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Conserved domains on  [gi|306991837|pdb|3NIT|A]
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Chain A, E3 ubiquitin-protein ligase UBR1

Protein Classification

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
UBR-box_UBR1_like cd19672
UBR-box found in ubiquitin-protein ligases, E3-alpha-1 (UBR1), E3-alpha-2 (UBR2), and similar ...
 19-86 1.26e-22

UBR-box found in ubiquitin-protein ligases, E3-alpha-1 (UBR1), E3-alpha-2 (UBR2), and similar proteins; This family includes UBR1 and UBR2 (both EC 2.3.2.27). Both UBR1 (also called E3alpha-I or N-recognin-1) and UBR2 (also called E3-alpha-II or N-recognin-2), are RING-type E3 ubiquitin ligases of the Arg/N-end rule degradation pathway. They recognize and bind to proteins bearing specific N-terminal residues that are destabilizing according to the N-end rule, leading to their ubiquitination and subsequent degradation. Deficiency of UBR1 causes Johanson-Blizzard syndrome. UBR2 is associated with chromatin and controls chromatin dynamics and gene expression in both germ cells and somatic cells. It plays an important role in spermatogenesis.


:

Pssm-ID: 439070  Cd Length: 70  Bit Score: 82.68  E-value: 1.26e-22
                       10        20        30        40        50        60
               ....*....|....*....|....*....|....*....|....*....|....*....|....*...
3NIT_A      19 CGRKFKIGEPLYRCHECGCDDTCVLCIHCFNPKDHVNHHVCTDICTefTSGICDCGDEEAWNSPLHCK 86
Cdd:cd19672  2 CGRVFKPGEPTYSCLDCGVDPTCVLCEDCFLNSEHVNHNYKMSISS--GGGCCDCGDPEAWKSHSFCS 67
 
Name Accession Description Interval E-value
UBR-box_UBR1_like cd19672
UBR-box found in ubiquitin-protein ligases, E3-alpha-1 (UBR1), E3-alpha-2 (UBR2), and similar ...
 19-86 1.26e-22

UBR-box found in ubiquitin-protein ligases, E3-alpha-1 (UBR1), E3-alpha-2 (UBR2), and similar proteins; This family includes UBR1 and UBR2 (both EC 2.3.2.27). Both UBR1 (also called E3alpha-I or N-recognin-1) and UBR2 (also called E3-alpha-II or N-recognin-2), are RING-type E3 ubiquitin ligases of the Arg/N-end rule degradation pathway. They recognize and bind to proteins bearing specific N-terminal residues that are destabilizing according to the N-end rule, leading to their ubiquitination and subsequent degradation. Deficiency of UBR1 causes Johanson-Blizzard syndrome. UBR2 is associated with chromatin and controls chromatin dynamics and gene expression in both germ cells and somatic cells. It plays an important role in spermatogenesis.


Pssm-ID: 439070  Cd Length: 70  Bit Score: 82.68  E-value: 1.26e-22
                       10        20        30        40        50        60
               ....*....|....*....|....*....|....*....|....*....|....*....|....*...
3NIT_A      19 CGRKFKIGEPLYRCHECGCDDTCVLCIHCFNPKDHVNHHVCTDICTefTSGICDCGDEEAWNSPLHCK 86
Cdd:cd19672  2 CGRVFKPGEPTYSCLDCGVDPTCVLCEDCFLNSEHVNHNYKMSISS--GGGCCDCGDPEAWKSHSFCS 67
ZnF_UBR1 smart00396
Putative zinc finger in N-recognin, a recognition component of the N-end rule pathway; Domain ...
 17-89 8.14e-21

Putative zinc finger in N-recognin, a recognition component of the N-end rule pathway; Domain is involved in recognition of N-end rule substrates in yeast Ubr1p


Pssm-ID: 197698  Cd Length: 71  Bit Score: 77.87  E-value: 8.14e-21
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
3NIT_A         17 RNCGRKFKIGEPLYRCHECGCDDTCVLCIHCFNPKDHVNHHVctDICTEFTSGICDCGDEEAWNSPLHCKAEE 89
Cdd:smart00396  1 DVCGYKFTGGEVIYRCKTCGLDPTCVLCSDCFRPSCHKGHDV--SLKTSRGSGICDCGDKEAWNEDLKCKAHE 71
zf-UBR pfam02207
Putative zinc finger in N-recognin (UBR box); This region is found in E3 ubiquitin ligases ...
 19-86 1.82e-18

Putative zinc finger in N-recognin (UBR box); This region is found in E3 ubiquitin ligases that recognize N-recognins.


Pssm-ID: 460491  Cd Length: 68  Bit Score: 71.94  E-value: 1.82e-18
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*...
3NIT_A        19 CGRKFKIGEPLYRCHECGCDDTCVLCIHCFNPKDHVNHHVCTDICTefTSGICDCGDEEAWNSPLHCK 86
Cdd:pfam02207  1 CGYVFKKGQPVYRCLTCSLDPTCVICYSCFINCDHEGHDYELFTSR--GGGCCDCGDPEAWKEEGFCK 66
 
Name Accession Description Interval E-value
UBR-box_UBR1_like cd19672
UBR-box found in ubiquitin-protein ligases, E3-alpha-1 (UBR1), E3-alpha-2 (UBR2), and similar ...
 19-86 1.26e-22

UBR-box found in ubiquitin-protein ligases, E3-alpha-1 (UBR1), E3-alpha-2 (UBR2), and similar proteins; This family includes UBR1 and UBR2 (both EC 2.3.2.27). Both UBR1 (also called E3alpha-I or N-recognin-1) and UBR2 (also called E3-alpha-II or N-recognin-2), are RING-type E3 ubiquitin ligases of the Arg/N-end rule degradation pathway. They recognize and bind to proteins bearing specific N-terminal residues that are destabilizing according to the N-end rule, leading to their ubiquitination and subsequent degradation. Deficiency of UBR1 causes Johanson-Blizzard syndrome. UBR2 is associated with chromatin and controls chromatin dynamics and gene expression in both germ cells and somatic cells. It plays an important role in spermatogenesis.


Pssm-ID: 439070  Cd Length: 70  Bit Score: 82.68  E-value: 1.26e-22
                       10        20        30        40        50        60
               ....*....|....*....|....*....|....*....|....*....|....*....|....*...
3NIT_A      19 CGRKFKIGEPLYRCHECGCDDTCVLCIHCFNPKDHVNHHVCTDICTefTSGICDCGDEEAWNSPLHCK 86
Cdd:cd19672  2 CGRVFKPGEPTYSCLDCGVDPTCVLCEDCFLNSEHVNHNYKMSISS--GGGCCDCGDPEAWKSHSFCS 67
ZnF_UBR1 smart00396
Putative zinc finger in N-recognin, a recognition component of the N-end rule pathway; Domain ...
 17-89 8.14e-21

Putative zinc finger in N-recognin, a recognition component of the N-end rule pathway; Domain is involved in recognition of N-end rule substrates in yeast Ubr1p


Pssm-ID: 197698  Cd Length: 71  Bit Score: 77.87  E-value: 8.14e-21
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
3NIT_A         17 RNCGRKFKIGEPLYRCHECGCDDTCVLCIHCFNPKDHVNHHVctDICTEFTSGICDCGDEEAWNSPLHCKAEE 89
Cdd:smart00396  1 DVCGYKFTGGEVIYRCKTCGLDPTCVLCSDCFRPSCHKGHDV--SLKTSRGSGICDCGDKEAWNEDLKCKAHE 71
zf-UBR pfam02207
Putative zinc finger in N-recognin (UBR box); This region is found in E3 ubiquitin ligases ...
 19-86 1.82e-18

Putative zinc finger in N-recognin (UBR box); This region is found in E3 ubiquitin ligases that recognize N-recognins.


Pssm-ID: 460491  Cd Length: 68  Bit Score: 71.94  E-value: 1.82e-18
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*...
3NIT_A        19 CGRKFKIGEPLYRCHECGCDDTCVLCIHCFNPKDHVNHHVCTDICTefTSGICDCGDEEAWNSPLHCK 86
Cdd:pfam02207  1 CGYVFKKGQPVYRCLTCSLDPTCVICYSCFINCDHEGHDYELFTSR--GGGCCDCGDPEAWKEEGFCK 66
UBR-box_UBR3 cd19673
UBR-box found in ubiquitin-protein ligase E3-alpha-3 (UBR3) and similar proteins; UBR3 (EC 2.3. ...
 19-86 1.72e-14

UBR-box found in ubiquitin-protein ligase E3-alpha-3 (UBR3) and similar proteins; UBR3 (EC 2.3.2.27), also called ubiquitin-protein ligase E3-alpha-III (E3alpha-III), or N-recognin-3, or zinc finger protein 650, is a RING-type E3 ubiquitin ligase with a function in olfactory and other sensory systems. It negatively regulates the mono-ubiquitination of non-muscle Myosin II, a protein associated with hearing loss in humans. It acts as a positive regulator of Hedgehog (Hh) signaling in Drosophila and vertebrates. It also plays an important role for genome stability by controlling cellular levels of the essential DNA repair protein APE1.


Pssm-ID: 439071  Cd Length: 72  Bit Score: 61.82  E-value: 1.72e-14
                       10        20        30        40        50        60
               ....*....|....*....|....*....|....*....|....*....|....*....|....*...
3NIT_A      19 CGRKFKIGEPLYRCHECGCDDTCVLCIHCFNPKDHVNHHVctDICTEFTSGICDCGDEEAWNSPLHCK 86
Cdd:cd19673  4 CGRVWKAGDIAYRCRTCGLDPTCVICADCFQAGDHEGHDY--SMYRSSAGGCCDCGDPEAWKPSGFCS 69
UBR-box_UBR2 cd19679
UBR-box found in ubiquitin-protein ligase E3-alpha-2 (UBR2) and similar proteins; UBR2 (EC 2.3. ...
 19-89 1.50e-13

UBR-box found in ubiquitin-protein ligase E3-alpha-2 (UBR2) and similar proteins; UBR2 (EC 2.3.2.27), also called ubiquitin-protein ligase E3-alpha-II (E3alpha-II), or N-recognin-2, is a RING-type E3 ubiquitin ligase of the Arg/N-end rule degradation pathway. It recognizes and binds to proteins bearing specific N-terminal residues that are destabilizing according to the N-end rule, leading to their ubiquitination and subsequent degradation. UBR2 is associated with chromatin and controls chromatin dynamics and gene expression in both germ cells and somatic cells. It plays an important role in spermatogenesis.


Pssm-ID: 439077  Cd Length: 70  Bit Score: 59.55  E-value: 1.50e-13
                       10        20        30        40        50        60        70
               ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
3NIT_A      19 CGRKFKIGEPLYRCHECGCDDTCVLCIHCFNPKDHVNHHVctDICTEFTSGICDCGDEEAWNSPLHCKAEE 89
Cdd:cd19679  2 CGRVFKVGEPTYSCRDCAVDPTCVLCMECFLGSIHRDHRY--RMTTSGGGGFCDCGDTEAWKEGPYCQKHE 70
UBR-box_UBR1 cd19678
UBR-box found in ubiquitin-protein ligase E3-alpha-1 (UBR1) and similar proteins; UBR1 (EC 2.3. ...
 19-89 1.90e-11

UBR-box found in ubiquitin-protein ligase E3-alpha-1 (UBR1) and similar proteins; UBR1 (EC 2.3.2.27), also called ubiquitin-protein ligase E3-alpha-I (E3alpha-I), or N-recognin-1, is a RING-type E3 ubiquitin ligase of the Arg/N-end rule degradation pathway. It recognizes and binds to proteins bearing specific N-terminal residues that are destabilizing according to the N-end rule, leading to their ubiquitination and subsequent degradation. Deficiency of UBR1 causes Johanson-Blizzard syndrome.


Pssm-ID: 439076  Cd Length: 71  Bit Score: 54.14  E-value: 1.90e-11
                       10        20        30        40        50        60        70
               ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
3NIT_A      19 CGRKFKIGEPLYRCHECGCDDTCVLCIHCFNPKDHVNHHVctDICTEFTSGICDCGDEEAWNSPLHCKAEE 89
Cdd:cd19678  2 CGRVFKGGETTYSCRDCAIDPTCVLCMDCFQNSVHKNHRY--KMHSSTGGGFCDCGDTEAWKTGPFCVKHE 70
UBR-box_UBR1_2_3 cd19670
UBR-box found in ubiquitin-protein ligase E3-alpha-1 (UBR1), E3-alpha-2 (UBR2), E3-alpha-3 ...
 19-86 1.93e-11

UBR-box found in ubiquitin-protein ligase E3-alpha-1 (UBR1), E3-alpha-2 (UBR2), E3-alpha-3 (UBR3) and similar proteins; This family includes UBR1, UBR2, and UBR3 (all belonging to EC 2.3.2.27). Both UBR1 (also called E3alpha-I or N-recognin-1) and UBR2 (also called E3-alpha-II or N-recognin-2), are RING-type E3 ubiquitin ligases of the Arg/N-end rule degradation pathway. They recognize and bind to proteins bearing specific N-terminal residues that are destabilizing according to the N-end rule, leading to their ubiquitination and subsequent degradation. Deficiency of UBR1 causes Johanson-Blizzard syndrome. UBR2 is associated with chromatin and controls chromatin dynamics and gene expression in both germ cells and somatic cells. It plays an important role in spermatogenesis. UBR3, also called ubiquitin-protein ligase E3-alpha-III (E3alpha-III), or N-recognin-3, or zinc finger protein 650, is a RING-type E3 ubiquitin ligase with a function in olfactory and other sensory systems. It negatively regulates the mono-ubiquitination of non-muscle Myosin II, a protein associated with hearing loss in humans. It acts as a positive regulator of Hedgehog (Hh) signaling in Drosophila and vertebrates. It also plays an important role for genome stability by controlling cellular levels of the essential DNA repair protein APE1.


Pssm-ID: 439068  Cd Length: 69  Bit Score: 54.29  E-value: 1.93e-11
                       10        20        30        40        50        60
               ....*....|....*....|....*....|....*....|....*....|....*....|....*...
3NIT_A      19 CGRKFKIGEPLYRCHECGCDDTCVLCIHCFNPKDHVNHHVctDICTEFTSGICDCGDEEAWNSPLHCK 86
Cdd:cd19670  1 CGKSLKKGELYYRCLDCSLDPSSCICEECFLNGNHEGHNY--SLRTSSGGGVCDCGDSEAWKPSGFCS 66
UBR-box cd19669
UBR-box found in UBR family of E3 ubiquitin ligases (UBR1-7) and similar proteins; The UBR-box ...
 22-81 2.58e-04

UBR-box found in UBR family of E3 ubiquitin ligases (UBR1-7) and similar proteins; The UBR-box is a 70-residue zinc finger domain present in the UBR family of E3 ubiquitin ligases (UBR1-7, also called N-recognins) that directly binds N-terminal degradation signals (N-degrons) in substrate proteins to facilitate substrate ubiquitination and proteasomal degradation via the ubiquitin-proteasome system (UPS). UBR1 and UBR2 bind all type-1 and type-2 N-degrons. They mediate ubiquitination and proteolysis of short-lived regulators and misfolded proteins. UBR4 binds both type-1 and type-2 N-degrons and is involved in proteome-wide turnover of cell surface proteins. UBR5 preferentially binds type-1 N-degrons and mediates ubiquitination of short-lived proteins. UBR3, UBR6 (also called FBXO11), and UBR7 may not bind efficiently to N-degrons. UBR3 is a RING-type E3 ubiquitin ligase with a function in olfactory and other sensory systems. UBR6 is an E3 ubiquitin ligase and a type II methyltransferase, which functions as a key regulator of tumor initiation and progression. It does not bind N-terminal signals. UBR7 is a RING-type E3 ubiquitin ligase that may play an important role in spermiogenesis and fertilization.


Pssm-ID: 439067  Cd Length: 66  Bit Score: 35.95  E-value: 2.58e-04
                       10        20        30        40        50        60
               ....*....|....*....|....*....|....*....|....*....|....*....|
3NIT_A      22 KFKIGEPLYRCHECGCDDTCVLCIHCFNpKDHVNHHVctdICTEFTSGICDCGDEEAWNS 81
Cdd:cd19669  5 ITGINQVMYHCLTCSLDDNSGICEECAK-KCHEGHDV---VYIGSGSGFCDCGDSSAKSG 60
 
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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