6VXE

Crystal structure of hydroxyproline dehydratase (HypD) from Clostridioides difficile with substrate trans-4-hydroxy-L-proline bound

Functional Information from GO Data

Chain	GOid	namespace	contents
A	0003824	molecular_function	catalytic activity
A	0005829	cellular_component	cytosol
A	0016829	molecular_function	lyase activity
A	0016835	molecular_function	carbon-oxygen lyase activity
A	0019492	biological_process	proline salvage
B	0003824	molecular_function	catalytic activity
B	0005829	cellular_component	cytosol
B	0016829	molecular_function	lyase activity
B	0016835	molecular_function	carbon-oxygen lyase activity
B	0019492	biological_process	proline salvage
C	0003824	molecular_function	catalytic activity
C	0005829	cellular_component	cytosol
C	0016829	molecular_function	lyase activity
C	0016835	molecular_function	carbon-oxygen lyase activity
C	0019492	biological_process	proline salvage
D	0003824	molecular_function	catalytic activity
D	0005829	cellular_component	cytosol
D	0016829	molecular_function	lyase activity
D	0016835	molecular_function	carbon-oxygen lyase activity
D	0019492	biological_process	proline salvage
E	0003824	molecular_function	catalytic activity
E	0005829	cellular_component	cytosol
E	0016829	molecular_function	lyase activity
E	0016835	molecular_function	carbon-oxygen lyase activity
E	0019492	biological_process	proline salvage
F	0003824	molecular_function	catalytic activity
F	0005829	cellular_component	cytosol
F	0016829	molecular_function	lyase activity
F	0016835	molecular_function	carbon-oxygen lyase activity
F	0019492	biological_process	proline salvage
G	0003824	molecular_function	catalytic activity
G	0005829	cellular_component	cytosol
G	0016829	molecular_function	lyase activity
G	0016835	molecular_function	carbon-oxygen lyase activity
G	0019492	biological_process	proline salvage
H	0003824	molecular_function	catalytic activity
H	0005829	cellular_component	cytosol
H	0016829	molecular_function	lyase activity
H	0016835	molecular_function	carbon-oxygen lyase activity
H	0019492	biological_process	proline salvage

Functional Information from PDB Data

site_id	AC1
Number of Residues	12
Details	binding site for residue HYP A 801

Chain	Residue
A	PHE152
A	TYR450
A	THR645
A	HOH1009
A	HIS160
A	TRP277
A	ASP278
A	SER334
A	PHE340
A	CYS434
A	GLU436
A	LEU447

---

site_id	AC2
Number of Residues	11
Details	binding site for residue HYP B 801

Chain	Residue
B	HIS160
B	TRP277
B	ASP278
B	SER334
B	PHE340
B	GLY433
B	CYS434
B	GLU436
B	LEU447
B	TYR450
B	THR645

---

site_id	AC3
Number of Residues	12
Details	binding site for residue HYP C 801

Chain	Residue
C	PHE152
C	HIS160
C	TRP277
C	ASP278
C	SER334
C	PHE340
C	GLY433
C	CYS434
C	GLU436
C	LEU447
C	TYR450
C	THR645

---

site_id	AC4
Number of Residues	10
Details	binding site for residue HYP D 801

Chain	Residue
D	PHE152
D	TRP277
D	ASP278
D	SER334
D	PHE340
D	CYS434
D	GLU436
D	LEU447
D	TYR450
D	THR645

---

site_id	AC5
Number of Residues	11
Details	binding site for residue HYP E 801

Chain	Residue
E	PHE152
E	TRP277
E	ASP278
E	GLU333
E	SER334
E	PHE340
E	CYS434
E	GLU436
E	LEU447
E	TYR450
E	THR645

---

site_id	AC6
Number of Residues	11
Details	binding site for residue HYP F 801

Chain	Residue
F	PHE152
F	HIS160
F	TRP277
F	ASP278
F	SER334
F	PHE340
F	CYS434
F	GLU436
F	LEU447
F	TYR450
F	THR645

---

site_id	AC7
Number of Residues	11
Details	binding site for residue HYP G 801

Chain	Residue
G	PHE152
G	HIS160
G	TRP277
G	ASP278
G	GLU333
G	SER334
G	PHE340
G	CYS434
G	GLU436
G	TYR450
G	THR645

---

site_id	AC8
Number of Residues	11
Details	binding site for residue HYP H 801

Chain	Residue
H	HIS160
H	TRP277
H	ASP278
H	GLU333
H	SER334
H	PHE340
H	CYS434
H	GLU436
H	LEU447
H	TYR450
H	THR645

---

Functional Information from SwissProt/UniProt

site_id	SWS_FT_FI1
Number of Residues	5248
Details	Domain: {"description":"PFL","evidences":[{"source":"PROSITE-ProRule","id":"PRU00887","evidenceCode":"ECO:0000255"}]}

Chain

Residue

Details

---

site_id	SWS_FT_FI2
Number of Residues	952
Details	Domain: {"description":"Glycine radical","evidences":[{"source":"PROSITE-ProRule","id":"PRU00493","evidenceCode":"ECO:0000255"}]}

Chain

Residue

Details

---

site_id	SWS_FT_FI3
Number of Residues	8
Details	Active site: {"description":"Cysteine radical intermediate","evidences":[{"source":"UniProtKB","id":"Q30W70","evidenceCode":"ECO:0000250"}]}

Chain

Residue

Details

---

site_id	SWS_FT_FI4
Number of Residues	8
Details	Active site: {"description":"Proton acceptor","evidences":[{"source":"UniProtKB","id":"Q30W70","evidenceCode":"ECO:0000250"}]}

Chain

Residue

Details

---

site_id	SWS_FT_FI5
Number of Residues	8
Details	Modified residue: {"description":"Glycine radical","evidences":[{"source":"PROSITE-ProRule","id":"PRU00493","evidenceCode":"ECO:0000255"},{"source":"PubMed","id":"28183913","evidenceCode":"ECO:0000269"}]}

Chain

Residue

Details

---