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Conserved domains on  [gi|2388907|emb|CAB11644|]
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nonsense-mediated decay protein Upf2 [Schizosaccharomyces pombe]

Protein Classification

regulator of nonsense transcripts 2 family protein( domain architecture ID 10501454)

regulator of nonsense transcripts 2 (UPF2) family protein similar to Schizosaccharomyces pombe nonsense-mediated mRNA decay protein 2 which is involved in nonsense-mediated decay of mRNAs containing premature stop codons

CATH:  1.25.40.180
Gene Ontology:  GO:0000184|GO:0042162|GO:0003723
PubMed:  18066079

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
MIF4G pfam02854
MIF4G domain; MIF4G is named after Middle domain of eukaryotic initiation factor 4G (eIF4G). ...
 649-855 5.78e-31

MIF4G domain; MIF4G is named after Middle domain of eukaryotic initiation factor 4G (eIF4G). Also occurs in NMD2p and CBP80. The domain is rich in alpha-helices and may contain multiple alpha-helical repeats. In eIF4G, this domain binds eIF4A, eIF3, RNA and DNA.


:

Pssm-ID: 397130  Cd Length: 203  Bit Score: 120.93  E-value: 5.78e-31
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2388907     649 EFLYDLIQIRLKDDNVFPTLLLLRKFDWKDDYQI--LYNTIMEVWNIKYNSLNALARLLSALYKFHP-EFCIHVIDDTLE 725
Cdd:pfam02854    1 LKKVKGILNKLSPENFEKLIKELLKLIMSDPELLkyLIELIFEKAVEEPNFIPAYARLCSGLNLRNPtDFGIHLLNRLQE 80

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2388907     726 SLFS--AVNNSDHVEKQKRLAQARFISELCVIHMLDVRAITNFLFHLLPLEKFESFltmkastltniNNDMFRLRLIVVV 803
Cdd:pfam02854   81 EFEKrfELEENEQGNRRRRLGLVRFLGELYKFGLLTEKILFECLKELLSSLTKEDL-----------KRDLFNLECLLTL 149

                          170       180       190       200       210
                   ....*....|....*....|....*....|....*....|....*....|....
gi 2388907     804 LQTCGPSIIRSKTKKTMLTYLLAYQCYFLIQ--PEMPLDMLYEFEDVIGYVRPS 855
Cdd:pfam02854  150 LTTIGKLLENEKLPKLMDQFLDEIQKYVLSKddPKLSSRLRFMLQDLIELRKNK 203
MIF4G pfam02854
MIF4G domain; MIF4G is named after Middle domain of eukaryotic initiation factor 4G (eIF4G). ...
 446-634 4.85e-28

MIF4G domain; MIF4G is named after Middle domain of eukaryotic initiation factor 4G (eIF4G). Also occurs in NMD2p and CBP80. The domain is rich in alpha-helices and may contain multiple alpha-helical repeats. In eIF4G, this domain binds eIF4A, eIF3, RNA and DNA.


:

Pssm-ID: 397130  Cd Length: 203  Bit Score: 112.46  E-value: 4.85e-28
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2388907     446 DNFLLKLPSMVSLELTNEMALEFYDLN--TKASRNRLIKALCTIPRTSSFLVPYYVRLARILSQ-LSSEFSTSLVDHARH 522
Cdd:pfam02854    1 LKKVKGILNKLSPENFEKLIKELLKLImsDPELLKYLIELIFEKAVEEPNFIPAYARLCSGLNLrNPTDFGIHLLNRLQE 80

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2388907     523 SFKR--MIHRKAKHEYDTRLLIVRYISELTKFQLMPFHMVFECYKLCINEFT-------PFDLEVLALLLESCGRfLLRY 593
Cdd:pfam02854   81 EFEKrfELEENEQGNRRRRLGLVRFLGELYKFGLLTEKILFECLKELLSSLTkedlkrdLFNLECLLTLLTTIGK-LLEN 159

                          170       180       190       200
                   ....*....|....*....|....*....|....*....|....
gi 2388907     594 PETKLQMQSFLEAIQKKKL---ASALASQDQLVLENALHFVNPP 634
Cdd:pfam02854  160 EKLPKLMDQFLDEIQKYVLskdDPKLSSRLRFMLQDLIELRKNK 203
Upf2 pfam04050
Up-frameshift suppressor 2; Transcripts harbouring premature signals for translation ...
 924-1047 8.17e-28

Up-frameshift suppressor 2; Transcripts harbouring premature signals for translation termination are recognized and rapidly degraded by eukaryotic cells through a pathway known as nonsense-mediated mRNA decay. In Saccharomyces cerevisiae, three trans-acting factors (Upf1 to Upf3) are required for nonsense-mediated mRNA decay.


:

Pssm-ID: 461146  Cd Length: 133  Bit Score: 109.37  E-value: 8.17e-28
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2388907     924 EESDLLDSEDEDIDNEMQlsRELDEEFERLTNESLLTRMHEK--NPGFDVPLPLR--------ASSLGSPYVTRNEESAS 993
Cdd:pfam04050    2 EEGEEVRRGEEEVDPEEE--AEFERELAKMMQESLESRKNERktVPQLDVPLPMNvkakkksgSGDDGGAEGDAEEPETN 79

                           90       100       110       120       130
                   ....*....|....*....|....*....|....*....|....*....|....
gi 2388907     994 ESSHVMFTLLTKRGNKQRSQYLEIPSHSSLVRSTKNQQTEEIMERKRVKEMVLN 1047
Cdd:pfam04050   80 PSGKVAFTLLTKKGNKQQTKTLELPSDSSFAVNTREQEEAEKEEKQRIKRLVLN 133
MIF4G pfam02854
MIF4G domain; MIF4G is named after Middle domain of eukaryotic initiation factor 4G (eIF4G). ...
 41-281 1.13e-16

MIF4G domain; MIF4G is named after Middle domain of eukaryotic initiation factor 4G (eIF4G). Also occurs in NMD2p and CBP80. The domain is rich in alpha-helices and may contain multiple alpha-helical repeats. In eIF4G, this domain binds eIF4A, eIF3, RNA and DNA.


:

Pssm-ID: 397130  Cd Length: 203  Bit Score: 79.71  E-value: 1.13e-16
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2388907      41 LKKNTAFMKRCKSSLTSENYDSFIKEIKTL-SLKKFIPEITAAIVEGMMKckatkDILSSVKIVWALNLRFSTAFTGPML 119
Cdd:pfam02854    1 LKKVKGILNKLSPENFEKLIKELLKLIMSDpELLKYLIELIFEKAVEEPN-----FIPAYARLCSGLNLRNPTDFGIHLL 75

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2388907     120 ANLYCALypnpgyslchesyfelkqNENEVSEKDRSSHLLKVRPLLRFLIEFWLNGVVGTPEDFVSYLPSTDSNDKKFRK 199
Cdd:pfam02854   76 NRLQEEF------------------EKRFELEENEQGNRRRRLGLVRFLGELYKFGLLTEKILFECLKELLSSLTKEDLK 137

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2388907     200 pwfeeQNLKKPLVVLLFNDLMDTRFGFlllPVLTSLVRTFSCELfttedfedkETLELVNRLNPVVWRTYLRKSLNSYVD 279
Cdd:pfam02854  138 -----RDLFNLECLLTLLTTIGKLLEN---EKLPKLMDQFLDEI---------QKYVLSKDDPKLSSRLRFMLQDLIELR 200


                   ..
gi 2388907     280 KL 281
Cdd:pfam02854  201 KN 202
 
Name Accession Description Interval E-value
MIF4G pfam02854
MIF4G domain; MIF4G is named after Middle domain of eukaryotic initiation factor 4G (eIF4G). ...
 649-855 5.78e-31

MIF4G domain; MIF4G is named after Middle domain of eukaryotic initiation factor 4G (eIF4G). Also occurs in NMD2p and CBP80. The domain is rich in alpha-helices and may contain multiple alpha-helical repeats. In eIF4G, this domain binds eIF4A, eIF3, RNA and DNA.


Pssm-ID: 397130  Cd Length: 203  Bit Score: 120.93  E-value: 5.78e-31
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2388907     649 EFLYDLIQIRLKDDNVFPTLLLLRKFDWKDDYQI--LYNTIMEVWNIKYNSLNALARLLSALYKFHP-EFCIHVIDDTLE 725
Cdd:pfam02854    1 LKKVKGILNKLSPENFEKLIKELLKLIMSDPELLkyLIELIFEKAVEEPNFIPAYARLCSGLNLRNPtDFGIHLLNRLQE 80

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2388907     726 SLFS--AVNNSDHVEKQKRLAQARFISELCVIHMLDVRAITNFLFHLLPLEKFESFltmkastltniNNDMFRLRLIVVV 803
Cdd:pfam02854   81 EFEKrfELEENEQGNRRRRLGLVRFLGELYKFGLLTEKILFECLKELLSSLTKEDL-----------KRDLFNLECLLTL 149

                          170       180       190       200       210
                   ....*....|....*....|....*....|....*....|....*....|....
gi 2388907     804 LQTCGPSIIRSKTKKTMLTYLLAYQCYFLIQ--PEMPLDMLYEFEDVIGYVRPS 855
Cdd:pfam02854  150 LTTIGKLLENEKLPKLMDQFLDEIQKYVLSKddPKLSSRLRFMLQDLIELRKNK 203
MIF4G pfam02854
MIF4G domain; MIF4G is named after Middle domain of eukaryotic initiation factor 4G (eIF4G). ...
 446-634 4.85e-28

MIF4G domain; MIF4G is named after Middle domain of eukaryotic initiation factor 4G (eIF4G). Also occurs in NMD2p and CBP80. The domain is rich in alpha-helices and may contain multiple alpha-helical repeats. In eIF4G, this domain binds eIF4A, eIF3, RNA and DNA.


Pssm-ID: 397130  Cd Length: 203  Bit Score: 112.46  E-value: 4.85e-28
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2388907     446 DNFLLKLPSMVSLELTNEMALEFYDLN--TKASRNRLIKALCTIPRTSSFLVPYYVRLARILSQ-LSSEFSTSLVDHARH 522
Cdd:pfam02854    1 LKKVKGILNKLSPENFEKLIKELLKLImsDPELLKYLIELIFEKAVEEPNFIPAYARLCSGLNLrNPTDFGIHLLNRLQE 80

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2388907     523 SFKR--MIHRKAKHEYDTRLLIVRYISELTKFQLMPFHMVFECYKLCINEFT-------PFDLEVLALLLESCGRfLLRY 593
Cdd:pfam02854   81 EFEKrfELEENEQGNRRRRLGLVRFLGELYKFGLLTEKILFECLKELLSSLTkedlkrdLFNLECLLTLLTTIGK-LLEN 159

                          170       180       190       200
                   ....*....|....*....|....*....|....*....|....
gi 2388907     594 PETKLQMQSFLEAIQKKKL---ASALASQDQLVLENALHFVNPP 634
Cdd:pfam02854  160 EKLPKLMDQFLDEIQKYVLskdDPKLSSRLRFMLQDLIELRKNK 203
Upf2 pfam04050
Up-frameshift suppressor 2; Transcripts harbouring premature signals for translation ...
 924-1047 8.17e-28

Up-frameshift suppressor 2; Transcripts harbouring premature signals for translation termination are recognized and rapidly degraded by eukaryotic cells through a pathway known as nonsense-mediated mRNA decay. In Saccharomyces cerevisiae, three trans-acting factors (Upf1 to Upf3) are required for nonsense-mediated mRNA decay.


Pssm-ID: 461146  Cd Length: 133  Bit Score: 109.37  E-value: 8.17e-28
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2388907     924 EESDLLDSEDEDIDNEMQlsRELDEEFERLTNESLLTRMHEK--NPGFDVPLPLR--------ASSLGSPYVTRNEESAS 993
Cdd:pfam04050    2 EEGEEVRRGEEEVDPEEE--AEFERELAKMMQESLESRKNERktVPQLDVPLPMNvkakkksgSGDDGGAEGDAEEPETN 79

                           90       100       110       120       130
                   ....*....|....*....|....*....|....*....|....*....|....
gi 2388907     994 ESSHVMFTLLTKRGNKQRSQYLEIPSHSSLVRSTKNQQTEEIMERKRVKEMVLN 1047
Cdd:pfam04050   80 PSGKVAFTLLTKKGNKQQTKTLELPSDSSFAVNTREQEEAEKEEKQRIKRLVLN 133
MIF4G smart00543
Middle domain of eukaryotic initiation factor 4G (eIF4G); Also occurs in NMD2p and CBP80. The ...
 649-854 8.22e-28

Middle domain of eukaryotic initiation factor 4G (eIF4G); Also occurs in NMD2p and CBP80. The domain is rich in alpha-helices and may contain multiple alpha-helical repeats. In eIF4G, this domain binds eIF4A, eIF3, RNA and DNA. Ponting (TiBS) "Novel eIF4G domain homologues (in press)


Pssm-ID: 214713  Cd Length: 200  Bit Score: 111.68  E-value: 8.22e-28
                            10        20        30        40        50        60        70        80
                    ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2388907      649 EFLYDLIQIRLKDDNVFPTLLLLRKFDWKDDY--QILYNTIMEVWNIKYNSLNALARLLSALYKFHPEFCIHVIDDTLES 726
Cdd:smart00543    1 EKKVKGLINKLSPSNFESIIKELLKLNNSDKNlrKYILELIFEKAVEEPNFIPAYARLCALLNAKNPDFGSLLLERLQEE 80

                            90       100       110       120       130       140       150       160
                    ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2388907      727 LFSAVNNSDHVEKQKRLAQARFISELCVIHMLDVRAITNFLFHLLPLEKFESFLtmkastltninNDMFRLRLIVVVLQT 806
Cdd:smart00543   81 FEKGLESEEESDKQRRLGLVRFLGELYNFQVLTSKIILELLKELLNDLTKLDPP-----------RSDFSVECLLSLLPT 149

                           170       180       190       200       210
                    ....*....|....*....|....*....|....*....|....*....|
gi 2388907      807 CGPSIIRSKTKKTMLTYLLAYQCYFLIQP--EMPLDMLYEFEDVIGYVRP 854
Cdd:smart00543  150 CGKDLEREKSPKLLDEILERLQDYLLKKDktELSSRLRFMLELLIELRKN 199
MIF4G smart00543
Middle domain of eukaryotic initiation factor 4G (eIF4G); Also occurs in NMD2p and CBP80. The ...
 447-634 1.40e-27

Middle domain of eukaryotic initiation factor 4G (eIF4G); Also occurs in NMD2p and CBP80. The domain is rich in alpha-helices and may contain multiple alpha-helical repeats. In eIF4G, this domain binds eIF4A, eIF3, RNA and DNA. Ponting (TiBS) "Novel eIF4G domain homologues (in press)


Pssm-ID: 214713  Cd Length: 200  Bit Score: 110.91  E-value: 1.40e-27
                            10        20        30        40        50        60        70        80
                    ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2388907      447 NFLLKLPSMVSLELTNEMALEFYDLN--TKASRNRLIKALCTIPRTSSFLVPYYVRLARILSQLSSEFSTSLVDHARHSF 524
Cdd:smart00543    2 KKVKGLINKLSPSNFESIIKELLKLNnsDKNLRKYILELIFEKAVEEPNFIPAYARLCALLNAKNPDFGSLLLERLQEEF 81

                            90       100       110       120       130       140       150       160
                    ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2388907      525 KRMIHRKAKHEYDTRLLIVRYISELTKFQLMPFHMVFECYKLCINEFTP-------FDLEVLALLLESCGRFLLRyPETK 597
Cdd:smart00543   82 EKGLESEEESDKQRRLGLVRFLGELYNFQVLTSKIILELLKELLNDLTKldpprsdFSVECLLSLLPTCGKDLER-EKSP 160

                           170       180       190       200
                    ....*....|....*....|....*....|....*....|
gi 2388907      598 LQMQSFLEAIQKKKL---ASALASQDQLVLENALHFVNPP 634
Cdd:smart00543  161 KLLDEILERLQDYLLkkdKTELSSRLRFMLELLIELRKNK 200
MIF4G pfam02854
MIF4G domain; MIF4G is named after Middle domain of eukaryotic initiation factor 4G (eIF4G). ...
 41-281 1.13e-16

MIF4G domain; MIF4G is named after Middle domain of eukaryotic initiation factor 4G (eIF4G). Also occurs in NMD2p and CBP80. The domain is rich in alpha-helices and may contain multiple alpha-helical repeats. In eIF4G, this domain binds eIF4A, eIF3, RNA and DNA.


Pssm-ID: 397130  Cd Length: 203  Bit Score: 79.71  E-value: 1.13e-16
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2388907      41 LKKNTAFMKRCKSSLTSENYDSFIKEIKTL-SLKKFIPEITAAIVEGMMKckatkDILSSVKIVWALNLRFSTAFTGPML 119
Cdd:pfam02854    1 LKKVKGILNKLSPENFEKLIKELLKLIMSDpELLKYLIELIFEKAVEEPN-----FIPAYARLCSGLNLRNPTDFGIHLL 75

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2388907     120 ANLYCALypnpgyslchesyfelkqNENEVSEKDRSSHLLKVRPLLRFLIEFWLNGVVGTPEDFVSYLPSTDSNDKKFRK 199
Cdd:pfam02854   76 NRLQEEF------------------EKRFELEENEQGNRRRRLGLVRFLGELYKFGLLTEKILFECLKELLSSLTKEDLK 137

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2388907     200 pwfeeQNLKKPLVVLLFNDLMDTRFGFlllPVLTSLVRTFSCELfttedfedkETLELVNRLNPVVWRTYLRKSLNSYVD 279
Cdd:pfam02854  138 -----RDLFNLECLLTLLTTIGKLLEN---EKLPKLMDQFLDEI---------QKYVLSKDDPKLSSRLRFMLQDLIELR 200


                   ..
gi 2388907     280 KL 281
Cdd:pfam02854  201 KN 202
MIF4G smart00543
Middle domain of eukaryotic initiation factor 4G (eIF4G); Also occurs in NMD2p and CBP80. The ...
 41-281 3.73e-10

Middle domain of eukaryotic initiation factor 4G (eIF4G); Also occurs in NMD2p and CBP80. The domain is rich in alpha-helices and may contain multiple alpha-helical repeats. In eIF4G, this domain binds eIF4A, eIF3, RNA and DNA. Ponting (TiBS) "Novel eIF4G domain homologues (in press)


Pssm-ID: 214713  Cd Length: 200  Bit Score: 60.45  E-value: 3.73e-10
                            10        20        30        40        50        60        70        80
                    ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2388907       41 LKKNTAFMKRCKSSLTSENYDSFIKEI-KTLSLKKFIPEITAAIVEGMMKckatkDILSSVKIVWALNLRFSTaFTGPML 119
Cdd:smart00543    1 EKKVKGLINKLSPSNFESIIKELLKLNnSDKNLRKYILELIFEKAVEEPN-----FIPAYARLCALLNAKNPD-FGSLLL 74

                            90       100       110       120       130       140       150       160
                    ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2388907      120 ANLYCALYPNpgyslchesyfelkqnenevSEKDRSSHLLKVRPLLRFLIEFWLNGVVGTPEDFVSYLPSTDSNDKKFRK 199
Cdd:smart00543   75 ERLQEEFEKG--------------------LESEEESDKQRRLGLVRFLGELYNFQVLTSKIILELLKELLNDLTKLDPP 134

                           170       180       190       200       210       220       230       240
                    ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2388907      200 pwfeeQNLKKPLVVLLFndlMDTRFGFLLLPVLTSLVRTFSCELfttedfedkETLELVNRLNPVVWRTYLRKSLNSYVD 279
Cdd:smart00543  135 -----RSDFSVECLLSL---LPTCGKDLEREKSPKLLDEILERL---------QDYLLKKDKTELSSRLRFMLELLIELR 197


                    ..
gi 2388907      280 KL 281
Cdd:smart00543  198 KN 199
 
Name Accession Description Interval E-value
MIF4G pfam02854
MIF4G domain; MIF4G is named after Middle domain of eukaryotic initiation factor 4G (eIF4G). ...
 649-855 5.78e-31

MIF4G domain; MIF4G is named after Middle domain of eukaryotic initiation factor 4G (eIF4G). Also occurs in NMD2p and CBP80. The domain is rich in alpha-helices and may contain multiple alpha-helical repeats. In eIF4G, this domain binds eIF4A, eIF3, RNA and DNA.


Pssm-ID: 397130  Cd Length: 203  Bit Score: 120.93  E-value: 5.78e-31
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2388907     649 EFLYDLIQIRLKDDNVFPTLLLLRKFDWKDDYQI--LYNTIMEVWNIKYNSLNALARLLSALYKFHP-EFCIHVIDDTLE 725
Cdd:pfam02854    1 LKKVKGILNKLSPENFEKLIKELLKLIMSDPELLkyLIELIFEKAVEEPNFIPAYARLCSGLNLRNPtDFGIHLLNRLQE 80

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2388907     726 SLFS--AVNNSDHVEKQKRLAQARFISELCVIHMLDVRAITNFLFHLLPLEKFESFltmkastltniNNDMFRLRLIVVV 803
Cdd:pfam02854   81 EFEKrfELEENEQGNRRRRLGLVRFLGELYKFGLLTEKILFECLKELLSSLTKEDL-----------KRDLFNLECLLTL 149

                          170       180       190       200       210
                   ....*....|....*....|....*....|....*....|....*....|....
gi 2388907     804 LQTCGPSIIRSKTKKTMLTYLLAYQCYFLIQ--PEMPLDMLYEFEDVIGYVRPS 855
Cdd:pfam02854  150 LTTIGKLLENEKLPKLMDQFLDEIQKYVLSKddPKLSSRLRFMLQDLIELRKNK 203
MIF4G pfam02854
MIF4G domain; MIF4G is named after Middle domain of eukaryotic initiation factor 4G (eIF4G). ...
 446-634 4.85e-28

MIF4G domain; MIF4G is named after Middle domain of eukaryotic initiation factor 4G (eIF4G). Also occurs in NMD2p and CBP80. The domain is rich in alpha-helices and may contain multiple alpha-helical repeats. In eIF4G, this domain binds eIF4A, eIF3, RNA and DNA.


Pssm-ID: 397130  Cd Length: 203  Bit Score: 112.46  E-value: 4.85e-28
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2388907     446 DNFLLKLPSMVSLELTNEMALEFYDLN--TKASRNRLIKALCTIPRTSSFLVPYYVRLARILSQ-LSSEFSTSLVDHARH 522
Cdd:pfam02854    1 LKKVKGILNKLSPENFEKLIKELLKLImsDPELLKYLIELIFEKAVEEPNFIPAYARLCSGLNLrNPTDFGIHLLNRLQE 80

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2388907     523 SFKR--MIHRKAKHEYDTRLLIVRYISELTKFQLMPFHMVFECYKLCINEFT-------PFDLEVLALLLESCGRfLLRY 593
Cdd:pfam02854   81 EFEKrfELEENEQGNRRRRLGLVRFLGELYKFGLLTEKILFECLKELLSSLTkedlkrdLFNLECLLTLLTTIGK-LLEN 159

                          170       180       190       200
                   ....*....|....*....|....*....|....*....|....
gi 2388907     594 PETKLQMQSFLEAIQKKKL---ASALASQDQLVLENALHFVNPP 634
Cdd:pfam02854  160 EKLPKLMDQFLDEIQKYVLskdDPKLSSRLRFMLQDLIELRKNK 203
Upf2 pfam04050
Up-frameshift suppressor 2; Transcripts harbouring premature signals for translation ...
 924-1047 8.17e-28

Up-frameshift suppressor 2; Transcripts harbouring premature signals for translation termination are recognized and rapidly degraded by eukaryotic cells through a pathway known as nonsense-mediated mRNA decay. In Saccharomyces cerevisiae, three trans-acting factors (Upf1 to Upf3) are required for nonsense-mediated mRNA decay.


Pssm-ID: 461146  Cd Length: 133  Bit Score: 109.37  E-value: 8.17e-28
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2388907     924 EESDLLDSEDEDIDNEMQlsRELDEEFERLTNESLLTRMHEK--NPGFDVPLPLR--------ASSLGSPYVTRNEESAS 993
Cdd:pfam04050    2 EEGEEVRRGEEEVDPEEE--AEFERELAKMMQESLESRKNERktVPQLDVPLPMNvkakkksgSGDDGGAEGDAEEPETN 79

                           90       100       110       120       130
                   ....*....|....*....|....*....|....*....|....*....|....
gi 2388907     994 ESSHVMFTLLTKRGNKQRSQYLEIPSHSSLVRSTKNQQTEEIMERKRVKEMVLN 1047
Cdd:pfam04050   80 PSGKVAFTLLTKKGNKQQTKTLELPSDSSFAVNTREQEEAEKEEKQRIKRLVLN 133
MIF4G smart00543
Middle domain of eukaryotic initiation factor 4G (eIF4G); Also occurs in NMD2p and CBP80. The ...
 649-854 8.22e-28

Middle domain of eukaryotic initiation factor 4G (eIF4G); Also occurs in NMD2p and CBP80. The domain is rich in alpha-helices and may contain multiple alpha-helical repeats. In eIF4G, this domain binds eIF4A, eIF3, RNA and DNA. Ponting (TiBS) "Novel eIF4G domain homologues (in press)


Pssm-ID: 214713  Cd Length: 200  Bit Score: 111.68  E-value: 8.22e-28
                            10        20        30        40        50        60        70        80
                    ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2388907      649 EFLYDLIQIRLKDDNVFPTLLLLRKFDWKDDY--QILYNTIMEVWNIKYNSLNALARLLSALYKFHPEFCIHVIDDTLES 726
Cdd:smart00543    1 EKKVKGLINKLSPSNFESIIKELLKLNNSDKNlrKYILELIFEKAVEEPNFIPAYARLCALLNAKNPDFGSLLLERLQEE 80

                            90       100       110       120       130       140       150       160
                    ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2388907      727 LFSAVNNSDHVEKQKRLAQARFISELCVIHMLDVRAITNFLFHLLPLEKFESFLtmkastltninNDMFRLRLIVVVLQT 806
Cdd:smart00543   81 FEKGLESEEESDKQRRLGLVRFLGELYNFQVLTSKIILELLKELLNDLTKLDPP-----------RSDFSVECLLSLLPT 149

                           170       180       190       200       210
                    ....*....|....*....|....*....|....*....|....*....|
gi 2388907      807 CGPSIIRSKTKKTMLTYLLAYQCYFLIQP--EMPLDMLYEFEDVIGYVRP 854
Cdd:smart00543  150 CGKDLEREKSPKLLDEILERLQDYLLKKDktELSSRLRFMLELLIELRKN 199
MIF4G smart00543
Middle domain of eukaryotic initiation factor 4G (eIF4G); Also occurs in NMD2p and CBP80. The ...
 447-634 1.40e-27

Middle domain of eukaryotic initiation factor 4G (eIF4G); Also occurs in NMD2p and CBP80. The domain is rich in alpha-helices and may contain multiple alpha-helical repeats. In eIF4G, this domain binds eIF4A, eIF3, RNA and DNA. Ponting (TiBS) "Novel eIF4G domain homologues (in press)


Pssm-ID: 214713  Cd Length: 200  Bit Score: 110.91  E-value: 1.40e-27
                            10        20        30        40        50        60        70        80
                    ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2388907      447 NFLLKLPSMVSLELTNEMALEFYDLN--TKASRNRLIKALCTIPRTSSFLVPYYVRLARILSQLSSEFSTSLVDHARHSF 524
Cdd:smart00543    2 KKVKGLINKLSPSNFESIIKELLKLNnsDKNLRKYILELIFEKAVEEPNFIPAYARLCALLNAKNPDFGSLLLERLQEEF 81

                            90       100       110       120       130       140       150       160
                    ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2388907      525 KRMIHRKAKHEYDTRLLIVRYISELTKFQLMPFHMVFECYKLCINEFTP-------FDLEVLALLLESCGRFLLRyPETK 597
Cdd:smart00543   82 EKGLESEEESDKQRRLGLVRFLGELYNFQVLTSKIILELLKELLNDLTKldpprsdFSVECLLSLLPTCGKDLER-EKSP 160

                           170       180       190       200
                    ....*....|....*....|....*....|....*....|
gi 2388907      598 LQMQSFLEAIQKKKL---ASALASQDQLVLENALHFVNPP 634
Cdd:smart00543  161 KLLDEILERLQDYLLkkdKTELSSRLRFMLELLIELRKNK 200
MIF4G pfam02854
MIF4G domain; MIF4G is named after Middle domain of eukaryotic initiation factor 4G (eIF4G). ...
 41-281 1.13e-16

MIF4G domain; MIF4G is named after Middle domain of eukaryotic initiation factor 4G (eIF4G). Also occurs in NMD2p and CBP80. The domain is rich in alpha-helices and may contain multiple alpha-helical repeats. In eIF4G, this domain binds eIF4A, eIF3, RNA and DNA.


Pssm-ID: 397130  Cd Length: 203  Bit Score: 79.71  E-value: 1.13e-16
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2388907      41 LKKNTAFMKRCKSSLTSENYDSFIKEIKTL-SLKKFIPEITAAIVEGMMKckatkDILSSVKIVWALNLRFSTAFTGPML 119
Cdd:pfam02854    1 LKKVKGILNKLSPENFEKLIKELLKLIMSDpELLKYLIELIFEKAVEEPN-----FIPAYARLCSGLNLRNPTDFGIHLL 75

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2388907     120 ANLYCALypnpgyslchesyfelkqNENEVSEKDRSSHLLKVRPLLRFLIEFWLNGVVGTPEDFVSYLPSTDSNDKKFRK 199
Cdd:pfam02854   76 NRLQEEF------------------EKRFELEENEQGNRRRRLGLVRFLGELYKFGLLTEKILFECLKELLSSLTKEDLK 137

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2388907     200 pwfeeQNLKKPLVVLLFNDLMDTRFGFlllPVLTSLVRTFSCELfttedfedkETLELVNRLNPVVWRTYLRKSLNSYVD 279
Cdd:pfam02854  138 -----RDLFNLECLLTLLTTIGKLLEN---EKLPKLMDQFLDEI---------QKYVLSKDDPKLSSRLRFMLQDLIELR 200


                   ..
gi 2388907     280 KL 281
Cdd:pfam02854  201 KN 202
MIF4G smart00543
Middle domain of eukaryotic initiation factor 4G (eIF4G); Also occurs in NMD2p and CBP80. The ...
 41-281 3.73e-10

Middle domain of eukaryotic initiation factor 4G (eIF4G); Also occurs in NMD2p and CBP80. The domain is rich in alpha-helices and may contain multiple alpha-helical repeats. In eIF4G, this domain binds eIF4A, eIF3, RNA and DNA. Ponting (TiBS) "Novel eIF4G domain homologues (in press)


Pssm-ID: 214713  Cd Length: 200  Bit Score: 60.45  E-value: 3.73e-10
                            10        20        30        40        50        60        70        80
                    ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2388907       41 LKKNTAFMKRCKSSLTSENYDSFIKEI-KTLSLKKFIPEITAAIVEGMMKckatkDILSSVKIVWALNLRFSTaFTGPML 119
Cdd:smart00543    1 EKKVKGLINKLSPSNFESIIKELLKLNnSDKNLRKYILELIFEKAVEEPN-----FIPAYARLCALLNAKNPD-FGSLLL 74

                            90       100       110       120       130       140       150       160
                    ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2388907      120 ANLYCALYPNpgyslchesyfelkqnenevSEKDRSSHLLKVRPLLRFLIEFWLNGVVGTPEDFVSYLPSTDSNDKKFRK 199
Cdd:smart00543   75 ERLQEEFEKG--------------------LESEEESDKQRRLGLVRFLGELYNFQVLTSKIILELLKELLNDLTKLDPP 134

                           170       180       190       200       210       220       230       240
                    ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2388907      200 pwfeeQNLKKPLVVLLFndlMDTRFGFLLLPVLTSLVRTFSCELfttedfedkETLELVNRLNPVVWRTYLRKSLNSYVD 279
Cdd:smart00543  135 -----RSDFSVECLLSL---LPTCGKDLEREKSPKLLDEILERL---------QDYLLKKDKTELSSRLRFMLELLIELR 197


                    ..
gi 2388907      280 KL 281
Cdd:smart00543  198 KN 199
 
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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