5DMG | pdb_00005dmg

X-RAY STRUCTURE OF THE FAB FRAGMENT OF THE ANTI TAU ANTIBODY RB86 IN COMPLEX WITH THE PHOSPHORYLATED TAU PEPTIDE (416-430)

External Resource: Annotation

Domain Annotation: ECOD Classification
Domain Annotation: CATH
IMGT Antibody Annotation
SAbDab Antibody Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification
Pharos: Disease Associations
Protein Modification Annotation

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
F	Tor_FN3_2nd	e5dmgF1	A: a/b three-layered sandwiches	X: Carbon-nitrogen hydrolase-like	H: HTH	T: winged helix domain	F: Tor_FN3_2nd	ECOD (v294.1)
D	Tor_FN3_2nd	e5dmgD1	A: a/b three-layered sandwiches	X: Carbon-nitrogen hydrolase-like	H: HTH	T: winged helix domain	F: Tor_FN3_2nd	ECOD (v294.1)
B [auth L]	Tor_FN3_2nd	e5dmgL1	A: a/b three-layered sandwiches	X: Carbon-nitrogen hydrolase-like	H: HTH	T: winged helix domain	F: Tor_FN3_2nd	ECOD (v294.1)
C	Tor_FN3_2nd	e5dmgC1	A: a/b three-layered sandwiches	X: Carbon-nitrogen hydrolase-like	H: HTH	T: winged helix domain	F: Tor_FN3_2nd	ECOD (v294.1)
C	NTP_transferase	e5dmgC2	A: a/b three-layered sandwiches	X: Lipocalins/Streptavidin	H: SAM/DNA-glycosylase	T: SAM domain-like	F: NTP_transferase	ECOD (v294.1)
E	Tor_FN3_2nd	e5dmgE2	A: a/b three-layered sandwiches	X: Carbon-nitrogen hydrolase-like	H: HTH	T: winged helix domain	F: Tor_FN3_2nd	ECOD (v294.1)
E	NTP_transferase	e5dmgE1	A: a/b three-layered sandwiches	X: Lipocalins/Streptavidin	H: SAM/DNA-glycosylase	T: SAM domain-like	F: NTP_transferase	ECOD (v294.1)
A [auth H]	Tor_FN3_2nd	e5dmgH2	A: a/b three-layered sandwiches	X: Carbon-nitrogen hydrolase-like	H: HTH	T: winged helix domain	F: Tor_FN3_2nd	ECOD (v294.1)
A [auth H]	NTP_transferase	e5dmgH1	A: a/b three-layered sandwiches	X: Lipocalins/Streptavidin	H: SAM/DNA-glycosylase	T: SAM domain-like	F: NTP_transferase	ECOD (v294.1)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
F	2.60.40.10	Mainly Beta	Sandwich	Immunoglobulin-like	Immunoglobulins	CATH (4.3.0)
D	2.60.40.10	Mainly Beta	Sandwich	Immunoglobulin-like	Immunoglobulins	CATH (4.3.0)
B [auth L]	2.60.40.10	Mainly Beta	Sandwich	Immunoglobulin-like	Immunoglobulins	CATH (4.3.0)
C	2.60.40.10	Mainly Beta	Sandwich	Immunoglobulin-like	Immunoglobulins	CATH (4.3.0)
E	2.60.40.10	Mainly Beta	Sandwich	Immunoglobulin-like	Immunoglobulins	CATH (4.3.0)
A [auth H]	2.60.40.10	Mainly Beta	Sandwich	Immunoglobulin-like	Immunoglobulins	CATH (4.3.0)

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
B [auth L], D, F	RB86 Fab	L-KAPPA	Oryctolagus cuniculus (rabbit)	IGKV1S101, IGKJ1-202, IGKJ1-201, IGKC01	V-DOMAIN V-KAPPA, C-DOMAIN C-KAPPA	IG	FAB-GAMMA-1_KAPPA	IMGT (202613-0)
A [auth H], C, E	RB86 Fab	VH-CH1	Oryctolagus cuniculus (rabbit)	IGHV1S6901, IGHJ402, IGHG101, IGHG102, IGHG104, IGHG105	V-DOMAIN VH, C-DOMAIN CH1	IG	FAB-GAMMA-1_KAPPA	IMGT (202613-0)

SAbDab Antibody Annotation SAbDab Database Homepage

Chain	Chain Class	Chain Subclass	Chain Type	Antigen Name(s)	Provenance Source
B [auth L], D, F	Light Chain	IGKV1	Kappa	microtubule-associated protein	SAbDab (2026-04-10)
A [auth H], C, E	Heavy Chain	IGHV1	-	microtubule-associated protein	SAbDab (2026-04-10)

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
G [auth Z], H [auth P], I [auth X]	Microtubule-associated protein	cytoskeletal protein binding microtubule binding protein binding binding tubulin binding microtubule lateral binding sequence-specific DNA binding DNA binding nucleic acid binding protein-folding chaperone binding SH3 domain binding protein domain specific binding DNA secondary structure binding minor groove of adenine-thymine-rich DNA binding cytoskeletal protein binding microtubule binding protein binding binding tubulin binding microtubule lateral binding sequence-specific DNA binding DNA binding nucleic acid binding protein-folding chaperone binding SH3 domain binding protein domain specific binding DNA secondary structure binding minor groove of adenine-thymine-rich DNA binding ion binding anion binding phosphatidylinositol bisphosphate binding small molecule binding protein phosphatase binding phosphatase binding enzyme binding protein phosphatase 2A binding kinase binding protein kinase binding single-stranded DNA binding phosphatidylinositol binding protein-macromolecule adaptor activity molecular adaptor activity dynactin binding identical protein binding Hsp90 protein binding heat shock protein binding apolipoprotein binding enzyme regulator activity molecular function inhibitor activity molecular function regulator activity enzyme inhibitor activity RNA binding lipoprotein particle binding protein-containing complex binding protein-lipid complex binding double-stranded DNA binding actin binding histone-dependent DNA binding	establishment of organelle localization cellular localization organelle transport along microtubule transport intracellular transport plus-end-directed organelle transport along microtubule establishment of localization localization organelle localization establishment of localization in cell microtubule-based transport transport along microtubule cytoskeleton-dependent intracellular transport cellular process establishment of organelle localization cellular localization organelle transport along microtubule transport intracellular transport plus-end-directed organelle transport along microtubule establishment of localization localization organelle localization establishment of localization in cell microtubule-based transport transport along microtubule cytoskeleton-dependent intracellular transport cellular process microtubule-based movement microtubule-based process regulation of biological process regulation of cellular process reactive oxygen species metabolic process biological regulation positive regulation of biological process regulation of superoxide metabolic process positive regulation of reactive oxygen species metabolic process superoxide metabolic process positive regulation of metabolic process superoxide anion generation metabolic process positive regulation of superoxide anion generation regulation of superoxide anion generation regulation of metabolic process regulation of reactive oxygen species metabolic process positive regulation of cellular process cellular component biogenesis cellular component organization cellular component assembly inclusion body assembly cellular component organization or biogenesis neurofibrillary tangle assembly cellular response to endogenous stimulus cellular response to growth factor stimulus response to stimulus response to endogenous stimulus cellular response to nerve growth factor stimulus cellular response to brain-derived neurotrophic factor stimulus response to nerve growth factor response to growth factor cellular response to stimulus cellular response to heat cellular response to stress response to stress response to heat response to abiotic stimulus response to temperature stimulus developmental process regulation of cellular component organization regulation of developmental process organelle fission mitochondrial fission regulation of organelle organization anatomical structure morphogenesis organelle organization regulation of mitochondrial fission regulation of mitochondrion organization anatomical structure development regulation of anatomical structure morphogenesis mitochondrion organization axon extension multicellular organismal process positive regulation of nervous system development regulation of growth axonogenesis regulation of cellular component size developmental growth cell projection organization regulation of cell differentiation regulation of neurogenesis neuron projection development regulation of cell development positive regulation of developmental process multicellular organism development cell projection morphogenesis neuron differentiation neuron projection morphogenesis cell differentiation positive regulation of cell projection organization regulation of biological quality positive regulation of developmental growth system development regulation of cell projection organization positive regulation of cell development nervous system development developmental growth involved in morphogenesis generation of neurons positive regulation of multicellular organismal process regulation of neuron projection development positive regulation of cellular component organization cellular developmental process plasma membrane bounded cell projection morphogenesis cell development cell growth cell morphogenesis regulation of axon extension regulation of nervous system development neurogenesis regulation of extent of cell growth positive regulation of cell differentiation regulation of axonogenesis positive regulation of neurogenesis regulation of multicellular organismal process positive regulation of axon extension positive regulation of axonogenesis regulation of cell size neuron projection extension regulation of multicellular organismal development regulation of developmental growth plasma membrane bounded cell projection organization developmental cell growth growth positive regulation of cell growth axon development regulation of cell growth cell morphogenesis involved in neuron differentiation positive regulation of growth neuron development regulation of plasma membrane bounded cell projection organization regulation of anatomical structure size behavior system process learning or memory nervous system process cognition memory regulation of microtubule-based process regulation of microtubule-based movement astrocyte differentiation astrocyte activation glial cell development astrocyte development gliogenesis defense response cell activation central nervous system development glial cell differentiation glial cell activation inflammatory response neuroinflammatory response myeloid leukocyte activation leukocyte activation macrophage activation immune system process leukocyte activation involved in inflammatory response microglial cell activation establishment of mitochondrion localization axonal transport mitochondrion localization establishment of mitochondrion localization, microtubule-mediated axo-dendritic transport mitochondrion transport along microtubule axonal transport of mitochondrion protein polymerization protein-containing complex organization protein-containing complex assembly primary metabolic process protein metabolic process macromolecule metabolic process supramolecular fiber organization amyloid fibril formation cell junction organization synapse organization microtubule cytoskeleton organization cytoplasmic microtubule organization cytoskeleton organization response to metal ion response to chemical response to lead ion regulation of signaling signaling regulation of signal transduction intracellular signal transduction cell communication regulation of intracellular signal transduction regulation of response to stimulus calcium-mediated signaling intracellular signaling cassette regulation of calcium-mediated signaling regulation of cell communication signal transduction modulation of chemical synaptic transmission negative regulation of signaling negative regulation of biological process negative regulation of synaptic transmission negative regulation of cell communication synaptic signaling negative regulation of cellular process regulation of synaptic plasticity trans-synaptic signaling cell-cell signaling chemical synaptic transmission regulation of trans-synaptic signaling anterograde trans-synaptic signaling long-term synaptic depression regulation of long-term synaptic depression regulation of biosynthetic process negative regulation of metabolic process regulation of macromolecule metabolic process gene expression macromolecule biosynthetic process regulation of gene expression negative regulation of gene expression biosynthetic process negative regulation of biosynthetic process negative regulation of macromolecule biosynthetic process regulation of macromolecule biosynthetic process negative regulation of macromolecule metabolic process protein complex oligomerization protein homooligomerization nucleobase-containing compound metabolic process RNA metabolic process rRNA metabolic process nucleic acid metabolic process DNA damage response negative regulation of cellular component organization negative regulation of developmental process negative regulation of organelle organization negative regulation of mitochondrial fission central nervous system neuron development central nervous system neuron differentiation negative regulation of membrane potential regulation of mitochondrial membrane potential negative regulation of mitochondrial membrane potential regulation of membrane potential microtubule polymerization microtubule polymerization or depolymerization positive regulation of organelle organization regulation of cytoskeleton organization regulation of microtubule polymerization or depolymerization regulation of protein-containing complex assembly positive regulation of protein-containing complex assembly positive regulation of protein polymerization positive regulation of microtubule polymerization or depolymerization positive regulation of cellular component biogenesis positive regulation of cytoskeleton organization positive regulation of supramolecular fiber organization regulation of cellular component biogenesis positive regulation of microtubule polymerization regulation of protein polymerization regulation of microtubule polymerization regulation of supramolecular fiber organization regulation of microtubule cytoskeleton organization stress granule assembly organelle assembly membraneless organelle assembly regulation of localization regulation of protein localization negative regulation of protein localization to mitochondrion regulation of protein localization to mitochondrion macromolecule localization protein localization to organelle protein localization to mitochondrion intracellular protein localization negative regulation of protein localization cell junction assembly synapse assembly regulation of cellular response to heat regulation of cellular response to stress regulation of response to stress mitochondrion distribution intracellular distribution of mitochondria protein localization to synapse positive regulation of protein localization to synapse regulation of protein localization to synapse positive regulation of protein localization protein localization to cell junction chromosome organization regulation of chromosome organization cellular response to oxidative stress response to oxygen-containing compound cellular response to chemical stress cellular response to oxygen-containing compound response to reactive oxygen species cellular response to reactive oxygen species response to oxidative stress cellular response to chemical stimulus catabolic process autophagy regulation of catabolic process regulation of autophagy process utilizing autophagic mechanism	intracellular organelle protein-containing complex cellular anatomical structure intracellular anatomical structure cytoskeleton organelle tubulin complex membraneless organelle intracellular membraneless organelle cytoplasm cytosol neuron spine synapse neuron projection intracellular organelle protein-containing complex cellular anatomical structure intracellular anatomical structure cytoskeleton organelle tubulin complex membraneless organelle intracellular membraneless organelle cytoplasm cytosol neuron spine synapse neuron projection dendritic spine plasma membrane bounded cell projection somatodendritic compartment cell projection postsynapse cell junction dendrite dendritic tree cell body neuron projection cytoplasm axon axon cytoplasm cell periphery plasma membrane membrane membrane-bounded organelle nucleus membrane-enclosed lumen intracellular membrane-bounded organelle intracellular organelle lumen organelle lumen nuclear periphery nuclear lumen membrane microdomain membrane raft main axon cytoplasmic ribonucleoprotein granule supramolecular complex ribonucleoprotein granule extracellular region neurofibrillary tangle inclusion body cell leading edge axolemma leading edge membrane neuron projection membrane plasma membrane region cell projection membrane neuronal cell body polymeric cytoskeletal fiber supramolecular fiber microtubule supramolecular polymer microtubule cytoskeleton mitochondrion glial cell projection growth cone distal axon site of polarized growth
B [auth L], D, F	RB86 antibody Fab fragment light chain	-	-	-
A [auth H], C, E	RB86 antibody Fab fragment heavy chain	-	-	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
G [auth Z], H [auth P], I [auth X]	IPR027324	Microtubule associated protein MAP2/MAP4/Tau	Family
G [auth Z], H [auth P], I [auth X]	IPR001084	Microtubule associated protein, tubulin-binding repeat	Repeat
G [auth Z], H [auth P], I [auth X]	IPR002955	Microtubule-associated protein Tau	Family

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
G [auth Z], H [auth P], I [auth X]	Pharos: P10636	Pick disease Alzheimer disease progressive supranuclear palsy frontotemporal dementia Parkinson disease dementia tauopathy neurodegenerative disease progressive supranuclear palsy-parkinsonism syndrome Memory Disorders semantic dementia idiopathic pulmonary fibrosis late-onset Parkinson disease atrial fibrillation respiratory failure Pick disease Alzheimer disease progressive supranuclear palsy frontotemporal dementia Parkinson disease dementia tauopathy neurodegenerative disease progressive supranuclear palsy-parkinsonism syndrome Memory Disorders semantic dementia idiopathic pulmonary fibrosis late-onset Parkinson disease atrial fibrillation respiratory failure supranuclear palsy, progressive, 1 behavioral variant of frontotemporal dementia bipolar disorder subependymal giant cell astrocytoma chronic obstructive pulmonary disease oligodendroglioma osteosarcoma parkinsonian disorder amyotrophic lateral sclerosis malignant ependymoma breast cancer toxic encephalopathy osteoarthritis ovarian cancer glioblastoma intellectual disability pilocytic astrocytoma androgenetic alopecia attention deficit hyperactivity disorder, inattentive type malignant glioma cardiomyopathy cutaneous lupus erythematosus osteoarthritis, hip endogenous depression hepatocellular carcinoma large cell medulloblastoma amyloidosis aphasia learning disability progressive non-fluent aphasia atypical teratoid rhabdoid tumor lung carcinoma psoriasis autosomal recessive juvenile Parkinson disease 2 medulloblastoma

Protein Modification Annotation

Modified Residue(s)
Chain	Residue(s)	Description
G [auth Z], H [auth P], I [auth X]	SEP	Parent Component: SER RESID: AA0037 PSI-MOD : O-phospho-L-serine MOD:00046

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.