Gene

KWMTBOMO01718

Pre Gene Modal

BGIBMGA006128

Annotation

PREDICTED:_TBC1_domain_family_member_24_isoform_X4_[Bombyx_mori]

Location

Bomo_Chr4(+):2276785-2361281      View in EpiBrowser

Full name

GTPase-activating protein skywalker      

Location in the cell

Nuclear   Reliability : 2.896

CDS

ATGTTCATAACACAAACGAAGCTACTGAACGAGGTAACCTGGAAGACTGTCATGCAGATCGCCAAGAAACATGCCAAGTCGGCGGCGCAACACCTGTCGCGGCTCTCCGGCGCCATTGGCCCCGAGAGGATCTACGCGGACTGGCAATGGTGGATCCTGGCCGCCCTTCCGTTCCCTCACCTTGTACGAGTATTGGATTGCTTCTTTCACGAGGGCATCAAGGTATTCTACAGGGTAGCCCTGGCGATCCTTATCTTGTTCCACAAGCACACAACGAACCAGAACTCTGAGTGGTACGCCGAAGCCACCAAGAACGGTGTGGACCACGCCATCGACAAATTCTGCAGGAACATGCCCGTTTCGCCCACCAAGCTGCTAAGGACAGCGTTTACCATACGCGCCTTGAGTTCGCAATACATATCGCGGGTGTTCATAAAAACGGAGATGACACTGAAGTCGAAGCAAGTGATCACCGGCTCGAGGCTGGTCAGGTCTCGGTCCTCGGACAACTTGCCAACGAGCCAGTCGCAGGTCAACATACAGATGATGTCACACACGCTGACCATACGAGAGAGCCCGCGCTCCTCCCACATGGCGATGTGGTTTCCATTCCCTAACGCGGTGTTCCAGGATCGACACCAGGCATCAGACCTCAGGCAGAAGTTGTTCACATTATGGTCGTGGTTGCCGGTTCGCATAACGATGTACCAACCAGTGTTGCTATACACGACCGAGGAGCACGGATGCTCATTGACGACATTCTACGTGCGAGTGGAACACCATGAGCCGACCTTACTCATGATCAAGACCTGTAACAACGAGGTATTCGGAGCGTATTGTTCGACGCGCTGGTTCGAACGCAACCAGAAAGACGAACGTGGTAACAGACAAGCGTACTTCGGGACAGGAGAGACATTCCTCTTCAGCCTCCAGCCCACCCGCGCCAAGTACCCCTGGGTCGGCTGCCTCGAGGACAACCAAGAAGACAAGACGCCCCACGCCAACTCGCTCTTCATGGCCGCCGATAATACAATGATCACGATCGGCGGAGGGGACGGCCAAGCGATATGGATGGACGAGAACATAAGGTACGGCAAGACGGACCGCTGCTCTACGTTCAACAACCCGCCGCTGTGCCCCAGCGGAGACTTCGAGATACGAGTGCTCGAGGTGTACGGGTTCGCCGGAGCGTAG

Protein

MFITQTKLLNEVTWKTVMQIAKKHAKSAAQHLSRLSGAIGPERIYADWQWWILAALPFPHLVRVLDCFFHEGIKVFYRVALAILILFHKHTTNQNSEWYAEATKNGVDHAIDKFCRNMPVSPTKLLRTAFTIRALSSQYISRVFIKTEMTLKSKQVITGSRLVRSRSSDNLPTSQSQVNIQMMSHTLTIRESPRSSHMAMWFPFPNAVFQDRHQASDLRQKLFTLWSWLPVRITMYQPVLLYTTEEHGCSLTTFYVRVEHHEPTLLMIKTCNNEVFGAYCSTRWFERNQKDERGNRQAYFGTGETFLFSLQPTRAKYPWVGCLEDNQEDKTPHANSLFMAADNTMITIGGGDGQAIWMDENIRYGKTDRCSTFNNPPLCPSGDFEIRVLEVYGFAGA

Description

GTPase-activating protein (GAP) for Rab35 which regulates synaptic vesicle (SV) protein recycling and turnover at the neuromuscular junction boutons and possibly ventral nerve cord via endosomal trafficking (PubMed:21458671, PubMed:25422373, PubMed:27669036). Inhibits Rab35-mediated endosomal sorting which traffics old or dysfunctional SV proteins through a degradative endolysosomal route that involves the ESCRT pathway and the HOPS complex members dor, vps39 and rab7 (PubMed:21458671, PubMed:25422373). This function is essential for preventing excessive degradation and turnover of vesicles from the readily releasable pool which leads to increased neurotransmission and eventually neurodegeneration (PubMed:21458671, PubMed:25422373, PubMed:27669036). Preferentially binds phosphoinositides phosphorylated at the D5 position of the inositol ring, such as phosphatidylinositol 4,5-bisphosphate (PIP2) and phosphatidylinositol 3,4,5-trisphosphate (PIP3) (PubMed:27669036). Binding to phosphoinositides and thus membrane-association, is required for its function in regulating the turnover of synaptic-vesicle proteins (PubMed:27669036). It is therefore likely that it is recruited to vesicle membranes with high phosphoinositide content and thereby selectively prevents endolysosomal degradation of these vesicles (PubMed:27669036).

Keywords

3D-structure   Alternative splicing   Cell junction   Complete proteome   Cytoplasmic vesicle   Endosome   Lipid-binding   Membrane   Phosphoprotein   Reference proteome   Synapse  

Feature

chain  GTPase-activating protein skywalker
splice variant  In isoform F.

Uniprot

H9J9D6   A0A2H1VC48   A0A212F1L5   A0A194PYY9   A0A2A4K8S9   A0A2A4K858   + More
A0A194R214   A0A2A4K9S3   A0A2A4K8K8   A0A2A4K920   A0A2A4K849   A0A2A4K9E5   A0A0L7LCQ3   A0A182YHE6   A0A182KBW2   A0A182RAA6   Q7Q0N9   A0A1S4H3D8   A0A1Q3FUH9   A0A182JF67   A0A0P6ITR7   A0A182QLD4   Q16TB3   A0A1B0CW16   A0A2M4CTQ2   A0A2M4CVN8   A0A1Q3FU38   F4X3Z6   A0A182KJT9   A0A195EJV1   A0A195C8B7   A0A182PK62   A0A158NJS0   A0A026W0U6   A0A0N0BEB9   A0A084W5I5   A0A151X6E6   A0A1J1IJI0   A0A154PL83   A0A0L7QYU3   A0A336KHD1   A0A1Q3FU18   A0A2M4CTM7   A0A2M4CVN6   A0A182FMW7   A0A3L8DHJ8   A0A2M4AI27   A0A2M3ZH47   A0A2M3Z571   A0A2M4AI35   A0A2M3Z549   U5EUP7   A0A088ACI6   A0A2M4BJ80   V9IB93   A0A182VSW6   A0A232EZI4   A0A182M2X0   A0A195FN77   A0A310SQG3   A0A2M4BJW1   A0A0K8TKZ3   A0A2A3EPP6   V9I9X0   A0A0C9RNT6   A0A195BH12   K7IVU4   E2ARX4   A0A1L8DVY7   A0A1E1W8M1   A0A1B6C4E7   D6WJH2   A0A1B6F3C2   A0A1I8PVM5   A0A1I8PVN1   A0A1A9XQF2   A0A1I8PVP3   A0A1A9WL36   A0A1I8MXN9   A0A1I8PVQ6   A0A0J9R681   A0A0R1DNF5   A0A0Q5VJA6   A0A0J9R676   M9PDV9   A0A1E1W4I8   A0A0R1DQR5   A0A0Q5VYU6   A0A1I8PVR1   A0A1W4UIB4   A0A1B6FSQ7   A0A1A9ZFI0   A0A1W4UWY9   A0A1A9UVE2   A0A1I8PVQ9   M9PDI9   Q9VIH7-2   A0A0J9R556   A0A0R1DNN5   A0A1I8PVN8  

Pubmed

19121390    22118469    26354079    26227816    25244985    12364791    + More
14747013    17210077    26999592    17510324    21719571    20966253    21347285    24508170    24438588    30249741    28648823    26369729    20075255    20798317    18362917    19820115    25315136    22936249    17994087    17550304    10731132    12537568    12537572    12537573    12537574    16110336    17569856    17569867    12537569    21458671    25422373    27669036   

EMBL

BABH01004521    ODYU01001572    SOQ37972.1    AGBW02010853    OWR47627.1    KQ459584    + More
KPI98541.1    NWSH01000036    PCG80406.1    PCG80411.1    KQ460855    KPJ11828.1    PCG80412.1    PCG80409.1    PCG80408.1    PCG80407.1    PCG80413.1    JTDY01001636    KOB73278.1    AAAB01008980    EAA13953.3    GFDL01003933    JAV31112.1    GDUN01000740    JAN95179.1    AXCN02001863    CH477653    EAT37758.1    AJWK01031584    GGFL01004525    MBW68703.1    GGFL01005212    MBW69390.1    GFDL01003935    JAV31110.1    GL888624    EGI58943.1    KQ978782    KYN28421.1    KQ978081    KYM97129.1    ADTU01018034    ADTU01018035    KK107536    EZA49206.1    KQ435840    KOX71422.1    ATLV01020656    KE525304    KFB45479.1    KQ982482    KYQ55975.1    CVRI01000054    CRL00387.1    KQ434936    KZC11990.1    KQ414685    KOC63785.1    UFQS01000278    UFQT01000278    SSX02313.1    SSX22688.1    GFDL01003934    JAV31111.1    GGFL01004524    MBW68702.1    GGFL01005218    MBW69396.1    QOIP01000008    RLU19389.1    GGFK01007110    MBW40431.1    GGFM01007115    MBW27866.1    GGFM01002909    MBW23660.1    GGFK01007119    MBW40440.1    GGFM01002883    MBW23634.1    GANO01002228    JAB57643.1    GGFJ01003870    MBW53011.1    JR037691    AEY57917.1    NNAY01001487    OXU23801.1    AXCM01001249    KQ981424    KYN41787.1    KQ761289    OAD57908.1    GGFJ01004196    MBW53337.1    GDAI01002792    JAI14811.1    KZ288204    PBC33242.1    JR037692    AEY57918.1    GBYB01010100    JAG79867.1    KQ976490    KYM83437.1    GL442192    EFN63823.1    GFDF01003483    JAV10601.1    GDQN01007759    JAT83295.1    GEDC01028920    JAS08378.1    KQ971342    EFA03897.1    GECZ01025010    JAS44759.1    CM002910    KMY91249.1    CM000158    KRJ98855.1    CH954179    KQS61821.1    KMY91244.1    AE014134    AGB93185.1    GDQN01009159    JAT81895.1    KRJ98861.1    KQS61823.1    GECZ01016551    JAS53218.1    AGB93186.1    AY069398    AY118379    AY118490    BT120183    AAL39543.1    AAM48408.1    AAM49859.1    ADB91431.1    KMY91243.1    KRJ98860.1   

Proteomes

UP000005204    UP000007151    UP000053268    UP000218220    UP000053240    UP000037510    + More
UP000076408    UP000075881    UP000075900    UP000007062    UP000075880    UP000075886    UP000008820    UP000092461    UP000007755    UP000075882    UP000078492    UP000078542    UP000075885    UP000005205    UP000053097    UP000053105    UP000030765    UP000075809    UP000183832    UP000076502    UP000053825    UP000069272    UP000279307    UP000005203    UP000075920    UP000215335    UP000075883    UP000078541    UP000242457    UP000078540    UP000002358    UP000000311    UP000007266    UP000095300    UP000092443    UP000091820    UP000095301    UP000002282    UP000008711    UP000000803    UP000192221    UP000092445    UP000078200   

PRIDE

H9J9D6    M9PDV9    M9PDI9    Q9VIH7   

Pfam

PF07534   TLD        + More
PF00566   RabGAP-TBC

Interpro

IPR000195   Rab-GTPase-TBC_dom        + More
IPR006571   TLDc_dom       
IPR035969   Rab-GTPase_TBC_sf       

SUPFAM

SSF47923   SSF47923       

ProteinModelPortal

H9J9D6   A0A2H1VC48   A0A212F1L5   A0A194PYY9   A0A2A4K8S9   A0A2A4K858   + More
A0A194R214   A0A2A4K9S3   A0A2A4K8K8   A0A2A4K920   A0A2A4K849   A0A2A4K9E5   A0A0L7LCQ3   A0A182YHE6   A0A182KBW2   A0A182RAA6   Q7Q0N9   A0A1S4H3D8   A0A1Q3FUH9   A0A182JF67   A0A0P6ITR7   A0A182QLD4   Q16TB3   A0A1B0CW16   A0A2M4CTQ2   A0A2M4CVN8   A0A1Q3FU38   F4X3Z6   A0A182KJT9   A0A195EJV1   A0A195C8B7   A0A182PK62   A0A158NJS0   A0A026W0U6   A0A0N0BEB9   A0A084W5I5   A0A151X6E6   A0A1J1IJI0   A0A154PL83   A0A0L7QYU3   A0A336KHD1   A0A1Q3FU18   A0A2M4CTM7   A0A2M4CVN6   A0A182FMW7   A0A3L8DHJ8   A0A2M4AI27   A0A2M3ZH47   A0A2M3Z571   A0A2M4AI35   A0A2M3Z549   U5EUP7   A0A088ACI6   A0A2M4BJ80   V9IB93   A0A182VSW6   A0A232EZI4   A0A182M2X0   A0A195FN77   A0A310SQG3   A0A2M4BJW1   A0A0K8TKZ3   A0A2A3EPP6   V9I9X0   A0A0C9RNT6   A0A195BH12   K7IVU4   E2ARX4   A0A1L8DVY7   A0A1E1W8M1   A0A1B6C4E7   D6WJH2   A0A1B6F3C2   A0A1I8PVM5   A0A1I8PVN1   A0A1A9XQF2   A0A1I8PVP3   A0A1A9WL36   A0A1I8MXN9   A0A1I8PVQ6   A0A0J9R681   A0A0R1DNF5   A0A0Q5VJA6   A0A0J9R676   M9PDV9   A0A1E1W4I8   A0A0R1DQR5   A0A0Q5VYU6   A0A1I8PVR1   A0A1W4UIB4   A0A1B6FSQ7   A0A1A9ZFI0   A0A1W4UWY9   A0A1A9UVE2   A0A1I8PVQ9   M9PDI9   Q9VIH7-2   A0A0J9R556   A0A0R1DNN5   A0A1I8PVN8  

PDB

5HJQ     E-value=3.3319e-52,     Score=518

KEGG

101737733    K21841 TBC1 domain family member 24 | (RefSeq) TBC1 domain family member 24

GO

GO:0007274   GO:0005096   GO:0007268   GO:0043087   GO:1903422   GO:0031594   GO:0043195   GO:0008289   GO:0030054   GO:0010008   GO:0030672   GO:0098794   GO:0036466   GO:0003924   GO:0031175   GO:0005737   GO:0046929  

Subcellular location

Cytoplasmic vesicle   Detected at the synapses of neuromuscular junction boutons, where it displays co-localization with Rab35 (PubMed:21458671). Associates with certain types of membrane phosphoinositides such as phosphatidylinositol 4,5-bisphosphate (PIP2) and phosphatidylinositol 3,4,5-trisphosphate (PIP3) (PubMed:27669036).   With evidence from 5 publications.
Secretory vesicle   Detected at the synapses of neuromuscular junction boutons, where it displays co-localization with Rab35 (PubMed:21458671). Associates with certain types of membrane phosphoinositides such as phosphatidylinositol 4,5-bisphosphate (PIP2) and phosphatidylinositol 3,4,5-trisphosphate (PIP3) (PubMed:27669036).   With evidence from 5 publications.
Synaptic vesicle membrane   Detected at the synapses of neuromuscular junction boutons, where it displays co-localization with Rab35 (PubMed:21458671). Associates with certain types of membrane phosphoinositides such as phosphatidylinositol 4,5-bisphosphate (PIP2) and phosphatidylinositol 3,4,5-trisphosphate (PIP3) (PubMed:27669036).   With evidence from 5 publications.
Endosome membrane   Detected at the synapses of neuromuscular junction boutons, where it displays co-localization with Rab35 (PubMed:21458671). Associates with certain types of membrane phosphoinositides such as phosphatidylinositol 4,5-bisphosphate (PIP2) and phosphatidylinositol 3,4,5-trisphosphate (PIP3) (PubMed:27669036).   With evidence from 5 publications.

Length:

397

Number of predicted TMHs:

0

Exp number of AAs in TMHs:

0.0729600000000001

Exp number, first 60 AAs:

0.01719

Total prob of N-in:

0.00926

outside

1  -  397

 

 

Pi

200.431184

Theta

170.50608

Tajima's D

0.809843

CLR

0.664312

CSRT

0.605219739013049

Interpretation

Uncertain