NCBI Home Page NCBI Site Search page NCBI Guide that lists and describes the NCBI resources
Conserved domains on  [gi|2485958576|ref|WP_278736743|]
View 

hypothetical protein, partial [Parabacteroides johnsonii]

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
SmpA_OmlA super family cl46449
SmpA / OmlA family; Lipoprotein Bacterial outer membrane lipoprotein, possibly involved in in ...
 2-50 3.53e-06

SmpA / OmlA family; Lipoprotein Bacterial outer membrane lipoprotein, possibly involved in in maintaining the structural integrity of the cell envelope. Lipid attachment site is a conserved N terminal cysteine residue. Sometimes found adjacent to the OmpA domain (pfam00691).


The actual alignment was detected with superfamily member COG2913:

Pssm-ID: 480789  Cd Length: 128  Bit Score: 42.33  E-value: 3.53e-06
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*..
gi 2485958576   2 MKKIKWMY-VLLATFLLTSCGTLM------QPYQMDSKM-KDIELGMTKKKVISILG 50
Cdd:COG2913     1 MRKLRLLLlALLLALLLAGCSSFVykidiqQGNVVTQEDlAQLKPGMTKEQVRYLLG 57
 
Name Accession Description Interval E-value
BamE COG2913
Outer membrane protein assembly factor BamE, lipoprotein component of the BamABCDE complex ...
 2-50 3.53e-06

Outer membrane protein assembly factor BamE, lipoprotein component of the BamABCDE complex [Cell wall/membrane/envelope biogenesis];


Pssm-ID: 442157  Cd Length: 128  Bit Score: 42.33  E-value: 3.53e-06
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*..
gi 2485958576   2 MKKIKWMY-VLLATFLLTSCGTLM------QPYQMDSKM-KDIELGMTKKKVISILG 50
Cdd:COG2913     1 MRKLRLLLlALLLALLLAGCSSFVykidiqQGNVVTQEDlAQLKPGMTKEQVRYLLG 57
 
Name Accession Description Interval E-value
BamE COG2913
Outer membrane protein assembly factor BamE, lipoprotein component of the BamABCDE complex ...
 2-50 3.53e-06

Outer membrane protein assembly factor BamE, lipoprotein component of the BamABCDE complex [Cell wall/membrane/envelope biogenesis];


Pssm-ID: 442157  Cd Length: 128  Bit Score: 42.33  E-value: 3.53e-06
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*..
gi 2485958576   2 MKKIKWMY-VLLATFLLTSCGTLM------QPYQMDSKM-KDIELGMTKKKVISILG 50
Cdd:COG2913     1 MRKLRLLLlALLLALLLAGCSSFVykidiqQGNVVTQEDlAQLKPGMTKEQVRYLLG 57
 
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