NCBI Home Page NCBI Site Search page NCBI Guide that lists and describes the NCBI resources
Conserved domains on  [gi|1063712711|ref|NP_001327305|]
View 

pumilio 5 [Arabidopsis thaliana]

Protein Classification

pumilio/puf RNA-binding domain-containing protein( domain architecture ID 13417614)

pumilio/puf RNA-binding domain-containing protein family members are identified by the presence of eight tandem copies of an imperfectly repeated, 36 amino acid sequence motif, the PUM repeat, and contain evolutionarily conserved sequences that are amino- and carboxy-terminal to the repeated region of the protein. The eight repeats, together with the terminal conserved sequences, form a sequence-specific RNA binding domain.

Graphical summary

 Zoom to residue level

show extra options »

Show site features     Horizontal zoom: ×

List of domain hits

 Name Accession Description Interval E-value
Pumilio cd07920
Pumilio-family RNA binding domain; Puf repeats (also labelled PUM-HD or Pumilio homology ...
 611-931 9.37e-162

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: 476.70  E-value: 9.37e-162
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063712711 611 KLELSDIA-GRVVEFSVDQHGSRFIQQKLEHCSDEEKASVFSEVLPQASKLMTDVFGNYVIQKFIEHGTPAQREELVKQL 689
Cdd:cd07920     1 SLTLQDIKaGHIVEFAKDQHGSRFLQQKLEEATPEEKELIFDEILPHVVELMVDPFGNYVIQKLFEHGTEEQRLQLLEKI 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063712711 690 AGQMVSLSLQMYGCRVIQKALEVIDVDQKTELIRELDGNVLKCVRDQNGNHVIQKCIESMPAGRIGFVIAAFRGQVATLS 769
Cdd:cd07920    81 LGHVVRLSLDMYGCRVIQKLLESISEEQISLLVKELRGHVVELVKDQNGNHVIQKCIEKFPPEDLQFIIDAFKGNCVALS 160

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063712711 770 THPYGCRVIQRILEHCSdDEETHCIIDEILESAFALAHDQYGNYVTQHVLERGKPDERRQIIEKLTGNVVQMSQHKYASN 849
Cdd:cd07920   161 THPYGCRVIQRCLEHCS-EEQREPLLEEILEHALELVQDQFGNYVVQHVLELGDPDDTSRIIEKLLGNIVQLSCHKFASN 239

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063712711 850 VVEKCLEHADSTEREFLIEEIMGKSEEDNHLLAMMKDQFANYVVQKVLEISKDQQREILVQRMKIHLQSLRKYTYGKHIV 929
Cdd:cd07920   240 VVEKCLKHASKEERELIIDEILASGNETSALDTLMKDQYGNYVIQTALDVAKEEQRELLVEAIRPHLPSLRKSPYGKHIL 319


                  ..
gi 1063712711 930 AR 931
Cdd:cd07920   320 AK 321
COG5099 super family cl34901
RNA-binding protein of the Puf family, translational repressor [Translation, ribosomal ...
 194-935 2.45e-91

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: 307.44  E-value: 2.45e-91
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063712711 194 IADMIQRPHSAGNRPIAQDI----HAISSDTSSEHARR------LPESDINSVNLLRetdsLSSDAIASEDPFTTDLASQ 263
Cdd:COG5099    14 KSQLHHSKKSPPSSTTSQELmngnSTPNSFSPIPSKASssatftLNLPINNSVNHKI----TSSSSSRRKPSGSWSVAIS 89

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063712711 264 SFTNAQTERLNARQASHEDNnlsvfgasppssvaSRMRRNQEDqqsqgrrmpPQYTPSSYQVQASSPQQMSYPriggTQD 343
Cdd:COG5099    90 SSTSGSQSLLMELPSSSFNP--------------STSSRNKSN---------SALSSTQQGNANSSVTLSSST----ASS 142

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063712711 344 MM-----------------QSLPKIATGEVHSTFQSPHGLAPPPMYTSTAAYMTSLSPFYHQNFQSSGMFV----PQYNY 402
Cdd:COG5099   143 MFnsnklplpnpnhsnsatTNQSGSSFINTPASSSSQPLTNLVVSSIKRFPYLTSLSPFFNYLIDPSSDSAtasaDTSPS 222

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063712711 403 GGYPPA----SGIVPQYMSGYPsHEATVPMpYDISSTSSGYNNPRLLPGVSSSGQNipslvdpfqLQYFQQAQVDAYAPP 478
Cdd:COG5099   223 FNPPPNlspnNLFSTSDLSPLP-DTQSVEN-NIILNSSSSINELTSIYGSVPSIRN---------LRGLNSALVSFLNVS 291

                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063712711 479 FQSST-DSFGQKDQQAVGY---MANHEPLNSPLSPGYgLQSPRHMGNYfavppgvrvmPQYPGSPLASPVMPSSPVGGMM 554
Cdd:COG5099   292 SSSLAfSALNGKEVSPTGSpstRSFARVLPKSSPNNL-LTEILTTGVN----------PPQSLPSLLNPVFLSTSTGFSL 360

                         410       420       430       440       450       460       470       480
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063712711 555 ---SHFGRRSETRYHQQGPSRNTGIY------PGGWQGNRGGASSIVDDLKRHSFLDELKSPNARKLE------LSDIAG 619
Cdd:COG5099   361 tnlSGYLNPNKNLKKNTLSSLSNLGYssnvpsPSSSESTRNILGNISPNFKTSSNLTNLNSLLKEKLSnsssvsATDILG 440

                         490       500       510       520       530       540       550       560
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063712711 620 RVVEFSV-DQHGSRFIQQKLEHCSDEEKASVFSEVLPQASKLMTDVFGNYVIQKFIEHGTPAQREELVKQLAGQMVSLSL 698
Cdd:COG5099   441 PSIIVSCkDQHGSRFLQKLLDSNSSPEIEVIFNEILDQLVELSSDYFGNYLIQKLFEYGSEIQKSIMLSKSSKHLVSLSV 520

                         570       580       590       600       610       620       630       640
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063712711 699 QMYGCRVIQKALEVI-DVDQKTELIRELDGNVLKCVRDQNGNHVIQKCIESMPAGRIGFVIAAFRGQVATLSTHPYGCRV 777
Cdd:COG5099   521 HKYGTRVLQKAIDIVsTDIQISLLVEELRPYCLQLIKDQNGNHVIQKCIEKFNKEKNQFIFDSINENLYDLSTHRYGSRV 600

                         650       660       670       680       690       700       710       720
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063712711 778 IQRILEHCSDDEETHCiIDEILESAFALAHDQYGNYVTQHVLERGKPDERRQIIEK-LTGNVVQMSQHKYASNVVEKCLE 856
Cdd:COG5099   601 VQRCLENCNSEDKENL-VEEIISNSKYLSQDQYGNYVVQHILDNGAEPNKERIIIKlLSKRVVELSTHKFASNVVEKCIK 679

                         730       740       750       760       770       780       790       800
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063712711 857 HA-DSTEREFLIEEIM-GKSEEDNHLLAMMKDQFANYVVQKVLEISKDQQREILVQRMKIHLQSLRKYTYGKHIVARFEQ 934
Cdd:COG5099   680 YAsDSFKRSRILNELTnRGIEKPGFLMLILDDQYANYVIQYLLDVSPEIQRSLLARAIKKVIPSLKKSMYGQHILALLEK 759


                  .
gi 1063712711 935 L 935
Cdd:COG5099   760 V 760
 
Name Accession Description Interval E-value
Pumilio cd07920
Pumilio-family RNA binding domain; Puf repeats (also labelled PUM-HD or Pumilio homology ...
 611-931 9.37e-162

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: 476.70  E-value: 9.37e-162
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063712711 611 KLELSDIA-GRVVEFSVDQHGSRFIQQKLEHCSDEEKASVFSEVLPQASKLMTDVFGNYVIQKFIEHGTPAQREELVKQL 689
Cdd:cd07920     1 SLTLQDIKaGHIVEFAKDQHGSRFLQQKLEEATPEEKELIFDEILPHVVELMVDPFGNYVIQKLFEHGTEEQRLQLLEKI 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063712711 690 AGQMVSLSLQMYGCRVIQKALEVIDVDQKTELIRELDGNVLKCVRDQNGNHVIQKCIESMPAGRIGFVIAAFRGQVATLS 769
Cdd:cd07920    81 LGHVVRLSLDMYGCRVIQKLLESISEEQISLLVKELRGHVVELVKDQNGNHVIQKCIEKFPPEDLQFIIDAFKGNCVALS 160

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063712711 770 THPYGCRVIQRILEHCSdDEETHCIIDEILESAFALAHDQYGNYVTQHVLERGKPDERRQIIEKLTGNVVQMSQHKYASN 849
Cdd:cd07920   161 THPYGCRVIQRCLEHCS-EEQREPLLEEILEHALELVQDQFGNYVVQHVLELGDPDDTSRIIEKLLGNIVQLSCHKFASN 239

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063712711 850 VVEKCLEHADSTEREFLIEEIMGKSEEDNHLLAMMKDQFANYVVQKVLEISKDQQREILVQRMKIHLQSLRKYTYGKHIV 929
Cdd:cd07920   240 VVEKCLKHASKEERELIIDEILASGNETSALDTLMKDQYGNYVIQTALDVAKEEQRELLVEAIRPHLPSLRKSPYGKHIL 319


                  ..
gi 1063712711 930 AR 931
Cdd:cd07920   320 AK 321
COG5099 COG5099
RNA-binding protein of the Puf family, translational repressor [Translation, ribosomal ...
 194-935 2.45e-91

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


Pssm-ID: 227430 [Multi-domain]  Cd Length: 777  Bit Score: 307.44  E-value: 2.45e-91
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063712711 194 IADMIQRPHSAGNRPIAQDI----HAISSDTSSEHARR------LPESDINSVNLLRetdsLSSDAIASEDPFTTDLASQ 263
Cdd:COG5099    14 KSQLHHSKKSPPSSTTSQELmngnSTPNSFSPIPSKASssatftLNLPINNSVNHKI----TSSSSSRRKPSGSWSVAIS 89

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063712711 264 SFTNAQTERLNARQASHEDNnlsvfgasppssvaSRMRRNQEDqqsqgrrmpPQYTPSSYQVQASSPQQMSYPriggTQD 343
Cdd:COG5099    90 SSTSGSQSLLMELPSSSFNP--------------STSSRNKSN---------SALSSTQQGNANSSVTLSSST----ASS 142

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063712711 344 MM-----------------QSLPKIATGEVHSTFQSPHGLAPPPMYTSTAAYMTSLSPFYHQNFQSSGMFV----PQYNY 402
Cdd:COG5099   143 MFnsnklplpnpnhsnsatTNQSGSSFINTPASSSSQPLTNLVVSSIKRFPYLTSLSPFFNYLIDPSSDSAtasaDTSPS 222

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063712711 403 GGYPPA----SGIVPQYMSGYPsHEATVPMpYDISSTSSGYNNPRLLPGVSSSGQNipslvdpfqLQYFQQAQVDAYAPP 478
Cdd:COG5099   223 FNPPPNlspnNLFSTSDLSPLP-DTQSVEN-NIILNSSSSINELTSIYGSVPSIRN---------LRGLNSALVSFLNVS 291

                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063712711 479 FQSST-DSFGQKDQQAVGY---MANHEPLNSPLSPGYgLQSPRHMGNYfavppgvrvmPQYPGSPLASPVMPSSPVGGMM 554
Cdd:COG5099   292 SSSLAfSALNGKEVSPTGSpstRSFARVLPKSSPNNL-LTEILTTGVN----------PPQSLPSLLNPVFLSTSTGFSL 360

                         410       420       430       440       450       460       470       480
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063712711 555 ---SHFGRRSETRYHQQGPSRNTGIY------PGGWQGNRGGASSIVDDLKRHSFLDELKSPNARKLE------LSDIAG 619
Cdd:COG5099   361 tnlSGYLNPNKNLKKNTLSSLSNLGYssnvpsPSSSESTRNILGNISPNFKTSSNLTNLNSLLKEKLSnsssvsATDILG 440

                         490       500       510       520       530       540       550       560
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063712711 620 RVVEFSV-DQHGSRFIQQKLEHCSDEEKASVFSEVLPQASKLMTDVFGNYVIQKFIEHGTPAQREELVKQLAGQMVSLSL 698
Cdd:COG5099   441 PSIIVSCkDQHGSRFLQKLLDSNSSPEIEVIFNEILDQLVELSSDYFGNYLIQKLFEYGSEIQKSIMLSKSSKHLVSLSV 520

                         570       580       590       600       610       620       630       640
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063712711 699 QMYGCRVIQKALEVI-DVDQKTELIRELDGNVLKCVRDQNGNHVIQKCIESMPAGRIGFVIAAFRGQVATLSTHPYGCRV 777
Cdd:COG5099   521 HKYGTRVLQKAIDIVsTDIQISLLVEELRPYCLQLIKDQNGNHVIQKCIEKFNKEKNQFIFDSINENLYDLSTHRYGSRV 600

                         650       660       670       680       690       700       710       720
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063712711 778 IQRILEHCSDDEETHCiIDEILESAFALAHDQYGNYVTQHVLERGKPDERRQIIEK-LTGNVVQMSQHKYASNVVEKCLE 856
Cdd:COG5099   601 VQRCLENCNSEDKENL-VEEIISNSKYLSQDQYGNYVVQHILDNGAEPNKERIIIKlLSKRVVELSTHKFASNVVEKCIK 679

                         730       740       750       760       770       780       790       800
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063712711 857 HA-DSTEREFLIEEIM-GKSEEDNHLLAMMKDQFANYVVQKVLEISKDQQREILVQRMKIHLQSLRKYTYGKHIVARFEQ 934
Cdd:COG5099   680 YAsDSFKRSRILNELTnRGIEKPGFLMLILDDQYANYVIQYLLDVSPEIQRSLLARAIKKVIPSLKKSMYGQHILALLEK 759


                  .
gi 1063712711 935 L 935
Cdd:COG5099   760 V 760
PUF pfam00806
Pumilio-family RNA binding repeat; Puf repeats (aka PUM-HD, Pumilio homology domain) are ...
 764-799 5.43e-12

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: 60.78  E-value: 5.43e-12
                          10        20        30
                  ....*....|....*....|....*....|....*.
gi 1063712711 764 QVATLSTHPYGCRVIQRILEHCSdDEETHCIIDEIL 799
Cdd:pfam00806   1 HVVELATDQYGCRVIQKCLEHAT-EEQREQILDEIL 35
NABP pfam07990
Nucleic acid binding protein NABP; Many members of this family are putative nucleic acid ...
 383-615 1.93e-09

Nucleic acid binding protein NABP; Many members of this family are putative nucleic acid binding proteins. One member of this family has been partially characterized and contains two putative phosphorylation sites and a possible dimerization / leucine zipper domain.


Pssm-ID: 400378  Cd Length: 387  Bit Score: 60.55  E-value: 1.93e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063712711 383 SPFYHQNFQSSGMFVPQYNYGGYPpasgIVPQYMSGYPSHEATVPMPydiSSTSSGYNNPRLLPGVSSSGQNipSLVDPF 462
Cdd:pfam07990 159 SPSLYQNADSPNIDFSNYGLSGYS----SNPGLPSMMNNHLGLSSGP---AGNSDGQNLNRLGNQVGSGLQS--PFMDPM 229

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063712711 463 QLQYFQQAqVDAYAPPFQSSTDSFGQKDQQAVGYM-------ANHEPLNSPLSPGYGL------QSPRHmgNYFAVPPGV 529
Cdd:pfam07990 230 YLQYLQRT-SDYAAHQAASLNDPSMGRNYMGSSYMdllglqkAYLGALLAQQKSQYGVpllgksGGLNH--GYYGNPAFG 306

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063712711 530 RVMPqYPGSPLASPVMPSSPVGGmMSHFgRRSETRYHQQGPSRN-TGIYPGGWQGNRGGAssiVDDLKRHSFLDELKSPN 608
Cdd:pfam07990 307 LGMP-YPGSPLASPVLPSSPVGS-GSPV-RQGERNMRFPSGMRNsTGGVMGSWHSDNGGN---MEEGFASSLLEEFKSNK 380


                  ....*..
gi 1063712711 609 ARKLELS 615
Cdd:pfam07990 381 TRSFELS 387
Pumilio smart00025
Pumilio-like repeats; Pumilio-like repeats that bind RNA.
 833-868 2.03e-08

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


Pssm-ID: 214475 [Multi-domain]  Cd Length: 36  Bit Score: 50.90  E-value: 2.03e-08
                           10        20        30
                   ....*....|....*....|....*....|....*.
gi 1063712711  833 KLTGNVVQMSQHKYASNVVEKCLEHADSTEREFLIE 868
Cdd:smart00025   1 LIKGHLLELSKDQYGNRVVQKLLEHASESQREQIID 36
 
Name Accession Description Interval E-value
Pumilio cd07920
Pumilio-family RNA binding domain; Puf repeats (also labelled PUM-HD or Pumilio homology ...
 611-931 9.37e-162

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: 476.70  E-value: 9.37e-162
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063712711 611 KLELSDIA-GRVVEFSVDQHGSRFIQQKLEHCSDEEKASVFSEVLPQASKLMTDVFGNYVIQKFIEHGTPAQREELVKQL 689
Cdd:cd07920     1 SLTLQDIKaGHIVEFAKDQHGSRFLQQKLEEATPEEKELIFDEILPHVVELMVDPFGNYVIQKLFEHGTEEQRLQLLEKI 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063712711 690 AGQMVSLSLQMYGCRVIQKALEVIDVDQKTELIRELDGNVLKCVRDQNGNHVIQKCIESMPAGRIGFVIAAFRGQVATLS 769
Cdd:cd07920    81 LGHVVRLSLDMYGCRVIQKLLESISEEQISLLVKELRGHVVELVKDQNGNHVIQKCIEKFPPEDLQFIIDAFKGNCVALS 160

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063712711 770 THPYGCRVIQRILEHCSdDEETHCIIDEILESAFALAHDQYGNYVTQHVLERGKPDERRQIIEKLTGNVVQMSQHKYASN 849
Cdd:cd07920   161 THPYGCRVIQRCLEHCS-EEQREPLLEEILEHALELVQDQFGNYVVQHVLELGDPDDTSRIIEKLLGNIVQLSCHKFASN 239

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063712711 850 VVEKCLEHADSTEREFLIEEIMGKSEEDNHLLAMMKDQFANYVVQKVLEISKDQQREILVQRMKIHLQSLRKYTYGKHIV 929
Cdd:cd07920   240 VVEKCLKHASKEERELIIDEILASGNETSALDTLMKDQYGNYVIQTALDVAKEEQRELLVEAIRPHLPSLRKSPYGKHIL 319


                  ..
gi 1063712711 930 AR 931
Cdd:cd07920   320 AK 321
COG5099 COG5099
RNA-binding protein of the Puf family, translational repressor [Translation, ribosomal ...
 194-935 2.45e-91

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


Pssm-ID: 227430 [Multi-domain]  Cd Length: 777  Bit Score: 307.44  E-value: 2.45e-91
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063712711 194 IADMIQRPHSAGNRPIAQDI----HAISSDTSSEHARR------LPESDINSVNLLRetdsLSSDAIASEDPFTTDLASQ 263
Cdd:COG5099    14 KSQLHHSKKSPPSSTTSQELmngnSTPNSFSPIPSKASssatftLNLPINNSVNHKI----TSSSSSRRKPSGSWSVAIS 89

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063712711 264 SFTNAQTERLNARQASHEDNnlsvfgasppssvaSRMRRNQEDqqsqgrrmpPQYTPSSYQVQASSPQQMSYPriggTQD 343
Cdd:COG5099    90 SSTSGSQSLLMELPSSSFNP--------------STSSRNKSN---------SALSSTQQGNANSSVTLSSST----ASS 142

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063712711 344 MM-----------------QSLPKIATGEVHSTFQSPHGLAPPPMYTSTAAYMTSLSPFYHQNFQSSGMFV----PQYNY 402
Cdd:COG5099   143 MFnsnklplpnpnhsnsatTNQSGSSFINTPASSSSQPLTNLVVSSIKRFPYLTSLSPFFNYLIDPSSDSAtasaDTSPS 222

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063712711 403 GGYPPA----SGIVPQYMSGYPsHEATVPMpYDISSTSSGYNNPRLLPGVSSSGQNipslvdpfqLQYFQQAQVDAYAPP 478
Cdd:COG5099   223 FNPPPNlspnNLFSTSDLSPLP-DTQSVEN-NIILNSSSSINELTSIYGSVPSIRN---------LRGLNSALVSFLNVS 291

                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063712711 479 FQSST-DSFGQKDQQAVGY---MANHEPLNSPLSPGYgLQSPRHMGNYfavppgvrvmPQYPGSPLASPVMPSSPVGGMM 554
Cdd:COG5099   292 SSSLAfSALNGKEVSPTGSpstRSFARVLPKSSPNNL-LTEILTTGVN----------PPQSLPSLLNPVFLSTSTGFSL 360

                         410       420       430       440       450       460       470       480
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063712711 555 ---SHFGRRSETRYHQQGPSRNTGIY------PGGWQGNRGGASSIVDDLKRHSFLDELKSPNARKLE------LSDIAG 619
Cdd:COG5099   361 tnlSGYLNPNKNLKKNTLSSLSNLGYssnvpsPSSSESTRNILGNISPNFKTSSNLTNLNSLLKEKLSnsssvsATDILG 440

                         490       500       510       520       530       540       550       560
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063712711 620 RVVEFSV-DQHGSRFIQQKLEHCSDEEKASVFSEVLPQASKLMTDVFGNYVIQKFIEHGTPAQREELVKQLAGQMVSLSL 698
Cdd:COG5099   441 PSIIVSCkDQHGSRFLQKLLDSNSSPEIEVIFNEILDQLVELSSDYFGNYLIQKLFEYGSEIQKSIMLSKSSKHLVSLSV 520

                         570       580       590       600       610       620       630       640
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063712711 699 QMYGCRVIQKALEVI-DVDQKTELIRELDGNVLKCVRDQNGNHVIQKCIESMPAGRIGFVIAAFRGQVATLSTHPYGCRV 777
Cdd:COG5099   521 HKYGTRVLQKAIDIVsTDIQISLLVEELRPYCLQLIKDQNGNHVIQKCIEKFNKEKNQFIFDSINENLYDLSTHRYGSRV 600

                         650       660       670       680       690       700       710       720
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063712711 778 IQRILEHCSDDEETHCiIDEILESAFALAHDQYGNYVTQHVLERGKPDERRQIIEK-LTGNVVQMSQHKYASNVVEKCLE 856
Cdd:COG5099   601 VQRCLENCNSEDKENL-VEEIISNSKYLSQDQYGNYVVQHILDNGAEPNKERIIIKlLSKRVVELSTHKFASNVVEKCIK 679

                         730       740       750       760       770       780       790       800
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063712711 857 HA-DSTEREFLIEEIM-GKSEEDNHLLAMMKDQFANYVVQKVLEISKDQQREILVQRMKIHLQSLRKYTYGKHIVARFEQ 934
Cdd:COG5099   680 YAsDSFKRSRILNELTnRGIEKPGFLMLILDDQYANYVIQYLLDVSPEIQRSLLARAIKKVIPSLKKSMYGQHILALLEK 759


                  .
gi 1063712711 935 L 935
Cdd:COG5099   760 V 760
PUF pfam00806
Pumilio-family RNA binding repeat; Puf repeats (aka PUM-HD, Pumilio homology domain) are ...
 764-799 5.43e-12

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: 60.78  E-value: 5.43e-12
                          10        20        30
                  ....*....|....*....|....*....|....*.
gi 1063712711 764 QVATLSTHPYGCRVIQRILEHCSdDEETHCIIDEIL 799
Cdd:pfam00806   1 HVVELATDQYGCRVIQKCLEHAT-EEQREQILDEIL 35
PUF pfam00806
Pumilio-family RNA binding repeat; Puf repeats (aka PUM-HD, Pumilio homology domain) are ...
 620-654 5.60e-11

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: 58.08  E-value: 5.60e-11
                          10        20        30
                  ....*....|....*....|....*....|....*
gi 1063712711 620 RVVEFSVDQHGSRFIQQKLEHCSDEEKASVFSEVL 654
Cdd:pfam00806   1 HVVELATDQYGCRVIQKCLEHATEEQREQILDEIL 35
PUF pfam00806
Pumilio-family RNA binding repeat; Puf repeats (aka PUM-HD, Pumilio homology domain) are ...
 837-871 2.95e-10

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: 55.77  E-value: 2.95e-10
                          10        20        30
                  ....*....|....*....|....*....|....*
gi 1063712711 837 NVVQMSQHKYASNVVEKCLEHADSTEREFLIEEIM 871
Cdd:pfam00806   1 HVVELATDQYGCRVIQKCLEHATEEQREQILDEIL 35
NABP pfam07990
Nucleic acid binding protein NABP; Many members of this family are putative nucleic acid ...
 383-615 1.93e-09

Nucleic acid binding protein NABP; Many members of this family are putative nucleic acid binding proteins. One member of this family has been partially characterized and contains two putative phosphorylation sites and a possible dimerization / leucine zipper domain.


Pssm-ID: 400378  Cd Length: 387  Bit Score: 60.55  E-value: 1.93e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063712711 383 SPFYHQNFQSSGMFVPQYNYGGYPpasgIVPQYMSGYPSHEATVPMPydiSSTSSGYNNPRLLPGVSSSGQNipSLVDPF 462
Cdd:pfam07990 159 SPSLYQNADSPNIDFSNYGLSGYS----SNPGLPSMMNNHLGLSSGP---AGNSDGQNLNRLGNQVGSGLQS--PFMDPM 229

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063712711 463 QLQYFQQAqVDAYAPPFQSSTDSFGQKDQQAVGYM-------ANHEPLNSPLSPGYGL------QSPRHmgNYFAVPPGV 529
Cdd:pfam07990 230 YLQYLQRT-SDYAAHQAASLNDPSMGRNYMGSSYMdllglqkAYLGALLAQQKSQYGVpllgksGGLNH--GYYGNPAFG 306

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063712711 530 RVMPqYPGSPLASPVMPSSPVGGmMSHFgRRSETRYHQQGPSRN-TGIYPGGWQGNRGGAssiVDDLKRHSFLDELKSPN 608
Cdd:pfam07990 307 LGMP-YPGSPLASPVLPSSPVGS-GSPV-RQGERNMRFPSGMRNsTGGVMGSWHSDNGGN---MEEGFASSLLEEFKSNK 380


                  ....*..
gi 1063712711 609 ARKLELS 615
Cdd:pfam07990 381 TRSFELS 387
Pumilio smart00025
Pumilio-like repeats; Pumilio-like repeats that bind RNA.
 833-868 2.03e-08

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


Pssm-ID: 214475 [Multi-domain]  Cd Length: 36  Bit Score: 50.90  E-value: 2.03e-08
                           10        20        30
                   ....*....|....*....|....*....|....*.
gi 1063712711  833 KLTGNVVQMSQHKYASNVVEKCLEHADSTEREFLIE 868
Cdd:smart00025   1 LIKGHLLELSKDQYGNRVVQKLLEHASESQREQIID 36
Pumilio smart00025
Pumilio-like repeats; Pumilio-like repeats that bind RNA.
 652-687 2.26e-08

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


Pssm-ID: 214475 [Multi-domain]  Cd Length: 36  Bit Score: 50.51  E-value: 2.26e-08
                           10        20        30
                   ....*....|....*....|....*....|....*.
gi 1063712711  652 EVLPQASKLMTDVFGNYVIQKFIEHGTPAQREELVK 687
Cdd:smart00025   1 LIKGHLLELSKDQYGNRVVQKLLEHASESQREQIID 36
PUF pfam00806
Pumilio-family RNA binding repeat; Puf repeats (aka PUM-HD, Pumilio homology domain) are ...
 692-725 4.17e-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: 49.61  E-value: 4.17e-08
                          10        20        30
                  ....*....|....*....|....*....|....
gi 1063712711 692 QMVSLSLQMYGCRVIQKALEVIDVDQKTELIREL 725
Cdd:pfam00806   1 HVVELATDQYGCRVIQKCLEHATEEQREQILDEI 34
PUF pfam00806
Pumilio-family RNA binding repeat; Puf repeats (aka PUM-HD, Pumilio homology domain) are ...
 660-690 1.22e-07

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: 48.45  E-value: 1.22e-07
                          10        20        30
                  ....*....|....*....|....*....|.
gi 1063712711 660 LMTDVFGNYVIQKFIEHGTPAQREELVKQLA 690
Cdd:pfam00806   5 LATDQYGCRVIQKCLEHATEEQREQILDEIL 35
Pumilio smart00025
Pumilio-like repeats; Pumilio-like repeats that bind RNA.
 878-910 1.37e-07

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


Pssm-ID: 214475 [Multi-domain]  Cd Length: 36  Bit Score: 48.20  E-value: 1.37e-07
                           10        20        30
                   ....*....|....*....|....*....|...
gi 1063712711  878 NHLLAMMKDQFANYVVQKVLEISKDQQREILVQ 910
Cdd:smart00025   4 GHLLELSKDQYGNRVVQKLLEHASESQREQIID 36
PUF pfam00806
Pumilio-family RNA binding repeat; Puf repeats (aka PUM-HD, Pumilio homology domain) are ...
 803-835 2.70e-06

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: 44.60  E-value: 2.70e-06
                          10        20        30
                  ....*....|....*....|....*....|...
gi 1063712711 803 FALAHDQYGNYVTQHVLERGKPDERRQIIEKLT 835
Cdd:pfam00806   3 VELATDQYGCRVIQKCLEHATEEQREQILDEIL 35
Pumilio smart00025
Pumilio-like repeats; Pumilio-like repeats that bind RNA.
 760-800 2.91e-06

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


Pssm-ID: 214475 [Multi-domain]  Cd Length: 36  Bit Score: 44.73  E-value: 2.91e-06
                           10        20        30        40
                   ....*....|....*....|....*....|....*....|.
gi 1063712711  760 AFRGQVATLSTHPYGCRVIQRILEHCSDDEethciIDEILE 800
Cdd:smart00025   1 LIKGHLLELSKDQYGNRVVQKLLEHASESQ-----REQIID 36
PUF pfam00806
Pumilio-family RNA binding repeat; Puf repeats (aka PUM-HD, Pumilio homology domain) are ...
 879-910 5.81e-06

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: 43.83  E-value: 5.81e-06
                          10        20        30
                  ....*....|....*....|....*....|..
gi 1063712711 879 HLLAMMKDQFANYVVQKVLEISKDQQREILVQ 910
Cdd:pfam00806   1 HVVELATDQYGCRVIQKCLEHATEEQREQILD 32
Pumilio smart00025
Pumilio-like repeats; Pumilio-like repeats that bind RNA.
 691-723 7.77e-06

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


Pssm-ID: 214475 [Multi-domain]  Cd Length: 36  Bit Score: 43.58  E-value: 7.77e-06
                           10        20        30
                   ....*....|....*....|....*....|...
gi 1063712711  691 GQMVSLSLQMYGCRVIQKALEVIDVDQKTELIR 723
Cdd:smart00025   4 GHLLELSKDQYGNRVVQKLLEHASESQREQIID 36
Pumilio smart00025
Pumilio-like repeats; Pumilio-like repeats that bind RNA.
 797-832 2.40e-05

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


Pssm-ID: 214475 [Multi-domain]  Cd Length: 36  Bit Score: 42.04  E-value: 2.40e-05
                           10        20        30
                   ....*....|....*....|....*....|....*.
gi 1063712711  797 EILESAFALAHDQYGNYVTQHVLERGKPDERRQIIE 832
Cdd:smart00025   1 LIKGHLLELSKDQYGNRVVQKLLEHASESQREQIID 36
Pumilio smart00025
Pumilio-like repeats; Pumilio-like repeats that bind RNA.
 724-751 6.80e-05

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


Pssm-ID: 214475 [Multi-domain]  Cd Length: 36  Bit Score: 40.88  E-value: 6.80e-05
                           10        20
                   ....*....|....*....|....*...
gi 1063712711  724 ELDGNVLKCVRDQNGNHVIQKCIESMPA 751
Cdd:smart00025   1 LIKGHLLELSKDQYGNRVVQKLLEHASE 28
Pumilio smart00025
Pumilio-like repeats; Pumilio-like repeats that bind RNA.
 617-650 1.66e-04

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


Pssm-ID: 214475 [Multi-domain]  Cd Length: 36  Bit Score: 39.72  E-value: 1.66e-04
                           10        20        30
                   ....*....|....*....|....*....|....
gi 1063712711  617 IAGRVVEFSVDQHGSRFIQQKLEHCSDEEKASVF 650
Cdd:smart00025   2 IKGHLLELSKDQYGNRVVQKLLEHASESQREQII 35
 
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.
Help | Disclaimer | Write to the Help Desk
NCBI | NLM | NIH