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Conserved domains on  [gi|1622879920|ref|XP_028692370|]
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next to BRCA1 gene 1 protein isoform X7 [Macaca mulatta]

Protein Classification

next to BRCA1 gene 1 family protein( domain architecture ID 10218831)

next to BRCA1 gene 1 protein (NBR1) acts probably as a receptor for selective autophagosomal degradation of ubiquitinated targets

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
NBR1_like cd14947
Functionally uncharacterized domain in neighbor of Brca1 Gene 1 and related proteins; NBR1 has ...
 188-298 4.53e-45

Functionally uncharacterized domain in neighbor of Brca1 Gene 1 and related proteins; NBR1 has been characterized as a specific late endosomal protein, which might play a role in receptor (RTK) trafficking. Specifically, NBR1 was shown to inhibit ligand-mediated receptor internalization from the cell surface. The region covered by this domain model may be involved in that function, as the C-terminus (which contains a UBA domain) was shown to be essential but not sufficient by itself. In an earlier yeast two-hybrid study, the region in mouse NBR1 covered by this domain has been shown to interact with CIB (calcium and integrin-binding protein) and FEZ1 (fasciculation and elongation protein zeta-1). Thus, NBR1 may play a role in cellular signalling pathways and possibly in neural development.


:

Pssm-ID: 271343 [Multi-domain]  Cd Length: 112  Bit Score: 157.07  E-value: 4.53e-45
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1622879920 188 PMLSAAFV-DENLPDGTHLQPGTKFIKHWRMKNTGNVKWSADTKLKFMWGNLTLASTeKKDVLVPCLKAGHVGVVSVEFI 266
Cdd:cd14947     1 PGLSAAFVeDVTIPDGTVVPPGTEFTKTWRLRNTGTVPWPAGTLLRFVGGDPGLLSA-PERVPVPSTVPGEEVDVSVELR 79

                          90       100       110
                  ....*....|....*....|....*....|...
gi 1622879920 267 APALEGTYTSHWRLSHK-GQQFGPRVWCSIIVD 298
Cdd:cd14947    80 APSEPGRYISYWRLVTPdGLPFGDRLWVDITVE 112
UBA_NBR1 cd14319
UBA domain of next to BRCA1 gene 1 protein (NBR1) and similar proteins; NBR1, also called cell ...
 733-771 1.44e-17

UBA domain of next to BRCA1 gene 1 protein (NBR1) and similar proteins; NBR1, also called cell migration-inducing gene 19 protein, membrane component chromosome 17 surface marker 2, neighbor of BRCA1 gene 1 protein, or protein 1A1-3B, is a scaffold protein that may be involved in signal transmission downstream of the serine/protein kinase from the giant muscle protein titin. Moreover, NBR1 functions as an autophagic receptor for ubiquitinated cargo. It interacts with ATG8-family proteins for its degradation by autophagy. NBR1 contains an N-terminal Phox and Bem1p (PB1) domain that plays a critical role in mediating protein-protein interactions with both titin kinase and with another scaffold protein, p62. NBR1 also has a LC3-interaction region (LIR) and a ubiquitin-associated (UBA) domain. The LIR is required for the autophagic clearance of NBR1. UBA domain is responsible for the ubiquitin binding which is necessary for the puromycin-induced formation of ubiquitinated protein aggregates.


:

Pssm-ID: 270504  Cd Length: 39  Bit Score: 76.70  E-value: 1.44e-17
                          10        20        30
                  ....*....|....*....|....*....|....*....
gi 1622879920 733 QTAALMAHLFEMGFCDRQLNLRLLKKHNYNILQVVTELL 771
Cdd:cd14319     1 EWDSELEQLFEMGFTDRDLNQELLKKHNGDLDRVVDELL 39
ZZ super family cl00295
Zinc finger, ZZ type. Zinc finger present in dystrophin, CBP/p300 and many other proteins. The ...
 51-78 6.12e-05

Zinc finger, ZZ type. Zinc finger present in dystrophin, CBP/p300 and many other proteins. The ZZ motif coordinates one or two zinc ions and most likely participates in ligand binding or molecular scaffolding. Many proteins containing ZZ motifs have other zinc-binding motifs as well, and the majority serve as scaffolds in pathways involving acetyltransferase, protein kinase, or ubiqitin-related activity. ZZ proteins can be grouped into the following functional classes: chromatin modifying, cytoskeletal scaffolding, ubiquitin binding or conjugating, and membrane receptor or ion-channel modifying proteins.


The actual alignment was detected with superfamily member cd02340:

Pssm-ID: 412288  Cd Length: 43  Bit Score: 40.71  E-value: 6.12e-05
                          10        20
                  ....*....|....*....|....*...
gi 1622879920  51 SLCPSYNICEDCEAGPySHdTNHVLLKL 78
Cdd:cd02340    18 LVCPDYDLCESCEAKG-VH-PEHAMLKI 43
EnvC super family cl34844
Septal ring factor EnvC, activator of murein hydrolases AmiA and AmiB [Cell cycle control, ...
 98-147 4.20e-03

Septal ring factor EnvC, activator of murein hydrolases AmiA and AmiB [Cell cycle control, cell division, chromosome partitioning];


The actual alignment was detected with superfamily member COG4942:

Pssm-ID: 443969 [Multi-domain]  Cd Length: 377  Bit Score: 40.13  E-value: 4.20e-03
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|
gi 1622879920  98 RLPAALEQVRLQKQVDKNFLKAEKQRLRAEKKQRKAEVKELKKQLKLHRK 147
Cdd:COG4942   164 ALRAELEAERAELEALLAELEEERAALEALKAERQKLLARLEKELAELAA 213
 
Name Accession Description Interval E-value
NBR1_like cd14947
Functionally uncharacterized domain in neighbor of Brca1 Gene 1 and related proteins; NBR1 has ...
 188-298 4.53e-45

Functionally uncharacterized domain in neighbor of Brca1 Gene 1 and related proteins; NBR1 has been characterized as a specific late endosomal protein, which might play a role in receptor (RTK) trafficking. Specifically, NBR1 was shown to inhibit ligand-mediated receptor internalization from the cell surface. The region covered by this domain model may be involved in that function, as the C-terminus (which contains a UBA domain) was shown to be essential but not sufficient by itself. In an earlier yeast two-hybrid study, the region in mouse NBR1 covered by this domain has been shown to interact with CIB (calcium and integrin-binding protein) and FEZ1 (fasciculation and elongation protein zeta-1). Thus, NBR1 may play a role in cellular signalling pathways and possibly in neural development.


Pssm-ID: 271343 [Multi-domain]  Cd Length: 112  Bit Score: 157.07  E-value: 4.53e-45
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1622879920 188 PMLSAAFV-DENLPDGTHLQPGTKFIKHWRMKNTGNVKWSADTKLKFMWGNLTLASTeKKDVLVPCLKAGHVGVVSVEFI 266
Cdd:cd14947     1 PGLSAAFVeDVTIPDGTVVPPGTEFTKTWRLRNTGTVPWPAGTLLRFVGGDPGLLSA-PERVPVPSTVPGEEVDVSVELR 79

                          90       100       110
                  ....*....|....*....|....*....|...
gi 1622879920 267 APALEGTYTSHWRLSHK-GQQFGPRVWCSIIVD 298
Cdd:cd14947    80 APSEPGRYISYWRLVTPdGLPFGDRLWVDITVE 112
N_BRCA1_IG pfam16158
Ig-like domain from next to BRCA1 gene; Domain present between positions 365-485 in the human ...
 198-297 8.47e-42

Ig-like domain from next to BRCA1 gene; Domain present between positions 365-485 in the human next to BRCA1 gene 1 protein Q14596 (NBR1_HUMAN) Distant homology and fold prediction analysis suggests this domain has an immunoglobulin like fold and is distantly homologous to domains involved in cell adhesion such as CARDB (PF07705). JCSG construct was crystalized confirming the domain boundaries


Pssm-ID: 465035  Cd Length: 98  Bit Score: 147.34  E-value: 8.47e-42
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1622879920 198 NLPDGTHLQPGTKFIKHWRMKNTGNVKWSADTKLKFMWGNLTLASTekkDVLVPCLKAGHVGVVSVEFIAPALEGTYTSH 277
Cdd:pfam16158   1 TIPDGTVVPPGTEFTKTWRLRNSGNVAWPAGTSLRFVGGDNMGNVS---TVLVPPVAPGEEVDVSVELKAPSRPGRYISY 77

                          90       100
                  ....*....|....*....|.
gi 1622879920 278 WRLSHK-GQQFGPRVWCSIIV 297
Cdd:pfam16158  78 WRLKTPdGTPFGDRLWVDITV 98
UBA_NBR1 cd14319
UBA domain of next to BRCA1 gene 1 protein (NBR1) and similar proteins; NBR1, also called cell ...
 733-771 1.44e-17

UBA domain of next to BRCA1 gene 1 protein (NBR1) and similar proteins; NBR1, also called cell migration-inducing gene 19 protein, membrane component chromosome 17 surface marker 2, neighbor of BRCA1 gene 1 protein, or protein 1A1-3B, is a scaffold protein that may be involved in signal transmission downstream of the serine/protein kinase from the giant muscle protein titin. Moreover, NBR1 functions as an autophagic receptor for ubiquitinated cargo. It interacts with ATG8-family proteins for its degradation by autophagy. NBR1 contains an N-terminal Phox and Bem1p (PB1) domain that plays a critical role in mediating protein-protein interactions with both titin kinase and with another scaffold protein, p62. NBR1 also has a LC3-interaction region (LIR) and a ubiquitin-associated (UBA) domain. The LIR is required for the autophagic clearance of NBR1. UBA domain is responsible for the ubiquitin binding which is necessary for the puromycin-induced formation of ubiquitinated protein aggregates.


Pssm-ID: 270504  Cd Length: 39  Bit Score: 76.70  E-value: 1.44e-17
                          10        20        30
                  ....*....|....*....|....*....|....*....
gi 1622879920 733 QTAALMAHLFEMGFCDRQLNLRLLKKHNYNILQVVTELL 771
Cdd:cd14319     1 EWDSELEQLFEMGFTDRDLNQELLKKHNGDLDRVVDELL 39
ZZ_NBR1_like cd02340
Zinc finger, ZZ type. Zinc finger present in Drosophila ref(2)P, NBR1, Human sequestosome 1 ...
 51-78 6.12e-05

Zinc finger, ZZ type. Zinc finger present in Drosophila ref(2)P, NBR1, Human sequestosome 1 and related proteins. The ZZ motif coordinates two zinc ions and most likely participates in ligand binding or molecular scaffolding. Drosophila ref(2)P appears to control the multiplication of sigma rhabdovirus. NBR1 (Next to BRCA1 gene 1 protein) interacts with fasciculation and elongation protein zeta-1 (FEZ1) and calcium and integrin binding protein (CIB), and may function in cell signalling pathways. Sequestosome 1 is a phosphotyrosine independent ligand for the Lck SH2 domain and binds noncovalently to ubiquitin via its UBA domain.


Pssm-ID: 239080  Cd Length: 43  Bit Score: 40.71  E-value: 6.12e-05
                          10        20
                  ....*....|....*....|....*...
gi 1622879920  51 SLCPSYNICEDCEAGPySHdTNHVLLKL 78
Cdd:cd02340    18 LVCPDYDLCESCEAKG-VH-PEHAMLKI 43
ZnF_ZZ smart00291
Zinc-binding domain, present in Dystrophin, CREB-binding protein; Putative zinc-binding domain ...
 43-74 2.84e-03

Zinc-binding domain, present in Dystrophin, CREB-binding protein; Putative zinc-binding domain present in dystrophin-like proteins, and CREB-binding protein/p300 homologues. The ZZ in dystrophin appears to bind calmodulin. A missense mutation of one of the conserved cysteines in dystrophin results in a patient with Duchenne muscular dystrophy.


Pssm-ID: 197633 [Multi-domain]  Cd Length: 44  Bit Score: 36.26  E-value: 2.84e-03
                           10        20        30
                   ....*....|....*....|....*....|...
gi 1622879920   43 CIVPF-FTHSLCPSYNICEDCEAGPySHDTNHV 74
Cdd:smart00291  13 PIVGVrYHCLVCPDYDLCQSCFAKG-SAGGEHS 44
EnvC COG4942
Septal ring factor EnvC, activator of murein hydrolases AmiA and AmiB [Cell cycle control, ...
 98-147 4.20e-03

Septal ring factor EnvC, activator of murein hydrolases AmiA and AmiB [Cell cycle control, cell division, chromosome partitioning];


Pssm-ID: 443969 [Multi-domain]  Cd Length: 377  Bit Score: 40.13  E-value: 4.20e-03
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|
gi 1622879920  98 RLPAALEQVRLQKQVDKNFLKAEKQRLRAEKKQRKAEVKELKKQLKLHRK 147
Cdd:COG4942   164 ALRAELEAERAELEALLAELEEERAALEALKAERQKLLARLEKELAELAA 213
 
Name Accession Description Interval E-value
NBR1_like cd14947
Functionally uncharacterized domain in neighbor of Brca1 Gene 1 and related proteins; NBR1 has ...
 188-298 4.53e-45

Functionally uncharacterized domain in neighbor of Brca1 Gene 1 and related proteins; NBR1 has been characterized as a specific late endosomal protein, which might play a role in receptor (RTK) trafficking. Specifically, NBR1 was shown to inhibit ligand-mediated receptor internalization from the cell surface. The region covered by this domain model may be involved in that function, as the C-terminus (which contains a UBA domain) was shown to be essential but not sufficient by itself. In an earlier yeast two-hybrid study, the region in mouse NBR1 covered by this domain has been shown to interact with CIB (calcium and integrin-binding protein) and FEZ1 (fasciculation and elongation protein zeta-1). Thus, NBR1 may play a role in cellular signalling pathways and possibly in neural development.


Pssm-ID: 271343 [Multi-domain]  Cd Length: 112  Bit Score: 157.07  E-value: 4.53e-45
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1622879920 188 PMLSAAFV-DENLPDGTHLQPGTKFIKHWRMKNTGNVKWSADTKLKFMWGNLTLASTeKKDVLVPCLKAGHVGVVSVEFI 266
Cdd:cd14947     1 PGLSAAFVeDVTIPDGTVVPPGTEFTKTWRLRNTGTVPWPAGTLLRFVGGDPGLLSA-PERVPVPSTVPGEEVDVSVELR 79

                          90       100       110
                  ....*....|....*....|....*....|...
gi 1622879920 267 APALEGTYTSHWRLSHK-GQQFGPRVWCSIIVD 298
Cdd:cd14947    80 APSEPGRYISYWRLVTPdGLPFGDRLWVDITVE 112
N_BRCA1_IG pfam16158
Ig-like domain from next to BRCA1 gene; Domain present between positions 365-485 in the human ...
 198-297 8.47e-42

Ig-like domain from next to BRCA1 gene; Domain present between positions 365-485 in the human next to BRCA1 gene 1 protein Q14596 (NBR1_HUMAN) Distant homology and fold prediction analysis suggests this domain has an immunoglobulin like fold and is distantly homologous to domains involved in cell adhesion such as CARDB (PF07705). JCSG construct was crystalized confirming the domain boundaries


Pssm-ID: 465035  Cd Length: 98  Bit Score: 147.34  E-value: 8.47e-42
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1622879920 198 NLPDGTHLQPGTKFIKHWRMKNTGNVKWSADTKLKFMWGNLTLASTekkDVLVPCLKAGHVGVVSVEFIAPALEGTYTSH 277
Cdd:pfam16158   1 TIPDGTVVPPGTEFTKTWRLRNSGNVAWPAGTSLRFVGGDNMGNVS---TVLVPPVAPGEEVDVSVELKAPSRPGRYISY 77

                          90       100
                  ....*....|....*....|.
gi 1622879920 278 WRLSHK-GQQFGPRVWCSIIV 297
Cdd:pfam16158  78 WRLKTPdGTPFGDRLWVDITV 98
UBA_NBR1 cd14319
UBA domain of next to BRCA1 gene 1 protein (NBR1) and similar proteins; NBR1, also called cell ...
 733-771 1.44e-17

UBA domain of next to BRCA1 gene 1 protein (NBR1) and similar proteins; NBR1, also called cell migration-inducing gene 19 protein, membrane component chromosome 17 surface marker 2, neighbor of BRCA1 gene 1 protein, or protein 1A1-3B, is a scaffold protein that may be involved in signal transmission downstream of the serine/protein kinase from the giant muscle protein titin. Moreover, NBR1 functions as an autophagic receptor for ubiquitinated cargo. It interacts with ATG8-family proteins for its degradation by autophagy. NBR1 contains an N-terminal Phox and Bem1p (PB1) domain that plays a critical role in mediating protein-protein interactions with both titin kinase and with another scaffold protein, p62. NBR1 also has a LC3-interaction region (LIR) and a ubiquitin-associated (UBA) domain. The LIR is required for the autophagic clearance of NBR1. UBA domain is responsible for the ubiquitin binding which is necessary for the puromycin-induced formation of ubiquitinated protein aggregates.


Pssm-ID: 270504  Cd Length: 39  Bit Score: 76.70  E-value: 1.44e-17
                          10        20        30
                  ....*....|....*....|....*....|....*....
gi 1622879920 733 QTAALMAHLFEMGFCDRQLNLRLLKKHNYNILQVVTELL 771
Cdd:cd14319     1 EWDSELEQLFEMGFTDRDLNQELLKKHNGDLDRVVDELL 39
ZZ_NBR1_like cd02340
Zinc finger, ZZ type. Zinc finger present in Drosophila ref(2)P, NBR1, Human sequestosome 1 ...
 51-78 6.12e-05

Zinc finger, ZZ type. Zinc finger present in Drosophila ref(2)P, NBR1, Human sequestosome 1 and related proteins. The ZZ motif coordinates two zinc ions and most likely participates in ligand binding or molecular scaffolding. Drosophila ref(2)P appears to control the multiplication of sigma rhabdovirus. NBR1 (Next to BRCA1 gene 1 protein) interacts with fasciculation and elongation protein zeta-1 (FEZ1) and calcium and integrin binding protein (CIB), and may function in cell signalling pathways. Sequestosome 1 is a phosphotyrosine independent ligand for the Lck SH2 domain and binds noncovalently to ubiquitin via its UBA domain.


Pssm-ID: 239080  Cd Length: 43  Bit Score: 40.71  E-value: 6.12e-05
                          10        20
                  ....*....|....*....|....*...
gi 1622879920  51 SLCPSYNICEDCEAGPySHdTNHVLLKL 78
Cdd:cd02340    18 LVCPDYDLCESCEAKG-VH-PEHAMLKI 43
ZnF_ZZ smart00291
Zinc-binding domain, present in Dystrophin, CREB-binding protein; Putative zinc-binding domain ...
 43-74 2.84e-03

Zinc-binding domain, present in Dystrophin, CREB-binding protein; Putative zinc-binding domain present in dystrophin-like proteins, and CREB-binding protein/p300 homologues. The ZZ in dystrophin appears to bind calmodulin. A missense mutation of one of the conserved cysteines in dystrophin results in a patient with Duchenne muscular dystrophy.


Pssm-ID: 197633 [Multi-domain]  Cd Length: 44  Bit Score: 36.26  E-value: 2.84e-03
                           10        20        30
                   ....*....|....*....|....*....|...
gi 1622879920   43 CIVPF-FTHSLCPSYNICEDCEAGPySHDTNHV 74
Cdd:smart00291  13 PIVGVrYHCLVCPDYDLCQSCFAKG-SAGGEHS 44
EnvC COG4942
Septal ring factor EnvC, activator of murein hydrolases AmiA and AmiB [Cell cycle control, ...
 98-147 4.20e-03

Septal ring factor EnvC, activator of murein hydrolases AmiA and AmiB [Cell cycle control, cell division, chromosome partitioning];


Pssm-ID: 443969 [Multi-domain]  Cd Length: 377  Bit Score: 40.13  E-value: 4.20e-03
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|
gi 1622879920  98 RLPAALEQVRLQKQVDKNFLKAEKQRLRAEKKQRKAEVKELKKQLKLHRK 147
Cdd:COG4942   164 ALRAELEAERAELEALLAELEEERAALEALKAERQKLLARLEKELAELAA 213
 
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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