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Conserved domains on  [gi|6321260|ref|NP_011337|]
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Mpt5p [Saccharomyces cerevisiae S288C]

Protein Classification

COG5099 family protein( domain architecture ID 11473804)

COG5099 family protein

Graphical summary

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List of domain hits

Name Accession Description Interval E-value
COG5099 COG5099
RNA-binding protein of the Puf family, translational repressor [Translation, ribosomal ...
49-848 0e+00

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


:

Pssm-ID: 227430 [Multi-domain]  Cd Length: 777  Bit Score: 549.35  E-value: 0e+00
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6321260   49 PPLGQMNNKRNHQKAHSLDLSGFNqfISSTQsPLALMNNTSTSNSansFSPNPNAASNSTGLSAsmanPPAILPLINEFD 128
Cdd:COG5099   1 PNSDTMNNLLPSIKSQLHHSKKSP--PSSTT-SQELMNGNSTPNS---FSPIPSKASSSATFTL----NLPINNSVNHKI 70
                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6321260  129 LEMDGPRRKSsHDFTVVAPSNSGVNTSSLIMETPSSSVTPAASLRNFSNSNNAASKCGVDNSSFGLSSSTSSSMVEISAL 208
Cdd:COG5099  71 TSSSSSRRKP-SGSWSVAISSSTSGSQSLLMELPSSSFNPSTSSRNKSNSALSSTQQGNANSSVTLSSSTASSMFNSNKL 149
                       170       180       190       200       210       220       230       240
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6321260  209 PLRDLDYIKLATDQFgCRFLQKKLETPSESNMVRDLMYEQIKPFFLDLILDPFGNYLVQKLCDYLTAEQKTLLIQTIYPN 288
Cdd:COG5099 150 PLPNPNHSNSATTNQ-SGSSFINTPASSSSQPLTNLVVSSIKRFPYLTSLSPFFNYLIDPSSDSATASADTSPSFNPPPN 228
                       250       260       270       280       290       300       310       320
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6321260  289 VFQIsiNQYGTRSLQKIIDTVDNEVQIDLIIKGFSQEFTSIEQVVTLINDLNGNHVIQKCIFKFSPSKFGFIIDAIVEQN 368
Cdd:COG5099 229 LSPN--NLFSTSDLSPLPDTQSVENNIILNSSSSINELTSIYGSVPSIRNLRGLNSALVSFLNVSSSSLAFSALNGKEVS 306
                       330       340       350       360       370       380       390       400
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6321260  369 NIITISTHKhGCCVLQKLLSVCTLQQIFKISVKIVQFLPGLINDQFGNYIIQFLLDIKELdfyLLAELFNRLSNELCQLS 448
Cdd:COG5099 307 PTGSPSTRS-FARVLPKSSPNNLLTEILTTGVNPPQSLPSLLNPVFLSTSTGFSLTNLSG---YLNPNKNLKKNTLSSLS 382
                       410       420       430       440       450       460       470       480
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6321260  449 CLKFSSNVVEKFIKKLFRIITGFIVNNNGGASQRTAVASDDVINASMNILLTTIDIFTVNLNVLIRDNFGNYALQTLLDV 528
Cdd:COG5099 383 NLGYSSNVPSPSSSESTRNILGNISPNFKTSSNLTNLNSLLKEKLSNSSSVSATDILGPSIIVSCKDQHGSRFLQKLLDS 462
                       490       500       510       520       530       540       550       560
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6321260  529 kNYSPLLAYNKNSNAIGQNSSSTLNYGNFCNDFSLKIGNLIVLTKELLPSIKTTSYAKKIKLKVKAYAEATGIPFTDISP 608
Cdd:COG5099 463 -NSSPEIEVIFNEILDQLVELSSDYFGNYLIQKLFEYGSEIQKSIMLSKSSKHLVSLSVHKYGTRVLQKAIDIVSTDIQI 541
                       570       580       590       600       610       620       630       640
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6321260  609 --QVTAMSHNNLQTINNENKNPHNK-NSHNHNHNHNHNHAHNNNNNNNQKSHTRHFSLPANAYHRRSNSSVTNNFSNQYA 685
Cdd:COG5099 542 slLVEELRPYCLQLIKDQNGNHVIQkCIEKFNKEKNQFIFDSINENLYDLSTHRYGSRVVQRCLENCNSEDKENLVEEII 621
                       650       660       670       680       690       700       710       720
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6321260  686 QDQKIHSPQQIMNFNQNAYPSMGAPSFNSQTNPPLVsHNSLQNFDNRQFANLMAHPNSAAPIHSFSSSNITNVNPNvsRG 765
Cdd:COG5099 622 SNSKYLSQDQYGNYVVQHILDNGAEPNKERIIIKLL-SKRVVELSTHKFASNVVEKCIKYASDSFKRSRILNELTN--RG 698
                       730       740       750       760       770       780       790       800
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6321260  766 FKQPGFMMNETDKINANHFSPYSNANSQNFNESFVPRMQYQTEGANWDsslSMKSQHIGQGPYNQVNMSRNaSISNMPAM 845
Cdd:COG5099 699 IEKPGFLMLILDDQYANYVIQYLLDVSPEIQRSLLARAIKKVIPSLKK---SMYGQHILALLEKVGSSSQS-SISNKECM 774

                ...
gi 6321260  846 NTA 848
Cdd:COG5099 775 NTS 777
 
Name Accession Description Interval E-value
COG5099 COG5099
RNA-binding protein of the Puf family, translational repressor [Translation, ribosomal ...
49-848 0e+00

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


Pssm-ID: 227430 [Multi-domain]  Cd Length: 777  Bit Score: 549.35  E-value: 0e+00
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6321260   49 PPLGQMNNKRNHQKAHSLDLSGFNqfISSTQsPLALMNNTSTSNSansFSPNPNAASNSTGLSAsmanPPAILPLINEFD 128
Cdd:COG5099   1 PNSDTMNNLLPSIKSQLHHSKKSP--PSSTT-SQELMNGNSTPNS---FSPIPSKASSSATFTL----NLPINNSVNHKI 70
                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6321260  129 LEMDGPRRKSsHDFTVVAPSNSGVNTSSLIMETPSSSVTPAASLRNFSNSNNAASKCGVDNSSFGLSSSTSSSMVEISAL 208
Cdd:COG5099  71 TSSSSSRRKP-SGSWSVAISSSTSGSQSLLMELPSSSFNPSTSSRNKSNSALSSTQQGNANSSVTLSSSTASSMFNSNKL 149
                       170       180       190       200       210       220       230       240
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6321260  209 PLRDLDYIKLATDQFgCRFLQKKLETPSESNMVRDLMYEQIKPFFLDLILDPFGNYLVQKLCDYLTAEQKTLLIQTIYPN 288
Cdd:COG5099 150 PLPNPNHSNSATTNQ-SGSSFINTPASSSSQPLTNLVVSSIKRFPYLTSLSPFFNYLIDPSSDSATASADTSPSFNPPPN 228
                       250       260       270       280       290       300       310       320
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6321260  289 VFQIsiNQYGTRSLQKIIDTVDNEVQIDLIIKGFSQEFTSIEQVVTLINDLNGNHVIQKCIFKFSPSKFGFIIDAIVEQN 368
Cdd:COG5099 229 LSPN--NLFSTSDLSPLPDTQSVENNIILNSSSSINELTSIYGSVPSIRNLRGLNSALVSFLNVSSSSLAFSALNGKEVS 306
                       330       340       350       360       370       380       390       400
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6321260  369 NIITISTHKhGCCVLQKLLSVCTLQQIFKISVKIVQFLPGLINDQFGNYIIQFLLDIKELdfyLLAELFNRLSNELCQLS 448
Cdd:COG5099 307 PTGSPSTRS-FARVLPKSSPNNLLTEILTTGVNPPQSLPSLLNPVFLSTSTGFSLTNLSG---YLNPNKNLKKNTLSSLS 382
                       410       420       430       440       450       460       470       480
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6321260  449 CLKFSSNVVEKFIKKLFRIITGFIVNNNGGASQRTAVASDDVINASMNILLTTIDIFTVNLNVLIRDNFGNYALQTLLDV 528
Cdd:COG5099 383 NLGYSSNVPSPSSSESTRNILGNISPNFKTSSNLTNLNSLLKEKLSNSSSVSATDILGPSIIVSCKDQHGSRFLQKLLDS 462
                       490       500       510       520       530       540       550       560
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6321260  529 kNYSPLLAYNKNSNAIGQNSSSTLNYGNFCNDFSLKIGNLIVLTKELLPSIKTTSYAKKIKLKVKAYAEATGIPFTDISP 608
Cdd:COG5099 463 -NSSPEIEVIFNEILDQLVELSSDYFGNYLIQKLFEYGSEIQKSIMLSKSSKHLVSLSVHKYGTRVLQKAIDIVSTDIQI 541
                       570       580       590       600       610       620       630       640
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6321260  609 --QVTAMSHNNLQTINNENKNPHNK-NSHNHNHNHNHNHAHNNNNNNNQKSHTRHFSLPANAYHRRSNSSVTNNFSNQYA 685
Cdd:COG5099 542 slLVEELRPYCLQLIKDQNGNHVIQkCIEKFNKEKNQFIFDSINENLYDLSTHRYGSRVVQRCLENCNSEDKENLVEEII 621
                       650       660       670       680       690       700       710       720
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6321260  686 QDQKIHSPQQIMNFNQNAYPSMGAPSFNSQTNPPLVsHNSLQNFDNRQFANLMAHPNSAAPIHSFSSSNITNVNPNvsRG 765
Cdd:COG5099 622 SNSKYLSQDQYGNYVVQHILDNGAEPNKERIIIKLL-SKRVVELSTHKFASNVVEKCIKYASDSFKRSRILNELTN--RG 698
                       730       740       750       760       770       780       790       800
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6321260  766 FKQPGFMMNETDKINANHFSPYSNANSQNFNESFVPRMQYQTEGANWDsslSMKSQHIGQGPYNQVNMSRNaSISNMPAM 845
Cdd:COG5099 699 IEKPGFLMLILDDQYANYVIQYLLDVSPEIQRSLLARAIKKVIPSLKK---SMYGQHILALLEKVGSSSQS-SISNKECM 774

                ...
gi 6321260  846 NTA 848
Cdd:COG5099 775 NTS 777
Pumilio cd07920
Pumilio-family RNA binding domain; Puf repeats (also labelled PUM-HD or Pumilio homology ...
207-554 1.07e-106

Pumilio-family RNA binding domain; Puf repeats (also labelled PUM-HD or Pumilio homology domain) mediate sequence specific RNA binding in fly Pumilio, worm FBF-1 and FBF-2, and many other proteins such as vertebrate Pumilio. These proteins function as translational repressors in early embryonic development by binding to sequences in the 3' UTR of target mRNAs, such as 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. Yeast PUF1 (JSN1), for instance, appears to contain a single RNA-recognition motif (RRM) domain. Puf repeat proteins have been observed to function asymmetrically and may be responsible for creating protein gradients involved in the specification of cell fate and differentiation. Puf domains usually occur as a tandem repeat of 8 domains. This model encompasses all 8 tandem repeats. Some proteins may have fewer (canonical) repeats.


Pssm-ID: 153420 [Multi-domain]  Cd Length: 322  Bit Score: 331.48  E-value: 1.07e-106
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6321260  207 ALPLRDL---DYIKLATDQFGCRFLQKKLETPSESNmvRDLMYEQIKPFFLDLILDPFGNYLVQKLCDYLTAEQKTLLIQ 283
Cdd:cd07920   1 SLTLQDIkagHIVEFAKDQHGSRFLQQKLEEATPEE--KELIFDEILPHVVELMVDPFGNYVIQKLFEHGTEEQRLQLLE 78
                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6321260  284 TIYPNVFQISINQYGTRSLQKIIDTVDNEvQIDLIIKGFSqeftsiEQVVTLINDLNGNHVIQKCIFKFSPSKFGFIIDA 363
Cdd:cd07920  79 KILGHVVRLSLDMYGCRVIQKLLESISEE-QISLLVKELR------GHVVELVKDQNGNHVIQKCIEKFPPEDLQFIIDA 151
                       170       180       190       200       210       220       230       240
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6321260  364 IVEqnNIITISTHKHGCCVLQKLLSVCTLQQIFKISVKIVQFLPGLINDQFGNYIIQFLLDIKELDFylLAELFNRLSNE 443
Cdd:cd07920 152 FKG--NCVALSTHPYGCRVIQRCLEHCSEEQREPLLEEILEHALELVQDQFGNYVVQHVLELGDPDD--TSRIIEKLLGN 227
                       250       260       270       280       290       300       310       320
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6321260  444 LCQLSCLKFSSNVVEKFIKK-----LFRIITGFIVNNNGgasqrtavasddvinasmnillttidifTVNLNVLIRDNFG 518
Cdd:cd07920 228 IVQLSCHKFASNVVEKCLKHaskeeRELIIDEILASGNE----------------------------TSALDTLMKDQYG 279
                       330       340       350
                ....*....|....*....|....*....|....*.
gi 6321260  519 NYALQTLLDVknySPLLAYNKNSNAIGQNSSSTLNY 554
Cdd:cd07920 280 NYVIQTALDV---AKEEQRELLVEAIRPHLPSLRKS 312
PUF pfam00806
Pumilio-family RNA binding repeat; Puf repeats (aka PUM-HD, Pumilio homology domain) are ...
369-398 6.16e-08

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: 49.22  E-value: 6.16e-08
                          10        20        30
                  ....*....|....*....|....*....|
gi 6321260    369 NIITISTHKHGCCVLQKLLSVCTLQQIFKI 398
Cdd:pfam00806   1 HVVELATDQYGCRVIQKCLEHATEEQREQI 30
Pumilio smart00025
Pumilio-like repeats; Pumilio-like repeats that bind RNA.
249-283 6.07e-06

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


Pssm-ID: 214475 [Multi-domain]  Cd Length: 36  Bit Score: 43.58  E-value: 6.07e-06
                           10        20        30
                   ....*....|....*....|....*....|....*
gi 6321260     249 IKPFFLDLILDPFGNYLVQKLCDYLTAEQKTLLIQ 283
Cdd:smart00025   2 IKGHLLELSKDQYGNRVVQKLLEHASESQREQIID 36
 
Name Accession Description Interval E-value
COG5099 COG5099
RNA-binding protein of the Puf family, translational repressor [Translation, ribosomal ...
49-848 0e+00

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


Pssm-ID: 227430 [Multi-domain]  Cd Length: 777  Bit Score: 549.35  E-value: 0e+00
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6321260   49 PPLGQMNNKRNHQKAHSLDLSGFNqfISSTQsPLALMNNTSTSNSansFSPNPNAASNSTGLSAsmanPPAILPLINEFD 128
Cdd:COG5099   1 PNSDTMNNLLPSIKSQLHHSKKSP--PSSTT-SQELMNGNSTPNS---FSPIPSKASSSATFTL----NLPINNSVNHKI 70
                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6321260  129 LEMDGPRRKSsHDFTVVAPSNSGVNTSSLIMETPSSSVTPAASLRNFSNSNNAASKCGVDNSSFGLSSSTSSSMVEISAL 208
Cdd:COG5099  71 TSSSSSRRKP-SGSWSVAISSSTSGSQSLLMELPSSSFNPSTSSRNKSNSALSSTQQGNANSSVTLSSSTASSMFNSNKL 149
                       170       180       190       200       210       220       230       240
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6321260  209 PLRDLDYIKLATDQFgCRFLQKKLETPSESNMVRDLMYEQIKPFFLDLILDPFGNYLVQKLCDYLTAEQKTLLIQTIYPN 288
Cdd:COG5099 150 PLPNPNHSNSATTNQ-SGSSFINTPASSSSQPLTNLVVSSIKRFPYLTSLSPFFNYLIDPSSDSATASADTSPSFNPPPN 228
                       250       260       270       280       290       300       310       320
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6321260  289 VFQIsiNQYGTRSLQKIIDTVDNEVQIDLIIKGFSQEFTSIEQVVTLINDLNGNHVIQKCIFKFSPSKFGFIIDAIVEQN 368
Cdd:COG5099 229 LSPN--NLFSTSDLSPLPDTQSVENNIILNSSSSINELTSIYGSVPSIRNLRGLNSALVSFLNVSSSSLAFSALNGKEVS 306
                       330       340       350       360       370       380       390       400
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6321260  369 NIITISTHKhGCCVLQKLLSVCTLQQIFKISVKIVQFLPGLINDQFGNYIIQFLLDIKELdfyLLAELFNRLSNELCQLS 448
Cdd:COG5099 307 PTGSPSTRS-FARVLPKSSPNNLLTEILTTGVNPPQSLPSLLNPVFLSTSTGFSLTNLSG---YLNPNKNLKKNTLSSLS 382
                       410       420       430       440       450       460       470       480
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6321260  449 CLKFSSNVVEKFIKKLFRIITGFIVNNNGGASQRTAVASDDVINASMNILLTTIDIFTVNLNVLIRDNFGNYALQTLLDV 528
Cdd:COG5099 383 NLGYSSNVPSPSSSESTRNILGNISPNFKTSSNLTNLNSLLKEKLSNSSSVSATDILGPSIIVSCKDQHGSRFLQKLLDS 462
                       490       500       510       520       530       540       550       560
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6321260  529 kNYSPLLAYNKNSNAIGQNSSSTLNYGNFCNDFSLKIGNLIVLTKELLPSIKTTSYAKKIKLKVKAYAEATGIPFTDISP 608
Cdd:COG5099 463 -NSSPEIEVIFNEILDQLVELSSDYFGNYLIQKLFEYGSEIQKSIMLSKSSKHLVSLSVHKYGTRVLQKAIDIVSTDIQI 541
                       570       580       590       600       610       620       630       640
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6321260  609 --QVTAMSHNNLQTINNENKNPHNK-NSHNHNHNHNHNHAHNNNNNNNQKSHTRHFSLPANAYHRRSNSSVTNNFSNQYA 685
Cdd:COG5099 542 slLVEELRPYCLQLIKDQNGNHVIQkCIEKFNKEKNQFIFDSINENLYDLSTHRYGSRVVQRCLENCNSEDKENLVEEII 621
                       650       660       670       680       690       700       710       720
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6321260  686 QDQKIHSPQQIMNFNQNAYPSMGAPSFNSQTNPPLVsHNSLQNFDNRQFANLMAHPNSAAPIHSFSSSNITNVNPNvsRG 765
Cdd:COG5099 622 SNSKYLSQDQYGNYVVQHILDNGAEPNKERIIIKLL-SKRVVELSTHKFASNVVEKCIKYASDSFKRSRILNELTN--RG 698
                       730       740       750       760       770       780       790       800
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6321260  766 FKQPGFMMNETDKINANHFSPYSNANSQNFNESFVPRMQYQTEGANWDsslSMKSQHIGQGPYNQVNMSRNaSISNMPAM 845
Cdd:COG5099 699 IEKPGFLMLILDDQYANYVIQYLLDVSPEIQRSLLARAIKKVIPSLKK---SMYGQHILALLEKVGSSSQS-SISNKECM 774

                ...
gi 6321260  846 NTA 848
Cdd:COG5099 775 NTS 777
Pumilio cd07920
Pumilio-family RNA binding domain; Puf repeats (also labelled PUM-HD or Pumilio homology ...
207-554 1.07e-106

Pumilio-family RNA binding domain; Puf repeats (also labelled PUM-HD or Pumilio homology domain) mediate sequence specific RNA binding in fly Pumilio, worm FBF-1 and FBF-2, and many other proteins such as vertebrate Pumilio. These proteins function as translational repressors in early embryonic development by binding to sequences in the 3' UTR of target mRNAs, such as 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. Yeast PUF1 (JSN1), for instance, appears to contain a single RNA-recognition motif (RRM) domain. Puf repeat proteins have been observed to function asymmetrically and may be responsible for creating protein gradients involved in the specification of cell fate and differentiation. Puf domains usually occur as a tandem repeat of 8 domains. This model encompasses all 8 tandem repeats. Some proteins may have fewer (canonical) repeats.


Pssm-ID: 153420 [Multi-domain]  Cd Length: 322  Bit Score: 331.48  E-value: 1.07e-106
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6321260  207 ALPLRDL---DYIKLATDQFGCRFLQKKLETPSESNmvRDLMYEQIKPFFLDLILDPFGNYLVQKLCDYLTAEQKTLLIQ 283
Cdd:cd07920   1 SLTLQDIkagHIVEFAKDQHGSRFLQQKLEEATPEE--KELIFDEILPHVVELMVDPFGNYVIQKLFEHGTEEQRLQLLE 78
                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6321260  284 TIYPNVFQISINQYGTRSLQKIIDTVDNEvQIDLIIKGFSqeftsiEQVVTLINDLNGNHVIQKCIFKFSPSKFGFIIDA 363
Cdd:cd07920  79 KILGHVVRLSLDMYGCRVIQKLLESISEE-QISLLVKELR------GHVVELVKDQNGNHVIQKCIEKFPPEDLQFIIDA 151
                       170       180       190       200       210       220       230       240
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6321260  364 IVEqnNIITISTHKHGCCVLQKLLSVCTLQQIFKISVKIVQFLPGLINDQFGNYIIQFLLDIKELDFylLAELFNRLSNE 443
Cdd:cd07920 152 FKG--NCVALSTHPYGCRVIQRCLEHCSEEQREPLLEEILEHALELVQDQFGNYVVQHVLELGDPDD--TSRIIEKLLGN 227
                       250       260       270       280       290       300       310       320
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6321260  444 LCQLSCLKFSSNVVEKFIKK-----LFRIITGFIVNNNGgasqrtavasddvinasmnillttidifTVNLNVLIRDNFG 518
Cdd:cd07920 228 IVQLSCHKFASNVVEKCLKHaskeeRELIIDEILASGNE----------------------------TSALDTLMKDQYG 279
                       330       340       350
                ....*....|....*....|....*....|....*.
gi 6321260  519 NYALQTLLDVknySPLLAYNKNSNAIGQNSSSTLNY 554
Cdd:cd07920 280 NYVIQTALDV---AKEEQRELLVEAIRPHLPSLRKS 312
Pumilio cd07920
Pumilio-family RNA binding domain; Puf repeats (also labelled PUM-HD or Pumilio homology ...
214-305 4.60e-08

Pumilio-family RNA binding domain; Puf repeats (also labelled PUM-HD or Pumilio homology domain) mediate sequence specific RNA binding in fly Pumilio, worm FBF-1 and FBF-2, and many other proteins such as vertebrate Pumilio. These proteins function as translational repressors in early embryonic development by binding to sequences in the 3' UTR of target mRNAs, such as 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. Yeast PUF1 (JSN1), for instance, appears to contain a single RNA-recognition motif (RRM) domain. Puf repeat proteins have been observed to function asymmetrically and may be responsible for creating protein gradients involved in the specification of cell fate and differentiation. Puf domains usually occur as a tandem repeat of 8 domains. This model encompasses all 8 tandem repeats. Some proteins may have fewer (canonical) repeats.


Pssm-ID: 153420 [Multi-domain]  Cd Length: 322  Bit Score: 55.68  E-value: 4.60e-08
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6321260  214 DYIKLATDQFGCRFLQKKLE--TPSESNM--VRDLMYEQIKPFFLDLILDPFGNYLVQKLCDYLTAEQKTLLIQTIYPNV 289
Cdd:cd07920 227 NIVQLSCHKFASNVVEKCLKhaSKEERELiiDEILASGNETSALDTLMKDQYGNYVIQTALDVAKEEQRELLVEAIRPHL 306
                        90
                ....*....|....*.
gi 6321260  290 FQISINQYGTRSLQKI 305
Cdd:cd07920 307 PSLRKSPYGKHILAKL 322
PUF pfam00806
Pumilio-family RNA binding repeat; Puf repeats (aka PUM-HD, Pumilio homology domain) are ...
369-398 6.16e-08

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: 49.22  E-value: 6.16e-08
                          10        20        30
                  ....*....|....*....|....*....|
gi 6321260    369 NIITISTHKHGCCVLQKLLSVCTLQQIFKI 398
Cdd:pfam00806   1 HVVELATDQYGCRVIQKCLEHATEEQREQI 30
Pumilio smart00025
Pumilio-like repeats; Pumilio-like repeats that bind RNA.
249-283 6.07e-06

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


Pssm-ID: 214475 [Multi-domain]  Cd Length: 36  Bit Score: 43.58  E-value: 6.07e-06
                           10        20        30
                   ....*....|....*....|....*....|....*
gi 6321260     249 IKPFFLDLILDPFGNYLVQKLCDYLTAEQKTLLIQ 283
Cdd:smart00025   2 IKGHLLELSKDQYGNRVVQKLLEHASESQREQIID 36
Pumilio smart00025
Pumilio-like repeats; Pumilio-like repeats that bind RNA.
327-362 5.53e-05

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


Pssm-ID: 214475 [Multi-domain]  Cd Length: 36  Bit Score: 40.88  E-value: 5.53e-05
                           10        20        30
                   ....*....|....*....|....*....|....*.
gi 6321260     327 TSIEQVVTLINDLNGNHVIQKCIFKFSPSKFGFIID 362
Cdd:smart00025   1 LIKGHLLELSKDQYGNRVVQKLLEHASESQREQIID 36
PUF pfam00806
Pumilio-family RNA binding repeat; Puf repeats (aka PUM-HD, Pumilio homology domain) are ...
215-249 6.30e-05

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: 40.75  E-value: 6.30e-05
                          10        20        30
                  ....*....|....*....|....*....|....*
gi 6321260    215 YIKLATDQFGCRFLQKKLETPSESNmvRDLMYEQI 249
Cdd:pfam00806   2 VVELATDQYGCRVIQKCLEHATEEQ--REQILDEI 34
Pumilio smart00025
Pumilio-like repeats; Pumilio-like repeats that bind RNA.
368-398 6.79e-05

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


Pssm-ID: 214475 [Multi-domain]  Cd Length: 36  Bit Score: 40.50  E-value: 6.79e-05
                           10        20        30
                   ....*....|....*....|....*....|.
gi 6321260     368 NNIITISTHKHGCCVLQKLLSVCTLQQIFKI 398
Cdd:smart00025   4 GHLLELSKDQYGNRVVQKLLEHASESQREQI 34
PUF pfam00806
Pumilio-family RNA binding repeat; Puf repeats (aka PUM-HD, Pumilio homology domain) are ...
253-285 2.20e-04

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: 39.21  E-value: 2.20e-04
                          10        20        30
                  ....*....|....*....|....*....|...
gi 6321260    253 FLDLILDPFGNYLVQKLCDYLTAEQKTLLIQTI 285
Cdd:pfam00806   2 VVELATDQYGCRVIQKCLEHATEEQREQILDEI 34
PUF pfam00806
Pumilio-family RNA binding repeat; Puf repeats (aka PUM-HD, Pumilio homology domain) are ...
288-320 1.29e-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: 36.89  E-value: 1.29e-03
                          10        20        30
                  ....*....|....*....|....*....|...
gi 6321260    288 NVFQISINQYGTRSLQKIIDTVDNEvQIDLIIK 320
Cdd:pfam00806   1 HVVELATDQYGCRVIQKCLEHATEE-QREQILD 32
PUF pfam00806
Pumilio-family RNA binding repeat; Puf repeats (aka PUM-HD, Pumilio homology domain) are ...
331-364 5.92e-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: 34.97  E-value: 5.92e-03
                          10        20        30
                  ....*....|....*....|....*....|....
gi 6321260    331 QVVTLINDLNGNHVIQKCIFKFSPSKFGFIIDAI 364
Cdd:pfam00806   1 HVVELATDQYGCRVIQKCLEHATEEQREQILDEI 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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