Summary Structural details Experimental details Functional details Sequence Neighbor History Downloads

6W4N

Co-crystal structure of Pd_dinase with probe glycine-propargylglycine-AOMK

Functional Information from GO Data

Chain	GOid	namespace	contents
A	0004177	molecular_function	aminopeptidase activity
A	0005737	cellular_component	cytoplasm
A	0006508	biological_process	proteolysis
A	0008233	molecular_function	peptidase activity
A	0008234	molecular_function	cysteine-type peptidase activity
A	0009401	biological_process	phosphoenolpyruvate-dependent sugar phosphotransferase system
A	0009636	biological_process	response to toxic substance
A	0016020	cellular_component	membrane
A	0016787	molecular_function	hydrolase activity
A	0043418	biological_process	L-homocysteine catabolic process
A	0046872	molecular_function	metal ion binding
A	0070005	molecular_function	cysteine-type aminopeptidase activity
B	0004177	molecular_function	aminopeptidase activity
B	0005737	cellular_component	cytoplasm
B	0006508	biological_process	proteolysis
B	0008233	molecular_function	peptidase activity
B	0008234	molecular_function	cysteine-type peptidase activity
B	0009401	biological_process	phosphoenolpyruvate-dependent sugar phosphotransferase system
B	0009636	biological_process	response to toxic substance
B	0016020	cellular_component	membrane
B	0016787	molecular_function	hydrolase activity
B	0043418	biological_process	L-homocysteine catabolic process
B	0046872	molecular_function	metal ion binding
B	0070005	molecular_function	cysteine-type aminopeptidase activity
C	0004177	molecular_function	aminopeptidase activity
C	0005737	cellular_component	cytoplasm
C	0006508	biological_process	proteolysis
C	0008233	molecular_function	peptidase activity
C	0008234	molecular_function	cysteine-type peptidase activity
C	0009401	biological_process	phosphoenolpyruvate-dependent sugar phosphotransferase system
C	0009636	biological_process	response to toxic substance
C	0016020	cellular_component	membrane
C	0016787	molecular_function	hydrolase activity
C	0043418	biological_process	L-homocysteine catabolic process
C	0046872	molecular_function	metal ion binding
C	0070005	molecular_function	cysteine-type aminopeptidase activity
D	0004177	molecular_function	aminopeptidase activity
D	0005737	cellular_component	cytoplasm
D	0006508	biological_process	proteolysis
D	0008233	molecular_function	peptidase activity
D	0008234	molecular_function	cysteine-type peptidase activity
D	0009401	biological_process	phosphoenolpyruvate-dependent sugar phosphotransferase system
D	0009636	biological_process	response to toxic substance
D	0016020	cellular_component	membrane
D	0016787	molecular_function	hydrolase activity
D	0043418	biological_process	L-homocysteine catabolic process
D	0046872	molecular_function	metal ion binding
D	0070005	molecular_function	cysteine-type aminopeptidase activity
E	0004177	molecular_function	aminopeptidase activity
E	0005737	cellular_component	cytoplasm
E	0006508	biological_process	proteolysis
E	0008233	molecular_function	peptidase activity
E	0008234	molecular_function	cysteine-type peptidase activity
E	0009401	biological_process	phosphoenolpyruvate-dependent sugar phosphotransferase system
E	0009636	biological_process	response to toxic substance
E	0016020	cellular_component	membrane
E	0016787	molecular_function	hydrolase activity
E	0043418	biological_process	L-homocysteine catabolic process
E	0046872	molecular_function	metal ion binding
E	0070005	molecular_function	cysteine-type aminopeptidase activity
F	0004177	molecular_function	aminopeptidase activity
F	0005737	cellular_component	cytoplasm
F	0006508	biological_process	proteolysis
F	0008233	molecular_function	peptidase activity
F	0008234	molecular_function	cysteine-type peptidase activity
F	0009401	biological_process	phosphoenolpyruvate-dependent sugar phosphotransferase system
F	0009636	biological_process	response to toxic substance
F	0016020	cellular_component	membrane
F	0016787	molecular_function	hydrolase activity
F	0043418	biological_process	L-homocysteine catabolic process
F	0046872	molecular_function	metal ion binding
F	0070005	molecular_function	cysteine-type aminopeptidase activity

Functional Information from PDB Data

site_id	AC1
Number of Residues	10
Details	binding site for residue SWJ A 601

Chain	Residue
A	GLN50
A	HIS340
A	GLY54
A	CYS56
A	TRP57
A	GLY108
A	GLY109
A	ASP237
A	ASP338
A	ASP339

site_id	AC2
Number of Residues	5
Details	binding site for residue K A 602

Chain	Residue
A	ASP271
A	SER273
A	GLU274
A	GLU335
A	HOH715

site_id	AC3
Number of Residues	4
Details	binding site for residue K A 603

Chain	Residue
A	ASP78
A	LEU79
A	GLU81
A	GLU126

site_id	AC4
Number of Residues	4
Details	binding site for residue K B 602

Chain	Residue
B	ASP78
B	LEU79
B	GLU81
B	GLU126

site_id	AC5
Number of Residues	4
Details	binding site for residue K B 603

Chain	Residue
B	ASP271
B	SER273
B	GLU274
B	GLU335

site_id	AC6
Number of Residues	9
Details	binding site for residue SWJ C 601

Chain	Residue
C	GLN50
C	GLY54
C	CYS56
C	TRP57
C	GLY108
C	GLY109
C	ASP237
C	ASP338
C	ASP339

site_id	AC7
Number of Residues	4
Details	binding site for residue K C 602

Chain	Residue
C	ASP271
C	SER273
C	GLU274
C	GLU335

site_id	AC8
Number of Residues	5
Details	binding site for residue K C 603

Chain	Residue
C	GLU66
C	ASP78
C	LEU79
C	GLU81
C	GLU126

site_id	AC9
Number of Residues	4
Details	binding site for residue K D 602

Chain	Residue
D	ASP78
D	LEU79
D	GLU81
D	GLU126

site_id	AD1
Number of Residues	4
Details	binding site for residue K D 603

Chain	Residue
D	ASP271
D	SER273
D	GLU274
D	GLU335

site_id	AD2
Number of Residues	5
Details	binding site for residue K E 602

Chain	Residue
E	ASP78
E	LEU79
E	GLU81
E	GLU126
E	HOH827

site_id	AD3
Number of Residues	4
Details	binding site for residue K E 603

Chain	Residue
E	ASP271
E	SER273
E	GLU274
E	GLU335

site_id	AD4
Number of Residues	5
Details	binding site for residue K F 602

Chain	Residue
F	ASP271
F	SER273
F	GLU274
F	GLU335
F	HOH715

site_id	AD5
Number of Residues	5
Details	binding site for residue K F 603

Chain	Residue
F	ASP78
F	LEU79
F	GLU81
F	GLU126
F	HOH794

site_id	AD6
Number of Residues	14
Details	binding site for Di-peptide SWJ B 601 and CYS B 56

Chain	Residue
B	GLN50
B	GLY54
B	THR55
B	TRP57
B	CYS58
B	TYR59
B	SER60
B	GLY108
B	GLY109
B	ASP237
B	ASP338
B	ASP339
B	HIS340
B	GLY341

site_id	AD7
Number of Residues	14
Details	binding site for Di-peptide SWJ D 601 and CYS D 56

Chain	Residue
D	GLY341
D	GLN50
D	GLY54
D	THR55
D	TRP57
D	CYS58
D	TYR59
D	SER60
D	GLY108
D	GLY109
D	ASP237
D	ASP338
D	ASP339
D	HIS340

site_id	AD8
Number of Residues	10
Details	binding site for Di-peptide SWJ D 601 and ASP D 338

Chain	Residue
D	GLN50
D	GLY54
D	THR55
D	CYS56
D	GLY108
D	GLY109
D	ASP237
D	THR337
D	ASP339
D	HIS340

site_id	AD9
Number of Residues	15
Details	binding site for Di-peptide SWJ E 601 and CYS E 56

Chain	Residue
E	GLN50
E	GLY54
E	THR55
E	TRP57
E	CYS58
E	TYR59
E	SER60
E	GLY108
E	GLY109
E	ASP237
E	ASP338
E	ASP339
E	HIS340
E	GLY341
E	HOH702

site_id	AE1
Number of Residues	15
Details	binding site for Di-peptide SWJ F 601 and CYS F 56

Chain	Residue
F	GLN50
F	GLY54
F	THR55
F	TRP57
F	CYS58
F	TYR59
F	SER60
F	GLY108
F	GLY109
F	ASP237
F	ASP338
F	ASP339
F	HIS340
F	GLY341
F	HOH704

Functional Information from PROSITE/UniProt

site_id	PS00139
Number of Residues	12
Details	THIOL_PROTEASE_CYS Eukaryotic thiol (cysteine) proteases cysteine active site. QNrAGTCWCySS

Chain	Residue	Details
A	GLN50-SER61

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