NCBI Home Page NCBI Site Search page NCBI Guide that lists and describes the NCBI resources
Conserved domains on  [gi|578813596|ref|XP_006715828|]
View 

homocysteine-responsive endoplasmic reticulum-resident ubiquitin-like domain member 2 protein isoform X2 [Homo sapiens]

Protein Classification

ubiquitin family protein( domain architecture ID 1000087)

ubiquitin family protein belongs to an diverse class of protein modifier and gene expression regulatory proteins that participate in a number of cellular processes

Graphical summary

 Zoom to residue level

show extra options »

Show site features     Horizontal zoom: ×

List of domain hits

 Name Accession Description Interval E-value
Ubl1_cv_Nsp3_N-like super family cl28922
first ubiquitin-like (Ubl) domain located at the N-terminus of coronavirus SARS-CoV ...
 9-51 8.46e-26

first ubiquitin-like (Ubl) domain located at the N-terminus of coronavirus SARS-CoV non-structural protein 3 (Nsp3) and related proteins; This ubiquitin-like (Ubl) domain (Ubl1) is found at the N-terminus of coronavirus Nsp3, a large multi-functional multi-domain protein which is an essential component of the replication/transcription complex (RTC). The functions of Ubl1 in CoVs are related to single-stranded RNA (ssRNA) binding and to interacting with the nucleocapsid (N) protein. SARS-CoV Ubl1 has been shown to bind ssRNA having AUA patterns, and since the 5'-UTR of the SARS-CoV genome has a number of AUA repeats, it may bind there. In mouse hepatitis virus (MHV), this Ubl1 domain binds the cognate N protein. Adjacent to Ubl1 is a Glu-rich acidic region (also referred to as hypervariable region, HVR); Ubl1 together with HVR has been called Nsp3a. Currently, the function of HVR in CoVs is unknown. This model corresponds to one of two Ubl domains in Nsp3; the other is located N-terminal to the papain-like protease (PLpro) and is not represented by this model.


The actual alignment was detected with superfamily member cd17119:

Pssm-ID: 475130  Cd Length: 77  Bit Score: 98.58  E-value: 8.46e-26
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|...
gi 578813596   9 PVTLIIKAPNQKYSDQTISCFLNWTVGKLKTHLSNVYPSKPSS 51
Cdd:cd17119    1 PVTLVIKAPNQKYDDQTINCFLNWTVEKLKSHLSKVYPSKPST 43
 
Name Accession Description Interval E-value
Ubl_HERP2 cd17119
ubiquitin-like (Ubl) domain found in homocysteine-inducible endoplasmic reticulum stress ...
 9-51 8.46e-26

ubiquitin-like (Ubl) domain found in homocysteine-inducible endoplasmic reticulum stress protein HERP2 and similar proteins; HERP2, also termed homocysteine-responsive endoplasmic reticulum-resident ubiquitin-like domain member 2 protein (HERPUD2), is an endoplasmic reticulum (ER) integral membrane protein containing an N-terminal ubiquitin-like (Ubl) domain with a beta-grasp Ubl fold. It is homologous to HERP1, and could be involved in the unfolded protein response (UPR) pathway. It regulates the ubiquitin ligase HRD1-dependent protein degradation at the ER.


Pssm-ID: 340639  Cd Length: 77  Bit Score: 98.58  E-value: 8.46e-26
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|...
gi 578813596   9 PVTLIIKAPNQKYSDQTISCFLNWTVGKLKTHLSNVYPSKPSS 51
Cdd:cd17119    1 PVTLVIKAPNQKYDDQTINCFLNWTVEKLKSHLSKVYPSKPST 43
 
Name Accession Description Interval E-value
Ubl_HERP2 cd17119
ubiquitin-like (Ubl) domain found in homocysteine-inducible endoplasmic reticulum stress ...
 9-51 8.46e-26

ubiquitin-like (Ubl) domain found in homocysteine-inducible endoplasmic reticulum stress protein HERP2 and similar proteins; HERP2, also termed homocysteine-responsive endoplasmic reticulum-resident ubiquitin-like domain member 2 protein (HERPUD2), is an endoplasmic reticulum (ER) integral membrane protein containing an N-terminal ubiquitin-like (Ubl) domain with a beta-grasp Ubl fold. It is homologous to HERP1, and could be involved in the unfolded protein response (UPR) pathway. It regulates the ubiquitin ligase HRD1-dependent protein degradation at the ER.


Pssm-ID: 340639  Cd Length: 77  Bit Score: 98.58  E-value: 8.46e-26
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|...
gi 578813596   9 PVTLIIKAPNQKYSDQTISCFLNWTVGKLKTHLSNVYPSKPSS 51
Cdd:cd17119    1 PVTLVIKAPNQKYDDQTINCFLNWTVEKLKSHLSKVYPSKPST 43
Ubl_HERP cd01790
ubiquitin-like (Ubl) domain found in homocysteine-inducible endoplasmic reticulum stress ...
 10-53 4.59e-21

ubiquitin-like (Ubl) domain found in homocysteine-inducible endoplasmic reticulum stress protein HERP; HERP is an endoplasmic reticulum (ER) integral membrane protein containing an N-terminal ubiquitin-like (Ubl) domain with a beta-grasp Ubl fold. The Ubl domain is required for the degradation of HERP itself as well as for HERP-mediated anti-apoptotic effects. HERP is induced by the ER stress response pathway and is involved in improving the balance of folding capacity and protein loads in the ER. There are two types of HERP, HERP1 and HERP2, which are encoded by the HERPUD1 and HERPUD2 genes, respectively.


Pssm-ID: 340488  Cd Length: 78  Bit Score: 85.77  E-value: 4.59e-21
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....
gi 578813596  10 VTLIIKAPNQKYSDQTISCFLNWTVGKLKTHLSNVYPSKPSSDH 53
Cdd:cd01790    1 VTLVVKSPNQRIQDLTVNCTLGWTVLKLKEHLSEVYPSKPLPED 44
Ubl_HERP1 cd17118
ubiquitin-like (Ubl) domain found in homocysteine-inducible endoplasmic reticulum stress ...
 9-49 1.42e-12

ubiquitin-like (Ubl) domain found in homocysteine-inducible endoplasmic reticulum stress protein HERP1 and similar proteins; HERP1, also termed homocysteine-responsive endoplasmic reticulum-resident ubiquitin-like domain member 1 protein (HERPUD1), or methyl methanesulfonate (MMF)-inducible fragment protein 1 (MIF1), is an endoplasmic reticulum (ER) integral membrane protein containing an N-terminal ubiquitin-like (Ubl) domain with a beta-grasp Ubl fold. HERP1 is a component of the ER quality control (ERQC) system, also called ER-associated degradation (ERAD), which is involved in ubiquitin-dependent degradation of misfolded ER proteins. It promotes the degradation of ER-resident Ca2+ channels. It is also involved in ubiquitin ligase HRD1-dependent protein degradation at the ER. Moreover, HERP1 plays a role in regulating the cell cycle, apoptosis and steroid hormone biosynthesis in mouse granulosa cells.


Pssm-ID: 340638  Cd Length: 78  Bit Score: 62.50  E-value: 1.42e-12
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|.
gi 578813596   9 PVTLIIKAPNQKYSDQTISCFLNWTVGKLKTHLSNVYPSKP 49
Cdd:cd17118    1 EVTLLIKSPSQRHEDLELRGDRGWTVRRLKTQLRREYPDHP 41
 
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.
Help | Disclaimer | Write to the Help Desk
NCBI | NLM | NIH