peroxide
M	0042744	biological_process	hydrogen peroxide catabolic process
M	0043177	molecular_function	organic acid binding
M	0046872	molecular_function	metal ion binding
M	0070062	cellular_component	extracellular exosome
M	0071682	cellular_component	endocytic vesicle lumen
M	0072562	cellular_component	blood microparticle
M	0098869	biological_process	cellular oxidant detoxification
O	0004601	molecular_function	peroxidase activity
O	0005344	molecular_function	oxygen carrier activity
O	0005515	molecular_function	protein binding
O	0005576	cellular_component	extracellular region
O	0005615	cellular_component	extracellular space
O	0005829	cellular_component	cytosol
O	0005833	cellular_component	hemoglobin complex
O	0008217	biological_process	regulation of blood pressure
O	0015670	biological_process	carbon dioxide transport
O	0015671	biological_process	oxygen transport
O	0019825	molecular_function	oxygen binding
O	0020037	molecular_function	heme binding
O	0030185	biological_process	nitric oxide transport
O	0030492	molecular_function	hemoglobin binding
O	0031720	molecular_function	haptoglobin binding
O	0031721	molecular_function	hemoglobin alpha binding
O	0031838	cellular_component	haptoglobin-hemoglobin complex
O	0042542	biological_process	response to hydrogen peroxide
O	0042744	biological_process	hydrogen peroxide catabolic process
O	0043177	molecular_function	organic acid binding
O	0045429	biological_process	positive regulation of nitric oxide biosynthetic process
O	0046872	molecular_function	metal ion binding
O	0070062	cellular_component	extracellular exosome
O	0070293	biological_process	renal absorption
O	0070527	biological_process	platelet aggregation
O	0071682	cellular_component	endocytic vesicle lumen
O	0072562	cellular_component	blood microparticle
O	0097746	biological_process	blood vessel diameter maintenance
O	0098869	biological_process	cellular oxidant detoxification
O	1904724	cellular_component	tertiary granule lumen
O	1904813	cellular_component	ficolin-1-rich granule lumen

Functional Information from PDB Data

site_id	AC1
Number of Residues	15
Details	BINDING SITE FOR RESIDUE HEM A 142

Chain	Residue
A	MET32
A	LEU91
A	ASN97
A	PHE98
A	LEU101
A	LEU136
A	HOH149
A	TYR42
A	PHE43
A	HIS45
A	HIS58
A	LYS61
A	LEU83
A	LEU86
A	HIS87

---

site_id	AC2
Number of Residues	8
Details	BINDING SITE FOR RESIDUE HEM B 148

Chain	Residue
B	HIS64
B	LYS67
B	HIS93
B	LEU97
B	ASN103
B	PHE104
B	LEU107
B	LEU142

---

site_id	AC3
Number of Residues	13
Details	BINDING SITE FOR RESIDUE HEM C 142

Chain	Residue
C	TYR42
C	PHE43
C	HIS45
C	PHE46
C	HIS58
C	LYS61
C	LEU86
C	HIS87
C	LEU91
C	ASN97
C	PHE98
C	LEU136
C	HOH151

---

site_id	AC4
Number of Residues	10
Details	BINDING SITE FOR RESIDUE HEM D 148

Chain	Residue
D	PHE42
D	PHE43
D	HIS64
D	LEU92
D	HIS93
D	LEU97
D	ASN103
D	PHE104
D	LEU107
D	LEU142

---

site_id	AC5
Number of Residues	12
Details	BINDING SITE FOR RESIDUE HEM I 142

Chain	Residue
I	TYR42
I	PHE43
I	HIS45
I	HIS58
I	LYS61
I	HIS87
I	LEU91
I	ASN97
I	PHE98
I	LEU101
I	LEU136
I	HOH145

---

site_id	AC6
Number of Residues	12
Details	BINDING SITE FOR RESIDUE HEM K 148

Chain	Residue
K	LEU32
K	PHE42
K	PHE43
K	HIS64
K	ALA71
K	LEU89
K	LEU92
K	HIS93
K	LEU97
K	ASN103
K	LEU107
K	LEU142

---

site_id	AC7
Number of Residues	13
Details	BINDING SITE FOR RESIDUE HEM M 142

Chain	Residue
M	MET32
M	TYR42
M	PHE43
M	HIS45
M	HIS58
M	LYS61
M	LEU86
M	HIS87
M	LEU91
M	ASN97
M	PHE98
M	LEU101
M	LEU136

---

site_id	AC8
Number of Residues	10
Details	BINDING SITE FOR RESIDUE HEM O 148

Chain	Residue
O	PHE42
O	PHE43
O	HIS64
O	LYS67
O	LEU92
O	HIS93
O	LEU97
O	ASN103
O	PHE104
O	LEU142

---

Functional Information from SwissProt/UniProt

site_id	SWS_FT_FI1
Number of Residues	16
Details	BINDING:

Chain	Residue	Details
B	VAL2
K	HIS3
K	LYS83
K	HIS144
O	VAL2
O	HIS3
O	LYS83
O	HIS144
B	HIS3
B	LYS83
B	HIS144
D	VAL2
D	HIS3
D	LYS83
D	HIS144
K	VAL2

---

site_id	SWS_FT_FI2
Number of Residues	4
Details	BINDING: distal binding residue

Chain	Residue	Details
B	HIS64
D	HIS64
K	HIS64
O	HIS64

---

site_id	SWS_FT_FI3
Number of Residues	4
Details	BINDING: proximal binding residue

Chain	Residue	Details
B	HIS93
A	LEU91
A	LEU106
A	THR108
A	VAL121
A	SER133
C	THR8
C	ALA13
C	TYR24
C	LEU29
C	HIS45
D	HIS93
C	ASP47
C	SER52
C	VAL55
C	GLY59
C	LEU91
C	LEU106
C	THR108
C	VAL121
C	SER133
I	THR8
K	HIS93
I	ALA13
I	TYR24
I	LEU29
I	HIS45
I	ASP47
I	SER52
I	VAL55
I	GLY59
I	LEU91
I	LEU106
O	HIS93
I	THR108
I	VAL121
I	SER133
M	THR8
M	ALA13
M	TYR24
M	LEU29
M	HIS45
M	ASP47
M	SER52
A	HIS45
M	VAL55
M	GLY59
M	LEU91
M	LEU106
M	THR108
M	VAL121
M	SER133
A	ASP47
A	SER52
A	VAL55
A	GLY59

---

site_id	SWS_FT_FI4
Number of Residues	76
Details	SITE: (Microbial infection) Cleavage; by N.americanus apr-2 => ECO:0000269|PubMed:12552433

Chain	Residue	Details
B	GLU8
B	GLY75
B	THR85
B	HIS93
B	ARG105
B	LEU111
B	GLY120
B	PHE123
B	ALA129
B	ALA141
B	LYS145
B	GLY26
D	GLU8
D	GLY26
D	GLY30
D	TYR36
D	TRP38
D	PHE46
D	ASP53
D	GLY57
D	PHE72
D	GLY75
B	GLY30
D	THR85
D	HIS93
D	ARG105
D	LEU111
D	GLY120
D	PHE123
D	ALA129
D	ALA141
D	LYS145
K	GLU8
B	TYR36
K	GLY26
K	GLY30
K	TYR36
K	TRP38
K	PHE46
K	ASP53
K	GLY57
K	PHE72
K	GLY75
K	THR85
B	TRP38
K	HIS93
K	ARG105
K	LEU111
K	GLY120
K	PHE123
K	ALA129
K	ALA141
K	LYS145
O	GLU8
O	GLY26
B	PHE46
O	GLY30
O	TYR36
O	TRP38
O	PHE46
O	ASP53
O	GLY57
O	PHE72
O	GLY75
O	THR85
O	HIS93
B	ASP53
O	ARG105
O	LEU111
O	GLY120
O	PHE123
O	ALA129
O	ALA141
O	LYS145
B	GLY57
B	PHE72

---

site_id	SWS_FT_FI5
Number of Residues	12
Details	SITE: Not glycated => ECO:0000269|PubMed:7358733

Chain	Residue	Details
B	LYS60
O	LYS60
O	LYS83
O	LYS96
B	LYS83
B	LYS96
D	LYS60
D	LYS83
D	LYS96
K	LYS60
K	LYS83
K	LYS96

---

site_id	SWS_FT_FI6
Number of Residues	4
Details	MOD_RES: N-pyruvate 2-iminyl-valine; in Hb A1b

Chain	Residue	Details
B	VAL2
M	LYS7
M	LYS16
M	LYS40
D	VAL2
K	VAL2
O	VAL2
C	LYS16
C	LYS40
I	LYS7
I	LYS16
I	LYS40

---

site_id	SWS_FT_FI7
Number of Residues	8
Details	MOD_RES: Phosphoserine => ECO:0007744|PubMed:24275569

Chain	Residue	Details
B	SER10
B	SER45
D	SER10
D	SER45
K	SER10
K	SER45
O	SER10
O	SER45

---

site_id	SWS_FT_FI8
Number of Residues	12
Details	MOD_RES: Phosphothreonine => ECO:0007744|PubMed:24275569

Chain	Residue	Details
B	THR13
O	THR13
O	THR51
O	THR88
B	THR51
B	THR88
D	THR13
D	THR51
D	THR88
K	THR13
K	THR51
K	THR88

---

site_id	SWS_FT_FI9
Number of Residues	8
Details	MOD_RES: N6-acetyllysine => ECO:0000269|PubMed:4531009

Chain	Residue	Details
B	LYS60
B	LYS83
D	LYS60
D	LYS83
K	LYS60
K	LYS83
O	LYS60
O	LYS83

---

site_id	SWS_FT_FI10
Number of Residues	4
Details	MOD_RES: S-nitrosocysteine => ECO:0000269|PubMed:8637569, ECO:0000269|PubMed:9843411

Chain	Residue	Details
B	CYS94
I	SER124
I	SER131
I	SER138
M	SER102
M	SER124
M	SER131
M	SER138
D	CYS94
K	CYS94
O	CYS94
C	SER102
C	SER124
C	SER131
C	SER138
I	SER102

---

site_id	SWS_FT_FI11
Number of Residues	4
Details	MOD_RES: N6-acetyllysine; alternate => ECO:0000269|PubMed:4531009

Chain	Residue	Details
B	LYS145
M	THR108
M	THR134
M	THR137
D	LYS145
K	LYS145
O	LYS145
C	THR134
C	THR137
I	THR108
I	THR134
I	THR137

---

site_id	SWS_FT_FI12
Number of Residues	4
Details	CARBOHYD: N-linked (Glc) (glycation) valine; in Hb A1c => ECO:0000269|PubMed:635569

Chain	Residue	Details
B	VAL2
M	LYS7
M	LYS16
M	LYS40
D	VAL2
K	VAL2
O	VAL2
C	LYS16
C	LYS40
I	LYS7
I	LYS16
I	LYS40

---

site_id	SWS_FT_FI13
Number of Residues	16
Details	CARBOHYD: N-linked (Glc) (glycation) lysine => ECO:0000269|PubMed:7358733

Chain	Residue	Details
B	LYS9
K	LYS18
K	LYS67
K	LYS121
O	LYS9
O	LYS18
O	LYS67
O	LYS121
B	LYS18
B	LYS67
B	LYS121
D	LYS9
D	LYS18
D	LYS67
D	LYS121
K	LYS9

---

site_id	SWS_FT_FI14
Number of Residues	4
Details	CARBOHYD: N-linked (Glc) (glycation) lysine; alternate => ECO:0000269|PubMed:7358733

Chain	Residue	Details
B	LYS145
D	LYS145
K	LYS145
O	LYS145

---