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Conserved domains on  [gi|1084961408|gb|OGR76000|]
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hypothetical protein A2X40_08650 [Elusimicrobia bacterium GWC2_65_9]

Protein Classification

KH domain-containing protein( domain architecture ID 10004768)

uncharacterized KH domain-containing similar to Bacillus subtilis YlqC; KH (K homology RNA-binding domain) binds single-stranded RNA or DNA

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
YlqC COG1837
Predicted RNA-binding protein YlqC, contains KH domain, UPF0109 family [General function ...
 1-75 1.60e-23

Predicted RNA-binding protein YlqC, contains KH domain, UPF0109 family [General function prediction only];


:

Pssm-ID: 441442  Cd Length: 76  Bit Score: 84.33  E-value: 1.60e-23
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 1084961408  1 MKDLALFIIQRLAGKPEAASVTEFMDGDTAVLKLVVAEEDKGKIIGKQGKVVKAIRSLVGVAASKAGKKAVVEID 75
Cdd:COG1837    1 MKELVEFLVKPLVDHPDDVSVTEEEGERTVVLELRVAPEDLGKVIGKQGRTAKAIRTVLSAAAAKEGKRVRLEIV 75
 
Name Accession Description Interval E-value
YlqC COG1837
Predicted RNA-binding protein YlqC, contains KH domain, UPF0109 family [General function ...
 1-75 1.60e-23

Predicted RNA-binding protein YlqC, contains KH domain, UPF0109 family [General function prediction only];


Pssm-ID: 441442  Cd Length: 76  Bit Score: 84.33  E-value: 1.60e-23
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 1084961408  1 MKDLALFIIQRLAGKPEAASVTEFMDGDTAVLKLVVAEEDKGKIIGKQGKVVKAIRSLVGVAASKAGKKAVVEID 75
Cdd:COG1837    1 MKELVEFLVKPLVDHPDDVSVTEEEGERTVVLELRVAPEDLGKVIGKQGRTAKAIRTVLSAAAAKEGKRVRLEIV 75
KH-II_YlqC-like cd22533
type II K-homology (KH) RNA-binding domain found in Bacillus subtilis UPF0109 protein YlqC and ...
 1-75 1.03e-21

type II K-homology (KH) RNA-binding domain found in Bacillus subtilis UPF0109 protein YlqC and similar proteins; The family includes a group of uncharacterized proteins which show sequence similarity to Bacillus subtilis UPF0109 protein YlqC. They are mainly found in 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: 411790  Cd Length: 75  Bit Score: 79.82  E-value: 1.03e-21
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 1084961408  1 MKDLALFIIQRLAGKPEAASVTEFMDGDTAVLKLVVAEEDKGKIIGKQGKVVKAIRSLVGVAASKAGKKAVVEID 75
Cdd:cd22533    1 MKELIEYIAKSLVDHPESVRVSEIEGEKTTVYELRVAPEDVGRVIGKQGRTAKAIRTLVSAAAAKDGKRVRLEIL 75
KH_4 pfam13083
KH domain;
2-74 4.62e-18

KH domain;


Pssm-ID: 463779  Cd Length: 73  Bit Score: 70.20  E-value: 4.62e-18
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 1084961408  2 KDLALFIIQRLAGKPEAASVTEFMDGDTAVLKLVVAEEDKGKIIGKQGKVVKAIRSLVGVAASKAGKKAVVEI 74
Cdd:pfam13083  1 KELVEDILKALVDDPEEVSVTEEEEEKTVVLELNVAGEDMGKVIGKQGRTLDALRTLVSAAANKDGKRVRVEI 73
PRK00468 PRK00468
KH domain-containing protein;
1-74 5.45e-13

KH domain-containing protein;


Pssm-ID: 179040  Cd Length: 75  Bit Score: 57.82  E-value: 5.45e-13
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 1084961408  1 MKDLALFIIQRLAGKPEAASVTEFMDGDTAVLKLVVAEEDKGKIIGKQGKVVKAIRSLVGVAASKAGKKAVVEI 74
Cdd:PRK00468   1 MKELVETIAKALVDNPDAVQVNEIEGEQSVILELKVAPEDMGKVIGKQGRIAKAIRTVVKAAAIKENKRVVVEI 74
 
Name Accession Description Interval E-value
YlqC COG1837
Predicted RNA-binding protein YlqC, contains KH domain, UPF0109 family [General function ...
 1-75 1.60e-23

Predicted RNA-binding protein YlqC, contains KH domain, UPF0109 family [General function prediction only];


Pssm-ID: 441442  Cd Length: 76  Bit Score: 84.33  E-value: 1.60e-23
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 1084961408  1 MKDLALFIIQRLAGKPEAASVTEFMDGDTAVLKLVVAEEDKGKIIGKQGKVVKAIRSLVGVAASKAGKKAVVEID 75
Cdd:COG1837    1 MKELVEFLVKPLVDHPDDVSVTEEEGERTVVLELRVAPEDLGKVIGKQGRTAKAIRTVLSAAAAKEGKRVRLEIV 75
KH-II_YlqC-like cd22533
type II K-homology (KH) RNA-binding domain found in Bacillus subtilis UPF0109 protein YlqC and ...
 1-75 1.03e-21

type II K-homology (KH) RNA-binding domain found in Bacillus subtilis UPF0109 protein YlqC and similar proteins; The family includes a group of uncharacterized proteins which show sequence similarity to Bacillus subtilis UPF0109 protein YlqC. They are mainly found in 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: 411790  Cd Length: 75  Bit Score: 79.82  E-value: 1.03e-21
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 1084961408  1 MKDLALFIIQRLAGKPEAASVTEFMDGDTAVLKLVVAEEDKGKIIGKQGKVVKAIRSLVGVAASKAGKKAVVEID 75
Cdd:cd22533    1 MKELIEYIAKSLVDHPESVRVSEIEGEKTTVYELRVAPEDVGRVIGKQGRTAKAIRTLVSAAAAKDGKRVRLEIL 75
KH_4 pfam13083
KH domain;
2-74 4.62e-18

KH domain;


Pssm-ID: 463779  Cd Length: 73  Bit Score: 70.20  E-value: 4.62e-18
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 1084961408  2 KDLALFIIQRLAGKPEAASVTEFMDGDTAVLKLVVAEEDKGKIIGKQGKVVKAIRSLVGVAASKAGKKAVVEI 74
Cdd:pfam13083  1 KELVEDILKALVDDPEEVSVTEEEEEKTVVLELNVAGEDMGKVIGKQGRTLDALRTLVSAAANKDGKRVRVEI 73
PRK00468 PRK00468
KH domain-containing protein;
1-74 5.45e-13

KH domain-containing protein;


Pssm-ID: 179040  Cd Length: 75  Bit Score: 57.82  E-value: 5.45e-13
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 1084961408  1 MKDLALFIIQRLAGKPEAASVTEFMDGDTAVLKLVVAEEDKGKIIGKQGKVVKAIRSLVGVAASKAGKKAVVEI 74
Cdd:PRK00468   1 MKELVETIAKALVDNPDAVQVNEIEGEQSVILELKVAPEDMGKVIGKQGRIAKAIRTVVKAAAIKENKRVVVEI 74
PRK01064 PRK01064
hypothetical protein; Provisional
 1-74 3.43e-12

hypothetical protein; Provisional


Pssm-ID: 179216  Cd Length: 78  Bit Score: 55.70  E-value: 3.43e-12
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 1084961408  1 MKDLALFIIQRLAGKPEAASVTEFMDGDTAVLKLVVAEEDKGKIIGKQGKVVKAIRSLVGVAASKAGKKAVVEI 74
Cdd:PRK01064   1 MKEFLAYIVKNLVDRPEEVHIKEVQGTHTIIYELTVAKPDIGKIIGKEGRTIKAIRTLLVSVASRNNVKVSLEI 74
KH-II_Jag cd02414
type II K-homology (KH) RNA-binding domain found in protein Jag and similar proteins; Protein ...
 32-75 2.27e-03

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: 33.26  E-value: 2.27e-03
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....*
gi 1084961408 32 LKLVVAEEDKGKIIGKQGKVVKAIRSLVGVAASKAGKKAV-VEID 75
Cdd:cd02414   28 VKLNIDGEDPGLLIGKHGETLDALQYLANLVLNKEFGKRVrVVLD 72
KH-I_PEPPER_rpt2_like cd22460
second type I K homology (KH) RNA-binding domain found in Arabidopsis thaliana RNA-binding KH ...
 31-57 5.77e-03

second type I K homology (KH) RNA-binding domain found in Arabidopsis thaliana RNA-binding KH domain-containing protein PEPPER and similar proteins; The family includes a group of plant RNA-binding KH domain-containing proteins, such as PEPPER, flowering locus K homology domain protein (FLK), RNA-binding KH domain-containing protein RCF3 and KH domain-containing protein HEN4. PEPPER regulates vegetative and gynoecium development. It acts as a positive regulator of the central floral repressor FLOWERING LOCUS C. In concert with HUA2, PEPPER antagonizes FLK by positively regulating FLC probably at transcriptional and post-transcriptional levels, and thus acts as a negative regulator of flowering. FLK, also called flowering locus KH domain protein, regulates positively flowering by repressing FLC expression and post-transcriptional modification. PEPPER and FLK contain three K-homology (KH) RNA-binding domains. RCF3, also called protein ENHANCED STRESS RESPONSE 1 (ESR1), or protein HIGH OSMOTIC STRESS GENE EXPRESSION 5 (HOS5), or protein REGULATOR OF CBF GENE EXPRESSION 3, or protein SHINY 1 (SHI1), acts as negative regulator of osmotic stress-induced gene expression. It is involved in the regulation of thermotolerance responses under heat stress. It functions as an upstream regulator of heat stress transcription factor (HSF) genes. HEN4, also called protein HUA ENHANCER 4, plays a role in floral reproductive organ identity in the third whorl and floral determinacy specification by specifically promoting the processing of AGAMOUS (AG) pre-mRNA. It functions in association with HUA1 and HUA2. RCF3 and HEN4 contain five KH RNA-binding domains. The model corresponds to the KH2 domain of PEPPER and FLK, as well as KH2 and KH4 domains of RCF3 and HEN4.


Pssm-ID: 411888 [Multi-domain]  Cd Length: 73  Bit Score: 31.82  E-value: 5.77e-03
                         10        20
                 ....*....|....*....|....*..
gi 1084961408 31 VLKLVVAEEDKGKIIGKQGKVVKAIRS 57
Cdd:cd22460    1 SARLLVASSQAGSLIGKGGAIIKQIRE 27
 
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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