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Conserved domains on  [gi|1996583269|gb|QSJ09113|]
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hypothetical protein SLIVDG2_13000 [Streptomyces lividans]

Protein Classification

PPOX_MSMEG_5819 family protein( domain architecture ID 10024300)

PPOX_MSMEG_5819 family protein

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
PPOX_MSMEG_5819 TIGR04023
PPOX class F420-dependent enzyme, MSMEG_5819/OxyR family; A Genome Properties metabolic ...
 3-120 1.83e-71

PPOX class F420-dependent enzyme, MSMEG_5819/OxyR family; A Genome Properties metabolic reconstruction for F420 biosynthesis shows that slightly over 10 percent of all prokaryotes with fully sequenced genomes, including about two thirds of the Actinomycetales, make F420. This subfamily within the PPOX family occurs in at least 19 distinct species of F420 producers and is likely to bind F420 rather than FMN. The member OxyR was shown to use F420 to catalyze a C5a-C11a reduction in oxytetracycline biosynthesis. [Unknown function, Enzymes of unknown specificity]


:

Pssm-ID: 274925  Cd Length: 115  Bit Score: 209.11  E-value: 1.83e-71
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1996583269   3 FTPDELEYYASQNLGRLATVAPDGQPQANPVSFRVNTETGTIDIGGHNLTASKKFRNVTKHDQVAFVVDDLISTQPWNVR 82
Cdd:TIGR04023   1 FTEEELAYLASQRLGRLATVDPDGQPQVVPVGFEYDGTLGTIDIGGYNMSATRKFRNVAANGKVALVVDDLASTDPWRVR 80

                          90       100       110
                  ....*....|....*....|....*....|....*...
gi 1996583269  83 GIEVRGRAEALTDAQPPHPyfgTAMIRIHPKRIITWGL 120
Cdd:TIGR04023  81 GIEIRGTAEALTDGGPPGP---GPYIRIHPRRIWSWGL 115
 
Name Accession Description Interval E-value
PPOX_MSMEG_5819 TIGR04023
PPOX class F420-dependent enzyme, MSMEG_5819/OxyR family; A Genome Properties metabolic ...
 3-120 1.83e-71

PPOX class F420-dependent enzyme, MSMEG_5819/OxyR family; A Genome Properties metabolic reconstruction for F420 biosynthesis shows that slightly over 10 percent of all prokaryotes with fully sequenced genomes, including about two thirds of the Actinomycetales, make F420. This subfamily within the PPOX family occurs in at least 19 distinct species of F420 producers and is likely to bind F420 rather than FMN. The member OxyR was shown to use F420 to catalyze a C5a-C11a reduction in oxytetracycline biosynthesis. [Unknown function, Enzymes of unknown specificity]


Pssm-ID: 274925  Cd Length: 115  Bit Score: 209.11  E-value: 1.83e-71
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1996583269   3 FTPDELEYYASQNLGRLATVAPDGQPQANPVSFRVNTETGTIDIGGHNLTASKKFRNVTKHDQVAFVVDDLISTQPWNVR 82
Cdd:TIGR04023   1 FTEEELAYLASQRLGRLATVDPDGQPQVVPVGFEYDGTLGTIDIGGYNMSATRKFRNVAANGKVALVVDDLASTDPWRVR 80

                          90       100       110
                  ....*....|....*....|....*....|....*...
gi 1996583269  83 GIEVRGRAEALTDAQPPHPyfgTAMIRIHPKRIITWGL 120
Cdd:TIGR04023  81 GIEIRGTAEALTDGGPPGP---GPYIRIHPRRIWSWGL 115
Putative_PNPOx pfam01243
Pyridoxamine 5'-phosphate oxidase; Family of domains with putative PNPOx function. Family ...
 3-97 1.71e-16

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: 68.82  E-value: 1.71e-16
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1996583269   3 FTPDELEYYASQNLGRLATVAPDGQPQANPVSFRVNTETGTIDIGGHNLtaSKKFRNVTKHDQVAFVVDDlistqPWNVR 82
Cdd:pfam01243   1 LTEEIREFLAEPNAVVLATVDKDGRPNVRPVGLKYGFDTVGILFATNTD--SRKARNLEENPRVALLFGD-----PELRR 73

                          90
                  ....*....|....*
gi 1996583269  83 GIEVRGRAEALTDAQ 97
Cdd:pfam01243  74 GVRIEGTAEIVTDGE 88
NimA COG3467
Nitroimidazole reductase NimA or a related FMN-containing flavoprotein, pyridoxamine 5 ...
 12-97 9.89e-14

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: 63.40  E-value: 9.89e-14
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1996583269  12 ASQNLGRLATVApDGQPQANPVSFRVntETGTIDIggHNLTASKKFRNVTKHDQVAFVVDDLISTQPWNVRGIEVRGRAE 91
Cdd:COG3467    18 DEARVGRLATVD-DGRPYVVPVNYVY--DGDTIYF--HTAKEGRKLDNLRRNPRVCFEVDELDGLHSTNYRSVVVFGRAE 92


                  ....*.
gi 1996583269  92 ALTDAQ 97
Cdd:COG3467    93 EVEDPE 98
 
Name Accession Description Interval E-value
PPOX_MSMEG_5819 TIGR04023
PPOX class F420-dependent enzyme, MSMEG_5819/OxyR family; A Genome Properties metabolic ...
 3-120 1.83e-71

PPOX class F420-dependent enzyme, MSMEG_5819/OxyR family; A Genome Properties metabolic reconstruction for F420 biosynthesis shows that slightly over 10 percent of all prokaryotes with fully sequenced genomes, including about two thirds of the Actinomycetales, make F420. This subfamily within the PPOX family occurs in at least 19 distinct species of F420 producers and is likely to bind F420 rather than FMN. The member OxyR was shown to use F420 to catalyze a C5a-C11a reduction in oxytetracycline biosynthesis. [Unknown function, Enzymes of unknown specificity]


Pssm-ID: 274925  Cd Length: 115  Bit Score: 209.11  E-value: 1.83e-71
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1996583269   3 FTPDELEYYASQNLGRLATVAPDGQPQANPVSFRVNTETGTIDIGGHNLTASKKFRNVTKHDQVAFVVDDLISTQPWNVR 82
Cdd:TIGR04023   1 FTEEELAYLASQRLGRLATVDPDGQPQVVPVGFEYDGTLGTIDIGGYNMSATRKFRNVAANGKVALVVDDLASTDPWRVR 80

                          90       100       110
                  ....*....|....*....|....*....|....*...
gi 1996583269  83 GIEVRGRAEALTDAQPPHPyfgTAMIRIHPKRIITWGL 120
Cdd:TIGR04023  81 GIEIRGTAEALTDGGPPGP---GPYIRIHPRRIWSWGL 115
Putative_PNPOx pfam01243
Pyridoxamine 5'-phosphate oxidase; Family of domains with putative PNPOx function. Family ...
 3-97 1.71e-16

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: 68.82  E-value: 1.71e-16
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1996583269   3 FTPDELEYYASQNLGRLATVAPDGQPQANPVSFRVNTETGTIDIGGHNLtaSKKFRNVTKHDQVAFVVDDlistqPWNVR 82
Cdd:pfam01243   1 LTEEIREFLAEPNAVVLATVDKDGRPNVRPVGLKYGFDTVGILFATNTD--SRKARNLEENPRVALLFGD-----PELRR 73

                          90
                  ....*....|....*
gi 1996583269  83 GIEVRGRAEALTDAQ 97
Cdd:pfam01243  74 GVRIEGTAEIVTDGE 88
NimA COG3467
Nitroimidazole reductase NimA or a related FMN-containing flavoprotein, pyridoxamine 5 ...
 12-97 9.89e-14

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: 63.40  E-value: 9.89e-14
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1996583269  12 ASQNLGRLATVApDGQPQANPVSFRVntETGTIDIggHNLTASKKFRNVTKHDQVAFVVDDLISTQPWNVRGIEVRGRAE 91
Cdd:COG3467    18 DEARVGRLATVD-DGRPYVVPVNYVY--DGDTIYF--HTAKEGRKLDNLRRNPRVCFEVDELDGLHSTNYRSVVVFGRAE 92


                  ....*.
gi 1996583269  92 ALTDAQ 97
Cdd:COG3467    93 EVEDPE 98
YzzA COG3871
General stress protein 26 (function unknown) [Function unknown];
19-118 2.95e-12

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


Pssm-ID: 443080 [Multi-domain]  Cd Length: 132  Bit Score: 59.18  E-value: 2.95e-12
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1996583269  19 LATVAPDGQPQANPVSFRVNTETGTIDIgghnLTA--SKKFRNVTKHDQVAFVVDDlistqPWNVRGIEVRGRAEALTDA 96
Cdd:COG3871    23 LATVDADGRPHSRPMWFQVDVDDGTLWF----FTSrdSAKVRNIRRDPRVSLSFAD-----PGDDRYVSVEGTAEIVDDR 93

                          90       100       110
                  ....*....|....*....|....*....|....*..
gi 1996583269  97 QPPHP--------YFGT-------AMIRIHPKRIITW 118
Cdd:COG3871    94 AKIDElwnplaeaWFPDgpddpdlVLLRVTPERAEYW 130
Rv1155_F420 TIGR03618
PPOX class probable F420-dependent enzyme; A Genome Properties metabolic reconstruction for ...
 8-101 2.88e-09

PPOX class probable F420-dependent enzyme; A Genome Properties metabolic reconstruction for F420 biosynthesis shows that slightly over 10 percent of all prokaryotes with fully sequenced genomes, including about two thirds of the Actinomyces, make F420. The Partial Phylogenetic Profiling algorithm identifies this members of this protein family as high-scoring proteins to the F420 biosynthesis profile. A member of this family, Rv1155, was crytallized after expression in Escherichia coli, which does not synthesize F420; the crystal structure shown to resemble FMN-binding proteins, but with a recognizable empty cleft corresponding to, yet differing profounding from, the FMN site of pyridoxine 5'-phosphate oxidase. We propose that this protein family consists of F420-binding enzymes. [Unknown function, Enzymes of unknown specificity]


Pssm-ID: 274679 [Multi-domain]  Cd Length: 126  Bit Score: 51.14  E-value: 2.88e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1996583269   8 LEYYASQNLGRLATVAPDGQPQANPVSFRVNTEtgtiDIGGHNLTASKKFRNVTKHDQVAFVVDDlistQPWNVRGIEVR 87
Cdd:TIGR03618   2 RDLLSERRLAVLATIRPDGRPQLSPVWFALDGD----ELVFSTTAGRAKARNLRRDPRVSLSVLD----PDGPYRYVEIE 73

                          90
                  ....*....|....
gi 1996583269  88 GRAEALTDAQPPHP 101
Cdd:TIGR03618  74 GTAEVSPDPDAVRD 87
Pyridox_ox_2 pfam12900
Pyridoxamine 5'-phosphate oxidase; Pyridoxamine 5'-phosphate oxidase is a FMN flavoprotein ...
 16-114 5.88e-04

Pyridoxamine 5'-phosphate oxidase; Pyridoxamine 5'-phosphate oxidase is a FMN flavoprotein that catalyzes the oxidation of pyridoxamine-5-P (PMP) and pyridoxine-5-P (PNP) to pyridoxal-5-P (PLP). This entry contains several pyridoxamine 5'-phosphate oxidases, and related proteins.


Pssm-ID: 432864  Cd Length: 143  Bit Score: 37.39  E-value: 5.88e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1996583269  16 LGRLATVApDGQPQANPVSFRVntETGTIDIGGHnlTASKKFRNVTK--HDQVAFVVDDLIS-----TQPWNVRGIEVRG 88
Cdd:pfam12900  14 VGRLAFVD-DGAPYILPVNYVV--DGDTLYFHGA--TGSKLAAALRGapVCVVVFEVDGLVLarsafHHSMNWRSVVVRG 88

                          90       100
                  ....*....|....*....|....*.
gi 1996583269  89 RAEALTDAQPPHPYFGTAMIRIHPKR 114
Cdd:pfam12900  89 TAELVTDPEEKAAALEALTDRIVPGR 114
 
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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