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Conserved domains on  [gi|2267666032|ref|WP_253877620|]
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PRC-barrel domain-containing protein [Promicromonospora umidemergens]

Protein Classification

PRC-barrel domain-containing protein( domain architecture ID 10525995)

PRC (photosystem reaction center)-barrel domain-containing protein; PRC-barrel domains are shared by photosynthetic reaction center subunits and proteins of RNA metabolism, similar to photosystem reaction center subunit H (PRCH), a component of the reaction center (RC), which is an integral membrane protein-pigment complex that catalyzes light-induced reduction of ubiquinone to ubiquinol, generating a transmembrane electrochemical gradient of protons used to produce ATP by ATP synthase

CATH:  4.10.540.10|3.90.50.10
Gene Ontology:  GO:0009055|GO:0019684
PubMed:  12429060
SCOP:  4001979|4002050
TCDB:  3.E.2

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
YrrD super family cl28705
Uncharacterized conserved protein YrrD, contains PRC-barrel domain [Function unknown];
8-91 7.11e-10

Uncharacterized conserved protein YrrD, contains PRC-barrel domain [Function unknown];


The actual alignment was detected with superfamily member COG3881:

Pssm-ID: 443089 [Multi-domain]  Cd Length: 161  Bit Score: 53.74  E-value: 7.11e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2267666032   8 AMLVKLSEAAETVASTDE---------DIRGYHVKDRNGEDLGTVDDLLIDPDARKVRFLVIASGGFLGIGKDKSFLPVD 78
Cdd:COG3881    65 AVTVDSSSAIEKLEELPElnellkkkiDLIGKKVITEKGELLGTVEDVYFDEETGKIVGYEISDGLLADLLKGRKILPAE 144

                          90
                  ....*....|...
gi 2267666032  79 AITGIDDDEVRID 91
Cdd:COG3881   145 QIVTIGKDVIIVP 157
 
Name Accession Description Interval E-value
YrrD COG3881
Uncharacterized conserved protein YrrD, contains PRC-barrel domain [Function unknown];
8-91 7.11e-10

Uncharacterized conserved protein YrrD, contains PRC-barrel domain [Function unknown];


Pssm-ID: 443089 [Multi-domain]  Cd Length: 161  Bit Score: 53.74  E-value: 7.11e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2267666032   8 AMLVKLSEAAETVASTDE---------DIRGYHVKDRNGEDLGTVDDLLIDPDARKVRFLVIASGGFLGIGKDKSFLPVD 78
Cdd:COG3881    65 AVTVDSSSAIEKLEELPElnellkkkiDLIGKKVITEKGELLGTVEDVYFDEETGKIVGYEISDGLLADLLKGRKILPAE 144

                          90
                  ....*....|...
gi 2267666032  79 AITGIDDDEVRID 91
Cdd:COG3881   145 QIVTIGKDVIIVP 157
PRC pfam05239
PRC-barrel domain; The PRC-barrel is an all beta barrel domain found in photosystem reaction ...
 26-97 1.21e-08

PRC-barrel domain; The PRC-barrel is an all beta barrel domain found in photosystem reaction centre subunit H of the purple bacteria and RNA metabolism proteins of the RimM group. PRC-barrels are approximately 80 residues long, and found widely represented in bacteria, archaea and plants. This domain is also present at the carboxyl terminus of the pan-bacterial protein RimM, which is involved in ribosomal maturation and processing of 16S rRNA. A family of small proteins conserved in all known euryarchaea are composed entirely of a single stand-alone copy of the domain.


Pssm-ID: 398765  Cd Length: 78  Bit Score: 48.83  E-value: 1.21e-08
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 2267666032  26 DIRGYHVKDRNGEDLGTVDDLLIDPDARKVRFLVIASGGFLGIgkDKSFLPVDAITG-IDDDEVRIDQTREHV 97
Cdd:pfam05239   8 DLIGLEVYTEDGEKLGKVKDVVIDEGEGRVRYLVVSVGGFLGG--KEVLIPFDKLNVkLGKDRIIVDPPKELL 78
PRCH cd00226
Photosynthetic reaction center (RC) complex, subunit H; RC is an integral membrane ...
 10-102 4.10e-05

Photosynthetic reaction center (RC) complex, subunit H; RC is an integral membrane protein-pigment complex which catalyzes light-induced reduction of ubiquinone to ubiquinol, generating a transmembrane electrochemical gradient of protons used to produce ATP by ATP synthase. Subunit H is positioned mainly in the cytoplasm with one transmembrane alpha helix. Provides proton transfer pathway (water channels) connecting the terminal quinone electron acceptor of RC, to the aqueous phase. Found in photosynthetic bacteria: alpha, beta, and gamma proteobacteria.


Pssm-ID: 238138  Cd Length: 246  Bit Score: 41.66  E-value: 4.10e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2267666032  10 LVKLSEAAE-TVASTDEDIRGYHVKDRNGEDLGTVDDLLIDPDARKVRFLVIAsggfLGIGKDKSFLPVDAITgIDDDEV 88
Cdd:cd00226   130 IVPMRVATGfSVAAGDVDPRGLPVVGADGEVAGKVTDLWVDRPEQLFRYLEVE----LAGGGRTVLLPMGFAK-VKSDRV 204

                          90
                  ....*....|....*
gi 2267666032  89 RIDQ-TREHVAGAPA 102
Cdd:cd00226   205 KVTAiLSEHFANVPT 219
 
Name Accession Description Interval E-value
YrrD COG3881
Uncharacterized conserved protein YrrD, contains PRC-barrel domain [Function unknown];
8-91 7.11e-10

Uncharacterized conserved protein YrrD, contains PRC-barrel domain [Function unknown];


Pssm-ID: 443089 [Multi-domain]  Cd Length: 161  Bit Score: 53.74  E-value: 7.11e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2267666032   8 AMLVKLSEAAETVASTDE---------DIRGYHVKDRNGEDLGTVDDLLIDPDARKVRFLVIASGGFLGIGKDKSFLPVD 78
Cdd:COG3881    65 AVTVDSSSAIEKLEELPElnellkkkiDLIGKKVITEKGELLGTVEDVYFDEETGKIVGYEISDGLLADLLKGRKILPAE 144

                          90
                  ....*....|...
gi 2267666032  79 AITGIDDDEVRID 91
Cdd:COG3881   145 QIVTIGKDVIIVP 157
YlmC COG1873
Sporulation protein YlmC, YlmC/YmxH family, contains PRC-barrel domain [General function ...
 25-86 9.29e-10

Sporulation protein YlmC, YlmC/YmxH family, contains PRC-barrel domain [General function prediction only];


Pssm-ID: 441477  Cd Length: 70  Bit Score: 51.36  E-value: 9.29e-10
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 2267666032  25 EDIRGYHVKDRNGEDLGTVDDLLIDPDARKVRFLVIASG----GFLGIGKDKSFLPVDAITGIDDD 86
Cdd:COG1873     2 SELIGKEVITSDGERLGKVKDVEIDLETGKIEALVVPPGnkffGFLGDGEKEVVIPWEAVKKIGDD 67
PRC pfam05239
PRC-barrel domain; The PRC-barrel is an all beta barrel domain found in photosystem reaction ...
 26-97 1.21e-08

PRC-barrel domain; The PRC-barrel is an all beta barrel domain found in photosystem reaction centre subunit H of the purple bacteria and RNA metabolism proteins of the RimM group. PRC-barrels are approximately 80 residues long, and found widely represented in bacteria, archaea and plants. This domain is also present at the carboxyl terminus of the pan-bacterial protein RimM, which is involved in ribosomal maturation and processing of 16S rRNA. A family of small proteins conserved in all known euryarchaea are composed entirely of a single stand-alone copy of the domain.


Pssm-ID: 398765  Cd Length: 78  Bit Score: 48.83  E-value: 1.21e-08
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 2267666032  26 DIRGYHVKDRNGEDLGTVDDLLIDPDARKVRFLVIASGGFLGIgkDKSFLPVDAITG-IDDDEVRIDQTREHV 97
Cdd:pfam05239   8 DLIGLEVYTEDGEKLGKVKDVVIDEGEGRVRYLVVSVGGFLGG--KEVLIPFDKLNVkLGKDRIIVDPPKELL 78
YrrD COG3881
Uncharacterized conserved protein YrrD, contains PRC-barrel domain [Function unknown];
35-91 1.44e-08

Uncharacterized conserved protein YrrD, contains PRC-barrel domain [Function unknown];


Pssm-ID: 443089 [Multi-domain]  Cd Length: 161  Bit Score: 50.27  E-value: 1.44e-08
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*..
gi 2267666032  35 RNGEDLGTVDDLLIDPDARKVRFLVIASGGFLgigKDKSFLPVDAITGIDDDEVRID 91
Cdd:COG3881    16 ETGKQLGRVKDLVFDPEEGRVAGFLVESGGLF---KGAKVIPFEDVVSIGEDAVTVD 69
PRCH cd00226
Photosynthetic reaction center (RC) complex, subunit H; RC is an integral membrane ...
 10-102 4.10e-05

Photosynthetic reaction center (RC) complex, subunit H; RC is an integral membrane protein-pigment complex which catalyzes light-induced reduction of ubiquinone to ubiquinol, generating a transmembrane electrochemical gradient of protons used to produce ATP by ATP synthase. Subunit H is positioned mainly in the cytoplasm with one transmembrane alpha helix. Provides proton transfer pathway (water channels) connecting the terminal quinone electron acceptor of RC, to the aqueous phase. Found in photosynthetic bacteria: alpha, beta, and gamma proteobacteria.


Pssm-ID: 238138  Cd Length: 246  Bit Score: 41.66  E-value: 4.10e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2267666032  10 LVKLSEAAE-TVASTDEDIRGYHVKDRNGEDLGTVDDLLIDPDARKVRFLVIAsggfLGIGKDKSFLPVDAITgIDDDEV 88
Cdd:cd00226   130 IVPMRVATGfSVAAGDVDPRGLPVVGADGEVAGKVTDLWVDRPEQLFRYLEVE----LAGGGRTVLLPMGFAK-VKSDRV 204

                          90
                  ....*....|....*
gi 2267666032  89 RIDQ-TREHVAGAPA 102
Cdd:cd00226   205 KVTAiLSEHFANVPT 219
 
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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