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Conserved domains on  [gi|441492703|gb|AGC49398|]
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hypothetical protein MYSTI_08132 [Myxococcus stipitatus DSM 14675]

Protein Classification

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
Jag super family cl34365
Predicted RNA-binding protein Jag (SpoIIIJ-associated), conains KH and R3H domains [General ...
 30-249 1.97e-09

Predicted RNA-binding protein Jag (SpoIIIJ-associated), conains KH and R3H domains [General function prediction only];


The actual alignment was detected with superfamily member COG1847:

Pssm-ID: 441452 [Multi-domain]  Cd Length: 143  Bit Score: 54.73  E-value: 1.97e-09
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 441492703  30 EKLLGDILGLMGFPARLDMqDAADGSLSVALHfdaGPPPGVEQGRRSQVLDSLQFLLNKMLHRPGVERRWVVLGAGAHpe 109
Cdd:COG1847    2 ADFLEELLDIMGLDGDIEI-EVEGDRLTVDIS---GEDLGLLIGRRGETLDALQYLTNLAVNRKTGERSRVILDVEGY-- 75

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 441492703 110 pRQRREpqpqapvaqaaapaapapvaaprapappqaparqqaqrgaaaqqqapaaraaaapgragesdersmpveedAAL 189
Cdd:COG1847   76 -RERRE-----------------------------------------------------------------------EEL 83

                        170       180       190       200       210       220
                 ....*....|....*....|....*....|....*....|....*....|....*....|
gi 441492703 190 REAVRQLAEKSASLGRFYALAAMKQEDRARVMKAVEGVTGLKVSAEGEGRNRRVVFTPEK 249
Cdd:COG1847   84 EELARRAAEKVKRTGKPVELEPMSPYERRIIHDALADDPGVETESEGEEPYRRVVISPKR 143
 
Name Accession Description Interval E-value
Jag COG1847
Predicted RNA-binding protein Jag (SpoIIIJ-associated), conains KH and R3H domains [General ...
 30-249 1.97e-09

Predicted RNA-binding protein Jag (SpoIIIJ-associated), conains KH and R3H domains [General function prediction only];


Pssm-ID: 441452 [Multi-domain]  Cd Length: 143  Bit Score: 54.73  E-value: 1.97e-09
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 441492703  30 EKLLGDILGLMGFPARLDMqDAADGSLSVALHfdaGPPPGVEQGRRSQVLDSLQFLLNKMLHRPGVERRWVVLGAGAHpe 109
Cdd:COG1847    2 ADFLEELLDIMGLDGDIEI-EVEGDRLTVDIS---GEDLGLLIGRRGETLDALQYLTNLAVNRKTGERSRVILDVEGY-- 75

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 441492703 110 pRQRREpqpqapvaqaaapaapapvaaprapappqaparqqaqrgaaaqqqapaaraaaapgragesdersmpveedAAL 189
Cdd:COG1847   76 -RERRE-----------------------------------------------------------------------EEL 83

                        170       180       190       200       210       220
                 ....*....|....*....|....*....|....*....|....*....|....*....|
gi 441492703 190 REAVRQLAEKSASLGRFYALAAMKQEDRARVMKAVEGVTGLKVSAEGEGRNRRVVFTPEK 249
Cdd:COG1847   84 EELARRAAEKVKRTGKPVELEPMSPYERRIIHDALADDPGVETESEGEEPYRRVVISPKR 143
KH-II_Jag cd02414
type II K-homology (KH) RNA-binding domain found in protein Jag and similar proteins; Protein ...
 28-102 1.82e-08

type II K-homology (KH) RNA-binding domain found in protein Jag and similar proteins; Protein Jag, also called SpoIIIJ-associated protein, is associated with SpoIIIJ and is necessary for the third stage of sporulation. Members of this family are mainly from bacteria and contain only one canonical type II K-homology (KH) domain that has the signature motif GXXG (where X represents any amino acid).


Pssm-ID: 411785  Cd Length: 79  Bit Score: 50.21  E-value: 1.82e-08
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 441492703  28 RVEKLLGDILGLMGFPARLDMQDAADgslSVALHFDaGPPPGVEQGRRSQVLDSLQFLLNKMLHRPGVERRWVVL 102
Cdd:cd02414    1 EAKEFLEELLDAMGIEAEVEVEEEEG---TVKLNID-GEDPGLLIGKHGETLDALQYLANLVLNKEFGKRVRVVL 71
Jag_EloR NF041568
RNA-binding cell elongation regulator Jag/EloR; Members of this family are nucleic ...
 29-115 1.57e-04

RNA-binding cell elongation regulator Jag/EloR; Members of this family are nucleic acid-binding proteins (RNA or single-stranded DNA) with a KH domain at the N-terminus, an R3H domain at the C-terminus, and additional regions of homology. The founding member of this family was JAG (spoIIIJ Associated Gene) from Bacillus subtilis, but later work in other lineages, such as Streptococcus pneumoniae, as established a role in controlling cell elongation and the operation of the elongasome. The S. pneumoniae protein, a protein that undergoes regulatory phosphorylation and dephosphorylation, is also called RNA-binding cell elongation regulator EloR, and also KhpB.


Pssm-ID: 469453 [Multi-domain]  Cd Length: 203  Bit Score: 41.65  E-value: 1.57e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 441492703  29 VEKLLGDILGLMGFPARLDMQDAADGSLSVALHfdaGPPPGVEQGRRSQVLDSLQFLLNKMLHRPGVERRWVVLGAGAHp 108
Cdd:NF041568  62 AKEFLENVLEAMGIDEVEIEEEEDDDVIKFNLS---GEKLGLLIGKRGQTLDALQYLTNLVANRYSDEYVRVILDAENY- 137


                 ....*..
gi 441492703 109 epRQRRE 115
Cdd:NF041568 138 --RERRE 142
 
Name Accession Description Interval E-value
Jag COG1847
Predicted RNA-binding protein Jag (SpoIIIJ-associated), conains KH and R3H domains [General ...
 30-249 1.97e-09

Predicted RNA-binding protein Jag (SpoIIIJ-associated), conains KH and R3H domains [General function prediction only];


Pssm-ID: 441452 [Multi-domain]  Cd Length: 143  Bit Score: 54.73  E-value: 1.97e-09
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 441492703  30 EKLLGDILGLMGFPARLDMqDAADGSLSVALHfdaGPPPGVEQGRRSQVLDSLQFLLNKMLHRPGVERRWVVLGAGAHpe 109
Cdd:COG1847    2 ADFLEELLDIMGLDGDIEI-EVEGDRLTVDIS---GEDLGLLIGRRGETLDALQYLTNLAVNRKTGERSRVILDVEGY-- 75

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 441492703 110 pRQRREpqpqapvaqaaapaapapvaaprapappqaparqqaqrgaaaqqqapaaraaaapgragesdersmpveedAAL 189
Cdd:COG1847   76 -RERRE-----------------------------------------------------------------------EEL 83

                        170       180       190       200       210       220
                 ....*....|....*....|....*....|....*....|....*....|....*....|
gi 441492703 190 REAVRQLAEKSASLGRFYALAAMKQEDRARVMKAVEGVTGLKVSAEGEGRNRRVVFTPEK 249
Cdd:COG1847   84 EELARRAAEKVKRTGKPVELEPMSPYERRIIHDALADDPGVETESEGEEPYRRVVISPKR 143
KH-II_Jag cd02414
type II K-homology (KH) RNA-binding domain found in protein Jag and similar proteins; Protein ...
 28-102 1.82e-08

type II K-homology (KH) RNA-binding domain found in protein Jag and similar proteins; Protein Jag, also called SpoIIIJ-associated protein, is associated with SpoIIIJ and is necessary for the third stage of sporulation. Members of this family are mainly from bacteria and contain only one canonical type II K-homology (KH) domain that has the signature motif GXXG (where X represents any amino acid).


Pssm-ID: 411785  Cd Length: 79  Bit Score: 50.21  E-value: 1.82e-08
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 441492703  28 RVEKLLGDILGLMGFPARLDMQDAADgslSVALHFDaGPPPGVEQGRRSQVLDSLQFLLNKMLHRPGVERRWVVL 102
Cdd:cd02414    1 EAKEFLEELLDAMGIEAEVEVEEEEG---TVKLNID-GEDPGLLIGKHGETLDALQYLANLVLNKEFGKRVRVVL 71
Jag_EloR NF041568
RNA-binding cell elongation regulator Jag/EloR; Members of this family are nucleic ...
 29-115 1.57e-04

RNA-binding cell elongation regulator Jag/EloR; Members of this family are nucleic acid-binding proteins (RNA or single-stranded DNA) with a KH domain at the N-terminus, an R3H domain at the C-terminus, and additional regions of homology. The founding member of this family was JAG (spoIIIJ Associated Gene) from Bacillus subtilis, but later work in other lineages, such as Streptococcus pneumoniae, as established a role in controlling cell elongation and the operation of the elongasome. The S. pneumoniae protein, a protein that undergoes regulatory phosphorylation and dephosphorylation, is also called RNA-binding cell elongation regulator EloR, and also KhpB.


Pssm-ID: 469453 [Multi-domain]  Cd Length: 203  Bit Score: 41.65  E-value: 1.57e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 441492703  29 VEKLLGDILGLMGFPARLDMQDAADGSLSVALHfdaGPPPGVEQGRRSQVLDSLQFLLNKMLHRPGVERRWVVLGAGAHp 108
Cdd:NF041568  62 AKEFLENVLEAMGIDEVEIEEEEDDDVIKFNLS---GEKLGLLIGKRGQTLDALQYLTNLVANRYSDEYVRVILDAENY- 137


                 ....*..
gi 441492703 109 epRQRRE 115
Cdd:NF041568 138 --RERRE 142
R3H_jag cd02644
R3H domain found in proteins homologous to Bacillus subtilus Jag, which is associated with ...
 187-247 3.23e-03

R3H domain found in proteins homologous to Bacillus subtilus Jag, which is associated with SpoIIIJ. SpoIIIJ is necessary for the third stage of sporulation. The name of the R3H domain comes from the characteristic spacing of the most conserved arginine and histidine residues. The function of the domain is predicted to bind ssDNA or ssRNA in a sequence-specific manner.


Pssm-ID: 100073  Cd Length: 67  Bit Score: 35.14  E-value: 3.23e-03
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 441492703 187 AALREAVRQLAEKSASLGRFYALAAMKQEDRARVMKAVEGVTGLKVSAEGEGRNRRVVFTP 247
Cdd:cd02644    6 ETLIRLAERAAEKVRRTGKPVKLEPMNAYERRIIHDALANDEDVETESEGEGPYRRVVISP 66
R3H cd02325
R3H domain. The name of the R3H domain comes from the characteristic spacing of the most ...
 189-247 7.66e-03

R3H domain. The name of the R3H domain comes from the characteristic spacing of the most conserved arginine and histidine residues. R3H domains are found in proteins together with ATPase domains, SF1 helicase domains, SF2 DEAH helicase domains, Cys-rich repeats, ring-type zinc fingers, and KH domains. The function of the domain is predicted to bind ssDNA or ssRNA in a sequence-specific manner.


Pssm-ID: 100064  Cd Length: 59  Bit Score: 34.13  E-value: 7.66e-03
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*....
gi 441492703 189 LREAVRQLAEKSAslGRFYALAAMKQEDRARVMKAVEgVTGLKVSAEGEGRNRRVVFTP 247
Cdd:cd02325    4 REEELEAFAKDAA--GKSLELPPMNSYERKLIHDLAE-YYGLKSESEGEGPNRRVVITK 59
 
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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