7DM2 | pdb_00007dm2

crystal structure of the M. tuberculosis phosphate ABC transport receptor PstS-1 in complex with Fab p4-170

External Resource: Annotation

Domain Annotation: SCOP/SCOPe Classification
Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
Domain Annotation: CATH
IMGT Antibody Annotation
SAbDab Antibody Annotation
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)
A	d7dm2a_	Alpha and beta proteins (a/b)	Periplasmic binding protein-like II	Periplasmic binding protein-like II	Phosphate binding protein-like	automated matches	(Mycobacterium tuberculosis H37Rv ) [TaxId: 83332 ],	SCOPe (2.08)
B [auth L]	d7dm2l2	All beta proteins	Immunoglobulin-like beta-sandwich	Immunoglobulin	C1 set domains (antibody constant domain-like)	automated matches	Human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
B [auth L]	d7dm2l1	All beta proteins	Immunoglobulin-like beta-sandwich	Immunoglobulin	automated matches	automated matches	Human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
C [auth H]	d7dm2h_	All beta proteins	Immunoglobulin-like beta-sandwich	Immunoglobulin	V set domains (antibody variable domain-like)	automated matches	Human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
A	SCOP2B Superfamily	Type 2 solute binding protein-like	8038078	3000083	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)
A	PBP_like_2_2nd	e7dm2A1	A: a/b three-layered sandwiches	X: Periplasmic binding protein-like II (From Topology)	H: Periplasmic binding protein-like II (From Topology)	T: Periplasmic binding protein-like II	F: PBP_like_2_2nd	ECOD (1.6)
A	PBP_like_2_1st	e7dm2A2	A: a/b three-layered sandwiches	X: Periplasmic binding protein-like II (From Topology)	H: Periplasmic binding protein-like II (From Topology)	T: Periplasmic binding protein-like II	F: PBP_like_2_1st	ECOD (1.6)
B [auth L]	C1-set	e7dm2L1	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: C1-set	ECOD (1.6)
B [auth L]	V-set_3	e7dm2L2	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: V-set_3	ECOD (1.6)
C [auth H]	C1-set_1	e7dm2H1	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: C1-set_1	ECOD (1.6)
C [auth H]	V-set_12	e7dm2H2	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: V-set_12	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
B [auth L]	2.60.40.10	Mainly Beta	Sandwich	Immunoglobulin-like	Immunoglobulins	CATH (utative)
C [auth H]	2.60.40.10	Mainly Beta	Sandwich	Immunoglobulin-like	Immunoglobulins	CATH (utative)

IMGT Antibody Annotation IMGT Database Homepage

Chain	Protein Name	Description	Organism Name	Gene Allele Name(s)	Domain Name(s)	Receptor Type	Receptor Description	Provenance Source
A	Phosphate-binding protein PstS 1 (Pr25-374) P9WGU1	null	Mycobacterium tuberculosis	-	-	TR	GH1	IMGT (202539-0)
B [auth L]	Fab p4-36, anti-pstS1	1C-1C-LIKE-CH2-CH3	Homo sapiens (human)	TRDV101, IGLJ201, IGLJ301, IGLC201, IGLC202, IGLC304	V-DOMAIN V-DELTA, C-DOMAIN C-LAMBDA	IG	FAB-GAMMA-1_LAMBDA	IMGT (202539-0)
C [auth H]	Fab p4-36, anti-pstS1	VH-CH1	Homo sapiens (human)	IGHV3-2101, IGHV3-2102, IGHV3-2103, IGHV3-2104, IGHV3-2106, IGHJ501, IGHJ502, IGHG103, IGHG106, IGHG108	V-DOMAIN VH, C-DOMAIN CH1	IG	FAB-GAMMA-1_LAMBDA	IMGT (202539-0)

SAbDab Antibody Annotation SAbDab Database Homepage

Chain	Chain Class	Chain Subclass	Chain Type	Antigen Name(s)	Provenance Source
B [auth L]	Light Chain	IGLV1	Lambda	phosphate-binding protein psts 1	SAbDab (2025-10-10)
C [auth H]	Heavy Chain	IGHV3	-	phosphate-binding protein psts 1	SAbDab (2025-10-10)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A	PF01547	Bacterial extracellular solute-binding protein (SBP_bac_1)	Bacterial extracellular solute-binding protein	-	Family

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A	Phosphate-binding protein PstS 1	ion binding binding anion binding phosphate ion binding small molecule binding	localization transport phosphate ion transport establishment of localization inorganic anion transport cell adhesion cellular process cellular response to stimulus cellular response to nutrient levels response to nutrient levels cellular response to phosphate starvation response to stimulus cellular response to stress response to stress localization transport phosphate ion transport establishment of localization inorganic anion transport cell adhesion cellular process cellular response to stimulus cellular response to nutrient levels response to nutrient levels cellular response to phosphate starvation response to stimulus cellular response to stress response to stress response to starvation cellular response to starvation transmembrane transport phosphate ion transmembrane transport inorganic ion transmembrane transport inorganic anion transmembrane transport	ATPase dependent transmembrane transport complex protein-containing complex plasma membrane protein complex membrane plasma membrane membrane protein complex transporter complex ATP-binding cassette (ABC) transporter complex cell periphery cellular anatomical structure transmembrane transporter complex extracellular region cell surface intracellular anatomical structure ATPase dependent transmembrane transport complex protein-containing complex plasma membrane protein complex membrane plasma membrane membrane protein complex transporter complex ATP-binding cassette (ABC) transporter complex cell periphery cellular anatomical structure transmembrane transporter complex extracellular region cell surface intracellular anatomical structure cytoplasm cytosol external encapsulating structure cell wall peptidoglycan-based cell wall
B [auth L]	light chain	-	-	-
C [auth H]	heavy chain	-	-	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A	IPR005673	Phosphate ABC transporter, substrate-binding protein PstS	Family
A	IPR050962	Phosphate-binding protein PstS	Family
A	IPR024370	PBP 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.