NCBI Home Page NCBI Site Search page NCBI Guide that lists and describes the NCBI resources
Conserved domains on  [gi|907095739|gb|KND01393|]
View 

hypothetical protein SPPG_03204, partial [Spizellomyces punctatus DAOM BR117]

Protein Classification

NFACT-C domain-containing protein( domain architecture ID 10571145)

NFACT-C domain-containing protein

Graphical summary

 Zoom to residue level

show extra options »

Show site features     Horizontal zoom: ×

List of domain hits

 Name Accession Description Interval E-value
NFACT-C pfam11923
NFACT protein C-terminal domain; This is the C-terminal domain of the NFACT (NEMF, FbpA, ...
 390-517 1.43e-40

NFACT protein C-terminal domain; This is the C-terminal domain of the NFACT (NEMF, FbpA, Caliban, and Tae2) proteins involved in the ribosomal quality control pathway. This context is conserved in archaea and eukaryotes, but NFACT proteins in bacteria lack the NFACT-C domain.


:

Pssm-ID: 432191  Cd Length: 104  Bit Score: 141.89  E-value: 1.43e-40
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 907095739  390 EESNLTFLDSLTGQPHPADILLHAIPVCAPWSALQRYKYKVKLLPGSLKKGKATKSAVSAFVAIATDEESRavskrgrgr 469
Cdd:pfam11923   1 EANYLTLLDSLTGTPLPDDELLEAIPVCAPWAALQKYKYKVKLQPGTTKKGKAVKEILEYFLKRKVDESSR--------- 71

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....*....
gi 907095739  470 ggetnsvednDGEEqnsivdAAKRQKDLIKAIPEMELINSML-GKVKVM 517
Cdd:pfam11923  72 ----------DKER------DWPREKELIKALKDEELVNVIPvGKVKVS 104
RqcH_arch super family cl49222
ribosome rescue protein RqcH, archaeal type; This HMM (built with support from arCOG01695) ...
 3-69 2.49e-15

ribosome rescue protein RqcH, archaeal type; This HMM (built with support from arCOG01695) describes archaeal homologs of the RqcH (Ribosome-associated Quality Control H), involved in release of defective mRNAs that lack a stop codons and so are stuck on ribosomes. Conservation of a role in ribosome rescue for this archaeal family is supported by presence in a conserved gene neighborhood with homologs of Pelota/Dom34 and ABCE1/Rli1 homologs, proteins involved in splitting the ribosome into large and small subunits.


The actual alignment was detected with superfamily member NF041120:

Pssm-ID: 469043 [Multi-domain]  Cd Length: 642  Bit Score: 78.79  E-value: 2.49e-15
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 907095739   3 VCQSRAWDAKIVT-SAWWVYDHQVSKTAPTGEYLTTGSFMIRGKKNWLPPVQLVYGFGILFRVDETSV 69
Cdd:NF041120 512 ASYSKAWKAGLGSgDVYWVYPDQVSKTPPSGEYLAKGSFMIRGKRNYIRNVPLELAVGIIEYEGETRV 579
 
Name Accession Description Interval E-value
NFACT-C pfam11923
NFACT protein C-terminal domain; This is the C-terminal domain of the NFACT (NEMF, FbpA, ...
 390-517 1.43e-40

NFACT protein C-terminal domain; This is the C-terminal domain of the NFACT (NEMF, FbpA, Caliban, and Tae2) proteins involved in the ribosomal quality control pathway. This context is conserved in archaea and eukaryotes, but NFACT proteins in bacteria lack the NFACT-C domain.


Pssm-ID: 432191  Cd Length: 104  Bit Score: 141.89  E-value: 1.43e-40
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 907095739  390 EESNLTFLDSLTGQPHPADILLHAIPVCAPWSALQRYKYKVKLLPGSLKKGKATKSAVSAFVAIATDEESRavskrgrgr 469
Cdd:pfam11923   1 EANYLTLLDSLTGTPLPDDELLEAIPVCAPWAALQKYKYKVKLQPGTTKKGKAVKEILEYFLKRKVDESSR--------- 71

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....*....
gi 907095739  470 ggetnsvednDGEEqnsivdAAKRQKDLIKAIPEMELINSML-GKVKVM 517
Cdd:pfam11923  72 ----------DKER------DWPREKELIKALKDEELVNVIPvGKVKVS 104
RqcH_arch NF041120
ribosome rescue protein RqcH, archaeal type; This HMM (built with support from arCOG01695) ...
 3-69 2.49e-15

ribosome rescue protein RqcH, archaeal type; This HMM (built with support from arCOG01695) describes archaeal homologs of the RqcH (Ribosome-associated Quality Control H), involved in release of defective mRNAs that lack a stop codons and so are stuck on ribosomes. Conservation of a role in ribosome rescue for this archaeal family is supported by presence in a conserved gene neighborhood with homologs of Pelota/Dom34 and ABCE1/Rli1 homologs, proteins involved in splitting the ribosome into large and small subunits.


Pssm-ID: 469043 [Multi-domain]  Cd Length: 642  Bit Score: 78.79  E-value: 2.49e-15
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 907095739   3 VCQSRAWDAKIVT-SAWWVYDHQVSKTAPTGEYLTTGSFMIRGKKNWLPPVQLVYGFGILFRVDETSV 69
Cdd:NF041120 512 ASYSKAWKAGLGSgDVYWVYPDQVSKTPPSGEYLAKGSFMIRGKRNYIRNVPLELAVGIIEYEGETRV 579
NFACT-R_1 pfam05670
NFACT protein RNA binding domain; This domain occurs in proteins that have been annotated as ...
 1-44 3.18e-12

NFACT protein RNA binding domain; This domain occurs in proteins that have been annotated as Fibronectin/fibrinogen binding protein by similarity. This annotation comes from Swiss:O34693 where the N-terminal region is involved in this activity. It is an RNA binding domain of the NFACT (NEMF, FbpA, Caliban, and Tae2) proteins. This NFACT-R family is found in two eukaryotic gene contexts: fused to the NFACT-N and NFACT-C domains in the NFACT protein involved in the ribosomal quality control pathway which contributes to CAT-tailing and as a standalone domain. Additionally this domain contains a conserved motif D/E-X-W/Y-X-H that may be functionally important.


Pssm-ID: 428576 [Multi-domain]  Cd Length: 111  Bit Score: 63.02  E-value: 3.18e-12
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*
gi 907095739    1 MSVCQSRAWDAKI-VTSAWWVYDHQVSKTAPTGeYLTTGSFMIRG 44
Cdd:pfam05670  68 LAKANSIAWGNKQnNISVWYTPASQVSKTGPSG-YLDTGSFMFKG 111
 
Name Accession Description Interval E-value
NFACT-C pfam11923
NFACT protein C-terminal domain; This is the C-terminal domain of the NFACT (NEMF, FbpA, ...
 390-517 1.43e-40

NFACT protein C-terminal domain; This is the C-terminal domain of the NFACT (NEMF, FbpA, Caliban, and Tae2) proteins involved in the ribosomal quality control pathway. This context is conserved in archaea and eukaryotes, but NFACT proteins in bacteria lack the NFACT-C domain.


Pssm-ID: 432191  Cd Length: 104  Bit Score: 141.89  E-value: 1.43e-40
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 907095739  390 EESNLTFLDSLTGQPHPADILLHAIPVCAPWSALQRYKYKVKLLPGSLKKGKATKSAVSAFVAIATDEESRavskrgrgr 469
Cdd:pfam11923   1 EANYLTLLDSLTGTPLPDDELLEAIPVCAPWAALQKYKYKVKLQPGTTKKGKAVKEILEYFLKRKVDESSR--------- 71

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....*....
gi 907095739  470 ggetnsvednDGEEqnsivdAAKRQKDLIKAIPEMELINSML-GKVKVM 517
Cdd:pfam11923  72 ----------DKER------DWPREKELIKALKDEELVNVIPvGKVKVS 104
RqcH_arch NF041120
ribosome rescue protein RqcH, archaeal type; This HMM (built with support from arCOG01695) ...
 3-69 2.49e-15

ribosome rescue protein RqcH, archaeal type; This HMM (built with support from arCOG01695) describes archaeal homologs of the RqcH (Ribosome-associated Quality Control H), involved in release of defective mRNAs that lack a stop codons and so are stuck on ribosomes. Conservation of a role in ribosome rescue for this archaeal family is supported by presence in a conserved gene neighborhood with homologs of Pelota/Dom34 and ABCE1/Rli1 homologs, proteins involved in splitting the ribosome into large and small subunits.


Pssm-ID: 469043 [Multi-domain]  Cd Length: 642  Bit Score: 78.79  E-value: 2.49e-15
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 907095739   3 VCQSRAWDAKIVT-SAWWVYDHQVSKTAPTGEYLTTGSFMIRGKKNWLPPVQLVYGFGILFRVDETSV 69
Cdd:NF041120 512 ASYSKAWKAGLGSgDVYWVYPDQVSKTPPSGEYLAKGSFMIRGKRNYIRNVPLELAVGIIEYEGETRV 579
NFACT-R_1 pfam05670
NFACT protein RNA binding domain; This domain occurs in proteins that have been annotated as ...
 1-44 3.18e-12

NFACT protein RNA binding domain; This domain occurs in proteins that have been annotated as Fibronectin/fibrinogen binding protein by similarity. This annotation comes from Swiss:O34693 where the N-terminal region is involved in this activity. It is an RNA binding domain of the NFACT (NEMF, FbpA, Caliban, and Tae2) proteins. This NFACT-R family is found in two eukaryotic gene contexts: fused to the NFACT-N and NFACT-C domains in the NFACT protein involved in the ribosomal quality control pathway which contributes to CAT-tailing and as a standalone domain. Additionally this domain contains a conserved motif D/E-X-W/Y-X-H that may be functionally important.


Pssm-ID: 428576 [Multi-domain]  Cd Length: 111  Bit Score: 63.02  E-value: 3.18e-12
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*
gi 907095739    1 MSVCQSRAWDAKI-VTSAWWVYDHQVSKTAPTGeYLTTGSFMIRG 44
Cdd:pfam05670  68 LAKANSIAWGNKQnNISVWYTPASQVSKTGPSG-YLDTGSFMFKG 111
 
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