NCBI Home Page NCBI Site Search page NCBI Guide that lists and describes the NCBI resources
Conserved domains on  [gi|1944922969|ref|XP_038074187|]
View 

RAB6A-GEF complex partner protein 2-like isoform X2 [Patiria miniata]

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

 Zoom to residue level

show extra options »

Show site features     Horizontal zoom: ×

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 ...
 92-327 2.25e-37

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: 139.72  E-value: 2.25e-37
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1944922969  92 ILSTEPKILFCDLKLKPGERKTFFYRETIPSDAPPSYRGQAVKYSYKVTIGMQRVNCP---IKLLRVPFRVL-------V 161
Cdd:pfam08737  92 LLSTPQSLLFVDLTLAPGESKSFSFSFKLPKGLPPSYKGKAIKISYNLVIGTQRPGGAkqqVKSVEVPFRVLpyvnssgE 171

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1944922969 162 LYG------------------------------------LGDTS----------------LLEQDDQAASSNPFL----- 184
Cdd:pfam08737 172 QLGhdlmspyillrdearvkevksrrnssssskeskssdSKKTSekqesskedflkyvdeLLENENNSKDIDELLspqle 251

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1944922969 185 -----------AEERTQNSL---------LDLAIQVLNTVTSRKrpnSYNIKNSDGSVARFCLFKPAYKLGEDIIGTIEF 244
Cdd:pfam08737 252 vqfgeeedseeNESRRSSSVekpssvkeaIDLLILRSQLQNLQK---SYEIARNGKRIAVLTLSKPAYRLGETIDLVIDF 328

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1944922969 245 pAGCTVPCIQYSVVLQSEEHIAEECR-RKPH--QGVSMSSHGRHQEFCLHmSKSHMV--LPIPLHVTPGFITDIVCLKWR 319
Cdd:pfam08737 329 -SDARIPCYAVTATLESFELINPSLAlRSEAsiNRVTRKVHAEHHEICLF-DCDRIPfkLTIPSSATPQFKTSGFQLKWM 406


                  ....*...
gi 1944922969 320 LHFEFITA 327
Cdd:pfam08737 407 LRLEFVTI 414
 
Name Accession Description Interval E-value
Rgp1 pfam08737
Rgp1; Rgp1 forms heterodimer with Ric1 (pfam07064) which associates with Golgi membranes and ...
 92-327 2.25e-37

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: 139.72  E-value: 2.25e-37
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1944922969  92 ILSTEPKILFCDLKLKPGERKTFFYRETIPSDAPPSYRGQAVKYSYKVTIGMQRVNCP---IKLLRVPFRVL-------V 161
Cdd:pfam08737  92 LLSTPQSLLFVDLTLAPGESKSFSFSFKLPKGLPPSYKGKAIKISYNLVIGTQRPGGAkqqVKSVEVPFRVLpyvnssgE 171

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1944922969 162 LYG------------------------------------LGDTS----------------LLEQDDQAASSNPFL----- 184
Cdd:pfam08737 172 QLGhdlmspyillrdearvkevksrrnssssskeskssdSKKTSekqesskedflkyvdeLLENENNSKDIDELLspqle 251

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1944922969 185 -----------AEERTQNSL---------LDLAIQVLNTVTSRKrpnSYNIKNSDGSVARFCLFKPAYKLGEDIIGTIEF 244
Cdd:pfam08737 252 vqfgeeedseeNESRRSSSVekpssvkeaIDLLILRSQLQNLQK---SYEIARNGKRIAVLTLSKPAYRLGETIDLVIDF 328

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1944922969 245 pAGCTVPCIQYSVVLQSEEHIAEECR-RKPH--QGVSMSSHGRHQEFCLHmSKSHMV--LPIPLHVTPGFITDIVCLKWR 319
Cdd:pfam08737 329 -SDARIPCYAVTATLESFELINPSLAlRSEAsiNRVTRKVHAEHHEICLF-DCDRIPfkLTIPSSATPQFKTSGFQLKWM 406


                  ....*...
gi 1944922969 320 LHFEFITA 327
Cdd:pfam08737 407 LRLEFVTI 414
 
Name Accession Description Interval E-value
Rgp1 pfam08737
Rgp1; Rgp1 forms heterodimer with Ric1 (pfam07064) which associates with Golgi membranes and ...
 92-327 2.25e-37

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: 139.72  E-value: 2.25e-37
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1944922969  92 ILSTEPKILFCDLKLKPGERKTFFYRETIPSDAPPSYRGQAVKYSYKVTIGMQRVNCP---IKLLRVPFRVL-------V 161
Cdd:pfam08737  92 LLSTPQSLLFVDLTLAPGESKSFSFSFKLPKGLPPSYKGKAIKISYNLVIGTQRPGGAkqqVKSVEVPFRVLpyvnssgE 171

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1944922969 162 LYG------------------------------------LGDTS----------------LLEQDDQAASSNPFL----- 184
Cdd:pfam08737 172 QLGhdlmspyillrdearvkevksrrnssssskeskssdSKKTSekqesskedflkyvdeLLENENNSKDIDELLspqle 251

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1944922969 185 -----------AEERTQNSL---------LDLAIQVLNTVTSRKrpnSYNIKNSDGSVARFCLFKPAYKLGEDIIGTIEF 244
Cdd:pfam08737 252 vqfgeeedseeNESRRSSSVekpssvkeaIDLLILRSQLQNLQK---SYEIARNGKRIAVLTLSKPAYRLGETIDLVIDF 328

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1944922969 245 pAGCTVPCIQYSVVLQSEEHIAEECR-RKPH--QGVSMSSHGRHQEFCLHmSKSHMV--LPIPLHVTPGFITDIVCLKWR 319
Cdd:pfam08737 329 -SDARIPCYAVTATLESFELINPSLAlRSEAsiNRVTRKVHAEHHEICLF-DCDRIPfkLTIPSSATPQFKTSGFQLKWM 406


                  ....*...
gi 1944922969 320 LHFEFITA 327
Cdd:pfam08737 407 LRLEFVTI 414
 
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