5LXQ | pdb_00005lxq

Structure of PRL-1 in complex with the Bateman domain of CNNM2

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

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
C	SCOP2B Superfamily	(Phosphotyrosine protein) phosphatases II	8067104	3000304	SCOP2B (2022-06-29)
A [auth B]	SCOP2 Family	Dual specificity phosphatase-like	8067103	4000437	SCOP2 (2022-06-29)
A [auth B]	SCOP2 Superfamily	(Phosphotyrosine protein) phosphatases II	8067104	3000304	SCOP2 (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 [auth H]	IMPDH_2nd_1	e5lxqH1	A: a+b duplicates or obligate multimers	X: CBS-domain (From Topology)	H: CBS-domain (From Topology)	T: CBS-domain	F: IMPDH_2nd_1	ECOD (1.6)
B [auth A]	IMPDH_2nd_1	e5lxqA1	A: a+b duplicates or obligate multimers	X: CBS-domain (From Topology)	H: CBS-domain (From Topology)	T: CBS-domain	F: IMPDH_2nd_1	ECOD (1.6)
C	DSPc	e5lxqC1	A: a/b three-layered sandwiches	X: Flavodoxin-like	H: Flavoproteins/Phosphotyrosine protein phosphatases-like	T: (Phosphotyrosine protein) phosphatases II	F: DSPc	ECOD (1.6)
A [auth B]	DSPc	e5lxqB1	A: a/b three-layered sandwiches	X: Flavodoxin-like	H: Flavoproteins/Phosphotyrosine protein phosphatases-like	T: (Phosphotyrosine protein) phosphatases II	F: DSPc	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
D [auth H]	3.10.580.10	Alpha Beta	Roll	CBS-domain	CBS-domain	CATH (4.3.0)
B [auth A]	3.10.580.10	Alpha Beta	Roll	CBS-domain	CBS-domain	CATH (4.3.0)
C	3.90.190.10	Alpha Beta	Alpha-Beta Complex	Protein-Tyrosine Phosphatase	Chain A	CATH (4.3.0)
A [auth B]	3.90.190.10	Alpha Beta	Alpha-Beta Complex	Protein-Tyrosine Phosphatase	Chain A	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
B [auth A], D [auth H]	PF00571	CBS domain (CBS)	CBS domain	CBS domains are small intracellular modules that pair together to form a stable globular domain [2]. This family represents a single CBS domain. Pairs of these domains have been termed a Bateman domain [6]. CBS domains have been shown to bind ligands ...	CBS domains are small intracellular modules that pair together to form a stable globular domain [2]. This family represents a single CBS domain. Pairs of these domains have been termed a Bateman domain [6]. CBS domains have been shown to bind ligands with an adenosyl group such as AMP, ATP and S-AdoMet [5]. CBS domains are found attached to a wide range of other protein domains suggesting that CBS domains may play a regulatory role making proteins sensitive to adenosyl carrying ligands. The region containing the CBS domains in Cystathionine-beta synthase is involved in regulation by S-AdoMet [4]. CBS domain pairs from AMPK bind AMP or ATP [5]. The CBS domains from IMPDH and the chloride channel CLC2 bind ATP [5].	Domain
A [auth B], C	PF22785	Polymorphic toxin system, DSP-PTPase phosphatase (Tc-R-P)	Polymorphic toxin system, DSP-PTPase phosphatase	This domain occupies the toxin tip position in a subset of polymorphic toxin domains [1,2]. This domain is found at the extreme C-terminal of certain polymorphic toxin-related Tc-like toxins deployed by bacteria against eukaryotic host cells. This po ...	This domain occupies the toxin tip position in a subset of polymorphic toxin domains [1,2]. This domain is found at the extreme C-terminal of certain polymorphic toxin-related Tc-like toxins deployed by bacteria against eukaryotic host cells. This position is where the toxin module delivered into the target cells host resides [1].	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
B [auth A], D [auth H]	Metal transporter CNNM2	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 monoatomic cation transmembrane transporter activity magnesium ion transmembrane transporter activity monoatomic ion transmembrane transporter activity transporter activity metal ion transmembrane transporter activity transmembrane transporter activity	magnesium ion homeostasis inorganic ion homeostasis chemical homeostasis homeostatic process monoatomic ion homeostasis monoatomic cation homeostasis localization transport magnesium ion transport monoatomic ion transport monoatomic cation transport establishment of localization metal ion transport	cellular anatomical structure synapse cell junction cell periphery plasma membrane membrane basal part of cell basal plasma membrane plasma membrane region basolateral plasma membrane glutamatergic synapse
A [auth B], C	Protein tyrosine phosphatase type IVA 1	phosphoric ester hydrolase activity phosphoprotein phosphatase activity catalytic activity, acting on a protein hydrolase activity, acting on ester bonds protein tyrosine phosphatase activity phosphatase activity hydrolase activity catalytic activity	positive regulation of locomotion regulation of biological process regulation of cell motility regulation of cellular process biological regulation positive regulation of biological process positive regulation of cell migration regulation of locomotion positive regulation of cell motility regulation of cell migration cellular process cell migration cell motility locomotion positive regulation of locomotion regulation of biological process regulation of cell motility regulation of cellular process biological regulation positive regulation of biological process positive regulation of cell migration regulation of locomotion positive regulation of cell motility regulation of cell migration cellular process cell migration cell motility locomotion positive regulation of cellular process	membrane-bounded organelle intracellular anatomical structure early endosome endosome intracellular vesicle intracellular membrane-bounded organelle endomembrane system intracellular organelle cellular anatomical structure cytoplasmic vesicle organelle cytoplasm vesicle cell periphery membrane-bounded organelle intracellular anatomical structure early endosome endosome intracellular vesicle intracellular membrane-bounded organelle endomembrane system intracellular organelle cellular anatomical structure cytoplasmic vesicle organelle cytoplasm vesicle cell periphery plasma membrane membrane cytoskeleton spindle membraneless organelle intracellular membraneless organelle microtubule cytoskeleton nucleus endoplasmic reticulum

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
B [auth A], D [auth H]	IPR046342	CBS domain superfamily	Homologous Superfamily
B [auth A], D [auth H]	IPR044751	Ion transporter-like, CBS domain	Domain
B [auth A], D [auth H]	IPR014710	RmlC-like jelly roll fold	Homologous Superfamily
B [auth A], D [auth H]	IPR045095	Ancient conserved domain protein family	Family
B [auth A], D [auth H]	IPR000644	CBS domain	Domain
B [auth A], D [auth H]	IPR002550	CNNM, transmembrane domain	Domain
A [auth B], C	IPR050561	Protein Tyrosine Phosphatase	Family
A [auth B], C	IPR029021	Protein-tyrosine phosphatase-like	Homologous Superfamily
A [auth B], C	IPR003595	Protein-tyrosine phosphatase, catalytic	Domain
A [auth B], C	IPR000387	Tyrosine-specific protein phosphatases domain	Domain
A [auth B], C	IPR020422	Dual specificity protein phosphatase domain	Domain

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.