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Conserved domains on  [gi|897916463|emb|COW08408|]
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resuscitation-promoting factor rpfB [Mycobacterium tuberculosis]

Protein Classification

resuscitation-promoting factor( domain architecture ID 11466449)

resuscitation-promoting factor is a cell-wall glycosidase that cleaves cell-wall peptidoglycan; it stimulates resuscitation of dormant cells

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
Transglycosylas pfam06737
Transglycosylase-like domain; This family of proteins are very likely to act as ...
 114-188 2.15e-44

Transglycosylase-like domain; This family of proteins are very likely to act as transglycosylase enzymes related to pfam00062 and pfam01464. These other families are weakly matched by this family, and include the known active site residues.


:

Pssm-ID: 399604 [Multi-domain]  Cd Length: 75  Bit Score: 142.17  E-value: 2.15e-44
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 897916463  114 DGSIWDAIAGCEAGGNWAINTGNGYYGGVQFDQGTWEANGGLRYAPRADLATREEQIAVAEVTRLRQGWGAWPVC 188
Cdd:pfam06737   1 DNSNWDAIAQCESGGNWAINTGNGYYGGLQFSQSTWDAYGGLGYAPSAAQASREQQIAVAEKLLATQGAGAWPTC 75
YabE COG3583
Uncharacterized conserved protein YabE, contains G5 and tandem DUF348 domains [Function ...
 1-194 1.86e-37

Uncharacterized conserved protein YabE, contains G5 and tandem DUF348 domains [Function unknown];


:

Pssm-ID: 442802 [Multi-domain]  Cd Length: 335  Bit Score: 131.92  E-value: 1.86e-37
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 897916463   1 MPLLQSDHVVPAATAPIVEGMQIQVTRNRIKKVTERLPLPPNARRVEDPEMNMSREVVEDPGVPGTQDVTFAVAEVNGVE 80
Cdd:COG3583  122 ITLGEDDRVSPALDAPLTDGMTITVTRVTTKTVTEEEPIPFETVRKEDPSLPKGETKVVQEGVPGVKEVTYRVTYENGKE 201

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 897916463  81 TGRLPVANVVVTPAHEAVVRVGTKPGTEVPPVIDGSiwdaiagceAGGNWAINTGNGYYGGVQFDQGTWEANGGLRYAPR 160
Cdd:COG3583  202 VSREVVSEKVTKEPVDEVVAVGTKPRPAPAPVPAGS---------GSGGGGSSTGSGGYGGLAASSATTAASGGGTGAPG 272

                        170       180       190
                 ....*....|....*....|....*....|....
gi 897916463 161 ADLATREEQIAVAEVTRLRQGWGAWPVCAARAGA 194
Cdd:COG3583  273 GGGAARPTAGAVAGVVVVGGGGGGGPGGGGGGGA 306
 
Name Accession Description Interval E-value
Transglycosylas pfam06737
Transglycosylase-like domain; This family of proteins are very likely to act as ...
 114-188 2.15e-44

Transglycosylase-like domain; This family of proteins are very likely to act as transglycosylase enzymes related to pfam00062 and pfam01464. These other families are weakly matched by this family, and include the known active site residues.


Pssm-ID: 399604 [Multi-domain]  Cd Length: 75  Bit Score: 142.17  E-value: 2.15e-44
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 897916463  114 DGSIWDAIAGCEAGGNWAINTGNGYYGGVQFDQGTWEANGGLRYAPRADLATREEQIAVAEVTRLRQGWGAWPVC 188
Cdd:pfam06737   1 DNSNWDAIAQCESGGNWAINTGNGYYGGLQFSQSTWDAYGGLGYAPSAAQASREQQIAVAEKLLATQGAGAWPTC 75
YabE COG3583
Uncharacterized conserved protein YabE, contains G5 and tandem DUF348 domains [Function ...
 1-194 1.86e-37

Uncharacterized conserved protein YabE, contains G5 and tandem DUF348 domains [Function unknown];


Pssm-ID: 442802 [Multi-domain]  Cd Length: 335  Bit Score: 131.92  E-value: 1.86e-37
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 897916463   1 MPLLQSDHVVPAATAPIVEGMQIQVTRNRIKKVTERLPLPPNARRVEDPEMNMSREVVEDPGVPGTQDVTFAVAEVNGVE 80
Cdd:COG3583  122 ITLGEDDRVSPALDAPLTDGMTITVTRVTTKTVTEEEPIPFETVRKEDPSLPKGETKVVQEGVPGVKEVTYRVTYENGKE 201

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 897916463  81 TGRLPVANVVVTPAHEAVVRVGTKPGTEVPPVIDGSiwdaiagceAGGNWAINTGNGYYGGVQFDQGTWEANGGLRYAPR 160
Cdd:COG3583  202 VSREVVSEKVTKEPVDEVVAVGTKPRPAPAPVPAGS---------GSGGGGSSTGSGGYGGLAASSATTAASGGGTGAPG 272

                        170       180       190
                 ....*....|....*....|....*....|....
gi 897916463 161 ADLATREEQIAVAEVTRLRQGWGAWPVCAARAGA 194
Cdd:COG3583  273 GGGAARPTAGAVAGVVVVGGGGGGGPGGGGGGGA 306
RPF cd13925
core lysozyme-like domain of resuscitation-promoting factor proteins; Resuscitation-promoting ...
 116-188 3.64e-32

core lysozyme-like domain of resuscitation-promoting factor proteins; Resuscitation-promoting factor (RPF) proteins, found in various (G+C)-rich Gram-positive bacteria, act to reactivate cultures from stationary phase. This protein shares elements of the structural core of lysozyme and related proteins. Furthermore, it shares a conserved active site glutamate which is required for activity, and has a polysaccharide binding cleft that corresponds to the peptidoglycan binding cleft of lysozyme. Muralytic activity of Rpf in Micrococcus luteus correlates with resuscitation, supporting a mechanism dependent on cleavage of peptidoglycan by RPF.


Pssm-ID: 381607 [Multi-domain]  Cd Length: 71  Bit Score: 110.93  E-value: 3.64e-32
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 897916463 116 SIWDAIAGCEAGGNW-AINTGNGYYGGVQFDQGTWEANGGLRYaprADLATREEQIAVAEVTRLRQGWGAWPVC 188
Cdd:cd13925    1 SQWDAIAQCESGGNWnAVNTGNGYYGGLQFLQGTWKSVGGLGY---PDDATRAEQITRAERLYARQGAGAWPCC 71
G5 pfam07501
G5 domain; This domain is found in a wide range of extracellular proteins. It is found ...
 31-104 1.43e-19

G5 domain; This domain is found in a wide range of extracellular proteins. It is found tandemly repeated in up to 8 copies. It is found in the N-terminus of peptidases belonging to the M26 family which cleave human IgA. The domain is also found in proteins involved in metabolism of bacterial cell walls suggesting this domain may have an adhesive function.


Pssm-ID: 462185 [Multi-domain]  Cd Length: 75  Bit Score: 78.36  E-value: 1.43e-19
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 897916463   31 KKVTERLPLPPNARRVEDPEMNMSREVVEDPGVPGTQDVTFAVAEVNGVETGRLPVANVVVTPAHEAVVRVGTK 104
Cdd:pfam07501   2 KTVTEEEEIPFETVTKEDPSLPKGEEKVVQEGKPGEKEVTYKVTYVNGKEVSREVVSEEVTKEPVDEVVAVGTK 75
 
Name Accession Description Interval E-value
Transglycosylas pfam06737
Transglycosylase-like domain; This family of proteins are very likely to act as ...
 114-188 2.15e-44

Transglycosylase-like domain; This family of proteins are very likely to act as transglycosylase enzymes related to pfam00062 and pfam01464. These other families are weakly matched by this family, and include the known active site residues.


Pssm-ID: 399604 [Multi-domain]  Cd Length: 75  Bit Score: 142.17  E-value: 2.15e-44
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 897916463  114 DGSIWDAIAGCEAGGNWAINTGNGYYGGVQFDQGTWEANGGLRYAPRADLATREEQIAVAEVTRLRQGWGAWPVC 188
Cdd:pfam06737   1 DNSNWDAIAQCESGGNWAINTGNGYYGGLQFSQSTWDAYGGLGYAPSAAQASREQQIAVAEKLLATQGAGAWPTC 75
YabE COG3583
Uncharacterized conserved protein YabE, contains G5 and tandem DUF348 domains [Function ...
 1-194 1.86e-37

Uncharacterized conserved protein YabE, contains G5 and tandem DUF348 domains [Function unknown];


Pssm-ID: 442802 [Multi-domain]  Cd Length: 335  Bit Score: 131.92  E-value: 1.86e-37
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 897916463   1 MPLLQSDHVVPAATAPIVEGMQIQVTRNRIKKVTERLPLPPNARRVEDPEMNMSREVVEDPGVPGTQDVTFAVAEVNGVE 80
Cdd:COG3583  122 ITLGEDDRVSPALDAPLTDGMTITVTRVTTKTVTEEEPIPFETVRKEDPSLPKGETKVVQEGVPGVKEVTYRVTYENGKE 201

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 897916463  81 TGRLPVANVVVTPAHEAVVRVGTKPGTEVPPVIDGSiwdaiagceAGGNWAINTGNGYYGGVQFDQGTWEANGGLRYAPR 160
Cdd:COG3583  202 VSREVVSEKVTKEPVDEVVAVGTKPRPAPAPVPAGS---------GSGGGGSSTGSGGYGGLAASSATTAASGGGTGAPG 272

                        170       180       190
                 ....*....|....*....|....*....|....
gi 897916463 161 ADLATREEQIAVAEVTRLRQGWGAWPVCAARAGA 194
Cdd:COG3583  273 GGGAARPTAGAVAGVVVVGGGGGGGPGGGGGGGA 306
RPF cd13925
core lysozyme-like domain of resuscitation-promoting factor proteins; Resuscitation-promoting ...
 116-188 3.64e-32

core lysozyme-like domain of resuscitation-promoting factor proteins; Resuscitation-promoting factor (RPF) proteins, found in various (G+C)-rich Gram-positive bacteria, act to reactivate cultures from stationary phase. This protein shares elements of the structural core of lysozyme and related proteins. Furthermore, it shares a conserved active site glutamate which is required for activity, and has a polysaccharide binding cleft that corresponds to the peptidoglycan binding cleft of lysozyme. Muralytic activity of Rpf in Micrococcus luteus correlates with resuscitation, supporting a mechanism dependent on cleavage of peptidoglycan by RPF.


Pssm-ID: 381607 [Multi-domain]  Cd Length: 71  Bit Score: 110.93  E-value: 3.64e-32
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 897916463 116 SIWDAIAGCEAGGNW-AINTGNGYYGGVQFDQGTWEANGGLRYaprADLATREEQIAVAEVTRLRQGWGAWPVC 188
Cdd:cd13925    1 SQWDAIAQCESGGNWnAVNTGNGYYGGLQFLQGTWKSVGGLGY---PDDATRAEQITRAERLYARQGAGAWPCC 71
G5 pfam07501
G5 domain; This domain is found in a wide range of extracellular proteins. It is found ...
 31-104 1.43e-19

G5 domain; This domain is found in a wide range of extracellular proteins. It is found tandemly repeated in up to 8 copies. It is found in the N-terminus of peptidases belonging to the M26 family which cleave human IgA. The domain is also found in proteins involved in metabolism of bacterial cell walls suggesting this domain may have an adhesive function.


Pssm-ID: 462185 [Multi-domain]  Cd Length: 75  Bit Score: 78.36  E-value: 1.43e-19
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 897916463   31 KKVTERLPLPPNARRVEDPEMNMSREVVEDPGVPGTQDVTFAVAEVNGVETGRLPVANVVVTPAHEAVVRVGTK 104
Cdd:pfam07501   2 KTVTEEEEIPFETVTKEDPSLPKGEEKVVQEGKPGEKEVTYKVTYVNGKEVSREVVSEEVTKEPVDEVVAVGTK 75
Lyz-like cd00442
lysozyme-like domains; This family contains several members, including soluble lytic ...
 117-173 5.06e-09

lysozyme-like domains; This family contains several members, including soluble lytic transglycosylases (SLT), goose egg-white lysozymes (GEWL), hen egg-white lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, chitosanases, and pesticin. Typical members are involved in the hydrolysis of beta-1,4- linked polysaccharides.


Pssm-ID: 381596 [Multi-domain]  Cd Length: 59  Bit Score: 50.49  E-value: 5.06e-09
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*....
gi 897916463 117 IWDAIAGCEAGGNW--AINTGNGYYGGVQFDQGTWEANGGlryAPRADLATREEQIAVA 173
Cdd:cd00442    1 VLAAIIGQESGGNKpaNAGSGSGAAGLFQFMPGTWKAYGK---NSSSDLNDPEASIEAA 56
 
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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