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Conserved domains on  [gi|490385360|ref|WP_004264858|]
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MULTISPECIES: peroxidase-related enzyme [Providencia]

Protein Classification

CMD domain-containing protein( domain architecture ID 10008969)

uncharaterized CMD domain-containing protein similar to Escherichia coli YciW protein

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
ahpD_dom super family cl00460
alkylhydroperoxidase AhpD family core domain; This model represents a 51-residue core region ...
 180-366 7.27e-75

alkylhydroperoxidase AhpD family core domain; This model represents a 51-residue core region of homology among a family of mostly uncharacterized proteins of 110 to 227 amino acids. Most members of this family contain the motif EXXXXXX[SA]XXXXXC[VIL]XCXXXH. Members of the family include the alkylhydroperoxidase AhpD of Mycobacterium tuberculosis, a macrophage infectivity potentiator peptide of Legionella pneumophila, and an uncharacterized peptide in the tetrachloroethene reductive dehalogenase operon of Dehalospirillum multivorans. We suggest that many peptides containing this domain may have alkylhydroperoxidase or related antioxidant activity. [Unknown function, General]


The actual alignment was detected with superfamily member TIGR04030:

Pssm-ID: 469777  Cd Length: 185  Bit Score: 230.06  E-value: 7.27e-75
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490385360  180 PTSFTQDNLGWEAWISARDAKTLSVEEAQVMKKFGQLNSEYFLLLAHQSKILELRTLVDRGVFYTSE-GLPRWEREFAAA 258
Cdd:TIGR04030   2 PDAFTQDELGWEPWIAPKPLAEFTEEEQAALIRPGRADSPYFRLLARDPPALEARTLTDLDIFYNPGgGLPRAERELAAT 81

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490385360  259 VTSKVNGCIYCASVHARKASQYAKeRRADVDKLLATATGSVLAegfDDRLLAITDLVASLSATPIQATPSQIEELQNLGL 338
Cdd:TIGR04030  82 VTSRYNGCIYCASVHARKASQLSK-RRDDVQRLLDVGPGADLG---SERWQAIIDAAAALSATPAAFNAAHVAALRAQGL 157

                         170       180
                  ....*....|....*....|....*...
gi 490385360  339 SELELLDLVQSTAFFSWANRLMLSLGEP 366
Cdd:TIGR04030 158 DDLAIVDLIQSAAFFNWANRLMLTLGEP 185
YciW1 COG4950
N-terminal domain of uncharacterized protein YciW (function unknown) [Function unknown];
1-153 1.10e-33

N-terminal domain of uncharacterized protein YciW (function unknown) [Function unknown];


:

Pssm-ID: 443977  Cd Length: 177  Bit Score: 123.11  E-value: 1.10e-33
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490385360   1 MTISY-NDVINYLTNLTPDSNLAKIRHERSVATENTQAVFEAIFSTPSTL-LTNDVKYYFAHEVAKITGSPRLAEFYLQL 78
Cdd:COG4950    1 MTTATsPDVIDTLAGIAPGSALAALRAQRAKAREATQASYDALFSPALPGgLSLAERLAVALFVARLHGAQALAAHYAAR 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490385360  79 ------------IDSIPDEPLTQPLSTAKEYLQILTQSPKDTHYQLIAALTEQGWQESDIILLAQLITYVTYQARLIEGI 146
Cdd:COG4950   81 laplpapalaaaADPDAAAELDPRLAAALAHARLLTLRPREATPAALQALLDAGLSTPDIVTLSQLIAFVSYQARVVAGL 160


                 ....*..
gi 490385360 147 LLLTDNS 153
Cdd:COG4950  161 RALAGLP 167
 
Name Accession Description Interval E-value
perox_Avi_7169 TIGR04030
alkylhydroperoxidase domain protein, Avi_7169 family; Members of this family represent a ...
 180-366 7.27e-75

alkylhydroperoxidase domain protein, Avi_7169 family; Members of this family represent a narrow clade that falls within a family of alkylhydroperoxidase-related proteins, fused to or adjacent to a sequence described by TIGR04029. These two partners occur almost always in the context of a putative FMN-dependent luciferase-like monooxygenase (LLM) (TIGR04027), and an ABC transporter in which TIGR04028 models the substrate-binding protein.


Pssm-ID: 188545  Cd Length: 185  Bit Score: 230.06  E-value: 7.27e-75
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490385360  180 PTSFTQDNLGWEAWISARDAKTLSVEEAQVMKKFGQLNSEYFLLLAHQSKILELRTLVDRGVFYTSE-GLPRWEREFAAA 258
Cdd:TIGR04030   2 PDAFTQDELGWEPWIAPKPLAEFTEEEQAALIRPGRADSPYFRLLARDPPALEARTLTDLDIFYNPGgGLPRAERELAAT 81

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490385360  259 VTSKVNGCIYCASVHARKASQYAKeRRADVDKLLATATGSVLAegfDDRLLAITDLVASLSATPIQATPSQIEELQNLGL 338
Cdd:TIGR04030  82 VTSRYNGCIYCASVHARKASQLSK-RRDDVQRLLDVGPGADLG---SERWQAIIDAAAALSATPAAFNAAHVAALRAQGL 157

                         170       180
                  ....*....|....*....|....*...
gi 490385360  339 SELELLDLVQSTAFFSWANRLMLSLGEP 366
Cdd:TIGR04030 158 DDLAIVDLIQSAAFFNWANRLMLTLGEP 185
YciW1 COG4950
N-terminal domain of uncharacterized protein YciW (function unknown) [Function unknown];
1-153 1.10e-33

N-terminal domain of uncharacterized protein YciW (function unknown) [Function unknown];


Pssm-ID: 443977  Cd Length: 177  Bit Score: 123.11  E-value: 1.10e-33
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490385360   1 MTISY-NDVINYLTNLTPDSNLAKIRHERSVATENTQAVFEAIFSTPSTL-LTNDVKYYFAHEVAKITGSPRLAEFYLQL 78
Cdd:COG4950    1 MTTATsPDVIDTLAGIAPGSALAALRAQRAKAREATQASYDALFSPALPGgLSLAERLAVALFVARLHGAQALAAHYAAR 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490385360  79 ------------IDSIPDEPLTQPLSTAKEYLQILTQSPKDTHYQLIAALTEQGWQESDIILLAQLITYVTYQARLIEGI 146
Cdd:COG4950   81 laplpapalaaaADPDAAAELDPRLAAALAHARLLTLRPREATPAALQALLDAGLSTPDIVTLSQLIAFVSYQARVVAGL 160


                 ....*..
gi 490385360 147 LLLTDNS 153
Cdd:COG4950  161 RALAGLP 167
YciW COG2128
Alkylhydroperoxidase family enzyme, contains CxxC motif [Inorganic ion transport and ...
 240-368 1.50e-24

Alkylhydroperoxidase family enzyme, contains CxxC motif [Inorganic ion transport and metabolism];


Pssm-ID: 441731 [Multi-domain]  Cd Length: 142  Bit Score: 97.64  E-value: 1.50e-24
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490385360 240 GVFYTSEGLPRWEREFAAAVTSKVNGCIYCASVHARKASQYAKerraDVDKLLATATGSVlAEGFDDRLLAITDLVASLS 319
Cdd:COG2128   14 GALMAKGGLSPRERELVALRVSQINGCAYCLDAHTAIARKAGL----DEERIDALRAWRE-SPLFDPRERAALAFAEALT 88

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|....*....
gi 490385360 320 ATPIQATPSQIEELQNlGLSELELLDLVQSTAFFSWANRLMLSLGEPFE 368
Cdd:COG2128   89 RTPGGVSDADVAALRA-GFSDAEIVELVLAIALFNMSNRLNNALGTPPD 136
CMD_Avi_7170 TIGR04029
CMD domain protein, Avi_7170 family; Sequences in this family occur as the N-terminal domain ...
 7-149 1.49e-20

CMD domain protein, Avi_7170 family; Sequences in this family occur as the N-terminal domain of a fusion protein with a C-terminal peroxidase-like protein, or as discrete protein encoded next to a peroxidase-like protein. The two partners regularly are encoded near to, and in the same genomes as, a putative FMN-dependent luciferase-like monooxygenase (LLM) (TIGR04027), and an ABC transporter in which TIGR04028 models the substrate-binding protein. CDD identifies this family as falling within the CMD superfamily that includes carboxymuconolactone decarboxylase.


Pssm-ID: 213885  Cd Length: 174  Bit Score: 87.64  E-value: 1.49e-20
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490385360    7 DVINYLTNLTPDSNLAKIRHERSVATENTQAVFEAIF--STPSTLlTNDVKYYFAHEVAKITGSPRLAEFYLQLIDSIPD 84
Cdd:TIGR04029   1 DLLDTLAEIAPDSPLAQARATRPAATDNAQRSYEALFepADAGDF-SLAERYAVATFVAGLHQDEALAAFYADLLQDEAA 79

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490385360   85 E----------------PLTQP--------------LSTAKEYLQILTQSPKDTHYQLIAALTEQGWQESDIILLAQLIT 134
Cdd:TIGR04029  80 PlvaairaairrgastgPYSVPgflwrpdaaalgprLAAALDHAHLLVFHPRDAAPQALGALTAAGWSADDIVTLSQLVA 159

                         170
                  ....*....|....*
gi 490385360  135 YVTYQARLIEGILLL 149
Cdd:TIGR04029 160 FLSFQSRLLRGLRVL 174
CMD pfam02627
Carboxymuconolactone decarboxylase family; Carboxymuconolactone decarboxylase (CMD) EC:4.1.1. ...
 229-305 9.23e-05

Carboxymuconolactone decarboxylase family; Carboxymuconolactone decarboxylase (CMD) EC:4.1.1.44 is involved in protocatechuate catabolism. In some bacteria a gene fusion event leads to expression of CMD with a hydrolase involved in the same pathway. In these bifunctional proteins CMD represents the C-terminal domain, pfam00561 represents the N-terminal domain.


Pssm-ID: 460628 [Multi-domain]  Cd Length: 84  Bit Score: 40.76  E-value: 9.23e-05
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 490385360  229 KILELRTLVDRGVFYTSeGLPRWEREFAAAVTSKVNGCIYCASVHARKasqyAKERRADVDKLLATATGSVLAEGFD 305
Cdd:pfam02627   2 ELLAALTALAFGLLWDG-GLDPKTRELIALAVSAANGCAYCLDAHTRA----ALKAGVTEEEIAEVLAWAAAYAGGP 73
 
Name Accession Description Interval E-value
perox_Avi_7169 TIGR04030
alkylhydroperoxidase domain protein, Avi_7169 family; Members of this family represent a ...
 180-366 7.27e-75

alkylhydroperoxidase domain protein, Avi_7169 family; Members of this family represent a narrow clade that falls within a family of alkylhydroperoxidase-related proteins, fused to or adjacent to a sequence described by TIGR04029. These two partners occur almost always in the context of a putative FMN-dependent luciferase-like monooxygenase (LLM) (TIGR04027), and an ABC transporter in which TIGR04028 models the substrate-binding protein.


Pssm-ID: 188545  Cd Length: 185  Bit Score: 230.06  E-value: 7.27e-75
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490385360  180 PTSFTQDNLGWEAWISARDAKTLSVEEAQVMKKFGQLNSEYFLLLAHQSKILELRTLVDRGVFYTSE-GLPRWEREFAAA 258
Cdd:TIGR04030   2 PDAFTQDELGWEPWIAPKPLAEFTEEEQAALIRPGRADSPYFRLLARDPPALEARTLTDLDIFYNPGgGLPRAERELAAT 81

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490385360  259 VTSKVNGCIYCASVHARKASQYAKeRRADVDKLLATATGSVLAegfDDRLLAITDLVASLSATPIQATPSQIEELQNLGL 338
Cdd:TIGR04030  82 VTSRYNGCIYCASVHARKASQLSK-RRDDVQRLLDVGPGADLG---SERWQAIIDAAAALSATPAAFNAAHVAALRAQGL 157

                         170       180
                  ....*....|....*....|....*...
gi 490385360  339 SELELLDLVQSTAFFSWANRLMLSLGEP 366
Cdd:TIGR04030 158 DDLAIVDLIQSAAFFNWANRLMLTLGEP 185
peroxid_rel TIGR01926
uncharacterized peroxidase-related enzyme; This protein family with length of about 200 amino ...
 207-366 7.71e-39

uncharacterized peroxidase-related enzyme; This protein family with length of about 200 amino acids. One member, from Myxococcus xanthus, is a selenoprotein, with an otherwise conserved Cys replaced by Sec. This family is drawn narrowly enough to suggest that These proteins contain a domain described by TIGR00778, with a CxxCxxxHxxxxxxxG motif. Some members of that family are known to act as peroxidases or correlate with resistance to oxidative stress.


Pssm-ID: 130981 [Multi-domain]  Cd Length: 177  Bit Score: 136.77  E-value: 7.71e-39
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490385360  207 AQVMKKFGqLNSEYFLLLAHQSKILELRTLVDRGVFYTSEGLPRWEREFAAAVTSKVNGCIYCASVHARKASQYAKeRRA 286
Cdd:TIGR01926  20 AKIEEKTG-FVPNVFRALAHDPEALRARTAYFNDLMLGEGGLSRAERELIAVVVSRANGCVYCAAVHGAALRQLSG-DPD 97

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490385360  287 DVDKLLAtatgSVLAEGFDDRLLAITDLVASLSATPIQATPSQIEELQNLGLSELELLDLVQSTAFFSWANRLMLSLGEP 366
Cdd:TIGR01926  98 LADAVAV----NFRDADLSPRERAMLDFAVKLTATPAKVNEADFAALRAAGFSDLDILDLIHSVAFFNWANRLMLALGEP 173
YciW1 COG4950
N-terminal domain of uncharacterized protein YciW (function unknown) [Function unknown];
1-153 1.10e-33

N-terminal domain of uncharacterized protein YciW (function unknown) [Function unknown];


Pssm-ID: 443977  Cd Length: 177  Bit Score: 123.11  E-value: 1.10e-33
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490385360   1 MTISY-NDVINYLTNLTPDSNLAKIRHERSVATENTQAVFEAIFSTPSTL-LTNDVKYYFAHEVAKITGSPRLAEFYLQL 78
Cdd:COG4950    1 MTTATsPDVIDTLAGIAPGSALAALRAQRAKAREATQASYDALFSPALPGgLSLAERLAVALFVARLHGAQALAAHYAAR 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490385360  79 ------------IDSIPDEPLTQPLSTAKEYLQILTQSPKDTHYQLIAALTEQGWQESDIILLAQLITYVTYQARLIEGI 146
Cdd:COG4950   81 laplpapalaaaADPDAAAELDPRLAAALAHARLLTLRPREATPAALQALLDAGLSTPDIVTLSQLIAFVSYQARVVAGL 160


                 ....*..
gi 490385360 147 LLLTDNS 153
Cdd:COG4950  161 RALAGLP 167
YciW COG2128
Alkylhydroperoxidase family enzyme, contains CxxC motif [Inorganic ion transport and ...
 240-368 1.50e-24

Alkylhydroperoxidase family enzyme, contains CxxC motif [Inorganic ion transport and metabolism];


Pssm-ID: 441731 [Multi-domain]  Cd Length: 142  Bit Score: 97.64  E-value: 1.50e-24
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490385360 240 GVFYTSEGLPRWEREFAAAVTSKVNGCIYCASVHARKASQYAKerraDVDKLLATATGSVlAEGFDDRLLAITDLVASLS 319
Cdd:COG2128   14 GALMAKGGLSPRERELVALRVSQINGCAYCLDAHTAIARKAGL----DEERIDALRAWRE-SPLFDPRERAALAFAEALT 88

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|....*....
gi 490385360 320 ATPIQATPSQIEELQNlGLSELELLDLVQSTAFFSWANRLMLSLGEPFE 368
Cdd:COG2128   89 RTPGGVSDADVAALRA-GFSDAEIVELVLAIALFNMSNRLNNALGTPPD 136
CMD_Avi_7170 TIGR04029
CMD domain protein, Avi_7170 family; Sequences in this family occur as the N-terminal domain ...
 7-149 1.49e-20

CMD domain protein, Avi_7170 family; Sequences in this family occur as the N-terminal domain of a fusion protein with a C-terminal peroxidase-like protein, or as discrete protein encoded next to a peroxidase-like protein. The two partners regularly are encoded near to, and in the same genomes as, a putative FMN-dependent luciferase-like monooxygenase (LLM) (TIGR04027), and an ABC transporter in which TIGR04028 models the substrate-binding protein. CDD identifies this family as falling within the CMD superfamily that includes carboxymuconolactone decarboxylase.


Pssm-ID: 213885  Cd Length: 174  Bit Score: 87.64  E-value: 1.49e-20
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490385360    7 DVINYLTNLTPDSNLAKIRHERSVATENTQAVFEAIF--STPSTLlTNDVKYYFAHEVAKITGSPRLAEFYLQLIDSIPD 84
Cdd:TIGR04029   1 DLLDTLAEIAPDSPLAQARATRPAATDNAQRSYEALFepADAGDF-SLAERYAVATFVAGLHQDEALAAFYADLLQDEAA 79

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490385360   85 E----------------PLTQP--------------LSTAKEYLQILTQSPKDTHYQLIAALTEQGWQESDIILLAQLIT 134
Cdd:TIGR04029  80 PlvaairaairrgastgPYSVPgflwrpdaaalgprLAAALDHAHLLVFHPRDAAPQALGALTAAGWSADDIVTLSQLVA 159

                         170
                  ....*....|....*
gi 490385360  135 YVTYQARLIEGILLL 149
Cdd:TIGR04029 160 FLSFQSRLLRGLRVL 174
ahpD_dom TIGR00778
alkylhydroperoxidase AhpD family core domain; This model represents a 51-residue core region ...
 247-277 5.77e-05

alkylhydroperoxidase AhpD family core domain; This model represents a 51-residue core region of homology among a family of mostly uncharacterized proteins of 110 to 227 amino acids. Most members of this family contain the motif EXXXXXX[SA]XXXXXC[VIL]XCXXXH. Members of the family include the alkylhydroperoxidase AhpD of Mycobacterium tuberculosis, a macrophage infectivity potentiator peptide of Legionella pneumophila, and an uncharacterized peptide in the tetrachloroethene reductive dehalogenase operon of Dehalospirillum multivorans. We suggest that many peptides containing this domain may have alkylhydroperoxidase or related antioxidant activity. [Unknown function, General]


Pssm-ID: 273266 [Multi-domain]  Cd Length: 50  Bit Score: 40.05  E-value: 5.77e-05
                          10        20        30
                  ....*....|....*....|....*....|.
gi 490385360  247 GLPRWEREFAAAVTSKVNGCIYCASVHARKA 277
Cdd:TIGR00778   2 ALDAATKELIAIAVSQINGCGYCLDAHTKLA 32
CMD pfam02627
Carboxymuconolactone decarboxylase family; Carboxymuconolactone decarboxylase (CMD) EC:4.1.1. ...
 229-305 9.23e-05

Carboxymuconolactone decarboxylase family; Carboxymuconolactone decarboxylase (CMD) EC:4.1.1.44 is involved in protocatechuate catabolism. In some bacteria a gene fusion event leads to expression of CMD with a hydrolase involved in the same pathway. In these bifunctional proteins CMD represents the C-terminal domain, pfam00561 represents the N-terminal domain.


Pssm-ID: 460628 [Multi-domain]  Cd Length: 84  Bit Score: 40.76  E-value: 9.23e-05
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 490385360  229 KILELRTLVDRGVFYTSeGLPRWEREFAAAVTSKVNGCIYCASVHARKasqyAKERRADVDKLLATATGSVLAEGFD 305
Cdd:pfam02627   2 ELLAALTALAFGLLWDG-GLDPKTRELIALAVSAANGCAYCLDAHTRA----ALKAGVTEEEIAEVLAWAAAYAGGP 73
 
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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