WORKLIST ENTRIES (1):
HTHCRP View alignment CRP bacterial regulatory protein HTH signature
Type of fingerprint: COMPOUND with 2 elements
Links:
PRINTS; PR00032 HTHARAC; PR00033 HTHASNC; PR00778 HTHARSR; PR00035 HTHGNTR
PRINTS; PR00036 HTHLACI; PR00037 HTHLACR; PR00038 HTHLUXR; PR00039 HTHLYSR
PRINTS; PR00598 HTHMARR; PR00040 HTHMERR; PR00455 HTHTETR; PR00030 HTHCRO
PRINTS; PR00031 HTHREPRESSR
INTERPRO; IPR001808
PROSITE; PS00042 HTH_CRP_FAMILY
PFAM; PF00325 crp
PDB; 1CGP 3Dinfo
SCOP; 1CGP
CATH; 1CGP
Creation date 17-SEP-1993; UPDATE 29-JUN-1999
1. SPIRO, S. AND GUEST, J.R.
Fnr and its role in oxygen-regulated gene expression in Escherichia coli.
FEMS MICROBIOL.REV. 75(4) 399-428 (1990).
2. IRVINE, A.S. AND GUEST, J.R.
Lactobacillus casei contains a member of the crp-fnr family.
NUCLEIC ACIDS RES. 21(3) 753 (1993).
3. DE CRECY-LAGARD, V., GLASER, P., LEJEUNE, P., SISMEIRO, O., BARBER,
C.E., DANIELS, M.J. AND DANCHIN, A.
A Xanthomonas campestris pv campestris protein similar to catabolite
activation factor is involved in regulation of phytopathogenicity.
J.BACTERIOL. 172(10) 5877-5883 (1990).
Numerous bacterial transcription regulatory proteins bind DNA via a
helix-turn-helix (HTH) motif. These proteins are very diverse, but for
convenience may be grouped into subfamilies on the basis of sequence
similarity. One such family groups together a range of proteins, including
anr, crp, clp, cysR, fixK, flp, fnr, fnrN, hlyX and ntcA [1-3]. Within this
family, the HTH motif is situated towards the C-terminus.
HTHCRP is a 2-element fingerprint that provides a signature for the HTH
motif of the crp bacterial regulatory proteins. The fingerprint was derived
from an initial alignment of 6 sequences: the motifs completely encompass
the HTH motif, extending a few residues beyond its N- and C-termini (cf.
PROSITE pattern HTH_CRP_FAMILY (PS00042)). Four iterations on OWL21.1 were
required to reach convergence, at which point a true set comprising 27
sequences was identified.
An update on SPTR37_9f identified a true set of 48 sequences.
SUMMARY INFORMATION
48 codes involving 2 elements
COMPOSITE FINGERPRINT INDEX
2| 48 48
--+-----------
| 1 2
True positives..
O86069 O06655 Q52775 FIXK_AZOCA
FX24_RHILV O86067 FIXK_BRAJA FIXK_RHIME
ETRA_SHEPU AADR_RHOPA HLYX_ACTPL O31204
FNR_HAEIN ANR_PSEAE BTR_BORPE CRP_ECOLI
O07097 CRP_SALTY FNRL_RHOSH O34015
FNRA_PSEST FNR_ECOLI FNR_SALTY Q51677
O05689 Q48301 Q51859 O85222
O33961 Q52823 Q44500 Q53170
O69245 CRP_HAEIN O87372 O52983
NTCA_SYNP7 VFR_PSEAE FLP_LACCA P94611
NTCA_SYNY3 NTCA_ANASP O30778 CYSR_SYNP7
P96094 Q55322 CYSR_SYNY3 LEXA_BACSU
PROTEIN TITLES
O86069 FNR-TYPE TRANSCRIPTIONAL REGULATOR FNRND - RHIZOBIUM ETLI.
O06655 FNR-TYPE TRANSCRIPTIONAL REGULATOR FNRN2 - RHIZOBIUM LEGUMIN
Q52775 FNRN - RHIZOBIUM LEGUMINOSARUM.
FIXK_AZOCA NITROGEN FIXATION REGULATION PROTEIN FIXK - AZORHIZOBIUM CAU
FX24_RHILV PROBABLE TRANSCRIPTIONAL ACTIVATOR (ORF-240) - RHIZOBIUM LEG
O86067 FNR-TYPE TRANSCRIPTIONAL REGULATOR FNRNC - RHIZOBIUM ETLI.
FIXK_BRAJA NITROGEN FIXATION REGULATION PROTEIN FIXK - BRADYRHIZOBIUM J
FIXK_RHIME NITROGEN FIXATION REGULATION PROTEIN FIXK - RHIZOBIUM MELILO
ETRA_SHEPU ELECTRON TRANSPORT REGULATOR A - SHEWANELLA PUTREFACIENS (PS
AADR_RHOPA ANAEROBIC AROMATIC DEGRADATION REGULATOR - RHODOPSEUDOMONAS
HLYX_ACTPL REGULATORY PROTEIN HLYX - ACTINOBACILLUS PLEUROPNEUMONIAE (H
O31204 TRANSCRIPTIONAL ACTIVATOR - PASTEURELLA HAEMOLYTICA.
FNR_HAEIN FUMARATE AND NITRATE REDUCTION REGULATORY PROTEIN HOMOLOG -
ANR_PSEAE TRANSCRIPTIONAL ACTIVATOR PROTEIN ANR - PSEUDOMONAS AERUGINO
BTR_BORPE TRANSCRIPTIONAL REGULATORY PROTEIN BTR - BORDETELLA PERTUSSI
CRP_ECOLI CATABOLITE GENE ACTIVATOR (CAMP RECEPTOR PROTEIN) (CAMP-REGU
O07097 CRP REGULATORY PROTEIN - ERWINIA CHRYSANTHEMI.
CRP_SALTY CATABOLITE GENE ACTIVATOR (CAMP RECEPTOR PROTEIN) (CAMP-REGU
FNRL_RHOSH TRANSCRIPTIONAL ACTIVATOR PROTEIN FNRL - RHODOBACTER SPHAERO
O34015 CYCLIC AMP RECEPTOR PROTEIN - VIBRIO CHOLERAE.
FNRA_PSEST TRANSCRIPTIONAL ACTIVATOR PROTEIN FNRA - PSEUDOMONAS STUTZER
FNR_ECOLI FUMARATE AND NITRATE REDUCTION REGULATORY PROTEIN - ESCHERIC
FNR_SALTY FUMARATE AND NITRATE REDUCTION REGULATORY PROTEIN - SALMONEL
Q51677 FNRN - PARACOCCUS DENITRIFICANS.
O05689 CAMP RECEPTOR PROTEIN - PASTEURELLA MULTOCIDA.
Q48301 CYCLIC AMP RECEPTOR PROTEIN - HAEMOPHILUS SOMNUS.
Q51859 CYCLIC AMP RECEPTOR PROTEIN - PASTEURELLA HAEMOLYTICA.
O85222 ANAEROBIC REGULATORY PROTEIN - PSEUDOMONAS FLUORESCENS.
O33961 ANAEROBIC REGULATOR - RHODOBACTER CAPSULATUS (RHODOPSEUDOMON
Q52823 FIXK - RHIZOBIUM LEGUMINOSARUM.
Q44500 CYTOCHROME BD - AZOTOBACTER VINELANDII.
Q53170 LCRABCDE GENES, COMPLETE CDS'S - RHIZOBIUM SP.
O69245 FIXK2 PROTEIN - BRADYRHIZOBIUM JAPONICUM.
CRP_HAEIN CATABOLITE GENE ACTIVATOR (CAMP RECEPTOR PROTEIN) (CAMP-REGU
O87372 PUTATIVE TRANSCRIPTIONAL ACTIVATOR - ACETOBACTER XYLINUM (AC
O52983 CATABOLITE GENE ACTIVATOR PROTEIN - ESCHERICHIA COLI.
NTCA_SYNP7 GLOBAL NITROGEN REGULATOR - SYNECHOCOCCUS SP. (STRAIN PCC 79
VFR_PSEAE CYCLIC AMP RECEPTOR-LIKE PROTEIN - PSEUDOMONAS AERUGINOSA.
FLP_LACCA PROBABLE TRANSCRIPTIONAL REGULATOR FLP - LACTOBACILLUS CASEI
P94611 NTCA - CYANOTHECE.
NTCA_SYNY3 GLOBAL NITROGEN REGULATOR - SYNECHOCYSTIS SP. (STRAIN PCC 68
NTCA_ANASP GLOBAL NITROGEN REGULATOR (DNA-BINDING PROTEIN VF1) (NITROGE
O30778 NITROGEN REGULATOR - SYNECHOCOCCUS SP. (STRAIN WH7803).
CYSR_SYNP7 REGULATORY PROTEIN CYSR - SYNECHOCOCCUS SP. (STRAIN PCC 7942
P96094 FNR-LIKE REGULATORY PROTEIN - THIOBACILLUS FERROOXIDANS.
Q55322 PUTATIVE TRANSCRIPTIONAL ACTIVATOR - SYNECHOCOCCUS SP.
CYSR_SYNY3 REGULATORY PROTEIN CYSR HOMOLOG - SYNECHOCYSTIS SP. (STRAIN
LEXA_BACSU SOS REGULATORY PROTEIN LEXA/DINR - BACILLUS SUBTILIS.
SCAN HISTORY
OWL21_1 4 100 NSINGLE
OWL25_2 1 100 NSINGLE
SPTR37_9f 2 100 NSINGLE
INITIAL MOTIF SETS
HTHCRP1 Length of motif = 17 Motif number = 1
Crp bacterial regulatory protein HTH motif I - 1
PCODE ST INT
LAMSRQDIADFLGLTIE FIXK_AZOCA 195 195
LTMTRGDIGNYLGLTIE HLYX_ACTPL 191 191
LPLSRAEIADFLGLTIE FX24_RHILV 186 186
LAMSRNEIGNYLGLAVE ANR_PSEAE 187 187
IKITRQEIGQIVGCSRE CRP_SALTY 165 165
LKLSHQAIAEAIGSTRV NTCA_SYNP7 170 170
HTHCRP2 Length of motif = 16 Motif number = 2
Crp bacterial regulatory protein HTH motif II - 1
PCODE ST INT
ETVSRTLTYLEEQGTI FIXK_AZOCA 211 -1
ETISRLLGRFQKSGMI HLYX_ACTPL 207 -1
ETVSRQMTRLRKIGVI FX24_RHILV 202 -1
ETVSRVFTRFQQNGLI ANR_PSEAE 203 -1
ETVGRILKMLEDQNLI CRP_SALTY 181 -1
VTVTRLLGDLRESKLI NTCA_SYNP7 186 -1
FINAL MOTIF SETS
HTHCRP1 Length of motif = 17 Motif number = 1
Crp bacterial regulatory protein HTH motif I - 2
PCODE ST INT
LPLSRAEIADFLGLTIE O86069 187 187
LPLSRAEIADFLGLTIE O06655 187 187
LPLSRAEIADFLGLTIE Q52775 187 187
LAMSRQDIADFLGLTIE FIXK_AZOCA 196 196
LPLSRAEIADFLGLTIE FX24_RHILV 187 187
LPLSRAEIADFLGLTIE O86067 187 187
LPMSRQDIADYLGLTIE FIXK_BRAJA 185 185
LPMSRQDIADYLGLTIE FIXK_RHIME 159 159
LTMTRGDIGNYLGLTVE ETRA_SHEPU 193 193
LPMGRQDIADFLGLTIE AADR_RHOPA 187 187
LTMTRGDIGNYLGLTIE HLYX_ACTPL 192 192
LTMTRGDIGNYLGLTIE O31204 192 192
LTMTRGDIGNYLGLTVE FNR_HAEIN 196 196
LAMSRNEIGNYLGLAVE ANR_PSEAE 188 188
VRMSREEIGNYLGLTLE BTR_BORPE 186 186
IKITRQEIGQIVGCSRE CRP_ECOLI 166 166
IKITRQEIGQIVGCSRE O07097 166 166
IKITRQEIGQIVGCSRE CRP_SALTY 166 166
LPLTREEMADYLGLTLE FNRL_RHOSH 187 187
IKITRQEIGQIVGCSRE O34015 166 166
LPMSRNEIGNYLGLAVE FNRA_PSEST 188 188
LTMTRGDIGNYLGLTVE FNR_ECOLI 193 193
LTMTRGDIGNYLGLTVE FNR_SALTY 193 193
LPLTREAMADYLGLTLE Q51677 188 188
IKITRQEIGQMVGCSRE O05689 165 165
IKITRQEIGQMVGCSRE Q48301 170 170
IKITRQEIGQMVGCSRE Q51859 180 180
LSMSRNEIGNYLGLAVE O85222 188 188
LPLTREAMADYLGLTLE O33961 187 187
VPMSRQDIADHLGLTIE Q52823 185 185
LAMSRNEIGNYLGLAVE Q44500 188 188
LPMTRLDVADYLGMTIE Q53170 175 175
LPMCRRDIGDYLGLTLE O69245 180 180
IKITRQEIGQMVGCSRE CRP_HAEIN 180 180
PSISRADMADFLGLTTE O87372 154 154
IKITRQEIGQIVGCSRQ O52983 166 166
LKLSHQAIAEAIGSTRV NTCA_SYNP7 171 171
IKITRQEIGRIVGCSRE VFR_PSEAE 170 170
VPMAWTQLADYLGTTPE FLP_LACCA 168 168
LKLSHQAIAEAIGSTRV P94611 175 175
LKLSHQAIAEAIGSTRV NTCA_SYNY3 174 174
LKLSHQAIAEAIGSTRV NTCA_ANASP 172 172
LRLSHQAIAEAIGSTRV O30778 173 173
IPLTHQVIAELSGSTRV CYSR_SYNP7 152 152
LPAKKAMIAARLGLTPE P96094 179 179
LRLTHQEMASALSTTRV Q55322 177 177
VRLTHQMLANAIGTTRV CYSR_SYNY3 160 160
YPPSVREIGEAVGLASS LEXA_BACSU 24 24
HTHCRP2 Length of motif = 16 Motif number = 2
Crp bacterial regulatory protein HTH motif II - 2
PCODE ST INT
ETVSRQLTRLRKEGVI O86069 203 -1
ETVSRKLTKLRKSGVI O06655 203 -1
ETVSRQMTRLRKSGVI Q52775 203 -1
ETVSRTLTYLEEQGTI FIXK_AZOCA 212 -1
ETVSRQMTRLRKIGVI FX24_RHILV 203 -1
ETVSRQMTRLRKWGVI O86067 203 -1
ETVSRTFTKLERHGAI FIXK_BRAJA 201 -1
ETVSRVVTKLKERSLI FIXK_RHIME 175 -1
ETISRLLGRFQKSGLI ETRA_SHEPU 209 -1
ETVSRTFTKLEREKLI AADR_RHOPA 203 -1
ETISRLLGRFQKSGMI HLYX_ACTPL 208 -1
ETISRLLGRFQKSGMI O31204 208 -1
ETISRLLGRFQKLGVI FNR_HAEIN 212 -1
ETVSRVFTRFQQNGLI ANR_PSEAE 204 -1
ETVSRLFSRFGREGLI BTR_BORPE 202 -1
ETVGRILKMLEDQNLI CRP_ECOLI 182 -1
ETVGRILKMLEDQNLI O07097 182 -1
ETVGRILKMLEDQNLI CRP_SALTY 182 -1
ETVSRQVSALKRDGVI FNRL_RHOSH 203 -1
ETVGRILKMLEEQNLI O34015 182 -1
ETVSRVFTRFQQNGLL FNRA_PSEST 204 -1
ETISRLLGRFQKSGML FNR_ECOLI 209 -1
ETISRLLGRFQKSGML FNR_SALTY 209 -1
ETVSRQMSALKREGVI Q51677 204 -1
ETVGRILKMLEDQHLI O05689 181 -1
ETVGRILKMLEDQHLI Q48301 186 -1
ETVGRIIKMLEDEGLI Q51859 196 -1
ETVSRVFTRFQQNELI O85222 204 -1
ETVSRQMSALKRDGVI O33961 203 -1
ETVSRTLTKLASRNVV Q52823 201 -1
ETVSRVFSRFQQNELI Q44500 204 -1
ETVSRTITKLAGSGVI Q53170 191 -1
ETVSRALSQLHTQGIL O69245 196 -1
ETVGRIIKMLEDQNLI CRP_HAEIN 196 -1
ETVSRLLSAFHREQLI O87372 170 -1
QTVGRILKMLEDQNLI O52983 182 -1
VTVTRLLGDLRESKLI NTCA_SYNP7 187 -1
EMVGRVLKSLEEQGLV VFR_PSEAE 186 -1
ETVSRTLKRLAEEKLI FLP_LACCA 184 -1
VTVTRLLGDLRQEEMI P94611 191 -1
VTVTRLLGDLREGNMI NTCA_SYNY3 190 -1
VTVTRLLGDLREKKMI NTCA_ANASP 188 -1
VTITRLLGDLRNSGLV O30778 189 -1
VTTTRLLGEFRQAGRI CYSR_SYNP7 168 -1
ETFSRVLKRLREEHLI P96094 195 -1
VTVTRVIGLLRDEGWL Q55322 193 -1
VTVTRLLGEFQTQGKV CYSR_SYNY3 176 -1
STVHGHLARLETKGLI LEXA_BACSU 41 0
User query: Display/Full Code "HTHCRP"