5K2Z

PDX1.3-adduct (Arabidopsis)

Functional Information from GO Data

Chain	GOid	namespace	contents
A	0005515	molecular_function	protein binding
A	0005737	cellular_component	cytoplasm
A	0005829	cellular_component	cytosol
A	0005886	cellular_component	plasma membrane
A	0006520	biological_process	amino acid metabolic process
A	0006979	biological_process	response to oxidative stress
A	0006982	biological_process	response to lipid hydroperoxide
A	0008615	biological_process	pyridoxine biosynthetic process
A	0009651	biological_process	response to salt stress
A	0010224	biological_process	response to UV-B
A	0010335	biological_process	response to non-ionic osmotic stress
A	0012505	cellular_component	endomembrane system
A	0015994	biological_process	chlorophyll metabolic process
A	0016020	cellular_component	membrane
A	0016829	molecular_function	lyase activity
A	0016843	molecular_function	amine-lyase activity
A	0036381	molecular_function	pyridoxal 5'-phosphate synthase (glutamine hydrolysing) activity
A	0042538	biological_process	hyperosmotic salinity response
A	0042803	molecular_function	protein homodimerization activity
A	0042819	biological_process	vitamin B6 biosynthetic process
A	0042823	biological_process	pyridoxal phosphate biosynthetic process
A	0046982	molecular_function	protein heterodimerization activity
B	0005515	molecular_function	protein binding
B	0005737	cellular_component	cytoplasm
B	0005829	cellular_component	cytosol
B	0005886	cellular_component	plasma membrane
B	0006520	biological_process	amino acid metabolic process
B	0006979	biological_process	response to oxidative stress
B	0006982	biological_process	response to lipid hydroperoxide
B	0008615	biological_process	pyridoxine biosynthetic process
B	0009651	biological_process	response to salt stress
B	0010224	biological_process	response to UV-B
B	0010335	biological_process	response to non-ionic osmotic stress
B	0012505	cellular_component	endomembrane system
B	0015994	biological_process	chlorophyll metabolic process
B	0016020	cellular_component	membrane
B	0016829	molecular_function	lyase activity
B	0016843	molecular_function	amine-lyase activity
B	0036381	molecular_function	pyridoxal 5'-phosphate synthase (glutamine hydrolysing) activity
B	0042538	biological_process	hyperosmotic salinity response
B	0042803	molecular_function	protein homodimerization activity
B	0042819	biological_process	vitamin B6 biosynthetic process
B	0042823	biological_process	pyridoxal phosphate biosynthetic process
B	0046982	molecular_function	protein heterodimerization activity
C	0005515	molecular_function	protein binding
C	0005737	cellular_component	cytoplasm
C	0005829	cellular_component	cytosol
C	0005886	cellular_component	plasma membrane
C	0006520	biological_process	amino acid metabolic process
C	0006979	biological_process	response to oxidative stress
C	0006982	biological_process	response to lipid hydroperoxide
C	0008615	biological_process	pyridoxine biosynthetic process
C	0009651	biological_process	response to salt stress
C	0010224	biological_process	response to UV-B
C	0010335	biological_process	response to non-ionic osmotic stress
C	0012505	cellular_component	endomembrane system
C	0015994	biological_process	chlorophyll metabolic process
C	0016020	cellular_component	membrane
C	0016829	molecular_function	lyase activity
C	0016843	molecular_function	amine-lyase activity
C	0036381	molecular_function	pyridoxal 5'-phosphate synthase (glutamine hydrolysing) activity
C	0042538	biological_process	hyperosmotic salinity response
C	0042803	molecular_function	protein homodimerization activity
C	0042819	biological_process	vitamin B6 biosynthetic process
C	0042823	biological_process	pyridoxal phosphate biosynthetic process
C	0046982	molecular_function	protein heterodimerization activity
D	0005515	molecular_function	protein binding
D	0005737	cellular_component	cytoplasm
D	0005829	cellular_component	cytosol
D	0005886	cellular_component	plasma membrane
D	0006520	biological_process	amino acid metabolic process
D	0006979	biological_process	response to oxidative stress
D	0006982	biological_process	response to lipid hydroperoxide
D	0008615	biological_process	pyridoxine biosynthetic process
D	0009651	biological_process	response to salt stress
D	0010224	biological_process	response to UV-B
D	0010335	biological_process	response to non-ionic osmotic stress
D	0012505	cellular_component	endomembrane system
D	0015994	biological_process	chlorophyll metabolic process
D	0016020	cellular_component	membrane
D	0016829	molecular_function	lyase activity
D	0016843	molecular_function	amine-lyase activity
D	0036381	molecular_function	pyridoxal 5'-phosphate synthase (glutamine hydrolysing) activity
D	0042538	biological_process	hyperosmotic salinity response
D	0042803	molecular_function	protein homodimerization activity
D	0042819	biological_process	vitamin B6 biosynthetic process
D	0042823	biological_process	pyridoxal phosphate biosynthetic process
D	0046982	molecular_function	protein heterodimerization activity

Functional Information from PDB Data

site_id	AC1
Number of Residues	1
Details	binding site for residue CL A 401

Chain	Residue
A	ASN295

---

site_id	AC2
Number of Residues	5
Details	binding site for residue SO4 A 402

Chain	Residue
A	HIS131
A	ARG153
A	ARG154
A	HOH558
C	LYS203

---

site_id	AC3
Number of Residues	12
Details	binding site for residue SO4 A 403

Chain	Residue
A	GLY169
A	GLY230
A	GLY251
A	SER252
A	6R3404
A	HOH501
A	HOH502
A	HOH547
A	HOH549
A	PRO65
A	LYS165
A	ALA168

---

site_id	AC4
Number of Residues	9
Details	binding site for residue 6R3 A 404

Chain	Residue
A	ASP40
A	LYS97
A	ASP118
A	SER120
A	VAL122
A	ARG163
A	LYS165
A	PHE249
A	SO4403

---

site_id	AC5
Number of Residues	5
Details	binding site for residue EDO A 405

Chain	Residue
A	GLY144
A	CYS145
A	ARG146
A	GLU150
A	LYS165

---

site_id	AC6
Number of Residues	6
Details	binding site for residue EDO A 406

Chain	Residue
A	GLN31
A	ARG220
A	LEU221
A	PRO222
A	VAL223
C	MET32

---

site_id	AC7
Number of Residues	7
Details	binding site for residue SO4 B 401

Chain	Residue
B	HIS131
B	ARG153
B	ARG154
B	HOH527
B	HOH569
D	LYS203
D	HOH559

---

site_id	AC8
Number of Residues	12
Details	binding site for residue SO4 B 402

Chain	Residue
B	PRO65
B	LYS165
B	ALA168
B	GLY169
B	GLY229
B	GLY230
B	GLY251
B	SER252
B	6R3403
B	HOH501
B	HOH521
B	HOH542

---

site_id	AC9
Number of Residues	6
Details	binding site for residue EDO B 404

Chain	Residue
B	GLU121
B	GLY144
B	CYS145
B	ARG146
B	GLU150
B	LYS165

---

site_id	AD1
Number of Residues	5
Details	binding site for residue SO4 C 401

Chain	Residue
A	LYS203
A	HOH561
C	HIS131
C	ARG153
C	ARG154

---

site_id	AD2
Number of Residues	9
Details	binding site for residue SO4 C 402

Chain	Residue
C	PRO65
C	LYS165
C	ALA168
C	GLY169
C	GLY230
C	GLY251
C	SER252
C	6R3403
C	HOH533

---

site_id	AD3
Number of Residues	5
Details	binding site for residue EDO C 404

Chain	Residue
C	GLU62
C	SER78
C	ASP79
C	MET82
C	HOH539

---

site_id	AD4
Number of Residues	1
Details	binding site for residue CL D 401

Chain	Residue
D	ASN295

---

site_id	AD5
Number of Residues	12
Details	binding site for residue SO4 D 402

Chain	Residue
D	PRO65
D	LYS165
D	ALA168
D	GLY169
D	GLY229
D	GLY230
D	GLY251
D	SER252
D	6R3404
D	HOH501
D	HOH522
D	HOH540

---

site_id	AD6
Number of Residues	6
Details	binding site for residue SO4 D 403

Chain	Residue
D	ARG154
D	HOH539
B	LYS203
B	HOH555
D	HIS131
D	ARG153

---

site_id	AD7
Number of Residues	16
Details	binding site for Di-peptide 6R3 B 403 and LYS B 97

Chain	Residue
B	ASP40
B	ALA60
B	LEU61
B	MET77
B	ALA96
B	ALA98
B	LEU109
B	ASP118
B	SER120
B	VAL122
B	LEU123
B	ARG163
B	LYS165
B	PHE249
B	SO4402
B	HOH528

---

site_id	AD8
Number of Residues	15
Details	binding site for Di-peptide 6R3 B 403 and LYS B 165

Chain	Residue
B	ASP40
B	LYS97
B	ASP118
B	SER120
B	GLU121
B	VAL122
B	CYS145
B	ARG163
B	THR164
B	GLY166
B	HIS179
B	ALA228
B	PHE249
B	SO4402
B	EDO404

---

site_id	AD9
Number of Residues	14
Details	binding site for Di-peptide 6R3 C 403 and LYS C 165

Chain	Residue
C	ASP40
C	LYS97
C	ASP118
C	SER120
C	GLU121
C	VAL122
C	CYS145
C	ARG163
C	THR164
C	GLY166
C	HIS179
C	ALA228
C	PHE249
C	SO4402

---

site_id	AE1
Number of Residues	16
Details	binding site for Di-peptide 6R3 C 403 and LYS C 97

Chain	Residue
C	ASP40
C	ALA60
C	LEU61
C	MET77
C	ALA96
C	ALA98
C	LEU109
C	ASP118
C	SER120
C	VAL122
C	LEU123
C	ARG163
C	LYS165
C	PHE249
C	SO4402
C	HOH522

---

site_id	AE2
Number of Residues	14
Details	binding site for Di-peptide 6R3 D 404 and LYS D 165

Chain	Residue
D	ASP40
D	LYS97
D	ASP118
D	SER120
D	GLU121
D	VAL122
D	CYS145
D	ARG163
D	THR164
D	GLY166
D	HIS179
D	ALA228
D	PHE249
D	SO4402

---

site_id	AE3
Number of Residues	16
Details	binding site for Di-peptide 6R3 D 404 and LYS D 97

Chain	Residue
D	ASP40
D	ALA60
D	LEU61
D	MET77
D	ALA96
D	ALA98
D	LEU109
D	ASP118
D	SER120
D	VAL122
D	LEU123
D	ARG163
D	LYS165
D	PHE249
D	SO4402
D	HOH530

---

Functional Information from PROSITE/UniProt

site_id	PS01235
Number of Residues	19
Details	PDXS_SNZ_1 PdxS/SNZ family signature. LPVVQFAAGGVATPADAAL

Chain	Residue	Details
A	LEU221-LEU239

---

Functional Information from SwissProt/UniProt

site_id	SWS_FT_FI1
Number of Residues	4
Details	Active site: {"description":"Schiff-base intermediate with D-ribose 5-phosphate","evidences":[{"source":"UniProtKB","id":"O59080","evidenceCode":"ECO:0000250"}]}

Chain

Residue

Details

---

site_id	SWS_FT_FI2
Number of Residues	16
Details	Binding site: {"evidences":[{"source":"UniProtKB","id":"O59080","evidenceCode":"ECO:0000250"}]}

Chain

Residue

Details

---

site_id	SWS_FT_FI3
Number of Residues	4
Details	Binding site: {"evidences":[{"source":"UniProtKB","id":"Q03148","evidenceCode":"ECO:0000250"}]}

Chain

Residue

Details

---