Summary Structural details Experimental details Functional details Sequence Neighbor History Downloads

6EQS

Human Sirt5 in complex with stalled peptidylimidate intermediate of inhibitory compound 29

Functional Information from GO Data

Chain	GOid	namespace	contents
A	0036054	molecular_function	protein-malonyllysine demalonylase activity
A	0036055	molecular_function	protein-succinyllysine desuccinylase activity
A	0070403	molecular_function	NAD+ binding
B	0036054	molecular_function	protein-malonyllysine demalonylase activity
B	0036055	molecular_function	protein-succinyllysine desuccinylase activity
B	0070403	molecular_function	NAD+ binding
C	0036054	molecular_function	protein-malonyllysine demalonylase activity
C	0036055	molecular_function	protein-succinyllysine desuccinylase activity
C	0070403	molecular_function	NAD+ binding
D	0036054	molecular_function	protein-malonyllysine demalonylase activity
D	0036055	molecular_function	protein-succinyllysine desuccinylase activity
D	0070403	molecular_function	NAD+ binding

Functional Information from PDB Data

site_id	AC1
Number of Residues	4
Details	binding site for residue ZN A 401

Chain	Residue
A	CYS166
A	CYS169
A	CYS207
A	CYS212

site_id	AC2
Number of Residues	36
Details	binding site for residue BV8 A 402

Chain	Residue
A	PHE70
A	ARG71
A	TYR102
A	ARG105
A	GLN140
A	ILE142
A	HIS158
A	VAL221
A	PHE223
A	GLY224
A	GLU225
A	ASN226
A	GLY249
A	THR250
A	SER251
A	VAL253
A	VAL254
A	TYR255
A	ASN275
A	THR276
A	GLU277
A	PRO292
A	CYS293
A	DMS410
A	HOH519
A	HOH523
A	HOH544
A	HOH652
A	HOH663
A	HOH669
D	BV8402
A	GLY58
A	ALA59
A	GLY60
A	GLU64
A	THR69

site_id	AC3
Number of Residues	4
Details	binding site for residue EDO A 403

Chain	Residue
A	ARG105
A	EDO404
A	HOH571
A	HOH670

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

Chain	Residue
A	PRO68
A	THR69
A	PHE70
A	GLY74
A	GLY75
A	ALA82
A	ARG105
A	EDO403
A	HOH571

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

Chain	Residue
A	GLY186
A	LYS187
A	EDO406
A	HOH525
A	HOH662

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

Chain	Residue
A	HIS103
A	GLU107
A	SER185
A	GLY186
A	EDO405
C	GLU174

site_id	AC7
Number of Residues	5
Details	binding site for residue EDO A 407

Chain	Residue
A	ALA210
A	GLY211
A	GLY213
A	GLU299
A	HOH518

site_id	AC8
Number of Residues	9
Details	binding site for residue BU2 A 408

Chain	Residue
A	PRO182
A	GLU202
A	LYS203
A	LEU204
A	ARG206
A	GLU208
A	HOH506
A	HOH588
A	HOH696

site_id	AC9
Number of Residues	7
Details	binding site for residue BU2 A 409

Chain	Residue
A	HOH685
D	ASP236
D	LEU239
D	ALA240
D	GLN263
D	ARG267
D	HOH638

site_id	AD1
Number of Residues	1
Details	binding site for residue DMS A 410

Chain	Residue
A	BV8402

site_id	AD2
Number of Residues	3
Details	binding site for residue DMS A 411

Chain	Residue
A	ALA122
A	THR126
A	ALA149

site_id	AD3
Number of Residues	4
Details	binding site for residue ZN B 401

Chain	Residue
B	CYS166
B	CYS169
B	CYS207
B	CYS212

site_id	AD4
Number of Residues	38
Details	binding site for residue BV8 B 402

Chain	Residue
B	PHE70
B	ARG71
B	TYR102
B	ARG105
B	GLN140
B	ILE142
B	HIS158
B	VAL221
B	PHE223
B	GLY224
B	GLU225
B	ASN226
B	GLY249
B	THR250
B	SER251
B	VAL254
B	TYR255
B	ASN275
B	THR276
B	GLU277
B	PRO292
B	CYS293
B	BU2409
B	BU2410
B	HOH519
B	HOH531
B	HOH540
B	HOH625
B	HOH646
B	HOH689
B	HOH728
C	BV8402
B	GLY58
B	ALA59
B	GLY60
B	ALA63
B	GLU64
B	THR69

site_id	AD5
Number of Residues	6
Details	binding site for residue EDO B 403

Chain	Residue
B	VAL67
B	ARG105
B	LEU161
B	BU2408
B	HOH538
B	HOH570

site_id	AD6
Number of Residues	3
Details	binding site for residue EDO B 404

Chain	Residue
B	GLY186
B	LYS187
B	EDO406

site_id	AD7
Number of Residues	4
Details	binding site for residue EDO B 405

Chain	Residue
B	TYR76
B	ASN153
B	PRO190
B	HOH581

site_id	AD8
Number of Residues	5
Details	binding site for residue EDO B 406

Chain	Residue
B	HIS103
B	GLU107
B	SER178
B	GLY186
B	EDO404

site_id	AD9
Number of Residues	1
Details	binding site for residue EDO B 407

Chain	Residue
B	LYS49

site_id	AE1
Number of Residues	9
Details	binding site for residue BU2 B 408

Chain	Residue
B	PRO68
B	THR69
B	PHE70
B	GLY74
B	GLY75
B	TYR76
B	PHE101
B	EDO403
B	HOH524

site_id	AE2
Number of Residues	6
Details	binding site for residue BU2 B 409

Chain	Residue
B	ASN226
B	BV8402
B	HOH526
C	SER252
C	VAL253
C	PRO280

site_id	AE3
Number of Residues	4
Details	binding site for residue BU2 B 410

Chain	Residue
B	ARG71
B	GLN83
B	SER251
B	BV8402

site_id	AE4
Number of Residues	4
Details	binding site for residue ZN C 401

Chain	Residue
C	CYS166
C	CYS169
C	CYS207
C	CYS212

site_id	AE5
Number of Residues	47
Details	binding site for residue BV8 C 402

Chain	Residue
B	ASN226
B	LEU232
B	ASP236
B	PRO256
B	MET259
B	PHE260
B	GLN263
B	BV8402
C	GLY58
C	ALA59
C	GLY60
C	ALA63
C	GLU64
C	THR69
C	PHE70
C	ARG71
C	ALA86
C	TYR102
C	ARG105
C	GLN140
C	ILE142
C	HIS158
C	VAL221
C	TRP222
C	PHE223
C	GLY224
C	GLU225
C	ASN226
C	GLY249
C	THR250
C	SER251
C	VAL254
C	TYR255
C	PRO256
C	ASN275
C	THR276
C	GLU277
C	PRO292
C	CYS293
C	BU2406
C	HOH511
C	HOH533
C	HOH548
C	HOH606
C	HOH625
C	HOH654
C	HOH671

site_id	AE6
Number of Residues	6
Details	binding site for residue EDO C 403

Chain	Residue
C	VAL67
C	ARG105
C	LEU161
C	HOH552
C	HOH599
C	HOH620

site_id	AE7
Number of Residues	1
Details	binding site for residue EDO C 404

Chain	Residue
C	HIS219

site_id	AE8
Number of Residues	1
Details	binding site for residue EDO C 405

Chain	Residue
C	ARG97

site_id	AE9
Number of Residues	6
Details	binding site for residue BU2 C 406

Chain	Residue
C	PHE70
C	ARG71
C	GLN83
C	SER251
C	VAL254
C	BV8402

site_id	AF1
Number of Residues	4
Details	binding site for residue ZN D 401

Chain	Residue
D	CYS166
D	CYS169
D	CYS207
D	CYS212

site_id	AF2
Number of Residues	45
Details	binding site for residue BV8 D 402

Chain	Residue
A	ASN226
A	VAL235
A	LEU239
A	PRO256
A	MET259
A	GLN263
A	BV8402
D	GLY58
D	ALA59
D	GLY60
D	GLU64
D	THR69
D	PHE70
D	ARG71
D	GLN83
D	ALA86
D	TYR102
D	ARG105
D	GLN140
D	ILE142
D	HIS158
D	VAL221
D	PHE223
D	GLY224
D	GLU225
D	ASN226
D	GLY249
D	THR250
D	SER251
D	VAL254
D	TYR255
D	PRO256
D	ASN275
D	THR276
D	GLU277
D	PRO292
D	CYS293
D	EDO404
D	HOH515
D	HOH542
D	HOH546
D	HOH642
D	HOH649
D	HOH650
D	HOH659

site_id	AF3
Number of Residues	6
Details	binding site for residue EDO D 403

Chain	Residue
D	VAL67
D	ARG105
D	LEU161
D	HOH562
D	HOH639
D	HOH669

site_id	AF4
Number of Residues	4
Details	binding site for residue EDO D 404

Chain	Residue
D	PHE70
D	GLN83
D	VAL254
D	BV8402

site_id	AF5
Number of Residues	4
Details	binding site for residue BU2 D 405

Chain	Residue
D	HIS103
D	GLY186
D	LYS187
D	HOH503

site_id	AF6
Number of Residues	2
Details	binding site for residue BU2 D 406

Chain	Residue
D	THR126
D	HOH625

Functional Information from SwissProt/UniProt

site_id	SWS_FT_FI1
Number of Residues	4
Details	Active site: {"description":"Proton acceptor","evidences":[{"source":"PROSITE-ProRule","id":"PRU00236","evidenceCode":"ECO:0000255"},{"source":"PubMed","id":"22076378","evidenceCode":"ECO:0000269"},{"source":"PubMed","id":"29180469","evidenceCode":"ECO:0000269"}]}

Chain

Residue

Details

site_id	SWS_FT_FI2
Number of Residues	108
Details	Binding site: {"evidences":[{"source":"HAMAP-Rule","id":"MF_03160","evidenceCode":"ECO:0000255"},{"source":"PubMed","id":"22076378","evidenceCode":"ECO:0000269"},{"source":"PubMed","id":"22767592","evidenceCode":"ECO:0000269"},{"source":"Reference","evidenceCode":"ECO:0000269","citation":{"citationType":"submission","publicationDate":"FEB-2006","submissionDatabase":"PDB data bank","title":"Crystal structure of human sirtuin homolog 5 in complex with NAD.","authoringGroup":["Structural genomics consortium (SGC)"]}}]}

Chain

Residue

Details

site_id	SWS_FT_FI3
Number of Residues	24
Details	Binding site: {"evidences":[{"source":"HAMAP-Rule","id":"MF_03160","evidenceCode":"ECO:0000255"}]}

Chain

Residue

Details

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