NCBI Home Page NCBI Site Search page NCBI Guide that lists and describes the NCBI resources
Conserved domains on  [gi|2055354322|ref|WP_216358429|]
View 

contractile injection system protein, VgrG/Pvc8 family, partial [Enterobacter quasimori]

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
VgrG super family cl34624
Uncharacterized conserved protein VgrG, implicated in type VI secretion and phage assembly ...
 3-138 5.90e-40

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: 141.44  E-value: 5.90e-40
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2055354322   3 NRITVQ--LPVEGLLFWKLTGREAMSESFALTLTVLGTDARIDRSKLLGQPVTVTIPTQNLlTSRYINGKITRVAVSAve 80
Cdd:COG3501     8 RLLTLEtpLGDDALLVLRFSGEEALSRPFEFELELLSEDADLDLDALLGKPATLTLRTADG-PERYFHGIVTEFEQLG-- 84

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|....*....
gi 2055354322  81 lTGTRYAVYQLTVEPDLWPMKRDRNLRIFQGQTVPQIVKTLLGEHQVN-VEDKLTGSYR 138
Cdd:COG3501    85 -TDGGLARYRLTLVPWLWLLTLRRDSRIFQDKSVPDIVEEVLAEYGLAaFEFRLSGSYP 142
 
Name Accession Description Interval E-value
VgrG COG3501
Uncharacterized conserved protein VgrG, implicated in type VI secretion and phage assembly ...
 3-138 5.90e-40

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: 141.44  E-value: 5.90e-40
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2055354322   3 NRITVQ--LPVEGLLFWKLTGREAMSESFALTLTVLGTDARIDRSKLLGQPVTVTIPTQNLlTSRYINGKITRVAVSAve 80
Cdd:COG3501     8 RLLTLEtpLGDDALLVLRFSGEEALSRPFEFELELLSEDADLDLDALLGKPATLTLRTADG-PERYFHGIVTEFEQLG-- 84

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|....*....
gi 2055354322  81 lTGTRYAVYQLTVEPDLWPMKRDRNLRIFQGQTVPQIVKTLLGEHQVN-VEDKLTGSYR 138
Cdd:COG3501    85 -TDGGLARYRLTLVPWLWLLTLRRDSRIFQDKSVPDIVEEVLAEYGLAaFEFRLSGSYP 142
VI_Rhs_Vgr TIGR03361
type VI secretion system Vgr family protein; Members of this protein family belong to the Rhs ...
 4-138 2.07e-35

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: 127.32  E-value: 2.07e-35
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2055354322   4 RITVQLPVEGLLFWKLTGREAMSESFALTLTVLGTDARIDRSKLLGQPVTVTIpTQNLLTSRYINGKITRVAVSAvelTG 83
Cdd:TIGR03361   2 TLSTPLGPDALQVLSFSGDEALSRLFSFRLELVSADPDIDLEDLLGQPATLTL-GRDGGGPRYFHGIVTRFEQGG---TG 77

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|....*.
gi 2055354322  84 TRYAVYQLTVEPDLWPMKRDRNLRIFQGQTVPQIVKTLLGEHQV-NVEDKLTGSYR 138
Cdd:TIGR03361  78 RRLTRYRLTLVPWLWLLTLRRDSRIFQNKSVPEIITEVLKEHGItDFRFRLSKSYP 133
Phage_GPD pfam05954
Phage tail baseplate hub (GPD); This family includes a number of phage late expression gene D ...
 24-138 1.09e-29

Phage tail baseplate hub (GPD); This family includes a number of phage late expression gene D proteins and related bacterial sequences. This family also includes Bacteriophage Mu P proteins and related sequences. This protein forms the phage central baseplate hub.


Pssm-ID: 428689  Cd Length: 302  Bit Score: 108.94  E-value: 1.09e-29
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2055354322  24 AMSESFALTLTVLGTDARIDRSKLLGQPVTVTIPTQNLLTsRYINGKITRVAVSAvelTGTRYAVYQLTVEPDLWPMKRD 103
Cdd:pfam05954   1 GLSRLFEFELTLLSDDPDIDLKALLGQPVTVSIELDGGGP-RYFHGIVTEFEQVG---SDGRLTRYRLTLVPWLWLLTLR 76

                          90       100       110
                  ....*....|....*....|....*....|....*..
gi 2055354322 104 RNLRIFQGQTVPQIVKTLLGEHQVNVEDK--LTGSYR 138
Cdd:pfam05954  77 RDSRIFQNKTVPDILEAVLGEHGIAVAFRfrLTRSYP 113
 
Name Accession Description Interval E-value
VgrG COG3501
Uncharacterized conserved protein VgrG, implicated in type VI secretion and phage assembly ...
 3-138 5.90e-40

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: 141.44  E-value: 5.90e-40
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2055354322   3 NRITVQ--LPVEGLLFWKLTGREAMSESFALTLTVLGTDARIDRSKLLGQPVTVTIPTQNLlTSRYINGKITRVAVSAve 80
Cdd:COG3501     8 RLLTLEtpLGDDALLVLRFSGEEALSRPFEFELELLSEDADLDLDALLGKPATLTLRTADG-PERYFHGIVTEFEQLG-- 84

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|....*....
gi 2055354322  81 lTGTRYAVYQLTVEPDLWPMKRDRNLRIFQGQTVPQIVKTLLGEHQVN-VEDKLTGSYR 138
Cdd:COG3501    85 -TDGGLARYRLTLVPWLWLLTLRRDSRIFQDKSVPDIVEEVLAEYGLAaFEFRLSGSYP 142
VI_Rhs_Vgr TIGR03361
type VI secretion system Vgr family protein; Members of this protein family belong to the Rhs ...
 4-138 2.07e-35

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: 127.32  E-value: 2.07e-35
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2055354322   4 RITVQLPVEGLLFWKLTGREAMSESFALTLTVLGTDARIDRSKLLGQPVTVTIpTQNLLTSRYINGKITRVAVSAvelTG 83
Cdd:TIGR03361   2 TLSTPLGPDALQVLSFSGDEALSRLFSFRLELVSADPDIDLEDLLGQPATLTL-GRDGGGPRYFHGIVTRFEQGG---TG 77

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|....*.
gi 2055354322  84 TRYAVYQLTVEPDLWPMKRDRNLRIFQGQTVPQIVKTLLGEHQV-NVEDKLTGSYR 138
Cdd:TIGR03361  78 RRLTRYRLTLVPWLWLLTLRRDSRIFQNKSVPEIITEVLKEHGItDFRFRLSKSYP 133
Phage_GPD pfam05954
Phage tail baseplate hub (GPD); This family includes a number of phage late expression gene D ...
 24-138 1.09e-29

Phage tail baseplate hub (GPD); This family includes a number of phage late expression gene D proteins and related bacterial sequences. This family also includes Bacteriophage Mu P proteins and related sequences. This protein forms the phage central baseplate hub.


Pssm-ID: 428689  Cd Length: 302  Bit Score: 108.94  E-value: 1.09e-29
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2055354322  24 AMSESFALTLTVLGTDARIDRSKLLGQPVTVTIPTQNLLTsRYINGKITRVAVSAvelTGTRYAVYQLTVEPDLWPMKRD 103
Cdd:pfam05954   1 GLSRLFEFELTLLSDDPDIDLKALLGQPVTVSIELDGGGP-RYFHGIVTEFEQVG---SDGRLTRYRLTLVPWLWLLTLR 76

                          90       100       110
                  ....*....|....*....|....*....|....*..
gi 2055354322 104 RNLRIFQGQTVPQIVKTLLGEHQVNVEDK--LTGSYR 138
Cdd:pfam05954  77 RDSRIFQNKTVPDILEAVLGEHGIAVAFRfrLTRSYP 113
vgr_GE TIGR01646
Rhs element Vgr protein; This model represents the Vgr family of proteins, associated with ...
 19-138 2.54e-14

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: 68.27  E-value: 2.54e-14
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2055354322  19 LTGREAMSESFALTLTVLGTDARIDRSKLLGQPVTVTIPTQN-LLTSRYINGKITrvavsAVELTGTR--YAVYQLTVEP 95
Cdd:TIGR01646   6 FEGNEILSQPFTYELILRSADADLDLAAMLGKDASLSLELPDaASTQRIFTGVIA-----GFSLGSTAngDARYSLVLRP 80

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....
gi 2055354322  96 DLWPMKRDRNLRIFQGQTVPQIVKTLLGEHQVN-VEDKLTGSYR 138
Cdd:TIGR01646  81 WLWLLTRRRNNRIFQDTSVPDIIEEILREYGFAdFRFDVAREYP 124
 
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