Conserved Protein Domain Family
Nab6_mRNP_bdg

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pfam10567: Nab6_mRNP_bdg 
RNA-recognition motif
This conserved domain is found in fungal proteins and appears to be involved in RNA-processing. It binds to poly-adenylated RNA, interacts genetically with mRNA 3'-end processing factors, copurifies with the nuclear cap-binding protein Cbp20p, and is found in complexes containing other translation factors, such as EIF4G.
Statistics
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PSSM-Id: 313731
View PSSM: pfam10567
Aligned: 10 rows
Threshold Bit Score: 319.696
Threshold Setting Gi: 74606631
Created: 27-Jul-2016
Updated: 4-Aug-2016
Structure
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Aligned Rows:
PubMed ReferencesClick to see Conserved Features Help

pfam10567 is the only member of the superfamily cl24234
Sequence Alignment
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Format: Row Display: Color Bits: Type Selection:
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74610860   294 INYRVLPSGDDTYKTRSLLFENVQKNDEMLSvFMRLIINYSQVESVYVFQQTDtpskdkEs----DKDT----------- 358
gi 74606631   217 FQYSILPKGNDTYRSRSLLFTNVNSELDIVE-FLQKVAKNYPIESIYLIKDEDtgddieNl----NTSNndddpnqnyna 291
gi 523423273  176 VSYKMLPKGDDEYRTRSLLFENVNSSVDLYS-FVSKYSKYGPVESIYMFRNRA------------DKSK----------- 231
gi 366989443  179 mSYKILPSGDDAYRTRSLLFENVVNSIELHT-FMTEFVRFSPIESVYLINHHD------SdkpddDTEC----------- 240
gi 367009786  168 LTYRVLPKGNDEFRTRSLLFENVDGSIDLHS-FVTNFTNYGPVESVYLFKS--------------EGDH----------- 221
gi 403216906  162 ISYKILPKGDDLYRTRSLLLGNIDDMVDLHT-FVSKFVQNNSVESVYITKEGQ------------QPEK----------- 217
gi 367004471  212 ISYQILPKGDDTYHTRSLLFENINESIDLHT-FIEKFVNYGLIESVYVVPSYE------Th----QNSV----------- 269
gi 410074547  183 ISYVILPKGDDAYRTRSLLFENVDNAINLHS-FITNFVKNNSIESIYLVPNKN------------DSNT----------- 238
gi 767217184  199 INYKVLPTGDDAYRTRSLLIENVDHSIDLHS-IVKNFVKSNTLESAYLIEGGKsddskdV-----ETKN----------- 261
gi 578056306  176 VSYKMLPKGDDEYRTRSLLFENVNSSVDLYS-FVSKYSKYGPVESIYMFRNRA------------DKSK----------- 231
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74610860   359 ---------------------------------CCLQLSFLSRQAALDFYNNFLQRLPDFKKKLSSPKLSVSFVSFSyv- 404
gi 74606631   292 dnnnnskreddkdkesapaltkqiaispsscsqQSYLLSFFTKESCLDFYNNLLQRYAEIKNAVKSDQLAMNFVKIQ--- 368
gi 523423273  232 ---------------------------------NSVLLSFLSRKICLDSYNSVLQRLAEFKTGLKSKSLTVSFVSLKykr 278
gi 366989443  241 ---------------------------------RSILLSFLTREVCLTFYNNVLQRLKEFKAKLKSENLRLSFVSIKyqd 287
gi 367009786  222 ---------------------------------VSILLSFFSKAICLDFYNSVLQRLSEYKSDLDSKALTLSFVSLEykv 268
gi 403216906  218 ---------------------------------YGFLLSFLSVQICLNFYNNVLQRLKEFKEQLKASSLELSFVSMRqrp 264
gi 367004471  270 ---------------------------------KSILLSFTSRSICLDFYNSVLQKLSEYKTQLNSENLKLSFVSLCylq 316
gi 410074547  239 ---------------------------------CDIILSFLSRHICLDFYNNVLQRLKEFKKHLNSESLNLNFVSLKynk 285
gi 767217184  262 ---------------------------------LSILISFLTKGDCLNFYNNILQRLSEFKTFLKSEALNLKFVCLNydp 308
gi 578056306  232 ---------------------------------NSVLLSFLSRKICLDSYNSVLQRLAEFKTGLKSKSLTVSFVSLKykr 278
                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74610860   405 ------------tdEDKDKdkdkdkdintekrnikrsqellkEPALGEEIFSH-DATRSIAIEFYSQ------VEQ-DAL 464
gi 74606631   369 --------------DDEEW-----------------------MANLKMNVISL-GATRSLYVEFADDs-----VTS-DTI 404
gi 523423273  279 ------------hvEPEEEdqigedndpg---dgddaynvsvVASLQYDIVNR-GATRSLALNLDDE------CDK-DEL 335
gi 366989443  288 ------------enEEEETnivde-------------psfytKESVYFELSNP-QATRSILIQFKNP------CSE-QEL 334
gi 367009786  269 sdt------seediDKEDDskpda-------------fnitaAGSLRYDVINR-GATRSIMITFKTP------CSK-DEL 321
gi 403216906  265 -----------tkvEGKIYrrfaa-------------ddgdgMANLHFDMAAQtGATRSIAIEFVDKdv---iLTR-DEL 316
gi 367004471  317 nninkgngkisvesQKNETdf-------------------elTSLIQYQVANF-GATRSLCIEFDKR------VDKiDDF 370
gi 410074547  286 ------------ttRDNQG------------------------PSLEFNIVTR-DATRSLAIELCSNendsliLEK-EQL 327
gi 767217184  309 kclpt-fiesealtENAEEaditn-------------gstmiSASLHHNIANK-DATRSIIIEFKSP------VEK-SDL 366
gi 578056306  279 ------------hvEPEEEdqigedndpg---dgddaynvsvVASLQYDIVNR-GATRSLALNLDDE------CDK-DEL 335
                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74610860   465 FEK-L-PFLDdkDNKRYILEAVDIISAEDAADDFPANYVILTFINIKMAIEVLDYLKAnlMTYSVNECFFVSLPGCKsq- 541
gi 74606631   405 WDT-L-PFLK--NSGKYVVIDVDVVTTDERRKNFGLHYCLLHFLSVTMALEVKELLET--GDEAVSRVSFVTPANSAdke 478
gi 523423273  336 LKNrL-DFLSpsKNQRYVLESIYLIKAKEATRHFPKNYAILTFLNISMAVDVLDYLRNseQNFESSQCFFVSVSPHS--- 411
gi 366989443  335 FDKkL-KFLNqeNNSRYILESIDLVNVTQTENEFPKHYAILTFINILMAMEICDYLKIhgPRYGIQDCMFVQVIPKA--- 410
gi 367009786  322 IDKkL-EFLKkeNNTRYVLESIDLVTADEPSKHFPQNYAVLTFLNIFMAVEILDYIRLhsQKLDISKCFFISIQPQIpdg 400
gi 403216906  317 LNKkL-KFLSegNN-RYILEHIAVFKTQHGTKVFGKNYAIITFLSIPMAMEIMDYLKLniKQLHLTKFFYVQVTHPP--- 391
gi 367004471  371 IETyL-PFLSsnANKRYIIESLYIVNNNGKDNEFPAHYVILSFLNISMVIEVLHYIRSknLSKTIKNCLYVSFDRTK--- 446
gi 410074547  328 FEKiLnEILRtdENKRYVLESIDLVSTDKSNKEFGKNYAILSFLNITMAIEIMDYIQVisSKLNIGKCSFVTIQPLI--- 404
gi 767217184  367 FKKkL-QFLDrsKNKRYILESIDLVNTDVPSNQFPENYAVLTFLNISMAIEVLDYLKKysKNLGISKCFYVSLAPLV--- 442
gi 578056306  336 LKNrL-DFLSpsKNQRYVLESIYLIKAKEATRHFPKNYAILTFLNISMAVEVLDYLRNseQNFESSQCFFVSVSPHS--- 411
                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74610860   542 --rE------SSTTPVLGHISTEGS----------------------KSV------------------------------ 561
gi 74606631   479 mrrR------RSSAISLKQEASPQM----------------------FSTdsrsrsrssn-------------------- 510
gi 523423273  412 ---Q------PSFESNTSFDHTGGAknnsagglvgnapngnlgsytsKNA------------------------------ 452
gi 366989443  411 ---V------SCVSSKRASIISKDNdnndetlss-----qqkkndilKNS------------------------------ 446
gi 367009786  401 krlS------VSSASNGRSMESIsgn------------------yrsKNA------------------------------ 426
gi 403216906  392 ---Q------QSPAASQKKPHANDTesnrdtsppns-kkdqeffpnnSML------------------------------ 431
gi 367004471  447 ---H------AVSNSNRQSLSKKGTsd---------------------tL------------------------------ 466
gi 410074547  405 ---EnnvmnnSSALSSATNIQSSVSsegnnnqnn----ngstffhknSIN------------------------------ 447
gi 767217184  443 ---V------SSARSSVANIYEGKT----------------------STHrlsvpsvtagnnndsnnngnnnksnmsgit 491
gi 578056306  412 ---Q------PSFESNTSFDHTGGA----------------------KNNsagglvgnapn------------------- 441
                         410       420       430       440       450       460       470       480
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74610860   562 ------------------SEVNLANGgn-tVMIDRELESlsde-------------laslKLEEKCLKIIRSDYPKPEIR 609
gi 74606631   511 ---------vslplseqvSTASTDIS----TPIYEEFDG---------------------NLTWSTLIVDVSEYKEPIVN 556
gi 523423273  453 ------------------SLSSLNSFgs-yISLDQEIDLlats-----------------lqgSHTVIVAVDHYPQPFFA 496
gi 366989443  447 ------------------SIISLPSAendqVSDEEKLDKlsek-------------lkstNIEELILIVDTATYPRPSFL 495
gi 367009786  427 ------------------SVTSLESSgs-iISLDQEIDEmtyk-------------lqsvNSKKNILEVTTNNYKDPSFE 474
gi 403216906  432 ------------------SLVSSESS----TSLADDVDGlvnk-------------lksiELQESTLKLRVEDYPEPLFE 476
gi 367004471  467 ------------------NTYTLESP----INHNTEVDMndipsiydeneieianklselEIQTHTFNLDISNYSNPHIE 524
gi 410074547  448 ------------------SLLSSESS----VSIDEEVISiadk-------------lkgiKLKDISLDILPRDYPEPEFN 492
gi 767217184  492 tlnnnssigvsvyghsnmSLTSLSSS----VSLNEEIDMlatk-------------lqgvELDGTYLEINYRDYQTPTIE 554
gi 578056306  442 -------gnlgsytsknaSLSSLNSFgs-yISLDQEIDLlats-----------------lqgSHTVIVAVDHYPQPFFA 496

                  ....*.
gi 74610860   610 SHDDHI 615
gi 74606631   557 EFDHHL 562
gi 523423273  497 EYTDHL 502
gi 366989443  496 SHDEHL 501
gi 367009786  475 GHTDHL 480
gi 403216906  477 QFSEHs 482
gi 367004471  525 IRAEHL 530
gi 410074547  493 FSTDHL 498
gi 767217184  555 EHSTHL 560
gi 578056306  497 EYTDHL 502
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