5HBC | pdb_00005hbc

Intermediate structure of iron-saturated C-lobe of bovine lactoferrin at 2.79 Angstrom resolution indicates the softening of iron coordination

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)
B	d5hbcb_	Alpha and beta proteins (a/b)	Periplasmic binding protein-like II	Periplasmic binding protein-like II	Transferrin	Lactoferrin	(Bos taurus ) [TaxId: 9913 ],	SCOPe (2.08)
A	d5hbca_	Alpha and beta proteins (a/b)	Periplasmic binding protein-like II	Periplasmic binding protein-like II	Transferrin	Lactoferrin	(Bos taurus ) [TaxId: 9913 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
B	SCOP2B Superfamily	Type 2 solute binding protein-like	8037729	3000083	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	Type 2 solute binding protein-like	8037729	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)
B	Cytochrom_B559,Cytochrom_B559a	e5hbcB1	A: alpha bundles	X: ACP-like	H: Acyl-carrier protein (ACP)	T: Acyl-carrier protein (ACP)	F: Cytochrom_B559,Cytochrom_B559a	ECOD (develop294)
A	Cytochrom_B559,Cytochrom_B559a	e5hbcA1	A: alpha bundles	X: ACP-like	H: Acyl-carrier protein (ACP)	T: Acyl-carrier protein (ACP)	F: Cytochrom_B559,Cytochrom_B559a	ECOD (develop294)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
B	3.40.190.10	Alpha Beta	3-Layer(aba) Sandwich	D-Maltodextrin-Binding Protein	domain 2	CATH (4.3.0)
A	3.40.190.10	Alpha Beta	3-Layer(aba) Sandwich	D-Maltodextrin-Binding Protein	domain 2	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B	PF00405	Transferrin (Transferrin)	Transferrin		Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B	Lactotransferrin	protein binding binding signaling receptor binding enzyme regulator activity molecular function inhibitor activity peptidase regulator activity molecular function regulator activity enzyme inhibitor activity cysteine-type endopeptidase inhibitor activity peptidase inhibitor activity endopeptidase regulator activity endopeptidase inhibitor activity peptidase activity catalytic activity, acting on a protein protein binding binding signaling receptor binding enzyme regulator activity molecular function inhibitor activity peptidase regulator activity molecular function regulator activity enzyme inhibitor activity cysteine-type endopeptidase inhibitor activity peptidase inhibitor activity endopeptidase regulator activity endopeptidase inhibitor activity peptidase activity catalytic activity, acting on a protein serine hydrolase activity serine-type peptidase activity hydrolase activity serine-type endopeptidase activity catalytic activity endopeptidase activity cation binding transition metal ion binding iron ion binding ion binding metal ion binding small molecule binding	developmental process multicellular organismal process animal organ development multicellular organism development anatomical structure morphogenesis skeletal system development anatomical structure development skeletal system morphogenesis animal organ morphogenesis bone morphogenesis bone development system development humoral immune response biological process involved in interspecies interaction between organisms developmental process multicellular organismal process animal organ development multicellular organism development anatomical structure morphogenesis skeletal system development anatomical structure development skeletal system morphogenesis animal organ morphogenesis bone morphogenesis bone development system development humoral immune response biological process involved in interspecies interaction between organisms response to stimulus response to other organism defense response immune response defense response to symbiont response to external stimulus antimicrobial humoral response response to biotic stimulus defense response to fungus defense response to other organism response to stress immune system process antifungal humoral response response to external biotic stimulus response to fungus localization transport iron ion transport transition metal ion transport monoatomic ion transport monoatomic cation transport establishment of localization metal ion transport regulation of biological process regulation of cellular process negative regulation of programmed cell death regulation of apoptotic process biological regulation negative regulation of biological process regulation of programmed cell death cell death negative regulation of apoptotic process negative regulation of cellular process cellular process apoptotic process programmed cell death cell aggregation biofilm formation biological process involved in intraspecies interaction between organisms regulation of single-species biofilm formation in or on host organism single-species biofilm formation in or on host organism single-species biofilm formation negative regulation of single-species biofilm formation in or on host organism adhesion of symbiont to host biological process involved in interaction with host aggregation of unicellular organisms biological process involved in symbiotic interaction negative regulation of single-species biofilm formation regulation of single-species biofilm formation regulation of biological process involved in symbiotic interaction antibacterial humoral response defense response to bacterium response to bacterium regulation of leukocyte differentiation regulation of cell differentiation regulation of cell development cell differentiation regulation of immune system process negative regulation of hemopoiesis regulation of osteoclast development negative regulation of leukocyte differentiation regulation of myeloid leukocyte differentiation negative regulation of myeloid cell differentiation negative regulation of myeloid leukocyte differentiation osteoclast development negative regulation of multicellular organismal process leukocyte differentiation myeloid leukocyte differentiation cellular developmental process regulation of developmental process cell development regulation of osteoclast differentiation bone cell development osteoclast differentiation regulation of multicellular organismal process negative regulation of cell differentiation regulation of multicellular organismal development hemopoiesis regulation of myeloid cell differentiation negative regulation of developmental process negative regulation of osteoclast differentiation negative regulation of cell development negative regulation of osteoclast development myeloid cell differentiation negative regulation of immune system process myeloid cell development regulation of hemopoiesis regulation of biosynthetic process regulation of tumor necrosis factor production tumor necrosis factor superfamily cytokine production regulation of macromolecule metabolic process gene expression macromolecule biosynthetic process tumor necrosis factor production regulation of gene expression regulation of tumor necrosis factor superfamily cytokine production biosynthetic process cytokine production regulation of cytokine production metabolic process regulation of macromolecule biosynthetic process macromolecule metabolic process regulation of metabolic process cell population proliferation positive regulation of cell population proliferation positive regulation of biological process positive regulation of chondrocyte proliferation regulation of cell population proliferation positive regulation of cellular process chondrocyte proliferation positive regulation of osteoblast proliferation osteoblast proliferation regulation of osteoblast proliferation bone maturation regulation of biomineral tissue development regulation of bone mineralization positive regulation of ossification positive regulation of developmental process positive regulation of biomineral tissue development positive regulation of bone mineralization involved in bone maturation ossification biomineral tissue development ossification involved in bone maturation bone mineralization bone mineralization involved in bone maturation developmental maturation tissue development positive regulation of bone mineralization anatomical structure maturation positive regulation of multicellular organismal process animal organ maturation regulation of ossification innate immune response in mucosa innate immune response mucosal immune response organ or tissue specific immune response regulation of osteoblast differentiation osteoblast differentiation positive regulation of osteoblast differentiation positive regulation of cell differentiation cellular response to stimulus regulation of lipopolysaccharide-mediated signaling pathway negative regulation of lipopolysaccharide-mediated signaling pathway regulation of response to biotic stimulus negative regulation of response to biotic stimulus regulation of response to external stimulus response to lipid negative regulation of signaling signaling cellular response to lipopolysaccharide regulation of signal transduction negative regulation of cell communication cell communication lipopolysaccharide-mediated signaling pathway cellular response to biotic stimulus signal transduction regulation of signaling cell surface receptor signaling pathway negative regulation of response to stimulus response to oxygen-containing compound cellular response to molecule of bacterial origin negative regulation of signal transduction response to lipopolysaccharide cellular response to oxygen-containing compound cellular response to chemical stimulus regulation of response to stimulus negative regulation of response to external stimulus response to chemical cellular response to lipid regulation of cell communication response to molecule of bacterial origin proteolysis primary metabolic process protein metabolic process negative regulation of tumor necrosis factor (ligand) superfamily member 11 production tumor necrosis factor (ligand) superfamily member 11 production negative regulation of macromolecule metabolic process negative regulation of metabolic process negative regulation of cytokine production regulation of tumor necrosis factor (ligand) superfamily member 11 production negative regulation of gene expression negative regulation of biosynthetic process negative regulation of macromolecule biosynthetic process negative regulation of tumor necrosis factor superfamily cytokine production	cell periphery cellular anatomical structure plasma membrane membrane membrane-bounded organelle intracellular anatomical structure early endosome endosome intracellular vesicle intracellular membrane-bounded organelle endomembrane system intracellular organelle cytoplasmic vesicle organelle cell periphery cellular anatomical structure plasma membrane membrane membrane-bounded organelle intracellular anatomical structure early endosome endosome intracellular vesicle intracellular membrane-bounded organelle endomembrane system intracellular organelle cytoplasmic vesicle organelle cytoplasm vesicle recycling endosome secretory granule secretory vesicle specific granule extracellular region extracellular space

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B	IPR016357	Transferrin	Family
A, B	IPR001156	Transferrin-like domain	Domain
A, B	IPR018195	Transferrin family, iron binding site	Binding Site
A, B	IPR030684	Lactotransferrin	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. RCSB PDB uses resources of the National Energy Research Scientific Computing Center (NERSC), a Department of Energy User Facility.