8FH3

Human IFT-A complex structures provide molecular insights into ciliary transport

External Resource: Annotation

Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification
Pharos: Disease Associations

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A	PF12894	Anaphase-promoting complex subunit 4 WD40 domain (ANAPC4_WD40)	Anaphase-promoting complex subunit 4 WD40 domain	-	Repeat
A	PF00400	WD domain, G-beta repeat (WD40)	WD domain, G-beta repeat	-	Repeat
B	PF00400	WD domain, G-beta repeat (WD40)	WD domain, G-beta repeat	-	Repeat
C	PF15911	WD domain, G-beta repeat (WD40_3)	WD domain, G-beta repeat	-	Repeat
E [auth I]	PF16322	Tubby N-terminal (Tub_N)	Tubby N-terminal	-	Family

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A	WD repeat-containing protein 35	-	organelle assembly plasma membrane bounded cell projection organization cell projection organization plasma membrane bounded cell projection assembly cellular component biogenesis cellular component organization organelle organization cellular component assembly cilium assembly cellular process cellular component organization or biogenesis non-motile cilium assembly cilium organization cell projection assembly organelle assembly plasma membrane bounded cell projection organization cell projection organization plasma membrane bounded cell projection assembly cellular component biogenesis cellular component organization organelle organization cellular component assembly cilium assembly cellular process cellular component organization or biogenesis non-motile cilium assembly cilium organization cell projection assembly protein localization localization cellular localization protein localization to cilium protein localization to organelle cellular macromolecule localization macromolecule localization transport intracellular transport establishment of localization protein-containing complex localization establishment of localization in cell microtubule-based transport transport along microtubule cytoskeleton-dependent intracellular transport microtubule-based movement microtubule-based process intraciliary transport intraciliary retrograde transport response to peptide response to stimulus response to chemical response to cytokine response to leukemia inhibitory factor cellular response to cytokine stimulus cellular response to leukemia inhibitory factor	membrane-bounded organelle cell projection organelle cilium cellular anatomical entity plasma membrane bounded cell projection protein-containing complex intraciliary transport particle intraciliary transport particle A intracellular anatomical structure axoneme ciliary plasm cytoplasmic region plasma membrane bounded cell projection cytoplasm membrane-bounded organelle cell projection organelle cilium cellular anatomical entity plasma membrane bounded cell projection protein-containing complex intraciliary transport particle intraciliary transport particle A intracellular anatomical structure axoneme ciliary plasm cytoplasmic region plasma membrane bounded cell projection cytoplasm intracellular organelle cytoskeleton intracellular non-membrane-bounded organelle cytoplasm non-membrane-bounded organelle centrosome microtubule organizing center microtubule cytoskeleton ciliary tip non-motile cilium ciliary basal body
B	Intraflagellar transport protein 122 homolog	-	protein localization localization cellular localization protein localization to cilium protein localization to organelle cellular macromolecule localization macromolecule localization cellular process developmental process multicellular organismal process limb development appendage development embryonic forelimb morphogenesis embryonic limb morphogenesis protein localization localization cellular localization protein localization to cilium protein localization to organelle cellular macromolecule localization macromolecule localization cellular process developmental process multicellular organismal process limb development appendage development embryonic forelimb morphogenesis embryonic limb morphogenesis embryonic morphogenesis embryonic appendage morphogenesis embryo development multicellular organism development anatomical structure morphogenesis forelimb morphogenesis appendage morphogenesis anatomical structure development limb morphogenesis heart development epithelium development embryonic heart tube left/right pattern formation tube development animal organ development pattern specification process tissue development embryonic heart tube development regionalization circulatory system development embryonic organ development left/right pattern formation system development spinal cord dorsal/ventral patterning nervous system development dorsal/ventral pattern formation spinal cord development central nervous system development spinal cord patterning cellular response to stimulus regulation of cellular process response to stimulus negative regulation of signaling signaling negative regulation of biological process regulation of signal transduction negative regulation of cell communication cell communication negative regulation of smoothened signaling pathway negative regulation of cellular process signal transduction regulation of smoothened signaling pathway regulation of signaling regulation of biological process cell surface receptor signaling pathway negative regulation of response to stimulus biological regulation negative regulation of signal transduction smoothened signaling pathway regulation of response to stimulus regulation of cell communication plasma membrane bounded cell projection organization cell projection organization transport intracellular transport intraciliary retrograde transport establishment of localization protein-containing complex localization cellular component organization organelle organization establishment of localization in cell microtubule-based transport transport along microtubule cytoskeleton-dependent intracellular transport microtubule-based movement microtubule-based process cellular component organization or biogenesis cilium organization intraciliary transport organelle assembly plasma membrane bounded cell projection assembly cellular component biogenesis cellular component assembly cilium assembly cell projection assembly non-motile cilium assembly embryonic epithelial tube formation chordate embryonic development tube formation epithelial tube formation tube morphogenesis primary neural tube formation embryo development ending in birth or egg hatching epithelial tube morphogenesis morphogenesis of embryonic epithelium neural tube development morphogenesis of an epithelium tissue morphogenesis neural tube closure neural tube formation anatomical structure formation involved in morphogenesis tube closure embryonic body morphogenesis body morphogenesis camera-type eye morphogenesis sensory organ development eye development visual system development eye morphogenesis sensory organ morphogenesis camera-type eye development animal organ morphogenesis sensory system development intraciliary anterograde transport establishment of protein localization establishment of protein localization to organelle intracellular signal transduction	membrane-bounded organelle cell projection organelle cilium cellular anatomical entity plasma membrane bounded cell projection protein-containing complex intraciliary transport particle intraciliary transport particle A membrane ciliary transition zone non-motile cilium 9+0 non-motile cilium neuron projection membrane-bounded organelle cell projection organelle cilium cellular anatomical entity plasma membrane bounded cell projection protein-containing complex intraciliary transport particle intraciliary transport particle A membrane ciliary transition zone non-motile cilium 9+0 non-motile cilium neuron projection photoreceptor cell cilium photoreceptor connecting cilium ciliary tip intracellular anatomical structure cytoplasm intracellular organelle ciliary basal body microtubule organizing center cytoskeleton intracellular non-membrane-bounded organelle microtubule cytoskeleton non-membrane-bounded organelle
C	WD repeat-containing protein 19	-	cellular component organization cellular component biogenesis cellular component assembly protein-containing complex organization protein-containing complex assembly cellular process cellular component organization or biogenesis developmental process multicellular organism development multicellular organismal process epithelium development myotome development somite development anatomical structure development cellular component organization cellular component biogenesis cellular component assembly protein-containing complex organization protein-containing complex assembly cellular process cellular component organization or biogenesis developmental process multicellular organism development multicellular organismal process epithelium development myotome development somite development anatomical structure development embryo development tissue development cellular response to stimulus regulation of cellular process response to stimulus signaling chordate embryonic development pattern specification process cell communication embryo development ending in birth or egg hatching dorsal/ventral neural tube patterning smoothened signaling pathway involved in dorsal/ventral neural tube patterning signal transduction system development regulation of biological process neural tube development cell surface receptor signaling pathway tube development biological regulation nervous system development regionalization smoothened signaling pathway dorsal/ventral pattern formation neural tube patterning embryonic organ morphogenesis embryonic cranial skeleton morphogenesis embryonic morphogenesis animal organ development anatomical structure morphogenesis skeletal system development cranial skeletal system development animal organ morphogenesis embryonic skeletal system development skeletal system morphogenesis embryonic organ development embryonic skeletal system morphogenesis digestive system development ear morphogenesis ear development sensory organ development sensory organ morphogenesis gonad development reproductive system development reproductive process sex differentiation developmental process involved in reproduction development of primary sexual characteristics reproductive structure development system process nervous system process limb development appendage development embryonic limb morphogenesis embryonic appendage morphogenesis appendage morphogenesis limb morphogenesis cellular localization plasma membrane bounded cell projection organization cell projection organization transport intracellular transport intraciliary retrograde transport establishment of localization protein-containing complex localization localization organelle organization establishment of localization in cell microtubule-based transport transport along microtubule cytoskeleton-dependent intracellular transport microtubule-based movement microtubule-based process cilium organization intraciliary transport organelle assembly plasma membrane bounded cell projection assembly cilium assembly cell projection assembly in utero embryonic development cell morphogenesis eye development visual system development embryonic camera-type eye development camera-type eye development sensory system development protein localization protein localization to cell periphery protein localization to cilium localization within membrane protein localization to membrane protein localization to ciliary membrane cellular macromolecule localization macromolecule localization protein localization to organelle receptor clustering	membrane-bounded organelle cell projection organelle cilium cellular anatomical entity plasma membrane bounded cell projection protein-containing complex intraciliary transport particle intraciliary transport particle A ciliary transition zone non-motile cilium 9+0 non-motile cilium neuron projection photoreceptor cell cilium membrane-bounded organelle cell projection organelle cilium cellular anatomical entity plasma membrane bounded cell projection protein-containing complex intraciliary transport particle intraciliary transport particle A ciliary transition zone non-motile cilium 9+0 non-motile cilium neuron projection photoreceptor cell cilium photoreceptor connecting cilium ciliary tip cell periphery plasma membrane membrane intracellular anatomical structure cytoplasm motile cilium photoreceptor outer segment intracellular organelle cytoskeleton intracellular non-membrane-bounded organelle non-membrane-bounded organelle
D [auth E]	Intraflagellar transport protein 140 homolog	-	developmental process heart development multicellular organism development multicellular organismal process anatomical structure development animal organ development circulatory system development system development protein localization localization cellular localization protein localization to cilium protein localization to organelle cellular macromolecule localization developmental process heart development multicellular organism development multicellular organismal process anatomical structure development animal organ development circulatory system development system development protein localization localization cellular localization protein localization to cilium protein localization to organelle cellular macromolecule localization macromolecule localization cellular process cellular developmental process photoreceptor cell differentiation cell development nervous system development generation of neurons cellular component organization neurogenesis neuron differentiation photoreceptor cell outer segment organization cell differentiation neuron development cellular component organization or biogenesis photoreceptor cell development epithelium development neural tube development tube development chordate embryonic development pattern specification process embryo development tissue development regionalization embryo development ending in birth or egg hatching neural tube patterning embryonic organ morphogenesis embryonic cranial skeleton morphogenesis embryonic morphogenesis anatomical structure morphogenesis skeletal system development cranial skeletal system development animal organ morphogenesis embryonic skeletal system development skeletal system morphogenesis embryonic organ development embryonic skeletal system morphogenesis cellular response to stimulus regulation of biological process regulation of signaling regulation of cellular process cell surface receptor signaling pathway response to stimulus signaling biological regulation regulation of signal transduction smoothened signaling pathway cell communication regulation of response to stimulus regulation of cell communication signal transduction regulation of smoothened signaling pathway plasma membrane bounded cell projection organization cell projection organization transport intracellular transport intraciliary retrograde transport establishment of localization protein-containing complex localization organelle organization establishment of localization in cell microtubule-based transport transport along microtubule cytoskeleton-dependent intracellular transport microtubule-based movement microtubule-based process cilium organization intraciliary transport organelle assembly plasma membrane bounded cell projection assembly cellular component biogenesis cellular component assembly cilium assembly cell projection assembly embryonic brain development non-motile cilium assembly determination of bilateral symmetry determination of left/right symmetry left/right pattern formation specification of symmetry regulation of cellular component organization regulation of cell projection organization regulation of cell projection assembly regulation of cellular component biogenesis regulation of organelle organization regulation of plasma membrane bounded cell projection assembly regulation of cilium assembly regulation of organelle assembly regulation of plasma membrane bounded cell projection organization sensory organ development eye development visual system development embryonic camera-type eye development camera-type eye development sensory system development limb development appendage development embryonic limb morphogenesis embryonic appendage morphogenesis appendage morphogenesis embryonic digit morphogenesis limb morphogenesis	membrane-bounded organelle cell projection organelle cilium cellular anatomical entity plasma membrane bounded cell projection protein-containing complex intraciliary transport particle intraciliary transport particle A intracellular anatomical structure axoneme ciliary plasm cytoplasmic region plasma membrane bounded cell projection cytoplasm membrane-bounded organelle cell projection organelle cilium cellular anatomical entity plasma membrane bounded cell projection protein-containing complex intraciliary transport particle intraciliary transport particle A intracellular anatomical structure axoneme ciliary plasm cytoplasmic region plasma membrane bounded cell projection cytoplasm intracellular organelle cytoskeleton intracellular non-membrane-bounded organelle cytoplasm non-membrane-bounded organelle ciliary transition zone non-motile cilium 9+0 non-motile cilium neuron projection photoreceptor cell cilium photoreceptor connecting cilium centrosome microtubule organizing center microtubule cytoskeleton centriole ciliary tip photoreceptor outer segment cone photoreceptor outer segment ciliary basal body
E [auth I]	Tubby-related protein 3	binding phospholipid binding lipid binding phosphatidylinositol binding ion binding phosphatidylinositol-4,5-bisphosphate binding anion binding phosphatidylinositol bisphosphate binding phosphatidylinositol phosphate binding small molecule binding protein-containing complex binding intraciliary transport particle A binding protein binding signaling receptor binding binding phospholipid binding lipid binding phosphatidylinositol binding ion binding phosphatidylinositol-4,5-bisphosphate binding anion binding phosphatidylinositol bisphosphate binding phosphatidylinositol phosphate binding small molecule binding protein-containing complex binding intraciliary transport particle A binding protein binding signaling receptor binding G protein-coupled receptor binding enzyme binding	developmental process multicellular organism development multicellular organismal process head development central nervous system development anatomical structure development animal organ development brain development nervous system development system development protein localization localization cellular localization protein localization to cilium developmental process multicellular organism development multicellular organismal process head development central nervous system development anatomical structure development animal organ development brain development nervous system development system development protein localization localization cellular localization protein localization to cilium protein localization to organelle cellular macromolecule localization macromolecule localization cellular process cellular response to stimulus regulation of cellular process response to stimulus signaling chordate embryonic development pattern specification process embryo development cell communication embryo development ending in birth or egg hatching dorsal/ventral neural tube patterning smoothened signaling pathway involved in dorsal/ventral neural tube patterning signal transduction epithelium development regulation of biological process neural tube development cell surface receptor signaling pathway tube development biological regulation tissue development regionalization smoothened signaling pathway dorsal/ventral pattern formation neural tube patterning skeletal system development bone development cellular developmental process generation of neurons central nervous system neuron differentiation neurogenesis neuron differentiation cell differentiation bronchus development respiratory tube development anatomical structure morphogenesis tube morphogenesis respiratory system development animal organ morphogenesis bronchus morphogenesis negative regulation of signaling negative regulation of biological process regulation of signal transduction negative regulation of cell communication negative regulation of smoothened signaling pathway negative regulation of cellular process regulation of smoothened signaling pathway regulation of signaling negative regulation of response to stimulus negative regulation of signal transduction regulation of response to stimulus regulation of cell communication embryonic epithelial tube formation tube formation epithelial tube formation primary neural tube formation epithelial tube morphogenesis morphogenesis of embryonic epithelium embryonic morphogenesis morphogenesis of an epithelium tissue morphogenesis neural tube closure neural tube formation anatomical structure formation involved in morphogenesis tube closure cellular biosynthetic process RNA metabolic process regulation of primary metabolic process nucleobase-containing compound metabolic process RNA biosynthetic process nucleic acid biosynthetic process DNA-templated transcription regulation of RNA metabolic process regulation of nucleobase-containing compound metabolic process regulation of RNA biosynthetic process regulation of biosynthetic process cellular metabolic process primary metabolic process regulation of cellular metabolic process regulation of macromolecule metabolic process nucleobase-containing compound biosynthetic process gene expression macromolecule biosynthetic process nucleic acid metabolic process regulation of cellular biosynthetic process regulation of gene expression biosynthetic process metabolic process regulation of macromolecule biosynthetic process regulation of DNA-templated transcription macromolecule metabolic process regulation of metabolic process G protein-coupled receptor signaling pathway regulation of G protein-coupled receptor signaling pathway embryonic organ morphogenesis embryonic cranial skeleton morphogenesis embryonic neurocranium morphogenesis cranial skeletal system development embryonic skeletal system development skeletal system morphogenesis embryonic organ development embryonic skeletal system morphogenesis sensory organ development eye development visual system development embryonic camera-type eye development camera-type eye development sensory system development anterior/posterior pattern specification limb development appendage development embryonic limb morphogenesis embryonic appendage morphogenesis appendage morphogenesis embryonic digit morphogenesis limb morphogenesis ganglion development	membrane-bounded organelle cell projection organelle cilium cellular anatomical entity plasma membrane bounded cell projection intracellular anatomical structure nucleus membrane-enclosed lumen intracellular membrane-bounded organelle nucleolus intracellular organelle lumen intracellular organelle organelle lumen membrane-bounded organelle cell projection organelle cilium cellular anatomical entity plasma membrane bounded cell projection intracellular anatomical structure nucleus membrane-enclosed lumen intracellular membrane-bounded organelle nucleolus intracellular organelle lumen intracellular organelle organelle lumen intracellular non-membrane-bounded organelle nuclear lumen non-membrane-bounded organelle axoneme ciliary plasm cytoplasmic region plasma membrane bounded cell projection cytoplasm cytoskeleton cytoplasm cell periphery plasma membrane membrane nucleoplasm extracellular region ciliary base non-motile cilium 9+0 non-motile cilium

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A	IPR017233	WD repeat protein 35	Family
A	IPR039857	Intraflagellar transport protein 122/121 homolog	Family
A	IPR024977	Anaphase-promoting complex subunit 4-like, WD40 domain	Domain
A	IPR036322	WD40-repeat-containing domain superfamily	Homologous Superfamily
A	IPR001680	WD40 repeat	Repeat
A	IPR015943	WD40/YVTN repeat-like-containing domain superfamily	Homologous Superfamily
B	IPR015943	WD40/YVTN repeat-like-containing domain superfamily	Homologous Superfamily
B	IPR039857	Intraflagellar transport protein 122/121 homolog	Family
B	IPR036322	WD40-repeat-containing domain superfamily	Homologous Superfamily
B	IPR001680	WD40 repeat	Repeat
C	IPR011990	Tetratricopeptide-like helical domain superfamily	Homologous Superfamily
C	IPR015943	WD40/YVTN repeat-like-containing domain superfamily	Homologous Superfamily
C	IPR039468	WDR19, WD40 repeat	Repeat
C	IPR001680	WD40 repeat	Repeat
C	IPR040379	WD repeat-containing protein 19/dyf-2	Family
D [auth E]	IPR015943	WD40/YVTN repeat-like-containing domain superfamily	Homologous Superfamily
D [auth E]	IPR036322	WD40-repeat-containing domain superfamily	Homologous Superfamily
D [auth E]	IPR001680	WD40 repeat	Repeat
E [auth I]	IPR025659	Tubby-like, C-terminal	Homologous Superfamily
E [auth I]	IPR000007	Tubby, C-terminal	Domain
E [auth I]	IPR018066	Tubby, C-terminal, conserved site	Conserved Site
E [auth I]	IPR005398	Tubby, N-terminal	Domain

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
A	Pharos: Q9P2L0	cranioectodermal dysplasia craniosynostosis short-rib thoracic dysplasia 7 with or without polydactyly cranioectodermal dysplasia 2 short rib-polydactyly syndrome Jeune syndrome short rib-polydactyly syndrome, Verma-Naumoff type polydactyly Scaphycephaly trigonocephaly intellectual disability lung carcinoma malignant glioma osteogenesis imperfecta primitive neuroectodermal tumor cranioectodermal dysplasia craniosynostosis short-rib thoracic dysplasia 7 with or without polydactyly cranioectodermal dysplasia 2 short rib-polydactyly syndrome Jeune syndrome short rib-polydactyly syndrome, Verma-Naumoff type polydactyly Scaphycephaly trigonocephaly intellectual disability lung carcinoma malignant glioma osteogenesis imperfecta primitive neuroectodermal tumor asphyxiating thoracic dystrophy 3 medulloblastoma ovarian cancer atypical teratoid rhabdoid tumor glioblastoma large cell medulloblastoma malignant ependymoma
B	Pharos: Q9HBG6	cranioectodermal dysplasia craniosynostosis primary ciliary dyskinesia hydrocephalus kidney disease obstructive hydrocephalus Eye Abnormalities communicating hydrocephalus cranioectodermal dysplasia 1 ovarian cancer congenital hydrocephalus malignant ependymoma osteogenesis imperfecta acromesomelic dysplasia trigonocephaly cranioectodermal dysplasia craniosynostosis primary ciliary dyskinesia hydrocephalus kidney disease obstructive hydrocephalus Eye Abnormalities communicating hydrocephalus cranioectodermal dysplasia 1 ovarian cancer congenital hydrocephalus malignant ependymoma osteogenesis imperfecta acromesomelic dysplasia trigonocephaly Beemer-Langer syndrome intellectual disability osteosarcoma acromesomelic dysplasia, Hunter-Thompson type
C	Pharos: Q8NEZ3	cranioectodermal dysplasia Jeune syndrome Senior-Loken syndrome asphyxiating thoracic dystrophy 5 cranioectodermal dysplasia 4 nephronophthisis Senior-Loken syndrome 8 nephronophthisis 13 retinitis pigmentosa Leber congenital amaurosis psoriasis sinusitis ciliopathy ovarian cancer polydactyly cranioectodermal dysplasia Jeune syndrome Senior-Loken syndrome asphyxiating thoracic dystrophy 5 cranioectodermal dysplasia 4 nephronophthisis Senior-Loken syndrome 8 nephronophthisis 13 retinitis pigmentosa Leber congenital amaurosis psoriasis sinusitis ciliopathy ovarian cancer polydactyly Renal dysplasia and retinal aplasia (disorder) astrocytic tumor cone-rod dystrophy nephronophthisis 1 Pick disease progressive supranuclear palsy retinal degeneration intellectual disability malignant ependymoma pituitary cancer
D [auth E]	Pharos: Q96RY7	Jeune syndrome retinitis pigmentosa short-rib thoracic dysplasia 9 with or without polydactyly Leber congenital amaurosis short rib-polydactyly syndrome retinitis pigmentosa 80 atrial fibrillation cone-rod dystrophy intellectual disability large cell medulloblastoma Majewski Syndrome osteogenesis imperfecta polydactyly skin disease cranioectodermal dysplasia Jeune syndrome retinitis pigmentosa short-rib thoracic dysplasia 9 with or without polydactyly Leber congenital amaurosis short rib-polydactyly syndrome retinitis pigmentosa 80 atrial fibrillation cone-rod dystrophy intellectual disability large cell medulloblastoma Majewski Syndrome osteogenesis imperfecta polydactyly skin disease cranioectodermal dysplasia interstitial cystitis malignant ependymoma osteosarcoma ciliopathy epilepsy orofaciodigital syndrome III ovarian cancer
E [auth I]	Pharos: O75386	gastrointestinal stromal tumor pancreatic ductal adenocarcinoma medulloblastoma psoriasis osteosarcoma

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 R01GM133198.

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8FH3

Human IFT-A complex structures provide molecular insights into ciliary transport

External Resource: Annotation

Protein Family Annotation Pfam Database Homepage

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

InterPro: Protein Family Classification InterPro Database Homepage

Pharos: Disease Associations Pharos Homepage Annotation