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Conserved domains on  [gi|500721471|ref|WP_011980580|]
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porin family protein [Sulfurovum sp. NBC37-1]

Protein Classification

porin family protein( domain architecture ID 10607185)

porin family protein containing a beta-barrel domain, such as outer-membrane protein J of Moraxella catarrhalis, suggested to contribute to bacterial clearance from the lungs

CATH:  2.40.160.10
Gene Ontology:  GO:0009279|GO:0015288
PubMed:  31792365|31214985
SCOP:  4003061

Graphical summary

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List of domain hits

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 ...
38-212 2.18e-15

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: 70.89  E-value: 2.18e-15
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 500721471   38 SSDAGFYVGLAYAAVHnevaISNGRYGDVDYHGYMLQAGYKFNPYIAVEARYWDTKDDKITtthpTGGTRTLDAQFDAWG 117
Cdd:pfam13505  17 EEFGGFYVGGGLGNAN----FSFDGDGTDSGGGFGVGAGYDFNDYLGVEGELGYGSDDDYS----GGGNTDANIRSLSIG 88
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 500721471  118 VYLKPMYPVTEALDVYVLLGWGH----QDSQHGPYNPKDSSFSWGGGASYSLTENISVFADYvRIYDDTAIKGNVNPfge 193
Cdd:pfam13505  89 VNLGYRFPLSDSLLPYGGAGYGYskleGDYNGVSDSGTDFGFGYGAGVEYALTDHLAVRAEY-RYTDIKSGGDDLKN--- 164
                         170
                  ....*....|....*....
gi 500721471  194 iidvdvesSSWNIGLSYKF 212
Cdd:pfam13505 165 --------NTFQLGVGYRF 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 ...
38-212 2.18e-15

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: 70.89  E-value: 2.18e-15
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 500721471   38 SSDAGFYVGLAYAAVHnevaISNGRYGDVDYHGYMLQAGYKFNPYIAVEARYWDTKDDKITtthpTGGTRTLDAQFDAWG 117
Cdd:pfam13505  17 EEFGGFYVGGGLGNAN----FSFDGDGTDSGGGFGVGAGYDFNDYLGVEGELGYGSDDDYS----GGGNTDANIRSLSIG 88
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 500721471  118 VYLKPMYPVTEALDVYVLLGWGH----QDSQHGPYNPKDSSFSWGGGASYSLTENISVFADYvRIYDDTAIKGNVNPfge 193
Cdd:pfam13505  89 VNLGYRFPLSDSLLPYGGAGYGYskleGDYNGVSDSGTDFGFGYGAGVEYALTDHLAVRAEY-RYTDIKSGGDDLKN--- 164
                         170
                  ....*....|....*....
gi 500721471  194 iidvdvesSSWNIGLSYKF 212
Cdd:pfam13505 165 --------NTFQLGVGYRF 175
LomR COG3637
Opacity protein LomR and related surface antigens [Cell wall/membrane/envelope biogenesis];
73-212 1.57e-14

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


Pssm-ID: 442854 [Multi-domain]  Cd Length: 154  Bit Score: 68.07  E-value: 1.57e-14
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 500721471  73 LQAGYKF---NPYIAVEARYWDTKDDKittthpTGGTRTLDAQFDAWGVYLKPMYPVTEALDVYVLLGWGH-------QD 142
Cdd:COG3637   13 VQAGYNFqfdNFVLGVEGDYSYSDIDG------DSSGTTGSGDLDYLSLRARAGYDFNDRFLPYATAGVAYarvkvtgNT 86
                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 500721471 143 SQHGPYNPKDSSFSW--GGGASYSLTENISVFADYVRI-YDDTAIKGNVNpfgeiIDVDVESSSWNIGLSYKF 212
Cdd:COG3637   87 GSGTSGSDSDTRFGWtvGAGVEYALTDNWSLRLEYRYTdLGDADFDGGGS-----VDVDLDSHTVRVGLNYRF 154
gram_neg_porins cd00342
Porins form aqueous channels for the diffusion of small hydrophillic molecules across the ...
39-212 5.91e-07

Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers are stabilized by hytrophillic clamping of Loop L2. Loop 3 bends into the pore, creating an elliptical constriction of about 7 x 11A, large enough to allow passage of a glucose molecule without steric hindrance. Removal of the C-terminal residue (usuallly F) destabilizes the trimer and removal of the 16th beta-sheet abolishes trimerization. Unlike typical membrane proteins, porins lack long hydrophobic stretches. Short turns are found at the smooth, periplasmic end, longer irregular loops are found at the rough, extracellular end. C-terminal residue forms salt bridge with N-terminus.


Pssm-ID: 238208 [Multi-domain]  Cd Length: 329  Bit Score: 48.91  E-value: 5.91e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 500721471  39 SDAGFYVGLAYAAVHNEVAISNGRYGDVDYHGYMLQAGYKFNP-YIAVEARYwdtkddkittTHPTGGTRTLDAQFDAWG 117
Cdd:cd00342  171 ENGPLSLGAAYDQQRNGGGAAGGAAGATSQRAYGAGASYDFGGlKLGAGYTN----------TRNDNGGGGGSAKFNGYE 240
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 500721471 118 VYLkpMYPVTEALdvYVLLGWGHQDSQHGpYNPKDSSFSWGGGASYSLTENISVFADYVRIYDDTAIKGNVNPFGEIIDV 197
Cdd:cd00342  241 LGA--TYQLTPAL--RLGAAYYYTKDRND-GGGDGKANQVALGADYALSKRTDLYAEYGYQKNSGGASTGLAGGGGPSSG 315
                        170
                 ....*....|....*
gi 500721471 198 DVEsSSWNIGLSYKF 212
Cdd:cd00342  316 NNQ-DGVAVGIRHKF 329
PRK10808 PRK10808
outer membrane protein A; Reviewed
75-212 7.35e-07

outer membrane protein A; Reviewed


Pssm-ID: 236764 [Multi-domain]  Cd Length: 351  Bit Score: 48.53  E-value: 7.35e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 500721471  75 AGYKFNPYIAVEARY-WDTKddkitttHPTGGTRTLDAqFDAWGVYL--KPMYPVTEALDVYVLLG---WgHQDSQHGPY 148
Cdd:PRK10808  64 GGYQANPYLGFEMGYdWLGR-------MPYKGDVNNGA-FKAQGVQLtaKLGYPITDDLDVYTRLGgmvW-RADTKSNVP 134
                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 500721471 149 NPKDS------SFSWGGGASYSLTENISVFADYVRiyddtaikgnVNPFGEIIDVDVE--SSSWNIGLSYKF 212
Cdd:PRK10808 135 GARGKdhdtgvSPVFAGGVEYAITKNWATRLEYQW----------TNNIGDADTVGARpdNGMLSVGVSYRF 196
 
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 ...
38-212 2.18e-15

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: 70.89  E-value: 2.18e-15
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 500721471   38 SSDAGFYVGLAYAAVHnevaISNGRYGDVDYHGYMLQAGYKFNPYIAVEARYWDTKDDKITtthpTGGTRTLDAQFDAWG 117
Cdd:pfam13505  17 EEFGGFYVGGGLGNAN----FSFDGDGTDSGGGFGVGAGYDFNDYLGVEGELGYGSDDDYS----GGGNTDANIRSLSIG 88
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 500721471  118 VYLKPMYPVTEALDVYVLLGWGH----QDSQHGPYNPKDSSFSWGGGASYSLTENISVFADYvRIYDDTAIKGNVNPfge 193
Cdd:pfam13505  89 VNLGYRFPLSDSLLPYGGAGYGYskleGDYNGVSDSGTDFGFGYGAGVEYALTDHLAVRAEY-RYTDIKSGGDDLKN--- 164
                         170
                  ....*....|....*....
gi 500721471  194 iidvdvesSSWNIGLSYKF 212
Cdd:pfam13505 165 --------NTFQLGVGYRF 175
LomR COG3637
Opacity protein LomR and related surface antigens [Cell wall/membrane/envelope biogenesis];
73-212 1.57e-14

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


Pssm-ID: 442854 [Multi-domain]  Cd Length: 154  Bit Score: 68.07  E-value: 1.57e-14
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 500721471  73 LQAGYKF---NPYIAVEARYWDTKDDKittthpTGGTRTLDAQFDAWGVYLKPMYPVTEALDVYVLLGWGH-------QD 142
Cdd:COG3637   13 VQAGYNFqfdNFVLGVEGDYSYSDIDG------DSSGTTGSGDLDYLSLRARAGYDFNDRFLPYATAGVAYarvkvtgNT 86
                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 500721471 143 SQHGPYNPKDSSFSW--GGGASYSLTENISVFADYVRI-YDDTAIKGNVNpfgeiIDVDVESSSWNIGLSYKF 212
Cdd:COG3637   87 GSGTSGSDSDTRFGWtvGAGVEYALTDNWSLRLEYRYTdLGDADFDGGGS-----VDVDLDSHTVRVGLNYRF 154
OmpA_membrane pfam01389
OmpA-like transmembrane domain; The structure of OmpA transmembrane domain shows that it ...
40-212 7.76e-09

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: 53.21  E-value: 7.76e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 500721471   40 DAGFYVG--LAYAAVHNEVAISNGRYGDVDYHGYMLQAGYKFNPYIAVEARYWDTKDDKITTTHPTGgtrtldaQFDAWG 117
Cdd:pfam01389   3 ANTWYTGakAGWASFHDTGNIEGNGPTHENSLTAGAFGGYQINNYLAAELGYDYLGRMPYKGKGKNN-------AHKAQG 75
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 500721471  118 VYL--KPMYPVTEALDVYVLLG--WGHQDSQHGPYNPK-------DSSFSWGGGASYSLTENISVFADYvriyddtaikG 186
Cdd:pfam01389  76 VTLslKLSYPLTDDLDVYGKVGgaLVRADYKFYEDANGktgnhdtGVSPLFALGVEYAITPELAVRLEY----------Q 145
                         170       180
                  ....*....|....*....|....*...
gi 500721471  187 NVNPFGEIIDVDVES--SSWNIGLSYKF 212
Cdd:pfam01389 146 YLNNIGDLHKQGKRPdnGSASLGISYRF 173
OmpC COG3203
Outer membrane porin OmpC/OmpF/PhoE [Cell wall/membrane/envelope biogenesis];
39-212 2.44e-08

Outer membrane porin OmpC/OmpF/PhoE [Cell wall/membrane/envelope biogenesis];


Pssm-ID: 442436 [Multi-domain]  Cd Length: 336  Bit Score: 53.08  E-value: 2.44e-08
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 500721471  39 SDAGFYVGLAYAAVHNevaISNGRYGDVDYHGYMLQAGYKFNP-YIAveARYWDTKDDkittthptGGTRTLDAQFDAWG 117
Cdd:COG3203  188 ANGPLSLGAAYQQSND---AQGATAGGDDADAWGLGASYDFGNlKLA--AGYGQTKND--------DAGGAGNAKADGYE 254
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 500721471 118 VYLKpmYPVTEALDVYvlLGWGHQDSQHGpyNPKDSSFSWGGGASYSLTENISVFADYVRIYDDTAIKGNVNPfgeiidv 197
Cdd:COG3203  255 LGAS--YPFGPALTLS--ASYGYTDAKDG--ADDDDANQYALGADYALSKRTSLYAEYGYNDNDGNANFTAAA------- 321
                        170
                 ....*....|....*
gi 500721471 198 DVESSSWNIGLSYKF 212
Cdd:COG3203  322 GDTDDGVAVGLRHKF 336
gram_neg_porins cd00342
Porins form aqueous channels for the diffusion of small hydrophillic molecules across the ...
39-212 5.91e-07

Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers are stabilized by hytrophillic clamping of Loop L2. Loop 3 bends into the pore, creating an elliptical constriction of about 7 x 11A, large enough to allow passage of a glucose molecule without steric hindrance. Removal of the C-terminal residue (usuallly F) destabilizes the trimer and removal of the 16th beta-sheet abolishes trimerization. Unlike typical membrane proteins, porins lack long hydrophobic stretches. Short turns are found at the smooth, periplasmic end, longer irregular loops are found at the rough, extracellular end. C-terminal residue forms salt bridge with N-terminus.


Pssm-ID: 238208 [Multi-domain]  Cd Length: 329  Bit Score: 48.91  E-value: 5.91e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 500721471  39 SDAGFYVGLAYAAVHNEVAISNGRYGDVDYHGYMLQAGYKFNP-YIAVEARYwdtkddkittTHPTGGTRTLDAQFDAWG 117
Cdd:cd00342  171 ENGPLSLGAAYDQQRNGGGAAGGAAGATSQRAYGAGASYDFGGlKLGAGYTN----------TRNDNGGGGGSAKFNGYE 240
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 500721471 118 VYLkpMYPVTEALdvYVLLGWGHQDSQHGpYNPKDSSFSWGGGASYSLTENISVFADYVRIYDDTAIKGNVNPFGEIIDV 197
Cdd:cd00342  241 LGA--TYQLTPAL--RLGAAYYYTKDRND-GGGDGKANQVALGADYALSKRTDLYAEYGYQKNSGGASTGLAGGGGPSSG 315
                        170
                 ....*....|....*
gi 500721471 198 DVEsSSWNIGLSYKF 212
Cdd:cd00342  316 NNQ-DGVAVGIRHKF 329
PRK10808 PRK10808
outer membrane protein A; Reviewed
75-212 7.35e-07

outer membrane protein A; Reviewed


Pssm-ID: 236764 [Multi-domain]  Cd Length: 351  Bit Score: 48.53  E-value: 7.35e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 500721471  75 AGYKFNPYIAVEARY-WDTKddkitttHPTGGTRTLDAqFDAWGVYL--KPMYPVTEALDVYVLLG---WgHQDSQHGPY 148
Cdd:PRK10808  64 GGYQANPYLGFEMGYdWLGR-------MPYKGDVNNGA-FKAQGVQLtaKLGYPITDDLDVYTRLGgmvW-RADTKSNVP 134
                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 500721471 149 NPKDS------SFSWGGGASYSLTENISVFADYVRiyddtaikgnVNPFGEIIDVDVE--SSSWNIGLSYKF 212
Cdd:PRK10808 135 GARGKdhdtgvSPVFAGGVEYAITKNWATRLEYQW----------TNNIGDADTVGARpdNGMLSVGVSYRF 196
Porin_4 pfam13609
Gram-negative porin;
41-183 3.36e-03

Gram-negative porin;


Pssm-ID: 433346 [Multi-domain]  Cd Length: 311  Bit Score: 37.42  E-value: 3.36e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 500721471   41 AGFYVGLAYAAVHNEVAISNGRYGDVDY---HGYMLQAGYKFNPY-IAVEARYWDTKDDKITTTHPTGGTR------TLD 110
Cdd:pfam13609 153 GGFTAGASYAFGEDGNTNGNNGGVAGDSndtDGYGLGAGYDFGGVgFSVAAAYQQTDNEGGDQDAWGLGASyslgafTLG 232
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 500721471  111 AQF------------DAWGVYLKPMYPVTealDVYVLLGWGHQDsqhGPYNPKDSSFSWGGGASYSLTENISVFADYVRI 178
Cdd:pfam13609 233 ASYadidddgaaagaDDNGYGVGATYTVG---ALTVGAAYGRYD---DAGGGDADATQYGLGADYNLSKRTTLYAEYAYT 306

                  ....*
gi 500721471  179 YDDTA 183
Cdd:pfam13609 307 DNDDD 311
 
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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