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SummaryStructural detailsExperimental detailsFunctional detailsSequence NeighborHistoryDownloads

1X89

Crystal structure of Siderocalin (NGAL, Lipocalin 2) complexed with Carboxymycobactin S

Functional Information from GO Data
ChainGOidnamespacecontents
A0002020molecular_functionprotease binding
A0002376biological_processimmune system process
A0005506molecular_functioniron ion binding
A0005515molecular_functionprotein binding
A0005576cellular_componentextracellular region
A0005615cellular_componentextracellular space
A0006811biological_processmonoatomic ion transport
A0006826biological_processiron ion transport
A0006915biological_processapoptotic process
A0006953biological_processacute-phase response
A0006979biological_processresponse to oxidative stress
A0007614biological_processshort-term memory
A0007616biological_processlong-term memory
A0009410biological_processresponse to xenobiotic stimulus
A0009615biological_processresponse to virus
A0009617biological_processresponse to bacterium
A0009635biological_processresponse to herbicide
A0009636biological_processresponse to toxic substance
A0009637biological_processresponse to blue light
A0009750biological_processresponse to fructose
A0010040biological_processresponse to iron(II) ion
A0010046biological_processresponse to mycotoxin
A0010595biological_processpositive regulation of endothelial cell migration
A0010628biological_processpositive regulation of gene expression
A0015891biological_processsiderophore transport
A0031346biological_processpositive regulation of cell projection organization
A0031410cellular_componentcytoplasmic vesicle
A0031667biological_processresponse to nutrient levels
A0031669biological_processcellular response to nutrient levels
A0032496biological_processresponse to lipopolysaccharide
A0035580cellular_componentspecific granule lumen
A0036094molecular_functionsmall molecule binding
A0036295biological_processcellular response to increased oxygen levels
A0042742biological_processdefense response to bacterium
A0042802molecular_functionidentical protein binding
A0043065biological_processpositive regulation of apoptotic process
A0043525biological_processpositive regulation of neuron apoptotic process
A0045087biological_processinnate immune response
A0060205cellular_componentcytoplasmic vesicle lumen
A0070062cellular_componentextracellular exosome
A0070301biological_processcellular response to hydrogen peroxide
A0071222biological_processcellular response to lipopolysaccharide
A0071347biological_processcellular response to interleukin-1
A0071354biological_processcellular response to interleukin-6
A0071356biological_processcellular response to tumor necrosis factor
A0071456biological_processcellular response to hypoxia
A0071481biological_processcellular response to X-ray
A0097192biological_processextrinsic apoptotic signaling pathway in absence of ligand
A0110090biological_processpositive regulation of hippocampal neuron apoptotic process
A0110091biological_processnegative regulation of hippocampal neuron apoptotic process
A0120162biological_processpositive regulation of cold-induced thermogenesis
A0140315molecular_functioniron ion sequestering activity
A1903428biological_processpositive regulation of reactive oxygen species biosynthetic process
A1903981molecular_functionenterobactin binding
A1904373biological_processresponse to kainic acid
A1904440biological_processpositive regulation of iron ion import across plasma membrane
A1904646biological_processcellular response to amyloid-beta
A1905956biological_processpositive regulation of endothelial tube morphogenesis
A1990090biological_processcellular response to nerve growth factor stimulus
A2000379biological_processpositive regulation of reactive oxygen species metabolic process
B0002020molecular_functionprotease binding
B0002376biological_processimmune system process
B0005506molecular_functioniron ion binding
B0005515molecular_functionprotein binding
B0005576cellular_componentextracellular region
B0005615cellular_componentextracellular space
B0006811biological_processmonoatomic ion transport
B0006826biological_processiron ion transport
B0006915biological_processapoptotic process
B0006953biological_processacute-phase response
B0006979biological_processresponse to oxidative stress
B0007614biological_processshort-term memory
B0007616biological_processlong-term memory
B0009410biological_processresponse to xenobiotic stimulus
B0009615biological_processresponse to virus
B0009617biological_processresponse to bacterium
B0009635biological_processresponse to herbicide
B0009636biological_processresponse to toxic substance
B0009637biological_processresponse to blue light
B0009750biological_processresponse to fructose
B0010040biological_processresponse to iron(II) ion
B0010046biological_processresponse to mycotoxin
B0010595biological_processpositive regulation of endothelial cell migration
B0010628biological_processpositive regulation of gene expression
B0015891biological_processsiderophore transport
B0031346biological_processpositive regulation of cell projection organization
B0031410cellular_componentcytoplasmic vesicle
B0031667biological_processresponse to nutrient levels
B0031669biological_processcellular response to nutrient levels
B0032496biological_processresponse to lipopolysaccharide
B0035580cellular_componentspecific granule lumen
B0036094molecular_functionsmall molecule binding
B0036295biological_processcellular response to increased oxygen levels
B0042742biological_processdefense response to bacterium
B0042802molecular_functionidentical protein binding
B0043065biological_processpositive regulation of apoptotic process
B0043525biological_processpositive regulation of neuron apoptotic process
B0045087biological_processinnate immune response
B0060205cellular_componentcytoplasmic vesicle lumen
B0070062cellular_componentextracellular exosome
B0070301biological_processcellular response to hydrogen peroxide
B0071222biological_processcellular response to lipopolysaccharide
B0071347biological_processcellular response to interleukin-1
B0071354biological_processcellular response to interleukin-6
B0071356biological_processcellular response to tumor necrosis factor
B0071456biological_processcellular response to hypoxia
B0071481biological_processcellular response to X-ray
B0097192biological_processextrinsic apoptotic signaling pathway in absence of ligand
B0110090biological_processpositive regulation of hippocampal neuron apoptotic process
B0110091biological_processnegative regulation of hippocampal neuron apoptotic process
B0120162biological_processpositive regulation of cold-induced thermogenesis
B0140315molecular_functioniron ion sequestering activity
B1903428biological_processpositive regulation of reactive oxygen species biosynthetic process
B1903981molecular_functionenterobactin binding
B1904373biological_processresponse to kainic acid
B1904440biological_processpositive regulation of iron ion import across plasma membrane
B1904646biological_processcellular response to amyloid-beta
B1905956biological_processpositive regulation of endothelial tube morphogenesis
B1990090biological_processcellular response to nerve growth factor stimulus
B2000379biological_processpositive regulation of reactive oxygen species metabolic process
C0002020molecular_functionprotease binding
C0002376biological_processimmune system process
C0005506molecular_functioniron ion binding
C0005515molecular_functionprotein binding
C0005576cellular_componentextracellular region
C0005615cellular_componentextracellular space
C0006811biological_processmonoatomic ion transport
C0006826biological_processiron ion transport
C0006915biological_processapoptotic process
C0006953biological_processacute-phase response
C0006979biological_processresponse to oxidative stress
C0007614biological_processshort-term memory
C0007616biological_processlong-term memory
C0009410biological_processresponse to xenobiotic stimulus
C0009615biological_processresponse to virus
C0009617biological_processresponse to bacterium
C0009635biological_processresponse to herbicide
C0009636biological_processresponse to toxic substance
C0009637biological_processresponse to blue light
C0009750biological_processresponse to fructose
C0010040biological_processresponse to iron(II) ion
C0010046biological_processresponse to mycotoxin
C0010595biological_processpositive regulation of endothelial cell migration
C0010628biological_processpositive regulation of gene expression
C0015891biological_processsiderophore transport
C0031346biological_processpositive regulation of cell projection organization
C0031410cellular_componentcytoplasmic vesicle
C0031667biological_processresponse to nutrient levels
C0031669biological_processcellular response to nutrient levels
C0032496biological_processresponse to lipopolysaccharide
C0035580cellular_componentspecific granule lumen
C0036094molecular_functionsmall molecule binding
C0036295biological_processcellular response to increased oxygen levels
C0042742biological_processdefense response to bacterium
C0042802molecular_functionidentical protein binding
C0043065biological_processpositive regulation of apoptotic process
C0043525biological_processpositive regulation of neuron apoptotic process
C0045087biological_processinnate immune response
C0060205cellular_componentcytoplasmic vesicle lumen
C0070062cellular_componentextracellular exosome
C0070301biological_processcellular response to hydrogen peroxide
C0071222biological_processcellular response to lipopolysaccharide
C0071347biological_processcellular response to interleukin-1
C0071354biological_processcellular response to interleukin-6
C0071356biological_processcellular response to tumor necrosis factor
C0071456biological_processcellular response to hypoxia
C0071481biological_processcellular response to X-ray
C0097192biological_processextrinsic apoptotic signaling pathway in absence of ligand
C0110090biological_processpositive regulation of hippocampal neuron apoptotic process
C0110091biological_processnegative regulation of hippocampal neuron apoptotic process
C0120162biological_processpositive regulation of cold-induced thermogenesis
C0140315molecular_functioniron ion sequestering activity
C1903428biological_processpositive regulation of reactive oxygen species biosynthetic process
C1903981molecular_functionenterobactin binding
C1904373biological_processresponse to kainic acid
C1904440biological_processpositive regulation of iron ion import across plasma membrane
C1904646biological_processcellular response to amyloid-beta
C1905956biological_processpositive regulation of endothelial tube morphogenesis
C1990090biological_processcellular response to nerve growth factor stimulus
C2000379biological_processpositive regulation of reactive oxygen species metabolic process
Functional Information from PDB Data
site_idAC1
Number of Residues11
DetailsBINDING SITE FOR RESIDUE CM1 A 200
ChainResidue
ATYR52
ALYS134
ATYR138
ATHR54
ASER68
ALEU70
AARG72
ATRP79
AARG81
APHE123
ALYS125
site_idAC2
Number of Residues10
DetailsBINDING SITE FOR RESIDUE CM1 B 200
ChainResidue
BTYR52
BTHR54
BSER68
BLEU70
BTRP79
BARG81
BPHE123
BLYS125
BLYS134
BTYR138
site_idAC3
Number of Residues12
DetailsBINDING SITE FOR RESIDUE CM1 C 200
ChainResidue
CTYR52
CTHR54
CSER68
CLEU70
CARG72
CTRP79
CARG81
CPHE123
CLYS125
CPHE133
CLYS134
CTYR138
Functional Information from PROSITE/UniProt
site_idPS00213
Number of Residues14
DetailsLIPOCALIN Lipocalin signature. NFQdnQFQGKWYVV
ChainResidueDetails
AASN21-VAL34
Functional Information from SwissProt/UniProt
site_idSWS_FT_FI1
Number of Residues6
DetailsBinding site: {"evidences":[{"source":"PDB","id":"1X89","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"1X8U","evidenceCode":"ECO:0007744"}]}
ChainResidueDetails
site_idSWS_FT_FI2
Number of Residues6
DetailsBinding site: {"evidences":[{"source":"PDB","id":"3CMP","evidenceCode":"ECO:0007744"}]}
ChainResidueDetails
site_idSWS_FT_FI3
Number of Residues6
DetailsBinding site: {"evidences":[{"source":"PubMed","id":"15642259","evidenceCode":"ECO:0000269"},{"source":"PDB","id":"1X89","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"1X8U","evidenceCode":"ECO:0007744"}]}
ChainResidueDetails
site_idSWS_FT_FI4
Number of Residues3
DetailsGlycosylation: {"description":"N-linked (GlcNAc...) asparagine","evidences":[{"source":"PubMed","id":"10684642","evidenceCode":"ECO:0000269"},{"source":"PubMed","id":"15084671","evidenceCode":"ECO:0000269"},{"source":"PubMed","id":"16335952","evidenceCode":"ECO:0000269"},{"source":"PubMed","id":"16740002","evidenceCode":"ECO:0000269"},{"source":"PubMed","id":"19159218","evidenceCode":"ECO:0000269"},{"source":"PubMed","id":"7683678","evidenceCode":"ECO:0000269"},{"source":"PDB","id":"1DFV","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"1QQS","evidenceCode":"ECO:0007744"}]}
ChainResidueDetails

238895

PDB entries from 2025-07-16

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