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Conserved domains on  [gi|22330146|ref|NP_175432|]
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immunoglobulin [Arabidopsis thaliana]

Protein Classification

Rgp1 domain-containing protein( domain architecture ID 581377)

Rgp1 domain-containing protein similar to Homo sapiens RAB6A-GEF complex partner protein 2, a component of the RIC1-RGP1 complex that acts as a guanine nucleotide exchange factor (GEF), which activates RAB6A by exchanging bound GDP for free GTP and may thereby required for efficient fusion of endosome-derived vesicles with the Golgi compartment

Gene Ontology:  GO:0031267|GO:0005085
PubMed:  23091056|10990452

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
Rgp1 super family cl24211
Rgp1; Rgp1 forms heterodimer with Ric1 (pfam07064) which associates with Golgi membranes and ...
 355-475 1.03e-10

Rgp1; Rgp1 forms heterodimer with Ric1 (pfam07064) which associates with Golgi membranes and functions as a guanyl-nucleotide exchange factor.


The actual alignment was detected with superfamily member pfam08737:

Pssm-ID: 430181  Cd Length: 414  Bit Score: 63.83  E-value: 1.03e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 22330146   355 RSYNIRMDDQVL--LRFSpknaDSTYYFSDTIGGTLTFFHEEGtrRCLEVSVTLETLETINRRFVHPSRRNSPTLT-KVQ 431
Cdd:pfam08737 295 KSYEIARNGKRIavLTLS----KPAYRLGETIDLVIDFSDARI--PCYAVTATLESFELINPSLALRSEASINRVTrKVH 368

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....*
gi 22330146   432 SDHHEVVAD-LIQTSFLFSIPTDGPMSFSTPRVSVQWILRFEFLT 475
Cdd:pfam08737 369 AEHHEICLFdCDRIPFKLTIPSSATPQFKTSGFQLKWMLRLEFVT 413
 
Name Accession Description Interval E-value
Rgp1 pfam08737
Rgp1; Rgp1 forms heterodimer with Ric1 (pfam07064) which associates with Golgi membranes and ...
 355-475 1.03e-10

Rgp1; Rgp1 forms heterodimer with Ric1 (pfam07064) which associates with Golgi membranes and functions as a guanyl-nucleotide exchange factor.


Pssm-ID: 430181  Cd Length: 414  Bit Score: 63.83  E-value: 1.03e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 22330146   355 RSYNIRMDDQVL--LRFSpknaDSTYYFSDTIGGTLTFFHEEGtrRCLEVSVTLETLETINRRFVHPSRRNSPTLT-KVQ 431
Cdd:pfam08737 295 KSYEIARNGKRIavLTLS----KPAYRLGETIDLVIDFSDARI--PCYAVTATLESFELINPSLALRSEASINRVTrKVH 368

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....*
gi 22330146   432 SDHHEVVAD-LIQTSFLFSIPTDGPMSFSTPRVSVQWILRFEFLT 475
Cdd:pfam08737 369 AEHHEICLFdCDRIPFKLTIPSSATPQFKTSGFQLKWMLRLEFVT 413
 
Name Accession Description Interval E-value
Rgp1 pfam08737
Rgp1; Rgp1 forms heterodimer with Ric1 (pfam07064) which associates with Golgi membranes and ...
 355-475 1.03e-10

Rgp1; Rgp1 forms heterodimer with Ric1 (pfam07064) which associates with Golgi membranes and functions as a guanyl-nucleotide exchange factor.


Pssm-ID: 430181  Cd Length: 414  Bit Score: 63.83  E-value: 1.03e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 22330146   355 RSYNIRMDDQVL--LRFSpknaDSTYYFSDTIGGTLTFFHEEGtrRCLEVSVTLETLETINRRFVHPSRRNSPTLT-KVQ 431
Cdd:pfam08737 295 KSYEIARNGKRIavLTLS----KPAYRLGETIDLVIDFSDARI--PCYAVTATLESFELINPSLALRSEASINRVTrKVH 368

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....*
gi 22330146   432 SDHHEVVAD-LIQTSFLFSIPTDGPMSFSTPRVSVQWILRFEFLT 475
Cdd:pfam08737 369 AEHHEICLFdCDRIPFKLTIPSSATPQFKTSGFQLKWMLRLEFVT 413
 
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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