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Conserved domains on  [gi|4493999|emb|CAB39058|]
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rifin [Plasmodium falciparum 3D7]

Protein Classification

rifin( domain architecture ID 10019255)

rifin is an adhesin implicated in severe Plasmodium falciparum malaria

Graphical summary

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List of domain hits

Name Accession Description Interval E-value
RIFIN TIGR01477
variant surface antigen, rifin family; This model represents the rifin branch of the rifin ...
1-317 3.32e-139

variant surface antigen, rifin family; This model represents the rifin branch of the rifin/stevor family (pfam02009) of predicted variant surface antigens as found in Plasmodium falciparum. This model is based on a set of rifin sequences kindly provided by Matt Berriman from the Sanger Center. This is a global model and assesses a penalty for incomplete sequence. Additional fragmentary sequences may be found with the fragment model and a cutoff of 20 bits.


:

Pssm-ID: 273647  Cd Length: 353  Bit Score: 397.57  E-value: 3.32e-139
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 4493999      1 MKLHYTKILLFFFPLYILVTSYHVYsKNKPSITSHHTPITTSRVLSEKDLQSSIYDNDADMKSVKENFDRRTSQRFEEYE 80
Cdd:TIGR01477   1 MKLHYINILLFSLPLNILVNSQRNH-KNTPHHTSNTTPTKTSRSLCECELYSSNYDNDPEMKSVMEQFDRQTSQRFEEYD 79
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 4493999     81 ERVKDKRQKCKEQRDKDIQKIVLKDKMEKNL-------------------------AEKVEIGCLRCGCALGGGVAPIWG 135
Cdd:TIGR01477  80 ERMQEKRQKCKEQCDKEIQKIILKDKLEKELtekfstlqtdiqtdaiptcvcekslADKVEKGCLRCGCGLGGGVAPGVG 159
                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 4493999    136 LVSGLWYA--TWSQYVSAKVLEEATNAAIKAGIIKAIEGLKELQDLGKLVGDKWSNIVTPETYSNPNLLSRALQRVNIAM 213
Cdd:TIGR01477 160 LLGGIAVNvvGWKQAALAAAAAAAIAAGIKAGINVVIEGLKKILGLSTLFGKKLKQIINASNYTNPSLLSDAIYKEYNEM 239
                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 4493999    214 CYSESNENVLFCNAIQRRPESV---FVPASKVAADAGEAGKAVYLAT-------EKAELLKIAPATNALTTAIIASVVAI 283
Cdd:TIGR01477 240 CGVVSSNKGLFCNTMERSINSPnqeRTVETIVANAEDAAKAAAKAATkattataTKATTALVEATTTNYYTPIIASIIAI 319
                         330       340       350
                  ....*....|....*....|....*....|....
gi 4493999    284 IIIALVMIIIYLVLRYRRKKKMKKKLQYIKLLNE 317
Cdd:TIGR01477 320 LIIVLIMVIIYLILRYRRKKKMKKKLQYIKLLNE 353
 
Name Accession Description Interval E-value
RIFIN TIGR01477
variant surface antigen, rifin family; This model represents the rifin branch of the rifin ...
1-317 3.32e-139

variant surface antigen, rifin family; This model represents the rifin branch of the rifin/stevor family (pfam02009) of predicted variant surface antigens as found in Plasmodium falciparum. This model is based on a set of rifin sequences kindly provided by Matt Berriman from the Sanger Center. This is a global model and assesses a penalty for incomplete sequence. Additional fragmentary sequences may be found with the fragment model and a cutoff of 20 bits.


Pssm-ID: 273647  Cd Length: 353  Bit Score: 397.57  E-value: 3.32e-139
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 4493999      1 MKLHYTKILLFFFPLYILVTSYHVYsKNKPSITSHHTPITTSRVLSEKDLQSSIYDNDADMKSVKENFDRRTSQRFEEYE 80
Cdd:TIGR01477   1 MKLHYINILLFSLPLNILVNSQRNH-KNTPHHTSNTTPTKTSRSLCECELYSSNYDNDPEMKSVMEQFDRQTSQRFEEYD 79
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 4493999     81 ERVKDKRQKCKEQRDKDIQKIVLKDKMEKNL-------------------------AEKVEIGCLRCGCALGGGVAPIWG 135
Cdd:TIGR01477  80 ERMQEKRQKCKEQCDKEIQKIILKDKLEKELtekfstlqtdiqtdaiptcvcekslADKVEKGCLRCGCGLGGGVAPGVG 159
                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 4493999    136 LVSGLWYA--TWSQYVSAKVLEEATNAAIKAGIIKAIEGLKELQDLGKLVGDKWSNIVTPETYSNPNLLSRALQRVNIAM 213
Cdd:TIGR01477 160 LLGGIAVNvvGWKQAALAAAAAAAIAAGIKAGINVVIEGLKKILGLSTLFGKKLKQIINASNYTNPSLLSDAIYKEYNEM 239
                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 4493999    214 CYSESNENVLFCNAIQRRPESV---FVPASKVAADAGEAGKAVYLAT-------EKAELLKIAPATNALTTAIIASVVAI 283
Cdd:TIGR01477 240 CGVVSSNKGLFCNTMERSINSPnqeRTVETIVANAEDAAKAAAKAATkattataTKATTALVEATTTNYYTPIIASIIAI 319
                         330       340       350
                  ....*....|....*....|....*....|....
gi 4493999    284 IIIALVMIIIYLVLRYRRKKKMKKKLQYIKLLNE 317
Cdd:TIGR01477 320 LIIVLIMVIIYLILRYRRKKKMKKKLQYIKLLNE 353
PTZ00046 PTZ00046
rifin; Provisional
1-317 1.53e-121

rifin; Provisional


Pssm-ID: 240242  Cd Length: 358  Bit Score: 353.10  E-value: 1.53e-121
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 4493999     1 MKLHYTKILLFFFPLYILVtsYHvySKNKPSITSHHTPITTSRVLSEKDLQSSIYDNDADMKSVKENFDRRTSQRFEEYE 80
Cdd:PTZ00046   1 MKLHYINILLFALPLNILV--YN--QKNHPSTTPHTTTTTTTRLLCECELYSSNYDNDPEMKSVMENFDRQTSQRFEEYD 76
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 4493999    81 ERVKDKRQKCKEQRDKDIQKIVLKDKMEK-------------------------NLAEKVEIGCLRCGCALgGGVAPIWG 135
Cdd:PTZ00046  77 ERMKEKRQKCKEQCDKEIQKIILKDKLEKelmekfatlqtdiqsdaiptcvcekSLADKVEKGCLRCGCGL-GGVAPSWG 155
                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 4493999   136 LVSGLWYATWSQYVSAKVLEEATNAAIKA--------GIIKAIEGLKELQDLGKLVGDKWSNIVTPETYSNPNLLSRALQ 207
Cdd:PTZ00046 156 LIGGIAVNAWKKAALAAAIKAAIKAGAAAgeaagiaaGKKAVIEGLKSIFGISTLGGKDLKSIITATNYTNVMSLVDAVY 235
                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 4493999   208 RVNIAMC-YSESNENVLFCNAIQRRPESVFVPASKV-------AADAGEAGKAVYLATEKAELL-----KIAPATNALTT 274
Cdd:PTZ00046 236 SLYNTSCcGSPANKSSPFCNSVEGKYISPEEVIEKTvetivskAADAAEAAAEAATAAETAALEaaktaAVETTTTILQT 315
                        330       340       350       360
                 ....*....|....*....|....*....|....*....|...
gi 4493999   275 AIIASVVAIIIIALVMIIIYLVLRYRRKKKMKKKLQYIKLLNE 317
Cdd:PTZ00046 316 AIIASIVAIVVIVLIMVIIYLILRYRRKKKMKKKLQYIKLLEE 358
RIFIN pfam02009
Rifin; Plasmodium falciparum is the causative agent of deadly malaria disease. It encodes ...
38-317 2.83e-100

Rifin; Plasmodium falciparum is the causative agent of deadly malaria disease. It encodes repetitive interspersed families of polypeptides (RIFINs), which are expressed on the surface of infected erythrocytes. All RIFIN sequences contain the PEXEL motif (a pentameric sequence RxLxE/Q/D, known as the Plasmodium export element) required for correct export and surface expression or host-targeting (HT) signal which plays a central role in the export of proteins into the host cell. It has been reported that PEXEL is preferably located 15-20 amino acids downstream of an N-terminal hydrophobic signal sequence. The RIFIN protein family can be divided into A and B types based on the presence or absence of a 25 amino acid motif located approximately 66 amino acids downstream of the PEXEL motif, with A- and B-types serving different roles in distinct parasite stages. The specific type B RIFIN variant (PF13_0006) is expressed on the surface of free merozoites, internally in developing gametocytes and on the surface of gametes at the point of emerging from activated, mature stage V gametocytes. While type A RIFIN are expressed on the infected erythrocyte surface, potentially contributing to the antigenic variation capacity of the parasite.


Pssm-ID: 396547  Cd Length: 326  Bit Score: 297.61  E-value: 2.83e-100
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 4493999     38 PITTSRVLSEKDLQS-SIYDNDADMKSVKENFDRRTSQRFEEYEERVKDKRQKCKEQRDKDIQKIVLKDKMEK------- 109
Cdd:pfam02009   1 HTPTTRSLCECELYSpSNYDNDPEMKSVMENFDRQTSQRFHEYDERMKEKRQKCKEQCDKEIQKIILKDKLEKelmekfa 80
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 4493999    110 ------------------NLAEKVEIGCLRCGCALGGGVAPIWGLVSGLWYATWSQYVSAKVLEEATN----AAIKAGII 167
Cdd:pfam02009  81 tlqtdiqsdaiptcvcekSLADKVEKGCLRCGCGLGGGVAPSVGLIGGIAVYAWKPAALAAAIEAAIEagaaAGAAAGIK 160
                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 4493999    168 KAIEGLKELQDLGKLVGDKWSNIVTPETYSNPNLLSRALQRVNIAMC-------------------YSESNENVLFCNAI 228
Cdd:pfam02009 161 AVIEGLKKLFGISTLGGIKLESLITATNYTNVTTIAEAINSQYNTSCclsigfgaskticsnsscfGAGASSTGKICGTV 240
                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 4493999    229 QRRPESVFVPASKVAAdagEAGKAVYLATEKAELLKIAPATNALTTAIIASVVAIIIIALVMIIIYLVLRYRRKKKMKKK 308
Cdd:pfam02009 241 ESIVEKAESAAAAAAA---AAAAEATAAAIKAETAAVEATYASYQTAIIASIVAIVVIVLIMVIIYLILRYRRKKKMKKK 317

                  ....*....
gi 4493999    309 LQYIKLLNE 317
Cdd:pfam02009 318 LQYIKLLKE 326
 
Name Accession Description Interval E-value
RIFIN TIGR01477
variant surface antigen, rifin family; This model represents the rifin branch of the rifin ...
1-317 3.32e-139

variant surface antigen, rifin family; This model represents the rifin branch of the rifin/stevor family (pfam02009) of predicted variant surface antigens as found in Plasmodium falciparum. This model is based on a set of rifin sequences kindly provided by Matt Berriman from the Sanger Center. This is a global model and assesses a penalty for incomplete sequence. Additional fragmentary sequences may be found with the fragment model and a cutoff of 20 bits.


Pssm-ID: 273647  Cd Length: 353  Bit Score: 397.57  E-value: 3.32e-139
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 4493999      1 MKLHYTKILLFFFPLYILVTSYHVYsKNKPSITSHHTPITTSRVLSEKDLQSSIYDNDADMKSVKENFDRRTSQRFEEYE 80
Cdd:TIGR01477   1 MKLHYINILLFSLPLNILVNSQRNH-KNTPHHTSNTTPTKTSRSLCECELYSSNYDNDPEMKSVMEQFDRQTSQRFEEYD 79
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 4493999     81 ERVKDKRQKCKEQRDKDIQKIVLKDKMEKNL-------------------------AEKVEIGCLRCGCALGGGVAPIWG 135
Cdd:TIGR01477  80 ERMQEKRQKCKEQCDKEIQKIILKDKLEKELtekfstlqtdiqtdaiptcvcekslADKVEKGCLRCGCGLGGGVAPGVG 159
                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 4493999    136 LVSGLWYA--TWSQYVSAKVLEEATNAAIKAGIIKAIEGLKELQDLGKLVGDKWSNIVTPETYSNPNLLSRALQRVNIAM 213
Cdd:TIGR01477 160 LLGGIAVNvvGWKQAALAAAAAAAIAAGIKAGINVVIEGLKKILGLSTLFGKKLKQIINASNYTNPSLLSDAIYKEYNEM 239
                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 4493999    214 CYSESNENVLFCNAIQRRPESV---FVPASKVAADAGEAGKAVYLAT-------EKAELLKIAPATNALTTAIIASVVAI 283
Cdd:TIGR01477 240 CGVVSSNKGLFCNTMERSINSPnqeRTVETIVANAEDAAKAAAKAATkattataTKATTALVEATTTNYYTPIIASIIAI 319
                         330       340       350
                  ....*....|....*....|....*....|....
gi 4493999    284 IIIALVMIIIYLVLRYRRKKKMKKKLQYIKLLNE 317
Cdd:TIGR01477 320 LIIVLIMVIIYLILRYRRKKKMKKKLQYIKLLNE 353
PTZ00046 PTZ00046
rifin; Provisional
1-317 1.53e-121

rifin; Provisional


Pssm-ID: 240242  Cd Length: 358  Bit Score: 353.10  E-value: 1.53e-121
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 4493999     1 MKLHYTKILLFFFPLYILVtsYHvySKNKPSITSHHTPITTSRVLSEKDLQSSIYDNDADMKSVKENFDRRTSQRFEEYE 80
Cdd:PTZ00046   1 MKLHYINILLFALPLNILV--YN--QKNHPSTTPHTTTTTTTRLLCECELYSSNYDNDPEMKSVMENFDRQTSQRFEEYD 76
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 4493999    81 ERVKDKRQKCKEQRDKDIQKIVLKDKMEK-------------------------NLAEKVEIGCLRCGCALgGGVAPIWG 135
Cdd:PTZ00046  77 ERMKEKRQKCKEQCDKEIQKIILKDKLEKelmekfatlqtdiqsdaiptcvcekSLADKVEKGCLRCGCGL-GGVAPSWG 155
                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 4493999   136 LVSGLWYATWSQYVSAKVLEEATNAAIKA--------GIIKAIEGLKELQDLGKLVGDKWSNIVTPETYSNPNLLSRALQ 207
Cdd:PTZ00046 156 LIGGIAVNAWKKAALAAAIKAAIKAGAAAgeaagiaaGKKAVIEGLKSIFGISTLGGKDLKSIITATNYTNVMSLVDAVY 235
                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 4493999   208 RVNIAMC-YSESNENVLFCNAIQRRPESVFVPASKV-------AADAGEAGKAVYLATEKAELL-----KIAPATNALTT 274
Cdd:PTZ00046 236 SLYNTSCcGSPANKSSPFCNSVEGKYISPEEVIEKTvetivskAADAAEAAAEAATAAETAALEaaktaAVETTTTILQT 315
                        330       340       350       360
                 ....*....|....*....|....*....|....*....|...
gi 4493999   275 AIIASVVAIIIIALVMIIIYLVLRYRRKKKMKKKLQYIKLLNE 317
Cdd:PTZ00046 316 AIIASIVAIVVIVLIMVIIYLILRYRRKKKMKKKLQYIKLLEE 358
RIFIN pfam02009
Rifin; Plasmodium falciparum is the causative agent of deadly malaria disease. It encodes ...
38-317 2.83e-100

Rifin; Plasmodium falciparum is the causative agent of deadly malaria disease. It encodes repetitive interspersed families of polypeptides (RIFINs), which are expressed on the surface of infected erythrocytes. All RIFIN sequences contain the PEXEL motif (a pentameric sequence RxLxE/Q/D, known as the Plasmodium export element) required for correct export and surface expression or host-targeting (HT) signal which plays a central role in the export of proteins into the host cell. It has been reported that PEXEL is preferably located 15-20 amino acids downstream of an N-terminal hydrophobic signal sequence. The RIFIN protein family can be divided into A and B types based on the presence or absence of a 25 amino acid motif located approximately 66 amino acids downstream of the PEXEL motif, with A- and B-types serving different roles in distinct parasite stages. The specific type B RIFIN variant (PF13_0006) is expressed on the surface of free merozoites, internally in developing gametocytes and on the surface of gametes at the point of emerging from activated, mature stage V gametocytes. While type A RIFIN are expressed on the infected erythrocyte surface, potentially contributing to the antigenic variation capacity of the parasite.


Pssm-ID: 396547  Cd Length: 326  Bit Score: 297.61  E-value: 2.83e-100
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 4493999     38 PITTSRVLSEKDLQS-SIYDNDADMKSVKENFDRRTSQRFEEYEERVKDKRQKCKEQRDKDIQKIVLKDKMEK------- 109
Cdd:pfam02009   1 HTPTTRSLCECELYSpSNYDNDPEMKSVMENFDRQTSQRFHEYDERMKEKRQKCKEQCDKEIQKIILKDKLEKelmekfa 80
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 4493999    110 ------------------NLAEKVEIGCLRCGCALGGGVAPIWGLVSGLWYATWSQYVSAKVLEEATN----AAIKAGII 167
Cdd:pfam02009  81 tlqtdiqsdaiptcvcekSLADKVEKGCLRCGCGLGGGVAPSVGLIGGIAVYAWKPAALAAAIEAAIEagaaAGAAAGIK 160
                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 4493999    168 KAIEGLKELQDLGKLVGDKWSNIVTPETYSNPNLLSRALQRVNIAMC-------------------YSESNENVLFCNAI 228
Cdd:pfam02009 161 AVIEGLKKLFGISTLGGIKLESLITATNYTNVTTIAEAINSQYNTSCclsigfgaskticsnsscfGAGASSTGKICGTV 240
                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 4493999    229 QRRPESVFVPASKVAAdagEAGKAVYLATEKAELLKIAPATNALTTAIIASVVAIIIIALVMIIIYLVLRYRRKKKMKKK 308
Cdd:pfam02009 241 ESIVEKAESAAAAAAA---AAAAEATAAAIKAETAAVEATYASYQTAIIASIVAIVVIVLIMVIIYLILRYRRKKKMKKK 317

                  ....*....
gi 4493999    309 LQYIKLLNE 317
Cdd:pfam02009 318 LQYIKLLKE 326
 
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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