NCBI Home Page NCBI Site Search page NCBI Guide that lists and describes the NCBI resources
Conserved domains on  [gi|574997022|gb|ETW57992|]
View 

hypothetical protein PFUGPA_00001, partial [Plasmodium falciparum Palo Alto/Uganda]

Protein Classification

Graphical summary

 Zoom to residue level

show extra options »

Show site features     Horizontal zoom: ×

List of domain hits

 Name Accession Description Interval E-value
Duffy_binding pfam05424
Duffy binding domain; This domain is found in Plasmodium Duffy binding proteins. Plasmodium ...
 37-201 1.90e-31

Duffy binding domain; This domain is found in Plasmodium Duffy binding proteins. Plasmodium vivax and Plasmodium knowlesi merozoites invade human erythrocytes that express Duffy blood group surface determinants. The Duffy receptor family is localized in micronemes, an organelle found in all organizms of the phylum Apicomplexa. This family is closely associated on PfEMP1 proteins with PFEMP, pfam03011.


:

Pssm-ID: 428465 [Multi-domain]  Cd Length: 178  Bit Score: 121.23  E-value: 1.90e-31
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 574997022   37 SSDKDPQVALLKAFVKSAAVETFFLWDRYkkikekekqekkdakgqiyesggkdeanknkdPQNQLKKGIIPEEFKRQMF 116
Cdd:pfam05424  20 SGNTTTTHDLLKAVILAAKYEGFSLWHKY--------------------------------KKKNTKYGDIPSEFCRQMA 67

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 574997022  117 YTLGDYRDICVGvkddvaealkasGDNKSGDKNIKDISEKIKEMLGK-----QPGPPVTKNSVDPRKTWWNENGKKIWEG 191
Cdd:pfam05424  68 YSFADIGDIIRG------------KDLYLGNNKKKKLEENLKKIFKKiyeklTSKGKDDGNYYQLREDWWEANREDIWKA 135

                         170
                  ....*....|
gi 574997022  192 MLCALTYDTN 201
Cdd:pfam05424 136 MTCALTYGAK 145
PFEMP super family cl03834
PFEMP1 DBL domain; PfEMP1 (Plasmodium falciparum erythrocyte membrane protein) has been ...
 539-681 2.21e-26

PFEMP1 DBL domain; PfEMP1 (Plasmodium falciparum erythrocyte membrane protein) has been identified as the rosetting ligand of the malaria parasite P. falciparum. Rosetting is the adhesion of infected erythrocytes with uninfected erythrocytes in the vasculature of the infected organ, and is associated with severe malaria. PfEMP1 interacts with Complement Receptor One on uninfected erythrocytes to form rosettes. The extreme variation within these proteins and the grouping of var genes implies that var gene recombination preferentially occurs within var gene groups. These groups reflect a functional diversification that has evolved to cope with the varying conditions of transmission and host immune response met by the parasite. A recombination hotspot was uncovered between Duffy-binding-like (DBL) subdomains. Solution of the crystal structure of the N-terminal and first DBL region of PfEMP1 from the VarO variant of the PfEMP1 protein is found to be directly implicated in rosetting as the heparin-binding site.


The actual alignment was detected with superfamily member pfam03011:

Pssm-ID: 281064  Cd Length: 154  Bit Score: 105.66  E-value: 2.21e-26
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 574997022  539 LVAHWVQNFLEDYNKIRKKLKTCM-NSEVSKSENNCEKKHKCVNEWIEKKRTEWTKIKEYYQKQYG-----GNDSDNSYS 612
Cdd:pfam03011   1 LFKRWVEYFLEDSIKWRKKLKSCInNGKGKCCKKECKNDCECFKKWVEKKKEEWKKIKEHFLKQYKlkgltGKTLDEYLD 80

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 574997022  613 VRTFLEEVIPQIT---DANDKKQIIKLSKFDNSCGCSFSAHST--NGKDDAIDCMIKNLEKKIEECKKKHAQNG 681
Cdd:pfam03011  81 LKSFLETFLFYIDikeAYGDVKELKKLEEILDEEGCSAGAESAknNKNEDAIDKLLDKEEKKANNCKEKHKEND 154
CIDR1_gamma pfam18562
Cysteine-Rich Interdomain Region 1 gamma; Rosetting is the capacity of infected RBCs to bind ...
 472-523 8.85e-18

Cysteine-Rich Interdomain Region 1 gamma; Rosetting is the capacity of infected RBCs to bind uninfected RBCs, which is consistently associated with severe malaria in African children. The rosette-forming PfEMP1 adhesins, namely IT4/R29, Palo Alto 89F5 VarO, 3D7/PF13_0003 and IT4/var60, belong to a specific sub-group called groupA/UpsA var genes and all four present a specific Duffy Binding-Like and and Cysteine-Rich Interdomain Region (DBL1alpha1-CIDR1gamma) double domain Head region found at the extracellular region of PfEMP1. This entry represents the CIDR1gamma domain which increases the binding affinity to VarO (Palo Alto VarO parasites).


:

Pssm-ID: 408346  Cd Length: 52  Bit Score: 77.70  E-value: 8.85e-18
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|..
gi 574997022  472 NGNIHMRVSDNNTNGnKFDDLNDCDGADIFKGIRKEQWKCGKVCGLDVCGLK 523
Cdd:pfam18562   1 TTTIDMLVSDNRGIK-FENDLKECKEAGIFKGIRKDQWKCGKVCGYDVCKLK 51
 
Name Accession Description Interval E-value
Duffy_binding pfam05424
Duffy binding domain; This domain is found in Plasmodium Duffy binding proteins. Plasmodium ...
 37-201 1.90e-31

Duffy binding domain; This domain is found in Plasmodium Duffy binding proteins. Plasmodium vivax and Plasmodium knowlesi merozoites invade human erythrocytes that express Duffy blood group surface determinants. The Duffy receptor family is localized in micronemes, an organelle found in all organizms of the phylum Apicomplexa. This family is closely associated on PfEMP1 proteins with PFEMP, pfam03011.


Pssm-ID: 428465 [Multi-domain]  Cd Length: 178  Bit Score: 121.23  E-value: 1.90e-31
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 574997022   37 SSDKDPQVALLKAFVKSAAVETFFLWDRYkkikekekqekkdakgqiyesggkdeanknkdPQNQLKKGIIPEEFKRQMF 116
Cdd:pfam05424  20 SGNTTTTHDLLKAVILAAKYEGFSLWHKY--------------------------------KKKNTKYGDIPSEFCRQMA 67

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 574997022  117 YTLGDYRDICVGvkddvaealkasGDNKSGDKNIKDISEKIKEMLGK-----QPGPPVTKNSVDPRKTWWNENGKKIWEG 191
Cdd:pfam05424  68 YSFADIGDIIRG------------KDLYLGNNKKKKLEENLKKIFKKiyeklTSKGKDDGNYYQLREDWWEANREDIWKA 135

                         170
                  ....*....|
gi 574997022  192 MLCALTYDTN 201
Cdd:pfam05424 136 MTCALTYGAK 145
PFEMP pfam03011
PFEMP1 DBL domain; PfEMP1 (Plasmodium falciparum erythrocyte membrane protein) has been ...
 539-681 2.21e-26

PFEMP1 DBL domain; PfEMP1 (Plasmodium falciparum erythrocyte membrane protein) has been identified as the rosetting ligand of the malaria parasite P. falciparum. Rosetting is the adhesion of infected erythrocytes with uninfected erythrocytes in the vasculature of the infected organ, and is associated with severe malaria. PfEMP1 interacts with Complement Receptor One on uninfected erythrocytes to form rosettes. The extreme variation within these proteins and the grouping of var genes implies that var gene recombination preferentially occurs within var gene groups. These groups reflect a functional diversification that has evolved to cope with the varying conditions of transmission and host immune response met by the parasite. A recombination hotspot was uncovered between Duffy-binding-like (DBL) subdomains. Solution of the crystal structure of the N-terminal and first DBL region of PfEMP1 from the VarO variant of the PfEMP1 protein is found to be directly implicated in rosetting as the heparin-binding site.


Pssm-ID: 281064  Cd Length: 154  Bit Score: 105.66  E-value: 2.21e-26
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 574997022  539 LVAHWVQNFLEDYNKIRKKLKTCM-NSEVSKSENNCEKKHKCVNEWIEKKRTEWTKIKEYYQKQYG-----GNDSDNSYS 612
Cdd:pfam03011   1 LFKRWVEYFLEDSIKWRKKLKSCInNGKGKCCKKECKNDCECFKKWVEKKKEEWKKIKEHFLKQYKlkgltGKTLDEYLD 80

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 574997022  613 VRTFLEEVIPQIT---DANDKKQIIKLSKFDNSCGCSFSAHST--NGKDDAIDCMIKNLEKKIEECKKKHAQNG 681
Cdd:pfam03011  81 LKSFLETFLFYIDikeAYGDVKELKKLEEILDEEGCSAGAESAknNKNEDAIDKLLDKEEKKANNCKEKHKEND 154
CIDR1_gamma pfam18562
Cysteine-Rich Interdomain Region 1 gamma; Rosetting is the capacity of infected RBCs to bind ...
 472-523 8.85e-18

Cysteine-Rich Interdomain Region 1 gamma; Rosetting is the capacity of infected RBCs to bind uninfected RBCs, which is consistently associated with severe malaria in African children. The rosette-forming PfEMP1 adhesins, namely IT4/R29, Palo Alto 89F5 VarO, 3D7/PF13_0003 and IT4/var60, belong to a specific sub-group called groupA/UpsA var genes and all four present a specific Duffy Binding-Like and and Cysteine-Rich Interdomain Region (DBL1alpha1-CIDR1gamma) double domain Head region found at the extracellular region of PfEMP1. This entry represents the CIDR1gamma domain which increases the binding affinity to VarO (Palo Alto VarO parasites).


Pssm-ID: 408346  Cd Length: 52  Bit Score: 77.70  E-value: 8.85e-18
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|..
gi 574997022  472 NGNIHMRVSDNNTNGnKFDDLNDCDGADIFKGIRKEQWKCGKVCGLDVCGLK 523
Cdd:pfam18562   1 TTTIDMLVSDNRGIK-FENDLKECKEAGIFKGIRKDQWKCGKVCGYDVCKLK 51
 
Name Accession Description Interval E-value
Duffy_binding pfam05424
Duffy binding domain; This domain is found in Plasmodium Duffy binding proteins. Plasmodium ...
 37-201 1.90e-31

Duffy binding domain; This domain is found in Plasmodium Duffy binding proteins. Plasmodium vivax and Plasmodium knowlesi merozoites invade human erythrocytes that express Duffy blood group surface determinants. The Duffy receptor family is localized in micronemes, an organelle found in all organizms of the phylum Apicomplexa. This family is closely associated on PfEMP1 proteins with PFEMP, pfam03011.


Pssm-ID: 428465 [Multi-domain]  Cd Length: 178  Bit Score: 121.23  E-value: 1.90e-31
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 574997022   37 SSDKDPQVALLKAFVKSAAVETFFLWDRYkkikekekqekkdakgqiyesggkdeanknkdPQNQLKKGIIPEEFKRQMF 116
Cdd:pfam05424  20 SGNTTTTHDLLKAVILAAKYEGFSLWHKY--------------------------------KKKNTKYGDIPSEFCRQMA 67

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 574997022  117 YTLGDYRDICVGvkddvaealkasGDNKSGDKNIKDISEKIKEMLGK-----QPGPPVTKNSVDPRKTWWNENGKKIWEG 191
Cdd:pfam05424  68 YSFADIGDIIRG------------KDLYLGNNKKKKLEENLKKIFKKiyeklTSKGKDDGNYYQLREDWWEANREDIWKA 135

                         170
                  ....*....|
gi 574997022  192 MLCALTYDTN 201
Cdd:pfam05424 136 MTCALTYGAK 145
PFEMP pfam03011
PFEMP1 DBL domain; PfEMP1 (Plasmodium falciparum erythrocyte membrane protein) has been ...
 539-681 2.21e-26

PFEMP1 DBL domain; PfEMP1 (Plasmodium falciparum erythrocyte membrane protein) has been identified as the rosetting ligand of the malaria parasite P. falciparum. Rosetting is the adhesion of infected erythrocytes with uninfected erythrocytes in the vasculature of the infected organ, and is associated with severe malaria. PfEMP1 interacts with Complement Receptor One on uninfected erythrocytes to form rosettes. The extreme variation within these proteins and the grouping of var genes implies that var gene recombination preferentially occurs within var gene groups. These groups reflect a functional diversification that has evolved to cope with the varying conditions of transmission and host immune response met by the parasite. A recombination hotspot was uncovered between Duffy-binding-like (DBL) subdomains. Solution of the crystal structure of the N-terminal and first DBL region of PfEMP1 from the VarO variant of the PfEMP1 protein is found to be directly implicated in rosetting as the heparin-binding site.


Pssm-ID: 281064  Cd Length: 154  Bit Score: 105.66  E-value: 2.21e-26
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 574997022  539 LVAHWVQNFLEDYNKIRKKLKTCM-NSEVSKSENNCEKKHKCVNEWIEKKRTEWTKIKEYYQKQYG-----GNDSDNSYS 612
Cdd:pfam03011   1 LFKRWVEYFLEDSIKWRKKLKSCInNGKGKCCKKECKNDCECFKKWVEKKKEEWKKIKEHFLKQYKlkgltGKTLDEYLD 80

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 574997022  613 VRTFLEEVIPQIT---DANDKKQIIKLSKFDNSCGCSFSAHST--NGKDDAIDCMIKNLEKKIEECKKKHAQNG 681
Cdd:pfam03011  81 LKSFLETFLFYIDikeAYGDVKELKKLEEILDEEGCSAGAESAknNKNEDAIDKLLDKEEKKANNCKEKHKEND 154
CIDR1_gamma pfam18562
Cysteine-Rich Interdomain Region 1 gamma; Rosetting is the capacity of infected RBCs to bind ...
 472-523 8.85e-18

Cysteine-Rich Interdomain Region 1 gamma; Rosetting is the capacity of infected RBCs to bind uninfected RBCs, which is consistently associated with severe malaria in African children. The rosette-forming PfEMP1 adhesins, namely IT4/R29, Palo Alto 89F5 VarO, 3D7/PF13_0003 and IT4/var60, belong to a specific sub-group called groupA/UpsA var genes and all four present a specific Duffy Binding-Like and and Cysteine-Rich Interdomain Region (DBL1alpha1-CIDR1gamma) double domain Head region found at the extracellular region of PfEMP1. This entry represents the CIDR1gamma domain which increases the binding affinity to VarO (Palo Alto VarO parasites).


Pssm-ID: 408346  Cd Length: 52  Bit Score: 77.70  E-value: 8.85e-18
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|..
gi 574997022  472 NGNIHMRVSDNNTNGnKFDDLNDCDGADIFKGIRKEQWKCGKVCGLDVCGLK 523
Cdd:pfam18562   1 TTTIDMLVSDNRGIK-FENDLKECKEAGIFKGIRKDQWKCGKVCGYDVCKLK 51
 
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