9E0Z | pdb_00009e0z

Dimeric motor domains from phi-like dynein-1 bound to a Lis1 dimer under Nde1-Lis1 condition


Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

ChainsTypeFamily Name Domain Identifier Family IdentifierProvenance Source (Version)
DSCOP2B SuperfamilyWD40 repeat-like 8103390 3001694 SCOP2B (2022-06-29)
CSCOP2B SuperfamilyWD40 repeat-like 8103390 3001694 SCOP2B (2022-06-29)

Protein Family Annotation Pfam Database Homepage

ChainsAccessionNameDescriptionCommentsSource
C, D
PF00400WD domain, G-beta repeat (WD40)WD domain, G-beta repeat- Repeat
A, B
PF22597Dynein heavy chain, ATPase lid domain (DYN_lid)Dynein heavy chain, ATPase lid domainDyneins are microtubule-based AAA(+) motor complexes that power ciliary beating, cell division, cell migration and intracellular transport and comprise cytoplasmic and axonemal isoforms. They consist of a motor domain that contains a ring-shaped head ...Dyneins are microtubule-based AAA(+) motor complexes that power ciliary beating, cell division, cell migration and intracellular transport and comprise cytoplasmic and axonemal isoforms. They consist of a motor domain that contains a ring-shaped head with six AAA-domains, a coiled-coil stalk with a microtubule binding domain (MTBD) and a linker [1-5] This entry represents the lid domain found at the C-terminal of the third AAA+ ATPase domain in dyneins [1-5].
Domain
A, B
PF12775P-loop containing dynein motor region (AAA_7)P-loop containing dynein motor regionThis domain is found in human cytoplasmic dynein-2 proteins. Cytoplasmic dynein-2 (dynein-2) performs intraflagellar transport and is associated with human skeletal ciliophathies. Dyneins share a conserved motor domain that couples cycles of ATP hydr ...This domain is found in human cytoplasmic dynein-2 proteins. Cytoplasmic dynein-2 (dynein-2) performs intraflagellar transport and is associated with human skeletal ciliophathies. Dyneins share a conserved motor domain that couples cycles of ATP hydrolysis with conformational changes to produce movement. Structural analysis reveal that the motor's ring consists of six AAA+ domains (ATPases associated with various cellular activities (AAA1-AAA6). This is the third nucleotide binding sites in the dynein motor. However, AAA3 has lost the catalytic residues necessary for ATP hydrolysis (the Walker B glutamate, the arginine finger, sensor-I and sensor-II motifs) [1].
Domain
A, B
PF18198Dynein heavy chain AAA lid domain (AAA_lid_11)Dynein heavy chain AAA lid domainThis family represents the AAA lid domain found neat the C-terminal region of dynein heavy chain. Domain
A, B
PF12774Hydrolytic ATP binding site of dynein motor region (AAA_6)Hydrolytic ATP binding site of dynein motor regionThis domain is found in human cytoplasmic dynein-2 proteins. Cytoplasmic dynein-2 (dynein-2) performs intraflagellar transport and is associated with human skeletal ciliopathies. Dyneins share a conserved motor domain that couples cycles of ATP hydro ...This domain is found in human cytoplasmic dynein-2 proteins. Cytoplasmic dynein-2 (dynein-2) performs intraflagellar transport and is associated with human skeletal ciliopathies. Dyneins share a conserved motor domain that couples cycles of ATP hydrolysis with conformational changes to produce movement. Structural analysis reveal that the motor's ring consists of six AAA+ domains (ATPases associated with various cellular activities: AAA1-AAA6) [1]. This is the first site (out of four nucleotide binding sites in the dynein motor) where the movement depends on ATP hydrolysis [2]. When this site is nucleotide free or bound to ADP, the microtubule binding domain (MTBD) binds to the microtubule and the linker adopts the straight post-power-stroke conformation. Upon ATP binding and hydrolysis, the MTBD detaches from the microtubule and the linker is primed into the pre-power-stroke conformation. Dynein's AAA+ domains are each divided into an alpha/beta large subdomain designated with an L and and alpha small subdomains designated with an S. This is the AAA1 large (AAA1L) subdomain with the accompanying small subdomain (AAA1S). AAA1L, AAA1S and AAA2L enclose ADP.vanadate (ADP.Vi, ATP-hydrolysis transition state analogue). The AAA1L sensor-I loop, which varies in position depending on dynein's nucleotide state, swings in to contact AAA2L forming the important AAA1 nucleotide-binding site [1].
Domain
A, B
PF18199Dynein heavy chain C-terminal domain (Dynein_C)Dynein heavy chain C-terminal domainThis family represents the C-terminal domain of dynein heavy chain. This domain is a complex structure comprising six alpha-helices and an incomplete six-stranded antiparallel beta-barrel. The shape of this domain is distinctively flat, spreading ove ...This family represents the C-terminal domain of dynein heavy chain. This domain is a complex structure comprising six alpha-helices and an incomplete six-stranded antiparallel beta-barrel. The shape of this domain is distinctively flat, spreading over the AAA1, AAA5 and AAA6 domain [3].
Domain
A, B
PF12781ATP-binding dynein motor region (AAA_9)ATP-binding dynein motor regionThis domain is found in human cytoplasmic dynein-2 proteins. Cytoplasmic dynein-2 (dynein-2) performs intraflagellar transport and is associated with human skeletal ciliopathies. Dyneins share a conserved motor domain that couples cycles of ATP hydro ...This domain is found in human cytoplasmic dynein-2 proteins. Cytoplasmic dynein-2 (dynein-2) performs intraflagellar transport and is associated with human skeletal ciliopathies. Dyneins share a conserved motor domain that couples cycles of ATP hydrolysis with conformational changes to produce movement. Structural analysis reveal that the motor's ring consists of six AAA+ domains (ATPases associated with various cellular activities (AAA1-AAA6). This is the fifth AAA+ domain subdomain AAA5S. Structural analysis reveal that it is the coiled-coil buttress interface. The relative movement of AAA5S together with the stalk (AAA4S), is coupled to rearrangements in the AAA+ ring. Closure of the AAA1 site and the rigid body movement of AAA2-AAA4 force the AAA4/AAA5 interface to close and the AAA6L subdomain to rotate towards the ring centre. The AAA5S subdomain rotates as a unit together with AAA6L, and this movement pulls the buttress relative to the stalk [1].
Domain
A, B
PF12780P-loop containing dynein motor region D4 (AAA_8)P-loop containing dynein motor region D4The 380 kDa motor unit of dynein belongs to the AAA class of chaperone-like ATPases. The core of the 380 kDa motor unit contains a concatenated chain of six AAA modules, of which four correspond to the ATP binding sites with P-loop signatures describ ...The 380 kDa motor unit of dynein belongs to the AAA class of chaperone-like ATPases. The core of the 380 kDa motor unit contains a concatenated chain of six AAA modules, of which four correspond to the ATP binding sites with P-loop signatures described previously, and two are modules in which the P loop has been lost in evolution. This particular family is the D4 ATP-binding region of the motor [1].
Domain
A, B
PF17852Dynein heavy chain AAA lid domain (Dynein_AAA_lid)Dynein heavy chain AAA lid domainThis entry corresponds to the extension domain of AAA domain 5 in the dynein heavy chain [1]. This domain is composed of 8 alpha helices [1]. Domain
A, B
PF03028Dynein heavy chain region D6 P-loop domain (Dynein_heavy)Dynein heavy chain region D6 P-loop domainThis family represents the C-terminal region of dynein heavy chain. The chain also contains ATPase activity and microtubule binding ability and acts as a motor for the movement of organelles and vesicles along microtubules. Dynein is also involved i ...This family represents the C-terminal region of dynein heavy chain. The chain also contains ATPase activity and microtubule binding ability and acts as a motor for the movement of organelles and vesicles along microtubules. Dynein is also involved in cilia and flagella movement. The dynein subunit consists of at least two heavy chains and a number of intermediate and light chains [1]. The 380 kDa motor unit of dynein belongs to the AAA class of chaperone-like ATPases. The core of the 380 kDa motor unit contains a concatenated chain of six AAA modules, of which four correspond to the ATP binding sites with P-loop signatures described previously, and two are modules in which the P loop has been lost in evolution. This C-terminal domain carries the D6 region of the dynein motor where the P-loop has been lost in evolution but the general structure of a potential ATP binding site appears to be retained [2].
Domain
A, B
PF12777Microtubule-binding stalk of dynein motor (MT)Microtubule-binding stalk of dynein motorthe 380 kDa motor unit of dynein belongs to the AAA class of chaperone-like ATPases. The core of the 380 kDa motor unit contains a concatenated chain of six AAA modules, of which four correspond to the ATP binding sites with P-loop signatures describ ...the 380 kDa motor unit of dynein belongs to the AAA class of chaperone-like ATPases. The core of the 380 kDa motor unit contains a concatenated chain of six AAA modules, of which four correspond to the ATP binding sites with P-loop signatures described previously, and two are modules in which the P loop has been lost in evolution. This family is the region between D4 and D5 and is the two predicted alpha-helical coiled coil segments that form the stalk supporting the ATP-sensitive microtubule binding component [1].
Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

ChainsPolymerMolecular FunctionBiological ProcessCellular Component
C, D
Platelet-activating factor acetylhydrolase IB subunit beta
A, B
Cytoplasmic dynein 1 heavy chain 1

InterPro: Protein Family Classification InterPro Database Homepage

ChainsAccessionNameType
C, D
IPR019775WD40 repeat, conserved siteConserved Site
C, D
IPR020472PAC1/LIS1-like, WD-40 repeatRepeat
C, D
IPR006594LIS1 homology motifConserved Site
C, D
IPR036322WD40-repeat-containing domain superfamilyHomologous Superfamily
C, D
IPR037190LIS1, N-terminalHomologous Superfamily
C, D
IPR050349WD repeat LIS1/nudF dynein regulationFamily
C, D
IPR015943WD40/YVTN repeat-like-containing domain superfamilyHomologous Superfamily
C, D
IPR056795PAC1-like, LisH-like dimerisation domainDomain
C, D
IPR001680WD40 repeatRepeat
C, D
IPR017252Dynein regulator LIS1Family
A, B
IPR026983Dynein heavy chainFamily
A, B
IPR013602Dynein heavy chain, linkerDomain
A, B
IPR041658Dynein heavy chain AAA lid domainDomain
A, B
IPR027417P-loop containing nucleoside triphosphate hydrolaseHomologous Superfamily
A, B
IPR042222Dynein heavy chain, domain 2, N-terminalHomologous Superfamily
A, B
IPR043160Dynein heavy chain, C-terminal domain, barrel regionHomologous Superfamily
A, B
IPR035706Dynein heavy chain, ATP-binding dynein motor regionDomain
A, B
IPR041228Dynein heavy chain, C-terminal domainDomain
A, B
IPR054354Dynein 2 heavy chain 1, cytoplasmic, ATPase lid domainDomain
A, B
IPR003593AAA+ ATPase domainDomain
A, B
IPR041466Dynein heavy chain, AAA 5 extension domainDomain
A, B
IPR042228Dynein heavy chain, linker, subdomain 3Homologous Superfamily
A, B
IPR035699Dynein heavy chain, hydrolytic ATP-binding dynein motor regionDomain
A, B
IPR042219Dynein heavy chain AAA lid domain superfamilyHomologous Superfamily
A, B
IPR024743Dynein heavy chain, coiled coil stalkDomain
A, B
IPR013594Dynein heavy chain, tailDomain
A, B
IPR043157Dynein heavy chain, AAA1 domain, small subdomainHomologous Superfamily
A, B
IPR004273Dynein heavy chain region D6 P-loop domainDomain
A, B
IPR024317Dynein heavy chain, AAA module D4Domain

Pharos: Disease Associations Pharos Homepage Annotation

ChainsDrug Target  Associated Disease
C, D
PharosP43034
A, B
PharosQ14204