6PBS | pdb_00006pbs

Structure of ClpC1-NTD in complex with Ecumicin

External Resource: Annotation

Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
Domain Annotation: CATH
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification
Protein Modification Annotation

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
J [auth M]	SCOP2B Superfamily	Double Clp-N motif	8075782	3001383	SCOP2B (2022-06-29)
L [auth T]	SCOP2B Superfamily	Double Clp-N motif	8075782	3001383	SCOP2B (2022-06-29)
K [auth O]	SCOP2B Superfamily	Double Clp-N motif	8075782	3001383	SCOP2B (2022-06-29)
I [auth K]	SCOP2B Superfamily	Double Clp-N motif	8075782	3001383	SCOP2B (2022-06-29)
H [auth G]	SCOP2B Superfamily	Double Clp-N motif	8075782	3001383	SCOP2B (2022-06-29)
G [auth B]	SCOP2B Superfamily	Double Clp-N motif	8075782	3001383	SCOP2B (2022-06-29)
F [auth e]	SCOP2B Superfamily	Double Clp-N motif	8075782	3001383	SCOP2B (2022-06-29)
E [auth Y]	SCOP2B Superfamily	Double Clp-N motif	8075782	3001383	SCOP2B (2022-06-29)
D [auth W]	SCOP2B Superfamily	Double Clp-N motif	8075782	3001383	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	Double Clp-N motif	8075782	3001383	SCOP2B (2022-06-29)
B [auth I]	SCOP2B Superfamily	Double Clp-N motif	8075782	3001383	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	Double Clp-N motif	8075782	3001383	SCOP2B (2022-06-29)

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
J [auth M]	C1-set	e6pbsM1	A: alpha bundles	X: Immunoglobulin-like beta-sandwich	H: Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases	T: Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases	F: C1-set	ECOD (develop294)
L [auth T]	C1-set	e6pbsT1	A: alpha bundles	X: Immunoglobulin-like beta-sandwich	H: Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases	T: Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases	F: C1-set	ECOD (develop294)
K [auth O]	C1-set	e6pbsO1	A: alpha bundles	X: Immunoglobulin-like beta-sandwich	H: Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases	T: Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases	F: C1-set	ECOD (develop294)
I [auth K]	C1-set	e6pbsK1	A: alpha bundles	X: Immunoglobulin-like beta-sandwich	H: Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases	T: Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases	F: C1-set	ECOD (develop294)
H [auth G]	C1-set	e6pbsG1	A: alpha bundles	X: Immunoglobulin-like beta-sandwich	H: Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases	T: Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases	F: C1-set	ECOD (develop294)
G [auth B]	C1-set	e6pbsB1	A: alpha bundles	X: Immunoglobulin-like beta-sandwich	H: Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases	T: Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases	F: C1-set	ECOD (develop294)
F [auth e]	C1-set	e6pbse1	A: alpha bundles	X: Immunoglobulin-like beta-sandwich	H: Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases	T: Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases	F: C1-set	ECOD (develop294)
E [auth Y]	C1-set	e6pbsY1	A: alpha bundles	X: Immunoglobulin-like beta-sandwich	H: Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases	T: Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases	F: C1-set	ECOD (develop294)
D [auth W]	C1-set	e6pbsW1	A: alpha bundles	X: Immunoglobulin-like beta-sandwich	H: Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases	T: Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases	F: C1-set	ECOD (develop294)
C	C1-set	e6pbsC1	A: alpha bundles	X: Immunoglobulin-like beta-sandwich	H: Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases	T: Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases	F: C1-set	ECOD (develop294)
B [auth I]	C1-set	e6pbsI1	A: alpha bundles	X: Immunoglobulin-like beta-sandwich	H: Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases	T: Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases	F: C1-set	ECOD (develop294)
A	C1-set	e6pbsA1	A: alpha bundles	X: Immunoglobulin-like beta-sandwich	H: Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases	T: Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases	F: C1-set	ECOD (develop294)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
L [auth T]	1.10.1780.10	Mainly Alpha	Orthogonal Bundle	Double Clp-N motif	Clp, N-terminal domain	CATH (utative)
K [auth O]	1.10.1780.10	Mainly Alpha	Orthogonal Bundle	Double Clp-N motif	Clp, N-terminal domain	CATH (utative)
I [auth K]	1.10.1780.10	Mainly Alpha	Orthogonal Bundle	Double Clp-N motif	Clp, N-terminal domain	CATH (utative)
H [auth G]	1.10.1780.10	Mainly Alpha	Orthogonal Bundle	Double Clp-N motif	Clp, N-terminal domain	CATH (utative)
G [auth B]	1.10.1780.10	Mainly Alpha	Orthogonal Bundle	Double Clp-N motif	Clp, N-terminal domain	CATH (utative)
F [auth e]	1.10.1780.10	Mainly Alpha	Orthogonal Bundle	Double Clp-N motif	Clp, N-terminal domain	CATH (utative)
E [auth Y]	1.10.1780.10	Mainly Alpha	Orthogonal Bundle	Double Clp-N motif	Clp, N-terminal domain	CATH (utative)
D [auth W]	1.10.1780.10	Mainly Alpha	Orthogonal Bundle	Double Clp-N motif	Clp, N-terminal domain	CATH (utative)
C	1.10.1780.10	Mainly Alpha	Orthogonal Bundle	Double Clp-N motif	Clp, N-terminal domain	CATH (utative)
B [auth I]	1.10.1780.10	Mainly Alpha	Orthogonal Bundle	Double Clp-N motif	Clp, N-terminal domain	CATH (utative)
A	1.10.1780.10	Mainly Alpha	Orthogonal Bundle	Double Clp-N motif	Clp, N-terminal domain	CATH (utative)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
AA [auth Z], BA [auth a], CA [auth b], DA [auth c], EA [auth d], AA [auth Z], BA [auth a], CA [auth b], DA [auth c], EA [auth d], FA [auth f], GA [auth g], HA [auth h], IA [auth i], JA [auth j], M [auth D], N [auth E], O [auth F], P [auth H], Q [auth J], R [auth L], S [auth N], T [auth P], U [auth Q], V [auth R], W [auth S], X [auth U], Y [auth V], Z [auth X]	PF02861	Clp repeat (R) N-terminal domain (Clp_N)	Clp repeat (R) N-terminal domain	-	Family
A, B [auth I], C, D [auth W], E [auth Y], A, B [auth I], C, D [auth W], E [auth Y], F [auth e], G [auth B], H [auth G], I [auth K], J [auth M], K [auth O], L [auth T]	PF02861	Clp repeat (R) N-terminal domain (Clp_N)	Clp repeat (R) N-terminal domain	-	Family

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
AA [auth Z], BA [auth a], CA [auth b], DA [auth c], EA [auth d], AA [auth Z], BA [auth a], CA [auth b], DA [auth c], EA [auth d], FA [auth f], GA [auth g], HA [auth h], IA [auth i], JA [auth j], M [auth D], N [auth E], O [auth F], P [auth H], Q [auth J], R [auth L], S [auth N], T [auth P], U [auth Q], V [auth R], W [auth S], X [auth U], Y [auth V], Z [auth X]	ecumicin	-	-	-
A, B [auth I], C, D [auth W], E [auth Y], A, B [auth I], C, D [auth W], E [auth Y], F [auth e], G [auth B], H [auth G], I [auth K], J [auth M], K [auth O], L [auth T]	ATP-dependent Clp protease ATP-binding subunit ClpC1	binding adenyl ribonucleotide binding nucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding ion binding purine nucleotide binding anion binding adenyl nucleotide binding ATP binding heterocyclic compound binding carbohydrate derivative binding ribonucleotide binding binding adenyl ribonucleotide binding nucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding ion binding purine nucleotide binding anion binding adenyl nucleotide binding ATP binding heterocyclic compound binding carbohydrate derivative binding ribonucleotide binding small molecule binding identical protein binding protein binding protein homodimerization activity protein dimerization activity pyrophosphatase activity ATP hydrolysis activity ribonucleoside triphosphate phosphatase activity hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides hydrolase activity hydrolase activity, acting on acid anhydrides catalytic activity ATP-dependent activity protein folding chaperone	-	cellular anatomical structure intracellular anatomical structure cytoplasm cytosol cell periphery plasma membrane membrane external encapsulating structure cell wall peptidoglycan-based cell wall

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B [auth I], C, D [auth W], E [auth Y], A, B [auth I], C, D [auth W], E [auth Y], F [auth e], G [auth B], H [auth G], I [auth K], J [auth M], K [auth O], L [auth T]	IPR001270	ClpA/B family	Family
A, B [auth I], C, D [auth W], E [auth Y], A, B [auth I], C, D [auth W], E [auth Y], F [auth e], G [auth B], H [auth G], I [auth K], J [auth M], K [auth O], L [auth T]	IPR018368	ClpA/B, conserved site 1	Conserved Site
A, B [auth I], C, D [auth W], E [auth Y], A, B [auth I], C, D [auth W], E [auth Y], F [auth e], G [auth B], H [auth G], I [auth K], J [auth M], K [auth O], L [auth T]	IPR041546	ClpA/ClpB, AAA lid domain	Domain
A, B [auth I], C, D [auth W], E [auth Y], A, B [auth I], C, D [auth W], E [auth Y], F [auth e], G [auth B], H [auth G], I [auth K], J [auth M], K [auth O], L [auth T]	IPR004176	Clp, repeat (R) N-terminal domain	Domain
A, B [auth I], C, D [auth W], E [auth Y], A, B [auth I], C, D [auth W], E [auth Y], F [auth e], G [auth B], H [auth G], I [auth K], J [auth M], K [auth O], L [auth T]	IPR050130	ATP-dependent Clp protease/Chaperone ClpA/ClpB	Family
A, B [auth I], C, D [auth W], E [auth Y], A, B [auth I], C, D [auth W], E [auth Y], F [auth e], G [auth B], H [auth G], I [auth K], J [auth M], K [auth O], L [auth T]	IPR003593	AAA+ ATPase domain	Domain
A, B [auth I], C, D [auth W], E [auth Y], A, B [auth I], C, D [auth W], E [auth Y], F [auth e], G [auth B], H [auth G], I [auth K], J [auth M], K [auth O], L [auth T]	IPR003959	ATPase, AAA-type, core	Domain
A, B [auth I], C, D [auth W], E [auth Y], A, B [auth I], C, D [auth W], E [auth Y], F [auth e], G [auth B], H [auth G], I [auth K], J [auth M], K [auth O], L [auth T]	IPR001943	UVR domain	Domain
A, B [auth I], C, D [auth W], E [auth Y], A, B [auth I], C, D [auth W], E [auth Y], F [auth e], G [auth B], H [auth G], I [auth K], J [auth M], K [auth O], L [auth T]	IPR019489	Clp ATPase, C-terminal	Domain
A, B [auth I], C, D [auth W], E [auth Y], A, B [auth I], C, D [auth W], E [auth Y], F [auth e], G [auth B], H [auth G], I [auth K], J [auth M], K [auth O], L [auth T]	IPR036628	Clp, N-terminal domain superfamily	Homologous Superfamily
A, B [auth I], C, D [auth W], E [auth Y], A, B [auth I], C, D [auth W], E [auth Y], F [auth e], G [auth B], H [auth G], I [auth K], J [auth M], K [auth O], L [auth T]	IPR027417	P-loop containing nucleoside triphosphate hydrolase	Homologous Superfamily

Protein Modification Annotation

Modified Residue(s)
Chain	Residue(s)	Description
AA [auth Z], BA [auth a], CA [auth b], DA [auth c], EA [auth d], AA [auth Z], BA [auth a], CA [auth b], DA [auth c], EA [auth d], FA [auth f], GA [auth g], HA [auth h], IA [auth i], JA [auth j], M [auth D], N [auth E], O [auth F], P [auth H], Q [auth J], R [auth L], S [auth N], T [auth P], U [auth Q], V [auth R], W [auth S], X [auth U], Y [auth V], Z [auth X]	H14	Parent Component: PHE
AA [auth Z], BA [auth a], CA [auth b], DA [auth c], EA [auth d], AA [auth Z], BA [auth a], CA [auth b], DA [auth c], EA [auth d], FA [auth f], GA [auth g], HA [auth h], IA [auth i], JA [auth j], M [auth D], N [auth E], O [auth F], P [auth H], Q [auth J], R [auth L], S [auth N], T [auth P], U [auth Q], V [auth R], W [auth S], X [auth U], Y [auth V], Z [auth X]	MLE	Parent Component: LEU RESID: AA0337 PSI-MOD : N-methyl-L-leucine MOD:00342
AA [auth Z], BA [auth a], CA [auth b], DA [auth c], EA [auth d], AA [auth Z], BA [auth a], CA [auth b], DA [auth c], EA [auth d], FA [auth f], GA [auth g], HA [auth h], IA [auth i], JA [auth j], M [auth D], N [auth E], O [auth F], P [auth H], Q [auth J], R [auth L], S [auth N], T [auth P], U [auth Q], V [auth R], W [auth S], X [auth U], Y [auth V], Z [auth X]	MVA	Parent Component: VAL RESID: AA0337
AA [auth Z], BA [auth a], CA [auth b], DA [auth c], EA [auth d], AA [auth Z], BA [auth a], CA [auth b], DA [auth c], EA [auth d], FA [auth f], GA [auth g], HA [auth h], IA [auth i], JA [auth j], M [auth D], N [auth E], O [auth F], P [auth H], Q [auth J], R [auth L], S [auth N], T [auth P], U [auth Q], V [auth R], W [auth S], X [auth U], Y [auth V], Z [auth X]	NZC	Parent Component: THR RESID: AA0337
AA [auth Z], BA [auth a], CA [auth b], DA [auth c], EA [auth d], AA [auth Z], BA [auth a], CA [auth b], DA [auth c], EA [auth d], FA [auth f], GA [auth g], HA [auth h], IA [auth i], JA [auth j], M [auth D], N [auth E], O [auth F], P [auth H], Q [auth J], R [auth L], S [auth N], T [auth P], U [auth Q], V [auth R], W [auth S], X [auth U], Y [auth V], Z [auth X]	O7D	Parent Component: TRP RESID: AA0337
AA [auth Z], BA [auth a], CA [auth b], DA [auth c], EA [auth d], AA [auth Z], BA [auth a], CA [auth b], DA [auth c], EA [auth d], FA [auth f], GA [auth g], HA [auth h], IA [auth i], JA [auth j], M [auth D], N [auth E], O [auth F], P [auth H], Q [auth J], R [auth L], S [auth N], T [auth P], U [auth Q], V [auth R], W [auth S], X [auth U], Y [auth V], Z [auth X]	O7G	Parent Component: VAL RESID: AA0337
AA [auth Z], BA [auth a], CA [auth b], DA [auth c], EA [auth d], AA [auth Z], BA [auth a], CA [auth b], DA [auth c], EA [auth d], FA [auth f], GA [auth g], HA [auth h], IA [auth i], JA [auth j], M [auth D], N [auth E], O [auth F], P [auth H], Q [auth J], R [auth L], S [auth N], T [auth P], U [auth Q], V [auth R], W [auth S], X [auth U], Y [auth V], Z [auth X]	WZJ	RESID: AA0337

RCSB PDB Core Operations are funded by the U.S. National Science Foundation (DBI-2321666), the US Department of Energy (DE-SC0019749), and the National Cancer Institute, National Institute of Allergy and Infectious Diseases, and National Institute of General Medical Sciences of the National Institutes of Health under grant R01GM157729. RCSB PDB uses resources of the National Energy Research Scientific Computing Center (NERSC), a Department of Energy User Facility.