5WPZ | pdb_00005wpz

Crystal structure of MNDA PYD with MBP tag

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
Pharos: Disease Associations

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
F	SCOP2B Superfamily	Type 2 solute binding protein-like	8058187	3000083	SCOP2B (2022-06-29)
E	SCOP2B Superfamily	Type 2 solute binding protein-like	8058187	3000083	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	Type 2 solute binding protein-like	8058187	3000083	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	Type 2 solute binding protein-like	8058187	3000083	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	Type 2 solute binding protein-like	8058187	3000083	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	Type 2 solute binding protein-like	8058187	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)
F	Ribosomal_L6	e5wpzF1	A: alpha bundles	X: jelly-roll	H: beta-propeller	T: 5-bladed	F: Ribosomal_L6	ECOD (develop294)
E	Ribosomal_L6	e5wpzE1	A: alpha bundles	X: jelly-roll	H: beta-propeller	T: 5-bladed	F: Ribosomal_L6	ECOD (develop294)
D	Ribosomal_L6	e5wpzD1	A: alpha bundles	X: jelly-roll	H: beta-propeller	T: 5-bladed	F: Ribosomal_L6	ECOD (develop294)
C	Ribosomal_L6	e5wpzC1	A: alpha bundles	X: jelly-roll	H: beta-propeller	T: 5-bladed	F: Ribosomal_L6	ECOD (develop294)
B	Ribosomal_L6	e5wpzB1	A: alpha bundles	X: jelly-roll	H: beta-propeller	T: 5-bladed	F: Ribosomal_L6	ECOD (develop294)
A	Ribosomal_L6	e5wpzA1	A: alpha bundles	X: jelly-roll	H: beta-propeller	T: 5-bladed	F: Ribosomal_L6	ECOD (develop294)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
F	1.10.533.10	Mainly Alpha	Orthogonal Bundle	Death Domain, Fas	Death Domain, Fas	CATH (utative)
E	1.10.533.10	Mainly Alpha	Orthogonal Bundle	Death Domain, Fas	Death Domain, Fas	CATH (utative)
D	1.10.533.10	Mainly Alpha	Orthogonal Bundle	Death Domain, Fas	Death Domain, Fas	CATH (utative)
C	1.10.533.10	Mainly Alpha	Orthogonal Bundle	Death Domain, Fas	Death Domain, Fas	CATH (utative)
B	1.10.533.10	Mainly Alpha	Orthogonal Bundle	Death Domain, Fas	Death Domain, Fas	CATH (utative)
A	1.10.533.10	Mainly Alpha	Orthogonal Bundle	Death Domain, Fas	Death Domain, Fas	CATH (utative)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B, C, D, E A, B, C, D, E, F	PF01547	Bacterial extracellular solute-binding protein (SBP_bac_1)	Bacterial extracellular solute-binding protein	-	Family
A, B, C, D, E A, B, C, D, E, F	PF02758	PAAD/DAPIN/Pyrin domain (PYRIN)	PAAD/DAPIN/Pyrin domain	This domain is predicted to contain 6 alpha helices and to have the same fold as the Pfam:PF00531 domain. This similarity may mean that this is a protein-protein interaction domain.	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B, C, D, E A, B, C, D, E, F	MBP-hMNDA-PYD	transporter activity carbohydrate transmembrane transporter activity transmembrane transporter activity oligosaccharide binding binding disaccharide binding carbohydrate binding maltose binding DNA binding double-stranded DNA binding nucleic acid binding	cellular response to stimulus cellular response to stress response to stimulus DNA damage response response to stress cellular process cell chemotaxis chemotaxis response to external stimulus cellular response to chemical stimulus taxis response to chemical cell migration cell motility cellular response to stimulus cellular response to stress response to stimulus DNA damage response response to stress cellular process cell chemotaxis chemotaxis response to external stimulus cellular response to chemical stimulus taxis response to chemical cell migration cell motility locomotion localization transport carbohydrate transport oligosaccharide transport disaccharide transport establishment of localization maltose transport polysaccharide localization dextrin transport macromolecule localization maltodextrin transmembrane transport polysaccharide transport response to disaccharide response to oxygen-containing compound detection of maltose stimulus detection of stimulus response to carbohydrate detection of chemical stimulus detection of disaccharide stimulus response to maltose detection of carbohydrate stimulus regulation of defense response positive regulation of response to biotic stimulus regulation of response to biotic stimulus biological process involved in interspecies interaction between organisms regulation of response to external stimulus positive regulation of biological process response to biotic stimulus positive regulation of response to stimulus positive regulation of response to external stimulus positive regulation of immune response regulation of response to stress innate immune response regulation of immune system process response to external biotic stimulus positive regulation of immune system process regulation of biological process positive regulation of innate immune response defense response immune response response to other organism regulation of innate immune response biological regulation defense response to symbiont regulation of response to stimulus immune system process defense response to other organism positive regulation of defense response activation of innate immune response regulation of immune response activation of immune response negative regulation of lymphocyte proliferation multicellular organismal process regulation of cellular process regulation of leukocyte activation negative regulation of biological process regulation of cell activation lymphocyte activation negative regulation of lymphocyte activation leukocyte proliferation leukocyte activation negative regulation of mononuclear cell proliferation negative regulation of leukocyte proliferation regulation of B cell proliferation lymphocyte proliferation regulation of B cell activation negative regulation of cellular process regulation of multicellular organismal process negative regulation of B cell activation regulation of lymphocyte proliferation regulation of leukocyte proliferation negative regulation of cell population proliferation cell population proliferation B cell activation cell activation B cell proliferation negative regulation of B cell proliferation negative regulation of cell activation negative regulation of immune system process regulation of cell population proliferation mononuclear cell proliferation regulation of mononuclear cell proliferation negative regulation of multicellular organismal process negative regulation of leukocyte activation regulation of lymphocyte activation immune response-regulating cell surface receptor signaling pathway signaling cell communication immune response-activating signaling pathway immune response-regulating signaling pathway signal transduction cell surface receptor signaling pathway immune response-activating cell surface receptor signaling pathway B cell receptor signaling pathway antigen receptor-mediated signaling pathway cellular defense response positive regulation of programmed cell death regulation of apoptotic process regulation of programmed cell death cell death positive regulation of apoptotic process apoptotic process programmed cell death positive regulation of cellular process cellular response to interferon-beta response to peptide response to interferon-beta response to cytokine cellular response to cytokine stimulus	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 ATP-binding cassette (ABC) transporter complex, substrate-binding subunit-containing maltose transport complex periplasmic space 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 ATP-binding cassette (ABC) transporter complex, substrate-binding subunit-containing maltose transport complex periplasmic space outer membrane-bounded periplasmic space cell envelope membrane-bounded organelle intracellular anatomical structure nucleus membrane-enclosed lumen intracellular membraneless organelle intracellular membrane-bounded organelle nucleolus intracellular organelle lumen intracellular organelle organelle lumen organelle membraneless organelle nuclear lumen extracellular region extracellular exosome extracellular vesicle extracellular organelle extracellular space vesicle extracellular membrane-bounded organelle cytoplasm cytosol lytic vacuole intracellular vesicle cytoplasmic vesicle lumen vacuolar lumen endomembrane system cytoplasmic vesicle lysosome vesicle lumen azurophil granule vacuole secretory granule lumen azurophil granule lumen secretory granule primary lysosome secretory vesicle ficolin-1-rich granule ficolin-1-rich granule lumen nucleoplasm

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B, C, D, E A, B, C, D, E, F	IPR006061	Solute-binding family 1, conserved site	Conserved Site
A, B, C, D, E A, B, C, D, E, F	IPR006060	Maltose/Cyclodextrin ABC transporter, substrate-binding protein	Family
A, B, C, D, E A, B, C, D, E, F	IPR006059	Bacterial-type extracellular solute-binding protein	Family
A, B, C, D, E A, B, C, D, E, F	IPR011029	Death-like domain superfamily	Homologous Superfamily
A, B, C, D, E A, B, C, D, E, F	IPR004021	HIN-200/IF120x	Domain
A, B, C, D, E A, B, C, D, E, F	IPR040205	HIN-200 family	Family
A, B, C, D, E A, B, C, D, E, F	IPR012340	Nucleic acid-binding, OB-fold	Homologous Superfamily
A, B, C, D, E A, B, C, D, E, F	IPR004020	DAPIN domain	Domain

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
A, B, C, D, E A, B, C, D, E, F	Pharos: P41218	ovarian cancer pancreatic intraductal papillary-mucinous neoplasm with low grade dysplasia Sjogren syndrome adenoma cutaneous lupus erythematosus glioblastoma interstitial cystitis lung adenocarcinoma malignant ependymoma non-small cell lung carcinoma pancreatic intraductal papillary-mucinous carcinoma pilocytic astrocytoma tuberculosis adrenal cortex carcinoma dermatomyositis ovarian cancer pancreatic intraductal papillary-mucinous neoplasm with low grade dysplasia Sjogren syndrome adenoma cutaneous lupus erythematosus glioblastoma interstitial cystitis lung adenocarcinoma malignant ependymoma non-small cell lung carcinoma pancreatic intraductal papillary-mucinous carcinoma pilocytic astrocytoma tuberculosis adrenal cortex carcinoma dermatomyositis head and neck cancer invasive ductal breast carcinoma lung cancer malignant glioma osteosarcoma pancreatic intraductal papillary-mucinous neoplasm psoriasis ulcerative colitis B-cell chronic lymphocytic leukemia gastric carcinoma IgA glomerulonephritis large cell medulloblastoma lung carcinoma medulloblastoma

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.