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Conserved domains on  [gi|2485516079|ref|WP_278349861|]
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phage baseplate assembly protein V, partial [Marinobacter nauticus]

Protein Classification

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
VgrG super family cl34624
Uncharacterized conserved protein VgrG, implicated in type VI secretion and phage assembly ...
 1-79 4.99e-47

Uncharacterized conserved protein VgrG, implicated in type VI secretion and phage assembly [Intracellular trafficking, secretion, and vesicular transport, Mobilome: prophages, transposons, General function prediction only];


The actual alignment was detected with superfamily member COG3501:

Pssm-ID: 442724 [Multi-domain]  Cd Length: 743  Bit Score: 158.39  E-value: 4.99e-47
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2485516079   1 IPADKTWRPLCNH-KPVMDGPQMALVTGPEGEEIHCDQYGRVKVRFPWDRYSKNDEHSSAWLRVAQGWAGGQYGFMALPR 79
Cdd:COG3501   349 IPADVPFRPPRRTpKPRIAGPQTATVVGPAGEEIHTDEYGRVKVQFHWDREGKKDENSSCWVRVAQPWAGAGWGGHFIPR 428
 
Name Accession Description Interval E-value
VgrG COG3501
Uncharacterized conserved protein VgrG, implicated in type VI secretion and phage assembly ...
 1-79 4.99e-47

Uncharacterized conserved protein VgrG, implicated in type VI secretion and phage assembly [Intracellular trafficking, secretion, and vesicular transport, Mobilome: prophages, transposons, General function prediction only];


Pssm-ID: 442724 [Multi-domain]  Cd Length: 743  Bit Score: 158.39  E-value: 4.99e-47
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2485516079   1 IPADKTWRPLCNH-KPVMDGPQMALVTGPEGEEIHCDQYGRVKVRFPWDRYSKNDEHSSAWLRVAQGWAGGQYGFMALPR 79
Cdd:COG3501   349 IPADVPFRPPRRTpKPRIAGPQTATVVGPAGEEIHTDEYGRVKVQFHWDREGKKDENSSCWVRVAQPWAGAGWGGHFIPR 428
VI_Rhs_Vgr TIGR03361
type VI secretion system Vgr family protein; Members of this protein family belong to the Rhs ...
 1-79 5.65e-47

type VI secretion system Vgr family protein; Members of this protein family belong to the Rhs element Vgr protein family (see TIGR01646), but furthermore all are found in genomes with type VI secretion loci. However, members of this protein family, although recognizably correlated to type VI secretion according the partial phylogenetic profiling algorithm, are often found far the type VI secretion locus.


Pssm-ID: 274542 [Multi-domain]  Cd Length: 513  Bit Score: 155.44  E-value: 5.65e-47
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2485516079   1 IPADKTWRPLCNH-KPVMDGPQMALVTGPEGEEIHCDQYGRVKVRFPWDRYSKNDEHSSAWLRVAQGWAGGQYGFMALPR 79
Cdd:TIGR03361 341 IPATVPFRPPRRTpKPRIDGPQTATVVGPAGEEIYTDEYGRVKVQFHWDRYGKRDEKSSCWVRVAQPWAGNGWGSVAIPR 420
VgrG_rel NF033848
VgrG-related protein; Members of this family resemble Vgr proteins of type VI secretion ...
 13-73 3.66e-06

VgrG-related protein; Members of this family resemble Vgr proteins of type VI secretion systems (T6SS) as found in various proteobacteria. However, members of this family occur instead in genera such as Streptomyces and Roseiflexus. The biological roles and molecular functions of proteins in this family appear not to have been characterized.


Pssm-ID: 468205 [Multi-domain]  Cd Length: 547  Bit Score: 42.60  E-value: 3.66e-06
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 2485516079  13 HKPVMDGPQMALVTG---PEGEeihcdqyGRVKVRFPWdrysKNDEHSSAWLRVAQgwAGGQYG 73
Cdd:NF033848  369 RGPRLPGVAIAIVTDvkdPLKL-------GRVKLKFPW----LDDTYVSDWARTVQ--WGGKGG 419
Phage_base_V pfam04717
Type VI secretion system/phage-baseplate injector OB domain; Family of bacterial and phage ...
 36-78 2.03e-04

Type VI secretion system/phage-baseplate injector OB domain; Family of bacterial and phage baseplate assembly proteins responsible for forming the small spike at the end of the tail or bacterial pathogenic needle-shaft. This entry represents the OB fold part of the structure. This structure contains an unusual extra beta hairpin that forms the foundation of the spike protein's beta helix.


Pssm-ID: 428084 [Multi-domain]  Cd Length: 75  Bit Score: 36.02  E-value: 2.03e-04
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|...
gi 2485516079 36 DQYGRVKVRFPWdrysKNDEHSSAWLRVAQGWAGGQYGFMALP 78
Cdd:pfam04717 12 DKLGRVKVGVPW----LTDEEESGWARWAAPRAGAGRGLWFLP 50
 
Name Accession Description Interval E-value
VgrG COG3501
Uncharacterized conserved protein VgrG, implicated in type VI secretion and phage assembly ...
 1-79 4.99e-47

Uncharacterized conserved protein VgrG, implicated in type VI secretion and phage assembly [Intracellular trafficking, secretion, and vesicular transport, Mobilome: prophages, transposons, General function prediction only];


Pssm-ID: 442724 [Multi-domain]  Cd Length: 743  Bit Score: 158.39  E-value: 4.99e-47
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2485516079   1 IPADKTWRPLCNH-KPVMDGPQMALVTGPEGEEIHCDQYGRVKVRFPWDRYSKNDEHSSAWLRVAQGWAGGQYGFMALPR 79
Cdd:COG3501   349 IPADVPFRPPRRTpKPRIAGPQTATVVGPAGEEIHTDEYGRVKVQFHWDREGKKDENSSCWVRVAQPWAGAGWGGHFIPR 428
VI_Rhs_Vgr TIGR03361
type VI secretion system Vgr family protein; Members of this protein family belong to the Rhs ...
 1-79 5.65e-47

type VI secretion system Vgr family protein; Members of this protein family belong to the Rhs element Vgr protein family (see TIGR01646), but furthermore all are found in genomes with type VI secretion loci. However, members of this protein family, although recognizably correlated to type VI secretion according the partial phylogenetic profiling algorithm, are often found far the type VI secretion locus.


Pssm-ID: 274542 [Multi-domain]  Cd Length: 513  Bit Score: 155.44  E-value: 5.65e-47
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2485516079   1 IPADKTWRPLCNH-KPVMDGPQMALVTGPEGEEIHCDQYGRVKVRFPWDRYSKNDEHSSAWLRVAQGWAGGQYGFMALPR 79
Cdd:TIGR03361 341 IPATVPFRPPRRTpKPRIDGPQTATVVGPAGEEIYTDEYGRVKVQFHWDRYGKRDEKSSCWVRVAQPWAGNGWGSVAIPR 420
vgr_GE TIGR01646
Rhs element Vgr protein; This model represents the Vgr family of proteins, associated with ...
 1-79 6.60e-33

Rhs element Vgr protein; This model represents the Vgr family of proteins, associated with some classes of Rhs elements. This model does not include a large octapeptide repeat region, VGXXXXXX, found in the Vgr of Rhs classes G and E.


Pssm-ID: 273730 [Multi-domain]  Cd Length: 483  Bit Score: 117.57  E-value: 6.60e-33
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 2485516079   1 IPADKTWRPLCNHKPVMDGPQMALVTGPEGEEIHCDQYGRVKVRFPWDRYSKNDEHSSAWLRVAQGWAGGQYGFMALPR 79
Cdd:TIGR01646 331 IEVDVIWRPAATPLPKVNGPQIAVVVGAQGEEIHTDKYGRIRVHFHWDRYGQSNDYSSCWIRVAQPWAGKNWGSLAIPR 409
VgrG_rel NF033848
VgrG-related protein; Members of this family resemble Vgr proteins of type VI secretion ...
 13-73 3.66e-06

VgrG-related protein; Members of this family resemble Vgr proteins of type VI secretion systems (T6SS) as found in various proteobacteria. However, members of this family occur instead in genera such as Streptomyces and Roseiflexus. The biological roles and molecular functions of proteins in this family appear not to have been characterized.


Pssm-ID: 468205 [Multi-domain]  Cd Length: 547  Bit Score: 42.60  E-value: 3.66e-06
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 2485516079  13 HKPVMDGPQMALVTG---PEGEeihcdqyGRVKVRFPWdrysKNDEHSSAWLRVAQgwAGGQYG 73
Cdd:NF033848  369 RGPRLPGVAIAIVTDvkdPLKL-------GRVKLKFPW----LDDTYVSDWARTVQ--WGGKGG 419
Phage_base_V pfam04717
Type VI secretion system/phage-baseplate injector OB domain; Family of bacterial and phage ...
 36-78 2.03e-04

Type VI secretion system/phage-baseplate injector OB domain; Family of bacterial and phage baseplate assembly proteins responsible for forming the small spike at the end of the tail or bacterial pathogenic needle-shaft. This entry represents the OB fold part of the structure. This structure contains an unusual extra beta hairpin that forms the foundation of the spike protein's beta helix.


Pssm-ID: 428084 [Multi-domain]  Cd Length: 75  Bit Score: 36.02  E-value: 2.03e-04
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|...
gi 2485516079 36 DQYGRVKVRFPWdrysKNDEHSSAWLRVAQGWAGGQYGFMALP 78
Cdd:pfam04717 12 DKLGRVKVGVPW----LTDEEESGWARWAAPRAGAGRGLWFLP 50
 
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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