2ZU0 | pdb_00002zu0

Crystal structure of SufC-SufD complex involved in the iron-sulfur cluster biosynthesis

External Resource: Annotation

Domain Annotation: SCOP/SCOPe Classification
Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
Domain Annotation: CATH
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification

Domain Annotation: SCOP/SCOPe Classification SCOP-e Database Homepage

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
C	d2zu0c_	Alpha and beta proteins (a/b)	P-loop containing nucleoside triphosphate hydrolases	P-loop containing nucleoside triphosphate hydrolases	automated matches	automated matches	(Escherichia coli K-12 ) [TaxId: 83333 ],	SCOPe (2.08)
B	d2zu0b_	All beta proteins	Single-stranded right-handed beta-helix	Stabilizer of iron transporter SufD	Stabilizer of iron transporter SufD	Stabilizer of iron transporter SufD	(Escherichia coli K-12 ) [TaxId: 83333 ],	SCOPe (2.08)
A	d2zu0a_	All beta proteins	Single-stranded right-handed beta-helix	Stabilizer of iron transporter SufD	Stabilizer of iron transporter SufD	Stabilizer of iron transporter SufD	(Escherichia coli K-12 ) [TaxId: 83333 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
C	SCOP2B Superfamily	ABC transporter-like P-loop ATPases	8058266	3002020	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	Stabilizer of iron transporter SufD	8035775	3000240	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	Stabilizer of iron transporter SufD	8035775	3000240	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)
D	sufC	e2zu0D1	A: a/b three-layered sandwiches	X: P-loop domains-like	H: P-loop domains-related	T: P-loop containing nucleoside triphosphate hydrolases	F: sufC	ECOD (1.6)
C	ABC_tran	e2zu0C1	A: a/b three-layered sandwiches	X: P-loop domains-like	H: P-loop domains-related	T: P-loop containing nucleoside triphosphate hydrolases	F: ABC_tran	ECOD (1.6)
B	UPF0051	e2zu0B1	A: beta duplicates or obligate multimers	X: Single-stranded right-handed beta-helix	H: Stabilizer of iron transporter sufD (From Topology)	T: Stabilizer of iron transporter sufD	F: UPF0051	ECOD (1.6)
A	UPF0051	e2zu0A1	A: beta duplicates or obligate multimers	X: Single-stranded right-handed beta-helix	H: Stabilizer of iron transporter sufD (From Topology)	T: Stabilizer of iron transporter sufD	F: UPF0051	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
D	6.10.330.10	Special	Helix non-globular	Monooxygenase		CATH (4.3.0)
C	3.40.50.300	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	P-loop containing nucleotide triphosphate hydrolases	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
C, D	PF00005	ABC transporter (ABC_tran)	ABC transporter	ABC transporters for a large family of proteins responsible for translocation of a variety of compounds across biological membranes. ABC transporters are the largest family of proteins in many completely sequenced bacteria. ABC transporters are comp ...	ABC transporters for a large family of proteins responsible for translocation of a variety of compounds across biological membranes. ABC transporters are the largest family of proteins in many completely sequenced bacteria. ABC transporters are composed of two copies of this domain and two copies of a transmembrane domain Pfam:PF00664. These four domains may belong to a single polypeptide as in Swiss:P13569, or belong in different polypeptide chains.	Domain
A, B	PF01458	SUF system FeS cluster assembly, SufBD core domain (SUFBD_core)	SUF system FeS cluster assembly, SufBD core domain	Iron-sulphur (FeS) clusters are important cofactors for numerous proteins involved in electron transfer, in redox and non-redox catalysis, in gene regulation, and as sensors of oxygen and iron. These functions depend on the various FeS cluster prosth ...	Iron-sulphur (FeS) clusters are important cofactors for numerous proteins involved in electron transfer, in redox and non-redox catalysis, in gene regulation, and as sensors of oxygen and iron. These functions depend on the various FeS cluster prosthetic groups, the most common being [2Fe-2S] and [4Fe-4S] [1]. FeS cluster assembly is a complex process involving the mobilisation of Fe and S atoms from storage sources, their assembly into [Fe-S] form, their transport to specific cellular locations, and their transfer to recipient apoproteins. So far, three FeS assembly machineries have been identified, which are capable of synthesising all types of [Fe-S] clusters: ISC (iron-sulphur cluster), SUF (sulphur assimilation), and NIF (nitrogen fixation) systems. The SUF system is an alternative pathway to the ISC system that operates under iron starvation and oxidative stress. It is found in eubacteria, archaea and eukaryotes (plastids). The SUF system is encoded by the suf operon (sufABCDSE), and the six encoded proteins are arranged into two complexes (SufSE and SufBCD) and one protein (SufA). SufS is a pyridoxal-phosphate (PLP) protein displaying cysteine desulphurase activity. SufE acts as a scaffold protein that accepts S from SufS and donates it to SufA [2]. SufC is an ATPase with an unorthodox ATP-binding cassette (ABC)-like component. SufA is homologous to IscA [3], acting as a scaffold protein in which Fe and S atoms are assembled into [FeS] cluster forms, which can then easily be transferred to apoproteins targets. This entry represents the core domain of SufB and SufD proteins, which are homologous, and form part of the SufBCD complex in the SUF system [4]. SufB accepts sulfur transferred from SufE [5], whereas SufD may play a role in iron acquisition [6].	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
C, D	Probable ATP-dependent transporter sufC	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 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	response to stimulus response to radiation response to abiotic stimulus cellular component biogenesis cellular component organization metallo-sulfur cluster assembly cellular component assembly iron-sulfur cluster assembly cellular process cellular component organization or biogenesis	cellular anatomical structure intracellular anatomical structure cytoplasm cytosol protein-containing complex iron-sulfur cluster assembly complex
A, B	Protein sufD	-	response to oxidative stress response to stimulus response to stress cellular component biogenesis cellular component organization metallo-sulfur cluster assembly cellular component assembly iron-sulfur cluster assembly cellular process cellular component organization or biogenesis	protein-containing complex cellular anatomical structure intracellular anatomical structure cytoplasm iron-sulfur cluster assembly complex

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
C, D	IPR010230	FeS cluster assembly SUF system, ATPase SufC	Family
C, D	IPR003593	AAA+ ATPase domain	Domain
C, D	IPR017871	ABC transporter-like, conserved site	Conserved Site
C, D	IPR003439	ABC transporter-like, ATP-binding domain	Domain
C, D	IPR027417	P-loop containing nucleoside triphosphate hydrolase	Homologous Superfamily
A, B	IPR011542	SUF system FeS cluster assembly, SufD	Family
A, B	IPR000825	SUF system FeS cluster assembly, SufBD core domain	Domain
A, B	IPR037284	SUF system FeS cluster assembly, SufBD superfamily	Homologous Superfamily
A, B	IPR055346	SUF system FeS cluster assembly, SufBD	Family

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.