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PR01021

Identifier
OMPADOMAIN  [View Relations]  [View Alignment]  
Accession
PR01021
No. of Motifs
3
Creation Date
10-DEC-1998  (UPDATE 27-JUN-1999)
Title
OMPA domain signature
Database References
PRINTS; PR01022 OUTRMMBRANEA
PROSITE; PS01068 OMPA
PFAM; PF01389 OmpA_membrane
INTERPRO; IPR001145
Literature References
1. DE MOT, R., SCHOOFS, G., ROELANDT, A., DECLERCK, P., PROOST, P.,
VAN DAMME, J. AND VANDERLEYDEN, J.
Molecular characterization of the major outer-membrane protein OprF from
plant root-colonizing Pseudomonas fluorescens.
MICROBIOLOGY 140(6) 1377-87 (1994). 
 
2. HARDHAM, J.M. AND STAMM, L.V.
Identification and characterization of the Treponema pallidum tpn50 gene,
an ompA homolog.
INFECT.IMMUN. 62 1015-1025 (1994).

Documentation
The outer membrane proteins of several Gram-negative organisms share a 
C-terminal domain of about 45 residues [1,2]: these include, outer membrane
protein ompA from enterobacteria such as E.coli; outer membrane protein P5
from Haemophilus influenzae; outer membrane protein P.III/class IV from 
Neisseria; outer membrane porin F (gene oprF) from Pseudomonas; protein
TpN50 from Treponema pallidum; peptidoglycan-associated lipoprotein (gene 
pal) from Escherichia coli, Haemophilus influenzae, Legionella pneumophila
and Pseudomonas putida; outer membrane lipoprotein P6 from Haemophilus 
influenzae; Escherichia coli hypothetical lipoprotein yiaD; and Vibrio 
parahaemolyticus sodium-type flagellar protein motY.
 
Apart from this domain, these proteins are not otherwise structurally 
related: most are porin-like integral membrane proteins (such as ompA),
but some are small lipid-anchored proteins (such as pal).
 
OMPADOMAIN is a 3-element fingerprint that provides a signature for the
ompA domain. The fingerprint was derived from an initial alignment of 14
sequences: the motifs were drawn from conserved regions spanning the 
central portion of the alignment - motifs 2 and 3 lie within the region
encoded by PROSITE pattern OMPA (PS01068). Five iterations on OWL30.2 were
required to reach convergence, at which point a true set comprising 61
sequences was identified. Several partial matches were also found, all of
which appear to be either ompA-domain containing outer membrane proteins,
or peptidoglycan-associated lipoprotein precursors.
 
An update on SPTR37_9f identified a true set of 41 sequences, and 5
partial matches.
Summary Information
  41 codes involving  3 elements
2 codes involving 2 elements
Composite Feature Index
3414141
2022
123
True Positives
O06895        O25750        O31154        O51841        
O67903 O85277 OM51_HAEIN OM52_HAEIN
OM53_HAEIN OMP3_NEIGO OMP4_NEIME OMPA_BORAV
OMPA_ECOLI OMPA_ENTAE OMPA_KLEPN OMPA_SALTY
OMPA_SERMA OMPA_SHIDY P96773 P96774
PAL_ECOLI PAL_HAEIN PAL_LEGPN PAL_PSEPU
PORF_PSEAE PORF_PSEFL PORF_PSESY Q44157
Q44298 Q44299 Q44662 Q45017
Q46099 Q46123 Q47958 Q48292
Q51489 Q51886 YFIB_ECOLI YIAD_ECOLI
YZ27_MYCTU
True Positive Partials
Codes involving 2 elements
O84605 O85448
Sequence Titles
O06895      CADF PRECURSOR - CAMPYLOBACTER JEJUNI.        
O25750 PEPTIDOGLYCAN ASSOCIATED LIPOPROTEIN PRECURSOR (OMP18) - HELICOBACTER PYLORI (CAMPYLOBACTER PYLORI).
O31154 PUTATIVE OUTER MEMBRANE PORIN - VIBRIO CHOLERAE.
O51841 OUTER MEMBRANE PROTEIN 34 PRECURSOR - ACTINOBACILLUS ACTINOMYCETEMCOMITANS (HAEMOPHILUS ACTINOMYCETEMCOMITANS).
O67903 PEPTIDOGLYCAN ASSOCIATED LIPOPROTEIN - AQUIFEX AEOLICUS.
O85277 LIPOPROTEIN PLP4 - PASTEURELLA HAEMOLYTICA.
OM51_HAEIN OUTER MEMBRANE PROTEIN P5 PRECURSOR (OMP P5) - HAEMOPHILUS INFLUENZAE.
OM52_HAEIN OUTER MEMBRANE PROTEIN P5 PRECURSOR (OMP P5) - HAEMOPHILUS INFLUENZAE.
OM53_HAEIN OUTER MEMBRANE PROTEIN P5 PRECURSOR (OMP P5) (FIMBRIN) - HAEMOPHILUS INFLUENZAE.
OMP3_NEIGO OUTER MEMBRANE PROTEIN P.III PRECURSOR (GONOCOCCAL PROTEIN III) (PIII) - NEISSERIA GONORRHOEAE.
OMP4_NEIME OUTER MEMBRANE PROTEIN CLASS 4 PRECURSOR - NEISSERIA MENINGITIDIS.
OMPA_BORAV OUTER MEMBRANE PROTEIN A PRECURSOR - BORDETELLA AVIUM.
OMPA_ECOLI OUTER MEMBRANE PROTEIN A PRECURSOR (OUTER MEMBRANE PROTEIN II*) - ESCHERICHIA COLI.
OMPA_ENTAE OUTER MEMBRANE PROTEIN A PRECURSOR - ENTEROBACTER AEROGENES (AEROBACTER AEROGENES).
OMPA_KLEPN OUTER MEMBRANE PROTEIN A PRECURSOR (OUTER MEMBRANE PROTEIN II) - KLEBSIELLA PNEUMONIAE.
OMPA_SALTY OUTER MEMBRANE PROTEIN A PRECURSOR (OUTER MEMBRANE PROTEIN 33K) (OUTER MEMBRANE MAJOR HEAT-MODIFIABLE PROTEIN) - SALMONELLA TYPHIMURIUM.
OMPA_SERMA OUTER MEMBRANE PROTEIN A PRECURSOR - SERRATIA MARCESCENS.
OMPA_SHIDY OUTER MEMBRANE PROTEIN A PRECURSOR (OUTER MEMBRANE PROTEIN II) - SHIGELLA DYSENTERIAE.
P96773 MAJOR OUTER MEMBRANE PROTEIN - HAEMOPHILUS DUCREYI.
P96774 OMPA2 - HAEMOPHILUS DUCREYI.
PAL_ECOLI PEPTIDOGLYCAN-ASSOCIATED LIPOPROTEIN PRECURSOR - ESCHERICHIA COLI.
PAL_HAEIN OUTER MEMBRANE PROTEIN P6 PRECURSOR (OMP P6) (15 KD PEPTIDOGLYCAN- ASSOCIATED LIPOPROTEIN) (PC PROTEIN) - HAEMOPHILUS INFLUENZAE.
PAL_LEGPN PEPTIDOGLYCAN-ASSOCIATED LIPOPROTEIN PRECURSOR (19 KD SURFACE ANTIGEN) (PPL) - LEGIONELLA PNEUMOPHILA.
PAL_PSEPU PEPTIDOGLYCAN-ASSOCIATED LIPOPROTEIN PRECURSOR - PSEUDOMONAS PUTIDA.
PORF_PSEAE OUTER MEMBRANE PORIN F PRECURSOR - PSEUDOMONAS AERUGINOSA.
PORF_PSEFL OUTER MEMBRANE PORIN F PRECURSOR (ROOT ADHESIN) - PSEUDOMONAS FLUORESCENS.
PORF_PSESY OUTER MEMBRANE PORIN F PRECURSOR - PSEUDOMONAS SYRINGAE (PV. SYRINGAE).
Q44157 PALA OUTER MEMBRANE PROTEIN PRECURSOR - ACTINOBACILLUS PLEUROPNEUMONIAE (HAEMOPHILUS PLEUROPNEUMONIAE).
Q44298 OUTER MEMBRANE PROTEIN PRECURSOR - AEROMONAS SALMONICIDA.
Q44299 OUTER MEMBRANE PROTEIN PRECURSOR - AEROMONAS SALMONICIDA.
Q44662 OMP16 PRECURSOR - BRUCELLA ABORTUS.
Q45017 18.5 KDA PROTEIN - BARTONELLA BACILLIFORMIS.
Q46099 OMP18 - CAMPYLOBACTER JEJUNI.
Q46123 PRECURSOR OF PEPTIDOGLYCANE ASSOCIATED LIPOPROTEIN - CAMPYLOBACTER JEJUNI.
Q47958 18 KDA OUTER MEMBRANE PROTEIN - HAEMOPHILUS DUCREYI.
Q48292 31 KDA ANTIGEN - HAEMOPHILUS SOMNUS.
Q51489 OUTER MEMBRANE PROTEIN - PSEUDOMONAS AERUGINOSA.
Q51886 OUTER MEMBRANE PROTEIN - PASTEURELLA MULTOCIDA.
YFIB_ECOLI PUTATIVE 15.3 KD LIPOPROTEIN IN AROF-RPLS INTERGENIC REGION PRECURSOR - ESCHERICHIA COLI.
YIAD_ECOLI HYPOTHETICAL 22.2 KD LIPOPROTEIN IN BISC-CSPA INTERGENIC REGION PRECURSOR (O219) - ESCHERICHIA COLI.
YZ27_MYCTU HYPOTHETICAL 33.6 KD PROTEIN CY31.27 - MYCOBACTERIUM TUBERCULOSIS.

O84605 PEPTIDOGLYCAN-ASSOCIATED LIPOPROTEIN - CHLAMYDIA TRACHOMATIS.
O85448 OUTER MEMBRANE PROTEIN HOMOLOG - VITREOSCILLA SP.
Scan History
OWL30_2    5  75   NSINGLE    
SPTR37_9f 2 100 NSINGLE
Initial Motifs
Motif 1  width=23
Element Seqn Id St Int Rpt
FAFGKANLKPQAQATLDSIYGEM OM51_HAEIN 240 240 -
FAFGKANLKPQAQATLDSIYGEM OM52_HAEIN 240 240 -
FEYDSSDLKPEAMRALDVHAKDL PAL_PSEPU 67 67 -
FDFDKSVVKPNSYGDVKNLADFM PORF_PSEFL 221 221 -
FNFNKATLKPEGQAALDQLYSQL OMPA_ESCFE 129 129 -
FNFNKSTLKPEGQQALDQLYTQL OMPA_ESCBL 127 127 -
FNFNKATLKPEGQQALDQMYSQL OMPA_CITFR 124 124 -
FDLDKYDIRSDFAQMLDAHANFL PAL_ECOLI 73 73 -
FDFDKSVVKPNSYGDIKNLADFM PORF_PSESY 238 238 -
FNFNKATLKPEGQAALDQLYSQL OMPA_ECOLI 223 223 -
FNFNKATLKPEGQAALDQLYSQL OMPA_SHIDY 228 228 -
FNFNKSTLKPEGQQALDQLYIQL OMPA_SALTY 227 227 -
FGFDKDSLRAEAQDNLKVLAQRL OMP4_NEIME 103 103 -
FGFDKDSLRAEAQDNLKVLAQRL OMP3_NEIGO 99 99 -

Motif 2 width=16
Element Seqn Id St Int Rpt
VAVAGYTDRIGSDAFN OM52_HAEIN 270 7 -
VVVLGFTDRIGSDAYN OMPA_CITFR 156 9 -
VVVLGYTDRIGSDAYN OMPA_ESCBL 159 9 -
VVVLGYTDRIGSDAYN OMPA_ESCFE 161 9 -
VVVLGYTDRIGSDAYN OMPA_ECOLI 255 9 -
VVVLGYTDRIGSDAYN OMPA_SHIDY 260 9 -
VVVLGFTDRIGSDAYN OMPA_SALTY 259 9 -
VRVEGHTDFMGSDKYN OMP4_NEIME 133 7 -
VRVEGHTDFMGSEKYN OMP3_NEIGO 129 7 -
VAVAGYTDRIGSDAFN OM51_HAEIN 270 7 -
VVLEGNTDERGTREYN PAL_PSEPU 96 6 -
VEVAGHTDSIGPDAYN PORF_PSEFL 251 7 -
TTVEGHTDSVGPDAYN PORF_PSESY 268 7 -
VTVEGHADERGTPEYN PAL_ECOLI 103 7 -

Motif 3 width=17
Element Seqn Id St Int Rpt
NQKLSQRRADRVKQVLV PORF_PSEFL 266 -1 -
NQKLSERRANAVKQVLV PORF_PSESY 283 -1 -
NISLGERRANAVKMYLQ PAL_ECOLI 118 -1 -
NQGLSERRAQSVVDYLI OMPA_ECOLI 270 -1 -
NQGLSERRAQSVVDYLI OMPA_ESCFE 176 -1 -
NQRLSQQRAQSVVDYLV OMPA_ESCBL 174 -1 -
NQGLSERRAQSVVDYLI OMPA_SHIDY 275 -1 -
NQGLSEKRAQSVVDYLI OMPA_SALTY 274 -1 -
NQALSERRAYVVANNLV OMP4_NEIME 148 -1 -
NQALSERRAYVVANNLV OMP3_NEIGO 144 -1 -
NVKLSQERADSVANYFV OM51_HAEIN 285 -1 -
NVKLSQERADSVANYFV OM52_HAEIN 285 -1 -
NQGLSEKRAQSVVDYLI OMPA_CITFR 171 -1 -
NMALGERRAKAVQRYLV PAL_PSEPU 111 -1 -
Final Motifs
Motif 1  width=23
Element Seqn Id St Int Rpt
FNFNKATLKPEGQAALDQLYSQL OMPA_ECOLI 223 223 -
FNFNKATLKPEGQAALDQLYSQL OMPA_SHIDY 228 228 -
FNFNKATLKPEGQQALDQLYTQL OMPA_KLEPN 221 221 -
FNFNKSTLKPEGQQALDQLYIQL OMPA_SALTY 227 227 -
FNFNKATLKPEGQQALDQLYTQL OMPA_ENTAE 227 227 -
FAFGKANLKPQAQNTLDGIYGEI O51841 233 233 -
FNFNKSTLKAEGQQALDQLYTQL OMPA_SERMA 234 234 -
FDFDKSTLKPEGRQLLDQVAQQA OMPA_BORAV 89 89 -
FGFDKDSLRAEAQDNLKVLAQRL OMP4_NEIME 103 103 -
FAFGKSTLKPEGVAALNTLYHQN Q44299 211 211 -
FGFDKDSLRAEAQDNLKVLAQRL OMP3_NEIGO 99 99 -
FAFGKANLKPQAQATLDSIYGEM OM51_HAEIN 240 240 -
FAFGKANLKPQAQATLDSIYGEM OM52_HAEIN 240 240 -
FAFGKDSLKAEGVEALNSLYQQI Q44298 220 220 -
FGFDKYNIEGEYVQILDAHAAFL Q51886 50 50 -
FGFDKYDITGEYVQILDAHAAYL PAL_HAEIN 53 53 -
FEYDSSDLKPEAMRALDVHAKDL Q51489 69 69 -
FEYDSSDLKPEAMRALDVHAKDL PAL_PSEPU 67 67 -
FGFDSYAVEGEYQQLLDAHAAYL Q44157 55 55 -
FDFDKSVVKPNSYGDVKNLADFM PORF_PSEFL 221 221 -
FDFAKADLKQEAAQVLDATNTEI P96773 284 284 -
FDFAKADLKQEAAQVLDATNAEI P96774 288 288 -
FAFGKANLKPQAQATLDSVYGEI OM53_HAEIN 246 246 -
FDFDKSVVKPNSYGDIKNLADFM PORF_PSESY 238 238 -
FDFDKSKVKENSYADIKNLADFM PORF_PSEAE 244 244 -
FNFDSYAVEGEYRQLLDAHAAYL Q47958 60 60 -
FATASAELKPATVQKLDKIVGYL O31154 212 212 -
FDFDKATLTTKGKEVVDNVAQQL O85277 147 147 -
FDLDKYDIRSDFAQMLDAHANFL PAL_ECOLI 73 73 -
FGFDKVDINPAFEEKIKEIAQLL O06895 223 223 -
FDFDQDTLTSKGEEAVDNVAMQL Q48292 142 142 -
FDFDKYEIKESDQETLDEIVQKA O25750 78 78 -
FDFDKFNIRPDMQNVVNTNANIF Q46099 62 62 -
FDFDKFNIRPDMQNVVSTNANIF Q46123 62 62 -
FSLDSSVIEADAQRILVRQAEWL Q45017 35 35 -
FAYDDSTLASKYLPSVNAQAEYL PAL_LEGPN 72 72 -
FDSNKFTLRDDAKATLDELIDAV O67903 104 104 -
FDSSSATLKPAGANTLTGVAMVL YIAD_ECOLI 116 116 -
FDLDSSLIRADAQQTLSKQAQWL Q44662 63 63 -
FGNDGASLIPADYEILNRVADKL YZ27_MYCTU 225 225 -
FAKNDYKLLPESQQQIQTMAAKL YFIB_ECOLI 56 56 -

Motif 2 width=16
Element Seqn Id St Int Rpt
VVVLGYTDRIGSDAYN OMPA_ECOLI 255 9 -
VVVLGYTDRIGSDAYN OMPA_SHIDY 260 9 -
AVVLGYTDRIGSEAYN OMPA_KLEPN 253 9 -
VVVLGFTDRIGSDAYN OMPA_SALTY 259 9 -
AVVLGYTDRIGSEQYN OMPA_ENTAE 259 9 -
VQVAGYTDRIGSDAYN O51841 263 7 -
VVVLGYTDAVGSDQYN OMPA_SERMA 266 9 -
IIAVGNTDSIGTEAYN OMPA_BORAV 119 7 -
VRVEGHTDFMGSDKYN OMP4_NEIME 133 7 -
AVVVGYTDRIGSDAYN Q44299 243 9 -
VRVEGHTDFMGSEKYN OMP3_NEIGO 129 7 -
VAVAGYTDRIGSDAFN OM51_HAEIN 270 7 -
VAVAGYTDRIGSDAFN OM52_HAEIN 270 7 -
AVVVGYTDRIGSDAYN Q44298 252 9 -
VVVEGNTDERGTPEYN Q51886 80 7 -
VLVEGNTDERGTPEYN PAL_HAEIN 83 7 -
VVLEGHTDERGTREYN Q51489 98 6 -
VVLEGNTDERGTREYN PAL_PSEPU 96 6 -
VTVAGHADERGTPEYN Q44157 84 6 -
VEVAGHTDSIGPDAYN PORF_PSEFL 251 7 -
IQVNGYTDRIGSGDVN P96773 316 9 -
IQVNGYTDRIGKEEAN P96774 320 9 -
VAVAGYTNRIGSDAFN OM53_HAEIN 276 7 -
TTVEGHTDSVGPDAYN PORF_PSESY 268 7 -
TTVEGHTDSVGTDAYN PORF_PSEAE 274 7 -
VTVTGHADERGTPEYN Q47958 89 6 -
VEVVGHTDSTGSEAYN O31154 242 7 -
VKVAGYTDRLGSAAYN O85277 177 7 -
VTVEGHADERGTPEYN PAL_ECOLI 103 7 -
TILEGHTDNIGSRAYN O06895 253 7 -
IKIVGFTDRLGTDSYN Q48292 172 7 -
VLLEGNTDEFGSSEYN O25750 107 6 -
ITVEGNCDEWGTDEYN Q46099 93 8 -
ITVEGNCDEWGTDEYN Q46123 93 8 -
IMIEGHADDRGTREYN Q45017 65 7 -
VMIAGHTDERGSREYN PAL_LEGPN 102 7 -
VIVVGYADPRGTRGYN O67903 134 7 -
VNVIGYTDSTGGHDLN YIAD_ECOLI 146 7 -
ITIEGHADERGTREYN Q44662 93 7 -
VTINGYTDNTGSEGIN YZ27_MYCTU 255 7 -
ARMDGHTDNYGEDSYN YFIB_ECOLI 86 7 -

Motif 3 width=17
Element Seqn Id St Int Rpt
NQGLSERRAQSVVDYLI OMPA_ECOLI 270 -1 -
NQGLSERRAQSVVDYLI OMPA_SHIDY 275 -1 -
NQQLSEKRAQSVVDYLV OMPA_KLEPN 268 -1 -
NQGLSEKRAQSVVDYLI OMPA_SALTY 274 -1 -
NQKLSEKRAQSVVDYLV OMPA_ENTAE 274 -1 -
NQKLSQRRAETVANYLV O51841 278 -1 -
NQKLSEQRAQSVVDYLV OMPA_SERMA 281 -1 -
NMKLSERRAASVKAYLV OMPA_BORAV 134 -1 -
NQALSERRAYVVANNLV OMP4_NEIME 148 -1 -
NLKLSEARARTVADFLV Q44299 258 -1 -
NQALSERRAYVVANNLV OMP3_NEIGO 144 -1 -
NVKLSQERADSVANYFV OM51_HAEIN 285 -1 -
NVKLSQERADSVANYFV OM52_HAEIN 285 -1 -
NQKLSEARARTVANFLV Q44298 267 -1 -
NIALGQRRADAVKHYLS Q51886 95 -1 -
NIALGQRRADAVKGYLA PAL_HAEIN 98 -1 -
NMALGERRAKAVQRYLV Q51489 113 -1 -
NMALGERRAKAVQRYLV PAL_PSEPU 111 -1 -
NIALGQRRADAVKNYLA Q44157 99 -1 -
NQKLSQRRADRVKQVLV PORF_PSEFL 266 -1 -
NLKLSQRRAETVANYLV P96773 331 -1 -
NLKLSQRRAEMVANYLV P96774 335 -1 -
NVKLSQERADSVANYFV OM53_HAEIN 291 -1 -
NQKLSERRANAVKQVLV PORF_PSESY 283 -1 -
NQKLSERRANAVRDVLV PORF_PSEAE 289 -1 -
NIALGQRRADAVKNYLA Q47958 104 -1 -
NQKLSERRAQAVAKALE O31154 257 -1 -
NLDLSQRRSNTVKARLV O85277 192 -1 -
NISLGERRANAVKMYLQ PAL_ECOLI 118 -1 -
NQKLSERRAESVAKELE O06895 268 -1 -
NLDLSQRRADRVKERLI Q48292 187 -1 -
NQALGVKRTLSVKNALV O25750 122 -1 -
NQALGLKRAKAVKEALI Q46099 108 -1 -
NQALGLKRAKAVKEALI Q46123 108 -1 -
NLALGQRRAIAVRDYLV Q45017 80 -1 -
NVALGERRADTVAEILR PAL_LEGPN 117 -1 -
NFELSMKRAQNVAAYLI O67903 149 -1 -
NMRLSQQRADSVASALI YIAD_ECOLI 161 -1 -
NLALGQRRAAATRDFLA Q44662 108 -1 -
NIPLSAQRAKIVADYLV YZ27_MYCTU 270 -1 -
NEGLSLKRANVVADAWA YFIB_ECOLI 101 -1 -