NCBI Home Page NCBI Site Search page NCBI Guide that lists and describes the NCBI resources
Conserved domains on  [gi|992002343|ref|WP_060988953|]
View 

outer membrane beta-barrel protein [Photobacterium leiognathi]

Protein Classification

porin family protein( domain architecture ID 229388)

porin family protein is a member of a large superfamily consisting of classical (gram-negative ) porins which are non-specific channels for small hydrophillic molecules, maltoporin-like channels which have specificities for various sugars, and ligand-gated protein channels which cooperate with a TonB associated inner membrane complex to actively transport ligands via the proton motive force

Graphical summary

 Zoom to residue level

show extra options »

Show site features     Horizontal zoom: ×

List of domain hits

 Name Accession Description Interval E-value
OMP_b-brl super family cl48197
Outer membrane protein beta-barrel domain; This domain is found in a wide range of outer ...
 32-203 1.89e-09

Outer membrane protein beta-barrel domain; This domain is found in a wide range of outer membrane proteins. This domain assumes a membrane bound beta-barrel fold.


The actual alignment was detected with superfamily member pfam13505:

Pssm-ID: 463903 [Multi-domain]  Cd Length: 175  Bit Score: 54.71  E-value: 1.89e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 992002343   32 GFYVGAGVGTTDFhddresflkNNHTVGYSNDGGaesYKIIAGYQFNRIVSLEAQYTAYGDvthtlEKNGIKVTGKTKHE 111
Cdd:pfam13505  21 GFYVGGGLGNANF---------SFDGDGTDSGGG---FGVGAGYDFNDYLGVEGELGYGSD-----DDYSGGGNTDANIR 83

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 992002343  112 SFSLAANLGYTFD--NGLRPFATVGFGQISLK----DPMIKDDGGLIRLGAGLEYQVKqvPGLGIRAAYEadFYTLETAV 185
Cdd:pfam13505  84 SLSIGVNLGYRFPlsDSLLPYGGAGYGYSKLEgdynGVSDSGTDFGFGYGAGVEYALT--DHLAVRAEYR--YTDIKSGG 159

                         170
                  ....*....|....*...
gi 992002343  186 KDFDQSvgSWYLGTTYKF 203
Cdd:pfam13505 160 DDLKNN--TFQLGVGYRF 175
 
Name Accession Description Interval E-value
OMP_b-brl pfam13505
Outer membrane protein beta-barrel domain; This domain is found in a wide range of outer ...
 32-203 1.89e-09

Outer membrane protein beta-barrel domain; This domain is found in a wide range of outer membrane proteins. This domain assumes a membrane bound beta-barrel fold.


Pssm-ID: 463903 [Multi-domain]  Cd Length: 175  Bit Score: 54.71  E-value: 1.89e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 992002343   32 GFYVGAGVGTTDFhddresflkNNHTVGYSNDGGaesYKIIAGYQFNRIVSLEAQYTAYGDvthtlEKNGIKVTGKTKHE 111
Cdd:pfam13505  21 GFYVGGGLGNANF---------SFDGDGTDSGGG---FGVGAGYDFNDYLGVEGELGYGSD-----DDYSGGGNTDANIR 83

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 992002343  112 SFSLAANLGYTFD--NGLRPFATVGFGQISLK----DPMIKDDGGLIRLGAGLEYQVKqvPGLGIRAAYEadFYTLETAV 185
Cdd:pfam13505  84 SLSIGVNLGYRFPlsDSLLPYGGAGYGYSKLEgdynGVSDSGTDFGFGYGAGVEYALT--DHLAVRAEYR--YTDIKSGG 159

                         170
                  ....*....|....*...
gi 992002343  186 KDFDQSvgSWYLGTTYKF 203
Cdd:pfam13505 160 DDLKNN--TFQLGVGYRF 175
LomR COG3637
Opacity protein LomR and related surface antigens [Cell wall/membrane/envelope biogenesis];
73-203 4.49e-08

Opacity protein LomR and related surface antigens [Cell wall/membrane/envelope biogenesis];


Pssm-ID: 442854 [Multi-domain]  Cd Length: 154  Bit Score: 50.35  E-value: 4.49e-08
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 992002343  73 AGYQF---NRIVSLEAQYTAYGdvthtLEKNGIKVTGKTKHESFSLAANLGYTFDNGLRPFATVGFGQISLKDPMIKDDG 149
Cdd:COG3637   15 AGYNFqfdNFVLGVEGDYSYSD-----IDGDSSGTTGSGDLDYLSLRARAGYDFNDRFLPYATAGVAYARVKVTGNTGSG 89

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 992002343 150 GLIR---------LGAGLEYQVkqVPGLGIRAAYE----ADFYTLETAVKDFDQSVGSWYLGTTYKF 203
Cdd:COG3637   90 TSGSdsdtrfgwtVGAGVEYAL--TDNWSLRLEYRytdlGDADFDGGGSVDVDLDSHTVRVGLNYRF 154
PRK10808 PRK10808
outer membrane protein A; Reviewed
 1-160 2.00e-04

outer membrane protein A; Reviewed


Pssm-ID: 236764 [Multi-domain]  Cd Length: 351  Bit Score: 41.21  E-value: 2.00e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 992002343   1 MKKLLLATLVC-SLSSTYAVAS--ENTtnsnkyqgFYVGAGVGTTDFHDDRESFLKNNhTVGYSNDGGAESYkiiAGYQF 77
Cdd:PRK10808   1 MKKTAIAIAVAlAGFATVAQAApkDNT--------WYTGGKLGWSQYHDTGYGFINNN-GPTHKNQLGAGAF---GGYQA 68

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 992002343  78 NRIVSLEAQYTAYGDVTHTleknGIKVTGKTKHESFSLAANLGYTFDNGLRPFATVG-----------FGQISLKDpmik 146
Cdd:PRK10808  69 NPYLGFEMGYDWLGRMPYK----GDVNNGAFKAQGVQLTAKLGYPITDDLDVYTRLGgmvwradtksnVPGARGKD---- 140

                        170
                 ....*....|....*
gi 992002343 147 DDGGLIRLGA-GLEY 160
Cdd:PRK10808 141 HDTGVSPVFAgGVEY 155
 
Name Accession Description Interval E-value
OMP_b-brl pfam13505
Outer membrane protein beta-barrel domain; This domain is found in a wide range of outer ...
 32-203 1.89e-09

Outer membrane protein beta-barrel domain; This domain is found in a wide range of outer membrane proteins. This domain assumes a membrane bound beta-barrel fold.


Pssm-ID: 463903 [Multi-domain]  Cd Length: 175  Bit Score: 54.71  E-value: 1.89e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 992002343   32 GFYVGAGVGTTDFhddresflkNNHTVGYSNDGGaesYKIIAGYQFNRIVSLEAQYTAYGDvthtlEKNGIKVTGKTKHE 111
Cdd:pfam13505  21 GFYVGGGLGNANF---------SFDGDGTDSGGG---FGVGAGYDFNDYLGVEGELGYGSD-----DDYSGGGNTDANIR 83

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 992002343  112 SFSLAANLGYTFD--NGLRPFATVGFGQISLK----DPMIKDDGGLIRLGAGLEYQVKqvPGLGIRAAYEadFYTLETAV 185
Cdd:pfam13505  84 SLSIGVNLGYRFPlsDSLLPYGGAGYGYSKLEgdynGVSDSGTDFGFGYGAGVEYALT--DHLAVRAEYR--YTDIKSGG 159

                         170
                  ....*....|....*...
gi 992002343  186 KDFDQSvgSWYLGTTYKF 203
Cdd:pfam13505 160 DDLKNN--TFQLGVGYRF 175
LomR COG3637
Opacity protein LomR and related surface antigens [Cell wall/membrane/envelope biogenesis];
73-203 4.49e-08

Opacity protein LomR and related surface antigens [Cell wall/membrane/envelope biogenesis];


Pssm-ID: 442854 [Multi-domain]  Cd Length: 154  Bit Score: 50.35  E-value: 4.49e-08
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 992002343  73 AGYQF---NRIVSLEAQYTAYGdvthtLEKNGIKVTGKTKHESFSLAANLGYTFDNGLRPFATVGFGQISLKDPMIKDDG 149
Cdd:COG3637   15 AGYNFqfdNFVLGVEGDYSYSD-----IDGDSSGTTGSGDLDYLSLRARAGYDFNDRFLPYATAGVAYARVKVTGNTGSG 89

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 992002343 150 GLIR---------LGAGLEYQVkqVPGLGIRAAYE----ADFYTLETAVKDFDQSVGSWYLGTTYKF 203
Cdd:COG3637   90 TSGSdsdtrfgwtVGAGVEYAL--TDNWSLRLEYRytdlGDADFDGGGSVDVDLDSHTVRVGLNYRF 154
OmpA_membrane pfam01389
OmpA-like transmembrane domain; The structure of OmpA transmembrane domain shows that it ...
 33-203 3.18e-06

OmpA-like transmembrane domain; The structure of OmpA transmembrane domain shows that it consists of an eight stranded beta barrel. This family includes some other distantly related outer membrane proteins with low scores.


Pssm-ID: 396112  Cd Length: 177  Bit Score: 45.51  E-value: 3.18e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 992002343   33 FYVGAGVGTTDFHDDresflkNNHTVGYSNDGGAESYKIIAGYQFNRIVSLEAQYTAYGDVTHtlekNGIKVTGKTKHES 112
Cdd:pfam01389   6 WYTGAKAGWASFHDT------GNIEGNGPTHENSLTAGAFGGYQINNYLAAELGYDYLGRMPY----KGKGKNNAHKAQG 75

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 992002343  113 FSLAANLGYTFDNGLRPFATVG---------FGQISLKDPMIKDDGGLIRLGAGLEYQVkqVPGLGIRAAYE--ADFYTL 181
Cdd:pfam01389  76 VTLSLKLSYPLTDDLDVYGKVGgalvradykFYEDANGKTGNHDTGVSPLFALGVEYAI--TPELAVRLEYQylNNIGDL 153

                         170       180
                  ....*....|....*....|..
gi 992002343  182 ETAVKDFDQSVGSwyLGTTYKF 203
Cdd:pfam01389 154 HKQGKRPDNGSAS--LGISYRF 173
PRK10808 PRK10808
outer membrane protein A; Reviewed
 1-160 2.00e-04

outer membrane protein A; Reviewed


Pssm-ID: 236764 [Multi-domain]  Cd Length: 351  Bit Score: 41.21  E-value: 2.00e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 992002343   1 MKKLLLATLVC-SLSSTYAVAS--ENTtnsnkyqgFYVGAGVGTTDFHDDRESFLKNNhTVGYSNDGGAESYkiiAGYQF 77
Cdd:PRK10808   1 MKKTAIAIAVAlAGFATVAQAApkDNT--------WYTGGKLGWSQYHDTGYGFINNN-GPTHKNQLGAGAF---GGYQA 68

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 992002343  78 NRIVSLEAQYTAYGDVTHTleknGIKVTGKTKHESFSLAANLGYTFDNGLRPFATVG-----------FGQISLKDpmik 146
Cdd:PRK10808  69 NPYLGFEMGYDWLGRMPYK----GDVNNGAFKAQGVQLTAKLGYPITDDLDVYTRLGgmvwradtksnVPGARGKD---- 140

                        170
                 ....*....|....*
gi 992002343 147 DDGGLIRLGA-GLEY 160
Cdd:PRK10808 141 HDTGVSPVFAgGVEY 155
 
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