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Conserved domains on  [gi|489520380|ref|WP_003425176|]
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pyridoxamine 5'-phosphate oxidase family protein [Clostridioides difficile]

Protein Classification

COG5015 family protein( domain architecture ID 10009027)

COG5015 family protein

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
COG5015 COG5015
Pyridoxamine 5'-phosphate oxidase (PNPOx-like) family protein [General function prediction ...
 2-130 1.84e-54

Pyridoxamine 5'-phosphate oxidase (PNPOx-like) family protein [General function prediction only];


:

Pssm-ID: 444039 [Multi-domain]  Cd Length: 130  Bit Score: 166.55  E-value: 1.84e-54
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489520380   2 KALEFLNKAGVYYLATVDeNNQAHVRPLGFVMEYNGKLTFCTSNQKDMFKQLIFNPKVELCCIDQNLNTLRILGEAVFVT 81
Cdd:COG5015    2 EILKFLKENPVFYLATVD-GGQPRVRPFGFVFEDEGKLYFCTSNQKDVYKQLKANPKVEICAMKKDGEWIRLSGKAVFVD 80

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|
gi 489520380  82 SKETQAKALEIMPNLGQMY-SVGDGKFEIFSIDKAKVSCCSMSGKKIDVE 130
Cdd:COG5015   81 DRELKEKILEENPFLKEIYpSADDPIFEVFYLEDGEAEFYDMSGNPKKIE 130
 
Name Accession Description Interval E-value
COG5015 COG5015
Pyridoxamine 5'-phosphate oxidase (PNPOx-like) family protein [General function prediction ...
 2-130 1.84e-54

Pyridoxamine 5'-phosphate oxidase (PNPOx-like) family protein [General function prediction only];


Pssm-ID: 444039 [Multi-domain]  Cd Length: 130  Bit Score: 166.55  E-value: 1.84e-54
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489520380   2 KALEFLNKAGVYYLATVDeNNQAHVRPLGFVMEYNGKLTFCTSNQKDMFKQLIFNPKVELCCIDQNLNTLRILGEAVFVT 81
Cdd:COG5015    2 EILKFLKENPVFYLATVD-GGQPRVRPFGFVFEDEGKLYFCTSNQKDVYKQLKANPKVEICAMKKDGEWIRLSGKAVFVD 80

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|
gi 489520380  82 SKETQAKALEIMPNLGQMY-SVGDGKFEIFSIDKAKVSCCSMSGKKIDVE 130
Cdd:COG5015   81 DRELKEKILEENPFLKEIYpSADDPIFEVFYLEDGEAEFYDMSGNPKKIE 130
Putative_PNPOx pfam01243
Pyridoxamine 5'-phosphate oxidase; Family of domains with putative PNPOx function. Family ...
 2-84 1.60e-11

Pyridoxamine 5'-phosphate oxidase; Family of domains with putative PNPOx function. Family members were predicted to encode pyridoxamine 5'-phosphate oxidase, based on sequence similarity. However, there is no experimental data to validate the predicted activity and purified proteins, such as Swiss:Q06199 and its paralogs, do not possess this activity, nor do they bind to flavin mononucleotide (FMN). To date, the only time functional oxidase activity has been experimentally demonstrated is when the sequences contain both pfam01243 and pfam10590. Moreover, some of the family members that contain both domains have been shown to be involved in phenazine biosynthesis. While some molecular function has been experimentally validated for the proteins containing both domains, the role performed by each domain on its own is unknown.


Pssm-ID: 426149 [Multi-domain]  Cd Length: 88  Bit Score: 56.10  E-value: 1.60e-11
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489520380    2 KALEFLNKAGVYYLATVDENNQAHVRPLGFVMEY-NGKLTFCTSNQKDMFKQLIFNPKVELC-CIDQNLNTLRILGEAVF 79
Cdd:pfam01243   4 EIREFLAEPNAVVLATVDKDGRPNVRPVGLKYGFdTVGILFATNTDSRKARNLEENPRVALLfGDPELRRGVRIEGTAEI 83


                  ....*
gi 489520380   80 VTSKE 84
Cdd:pfam01243  84 VTDGE 88
 
Name Accession Description Interval E-value
COG5015 COG5015
Pyridoxamine 5'-phosphate oxidase (PNPOx-like) family protein [General function prediction ...
 2-130 1.84e-54

Pyridoxamine 5'-phosphate oxidase (PNPOx-like) family protein [General function prediction only];


Pssm-ID: 444039 [Multi-domain]  Cd Length: 130  Bit Score: 166.55  E-value: 1.84e-54
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489520380   2 KALEFLNKAGVYYLATVDeNNQAHVRPLGFVMEYNGKLTFCTSNQKDMFKQLIFNPKVELCCIDQNLNTLRILGEAVFVT 81
Cdd:COG5015    2 EILKFLKENPVFYLATVD-GGQPRVRPFGFVFEDEGKLYFCTSNQKDVYKQLKANPKVEICAMKKDGEWIRLSGKAVFVD 80

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|
gi 489520380  82 SKETQAKALEIMPNLGQMY-SVGDGKFEIFSIDKAKVSCCSMSGKKIDVE 130
Cdd:COG5015   81 DRELKEKILEENPFLKEIYpSADDPIFEVFYLEDGEAEFYDMSGNPKKIE 130
Putative_PNPOx pfam01243
Pyridoxamine 5'-phosphate oxidase; Family of domains with putative PNPOx function. Family ...
 2-84 1.60e-11

Pyridoxamine 5'-phosphate oxidase; Family of domains with putative PNPOx function. Family members were predicted to encode pyridoxamine 5'-phosphate oxidase, based on sequence similarity. However, there is no experimental data to validate the predicted activity and purified proteins, such as Swiss:Q06199 and its paralogs, do not possess this activity, nor do they bind to flavin mononucleotide (FMN). To date, the only time functional oxidase activity has been experimentally demonstrated is when the sequences contain both pfam01243 and pfam10590. Moreover, some of the family members that contain both domains have been shown to be involved in phenazine biosynthesis. While some molecular function has been experimentally validated for the proteins containing both domains, the role performed by each domain on its own is unknown.


Pssm-ID: 426149 [Multi-domain]  Cd Length: 88  Bit Score: 56.10  E-value: 1.60e-11
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489520380    2 KALEFLNKAGVYYLATVDENNQAHVRPLGFVMEY-NGKLTFCTSNQKDMFKQLIFNPKVELC-CIDQNLNTLRILGEAVF 79
Cdd:pfam01243   4 EIREFLAEPNAVVLATVDKDGRPNVRPVGLKYGFdTVGILFATNTDSRKARNLEENPRVALLfGDPELRRGVRIEGTAEI 83


                  ....*
gi 489520380   80 VTSKE 84
Cdd:pfam01243  84 VTDGE 88
YzzA COG3871
General stress protein 26 (function unknown) [Function unknown];
2-85 2.04e-09

General stress protein 26 (function unknown) [Function unknown];


Pssm-ID: 443080 [Multi-domain]  Cd Length: 132  Bit Score: 51.86  E-value: 2.04e-09
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489520380   2 KALEFLNKAGVYYLATVDENNQAHVRPLGFVME-YNGKLTFCTSNQKDMFKQLIFNPKVELCCIDQNLNT-LRILGEAVF 79
Cdd:COG3871   10 KLWELLEDIRTAMLATVDADGRPHSRPMWFQVDvDDGTLWFFTSRDSAKVRNIRRDPRVSLSFADPGDDRyVSVEGTAEI 89


                 ....*.
gi 489520380  80 VTSKET 85
Cdd:COG3871   90 VDDRAK 95
NimA COG3467
Nitroimidazole reductase NimA or a related FMN-containing flavoprotein, pyridoxamine 5 ...
 2-95 9.09e-05

Nitroimidazole reductase NimA or a related FMN-containing flavoprotein, pyridoxamine 5'-phosphate oxidase superfamily [Defense mechanisms];


Pssm-ID: 442690 [Multi-domain]  Cd Length: 144  Bit Score: 39.52  E-value: 9.09e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489520380   2 KALEFLNKAGVYYLATVDeNNQAHVRPLGFVMEyNGKLTFCTSNQKDMFKQLIFNPKV--ELCCIDQNLNT----LRILG 75
Cdd:COG3467   12 EIRALLDEARVGRLATVD-DGRPYVVPVNYVYD-GDTIYFHTAKEGRKLDNLRRNPRVcfEVDELDGLHSTnyrsVVVFG 89

                         90       100
                 ....*....|....*....|
gi 489520380  76 EAVFVTSKETQAKALEIMPN 95
Cdd:COG3467   90 RAEEVEDPEEKARALRLLLE 109
COG3576 COG3576
Predicted flavin-nucleotide-binding protein, pyridoxine 5'-phosphate oxidase superfamily ...
 5-87 9.80e-03

Predicted flavin-nucleotide-binding protein, pyridoxine 5'-phosphate oxidase superfamily [General function prediction only];


Pssm-ID: 442796  Cd Length: 189  Bit Score: 34.42  E-value: 9.80e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489520380   5 EFLNKAGVYYLATVDENNQAHV--R--PLGFVM----------EYNGkltfctSNQKDMFKQLIFNPKVELCCID-QNLN 69
Cdd:COG3576   34 AFIAASPFFFLATVDADGWPDVspRggPPGFVRvlddrtlafpDRRG------NRRYDSLGNILENPRVGLLFLDpGRRE 107

                         90
                 ....*....|....*...
gi 489520380  70 TLRILGEAVFVTSKETQA 87
Cdd:COG3576  108 RLRVNGRARIVTDPALLA 125
 
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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