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Conserved domains on  [gi|953267373|pdb|4RU4|F]
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Chain F, tail spike protein gp49

Protein Classification

right-handed parallel beta-helix repeat-containing protein( domain architecture ID 15761682)

right-handed parallel beta-helix repeat-containing protein that may share some similarity with pectate lyases, similar to Bacteroides thetaiotaomicron alpha-1,3-galactosidase B that removes both branched alpha-1,3-linked galactose residues of blood group B antigens and linear alpha-1,3-linked galactose structures

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
Pectate_lyase_3 super family cl40625
Pectate lyase superfamily protein; This family of proteins possesses a beta helical structure ...
 56-128 1.47e-03

Pectate lyase superfamily protein; This family of proteins possesses a beta helical structure like Pectate lyase. This family is most closely related to glycosyl hydrolase family 28.


The actual alignment was detected with superfamily member pfam12708:

Pssm-ID: 403800 [Multi-domain]  Cd Length: 213  Bit Score: 40.38  E-value: 1.47e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
4RU4_F         56 DWAALQAAVD------SGAPVHIPSGDYQINRGISSTGSLQIAGDGAT-SIIRPTAAFTGTSVLSCVGSLVALPNISSVS 128
Cdd:pfam12708  17 DTAAIQKAIDdggattTPAVVYFPPGTYLVSSPIILYSGTVLVGDGNNpPVLKAAPNFVGAGLIDGDPYTGGGPGIINTN 96
Beta_helix pfam13229
Right handed beta helix region; This region contains a parallel beta helix region that shares ...
 221-374 2.79e-03

Right handed beta helix region; This region contains a parallel beta helix region that shares some similarity with Pectate lyases.


:

Pssm-ID: 463811 [Multi-domain]  Cd Length: 158  Bit Score: 38.93  E-value: 2.79e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
4RU4_F        221 NGLLVEAVVSPRVDDVTVTLANNAGVYFARCYDAKITNSNISNIGdggdDYGIIFGNCHDGGADNCKvyarrhaIATGGD 300
Cdd:pfam13229   1 SGILLNGSSNATIKNNTISNNGGYGIYLRGSSNATIENNTITNNG----GDGIEISGSSNNTISNNT-------ISNNGG 69

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
4RU4_F        301 AEVGCVPVRNVRMRNCTLRNDITSGTHCADFHGNA-EDCSYENCTIYG-GATWQGKDISYRHCTITNASGGWIVIS 374
Cdd:pfam13229  70 GGIALRGSSNNLIENNTISNNGGAGIYLSDSSNNTiENNIIHNNGGSGiVIEDSSNNVTISNNTVTNNKGAGILIV 145
 
Name Accession Description Interval E-value
Pectate_lyase_3 pfam12708
Pectate lyase superfamily protein; This family of proteins possesses a beta helical structure ...
 56-128 1.47e-03

Pectate lyase superfamily protein; This family of proteins possesses a beta helical structure like Pectate lyase. This family is most closely related to glycosyl hydrolase family 28.


Pssm-ID: 403800 [Multi-domain]  Cd Length: 213  Bit Score: 40.38  E-value: 1.47e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
4RU4_F         56 DWAALQAAVD------SGAPVHIPSGDYQINRGISSTGSLQIAGDGAT-SIIRPTAAFTGTSVLSCVGSLVALPNISSVS 128
Cdd:pfam12708  17 DTAAIQKAIDdggattTPAVVYFPPGTYLVSSPIILYSGTVLVGDGNNpPVLKAAPNFVGAGLIDGDPYTGGGPGIINTN 96
Beta_helix pfam13229
Right handed beta helix region; This region contains a parallel beta helix region that shares ...
 221-374 2.79e-03

Right handed beta helix region; This region contains a parallel beta helix region that shares some similarity with Pectate lyases.


Pssm-ID: 463811 [Multi-domain]  Cd Length: 158  Bit Score: 38.93  E-value: 2.79e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
4RU4_F        221 NGLLVEAVVSPRVDDVTVTLANNAGVYFARCYDAKITNSNISNIGdggdDYGIIFGNCHDGGADNCKvyarrhaIATGGD 300
Cdd:pfam13229   1 SGILLNGSSNATIKNNTISNNGGYGIYLRGSSNATIENNTITNNG----GDGIEISGSSNNTISNNT-------ISNNGG 69

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
4RU4_F        301 AEVGCVPVRNVRMRNCTLRNDITSGTHCADFHGNA-EDCSYENCTIYG-GATWQGKDISYRHCTITNASGGWIVIS 374
Cdd:pfam13229  70 GGIALRGSSNNLIENNTISNNGGAGIYLSDSSNNTiENNIIHNNGGSGiVIEDSSNNVTISNNTVTNNKGAGILIV 145
 
Name Accession Description Interval E-value
Pectate_lyase_3 pfam12708
Pectate lyase superfamily protein; This family of proteins possesses a beta helical structure ...
 56-128 1.47e-03

Pectate lyase superfamily protein; This family of proteins possesses a beta helical structure like Pectate lyase. This family is most closely related to glycosyl hydrolase family 28.


Pssm-ID: 403800 [Multi-domain]  Cd Length: 213  Bit Score: 40.38  E-value: 1.47e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
4RU4_F         56 DWAALQAAVD------SGAPVHIPSGDYQINRGISSTGSLQIAGDGAT-SIIRPTAAFTGTSVLSCVGSLVALPNISSVS 128
Cdd:pfam12708  17 DTAAIQKAIDdggattTPAVVYFPPGTYLVSSPIILYSGTVLVGDGNNpPVLKAAPNFVGAGLIDGDPYTGGGPGIINTN 96
Beta_helix pfam13229
Right handed beta helix region; This region contains a parallel beta helix region that shares ...
 221-374 2.79e-03

Right handed beta helix region; This region contains a parallel beta helix region that shares some similarity with Pectate lyases.


Pssm-ID: 463811 [Multi-domain]  Cd Length: 158  Bit Score: 38.93  E-value: 2.79e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
4RU4_F        221 NGLLVEAVVSPRVDDVTVTLANNAGVYFARCYDAKITNSNISNIGdggdDYGIIFGNCHDGGADNCKvyarrhaIATGGD 300
Cdd:pfam13229   1 SGILLNGSSNATIKNNTISNNGGYGIYLRGSSNATIENNTITNNG----GDGIEISGSSNNTISNNT-------ISNNGG 69

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
4RU4_F        301 AEVGCVPVRNVRMRNCTLRNDITSGTHCADFHGNA-EDCSYENCTIYG-GATWQGKDISYRHCTITNASGGWIVIS 374
Cdd:pfam13229  70 GGIALRGSSNNLIENNTISNNGGAGIYLSDSSNNTiENNIIHNNGGSGiVIEDSSNNVTISNNTVTNNKGAGILIV 145
 
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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