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7F6J

Crystal structure of the PDZD8 coiled-coil domain - Rab7 complex

Functional Information from GO Data
ChainGOidnamespacecontents
A0000045biological_processautophagosome assembly
A0000421cellular_componentautophagosome membrane
A0003924molecular_functionGTPase activity
A0003925molecular_functionG protein activity
A0005515molecular_functionprotein binding
A0005525molecular_functionGTP binding
A0005737cellular_componentcytoplasm
A0005739cellular_componentmitochondrion
A0005764cellular_componentlysosome
A0005765cellular_componentlysosomal membrane
A0005768cellular_componentendosome
A0005770cellular_componentlate endosome
A0005794cellular_componentGolgi apparatus
A0005811cellular_componentlipid droplet
A0005829cellular_componentcytosol
A0005886cellular_componentplasma membrane
A0006622biological_processprotein targeting to lysosome
A0006897biological_processendocytosis
A0006914biological_processautophagy
A0007174biological_processepidermal growth factor catabolic process
A0008333biological_processendosome to lysosome transport
A0009617biological_processresponse to bacterium
A0010008cellular_componentendosome membrane
A0015031biological_processprotein transport
A0016020cellular_componentmembrane
A0016042biological_processlipid catabolic process
A0016787molecular_functionhydrolase activity
A0019003molecular_functionGDP binding
A0019076biological_processviral release from host cell
A0022615biological_processprotein to membrane docking
A0030667cellular_componentsecretory granule membrane
A0030670cellular_componentphagocytic vesicle membrane
A0030672cellular_componentsynaptic vesicle membrane
A0030904cellular_componentretromer complex
A0031267molecular_functionsmall GTPase binding
A0031902cellular_componentlate endosome membrane
A0031966cellular_componentmitochondrial membrane
A0033162cellular_componentmelanosome membrane
A0034045cellular_componentphagophore assembly site membrane
A0042147biological_processretrograde transport, endosome to Golgi
A0043231cellular_componentintracellular membrane-bounded organelle
A0045022biological_processearly endosome to late endosome transport
A0045335cellular_componentphagocytic vesicle
A0045453biological_processbone resorption
A0045732biological_processpositive regulation of protein catabolic process
A0046907biological_processintracellular transport
A0048524biological_processpositive regulation of viral process
A0051650biological_processestablishment of vesicle localization
A0061724biological_processlipophagy
A0070062cellular_componentextracellular exosome
A0090382biological_processphagosome maturation
A0090383biological_processphagosome acidification
A0090385biological_processphagosome-lysosome fusion
A0097208cellular_componentalveolar lamellar body
A0099638biological_processendosome to plasma membrane protein transport
A1903542biological_processnegative regulation of exosomal secretion
A1903543biological_processpositive regulation of exosomal secretion
A1905366biological_processnegative regulation of intralumenal vesicle formation
A1905394molecular_functionretromer complex binding
B0000045biological_processautophagosome assembly
B0000421cellular_componentautophagosome membrane
B0003924molecular_functionGTPase activity
B0003925molecular_functionG protein activity
B0005515molecular_functionprotein binding
B0005525molecular_functionGTP binding
B0005737cellular_componentcytoplasm
B0005739cellular_componentmitochondrion
B0005764cellular_componentlysosome
B0005765cellular_componentlysosomal membrane
B0005768cellular_componentendosome
B0005770cellular_componentlate endosome
B0005794cellular_componentGolgi apparatus
B0005811cellular_componentlipid droplet
B0005829cellular_componentcytosol
B0005886cellular_componentplasma membrane
B0006622biological_processprotein targeting to lysosome
B0006897biological_processendocytosis
B0006914biological_processautophagy
B0007174biological_processepidermal growth factor catabolic process
B0008333biological_processendosome to lysosome transport
B0009617biological_processresponse to bacterium
B0010008cellular_componentendosome membrane
B0015031biological_processprotein transport
B0016020cellular_componentmembrane
B0016042biological_processlipid catabolic process
B0016787molecular_functionhydrolase activity
B0019003molecular_functionGDP binding
B0019076biological_processviral release from host cell
B0022615biological_processprotein to membrane docking
B0030667cellular_componentsecretory granule membrane
B0030670cellular_componentphagocytic vesicle membrane
B0030672cellular_componentsynaptic vesicle membrane
B0030904cellular_componentretromer complex
B0031267molecular_functionsmall GTPase binding
B0031902cellular_componentlate endosome membrane
B0031966cellular_componentmitochondrial membrane
B0033162cellular_componentmelanosome membrane
B0034045cellular_componentphagophore assembly site membrane
B0042147biological_processretrograde transport, endosome to Golgi
B0043231cellular_componentintracellular membrane-bounded organelle
B0045022biological_processearly endosome to late endosome transport
B0045335cellular_componentphagocytic vesicle
B0045453biological_processbone resorption
B0045732biological_processpositive regulation of protein catabolic process
B0046907biological_processintracellular transport
B0048524biological_processpositive regulation of viral process
B0051650biological_processestablishment of vesicle localization
B0061724biological_processlipophagy
B0070062cellular_componentextracellular exosome
B0090382biological_processphagosome maturation
B0090383biological_processphagosome acidification
B0090385biological_processphagosome-lysosome fusion
B0097208cellular_componentalveolar lamellar body
B0099638biological_processendosome to plasma membrane protein transport
B1903542biological_processnegative regulation of exosomal secretion
B1903543biological_processpositive regulation of exosomal secretion
B1905366biological_processnegative regulation of intralumenal vesicle formation
B1905394molecular_functionretromer complex binding
C0044233cellular_componentmitochondria-associated endoplasmic reticulum membrane contact site
C0051560biological_processmitochondrial calcium ion homeostasis
C1990456biological_processmitochondrion-endoplasmic reticulum membrane tethering
Functional Information from PROSITE/UniProt
site_idPS00675
Number of Residues14
DetailsSIGMA54_INTERACT_1 Sigma-54 interaction domain ATP-binding region A signature. VIIlGDSGVGKtsL
ChainResidueDetails
AVAL11-LEU24

Functional Information from SwissProt/UniProt
site_idSWS_FT_FI1
Number of Residues10
DetailsBINDING: BINDING => ECO:0000269|PubMed:15933719, ECO:0000269|PubMed:20028791
ChainResidueDetails
AGLY15
BALA156
ASER34
AASP63
AASN125
AALA156
BGLY15
BSER34
BASP63
BASN125

site_idSWS_FT_FI2
Number of Residues2
DetailsMOD_RES: N-acetylthreonine => ECO:0007744|PubMed:25944712
ChainResidueDetails
ATHR2
BTHR2

site_idSWS_FT_FI3
Number of Residues2
DetailsMOD_RES: Phosphoserine => ECO:0007744|PubMed:18669648, ECO:0007744|PubMed:20068231, ECO:0007744|PubMed:23186163
ChainResidueDetails
ASER72
BSER72

site_idSWS_FT_FI4
Number of Residues6
DetailsCROSSLNK: Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in ubiquitin) => ECO:0000269|PubMed:36476874
ChainResidueDetails
ALYS191
ALYS194
BLYS191
BLYS194

222624

PDB entries from 2024-07-17

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