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Conserved domains on  [gi|2462567893|ref|XP_054178208|]
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UBX domain-containing protein 6 isoform X5 [Homo sapiens]

Protein Classification

PUB domain-containing protein( domain architecture ID 10180028)

PUB domain-containing protein may bind AAA ATPase domains

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
PUB_UBXD1 cd10460
PNGase/UBA or UBX (PUB) domain of UBXD1; This PUB domain is found in p97 adaptor protein ...
 192-297 1.27e-50

PNGase/UBA or UBX (PUB) domain of UBXD1; This PUB domain is found in p97 adaptor protein UBXD1 (UBX domain-containing protein 1, also called UBXD6). It functions as a p97 (also known as valosin-containing protein or VCP) adaptor by interacting with the D1 and/or D2 ATPase domains. The type II AAA+ ATPase p97 is involved in a variety of cellular processes such as the deglycosylation of ERAD substrates, membrane fusion, transcription factor activation and cell cycle regulation through differential binding to specific adaptor proteins. The PUB domain in UBX-domain protein 1 (UBXD1), which is widely expressed in higher eukaryotes, except for fungi, and which is involved in substrate recruitment to p97, interacts strongly with the C-terminus of p97. UBXD1 also interacts with HRD1 and HERP, both components of the ERAD pathway, via p97. It is possibly involved in aggresome formation; aggresomes are perinuclear compartments that contain misfolded proteins colocalized with centrosome markers.


:

Pssm-ID: 198418  Cd Length: 102  Bit Score: 164.34  E-value: 1.27e-50
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462567893 192 IMKIYTFNKDQDRVKLGVDTIAKYLDNIHLHPEEEKYRKIKLQNKVFQERINCLEGTHEFFEAIGFQKVLLPaqDQEDPE 271
Cdd:cd10460     1 CLMIHTLNKDREKVEECVDTLCKYLENIIDHPDEEKYRKIRLSNKVFQEKVLPVEGALEFLEAAGFEEKTLP--EQEDEE 78

                          90       100
                  ....*....|....*....|....*.
gi 2462567893 272 EFYVLSETtlAQPQSLERHKEQLLAA 297
Cdd:cd10460    79 DFLVLSEE--CDIDSLELAKDLLQSL 102
 
Name Accession Description Interval E-value
PUB_UBXD1 cd10460
PNGase/UBA or UBX (PUB) domain of UBXD1; This PUB domain is found in p97 adaptor protein ...
 192-297 1.27e-50

PNGase/UBA or UBX (PUB) domain of UBXD1; This PUB domain is found in p97 adaptor protein UBXD1 (UBX domain-containing protein 1, also called UBXD6). It functions as a p97 (also known as valosin-containing protein or VCP) adaptor by interacting with the D1 and/or D2 ATPase domains. The type II AAA+ ATPase p97 is involved in a variety of cellular processes such as the deglycosylation of ERAD substrates, membrane fusion, transcription factor activation and cell cycle regulation through differential binding to specific adaptor proteins. The PUB domain in UBX-domain protein 1 (UBXD1), which is widely expressed in higher eukaryotes, except for fungi, and which is involved in substrate recruitment to p97, interacts strongly with the C-terminus of p97. UBXD1 also interacts with HRD1 and HERP, both components of the ERAD pathway, via p97. It is possibly involved in aggresome formation; aggresomes are perinuclear compartments that contain misfolded proteins colocalized with centrosome markers.


Pssm-ID: 198418  Cd Length: 102  Bit Score: 164.34  E-value: 1.27e-50
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462567893 192 IMKIYTFNKDQDRVKLGVDTIAKYLDNIHLHPEEEKYRKIKLQNKVFQERINCLEGTHEFFEAIGFQKVLLPaqDQEDPE 271
Cdd:cd10460     1 CLMIHTLNKDREKVEECVDTLCKYLENIIDHPDEEKYRKIRLSNKVFQEKVLPVEGALEFLEAAGFEEKTLP--EQEDEE 78

                          90       100
                  ....*....|....*....|....*.
gi 2462567893 272 EFYVLSETtlAQPQSLERHKEQLLAA 297
Cdd:cd10460    79 DFLVLSEE--CDIDSLELAKDLLQSL 102
PUB pfam09409
PUB domain; The PUB (also known as PUG) domain is found in peptide N-glycanase where it ...
 202-289 8.76e-27

PUB domain; The PUB (also known as PUG) domain is found in peptide N-glycanase where it functions as a AAA ATPase binding domain. This domain is also found on other proteins linked to the ubiquitin-proteasome system.


Pssm-ID: 462790  Cd Length: 80  Bit Score: 101.58  E-value: 8.76e-27
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462567893 202 QDRVKLGVDTIAKYLDNIHLHPEEEKYRKIKLQNKVFQERINCLEGTHEFFEAIGFQKvllpaqdqEDPEEFYVLSETTL 281
Cdd:pfam09409   1 KEKVKEALETLLKYLNNILSNPNEEKYRKIRLSNKAFQEKVLPLEGALELLLAIGFEK--------EDEEEFLLLEEESL 72


                  ....*...
gi 2462567893 282 AQPQSLER 289
Cdd:pfam09409  73 KQLAVLLE 80
PUG smart00580
domain in protein kinases, N-glycanases and other nuclear proteins;
209-262 3.25e-05

domain in protein kinases, N-glycanases and other nuclear proteins;


Pssm-ID: 197798  Cd Length: 57  Bit Score: 41.13  E-value: 3.25e-05
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|....
gi 2462567893  209 VDTIAKYLDNIHLHPEEEKyrkiklQNKVFQERINCLEGTHEFFEAIGFQKVLL 262
Cdd:smart00580   2 VRDLLRALRNILHHPREEK------GNPAIKERLGPVPGGFELYFTVGFPRLLI 49
 
Name Accession Description Interval E-value
PUB_UBXD1 cd10460
PNGase/UBA or UBX (PUB) domain of UBXD1; This PUB domain is found in p97 adaptor protein ...
 192-297 1.27e-50

PNGase/UBA or UBX (PUB) domain of UBXD1; This PUB domain is found in p97 adaptor protein UBXD1 (UBX domain-containing protein 1, also called UBXD6). It functions as a p97 (also known as valosin-containing protein or VCP) adaptor by interacting with the D1 and/or D2 ATPase domains. The type II AAA+ ATPase p97 is involved in a variety of cellular processes such as the deglycosylation of ERAD substrates, membrane fusion, transcription factor activation and cell cycle regulation through differential binding to specific adaptor proteins. The PUB domain in UBX-domain protein 1 (UBXD1), which is widely expressed in higher eukaryotes, except for fungi, and which is involved in substrate recruitment to p97, interacts strongly with the C-terminus of p97. UBXD1 also interacts with HRD1 and HERP, both components of the ERAD pathway, via p97. It is possibly involved in aggresome formation; aggresomes are perinuclear compartments that contain misfolded proteins colocalized with centrosome markers.


Pssm-ID: 198418  Cd Length: 102  Bit Score: 164.34  E-value: 1.27e-50
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462567893 192 IMKIYTFNKDQDRVKLGVDTIAKYLDNIHLHPEEEKYRKIKLQNKVFQERINCLEGTHEFFEAIGFQKVLLPaqDQEDPE 271
Cdd:cd10460     1 CLMIHTLNKDREKVEECVDTLCKYLENIIDHPDEEKYRKIRLSNKVFQEKVLPVEGALEFLEAAGFEEKTLP--EQEDEE 78

                          90       100
                  ....*....|....*....|....*.
gi 2462567893 272 EFYVLSETtlAQPQSLERHKEQLLAA 297
Cdd:cd10460    79 DFLVLSEE--CDIDSLELAKDLLQSL 102
PUB pfam09409
PUB domain; The PUB (also known as PUG) domain is found in peptide N-glycanase where it ...
 202-289 8.76e-27

PUB domain; The PUB (also known as PUG) domain is found in peptide N-glycanase where it functions as a AAA ATPase binding domain. This domain is also found on other proteins linked to the ubiquitin-proteasome system.


Pssm-ID: 462790  Cd Length: 80  Bit Score: 101.58  E-value: 8.76e-27
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462567893 202 QDRVKLGVDTIAKYLDNIHLHPEEEKYRKIKLQNKVFQERINCLEGTHEFFEAIGFQKvllpaqdqEDPEEFYVLSETTL 281
Cdd:pfam09409   1 KEKVKEALETLLKYLNNILSNPNEEKYRKIRLSNKAFQEKVLPLEGALELLLAIGFEK--------EDEEEFLLLEEESL 72


                  ....*...
gi 2462567893 282 AQPQSLER 289
Cdd:pfam09409  73 KQLAVLLE 80
PUB cd09212
PNGase/UBA or UBX (PUB) domain of p97 adaptor proteins; The PUB domain is found in p97 adaptor ...
 199-296 3.58e-21

PNGase/UBA or UBX (PUB) domain of p97 adaptor proteins; The PUB domain is found in p97 adaptor proteins such as PNGase, UBXD1 (UBX domain-containing protein 1), and RNF31 (RING finger protein 31). It functions as a p97 (also known as valosin-containing protein or VCP) adaptor by interacting with the D1 and/or D2 ATPase domains. The p97, a type II AAA+ ATPase, is involved in a variety of cellular processes such as the deglycosylation of ERAD substrates, membrane fusion, transcription factor activation and cell cycle regulation through differential binding to specific adaptor proteins. The PUB domain in UBX-domain protein 1 (UBXD1), which is widely expressed in higher eukaryotes (except for fungi) and which is involved in substrate recruitment to p97, interacts strongly with the C-terminus of p97. Peptide:N-glycanase (PNGase), a deglycosylating enzyme that functions in proteasome-dependent degradation of misfolded glycoproteins which are translocated from the endoplasmic reticulum (ER) to the cytosol during ERAD, associates with the ubiquitin-proteasome system proteins mediated by the N-terminal PUB domain. PNGase is present in all eukaryotic organisms; however, the yeast PNGase ortholog does not contain the PUB domain. The RNF31 protein, also known as HOIP or Zibra, contains an N-terminal PUB domain similar to those in PNGase and UBXD1, suggesting its association with p97.


Pssm-ID: 198416  Cd Length: 96  Bit Score: 87.05  E-value: 3.58e-21
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462567893 199 NKDQDRVKLGVDTIAKYLDNIHLHPEEEKYRKIKLQNKVFQERINCLEGTHEFFEAIGFQKvllpaqDQEDPEEFYVLSE 278
Cdd:cd09212     7 NNDLEAFKEALKTLLKILDNILSNPTEEKYRRIRLSNKAFQEKVLPVPGGLELLLALGFVE------ETESGESFLVLPD 80

                          90
                  ....*....|....*...
gi 2462567893 279 TtlAQPQSLERHKEQLLA 296
Cdd:cd09212    81 D--ADVDLLKDAKAALEE 96
PUB_UBA_plant cd10461
PNGase/UBA or UBX (PUB) domain of plant Ubiquitin-associated (UBA) domain containing proteins; ...
 197-260 3.87e-12

PNGase/UBA or UBX (PUB) domain of plant Ubiquitin-associated (UBA) domain containing proteins; The PUB domain functions as a p97 (also known as valosin-containing protein or VCP) adaptor by interacting with the D1 and/or D2 ATPase domains. The type II AAA+ ATPase p97 is involved in a variety of cellular processes such as the deglycosylation of ERAD substrates, membrane fusion, transcription factor activation and cell cycle regulation through differential binding to specific adaptor proteins. The UBA domain, along with UBL (ubiquitin-like) domain, has been implicated in proteasomal degradation by associating with substrates destined for degradation as well as with subunits of the proteasome, thus regulating protein turnover. This family contains only plant UBA domain-containing proteins.


Pssm-ID: 198419  Cd Length: 107  Bit Score: 62.07  E-value: 3.87e-12
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 2462567893 197 TFNKDQDRVKLGVDTIAKYLDNIHLHPEEEKYRKIKLQNKVFQERINCLEGTHEFFEAIGFQKV 260
Cdd:cd10461     7 AHKDDPDAVKTAFQTLLTYLGNVAKNPDEEKFRRIRLTNAAFQERVGALRGGIEFLELCGFERD 70
PUB_UBA cd10462
PNGase/UBA or UBX (PUB) domain of Ubiquitin-associated (UBA) domain containing proteins; The ...
 199-259 5.82e-12

PNGase/UBA or UBX (PUB) domain of Ubiquitin-associated (UBA) domain containing proteins; The PUB domain functions as a p97 (also known as valosin-containing protein or VCP) adaptor by interacting with the D1 and/or D2 ATPase domains. The type II AAA+ ATPase p97 is involved in a variety of cellular processes such as the deglycosylation of ERAD substrates, membrane fusion, transcription factor activation and cell cycle regulation through differential binding to specific adaptor proteins. The UBA domain, along with UBL (ubiquitin-like) domain, has been implicated in proteasomal degradation by associating with substrates destined for degradation as well as with subunits of the proteasome, thus regulating protein turnover.


Pssm-ID: 198420  Cd Length: 100  Bit Score: 61.35  E-value: 5.82e-12
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 2462567893 199 NKDQDRVKLGV--DTIAKYLDNIHLHPEEEKYRKIKLQNKVFQERINCLEGTHEFFEAIGFQK 259
Cdd:cd10462     8 YKDTDKQGLMTclNTLRTYISNAHDHPLEEKYKKIRKENKAFVSKVLIFEGAIEILLACGFED 70
PUB_WLM cd10463
PNGase/UBA or UBX (PUB) domain of the Wss1p-like metalloprotease (WLM) family; The PUB domain ...
 209-267 8.59e-10

PNGase/UBA or UBX (PUB) domain of the Wss1p-like metalloprotease (WLM) family; The PUB domain functions as a p97 (also known as valosin-containing protein or VCP) adaptor by interacting with the D1 and/or D2 ATPase domains. The type II AAA+ ATPase p97 is involved in a variety of cellular processes such as the deglycosylation of ERAD substrates, membrane fusion, transcription factor activation and cell cycle regulation through differential binding to specific adaptor proteins. WLM domains are found mostly in plant proteins, belonging to the Zincin-like superfamily of Zn-dependent peptidases that are linked to the ubiquitin signaling pathway through its fusion with the ubiquitin-binding PUB, ubiquitin-like, and Little Finger domains. More specifically, genetic evidence implicates the WLM family in de-SUMOylation.


Pssm-ID: 198421  Cd Length: 96  Bit Score: 55.09  E-value: 8.59e-10
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*....
gi 2462567893 209 VDTIAKYLDNIHLHPEEEKYRKIKLQNKVFQERINCLEGTHEFFEAIGFQKVLLPAQDQ 267
Cdd:cd10463    18 LQTLFKILGNAIEHPNEDKFRRLRKSNPAFQRRVARFPGAVELLLAAGFAEEGVSGPDT 76
PUB_PNGase cd10459
PNGase/UBA or UBX (PUB) domain of the P97 adaptor protein Peptide:N-glycanase (PNGase); This ...
 214-298 1.69e-08

PNGase/UBA or UBX (PUB) domain of the P97 adaptor protein Peptide:N-glycanase (PNGase); This PUB (PNGase/UBA or UBX) domain is found in the p97 adaptor protein PNGase (Peptide:N-glycanase). The PUB domain functions as a p97 (also known as valosin-containing protein or VCP) adaptor by interacting with the D1 and/or D2 ATPase domains. The type II AAA+ ATPase p97 is involved in a variety of cellular processes such as the deglycosylation of ERAD substrates, membrane fusion, transcription factor activation and cell cycle regulation through differential binding to specific adaptor proteins. Peptide:N-glycanase (PNGase), a deglycosylating enzyme that functions in proteasome-dependent degradation of misfolded glycoproteins which are translocated from the endoplasmic reticulum (ER) to the cytosol during ERAD, associates with the ubiquitin-proteasome system proteins mediated by the N-terminal PUB domain. PNGase is present in all eukaryotic organisms; however, the yeast PNGase ortholog does not contain the PUB domain. The mammalian PNGase binds a considerable number of proteins via its PUB domain; these include ERAD E3 enzyme, the autocrine motility factor receptor (AMFR or gp78), SAKS and Derlin-1.


Pssm-ID: 198417  Cd Length: 93  Bit Score: 51.51  E-value: 1.69e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462567893 214 KYLDNIHLHPEEEKYRKIKLQNKVFQERINCLEGTHEFFEAIGFqkvllpaqdQEDPEEFYVLSETTLAQPQSLerhkEQ 293
Cdd:cd10459    21 TYANNILRNPNDPKYRSIRLDNPVFSTKLLPARGAIECLFEMGF---------VEDEDRLFLPRNASLEKLQDL----RD 87


                  ....*
gi 2462567893 294 LLAAE 298
Cdd:cd10459    88 LLAAE 92
PUG smart00580
domain in protein kinases, N-glycanases and other nuclear proteins;
209-262 3.25e-05

domain in protein kinases, N-glycanases and other nuclear proteins;


Pssm-ID: 197798  Cd Length: 57  Bit Score: 41.13  E-value: 3.25e-05
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|....
gi 2462567893  209 VDTIAKYLDNIHLHPEEEKyrkiklQNKVFQERINCLEGTHEFFEAIGFQKVLL 262
Cdd:smart00580   2 VRDLLRALRNILHHPREEK------GNPAIKERLGPVPGGFELYFTVGFPRLLI 49
 
Blast search parameters
Data Source: Precalculated data, version = cdd.v.3.21
Preset Options:Database: CDSEARCH/cdd   Low complexity filter: no  Composition Based Adjustment: yes   E-value threshold: 0.01

References:

  • Wang J et al. (2023), "The conserved domain database in 2023", Nucleic Acids Res.51(D)384-8.
  • Lu S et al. (2020), "The conserved domain database in 2020", Nucleic Acids Res.48(D)265-8.
  • Marchler-Bauer A et al. (2017), "CDD/SPARCLE: functional classification of proteins via subfamily domain architectures.", Nucleic Acids Res.45(D)200-3.
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