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Conserved domains on  [gi|24586232|ref|NP_610276|]
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uncharacterized protein Dmel_CG11123 [Drosophila melanogaster]

Protein Classification

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
COG5099 super family cl34901
RNA-binding protein of the Puf family, translational repressor [Translation, ribosomal ...
 498-602 1.09e-03

RNA-binding protein of the Puf family, translational repressor [Translation, ribosomal structure and biogenesis];


The actual alignment was detected with superfamily member COG5099:

Pssm-ID: 227430 [Multi-domain]  Cd Length: 777  Bit Score: 42.43  E-value: 1.09e-03
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24586232 498 VHLHGSLITQHLLQFNKPIFLVNCILDLPATQLAQVFNtPNGSHIVDAFMQSKFIGEKSRErLIRQLDGFYVDLAITRHG 577
Cdd:COG5099 593 THRYGSRVVQRCLENCNSEDKENLVEEIISNSKYLSQD-QYGNYVVQHILDNGAEPNKERI-IIKLLSKRVVELSTHKFA 670

                        90       100
                ....*....|....*....|....*.
gi 24586232 578 SRVFEQCFKAAQDAQKL-RMAKELFS 602
Cdd:COG5099 671 SNVVEKCIKYASDSFKRsRILNELTN 696
COG5099 super family cl34901
RNA-binding protein of the Puf family, translational repressor [Translation, ribosomal ...
 65-135 1.52e-03

RNA-binding protein of the Puf family, translational repressor [Translation, ribosomal structure and biogenesis];


The actual alignment was detected with superfamily member COG5099:

Pssm-ID: 227430 [Multi-domain]  Cd Length: 777  Bit Score: 41.66  E-value: 1.52e-03
                        10        20        30        40        50        60        70
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 24586232  65 IMANNVFEQTHDQEIHLAS----NQIVSKALEslvgFVDDVQLERFFSKFGDNLRPMCSDRFASHVLQKMLEIAF 135
Cdd:COG5099 466 PEIEVIFNEILDQLVELSSdyfgNYLIQKLFE----YGSEIQKSIMLSKSSKHLVSLSVHKYGTRVLQKAIDIVS 536
 
Name Accession Description Interval E-value
COG5099 COG5099
RNA-binding protein of the Puf family, translational repressor [Translation, ribosomal ...
 498-602 1.09e-03

RNA-binding protein of the Puf family, translational repressor [Translation, ribosomal structure and biogenesis];


Pssm-ID: 227430 [Multi-domain]  Cd Length: 777  Bit Score: 42.43  E-value: 1.09e-03
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24586232 498 VHLHGSLITQHLLQFNKPIFLVNCILDLPATQLAQVFNtPNGSHIVDAFMQSKFIGEKSRErLIRQLDGFYVDLAITRHG 577
Cdd:COG5099 593 THRYGSRVVQRCLENCNSEDKENLVEEIISNSKYLSQD-QYGNYVVQHILDNGAEPNKERI-IIKLLSKRVVELSTHKFA 670

                        90       100
                ....*....|....*....|....*.
gi 24586232 578 SRVFEQCFKAAQDAQKL-RMAKELFS 602
Cdd:COG5099 671 SNVVEKCIKYASDSFKRsRILNELTN 696
COG5099 COG5099
RNA-binding protein of the Puf family, translational repressor [Translation, ribosomal ...
 65-135 1.52e-03

RNA-binding protein of the Puf family, translational repressor [Translation, ribosomal structure and biogenesis];


Pssm-ID: 227430 [Multi-domain]  Cd Length: 777  Bit Score: 41.66  E-value: 1.52e-03
                        10        20        30        40        50        60        70
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 24586232  65 IMANNVFEQTHDQEIHLAS----NQIVSKALEslvgFVDDVQLERFFSKFGDNLRPMCSDRFASHVLQKMLEIAF 135
Cdd:COG5099 466 PEIEVIFNEILDQLVELSSdyfgNYLIQKLFE----YGSEIQKSIMLSKSSKHLVSLSVHKYGTRVLQKAIDIVS 536
Pumilio smart00025
Pumilio-like repeats; Pumilio-like repeats that bind RNA.
 112-134 3.06e-03

Pumilio-like repeats; Pumilio-like repeats that bind RNA.


Pssm-ID: 214475 [Multi-domain]  Cd Length: 36  Bit Score: 35.49  E-value: 3.06e-03
                           10        20
                   ....*....|....*....|...
gi 24586232    112 DNLRPMCSDRFASHVLQKMLEIA 134
Cdd:smart00025   4 GHLLELSKDQYGNRVVQKLLEHA 26
PUF pfam00806
Pumilio-family RNA binding repeat; Puf repeats (aka PUM-HD, Pumilio homology domain) are ...
 568-600 3.96e-03

Pumilio-family RNA binding repeat; Puf repeats (aka PUM-HD, Pumilio homology domain) are necessary and sufficient for sequence specific RNA binding in fly Pumilio and worm FBF-1 and FBF-2. Both proteins function as translational repressors in early embryonic development by binding sequences in the 3' UTR of target mRNAs (e.g. the nanos response element (NRE) in fly Hunchback mRNA, or the point mutation element (PME) in worm fem-3 mRNA). Other proteins that contain Puf domains are also plausible RNA binding proteins. Swiss:P47135, for instance, appears to also contain a single RRM domain by HMM analysis. Puf domains usually occur as a tandem repeat of 8 domains. The Pfam model does not necessarily recognize all 8 repeats in all sequences; some sequences appear to have 5 or 6 repeats on initial analysis, but further analysis suggests the presence of additional divergent repeats. Structures of PUF repeat proteins show they consist of a two helix structure.


Pssm-ID: 459944 [Multi-domain]  Cd Length: 35  Bit Score: 35.35  E-value: 3.96e-03
                          10        20        30
                  ....*....|....*....|....*....|...
gi 24586232   568 YVDLAITRHGSRVFEQCFKAAQDAQKLRMAKEL 600
Cdd:pfam00806   2 VVELATDQYGCRVIQKCLEHATEEQREQILDEI 34
 
Name Accession Description Interval E-value
COG5099 COG5099
RNA-binding protein of the Puf family, translational repressor [Translation, ribosomal ...
 498-602 1.09e-03

RNA-binding protein of the Puf family, translational repressor [Translation, ribosomal structure and biogenesis];


Pssm-ID: 227430 [Multi-domain]  Cd Length: 777  Bit Score: 42.43  E-value: 1.09e-03
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24586232 498 VHLHGSLITQHLLQFNKPIFLVNCILDLPATQLAQVFNtPNGSHIVDAFMQSKFIGEKSRErLIRQLDGFYVDLAITRHG 577
Cdd:COG5099 593 THRYGSRVVQRCLENCNSEDKENLVEEIISNSKYLSQD-QYGNYVVQHILDNGAEPNKERI-IIKLLSKRVVELSTHKFA 670

                        90       100
                ....*....|....*....|....*.
gi 24586232 578 SRVFEQCFKAAQDAQKL-RMAKELFS 602
Cdd:COG5099 671 SNVVEKCIKYASDSFKRsRILNELTN 696
COG5099 COG5099
RNA-binding protein of the Puf family, translational repressor [Translation, ribosomal ...
 65-135 1.52e-03

RNA-binding protein of the Puf family, translational repressor [Translation, ribosomal structure and biogenesis];


Pssm-ID: 227430 [Multi-domain]  Cd Length: 777  Bit Score: 41.66  E-value: 1.52e-03
                        10        20        30        40        50        60        70
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 24586232  65 IMANNVFEQTHDQEIHLAS----NQIVSKALEslvgFVDDVQLERFFSKFGDNLRPMCSDRFASHVLQKMLEIAF 135
Cdd:COG5099 466 PEIEVIFNEILDQLVELSSdyfgNYLIQKLFE----YGSEIQKSIMLSKSSKHLVSLSVHKYGTRVLQKAIDIVS 536
Pumilio smart00025
Pumilio-like repeats; Pumilio-like repeats that bind RNA.
 112-134 3.06e-03

Pumilio-like repeats; Pumilio-like repeats that bind RNA.


Pssm-ID: 214475 [Multi-domain]  Cd Length: 36  Bit Score: 35.49  E-value: 3.06e-03
                           10        20
                   ....*....|....*....|...
gi 24586232    112 DNLRPMCSDRFASHVLQKMLEIA 134
Cdd:smart00025   4 GHLLELSKDQYGNRVVQKLLEHA 26
PUF pfam00806
Pumilio-family RNA binding repeat; Puf repeats (aka PUM-HD, Pumilio homology domain) are ...
 568-600 3.96e-03

Pumilio-family RNA binding repeat; Puf repeats (aka PUM-HD, Pumilio homology domain) are necessary and sufficient for sequence specific RNA binding in fly Pumilio and worm FBF-1 and FBF-2. Both proteins function as translational repressors in early embryonic development by binding sequences in the 3' UTR of target mRNAs (e.g. the nanos response element (NRE) in fly Hunchback mRNA, or the point mutation element (PME) in worm fem-3 mRNA). Other proteins that contain Puf domains are also plausible RNA binding proteins. Swiss:P47135, for instance, appears to also contain a single RRM domain by HMM analysis. Puf domains usually occur as a tandem repeat of 8 domains. The Pfam model does not necessarily recognize all 8 repeats in all sequences; some sequences appear to have 5 or 6 repeats on initial analysis, but further analysis suggests the presence of additional divergent repeats. Structures of PUF repeat proteins show they consist of a two helix structure.


Pssm-ID: 459944 [Multi-domain]  Cd Length: 35  Bit Score: 35.35  E-value: 3.96e-03
                          10        20        30
                  ....*....|....*....|....*....|...
gi 24586232   568 YVDLAITRHGSRVFEQCFKAAQDAQKLRMAKEL 600
Cdd:pfam00806   2 VVELATDQYGCRVIQKCLEHATEEQREQILDEI 34
 
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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