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Conserved domains on  [gi|568967945|ref|XP_006513893|]
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bestrophin-3 isoform X3 [Mus musculus]

Protein Classification

Bestrophin and PTZ00449 domain-containing protein( domain architecture ID 13649895)

Bestrophin and PTZ00449 domain-containing protein

Graphical summary

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List of domain hits

Name Accession Description Interval E-value
Bestrophin pfam01062
Bestrophin, RFP-TM, chloride channel; Bestrophin is a 68-kDa basolateral plasma membrane ...
1-207 1.56e-64

Bestrophin, RFP-TM, chloride channel; Bestrophin is a 68-kDa basolateral plasma membrane protein expressed in retinal pigment epithelial cells (RPE). It is encoded by the VMD2 gene, which is mutated in Best macular dystrophy, a disease characterized by a depressed light peak in the electrooculogram. VMD2 encodes a 585-amino acid protein with an approximate mass of 68 kDa which has been designated bestrophin. Bestrophin shares homology with the Caenorhabditis elegans RFP gene family, named for the presence of a conserved arginine (R), phenylalanine (F), proline (P), amino acid sequence motif. Bestrophin is a plasma membrane protein, localized to the basolateral surface of RPE cells consistent with a role for bestrophin in the generation or regulation of the EOG light peak. Bestrophin and other RFP family members represent a new class of chloride channels, indicating a direct role for bestrophin in generating the light peak. The VMD2 gene underlying Best disease was shown to represent the first human member of the RFP-TM protein family. More than 97% of the disease-causing mutations are located in the N-terminal RFP-TM domain implying important functional properties. The bestrophins are four-pass transmembrane chloride-channel proteins, and the RFP-TM or bestrophin domain extends from the N-terminus through approximately 350 amino acids and contains all of the TM domains as well as nearly all reported disease causing mutations. Interestingly, the RFP motif is not conserved evolutionarily back beyond Metazoa, neither is it in plant members.


:

Pssm-ID: 460047  Cd Length: 272  Bit Score: 212.03  E-value: 1.56e-64
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568967945    1 MLLISSSVHGSDQHGRLLRRTLMRYVNLTSLLIFRSVSTAVYKRFPTMDHVVEAGFmtADERKLFDHlksphlKYWVPFI 80
Cdd:pfam01062  83 ARSLARQVLGLDEEGRLARRTILRYLVLSLVAFFRALSAHLRKRFPTLDHLLPAGM--EEERKILEN------KYWVPIA 154
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568967945   81 WFGNLA---TKARNEGRIRDsvDLQSLMTEMNRYRSWCSLLFGYDWVGIPLVYTQVVTLAVYTFFFacLIGRQFLDptkg 157
Cdd:pfam01062 155 WLRRLAarlARLRREGRIRD--DQAQLDEELNAFRGVLGGCERIDWTPIPLAYTQLVHRAVYLYCL--LLPFTLLQ---- 226
                         170       180       190       200       210
                  ....*....|....*....|....*....|....*....|....*....|
gi 568967945  158 yvghDLDLYVPIFTLLQFFFYAGWLKVAEQLINPFGEDDDDFETNWCIDR 207
Cdd:pfam01062 227 ----TLGWWTPLVVAIFAFFFFGWLKVAEELENPFGEDDDDLELNALIDR 272
PTZ00449 super family cl33186
104 kDa microneme/rhoptry antigen; Provisional
297-556 2.91e-05

104 kDa microneme/rhoptry antigen; Provisional


The actual alignment was detected with superfamily member PTZ00449:

Pssm-ID: 185628 [Multi-domain]  Cd Length: 943  Bit Score: 46.99  E-value: 2.91e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568967945 297 EHPGSPRRRRSFGRQASDSSMFLPPSPAR-DLLDVPSRNPHRGSPTrkqsrsqegSPKlhssmgelSTIRETSRTSTLQS 375
Cdd:PTZ00449 586 KHPKDPEEPKKPKRPRSAQRPTRPKSPKLpELLDIPKSPKRPESPK---------SPK--------RPPPPQRPSSPERP 648
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568967945 376 LSPQSSVRSSPTKMPQVP-----------EVLITAAEAPAFSADSHQHDSTTSIL--SLEFTGVQPSGTEQQVEP----- 437
Cdd:PTZ00449 649 EGPKIIKSPKPPKSPKPPfdpkfkekfydDYLDAAAKSKETKTTVVLDESFESILkeTLPETPGTPFTTPRPLPPklprd 728
                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568967945 438 ---SGTPPGDPNPQTTSAStERDLFKFEEDLEDDRFPKRWSLPEFLeSRHTSLGNLGPDPVSPRDALLLPDteTPSETNG 514
Cdd:PTZ00449 729 eefPFEPIGDPDAEQPDDI-EFFTPPEEERTFFHETPADTPLPDIL-AEEFKEEDIHAETGEPDEAMKRPD--SPSEHED 804
                        250       260       270       280
                 ....*....|....*....|....*....|....*....|..
gi 568967945 515 IHPGAGSALaPDILYLMESLDKETDILEFNNEHTGESPKGTP 556
Cdd:PTZ00449 805 KPPGDHPSL-PKKRHRLDGLALSTTDLESDAGRIAKDASGKI 845
 
Name Accession Description Interval E-value
Bestrophin pfam01062
Bestrophin, RFP-TM, chloride channel; Bestrophin is a 68-kDa basolateral plasma membrane ...
1-207 1.56e-64

Bestrophin, RFP-TM, chloride channel; Bestrophin is a 68-kDa basolateral plasma membrane protein expressed in retinal pigment epithelial cells (RPE). It is encoded by the VMD2 gene, which is mutated in Best macular dystrophy, a disease characterized by a depressed light peak in the electrooculogram. VMD2 encodes a 585-amino acid protein with an approximate mass of 68 kDa which has been designated bestrophin. Bestrophin shares homology with the Caenorhabditis elegans RFP gene family, named for the presence of a conserved arginine (R), phenylalanine (F), proline (P), amino acid sequence motif. Bestrophin is a plasma membrane protein, localized to the basolateral surface of RPE cells consistent with a role for bestrophin in the generation or regulation of the EOG light peak. Bestrophin and other RFP family members represent a new class of chloride channels, indicating a direct role for bestrophin in generating the light peak. The VMD2 gene underlying Best disease was shown to represent the first human member of the RFP-TM protein family. More than 97% of the disease-causing mutations are located in the N-terminal RFP-TM domain implying important functional properties. The bestrophins are four-pass transmembrane chloride-channel proteins, and the RFP-TM or bestrophin domain extends from the N-terminus through approximately 350 amino acids and contains all of the TM domains as well as nearly all reported disease causing mutations. Interestingly, the RFP motif is not conserved evolutionarily back beyond Metazoa, neither is it in plant members.


Pssm-ID: 460047  Cd Length: 272  Bit Score: 212.03  E-value: 1.56e-64
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568967945    1 MLLISSSVHGSDQHGRLLRRTLMRYVNLTSLLIFRSVSTAVYKRFPTMDHVVEAGFmtADERKLFDHlksphlKYWVPFI 80
Cdd:pfam01062  83 ARSLARQVLGLDEEGRLARRTILRYLVLSLVAFFRALSAHLRKRFPTLDHLLPAGM--EEERKILEN------KYWVPIA 154
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568967945   81 WFGNLA---TKARNEGRIRDsvDLQSLMTEMNRYRSWCSLLFGYDWVGIPLVYTQVVTLAVYTFFFacLIGRQFLDptkg 157
Cdd:pfam01062 155 WLRRLAarlARLRREGRIRD--DQAQLDEELNAFRGVLGGCERIDWTPIPLAYTQLVHRAVYLYCL--LLPFTLLQ---- 226
                         170       180       190       200       210
                  ....*....|....*....|....*....|....*....|....*....|
gi 568967945  158 yvghDLDLYVPIFTLLQFFFYAGWLKVAEQLINPFGEDDDDFETNWCIDR 207
Cdd:pfam01062 227 ----TLGWWTPLVVAIFAFFFFGWLKVAEELENPFGEDDDDLELNALIDR 272
PTZ00449 PTZ00449
104 kDa microneme/rhoptry antigen; Provisional
297-556 2.91e-05

104 kDa microneme/rhoptry antigen; Provisional


Pssm-ID: 185628 [Multi-domain]  Cd Length: 943  Bit Score: 46.99  E-value: 2.91e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568967945 297 EHPGSPRRRRSFGRQASDSSMFLPPSPAR-DLLDVPSRNPHRGSPTrkqsrsqegSPKlhssmgelSTIRETSRTSTLQS 375
Cdd:PTZ00449 586 KHPKDPEEPKKPKRPRSAQRPTRPKSPKLpELLDIPKSPKRPESPK---------SPK--------RPPPPQRPSSPERP 648
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568967945 376 LSPQSSVRSSPTKMPQVP-----------EVLITAAEAPAFSADSHQHDSTTSIL--SLEFTGVQPSGTEQQVEP----- 437
Cdd:PTZ00449 649 EGPKIIKSPKPPKSPKPPfdpkfkekfydDYLDAAAKSKETKTTVVLDESFESILkeTLPETPGTPFTTPRPLPPklprd 728
                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568967945 438 ---SGTPPGDPNPQTTSAStERDLFKFEEDLEDDRFPKRWSLPEFLeSRHTSLGNLGPDPVSPRDALLLPDteTPSETNG 514
Cdd:PTZ00449 729 eefPFEPIGDPDAEQPDDI-EFFTPPEEERTFFHETPADTPLPDIL-AEEFKEEDIHAETGEPDEAMKRPD--SPSEHED 804
                        250       260       270       280
                 ....*....|....*....|....*....|....*....|..
gi 568967945 515 IHPGAGSALaPDILYLMESLDKETDILEFNNEHTGESPKGTP 556
Cdd:PTZ00449 805 KPPGDHPSL-PKKRHRLDGLALSTTDLESDAGRIAKDASGKI 845
 
Name Accession Description Interval E-value
Bestrophin pfam01062
Bestrophin, RFP-TM, chloride channel; Bestrophin is a 68-kDa basolateral plasma membrane ...
1-207 1.56e-64

Bestrophin, RFP-TM, chloride channel; Bestrophin is a 68-kDa basolateral plasma membrane protein expressed in retinal pigment epithelial cells (RPE). It is encoded by the VMD2 gene, which is mutated in Best macular dystrophy, a disease characterized by a depressed light peak in the electrooculogram. VMD2 encodes a 585-amino acid protein with an approximate mass of 68 kDa which has been designated bestrophin. Bestrophin shares homology with the Caenorhabditis elegans RFP gene family, named for the presence of a conserved arginine (R), phenylalanine (F), proline (P), amino acid sequence motif. Bestrophin is a plasma membrane protein, localized to the basolateral surface of RPE cells consistent with a role for bestrophin in the generation or regulation of the EOG light peak. Bestrophin and other RFP family members represent a new class of chloride channels, indicating a direct role for bestrophin in generating the light peak. The VMD2 gene underlying Best disease was shown to represent the first human member of the RFP-TM protein family. More than 97% of the disease-causing mutations are located in the N-terminal RFP-TM domain implying important functional properties. The bestrophins are four-pass transmembrane chloride-channel proteins, and the RFP-TM or bestrophin domain extends from the N-terminus through approximately 350 amino acids and contains all of the TM domains as well as nearly all reported disease causing mutations. Interestingly, the RFP motif is not conserved evolutionarily back beyond Metazoa, neither is it in plant members.


Pssm-ID: 460047  Cd Length: 272  Bit Score: 212.03  E-value: 1.56e-64
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568967945    1 MLLISSSVHGSDQHGRLLRRTLMRYVNLTSLLIFRSVSTAVYKRFPTMDHVVEAGFmtADERKLFDHlksphlKYWVPFI 80
Cdd:pfam01062  83 ARSLARQVLGLDEEGRLARRTILRYLVLSLVAFFRALSAHLRKRFPTLDHLLPAGM--EEERKILEN------KYWVPIA 154
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568967945   81 WFGNLA---TKARNEGRIRDsvDLQSLMTEMNRYRSWCSLLFGYDWVGIPLVYTQVVTLAVYTFFFacLIGRQFLDptkg 157
Cdd:pfam01062 155 WLRRLAarlARLRREGRIRD--DQAQLDEELNAFRGVLGGCERIDWTPIPLAYTQLVHRAVYLYCL--LLPFTLLQ---- 226
                         170       180       190       200       210
                  ....*....|....*....|....*....|....*....|....*....|
gi 568967945  158 yvghDLDLYVPIFTLLQFFFYAGWLKVAEQLINPFGEDDDDFETNWCIDR 207
Cdd:pfam01062 227 ----TLGWWTPLVVAIFAFFFFGWLKVAEELENPFGEDDDDLELNALIDR 272
PTZ00449 PTZ00449
104 kDa microneme/rhoptry antigen; Provisional
297-556 2.91e-05

104 kDa microneme/rhoptry antigen; Provisional


Pssm-ID: 185628 [Multi-domain]  Cd Length: 943  Bit Score: 46.99  E-value: 2.91e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568967945 297 EHPGSPRRRRSFGRQASDSSMFLPPSPAR-DLLDVPSRNPHRGSPTrkqsrsqegSPKlhssmgelSTIRETSRTSTLQS 375
Cdd:PTZ00449 586 KHPKDPEEPKKPKRPRSAQRPTRPKSPKLpELLDIPKSPKRPESPK---------SPK--------RPPPPQRPSSPERP 648
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568967945 376 LSPQSSVRSSPTKMPQVP-----------EVLITAAEAPAFSADSHQHDSTTSIL--SLEFTGVQPSGTEQQVEP----- 437
Cdd:PTZ00449 649 EGPKIIKSPKPPKSPKPPfdpkfkekfydDYLDAAAKSKETKTTVVLDESFESILkeTLPETPGTPFTTPRPLPPklprd 728
                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568967945 438 ---SGTPPGDPNPQTTSAStERDLFKFEEDLEDDRFPKRWSLPEFLeSRHTSLGNLGPDPVSPRDALLLPDteTPSETNG 514
Cdd:PTZ00449 729 eefPFEPIGDPDAEQPDDI-EFFTPPEEERTFFHETPADTPLPDIL-AEEFKEEDIHAETGEPDEAMKRPD--SPSEHED 804
                        250       260       270       280
                 ....*....|....*....|....*....|....*....|..
gi 568967945 515 IHPGAGSALaPDILYLMESLDKETDILEFNNEHTGESPKGTP 556
Cdd:PTZ00449 805 KPPGDHPSL-PKKRHRLDGLALSTTDLESDAGRIAKDASGKI 845
 
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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