Structure of PDB 7jrd Chain B Binding Site BS01

Receptor Information
>7jrd Chain B (length=688) Species: 9606 (Homo sapiens) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
RSVQWCAVSQPEATKCFQWQRNMRRVRGPPVSCIKRDSPIQCIQAIAENR
ADAVTLDGGFIYEAGLAPYKLRPVAAEVYGTERQPRTHYYAVAVVKKGGS
FQLNELQGLKSCHTGLRRTAGWNVPIGTLRPFLNWTGPPEPIEAAVARFF
SASCVPGADKGQFPNLCRLCAGTGENKCAFSSQEPYFSYSGAFKCLRDGA
GDVAFIRESTVFEDLSDEAERDEYELLCPDNTRKPVDKFKDCHLARVPSH
AVVARSVNGKEDAIWNLLRQAQEKFGKDKSPKFQLFGSPSGQKDLLFKDS
AIGFSRVPPRIDSGLYLGSGYFTAIQNLRKSEEEVAARRARVVWCAVGEQ
ELRKCNQWSGLSEGSVTCSSASTTEDCIALVLKGEADAMSLDGGYVYTAG
KCGLVPVLAENYKSQQSSDPDPNCVDRPVEGYLAVAVVRRSDTSLTWNSV
KGKKSCHTAVDRTAGWNIPMGLLFNQTGSCKFDEYFSQSCAPGSDPRSNL
CALCIGDEQGENKCVPNSNERYYGYTGAFRCLAENAGDVAFVKDVTVLQN
TDGNNNDAWAKDLKLADFALLCLDGKRKPVTEARSCHLAMAPNHAVVSRM
DKVERLKQVLLHQQAKFGRNGSDCPDKFCLFQSETKNLLFNDNTECLARL
HGKTTYEKYLGPQYVAGITNLKKCSTSPLLEACEFLRK
Ligand information
Ligand IDFE
InChIInChI=1S/Fe/q+3
InChIKeyVTLYFUHAOXGGBS-UHFFFAOYSA-N
SMILES
SoftwareSMILES
ACDLabs 10.04
CACTVS 3.341
OpenEye OEToolkits 1.5.0		[Fe+3]
FormulaFe
NameFE (III) ION
ChEMBL
DrugBankDB13949
ZINC
PDB chain7jrd Chain B Residue 701 [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]
Receptor-Ligand Complex Structure
Global viewLocal viewStructure summary

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PDB7jrd Structural insight into the dual function of LbpB in mediating Neisserial pathogenesis.
Resolution2.85 Å
Binding residue
(original residue number in PDB)		D396 Y436 Y529 H598
Binding residue
(residue number reindexed from 1)		D392 Y432 Y525 H594
Annotation score4
Enzymatic activity
Enzyme Commision number 3.4.21.-
Gene Ontology
Molecular Function
GO:0001530 lipopolysaccharide binding
GO:0003677 DNA binding
GO:0004252 serine-type endopeptidase activity
GO:0004869 cysteine-type endopeptidase inhibitor activity
GO:0005506 iron ion binding
GO:0005515 protein binding
GO:0008201 heparin binding
GO:0008233 peptidase activity
GO:0008236 serine-type peptidase activity
GO:0043539 protein serine/threonine kinase activator activity
GO:0046872 metal ion binding
GO:0140912 membrane destabilizing activity
Biological Process
GO:0001503 ossification
GO:0001817 regulation of cytokine production
GO:0002227 innate immune response in mucosa
GO:0002376 immune system process
GO:0006508 proteolysis
GO:0006826 iron ion transport
GO:0006959 humoral immune response
GO:0019731 antibacterial humoral response
GO:0019732 antifungal humoral response
GO:0031640 killing of cells of another organism
GO:0031665 negative regulation of lipopolysaccharide-mediated signaling pathway
GO:0032680 regulation of tumor necrosis factor production
GO:0032780 negative regulation of ATP-dependent activity
GO:0033690 positive regulation of osteoblast proliferation
GO:0034145 positive regulation of toll-like receptor 4 signaling pathway
GO:0042742 defense response to bacterium
GO:0043066 negative regulation of apoptotic process
GO:0043123 positive regulation of canonical NF-kappaB signal transduction
GO:0044793 negative regulation by host of viral process
GO:0045071 negative regulation of viral genome replication
GO:0045669 positive regulation of osteoblast differentiation
GO:0048525 negative regulation of viral process
GO:0050829 defense response to Gram-negative bacterium
GO:0051092 positive regulation of NF-kappaB transcription factor activity
GO:0060349 bone morphogenesis
GO:0061844 antimicrobial humoral immune response mediated by antimicrobial peptide
GO:0071902 positive regulation of protein serine/threonine kinase activity
GO:1900159 positive regulation of bone mineralization involved in bone maturation
GO:1900229 negative regulation of single-species biofilm formation in or on host organism
GO:1902732 positive regulation of chondrocyte proliferation
GO:2000117 negative regulation of cysteine-type endopeptidase activity
GO:2000308 negative regulation of tumor necrosis factor (ligand) superfamily member 11 production
GO:2001205 negative regulation of osteoclast development
Cellular Component
GO:0005576 extracellular region
GO:0005615 extracellular space
GO:0005634 nucleus
GO:0005737 cytoplasm
GO:0005769 early endosome
GO:0005886 plasma membrane
GO:0009986 cell surface
GO:0030141 secretory granule
GO:0032991 protein-containing complex
GO:0035580 specific granule lumen
GO:0042581 specific granule
GO:0055037 recycling endosome
GO:0070062 extracellular exosome
GO:0097013 phagocytic vesicle lumen
GO:1904724 tertiary granule lumen

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Molecular Function
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Biological Process
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Cellular Component
External links
PDB RCSB:7jrd, PDBe:7jrd, PDBj:7jrd
PDBsum7jrd
PubMed34751649
UniProtP02788|TRFL_HUMAN Lactotransferrin (Gene Name=LTF)

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