Psyllid ID: psy8224

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-------270-------280-------290-------300-------310-------320-------330-------340-------350-------360-------370-------380-------390-------400-------410-------420-------430-------440-------450-------460-------470-------480-------490-------500-------510-------520-------530-------540-------550-------560-------570-------580-------590-------600-------610-------620-------630-------640-------650-------660-------670-------680-------690-------700-------710-------720-------730-------740-------750-------760------
Protein Sequence
MKTTKRSADAMEVDDAKAQEPAVKKAKHVDMRKVPVPNHRYGPLKENWMKIFTPIVEHLKLQVRFNLKSRNVEIRLSPETEDISNLQKAADFVKAFVYGFDVDDALALLRLDNLFIESFEIKDVKTLKGDHLSRAIGRLAGKGGRTKFTIENITKTRIVIADSKIHVLGSYQNVQVALKALSNLILGSPPNKVYGGILCSRCRHHVISTNPLDNLAKWKCIMCSHTLTAKQIAMGNDSIKSELAGLDKTEPTGLEMFLDKFQAQDSVLHDQNQHIVQAKLALLQIYETSVEDQKCQLNVDDQKCQLNVDKKMDSGKCEVCKVAASLKCGGCNQVFYCSKSHQKQHWKEHKPGCAKYKVVRNDILGRHMVATKDIREGEIILEEKPLVVGPKTASVPLCLGCHRTLKPTSMEENEPLSFYKCSDCGWPLCAPRCKSLPSHQKECKLMKDNQYKSTIQFENETKKESAYCCIAPLRSPLRCLLLERPLLDELLTLDAHLNERINTKLYEIYRVNLVRFIKDVLHMDVSEETILRIAGILDTNAFDIRRSVGKIKIRGIYMKTAMLSHNCKPNTKHVIVNEDFSLQLIALVNICKGDIISTTYTQPFWGTMDRRLHLRMSKWIYMKTAMLSHNCKPNTKHVIVNEDFSLQLIALVNIRKGDIISTTYTQPFWGTMDRRLHLRMSKCFDCTCDRCKDPTELETYLGKSFCLVYCEIRSLASLVSLDNCEEAMRYLAESTEIIKTEPDLSTLLIDKAESLNLKNEKTTPID
Secondary Structure (PSIPRED)
ccccccccccccccccccccccccccccccEEEccccccccHHHHccccHHHHHHHHHHccEEEEEccccEEEEEEccccccHHHHHHHHHHHHHHHccccHHHHHHHcccccEEEEEEEEccccccccccHHHHHcccccccccHHHHHHHHcccEEEEEccEEEEEccccHHHHHHHHHHHHHccccccccccccccccccccEEccccccccccEEcccccccccHHHHHHHHHHHHHHHHccccccccHHHHHHHHHHHcccccccccHHHHHHHHHHHHHHcccccHHHHccccHHHHHHHHHcccccccccccccccccccccccccEEEEcccccccccccccccccccEEEEccccccEEEEccccccccEEEEcccEEEEccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHHHccccccccccccHHccHHHHHccccccccccccccHHHHHHHHHHHHcHHHHccHHHHHHHHHHHHHHHHHHccccccHHHHHHHHccccccccccccccccEEEEEEEEHHccccccccccccEEEEccccEEEEEEEcccccccEEEEcccccccccHHHHHHHcccEEEEEEcccccccccccEEEEEEcccEEEEEEEccccccccEEEEEcccccccHHHHHHHHHccccEEEEcccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHHHHHHHHHHHccccccccc
Secondary Structure Prediction (SSPRO)
ccccccccccccccccccccHHHccccccEEEEcccccccccHHHHHHHHHccHHHHHcEEEEEEEccccEEEEEcccccccHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHcEEEEEEEEcccccccccHHHHHHHHccccccEEEEEEEcccEEEEEEccEEEEEccHHHHHHHHHHHHHHHHcccccHHHHHHHHHHHHcEEEccccHHcccccEHHHcccEccHHHHHHcHHHHHHHHHHHcccccHHHHHHHHHcccccccccccccHHHHHHHHHHHHHcccccccccEEcccccccEEccccccccccccHccccHHHHcccccEEEEEcHHHHHHHHHHHHcccccEEEEccHHHccEEEEccccccccEEEEEcccEEcccccccccEEcccccccccccccccccccEEccccccccccHHHcccccHHHHHHccccccccccEEcccccccccHHHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHcccccHHHHHHHHHHHcccccEEEccccccEEEEEEcccccccccccccccEEEcccccEEEEEEEcccccccEEEEEEcccHHHHHHHHHHHHHHccccHHHHHccccccccccccEcccccEEEEEEccccccccEEEEEEcccccccHHHHHHHHHHcccccccHHcccccccccHHHHHHHccccccccccEEEcccccHccccccccccccEccHHHHHHHHHHHHHHHHcccccccccc
Coil and Loop (DISEMBL)
mkttkrsadamevddakaqepavkkakhvdmrkvpvpnhrygplkenwMKIFTPIVEHLKLQVRFNlksrnveirlspetediSNLQKAADFVKAFVYGFDVDDALALLRLDNlfiesfeikdvktlkgDHLSRAIGRlagkggrtkftIENITKTRIVIADSKIHVLGSYQNVQVALKALSNlilgsppnkvyggilcsrcrhhvistnpldnlakwkcimcsHTLTAKQIAMGNdsikselagldkteptgLEMFLDKfqaqdsvlhDQNQHIVQAKLALLQIYETSVEdqkcqlnvddqkcqlnvdkkmdsgkceVCKVAAslkcggcnqvfycskshqkqhwkehkpgcakyKVVRNDIlgrhmvatkdiregeiileekplvvgpktasvplclgchrtlkptsmeeneplsfykcsdcgwplcaprckslpshqkecklmkdnqyKSTIQfenetkkesaycciaplrsplrclllerpllDELLTLDAHLNERINTKLYEIYRVNLVRFIKDVLHMDVSEETILRIAGIldtnafdiRRSVGKIKIRGIYMKTAmlshnckpntkhvivnEDFSLQLIALVNICKgdiisttytqpfwgtMDRRLHLRMSKWIYMKTAMlshnckpntkhvivnEDFSLQLIALVNIRkgdiisttytqpfwgtmDRRLHLRmskcfdctcdrckdpteletyLGKSFCLVYCEIRSLASLVSLDNCEEAMRYLAESTEiiktepdlsTLLIDKAeslnlknekttpid
Flexible Loop (DISEMBL)
mkttkrsadamevddakaqepavkkakhvdmrkvpvpnhrygplkENWMKIFTPIVEHLKLQVRFNLKSRNVEIrlspetedisnlQKAADFVKAFVYGFDVDDALALLRLDNLFIESfeikdvktlkgdhlsraigrlagkggrtkftienitktriviaDSKIHVLGSYQNVQVALKALSNLILGSPPNKVYGGILCSRCRHHVISTNPLDNLAKWKCIMCSHTLTAKQIAMGNDSIKSELAGLDKTEPTGLEMFLDKFQAQDSVLHDQNQHIVQAKLALLQIYETSVEDQKCQLNVDDQKCQLNVDKKMDSGKCEVCKVAASLKCGGCNQVFYCSKSHQKQHWKEHKPGCAKYKVVRNDILGRHMvatkdiregeiileekplvvgpktaSVPLCLGCHRTLKPTSMEENEPLSFYKCSDCGWPLCAPRCKSLPSHQKECKLMKDNQYKSTIQFENETKKESAYCCIAPLRSPLRCLLLERPLLDELLTLDAHLNERINTKLYEIYRVNLVRFIKDVLHMDVSEETILRIagildtnafdirrsVGKIKIRGIYMKTAMLSHNCKPNTKHVIVNEDFSLQLIALVNICKGDIISttytqpfwgtmDRRLHLRMSKWIYMKTAMLSHNCKPNTKHVIVNEDFSLQLIALVNIRkgdiisttytqpfwgTMDRRLHLRMSKCFDCTCDRCKDPTELETYLGKSFCLVYCEIRSLASLVSLDNCEEAMRYLAEsteiiktepdlSTLLidkaeslnlknekttpid
Low Complexity Region (SEG)
MKTTKRSADAMEVDDAKAQEPAVKKAKHVDMRKVPVPNHRYGPLKENWMKIFTPIVEHLKLQVRFNLKSRNVEIRLSPETEDISNLQKAADFVKAFVYGFdvddalallrldnlFIESFEIKDVKTLKGDHLSRAIGRLAGKGGRTKFTIENITKTRIVIADSKIHVLGSYQNVQVALKALSNLILGSPPNKVYGGILCSRCRHHVISTNPLDNLAKWKCIMCSHTLTAKQIAMGNDSIKSELAGLDKTEPTGLEMFLDKFQAQDSVLHDQNQHIVQAKLALLQIYETSVEDQKCQLNVDDQKCQLNVDKKMDSGKCEVCKVAASLKCGGCNQVFYCSKSHQKQHWKEHKPGCAKYKVVRNDILGRHMVATKDIREGEIILEEKPLVVGPKTASVPLCLGCHRTLKPTSMEENEPLSFYKCSDCGWPLCAPRCKSLPSHQKECKLMKDNQYKSTIQFENETKKESAYCCIAplrsplrclllerplldelltlDAHLNERINTKLYEIYRVNLVRFIKDVLHMDVSEETILRIAGILDTNAFDIRRSVGKIKIRGIYMKTAMLSHNCKPNTKHVIVNEDFSLQLIALVNICKGDIISTTYTQPFWGTMDRRLHLRMSKWIYMKTAMLSHNCKPNTKHVIVNEDFSLQLIALVNIRKGDIISTTYTQPFWGTMDRRLHLRMSKCFDCTCDRCKDPTELETYLGKSFCLVYCEIRSLASLVSLDNCEEAMRYLAESTEIIKTEPDLSTLLIDKAESLNLKNEKTTPID
Disordered region (IsUnstruct)
*************************************NHRYGPLKENWMKIFTPIVEHLKLQVRFNLKSRNVEIRLSPETEDISNLQKAADFVKAFVYGFDVDDALALLRLDNLFIESFEIKDVKTLKGDHLSRAIGRLAGKGGRTKFTIENITKTRIVIADSKIHVLGSYQNVQVALKALSNLILGSPPNKVYGGILCSRCRHHVISTNPLDNLAKWKCIMCSHTLTAKQIAMGNDSI***L********TGLEMFLDKFQAQDSVLHDQNQHIVQAKLALLQIYETSVEDQKCQLNVDDQKCQLNVDKKMDSGKCEVCKVAASLKCGGCNQVFYCSKSHQKQHWKEHKPGCAKYKVVRNDILGRHMVATKDIREGEIILEEKPLVVGPKTASVPLCLGCHRTLKP******EPLSFYKCSDCGWPLCAPRCKSL*****************TIQF*****KESAYCCIAPLRSPLRCLLLERPLLDELLTLDAHLNERINTKLYEIYRVNLVRFIKDVLHMDVSEETILRIAGILDTNAFDIRRSVGKIKIRGIYMKTAMLSHNCKPNTKHVIVNEDFSLQLIALVNICKGDIISTTYTQPFWGTMDRRLHLRMSKWIYMKTAMLSHNCKPNTKHVIVNEDFSLQLIALVNIRKGDIISTTYTQPFWGTMDRRLHLRMSKCFDCTCDRCKDPTELETYLGKSFCLVYCEIRSLASLVSLDNCEEAMRYLAESTEIIKTEPDLSTLLI*****************
Disordered Region (DISOPRED)
**********************************PVPNHRYGPLKENWMKIFTPIVEHLKLQVRFNLKSRNVEIRLSPETEDISNLQKAADFVKAFVYGFDVDDALALLRLDNLFIESFEIKDVKTLK**************GGRTKFTIENITKTRIVIADSKIHVLGSYQNVQVALKALSNLILGSPPNKVYGGILC**************NLAKWKCIMCSHTLTAKQ**********ELAGLDKTEPTGLEMFLDKFQAQDSVLHDQNQHIVQAKLALLQIYETSVEDQKCQLNVDDQKCQLNVDKKMDSGKCEVCKVAASLKCGGCNQVFYCS******************KVVRNDILGRHMVATKDIREGEIILEEKPLVVGPKTASVPLCLGCHRTLKPTSMEENEPLSFYKCSDCGWPLCAPRCKSLPSHQKECKLMKDNQYKSTIQFENETKKESAYCCIAPLRSPLRCLLLERPLLDELLT***********KLYEIYRVNLVRFIKDVLHMDVSEETILRIAGILDTNAFDIRRSVGKIKIRGIYMKTAMLSHNCKPNTKHVIVNEDFSLQLIALVNICKGDIISTTYTQPFWGTMDRRLHLRMSKWIYMKTAMLSHNCKPNTKHVIVNEDFSLQLIALVNIRKGDIISTTYTQPFWGTMDRRLHLRMSKCFDCTCDRCKDPTELETYLGKSFCLVYCEIRSLASLVSLDNCEEAMRYLAESTEIIKTEPDLSTLLIDKAESL****E******
Disordered Region (DISEMBL)
****************************VDMRKVPVPNHRYGPLKENWMKIFTPIVEHLKLQVRFNLKSRNVEIRLSPETEDISNLQKAADFVKAFVYGFDVDDALALLRLDNLFIESFEIKDVKTLKGDHLSRAIGRLAGKGGRTKFTIENITKTRIVIADSKIHVLGSYQNVQVALKALSNLILGSPPNKVYGGILCSRCRHHVISTNPLDNLAKWKCIMCSHTLTAKQIAMGNDSIKSELAGLDKTEPTGLEMFLDKFQAQDSVLHDQNQHIVQAKLALLQIYETSVEDQKCQLNVDDQKCQLNVDKKMDSGKCEVCKVAASLKCGGCNQVFYCS************PGCAKYKVVRNDILGRHMVATKDIREGEIILEEKPLVVGPKTASVPLCLGCHRTLKPTSMEENEPLSFYKCSDCGWPLCAPRCKSLPSHQKECKLMKDNQYKSTIQFENETKKESAYCCIAPLRSPLRCLLLERPLLDELLTLDAHLNERINTKLYEIYRVNLVRFIKDVLHMDVSEETILRIAGILDTNAFDIRRSVGKIKIRGIYMKTAMLSHNCKPNTKHVIVNEDFSLQLIALVNICKGDIISTTYTQPFWGTMDRRLHLRMSKWIYMKTAMLSHNCKPNTKHVIVNEDFSLQLIALVNIRKGDIISTTYTQPFWGTMDRRLHLRMSKCFDCTCDRCKDPTELETYLGKSFCLVYCEIRSLASLVSLDNCEEAMRYLAESTEIIKTEPDLSTLLIDKAESLNLK********
Disordered Region (DISPRO)
**************************KHVDMRKVPVPNHRYGPLKENWMKIFTPIVEHLKLQVRFNLKSRNVEIRLSPETEDISNLQKAADFVKAFVYGFDVDDALALLRLDNLFIESFEIKDVKTLKGDHLSRAIGRLAGKGGRTKFTIENITKTRIVIADSKIHVLGSYQNVQVALKALSNLILGSPPNKVYGGILCSRCRHHVISTNPLDNLAKWKCIMCSHTLTAKQIAMGNDSIKSELAGLDKTEPTGLEMFLDKFQAQDSVLHDQNQHIVQAKLALLQIYETSVEDQKCQLNVDDQKCQLNVDKKMDSGKCEVCKVAASLKCGGCNQVFYCSKSHQKQHWKEHKPGCAKYKVVRNDILGRHMVATKDIREGEIILEEKPLVVGPKTASVPLCLGCHRTLKPTSMEENEPLSFYKCSDCGWPLCAPRCKSLPSHQKECKLMKDNQYKSTIQFENETKKESAYCCIAPLRSPLRCLLLERPLLDELLTLDAHLNERINTKLYEIYRVNLVRFIKDVLHMDVSEETILRIAGILDTNAFDIRRSVGKIKIRGIYMKTAMLSHNCKPNTKHVIVNEDFSLQLIALVNICKGDIISTTYTQPFWGTMDRRLHLRMSKWIYMKTAMLSHNCKPNTKHVIVNEDFSLQLIALVNIRKGDIISTTYTQPFWGTMDRRLHLRMSKCFDCTCDRCKDPTELETYLGKSFCLVYCEIRSLASLVSLDNCEEAMRYLAESTEIIKTEPDLSTLLIDKAESLNL*********
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
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TM Helix, Signal Peptide (MEMSAT_SVM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MKTTKRSADAMEVDDAKAQEPAVKKAKHVDMRKVPVPNHRYGPLKENWMKIFTPIVEHLKLQVRFNLKSRNVEIRLSPETEDISNLQKAADFVKAFVYGFDVDDALALLRLDNLFIESFEIKDVKTLKGDHLSRAIGRLAGKGGRTKFTIENITKTRIVIADSKIHVLGSYQNVQVALKALSNLILGSPPNKVYGGILCSRCRHHVISTNPLDNLAKWKCIMCSHTLTAKQIAMGNDSIKSELAGLDKTEPTGLEMFLDKFQAQDSVLHDQNQHIVQAKLALLQIYETSVEDQKCQLNVDDQKCQLNVDKKMDSGKCEVCKVAASLKCGGCNQVFYCSKSHQKQHWKEHKPGCAKYKVVRNDILGRHMVATKDIREGEIILEEKPLVVGPKTASVPLCLGCHRTLKPTSMEENEPLSFYKCSDCGWPLCAPRCKSLPSHQKECKLMKDNQYKSTIQFENETKKESAYCCIAPLRSPLRCLLLERPLLDELLTLDAHLNERINTKLYEIYRVNLVRFIKDVLHMDVSEETILRIAGILDTNAFDIRRSVGKIKIRGIYMKTAMLSHNCKPNTKHVIVNEDFSLQLIALVNICKGDIISTTYTQPFWGTMDRRLHLRMSKWIYMKTAMLSHNCKPNTKHVIVNEDFSLQLIALVNIRKGDIISTTYTQPFWGTMDRRLHLRMSKCFDCTCDRCKDPTELETYLGKSFCLVYCEIRSLASLVSLDNCEEAMRYLAESTEIIKTEPDLSTLLIDKAESLNLKNEKTTPID
Positional Conservation
no confident homologs detected

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Close Homologs for Annotation Transfer

Close Homologs in SWISS-PROT Database Detected by BLAST

Original result of BLAST against SWISS-PROT Database

ID	Length	Definition	RBH(Q2H)	RBH(H2Q)	Q cover	H cover	Identity	E-value
Query	766	2.2.26 [Sep-21-2011]
Q9VR89	240	RNA-binding protein pno1	yes	N/A	0.263	0.841	0.631	2e-77
Q29IG6	238	RNA-binding protein pno1	yes	N/A	0.263	0.848	0.651	5e-77
A7RP64	238	RNA-binding protein pno1	N/A	N/A	0.240	0.773	0.700	1e-74
Q8AVH4	236	RNA-binding protein PNO1	N/A	N/A	0.227	0.737	0.735	1e-74
Q6DDB9	236	RNA-binding protein PNO1	yes	N/A	0.227	0.737	0.729	6e-74
Q5F414	242	RNA-binding protein PNO1	yes	N/A	0.227	0.719	0.729	2e-73
Q9NRX1	252	RNA-binding protein PNO1	yes	N/A	0.227	0.690	0.724	2e-72
Q6VBQ6	243	RNA-binding protein PNO1	N/A	N/A	0.227	0.716	0.724	3e-72
Q6VEU3	252	RNA-binding protein PNO1	yes	N/A	0.227	0.690	0.712	5e-72
Q6VBQ8	248	RNA-binding protein PNO1	yes	N/A	0.227	0.701	0.724	6e-72

>sp|Q9VR89|PNO1_DROME RNA-binding protein pno1 OS=Drosophila melanogaster GN=l(1)G0004 PE=2 SV=1

 Score =  291 bits (744), Expect = 2e-77,   Method: Compositional matrix adjust.
 Identities = 139/220 (63%), Positives = 171/220 (77%), Gaps = 18/220 (8%)

Query: 2   KTTKRSADA-------MEVDDA-----------KAQEPAVKKAKHVDMRKVPVPNHRYGP 43
           + TKR A         M+VD+A           +A  P   K    ++RKV VP HRY  
Sbjct: 16  RATKRGASGGGQQDVEMQVDEATGIEGQVLGSSRASAPPKAKRARSELRKVSVPPHRYSS 75

Query: 44  LKENWMKIFTPIVEHLKLQVRFNLKSRNVEIRLSPETEDISNLQKAADFVKAFVYGFDVD 103
           LKE+WMKIFTP+VEH+KLQ+RFN+K+R VE+R+ PET DI+NLQ+ ADFV+AF+ GF+VD
Sbjct: 76  LKEHWMKIFTPVVEHMKLQIRFNMKARQVELRVGPETPDIANLQRGADFVRAFLCGFEVD 135

Query: 104 DALALLRLDNLFIESFEIKDVKTLKGDHLSRAIGRLAGKGGRTKFTIENITKTRIVIADS 163
           DALALLRL++LF+ESFEIKDVKTL+GDH SRAIGRLAGKGGRTKFTIEN+TKTRIV+ADS
Sbjct: 136 DALALLRLEDLFVESFEIKDVKTLRGDHQSRAIGRLAGKGGRTKFTIENVTKTRIVLADS 195

Query: 164 KIHVLGSYQNVQVALKALSNLILGSPPNKVYGGILCSRCR 203
           KIH+LGSYQN+Q+A +A+ NLILGSPP+KVYG +     R
Sbjct: 196 KIHILGSYQNIQLARRAVCNLILGSPPSKVYGNLRAVASR 235

Drosophila melanogaster (taxid: 7227)

>sp|Q29IG6|PNO1_DROPS RNA-binding protein pno1 OS=Drosophila pseudoobscura pseudoobscura GN=l(1)G0004 PE=3 SV=1

 Score =  289 bits (740), Expect = 5e-77,   Method: Compositional matrix adjust.
 Identities = 142/218 (65%), Positives = 172/218 (78%), Gaps = 16/218 (7%)

Query: 2   KTTKRSA-----DAMEVDDAKA---------QEPAVKKAKHV--DMRKVPVPNHRYGPLK 45
           K  KRSA       M+VD A           Q  A  +AK +  ++RKV VP HRY  LK
Sbjct: 16  KAQKRSAVNNQDTEMQVDQATGIEGLVAGSTQASAPPRAKRIKSELRKVSVPPHRYSSLK 75

Query: 46  ENWMKIFTPIVEHLKLQVRFNLKSRNVEIRLSPETEDISNLQKAADFVKAFVYGFDVDDA 105
           E+WMKIFTP+VEH+KLQ+RFN+K+R VE+R+ PET DI+NLQK ADFVKAF+ GF+VDDA
Sbjct: 76  EHWMKIFTPVVEHMKLQIRFNMKARQVELRVGPETPDIANLQKGADFVKAFLCGFEVDDA 135

Query: 106 LALLRLDNLFIESFEIKDVKTLKGDHLSRAIGRLAGKGGRTKFTIENITKTRIVIADSKI 165
           LALLRL++LF+E+FEIKDVKTL+GDH SRAIGRLAGKGGRTKFTIEN+TKTRIV+ADSKI
Sbjct: 136 LALLRLEDLFVETFEIKDVKTLRGDHQSRAIGRLAGKGGRTKFTIENVTKTRIVLADSKI 195

Query: 166 HVLGSYQNVQVALKALSNLILGSPPNKVYGGILCSRCR 203
           H+LGSYQN+Q+A +A+ NLILGSPP+KVYG +     R
Sbjct: 196 HILGSYQNIQLARRAICNLILGSPPSKVYGNLRSVASR 233

Drosophila pseudoobscura pseudoobscura (taxid: 46245)

>sp|A7RP64|PNO1_NEMVE RNA-binding protein pno1 OS=Nematostella vectensis GN=pno1 PE=3 SV=1

 Score =  281 bits (719), Expect = 1e-74,   Method: Compositional matrix adjust.
 Identities = 131/187 (70%), Positives = 161/187 (86%), Gaps = 3/187 (1%)

Query: 17  KAQEPAVKKAKHVDMRKVPVPNHRYGPLKENWMKIFTPIVEHLKLQVRFNLKSRNVEIRL 76
           KAQ+ A  K+   + RK+PVP+HRY PLKENWMKIFTP+VEHLKLQ+RFNL SR+VEIR 
Sbjct: 50  KAQKLAGGKS---ETRKIPVPSHRYTPLKENWMKIFTPVVEHLKLQIRFNLGSRHVEIRA 106

Query: 77  SPETEDISNLQKAADFVKAFVYGFDVDDALALLRLDNLFIESFEIKDVKTLKGDHLSRAI 136
           S ET DI  +QKAADFV+AF+ GF+V+DALAL+RLD+LF+ESFEI DVK LKGDHLSRAI
Sbjct: 107 SKETSDIGAVQKAADFVQAFILGFEVEDALALIRLDDLFLESFEIADVKPLKGDHLSRAI 166

Query: 137 GRLAGKGGRTKFTIENITKTRIVIADSKIHVLGSYQNVQVALKALSNLILGSPPNKVYGG 196
           GR+AGKGG+TKFTIEN+TKTRIV+A++KIH+LGS+QN+++A  A+ NLILGSPP+KVYG 
Sbjct: 167 GRVAGKGGKTKFTIENVTKTRIVLAETKIHILGSFQNIKIARTAICNLILGSPPSKVYGN 226

Query: 197 ILCSRCR 203
           +     R
Sbjct: 227 MRAVASR 233

Nematostella vectensis (taxid: 45351)

>sp|Q8AVH4|PNO1_XENLA RNA-binding protein PNO1 OS=Xenopus laevis GN=pno1 PE=2 SV=1

 Score =  281 bits (719), Expect = 1e-74,   Method: Compositional matrix adjust.
 Identities = 128/174 (73%), Positives = 153/174 (87%)

Query: 30  DMRKVPVPNHRYGPLKENWMKIFTPIVEHLKLQVRFNLKSRNVEIRLSPETEDISNLQKA 89
           +MRK+PVP+HRY PLKENWMKIFTPIVEHL+LQVRFNLKSRNVEI+   ET D+  L KA
Sbjct: 58  EMRKIPVPSHRYTPLKENWMKIFTPIVEHLQLQVRFNLKSRNVEIKTCKETTDVGALTKA 117

Query: 90  ADFVKAFVYGFDVDDALALLRLDNLFIESFEIKDVKTLKGDHLSRAIGRLAGKGGRTKFT 149
           ADFV+AF+ GF V+DALAL+RLD+LF+ESFE+ DVK LKGDHLSRAIGR+AGKGG+TKFT
Sbjct: 118 ADFVRAFILGFQVEDALALVRLDDLFLESFEVTDVKPLKGDHLSRAIGRIAGKGGKTKFT 177

Query: 150 IENITKTRIVIADSKIHVLGSYQNVQVALKALSNLILGSPPNKVYGGILCSRCR 203
           IEN+TKTRIV+ADSKIH++GS+QN+++A  A+ NLILGSPP+KVYG I     R
Sbjct: 178 IENVTKTRIVLADSKIHIMGSFQNIKMARTAICNLILGSPPSKVYGNIRAVASR 231

Xenopus laevis (taxid: 8355)

>sp|Q6DDB9|PNO1_XENTR RNA-binding protein PNO1 OS=Xenopus tropicalis GN=pno1 PE=2 SV=1

 Score =  279 bits (713), Expect = 6e-74,   Method: Compositional matrix adjust.
 Identities = 127/174 (72%), Positives = 152/174 (87%)

Query: 30  DMRKVPVPNHRYGPLKENWMKIFTPIVEHLKLQVRFNLKSRNVEIRLSPETEDISNLQKA 89
           +MRKVPVP+HRY PLKENWMKIFTPIVEHL+LQVRFNLK+RNVEI+   ET D+  L KA
Sbjct: 58  EMRKVPVPSHRYTPLKENWMKIFTPIVEHLQLQVRFNLKTRNVEIKTCKETTDVGALTKA 117

Query: 90  ADFVKAFVYGFDVDDALALLRLDNLFIESFEIKDVKTLKGDHLSRAIGRLAGKGGRTKFT 149
            DFV+AF+ GF V+DALAL+RLD+LF+ESFE+ DVK LKGDHLSRAIGR+AGKGG+TKFT
Sbjct: 118 TDFVRAFILGFQVEDALALVRLDDLFLESFEVTDVKPLKGDHLSRAIGRIAGKGGKTKFT 177

Query: 150 IENITKTRIVIADSKIHVLGSYQNVQVALKALSNLILGSPPNKVYGGILCSRCR 203
           IEN+T+TRIV+ADSKIH+LGS+QN+++A  A+ NLILGSPP+KVYG I     R
Sbjct: 178 IENVTRTRIVLADSKIHILGSFQNIKMARTAICNLILGSPPSKVYGNIRAVASR 231

Xenopus tropicalis (taxid: 8364)

>sp|Q5F414|PNO1_CHICK RNA-binding protein PNO1 OS=Gallus gallus GN=PNO1 PE=2 SV=1

 Score =  277 bits (709), Expect = 2e-73,   Method: Compositional matrix adjust.
 Identities = 127/174 (72%), Positives = 154/174 (88%)

Query: 30  DMRKVPVPNHRYGPLKENWMKIFTPIVEHLKLQVRFNLKSRNVEIRLSPETEDISNLQKA 89
           ++RKVPVP +RY PLKENWMKIFTPIVEHL+LQ+RFNLK+RNVEI+   ET+D+S L KA
Sbjct: 64  EVRKVPVPANRYTPLKENWMKIFTPIVEHLQLQIRFNLKTRNVEIKTCSETKDLSALTKA 123

Query: 90  ADFVKAFVYGFDVDDALALLRLDNLFIESFEIKDVKTLKGDHLSRAIGRLAGKGGRTKFT 149
           ADFVKAF+ GF V+DALAL+RLD+LF+ESFE+ DVK LKGDHLSRAIGR+AGKGG+TKFT
Sbjct: 124 ADFVKAFILGFQVEDALALIRLDDLFLESFEVTDVKPLKGDHLSRAIGRIAGKGGKTKFT 183

Query: 150 IENITKTRIVIADSKIHVLGSYQNVQVALKALSNLILGSPPNKVYGGILCSRCR 203
           IEN+T+TRIV+ADSKIH+LGS+QN+++A  A+ NLILGSPP+KVYG I     R
Sbjct: 184 IENVTRTRIVLADSKIHILGSFQNIKMARTAICNLILGSPPSKVYGNIRAVASR 237

Gallus gallus (taxid: 9031)

>sp|Q9NRX1|PNO1_HUMAN RNA-binding protein PNO1 OS=Homo sapiens GN=PNO1 PE=1 SV=1

 Score =  274 bits (700), Expect = 2e-72,   Method: Compositional matrix adjust.
 Identities = 126/174 (72%), Positives = 151/174 (86%)

Query: 30  DMRKVPVPNHRYGPLKENWMKIFTPIVEHLKLQVRFNLKSRNVEIRLSPETEDISNLQKA 89
           + RK+PVP +RY PLKENWMKIFTPIVEHL LQ+RFNLKSRNVEIR   ET+D+S L KA
Sbjct: 74  ETRKIPVPANRYTPLKENWMKIFTPIVEHLGLQIRFNLKSRNVEIRTCKETKDVSALTKA 133

Query: 90  ADFVKAFVYGFDVDDALALLRLDNLFIESFEIKDVKTLKGDHLSRAIGRLAGKGGRTKFT 149
           ADFVKAF+ GF V+DALAL+RLD+LF+ESFEI DVK LKGDHLSRAIGR+AGKGG+TKFT
Sbjct: 134 ADFVKAFILGFQVEDALALIRLDDLFLESFEITDVKPLKGDHLSRAIGRIAGKGGKTKFT 193

Query: 150 IENITKTRIVIADSKIHVLGSYQNVQVALKALSNLILGSPPNKVYGGILCSRCR 203
           IEN+T+TRIV+AD K+H+LGS+QN+++A  A+ NLILG+PP+KVYG I     R
Sbjct: 194 IENVTRTRIVLADVKVHILGSFQNIKMARTAICNLILGNPPSKVYGNIRAVASR 247

Homo sapiens (taxid: 9606)

>sp|Q6VBQ6|PNO1_ORYLA RNA-binding protein PNO1 OS=Oryzias latipes GN=pno1 PE=2 SV=1

 Score =  273 bits (699), Expect = 3e-72,   Method: Compositional matrix adjust.
 Identities = 126/174 (72%), Positives = 152/174 (87%)

Query: 30  DMRKVPVPNHRYGPLKENWMKIFTPIVEHLKLQVRFNLKSRNVEIRLSPETEDISNLQKA 89
           +MRKV VP HRY PLKENW+KIFTPIVE+L+LQVRFNLK+RNVEI+   ET+DI+ L KA
Sbjct: 65  EMRKVAVPAHRYTPLKENWLKIFTPIVENLQLQVRFNLKTRNVEIKTCKETQDIAALTKA 124

Query: 90  ADFVKAFVYGFDVDDALALLRLDNLFIESFEIKDVKTLKGDHLSRAIGRLAGKGGRTKFT 149
           ADF+KAFV GF VDDA+AL+RLD LF+ESF++ DVK LKGDHLSRAIGR+AGKGG+TKFT
Sbjct: 125 ADFIKAFVLGFQVDDAMALIRLDELFLESFDVTDVKPLKGDHLSRAIGRIAGKGGKTKFT 184

Query: 150 IENITKTRIVIADSKIHVLGSYQNVQVALKALSNLILGSPPNKVYGGILCSRCR 203
           IEN+TKTRIV+AD+KIH+LGS+QN+++A  A+ NLILGSPP+KVYG I     R
Sbjct: 185 IENVTKTRIVLADTKIHILGSFQNIKMARTAICNLILGSPPSKVYGNIRAVASR 238

Oryzias latipes (taxid: 8090)

>sp|Q6VEU3|PNO1_DANRE RNA-binding protein PNO1 OS=Danio rerio GN=pno1 PE=2 SV=2

 Score =  273 bits (697), Expect = 5e-72,   Method: Compositional matrix adjust.
 Identities = 124/174 (71%), Positives = 152/174 (87%)

Query: 30  DMRKVPVPNHRYGPLKENWMKIFTPIVEHLKLQVRFNLKSRNVEIRLSPETEDISNLQKA 89
           +MRKVPVP+HRY PLKENW+KIFTPIVE+L+LQVRFNLK+R VEI+   ET+DI  L +A
Sbjct: 74  EMRKVPVPSHRYTPLKENWLKIFTPIVENLQLQVRFNLKTRQVEIKTCKETQDIGALTRA 133

Query: 90  ADFVKAFVYGFDVDDALALLRLDNLFIESFEIKDVKTLKGDHLSRAIGRLAGKGGRTKFT 149
           ADFVKAFV GF V+DALAL+RLD LF+E+F++ DVK LKGDHLSRAIGR+AGKGG+TKFT
Sbjct: 134 ADFVKAFVLGFQVEDALALIRLDELFLETFDVTDVKPLKGDHLSRAIGRIAGKGGKTKFT 193

Query: 150 IENITKTRIVIADSKIHVLGSYQNVQVALKALSNLILGSPPNKVYGGILCSRCR 203
           IEN+TKTRIV+AD+KIH+LGS+QN+++A  A+ NLILGSPP+KVYG +     R
Sbjct: 194 IENVTKTRIVLADTKIHILGSFQNIKMARTAICNLILGSPPSKVYGNLRAVATR 247

Danio rerio (taxid: 7955)

>sp|Q6VBQ8|PNO1_RAT RNA-binding protein PNO1 OS=Rattus norvegicus GN=Pno1 PE=2 SV=1

 Score =  272 bits (696), Expect = 6e-72,   Method: Compositional matrix adjust.
 Identities = 126/174 (72%), Positives = 151/174 (86%)

Query: 30  DMRKVPVPNHRYGPLKENWMKIFTPIVEHLKLQVRFNLKSRNVEIRLSPETEDISNLQKA 89
           + RK+PVP +RY PLKENWMKIFTPIVEHL LQ+RFNLKSRNVEIR   +T+D+S L KA
Sbjct: 70  ETRKIPVPANRYTPLKENWMKIFTPIVEHLGLQIRFNLKSRNVEIRTCKDTKDVSALTKA 129

Query: 90  ADFVKAFVYGFDVDDALALLRLDNLFIESFEIKDVKTLKGDHLSRAIGRLAGKGGRTKFT 149
           ADFVKAFV GF V+DALAL+RLD+LF+ESFEI DVK LKGDHLSRAIGR+AGKGG+TKFT
Sbjct: 130 ADFVKAFVLGFQVEDALALIRLDDLFLESFEITDVKPLKGDHLSRAIGRIAGKGGKTKFT 189

Query: 150 IENITKTRIVIADSKIHVLGSYQNVQVALKALSNLILGSPPNKVYGGILCSRCR 203
           IEN+T+TRIV+AD K+H+LGS+QN+++A  A+ NLILG+PP+KVYG I     R
Sbjct: 190 IENVTRTRIVLADVKVHILGSFQNIKMARTAICNLILGNPPSKVYGNIRAVASR 243

Rattus norvegicus (taxid: 10116)

Close Homologs in the Non-Redundant Database Detected by BLAST

Original result of BLAST against Nonredundant Database

GI	Length	Definition	Q cover	H cover	Identity	E-value
Query	766
194762788	239	GF20246 [Drosophila ananassae] gi|190629	0.262	0.841	0.654	2e-77
350402838	239	PREDICTED: RNA-binding protein pno1-like	0.224	0.719	0.771	3e-77
340728845	239	PREDICTED: RNA-binding protein pno1-like	0.216	0.694	0.789	1e-75
195398679	239	GJ15820 [Drosophila virilis] gi|19415037	0.254	0.815	0.692	1e-75
20129085	240	lethal (1) G0004 [Drosophila melanogaste	0.263	0.841	0.631	1e-75
195482061	240	GE17874 [Drosophila yakuba] gi|194189417	0.262	0.837	0.638	1e-75
194893454	240	GG19285 [Drosophila erecta] gi|190649528	0.263	0.841	0.631	2e-75
125983726	238	GA11169 [Drosophila pseudoobscura pseudo	0.263	0.848	0.651	3e-75
195042231	240	GH12628 [Drosophila grimshawi] gi|193901	0.255	0.816	0.658	1e-74
195134236	237	GI11042 [Drosophila mojavensis] gi|19390	0.263	0.852	0.649	1e-74

>gi|194762788|ref|XP_001963516.1| GF20246 [Drosophila ananassae] gi|190629175|gb|EDV44592.1| GF20246 [Drosophila ananassae]

 Score =  297 bits (760), Expect = 2e-77,   Method: Compositional matrix adjust.
 Identities = 144/220 (65%), Positives = 176/220 (80%), Gaps = 19/220 (8%)

Query: 2   KTTKRSADA-------MEVDDAKAQE-----------PAVKKAKHVDMRKVPVPNHRYGP 43
           + TKRSA+A       M+VD+A   E           P  KKA+  ++RKV VP HRY  
Sbjct: 16  RATKRSANAGSQQDVEMQVDEATGIEGSSQTTRASAPPRAKKARS-ELRKVSVPPHRYSS 74

Query: 44  LKENWMKIFTPIVEHLKLQVRFNLKSRNVEIRLSPETEDISNLQKAADFVKAFVYGFDVD 103
           LKE+WMKIFTP+VEH+KLQ+RFN+K+R VE+R+ PET DI+NLQ+ ADFV+AF+ GF+VD
Sbjct: 75  LKEHWMKIFTPVVEHMKLQIRFNMKARQVELRVGPETPDIANLQRGADFVRAFLCGFEVD 134

Query: 104 DALALLRLDNLFIESFEIKDVKTLKGDHLSRAIGRLAGKGGRTKFTIENITKTRIVIADS 163
           DALALLRL++LF+ESFEIKDVKTL+GDH SRAIGRLAGKGGRTKFTIEN+TKTRIV+ADS
Sbjct: 135 DALALLRLEDLFVESFEIKDVKTLRGDHQSRAIGRLAGKGGRTKFTIENVTKTRIVLADS 194

Query: 164 KIHVLGSYQNVQVALKALSNLILGSPPNKVYGGILCSRCR 203
           KIH+LGSYQN+Q+A +A+ NLILGSPPNKVYG +     R
Sbjct: 195 KIHILGSYQNIQLARRAVCNLILGSPPNKVYGNLRSVASR 234

Source: Drosophila ananassae

Species: Drosophila ananassae

Genus: Drosophila

Family: Drosophilidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|350402838|ref|XP_003486621.1| PREDICTED: RNA-binding protein pno1-like [Bombus impatiens]

 Score =  296 bits (758), Expect = 3e-77,   Method: Compositional matrix adjust.
 Identities = 135/175 (77%), Positives = 160/175 (91%), Gaps = 3/175 (1%)

Query: 24  KKAKHV---DMRKVPVPNHRYGPLKENWMKIFTPIVEHLKLQVRFNLKSRNVEIRLSPET 80
           K+AK +   + RK+ VP HRY PLKENWMKIFTPIVEHL+LQ+RFNLK+RN+E+R +PET
Sbjct: 52  KRAKIIQDGEQRKISVPAHRYTPLKENWMKIFTPIVEHLQLQIRFNLKTRNIELRTAPET 111

Query: 81  EDISNLQKAADFVKAFVYGFDVDDALALLRLDNLFIESFEIKDVKTLKGDHLSRAIGRLA 140
            DI+NLQK ADFVKAF+YGFDV+DALALLRLD LF+E+FEI+DVK LKGDHLSRAIGRLA
Sbjct: 112 PDIANLQKGADFVKAFIYGFDVEDALALLRLDGLFVETFEIQDVKPLKGDHLSRAIGRLA 171

Query: 141 GKGGRTKFTIENITKTRIVIADSKIHVLGSYQNVQVALKALSNLILGSPPNKVYG 195
           GKGGRTKFTIEN+TKTRIV+ADSKIH+LGS+QN+Q+A +A+ NLILGSPP+KVYG
Sbjct: 172 GKGGRTKFTIENVTKTRIVLADSKIHILGSFQNIQLARRAICNLILGSPPSKVYG 226

Source: Bombus impatiens

Species: Bombus impatiens

Genus: Bombus

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|340728845|ref|XP_003402724.1| PREDICTED: RNA-binding protein pno1-like [Bombus terrestris]

 Score =  291 bits (745), Expect = 1e-75,   Method: Compositional matrix adjust.
 Identities = 131/166 (78%), Positives = 154/166 (92%)

Query: 30  DMRKVPVPNHRYGPLKENWMKIFTPIVEHLKLQVRFNLKSRNVEIRLSPETEDISNLQKA 89
           + RK+ VP HRY PLKENWMKIFTPIVEHL+LQ+RFNLK+RN+E+R +PET DI+NLQK 
Sbjct: 61  EQRKISVPAHRYTPLKENWMKIFTPIVEHLQLQIRFNLKTRNIELRTAPETPDIANLQKG 120

Query: 90  ADFVKAFVYGFDVDDALALLRLDNLFIESFEIKDVKTLKGDHLSRAIGRLAGKGGRTKFT 149
           ADFVKAF+ GFDV+DALALLRLD LF+E+FEI+DVK LKGDHLSRAIGRLAGKGGRTKFT
Sbjct: 121 ADFVKAFICGFDVEDALALLRLDGLFVETFEIQDVKPLKGDHLSRAIGRLAGKGGRTKFT 180

Query: 150 IENITKTRIVIADSKIHVLGSYQNVQVALKALSNLILGSPPNKVYG 195
           IEN+TKTRIV+ADSKIH+LGS+QN+Q+A +A+ NLILGSPP+KVYG
Sbjct: 181 IENVTKTRIVLADSKIHILGSFQNIQLARRAICNLILGSPPSKVYG 226

Source: Bombus terrestris

Species: Bombus terrestris

Genus: Bombus

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|195398679|ref|XP_002057948.1| GJ15820 [Drosophila virilis] gi|194150372|gb|EDW66056.1| GJ15820 [Drosophila virilis]

 Score =  291 bits (745), Expect = 1e-75,   Method: Compositional matrix adjust.
 Identities = 135/195 (69%), Positives = 162/195 (83%)

Query: 9   DAMEVDDAKAQEPAVKKAKHVDMRKVPVPNHRYGPLKENWMKIFTPIVEHLKLQVRFNLK 68
           +  E   +  Q P   K    ++RKV VP HRY  LKE+WMKIFTP+VEH+KLQ+RFN+K
Sbjct: 40  EGAERASSSGQAPPRAKRIRSELRKVSVPPHRYSSLKEHWMKIFTPVVEHMKLQIRFNMK 99

Query: 69  SRNVEIRLSPETEDISNLQKAADFVKAFVYGFDVDDALALLRLDNLFIESFEIKDVKTLK 128
           +R VE+R+ PET DISNLQK ADFVKAF+ GF+VDDALALLRL++LFIE+FEIKDVKTL+
Sbjct: 100 ARQVELRIGPETPDISNLQKGADFVKAFLCGFEVDDALALLRLEDLFIETFEIKDVKTLR 159

Query: 129 GDHLSRAIGRLAGKGGRTKFTIENITKTRIVIADSKIHVLGSYQNVQVALKALSNLILGS 188
           GDH SRAIGRLAGKGGRTKFTIEN+TKTRIV+ADSKIH+LGSYQN+Q+A +A+ NLILGS
Sbjct: 160 GDHQSRAIGRLAGKGGRTKFTIENVTKTRIVLADSKIHILGSYQNIQLARRAICNLILGS 219

Query: 189 PPNKVYGGILCSRCR 203
           PP+KVYG +     R
Sbjct: 220 PPSKVYGNLRAVASR 234

Source: Drosophila virilis

Species: Drosophila virilis

Genus: Drosophila

Family: Drosophilidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|20129085|ref|NP_608387.1| lethal (1) G0004 [Drosophila melanogaster] gi|74948414|sp|Q9VR89.1|PNO1_DROME RecName: Full=RNA-binding protein pno1 gi|10441476|gb|AAG17061.1|AF188892_1 potential RNA-binding protein [Drosophila melanogaster] gi|7295605|gb|AAF50915.1| lethal (1) G0004 [Drosophila melanogaster] gi|16769266|gb|AAL28852.1| LD21667p [Drosophila melanogaster] gi|220944240|gb|ACL84663.1| l(1)G0004-PA [synthetic construct] gi|220954180|gb|ACL89633.1| l(1)G0004-PA [synthetic construct]

 Score =  291 bits (744), Expect = 1e-75,   Method: Compositional matrix adjust.
 Identities = 139/220 (63%), Positives = 171/220 (77%), Gaps = 18/220 (8%)

Query: 2   KTTKRSADA-------MEVDDA-----------KAQEPAVKKAKHVDMRKVPVPNHRYGP 43
           + TKR A         M+VD+A           +A  P   K    ++RKV VP HRY  
Sbjct: 16  RATKRGASGGGQQDVEMQVDEATGIEGQVLGSSRASAPPKAKRARSELRKVSVPPHRYSS 75

Query: 44  LKENWMKIFTPIVEHLKLQVRFNLKSRNVEIRLSPETEDISNLQKAADFVKAFVYGFDVD 103
           LKE+WMKIFTP+VEH+KLQ+RFN+K+R VE+R+ PET DI+NLQ+ ADFV+AF+ GF+VD
Sbjct: 76  LKEHWMKIFTPVVEHMKLQIRFNMKARQVELRVGPETPDIANLQRGADFVRAFLCGFEVD 135

Query: 104 DALALLRLDNLFIESFEIKDVKTLKGDHLSRAIGRLAGKGGRTKFTIENITKTRIVIADS 163
           DALALLRL++LF+ESFEIKDVKTL+GDH SRAIGRLAGKGGRTKFTIEN+TKTRIV+ADS
Sbjct: 136 DALALLRLEDLFVESFEIKDVKTLRGDHQSRAIGRLAGKGGRTKFTIENVTKTRIVLADS 195

Query: 164 KIHVLGSYQNVQVALKALSNLILGSPPNKVYGGILCSRCR 203
           KIH+LGSYQN+Q+A +A+ NLILGSPP+KVYG +     R
Sbjct: 196 KIHILGSYQNIQLARRAVCNLILGSPPSKVYGNLRAVASR 235

Source: Drosophila melanogaster

Species: Drosophila melanogaster

Genus: Drosophila

Family: Drosophilidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|195482061|ref|XP_002101893.1| GE17874 [Drosophila yakuba] gi|194189417|gb|EDX03001.1| GE17874 [Drosophila yakuba]

 Score =  291 bits (744), Expect = 1e-75,   Method: Compositional matrix adjust.
 Identities = 141/221 (63%), Positives = 173/221 (78%), Gaps = 20/221 (9%)

Query: 2   KTTKRSADA-------MEVDDAKAQE------------PAVKKAKHVDMRKVPVPNHRYG 42
           + TKR A         M+VD+A   E            P  K+AK  ++RKV VP HRY 
Sbjct: 16  RATKRGATGGGQQDVEMQVDEATGIEGQVLGSSRASAPPKAKRAKS-ELRKVSVPPHRYS 74

Query: 43  PLKENWMKIFTPIVEHLKLQVRFNLKSRNVEIRLSPETEDISNLQKAADFVKAFVYGFDV 102
            LKE+WMKIFTP+VEH+KLQ+RFN+K+R VE+R+ PET DI+NLQ+ ADFV+AF+ GF+V
Sbjct: 75  SLKEHWMKIFTPVVEHMKLQIRFNMKARQVELRVGPETPDIANLQRGADFVRAFLCGFEV 134

Query: 103 DDALALLRLDNLFIESFEIKDVKTLKGDHLSRAIGRLAGKGGRTKFTIENITKTRIVIAD 162
           DDALALLRL++LF+ESFEIKDVKTL+GDH SRAIGRLAGKGGRTKFTIEN+TKTRIV+AD
Sbjct: 135 DDALALLRLEDLFVESFEIKDVKTLRGDHQSRAIGRLAGKGGRTKFTIENVTKTRIVLAD 194

Query: 163 SKIHVLGSYQNVQVALKALSNLILGSPPNKVYGGILCSRCR 203
           SKIH+LGSYQN+Q+A +A+ NLILGSPP+KVYG +     R
Sbjct: 195 SKIHILGSYQNIQLARRAVCNLILGSPPSKVYGNLRAVASR 235

Source: Drosophila yakuba

Species: Drosophila yakuba

Genus: Drosophila

Family: Drosophilidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|194893454|ref|XP_001977879.1| GG19285 [Drosophila erecta] gi|190649528|gb|EDV46806.1| GG19285 [Drosophila erecta]

 Score =  290 bits (743), Expect = 2e-75,   Method: Compositional matrix adjust.
 Identities = 139/220 (63%), Positives = 171/220 (77%), Gaps = 18/220 (8%)

Query: 2   KTTKRSADA-------MEVDDA-----------KAQEPAVKKAKHVDMRKVPVPNHRYGP 43
           + TKR A         M+VD+A           +A  P   K    ++RKV VP HRY  
Sbjct: 16  RATKRGATGGGQQDVEMQVDEATGIEGQVLGSSRASAPPKAKRARSELRKVSVPPHRYSS 75

Query: 44  LKENWMKIFTPIVEHLKLQVRFNLKSRNVEIRLSPETEDISNLQKAADFVKAFVYGFDVD 103
           LKE+WMKIFTP+VEH+KLQ+RFN+K+R VE+R+ PET DI+NLQ+ ADFV+AF+ GF+VD
Sbjct: 76  LKEHWMKIFTPVVEHMKLQIRFNMKARQVELRVGPETPDIANLQRGADFVRAFLCGFEVD 135

Query: 104 DALALLRLDNLFIESFEIKDVKTLKGDHLSRAIGRLAGKGGRTKFTIENITKTRIVIADS 163
           DALALLRL++LF+ESFEIKDVKTL+GDH SRAIGRLAGKGGRTKFTIEN+TKTRIV+ADS
Sbjct: 136 DALALLRLEDLFVESFEIKDVKTLRGDHQSRAIGRLAGKGGRTKFTIENVTKTRIVLADS 195

Query: 164 KIHVLGSYQNVQVALKALSNLILGSPPNKVYGGILCSRCR 203
           KIH+LGSYQN+Q+A +A+ NLILGSPP+KVYG +     R
Sbjct: 196 KIHILGSYQNIQLARRAVCNLILGSPPSKVYGNLRAVASR 235

Source: Drosophila erecta

Species: Drosophila erecta

Genus: Drosophila

Family: Drosophilidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|125983726|ref|XP_001355628.1| GA11169 [Drosophila pseudoobscura pseudoobscura] gi|121993943|sp|Q29IG6.1|PNO1_DROPS RecName: Full=RNA-binding protein pno1 gi|54643944|gb|EAL32687.1| GA11169 [Drosophila pseudoobscura pseudoobscura]

 Score =  289 bits (740), Expect = 3e-75,   Method: Compositional matrix adjust.
 Identities = 142/218 (65%), Positives = 172/218 (78%), Gaps = 16/218 (7%)

Query: 2   KTTKRSA-----DAMEVDDAKA---------QEPAVKKAKHV--DMRKVPVPNHRYGPLK 45
           K  KRSA       M+VD A           Q  A  +AK +  ++RKV VP HRY  LK
Sbjct: 16  KAQKRSAVNNQDTEMQVDQATGIEGLVAGSTQASAPPRAKRIKSELRKVSVPPHRYSSLK 75

Query: 46  ENWMKIFTPIVEHLKLQVRFNLKSRNVEIRLSPETEDISNLQKAADFVKAFVYGFDVDDA 105
           E+WMKIFTP+VEH+KLQ+RFN+K+R VE+R+ PET DI+NLQK ADFVKAF+ GF+VDDA
Sbjct: 76  EHWMKIFTPVVEHMKLQIRFNMKARQVELRVGPETPDIANLQKGADFVKAFLCGFEVDDA 135

Query: 106 LALLRLDNLFIESFEIKDVKTLKGDHLSRAIGRLAGKGGRTKFTIENITKTRIVIADSKI 165
           LALLRL++LF+E+FEIKDVKTL+GDH SRAIGRLAGKGGRTKFTIEN+TKTRIV+ADSKI
Sbjct: 136 LALLRLEDLFVETFEIKDVKTLRGDHQSRAIGRLAGKGGRTKFTIENVTKTRIVLADSKI 195

Query: 166 HVLGSYQNVQVALKALSNLILGSPPNKVYGGILCSRCR 203
           H+LGSYQN+Q+A +A+ NLILGSPP+KVYG +     R
Sbjct: 196 HILGSYQNIQLARRAICNLILGSPPSKVYGNLRSVASR 233

Source: Drosophila pseudoobscura pseudoobscura

Species: Drosophila pseudoobscura

Genus: Drosophila

Family: Drosophilidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|195042231|ref|XP_001991391.1| GH12628 [Drosophila grimshawi] gi|193901149|gb|EDW00016.1| GH12628 [Drosophila grimshawi]

 Score =  288 bits (736), Expect = 1e-74,   Method: Compositional matrix adjust.
 Identities = 141/214 (65%), Positives = 171/214 (79%), Gaps = 18/214 (8%)

Query: 2   KTTKRSA-------DAMEVDDAKAQE---------PAVKKAKHV--DMRKVPVPNHRYGP 43
           K  KRSA       + M+VD A   E          A  +AK +  ++RKV VP HRY  
Sbjct: 16  KAQKRSAVVDAQDSNEMQVDAATGIEGIQRASSGQAAPPRAKRIRSELRKVSVPPHRYSS 75

Query: 44  LKENWMKIFTPIVEHLKLQVRFNLKSRNVEIRLSPETEDISNLQKAADFVKAFVYGFDVD 103
           LK+ WMKIFTP+VEH+KLQ+RFN+K+R VE+R+ PET DISNLQ+ ADFVKAF+ GF+VD
Sbjct: 76  LKDQWMKIFTPVVEHMKLQIRFNMKARQVELRIGPETPDISNLQRGADFVKAFLCGFEVD 135

Query: 104 DALALLRLDNLFIESFEIKDVKTLKGDHLSRAIGRLAGKGGRTKFTIENITKTRIVIADS 163
           DALALLRL++LFIE+FEIKDVKTL+GDH SRAIGRLAGKGGRTKFTIEN+TKTRIV+ADS
Sbjct: 136 DALALLRLEDLFIETFEIKDVKTLRGDHQSRAIGRLAGKGGRTKFTIENVTKTRIVLADS 195

Query: 164 KIHVLGSYQNVQVALKALSNLILGSPPNKVYGGI 197
           KIH+LGSYQN+Q+A +A+ NLILGSPP+KVYG +
Sbjct: 196 KIHILGSYQNIQLARRAICNLILGSPPSKVYGNL 229

Source: Drosophila grimshawi

Species: Drosophila grimshawi

Genus: Drosophila

Family: Drosophilidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|195134236|ref|XP_002011543.1| GI11042 [Drosophila mojavensis] gi|193906666|gb|EDW05533.1| GI11042 [Drosophila mojavensis]

 Score =  288 bits (736), Expect = 1e-74,   Method: Compositional matrix adjust.
 Identities = 141/217 (64%), Positives = 172/217 (79%), Gaps = 15/217 (6%)

Query: 2   KTTKRSADA------MEVDDA-------KAQEPAVKKAKHV--DMRKVPVPNHRYGPLKE 46
           K  KR+A+A      M+VD A       ++      K K +  ++RKV VP HRY  LKE
Sbjct: 16  KAKKRNANASDQDVEMQVDAATGIEGKERSSHGQASKPKRIRSEIRKVAVPPHRYSSLKE 75

Query: 47  NWMKIFTPIVEHLKLQVRFNLKSRNVEIRLSPETEDISNLQKAADFVKAFVYGFDVDDAL 106
            WMKIFTP+VEH+KLQ+RFN+K+R VE+R+ PET DISNLQK ADFVKAF+ GFDVDDAL
Sbjct: 76  QWMKIFTPVVEHMKLQIRFNIKTRQVELRIGPETPDISNLQKGADFVKAFLCGFDVDDAL 135

Query: 107 ALLRLDNLFIESFEIKDVKTLKGDHLSRAIGRLAGKGGRTKFTIENITKTRIVIADSKIH 166
           ALLRL++LFIE+FEI+DVKTL+GDH SRAIGRLAGKGGRTKFTIEN+TKTRIV+ADSKIH
Sbjct: 136 ALLRLEDLFIETFEIRDVKTLRGDHQSRAIGRLAGKGGRTKFTIENVTKTRIVLADSKIH 195

Query: 167 VLGSYQNVQVALKALSNLILGSPPNKVYGGILCSRCR 203
           +LGSY+N+Q+A +A+ NLILGSPP+KVYG +     R
Sbjct: 196 ILGSYKNIQLARRAICNLILGSPPSKVYGNLRAVASR 232

Source: Drosophila mojavensis

Species: Drosophila mojavensis

Genus: Drosophila

Family: Drosophilidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	766
FB|FBgn0036839	530	CG18136 [Drosophila melanogast	0.386	0.558	0.439	2.3e-72
UNIPROTKB|Q29IG6	238	l(1)G0004 "RNA-binding protein	0.229	0.739	0.677	1.1e-62
FB|FBgn0027334	240	l(1)G0004 "lethal (1) G0004" [	0.237	0.758	0.653	1.4e-62
UNIPROTKB|Q8AVH4	236	pno1 "RNA-binding protein PNO1	0.219	0.711	0.696	3.4e-61
UNIPROTKB|Q6DDB9	236	pno1 "RNA-binding protein PNO1	0.219	0.711	0.690	1.9e-60
UNIPROTKB|F1NGE6	251	PNO1 "RNA-binding protein PNO1	0.219	0.669	0.690	3.9e-60
UNIPROTKB|Q5F414	242	PNO1 "RNA-binding protein PNO1	0.219	0.694	0.690	3.9e-60
UNIPROTKB|E1BTT0	242	PNO1 "RNA-binding protein PNO1	0.219	0.694	0.684	8.1e-60
UNIPROTKB|Q9NRX1	252	PNO1 "RNA-binding protein PNO1	0.219	0.666	0.684	2.7e-59
UNIPROTKB|Q6VBQ6	243	pno1 "RNA-binding protein PNO1	0.219	0.691	0.684	3.5e-59

FB|FBgn0036839 CG18136 [Drosophila melanogaster (taxid:7227)]

 Score = 685 (246.2 bits), Expect = 2.3e-72, Sum P(2) = 2.3e-72
 Identities = 135/307 (43%), Positives = 187/307 (60%)

Query:   317 CEVCKVAASLKCGGCNQVFYCSKSHQKQHWKE-HKPGCAKYKVVRNDILGRHMVATKDIR 375
             C +C+  AS  C  C  V YCS+ HQK+HWK+ H+  C  +++  N++LGRH+ AT+DI+
Sbjct:     9 CALCQAKASQLCAACRNVVYCSREHQKEHWKKGHRSECQCFEIATNEVLGRHLRATRDIK 68

Query:   376 EGEIILEEKPLVVGPKTASVPLCLGCHRTLKPTSMEENEPL-SFYKCSDCGWPLCAPRCK 434
              GE IL+E PLV+GPK AS PLCLGCHR L    +   +P  +++KCS C WPLC   C+
Sbjct:    69 IGEQILKEAPLVLGPKVASAPLCLGCHRNL----LAPGKPRGNYHKCSSCSWPLCGKECE 124

Query:   435 SLPSHQKECKLMKDNQYKSTIQFE--NETKKESAYCCIAXXXXXXXXXXXXXXXXXXXXX 492
                 H+ EC+LM  + ++S I +    E +KESAYC I                      
Sbjct:   125 DSVHHKAECQLMSGSNFQSKINYVPGEEERKESAYCVIMLLRCMHLKDKDPDAFLKLYNL 184

Query:   493 XDAHLNERINTKLYEIYRVNLVRFIKDVLHM-DVSEETILRIAGILDTNAFDIRRSVGKI 551
              D HL ER+ T LY++ R NL+ FIK VL M D  E  ILRIA ILDTN F++R+   + 
Sbjct:   185 ED-HLKERLETPLYQVLRANLITFIKTVLGMKDWPEMDILRIAAILDTNTFEVRQPRERR 243

Query:   552 KIRGIYMKTAMLSHNCKPNTKHVIVNEDFSLQLIALVNICKGDIISTTYTQPFWGTMDRR 611
             KIR +Y   AM+SH+C PN +H   ++D ++  +A   I KG+I+S +YTQP   T+ RR
Sbjct:   244 KIRALYPGAAMISHDCVPNMRHRF-DDDMNIVFLAKRKIAKGEILSISYTQPLRSTIQRR 302

Query:   612 LHLRMSK 618
             +HLR +K
Sbjct:   303 VHLRQAK 309

GO:0008270 "zinc ion binding" evidence=IEA

GO:0010629 "negative regulation of gene expression" evidence=ISS

GO:0042826 "histone deacetylase binding" evidence=ISS

UNIPROTKB|Q29IG6 l(1)G0004 "RNA-binding protein pno1" [Drosophila pseudoobscura pseudoobscura (taxid:46245)]

 Score = 640 (230.4 bits), Expect = 1.1e-62, P = 1.1e-62
 Identities = 120/177 (67%), Positives = 145/177 (81%)

Query:    21 PAVKKAKHVDMRKVPVPNHRYGPLKENWMKIFTPIVEHLKLQVRFNLKSRNVEIRLSPET 80
             P  K+ K  ++RKV VP HRY  LKE+WMKIFTP+VEH+KLQ+RFN+K+R VE+R+ PET
Sbjct:    52 PRAKRIKS-ELRKVSVPPHRYSSLKEHWMKIFTPVVEHMKLQIRFNMKARQVELRVGPET 110

Query:    81 EDISNLQKAADFVKAFVYGFXXXXXXXXXXXXXXFIESFEIKDVKTLKGDHLSRAIGRLA 140
              DI+NLQK ADFVKAF+ GF              F+E+FEIKDVKTL+GDH SRAIGRLA
Sbjct:   111 PDIANLQKGADFVKAFLCGFEVDDALALLRLEDLFVETFEIKDVKTLRGDHQSRAIGRLA 170

Query:   141 GKGGRTKFTIENITKTRIVIADSKIHVLGSYQNVQVALKALSNLILGSPPNKVYGGI 197
             GKGGRTKFTIEN+TKTRIV+ADSKIH+LGSYQN+Q+A +A+ NLILGSPP+KVYG +
Sbjct:   171 GKGGRTKFTIENVTKTRIVLADSKIHILGSYQNIQLARRAICNLILGSPPSKVYGNL 227

GO:0003674 "molecular_function" evidence=ND

GO:0005730 "nucleolus" evidence=ISS

GO:0008150 "biological_process" evidence=ND

FB|FBgn0027334 l(1)G0004 "lethal (1) G0004" [Drosophila melanogaster (taxid:7227)]

 Score = 639 (230.0 bits), Expect = 1.4e-62, P = 1.4e-62
 Identities = 119/182 (65%), Positives = 146/182 (80%)

Query:    16 AKAQEPAVKKAKHVDMRKVPVPNHRYGPLKENWMKIFTPIVEHLKLQVRFNLKSRNVEIR 75
             ++A  P   K    ++RKV VP HRY  LKE+WMKIFTP+VEH+KLQ+RFN+K+R VE+R
Sbjct:    48 SRASAPPKAKRARSELRKVSVPPHRYSSLKEHWMKIFTPVVEHMKLQIRFNMKARQVELR 107

Query:    76 LSPETEDISNLQKAADFVKAFVYGFXXXXXXXXXXXXXXFIESFEIKDVKTLKGDHLSRA 135
             + PET DI+NLQ+ ADFV+AF+ GF              F+ESFEIKDVKTL+GDH SRA
Sbjct:   108 VGPETPDIANLQRGADFVRAFLCGFEVDDALALLRLEDLFVESFEIKDVKTLRGDHQSRA 167

Query:   136 IGRLAGKGGRTKFTIENITKTRIVIADSKIHVLGSYQNVQVALKALSNLILGSPPNKVYG 195
             IGRLAGKGGRTKFTIEN+TKTRIV+ADSKIH+LGSYQN+Q+A +A+ NLILGSPP+KVYG
Sbjct:   168 IGRLAGKGGRTKFTIENVTKTRIVLADSKIHILGSYQNIQLARRAVCNLILGSPPSKVYG 227

Query:   196 GI 197
              +
Sbjct:   228 NL 229

GO:0003729 "mRNA binding" evidence=ISS

GO:0003723 "RNA binding" evidence=IEA

GO:0005730 "nucleolus" evidence=ISS

GO:0022008 "neurogenesis" evidence=IMP

UNIPROTKB|Q8AVH4 pno1 "RNA-binding protein PNO1" [Xenopus laevis (taxid:8355)]

 Score = 626 (225.4 bits), Expect = 3.4e-61, P = 3.4e-61
 Identities = 117/168 (69%), Positives = 139/168 (82%)

Query:    30 DMRKVPVPNHRYGPLKENWMKIFTPIVEHLKLQVRFNLKSRNVEIRLSPETEDISNLQKA 89
             +MRK+PVP+HRY PLKENWMKIFTPIVEHL+LQVRFNLKSRNVEI+   ET D+  L KA
Sbjct:    58 EMRKIPVPSHRYTPLKENWMKIFTPIVEHLQLQVRFNLKSRNVEIKTCKETTDVGALTKA 117

Query:    90 ADFVKAFVYGFXXXXXXXXXXXXXXFIESFEIKDVKTLKGDHLSRAIGRLAGKGGRTKFT 149
             ADFV+AF+ GF              F+ESFE+ DVK LKGDHLSRAIGR+AGKGG+TKFT
Sbjct:   118 ADFVRAFILGFQVEDALALVRLDDLFLESFEVTDVKPLKGDHLSRAIGRIAGKGGKTKFT 177

Query:   150 IENITKTRIVIADSKIHVLGSYQNVQVALKALSNLILGSPPNKVYGGI 197
             IEN+TKTRIV+ADSKIH++GS+QN+++A  A+ NLILGSPP+KVYG I
Sbjct:   178 IENVTKTRIVLADSKIHIMGSFQNIKMARTAICNLILGSPPSKVYGNI 225

GO:0005730 "nucleolus" evidence=ISS

UNIPROTKB|Q6DDB9 pno1 "RNA-binding protein PNO1" [Xenopus (Silurana) tropicalis (taxid:8364)]

 Score = 619 (223.0 bits), Expect = 1.9e-60, P = 1.9e-60
 Identities = 116/168 (69%), Positives = 138/168 (82%)

Query:    30 DMRKVPVPNHRYGPLKENWMKIFTPIVEHLKLQVRFNLKSRNVEIRLSPETEDISNLQKA 89
             +MRKVPVP+HRY PLKENWMKIFTPIVEHL+LQVRFNLK+RNVEI+   ET D+  L KA
Sbjct:    58 EMRKVPVPSHRYTPLKENWMKIFTPIVEHLQLQVRFNLKTRNVEIKTCKETTDVGALTKA 117

Query:    90 ADFVKAFVYGFXXXXXXXXXXXXXXFIESFEIKDVKTLKGDHLSRAIGRLAGKGGRTKFT 149
              DFV+AF+ GF              F+ESFE+ DVK LKGDHLSRAIGR+AGKGG+TKFT
Sbjct:   118 TDFVRAFILGFQVEDALALVRLDDLFLESFEVTDVKPLKGDHLSRAIGRIAGKGGKTKFT 177

Query:   150 IENITKTRIVIADSKIHVLGSYQNVQVALKALSNLILGSPPNKVYGGI 197
             IEN+T+TRIV+ADSKIH+LGS+QN+++A  A+ NLILGSPP+KVYG I
Sbjct:   178 IENVTRTRIVLADSKIHILGSFQNIKMARTAICNLILGSPPSKVYGNI 225

GO:0005730 "nucleolus" evidence=ISS

UNIPROTKB|F1NGE6 PNO1 "RNA-binding protein PNO1" [Gallus gallus (taxid:9031)]

 Score = 616 (221.9 bits), Expect = 3.9e-60, P = 3.9e-60
 Identities = 116/168 (69%), Positives = 140/168 (83%)

Query:    30 DMRKVPVPNHRYGPLKENWMKIFTPIVEHLKLQVRFNLKSRNVEIRLSPETEDISNLQKA 89
             ++RKVPVP +RY PLKENWMKIFTPIVEHL+LQ+RFNLK+RNVEI+   ET+D+S L KA
Sbjct:    73 EVRKVPVPANRYTPLKENWMKIFTPIVEHLQLQIRFNLKTRNVEIKTCSETKDLSALTKA 132

Query:    90 ADFVKAFVYGFXXXXXXXXXXXXXXFIESFEIKDVKTLKGDHLSRAIGRLAGKGGRTKFT 149
             ADFVKAF+ GF              F+ESFE+ DVK LKGDHLSRAIGR+AGKGG+TKFT
Sbjct:   133 ADFVKAFILGFQVEDALALIRLDDLFLESFEVTDVKPLKGDHLSRAIGRIAGKGGKTKFT 192

Query:   150 IENITKTRIVIADSKIHVLGSYQNVQVALKALSNLILGSPPNKVYGGI 197
             IEN+T+TRIV+ADSKIH+LGS+QN+++A  A+ NLILGSPP+KVYG I
Sbjct:   193 IENVTRTRIVLADSKIHILGSFQNIKMARTAICNLILGSPPSKVYGNI 240

GO:0003723 "RNA binding" evidence=IEA

GO:0005730 "nucleolus" evidence=IEA

UNIPROTKB|Q5F414 PNO1 "RNA-binding protein PNO1" [Gallus gallus (taxid:9031)]

 Score = 616 (221.9 bits), Expect = 3.9e-60, P = 3.9e-60
 Identities = 116/168 (69%), Positives = 140/168 (83%)

Query:    30 DMRKVPVPNHRYGPLKENWMKIFTPIVEHLKLQVRFNLKSRNVEIRLSPETEDISNLQKA 89
             ++RKVPVP +RY PLKENWMKIFTPIVEHL+LQ+RFNLK+RNVEI+   ET+D+S L KA
Sbjct:    64 EVRKVPVPANRYTPLKENWMKIFTPIVEHLQLQIRFNLKTRNVEIKTCSETKDLSALTKA 123

Query:    90 ADFVKAFVYGFXXXXXXXXXXXXXXFIESFEIKDVKTLKGDHLSRAIGRLAGKGGRTKFT 149
             ADFVKAF+ GF              F+ESFE+ DVK LKGDHLSRAIGR+AGKGG+TKFT
Sbjct:   124 ADFVKAFILGFQVEDALALIRLDDLFLESFEVTDVKPLKGDHLSRAIGRIAGKGGKTKFT 183

Query:   150 IENITKTRIVIADSKIHVLGSYQNVQVALKALSNLILGSPPNKVYGGI 197
             IEN+T+TRIV+ADSKIH+LGS+QN+++A  A+ NLILGSPP+KVYG I
Sbjct:   184 IENVTRTRIVLADSKIHILGSFQNIKMARTAICNLILGSPPSKVYGNI 231

GO:0003723 "RNA binding" evidence=IEA

GO:0005730 "nucleolus" evidence=ISS

UNIPROTKB|E1BTT0 PNO1 "RNA-binding protein PNO1" [Gallus gallus (taxid:9031)]

 Score = 613 (220.8 bits), Expect = 8.1e-60, P = 8.1e-60
 Identities = 115/168 (68%), Positives = 140/168 (83%)

Query:    30 DMRKVPVPNHRYGPLKENWMKIFTPIVEHLKLQVRFNLKSRNVEIRLSPETEDISNLQKA 89
             ++RKVPVP +RY PLKENWMKIFTPIVEHL+LQ+RFNLK+RNVEI+   ET+D+S L KA
Sbjct:    64 EVRKVPVPANRYTPLKENWMKIFTPIVEHLQLQIRFNLKTRNVEIKTCSETKDLSALTKA 123

Query:    90 ADFVKAFVYGFXXXXXXXXXXXXXXFIESFEIKDVKTLKGDHLSRAIGRLAGKGGRTKFT 149
             ADFVKAF+ GF              F+ESFE+ DVK LKGDHLSRAIGR+AGKGG+TKFT
Sbjct:   124 ADFVKAFILGFQVEDALALIRLDDLFLESFEVTDVKPLKGDHLSRAIGRIAGKGGKTKFT 183

Query:   150 IENITKTRIVIADSKIHVLGSYQNVQVALKALSNLILGSPPNKVYGGI 197
             IEN+T+TRIV+ADSKIH+LGS+QN+++A  A+ NLILG+PP+KVYG I
Sbjct:   184 IENVTRTRIVLADSKIHILGSFQNIKMARTAICNLILGNPPSKVYGNI 231

GO:0003723 "RNA binding" evidence=IEA

UNIPROTKB|Q9NRX1 PNO1 "RNA-binding protein PNO1" [Homo sapiens (taxid:9606)]

 Score = 608 (219.1 bits), Expect = 2.7e-59, P = 2.7e-59
 Identities = 115/168 (68%), Positives = 137/168 (81%)

Query:    30 DMRKVPVPNHRYGPLKENWMKIFTPIVEHLKLQVRFNLKSRNVEIRLSPETEDISNLQKA 89
             + RK+PVP +RY PLKENWMKIFTPIVEHL LQ+RFNLKSRNVEIR   ET+D+S L KA
Sbjct:    74 ETRKIPVPANRYTPLKENWMKIFTPIVEHLGLQIRFNLKSRNVEIRTCKETKDVSALTKA 133

Query:    90 ADFVKAFVYGFXXXXXXXXXXXXXXFIESFEIKDVKTLKGDHLSRAIGRLAGKGGRTKFT 149
             ADFVKAF+ GF              F+ESFEI DVK LKGDHLSRAIGR+AGKGG+TKFT
Sbjct:   134 ADFVKAFILGFQVEDALALIRLDDLFLESFEITDVKPLKGDHLSRAIGRIAGKGGKTKFT 193

Query:   150 IENITKTRIVIADSKIHVLGSYQNVQVALKALSNLILGSPPNKVYGGI 197
             IEN+T+TRIV+AD K+H+LGS+QN+++A  A+ NLILG+PP+KVYG I
Sbjct:   194 IENVTRTRIVLADVKVHILGSFQNIKMARTAICNLILGNPPSKVYGNI 241

GO:0003723 "RNA binding" evidence=IEA

GO:0005730 "nucleolus" evidence=IDA

UNIPROTKB|Q6VBQ6 pno1 "RNA-binding protein PNO1" [Oryzias latipes (taxid:8090)]

 Score = 607 (218.7 bits), Expect = 3.5e-59, P = 3.5e-59
 Identities = 115/168 (68%), Positives = 139/168 (82%)

Query:    30 DMRKVPVPNHRYGPLKENWMKIFTPIVEHLKLQVRFNLKSRNVEIRLSPETEDISNLQKA 89
             +MRKV VP HRY PLKENW+KIFTPIVE+L+LQVRFNLK+RNVEI+   ET+DI+ L KA
Sbjct:    65 EMRKVAVPAHRYTPLKENWLKIFTPIVENLQLQVRFNLKTRNVEIKTCKETQDIAALTKA 124

Query:    90 ADFVKAFVYGFXXXXXXXXXXXXXXFIESFEIKDVKTLKGDHLSRAIGRLAGKGGRTKFT 149
             ADF+KAFV GF              F+ESF++ DVK LKGDHLSRAIGR+AGKGG+TKFT
Sbjct:   125 ADFIKAFVLGFQVDDAMALIRLDELFLESFDVTDVKPLKGDHLSRAIGRIAGKGGKTKFT 184

Query:   150 IENITKTRIVIADSKIHVLGSYQNVQVALKALSNLILGSPPNKVYGGI 197
             IEN+TKTRIV+AD+KIH+LGS+QN+++A  A+ NLILGSPP+KVYG I
Sbjct:   185 IENVTKTRIVLADTKIHILGSFQNIKMARTAICNLILGSPPSKVYGNI 232

GO:0005730 "nucleolus" evidence=ISS

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

ID	Name	Annotated EC number	Identity	Query coverage	Hit coverage	RBH(Q2H)	RBH(H2Q)
Q6C7G0	PNO1_YARLI	No assigned EC number	0.6	0.2258	0.6705	yes	N/A
O18216	PNO1_CAEEL	No assigned EC number	0.5979	0.2519	0.6967	yes	N/A
Q9NRX1	PNO1_HUMAN	No assigned EC number	0.7241	0.2271	0.6904	yes	N/A
Q753C6	PNO1_ASHGO	No assigned EC number	0.6193	0.2284	0.6554	yes	N/A
Q99216	PNO1_YEAST	No assigned EC number	0.6114	0.2271	0.6350	yes	N/A
Q9CPS7	PNO1_MOUSE	No assigned EC number	0.7183	0.2271	0.7016	yes	N/A
Q4WNG7	PNO1_ASPFU	No assigned EC number	0.6176	0.2206	0.6706	yes	N/A
Q2UMG1	PNO1_ASPOR	No assigned EC number	0.6348	0.2284	0.6730	yes	N/A
Q6FMB3	PNO1_CANGA	No assigned EC number	0.5645	0.2624	0.7701	yes	N/A
Q6DDB9	PNO1_XENTR	No assigned EC number	0.7298	0.2271	0.7372	yes	N/A
O14044	PNO1_SCHPO	No assigned EC number	0.5873	0.2402	0.7634	yes	N/A
Q7YRD0	PNO1_BOVIN	No assigned EC number	0.7183	0.2271	0.6904	yes	N/A
P0CO46	PNO1_CRYNJ	No assigned EC number	0.5747	0.2271	0.6541	yes	N/A
Q6CUA5	PNO1_KLULA	No assigned EC number	0.5707	0.2624	0.7335	yes	N/A
Q6VEU3	PNO1_DANRE	No assigned EC number	0.7126	0.2271	0.6904	yes	N/A
Q5F414	PNO1_CHICK	No assigned EC number	0.7298	0.2271	0.7190	yes	N/A
Q9VR89	PNO1_DROME	No assigned EC number	0.6318	0.2637	0.8416	yes	N/A
Q4IN63	PNO1_GIBZE	No assigned EC number	0.5828	0.2284	0.6862	yes	N/A
Q6VBQ8	PNO1_RAT	No assigned EC number	0.7241	0.2271	0.7016	yes	N/A
Q6BJ75	PNO1_DEBHA	No assigned EC number	0.6201	0.2310	0.6941	yes	N/A
Q29IG6	PNO1_DROPS	No assigned EC number	0.6513	0.2637	0.8487	yes	N/A
Q54K66	PNO1_DICDI	No assigned EC number	0.5384	0.2624	0.8410	yes	N/A
Q5B0Z5	PNO1_EMENI	No assigned EC number	0.6416	0.2245	0.6666	yes	N/A

EC Number Prediction by EFICAz Software

Prediction Level	EC number	Confidence of Prediction
3rd Layer	2.1.1	LOW CONFIDENCE prediction!

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database

ID	Length	Definition	E-value
Query	766
COG1094	194	COG1094, COG1094, Predicted RNA-binding protein (c	6e-53
TIGR03665	172	TIGR03665, arCOG04150, arCOG04150 universal archae	4e-24
PRK13763	180	PRK13763, PRK13763, putative RNA-processing protei	8e-23
pfam01753	39	pfam01753, zf-MYND, MYND finger	3e-10
pfam00013	59	pfam00013, KH_1, KH domain	1e-05
smart00322	68	smart00322, KH, K homology RNA-binding domain	2e-04
pfam00856	113	pfam00856, SET, SET domain	0.002

>gnl|CDD|224019 COG1094, COG1094, Predicted RNA-binding protein (contains KH domains) [General function prediction only]

 Score =  181 bits (462), Expect = 6e-53
 Identities = 61/164 (37%), Positives = 94/164 (57%), Gaps = 1/164 (0%)

Query: 31  MRKVPVPNHRYGPLKENWMKIFTPIVEHLKLQVRFNLKSRNVEIRLSPETEDISNLQKAA 90
              V +P  R G L   W ++   I E   +++R + K+ +V IR + +TED   L KA 
Sbjct: 9   SEAVKIPKDRIGVLIGKWGEVKKAIEEKTGVKLRIDSKTGSVTIRTTRKTEDPLALLKAR 68

Query: 91  DFVKAFVYGFDVDDALALLRLDNLFIESFEIKDVKTLKGDHLSRAIGRLAGKGGRTKFTI 150
           D VKA   GF  + AL LL  D+ ++E  ++KDV TL GDHL R  GR+ G+ G+T+  I
Sbjct: 69  DVVKAIGRGFPPEKALKLLE-DDYYLEVIDLKDVVTLSGDHLRRIKGRIIGREGKTRRAI 127

Query: 151 ENITKTRIVIADSKIHVLGSYQNVQVALKALSNLILGSPPNKVY 194
           E +T   I +    + ++G ++ V++A +A+  LI G+P  KVY
Sbjct: 128 EELTGVYISVYGKTVAIIGGFEQVEIAREAVEMLINGAPHGKVY 171

Length = 194

>gnl|CDD|211858 TIGR03665, arCOG04150, arCOG04150 universal archaeal KH domain protein

 Score = 99.2 bits (248), Expect = 4e-24
 Identities = 43/135 (31%), Positives = 73/135 (54%), Gaps = 2/135 (1%)

Query: 60  KLQVRFNLKSRNVEIRLSPETEDISNLQKAADFVKAFVYGFDVDDALALLRLDNLFIESF 119
           +  V+ ++ S   E+++  E ED   + KA + VKA   GF  + AL LL  D+  +E  
Sbjct: 26  RTGVKLDIDSETGEVKIEEEDEDPLAVMKAREVVKAIGRGFSPEKALKLLD-DDYMLEVI 84

Query: 120 EIKDVKTLKGDHLSRAIGRLAGKGGRTKFTIENITKTRIVIADSKIHVLGSYQNVQVALK 179
           ++K+      + L R  GR+ G+GG+T+  IE +T   I +    + ++G  + VQ+A +
Sbjct: 85  DLKEY-GKSPNALRRIKGRIIGEGGKTRRIIEELTGVSISVYGKTVGIIGDPEQVQIARE 143

Query: 180 ALSNLILGSPPNKVY 194
           A+  LI G+P   VY
Sbjct: 144 AIEMLIEGAPHGTVY 158

This family of proteins is universal among the 41 archaeal genomes analyzed in and is not observed outside of the archaea. The proteins contain a single KH domain (pfam00013) which is likely to confer the ability to bind RNA. Length = 172

>gnl|CDD|237494 PRK13763, PRK13763, putative RNA-processing protein; Provisional

 Score = 95.7 bits (239), Expect = 8e-23
 Identities = 50/162 (30%), Positives = 80/162 (49%), Gaps = 5/162 (3%)

Query: 34  VPVPNHRYGPLKENWMKIFTPIVEHLKLQVRFNLKSRNVEIRLSP-ETEDISNLQKAADF 92
           V +P  R G L     +    I E  +  V+  + S   E+ + P + ED   + KA D 
Sbjct: 7   VKIPKDRIGVLIGKKGETKKEIEE--RTGVKLEIDSETGEVIIEPTDGEDPLAVLKARDI 64

Query: 93  VKAFVYGFDVDDALALLRLDNLFIESFEIKDVKTLKGDHLSRAIGRLAGKGGRTKFTIEN 152
           VKA   GF  + AL LL  D+  +E  ++ D      + L R  GR+ G+GG+T+  IE 
Sbjct: 65  VKAIGRGFSPEKALRLLD-DDYVLEVIDLSDY-GDSPNALRRIKGRIIGEGGKTRRIIEE 122

Query: 153 ITKTRIVIADSKIHVLGSYQNVQVALKALSNLILGSPPNKVY 194
           +T   I +    + ++G  + V++A +A+  LI G+P   VY
Sbjct: 123 LTGVDISVYGKTVAIIGDPEQVEIAREAIEMLIEGAPHGTVY 164

Length = 180

>gnl|CDD|201954 pfam01753, zf-MYND, MYND finger

 Score = 55.5 bits (134), Expect = 3e-10
 Identities = 17/39 (43%), Positives = 20/39 (51%), Gaps = 2/39 (5%)

Query: 317 CEVC--KVAASLKCGGCNQVFYCSKSHQKQHWKEHKPGC 353
           C VC  +    L+C  C  V+YCSK  QK  W  HK  C
Sbjct: 1   CAVCGKEALKLLRCSRCKSVYYCSKECQKADWPYHKKEC 39

Length = 39

>gnl|CDD|215657 pfam00013, KH_1, KH domain

 Score = 42.9 bits (102), Expect = 1e-05
 Identities = 14/52 (26%), Positives = 25/52 (48%), Gaps = 3/52 (5%)

Query: 133 SRAIGRLAGKGGRTKFTIENITKTRIVIADSK---IHVLGSYQNVQVALKAL 181
              +GR+ GKGG     I   T  +I I D +   + + G+ + V+ A + +
Sbjct: 8   PDKVGRIIGKGGSNIKEIREETGVKIRIPDDRDDTVTISGTPEQVEKAKELI 59

KH motifs bind RNA in vitro. Autoantibodies to Nova, a KH domain protein, cause paraneoplastic opsoclonus ataxia. Length = 59

>gnl|CDD|197652 smart00322, KH, K homology RNA-binding domain

 Score = 40.4 bits (95), Expect = 2e-04
 Identities = 15/58 (25%), Positives = 28/58 (48%), Gaps = 5/58 (8%)

Query: 133 SRAIGRLAGKGGRTKFTIENITKTRIVI-----ADSKIHVLGSYQNVQVALKALSNLI 185
           +  +G + GKGG T   IE  T  +I I      +  + + G  +NV+ A + +  ++
Sbjct: 11  ADKVGLIIGKGGSTIKKIEEETGVKIDIPGPGSEERVVEITGPPENVEKAAELILEIL 68

Length = 68

>gnl|CDD|216155 pfam00856, SET, SET domain

 Score = 38.2 bits (89), Expect = 0.002
 Identities = 16/64 (25%), Positives = 26/64 (40%)

Query: 365 GRHMVATKDIREGEIILEEKPLVVGPKTASVPLCLGCHRTLKPTSMEENEPLSFYKCSDC 424
           GR + AT+DI +GE+I+E    ++ P+ A     L     L+    +    LS       
Sbjct: 1   GRGLFATRDIPKGELIIEYVGELITPEEAEERELLYNKEELRGLLSDLELFLSRLDSEYD 60

Query: 425 GWPL 428
               
Sbjct: 61  IDAT 64

SET domains are protein lysine methyltransferase enzymes. SET domains appear to be protein-protein interaction domains. It has been demonstrated that SET domains mediate interactions with a family of proteins that display similarity with dual-specificity phosphatases (dsPTPases). A subset of SET domains have been called PR domains. These domains are divergent in sequence from other SET domains, but also appear to mediate protein-protein interaction. The SET domain consists of two regions known as SET-N and SET-C. SET-C forms an unusual and conserved knot-like structure of probably functional importance. Additionally to SET-N and SET-C, an insert region (SET-I) and flanking regions of high structural variability form part of the overall structure. Length = 113

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	766
COG1094	194	Predicted RNA-binding protein (contains KH domains	100.0
KOG3273|consensus	252		100.0
KOG2874|consensus	356		100.0
PRK13763	180	putative RNA-processing protein; Provisional	100.0
TIGR03665	172	arCOG04150 arCOG04150 universal archaeal KH domain	100.0
KOG2084|consensus	482		99.63
KOG1676|consensus	600		99.29
KOG2193|consensus	584		99.1
PF00856	162	SET: SET domain; InterPro: IPR001214 The SET domai	99.05
PF00856	162	SET: SET domain; InterPro: IPR001214 The SET domai	99.02
smart00317	116	SET SET (Su(var)3-9, Enhancer-of-zeste, Trithorax)	98.96
KOG1676|consensus	600		98.88
PRK00106	535	hypothetical protein; Provisional	98.51
TIGR03319	514	YmdA_YtgF conserved hypothetical protein YmdA/YtgF	98.5
PF01753	37	zf-MYND: MYND finger; InterPro: IPR002893 Zinc fin	98.48
PRK12704	520	phosphodiesterase; Provisional	98.34
KOG2191|consensus	402		98.34
cd02393	61	PNPase_KH Polynucleotide phosphorylase (PNPase) K	98.19
KOG2193|consensus	584		98.14
PF00013	60	KH_1: KH domain syndrome, contains KH motifs.; Int	98.13
cd02395	120	SF1_like-KH Splicing factor 1 (SF1) K homology RNA	98.09
cd02394	62	vigilin_like_KH K homology RNA-binding domain_vigi	98.08
smart00317	116	SET SET (Su(var)3-9, Enhancer-of-zeste, Trithorax)	97.93
cd02393	61	PNPase_KH Polynucleotide phosphorylase (PNPase) K	97.92
cd00105	64	KH-I K homology RNA-binding domain, type I. KH bin	97.88
smart00322	69	KH K homology RNA-binding domain.	97.87
PRK12705	508	hypothetical protein; Provisional	97.81
KOG2589|consensus	453		97.77
cd02396	65	PCBP_like_KH K homology RNA-binding domain, PCBP_l	97.74
KOG1710|consensus	396		97.72
KOG2190|consensus	485		97.65
COG2940	480	Proteins containing SET domain [General function p	97.49
PRK13763	180	putative RNA-processing protein; Provisional	97.47
PF13014	43	KH_3: KH domain	97.44
PF00013	60	KH_1: KH domain syndrome, contains KH motifs.; Int	97.39
TIGR03665	172	arCOG04150 arCOG04150 universal archaeal KH domain	97.22
KOG1080|consensus	1005		97.15
KOG4442|consensus	729		97.15
cd02394	62	vigilin_like_KH K homology RNA-binding domain_vigi	97.15
cd02396	65	PCBP_like_KH K homology RNA-binding domain, PCBP_l	97.1
cd00105	64	KH-I K homology RNA-binding domain, type I. KH bin	96.94
KOG4442|consensus	729		96.93
KOG2589|consensus	453		96.9
KOG2190|consensus	485		96.46
PF01753	37	zf-MYND: MYND finger; InterPro: IPR002893 Zinc fin	96.43
KOG1083|consensus	1306		96.39
TIGR02696	719	pppGpp_PNP guanosine pentaphosphate synthetase I/p	96.3
cd02395	120	SF1_like-KH Splicing factor 1 (SF1) K homology RNA	96.22
smart00322	69	KH K homology RNA-binding domain.	96.22
KOG1082|consensus	364		96.13
TIGR02696	719	pppGpp_PNP guanosine pentaphosphate synthetase I/p	95.87
PRK08406	140	transcription elongation factor NusA-like protein;	95.82
PRK02821	77	hypothetical protein; Provisional	95.75
TIGR03591	684	polynuc_phos polyribonucleotide nucleotidyltransfe	95.58
KOG1588|consensus	259		95.38
KOG1337|consensus	472		95.24
KOG0119|consensus	554		95.23
PRK00468	75	hypothetical protein; Provisional	95.01
KOG3612|consensus	588		94.86
TIGR03591	684	polynuc_phos polyribonucleotide nucleotidyltransfe	94.69
COG1837	76	Predicted RNA-binding protein (contains KH domain)	94.67
COG1185	692	Pnp Polyribonucleotide nucleotidyltransferase (pol	94.43
KOG2084|consensus	482		94.26
KOG1141|consensus	1262		94.22
KOG1085|consensus	392		93.82
PRK01064	78	hypothetical protein; Provisional	93.3
PLN00207	891	polyribonucleotide nucleotidyltransferase; Provisi	93.23
KOG1080|consensus	1005		93.11
PF13083	73	KH_4: KH domain; PDB: 3GKU_B.	92.84
KOG2192|consensus	390		92.58
cd02134	61	NusA_KH NusA_K homology RNA-binding domain (KH). N	92.31
PF13824	55	zf-Mss51: Zinc-finger of mitochondrial splicing su	92.16
KOG2061|consensus	362		91.95
PRK04163	235	exosome complex RNA-binding protein Rrp4; Provisio	91.8
COG1185	692	Pnp Polyribonucleotide nucleotidyltransferase (pol	91.58
TIGR01952	141	nusA_arch NusA family KH domain protein, archaeal.	91.27
PRK11824	693	polynucleotide phosphorylase/polyadenylase; Provis	91.13
PF13014	43	KH_3: KH domain	90.93
COG5176	269	MSL5 Splicing factor (branch point binding protein	90.89
KOG1079|consensus	739		90.57
PLN00207	891	polyribonucleotide nucleotidyltransferase; Provisi	90.54
KOG2192|consensus	390		89.12
KOG2191|consensus	402		88.92
KOG2279|consensus	608		88.67
COG1094	194	Predicted RNA-binding protein (contains KH domains	87.97
PRK04163	235	exosome complex RNA-binding protein Rrp4; Provisio	87.88
COG0195	190	NusA Transcription elongation factor [Transcriptio	87.62
cd02414	77	jag_KH jag_K homology RNA-binding domain. The KH d	87.17
PF14611	210	SLS: Mitochondrial inner-membrane-bound regulator	87.03
COG2940	480	Proteins containing SET domain [General function p	86.99
KOG2814|consensus	345		86.85
COG1847	208	Jag Predicted RNA-binding protein [General functio	86.64
KOG1710|consensus	396		85.97
KOG1337|consensus	472		85.92
PLN03158	396	methionine aminopeptidase; Provisional	84.74
cd02409	68	KH-II KH-II (K homology RNA-binding domain, type I	84.05
KOG0336|consensus	629		83.83
KOG1338|consensus	466		83.13
PRK11824	693	polynucleotide phosphorylase/polyadenylase; Provis	81.19

>COG1094 Predicted RNA-binding protein (contains KH domains) [General function prediction only]

Probab=100.00  E-value=3.7e-51  Score=394.68  Aligned_cols=170  Identities=36%  Similarity=0.573  Sum_probs=166.4

Q ss_pred             ceEEEecCCCcchhhhccCcccHHHHHHhcCcEEEEEcccCeEEEEeCCCCCCHHHHHHHHHHHHHHHcCCChhhHHhhc
Q psy8224          30 DMRKVPVPNHRYGPLKENWMKIFTPIVEHLKLQVRFNLKSRNVEIRLSPETEDISNLQKAADFVKAFVYGFDVDDALALL  109 (766)
Q Consensus        30 ~~~~i~iP~~r~~~l~~~~~~i~~~i~~~~~~~i~i~~~~~~v~i~~~~~t~d~~~~~ka~~~i~ai~~gf~~~~a~~ll  109 (766)
                      +++.|+||++|+++|||+||+++++|++.++++++||+++|+|+|+++..|.||++++||+|+|+||+|||+||+|++||
T Consensus         8 ~~~~v~iPk~R~~~lig~~g~v~k~ie~~~~~~~~iD~~~~~V~i~~~~~t~Dp~~~~ka~d~VkAIgrGF~pe~A~~LL   87 (194)
T COG1094           8 SSEAVKIPKDRIGVLIGKWGEVKKAIEEKTGVKLRIDSKTGSVTIRTTRKTEDPLALLKARDVVKAIGRGFPPEKALKLL   87 (194)
T ss_pred             ceeeeecCchhheeeecccccchHHHHhhcCeEEEEECCCCeEEEEecCCCCChHHHHHHHHHHHHHhcCCCHHHHHHHh
Confidence            67889999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             ccccceeeeeeeccccccccchhhhhhccccCCCCcHHHHHHHhhCceEEEeCceEEEEcchhhHHHHHHHHHHhhcCCC
Q psy8224         110 RLDNLFIESFEIKDVKTLKGDHLSRAIGRLAGKGGRTKFTIENITKTRIVIADSKIHVLGSYQNVQVALKALSNLILGSP  189 (766)
Q Consensus       110 ~~d~~~~~~~~i~~~~~~~~~~~~r~~griiG~~G~t~~~ie~~t~~~I~v~~~~v~iiG~~~~l~~ar~~i~~~~~~~~  189 (766)
                      + ||++||+|||++++.++++|++|++|||||++|+|+++||++|||+|+|||+||+|||+|+++++||+||+||++|++
T Consensus        88 ~-d~~~levIdi~~~~~~~~~~l~R~kgRIIG~~GkTr~~IE~lt~~~I~V~g~tVaiiG~~~~v~iAr~AVemli~G~~  166 (194)
T COG1094          88 E-DDYYLEVIDLKDVVTLSGDHLRRIKGRIIGREGKTRRAIEELTGVYISVYGKTVAIIGGFEQVEIAREAVEMLINGAP  166 (194)
T ss_pred             c-CCcEEEEEEHHHhccCchhhhhHhhceeeCCCchHHHHHHHHhCCeEEEeCcEEEEecChhhhHHHHHHHHHHHcCCC
Confidence            8 699999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             Ccccccceeec
Q psy8224         190 PNKVYGGILCS  200 (766)
Q Consensus       190 p~~~~s~l~c~  200 (766)
                      |++||.+|+..
T Consensus       167 h~~Vy~fLer~  177 (194)
T COG1094         167 HGKVYKFLERK  177 (194)
T ss_pred             chhHHHHHHHH
Confidence            99999998874

>KOG3273|consensus

Probab=100.00  E-value=3.4e-49  Score=374.24  Aligned_cols=186  Identities=67%  Similarity=1.089  Sum_probs=179.6

Q ss_pred             CCCCCCccccCCCC----ceEEEecCCCcchhhhccCcccHHHHHHhcCcEEEEEcccCeEEEEeCCCCCCHHHHHHHHH
Q psy8224          16 AKAQEPAVKKAKHV----DMRKVPVPNHRYGPLKENWMKIFTPIVEHLKLQVRFNLKSRNVEIRLSPETEDISNLQKAAD   91 (766)
Q Consensus        16 ~~~~~~~~~~~~~~----~~~~i~iP~~r~~~l~~~~~~i~~~i~~~~~~~i~i~~~~~~v~i~~~~~t~d~~~~~ka~~   91 (766)
                      .+|.|+|..+.+..    ++|+|+||++|+..|+..|.+||.||+++++++|+||.+.++|+++++..|+||.+++|+.|
T Consensus        56 ~~~~~~p~~a~~~~~~k~e~Rkvpvpp~r~tplk~~W~kIytPive~lklqiRmNlK~r~VelRt~~~t~D~s~Lqk~ad  135 (252)
T KOG3273|consen   56 PKPTFAPLKAKRKRGGKIETRKVPVPPHRYTPLKDNWMKIYTPIVEHLKLQIRMNLKARSVELRTCKDTEDPSALQKGAD  135 (252)
T ss_pred             CCCCCCCccccccccCccceeeccCCcccCChHHHhhHhhhhHHHHhhhheeEeecccceeEeecCCCCCChHHHHHHHH
Confidence            55677787777763    99999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHcCCChhhHHhhcccccceeeeeeeccccccccchhhhhhccccCCCCcHHHHHHHhhCceEEEeCceEEEEcch
Q psy8224          92 FVKAFVYGFDVDDALALLRLDNLFIESFEIKDVKTLKGDHLSRAIGRLAGKGGRTKFTIENITKTRIVIADSKIHVLGSY  171 (766)
Q Consensus        92 ~i~ai~~gf~~~~a~~ll~~d~~~~~~~~i~~~~~~~~~~~~r~~griiG~~G~t~~~ie~~t~~~I~v~~~~v~iiG~~  171 (766)
                      ||+||..||+++||++||+.||+|+|.|+|+||+.++++|++|++|||+|++|+|+.+||+.|.++|+|+|.+|||+|.|
T Consensus       136 fv~Af~lGF~i~DAiALlrlddlflesFEi~dVKtL~GdHlsRAIGRiaGk~GkTkfaIEn~trtrIVlad~kIHiLG~~  215 (252)
T KOG3273|consen  136 FVRAFILGFDIDDAIALLRLDDLFLESFEIKDVKTLKGDHLSRAIGRIAGKGGKTKFAIENVTRTRIVLADSKIHILGAF  215 (252)
T ss_pred             HHHHHHhCCcchhHHHHHhhhhhhheeeeecccccccchhHHHHHHHhhcCCCcceeeeeccceeEEEecCceEEEeecc
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hhHHHHHHHHHHhhcCCCCcccccceeecc
Q psy8224         172 QNVQVALKALSNLILGSPPNKVYGGILCSR  201 (766)
Q Consensus       172 ~~l~~ar~~i~~~~~~~~p~~~~s~l~c~~  201 (766)
                      +++++||.+||.+|.|++|++||+.|+...
T Consensus       216 ~niriAR~avcsLIlGsppgkVy~~LR~va  245 (252)
T KOG3273|consen  216 QNIRIARDAVCSLILGSPPGKVYGNLRNVA  245 (252)
T ss_pred             hhhHHHHHhhHhhhccCCchhHHHHHHHHH
Confidence            999999999999999999999999998754

>KOG2874|consensus

Probab=100.00  E-value=1.4e-40  Score=330.19  Aligned_cols=204  Identities=15%  Similarity=0.250  Sum_probs=192.6

Q ss_pred             CCCCCCccccCCCC---ceEEEecCCCcchhhhccCcccHHHHHHhcCcEEEEEcccCeEEEEeCCCCCCHHHHHHHHHH
Q psy8224          16 AKAQEPAVKKAKHV---DMRKVPVPNHRYGPLKENWMKIFTPIVEHLKLQVRFNLKSRNVEIRLSPETEDISNLQKAADF   92 (766)
Q Consensus        16 ~~~~~~~~~~~~~~---~~~~i~iP~~r~~~l~~~~~~i~~~i~~~~~~~i~i~~~~~~v~i~~~~~t~d~~~~~ka~~~   92 (766)
                      ..+.|.+++++++.   ++|.+.||+||+.||++.|+.|.+.| ..+++...+|+.+|+|+|.|+.+|+|||+|+||+||
T Consensus        40 ki~~Fs~edn~~g~~EeSSfatlFPKYREkYlke~wp~v~raL-~e~~i~c~lDL~egsm~V~TtRkT~DPyIiikArdl  118 (356)
T KOG2874|consen   40 KIEKFSKEDNPHGFLEESSFATLFPKYREKYLKECWPLVERAL-DEHHIKCVLDLVEGSMTVKTTRKTRDPYIIIKARDL  118 (356)
T ss_pred             cccccCcccCccchhhhhhHHhhhHHHHHHHHHHHHHHHHHHH-HhcCcceEEeeccceeEEeecccccCceeeeeHHHH
Confidence            78899999999996   89999999999999999999997766 689999999999999999999999999999999999


Q ss_pred             HHHHHcCCChhhHHhhcccccceeeeeeeccccccccchhhhhhccccCCCCcHHHHHHHhhCceEEEeCceEEEEcchh
Q psy8224          93 VKAFVYGFDVDDALALLRLDNLFIESFEIKDVKTLKGDHLSRAIGRLAGKGGRTKFTIENITKTRIVIADSKIHVLGSYQ  172 (766)
Q Consensus        93 i~ai~~gf~~~~a~~ll~~d~~~~~~~~i~~~~~~~~~~~~r~~griiG~~G~t~~~ie~~t~~~I~v~~~~v~iiG~~~  172 (766)
                      |++++||+++++|+++|+ |+++||||+|..++++++.|+ +++.|+||++|.|+++||.+|+|||.|+|+||++||+|.
T Consensus       119 IKLlaRsVp~eqAvkiLq-Dev~CdiIkIgn~V~nkerFv-KRRqRLiGpng~TLKAlelLT~CYilVqG~TVsaiGpfk  196 (356)
T KOG2874|consen  119 IKLLARSVPFEQAVKILQ-DEVACDIIKIGNLVRNKERFV-KRRQRLIGPNGSTLKALELLTNCYILVQGNTVSAIGPFK  196 (356)
T ss_pred             HHHHHcCCCHHHHHHHHh-hccceeeeehhhhhccHHHHH-HHHHHhcCCCchhHHHHHHHhhcEEEeeCcEEEeecCcc
Confidence            999999999999999999 999999999999999998888 779999999999999999999999999999999999999


Q ss_pred             hHHHHHHHHHHhhcCCCCcccccceeecccCCceecCCCCCCCCCcccCCCCCc
Q psy8224         173 NVQVALKALSNLILGSPPNKVYGGILCSRCRHHVISTNPLDNLAKWKCIMCSHT  226 (766)
Q Consensus       173 ~l~~ar~~i~~~~~~~~p~~~~s~l~c~~c~g~~l~~~pl~~~~~W~C~~C~~~  226 (766)
                      +|+.+|+++.+||.+.||..+...|.-.    ..|..||...+.+|.-..-.++
T Consensus       197 Glkevr~IV~DcM~NiHPiY~IK~LmiK----Rel~kd~~l~ne~W~rfLP~fk  246 (356)
T KOG2874|consen  197 GLKEVRKIVEDCMKNIHPIYNIKTLMIK----RELAKDPELANEDWSRFLPQFK  246 (356)
T ss_pred             hHHHHHHHHHHHHhccchHHHHHHHHHH----HHhhcChhhccccHHHHhHHhh
Confidence            9999999999999999999988888874    6899999999999987654443

>PRK13763 putative RNA-processing protein; Provisional

Probab=100.00  E-value=2e-35  Score=292.45  Aligned_cols=167  Identities=29%  Similarity=0.414  Sum_probs=161.4

Q ss_pred             ceEEEecCCCcchhhhccCcccHHHHHHhcCcEEEEEcccCeEEEEeCCCCCCHHHHHHHHHHHHHHHcCCChhhHHhhc
Q psy8224          30 DMRKVPVPNHRYGPLKENWMKIFTPIVEHLKLQVRFNLKSRNVEIRLSPETEDISNLQKAADFVKAFVYGFDVDDALALL  109 (766)
Q Consensus        30 ~~~~i~iP~~r~~~l~~~~~~i~~~i~~~~~~~i~i~~~~~~v~i~~~~~t~d~~~~~ka~~~i~ai~~gf~~~~a~~ll  109 (766)
                      .+.+++||++|+++|||.||++++.|++++|++|+||.++|.|.|.|++ +.||.+++||+++|+||++||+||+|++++
T Consensus         3 ~~~~i~IP~~kig~iIG~gGk~Ik~I~e~tg~~I~i~~~~g~V~I~~~~-~~d~~~i~kA~~~I~ai~~gf~~e~A~~l~   81 (180)
T PRK13763          3 MMEYVKIPKDRIGVLIGKKGETKKEIEERTGVKLEIDSETGEVIIEPTD-GEDPLAVLKARDIVKAIGRGFSPEKALRLL   81 (180)
T ss_pred             ceEEEEcCHHHhhhHhccchhHHHHHHHHHCcEEEEECCCCeEEEEeCC-CCCHHHHHHHHHHHHHHhcCCCHHHHHHHh
Confidence            4678999999999999999999999999999999999999999999988 899999999999999999999999999999


Q ss_pred             ccccceeeeeeeccccccccchhhhhhccccCCCCcHHHHHHHhhCceEEEeCceEEEEcchhhHHHHHHHHHHhhcCCC
Q psy8224         110 RLDNLFIESFEIKDVKTLKGDHLSRAIGRLAGKGGRTKFTIENITKTRIVIADSKIHVLGSYQNVQVALKALSNLILGSP  189 (766)
Q Consensus       110 ~~d~~~~~~~~i~~~~~~~~~~~~r~~griiG~~G~t~~~ie~~t~~~I~v~~~~v~iiG~~~~l~~ar~~i~~~~~~~~  189 (766)
                      . |++++++|+|.++ .+++++++|++|||||++|+|+++||++|||+|.|++++|+|+|++++++.|+++|+++++|+.
T Consensus        82 g-d~y~~~Vi~i~~~-~~~~~~~~r~~griIG~~G~~~k~ie~~t~~~i~i~~~~v~i~G~~~~~~~A~~~I~~li~g~~  159 (180)
T PRK13763         82 D-DDYVLEVIDLSDY-GDSPNALRRIKGRIIGEGGKTRRIIEELTGVDISVYGKTVAIIGDPEQVEIAREAIEMLIEGAP  159 (180)
T ss_pred             C-CCceEEEEEhhhc-cCChhHHHHHhhheeCCCcHHHHHHHHHHCcEEEEcCCEEEEEeCHHHHHHHHHHHHHHHcCCC
Confidence            8 8899999999999 5778999999999999999999999999999999999999999999999999999999999999


Q ss_pred             Ccccccceee
Q psy8224         190 PNKVYGGILC  199 (766)
Q Consensus       190 p~~~~s~l~c  199 (766)
                      |+++|+.|+-
T Consensus       160 ~~~~~~~l~~  169 (180)
T PRK13763        160 HGTVYKFLER  169 (180)
T ss_pred             cHHHHHHHHH
Confidence            9999998875

>TIGR03665 arCOG04150 arCOG04150 universal archaeal KH domain protein

Probab=100.00  E-value=1.3e-35  Score=291.93  Aligned_cols=164  Identities=30%  Similarity=0.441  Sum_probs=157.4

Q ss_pred             EEecCCCcchhhhccCcccHHHHHHhcCcEEEEEcccCeEEEEeCCCCCCHHHHHHHHHHHHHHHcCCChhhHHhhcccc
Q psy8224          33 KVPVPNHRYGPLKENWMKIFTPIVEHLKLQVRFNLKSRNVEIRLSPETEDISNLQKAADFVKAFVYGFDVDDALALLRLD  112 (766)
Q Consensus        33 ~i~iP~~r~~~l~~~~~~i~~~i~~~~~~~i~i~~~~~~v~i~~~~~t~d~~~~~ka~~~i~ai~~gf~~~~a~~ll~~d  112 (766)
                      ++.||++|++.|||+||++++.|++++|++|+||.++|.|.|+  ..++||++++||++||+||++||+|++|++++. |
T Consensus         1 ~i~Ip~~kig~vIG~gG~~Ik~I~~~tgv~I~Id~~~g~V~I~--~~t~d~~~i~kA~~~I~~i~~gf~~e~A~~l~g-d   77 (172)
T TIGR03665         1 YVKIPKDRIGVLIGKGGETKKEIEERTGVKLDIDSETGEVKIE--EEDEDPLAVMKAREVVKAIGRGFSPEKALKLLD-D   77 (172)
T ss_pred             CccCCHHHhhhHhCCchhHHHHHHHHhCcEEEEEcCCceEEEe--cCCCCHHHHHHHHHHHHHHHcCCCHHHHHHhcC-C
Confidence            3789999999999999999999999999999999999999997  567999999999999999999999999999998 8


Q ss_pred             cceeeeeeeccccccccchhhhhhccccCCCCcHHHHHHHhhCceEEEeCceEEEEcchhhHHHHHHHHHHhhcCCCCcc
Q psy8224         113 NLFIESFEIKDVKTLKGDHLSRAIGRLAGKGGRTKFTIENITKTRIVIADSKIHVLGSYQNVQVALKALSNLILGSPPNK  192 (766)
Q Consensus       113 ~~~~~~~~i~~~~~~~~~~~~r~~griiG~~G~t~~~ie~~t~~~I~v~~~~v~iiG~~~~l~~ar~~i~~~~~~~~p~~  192 (766)
                      ++++++|+|.++ ..++++++|++|||||++|+|+++||++|||+|+|+|++|+|+|++++++.||++|++|++|+.|++
T Consensus        78 ~y~~~Vi~I~~~-~~~~~~~~~~~griIG~~G~t~~~ie~~t~~~i~i~~~~v~i~G~~~~~~~A~~~i~~li~~~~~~~  156 (172)
T TIGR03665        78 DYMLEVIDLKEY-GKSPNALRRIKGRIIGEGGKTRRIIEELTGVSISVYGKTVGIIGDPEQVQIAREAIEMLIEGAPHGT  156 (172)
T ss_pred             cceEEEEEhhhc-cCCHHHHHHHHhhhcCCCcHHHHHHHHHHCCeEEEcCCEEEEECCHHHHHHHHHHHHHHHcCCCChh
Confidence            899999999999 5677999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             cccceeec
Q psy8224         193 VYGGILCS  200 (766)
Q Consensus       193 ~~s~l~c~  200 (766)
                      +|++|+..
T Consensus       157 vy~~l~~~  164 (172)
T TIGR03665       157 VYKFLERK  164 (172)
T ss_pred             HHHHHHHH
Confidence            99999764

This family of proteins is universal among the 41 archaeal genomes analyzed in and is not observed outside of the archaea. The proteins contain a single KH domain (pfam00013) which is likely to confer the ability to bind RNA.

>KOG2084|consensus

Probab=99.63  E-value=3.1e-15  Score=171.39  Aligned_cols=123  Identities=30%  Similarity=0.564  Sum_probs=95.8

Q ss_pred             ccchhhhhhhcccCCCCCCCeEEEEEeCCeEEEEEEecccCCCC-eEEeecCCCCCCHHHHHHHHhCCCCcEEeccCCCC
Q psy8224         615 RMSKWIYMKTAMLSHNCKPNTKHVIVNEDFSLQLIALVNIRKGD-IISTTYTQPFWGTMDRRLHLRMSKCFDCTCDRCKD  693 (766)
Q Consensus       615 ~i~~glyp~~s~~NHsC~PN~~~~~~~~g~~l~vra~r~I~~Ge-eI~isY~~~~~~~~~Rr~~L~~~y~F~C~C~rC~~  693 (766)
                      ..+.|+||..+++||||.||+...|  ++....+++...+.+++ +|+++|++..+++..|+..|+..|.|.|.|+||.+
T Consensus       197 ~~~~~l~~~~~~~~hsC~pn~~~~~--~~~~~~~~~~~~~~~~~~~l~~~y~~~~~~~~~r~~~l~~~~~f~c~c~rc~d  274 (482)
T KOG2084|consen  197 FLGRGLFPGSSLFNHSCFPNISVIF--DGRGLALLVPAGIDAGEEELTISYTDPLLSTASRQKQLRQSKLFSCQCPRCLD  274 (482)
T ss_pred             cceeeecccchhcccCCCCCeEEEE--CCceeEEEeecccCCCCCEEEEeecccccCHHHHHHHHhhccceeeecCCCCC
Confidence            3567788888888888888888666  46777888888888887 99999999999999999999999999999999999


Q ss_pred             CCcccccccccccccc-cccceeccc-------cchhHHHHHH--HHHHHHHHHHh
Q psy8224         694 PTELETYLGKSFCLVY-CEIRSLASL-------VSLDNCEEAM--RYLAESTEIIK  739 (766)
Q Consensus       694 ~~e~~~~~~~~~C~~~-C~~~~~~~~-------~~~~~c~~~~--~~~~~~~~~~~  739 (766)
                      |++.+++..+++|-.. |.+.+....       ..+..|....  .++....+...
T Consensus       275 ~~~~~~~~~~~~c~~~~~~~~~~~~~~~~~~~~w~~~~~~~~~~~~~~~~~~~~~~  330 (482)
T KOG2084|consen  275 PTELGTFLSSLRCENCTCGGLLGTSFLDKEDLQWPCTECALVRLKAYVVESREELQ  330 (482)
T ss_pred             CCccccchhhhhhcCCCCCCccCCCcccccCCCccccccccchhHHHHHHHHHHHH
Confidence            9999999999999885 555444322       2345555554  44444444444

>KOG1676|consensus

Probab=99.29  E-value=1.4e-11  Score=136.61  Aligned_cols=150  Identities=15%  Similarity=0.203  Sum_probs=114.9

Q ss_pred             CceEEEecCCCcchhhhccCcccHHHHHHhcCcEEEEEcccCeE--EEEeCCCCCCHHHHHHHHHHHHHHHc-CCC---h
Q psy8224          29 VDMRKVPVPNHRYGPLKENWMKIFTPIVEHLKLQVRFNLKSRNV--EIRLSPETEDISNLQKAADFVKAFVY-GFD---V  102 (766)
Q Consensus        29 ~~~~~i~iP~~r~~~l~~~~~~i~~~i~~~~~~~i~i~~~~~~v--~i~~~~~t~d~~~~~ka~~~i~ai~~-gf~---~  102 (766)
                      ..+.+|.||.+|+|+|||+.|++++.|.+++++++.+.-+....  ..++-+.|.||+.+.+|+.+|.-|.+ ++.   .
T Consensus       138 ~ttqeI~IPa~k~GlIIGKgGETikqlqe~sg~k~i~iqd~~~~~~~~KplritGdp~~ve~a~~lV~dil~e~~~~~~g  217 (600)
T KOG1676|consen  138 ETTQEILIPANKCGLIIGKGGETIKQLQEQSGVKMILVQDGSIATGADKPLRITGDPDKVEQAKQLVADILREEDDEVPG  217 (600)
T ss_pred             ceeeeeccCccceeeEeccCccHHHHHHhhcCCceEEEecCCcCCCCCCceeecCCHHHHHHHHHHHHHHHHhcccCCCc
Confidence            47899999999999999999999999999999999886544422  24555667899999999999999987 221   1


Q ss_pred             hhHHhhcccccceeeeeeeccccccccchhhhhhccccCCCCcHHHHHHHhhCceEEEe--------CceEEEEcchhhH
Q psy8224         103 DDALALLRLDNLFIESFEIKDVKTLKGDHLSRAIGRLAGKGGRTKFTIENITKTRIVIA--------DSKIHVLGSYQNV  174 (766)
Q Consensus       103 ~~a~~ll~~d~~~~~~~~i~~~~~~~~~~~~r~~griiG~~G~t~~~ie~~t~~~I~v~--------~~~v~iiG~~~~l  174 (766)
                      +.  --...++.--..++|+ |-+       -.+|-||||+|+|+|-|++-||+||.+.        ++++.|||+.++|
T Consensus       218 ~~--~~~g~~~g~~~~~~V~-VPr-------~~VG~IIGkgGE~IKklq~etG~KIQfkpDd~p~speR~~~IiG~~d~i  287 (600)
T KOG1676|consen  218 SG--GHAGVRGGGSATREVK-VPR-------SKVGIIIGKGGEMIKKLQNETGAKIQFKPDDDPSSPERPAQIIGTVDQI  287 (600)
T ss_pred             cc--cccCcCccccceeEEe-ccc-------cceeeEEecCchHHHHHhhccCceeEeecCCCCCCccceeeeecCHHHH
Confidence            10  1111122222233333 112       3499999999999999999999999994        4679999999999


Q ss_pred             HHHHHHHHHhhcCC
Q psy8224         175 QVALKALSNLILGS  188 (766)
Q Consensus       175 ~~ar~~i~~~~~~~  188 (766)
                      ..|.+.|..++...
T Consensus       288 e~Aa~lI~eii~~~  301 (600)
T KOG1676|consen  288 EHAAELINEIIAEA  301 (600)
T ss_pred             HHHHHHHHHHHHHH
Confidence            99999999998543

>KOG2193|consensus

Probab=99.10  E-value=2.2e-10  Score=121.31  Aligned_cols=134  Identities=19%  Similarity=0.295  Sum_probs=104.1

Q ss_pred             ceEEEecCCCcchhhhccCcccHHHHHHhcCcEEEEE------cccCeEEEEeCCCCCCHHHHHHHHHHHHHHHc---CC
Q psy8224          30 DMRKVPVPNHRYGPLKENWMKIFTPIVEHLKLQVRFN------LKSRNVEIRLSPETEDISNLQKAADFVKAFVY---GF  100 (766)
Q Consensus        30 ~~~~i~iP~~r~~~l~~~~~~i~~~i~~~~~~~i~i~------~~~~~v~i~~~~~t~d~~~~~ka~~~i~ai~~---gf  100 (766)
                      ++..+.||..-+|+|||+.|.-++.|.+..|.+|.|.      .+++.|+|.     ++|.+.+||+--|..-..   .|
T Consensus       411 e~V~~fiP~~~vGAiIGkkG~hIKql~RfagASiKIappE~pdvseRMViIt-----GppeaqfKAQgrifgKikEenf~  485 (584)
T KOG2193|consen  411 EQVRMFIPAQAVGAIIGKKGQHIKQLSRFAGASIKIAPPEIPDVSERMVIIT-----GPPEAQFKAQGRIFGKIKEENFF  485 (584)
T ss_pred             hheeeeccHHHHHHHHhhcchhHHHHHHhccceeeecCCCCCCcceeEEEec-----CChHHHHhhhhhhhhhhhhhccC
Confidence            6788999999999999999999999999999999994      456666665     599999999977743211   33


Q ss_pred             ChhhHHhhcccccceeeeeeeccccccccchhhhhhccccCCCCcHHHHHHHhhCceEEEeC--------c-eEEEEcch
Q psy8224         101 DVDDALALLRLDNLFIESFEIKDVKTLKGDHLSRAIGRLAGKGGRTKFTIENITKTRIVIAD--------S-KIHVLGSY  171 (766)
Q Consensus       101 ~~~~a~~ll~~d~~~~~~~~i~~~~~~~~~~~~r~~griiG~~G~t~~~ie~~t~~~I~v~~--------~-~v~iiG~~  171 (766)
                      .|.+-++| + ..       |        +..+++.||||||||+|.+.++++|++.++|..        . -|-|||.|
T Consensus       486 ~Pkeevkl-e-th-------i--------rVPs~~aGRvIGKGGktVnELQnlt~AeV~vPrdqtpdEnd~vivriiGhf  548 (584)
T KOG2193|consen  486 LPKEEVKL-E-TH-------I--------RVPSSAAGRVIGKGGKTVNELQNLTSAEVVVPRDQTPDENDQVIVRIIGHF  548 (584)
T ss_pred             Cchhhhee-e-ee-------e--------eccchhhhhhhccccccHHHHhccccceEEccccCCCCccceeeeeeechh
Confidence            44443333 2 11       1        234588999999999999999999999999942        1 28899999


Q ss_pred             hhHHHHHHHHHHhh
Q psy8224         172 QNVQVALKALSNLI  185 (766)
Q Consensus       172 ~~l~~ar~~i~~~~  185 (766)
                      ..-..|.+-|..+.
T Consensus       549 yatq~aQrki~~iv  562 (584)
T KOG2193|consen  549 YATQNAQRKIAHIV  562 (584)
T ss_pred             hcchHHHHHHHHHH
Confidence            98887777666665

>PF00856 SET: SET domain; InterPro: IPR001214 The SET domain appears generally as one part of a larger multidomain protein, and recently there were described three structures of very different proteins with distinct domain compositions: Neurospora crassa DIM-5, a member of the Su(var) family of HKMTs which methylate histone H3 on lysine 9,human SET7 (also called SET9), which methylates H3 on lysine 4 and garden pea Rubisco LSMT, an enzyme that does not modify histones, but instead methylates lysine 14 in the flexible tail of the large subunit of the enzyme Rubisco

Probab=99.05  E-value=1.1e-10  Score=112.50  Aligned_cols=51  Identities=29%  Similarity=0.416  Sum_probs=45.2

Q ss_pred             ccchhhhhhhcccCCCCCCCeEEEEE--eCCeEEEEEEecccCCCCeEEeecC
Q psy8224         615 RMSKWIYMKTAMLSHNCKPNTKHVIV--NEDFSLQLIALVNIRKGDIISTTYT  665 (766)
Q Consensus       615 ~i~~glyp~~s~~NHsC~PN~~~~~~--~~g~~l~vra~r~I~~GeeI~isY~  665 (766)
                      ..+.++||.++++||||.||+.+.+.  ..+..+.++|.|+|++|||||+||+
T Consensus       110 ~~~~~l~p~~d~~NHsc~pn~~~~~~~~~~~~~~~~~a~r~I~~GeEi~isYG  162 (162)
T PF00856_consen  110 RDGIALYPFADMLNHSCDPNCEVSFDFDGDGGCLVVRATRDIKKGEEIFISYG  162 (162)
T ss_dssp             EEEEEEETGGGGSEEESSTSEEEEEEEETTTTEEEEEESS-B-TTSBEEEEST
T ss_pred             ccccccCcHhHheccccccccceeeEeecccceEEEEECCccCCCCEEEEEEC
Confidence            45789999999999999999999996  3579999999999999999999997

The SET domain itself turned out to be an uncommon structure. Although in all three studies, electron density maps revealed the location of the AdoMet or AdoHcy cofactor, the SET domain bears no similarity at all to the canonical/AdoMet-dependent methyltransferase fold. Strictly conserved in the C-terminal motif of the SET domain tyrosine could be involved in abstracting a proton from the protonated amino group of the substrate lysine, promoting its nucleophilic attack on the sulphonium methyl group of the AdoMet cofactor. In contrast to the AdoMet-dependent protein methyltranferases of the classical type, which tend to bind their polypeptide substrates on top of the cofactor, it is noted from the Rubisco LSMT structure that the AdoMet seems to bind in a separate cleft, suggesting how a polypeptide substrate could be subjected to multiple rounds of methylation without having to be released from the enzyme. In contrast, SET7/9 is able to add only a single methyl group to its substrate. It has been demonstrated that association of SET domain and myotubularin-related proteins modulates growth control []. The SET domain-containing Drosophila melanogaster (Fruit fly) protein, enhancer of zeste, has a function in segment determination and the mammalian homologue may be involved in the regulation of gene transcription and chromatin structure. Histone lysine methylation is part of the histone code that regulated chromatin function and epigenetic control of gene function. Histone lysine methyltransferases (HMTase) differ both in their substrate specificity for the various acceptor lysines as well as in their product specificity for the number of methyl groups (one, two, or three) they transfer. With just one exception [], the HMTases belong to SET family that can be classified according to the sequences surrounding the SET domain [, ]. Structural studies on the human SET7/9, a mono-methylase, have revealed the molecular basis for the specificity of the enzyme for the histone-target and the roles of the invariant residues in the SET domain in determining the methylation specificities []. The pre-SET domain, as found in the SUV39 SET family, contains nine invariant cysteine residues that are grouped into two segments separated by a region of variable length. These 9 cysteines coordinate 3 zinc ions to form to form a triangular cluster, where each of the zinc ions is coordinated by 4 four cysteines to give a tetrahedral configuration. The function of this domain is structural, holding together 2 long segments of random coils. The C-terminal region including the post-SET domain is disordered when not interacting with a histone tail and in the absence of zinc. The three conserved cysteines in the post-SET domain form a zinc-binding site when coupled to a fourth conserved cysteine in the knot-like structure close to the SET domain active site []. The structured post-SET region brings in the C-terminal residues that participate in S-adenosylmethine-binding and histone tail interactions. The three conserved cysteine residues are essential for HMTase activity, as replacement with serine abolishes HMTase activity [], []. ; GO: 0005515 protein binding; PDB: 3TG5_A 3S7F_A 3RIB_B 3TG4_A 3S7J_A 3S7D_A 3S7B_A 3H6L_A 3SMT_A 3K5K_A ....

>PF00856 SET: SET domain; InterPro: IPR001214 The SET domain appears generally as one part of a larger multidomain protein, and recently there were described three structures of very different proteins with distinct domain compositions: Neurospora crassa DIM-5, a member of the Su(var) family of HKMTs which methylate histone H3 on lysine 9,human SET7 (also called SET9), which methylates H3 on lysine 4 and garden pea Rubisco LSMT, an enzyme that does not modify histones, but instead methylates lysine 14 in the flexible tail of the large subunit of the enzyme Rubisco

Probab=99.02  E-value=2.2e-10  Score=110.28  Aligned_cols=51  Identities=27%  Similarity=0.384  Sum_probs=45.1

Q ss_pred             ceeEEEeecccccccccccCCceeeeec---CccchhhhhhhcccCCCeeeeccc
Q psy8224         550 KIKIRGIYMKTAMLSHNCKPNTKHVIVN---EDFSLQLIALVNICKGDIISTTYT  601 (766)
Q Consensus       550 ~~~~~gLyp~~SllNHSC~PN~~~~f~~---~~~~l~~~A~r~I~~GeeI~~sY~  601 (766)
                      ...+.+|||.++++||||.||+...| +   .+..+.++|.++|++||||+++||
T Consensus       109 ~~~~~~l~p~~d~~NHsc~pn~~~~~-~~~~~~~~~~~~a~r~I~~GeEi~isYG  162 (162)
T PF00856_consen  109 DRDGIALYPFADMLNHSCDPNCEVSF-DFDGDGGCLVVRATRDIKKGEEIFISYG  162 (162)
T ss_dssp             EEEEEEEETGGGGSEEESSTSEEEEE-EEETTTTEEEEEESS-B-TTSBEEEEST
T ss_pred             cccccccCcHhHheccccccccceee-EeecccceEEEEECCccCCCCEEEEEEC
Confidence            56789999999999999999999999 5   567899999999999999999997

The SET domain itself turned out to be an uncommon structure. Although in all three studies, electron density maps revealed the location of the AdoMet or AdoHcy cofactor, the SET domain bears no similarity at all to the canonical/AdoMet-dependent methyltransferase fold. Strictly conserved in the C-terminal motif of the SET domain tyrosine could be involved in abstracting a proton from the protonated amino group of the substrate lysine, promoting its nucleophilic attack on the sulphonium methyl group of the AdoMet cofactor. In contrast to the AdoMet-dependent protein methyltranferases of the classical type, which tend to bind their polypeptide substrates on top of the cofactor, it is noted from the Rubisco LSMT structure that the AdoMet seems to bind in a separate cleft, suggesting how a polypeptide substrate could be subjected to multiple rounds of methylation without having to be released from the enzyme. In contrast, SET7/9 is able to add only a single methyl group to its substrate. It has been demonstrated that association of SET domain and myotubularin-related proteins modulates growth control []. The SET domain-containing Drosophila melanogaster (Fruit fly) protein, enhancer of zeste, has a function in segment determination and the mammalian homologue may be involved in the regulation of gene transcription and chromatin structure. Histone lysine methylation is part of the histone code that regulated chromatin function and epigenetic control of gene function. Histone lysine methyltransferases (HMTase) differ both in their substrate specificity for the various acceptor lysines as well as in their product specificity for the number of methyl groups (one, two, or three) they transfer. With just one exception [], the HMTases belong to SET family that can be classified according to the sequences surrounding the SET domain [, ]. Structural studies on the human SET7/9, a mono-methylase, have revealed the molecular basis for the specificity of the enzyme for the histone-target and the roles of the invariant residues in the SET domain in determining the methylation specificities []. The pre-SET domain, as found in the SUV39 SET family, contains nine invariant cysteine residues that are grouped into two segments separated by a region of variable length. These 9 cysteines coordinate 3 zinc ions to form to form a triangular cluster, where each of the zinc ions is coordinated by 4 four cysteines to give a tetrahedral configuration. The function of this domain is structural, holding together 2 long segments of random coils. The C-terminal region including the post-SET domain is disordered when not interacting with a histone tail and in the absence of zinc. The three conserved cysteines in the post-SET domain form a zinc-binding site when coupled to a fourth conserved cysteine in the knot-like structure close to the SET domain active site []. The structured post-SET region brings in the C-terminal residues that participate in S-adenosylmethine-binding and histone tail interactions. The three conserved cysteine residues are essential for HMTase activity, as replacement with serine abolishes HMTase activity [], []. ; GO: 0005515 protein binding; PDB: 3TG5_A 3S7F_A 3RIB_B 3TG4_A 3S7J_A 3S7D_A 3S7B_A 3H6L_A 3SMT_A 3K5K_A ....

>smart00317 SET SET (Su(var)3-9, Enhancer-of-zeste, Trithorax) domain

Probab=98.96  E-value=3.9e-10  Score=103.11  Aligned_cols=48  Identities=21%  Similarity=0.451  Sum_probs=41.4

Q ss_pred             chhhhhhhcccCCCCCCCeEEEEEeCCe--EEEEEEecccCCCCeEEeec
Q psy8224         617 SKWIYMKTAMLSHNCKPNTKHVIVNEDF--SLQLIALVNIRKGDIISTTY  664 (766)
Q Consensus       617 ~~glyp~~s~~NHsC~PN~~~~~~~~g~--~l~vra~r~I~~GeeI~isY  664 (766)
                      +..++|.++++||||.||+...+...++  .+.++|+|+|++||||+++|
T Consensus        67 ~~~~~~~~~~iNHsc~pN~~~~~~~~~~~~~~~~~a~r~I~~GeEi~i~Y  116 (116)
T smart00317       67 ARRKGNIARFINHSCEPNCELLFVEVNGDSRIVIFALRDIKPGEELTIDY  116 (116)
T ss_pred             CCccCcHHHeeCCCCCCCEEEEEEEECCCcEEEEEECCCcCCCCEEeecC
Confidence            3336899999999999999998854333  69999999999999999999

Putative methyl transferase, based on outlier plant homologues

>KOG1676|consensus

Probab=98.88  E-value=3.7e-09  Score=117.75  Aligned_cols=146  Identities=18%  Similarity=0.310  Sum_probs=118.0

Q ss_pred             ceEEEecCCCcchhhhccCcccHHHHHHhcCcEEEEE------cccCeEEEEeCCCCCCHHHHHHHHHHHHHHHcCCChh
Q psy8224          30 DMRKVPVPNHRYGPLKENWMKIFTPIVEHLKLQVRFN------LKSRNVEIRLSPETEDISNLQKAADFVKAFVYGFDVD  103 (766)
Q Consensus        30 ~~~~i~iP~~r~~~l~~~~~~i~~~i~~~~~~~i~i~------~~~~~v~i~~~~~t~d~~~~~ka~~~i~ai~~gf~~~  103 (766)
                      +++.|+||...+|.|||+.|+++++|...+|++|+|-      +.++.+.|.+     .+.-|.+|..+|++|..+..--
T Consensus       230 ~~~~V~VPr~~VG~IIGkgGE~IKklq~etG~KIQfkpDd~p~speR~~~IiG-----~~d~ie~Aa~lI~eii~~~~~~  304 (600)
T KOG1676|consen  230 ATREVKVPRSKVGIIIGKGGEMIKKLQNETGAKIQFKPDDDPSSPERPAQIIG-----TVDQIEHAAELINEIIAEAEAG  304 (600)
T ss_pred             ceeEEeccccceeeEEecCchHHHHHhhccCceeEeecCCCCCCccceeeeec-----CHHHHHHHHHHHHHHHHHHhcc
Confidence            6999999999999999999999999999999999994      3466788876     7789999999999997644322


Q ss_pred             h-------HHhhcccccceeeeeeeccccccccchhhhhhccccCCCCcHHHHHHHhhCceEEEe---------CceEEE
Q psy8224         104 D-------ALALLRLDNLFIESFEIKDVKTLKGDHLSRAIGRLAGKGGRTKFTIENITKTRIVIA---------DSKIHV  167 (766)
Q Consensus       104 ~-------a~~ll~~d~~~~~~~~i~~~~~~~~~~~~r~~griiG~~G~t~~~ie~~t~~~I~v~---------~~~v~i  167 (766)
                      .       +-.++.       .|.+.   ...     -..|.||||+|+|+|.|+.-||+++-+.         .+|+.|
T Consensus       305 ~~~~~~~G~P~~~~-------~fy~~---VPa-----~KcGLvIGrGGEtIK~in~qSGA~~el~r~~p~~~~~ektf~I  369 (600)
T KOG1676|consen  305 AGGGMGGGAPGLVA-------QFYMK---VPA-----DKCGLVIGRGGETIKQINQQSGARCELSRQPPNGNPKEKTFVI  369 (600)
T ss_pred             CCCCcCCCCcccee-------eEEEe---ccc-----cccccccCCCccchhhhcccCCccccccCCCCCCCccceEEEE
Confidence            1       111211       11111   111     3389999999999999999999999883         578999


Q ss_pred             EcchhhHHHHHHHHHHhhcCCCCccccc
Q psy8224         168 LGSYQNVQVALKALSNLILGSPPNKVYG  195 (766)
Q Consensus       168 iG~~~~l~~ar~~i~~~~~~~~p~~~~s  195 (766)
                      -|+..+|..||+.|..-+.+..+.+-|.
T Consensus       370 rG~~~QIdhAk~LIr~kvg~~~~n~~~~  397 (600)
T KOG1676|consen  370 RGDKRQIDHAKQLIRDKVGDIAPNTPYP  397 (600)
T ss_pred             ecCcccchHHHHHHHHHhcccCCCCCCC
Confidence            9999999999999999999888877665

>PRK00106 hypothetical protein; Provisional

Probab=98.51  E-value=1.1e-07  Score=108.47  Aligned_cols=63  Identities=30%  Similarity=0.525  Sum_probs=56.4

Q ss_pred             ccccchhhhhhccccCCCCcHHHHHHHhhCceEEEeCce-EEEEcchhhHH--HHHHHHHHhh-cCCCCc
Q psy8224         126 TLKGDHLSRAIGRLAGKGGRTKFTIENITKTRIVIADSK-IHVLGSYQNVQ--VALKALSNLI-LGSPPN  191 (766)
Q Consensus       126 ~~~~~~~~r~~griiG~~G~t~~~ie~~t~~~I~v~~~~-v~iiG~~~~l~--~ar~~i~~~~-~~~~p~  191 (766)
                      .++++.|   +|||||++|+++|++|.+||+.|.|+|+. +.++.+|++++  +||.++++++ +|..|+
T Consensus       230 ~lp~dem---kGriIGreGrNir~~E~~tGvdliiddtp~~v~lS~fdpvRReiAr~~le~Li~dgrIhp  296 (535)
T PRK00106        230 HLPDDNM---KGRIIGREGRNIRTLESLTGIDVIIDDTPEVVVLSGFDPIRREIARMTLESLIKDGRIHP  296 (535)
T ss_pred             EcCChHh---hcceeCCCcchHHHHHHHhCceEEEcCCCCeEEEeCCChHHHHHHHHHHHHHHHcCCcCH
Confidence            4556777   99999999999999999999999999988 77799999998  9999999999 777653

>TIGR03319 YmdA_YtgF conserved hypothetical protein YmdA/YtgF

Probab=98.50  E-value=1.2e-07  Score=109.02  Aligned_cols=64  Identities=30%  Similarity=0.495  Sum_probs=57.2

Q ss_pred             ccccchhhhhhccccCCCCcHHHHHHHhhCceEEEeCce-EEEEcchhhHH--HHHHHHHHhh-cCCCCcc
Q psy8224         126 TLKGDHLSRAIGRLAGKGGRTKFTIENITKTRIVIADSK-IHVLGSYQNVQ--VALKALSNLI-LGSPPNK  192 (766)
Q Consensus       126 ~~~~~~~~r~~griiG~~G~t~~~ie~~t~~~I~v~~~~-v~iiG~~~~l~--~ar~~i~~~~-~~~~p~~  192 (766)
                      .++.+.|   +|||||++|+++|++|.+||+.|.|+|+. +.++.+|++++  +||.+++.++ +|..|+.
T Consensus       209 ~lp~d~~---kgriigreGrnir~~e~~tgvd~iiddtp~~v~ls~fdp~rreia~~~l~~li~dgrihp~  276 (514)
T TIGR03319       209 NLPNDEM---KGRIIGREGRNIRALETLTGVDLIIDDTPEAVILSGFDPVRREIARMALEKLIQDGRIHPA  276 (514)
T ss_pred             EcCChhh---hccccCCCcchHHHHHHHhCceEEEcCCCCeEEecCCchHHHHHHHHHHHHHHHcCCCCHH
Confidence            4556777   99999999999999999999999999988 78899999997  9999999999 7776643

>PF01753 zf-MYND: MYND finger; InterPro: IPR002893 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule

Probab=98.48  E-value=1.9e-08  Score=73.17  Aligned_cols=37  Identities=41%  Similarity=0.998  Sum_probs=32.9

Q ss_pred             ccccCCcccCCCCCCCCcccCCchhhccccccccCCC
Q psy8224         317 CEVCKVAASLKCGGCNQVFYCSKSHQKQHWKEHKPGC  353 (766)
Q Consensus       317 C~~C~~~~~~~C~~C~~v~YCs~~cq~~~w~~Hk~~C  353 (766)
                      |..|+..+..+|++|+.++|||++||+.||..|+.+|
T Consensus         1 C~~C~~~~~~~C~~C~~~~YCs~~Cq~~~w~~Hk~~C   37 (37)
T PF01753_consen    1 CAVCGKPALKRCSRCKSVYYCSEECQRADWPYHKFEC   37 (37)
T ss_dssp             -TTTSSCSSEEETTTSSSEESSHHHHHHHHHHHCCTH
T ss_pred             CcCCCCCcCCcCCCCCCEEecCHHHHHHHHHHHhhhC
Confidence            6788888777999999999999999999997799876

Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents MYND-type zinc finger domains. The MYND domain (myeloid, Nervy, and DEAF-1) is present in a large group of proteins that includes RP-8 (PDCD2), Nervy, and predicted proteins from Drosophila, mammals, Caenorhabditis elegans, yeast, and plants [, , ]. The MYND domain consists of a cluster of cysteine and histidine residues, arranged with an invariant spacing to form a potential zinc-binding motif []. Mutating conserved cysteine residues in the DEAF-1 MYND domain does not abolish DNA binding, which suggests that the MYND domain might be involved in protein-protein interactions []. Indeed, the MYND domain of ETO/MTG8 interacts directly with the N-CoR and SMRT co-repressors [, ]. Aberrant recruitment of co-repressor complexes and inappropriate transcriptional repression is believed to be a general mechanism of leukemogenesis caused by the t(8;21) translocations that fuse ETO with the acute myelogenous leukemia 1 (AML1) protein. ETO has been shown to be a co-repressor recruited by the promyelocytic leukemia zinc finger (PLZF) protein []. A divergent MYND domain present in the adenovirus E1A binding protein BS69 was also shown to interact with N-CoR and mediate transcriptional repression []. The current evidence suggests that the MYND motif in mammalian proteins constitutes a protein-protein interaction domain that functions as a co-repressor-recruiting interface. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 3QWW_A 3QWV_A 3TG5_A 3S7F_A 3RIB_B 3TG4_A 3S7J_A 3S7D_A 3S7B_A 3RU0_A ....

>PRK12704 phosphodiesterase; Provisional

Probab=98.34  E-value=5.3e-07  Score=103.78  Aligned_cols=62  Identities=27%  Similarity=0.507  Sum_probs=55.8

Q ss_pred             ccccchhhhhhccccCCCCcHHHHHHHhhCceEEEeCce-EEEEcchhhHH--HHHHHHHHhh-cCCCC
Q psy8224         126 TLKGDHLSRAIGRLAGKGGRTKFTIENITKTRIVIADSK-IHVLGSYQNVQ--VALKALSNLI-LGSPP  190 (766)
Q Consensus       126 ~~~~~~~~r~~griiG~~G~t~~~ie~~t~~~I~v~~~~-v~iiG~~~~l~--~ar~~i~~~~-~~~~p  190 (766)
                      .++.+.|   +|||||++|+++|++|.+||+.|.|+|+. +.++..|++++  +|+.+++.++ +|..|
T Consensus       215 ~lp~d~m---kgriigreGrnir~~e~~tgvd~iiddtp~~v~ls~~~~~rre~a~~~l~~l~~dg~i~  280 (520)
T PRK12704        215 NLPNDEM---KGRIIGREGRNIRALETLTGVDLIIDDTPEAVILSGFDPIRREIARLALEKLVQDGRIH  280 (520)
T ss_pred             ecCCchh---hcceeCCCcchHHHHHHHhCCeEEEcCCCCeEEEecCChhhHHHHHHHHHHHHhcCCcC
Confidence            4556777   99999999999999999999999999987 88899999999  9999999999 66544

>KOG2191|consensus

Probab=98.34  E-value=6.6e-06  Score=85.70  Aligned_cols=169  Identities=17%  Similarity=0.178  Sum_probs=110.2

Q ss_pred             ceEEEecCCCcchhhhccCcccHHHHHHhcCcEEEEEc-------ccCeEE-EEeCCCCCCHHHHHHHHHHHHHHHcCCC
Q psy8224          30 DMRKVPVPNHRYGPLKENWMKIFTPIVEHLKLQVRFNL-------KSRNVE-IRLSPETEDISNLQKAADFVKAFVYGFD  101 (766)
Q Consensus        30 ~~~~i~iP~~r~~~l~~~~~~i~~~i~~~~~~~i~i~~-------~~~~v~-i~~~~~t~d~~~~~ka~~~i~ai~~gf~  101 (766)
                      -..+|.||.+-.|.|||+.|+++..|++.+|.+|+|--       .+..|- |.+     ...+|+...+||..-.|.-+
T Consensus        39 y~ikvLips~AaGsIIGKGG~ti~~lqk~tgariklSks~dfyPGTTeRvcli~G-----t~eai~av~efI~dKire~p  113 (402)
T KOG2191|consen   39 YFLKVLIPSYAAGSIIGKGGQTIVQLQKETGARIKLSKSKDFYPGTTERVCLIQG-----TVEALNAVHEFIADKIREKP  113 (402)
T ss_pred             eEEEEEeecccccceeccchHHHHHHHhccCcEEEeccccccCCCccceEEEEec-----cHHHHHHHHHHHHHHHHHhH
Confidence            35689999999999999999999999999999999952       133343 443     67888888888887666443


Q ss_pred             hhhHH--hhcccccceeeeee-eccccccccchhhhhhccccCCCCcHHHHHHHhhCceEEEe----------CceEEEE
Q psy8224         102 VDDAL--ALLRLDNLFIESFE-IKDVKTLKGDHLSRAIGRLAGKGGRTKFTIENITKTRIVIA----------DSKIHVL  168 (766)
Q Consensus       102 ~~~a~--~ll~~d~~~~~~~~-i~~~~~~~~~~~~r~~griiG~~G~t~~~ie~~t~~~I~v~----------~~~v~ii  168 (766)
                      -..+-  .+|+ . -.-|-+. |+=++.+      --.|.||||+|-|+|+|.+-+|+.|.|+          +.-|.+.
T Consensus       114 ~~~~k~v~~~~-p-qt~~r~kqikivvPN------stag~iigkggAtiK~~~Eqsga~iqisPqkpt~~sLqervvt~s  185 (402)
T KOG2191|consen  114 QAVAKPVDILQ-P-QTPDRIKQIKIVVPN------STAGMIIGKGGATIKAIQEQSGAWIQISPQKPTGISLQERVVTVS  185 (402)
T ss_pred             HhhcCCccccC-C-CCccccceeEEeccC------CcccceecCCcchHHHHHHhhCcceEecccCCCCccceeEEEEec
Confidence            22222  1110 0 0000011 1112222      1269999999999999999999999997          3448899


Q ss_pred             cchhhHH-HHHHHHHHhhcCCCCcccccceeecccCCceecCCCC
Q psy8224         169 GSYQNVQ-VALKALSNLILGSPPNKVYGGILCSRCRHHVISTNPL  212 (766)
Q Consensus       169 G~~~~l~-~ar~~i~~~~~~~~p~~~~s~l~c~~c~g~~l~~~pl  212 (766)
                      |++++.. .+..++..+.+--++++-...-. ..=.|.+.-.+|.
T Consensus       186 ge~e~~~~A~~~IL~Ki~eDpqs~scln~sy-a~vsGpvaNsnPt  229 (402)
T KOG2191|consen  186 GEPEQNMKAVSLILQKIQEDPQSGSCLNISY-ANVSGPVANSNPT  229 (402)
T ss_pred             CCHHHHHHHHHHHHHHhhcCCcccceeccch-hcccCcccccCCC
Confidence            9999755 55556666666555555222000 1112456666665

>cd02393 PNPase_KH Polynucleotide phosphorylase (PNPase) K homology RNA-binding domain (KH)

Probab=98.19  E-value=2.1e-06  Score=69.80  Aligned_cols=49  Identities=27%  Similarity=0.319  Sum_probs=44.2

Q ss_pred             hhhccccCCCCcHHHHHHHhhCceEEEeC-ceEEEEcc-hhhHHHHHHHHH
Q psy8224         134 RAIGRLAGKGGRTKFTIENITKTRIVIAD-SKIHVLGS-YQNVQVALKALS  182 (766)
Q Consensus       134 r~~griiG~~G~t~~~ie~~t~~~I~v~~-~~v~iiG~-~~~l~~ar~~i~  182 (766)
                      ..+|+|||++|+|++.|++.|||+|.|.+ .+|.|.|+ .+.++.|+..|+
T Consensus        11 ~~ig~iIGkgG~~ik~I~~~tg~~I~i~~~g~v~I~G~~~~~v~~A~~~I~   61 (61)
T cd02393          11 DKIRDVIGPGGKTIKKIIEETGVKIDIEDDGTVYIAASDKEAAEKAKKMIE   61 (61)
T ss_pred             hheeeeECCCchHHHHHHHHHCCEEEeCCCCEEEEEeCCHHHHHHHHHHhC
Confidence            45899999999999999999999999975 66999998 789999998763

PNPase is a polyribonucleotide nucleotidyl transferase that degrades mRNA in prokaryotes and plant chloroplasts. The C-terminal region of PNPase contains domains homologous to those in other RNA binding proteins: a KH domain and an S1 domain. KH domains bind single-stranded RNA and are found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA.

>KOG2193|consensus

Probab=98.14  E-value=3.9e-06  Score=89.66  Aligned_cols=129  Identities=22%  Similarity=0.272  Sum_probs=94.2

Q ss_pred             eEEEecCCCcchhhhccCcccHHHHHHhcCcEEEEEc------ccCeEEEEeCCCCCCHHHHHHHHHHHHHHHcCCChhh
Q psy8224          31 MRKVPVPNHRYGPLKENWMKIFTPIVEHLKLQVRFNL------KSRNVEIRLSPETEDISNLQKAADFVKAFVYGFDVDD  104 (766)
Q Consensus        31 ~~~i~iP~~r~~~l~~~~~~i~~~i~~~~~~~i~i~~------~~~~v~i~~~~~t~d~~~~~ka~~~i~ai~~gf~~~~  104 (766)
                      -..+.||..-+|+|||+.|.+++.|-+.+..+|.+--      .++.|+|-+     .|..--+|-.+|-.|+-.-    
T Consensus       200 PlR~lVptqyvgaIIGkeG~TIknItkqTqsriD~hrken~Gaaek~itvh~-----tpEg~s~Ac~~ILeimqkE----  270 (584)
T KOG2193|consen  200 PLRLLVPTQYVGAIIGKEGATIKNITKQTQSRIDVHRKENAGAAEKIITVHS-----TPEGTSKACKMILEIMQKE----  270 (584)
T ss_pred             ceeeeeccceeEEEecCCCccccCcchhhhheeeeeecccCCcccCceEEec-----CccchHHHHHHHHHHHHHh----
Confidence            3468899999999999999999999999999988842      357788887     4456677877777666422    


Q ss_pred             HHhhcccccceeeeeeeccccccccchhhhhhccccCCCCcHHHHHHHhhCceEEEe----------CceEEEEcchhhH
Q psy8224         105 ALALLRLDNLFIESFEIKDVKTLKGDHLSRAIGRLAGKGGRTKFTIENITKTRIVIA----------DSKIHVLGSYQNV  174 (766)
Q Consensus       105 a~~ll~~d~~~~~~~~i~~~~~~~~~~~~r~~griiG~~G~t~~~ie~~t~~~I~v~----------~~~v~iiG~~~~l  174 (766)
                      |.    +|++. +-+.   ++.+-.+   ...||+|||.|+++|-||.-|||+|.|-          ++||.+-|+.+..
T Consensus       271 A~----~~k~~-~e~p---Lk~lAHN---~lvGRLIGKeGrnlKkIeq~TgTkITis~lqels~ynpERTItVkGsiEac  339 (584)
T KOG2193|consen  271 AV----DDKVA-EEIP---LKILAHN---NLVGRLIGKEGRNLKKIEQDTGTKITISKLQELSLYNPERTITVKGSIEAC  339 (584)
T ss_pred             hh----ccchh-hhcc---hhhhhhc---chhhhhhhhccccHHHHHhhcCCceeeeehhhhcccCccceEEecccHHHH
Confidence            21    12221 1111   2222223   3499999999999999999999999983          6899999988865


Q ss_pred             HHHHH
Q psy8224         175 QVALK  179 (766)
Q Consensus       175 ~~ar~  179 (766)
                      -.|..
T Consensus       340 ~~AE~  344 (584)
T KOG2193|consen  340 VQAEA  344 (584)
T ss_pred             HHHHH
Confidence            44433

>PF00013 KH_1: KH domain syndrome, contains KH motifs

Probab=98.13  E-value=2.9e-06  Score=68.64  Aligned_cols=48  Identities=33%  Similarity=0.458  Sum_probs=44.5

Q ss_pred             hhhccccCCCCcHHHHHHHhhCceEEEeC----ceEEEEcchhhHHHHHHHH
Q psy8224         134 RAIGRLAGKGGRTKFTIENITKTRIVIAD----SKIHVLGSYQNVQVALKAL  181 (766)
Q Consensus       134 r~~griiG~~G~t~~~ie~~t~~~I~v~~----~~v~iiG~~~~l~~ar~~i  181 (766)
                      ...|+|||++|++++.||..|||.|.|.+    ..|.|.|+.+++..|++.|
T Consensus         9 ~~~~~iIG~~G~~i~~I~~~t~~~I~i~~~~~~~~v~I~G~~~~v~~A~~~I   60 (60)
T PF00013_consen    9 SLVGRIIGKKGSNIKEIEEETGVKIQIPDDDERDIVTISGSPEQVEKAKKMI   60 (60)
T ss_dssp             HHHHHHHTGGGHHHHHHHHHHTSEEEEESTTEEEEEEEEESHHHHHHHHHHH
T ss_pred             HHcCEEECCCCCcHHHhhhhcCeEEEEcCCCCcEEEEEEeCHHHHHHHHhhC
Confidence            56999999999999999999999999997    4899999999999999875

; InterPro: IPR018111 The K homology (KH) domain was first identified in the human heterogeneous nuclear ribonucleoprotein (hnRNP) K. It is a domain of around 70 amino acids that is present in a wide variety of quite diverse nucleic acid-binding proteins []. It has been shown to bind RNA [, ]. Like many other RNA-binding motifs, KH motifs are found in one or multiple copies (14 copies in chicken vigilin) and, at least for hnRNP K (three copies) and FMR-1 (two copies), each motif is necessary for in vitro RNA binding activity, suggesting that they may function cooperatively or, in the case of single KH motif proteins (for example, Mer1p), independently []. According to structural [, , ] analysis the KH domain can be separated in two groups. The first group or type-1 contain a beta-alpha-alpha-beta-beta-alpha structure, whereas in the type-2 the two last beta-sheet are located in the N-terminal part of the domain (alpha-beta-beta-alpha-alpha-beta). Sequence similarity between these two folds are limited to a short region (VIGXXGXXI) in the RNA binding motif. This motif is located between helice 1 and 2 in type-1 and between helice 2 and 3 in type-2. Proteins known to contain a type-1 KH domain include bacterial polyribonucleotide nucleotidyltransferases (2.7.7.8 from EC); vertebrate fragile X mental retardation protein 1 (FMR1); eukaryotic heterogeneous nuclear ribonucleoprotein K (hnRNP K), one of at least 20 major proteins that are part of hnRNP particles in mammalian cells; mammalian poly(rC) binding proteins; Artemia salina glycine-rich protein GRP33; yeast PAB1-binding protein 2 (PBP2); vertebrate vigilin; and human high-density lipoprotein binding protein (HDL-binding protein). More information about these proteins can be found at Protein of the Month: RNA Exosomes [].; GO: 0003723 RNA binding; PDB: 1TUA_A 2Z0S_A 1WE8_A 4AM3_B 4AIM_A 4AID_A 2HH3_A 2JVZ_A 1J4W_A 2HH2_A ....

>cd02395 SF1_like-KH Splicing factor 1 (SF1) K homology RNA-binding domain (KH)

Probab=98.09  E-value=6.5e-06  Score=76.19  Aligned_cols=58  Identities=19%  Similarity=0.282  Sum_probs=51.9

Q ss_pred             hhhccccCCCCcHHHHHHHhhCceEEEeCc------------------------eEEEEcch---hhHHHHHHHHHHhhc
Q psy8224         134 RAIGRLAGKGGRTKFTIENITKTRIVIADS------------------------KIHVLGSY---QNVQVALKALSNLIL  186 (766)
Q Consensus       134 r~~griiG~~G~t~~~ie~~t~~~I~v~~~------------------------~v~iiG~~---~~l~~ar~~i~~~~~  186 (766)
                      ..+|||||++|+|+|.||..|||+|.|.|+                        +|.|.|.-   +.+..|++.|+.++.
T Consensus        15 N~IG~IIGPgG~tiK~i~~eTg~kI~Irg~gs~~~~~~~~~~~~~~~~~~~eplhV~I~a~~~~~e~~~~A~~~I~~ll~   94 (120)
T cd02395          15 NFVGLILGPRGNTLKQLEKETGAKISIRGKGSMKDGKKEEELRGPKYAHLNEPLHVLITAETPPEEALAKAVEAIEELLK   94 (120)
T ss_pred             CeeEEEECCCChHHHHHHHHHCCEEEEecCcccccccccccccCcccccCCCCcEEEEEeCCcHHHHHHHHHHHHHHHhc
Confidence            349999999999999999999999999986                        58999876   789999999999998


Q ss_pred             CCCCc
Q psy8224         187 GSPPN  191 (766)
Q Consensus       187 ~~~p~  191 (766)
                      -.++.
T Consensus        95 ~~~~~   99 (120)
T cd02395          95 PAIEG   99 (120)
T ss_pred             cCCCc
Confidence            66664

Splicing factor 1 (SF1) specifically recognizes the intron branch point sequence (BPS) UACUAAC in the pre-mRNA transcripts during spliceosome assembly. We show that the KH-QUA2 region of SF1 defines an enlarged KH (hnRNP K) fold which is necessary and sufficient for BPS binding. KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA.

>cd02394 vigilin_like_KH K homology RNA-binding domain_vigilin_like

Probab=98.08  E-value=5.7e-06  Score=67.43  Aligned_cols=48  Identities=25%  Similarity=0.307  Sum_probs=44.3

Q ss_pred             hhhccccCCCCcHHHHHHHhhCceEEEeC-----ceEEEEcchhhHHHHHHHH
Q psy8224         134 RAIGRLAGKGGRTKFTIENITKTRIVIAD-----SKIHVLGSYQNVQVALKAL  181 (766)
Q Consensus       134 r~~griiG~~G~t~~~ie~~t~~~I~v~~-----~~v~iiG~~~~l~~ar~~i  181 (766)
                      ...|+|||++|.+++.|+..|||+|.|.+     +.|.|.|+.+++..|+..|
T Consensus         9 ~~~~~iIG~~G~~i~~i~~~~g~~I~i~~~~~~~~~v~I~G~~~~v~~A~~~i   61 (62)
T cd02394           9 KLHRFIIGKKGSNIRKIMEETGVKIRFPDPGSKSDTITITGPKENVEKAKEEI   61 (62)
T ss_pred             HHhhhccCCCCCcHHHHHHHhCCEEEcCCCCCCCCEEEEEcCHHHHHHHHHHh
Confidence            55899999999999999999999999976     6799999999999998875

The vigilin family is a large and extended family of multiple KH-domain proteins, including vigilin, also called high density lipoprotein binding protien (HBP), fungal Scp160 and bicaudal-C. Yeast Scp160p has been shown to bind RNA and to associate with both soluble and membrane-bound polyribosomes as a mRNP component. Bicaudal-C is a RNA-binding molecule believed to function in embryonic development at the post-transcriptional level. In general, KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA.

>smart00317 SET SET (Su(var)3-9, Enhancer-of-zeste, Trithorax) domain

Probab=97.93  E-value=3.6e-06  Score=76.69  Aligned_cols=45  Identities=22%  Similarity=0.424  Sum_probs=38.1

Q ss_pred             eecccccccccccCCceeeeecCcc--chhhhhhhcccCCCeeeecc
Q psy8224         556 IYMKTAMLSHNCKPNTKHVIVNEDF--SLQLIALVNICKGDIISTTY  600 (766)
Q Consensus       556 Lyp~~SllNHSC~PN~~~~f~~~~~--~l~~~A~r~I~~GeeI~~sY  600 (766)
                      ++|.++++||||.||+...+...+.  .+.++|+|+|++||||+++|
T Consensus        70 ~~~~~~~iNHsc~pN~~~~~~~~~~~~~~~~~a~r~I~~GeEi~i~Y  116 (116)
T smart00317       70 KGNIARFINHSCEPNCELLFVEVNGDSRIVIFALRDIKPGEELTIDY  116 (116)
T ss_pred             cCcHHHeeCCCCCCCEEEEEEEECCCcEEEEEECCCcCCCCEEeecC
Confidence            6788999999999999877632222  48899999999999999988

Putative methyl transferase, based on outlier plant homologues

>cd02393 PNPase_KH Polynucleotide phosphorylase (PNPase) K homology RNA-binding domain (KH)

Probab=97.92  E-value=2.4e-05  Score=63.66  Aligned_cols=59  Identities=15%  Similarity=0.219  Sum_probs=53.5

Q ss_pred             eEEEecCCCcchhhhccCcccHHHHHHhcCcEEEEEcccCeEEEEeCCCCCCHHHHHHHHHHHH
Q psy8224          31 MRKVPVPNHRYGPLKENWMKIFTPIVEHLKLQVRFNLKSRNVEIRLSPETEDISNLQKAADFVK   94 (766)
Q Consensus        31 ~~~i~iP~~r~~~l~~~~~~i~~~i~~~~~~~i~i~~~~~~v~i~~~~~t~d~~~~~ka~~~i~   94 (766)
                      +..+.||+++++.|+|+.|++++.|++.+|++|.|+. ++.|.|.+    .|+.++.+|+++|.
T Consensus         3 ~~~i~Ip~~~ig~iIGkgG~~ik~I~~~tg~~I~i~~-~g~v~I~G----~~~~~v~~A~~~I~   61 (61)
T cd02393           3 IETMKIPPDKIRDVIGPGGKTIKKIIEETGVKIDIED-DGTVYIAA----SDKEAAEKAKKMIE   61 (61)
T ss_pred             EEEEEeChhheeeeECCCchHHHHHHHHHCCEEEeCC-CCEEEEEe----CCHHHHHHHHHHhC
Confidence            4679999999999999999999999999999999987 68999998    46889999998873

PNPase is a polyribonucleotide nucleotidyl transferase that degrades mRNA in prokaryotes and plant chloroplasts. The C-terminal region of PNPase contains domains homologous to those in other RNA binding proteins: a KH domain and an S1 domain. KH domains bind single-stranded RNA and are found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA.

>cd00105 KH-I K homology RNA-binding domain, type I

Probab=97.88  E-value=2.3e-05  Score=63.98  Aligned_cols=48  Identities=31%  Similarity=0.477  Sum_probs=43.5

Q ss_pred             hhhccccCCCCcHHHHHHHhhCceEEEeC-------ceEEEEcchhhHHHHHHHH
Q psy8224         134 RAIGRLAGKGGRTKFTIENITKTRIVIAD-------SKIHVLGSYQNVQVALKAL  181 (766)
Q Consensus       134 r~~griiG~~G~t~~~ie~~t~~~I~v~~-------~~v~iiG~~~~l~~ar~~i  181 (766)
                      ...|+|||++|.+++.|+..|||.|.|..       ..|.|.|+.+++..|+..+
T Consensus         9 ~~~~~vIG~~G~~i~~I~~~s~~~I~i~~~~~~~~~~~v~i~G~~~~v~~a~~~i   63 (64)
T cd00105           9 SLVGRIIGKGGSTIKEIREETGAKIKIPDSGSGSEERIVTITGTPEAVEKAKELI   63 (64)
T ss_pred             hhcceeECCCCHHHHHHHHHHCCEEEEcCCCCCCCceEEEEEcCHHHHHHHHHHh
Confidence            45899999999999999999999999976       5599999999999998875

KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA. There are two different KH domains that belong to different protein folds, but they share a single KH motif. The KH motif is folded into a beta alpha alpha beta unit. In addition to the core, type II KH domains (e.g. ribosomal protein S3) include N-terminal extension and type I KH domains (e.g. hnRNP K) contain C-terminal extension.

>smart00322 KH K homology RNA-binding domain

Probab=97.87  E-value=3e-05  Score=63.47  Aligned_cols=52  Identities=29%  Similarity=0.459  Sum_probs=47.8

Q ss_pred             hhhccccCCCCcHHHHHHHhhCceEEEeC-----ceEEEEcchhhHHHHHHHHHHhh
Q psy8224         134 RAIGRLAGKGGRTKFTIENITKTRIVIAD-----SKIHVLGSYQNVQVALKALSNLI  185 (766)
Q Consensus       134 r~~griiG~~G~t~~~ie~~t~~~I~v~~-----~~v~iiG~~~~l~~ar~~i~~~~  185 (766)
                      ...|++||++|.+++.|+..||++|.+.+     ..|.|.|+.++++.|+.++...+
T Consensus        12 ~~~~~liG~~G~~i~~i~~~~~~~i~~~~~~~~~~~v~i~g~~~~v~~a~~~i~~~~   68 (69)
T smart00322       12 DKVGLIIGKGGSTIKKIEEETGVKIDIPEDGSEERVVEITGPPENVEKAAELILEIL   68 (69)
T ss_pred             hhcceeECCCchHHHHHHHHHCCEEEECCCCCCccEEEEEcCHHHHHHHHHHHHHHh
Confidence            45899999999999999999999999987     77999999999999999998765

>PRK12705 hypothetical protein; Provisional

Probab=97.81  E-value=1.4e-05  Score=91.05  Aligned_cols=62  Identities=26%  Similarity=0.475  Sum_probs=53.7

Q ss_pred             ccccchhhhhhccccCCCCcHHHHHHHhhCceEEEeCce-EEEEcchhhHH--HHHHHHHHhh-cCCCC
Q psy8224         126 TLKGDHLSRAIGRLAGKGGRTKFTIENITKTRIVIADSK-IHVLGSYQNVQ--VALKALSNLI-LGSPP  190 (766)
Q Consensus       126 ~~~~~~~~r~~griiG~~G~t~~~ie~~t~~~I~v~~~~-v~iiG~~~~l~--~ar~~i~~~~-~~~~p  190 (766)
                      .++.+.|   +|||||++|+++|++|.+||+.|.|+|.. +.++..|++++  +|+.+++.++ .|..|
T Consensus       203 ~lp~dem---kGriIGreGrNir~~E~~tGvdliiddtp~~V~ls~fdp~rreia~~~l~~Li~dgri~  268 (508)
T PRK12705        203 PIPSDAM---KGRIIGREGRNIRAFEGLTGVDLIIDDTPEAVVISSFNPIRREIARLTLEKLLADGRIH  268 (508)
T ss_pred             ecCChHh---hccccCccchhHHHHHHhhCCceEecCCccchhhcccCccchHHHHHHHHHHHhcCCCC
Confidence            4556777   99999999999999999999999999977 66688899877  9999999999 56543

>KOG2589|consensus

Probab=97.77  E-value=1.9e-05  Score=83.53  Aligned_cols=59  Identities=29%  Similarity=0.613  Sum_probs=50.6

Q ss_pred             hcccCCCCCCCeEEEEEeCC-eEEEEEEecccCCCCeEEeecCCCCCCHHHHHHHHhCCCCcEEeccCCCCC
Q psy8224         624 TAMLSHNCKPNTKHVIVNED-FSLQLIALVNIRKGDIISTTYTQPFWGTMDRRLHLRMSKCFDCTCDRCKDP  694 (766)
Q Consensus       624 ~s~~NHsC~PN~~~~~~~~g-~~l~vra~r~I~~GeeI~isY~~~~~~~~~Rr~~L~~~y~F~C~C~rC~~~  694 (766)
                      ++++||.|.||+..+-  .| ..+.|+++|||++|||||.=|+..+.+.          ..-.|.|.-|...
T Consensus       197 aafINHDCrpnCkFvs--~g~~tacvkvlRDIePGeEITcFYgs~fFG~----------~N~~CeC~TCER~  256 (453)
T KOG2589|consen  197 AAFINHDCRPNCKFVS--TGRDTACVKVLRDIEPGEEITCFYGSGFFGE----------NNEECECVTCERR  256 (453)
T ss_pred             HHhhcCCCCCCceeec--CCCceeeeehhhcCCCCceeEEeecccccCC----------CCceeEEeecccc
Confidence            5689999999997665  45 7999999999999999999999988875          2457999999865

>cd02396 PCBP_like_KH K homology RNA-binding domain, PCBP_like

Probab=97.74  E-value=4.9e-05  Score=62.61  Aligned_cols=48  Identities=29%  Similarity=0.395  Sum_probs=43.1

Q ss_pred             hhhccccCCCCcHHHHHHHhhCceEEEeC--------ceEEEEcchhhHHHHHHHH
Q psy8224         134 RAIGRLAGKGGRTKFTIENITKTRIVIAD--------SKIHVLGSYQNVQVALKAL  181 (766)
Q Consensus       134 r~~griiG~~G~t~~~ie~~t~~~I~v~~--------~~v~iiG~~~~l~~ar~~i  181 (766)
                      ..+|+|||++|.+++.|+..|||+|.|..        +.|.|.|+.++++.|+..|
T Consensus         9 ~~vg~iIG~~G~~i~~i~~~tga~I~i~~~~~~~~~~r~v~I~G~~~~v~~A~~~I   64 (65)
T cd02396           9 SQAGSIIGKGGSTIKEIREETGAKIRVSKSVLPGSTERVVTISGKPSAVQKALLLI   64 (65)
T ss_pred             HHcCeeECCCcHHHHHHHHHHCCEEEEcCCCCCCCCceEEEEEeCHHHHHHHHHhh
Confidence            55999999999999999999999999964        3489999999999998765

Members of this group possess KH domains in a tandem arrangement. Most members, similar to the poly(C) binding proteins (PCBPs) and Nova, containing three KH domains, with the first and second domains, which are represented here, in tandem arrangement, followed by a large spacer region, with the third domain near the C-terminal end of the protein. The poly(C) binding proteins (PCBPs) can be divided into two groups, hnRNPs K/J and the alphaCPs, which share a triple KH domain configuration and poly(C) binding specificity. They play roles in mRNA stabilization, translational activation, and translational silencing. Nova-1 and Nova-2 are nuclear RNA-binding proteins that regulate splicing. This group also contains plant proteins that seem to have two tandem repeat arrrangements, like Hen4, a protein that plays a role in AGAMOUS (AG) pre-mRNA processing and important step in plant development. In general, KH binds single-stran

>KOG1710|consensus

Probab=97.72  E-value=2.6e-06  Score=87.43  Aligned_cols=43  Identities=35%  Similarity=0.742  Sum_probs=39.7

Q ss_pred             CCcccccCCc-ccCCCCCCCCcccCCchhhccccccccCCCccc
Q psy8224         314 SGKCEVCKVA-ASLKCGGCNQVFYCSKSHQKQHWKEHKPGCAKY  356 (766)
Q Consensus       314 ~~~C~~C~~~-~~~~C~~C~~v~YCs~~cq~~~w~~Hk~~C~~l  356 (766)
                      -+.|..||++ +.++|++|+++.||+++||+.||-.||..|+.+
T Consensus       319 ~~fCstCG~~ga~KrCs~CKav~YCdqeCQk~hWf~HKK~C~~L  362 (396)
T KOG1710|consen  319 CQFCSTCGHPGAKKRCSQCKAVAYCDQECQKFHWFIHKKVCSFL  362 (396)
T ss_pred             cccccccCCCCccchhhhhHHHHHHHHHHHHhhhHHHHHHHHHH
Confidence            3679999998 578899999999999999999999999999877

>KOG2190|consensus

Probab=97.65  E-value=0.0003  Score=80.06  Aligned_cols=147  Identities=21%  Similarity=0.228  Sum_probs=104.6

Q ss_pred             ceEEEecCCCcchhhhccCcccHHHHHHhcCcEEEEEcc-----cCeEEEEeC----CCCCCHHHHHHHHHHHHHHHcCC
Q psy8224          30 DMRKVPVPNHRYGPLKENWMKIFTPIVEHLKLQVRFNLK-----SRNVEIRLS----PETEDISNLQKAADFVKAFVYGF  100 (766)
Q Consensus        30 ~~~~i~iP~~r~~~l~~~~~~i~~~i~~~~~~~i~i~~~-----~~~v~i~~~----~~t~d~~~~~ka~~~i~ai~~gf  100 (766)
                      .++.+..|-..+|-+||+.|+++++|...++.+++|+..     ++-|+|.++    ...+.-.++.||.++|-..   |
T Consensus        43 ~~~RlL~~~kevG~IIGk~G~~vkkir~~t~s~i~i~~~~~~c~eRIiti~g~~~~~~~~~~~~al~ka~~~iv~~---~  119 (485)
T KOG2190|consen   43 LTYRLLCHVKEVGSIIGKKGDIVKKIRKETESKIRVNESLPGCPERIITITGNRVELNLSPATDALFKAFDMIVFK---L  119 (485)
T ss_pred             ceEEEEeccccceeEEccCcHHHHHHhhcccccceeecCCCCCCcceEEEecccccccCCchHHHHHHHHHHHhhc---c
Confidence            568899999999999999999999999888888888654     566666651    0011336788888887432   2


Q ss_pred             ChhhHHhhcccccce-eee---eeeccccccccchhhhhhccccCCCCcHHHHHHHhhCceEEEeCc--------eEEEE
Q psy8224         101 DVDDALALLRLDNLF-IES---FEIKDVKTLKGDHLSRAIGRLAGKGGRTKFTIENITKTRIVIADS--------KIHVL  168 (766)
Q Consensus       101 ~~~~a~~ll~~d~~~-~~~---~~i~~~~~~~~~~~~r~~griiG~~G~t~~~ie~~t~~~I~v~~~--------~v~ii  168 (766)
                      . ++....   +|.- .+.   +.++=++.      +-..|=||||+|+.+|.|.+.||++|.|.++        .|-|-
T Consensus       120 ~-~d~~~~---~d~~~~~~~~~v~~RLlVp------~sq~GslIGK~G~~Ik~Ire~TgA~I~v~~~~lP~ster~V~Is  189 (485)
T KOG2190|consen  120 E-EDDEAA---EDNGEDASGPEVTCRLLVP------SSQVGSLIGKGGSLIKEIREETGAKIRVSSDMLPNSTERAVTIS  189 (485)
T ss_pred             c-cccccc---ccCCccccCCceEEEEEec------hhheeeeeccCcHHHHHHHHhcCceEEecCCCCCcccceeEEEc
Confidence            2 010000   1110 000   11222221      2458999999999999999999999999764        49999


Q ss_pred             cchhhHHHHHHHHHHhhcCCC
Q psy8224         169 GSYQNVQVALKALSNLILGSP  189 (766)
Q Consensus       169 G~~~~l~~ar~~i~~~~~~~~  189 (766)
                      |..+.++.|-..|+.+++...
T Consensus       190 G~~~av~~al~~Is~~L~~~~  210 (485)
T KOG2190|consen  190 GEPDAVKKALVQISSRLLENP  210 (485)
T ss_pred             CchHHHHHHHHHHHHHHHhcC
Confidence            999999999999999997743

>COG2940 Proteins containing SET domain [General function prediction only]

Probab=97.49  E-value=5.7e-05  Score=87.00  Aligned_cols=74  Identities=19%  Similarity=0.397  Sum_probs=61.4

Q ss_pred             hhhhcccCCCCCCCeEEEEEeCC--eEEEEEEecccCCCCeEEeecCCCCCCHHHHHHHHhCCCCcEEeccCCCCC
Q psy8224         621 YMKTAMLSHNCKPNTKHVIVNED--FSLQLIALVNIRKGDIISTTYTQPFWGTMDRRLHLRMSKCFDCTCDRCKDP  694 (766)
Q Consensus       621 yp~~s~~NHsC~PN~~~~~~~~g--~~l~vra~r~I~~GeeI~isY~~~~~~~~~Rr~~L~~~y~F~C~C~rC~~~  694 (766)
                      -..+.++||||.||+........  ..+..+|++||.+||||+..|....+....+...+...+...|.|.+|...
T Consensus       403 g~~~r~~nHS~~pN~~~~~~~~~g~~~~~~~~~rDI~~geEl~~dy~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  478 (480)
T COG2940         403 GDVARFINHSCTPNCEASPIEVNGIFKISIYAIRDIKAGEELTYDYGPSLEDNRELKKLLEKRWGCACGEDRCSHT  478 (480)
T ss_pred             ccccceeecCCCCCcceecccccccceeeecccccchhhhhhccccccccccchhhhhhhhhhhccccCCCccCCC
Confidence            34567899999999998875433  489999999999999999999998886655566777788899999999764

>PRK13763 putative RNA-processing protein; Provisional

Probab=97.47  E-value=0.00017  Score=71.88  Aligned_cols=65  Identities=15%  Similarity=0.076  Sum_probs=60.3

Q ss_pred             cchhhhccCcccHHHHHHhcCcEEEEEcccCeEEEEeCCCCCCHHHHHHHHHHHHHHHcCCChhhHHhhccc
Q psy8224          40 RYGPLKENWMKIFTPIVEHLKLQVRFNLKSRNVEIRLSPETEDISNLQKAADFVKAFVYGFDVDDALALLRL  111 (766)
Q Consensus        40 r~~~l~~~~~~i~~~i~~~~~~~i~i~~~~~~v~i~~~~~t~d~~~~~ka~~~i~ai~~gf~~~~a~~ll~~  111 (766)
                      +.|.|||+.|++++.|++.+|++|.|+.  +.|.|.+     ||..+..|++.|.+|.+|+.++.++++|++
T Consensus       105 ~~griIG~~G~~~k~ie~~t~~~i~i~~--~~v~i~G-----~~~~~~~A~~~I~~li~g~~~~~~~~~l~~  169 (180)
T PRK13763        105 IKGRIIGEGGKTRRIIEELTGVDISVYG--KTVAIIG-----DPEQVEIAREAIEMLIEGAPHGTVYKFLER  169 (180)
T ss_pred             HhhheeCCCcHHHHHHHHHHCcEEEEcC--CEEEEEe-----CHHHHHHHHHHHHHHHcCCCcHHHHHHHHH
Confidence            7899999999999999999999999985  4588775     999999999999999999999999999983

>PF13014 KH_3: KH domain

Probab=97.44  E-value=0.00016  Score=54.34  Aligned_cols=27  Identities=41%  Similarity=0.613  Sum_probs=25.8

Q ss_pred             hccccCCCCcHHHHHHHhhCceEEEeC
Q psy8224         136 IGRLAGKGGRTKFTIENITKTRIVIAD  162 (766)
Q Consensus       136 ~griiG~~G~t~~~ie~~t~~~I~v~~  162 (766)
                      .|+|||++|.+++.|+..|||+|.|..
T Consensus         2 vg~iIG~~G~~I~~I~~~tg~~I~i~~   28 (43)
T PF13014_consen    2 VGRIIGKGGSTIKEIREETGAKIQIPP   28 (43)
T ss_pred             cCeEECCCChHHHHHHHHhCcEEEECC
Confidence            689999999999999999999999976

>PF00013 KH_1: KH domain syndrome, contains KH motifs

Probab=97.39  E-value=0.00028  Score=56.96  Aligned_cols=58  Identities=16%  Similarity=0.181  Sum_probs=52.0

Q ss_pred             eEEEecCCCcchhhhccCcccHHHHHHhcCcEEEEEcc--cCeEEEEeCCCCCCHHHHHHHHHHH
Q psy8224          31 MRKVPVPNHRYGPLKENWMKIFTPIVEHLKLQVRFNLK--SRNVEIRLSPETEDISNLQKAADFV   93 (766)
Q Consensus        31 ~~~i~iP~~r~~~l~~~~~~i~~~i~~~~~~~i~i~~~--~~~v~i~~~~~t~d~~~~~ka~~~i   93 (766)
                      |..+.||...+++|+|+.|..++.|++.++++|.++..  ...|.|.+     ++..+.+|+++|
T Consensus         1 T~~i~vp~~~~~~iIG~~G~~i~~I~~~t~~~I~i~~~~~~~~v~I~G-----~~~~v~~A~~~I   60 (60)
T PF00013_consen    1 TERIEVPSSLVGRIIGKKGSNIKEIEEETGVKIQIPDDDERDIVTISG-----SPEQVEKAKKMI   60 (60)
T ss_dssp             EEEEEEEHHHHHHHHTGGGHHHHHHHHHHTSEEEEESTTEEEEEEEEE-----SHHHHHHHHHHH
T ss_pred             CEEEEECHHHcCEEECCCCCcHHHhhhhcCeEEEEcCCCCcEEEEEEe-----CHHHHHHHHhhC
Confidence            56899999999999999999999999999999999765  45788887     889999999876

; InterPro: IPR018111 The K homology (KH) domain was first identified in the human heterogeneous nuclear ribonucleoprotein (hnRNP) K. It is a domain of around 70 amino acids that is present in a wide variety of quite diverse nucleic acid-binding proteins []. It has been shown to bind RNA [, ]. Like many other RNA-binding motifs, KH motifs are found in one or multiple copies (14 copies in chicken vigilin) and, at least for hnRNP K (three copies) and FMR-1 (two copies), each motif is necessary for in vitro RNA binding activity, suggesting that they may function cooperatively or, in the case of single KH motif proteins (for example, Mer1p), independently []. According to structural [, , ] analysis the KH domain can be separated in two groups. The first group or type-1 contain a beta-alpha-alpha-beta-beta-alpha structure, whereas in the type-2 the two last beta-sheet are located in the N-terminal part of the domain (alpha-beta-beta-alpha-alpha-beta). Sequence similarity between these two folds are limited to a short region (VIGXXGXXI) in the RNA binding motif. This motif is located between helice 1 and 2 in type-1 and between helice 2 and 3 in type-2. Proteins known to contain a type-1 KH domain include bacterial polyribonucleotide nucleotidyltransferases (2.7.7.8 from EC); vertebrate fragile X mental retardation protein 1 (FMR1); eukaryotic heterogeneous nuclear ribonucleoprotein K (hnRNP K), one of at least 20 major proteins that are part of hnRNP particles in mammalian cells; mammalian poly(rC) binding proteins; Artemia salina glycine-rich protein GRP33; yeast PAB1-binding protein 2 (PBP2); vertebrate vigilin; and human high-density lipoprotein binding protein (HDL-binding protein). More information about these proteins can be found at Protein of the Month: RNA Exosomes [].; GO: 0003723 RNA binding; PDB: 1TUA_A 2Z0S_A 1WE8_A 4AM3_B 4AIM_A 4AID_A 2HH3_A 2JVZ_A 1J4W_A 2HH2_A ....

>TIGR03665 arCOG04150 arCOG04150 universal archaeal KH domain protein

Probab=97.22  E-value=0.00048  Score=68.23  Aligned_cols=58  Identities=29%  Similarity=0.360  Sum_probs=51.5

Q ss_pred             hhhccccCCCCcHHHHHHHhhCceEEEeCc--eEEE---EcchhhHHHHHHHHHHhhcCCCCc
Q psy8224         134 RAIGRLAGKGGRTKFTIENITKTRIVIADS--KIHV---LGSYQNVQVALKALSNLILGSPPN  191 (766)
Q Consensus       134 r~~griiG~~G~t~~~ie~~t~~~I~v~~~--~v~i---iG~~~~l~~ar~~i~~~~~~~~p~  191 (766)
                      ..+|.|||++|+|++.||..||++|.|.++  +|.|   -++.+.+..|+++|..+.+|-+|.
T Consensus         7 ~kig~vIG~gG~~Ik~I~~~tgv~I~Id~~~g~V~I~~~t~d~~~i~kA~~~I~~i~~gf~~e   69 (172)
T TIGR03665         7 DRIGVLIGKGGETKKEIEERTGVKLDIDSETGEVKIEEEDEDPLAVMKAREVVKAIGRGFSPE   69 (172)
T ss_pred             HHhhhHhCCchhHHHHHHHHhCcEEEEEcCCceEEEecCCCCHHHHHHHHHHHHHHHcCCCHH
Confidence            459999999999999999999999999975  6777   577889999999999999986654

This family of proteins is universal among the 41 archaeal genomes analyzed in and is not observed outside of the archaea. The proteins contain a single KH domain (pfam00013) which is likely to confer the ability to bind RNA.

>KOG1080|consensus

Probab=97.15  E-value=0.00032  Score=85.30  Aligned_cols=46  Identities=22%  Similarity=0.449  Sum_probs=38.7

Q ss_pred             hhcccCCCCCCCeEEEE--EeCCeEEEEEEecccCCCCeEEeecCCCC
Q psy8224         623 KTAMLSHNCKPNTKHVI--VNEDFSLQLIALVNIRKGDIISTTYTQPF  668 (766)
Q Consensus       623 ~~s~~NHsC~PN~~~~~--~~~g~~l~vra~r~I~~GeeI~isY~~~~  668 (766)
                      ++.+|||||.|||....  ++...++++.|.|+|.+|||||-.|--..
T Consensus       939 iAr~InHsC~PNCyakvi~V~g~~~IvIyakr~I~~~EElTYDYkF~~  986 (1005)
T KOG1080|consen  939 IARFINHSCNPNCYAKVITVEGDKRIVIYSKRDIAAGEELTYDYKFPT  986 (1005)
T ss_pred             hhheeecccCCCceeeEEEecCeeEEEEEEecccccCceeeeeccccc
Confidence            57799999999996655  44558999999999999999999996544

>KOG4442|consensus

Probab=97.15  E-value=0.00034  Score=80.06  Aligned_cols=48  Identities=23%  Similarity=0.491  Sum_probs=38.2

Q ss_pred             hcccCCCCCCCeEEE-E-EeCCeEEEEEEecccCCCCeEEeecCCCCCCH
Q psy8224         624 TAMLSHNCKPNTKHV-I-VNEDFSLQLIALVNIRKGDIISTTYTQPFWGT  671 (766)
Q Consensus       624 ~s~~NHsC~PN~~~~-~-~~~g~~l~vra~r~I~~GeeI~isY~~~~~~~  671 (766)
                      +-++||||+||+..- | +++-.+|=+.|.|+|++|||||.-|--...+.
T Consensus       194 aRFiNHSC~PNa~~~KWtV~~~lRvGiFakk~I~~GEEITFDYqf~rYGr  243 (729)
T KOG4442|consen  194 ARFINHSCDPNAEVQKWTVPDELRVGIFAKKVIKPGEEITFDYQFDRYGR  243 (729)
T ss_pred             HHhhcCCCCCCceeeeeeeCCeeEEEEeEecccCCCceeeEecccccccc
Confidence            347899999999432 3 34457888999999999999999998766654

>cd02394 vigilin_like_KH K homology RNA-binding domain_vigilin_like

Probab=97.15  E-value=0.00084  Score=54.57  Aligned_cols=57  Identities=19%  Similarity=0.206  Sum_probs=51.4

Q ss_pred             EEEecCCCcchhhhccCcccHHHHHHhcCcEEEEEcc---cCeEEEEeCCCCCCHHHHHHHHHHH
Q psy8224          32 RKVPVPNHRYGPLKENWMKIFTPIVEHLKLQVRFNLK---SRNVEIRLSPETEDISNLQKAADFV   93 (766)
Q Consensus        32 ~~i~iP~~r~~~l~~~~~~i~~~i~~~~~~~i~i~~~---~~~v~i~~~~~t~d~~~~~ka~~~i   93 (766)
                      .++.||+...+.|+|..|..++.|++.+|++|.+...   ++.|+|.+     ++.++.+|.++|
T Consensus         2 ~~i~Vp~~~~~~iIG~~G~~i~~i~~~~g~~I~i~~~~~~~~~v~I~G-----~~~~v~~A~~~i   61 (62)
T cd02394           2 EEVEIPKKLHRFIIGKKGSNIRKIMEETGVKIRFPDPGSKSDTITITG-----PKENVEKAKEEI   61 (62)
T ss_pred             eEEEeCHHHhhhccCCCCCcHHHHHHHhCCEEEcCCCCCCCCEEEEEc-----CHHHHHHHHHHh
Confidence            5789999999999999999999999999999999864   78999998     478888988876

The vigilin family is a large and extended family of multiple KH-domain proteins, including vigilin, also called high density lipoprotein binding protien (HBP), fungal Scp160 and bicaudal-C. Yeast Scp160p has been shown to bind RNA and to associate with both soluble and membrane-bound polyribosomes as a mRNP component. Bicaudal-C is a RNA-binding molecule believed to function in embryonic development at the post-transcriptional level. In general, KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA.

>cd02396 PCBP_like_KH K homology RNA-binding domain, PCBP_like

Probab=97.10  E-value=0.00095  Score=54.96  Aligned_cols=58  Identities=22%  Similarity=0.205  Sum_probs=50.9

Q ss_pred             eEEEecCCCcchhhhccCcccHHHHHHhcCcEEEEEccc------CeEEEEeCCCCCCHHHHHHHHHHH
Q psy8224          31 MRKVPVPNHRYGPLKENWMKIFTPIVEHLKLQVRFNLKS------RNVEIRLSPETEDISNLQKAADFV   93 (766)
Q Consensus        31 ~~~i~iP~~r~~~l~~~~~~i~~~i~~~~~~~i~i~~~~------~~v~i~~~~~t~d~~~~~ka~~~i   93 (766)
                      +.++.||...++.|+|++|...+.|.+.+|++|.+....      +.|+|.+     ++..+.+|..+|
T Consensus         1 ~~r~~ip~~~vg~iIG~~G~~i~~i~~~tga~I~i~~~~~~~~~~r~v~I~G-----~~~~v~~A~~~I   64 (65)
T cd02396           1 TLRLLVPSSQAGSIIGKGGSTIKEIREETGAKIRVSKSVLPGSTERVVTISG-----KPSAVQKALLLI   64 (65)
T ss_pred             CEEEEECHHHcCeeECCCcHHHHHHHHHHCCEEEEcCCCCCCCCceEEEEEe-----CHHHHHHHHHhh
Confidence            468999999999999999999999999999999997543      5777877     788999998876

Members of this group possess KH domains in a tandem arrangement. Most members, similar to the poly(C) binding proteins (PCBPs) and Nova, containing three KH domains, with the first and second domains, which are represented here, in tandem arrangement, followed by a large spacer region, with the third domain near the C-terminal end of the protein. The poly(C) binding proteins (PCBPs) can be divided into two groups, hnRNPs K/J and the alphaCPs, which share a triple KH domain configuration and poly(C) binding specificity. They play roles in mRNA stabilization, translational activation, and translational silencing. Nova-1 and Nova-2 are nuclear RNA-binding proteins that regulate splicing. This group also contains plant proteins that seem to have two tandem repeat arrrangements, like Hen4, a protein that plays a role in AGAMOUS (AG) pre-mRNA processing and important step in plant development. In general, KH binds single-stran

>cd00105 KH-I K homology RNA-binding domain, type I

Probab=96.94  E-value=0.0019  Score=52.52  Aligned_cols=57  Identities=19%  Similarity=0.213  Sum_probs=50.2

Q ss_pred             EEEecCCCcchhhhccCcccHHHHHHhcCcEEEEEcc-----cCeEEEEeCCCCCCHHHHHHHHHHH
Q psy8224          32 RKVPVPNHRYGPLKENWMKIFTPIVEHLKLQVRFNLK-----SRNVEIRLSPETEDISNLQKAADFV   93 (766)
Q Consensus        32 ~~i~iP~~r~~~l~~~~~~i~~~i~~~~~~~i~i~~~-----~~~v~i~~~~~t~d~~~~~ka~~~i   93 (766)
                      ..+.||.+.+++|+|..|...+.|++.+++.|.|...     .+.|.|.+     ++..+.+|+.+|
T Consensus         2 ~~i~ip~~~~~~vIG~~G~~i~~I~~~s~~~I~i~~~~~~~~~~~v~i~G-----~~~~v~~a~~~i   63 (64)
T cd00105           2 ERVLVPSSLVGRIIGKGGSTIKEIREETGAKIKIPDSGSGSEERIVTITG-----TPEAVEKAKELI   63 (64)
T ss_pred             EEEEEchhhcceeECCCCHHHHHHHHHHCCEEEEcCCCCCCCceEEEEEc-----CHHHHHHHHHHh
Confidence            5789999999999999999999999999999999864     56778887     478888888876

KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA. There are two different KH domains that belong to different protein folds, but they share a single KH motif. The KH motif is folded into a beta alpha alpha beta unit. In addition to the core, type II KH domains (e.g. ribosomal protein S3) include N-terminal extension and type I KH domains (e.g. hnRNP K) contain C-terminal extension.

>KOG4442|consensus

Probab=96.93  E-value=0.0008  Score=77.16  Aligned_cols=44  Identities=30%  Similarity=0.456  Sum_probs=36.9

Q ss_pred             CCchhhccccccccCCCccccccccccccccccccccccCCceEee
Q psy8224         337 CSKSHQKQHWKEHKPGCAKYKVVRNDILGRHMVATKDIREGEIILE  382 (766)
Q Consensus       337 Cs~~cq~~~w~~Hk~~C~~l~v~~s~~~GR~lvA~r~~~~ge~Il~  382 (766)
                      |+..|+.+..+.  .++..++++..+.+|.|+.|..+|++|+.|++
T Consensus       105 cg~~C~NQRFQk--kqyA~vevF~Te~KG~GLRA~~dI~~g~FI~E  148 (729)
T KOG4442|consen  105 CGVYCKNQRFQK--KQYAKVEVFLTEKKGCGLRAEEDIPKGQFILE  148 (729)
T ss_pred             ccccccchhhhh--hccCceeEEEecCcccceeeccccCCCcEEee
Confidence            667788765554  45778888899999999999999999999988

>KOG2589|consensus

Probab=96.90  E-value=0.0007  Score=71.97  Aligned_cols=78  Identities=23%  Similarity=0.353  Sum_probs=58.7

Q ss_pred             ccccccccccCCceeeeecCccchhhhhhhcccCCCeeeecccCCCCCcccc----ccccccchhhhhhhcccCCCCCCC
Q psy8224         559 KTAMLSHNCKPNTKHVIVNEDFSLQLIALVNICKGDIISTTYTQPFWGTMDR----RLHLRMSKWIYMKTAMLSHNCKPN  634 (766)
Q Consensus       559 ~~SllNHSC~PN~~~~f~~~~~~l~~~A~r~I~~GeeI~~sY~~~~~~~~~r----~~~~~i~~glyp~~s~~NHsC~PN  634 (766)
                      -++.+||+|.||+..+- .+.+..-|+++|+|.+||||+.-|+..|+|....    ..-.+.|.|-|-.. .=+-||.|-
T Consensus       196 PaafINHDCrpnCkFvs-~g~~tacvkvlRDIePGeEITcFYgs~fFG~~N~~CeC~TCER~g~gaFk~~-~g~~s~~p~  273 (453)
T KOG2589|consen  196 PAAFINHDCRPNCKFVS-TGRDTACVKVLRDIEPGEEITCFYGSGFFGENNEECECVTCERRGTGAFKKL-AGLPSCSPK  273 (453)
T ss_pred             cHHhhcCCCCCCceeec-CCCceeeeehhhcCCCCceeEEeecccccCCCCceeEEeecccccccchhhc-cCCCCCCCc
Confidence            45789999999998765 4547899999999999999999999999998432    34556666666544 346677776


Q ss_pred             eEEE
Q psy8224         635 TKHV  638 (766)
Q Consensus       635 ~~~~  638 (766)
                      ...-
T Consensus       274 ~s~k  277 (453)
T KOG2589|consen  274 ISSK  277 (453)
T ss_pred             cccc
Confidence            5433

>KOG2190|consensus

Probab=96.46  E-value=0.0063  Score=69.50  Aligned_cols=150  Identities=19%  Similarity=0.167  Sum_probs=99.5

Q ss_pred             ceEEEecCCCcchhhhccCcccHHHHHHhcCcEEEEEc------ccCeEEEEeCCCCCCHHHHHHHHHHHHHHHcCCC--
Q psy8224          30 DMRKVPVPNHRYGPLKENWMKIFTPIVEHLKLQVRFNL------KSRNVEIRLSPETEDISNLQKAADFVKAFVYGFD--  101 (766)
Q Consensus        30 ~~~~i~iP~~r~~~l~~~~~~i~~~i~~~~~~~i~i~~------~~~~v~i~~~~~t~d~~~~~ka~~~i~ai~~gf~--  101 (766)
                      -+..+.||...+|.|||+.|++++.|.+.++++|++-.      .++.|+|.+     .+.++.+|--.|-.+.+-+.  
T Consensus       138 v~~RLlVp~sq~GslIGK~G~~Ik~Ire~TgA~I~v~~~~lP~ster~V~IsG-----~~~av~~al~~Is~~L~~~~~~  212 (485)
T KOG2190|consen  138 VTCRLLVPSSQVGSLIGKGGSLIKEIREETGAKIRVSSDMLPNSTERAVTISG-----EPDAVKKALVQISSRLLENPPR  212 (485)
T ss_pred             eEEEEEechhheeeeeccCcHHHHHHHHhcCceEEecCCCCCcccceeEEEcC-----chHHHHHHHHHHHHHHHhcCCc
Confidence            36789999999999999999999999999999999953      477788876     88999999988888877632  


Q ss_pred             ---hhhHHhhccc-----ccceeeeeeec-------cccccc-----cchhhhhhccccCCCCcHHHHHHHhhCceEEEe
Q psy8224         102 ---VDDALALLRL-----DNLFIESFEIK-------DVKTLK-----GDHLSRAIGRLAGKGGRTKFTIENITKTRIVIA  161 (766)
Q Consensus       102 ---~~~a~~ll~~-----d~~~~~~~~i~-------~~~~~~-----~~~~~r~~griiG~~G~t~~~ie~~t~~~I~v~  161 (766)
                         +-.+-.-.+-     ..+.....--.       ..+...     --...-.+++|||++|-..+++++.||+-|.|.
T Consensus       213 ~~~~~~st~~y~P~~~~~~~~~~s~~~~~~~~~~~~~~~~~~e~~~~~~~p~~~~~~v~g~~~~~i~~l~~~~~~~i~v~  292 (485)
T KOG2190|consen  213 SPPPLVSTIPYRPSASQGGPVLPSTAQTSPDAHPFGGIVPEEELVFKLICPSDKVGSVIGKGGLVIRALRNETGASISVG  292 (485)
T ss_pred             CCCCCCCcccCCCcccccCccccccccCCcccccccccccchhhhhhhcCchhhceeeecCCCccchhhhhhcCCceEec
Confidence               2222222110     00100000000       000000     011234689999999999999999999999998


Q ss_pred             CceE---EEEcchhhHH----HHHHHHHHh
Q psy8224         162 DSKI---HVLGSYQNVQ----VALKALSNL  184 (766)
Q Consensus       162 ~~~v---~iiG~~~~l~----~ar~~i~~~  184 (766)
                      +...   ..+...+..+    .|.+++-..
T Consensus       293 ~~~~~~~i~~s~~e~~~~~~s~a~~a~~~~  322 (485)
T KOG2190|consen  293 DSRTDRIVTISARENPEDRYSMAQEALLLV  322 (485)
T ss_pred             cccCcceeeeccccCcccccccchhhhhhc
Confidence            7542   3444444333    555555333

>PF01753 zf-MYND: MYND finger; InterPro: IPR002893 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule

Probab=96.43  E-value=0.00019  Score=52.07  Aligned_cols=26  Identities=35%  Similarity=0.900  Sum_probs=22.6

Q ss_pred             cccCCCCCc-cccCccCC--CCCCcHhhh
Q psy8224         418 FYKCSDCGW-PLCAPRCK--SLPSHQKEC  443 (766)
Q Consensus       418 ~~~C~~C~~-~yCS~~C~--~~~~H~~EC  443 (766)
                      +.+|++|+. .|||++|+  +|..|+.+|
T Consensus         9 ~~~C~~C~~~~YCs~~Cq~~~w~~Hk~~C   37 (37)
T PF01753_consen    9 LKRCSRCKSVYYCSEECQRADWPYHKFEC   37 (37)
T ss_dssp             SEEETTTSSSEESSHHHHHHHHHHHCCTH
T ss_pred             CCcCCCCCCEEecCHHHHHHHHHHHhhhC
Confidence            459999998 99999998  488898887

Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents MYND-type zinc finger domains. The MYND domain (myeloid, Nervy, and DEAF-1) is present in a large group of proteins that includes RP-8 (PDCD2), Nervy, and predicted proteins from Drosophila, mammals, Caenorhabditis elegans, yeast, and plants [, , ]. The MYND domain consists of a cluster of cysteine and histidine residues, arranged with an invariant spacing to form a potential zinc-binding motif []. Mutating conserved cysteine residues in the DEAF-1 MYND domain does not abolish DNA binding, which suggests that the MYND domain might be involved in protein-protein interactions []. Indeed, the MYND domain of ETO/MTG8 interacts directly with the N-CoR and SMRT co-repressors [, ]. Aberrant recruitment of co-repressor complexes and inappropriate transcriptional repression is believed to be a general mechanism of leukemogenesis caused by the t(8;21) translocations that fuse ETO with the acute myelogenous leukemia 1 (AML1) protein. ETO has been shown to be a co-repressor recruited by the promyelocytic leukemia zinc finger (PLZF) protein []. A divergent MYND domain present in the adenovirus E1A binding protein BS69 was also shown to interact with N-CoR and mediate transcriptional repression []. The current evidence suggests that the MYND motif in mammalian proteins constitutes a protein-protein interaction domain that functions as a co-repressor-recruiting interface. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 3QWW_A 3QWV_A 3TG5_A 3S7F_A 3RIB_B 3TG4_A 3S7J_A 3S7D_A 3S7B_A 3RU0_A ....

>KOG1083|consensus

Probab=96.39  E-value=0.0015  Score=77.63  Aligned_cols=105  Identities=21%  Similarity=0.313  Sum_probs=72.6

Q ss_pred             cccccccccCCceeeeecCccchhhhhhhcccCCCeeeecccCC-----CCCc------ccc-ccccccchhhhh-----
Q psy8224         560 TAMLSHNCKPNTKHVIVNEDFSLQLIALVNICKGDIISTTYTQP-----FWGT------MDR-RLHLRMSKWIYM-----  622 (766)
Q Consensus       560 ~SllNHSC~PN~~~~f~~~~~~l~~~A~r~I~~GeeI~~sY~~~-----~~~~------~~r-~~~~~i~~glyp-----  622 (766)
                      ..|.-|.|.|-..+.| ++..-..+++..+|+.|+-|+.--|..     |-..      +++ ...+.+..+.++     
T Consensus      1169 qrm~r~e~cp~L~v~~-gp~~G~~v~tk~PikagtfI~EYvGeVit~ke~e~~mmtl~~~d~~~~cL~I~p~l~id~~R~ 1247 (1306)
T KOG1083|consen 1169 QRMQRHEECPPLEVFR-GPKKGWGVRTKEPIKAGTFIMEYVGEVITEKEFEPRMMTLYHNDDDHYCLVIDPGLFIDIPRM 1247 (1306)
T ss_pred             HHhhhhccCCCcceec-cCCCCccccccccccccchHHHHHHHHHHHHhhcccccccCCCCCcccccccCccccCChhhc
Confidence            5677888888888888 877778899999999998886433331     1111      111 122333333332     


Q ss_pred             --hhcccCCCCCCCeEEE-E-EeCCeEEEEEEecccCCCCeEEeecC
Q psy8224         623 --KTAMLSHNCKPNTKHV-I-VNEDFSLQLIALVNIRKGDIISTTYT  665 (766)
Q Consensus       623 --~~s~~NHsC~PN~~~~-~-~~~g~~l~vra~r~I~~GeeI~isY~  665 (766)
                        .+-++||||.||+... | ++.-.++-|.|+|||.+||||+.-|=
T Consensus      1248 ~n~~RfinhscKPNc~~qkwSVNG~~Rv~L~A~rDi~kGEELtYDYN 1294 (1306)
T KOG1083|consen 1248 GNGARFINHSCKPNCEMQKWSVNGEYRVGLFALRDLPKGEELTYDYN 1294 (1306)
T ss_pred             cccccccccccCCCCccccccccceeeeeeeecCCCCCCceEEEecc
Confidence              3457799999999544 3 34348999999999999999999874

>TIGR02696 pppGpp_PNP guanosine pentaphosphate synthetase I/polynucleotide phosphorylase

Probab=96.30  E-value=0.0094  Score=70.53  Aligned_cols=70  Identities=14%  Similarity=0.134  Sum_probs=62.9

Q ss_pred             CceEEEecCCCcchhhhccCcccHHHHHHhcCcEEEEEcccCeEEEEeCCCCCCHHHHHHHHHHHHHHHcCCChh
Q psy8224          29 VDMRKVPVPNHRYGPLKENWMKIFTPIVEHLKLQVRFNLKSRNVEIRLSPETEDISNLQKAADFVKAFVYGFDVD  103 (766)
Q Consensus        29 ~~~~~i~iP~~r~~~l~~~~~~i~~~i~~~~~~~i~i~~~~~~v~i~~~~~t~d~~~~~ka~~~i~ai~~gf~~~  103 (766)
                      +-+..+.||+++++.|||..|++++.|.+.+|++|.|+- +|.|.|..    .|...+.+|+++|+.|...|.|+
T Consensus       577 P~~~~~~I~~~ki~~vIG~gGk~I~~i~~~tg~~Idi~d-~G~V~I~a----~d~~~~~~A~~~I~~i~~~~~~~  646 (719)
T TIGR02696       577 PRIITVKIPVDKIGEVIGPKGKMINQIQDETGAEISIED-DGTVYIGA----ADGPSAEAARAMINAIANPTMPE  646 (719)
T ss_pred             CeeEEEEeChHHhhheeCCCcHhHHHHHHHHCCEEEEec-CcEEEEEe----CCHHHHHHHHHHHHHhhCcCcCC
Confidence            367889999999999999999999999999999999995 79999987    58899999999999998865443

Sohlberg, et al. present characterization of two proteins from Streptomyces coelicolor. The protein in this family was shown to have poly(A) polymerase activity and may be responsible for polyadenylating RNA in this species. Reference 2 showed that a nearly identical plasmid-encoded protein from Streptomyces antibioticus is a bifunctional enzyme that acts also as a guanosine pentaphosphate synthetase.

>cd02395 SF1_like-KH Splicing factor 1 (SF1) K homology RNA-binding domain (KH)

Probab=96.22  E-value=0.015  Score=53.93  Aligned_cols=68  Identities=16%  Similarity=0.111  Sum_probs=55.2

Q ss_pred             EEEecCCC------cchhhhccCcccHHHHHHhcCcEEEEEccc----------------------CeEEEEeCCCCCC-
Q psy8224          32 RKVPVPNH------RYGPLKENWMKIFTPIVEHLKLQVRFNLKS----------------------RNVEIRLSPETED-   82 (766)
Q Consensus        32 ~~i~iP~~------r~~~l~~~~~~i~~~i~~~~~~~i~i~~~~----------------------~~v~i~~~~~t~d-   82 (766)
                      .+|.||.+      .+|.|+|..|++.+.|++.+|++|.|.-+.                      +.|.|..    .+ 
T Consensus         2 ~ki~iP~~~~P~~N~IG~IIGPgG~tiK~i~~eTg~kI~Irg~gs~~~~~~~~~~~~~~~~~~~eplhV~I~a----~~~   77 (120)
T cd02395           2 EKVYIPVKQYPKYNFVGLILGPRGNTLKQLEKETGAKISIRGKGSMKDGKKEEELRGPKYAHLNEPLHVLITA----ETP   77 (120)
T ss_pred             CEEEcCcccCCCCCeeEEEECCCChHHHHHHHHHCCEEEEecCcccccccccccccCcccccCCCCcEEEEEe----CCc
Confidence            46677764      569999999999999999999999998542                      7788887    45 


Q ss_pred             -HHHHHHHHHHHHHHHcCCChh
Q psy8224          83 -ISNLQKAADFVKAFVYGFDVD  103 (766)
Q Consensus        83 -~~~~~ka~~~i~ai~~gf~~~  103 (766)
                       ..++.+|..+|..+...+.++
T Consensus        78 ~~e~~~~A~~~I~~ll~~~~~~   99 (120)
T cd02395          78 PEEALAKAVEAIEELLKPAIEG   99 (120)
T ss_pred             HHHHHHHHHHHHHHHhccCCCc
Confidence             689999999999887755443

Splicing factor 1 (SF1) specifically recognizes the intron branch point sequence (BPS) UACUAAC in the pre-mRNA transcripts during spliceosome assembly. We show that the KH-QUA2 region of SF1 defines an enlarged KH (hnRNP K) fold which is necessary and sufficient for BPS binding. KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA.

>smart00322 KH K homology RNA-binding domain

Probab=96.22  E-value=0.017  Score=46.92  Aligned_cols=62  Identities=21%  Similarity=0.227  Sum_probs=53.5

Q ss_pred             ceEEEecCCCcchhhhccCcccHHHHHHhcCcEEEEEcc---cCeEEEEeCCCCCCHHHHHHHHHHHHHH
Q psy8224          30 DMRKVPVPNHRYGPLKENWMKIFTPIVEHLKLQVRFNLK---SRNVEIRLSPETEDISNLQKAADFVKAF   96 (766)
Q Consensus        30 ~~~~i~iP~~r~~~l~~~~~~i~~~i~~~~~~~i~i~~~---~~~v~i~~~~~t~d~~~~~ka~~~i~ai   96 (766)
                      .+..+.||.++.+.++|+.|...+.|++.++++|.+...   ...|.|.+     ++..+..|+++|...
T Consensus         3 ~~~~i~i~~~~~~~liG~~G~~i~~i~~~~~~~i~~~~~~~~~~~v~i~g-----~~~~v~~a~~~i~~~   67 (69)
T smart00322        3 VTIEVLIPADKVGLIIGKGGSTIKKIEEETGVKIDIPEDGSEERVVEITG-----PPENVEKAAELILEI   67 (69)
T ss_pred             eEEEEEEcchhcceeECCCchHHHHHHHHHCCEEEECCCCCCccEEEEEc-----CHHHHHHHHHHHHHH
Confidence            357899999999999999999999999999999998764   37778887     578999999988754

>KOG1082|consensus

Probab=96.13  E-value=0.0035  Score=69.65  Aligned_cols=44  Identities=25%  Similarity=0.532  Sum_probs=37.5

Q ss_pred             ccCCCCCCCeEEEEEeCC------eEEEEEEecccCCCCeEEeecCCCCC
Q psy8224         626 MLSHNCKPNTKHVIVNED------FSLQLIALVNIRKGDIISTTYTQPFW  669 (766)
Q Consensus       626 ~~NHsC~PN~~~~~~~~g------~~l~vra~r~I~~GeeI~isY~~~~~  669 (766)
                      ++||||.||+.+..+..+      .++.+.|+++|++|+|||.-|+....
T Consensus       275 finHSC~PN~~~~~v~~~~~~~~~~~i~ffa~~~I~p~~ELT~dYg~~~~  324 (364)
T KOG1082|consen  275 FINHSCSPNLLYQAVFQDEFVLLYLRIGFFALRDISPGEELTLDYGKAYK  324 (364)
T ss_pred             cccCCCCccceeeeeeecCCccchheeeeeeccccCCCcccchhhccccc
Confidence            689999999988875322      47899999999999999999997754

>TIGR02696 pppGpp_PNP guanosine pentaphosphate synthetase I/polynucleotide phosphorylase

Probab=95.87  E-value=0.014  Score=69.22  Aligned_cols=66  Identities=17%  Similarity=0.237  Sum_probs=53.7

Q ss_pred             hhhccccCCCCcHHHHHHHhhCceEEEeC-ceEEEEcch-hhHHHHHHHHHHhhcC--CCCcccccceee
Q psy8224         134 RAIGRLAGKGGRTKFTIENITKTRIVIAD-SKIHVLGSY-QNVQVALKALSNLILG--SPPNKVYGGILC  199 (766)
Q Consensus       134 r~~griiG~~G~t~~~ie~~t~~~I~v~~-~~v~iiG~~-~~l~~ar~~i~~~~~~--~~p~~~~s~l~c  199 (766)
                      ..+|.|||+||+|+|.|+..||+.|.|.+ .+|.|.|.- +.++.|+..|..+...  -+.|.+|..-..
T Consensus       587 ~ki~~vIG~gGk~I~~i~~~tg~~Idi~d~G~V~I~a~d~~~~~~A~~~I~~i~~~~~~~vG~i~~GkV~  656 (719)
T TIGR02696       587 DKIGEVIGPKGKMINQIQDETGAEISIEDDGTVYIGAADGPSAEAARAMINAIANPTMPEVGERFLGTVV  656 (719)
T ss_pred             HHhhheeCCCcHhHHHHHHHHCCEEEEecCcEEEEEeCCHHHHHHHHHHHHHhhCcCcCCCCCEEEEEEE
Confidence            45999999999999999999999999976 568888754 5899999999999985  344666654443

Sohlberg, et al. present characterization of two proteins from Streptomyces coelicolor. The protein in this family was shown to have poly(A) polymerase activity and may be responsible for polyadenylating RNA in this species. Reference 2 showed that a nearly identical plasmid-encoded protein from Streptomyces antibioticus is a bifunctional enzyme that acts also as a guanosine pentaphosphate synthetase.

>PRK08406 transcription elongation factor NusA-like protein; Validated

Probab=95.82  E-value=0.017  Score=55.12  Aligned_cols=104  Identities=14%  Similarity=0.103  Sum_probs=67.7

Q ss_pred             ceEEEecCCCcchhhhccCcccHHHHHHhcCcEEEEEcccCeEEEEeCCCCCCHHHHHHHHHHHHHHHcCCChhhHHhhc
Q psy8224          30 DMRKVPVPNHRYGPLKENWMKIFTPIVEHLKLQVRFNLKSRNVEIRLSPETEDISNLQKAADFVKAFVYGFDVDDALALL  109 (766)
Q Consensus        30 ~~~~i~iP~~r~~~l~~~~~~i~~~i~~~~~~~i~i~~~~~~v~i~~~~~t~d~~~~~ka~~~i~ai~~gf~~~~a~~ll  109 (766)
                      ++..+.|++..+|..+|++|+..+.|.+..|-+|++         -.  -+.||      +.||+.+.....+.+.. +.
T Consensus        32 ~~vi~vV~~~~vG~~IG~~G~rI~~i~e~lgekIdV---------ve--~s~d~------~~fI~n~l~Pa~V~~v~-I~   93 (140)
T PRK08406         32 DRIIFVVKEGDMGLAIGKGGENVKRLEEKLGKDIEL---------VE--YSDDP------EEFIKNIFAPAAVRSVT-IK   93 (140)
T ss_pred             CEEEEEEeCCCccccCCcCchHHHHHHHHhCCceEE---------EE--cCCCH------HHHHHHHcCCCEEEEEE-EE
Confidence            566778899999999999999999998887755543         22  12344      66777664444433221 11


Q ss_pred             ccccceeeeeeeccccccccchhhhhhccccCCCCcHHHHHHHhhCceEEEe
Q psy8224         110 RLDNLFIESFEIKDVKTLKGDHLSRAIGRLAGKGGRTKFTIENITKTRIVIA  161 (766)
Q Consensus       110 ~~d~~~~~~~~i~~~~~~~~~~~~r~~griiG~~G~t~~~ie~~t~~~I~v~  161 (766)
                      +.++--  ++.+.  + .     ..-.|+.|||+|++++.++.++|-++-|.
T Consensus        94 ~~~~~~--~~~V~--V-~-----~~d~g~aIGK~G~ni~la~~L~~~~~di~  135 (140)
T PRK08406         94 KKNGDK--VAYVE--V-A-----PEDKGIAIGKNGKNIERAKDLAKRHFDID  135 (140)
T ss_pred             ecCCcE--EEEEE--E-C-----ccccchhhCCCCHHHHHHHHHhCCccCCe
Confidence            111100  01110  1 1     14489999999999999999999998764

>PRK02821 hypothetical protein; Provisional

Probab=95.75  E-value=0.007  Score=51.39  Aligned_cols=31  Identities=23%  Similarity=0.551  Sum_probs=24.8

Q ss_pred             hhhccccCCCCcHHHHHHHhhCceEEEeCceEEE
Q psy8224         134 RAIGRLAGKGGRTKFTIENITKTRIVIADSKIHV  167 (766)
Q Consensus       134 r~~griiG~~G~t~~~ie~~t~~~I~v~~~~v~i  167 (766)
                      .=+||||||+|+|.+||-.+-.+-   .|+.|.+
T Consensus        40 ~D~GrVIGk~Gr~i~AIRtlv~a~---~~~~v~l   70 (77)
T PRK02821         40 DDLGKVIGRGGRTATALRTVVAAI---GGRGVRV   70 (77)
T ss_pred             hhCcceeCCCCchHHHHHHHHHHh---cCCeEEE
Confidence            348999999999999999876654   6676654

>TIGR03591 polynuc_phos polyribonucleotide nucleotidyltransferase

Probab=95.58  E-value=0.018  Score=69.16  Aligned_cols=66  Identities=23%  Similarity=0.373  Sum_probs=53.9

Q ss_pred             hhhccccCCCCcHHHHHHHhhCceEEEeC-ceEEEEcc-hhhHHHHHHHHHHhhcCCCCcccccceee
Q psy8224         134 RAIGRLAGKGGRTKFTIENITKTRIVIAD-SKIHVLGS-YQNVQVALKALSNLILGSPPNKVYGGILC  199 (766)
Q Consensus       134 r~~griiG~~G~t~~~ie~~t~~~I~v~~-~~v~iiG~-~~~l~~ar~~i~~~~~~~~p~~~~s~l~c  199 (766)
                      -.+|+|||+||+|+|.|+..||+.|.|.+ .+|.|.+. -..+..|++.|..+..-...|.+|....-
T Consensus       560 ~kI~~vIG~gGk~Ik~I~~~tg~~I~i~ddG~V~i~~~~~~~~~~a~~~I~~~~~~~~~G~i~~G~V~  627 (684)
T TIGR03591       560 DKIRDVIGPGGKVIREITEETGAKIDIEDDGTVKIAASDGEAAEAAIKMIEGITAEPEVGKIYEGKVV  627 (684)
T ss_pred             HHHHhhcCCCcHHHHHHHHHHCCEEEEecCeEEEEEECcHHHHHHHHHHHHhhhcccccCcEEEEEEE
Confidence            44999999999999999999999999974 66888764 45788999999999876666776655443

Members of this protein family are polyribonucleotide nucleotidyltransferase, also called polynucleotide phosphorylase. Some members have been shown also to have additional functions as guanosine pentaphosphate synthetase and as poly(A) polymerase (see model TIGR02696 for an exception clade, within this family).

>KOG1588|consensus

Probab=95.38  E-value=0.011  Score=60.97  Aligned_cols=29  Identities=28%  Similarity=0.445  Sum_probs=27.4

Q ss_pred             hhccccCCCCcHHHHHHHhhCceEEEeCc
Q psy8224         135 AIGRLAGKGGRTKFTIENITKTRIVIADS  163 (766)
Q Consensus       135 ~~griiG~~G~t~~~ie~~t~~~I~v~~~  163 (766)
                      -+|||+|+.|.|.|.||+-|||+|.|-|+
T Consensus       108 FVGRILGPrGnSlkrLe~eTgCki~IrGr  136 (259)
T KOG1588|consen  108 FVGRILGPRGNSLKRLEEETGCKIMIRGR  136 (259)
T ss_pred             cccccccCCcchHHHHHHHHCCeEEEecC
Confidence            48999999999999999999999999886

>KOG1337|consensus

Probab=95.24  E-value=0.016  Score=66.83  Aligned_cols=64  Identities=16%  Similarity=0.142  Sum_probs=51.0

Q ss_pred             ccchhhhhhhcccCCCCCCCeEEEEEeCCeEEEEEEecccCCCCeEEeecCCCCCCHHHHHHHHhCCCCcE
Q psy8224         615 RMSKWIYMKTAMLSHNCKPNTKHVIVNEDFSLQLIALVNIRKGDIISTTYTQPFWGTMDRRLHLRMSKCFD  685 (766)
Q Consensus       615 ~i~~glyp~~s~~NHsC~PN~~~~~~~~g~~l~vra~r~I~~GeeI~isY~~~~~~~~~Rr~~L~~~y~F~  685 (766)
                      ....++.|..-++||+|.+....+.. .+..+.+.+.++|.+||||+|+|++.  +    ...|...|+|.
T Consensus       228 ~~~~~L~P~~D~~NH~~~~~~~~~~~-~d~~~~l~~~~~v~~geevfi~YG~~--~----N~eLL~~YGFv  291 (472)
T KOG1337|consen  228 DDNEALAPLIDLLNHSPEVIKAGYNQ-EDEAVELVAERDVSAGEEVFINYGPK--S----NAELLLHYGFV  291 (472)
T ss_pred             CcchhhhhhHHhhccCchhccccccC-CCCcEEEEEeeeecCCCeEEEecCCC--c----hHHHHHhcCCC
Confidence            44567899999999999994444442 34589999999999999999999983  3    35566789997

>KOG0119|consensus

Probab=95.23  E-value=0.031  Score=62.07  Aligned_cols=94  Identities=20%  Similarity=0.306  Sum_probs=61.3

Q ss_pred             HHcCCChhhH---HhhcccccceeeeeeeccccccccchhhhhhccccCCCCcHHHHHHHhhCceEEEeCce--------
Q psy8224          96 FVYGFDVDDA---LALLRLDNLFIESFEIKDVKTLKGDHLSRAIGRLAGKGGRTKFTIENITKTRIVIADSK--------  164 (766)
Q Consensus        96 i~~gf~~~~a---~~ll~~d~~~~~~~~i~~~~~~~~~~~~r~~griiG~~G~t~~~ie~~t~~~I~v~~~~--------  164 (766)
                      +.-||.+-.-   ..++. |.+|+   +++++-..      .-+|.|||..|.|.|.||..||++|.|-|+.        
T Consensus       122 ~nP~fkpP~DYk~p~~~~-~Kv~I---Pvke~Pd~------NFvGLiiGPRG~TqK~lE~etgAKI~IRGkgSvkEgk~~  191 (554)
T KOG0119|consen  122 LNPGFKPPADYKPPAKLH-DKVYI---PVKEFPDI------NFVGLIIGPRGNTQKRLERETGAKIAIRGKGSVKEGKGR  191 (554)
T ss_pred             hCcCCCCCcccCcccccc-cceec---chhhcCCc------ceeEEEecCCccHHHHHHHHhCCeEEEeccccccccccC
Confidence            3447744332   22445 67775   34444322      2389999999999999999999999998721        


Q ss_pred             ---------------EEEEcc-hhhHHHHHHHHHHhhcC-CCCcccccceee
Q psy8224         165 ---------------IHVLGS-YQNVQVALKALSNLILG-SPPNKVYGGILC  199 (766)
Q Consensus       165 ---------------v~iiG~-~~~l~~ar~~i~~~~~~-~~p~~~~s~l~c  199 (766)
                                     .-|.++ ++.|+.|-..|+.+|.- ..-.+.-..|+.
T Consensus       192 ~~d~~~~~~~~epLH~~Isadt~eki~~Ai~vienli~~av~~~e~~n~l~~  243 (554)
T KOG0119|consen  192 SDDLSYIPKENEPLHCLISADTQEKIKKAIAVIENLIQSAVSVPEGQNDLKR  243 (554)
T ss_pred             CcccccccccccceeEEEecchHHHHHHHHHHHHHHHHhhccCccccccccH
Confidence                           334333 45799999999999964 344444444444

>PRK00468 hypothetical protein; Provisional

Probab=95.01  E-value=0.024  Score=48.03  Aligned_cols=32  Identities=22%  Similarity=0.484  Sum_probs=22.4

Q ss_pred             hhccccCCCCcHHHHHHHhhCceEEEeCceEE
Q psy8224         135 AIGRLAGKGGRTKFTIENITKTRIVIADSKIH  166 (766)
Q Consensus       135 ~~griiG~~G~t~~~ie~~t~~~I~v~~~~v~  166 (766)
                      =+||||||+|+|.++|-.+-.+-=.=.|++|.
T Consensus        40 D~GrVIGk~Gr~i~AIRtvv~aaa~k~~~rv~   71 (75)
T PRK00468         40 DMGKVIGKQGRIAKAIRTVVKAAAIKENKRVV   71 (75)
T ss_pred             hCcceecCCChhHHHHHHHHHHHHhcCCCEEE
Confidence            37999999999999998865443222344433

>KOG3612|consensus

Probab=94.86  E-value=0.0053  Score=68.67  Aligned_cols=98  Identities=20%  Similarity=0.355  Sum_probs=65.6

Q ss_pred             HHHHHHHHhccccccCCCChhHH-HHHHHHHHHhhhhccccccccccccccccccccccCCCCcccccCCcccCCCCCCC
Q psy8224         254 LEMFLDKFQAQDSVLHDQNQHIV-QAKLALLQIYETSVEDQKCQLNVDDQKCQLNVDKKMDSGKCEVCKVAASLKCGGCN  332 (766)
Q Consensus       254 ~e~~l~k~~~~~~~l~p~~~~~~-~~k~~l~~~yg~~ll~e~~~l~~~~~~~~~~~~~~~~~~~C~~C~~~~~~~C~~C~  332 (766)
                      +|..=.++...-..++-|-.+.+ +-+..|-+.....+.++.-.|.   .+-+-.++..-+..=|..|..++.+.|  |-
T Consensus       469 ~e~~q~~~~~~l~~~~~~~~~em~~~r~tlE~k~~~n~~e~~kkl~---~~~qr~l~etKkKQWC~nC~~EAiy~C--CW  543 (588)
T KOG3612|consen  469 FEELQQTSRRELPVPLRNFELEMAEMRKTLEQKHAENIKEEIKKLA---EEHQRALAETKKKQWCYNCLDEAIYHC--CW  543 (588)
T ss_pred             HHHHHHHHhhhhhhhhhcchHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHhhhHHHHHHh--hc
Confidence            33333444433223455555555 4445666677766666544332   222334444566788999999998888  88


Q ss_pred             CcccCCchhhccccccccCCCccc
Q psy8224         333 QVFYCSKSHQKQHWKEHKPGCAKY  356 (766)
Q Consensus       333 ~v~YCs~~cq~~~w~~Hk~~C~~l  356 (766)
                      ...|||-+||+.||+.|+..|..-
T Consensus       544 NTSYCsveCQQ~HW~~H~ksCrrk  567 (588)
T KOG3612|consen  544 NTSYCSVECQQGHWPEHRKSCRRK  567 (588)
T ss_pred             cccccCcchhhccchhHhhhhccc
Confidence            999999999999999999999654

>TIGR03591 polynuc_phos polyribonucleotide nucleotidyltransferase

Probab=94.69  E-value=0.058  Score=64.82  Aligned_cols=64  Identities=11%  Similarity=0.134  Sum_probs=58.5

Q ss_pred             ceEEEecCCCcchhhhccCcccHHHHHHhcCcEEEEEcccCeEEEEeCCCCCCHHHHHHHHHHHHHHHc
Q psy8224          30 DMRKVPVPNHRYGPLKENWMKIFTPIVEHLKLQVRFNLKSRNVEIRLSPETEDISNLQKAADFVKAFVY   98 (766)
Q Consensus        30 ~~~~i~iP~~r~~~l~~~~~~i~~~i~~~~~~~i~i~~~~~~v~i~~~~~t~d~~~~~ka~~~i~ai~~   98 (766)
                      -+..+.||+++++.|||..|++++.|.+.+|++|.|+- +|.|.|..    .|...+.+|..+|+.+..
T Consensus       551 ~~~~~~I~~~kI~~vIG~gGk~Ik~I~~~tg~~I~i~d-dG~V~i~~----~~~~~~~~a~~~I~~~~~  614 (684)
T TIGR03591       551 RIETIKINPDKIRDVIGPGGKVIREITEETGAKIDIED-DGTVKIAA----SDGEAAEAAIKMIEGITA  614 (684)
T ss_pred             eEEEEecCHHHHHhhcCCCcHHHHHHHHHHCCEEEEec-CeEEEEEE----CcHHHHHHHHHHHHhhhc
Confidence            56889999999999999999999999999999999985 79999987    477899999999998854

Members of this protein family are polyribonucleotide nucleotidyltransferase, also called polynucleotide phosphorylase. Some members have been shown also to have additional functions as guanosine pentaphosphate synthetase and as poly(A) polymerase (see model TIGR02696 for an exception clade, within this family).

>COG1837 Predicted RNA-binding protein (contains KH domain) [General function prediction only]

Probab=94.67  E-value=0.027  Score=47.52  Aligned_cols=20  Identities=35%  Similarity=0.630  Sum_probs=17.8

Q ss_pred             hccccCCCCcHHHHHHHhhC
Q psy8224         136 IGRLAGKGGRTKFTIENITK  155 (766)
Q Consensus       136 ~griiG~~G~t~~~ie~~t~  155 (766)
                      +||+|||+|+|++||-.+-.
T Consensus        41 ~GkvIGk~GRti~AIRTll~   60 (76)
T COG1837          41 MGKVIGKQGRTIQAIRTLLS   60 (76)
T ss_pred             ccceecCCChhHHHHHHHHH
Confidence            89999999999999988643

>COG1185 Pnp Polyribonucleotide nucleotidyltransferase (polynucleotide phosphorylase) [Translation, ribosomal structure and biogenesis]

Probab=94.43  E-value=0.065  Score=62.35  Aligned_cols=68  Identities=15%  Similarity=0.201  Sum_probs=61.9

Q ss_pred             ceEEEecCCCcchhhhccCcccHHHHHHhcCcEEEEEcccCeEEEEeCCCCCCHHHHHHHHHHHHHHHcCCCh
Q psy8224          30 DMRKVPVPNHRYGPLKENWMKIFTPIVEHLKLQVRFNLKSRNVEIRLSPETEDISNLQKAADFVKAFVYGFDV  102 (766)
Q Consensus        30 ~~~~i~iP~~r~~~l~~~~~~i~~~i~~~~~~~i~i~~~~~~v~i~~~~~t~d~~~~~ka~~~i~ai~~gf~~  102 (766)
                      ....+.||++.++-+||+.|++++.|.+.+|++|.|+ ++|+|.|-+    .|...+.+|++.|..|.+.+.+
T Consensus       552 ri~t~~i~~dKI~dvIG~gGk~I~~I~eetg~~Idie-ddGtv~i~~----s~~~~~~~ak~~I~~i~~e~ev  619 (692)
T COG1185         552 RIETIKIDPDKIRDVIGPGGKTIKAITEETGVKIDIE-DDGTVKIAA----SDGESAKKAKERIEAITREVEV  619 (692)
T ss_pred             ceEEEccCHHHHhhccCCcccchhhhhhhhCcEEEec-CCCcEEEEe----cchHHHHHHHHHHHHHHhhccc
Confidence            5678999999999999999999999999999999999 899999998    4778999999999999865543

>KOG2084|consensus

Probab=94.26  E-value=0.041  Score=63.11  Aligned_cols=114  Identities=15%  Similarity=0.201  Sum_probs=84.7

Q ss_pred             hHHHHHHHHHHhhcCCCCc---ccccceeecccC--CceecCCCCCCCCCcccCCCCCcccHHHHHHHHHHHHHHHhccc
Q psy8224         173 NVQVALKALSNLILGSPPN---KVYGGILCSRCR--HHVISTNPLDNLAKWKCIMCSHTLTAKQIAMGNDSIKSELAGLD  247 (766)
Q Consensus       173 ~l~~ar~~i~~~~~~~~p~---~~~s~l~c~~c~--g~~l~~~pl~~~~~W~C~~C~~~~~~~~v~~~~~~~~~e~~~~~  247 (766)
                      .++..+.+-|.|-+|.+|.   ++++.++|..|.  +.+.+..+...+..|.|..|.......+|.........+  ..+
T Consensus       258 ~l~~~~~f~c~c~rc~d~~~~~~~~~~~~c~~~~~~~~~~~~~~~~~~~~w~~~~~~~~~~~~~~~~~~~~~~~~--~~~  335 (482)
T KOG2084|consen  258 QLRQSKLFSCQCPRCLDPTELGTFLSSLRCENCTCGGLLGTSFLDKEDLQWPCTECALVRLKAYVVESREELQNE--LLD  335 (482)
T ss_pred             HHhhccceeeecCCCCCCCccccchhhhhhcCCCCCCccCCCcccccCCCccccccccchhHHHHHHHHHHHHhh--ccc
Confidence            5666667888899999884   489999997764  446666665578899999999999999999999988877  222


Q ss_pred             C-CChhhHHHHHHHHhccccccCCCChhHHHHHHHHHHHhhhhcc
Q psy8224         248 K-TEPTGLEMFLDKFQAQDSVLHDQNQHIVQAKLALLQIYETSVE  291 (766)
Q Consensus       248 ~-~~~~~~e~~l~k~~~~~~~l~p~~~~~~~~k~~l~~~yg~~ll  291 (766)
                      . .+....|.++.+..   .+.+++|+.....+..+..+++....
T Consensus       336 ~~~~~~~~e~l~~~~~---~~~~~~~~~~~~~~~~~~~il~~~~~  377 (482)
T KOG2084|consen  336 AFSDLLIEELLLLRQE---SLELPNDFEVLLLKLHLLFILGSLLG  377 (482)
T ss_pred             cCChhhhHHHHHHHHH---hhhCcchHHHHHHHHHHHHHHHHHHh
Confidence            2 23333444555554   78999999999888777777766553

>KOG1141|consensus

Probab=94.22  E-value=0.025  Score=65.83  Aligned_cols=58  Identities=21%  Similarity=0.399  Sum_probs=41.0

Q ss_pred             hcccCCCCCCCeEEE--EEe-CC---eEEEEEEecccCCCCeEEeecCCCCCCHHHHHHHHhCCCCcEEecc
Q psy8224         624 TAMLSHNCKPNTKHV--IVN-ED---FSLQLIALVNIRKGDIISTTYTQPFWGTMDRRLHLRMSKCFDCTCD  689 (766)
Q Consensus       624 ~s~~NHsC~PN~~~~--~~~-~g---~~l~vra~r~I~~GeeI~isY~~~~~~~~~Rr~~L~~~y~F~C~C~  689 (766)
                      .-++||||+||+.+.  |++ ++   .-+.+.|.+-|++|.|||.-|....-..+        ..-..|+|-
T Consensus      1190 GRfLNHSC~PNl~VQnVfvdTHdlrfPwVAFFt~kyVkAgtELTWDY~Ye~g~v~--------~keL~C~CG 1253 (1262)
T KOG1141|consen 1190 GRFLNHSCDPNLHVQNVFVDTHDLRFPWVAFFTRKYVKAGTELTWDYQYEQGQVA--------TKELTCHCG 1253 (1262)
T ss_pred             hhhhccCCCccceeeeeeeeccccCCchhhhhhhhhhccCceeeeeccccccccc--------cceEEEecC
Confidence            346899999998654  443 12   23566778899999999999987654442        345778874

>KOG1085|consensus

Probab=93.82  E-value=0.037  Score=57.32  Aligned_cols=46  Identities=22%  Similarity=0.300  Sum_probs=39.4

Q ss_pred             hcccCCCCCCCeEEEEE--eCCeEEEEEEecccCCCCeEEeecCCCCC
Q psy8224         624 TAMLSHNCKPNTKHVIV--NEDFSLQLIALVNIRKGDIISTTYTQPFW  669 (766)
Q Consensus       624 ~s~~NHsC~PN~~~~~~--~~g~~l~vra~r~I~~GeeI~isY~~~~~  669 (766)
                      .-|||||=.+|+....+  +...++++.|.|+|.+||||+.-|+|...
T Consensus       334 GRLINHS~~gNl~TKvv~Idg~pHLiLvA~rdIa~GEELlYDYGDRSk  381 (392)
T KOG1085|consen  334 GRLINHSVRGNLKTKVVEIDGSPHLILVARRDIAQGEELLYDYGDRSK  381 (392)
T ss_pred             hhhhcccccCcceeeEEEecCCceEEEEeccccccchhhhhhccccch
Confidence            45899999999977664  44579999999999999999999998754

>PRK01064 hypothetical protein; Provisional

Probab=93.30  E-value=0.036  Score=47.23  Aligned_cols=33  Identities=27%  Similarity=0.423  Sum_probs=25.0

Q ss_pred             hhccccCCCCcHHHHHHHhhCceEEEeCceEEE
Q psy8224         135 AIGRLAGKGGRTKFTIENITKTRIVIADSKIHV  167 (766)
Q Consensus       135 ~~griiG~~G~t~~~ie~~t~~~I~v~~~~v~i  167 (766)
                      -+||+|||+|+|+++|..+.++--.-.+++|.+
T Consensus        40 D~g~vIGk~G~~i~air~l~~~~~~~~~~rv~l   72 (78)
T PRK01064         40 DIGKIIGKEGRTIKAIRTLLVSVASRNNVKVSL   72 (78)
T ss_pred             cceEEECCCCccHHHHHHHHHHHHhhCCCEEEE
Confidence            379999999999999999866544445555443

>PLN00207 polyribonucleotide nucleotidyltransferase; Provisional

Probab=93.23  E-value=0.09  Score=63.89  Aligned_cols=61  Identities=16%  Similarity=0.292  Sum_probs=53.2

Q ss_pred             hhhccccCCCCcHHHHHHHhhCce-EEEeC-ceEEEEcch-hhHHHHHHHHHHhhcCCCCcccc
Q psy8224         134 RAIGRLAGKGGRTKFTIENITKTR-IVIAD-SKIHVLGSY-QNVQVALKALSNLILGSPPNKVY  194 (766)
Q Consensus       134 r~~griiG~~G~t~~~ie~~t~~~-I~v~~-~~v~iiG~~-~~l~~ar~~i~~~~~~~~p~~~~  194 (766)
                      ..+|.|||+||+|+|.|+.-||+. |.|.+ .+|.|.|.- +.++.|+..|..+..--.-|.+|
T Consensus       694 ~ki~~vIG~GGktIk~I~eetg~~~Idi~ddg~V~I~a~d~~~i~~A~~~I~~l~~~~~vG~iy  757 (891)
T PLN00207        694 EKVNMIIGSGGKKVKSIIEETGVEAIDTQDDGTVKITAKDLSSLEKSKAIISSLTMVPTVGDIY  757 (891)
T ss_pred             HHHHHHhcCCchhHHHHHHHHCCCccCcCCCeeEEEEeCCHHHHHHHHHHHHHHhcCcCCCcEE
Confidence            459999999999999999999999 98865 569998854 58999999999999866678888

>KOG1080|consensus

Probab=93.11  E-value=0.04  Score=67.58  Aligned_cols=43  Identities=21%  Similarity=0.467  Sum_probs=35.6

Q ss_pred             ccccccccccCCceeee--ecCccchhhhhhhcccCCCeeeeccc
Q psy8224         559 KTAMLSHNCKPNTKHVI--VNEDFSLQLIALVNICKGDIISTTYT  601 (766)
Q Consensus       559 ~~SllNHSC~PN~~~~f--~~~~~~l~~~A~r~I~~GeeI~~sY~  601 (766)
                      .+.++||||.|||..-.  +++...+++.|.|+|.+||||+..|.
T Consensus       939 iAr~InHsC~PNCyakvi~V~g~~~IvIyakr~I~~~EElTYDYk  983 (1005)
T KOG1080|consen  939 IARFINHSCNPNCYAKVITVEGDKRIVIYSKRDIAAGEELTYDYK  983 (1005)
T ss_pred             hhheeecccCCCceeeEEEecCeeEEEEEEecccccCceeeeecc
Confidence            57899999999996322  25555799999999999999999986

>PF13083 KH_4: KH domain; PDB: 3GKU_B

Probab=92.84  E-value=0.0097  Score=50.16  Aligned_cols=30  Identities=23%  Similarity=0.402  Sum_probs=23.3

Q ss_pred             hccccCCCCcHHHHHHHhhCceEEEeCceE
Q psy8224         136 IGRLAGKGGRTKFTIENITKTRIVIADSKI  165 (766)
Q Consensus       136 ~griiG~~G~t~~~ie~~t~~~I~v~~~~v  165 (766)
                      .||+|||+|+|+.+||.+++..+.-+++.+
T Consensus        40 ~g~lIGk~G~tl~ALq~l~~~~~~~~~~~~   69 (73)
T PF13083_consen   40 AGRLIGKHGKTLNALQYLVNAAANKHGKRV   69 (73)
T ss_dssp             CHHHCTTHHHHHHHHHHHHHHHHHHT-SS-
T ss_pred             cceEECCCCeeHHHHHHHHHHHHHhCCCEE
Confidence            799999999999999999877654444433

>KOG2192|consensus

Probab=92.58  E-value=0.4  Score=49.33  Aligned_cols=137  Identities=16%  Similarity=0.245  Sum_probs=87.3

Q ss_pred             eEEEecCCCcchhhhccCcccHHHHHHhcCcEEEEE-cccCeEEEEeCCCCCCHHHHHHHHHHHHHHHcCCChhhHHhhc
Q psy8224          31 MRKVPVPNHRYGPLKENWMKIFTPIVEHLKLQVRFN-LKSRNVEIRLSPETEDISNLQKAADFVKAFVYGFDVDDALALL  109 (766)
Q Consensus        31 ~~~i~iP~~r~~~l~~~~~~i~~~i~~~~~~~i~i~-~~~~~v~i~~~~~t~d~~~~~ka~~~i~ai~~gf~~~~a~~ll  109 (766)
                      ...|.+-..--|+++|+.|+-++.|...++..|.+- +.+-.-.+.-+.+.+....|  -+++|--+-.||+..+--+| 
T Consensus        49 e~ril~~sk~agavigkgg~nik~lr~d~na~v~vpds~~peri~tisad~~ti~~i--lk~iip~lee~f~~~~pce~-  125 (390)
T KOG2192|consen   49 ELRILLQSKNAGAVIGKGGKNIKALRTDYNASVSVPDSSGPERILTISADIETIGEI--LKKIIPTLEEGFQLPSPCEL-  125 (390)
T ss_pred             eEEEEEecccccceeccccccHHHHhhhccceeeccCCCCCceeEEEeccHHHHHHH--HHHHhhhhhhCCCCCCchhh-
Confidence            345777888899999999999999999999999984 33222222222222222223  34777777777764443222 


Q ss_pred             ccccceeeeeeeccccccccchhhhhhccccCCCCcHHHHHHHhhCceEEEeC-------ceEEEE-cchhhHHHHHHHH
Q psy8224         110 RLDNLFIESFEIKDVKTLKGDHLSRAIGRLAGKGGRTKFTIENITKTRIVIAD-------SKIHVL-GSYQNVQVALKAL  181 (766)
Q Consensus       110 ~~d~~~~~~~~i~~~~~~~~~~~~r~~griiG~~G~t~~~ie~~t~~~I~v~~-------~~v~ii-G~~~~l~~ar~~i  181 (766)
                      +            -++     |- ..-|-|||++|.-+|.+-+...+++.|.-       ..|.|+ |...++-..-+.|
T Consensus       126 r------------lli-----hq-s~ag~iigrngskikelrekcsarlkift~c~p~stdrv~l~~g~~k~v~~~i~~i  187 (390)
T KOG2192|consen  126 R------------LLI-----HQ-SLAGGIIGRNGSKIKELREKCSARLKIFTECCPHSTDRVVLIGGKPKRVVECIKII  187 (390)
T ss_pred             h------------hhh-----hh-hhccceecccchhHHHHHHhhhhhhhhhhccCCCCcceEEEecCCcchHHHHHHHH
Confidence            1            111     11 34799999999999999999999988851       235555 4555655555555


Q ss_pred             HHhhcCC
Q psy8224         182 SNLILGS  188 (766)
Q Consensus       182 ~~~~~~~  188 (766)
                      .+++.-+
T Consensus       188 l~~i~e~  194 (390)
T KOG2192|consen  188 LDLISES  194 (390)
T ss_pred             HHHhhcC
Confidence            5555433

>cd02134 NusA_KH NusA_K homology RNA-binding domain (KH)

Probab=92.31  E-value=0.1  Score=42.39  Aligned_cols=27  Identities=26%  Similarity=0.394  Sum_probs=24.6

Q ss_pred             hhhccccCCCCcHHHHHHHhhCceEEE
Q psy8224         134 RAIGRLAGKGGRTKFTIENITKTRIVI  160 (766)
Q Consensus       134 r~~griiG~~G~t~~~ie~~t~~~I~v  160 (766)
                      .-+|+.|||+|++++.++.++|-+|-|
T Consensus        34 ~~~~~aIGk~G~nI~~~~~l~~~~I~v   60 (61)
T cd02134          34 DQLGLAIGKGGQNVRLASKLLGEKIDI   60 (61)
T ss_pred             ccceeeECCCCHHHHHHHHHHCCCeEE
Confidence            448999999999999999999988876

NusA is an essential multifunctional transcription elongation factor that is universally conserved among prokaryotes and archaea. NusA anti-termination function plays an important role in the expression of ribosomal rrn operons. During transcription of many other genes, NusA-induced RNAP pausing provides a mechanism for synchronizing transcription and translation . The N-terminal RNAP-binding domain (NTD) is connected through a flexible hinge helix to three globular domains, S1, KH1 and KH2. The KH motif is a beta-alpha-alpha-beta-beta unit that folds into an alpha-beta structure with a three stranded beta-sheet interupted by two contiguous helices.

>PF13824 zf-Mss51: Zinc-finger of mitochondrial splicing suppressor 51

Probab=92.16  E-value=0.026  Score=44.33  Aligned_cols=43  Identities=30%  Similarity=0.754  Sum_probs=36.6

Q ss_pred             ccccCC----cccCCCCCCCCcccCCchhhccccccccCCCcccccc
Q psy8224         317 CEVCKV----AASLKCGGCNQVFYCSKSHQKQHWKEHKPGCAKYKVV  359 (766)
Q Consensus       317 C~~C~~----~~~~~C~~C~~v~YCs~~cq~~~w~~Hk~~C~~l~v~  359 (766)
                      |.+|.+    +....|+.|....|||+++-..|.+.|+..|..++.+
T Consensus         2 Cpv~~~~~~~~v~~~Cp~cGipthcS~ehw~~D~e~H~~~c~~LRqv   48 (55)
T PF13824_consen    2 CPVCKKDLPAHVNFECPDCGIPTHCSEEHWEDDYEEHRQLCERLRQV   48 (55)
T ss_pred             CCCCccccccccCCcCCCCCCcCccCHHHHHHhHHHHHHHHHHHHHh
Confidence            677777    5677899999999999999999988899899877653

>KOG2061|consensus

Probab=91.95  E-value=0.12  Score=55.86  Aligned_cols=48  Identities=33%  Similarity=0.778  Sum_probs=43.2

Q ss_pred             CCcccccCCcccCCCCCCCCcccCCchhhcccccc-ccCCCcccccccc
Q psy8224         314 SGKCEVCKVAASLKCGGCNQVFYCSKSHQKQHWKE-HKPGCAKYKVVRN  361 (766)
Q Consensus       314 ~~~C~~C~~~~~~~C~~C~~v~YCs~~cq~~~w~~-Hk~~C~~l~v~~s  361 (766)
                      ...|..|+..+...|++|+...|||..||..||.. |+.+|....+...
T Consensus       136 ~~~~~~~~~~a~~~~~~~~~a~~~S~~~q~~d~~~~~~~a~aq~~~~~~  184 (362)
T KOG2061|consen  136 ADLCGSCGCSAPAACSPCKAAAYCSKKHQSLDWPKGHKDACAQPSTLGE  184 (362)
T ss_pred             cchhccCcccCcccccccchhhhcCchhhcccccccccccccCcccccc
Confidence            47899999999999999999999999999999999 9999988766543

>PRK04163 exosome complex RNA-binding protein Rrp4; Provisional

Probab=91.80  E-value=0.24  Score=51.65  Aligned_cols=57  Identities=18%  Similarity=0.328  Sum_probs=48.8

Q ss_pred             hhhccccCCCCcHHHHHHHhhCceEEEeC-ceEEEEcchh-hHHHHHHHHHHhhcCCCC
Q psy8224         134 RAIGRLAGKGGRTKFTIENITKTRIVIAD-SKIHVLGSYQ-NVQVALKALSNLILGSPP  190 (766)
Q Consensus       134 r~~griiG~~G~t~~~ie~~t~~~I~v~~-~~v~iiG~~~-~l~~ar~~i~~~~~~~~p  190 (766)
                      ..++|+||++|++++.|...|++.|.|.. ..|.|-|... .+..|+++|.++-+-.|-
T Consensus       154 ~~i~~lig~~g~~i~~l~~~~~~~I~ig~NG~VwI~~~~~~~~~~a~~~I~~~e~~~~~  212 (235)
T PRK04163        154 VKVPRVIGKKGSMINMLKEETGCDIIVGQNGRIWIKGPDEEDEEIAIEAIKKIEREAHT  212 (235)
T ss_pred             HHHHhhcCCCChhHhhhhhhhCcEEEEcCCcEEEEeeCCHHHHHHHHHHHHHHHhhhhc
Confidence            44899999999999999999999999986 4588888876 788999999998865543

>COG1185 Pnp Polyribonucleotide nucleotidyltransferase (polynucleotide phosphorylase) [Translation, ribosomal structure and biogenesis]

Probab=91.58  E-value=0.23  Score=57.97  Aligned_cols=67  Identities=22%  Similarity=0.331  Sum_probs=58.3

Q ss_pred             hhhccccCCCCcHHHHHHHhhCceEEEe-CceEEEEcch-hhHHHHHHHHHHhhcCCCCcccccceeec
Q psy8224         134 RAIGRLAGKGGRTKFTIENITKTRIVIA-DSKIHVLGSY-QNVQVALKALSNLILGSPPNKVYGGILCS  200 (766)
Q Consensus       134 r~~griiG~~G~t~~~ie~~t~~~I~v~-~~~v~iiG~~-~~l~~ar~~i~~~~~~~~p~~~~s~l~c~  200 (766)
                      -.++-+||++|+++++|-..||+.|.|. +.||.|-++. +.++.||+.|.++.+-..-+.+|....-.
T Consensus       561 dKI~dvIG~gGk~I~~I~eetg~~IdieddGtv~i~~s~~~~~~~ak~~I~~i~~e~evg~iy~G~V~r  629 (692)
T COG1185         561 DKIRDVIGPGGKTIKAITEETGVKIDIEDDGTVKIAASDGESAKKAKERIEAITREVEVGEVYEGTVVR  629 (692)
T ss_pred             HHHhhccCCcccchhhhhhhhCcEEEecCCCcEEEEecchHHHHHHHHHHHHHHhhcccccEEEEEEEE
Confidence            3478899999999999999999999997 4779998888 57999999999999888888888766553

>TIGR01952 nusA_arch NusA family KH domain protein, archaeal

Probab=91.27  E-value=0.47  Score=45.30  Aligned_cols=100  Identities=15%  Similarity=0.156  Sum_probs=63.8

Q ss_pred             EEEecCCCcchhhhccCcccHHHHHHhcCcEEEEEcccCeEEEEeCCCCCCHHHHHHHHHHHHHHHcCCChhhHHhh--c
Q psy8224          32 RKVPVPNHRYGPLKENWMKIFTPIVEHLKLQVRFNLKSRNVEIRLSPETEDISNLQKAADFVKAFVYGFDVDDALAL--L  109 (766)
Q Consensus        32 ~~i~iP~~r~~~l~~~~~~i~~~i~~~~~~~i~i~~~~~~v~i~~~~~t~d~~~~~ka~~~i~ai~~gf~~~~a~~l--l  109 (766)
                      --..|.+..+|..+|++|...+.|.+..|-+|++         -.  -+.||.      +||+.   -|+|.+-..+  .
T Consensus        35 iifvV~~g~vG~~IG~~G~rIk~i~el~gekIdV---------Ve--ys~D~~------~fI~N---~l~PA~V~~V~i~   94 (141)
T TIGR01952        35 VVFVVKEGEMGAAIGKGGENVKRLEELIGKSIEL---------IE--YSENLE------EFVAN---KLAPAEVKNVTVS   94 (141)
T ss_pred             EEEEEcCCCccccCCCCchHHHHHHHhcCCeeEE---------EE--cCCCHH------HHHHH---cCCCceEEEEEEE
Confidence            3456777899999999999999998877755544         21  235764      34433   3555443333  1


Q ss_pred             ccccceeeeeeeccccccccchhhhhhccccCCCCcHHHHHHHhhCceEEEe
Q psy8224         110 RLDNLFIESFEIKDVKTLKGDHLSRAIGRLAGKGGRTKFTIENITKTRIVIA  161 (766)
Q Consensus       110 ~~d~~~~~~~~i~~~~~~~~~~~~r~~griiG~~G~t~~~ie~~t~~~I~v~  161 (766)
                      +.++-..     ..+.-.     .+-+|+.|||+|++.+-...++|-++-|.
T Consensus        95 ~~~~~~~-----a~V~V~-----~~d~~~AIGk~G~Ni~la~~l~~~~~dI~  136 (141)
T TIGR01952        95 EFNGKKV-----AYVEVH-----PRDKGIAIGKGGKNIERAKELAKRHHDID  136 (141)
T ss_pred             cCCCCEE-----EEEEEC-----hhhhhhhhCCCchhHHHHHHHhcCccCCe
Confidence            1111110     001011     25589999999999999999999888654

This model represents a family of archaeal proteins found in a single copy per genome. It contains two KH domains (pfam00013) and is most closely related to the central region bacterial NusA, a transcription termination factor named for its iteraction with phage lambda protein N in E. coli. The proteins required for antitermination by N include NusA, NusB, nusE (ribosomal protein S10), and nusG. This system, on the whole, appears not to be present in the Archaea.

>PRK11824 polynucleotide phosphorylase/polyadenylase; Provisional

Probab=91.13  E-value=0.23  Score=59.95  Aligned_cols=65  Identities=20%  Similarity=0.339  Sum_probs=54.6

Q ss_pred             hhccccCCCCcHHHHHHHhhCceEEEeC-ceEEEEc-chhhHHHHHHHHHHhhcCCCCcccccceee
Q psy8224         135 AIGRLAGKGGRTKFTIENITKTRIVIAD-SKIHVLG-SYQNVQVALKALSNLILGSPPNKVYGGILC  199 (766)
Q Consensus       135 ~~griiG~~G~t~~~ie~~t~~~I~v~~-~~v~iiG-~~~~l~~ar~~i~~~~~~~~p~~~~s~l~c  199 (766)
                      .+|.+||+||+|++.|+..||+.|.+.+ .+|.|.+ +.+.++.|++.|..+..-...|.+|....-
T Consensus       564 kI~~vIG~gg~~ik~I~~~~~~~idi~d~G~v~i~~~~~~~~~~a~~~I~~~~~~~~vG~v~~G~V~  630 (693)
T PRK11824        564 KIRDVIGPGGKTIREITEETGAKIDIEDDGTVKIAATDGEAAEAAKERIEGITAEPEVGEIYEGKVV  630 (693)
T ss_pred             HHHHHhcCCchhHHHHHHHHCCccccCCCceEEEEcccHHHHHHHHHHHHHhcccCcCCeEEEEEEE
Confidence            4899999999999999999999999974 6788888 455899999999999987677776655444

>PF13014 KH_3: KH domain

Probab=90.93  E-value=0.23  Score=37.12  Aligned_cols=35  Identities=17%  Similarity=0.143  Sum_probs=29.8

Q ss_pred             chhhhccCcccHHHHHHhcCcEEEEEc------ccCeEEEE
Q psy8224          41 YGPLKENWMKIFTPIVEHLKLQVRFNL------KSRNVEIR   75 (766)
Q Consensus        41 ~~~l~~~~~~i~~~i~~~~~~~i~i~~------~~~~v~i~   75 (766)
                      +++|||+.|..++.|++.++++|.|..      .++.|+|+
T Consensus         2 vg~iIG~~G~~I~~I~~~tg~~I~i~~~~~~~~~~~~v~I~   42 (43)
T PF13014_consen    2 VGRIIGKGGSTIKEIREETGAKIQIPPENEPGSNERVVTIT   42 (43)
T ss_pred             cCeEECCCChHHHHHHHHhCcEEEECCccCCCCCceEEEEE
Confidence            578999999999999999999999976      45555554

>COG5176 MSL5 Splicing factor (branch point binding protein) [RNA processing and modification]

Probab=90.89  E-value=0.18  Score=50.06  Aligned_cols=31  Identities=32%  Similarity=0.475  Sum_probs=27.9

Q ss_pred             hhhccccCCCCcHHHHHHHhhCceEEEeCce
Q psy8224         134 RAIGRLAGKGGRTKFTIENITKTRIVIADSK  164 (766)
Q Consensus       134 r~~griiG~~G~t~~~ie~~t~~~I~v~~~~  164 (766)
                      .-+|-|||+.|.|.+.+|..|+++|.|-|+-
T Consensus       163 NFVGLliGPRG~Tlk~le~~s~akIaIRG~g  193 (269)
T COG5176         163 NFVGLLIGPRGSTLKQLERISRAKIAIRGSG  193 (269)
T ss_pred             ceeEEEecCCcchHHHHHHHhCCeEEEeccc
Confidence            3489999999999999999999999998753

>KOG1079|consensus

Probab=90.57  E-value=0.25  Score=57.04  Aligned_cols=43  Identities=21%  Similarity=0.348  Sum_probs=36.1

Q ss_pred             cccCCCCCCCeEE--EEEeCCeEEEEEEecccCCCCeEEeecCCC
Q psy8224         625 AMLSHNCKPNTKH--VIVNEDFSLQLIALVNIRKGDIISTTYTQP  667 (766)
Q Consensus       625 s~~NHsC~PN~~~--~~~~~g~~l~vra~r~I~~GeeI~isY~~~  667 (766)
                      -++|||=.||+..  ++++..+++-++|.|.|.+|||||..|...
T Consensus       667 rFANHS~nPNCYAkvm~V~GdhRIGifAkRaIeagEELffDYrYs  711 (739)
T KOG1079|consen  667 RFANHSFNPNCYAKVMMVAGDHRIGIFAKRAIEAGEELFFDYRYS  711 (739)
T ss_pred             hhccCCCCCCcEEEEEEecCCcceeeeehhhcccCceeeeeeccC
Confidence            3679999999954  335656899999999999999999999764

>PLN00207 polyribonucleotide nucleotidyltransferase; Provisional

Probab=90.54  E-value=0.31  Score=59.35  Aligned_cols=65  Identities=15%  Similarity=0.197  Sum_probs=58.8

Q ss_pred             CceEEEecCCCcchhhhccCcccHHHHHHhcCcE-EEEEcccCeEEEEeCCCCCCHHHHHHHHHHHHHHHc
Q psy8224          29 VDMRKVPVPNHRYGPLKENWMKIFTPIVEHLKLQ-VRFNLKSRNVEIRLSPETEDISNLQKAADFVKAFVY   98 (766)
Q Consensus        29 ~~~~~i~iP~~r~~~l~~~~~~i~~~i~~~~~~~-i~i~~~~~~v~i~~~~~t~d~~~~~ka~~~i~ai~~   98 (766)
                      +-+..+.||+++++.|||..|++++.|.+.+|++ |.++- +|.|.|-.    .|...+.+|+++|+.+..
T Consensus       684 P~i~~~~i~~~ki~~vIG~GGktIk~I~eetg~~~Idi~d-dg~V~I~a----~d~~~i~~A~~~I~~l~~  749 (891)
T PLN00207        684 PLIHIMKVKPEKVNMIIGSGGKKVKSIIEETGVEAIDTQD-DGTVKITA----KDLSSLEKSKAIISSLTM  749 (891)
T ss_pred             CeeEEEEcCHHHHHHHhcCCchhHHHHHHHHCCCccCcCC-CeeEEEEe----CCHHHHHHHHHHHHHHhc
Confidence            3678899999999999999999999999999999 88875 69999887    578899999999998875

>KOG2192|consensus

Probab=89.12  E-value=0.55  Score=48.30  Aligned_cols=53  Identities=26%  Similarity=0.334  Sum_probs=47.8

Q ss_pred             hhhccccCCCCcHHHHHHHhhCceEEEeC-------ceEEEEcchhhHHHHHHHHHHhhc
Q psy8224         134 RAIGRLAGKGGRTKFTIENITKTRIVIAD-------SKIHVLGSYQNVQVALKALSNLIL  186 (766)
Q Consensus       134 r~~griiG~~G~t~~~ie~~t~~~I~v~~-------~~v~iiG~~~~l~~ar~~i~~~~~  186 (766)
                      -.-|-||||+|+-++.|-.-+|+.|.|..       .-+.|-|+.++|..|.+....|.+
T Consensus       324 dlggsiigkggqri~~ir~esGA~IkidepleGsedrIitItGTqdQIqnAQYLlQn~Vk  383 (390)
T KOG2192|consen  324 DLGGSIIGKGGQRIKQIRHESGASIKIDEPLEGSEDRIITITGTQDQIQNAQYLLQNSVK  383 (390)
T ss_pred             ccCcceecccchhhhhhhhccCceEEecCcCCCCCceEEEEeccHHHHhhHHHHHHHHHH
Confidence            45789999999999999999999999964       558899999999999999988875

>KOG2191|consensus

Probab=88.92  E-value=1  Score=48.06  Aligned_cols=60  Identities=20%  Similarity=0.190  Sum_probs=52.6

Q ss_pred             eEEEecCCCcchhhhccCcccHHHHHHhcCcEEEEE--------cccCeEEEEeCCCCCCHHHHHHHHHHHHH
Q psy8224          31 MRKVPVPNHRYGPLKENWMKIFTPIVEHLKLQVRFN--------LKSRNVEIRLSPETEDISNLQKAADFVKA   95 (766)
Q Consensus        31 ~~~i~iP~~r~~~l~~~~~~i~~~i~~~~~~~i~i~--------~~~~~v~i~~~~~t~d~~~~~ka~~~i~a   95 (766)
                      ..+|.+|...-+.+||+.|.+++.|.|+++..|+|-        +.++.|+|..     +|...+||.++|-+
T Consensus       133 qikivvPNstag~iigkggAtiK~~~Eqsga~iqisPqkpt~~sLqervvt~sg-----e~e~~~~A~~~IL~  200 (402)
T KOG2191|consen  133 QIKIVVPNSTAGMIIGKGGATIKAIQEQSGAWIQISPQKPTGISLQERVVTVSG-----EPEQNMKAVSLILQ  200 (402)
T ss_pred             eeEEeccCCcccceecCCcchHHHHHHhhCcceEecccCCCCccceeEEEEecC-----CHHHHHHHHHHHHH
Confidence            368999999999999999999999999999999985        4566666665     89999999999965

>KOG2279|consensus

Probab=88.67  E-value=0.36  Score=54.62  Aligned_cols=108  Identities=14%  Similarity=0.120  Sum_probs=73.9

Q ss_pred             ceEEEecCCCcchhhhccCcccHHHHHHhcCcEEEEEccc---CeEEEEeCCCCCCHHHHHHHHHHHHHHHcCCChhhHH
Q psy8224          30 DMRKVPVPNHRYGPLKENWMKIFTPIVEHLKLQVRFNLKS---RNVEIRLSPETEDISNLQKAADFVKAFVYGFDVDDAL  106 (766)
Q Consensus        30 ~~~~i~iP~~r~~~l~~~~~~i~~~i~~~~~~~i~i~~~~---~~v~i~~~~~t~d~~~~~ka~~~i~ai~~gf~~~~a~  106 (766)
                      -.-++.||..-+..++|+-|.-+++|.+.++.++.++.++   ..+.+...    -|..+-+|+..+-.           
T Consensus        68 v~~e~Vv~~e~vkli~gr~gsnik~l~~~t~aKi~L~~ed~g~e~~~~~~~----~p~~v~~a~a~~~~-----------  132 (608)
T KOG2279|consen   68 IEIEMVVPQEAVKLIIGRQGSNIKQLRKQTGAKIDLDTEDVGDERVLLISG----FPVQVCKAKAAIHQ-----------  132 (608)
T ss_pred             eeeeEeecccceeeeeccccCCcchhhcccccceecCcccCCcccchhhcc----CCCCCChHHHHHHH-----------
Confidence            4567899999999999999999999999999999886432   22222221    12222233322221           


Q ss_pred             hhcccccceeeeeeeccccccccchhhhhhccccCCCCcHHHHHHHhhCceEEEeCc
Q psy8224         107 ALLRLDNLFIESFEIKDVKTLKGDHLSRAIGRLAGKGGRTKFTIENITKTRIVIADS  163 (766)
Q Consensus       107 ~ll~~d~~~~~~~~i~~~~~~~~~~~~r~~griiG~~G~t~~~ie~~t~~~I~v~~~  163 (766)
                      ++++..           .+.......+|..|||+|++|.|.+.|+..++++|.+..+
T Consensus       133 ~~~~~~-----------pvk~~lsvpqr~~~~i~grgget~~si~~ss~aki~~d~n  178 (608)
T KOG2279|consen  133 ILTENT-----------PVSEQLSVPQRSVGRIIGRGGETIRSICKSSGAKITCDKN  178 (608)
T ss_pred             HHhcCC-----------cccccccchhhhcccccccchhhhcchhcccccccccccc
Confidence            222211           1223334566999999999999999999999999999754

>COG1094 Predicted RNA-binding protein (contains KH domains) [General function prediction only]

Probab=87.97  E-value=0.96  Score=45.12  Aligned_cols=61  Identities=26%  Similarity=0.341  Sum_probs=52.1

Q ss_pred             hhhccccCCCCcHHHHHHHhhCceEEEeCc--eEEEEcc---hh--hHHHHHHHHHHhhcCCCCcccc
Q psy8224         134 RAIGRLAGKGGRTKFTIENITKTRIVIADS--KIHVLGS---YQ--NVQVALKALSNLILGSPPNKVY  194 (766)
Q Consensus       134 r~~griiG~~G~t~~~ie~~t~~~I~v~~~--~v~iiG~---~~--~l~~ar~~i~~~~~~~~p~~~~  194 (766)
                      .+.|=+||+.|.+++.||..+++.|.|+.+  +|.|..+   .+  .+..|+++|..+-+|=+|..-+
T Consensus        17 ~R~~~lig~~g~v~k~ie~~~~~~~~iD~~~~~V~i~~~~~t~Dp~~~~ka~d~VkAIgrGF~pe~A~   84 (194)
T COG1094          17 DRIGVLIGKWGEVKKAIEEKTGVKLRIDSKTGSVTIRTTRKTEDPLALLKARDVVKAIGRGFPPEKAL   84 (194)
T ss_pred             hhheeeecccccchHHHHhhcCeEEEEECCCCeEEEEecCCCCChHHHHHHHHHHHHHhcCCCHHHHH
Confidence            568999999999999999999999999865  4888766   34  4669999999999999997643

>PRK04163 exosome complex RNA-binding protein Rrp4; Provisional

Probab=87.88  E-value=1.1  Score=46.68  Aligned_cols=64  Identities=9%  Similarity=-0.002  Sum_probs=57.6

Q ss_pred             ceEEEecCCCcchhhhccCcccHHHHHHhcCcEEEEEcccCeEEEEeCCCCCCHHHHHHHHHHHHHHHc
Q psy8224          30 DMRKVPVPNHRYGPLKENWMKIFTPIVEHLKLQVRFNLKSRNVEIRLSPETEDISNLQKAADFVKAFVY   98 (766)
Q Consensus        30 ~~~~i~iP~~r~~~l~~~~~~i~~~i~~~~~~~i~i~~~~~~v~i~~~~~t~d~~~~~ka~~~i~ai~~   98 (766)
                      .-+.+.||++.++-|+|..+.+.+.|.+.++++|.+.. +|.|-|.+    .++..+.+|..+|+.+.+
T Consensus       145 ~G~~~~V~~~~i~~lig~~g~~i~~l~~~~~~~I~ig~-NG~VwI~~----~~~~~~~~a~~~I~~~e~  208 (235)
T PRK04163        145 GGTIVEIKPVKVPRVIGKKGSMINMLKEETGCDIIVGQ-NGRIWIKG----PDEEDEEIAIEAIKKIER  208 (235)
T ss_pred             CCEEEEECHHHHHhhcCCCChhHhhhhhhhCcEEEEcC-CcEEEEee----CCHHHHHHHHHHHHHHHh
Confidence            35779999999999999999999999999999999876 59999998    588899999999998865

>COG0195 NusA Transcription elongation factor [Transcription]

Probab=87.62  E-value=0.72  Score=46.31  Aligned_cols=103  Identities=16%  Similarity=0.119  Sum_probs=64.1

Q ss_pred             EEEecCCCcchhhhccCcccHHHHHHhcCcEEEEEcccCeEEEEeCCCCCCHHHHHHHHHHHHHHHcCCChhhHHhhccc
Q psy8224          32 RKVPVPNHRYGPLKENWMKIFTPIVEHLKLQVRFNLKSRNVEIRLSPETEDISNLQKAADFVKAFVYGFDVDDALALLRL  111 (766)
Q Consensus        32 ~~i~iP~~r~~~l~~~~~~i~~~i~~~~~~~i~i~~~~~~v~i~~~~~t~d~~~~~ka~~~i~ai~~gf~~~~a~~ll~~  111 (766)
                      ....+-.+-+|..+|+||...+.|.+.+|=+|++        |.-   ..||..+     +.+|++    |.+-+.+.-.
T Consensus        78 ~~~~~~~d~vG~~iG~~G~rvk~i~~eLgekIdV--------Ve~---s~d~~~f-----I~nal~----Pa~v~~V~~~  137 (190)
T COG0195          78 VSNVVKIDPVGACIGKRGSRVKAVSEELGEKIDV--------VEW---SEDPAEF-----IKNALA----PAEVLSVNIK  137 (190)
T ss_pred             EEeecCcCchhhhccCCChHHHHHHHHhCCceEE--------EEe---CCCHHHH-----HHHhcC----cceEeEEEEE
Confidence            4444556778999999999999999999843332        121   2466432     233332    3333333211


Q ss_pred             c-cceeeeeeeccccccccchhhhhhccccCCCCcHHHHHHHhhCceEEEeCce
Q psy8224         112 D-NLFIESFEIKDVKTLKGDHLSRAIGRLAGKGGRTKFTIENITKTRIVIADSK  164 (766)
Q Consensus       112 d-~~~~~~~~i~~~~~~~~~~~~r~~griiG~~G~t~~~ie~~t~~~I~v~~~~  164 (766)
                      + |--     ...+     ....+.+++.|||+|++.+.+..+||-+|-|..-.
T Consensus       138 ~~d~~-----~~~v-----~V~~~~~~~aIGk~G~Nvrla~~Ltg~~i~I~~~~  181 (190)
T COG0195         138 EDDGH-----VAIV-----VVPPDQLSLAIGKGGQNVRLASQLTGWEIDIETIS  181 (190)
T ss_pred             eCCCc-----EEEE-----EECHHHHhhccCcccHHHHHHHHHhCCEEEEEehh
Confidence            1 110     0111     01125689999999999999999999999987543

>cd02414 jag_KH jag_K homology RNA-binding domain

Probab=87.17  E-value=0.29  Score=41.69  Aligned_cols=26  Identities=27%  Similarity=0.362  Sum_probs=23.0

Q ss_pred             hccccCCCCcHHHHHHHhhCceEEEe
Q psy8224         136 IGRLAGKGGRTKFTIENITKTRIVIA  161 (766)
Q Consensus       136 ~griiG~~G~t~~~ie~~t~~~I~v~  161 (766)
                      .|++|||+|+|+.|||-+++..+.-.
T Consensus        35 ~g~LIGk~G~tL~AlQ~L~~~~~~~~   60 (77)
T cd02414          35 IGLLIGKRGKTLDALQYLANLVLNRN   60 (77)
T ss_pred             CCeEECCCCccHHHHHHHHHHHHhhc
Confidence            69999999999999999998776643

The KH domain is found in proteins homologous to the Bacillus subtilis protein Jag, which is associated with SpoIIIJ and is necessary for the third stage of sporulation. The KH motif is a beta-alpha-alpha-beta-beta unit that folds into an alpha-beta structure with a three stranded beta-sheet interupted by two contiguous helices. In general, KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA.

>PF14611 SLS: Mitochondrial inner-membrane-bound regulator

Probab=87.03  E-value=12  Score=38.16  Aligned_cols=137  Identities=9%  Similarity=0.036  Sum_probs=93.1

Q ss_pred             eEEEecCCCcchhhhccCcccHHHHHHhcCcEEEEEcccCeEEEEeCCCCCCHHHHHHHHHHHHHHHcCCChhhHHhhcc
Q psy8224          31 MRKVPVPNHRYGPLKENWMKIFTPIVEHLKLQVRFNLKSRNVEIRLSPETEDISNLQKAADFVKAFVYGFDVDDALALLR  110 (766)
Q Consensus        31 ~~~i~iP~~r~~~l~~~~~~i~~~i~~~~~~~i~i~~~~~~v~i~~~~~t~d~~~~~ka~~~i~ai~~gf~~~~a~~ll~  110 (766)
                      ...|.+++.-+-.|-...+.+.+.|....|.+|.+....+.|.|++++     ..+.-+.+-|.-+.             
T Consensus        27 ~l~v~l~~~~~~LLl~~~~~~L~~l~~~~~~~I~~~~~~~~i~I~g~k-----~~~~~i~~~i~~~l-------------   88 (210)
T PF14611_consen   27 DLDVWLQPDEFFLLLTGNGRILENLAARNGAKIEVSRSENRIRITGTK-----STAEYIEASINEIL-------------   88 (210)
T ss_pred             eeEEEecchheeeeecCCchHHHHHHHhcCceEEEecCCcEEEEEccH-----HHHHHHHHHHHHHH-------------
Confidence            345666677777888888899899988899999999999999999833     34444444444332             


Q ss_pred             cccceeeeeeeccccccccchhhhhhccccCCCCcHHHHHHHhhCceEEEeCce--EEEEc-----chhhHHHHHHHHHH
Q psy8224         111 LDNLFIESFEIKDVKTLKGDHLSRAIGRLAGKGGRTKFTIENITKTRIVIADSK--IHVLG-----SYQNVQVALKALSN  183 (766)
Q Consensus       111 ~d~~~~~~~~i~~~~~~~~~~~~r~~griiG~~G~t~~~ie~~t~~~I~v~~~~--v~iiG-----~~~~l~~ar~~i~~  183 (766)
                       ..+.-+.|++..+...-   - ....+  --....+..|+.+|+|+|...++.  +.|.+     ..+.+..|++.+.-
T Consensus        89 -~~i~~~~i~l~~~~~~~---~-~~~~~--~~~~~~l~~i~~~t~~~ie~~~~~~~~~i~~~~~~~~~~~~~~a~RlL~~  161 (210)
T PF14611_consen   89 -SNIRTEEIDLSPIISKH---S-EKKNS--QFTPDLLEEIQKLTNVYIEKNPDGNKLKISWLASPENEKRADRAKRLLLW  161 (210)
T ss_pred             -hhcEEEEEecchhhhhh---c-ccccc--cccHHHHHHHHHHHcEEEEECCCCCeEEEEEEeeccccchHHHHHHHHHH
Confidence             23555667777653211   0 00111  113668899999999999987654  44443     44579999999998


Q ss_pred             hhcCCCCcc
Q psy8224         184 LILGSPPNK  192 (766)
Q Consensus       184 ~~~~~~p~~  192 (766)
                      .....++.+
T Consensus       162 a~~~~~~~~  170 (210)
T PF14611_consen  162 ALDYNPHSQ  170 (210)
T ss_pred             hccCCcccc
Confidence            886555544

>COG2940 Proteins containing SET domain [General function prediction only]

Probab=86.99  E-value=0.27  Score=56.89  Aligned_cols=50  Identities=18%  Similarity=0.434  Sum_probs=40.2

Q ss_pred             ccccccccccCCceeeeecCc--cchhhhhhhcccCCCeeeecccCCCCCcc
Q psy8224         559 KTAMLSHNCKPNTKHVIVNED--FSLQLIALVNICKGDIISTTYTQPFWGTM  608 (766)
Q Consensus       559 ~~SllNHSC~PN~~~~f~~~~--~~l~~~A~r~I~~GeeI~~sY~~~~~~~~  608 (766)
                      .+.++||||.||+....+...  ..+...|+++|.+||||+..|...++...
T Consensus       405 ~~r~~nHS~~pN~~~~~~~~~g~~~~~~~~~rDI~~geEl~~dy~~~~~~~~  456 (480)
T COG2940         405 VARFINHSCTPNCEASPIEVNGIFKISIYAIRDIKAGEELTYDYGPSLEDNR  456 (480)
T ss_pred             ccceeecCCCCCcceecccccccceeeecccccchhhhhhccccccccccch
Confidence            456899999999987753332  36778999999999999999998776654

>KOG2814|consensus

Probab=86.85  E-value=0.85  Score=48.80  Aligned_cols=66  Identities=30%  Similarity=0.399  Sum_probs=50.0

Q ss_pred             hhhccccCCCCcHHHHHHHhhCceEEEe-----CceEEEEcc-hhhHHHHHHHHHHhhc---CCCCcccccceee
Q psy8224         134 RAIGRLAGKGGRTKFTIENITKTRIVIA-----DSKIHVLGS-YQNVQVALKALSNLIL---GSPPNKVYGGILC  199 (766)
Q Consensus       134 r~~griiG~~G~t~~~ie~~t~~~I~v~-----~~~v~iiG~-~~~l~~ar~~i~~~~~---~~~p~~~~s~l~c  199 (766)
                      -..|-|||++|+|++-||+-|+|+|.+.     ...|.|+|- .+.+..|.+-|.-+|.   -+-|.++|=++-+
T Consensus        66 ~~~~~lig~~g~trkkle~Etq~~i~lp~p~~n~~~i~i~~~~~~~V~~a~~Ri~~~ids~r~s~p~thflal~l  140 (345)
T KOG2814|consen   66 SFIGWLIGKQGKTRKKLEEETQTNIFLPRPNTNKEEIKIIGISRNCVIQALERIAKLIDSDRKSFPITHFLALPL  140 (345)
T ss_pred             HHhhhhhcccchHHHHHHHhhccceEccCCCCCcceEEEeehhHHHHHHHHHHHHHHHHhhhhcCchhhhhhhhc
Confidence            4589999999999999999999999994     223555544 4578888888888873   2567777755555

>COG1847 Jag Predicted RNA-binding protein [General function prediction only]

Probab=86.64  E-value=0.49  Score=47.60  Aligned_cols=53  Identities=23%  Similarity=0.433  Sum_probs=40.2

Q ss_pred             hccccCCCCcHHHHHHHhhCceEEEeCce---EEE-Ecchhh------HHHHHHHHHHhhcCC
Q psy8224         136 IGRLAGKGGRTKFTIENITKTRIVIADSK---IHV-LGSYQN------VQVALKALSNLILGS  188 (766)
Q Consensus       136 ~griiG~~G~t~~~ie~~t~~~I~v~~~~---v~i-iG~~~~------l~~ar~~i~~~~~~~  188 (766)
                      .||+||++|+|..+||.+++.++.-.+.+   |.+ +|.|..      +++|.++-.+..+..
T Consensus       102 ~~~LIG~~Gk~LdALQ~L~n~~l~~~~g~~~~v~ldv~~yRerR~e~L~~LA~~~A~rV~~tg  164 (208)
T COG1847         102 AGRLIGKHGKTLDALQYLANLYLNKIGGKFKRVTLDVGDYRERRKETLIKLAERAAERVLETG  164 (208)
T ss_pred             hhhhhccCCcchHHHHHHHHHHhhhhcCcceEEEEEhhhHHHHHHHHHHHHHHHHHHHHHhhC
Confidence            79999999999999999999998875433   555 777762      556777666665433

>KOG1710|consensus

Probab=85.97  E-value=0.15  Score=53.19  Aligned_cols=29  Identities=28%  Similarity=0.714  Sum_probs=26.7

Q ss_pred             cccCCCCCc-cccCccCC--CCCCcHhhhhhh
Q psy8224         418 FYKCSDCGW-PLCAPRCK--SLPSHQKECKLM  446 (766)
Q Consensus       418 ~~~C~~C~~-~yCS~~C~--~~~~H~~EC~~l  446 (766)
                      ..+|+.|+. .||+++||  +|-.|+.-|+.+
T Consensus       331 ~KrCs~CKav~YCdqeCQk~hWf~HKK~C~~L  362 (396)
T KOG1710|consen  331 KKRCSQCKAVAYCDQECQKFHWFIHKKVCSFL  362 (396)
T ss_pred             cchhhhhHHHHHHHHHHHHhhhHHHHHHHHHH
Confidence            579999997 99999998  499999999988

>KOG1337|consensus

Probab=85.92  E-value=0.52  Score=54.43  Aligned_cols=77  Identities=14%  Similarity=0.142  Sum_probs=54.4

Q ss_pred             CCHHHHHHHHhhhccccccccccC-----CceeEEEeecccccccccccCCceeeeecCccchhhhhhhcccCCCeeeec
Q psy8224         525 VSEETILRIAGILDTNAFDIRRSV-----GKIKIRGIYMKTAMLSHNCKPNTKHVIVNEDFSLQLIALVNICKGDIISTT  599 (766)
Q Consensus       525 ~s~~~i~~i~~~l~~Naf~i~~~~-----~~~~~~gLyp~~SllNHSC~PN~~~~f~~~~~~l~~~A~r~I~~GeeI~~s  599 (766)
                      ++.+.+....+++...+|......     ......+|.|..-++||++.+...-.+ ..+..+.+++.+++.+|+||+++
T Consensus       197 ~~~~~~~w~~~~~~sr~~~~~~~~~~~~~~~~~~~~L~P~~D~~NH~~~~~~~~~~-~~d~~~~l~~~~~v~~geevfi~  275 (472)
T KOG1337|consen  197 FTFSAFKWAYSIVNSRAFYLPSLQRLTAGDPDDNEALAPLIDLLNHSPEVIKAGYN-QEDEAVELVAERDVSAGEEVFIN  275 (472)
T ss_pred             cchHHHHHHHHHHhhhhhccccccccccCCCCcchhhhhhHHhhccCchhcccccc-CCCCcEEEEEeeeecCCCeEEEe
Confidence            344455556666666666554331     223446789999999999998443333 33337889999999999999999


Q ss_pred             ccC
Q psy8224         600 YTQ  602 (766)
Q Consensus       600 Y~~  602 (766)
                      ||+
T Consensus       276 YG~  278 (472)
T KOG1337|consen  276 YGP  278 (472)
T ss_pred             cCC
Confidence            998

>PLN03158 methionine aminopeptidase; Provisional

Probab=84.74  E-value=0.29  Score=54.93  Aligned_cols=40  Identities=30%  Similarity=0.687  Sum_probs=34.7

Q ss_pred             CCCCcccccCCcccCCCCCCCC-------cccCCchhhccccccccC
Q psy8224         312 MDSGKCEVCKVAASLKCGGCNQ-------VFYCSKSHQKQHWKEHKP  351 (766)
Q Consensus       312 ~~~~~C~~C~~~~~~~C~~C~~-------v~YCs~~cq~~~w~~Hk~  351 (766)
                      ..+..|..|++++...|+.|..       .+|||.+|-+..|+.||.
T Consensus         7 ~~~~~c~~c~~~a~l~Cp~C~k~~~~~~~s~fCsq~CFk~~w~~Hk~   53 (396)
T PLN03158          7 TSPLACARCSKPAHLQCPKCLELKLPREGASFCSQDCFKAAWSSHKS   53 (396)
T ss_pred             CCcccccCCCCcccccCccchhcCCCCCCceeECHHHHHHHHHHHHH
Confidence            3456799999999999999974       789999999999999875

>cd02409 KH-II KH-II (K homology RNA-binding domain, type II)

Probab=84.05  E-value=0.6  Score=37.85  Aligned_cols=23  Identities=17%  Similarity=0.355  Sum_probs=21.3

Q ss_pred             hccccCCCCcHHHHHHHhhCceE
Q psy8224         136 IGRLAGKGGRTKFTIENITKTRI  158 (766)
Q Consensus       136 ~griiG~~G~t~~~ie~~t~~~I  158 (766)
                      .|++||++|+++++|+.+++-.+
T Consensus        36 ~g~lIGk~G~~l~~l~~l~~~~~   58 (68)
T cd02409          36 PGLVIGKKGQNIRALQKLLQKLL   58 (68)
T ss_pred             CceEECCCCccHHHHHHHHHHHc
Confidence            79999999999999999999665

KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins (e.g. ribosomal protein S3), transcription factors (e.g. NusA_K), and post-transcriptional modifiers of mRNA (e.g. hnRNP K). There are two different KH domains that belong to different protein folds, but they share a single KH motif. The KH motif is a beta-alpha-alpha-beta-beta unit that folds into an alpha-beta structure with a three stranded beta-sheet interupted by two contiguous helices. In addition to their KH core domain, KH-II proteins have an N-terminal alpha helical extension while KH-I proteins have a C-terminal alpha helical extension.

>KOG0336|consensus

Probab=83.83  E-value=1.3  Score=48.71  Aligned_cols=53  Identities=26%  Similarity=0.357  Sum_probs=45.1

Q ss_pred             hccccCCCCcHHHHHHHhhCceEEEeC----ceEEEEcchhhHHHHHHHHHHhhcCC
Q psy8224         136 IGRLAGKGGRTKFTIENITKTRIVIAD----SKIHVLGSYQNVQVALKALSNLILGS  188 (766)
Q Consensus       136 ~griiG~~G~t~~~ie~~t~~~I~v~~----~~v~iiG~~~~l~~ar~~i~~~~~~~  188 (766)
                      +|-+||++|..++-||+-|+|+|.|..    -.|.|.|.-.--+.|+.+|...++-.
T Consensus        58 vg~vigrggskik~iq~~tnt~iqii~~~~e~kv~ifg~~~m~~kaka~id~~~~k~  114 (629)
T KOG0336|consen   58 VGKVIGRGGSKIKRIQNDTNTRIQIIKCDLEVKVTIFGINHMRKKAKASIDRGQDKD  114 (629)
T ss_pred             hheeeccCcchhhhhhcccceeEEEeccCceeEEEEechHHHHHHHHhhHhhhhhhh
Confidence            999999999999999999999999863    45888888777778888888877433

>KOG1338|consensus

Probab=83.13  E-value=0.33  Score=52.91  Aligned_cols=132  Identities=17%  Similarity=0.096  Sum_probs=77.7

Q ss_pred             CCCHHHHHHHHhhhccccccccccC----------CceeEEEeeccccccccccc-CCceeeeecCccchhhhhhhcccC
Q psy8224         524 DVSEETILRIAGILDTNAFDIRRSV----------GKIKIRGIYMKTAMLSHNCK-PNTKHVIVNEDFSLQLIALVNICK  592 (766)
Q Consensus       524 ~~s~~~i~~i~~~l~~Naf~i~~~~----------~~~~~~gLyp~~SllNHSC~-PN~~~~f~~~~~~l~~~A~r~I~~  592 (766)
                      .++-+.++.+.+++..-+|.+....          -...+-..-|.+-++||.-. -|+...+  +++.+.|+|.|+|.+
T Consensus       173 ~~slEdF~y~~Al~laysfdve~~~s~~~~eee~e~e~ngk~m~p~ad~lNhd~~k~nanl~y--~~NcL~mva~r~iek  250 (466)
T KOG1338|consen  173 RPSLEDFMYAYALGLAYSFDVEFLLSLDNLEEESEIECNGKLMTPIADFLNHDGLKANANLRY--EDNCLEMVADRNIEK  250 (466)
T ss_pred             ccCHHHHHHHHHHHHHHheeeehhcchhhhhhhhccccCcccccchhhhhccchhhcccceec--cCcceeeeecCCCCC
Confidence            3555666666666555555554321          12445567789999999875 5666665  556889999999999


Q ss_pred             CCeeeecccCCCCCccccccccccchhhhhhhcccCC--CCCCCeEEEEEeCCeEEEEEEecccCCCCeEEeecCC
Q psy8224         593 GDIISTTYTQPFWGTMDRRLHLRMSKWIYMKTAMLSH--NCKPNTKHVIVNEDFSLQLIALVNIRKGDIISTTYTQ  666 (766)
Q Consensus       593 GeeI~~sY~~~~~~~~~r~~~~~i~~glyp~~s~~NH--sC~PN~~~~~~~~g~~l~vra~r~I~~GeeI~isY~~  666 (766)
                      |++|.-+|+-.-.+      ....+.+..+..-+++.  -|.-++...+ +.....++++.|.|  |.++..+|+.
T Consensus       251 gdev~n~dg~~p~~------l~~l~ka~c~gihm~~g~~~l~niv~~l~-D~~~d~tm~~~R~i--l~ql~nt~te  317 (466)
T KOG1338|consen  251 GDEVDNSDGLKPMG------LLKLTKALCVGIHMVWGILKLYNIVQILM-DVPNDDTMRNMRLI--LLQLHNTRTE  317 (466)
T ss_pred             ccccccccccCcch------hhhhhhhccceeeeecceeecchHHHHHh-cCCCcchHHHHHHH--HHHhccchhh
Confidence            99999999732111      12233333333222221  1111221222 22456778888888  6666666653

>PRK11824 polynucleotide phosphorylase/polyadenylase; Provisional

Probab=81.19  E-value=1.5  Score=53.09  Aligned_cols=64  Identities=13%  Similarity=0.146  Sum_probs=56.0

Q ss_pred             ceEEEecCCCcchhhhccCcccHHHHHHhcCcEEEEEcccCeEEEEeCCCCCCHHHHHHHHHHHHHHHc
Q psy8224          30 DMRKVPVPNHRYGPLKENWMKIFTPIVEHLKLQVRFNLKSRNVEIRLSPETEDISNLQKAADFVKAFVY   98 (766)
Q Consensus        30 ~~~~i~iP~~r~~~l~~~~~~i~~~i~~~~~~~i~i~~~~~~v~i~~~~~t~d~~~~~ka~~~i~ai~~   98 (766)
                      -...+.||+++++.+||..|++++.|.+.+|.+|.++. +|.|.|..    .|...+.+|+++|+.+..
T Consensus       554 ~~~~~~I~~~kI~~vIG~gg~~ik~I~~~~~~~idi~d-~G~v~i~~----~~~~~~~~a~~~I~~~~~  617 (693)
T PRK11824        554 RIETIKIPPDKIRDVIGPGGKTIREITEETGAKIDIED-DGTVKIAA----TDGEAAEAAKERIEGITA  617 (693)
T ss_pred             hheeecCCHHHHHHHhcCCchhHHHHHHHHCCccccCC-CceEEEEc----ccHHHHHHHHHHHHHhcc
Confidence            45677889999999999999999999999999887754 69998886    477899999999998874

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	766
1tua_A	191	1.5 A Crystal Structure Of A Protein Of Unknown Fun		4e-10
2e3u_A	219	Crystal Structure Analysis Of Dim2p From Pyrococcus		1e-05
3mek_A	429	Crystal Structure Of Human Histone-Lysine N- Methyl		2e-04
3ru0_A	438	Cocrystal Structure Of Human Smyd3 With Inhibitor S		3e-04
3oxf_A	436	Human Lysine Methyltransferase Smyd3 In Complex Wit		3e-04
3qwp_A	429	Crystal Structure Of Set And Mynd Domain Containing		3e-04
3pdn_A	428	Crystal Structure Of Smyd3 In Complex With Methyltr		3e-04
3oxg_A	464	Human Lysine Methyltransferase Smyd3 In Complex Wit		3e-04
3qwv_A	433	Crystal Structure Of Histone Lysine Methyltransfera		8e-04

>pdb|1TUA|A Chain A, 1.5 A Crystal Structure Of A Protein Of Unknown Function Ape0754 From Aeropyrum Pernix Length = 191

Iteration: 1
 Score = 63.5 bits (153), Expect = 4e-10,   Method: Composition-based stats.
 Identities = 42/133 (31%), Positives = 65/133 (48%), Gaps = 9/133 (6%)
Query: 67  LKSRNVEIRLSPETEDIS--NLQKAADFVKAFVYGFXXXXXXXXXXXXXXFIESFEIKDV 124
           + + N  + + PE E I   NL KAA+ VKA   GF               +    + D+
Sbjct: 39  VDTENSMVIVEPEAEGIPPVNLMKAAEVVKAISLGFPPEKAFRLLEEDQILV----VVDL 94
Query: 125 KTLKGD---HLSRAIGRLAGKGGRTKFTIENITKTRIVIADSKIHVLGSYQNVQVALKAL 181
           K + GD   HL R  GR+ G+GGR + TIE +T T I + + ++ ++G Y+    A +A+
Sbjct: 95  KQVVGDSQNHLKRIKGRIIGEGGRARRTIEEMTDTYINVGEYEVAIIGDYERAMAAKQAI 154
Query: 182 SNLILGSPPNKVY 194
             L  G   + VY
Sbjct: 155 EMLAEGRMHSTVY 167

>pdb|2E3U|A Chain A, Crystal Structure Analysis Of Dim2p From Pyrococcus Horikoshii Ot3 Length = 219

Iteration: 1
 Score = 48.5 bits (114), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 40/162 (24%), Positives = 71/162 (43%), Gaps = 2/162 (1%)
Query: 34  VPVPNHRYGPLKENWMKIFTPIVEHLKLQVRFNLKSRNVEIRLSPETEDISNLQKAADFV 93
           V +P  R   L     +    I +  K ++  + ++  V I  + ETED   + KA D V
Sbjct: 38  VKIPKDRIAVLIGKKGQTKKEIEKRTKTKITIDSETGEVWITSTKETEDPLAVWKARDIV 97
Query: 94  KAFVYGFXXXXXXXXXXXXXXFIESFEIKDVKT-LKGDHLSRAIGRLAGKGGRTKFTIEN 152
            A   GF              ++E   + D+    + + L R  GR+ G+ GRT+  IE 
Sbjct: 98  LAIGRGFSPERAFRLLNEGE-YLEIINLTDIIIGNEKNALPRVRGRIIGRKGRTRQIIEE 156
Query: 153 ITKTRIVIADSKIHVLGSYQNVQVALKALSNLILGSPPNKVY 194
           ++   + +    + ++G+   +++A  A+  L  GSP   VY
Sbjct: 157 MSGASVSVYGKTVAIIGNPIQIEIAKTAIEKLARGSPHGSVY 198

>pdb|3MEK|A Chain A, Crystal Structure Of Human Histone-Lysine N- Methyltransferase Smyd3 In Complex With S-Adenosyl-L- Methionine Length = 429

Iteration: 1
 Score = 44.7 bits (104), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 24/73 (32%), Positives = 38/73 (52%), Gaps = 2/73 (2%)
Query: 620 IYMKTAMLSHNCKPNTKHVIVNEDFSLQLIALVNIRKGDIISTTYTQPFWGTMDRRLHLR 679
           +Y   ++L+H+C PN    IV     L L A+ +I  G+ ++  Y      + +RR  LR
Sbjct: 198 LYPSISLLNHSCDPNCS--IVFNGPHLLLRAVRDIEVGEELTICYLDXLXTSEERRKQLR 255
Query: 680 MSKCFDCTCDRCK 692
              CF+C C RC+
Sbjct: 256 DQYCFECDCFRCQ 268

>pdb|3RU0|A Chain A, Cocrystal Structure Of Human Smyd3 With Inhibitor Sinefungin Bound Length = 438

Iteration: 1
 Score = 43.9 bits (102), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 24/73 (32%), Positives = 38/73 (52%), Gaps = 2/73 (2%)
Query: 620 IYMKTAMLSHNCKPNTKHVIVNEDFSLQLIALVNIRKGDIISTTYTQPFWGTMDRRLHLR 679
           +Y   ++L+H+C PN    IV     L L A+ +I  G+ ++  Y      + +RR  LR
Sbjct: 199 LYPSISLLNHSCDPNCS--IVFNGPHLLLRAVRDIEVGEELTICYLDMLMTSEERRKQLR 256
Query: 680 MSKCFDCTCDRCK 692
              CF+C C RC+
Sbjct: 257 DQYCFECDCFRCQ 269

>pdb|3OXF|A Chain A, Human Lysine Methyltransferase Smyd3 In Complex With Adohcy (Form I) Length = 436

Iteration: 1
 Score = 43.9 bits (102), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 24/73 (32%), Positives = 38/73 (52%), Gaps = 2/73 (2%)
Query: 620 IYMKTAMLSHNCKPNTKHVIVNEDFSLQLIALVNIRKGDIISTTYTQPFWGTMDRRLHLR 679
           +Y   ++L+H+C PN    IV     L L A+ +I  G+ ++  Y      + +RR  LR
Sbjct: 197 LYPSISLLNHSCDPNCS--IVFNGPHLLLRAVRDIEVGEELTICYLDMLMTSEERRKQLR 254
Query: 680 MSKCFDCTCDRCK 692
              CF+C C RC+
Sbjct: 255 DQYCFECDCFRCQ 267

>pdb|3QWP|A Chain A, Crystal Structure Of Set And Mynd Domain Containing 3; Zinc Finger Mynd Domain-Containing Protein 1 Length = 429

Iteration: 1
 Score = 43.9 bits (102), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 24/73 (32%), Positives = 38/73 (52%), Gaps = 2/73 (2%)
Query: 620 IYMKTAMLSHNCKPNTKHVIVNEDFSLQLIALVNIRKGDIISTTYTQPFWGTMDRRLHLR 679
           +Y   ++L+H+C PN    IV     L L A+ +I  G+ ++  Y      + +RR  LR
Sbjct: 198 LYPSISLLNHSCDPNCS--IVFNGPHLLLRAVRDIEVGEELTICYLDMLMTSEERRKQLR 255
Query: 680 MSKCFDCTCDRCK 692
              CF+C C RC+
Sbjct: 256 DQYCFECDCFRCQ 268

>pdb|3PDN|A Chain A, Crystal Structure Of Smyd3 In Complex With Methyltransferase Inhibitor Sinefungin Length = 428

Iteration: 1
 Score = 43.9 bits (102), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 24/73 (32%), Positives = 38/73 (52%), Gaps = 2/73 (2%)
Query: 620 IYMKTAMLSHNCKPNTKHVIVNEDFSLQLIALVNIRKGDIISTTYTQPFWGTMDRRLHLR 679
           +Y   ++L+H+C PN    IV     L L A+ +I  G+ ++  Y      + +RR  LR
Sbjct: 197 LYPSISLLNHSCDPNCS--IVFNGPHLLLRAVRDIEVGEELTICYLDMLMTSEERRKQLR 254
Query: 680 MSKCFDCTCDRCK 692
              CF+C C RC+
Sbjct: 255 DQYCFECDCFRCQ 267

>pdb|3OXG|A Chain A, Human Lysine Methyltransferase Smyd3 In Complex With Adohcy (Form Iii) Length = 464

Iteration: 1
 Score = 43.9 bits (102), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 24/73 (32%), Positives = 38/73 (52%), Gaps = 2/73 (2%)
Query: 620 IYMKTAMLSHNCKPNTKHVIVNEDFSLQLIALVNIRKGDIISTTYTQPFWGTMDRRLHLR 679
           +Y   ++L+H+C PN    IV     L L A+ +I  G+ ++  Y      + +RR  LR
Sbjct: 233 LYPSISLLNHSCDPNCS--IVFNGPHLLLRAVRDIEVGEELTICYLDMLMTSEERRKQLR 290
Query: 680 MSKCFDCTCDRCK 692
              CF+C C RC+
Sbjct: 291 DQYCFECDCFRCQ 303

>pdb|3QWV|A Chain A, Crystal Structure Of Histone Lysine Methyltransferase Smyd2 In Complex With The Cofactor Product Adohcy Length = 433

Iteration: 1
 Score = 42.7 bits (99), Expect = 8e-04,   Method: Compositional matrix adjust.
 Identities = 29/85 (34%), Positives = 43/85 (50%), Gaps = 8/85 (9%)
Query: 620 IYMKTAMLSHNCKPNTKHVIVNEDFSL-QLIALVNIRKGDIISTTYTQPFWGTMDRRLHL 678
           I+   A+++H+C PN   VIV    +L ++ A+  I  GD + T+Y    + T DR   L
Sbjct: 198 IFPDVALMNHSCCPN---VIVTYKGTLAEVRAVQEIHPGDEVFTSYIDLLYPTEDRNDRL 254
Query: 679 RMSKCFDCTCDRC----KDPTELET 699
           R S  F C C  C    KD  ++E 
Sbjct: 255 RDSYFFTCECRECTTKDKDKAKVEV 279

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	766
1tua_A	191	Hypothetical protein APE0754; structural genomics,	2e-49
2e3u_A	219	PH-DIM2P, hypothetical protein PH1566; PRE-ribosom	1e-48
3n71_A	490	Histone lysine methyltransferase SMYD1; heart deve	3e-41
3qwp_A	429	SET and MYND domain-containing protein 3; SMYD3,SE	5e-34
3qww_A	433	SET and MYND domain-containing protein 2; methyltr	8e-32
3qww_A	433	SET and MYND domain-containing protein 2; methyltr	2e-20
2d8q_A	70	BLU protein, zinc finger MYND domain containing pr	1e-14
2dj8_A	60	Protein CBFA2T1; zinc finger MYND domain, protein	5e-14
2odd_A	64	Protein CBFA2T1; MYND zinc finger, cross-braced to	6e-14
2od1_A	60	Protein CBFA2T1; zinc finger, cross-braced topolog	6e-14
2jw6_A	52	Deformed epidermal autoregulatory factor 1 homolo;	7e-14
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	5e-07
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	3e-06
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	6e-04
1n3j_A	119	A612L, histone H3 lysine methyltransferase; beta b	6e-05
1n3j_A	119	A612L, histone H3 lysine methyltransferase; beta b	6e-04
3smt_A	497	Histone-lysine N-methyltransferase SETD3; histone	1e-04

>1tua_A Hypothetical protein APE0754; structural genomics, protein structure initiative, MCSG, four layers alpha-beta sandwich, PSI; 1.50A {Aeropyrum pernix} SCOP: d.51.1.1 d.51.1.1 Length = 191

 Score =  171 bits (434), Expect = 2e-49
 Identities = 46/167 (27%), Positives = 76/167 (45%), Gaps = 1/167 (0%)

Query: 32  RKVPVPNHRYGPLKENWMKIFTPIVEHLKLQVRFNLKSRNVEIRLSPETEDISNLQKAAD 91
             V V   R G +     ++   I+      +  + ++  V +    E     NL KAA+
Sbjct: 6   IYVKVKPERLGAVIGPRGEVKAEIMRRTGTVITVDTENSMVIVEPEAEGIPPVNLMKAAE 65

Query: 92  FVKAFVYGFDVDDALALLRLDNLFIESFEIKDVKTLKGDHLSRAIGRLAGKGGRTKFTIE 151
            VKA   GF  + A  LL  D +     ++K V     +HL R  GR+ G+GGR + TIE
Sbjct: 66  VVKAISLGFPPEKAFRLLEEDQIL-VVVDLKQVVGDSQNHLKRIKGRIIGEGGRARRTIE 124

Query: 152 NITKTRIVIADSKIHVLGSYQNVQVALKALSNLILGSPPNKVYGGIL 198
            +T T I + + ++ ++G Y+    A +A+  L  G   + VY  + 
Sbjct: 125 EMTDTYINVGEYEVAIIGDYERAMAAKQAIEMLAEGRMHSTVYRHLE 171

>2e3u_A PH-DIM2P, hypothetical protein PH1566; PRE-ribosomal RNA processing factor, RNA binding protein; 2.30A {Pyrococcus horikoshii} PDB: 3aev_B Length = 219

 Score =  169 bits (430), Expect = 1e-48
 Identities = 44/191 (23%), Positives = 82/191 (42%), Gaps = 2/191 (1%)

Query: 6   RSADAMEVDDAKAQEPAVKKAKHVDMRKVPVPNHRYGPLKENWMKIFTPIVEHLKLQVRF 65
           +  + +  D    ++    +        V +P  R   L     +    I +  K ++  
Sbjct: 10  KKFENVNKDGEIVEDEDEWEEFFKQEEYVKIPKDRIAVLIGKKGQTKKEIEKRTKTKITI 69

Query: 66  NLKSRNVEIRLSPETEDISNLQKAADFVKAFVYGFDVDDALALLRLDNLFIESFEIKDVK 125
           + ++  V I  + ETED   + KA D V A   GF  + A  LL  +  ++E   + D+ 
Sbjct: 70  DSETGEVWITSTKETEDPLAVWKARDIVLAIGRGFSPERAFRLLN-EGEYLEIINLTDII 128

Query: 126 TLK-GDHLSRAIGRLAGKGGRTKFTIENITKTRIVIADSKIHVLGSYQNVQVALKALSNL 184
                + L R  GR+ G+ GRT+  IE ++   + +    + ++G+   +++A  A+  L
Sbjct: 129 IGNEKNALPRVRGRIIGRKGRTRQIIEEMSGASVSVYGKTVAIIGNPIQIEIAKTAIEKL 188

Query: 185 ILGSPPNKVYG 195
             GSP   VY 
Sbjct: 189 ARGSPHGSVYR 199

>3n71_A Histone lysine methyltransferase SMYD1; heart development, transcription; HET: SFG MES; 2.30A {Mus musculus} Length = 490

 Score =  157 bits (396), Expect = 3e-41
 Identities = 62/391 (15%), Positives = 121/391 (30%), Gaps = 78/391 (19%)

Query: 352 GCAKYKVVRNDILGRHMVATKDIREGEIILEEKPLVVGPKTASVPLCLGCHRTLKPTSME 411
                +V  ++  GR + ATK+    ++I  E+        +   +   CH   K     
Sbjct: 5   SMENVEVFTSEGKGRGLKATKEFWAADVIFAERAYSAVVFDSL--INFVCHTCFKRQE-- 60

Query: 412 ENEPLSFYKCSDCGWP-LCAPRCKSL--PSHQKECKLMKDNQYKSTIQFENETKKESAYC 468
                  ++C  C +   C   C+     +H+ EC  +K                     
Sbjct: 61  -----KLHRCGQCKFAHYCDRTCQKDAWLNHKNECAAIKKYGKVPNENIR--------LA 107

Query: 469 CIAPLRSPLRCLLLERPLLDELLTLDAHLNERINTKLYEIYRVNLVRFIKDVLH--MDVS 526
                R       L    L  +  L  H+      +  E  RV++  F++         S
Sbjct: 108 ARIMWRVEREGTGLTEGCLVSVDDLQNHVEHFGEEEQKE-LRVDVDTFLQYWPPQSQQFS 166

Query: 527 EETILRIAGILDTNAFDIRRSVGKIKI-RGIYMKTAMLSHNCKPNTKHVIVNEDFSLQLI 585
            + I  I G+++ N F +    G   +  GI+    +++H+C PN   +           
Sbjct: 167 MQYISHIFGVINCNGFTLSDQRGLQAVGVGIFPNLGLVNHDCWPNCTVIF---------- 216

Query: 586 ALVNICKGDIISTTYTQPFWGTMDRRLHLRMSKWIYMKTAMLSHNCKPNTKHVIVNEDFS 645
                                                      +N        + +    
Sbjct: 217 -------------------------------------------NNGNHEAVKSMFHTQMR 233

Query: 646 LQLIALVNIRKGDIISTTYTQPFWGTMDRRLHLRMSKCFDCTCDRCKDPTELETYLGKSF 705
           ++L AL  I +G+ ++ +Y      + +RR  L+    FDC+C+ C+   + + +L    
Sbjct: 234 IELRALGKISEGEELTVSYIDFLHLSEERRRQLKKQYYFDCSCEHCQKGLKDDLFLAAKE 293

Query: 706 CLV-YCEIRSLASLVSLDNCEEAMRYLAEST 735
                 E+       S D  E+  +  +E  
Sbjct: 294 DPKPSQEVVKEMIQFSKDTLEKIDKARSEGL 324

>3qwp_A SET and MYND domain-containing protein 3; SMYD3,SET and MYND domain, zinc finger MYND domain-containin 1, structural genomics; HET: SAM; 1.53A {Homo sapiens} PDB: 3mek_A* 3oxg_A* 3oxf_A* 3pdn_A* 3oxl_A* 3ru0_A* Length = 429

 Score =  134 bits (338), Expect = 5e-34
 Identities = 50/275 (18%), Positives = 96/275 (34%), Gaps = 27/275 (9%)

Query: 353 CAKYKVVRNDILGRHMVATKDIREGEIILEEKPLVVGPKTASVPLCLGCHRTLKPTSMEE 412
             K +       G  + A   +R GE++    PL       S  +   C R L       
Sbjct: 4   PLKVEKFATANRGNGLRAVTPLRPGELLFRSDPLAYTVCKGSRGVV--CDRCLLGKE--- 58

Query: 413 NEPLSFYKCSDCG-WPLCAPRCKSL--PSHQKECKLMKDNQYKSTIQFENETKKESAYCC 469
                  +CS C     C+ +C+    P H++ECK +K  + +           +S    
Sbjct: 59  ----KLMRCSQCRVAKYCSAKCQKKAWPDHKRECKCLKSCKPRYP--------PDSVRLL 106

Query: 470 IAPLRSPLRCLLLERPLLDELLTLDAHLNERINT--KLYEIYRVNLVRFIKDVL---HMD 524
              +   +     E   L     L++++N+      +      +    F+++ +      
Sbjct: 107 GRVVFKLMDGAPSESEKLYSFYDLESNINKLTEDRKEGLRQLVMTFQHFMREEIQDASQL 166

Query: 525 VSEETILRIAGILDTNAFDIRRSVGKIKIRGIYMKTAMLSHNCKPNTKHVIVNEDFSLQL 584
                +      +  N+F I  +  +    G+Y   ++L+H+C PN   V       L L
Sbjct: 167 PPAFDLFEAFAKVICNSFTICNAEMQEVGVGLYPSISLLNHSCDPNCSIVFNGP--HLLL 224

Query: 585 IALVNICKGDIISTTYTQPFWGTMDRRLHLRMSKW 619
            A+ +I  G+ ++  Y      + +RR  LR    
Sbjct: 225 RAVRDIEVGEELTICYLDMLMTSEERRKQLRDQYC 259

>3qww_A SET and MYND domain-containing protein 2; methyltransferase, HSP90, transferase-transferase inhibitor; HET: SFG; 1.80A {Mus musculus} PDB: 3qwv_A* 3s7d_A* 3s7b_A* 3s7f_A* 3s7j_A* 3tg4_A* 3tg5_A* 3rib_A* Length = 433

 Score =  128 bits (321), Expect = 8e-32
 Identities = 46/268 (17%), Positives = 84/268 (31%), Gaps = 25/268 (9%)

Query: 358 VVRNDILGRHMVATKDIREGEIILEEKPLVVGPKTASVPL-CLGCHRTLKPTSMEENEPL 416
              +   GR + A +    G+++                  C  C    +          
Sbjct: 11  RFCSAGKGRGLRALRPFHVGDLLFSCPAYACVLTVGERGHHCECCFARKE---------- 60

Query: 417 SFYKCSDCGWPL-CAPRCKSL--PSHQKECKLMKDNQYKSTIQFENETKKESAYCCIAPL 473
              KC  C     C   C+    P H+ EC  M        +       +          
Sbjct: 61  GLSKCGRCKQAFYCDVECQKEDWPLHKLECSSMVV------LGENWNPSETVRLTARILA 114

Query: 474 RSPLRCLLLERPLLDELLTLDAHLNERINTKLYEIYR--VNLVRFIKDVLHMDVSEETIL 531
           +  +         L  +   ++HL++  N K   I      L +F    L       +++
Sbjct: 115 KQKIHPERTPSEKLLAVREFESHLDKLDNEKKDLIQSDIAALHQFYSKYLEFP-DHSSLV 173

Query: 532 RIAGILDTNAFDIRRSVGKIKIRGIYMKTAMLSHNCKPNTKHVIVNEDFSLQLIALVNIC 591
            +   ++ N F I           I+   A+++H+C PN       +    ++ A+  I 
Sbjct: 174 VLFAQVNCNGFTIEDEELSHLGSAIFPDVALMNHSCCPNVIVTY--KGTLAEVRAVQEIH 231

Query: 592 KGDIISTTYTQPFWGTMDRRLHLRMSKW 619
            GD + T+Y    + T DR   LR S +
Sbjct: 232 PGDEVFTSYIDLLYPTEDRNDRLRDSYF 259

>3qww_A SET and MYND domain-containing protein 2; methyltransferase, HSP90, transferase-transferase inhibitor; HET: SFG; 1.80A {Mus musculus} PDB: 3qwv_A* 3s7d_A* 3s7b_A* 3s7f_A* 3s7j_A* 3tg4_A* 3tg5_A* 3rib_A* Length = 433

 Score = 93.8 bits (232), Expect = 2e-20
 Identities = 27/136 (19%), Positives = 52/136 (38%), Gaps = 2/136 (1%)

Query: 620 IYMKTAMLSHNCKPNTKHVIVNEDFSLQLIALVNIRKGDIISTTYTQPFWGTMDRRLHLR 679
           I+   A+++H+C PN       +    ++ A+  I  GD + T+Y    + T DR   LR
Sbjct: 198 IFPDVALMNHSCCPNVIVTY--KGTLAEVRAVQEIHPGDEVFTSYIDLLYPTEDRNDRLR 255

Query: 680 MSKCFDCTCDRCKDPTELETYLGKSFCLVYCEIRSLASLVSLDNCEEAMRYLAESTEIIK 739
            S  F C C  C    + +  +         +  ++  +V            A+  +   
Sbjct: 256 DSYFFTCECRECTTKDKDKAKVEVRKLSSPPQAEAIRDMVRYARNVIEEFRRAKHYKSPS 315

Query: 740 TEPDLSTLLIDKAESL 755
              ++  L  +K  S+
Sbjct: 316 ELLEICELSQEKMSSV 331

>2d8q_A BLU protein, zinc finger MYND domain containing protein 10; zmynd10, ZF-MYND, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: g.85.1.1 PDB: 2dan_A Length = 70

 Score = 68.5 bits (167), Expect = 1e-14
 Identities = 13/43 (30%), Positives = 21/43 (48%)

Query: 313 DSGKCEVCKVAASLKCGGCNQVFYCSKSHQKQHWKEHKPGCAK 355
           +  +C  C   AS +C  C   +YC +  Q +HW++H   C  
Sbjct: 14  ERPRCAYCSAEASKRCSRCQNEWYCCRECQVKHWEKHGKTCVL 56

>2dj8_A Protein CBFA2T1; zinc finger MYND domain, protein MTG8, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: g.85.1.1 Length = 60

 Score = 66.1 bits (161), Expect = 5e-14
 Identities = 15/43 (34%), Positives = 19/43 (44%)

Query: 313 DSGKCEVCKVAASLKCGGCNQVFYCSKSHQKQHWKEHKPGCAK 355
            S  C  C   AS  C GCN   YC    Q + W++H   C+ 
Sbjct: 14  SSESCWNCGRKASETCSGCNTARYCGSFCQHKDWEKHHHICSG 56

>2odd_A Protein CBFA2T1; MYND zinc finger, cross-braced topology, poly-proline, proline-tryptophan interaction, metal binding protein; NMR {Homo sapiens} Length = 64

 Score = 66.1 bits (161), Expect = 6e-14
 Identities = 15/43 (34%), Positives = 19/43 (44%)

Query: 313 DSGKCEVCKVAASLKCGGCNQVFYCSKSHQKQHWKEHKPGCAK 355
            S  C  C   AS  C GCN   YC    Q + W++H   C +
Sbjct: 16  SSESCWNCGRKASETCSGCNTARYCGSFCQHKDWEKHHHICGQ 58

>2od1_A Protein CBFA2T1; zinc finger, cross-braced topology, metal binding protein; NMR {Homo sapiens} Length = 60

 Score = 66.1 bits (161), Expect = 6e-14
 Identities = 14/40 (35%), Positives = 18/40 (45%)

Query: 316 KCEVCKVAASLKCGGCNQVFYCSKSHQKQHWKEHKPGCAK 355
            C  C   AS  C GCN   YC    Q + W++H   C +
Sbjct: 15  SCWNCGRKASETCSGCNTARYCGSFCQHKDWEKHHHICGQ 54

>2jw6_A Deformed epidermal autoregulatory factor 1 homolo; zinc binding domain, transcription, alternative splicing, DI mutation, DNA-binding; NMR {Homo sapiens} SCOP: g.85.1.1 Length = 52

 Score = 65.6 bits (160), Expect = 7e-14
 Identities = 16/48 (33%), Positives = 26/48 (54%)

Query: 308 VDKKMDSGKCEVCKVAASLKCGGCNQVFYCSKSHQKQHWKEHKPGCAK 355
           +D +     C  C   A  +C GC++V YCS   Q++ WK+H+  C +
Sbjct: 3   MDAERKEQSCVNCGREAMSECTGCHKVNYCSTFCQRKDWKDHQHICGQ 50

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221

 Score = 52.5 bits (125), Expect = 5e-07
 Identities = 94/620 (15%), Positives = 178/620 (28%), Gaps = 165/620 (26%)

Query: 91  DFVKAFVYGFDVDDALALLR-------LDNLFIES---------FEI------KDVKTLK 128
            F  AFV  FD  D   + +       +D++ +           F        + V+   
Sbjct: 24  VFEDAFVDNFDCKDVQDMPKSILSKEEIDHIIMSKDAVSGTLRLFWTLLSKQEEMVQKFV 83

Query: 129 GDHLSRAIGRLA--------GKGGRTKFTIENITKT-RIVIADSKIHV------------ 167
            + L      L              T+  IE   +        +K +V            
Sbjct: 84  EEVLRINYKFLMSPIKTEQRQPSMMTRMYIEQRDRLYNDNQVFAKYNVSRLQPYLKLRQA 143

Query: 168 ---LGSYQNVQV-----------ALKALSNL-ILGSPPNKVYGGILCSRCRHHVISTNPL 212
              L   +NV +           AL    +  +      K++  +    C         L
Sbjct: 144 LLELRPAKNVLIDGVLGSGKTWVALDVCLSYKVQCKMDFKIF-WLNLKNCNSPETVLEML 202

Query: 213 DNL-AKWKCIMCSHTLTAKQIAMGNDSIKSELAGL--DKTEPTGLEMFLD---------K 260
             L  +      S +  +  I +   SI++EL  L   K     L + L           
Sbjct: 203 QKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCL-LVLLNVQNAKAWNA 261

Query: 261 FQAQDSVL---HDQNQHIVQAKLALLQIYETSVEDQKCQLNVDDQKCQL--NVDKKMDSG 315
           F     +L     +    V   L+       S++     L  D+ K  L   +D +    
Sbjct: 262 FNLSCKILLTTRFKQ---VTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQDL 318

Query: 316 KCEVCK--------VAASLKCGGCNQVFYCSKSHQKQHWKEHKPGCAKYKVVRNDILGRH 367
             EV          +A S++                  W         +K V  D L   
Sbjct: 319 PREVLTTNPRRLSIIAESIR-------------DGLATWDN-------WKHVNCDKLTTI 358

Query: 368 MVATKDIREGEIILEE-KPLVVGPKTASVPLCLGCHRTLKP--TSMEENEPL----SFYK 420
           + ++ ++ E     +    L V P +A +P        L      + +++ +      +K
Sbjct: 359 IESSLNVLEPAEYRKMFDRLSVFPPSAHIPT-----ILLSLIWFDVIKSDVMVVVNKLHK 413

Query: 421 CSDC-GWPLCAPRCKSLPSHQKECKLMKDNQY---KSTIQFENETKKESAYCCIAPLRSP 476
            S     P       S+PS   E K+  +N+Y   +S +           Y       + 
Sbjct: 414 YSLVEKQP--KESTISIPSIYLELKVKLENEYALHRSIVD---------HY-------NI 455

Query: 477 LRCLLLERPLLDELLTLDA--------HLNERINTKLYEIYR---VNLVRFIKD-VLHMD 524
            +    +  +      LD         HL    + +   ++R   ++  RF++  + H  
Sbjct: 456 PKTFDSDDLIPPY---LDQYFYSHIGHHLKNIEHPERMTLFRMVFLDF-RFLEQKIRHDS 511

Query: 525 VSEETILRIAGILDTNAFDIRRSVGKI-KIRGIY-MKTAMLSHNCKPNTKHVIVNEDFSL 582
            +         IL+T    ++     I      Y      +        +++I ++   L
Sbjct: 512 TAWNA---SGSILNTLQ-QLKFYKPYICDNDPKYERLVNAILDFLPKIEENLICSKYTDL 567

Query: 583 QLIALVNICKGDIISTTYTQ 602
             IAL+      I    + Q
Sbjct: 568 LRIALMAE-DEAIFEEAHKQ 586

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221

 Score = 49.9 bits (118), Expect = 3e-06
 Identities = 83/559 (14%), Positives = 154/559 (27%), Gaps = 170/559 (30%)

Query: 254 LEMFLDKFQA-------QD---SVLHDQN-QHIVQAKLALLQIYE--TSVEDQK---CQL 297
           L +F D F         QD   S+L  +   HI+ +K A+        ++  ++    Q 
Sbjct: 22  LSVFEDAFVDNFDCKDVQDMPKSILSKEEIDHIIMSKDAVSGTLRLFWTLLSKQEEMVQK 81

Query: 298 NVDDQKCQLNVDKKMDSGKCEVCKVAASLKCGGCNQVFYCSKSHQKQHWKEHK--PGCAK 355
            V++   ++N    M   K E              Q    ++ + +Q  + +      AK
Sbjct: 82  FVEEV-LRINYKFLMSPIKTE------------QRQPSMMTRMYIEQRDRLYNDNQVFAK 128

Query: 356 YKVVRNDILGRHMVATKDIREGEIILEEKPLVV--GPKTASVPLCLGCHRT------LKP 407
           Y V R             +R+  + L     V+  G          G  +T         
Sbjct: 129 YNVSRLQPY-------LKLRQALLELRPAKNVLIDGVL--------GSGKTWVALDVCLS 173

Query: 408 TSMEENEP-----LSFYKCSDCG------WPLCAPRCKSLPSHQKECKLMKDNQYKSTIQ 456
             ++         L+   C+           L          +Q +      + + S I+
Sbjct: 174 YKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLL---------YQIDPNWTSRSDHSSNIK 224

Query: 457 FENETKKESAYCCIAPLRSPLRCLLLERPLLDELLTLDAHLNERINTKLYEIYRVNLVRF 516
               + +             LR LL  +P  + LL L                       
Sbjct: 225 LRIHSIQAE-----------LRRLLKSKPYENCLLVLL---------------------- 251

Query: 517 IKDVLHMDVSEETILRIAGILDTNAFDIR-------RSVGKI-KIRGIYMKTAMLSHNCK 568
                  +V              NAF++        R       +         L H+  
Sbjct: 252 -------NVQNAKAW--------NAFNLSCKILLTTRFKQVTDFLSAATTTHISLDHHSM 296

Query: 569 PNTKHVIVNEDFSLQLIAL-VNICKGDI-ISTTYTQPFWGTM-DRRLHLRMSKWIYMKTA 625
             T       D    L+   ++    D+      T P   ++    +   ++ W   K  
Sbjct: 297 TLT------PDEVKSLLLKYLDCRPQDLPREVLTTNPRRLSIIAESIRDGLATWDNWK-- 348

Query: 626 MLSHNCKPNTKHVI---VN----EDFSLQLIALVNIRKGDIISTTYTQPFWGTMDRR-LH 677
              H        +I   +N     ++      L        I T      W  + +  + 
Sbjct: 349 ---HVNCDKLTTIIESSLNVLEPAEYRKMFDRLSVFPPSAHIPTILLSLIWFDVIKSDVM 405

Query: 678 LRMSKCFDCTCDRC---KDPTELETYLGKSFCLVYCEIRSLASLVSLDNCEEAMRYLAES 734
           + ++K            K P E    +      +Y E++     V L+N     R + + 
Sbjct: 406 VVVNKL----HKYSLVEKQPKESTISIP----SIYLELK-----VKLENEYALHRSIVDH 452

Query: 735 TEIIKTEP--DLSTLLIDK 751
             I KT    DL    +D+
Sbjct: 453 YNIPKTFDSDDLIPPYLDQ 471

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221

 Score = 42.5 bits (99), Expect = 6e-04
 Identities = 42/319 (13%), Positives = 89/319 (27%), Gaps = 82/319 (25%)

Query: 493 LDAHLNERINTKLYEIYRVNLVRFIKDVLHMDVSEETILRIAGILDTNAFDIRRSVGKIK 552
           +D    E    +  +I  V    F+ +    DV +        IL     D         
Sbjct: 7   MDFETGE-HQYQYKDILSVFEDAFVDNFDCKDVQDMP----KSILSKEEIDHIIMSKDAV 61

Query: 553 IRGIYMKTAMLSHNCKPNTKHVIVNE----DFSLQLIALVNICKG-DIISTTYTQ---PF 604
              + +   +LS           V E    ++   +  +    +   +++  Y +     
Sbjct: 62  SGTLRLFWTLLSKQ--EEMVQKFVEEVLRINYKFLMSPIKTEQRQPSMMTRMYIEQRDRL 119

Query: 605 WGTMD--RRLHL-RMSKWIYMKTAMLSHNCKPNT-----------KHVIVNE---DFSLQ 647
           +       + ++ R+  ++ ++ A+L    +P             K  +  +    + +Q
Sbjct: 120 YNDNQVFAKYNVSRLQPYLKLRQALL--ELRPAKNVLIDGVLGSGKTWVALDVCLSYKVQ 177

Query: 648 LIALVNIRKGDIISTTYTQPFWGTMDR------------RLHLRMSKCFDCTCDRCKDPT 695
                 I             FW  +              +L  ++   +    D   +  
Sbjct: 178 CKMDFKI-------------FWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIK 224

Query: 696 ----ELETYLGKSFCL-VYCEIRSLASLVSLDNCEEAMRYLAESTEIIKTEPDLS--TLL 748
                ++  L +      Y     L  LV L N         ++ +      +LS   LL
Sbjct: 225 LRIHSIQAELRRLLKSKPYE--NCL--LV-LLN--------VQNAKAWNAF-NLSCKILL 270

Query: 749 I--DKAESLNLKNEKTTPI 765
               K  +  L    TT I
Sbjct: 271 TTRFKQVTDFLSAATTTHI 289

>1n3j_A A612L, histone H3 lysine methyltransferase; beta barrel, homodimer; NMR {Paramecium bursaria chlorella virus 1} SCOP: b.85.7.2 PDB: 2g46_A* 3kma_A 3kmj_A 3kmt_A* Length = 119

 Score = 42.3 bits (100), Expect = 6e-05
 Identities = 15/104 (14%), Positives = 38/104 (36%), Gaps = 17/104 (16%)

Query: 584 LIALVNICKGDIISTTYTQPFWGTMDRRLHLRMSKWIYMKT------------AMLSHNC 631
           + A  +  KG+++           +        +   Y+ +            A+ +H+ 
Sbjct: 18  VFARKSFEKGELVEE-CL----CIVRHNDDWGTALEDYLFSRKNMSAMALGFGAIFNHSK 72

Query: 632 KPNTKHVIVNEDFSLQLIALVNIRKGDIISTTYTQPFWGTMDRR 675
            PN +H +      +++  +  I  G+ I+ +Y   +W +  R 
Sbjct: 73  DPNARHELTAGLKRMRIFTIKPIAIGEEITISYGDDYWLSRPRL 116

>1n3j_A A612L, histone H3 lysine methyltransferase; beta barrel, homodimer; NMR {Paramecium bursaria chlorella virus 1} SCOP: b.85.7.2 PDB: 2g46_A* 3kma_A 3kmj_A 3kmt_A* Length = 119

 Score = 39.2 bits (92), Expect = 6e-04
 Identities = 10/61 (16%), Positives = 27/61 (44%), Gaps = 1/61 (1%)

Query: 552 KIRGIYMKTAML-SHNCKPNTKHVIVNEDFSLQLIALVNICKGDIISTTYTQPFWGTMDR 610
            +  + +    + +H+  PN +H +      +++  +  I  G+ I+ +Y   +W +  R
Sbjct: 56  NMSAMALGFGAIFNHSKDPNARHELTAGLKRMRIFTIKPIAIGEEITISYGDDYWLSRPR 115

Query: 611 R 611
            
Sbjct: 116 L 116

>3smt_A Histone-lysine N-methyltransferase SETD3; histone methyltransferase, histone modification, LYSI translational modification, structural genomics; HET: SAM; 2.04A {Homo sapiens} Length = 497

 Score = 44.1 bits (103), Expect = 1e-04
 Identities = 43/263 (16%), Positives = 85/263 (32%), Gaps = 42/263 (15%)

Query: 346 W-KEHKPGCAKYKVVRNDILGRHMVATKDIREGEIILE--EKPLVVGPKTASVPLCLGCH 402
           W  E+      +++V     G  + AT+DI+  E+ L    K L++  ++A   +    +
Sbjct: 84  WASENGASVEGFEMVNFKEEGFGLRATRDIKAEELFLWVPRK-LLMTVESAKNSVLGPLY 142

Query: 403 RTLKPTSMEENEPLSFY-----KCSDCGWPLCAPRCKSLPSHQKECKLMKDNQYKSTIQF 457
              +      N  L+F+        +  W    P  ++LPS           +Y + + F
Sbjct: 143 SQDRILQAMGNIALAFHLLCERASPNSFW---QPYIQTLPS-----------EYDTPLYF 188

Query: 458 ENETKKESAYCCIAPLRSPLRCLLLERPLLDELLTLDAHLNERINTKLYEIYRVNLVRFI 517
           E +  +                 L     + ++ +   +   R     Y++ + +     
Sbjct: 189 EEDEVR----------------YLQSTQAIHDVFSQYKNT-ARQYAYFYKVIQTHPHAN- 230

Query: 518 KDVLHMDVSEETILRIAGILDTNAFDIRRSVGKIKIRGIYMKTAMLSHNCKPNTKHVIVN 577
           K  L    + E        + T    I    G      +     M +H     T      
Sbjct: 231 KLPLKDSFTYEDYRWAVSSVMTRQNQIPTEDGSRVTLALIPLWDMCNHTNGLITTGYN-L 289

Query: 578 EDFSLQLIALVNICKGDIISTTY 600
           ED   + +AL +   G+ I   Y
Sbjct: 290 EDDRCECVALQDFRAGEQIYIFY 312

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	766
1tua_A	191	Hypothetical protein APE0754; structural genomics,	100.0
2e3u_A	219	PH-DIM2P, hypothetical protein PH1566; PRE-ribosom	100.0
3n71_A	490	Histone lysine methyltransferase SMYD1; heart deve	100.0
3qww_A	433	SET and MYND domain-containing protein 2; methyltr	100.0
3qwp_A	429	SET and MYND domain-containing protein 3; SMYD3,SE	100.0
2jvz_A	164	KH type-splicing, FAR upstream element-binding pro	99.49
3rq4_A	247	Histone-lysine N-methyltransferase SUV420H2; suppr	99.47
2anr_A	178	Neuro-oncological ventral antigen 1; protein-RNA c	99.42
1j4w_A	174	FUSE binding protein; single-stranded DNA binding	99.41
3krm_A	163	Insulin-like growth factor 2 mRNA-binding protein	99.39
3s8p_A	273	Histone-lysine N-methyltransferase SUV420H1; SET d	99.3
2jzx_A	160	Poly(RC)-binding protein 2; PCBP2, KH domains, RNA	99.28
1n3j_A	119	A612L, histone H3 lysine methyltransferase; beta b	99.26
2w5y_A	192	Histone-lysine N-methyltransferase HRX; transcript	99.11
2qnd_A	144	FMR1 protein; KH domain, eukaryotic KH domains, ta	99.0
3ope_A	222	Probable histone-lysine N-methyltransferase ASH1L;	98.9
3ooi_A	232	Histone-lysine N-methyltransferase, H3 lysine-36 l	98.87
3f9x_A	166	Histone-lysine N-methyltransferase SETD8; methyltr	98.77
3h6l_A	278	Histone-lysine N-methyltransferase SETD2; SET doma	98.76
2f69_A	261	Histone-lysine N-methyltransferase, H3 lysine-4 sp	98.69
3hna_A	287	Histone-lysine N-methyltransferase, H3 lysine-9 sp	98.69
2odd_A	64	Protein CBFA2T1; MYND zinc finger, cross-braced to	98.66
2jw6_A	52	Deformed epidermal autoregulatory factor 1 homolo;	98.66
1n3j_A	119	A612L, histone H3 lysine methyltransferase; beta b	98.64
1mvh_A	299	Cryptic LOCI regulator 4; lysine methyltransferase	98.6
2d8q_A	70	BLU protein, zinc finger MYND domain containing pr	98.57
1ml9_A	302	Histone H3 methyltransferase DIM-5; adoMet-depende	98.57
3rq4_A	247	Histone-lysine N-methyltransferase SUV420H2; suppr	98.57
1h3i_A	293	Histone H3 lysine 4 specific methyltransferase; 2.	98.51
2od1_A	60	Protein CBFA2T1; zinc finger, cross-braced topolog	98.48
1dtj_A	76	RNA-binding neurooncological ventral antigen 2; KH	98.47
2dj8_A	60	Protein CBFA2T1; zinc finger MYND domain, protein	98.46
1ec6_A	87	RNA-binding protein NOVA-2; KH domain, alpha-beta	98.39
2r3a_A	300	Histone-lysine N-methyltransferase SUV39H2; histon	98.39
2p2r_A	76	Poly(RC)-binding protein 2; protein-DNA complex, R	98.38
2opv_A	85	KHSRP protein; KH domain, RNA binding protein, KSR	98.38
1x4n_A	92	FAR upstream element binding protein 1; KH domain,	98.38
3bo5_A	290	Histone-lysine N-methyltransferase setmar; SET dom	98.35
1zzk_A	82	Heterogeneous nuclear ribonucleoprotein K; KH domi	98.34
2hh2_A	107	KH-type splicing regulatory protein; KH-RNA bindin	98.34
3s8p_A	273	Histone-lysine N-methyltransferase SUV420H1; SET d	98.32
2ctm_A	95	Vigilin; K homology type I domain, RNA-binding, ce	98.29
1j5k_A	89	Heterogeneous nuclear ribonucleoprotein K; single-	98.29
1we8_A	104	Tudor and KH domain containing protein; structural	98.29
1x4m_A	94	FAR upstream element binding protein 1; KH domain,	98.27
1wvn_A	82	Poly(RC)-binding protein 1; KH domain, RNA binding	98.27
2ctk_A	104	Vigilin; K homology type I domain, RNA-binding, ce	98.25
3smt_A	497	Histone-lysine N-methyltransferase SETD3; histone	98.24
3qxy_A	449	N-lysine methyltransferase SETD6; epigenetics, pro	98.23
1vig_A	71	Vigilin; RNA-binding protein, ribonucleoprotein; N	98.23
2axy_A	73	Poly(RC)-binding protein 2; protein-DNA complex, D	98.22
2hh3_A	106	KH-type splicing regulatory protein; KH-RNA bindin	98.19
2dgr_A	83	Ring finger and KH domain-containing protein 1; st	98.15
2ctl_A	97	Vigilin; K homology type I domain, RNA-binding, ce	98.1
2qpw_A	149	PR domain zinc finger protein 2; methyltransferase	98.1
3n89_A	376	Defective in GERM LINE development protein 3, ISO;	98.06
2cte_A	94	Vigilin; K homology type I domain, RNA-binding, ce	98.06
2opv_A	85	KHSRP protein; KH domain, RNA binding protein, KSR	98.04
1dtj_A	76	RNA-binding neurooncological ventral antigen 2; KH	98.03
2yqr_A	119	KIAA0907 protein; structure genomics, KH domain, s	97.96
2cte_A	94	Vigilin; K homology type I domain, RNA-binding, ce	97.92
1k1g_A	131	SF1-BO isoform; splicing, branch point sequence, p	97.91
1wvn_A	82	Poly(RC)-binding protein 1; KH domain, RNA binding	97.89
1we8_A	104	Tudor and KH domain containing protein; structural	97.89
2p2r_A	76	Poly(RC)-binding protein 2; protein-DNA complex, R	97.85
3qww_A	433	SET and MYND domain-containing protein 2; methyltr	97.82
1x4n_A	92	FAR upstream element binding protein 1; KH domain,	97.81
2cpq_A	91	FragIle X mental retardation syndrome related prot	97.8
2dgr_A	83	Ring finger and KH domain-containing protein 1; st	97.78
1zzk_A	82	Heterogeneous nuclear ribonucleoprotein K; KH domi	97.77
1ec6_A	87	RNA-binding protein NOVA-2; KH domain, alpha-beta	97.76
2odd_A	64	Protein CBFA2T1; MYND zinc finger, cross-braced to	97.75
3qwp_A	429	SET and MYND domain-containing protein 3; SMYD3,SE	97.73
1x4m_A	94	FAR upstream element binding protein 1; KH domain,	97.73
1j5k_A	89	Heterogeneous nuclear ribonucleoprotein K; single-	97.72
2w5y_A	192	Histone-lysine N-methyltransferase HRX; transcript	97.7
3f9x_A	166	Histone-lysine N-methyltransferase SETD8; methyltr	97.7
2hh2_A	107	KH-type splicing regulatory protein; KH-RNA bindin	97.68
2hh3_A	106	KH-type splicing regulatory protein; KH-RNA bindin	97.67
2h21_A	440	Ribulose-1,5 bisphosphate carboxylase/oxygenase; S	97.67
2bl5_A	140	MGC83862 protein, quaking protein; STAR proteins,	97.65
1vig_A	71	Vigilin; RNA-binding protein, ribonucleoprotein; N	97.64
3n71_A	490	Histone lysine methyltransferase SMYD1; heart deve	97.58
2cpq_A	91	FragIle X mental retardation syndrome related prot	97.58
2ctj_A	95	Vigilin; K homology type I domain, RNA-binding, ce	97.57
2axy_A	73	Poly(RC)-binding protein 2; protein-DNA complex, D	97.56
2ctm_A	95	Vigilin; K homology type I domain, RNA-binding, ce	97.56
3ope_A	222	Probable histone-lysine N-methyltransferase ASH1L;	97.56
2ctk_A	104	Vigilin; K homology type I domain, RNA-binding, ce	97.55
2jvz_A	164	KH type-splicing, FAR upstream element-binding pro	97.52
3ooi_A	232	Histone-lysine N-methyltransferase, H3 lysine-36 l	97.5
2anr_A	178	Neuro-oncological ventral antigen 1; protein-RNA c	97.49
2jzx_A	160	Poly(RC)-binding protein 2; PCBP2, KH domains, RNA	97.48
1j4w_A	174	FUSE binding protein; single-stranded DNA binding	97.45
2ctl_A	97	Vigilin; K homology type I domain, RNA-binding, ce	97.44
3bo5_A	290	Histone-lysine N-methyltransferase setmar; SET dom	97.37
3h6l_A	278	Histone-lysine N-methyltransferase SETD2; SET doma	97.3
3krm_A	163	Insulin-like growth factor 2 mRNA-binding protein	97.27
3qxy_A	449	N-lysine methyltransferase SETD6; epigenetics, pro	97.26
2f69_A	261	Histone-lysine N-methyltransferase, H3 lysine-4 sp	97.24
1ml9_A	302	Histone H3 methyltransferase DIM-5; adoMet-depende	97.17
1h3i_A	293	Histone H3 lysine 4 specific methyltransferase; 2.	97.09
1mvh_A	299	Cryptic LOCI regulator 4; lysine methyltransferase	97.06
3hna_A	287	Histone-lysine N-methyltransferase, H3 lysine-9 sp	97.06
2ctj_A	95	Vigilin; K homology type I domain, RNA-binding, ce	97.01
3u1k_A	630	Polyribonucleotide nucleotidyltransferase 1, MITO;	96.96
2ctf_A	102	Vigilin; K homology type I domain, RNA-binding, ce	96.88
3db5_A	151	PR domain zinc finger protein 4; methyltransferase	96.85
2r3a_A	300	Histone-lysine N-methyltransferase SUV39H2; histon	96.7
2e3u_A	219	PH-DIM2P, hypothetical protein PH1566; PRE-ribosom	96.66
3ep0_A	170	PR domain zinc finger protein 12; PR domain-contai	96.57
1k1g_A	131	SF1-BO isoform; splicing, branch point sequence, p	96.54
2yqr_A	119	KIAA0907 protein; structure genomics, KH domain, s	96.54
2qpw_A	149	PR domain zinc finger protein 2; methyltransferase	96.48
2h21_A	440	Ribulose-1,5 bisphosphate carboxylase/oxygenase; S	96.43
2od1_A	60	Protein CBFA2T1; zinc finger, cross-braced topolog	96.41
2ctf_A	102	Vigilin; K homology type I domain, RNA-binding, ce	96.34
3u1k_A	630	Polyribonucleotide nucleotidyltransferase 1, MITO;	96.23
2dj8_A	60	Protein CBFA2T1; zinc finger MYND domain, protein	96.23
2jw6_A	52	Deformed epidermal autoregulatory factor 1 homolo;	95.98
3dal_A	196	PR domain zinc finger protein 1; methyltransferase	95.88
2d8q_A	70	BLU protein, zinc finger MYND domain containing pr	95.59
3ihx_A	152	PR domain zinc finger protein 10; PRDM10, methyltr	95.38
3n89_A	376	Defective in GERM LINE development protein 3, ISO;	95.36
2qnd_A	144	FMR1 protein; KH domain, eukaryotic KH domains, ta	95.31
3v69_A	140	Protein filia; RNA-binding, embryogenesis, KH doma	95.26
1tua_A	191	Hypothetical protein APE0754; structural genomics,	94.92
3ray_A	237	PR domain-containing protein 11; structural genomi	94.63
4aid_A	726	Polyribonucleotide nucleotidyltransferase; transfe	94.11
4aid_A	726	Polyribonucleotide nucleotidyltransferase; transfe	94.05
2bl5_A	140	MGC83862 protein, quaking protein; STAR proteins,	93.92
3v69_A	140	Protein filia; RNA-binding, embryogenesis, KH doma	93.88
2yqq_A	56	Zinc finger HIT domain-containing protein 3; struc	88.51
3db5_A	151	PR domain zinc finger protein 4; methyltransferase	87.33
2cxc_A	144	NUSA; transcription termination, RNA binding prote	86.64
3ep0_A	170	PR domain zinc finger protein 12; PR domain-contai	84.81

>1tua_A Hypothetical protein APE0754; structural genomics, protein structure initiative, MCSG, four layers alpha-beta sandwich, PSI; 1.50A {Aeropyrum pernix} SCOP: d.51.1.1 d.51.1.1

Probab=100.00  E-value=4.3e-44  Score=353.06  Aligned_cols=168  Identities=27%  Similarity=0.374  Sum_probs=163.0

Q ss_pred             EEEecCCCcchhhhccCcccHHHHHHhcCcEEEEEcccCeEEEEeCCCCCCHHHHHHHHHHHHHHHcCCChhhHHhhccc
Q psy8224          32 RKVPVPNHRYGPLKENWMKIFTPIVEHLKLQVRFNLKSRNVEIRLSPETEDISNLQKAADFVKAFVYGFDVDDALALLRL  111 (766)
Q Consensus        32 ~~i~iP~~r~~~l~~~~~~i~~~i~~~~~~~i~i~~~~~~v~i~~~~~t~d~~~~~ka~~~i~ai~~gf~~~~a~~ll~~  111 (766)
                      .+|+||++|+|+|||+||+++++|++++|++|+||+++|.|+|+|+++|+||++++||+|||+||+|||+|++|++||+ 
T Consensus         6 ~~i~VP~~rvg~liGk~g~~~k~i~e~~g~~i~id~~~~~V~i~t~~~t~dp~~i~KA~dlI~ai~rgf~~e~A~~Ll~-   84 (191)
T 1tua_A            6 IYVKVKPERLGAVIGPRGEVKAEIMRRTGTVITVDTENSMVIVEPEAEGIPPVNLMKAAEVVKAISLGFPPEKAFRLLE-   84 (191)
T ss_dssp             EEEECCGGGHHHHHCGGGHHHHHHHHHHTEEEEEETTTTEEEEEESSTTSCHHHHHHHHHHHHHHHHTCCHHHHGGGGS-
T ss_pred             eEEECCHHHhhHHHhcCHhHHHHHHHHHCcEEEEEcCCCeEEEEeCCCCCCHHHHHHHHHHHHHHHcCCCHHHhhhccc-
Confidence            6899999999999999999999999999999999999999999999999999999999999999999999999999999 


Q ss_pred             ccceeeeeeeccccccccchhhhhhccccCCCCcHHHHHHHhhCceEEEeCceEEEEcchhhHHHHHHHHHHhhcCCCCc
Q psy8224         112 DNLFIESFEIKDVKTLKGDHLSRAIGRLAGKGGRTKFTIENITKTRIVIADSKIHVLGSYQNVQVALKALSNLILGSPPN  191 (766)
Q Consensus       112 d~~~~~~~~i~~~~~~~~~~~~r~~griiG~~G~t~~~ie~~t~~~I~v~~~~v~iiG~~~~l~~ar~~i~~~~~~~~p~  191 (766)
                      ||+++|+|+|.+++.++++|++|++|||||++|+|+++||++|||+|+|+|+||+|+|+|+++++||++|++|+.|++|+
T Consensus        85 Dd~~~e~i~i~~~~~~~~~~~~r~~GrIIGk~G~tik~iE~~Tg~~I~v~~~~v~i~G~~~~i~~Ar~~i~~li~g~~h~  164 (191)
T 1tua_A           85 EDQILVVVDLKQVVGDSQNHLKRIKGRIIGEGGRARRTIEEMTDTYINVGEYEVAIIGDYERAMAAKQAIEMLAEGRMHS  164 (191)
T ss_dssp             TTEEEEEEETHHHHTTCHHHHHHHHHHHHCGGGHHHHHHHHHHTCEEEECSSEEEEEEEHHHHHHHHHHHHHHHTTCCHH
T ss_pred             CcceeEEEEcccccccCchhHHHHhhheeCCCccHHHHHHHHHCceEEEcCCEEEEEeChHHHHHHHHHHHHHHcCCCch
Confidence            88999999999996677899999999999999999999999999999999999999999999999999999999999999


Q ss_pred             ccccceeec
Q psy8224         192 KVYGGILCS  200 (766)
Q Consensus       192 ~~~s~l~c~  200 (766)
                      ++|+.++..
T Consensus       165 ~vy~~~~~~  173 (191)
T 1tua_A          165 TVYRHLERI  173 (191)
T ss_dssp             HHHHHHHHH
T ss_pred             hHHHHHHHH
Confidence            999988764

>2e3u_A PH-DIM2P, hypothetical protein PH1566; PRE-ribosomal RNA processing factor, RNA binding protein; 2.30A {Pyrococcus horikoshii} PDB: 3aev_B

Probab=100.00  E-value=6.9e-39  Score=324.05  Aligned_cols=185  Identities=24%  Similarity=0.330  Sum_probs=160.9

Q ss_pred             CCCCCCcccc-CCCCceEEEecCCCcchhhhccCcccHHHHHHhcCcEEEEEcccCeEEEEeCCCCCCHHHHHHHHHHHH
Q psy8224          16 AKAQEPAVKK-AKHVDMRKVPVPNHRYGPLKENWMKIFTPIVEHLKLQVRFNLKSRNVEIRLSPETEDISNLQKAADFVK   94 (766)
Q Consensus        16 ~~~~~~~~~~-~~~~~~~~i~iP~~r~~~l~~~~~~i~~~i~~~~~~~i~i~~~~~~v~i~~~~~t~d~~~~~ka~~~i~   94 (766)
                      .+|.++.... +..+.+..+.||++|+++|||+||++++.|++++|++|+||+++|.|+|++++.|+||.+++||+++|+
T Consensus        19 ~~~~~pr~e~s~~aP~i~~i~IP~~kig~lIG~gGk~Ik~I~e~tgvkI~I~~~~g~V~I~~~~~t~d~~~i~kA~~~I~   98 (219)
T 2e3u_A           19 GEIVEDEDEWEEFFKQEEYVKIPKDRIAVLIGKKGQTKKEIEKRTKTKITIDSETGEVWITSTKETEDPLAVWKARDIVL   98 (219)
T ss_dssp             --------------CCEEEEECCHHHHHHHHCGGGHHHHHHHHHHTEEEEECTTTCEEEEEECTTCCSHHHHHHHHHHHH
T ss_pred             CCCCCCccccCCCCCEEEEEEeCHHHhhhhhcccHHHHHHHHHHHCcEEEEEcCCCEEEEecCCCCCCHHHHHHHHHHHH
Confidence            4455543322 222478899999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHcCCChhhHHhhcccccceeeeeeeccc-cccccchhhhhhccccCCCCcHHHHHHHhhCceEEEeCceEEEEcchhh
Q psy8224          95 AFVYGFDVDDALALLRLDNLFIESFEIKDV-KTLKGDHLSRAIGRLAGKGGRTKFTIENITKTRIVIADSKIHVLGSYQN  173 (766)
Q Consensus        95 ai~~gf~~~~a~~ll~~d~~~~~~~~i~~~-~~~~~~~~~r~~griiG~~G~t~~~ie~~t~~~I~v~~~~v~iiG~~~~  173 (766)
                      +|++||+||+|..||+ ||+++++|+|.++ +.++++|++|++|||||++|+|+++||++|||+|+|+|++|+|+|++++
T Consensus        99 ~i~rg~~~e~g~~ll~-dd~~~e~i~i~~~~v~~~~~~~~r~~GriIGk~G~tik~ie~~Tg~~I~v~~~~v~i~G~~~~  177 (219)
T 2e3u_A           99 AIGRGFSPERAFRLLN-EGEYLEIINLTDIIIGNEKNALPRVRGRIIGRKGRTRQIIEEMSGASVSVYGKTVAIIGNPIQ  177 (219)
T ss_dssp             HHHTTCCHHHHGGGGS-TTCEEEEEEGGGCC------CHHHHHHHHHCGGGHHHHHHHHHHCCEEEEETTEEEEEECHHH
T ss_pred             HHhccCCccccceecc-CCccceeEEcccccccCCchhhhhhhheeECCCchHHHHHHHHhCceEEECCeEEEEEeCHHH
Confidence            9999999999999997 8899999999998 7888899999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhhcCCCCcccccceeecc
Q psy8224         174 VQVALKALSNLILGSPPNKVYGGILCSR  201 (766)
Q Consensus       174 l~~ar~~i~~~~~~~~p~~~~s~l~c~~  201 (766)
                      ++.||++|+++++|++|++||+.|+...
T Consensus       178 i~~A~~~i~~li~g~~~~~vy~~l~~~~  205 (219)
T 2e3u_A          178 IEIAKTAIEKLARGSPHGSVYRYLERRK  205 (219)
T ss_dssp             HHHHHHHHHHHHTTCCHHHHHHHHHHC-
T ss_pred             HHHHHHHHHHHHcCCCcHHHHHHHHHHH
Confidence            9999999999999999999999998753

>3n71_A Histone lysine methyltransferase SMYD1; heart development, transcription; HET: SFG MES; 2.30A {Mus musculus}

Probab=100.00  E-value=8.3e-39  Score=364.64  Aligned_cols=269  Identities=20%  Similarity=0.396  Sum_probs=203.7

Q ss_pred             cccccccccccccccccccccCCceEeeecccccccC-CCCCCCcccccCCCCCCCcccCCCCCcccCCCCCc-cccCcc
Q psy8224         355 KYKVVRNDILGRHMVATKDIREGEIILEEKPLVVGPK-TASVPLCLGCHRTLKPTSMEENEPLSFYKCSDCGW-PLCAPR  432 (766)
Q Consensus       355 ~l~v~~s~~~GR~lvA~r~~~~ge~Il~e~P~~~~p~-~~~~~~C~~C~~~~~~~~~~~~~~~~~~~C~~C~~-~yCS~~  432 (766)
                      .+++..++.+||+++|+++|++|++|+.+.|+++++. ......|.+|++...          .+.+|++|++ +|||++
T Consensus         8 ~v~v~~~~~~GR~lvAtr~i~~Ge~Il~e~P~~~v~~~~~~~~~C~~C~~~~~----------~~~~C~~C~~~~yCs~~   77 (490)
T 3n71_A            8 NVEVFTSEGKGRGLKATKEFWAADVIFAERAYSAVVFDSLINFVCHTCFKRQE----------KLHRCGQCKFAHYCDRT   77 (490)
T ss_dssp             TEEEEECSSSCEEEEESSCBCTTCEEEEECCSEEEECGGGTTTBCTTTCCBCS----------CCEECTTTSCCEESSHH
T ss_pred             ceEEEecCCCCceEEeccCCCCCCEEEecCCceEEecccccCCcCCCCCCCCC----------CCCCCCCCCCcCcCCHH
Confidence            4667788999999999999999999999999987654 446799999998542          3789999999 799999


Q ss_pred             CC--CCCCcHhhhhhhhhccccccccccccccccccccccccCchhhhhhccCh--------hhHHHHHhhhhhhhcccc
Q psy8224         433 CK--SLPSHQKECKLMKDNQYKSTIQFENETKKESAYCCIAPLRSPLRCLLLER--------PLLDELLTLDAHLNERIN  502 (766)
Q Consensus       433 C~--~~~~H~~EC~~l~~~~~~~~~~~~~~~~~~~~~~~l~~lr~~lR~L~l~~--------~~~~~l~~L~sh~~~~~~  502 (766)
                      |+  +|.+|+.||+++..+...      |.+          .+|+++|+|+...        +.|..+..|++|.+++.+
T Consensus        78 Cq~~~w~~Hk~eC~~~~~~~~~------p~~----------~~rl~lRiL~~~~~~~~~~~~~~~~~~~~L~sh~~~~~~  141 (490)
T 3n71_A           78 CQKDAWLNHKNECAAIKKYGKV------PNE----------NIRLAARIMWRVEREGTGLTEGCLVSVDDLQNHVEHFGE  141 (490)
T ss_dssp             HHHHHHHHHHHHHHHHHHHTSC------CCH----------HHHHHHHHHHHHHHTTSSBCTTCSSBGGGSCCCGGGCCH
T ss_pred             HhhhhhhHHHHHhHHHHhcCcC------CCH----------HHHHHHHHHHHhhccCccCcchhhhHHHHHHhhhhhcCc
Confidence            98  488999999999987521      211          1345578776421        345678899999998876


Q ss_pred             hhhHHHHHHHHHHHHHHHhc--CCCCHHHHHHHHhhhccccccccccC-CceeEEEeecccccccccccCCceeeeecCc
Q psy8224         503 TKLYEIYRVNLVRFIKDVLH--MDVSEETILRIAGILDTNAFDIRRSV-GKIKIRGIYMKTAMLSHNCKPNTKHVIVNED  579 (766)
Q Consensus       503 ~~~~~~~~~~~~~~L~~~~~--l~~s~~~i~~i~~~l~~Naf~i~~~~-~~~~~~gLyp~~SllNHSC~PN~~~~f~~~~  579 (766)
                      +. +..+...+..|+..+..  ..++.+++..+++++.+|+|++.+.. ....|.||||.+|++||||.||+...| +++
T Consensus       142 ~~-~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~N~f~i~~~~g~~~~g~gl~p~~s~~NHSC~PN~~~~~-~~~  219 (490)
T 3n71_A          142 EE-QKELRVDVDTFLQYWPPQSQQFSMQYISHIFGVINCNGFTLSDQRGLQAVGVGIFPNLGLVNHDCWPNCTVIF-NNG  219 (490)
T ss_dssp             HH-HHHHHHHHHHHHHHSCTTSCCCCHHHHHHHHHHHHTTEEEEECTTSCSEEEEEECTTGGGCEECSSCSEEEEE-ECC
T ss_pred             hH-HHHHHHHHHHHHHHccccccCCCHHHHHHHHHHHhccCcccccCCCCccceEEEchhhhhcccCCCCCeeEEe-cCC
Confidence            43 44445556666654221  25788999999999999999997654 245667777777777777777776666 321


Q ss_pred             cchhhhhhhcccCCCeeeecccCCCCCccccccccccchhhhhhhcccCCCCCCCeEEEEEeCCeEEEEEEecccCCCCe
Q psy8224         580 FSLQLIALVNICKGDIISTTYTQPFWGTMDRRLHLRMSKWIYMKTAMLSHNCKPNTKHVIVNEDFSLQLIALVNIRKGDI  659 (766)
Q Consensus       580 ~~l~~~A~r~I~~GeeI~~sY~~~~~~~~~r~~~~~i~~glyp~~s~~NHsC~PN~~~~~~~~g~~l~vra~r~I~~Gee  659 (766)
                      +                                                |+-. +  ..| .....+.|+|+|||++|||
T Consensus       220 ~------------------------------------------------~~~~-~--~~~-~~~~~~~v~A~rdI~~GEE  247 (490)
T 3n71_A          220 N------------------------------------------------HEAV-K--SMF-HTQMRIELRALGKISEGEE  247 (490)
T ss_dssp             C------------------------------------------------CSSS-C--CCG-GGSCEEEEEESSCBCTTCB
T ss_pred             c------------------------------------------------cccc-c--ccc-cccceEEEEECCCCCCCCE
Confidence            0                                                0000 0  000 0124899999999999999


Q ss_pred             EEeecCCCCCCHHHHHHHHhCCCCcEEeccCCCCCCcccccccc
Q psy8224         660 ISTTYTQPFWGTMDRRLHLRMSKCFDCTCDRCKDPTELETYLGK  703 (766)
Q Consensus       660 I~isY~~~~~~~~~Rr~~L~~~y~F~C~C~rC~~~~e~~~~~~~  703 (766)
                      |||||++..+++.+||+.|+++|+|+|.|++|.++++.+.+++.
T Consensus       248 ltisY~~~~~~~~~R~~~L~~~~~F~C~C~~C~~~~~~~~~~~~  291 (490)
T 3n71_A          248 LTVSYIDFLHLSEERRRQLKKQYYFDCSCEHCQKGLKDDLFLAA  291 (490)
T ss_dssp             CEECSSCSCSCHHHHHHHHHHHHSSCCCCHHHHHTTTHHHHTCB
T ss_pred             EEEeecCCCCCHHHHHHHHHCCCCeEeeCCCCCCCCcccchhhc
Confidence            99999999999999999999999999999999999887765554

>3qww_A SET and MYND domain-containing protein 2; methyltransferase, HSP90, transferase-transferase inhibitor; HET: SFG; 1.80A {Mus musculus} PDB: 3qwv_A* 3s7d_A* 3s7b_A* 3s7f_A* 3s7j_A* 3tg4_A* 3tg5_A* 3rib_A*

Probab=100.00  E-value=8e-39  Score=359.38  Aligned_cols=253  Identities=21%  Similarity=0.322  Sum_probs=189.9

Q ss_pred             cccccccccccccccccccccCCceEeeecccccccCC-CCCCCcccccCCCCCCCcccCCCCCcccCCCCCc-cccCcc
Q psy8224         355 KYKVVRNDILGRHMVATKDIREGEIILEEKPLVVGPKT-ASVPLCLGCHRTLKPTSMEENEPLSFYKCSDCGW-PLCAPR  432 (766)
Q Consensus       355 ~l~v~~s~~~GR~lvA~r~~~~ge~Il~e~P~~~~p~~-~~~~~C~~C~~~~~~~~~~~~~~~~~~~C~~C~~-~yCS~~  432 (766)
                      .+++..++.+||+++|+++|++|++|+.+.|++.++.. .....|.+|++...          .+.+|++|++ +|||++
T Consensus         8 ~ve~~~~~~~GRgl~A~r~i~~Ge~Il~e~P~a~~~~~~~~~~~C~~C~~~~~----------~~~~C~~C~~~~yCs~~   77 (433)
T 3qww_A            8 GLERFCSAGKGRGLRALRPFHVGDLLFSCPAYACVLTVGERGHHCECCFARKE----------GLSKCGRCKQAFYCDVE   77 (433)
T ss_dssp             TEEEEECTTSCEEEEESSCBCTTCEEEEEECSEEEECGGGTTTBCTTTCCBCS----------SCEECTTTSCCEESSHH
T ss_pred             cEEEeecCCCcCeEEECCCCCCCCEEEecCCceEEecccccCCcCCcccccCC----------CCCCCCCCcceeecChh
Confidence            45667789999999999999999999999999988854 46799999998643          3789999999 999999


Q ss_pred             CC--CCCCcHhhhhhhhhccccccccccccccccccccccccCchhhhhhccC--------hhhHHHHHhhhhhhhcccc
Q psy8224         433 CK--SLPSHQKECKLMKDNQYKSTIQFENETKKESAYCCIAPLRSPLRCLLLE--------RPLLDELLTLDAHLNERIN  502 (766)
Q Consensus       433 C~--~~~~H~~EC~~l~~~~~~~~~~~~~~~~~~~~~~~l~~lr~~lR~L~l~--------~~~~~~l~~L~sh~~~~~~  502 (766)
                      |+  +|.+|+.||..+..+...    ..|.+          .+|+++|+|+..        .+.+..+..|++|.+++..
T Consensus        78 Cq~~~w~~Hk~eC~~l~~~~~~----~~p~~----------~~rl~~Ril~~~~~~~~~~~~~~~~~~~~L~sh~~~~~~  143 (433)
T 3qww_A           78 CQKEDWPLHKLECSSMVVLGEN----WNPSE----------TVRLTARILAKQKIHPERTPSEKLLAVREFESHLDKLDN  143 (433)
T ss_dssp             HHHHHHHHHTTTHHHHHHSSTT----CCCCH----------HHHHHHHHHHHHHHCCSCCGGGSSCCGGGCCCCGGGCCH
T ss_pred             hhhhhhhHHHHHHHHHHHhCcc----CCCcH----------HHHHHHHHHHHhhhccccCchhhhhhHHHHHhhhhccCh
Confidence            98  489999999999987532    11211          134457776542        1234457789999988765


Q ss_pred             hh--hHHHHHHHHHHHHHHHhcCCCCHHHHHHHHhhhccccccccccCCceeEEEeecccccccccccCCceeeeecCcc
Q psy8224         503 TK--LYEIYRVNLVRFIKDVLHMDVSEETILRIAGILDTNAFDIRRSVGKIKIRGIYMKTAMLSHNCKPNTKHVIVNEDF  580 (766)
Q Consensus       503 ~~--~~~~~~~~~~~~L~~~~~l~~s~~~i~~i~~~l~~Naf~i~~~~~~~~~~gLyp~~SllNHSC~PN~~~~f~~~~~  580 (766)
                      +.  .+......+..|+...+. ..+.+++..+++++++|+|++........                            
T Consensus       144 ~~~~~~~~~~~~l~~~~~~~~~-~~~~~~i~~~~~~~~~N~f~i~~~~~~~~----------------------------  194 (433)
T 3qww_A          144 EKKDLIQSDIAALHQFYSKYLE-FPDHSSLVVLFAQVNCNGFTIEDEELSHL----------------------------  194 (433)
T ss_dssp             HHHHHHHHHHHHHHHHHTTTCC-CCCHHHHHHHHHHHHHHCEEEECTTCCEE----------------------------
T ss_pred             HHHHHHHHHHHHHHHHHhcccC-CCCHHHHHHHHHHHcCCceecccCCccce----------------------------
Confidence            32  122221222222222111 34788999999999999999865433333                            


Q ss_pred             chhhhhhhcccCCCeeeecccCCCCCccccccccccchhhhhhhcccCCCCCCCeEEEEEeCCeEEEEEEecccCCCCeE
Q psy8224         581 SLQLIALVNICKGDIISTTYTQPFWGTMDRRLHLRMSKWIYMKTAMLSHNCKPNTKHVIVNEDFSLQLIALVNIRKGDII  660 (766)
Q Consensus       581 ~l~~~A~r~I~~GeeI~~sY~~~~~~~~~r~~~~~i~~glyp~~s~~NHsC~PN~~~~~~~~g~~l~vra~r~I~~GeeI  660 (766)
                                                          |.|+||.+|+|||||+||+.+.|  +|..+.++|+|||++||||
T Consensus       195 ------------------------------------g~gl~p~~s~~NHsC~PN~~~~~--~~~~~~~~a~r~I~~Geel  236 (433)
T 3qww_A          195 ------------------------------------GSAIFPDVALMNHSCCPNVIVTY--KGTLAEVRAVQEIHPGDEV  236 (433)
T ss_dssp             ------------------------------------EEEECTTGGGSEECSSCSEEEEE--ETTEEEEEESSCBCTTCEE
T ss_pred             ------------------------------------eEEecccccccCCCCCCCceEEE--cCCEEEEEeccCcCCCCEE
Confidence                                                45555555566666666666555  3678999999999999999


Q ss_pred             EeecCCCCCCHHHHHHHHhCCCCcEEeccCCCCCCccc
Q psy8224         661 STTYTQPFWGTMDRRLHLRMSKCFDCTCDRCKDPTELE  698 (766)
Q Consensus       661 ~isY~~~~~~~~~Rr~~L~~~y~F~C~C~rC~~~~e~~  698 (766)
                      ||||++..+++.+||+.|+++|+|+|.|++|.++++..
T Consensus       237 ~i~Y~~~~~~~~~R~~~L~~~~~F~C~C~~C~~~~~d~  274 (433)
T 3qww_A          237 FTSYIDLLYPTEDRNDRLRDSYFFTCECRECTTKDKDK  274 (433)
T ss_dssp             EECCSCTTSCHHHHHHHHHHHHSCCCCSHHHHHCTTHH
T ss_pred             EEeecCCcCCHHHHHHHHhCcCCEEeECCCCCCCCcch
Confidence            99999999999999999999999999999999998755

>3qwp_A SET and MYND domain-containing protein 3; SMYD3,SET and MYND domain, zinc finger MYND domain-containin 1, structural genomics; HET: SAM; 1.53A {Homo sapiens} PDB: 3mek_A* 3oxg_A* 3oxf_A* 3pdn_A* 3oxl_A* 3ru0_A*

Probab=100.00  E-value=4.4e-38  Score=353.68  Aligned_cols=257  Identities=21%  Similarity=0.400  Sum_probs=191.2

Q ss_pred             ccccccccccccccccccccCCceEeeecccccccCC-CCCCCcccccCCCCCCCcccCCCCCcccCCCCCc-cccCccC
Q psy8224         356 YKVVRNDILGRHMVATKDIREGEIILEEKPLVVGPKT-ASVPLCLGCHRTLKPTSMEENEPLSFYKCSDCGW-PLCAPRC  433 (766)
Q Consensus       356 l~v~~s~~~GR~lvA~r~~~~ge~Il~e~P~~~~p~~-~~~~~C~~C~~~~~~~~~~~~~~~~~~~C~~C~~-~yCS~~C  433 (766)
                      ++...++.+||+++|+++|++|++|+.+.|++.++.. .....|.+|++...          .+.+|++|++ +|||++|
T Consensus         7 i~~~~~~~~GR~l~Atr~i~~Ge~Il~e~P~~~~~~~~~~~~~C~~C~~~~~----------~~~~C~~C~~~~yCs~~C   76 (429)
T 3qwp_A            7 VEKFATANRGNGLRAVTPLRPGELLFRSDPLAYTVCKGSRGVVCDRCLLGKE----------KLMRCSQCRVAKYCSAKC   76 (429)
T ss_dssp             EEEEECSSSSEEEEESSCBCTTCEEEEECCSEEEECGGGBTTBCTTTCCBCS----------SCEECTTTSCCEESSHHH
T ss_pred             eeecccCCCCCeEEeCCCCCCCCEEEecCCceeeeccccCCCcCcCCCCcCC----------CCCcCCCCCCcccCChhh
Confidence            3444578999999999999999999999999999875 46799999998643          2789999999 9999999


Q ss_pred             C--CCCCcHhhhhhhhhccccccccccccccccccccccccCchhhhhhcc----C---hhhHHHHHhhhhhhhcccchh
Q psy8224         434 K--SLPSHQKECKLMKDNQYKSTIQFENETKKESAYCCIAPLRSPLRCLLL----E---RPLLDELLTLDAHLNERINTK  504 (766)
Q Consensus       434 ~--~~~~H~~EC~~l~~~~~~~~~~~~~~~~~~~~~~~l~~lr~~lR~L~l----~---~~~~~~l~~L~sh~~~~~~~~  504 (766)
                      +  +|.+|+.||+.+..+...    . |.+.          +|+++|+++.    .   .+.|..+.+|++|.+++....
T Consensus        77 q~~~w~~Hk~eC~~~~~~~~~----~-~~~~----------~rl~~rill~~~~~~~~~~~~~~~~~~L~sh~~~~~~~~  141 (429)
T 3qwp_A           77 QKKAWPDHKRECKCLKSCKPR----Y-PPDS----------VRLLGRVVFKLMDGAPSESEKLYSFYDLESNINKLTEDR  141 (429)
T ss_dssp             HHHTHHHHHHHHHHHHHTTTC----C-CCHH----------HHHHHHHHHHHHHSCCCGGGSSSCGGGCCCCGGGCCHHH
T ss_pred             hhhhhhhhHHhhhhHHhcCcc----C-CChH----------HHHHHHHHHHHhcCCCCchhhhhhHHHHhhChhhcChhH
Confidence            8  588999999999988642    1 2111          2333454442    1   145667889999998875432


Q ss_pred             --hHHHHHHHHHHHHHHHhc---CCCCHHHHHHHHhhhccccccccccCCceeEEEeecccccccccccCCceeeeecCc
Q psy8224         505 --LYEIYRVNLVRFIKDVLH---MDVSEETILRIAGILDTNAFDIRRSVGKIKIRGIYMKTAMLSHNCKPNTKHVIVNED  579 (766)
Q Consensus       505 --~~~~~~~~~~~~L~~~~~---l~~s~~~i~~i~~~l~~Naf~i~~~~~~~~~~gLyp~~SllNHSC~PN~~~~f~~~~  579 (766)
                        .|......+..|+...+.   ...+.+++.++++++.+|+|++........                           
T Consensus       142 ~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~N~f~i~~~~~~~~---------------------------  194 (429)
T 3qwp_A          142 KEGLRQLVMTFQHFMREEIQDASQLPPAFDLFEAFAKVICNSFTICNAEMQEV---------------------------  194 (429)
T ss_dssp             HHHHHHHHHHHHHHTTTTCCSGGGSCTTCCHHHHHHHHHHHCEEEECTTSCEE---------------------------
T ss_pred             HHHHHHHHHHHHHHHhhhcCccccCCCHHHHHHHHHHHHhcCccccccccccc---------------------------
Confidence              233333333444432211   023456789999999999998865433333                           


Q ss_pred             cchhhhhhhcccCCCeeeecccCCCCCccccccccccchhhhhhhcccCCCCCCCeEEEEEeCCeEEEEEEecccCCCCe
Q psy8224         580 FSLQLIALVNICKGDIISTTYTQPFWGTMDRRLHLRMSKWIYMKTAMLSHNCKPNTKHVIVNEDFSLQLIALVNIRKGDI  659 (766)
Q Consensus       580 ~~l~~~A~r~I~~GeeI~~sY~~~~~~~~~r~~~~~i~~glyp~~s~~NHsC~PN~~~~~~~~g~~l~vra~r~I~~Gee  659 (766)
                                                           |.|+||.+|+|||||.||+.+.|  +|..++++|+|||++|||
T Consensus       195 -------------------------------------g~~l~~~~s~~NHsC~PN~~~~~--~~~~~~~~a~r~I~~GeE  235 (429)
T 3qwp_A          195 -------------------------------------GVGLYPSISLLNHSCDPNCSIVF--NGPHLLLRAVRDIEVGEE  235 (429)
T ss_dssp             -------------------------------------EEEECTTGGGCEECSSCSEEEEE--ETTEEEEEECSCBCTTCE
T ss_pred             -------------------------------------eEEEchhhHhhCcCCCCCeEEEE--eCCEEEEEEeeeECCCCE
Confidence                                                 45555556666666666666665  367899999999999999


Q ss_pred             EEeecCCCCCCHHHHHHHHhCCCCcEEeccCCCCCCcccccccc
Q psy8224         660 ISTTYTQPFWGTMDRRLHLRMSKCFDCTCDRCKDPTELETYLGK  703 (766)
Q Consensus       660 I~isY~~~~~~~~~Rr~~L~~~y~F~C~C~rC~~~~e~~~~~~~  703 (766)
                      |||||++..+++.+||+.|+++|+|+|.|++|.++++.+.++++
T Consensus       236 l~isY~~~~~~~~~R~~~L~~~~~F~C~C~~C~~~~~~~~~~~~  279 (429)
T 3qwp_A          236 LTICYLDMLMTSEERRKQLRDQYCFECDCFRCQTQDKDADMLTG  279 (429)
T ss_dssp             EEECCSCSSCCHHHHHHHHHHHHCCCCCSHHHHHTTTHHHHTCS
T ss_pred             EEEEecCCCCCHHHHHHHHhccCCeEeeCCCCCCCccccccccc
Confidence            99999999999999999999999999999999999876655543

>2jvz_A KH type-splicing, FAR upstream element-binding protein 2; RNA binding protein, KH domain, KSRP, posttranscriptional regulation, mRNA decay; NMR {Homo sapiens}

Probab=99.49  E-value=1.1e-13  Score=134.39  Aligned_cols=140  Identities=17%  Similarity=0.243  Sum_probs=110.6

Q ss_pred             ceEEEecCCCcchhhhccCcccHHHHHHhcCcEEEEEcc-------cCeEEEEeCCCCCCHHHHHHHHHHHHHHHc----
Q psy8224          30 DMRKVPVPNHRYGPLKENWMKIFTPIVEHLKLQVRFNLK-------SRNVEIRLSPETEDISNLQKAADFVKAFVY----   98 (766)
Q Consensus        30 ~~~~i~iP~~r~~~l~~~~~~i~~~i~~~~~~~i~i~~~-------~~~v~i~~~~~t~d~~~~~ka~~~i~ai~~----   98 (766)
                      .+.++.||++.++.|||+.|++++.|++.+|++|.++..       ++.|.|.+     ++..+.+|+++|..+..    
T Consensus         2 ~~~~~~Vp~~~~g~iIGk~G~~Ik~i~~~tg~~I~i~~~~~~~~~~~r~v~I~G-----~~~~v~~A~~~I~~ii~e~~~   76 (164)
T 2jvz_A            2 TVQEIMIPAGKAGLVIGKGGETIKQLQERAGVKMILIQDGSQNTNVDKPLRIIG-----DPYKVQQACEMVMDILRERDQ   76 (164)
T ss_dssp             EEEEEEECTTCHHHHTCTTTHHHHHHHHTSCSEEEECCCTTSSSSSCEEEEEEE-----CHHHHHHHHHHHHHHTTCSSS
T ss_pred             eEEEEEechhheeEEECCChHHHHHHHHHhCCeEEEecCCCCCCCCceEEEEEc-----CHHHHHHHHHHHHHHHHhccC
Confidence            367899999999999999999999999999999999643       34788876     78999999999999977    


Q ss_pred             -CCChhhHHhhcccccceeeeeeeccccccccchhhhhhccccCCCCcHHHHHHHhhCceEEEeC-------ceEEEEcc
Q psy8224          99 -GFDVDDALALLRLDNLFIESFEIKDVKTLKGDHLSRAIGRLAGKGGRTKFTIENITKTRIVIAD-------SKIHVLGS  170 (766)
Q Consensus        99 -gf~~~~a~~ll~~d~~~~~~~~i~~~~~~~~~~~~r~~griiG~~G~t~~~ie~~t~~~I~v~~-------~~v~iiG~  170 (766)
                       ||++.+.... + .... .     .+     ......+|+|||++|++++.|+..|||+|.|.+       ++|.|.|+
T Consensus        77 ~~~~~~~~~~~-~-~~~~-~-----~i-----~vp~~~~g~iIGk~G~~I~~i~~~tg~~I~i~~~~~~~~~~~v~I~G~  143 (164)
T 2jvz_A           77 GGFGDRNEYGS-R-IGGG-I-----DV-----PVPRHSVGVVIGRSGEMIKKIQNDAGVRIQFKQDDGTGPEKIAHIMGP  143 (164)
T ss_dssp             CCCSSCSSCTT-S-CSSS-B-----CC-----EEETTTHHHHHCSSSHHHHHHHHHTCCEEEECCCCTTSSEEEEEEESC
T ss_pred             CCCCCccccCC-C-CCce-E-----EE-----EEChhhccccCCCCcHhHHHHHHHHCCeEEEeCCCCCCCcEEEEEEcC
Confidence             3433211100 0 0000 0     01     011256999999999999999999999999984       68999999


Q ss_pred             hhhHHHHHHHHHHhhcC
Q psy8224         171 YQNVQVALKALSNLILG  187 (766)
Q Consensus       171 ~~~l~~ar~~i~~~~~~  187 (766)
                      .++++.|+..|..+++.
T Consensus       144 ~~~v~~A~~~I~~~i~~  160 (164)
T 2jvz_A          144 PDRCEHAARIINDLLQS  160 (164)
T ss_dssp             HHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHhh
Confidence            99999999999998854

>3rq4_A Histone-lysine N-methyltransferase SUV420H2; suppressor, variegation 4-20 homolog 2, structural genomics, structural genomics consortium, SGC; HET: SAM; 1.80A {Homo sapiens}

Probab=99.47  E-value=5.5e-15  Score=151.69  Aligned_cols=104  Identities=21%  Similarity=0.351  Sum_probs=75.1

Q ss_pred             hhhhhcccCCCeeeecccCCC-CCc-cc------------cccccccchhhhhh-hcccCCCCCCCeEEEEEeCCeEEEE
Q psy8224         584 LIALVNICKGDIISTTYTQPF-WGT-MD------------RRLHLRMSKWIYMK-TAMLSHNCKPNTKHVIVNEDFSLQL  648 (766)
Q Consensus       584 ~~A~r~I~~GeeI~~sY~~~~-~~~-~~------------r~~~~~i~~glyp~-~s~~NHsC~PN~~~~~~~~g~~l~v  648 (766)
                      |+|.++|++||.|..--|... .+. .+            .........++|+. ++++||||+||+...+. .+.++.+
T Consensus       122 v~A~~~I~kGE~I~ey~Geli~~t~~e~~~~~~~~n~f~i~~~~~~~~~~l~~~~ar~iNHSC~PN~~~~~~-~~~~i~v  200 (247)
T 3rq4_A          122 IVSTRAWKKNEKLELLVGCIAELREADEGLLRAGENDFSIMYSTRKRSAQLWLGPAAFINHDCKPNCKFVPA-DGNAACV  200 (247)
T ss_dssp             EEESSCBCTTCEEEEEEEEEEECCGGGGGGCCTTTSCTTEEEETTTTEEEEEESGGGGCEECSSCSEEEEEE-TTTEEEE
T ss_pred             EEeCCccCCCCEEEEEEeEEEeCcHHHHHhhhccCCcEEEEecCCcccceeecchhhhcCCCCCCCEEEEEe-CCCEEEE
Confidence            567788889988855222111 000 00            00112245677776 88999999999977764 4679999


Q ss_pred             EEecccCCCCeEEeecCCCCCCHHHHHHHHhCCCCcEEeccCCCCCCccc
Q psy8224         649 IALVNIRKGDIISTTYTQPFWGTMDRRLHLRMSKCFDCTCDRCKDPTELE  698 (766)
Q Consensus       649 ra~r~I~~GeeI~isY~~~~~~~~~Rr~~L~~~y~F~C~C~rC~~~~e~~  698 (766)
                      +|+|||++|||||++|++.+|+          .+.|.|.|.+|..+.+.+
T Consensus       201 ~A~rdI~~GEElt~~Y~~~~~~----------~~~f~C~C~~C~~~~~g~  240 (247)
T 3rq4_A          201 KVLRDIEPGDEVTCFYGEGFFG----------EKNEHCECHTCERKGEGA  240 (247)
T ss_dssp             EESSCBCTTCBCEECCCTTSSS----------GGGTTCCCHHHHHHTCGG
T ss_pred             EECCcCCCCCEEEEecCchhcC----------CCCCEEECCCCCCCCCCc
Confidence            9999999999999999999774          368999999998876543

>2anr_A Neuro-oncological ventral antigen 1; protein-RNA complex, KH domain, hairpin, RNA-binding protein complex; HET: 5BU; 1.94A {Homo sapiens} PDB: 2ann_A*

Probab=99.42  E-value=6.5e-13  Score=130.96  Aligned_cols=146  Identities=16%  Similarity=0.200  Sum_probs=113.7

Q ss_pred             ceEEEecCCCcchhhhccCcccHHHHHHhcCcEEEEEcc--------cCeEEEEeCCCCCCHHHHHHHHHHHHHHHcCCC
Q psy8224          30 DMRKVPVPNHRYGPLKENWMKIFTPIVEHLKLQVRFNLK--------SRNVEIRLSPETEDISNLQKAADFVKAFVYGFD  101 (766)
Q Consensus        30 ~~~~i~iP~~r~~~l~~~~~~i~~~i~~~~~~~i~i~~~--------~~~v~i~~~~~t~d~~~~~ka~~~i~ai~~gf~  101 (766)
                      .+..+.||.+.+|.|||+.|++++.|++.+|++|+|+..        ++.|+|.+     ++..+.+|+++|..+.+.++
T Consensus         6 ~~~~i~vp~~~ig~iIGkgG~~Ik~i~~~tg~~I~i~~~~~~~~~~~er~v~I~G-----~~~~v~~A~~~I~~~~~~~~   80 (178)
T 2anr_A            6 YFLKVLIPSYAAGSIIGKGGQTIVQLQKETGATIKLSKSKDFYPGTTERVCLIQG-----TIEALNAVHGFIAEKIREMP   80 (178)
T ss_dssp             EEEEEEEEHHHHHHHHCGGGHHHHHHHHHHCCEEEECCTTCBCTTSSEEEEEEEE-----CHHHHHHHHHHHHHHHTCCC
T ss_pred             EEEEEEEChhHeeeeECCCcHHHHHHHHHhCCeEEEecCCCCCCCCCCceEEEEe-----CHHHHHHHHHHHHHHHhccC
Confidence            578999999999999999999999999999999999743        34678887     57899999999999988775


Q ss_pred             hhhHH----hhcc------cccceeeeeeeccccccccchhhhhhccccCCCCcHHHHHHHhhCceEEEeCc--------
Q psy8224         102 VDDAL----ALLR------LDNLFIESFEIKDVKTLKGDHLSRAIGRLAGKGGRTKFTIENITKTRIVIADS--------  163 (766)
Q Consensus       102 ~~~a~----~ll~------~d~~~~~~~~i~~~~~~~~~~~~r~~griiG~~G~t~~~ie~~t~~~I~v~~~--------  163 (766)
                      ...+.    .++.      .+......+.|          -...+|+|||++|++++.|++.||++|.|.+.        
T Consensus        81 ~~~~~~~~~~~~~~~~~~~~~~~~~~~i~V----------p~~~vg~iIGkgG~~Ik~i~~~tga~I~i~~~~~~~~~~~  150 (178)
T 2anr_A           81 QNVAKTEPVSILQPQTTVNPDRANQVKIIV----------PNSTAGLIIGKGGATVKAIMEQSGAWVQLSQKPDGINLQN  150 (178)
T ss_dssp             CC-----------------CGGGGEEEEEE----------EHHHHHHHHCGGGHHHHHHHHHSSCEEEECCCC----CCE
T ss_pred             CccccCCcccccCCccCCCCCCceEEEEEE----------chhheeeeECCCcHHHHHHHHHHCCEEEEeCCCCCCCCCc
Confidence            43221    0110      00001111111          12458999999999999999999999999754        


Q ss_pred             -eEEEEcchhhHHHHHHHHHHhhcCCCC
Q psy8224         164 -KIHVLGSYQNVQVALKALSNLILGSPP  190 (766)
Q Consensus       164 -~v~iiG~~~~l~~ar~~i~~~~~~~~p  190 (766)
                       +|.|.|+.++++.|+..|..+++..+|
T Consensus       151 ~~v~I~G~~~~v~~A~~~I~~~i~e~p~  178 (178)
T 2anr_A          151 RVVTVSGEPEQNRKAVELIIQKIQEDPQ  178 (178)
T ss_dssp             EEEEEESSHHHHHHHHHHHHHHHHSCCC
T ss_pred             eEEEEEcCHHHHHHHHHHHHHHHHhCCC
Confidence             799999999999999999999876554

>1j4w_A FUSE binding protein; single-stranded DNA binding protein; HET: DNA; NMR {Homo sapiens} SCOP: d.51.1.1 d.51.1.1

Probab=99.41  E-value=7.4e-13  Score=130.06  Aligned_cols=140  Identities=19%  Similarity=0.266  Sum_probs=107.9

Q ss_pred             ceEEEecCCCcchhhhccCcccHHHHHHhcCcEEEEEccc-----CeEEEEeCCCCCCHHHHHHHHHHHHHHHcCCChhh
Q psy8224          30 DMRKVPVPNHRYGPLKENWMKIFTPIVEHLKLQVRFNLKS-----RNVEIRLSPETEDISNLQKAADFVKAFVYGFDVDD  104 (766)
Q Consensus        30 ~~~~i~iP~~r~~~l~~~~~~i~~~i~~~~~~~i~i~~~~-----~~v~i~~~~~t~d~~~~~ka~~~i~ai~~gf~~~~  104 (766)
                      .+..+.||++.++.|||+.|++++.|++.++++|+|+...     +.|.|.+     ++..+.+|+++|..+.+.+....
T Consensus         3 ~~~~~~vp~~~vg~iIGkgG~~Ik~i~~~tg~~I~i~~~~~~~~~r~v~I~G-----~~~~v~~A~~~I~~~~~~~~~~~   77 (174)
T 1j4w_A            3 HMIDVPIPRFAVGIVIGRNGEMIKKIQNDAGVRIQFKPDDGTTPERIAQITG-----PPDRAQHAAEIITDLLRSVQAGN   77 (174)
T ss_dssp             EEEEEEEEHHHHHHHHCGGGHHHHHHHHHHCCEEEEECCTTSCSEEEEEEEE-----CHHHHHHHHHHHHHHHHHHC---
T ss_pred             eEEEEEEChhheeeeecCCchHHHHHHHHhCCEEEEecCCCCCCccEEEEEe-----CHHHHHHHHHHHHHHHHhcccCC
Confidence            5788999999999999999999999999999999998543     5788877     68999999999998876542110


Q ss_pred             ---------HHhhcccccc--------eeeeeeeccccccccchhhhhhccccCCCCcHHHHHHHhhCceEEEeC-----
Q psy8224         105 ---------ALALLRLDNL--------FIESFEIKDVKTLKGDHLSRAIGRLAGKGGRTKFTIENITKTRIVIAD-----  162 (766)
Q Consensus       105 ---------a~~ll~~d~~--------~~~~~~i~~~~~~~~~~~~r~~griiG~~G~t~~~ie~~t~~~I~v~~-----  162 (766)
                               +...+. +++        ....|.|     .     ...+|+|||++|++++.|++.||++|.|.+     
T Consensus        78 ~~~~~p~~~~~~~~~-~~~~~~~~~~~~~~~i~v-----p-----~~~~g~iIGkgG~~Ik~I~~~tga~I~i~~~~~~~  146 (174)
T 1j4w_A           78 PGGPGPGGRGRGRGQ-GNWNMGPPGGLQEFNFIV-----P-----TGKTGLIIGKGGETIKSISQQSGARIELQRNPPPN  146 (174)
T ss_dssp             ---------------------------CEEEEEE-----E-----TTTHHHHHCGGGHHHHHHHHHHCCEEEEECCCTTT
T ss_pred             CCCCCCCCCCCCCCC-CccccCCCCCcEEEEEEE-----C-----hHHcCeeECCCchHHHHHHHHHCCEEEECCCCCCC
Confidence                     011111 110        0111111     1     255999999999999999999999999986     


Q ss_pred             -----ceEEEEcchhhHHHHHHHHHHhh
Q psy8224         163 -----SKIHVLGSYQNVQVALKALSNLI  185 (766)
Q Consensus       163 -----~~v~iiG~~~~l~~ar~~i~~~~  185 (766)
                           ++|.|.|+.++++.|+..|..++
T Consensus       147 ~~~~~~~v~I~G~~~~v~~A~~~I~~~i  174 (174)
T 1j4w_A          147 ADPNMKLFTIRGTPQQIDYARQLIEEKI  174 (174)
T ss_dssp             SCTTEEEEEEECCHHHHHHHHHHHHHHC
T ss_pred             CCCCceEEEEECCHHHHHHHHHHHHHhC
Confidence                 56999999999999999998764

>3krm_A Insulin-like growth factor 2 mRNA-binding protein 1; KH domain, cell projection, cytoplasm, nucleus, phosphoprotein, translation regulation; 2.75A {Homo sapiens}

Probab=99.39  E-value=1.4e-12  Score=126.60  Aligned_cols=136  Identities=18%  Similarity=0.290  Sum_probs=109.5

Q ss_pred             ceEEEecCCCcchhhhccCcccHHHHHHhcCcEEEEEcc------cCeEEEEeCCCCCCHHHHHHHHHHHHHHHcC---C
Q psy8224          30 DMRKVPVPNHRYGPLKENWMKIFTPIVEHLKLQVRFNLK------SRNVEIRLSPETEDISNLQKAADFVKAFVYG---F  100 (766)
Q Consensus        30 ~~~~i~iP~~r~~~l~~~~~~i~~~i~~~~~~~i~i~~~------~~~v~i~~~~~t~d~~~~~ka~~~i~ai~~g---f  100 (766)
                      ++..+.||.+.+|.|||+.|++++.|.+.+|++|.|+..      ++.|.|.+     ++..+.+|+..|..+...   +
T Consensus         3 ~~~~~~ip~~~~g~iIGk~G~~Ik~i~~~tg~~I~i~~~~~~~~~~r~v~I~G-----~~e~v~~A~~~I~~~~~e~~~~   77 (163)
T 3krm_A            3 EMVQVFIPAQAVGAIIGKKGQHIKQLSRFASASIKIAPPETPDSKVRMVIITG-----PPEAQFKAQGRIYGKLKEENFF   77 (163)
T ss_dssp             EEEEEEEEGGGHHHHHCGGGHHHHHHHHHHTCEEEECCCSSTTCSEEEEEEEE-----CHHHHHHHHHHHHHHHHHTTSS
T ss_pred             eEEEEEechhhcceeECCCcHHHHHHHHHHCCeEEEcCCCCCCCCceEEEEEc-----CHHHHHHHHHHHHHHHhccccc
Confidence            578999999999999999999999999999999999753      34688887     789999999999877542   1


Q ss_pred             ChhhHHhhcccccceeeeeeeccccccccchhhhhhccccCCCCcHHHHHHHhhCceEEEeCc---------eEEEEcch
Q psy8224         101 DVDDALALLRLDNLFIESFEIKDVKTLKGDHLSRAIGRLAGKGGRTKFTIENITKTRIVIADS---------KIHVLGSY  171 (766)
Q Consensus       101 ~~~~a~~ll~~d~~~~~~~~i~~~~~~~~~~~~r~~griiG~~G~t~~~ie~~t~~~I~v~~~---------~v~iiG~~  171 (766)
                      ++..       +..+...|.|.          ...+|+|||++|++++.|++.|||+|.|.+.         .|.|.|+.
T Consensus        78 ~~~~-------~~~~~~~i~vp----------~~~~g~iIGkgG~~I~~i~~~tga~I~i~~~~~~~~~~~~~v~I~G~~  140 (163)
T 3krm_A           78 GPKE-------EVKLETHIRVP----------ASAAGRVIGKGGKTVNELQNLTAAEVVVPRDQTPDENDQVIVKIIGHF  140 (163)
T ss_dssp             CSSC-------CCCEEEEEEEE----------TTTHHHHHCGGGHHHHHHHHHHCCEEECCTTCCCCTTSEEEEEEEECH
T ss_pred             cccc-------CCceEEEEEcC----------hhheeeEEcCCChHHHHHHHHhCCeEEECCCCCCCCCCceEEEEEeCH
Confidence            2210       11111112221          2569999999999999999999999999865         79999999


Q ss_pred             hhHHHHHHHHHHhhcC
Q psy8224         172 QNVQVALKALSNLILG  187 (766)
Q Consensus       172 ~~l~~ar~~i~~~~~~  187 (766)
                      ++++.|+..|..+++.
T Consensus       141 ~~v~~A~~~I~~~i~~  156 (163)
T 3krm_A          141 YASQMAQRKIRDILAQ  156 (163)
T ss_dssp             HHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHH
Confidence            9999999999998853

>3s8p_A Histone-lysine N-methyltransferase SUV420H1; SET domain, histone methyltransferase, transcription regulat histone lysine, SAM, methylation, nucleus; HET: MSE SAM; 1.85A {Homo sapiens}

Probab=99.30  E-value=3.4e-13  Score=139.78  Aligned_cols=63  Identities=30%  Similarity=0.537  Sum_probs=53.3

Q ss_pred             hhhhcccCCCCCCCeEEEEEeCCeEEEEEEecccCCCCeEEeecCCCCCCHHHHHHHHhCCCCcEEeccCCCCC
Q psy8224         621 YMKTAMLSHNCKPNTKHVIVNEDFSLQLIALVNIRKGDIISTTYTQPFWGTMDRRLHLRMSKCFDCTCDRCKDP  694 (766)
Q Consensus       621 yp~~s~~NHsC~PN~~~~~~~~g~~l~vra~r~I~~GeeI~isY~~~~~~~~~Rr~~L~~~y~F~C~C~rC~~~  694 (766)
                      ...++++||||+||+..++.+ +.++.++|+|||++|||||++|++.+|+.          +.|.|.|.+|.-.
T Consensus       203 g~~arfiNHSC~PN~~~~~~~-~~~i~i~A~RdI~~GEELt~~Y~~~~~~~----------~~f~C~C~~c~cr  265 (273)
T 3s8p_A          203 LGPAAFINHDCRPNCKFVSTG-RDTACVKALRDIEPGEEISCYYGDGFFGE----------NNEFCECYTCERR  265 (273)
T ss_dssp             ESGGGGCEECSSCSEEEEEEE-TTEEEEEESSCBCTTCBCEECCCTTTTSG----------GGTTCCCHHHHHH
T ss_pred             cchHHhhCCCCCCCeEEEEcC-CCEEEEEECceeCCCCEEEEecCchhcCC----------CCeEEECCCCcCC
Confidence            345689999999999887743 45899999999999999999999987763          5799999999643

>2jzx_A Poly(RC)-binding protein 2; PCBP2, KH domains, RNA binding, DNA-binding, nucleus, phosph ribonucleoprotein, RNA-binding, RNA binding protein; NMR {Homo sapiens}

Probab=99.28  E-value=9.2e-12  Score=120.44  Aligned_cols=137  Identities=14%  Similarity=0.141  Sum_probs=105.8

Q ss_pred             ceEEEecCCCcchhhhccCcccHHHHHHhcCcEEEEEcc---cCeEEEEeCCCCCCHHHHHHHHHHHHHHHcCCChhhHH
Q psy8224          30 DMRKVPVPNHRYGPLKENWMKIFTPIVEHLKLQVRFNLK---SRNVEIRLSPETEDISNLQKAADFVKAFVYGFDVDDAL  106 (766)
Q Consensus        30 ~~~~i~iP~~r~~~l~~~~~~i~~~i~~~~~~~i~i~~~---~~~v~i~~~~~t~d~~~~~ka~~~i~ai~~gf~~~~a~  106 (766)
                      -+..+.||++.+|.|||+.|++++.|++.+|++|+++..   ++.|.|.+     ++..+.+|+.+|..+...    +..
T Consensus         5 ~~~~~~vp~~~~g~iIGkgG~~Ik~i~~~tg~~I~i~~~~~~~r~v~I~G-----~~~~v~~A~~~I~~~i~e----~~~   75 (160)
T 2jzx_A            5 LTIRLLMHGKEVGSIIGKKGESVKKMREESGARINISEGNCPERIITLAG-----PTNAIFKAFAMIIDKLEE----DIS   75 (160)
T ss_dssp             EEEEEEEEHHHHHHHHCGGGHHHHHHHHHHCSEEEEECCTTTEEEEEEEE-----EHHHHHHHHHHHHHHHHH----HHT
T ss_pred             EEEEEEEchhheeeeECCCcHHHHHHHHHHCCEEEEcCCCCCceEEEEEe-----CHHHHHHHHHHHHHHHHh----hcc
Confidence            567899999999999999999999999999999999865   24788887     578999999988755321    000


Q ss_pred             hhcc-----cccceeeeeeeccccccccchhhhhhccccCCCCcHHHHHHHhhCceEEEeC--------ceEEEEcchhh
Q psy8224         107 ALLR-----LDNLFIESFEIKDVKTLKGDHLSRAIGRLAGKGGRTKFTIENITKTRIVIAD--------SKIHVLGSYQN  173 (766)
Q Consensus       107 ~ll~-----~d~~~~~~~~i~~~~~~~~~~~~r~~griiG~~G~t~~~ie~~t~~~I~v~~--------~~v~iiG~~~~  173 (766)
                      .-..     ...-....+.|.          ...+|+|||++|++++.|++.|||+|.|.+        ++|.|.|+.++
T Consensus        76 ~~~~~~~~~~~~~~~~~i~vp----------~~~~g~iIGkgG~~Ik~i~~~tga~I~i~~~~~~~~~~~~v~I~G~~~~  145 (160)
T 2jzx_A           76 SSMTNSTAASRPPVTLRLVVP----------ASQCGSLIGKGGCKIKEIRESTGAQVQVAGDMLPNSTERAITIAGIPQS  145 (160)
T ss_dssp             SCCCSSSCCCCCSEEEEEEEE----------HHHHHHHHCGGGHHHHHHHHHHSSEECCCCCCSTTCCEEEEEEEECHHH
T ss_pred             ccCCCCccCCCCCEEEEEEEC----------hhheeeEECCCCHHHHHHHHHhCCeEEECCCCCCCCCceEEEEEcCHHH
Confidence            0000     000011111111          256999999999999999999999999974        67999999999


Q ss_pred             HHHHHHHHHHhh
Q psy8224         174 VQVALKALSNLI  185 (766)
Q Consensus       174 l~~ar~~i~~~~  185 (766)
                      ++.|+..|..++
T Consensus       146 v~~A~~~I~~~i  157 (160)
T 2jzx_A          146 IIECVKQICVVM  157 (160)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHH
Confidence            999999998776

>1n3j_A A612L, histone H3 lysine methyltransferase; beta barrel, homodimer; NMR {Paramecium bursaria chlorella virus 1} SCOP: b.85.7.2 PDB: 2g46_A* 3kma_A 3kmj_A 3kmt_A*

Probab=99.26  E-value=8.4e-13  Score=121.37  Aligned_cols=87  Identities=18%  Similarity=0.284  Sum_probs=64.0

Q ss_pred             hhhhhcccCCCeeeecccCCCCCccccc--------cccccchhhhhhhcccCCCCCCCeEEEEEeCCeEEEEEEecccC
Q psy8224         584 LIALVNICKGDIISTTYTQPFWGTMDRR--------LHLRMSKWIYMKTAMLSHNCKPNTKHVIVNEDFSLQLIALVNIR  655 (766)
Q Consensus       584 ~~A~r~I~~GeeI~~sY~~~~~~~~~r~--------~~~~i~~glyp~~s~~NHsC~PN~~~~~~~~g~~l~vra~r~I~  655 (766)
                      |+|.++|++|+.|.. |.-......+..        .....+..++|.++++||||+||+...+...+.++.++|+|||+
T Consensus        18 vfA~~~I~~G~~I~e-y~g~vi~~~e~~~~~~~y~f~~~~d~~~~~~~~~~~NHsc~pN~~~~~~~~~~~~~~~A~rdI~   96 (119)
T 1n3j_A           18 VFARKSFEKGELVEE-CLCIVRHNDDWGTALEDYLFSRKNMSAMALGFGAIFNHSKDPNARHELTAGLKRMRIFTIKPIA   96 (119)
T ss_dssp             EEECCCBCSCEEECC-CCCEEECSHHHHHHSCSEEEEETTEEEEESSSHHHHHSCSSCCCEEEECSSSSCEEEEECSCBC
T ss_pred             EEECCcCCCCCEEEE-eeEEEECHHHHhhccCCeEEEeCCccccccCceeeeccCCCCCeeEEEECCCeEEEEEEccccC
Confidence            556778888888863 432211111100        00114567789999999999999999985445789999999999


Q ss_pred             CCCeEEeecCCCCCCH
Q psy8224         656 KGDIISTTYTQPFWGT  671 (766)
Q Consensus       656 ~GeeI~isY~~~~~~~  671 (766)
                      +|||||++|++.+|..
T Consensus        97 ~GeElt~~Y~~~~~~~  112 (119)
T 1n3j_A           97 IGEEITISYGDDYWLS  112 (119)
T ss_dssp             SSEEECCCCCCCCCCC
T ss_pred             CCCEEEEecCchhhcC
Confidence            9999999999999876

>2w5y_A Histone-lysine N-methyltransferase HRX; transcription regulation, chromosomal rearrangement, protein lysine methyltransferase, proto-oncogene; HET: SAH; 2.00A {Homo sapiens} PDB: 2w5z_A*

Probab=99.11  E-value=4e-11  Score=119.10  Aligned_cols=61  Identities=23%  Similarity=0.635  Sum_probs=45.3

Q ss_pred             hhcccCCCCCCCeEEEEEe-CC-eEEEEEEecccCCCCeEEeecCCCCCCHHHHHHHHhCCCCcEEec--cCCC
Q psy8224         623 KTAMLSHNCKPNTKHVIVN-ED-FSLQLIALVNIRKGDIISTTYTQPFWGTMDRRLHLRMSKCFDCTC--DRCK  692 (766)
Q Consensus       623 ~~s~~NHsC~PN~~~~~~~-~g-~~l~vra~r~I~~GeeI~isY~~~~~~~~~Rr~~L~~~y~F~C~C--~rC~  692 (766)
                      .+.++||||+||+...+.. +| .++.++|+|+|++|||||++|+...|..         .+.|.|.|  +.|.
T Consensus       124 ~arfiNHSC~PN~~~~~~~~~g~~~i~i~A~rdI~~GEELt~dY~~~~~~~---------~~~~~C~Cgs~~Cr  188 (192)
T 2w5y_A          124 AARFINHSCEPNCYSRVINIDGQKHIVIFAMRKIYRGEELTYDYKFPIEDA---------SNKLPCNCGAKKCR  188 (192)
T ss_dssp             GGGGCEECSSCSEEEEEEEETTEEEEEEEESSCBCTTCEEEECCCC----------------CCBCCCCCTTCC
T ss_pred             hhHhhccCCCCCEEEEEEEECCcEEEEEEECcccCCCCEEEEEcCCchhcC---------CCCceeECCCCCCc
Confidence            4678999999999876421 23 5899999999999999999999987753         36899999  4564

>2qnd_A FMR1 protein; KH domain, eukaryotic KH domains, tandem KH domains, type I domains, fragIle X mental retardation protein, RNA BI protein; 1.90A {Homo sapiens} PDB: 2fmr_A

Probab=99.00  E-value=1.5e-09  Score=102.85  Aligned_cols=125  Identities=14%  Similarity=0.104  Sum_probs=94.5

Q ss_pred             ceEEEecCCCcchhhhccCcccHHHHHHhcCcEEEEEc-ccCeEEEEeCCCCCCHHHHHHHHHHHHHHHcCCChhhHHhh
Q psy8224          30 DMRKVPVPNHRYGPLKENWMKIFTPIVEHLKLQVRFNL-KSRNVEIRLSPETEDISNLQKAADFVKAFVYGFDVDDALAL  108 (766)
Q Consensus        30 ~~~~i~iP~~r~~~l~~~~~~i~~~i~~~~~~~i~i~~-~~~~v~i~~~~~t~d~~~~~ka~~~i~ai~~gf~~~~a~~l  108 (766)
                      .+.++.||++.+|.+||+.|..++.|++.+|+.+...+ ....+.+.+    .+|..+.+|+.++.             +
T Consensus         4 ~~~~~~Vp~~~vG~~IG~~G~~I~~i~~e~gI~ii~~~~~~~~~i~~~----~~p~~v~~~~~~l~-------------~   66 (144)
T 2qnd_A            4 FHEQFIVREDLMGLAIGTHGANIQQARKVPGVTAIDLDEDTCTFHIYG----EDQDAVKKARSFLE-------------F   66 (144)
T ss_dssp             CEEEEECCGGGHHHHHCGGGHHHHHHHTSTTEEEEEEETTTTEEEEEE----SSHHHHHHHHHHHC-------------E
T ss_pred             eEEEEEECCcceeeEECCChhHHHHHHHHHCCeEeccCCCchheeecc----CCHHHHHHHHHhhh-------------c
Confidence            45689999999999999999999999999996543333 333444443    57888888876432             1


Q ss_pred             cccccceeeeeeeccccccccchhhhhhccccCCCCcHHHHHHHhhCc-eEEEeCc------------eEEEEcchhhHH
Q psy8224         109 LRLDNLFIESFEIKDVKTLKGDHLSRAIGRLAGKGGRTKFTIENITKT-RIVIADS------------KIHVLGSYQNVQ  175 (766)
Q Consensus       109 l~~d~~~~~~~~i~~~~~~~~~~~~r~~griiG~~G~t~~~ie~~t~~-~I~v~~~------------~v~iiG~~~~l~  175 (766)
                         ++..   +.+     .     ...+|++|||+|++++.|.++||+ +|.|.+.            +|.|+|+.++++
T Consensus        67 ---~e~~---v~V-----p-----~~~~g~~IGK~G~nIr~i~~~tG~~~I~i~~~~~~~~~~~~~~~~vtI~G~~~~v~  130 (144)
T 2qnd_A           67 ---AEDV---IQV-----P-----RNLVGKVIGKNGKLIQEIVDKSGVVRVRIEAENEKNVPQEEGMVPFVFVGTKDSIA  130 (144)
T ss_dssp             ---EEEE---EEE-----E-----GGGHHHHHCGGGHHHHHHHHHHTCSEEEEEEECTTCCCCCTTEEEEEEEEEHHHHH
T ss_pred             ---ceEE---EEE-----C-----HHHcCeeECCCCHHHHHHHHHHCCEEEEEcCCCCCCccccCCeeEEEEEeCHHHHH
Confidence               1110   111     1     155999999999999999999996 9999631            388999999999


Q ss_pred             HHHHHHHHhhcC
Q psy8224         176 VALKALSNLILG  187 (766)
Q Consensus       176 ~ar~~i~~~~~~  187 (766)
                      .|+..|+..+..
T Consensus       131 ~Ak~li~~~l~~  142 (144)
T 2qnd_A          131 NATVLLDYHLNY  142 (144)
T ss_dssp             HHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHh
Confidence            999999988753

>3ope_A Probable histone-lysine N-methyltransferase ASH1L; SET, nucleus; HET: SAM; 2.90A {Homo sapiens}

Probab=98.90  E-value=8.1e-10  Score=112.51  Aligned_cols=59  Identities=22%  Similarity=0.423  Sum_probs=47.4

Q ss_pred             hhcccCCCCCCCeEEEEE--eCCeEEEEEEecccCCCCeEEeecCCCCCCHHHHHHHHhCCCCcEEeccC
Q psy8224         623 KTAMLSHNCKPNTKHVIV--NEDFSLQLIALVNIRKGDIISTTYTQPFWGTMDRRLHLRMSKCFDCTCDR  690 (766)
Q Consensus       623 ~~s~~NHsC~PN~~~~~~--~~g~~l~vra~r~I~~GeeI~isY~~~~~~~~~Rr~~L~~~y~F~C~C~r  690 (766)
                      .+.++||||+||+.....  +...++.++|+|||++|||||++|....|..         ...|.|.|-.
T Consensus       146 ~aRfiNHSC~PN~~~~~~~~~~~~~i~~~A~RdI~~GEELT~dY~~~~~~~---------~~~~~C~CGs  206 (222)
T 3ope_A          146 EARFINHSCDPNCEMQKWSVNGVYRIGLYALKDMPAGTELTYDYNFHSFNV---------EKQQLCKCGF  206 (222)
T ss_dssp             GGGGCEECSSCSEEEEEEEETTEEEEEEEESSCBCTTCBCEECTTSSBCCC---------SCCCBCCCCC
T ss_pred             cceeeccCCCCCeEeEEEEECCeEEEEEEECCccCCCCEEEEECCCcccCC---------cCCCEeeCCC
Confidence            345789999999977652  3346899999999999999999999987753         2468888863

>3ooi_A Histone-lysine N-methyltransferase, H3 lysine-36 lysine-20 specific; SET domain, S-adenosyl-L methionine; HET: SAM; 1.75A {Homo sapiens}

Probab=98.87  E-value=1.3e-09  Score=111.56  Aligned_cols=57  Identities=28%  Similarity=0.526  Sum_probs=46.7

Q ss_pred             hhcccCCCCCCCeEEEE--EeCCeEEEEEEecccCCCCeEEeecCCCCCCHHHHHHHHhCCCCcEEecc
Q psy8224         623 KTAMLSHNCKPNTKHVI--VNEDFSLQLIALVNIRKGDIISTTYTQPFWGTMDRRLHLRMSKCFDCTCD  689 (766)
Q Consensus       623 ~~s~~NHsC~PN~~~~~--~~~g~~l~vra~r~I~~GeeI~isY~~~~~~~~~Rr~~L~~~y~F~C~C~  689 (766)
                      .+.++||||+||+....  .+...++.++|+|||++|||||++|....++          ...|.|.|-
T Consensus       165 ~aRfiNHSC~PN~~~~~~~~~~~~~i~~~A~RdI~~GEELT~dY~~~~~~----------~~~~~C~CG  223 (232)
T 3ooi_A          165 YARFMNHCCQPNCETQKWSVNGDTRVGLFALSDIKAGTELTFNYNLECLG----------NGKTVCKCG  223 (232)
T ss_dssp             GGGGCEECSSCSEEEEEEEETTEEEEEEEESSCBCTTCBCEECCTTCSTT----------CTTCBCCCC
T ss_pred             ccccccccCCCCeEEEEEEECCceEEEEEECCccCCCCEEEEECCCCcCC----------CCCcEeECC
Confidence            35688999999997754  3344789999999999999999999987754          346999994

>3f9x_A Histone-lysine N-methyltransferase SETD8; methyltransferase, SET, lysine, alternative splicing, cell cycle, cell division, chromatin regulator, chromosomal protein, coiled coil; HET: MLY SAH; 1.25A {Homo sapiens} PDB: 3f9w_A* 3f9y_A* 3f9z_A* 1zkk_A* 4ij8_A* 2bqz_A*

Probab=98.77  E-value=2.4e-09  Score=104.08  Aligned_cols=56  Identities=18%  Similarity=0.226  Sum_probs=46.1

Q ss_pred             hcccCCCCCCCeEEEE--EeCCeEEEEEEecccCCCCeEEeecCCCCCCHHHHHHHHh
Q psy8224         624 TAMLSHNCKPNTKHVI--VNEDFSLQLIALVNIRKGDIISTTYTQPFWGTMDRRLHLR  679 (766)
Q Consensus       624 ~s~~NHsC~PN~~~~~--~~~g~~l~vra~r~I~~GeeI~isY~~~~~~~~~Rr~~L~  679 (766)
                      +.++||||+||+....  .+...++.++|+|||++|||||++|++.......|+..|+
T Consensus       108 aRfiNHSC~PN~~~~~~~~~~~~~i~~~A~rdI~~GEELt~dY~~~~~~~~~~~~~L~  165 (166)
T 3f9x_A          108 GRLINHSKCGNCQTKLHDIDGVPHLILIASRDIAAGEELLFDYGDRSKASIEAHPWLK  165 (166)
T ss_dssp             GGGCEECTTCSEEEEEEEETTEEEEEEEESSCBCTTCBCEECCCCCCHHHHHHCGGGG
T ss_pred             hheeecCCCCCeeEEEEEECCeeEEEEEECCcCCCCCEEEEEcCCChhhHhhhCchhc
Confidence            4678999999986654  2333689999999999999999999999887777776665

>2f69_A Histone-lysine N-methyltransferase, H3 lysine-4 specific SET7; SET domain, protein lysine methyltransferase, enzyme- peptide-adohcy complex; HET: MLZ SAH; 1.30A {Homo sapiens} SCOP: b.76.2.1 b.85.7.1 PDB: 3m53_A* 3m55_A* 3m54_A* 3m56_A* 3m58_A* 3m57_A* 3m59_A* 3m5a_A* 1xqh_A* 4e47_A* 1n6a_A* 1o9s_A* 3cbp_A* 3cbm_A* 3cbo_A* 3os5_A*

Probab=98.69  E-value=6.3e-09  Score=108.18  Aligned_cols=47  Identities=11%  Similarity=0.067  Sum_probs=38.6

Q ss_pred             hhcccCCCCCCCeEEEEE-eC--CeEEEEEEecccCCCCeEEeecCCCCC
Q psy8224         623 KTAMLSHNCKPNTKHVIV-NE--DFSLQLIALVNIRKGDIISTTYTQPFW  669 (766)
Q Consensus       623 ~~s~~NHsC~PN~~~~~~-~~--g~~l~vra~r~I~~GeeI~isY~~~~~  669 (766)
                      .+.++||||+||+...+. +.  +..+.++|+|||++|||||++|.....
T Consensus       186 ~aRfiNHSC~PN~~~~~~~~~~~~~~i~i~A~RdI~~GEELt~dYg~~~~  235 (261)
T 2f69_A          186 LGHKANHSFTPNCIYDMFVHPRFGPIKCIRTLRAVEADEELTVAYGYDHS  235 (261)
T ss_dssp             CGGGCEECSSCSEEEEEEEETTTEEEEEEEESSCBCTTCEEEECCCCCSC
T ss_pred             ceeeEeeCCCCCeEEEEEEcCCCCcEEEEEECcccCCCCEEEEEcCCccc
Confidence            356889999999988763 22  344599999999999999999997765

>3hna_A Histone-lysine N-methyltransferase, H3 lysine-9 specific 5; EHMT1, structural genomics, SGC, structural genomics consortium, alternative splicing, ANK repeat; HET: MLZ SAH; 1.50A {Homo sapiens} PDB: 2rfi_A* 2igq_A* 3mo0_A* 3mo2_A* 3mo5_A* 3sw9_A* 3swc_A* 4h4h_A* 4i51_A* 3fpd_A* 3k5k_A* 3nni_A* 3rjw_A* 2o8j_A*

Probab=98.69  E-value=2.2e-09  Score=113.28  Aligned_cols=57  Identities=25%  Similarity=0.603  Sum_probs=43.8

Q ss_pred             hcccCCCCCCCeEEE--EEeC----CeEEEEEEecccCCCCeEEeecCCCCCCHHHHHHHHhCCCCcEEec
Q psy8224         624 TAMLSHNCKPNTKHV--IVNE----DFSLQLIALVNIRKGDIISTTYTQPFWGTMDRRLHLRMSKCFDCTC  688 (766)
Q Consensus       624 ~s~~NHsC~PN~~~~--~~~~----g~~l~vra~r~I~~GeeI~isY~~~~~~~~~Rr~~L~~~y~F~C~C  688 (766)
                      +.++||||+||+...  |...    ..++.++|+|+|++|||||++|++.+|..        ....|.|.|
T Consensus       217 aRFiNHSC~PN~~~~~v~~~~~d~~~~~i~~~A~RdI~~GEELT~dYg~~~~~~--------~~~~~~C~C  279 (287)
T 3hna_A          217 SRFINHHCEPNLVPVRVFMAHQDLRFPRIAFFSTRLIEAGEQLGFDYGERFWDI--------KGKLFSCRC  279 (287)
T ss_dssp             GGGCEECSSCSEEEEEEESSCCCTTCCEEEEEESSCBCTTCBCEECCCHHHHHH--------HTTTCCCCC
T ss_pred             hheeeecCCCCceeEEEEEecCCCCceeEEEEEcceeCCCCeEEEeCCCccccc--------CCCcCEeeC
Confidence            457799999999753  3221    14999999999999999999999654432        134799999

>2odd_A Protein CBFA2T1; MYND zinc finger, cross-braced topology, poly-proline, proline-tryptophan interaction, metal binding protein; NMR {Homo sapiens}

Probab=98.66  E-value=3.4e-09  Score=85.99  Aligned_cols=44  Identities=34%  Similarity=0.721  Sum_probs=40.7

Q ss_pred             CCcccccCCcccCCCCCCCCcccCCchhhccccccccCCCcccc
Q psy8224         314 SGKCEVCKVAASLKCGGCNQVFYCSKSHQKQHWKEHKPGCAKYK  357 (766)
Q Consensus       314 ~~~C~~C~~~~~~~C~~C~~v~YCs~~cq~~~w~~Hk~~C~~l~  357 (766)
                      .+.|..|+..+..+|++|+.++|||++||..||+.|+.+|..+.
T Consensus        17 ~~~C~~C~~~~~~~Cs~C~~~~YCs~~CQ~~~W~~Hk~~C~~~~   60 (64)
T 2odd_A           17 SESCWNCGRKASETCSGCNTARYCGSFCQHKDWEKHHHICGQTL   60 (64)
T ss_dssp             SSSCTTTSSCCCEEETTTSCCEESSHHHHHHHHHHHTTTTTSSC
T ss_pred             CCcCccccCCCcccCCCCCChhhCCHHHHHHHHHHHhHHHhccc
Confidence            46899999999999999999999999999999999999998653

>2jw6_A Deformed epidermal autoregulatory factor 1 homolo; zinc binding domain, transcription, alternative splicing, DI mutation, DNA-binding; NMR {Homo sapiens} SCOP: g.85.1.1

Probab=98.66  E-value=4.9e-09  Score=81.35  Aligned_cols=49  Identities=33%  Similarity=0.766  Sum_probs=38.3

Q ss_pred             cccccCCCCcccccCCcccCCCCCCCCcccCCchhhccccccccCCCcc
Q psy8224         307 NVDKKMDSGKCEVCKVAASLKCGGCNQVFYCSKSHQKQHWKEHKPGCAK  355 (766)
Q Consensus       307 ~~~~~~~~~~C~~C~~~~~~~C~~C~~v~YCs~~cq~~~w~~Hk~~C~~  355 (766)
                      ++|+....+.|..|+.++..+|++|+.++|||++||..||+.|+.+|..
T Consensus         2 ~~~~~~~~~~C~~C~~~~~~~C~~C~~~~YCs~~CQ~~~W~~Hk~~C~~   50 (52)
T 2jw6_A            2 AMDAERKEQSCVNCGREAMSECTGCHKVNYCSTFCQRKDWKDHQHICGQ   50 (52)
T ss_dssp             ---------CCSSSSSSCSEECTTTCSSEESSHHHHHHHTTTGGGTTTC
T ss_pred             CcCccccCCcCCCCCCCCcCcCCCCCCEeecCHHHHHHHHHHHCHHHcc
Confidence            3556667789999999999999999999999999999999999999974

>1n3j_A A612L, histone H3 lysine methyltransferase; beta barrel, homodimer; NMR {Paramecium bursaria chlorella virus 1} SCOP: b.85.7.2 PDB: 2g46_A* 3kma_A 3kmj_A 3kmt_A*

Probab=98.64  E-value=8.3e-09  Score=94.55  Aligned_cols=57  Identities=18%  Similarity=0.329  Sum_probs=48.8

Q ss_pred             EEEeecccccccccccCCceeeeecCccchhhhhhhcccCCCeeeecccCCCCCccc
Q psy8224         553 IRGIYMKTAMLSHNCKPNTKHVIVNEDFSLQLIALVNICKGDIISTTYTQPFWGTMD  609 (766)
Q Consensus       553 ~~gLyp~~SllNHSC~PN~~~~f~~~~~~l~~~A~r~I~~GeeI~~sY~~~~~~~~~  609 (766)
                      +..+++.++++||||.||+...+......+.++|+|+|++||||+++|++.||....
T Consensus        58 ~~~~~~~~~~~NHsc~pN~~~~~~~~~~~~~~~A~rdI~~GeElt~~Y~~~~~~~r~  114 (119)
T 1n3j_A           58 SAMALGFGAIFNHSKDPNARHELTAGLKRMRIFTIKPIAIGEEITISYGDDYWLSRP  114 (119)
T ss_dssp             EEEESSSHHHHHSCSSCCCEEEECSSSSCEEEEECSCBCSSEEECCCCCCCCCCCCC
T ss_pred             cccccCceeeeccCCCCCeeEEEECCCeEEEEEEccccCCCCEEEEecCchhhcCcc
Confidence            456788999999999999998872234478899999999999999999999998843

>1mvh_A Cryptic LOCI regulator 4; lysine methyltransferase, CLR4, SET-domain; 2.30A {Schizosaccharomyces pombe} SCOP: b.85.7.1 PDB: 1mvx_A

Probab=98.60  E-value=2.7e-08  Score=105.58  Aligned_cols=47  Identities=19%  Similarity=0.361  Sum_probs=39.1

Q ss_pred             hhcccCCCCCCCeEEE--EEeC----CeEEEEEEecccCCCCeEEeecCCCCC
Q psy8224         623 KTAMLSHNCKPNTKHV--IVNE----DFSLQLIALVNIRKGDIISTTYTQPFW  669 (766)
Q Consensus       623 ~~s~~NHsC~PN~~~~--~~~~----g~~l~vra~r~I~~GeeI~isY~~~~~  669 (766)
                      .+.++||||+||+...  +.+.    ..++.++|+|+|++|||||++|.+..+
T Consensus       213 ~aRfiNHSC~PN~~~~~v~~~~~~~~~~~i~~~A~rdI~~GEELt~dY~~~~~  265 (299)
T 1mvh_A          213 VSRFFNHSCSPNIAIYSAVRNHGFRTIYDLAFFAIKDIQPLEELTFDYAGAKD  265 (299)
T ss_dssp             GGGGCEECSSCSEEEEEEESCTTCTTSCEEEEEESSCBCTTCBCEECCCTTSS
T ss_pred             hhheEeecCCCCeEEEEEEeecCCCCceEEEEEEccCcCCCCEEEEEcCCccc
Confidence            4568999999999764  3221    258999999999999999999999887

>2d8q_A BLU protein, zinc finger MYND domain containing protein 10; zmynd10, ZF-MYND, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: g.85.1.1 PDB: 2dan_A

Probab=98.57  E-value=1.2e-08  Score=84.04  Aligned_cols=45  Identities=29%  Similarity=0.803  Sum_probs=41.7

Q ss_pred             CCcccccCCcccCCCCCCCCcccCCchhhccccccccCCCccccc
Q psy8224         314 SGKCEVCKVAASLKCGGCNQVFYCSKSHQKQHWKEHKPGCAKYKV  358 (766)
Q Consensus       314 ~~~C~~C~~~~~~~C~~C~~v~YCs~~cq~~~w~~Hk~~C~~l~v  358 (766)
                      .+.|..|+.++.++|++|+.++|||++||..||+.|+.+|..+..
T Consensus        15 ~~~C~~C~~~~~~~Cs~Ck~v~YCs~eCQ~~~W~~HK~~C~~~~~   59 (70)
T 2d8q_A           15 RPRCAYCSAEASKRCSRCQNEWYCCRECQVKHWEKHGKTCVLAAQ   59 (70)
T ss_dssp             CCBCSSSCCBCCCBCTTTSCCBCSCHHHHHHTHHHHHHHCCCCCC
T ss_pred             CCcCCCCCCcccccCCCCCCEeeCCHHHhHHHHHHHHHHHHHHHH
Confidence            578999999999999999999999999999999999999987653

>1ml9_A Histone H3 methyltransferase DIM-5; adoMet-dependent methyltransferase histone H3 lysine- 9 methylation; 1.98A {Neurospora crassa} SCOP: b.85.7.1 PDB: 1peg_A*

Probab=98.57  E-value=3.7e-08  Score=104.86  Aligned_cols=66  Identities=26%  Similarity=0.453  Sum_probs=36.7

Q ss_pred             hhcccCCCCCCCeEEEEEeCC------eEEEEEEecccCCCCeEEeecCCCCCCHHH-HHHHHhCCCCcEEec
Q psy8224         623 KTAMLSHNCKPNTKHVIVNED------FSLQLIALVNIRKGDIISTTYTQPFWGTMD-RRLHLRMSKCFDCTC  688 (766)
Q Consensus       623 ~~s~~NHsC~PN~~~~~~~~g------~~l~vra~r~I~~GeeI~isY~~~~~~~~~-Rr~~L~~~y~F~C~C  688 (766)
                      .+.++||||+||+.......+      .++.++|+|+|++|||||++|.+.+|.... .....+....|.|.|
T Consensus       220 ~arfiNHSC~PN~~~~~~~~~~~~~~~~~i~~~A~rdI~~GeELt~dY~~~~~~~~~~~~~~~k~~~~~~C~C  292 (302)
T 1ml9_A          220 PTRFINHSCDPNMAIFARVGDHADKHIHDLALFAIKDIPKGTELTFDYVNGLTGLESDAHDPSKISEMTKCLC  292 (302)
T ss_dssp             GGGGCEECSSCSEEEEEEESSGGGGGGCEEEEEESSCBCTTCEEEECTTC-----------------------
T ss_pred             HHHhcccCCCCCeeEEEEEeccCCCCceEEEEEECCCcCCCCEEEEEECCCccccccccccccccCCCcEeeC
Confidence            356899999999987543111      489999999999999999999998875422 222222335689998

>3rq4_A Histone-lysine N-methyltransferase SUV420H2; suppressor, variegation 4-20 homolog 2, structural genomics, structural genomics consortium, SGC; HET: SAM; 1.80A {Homo sapiens}

Probab=98.57  E-value=2.2e-08  Score=102.63  Aligned_cols=67  Identities=28%  Similarity=0.517  Sum_probs=54.2

Q ss_pred             cccccccccCCceeEEEeecc-cccccccccCCceeeeecCccchhhhhhhcccCCCeeeecccCCCCCc
Q psy8224         539 TNAFDIRRSVGKIKIRGIYMK-TAMLSHNCKPNTKHVIVNEDFSLQLIALVNICKGDIISTTYTQPFWGT  607 (766)
Q Consensus       539 ~Naf~i~~~~~~~~~~gLyp~-~SllNHSC~PN~~~~f~~~~~~l~~~A~r~I~~GeeI~~sY~~~~~~~  607 (766)
                      .|.|.+..+. .....++|+. ++++||||.||+...+ ..+..+.++|+++|++||||+++|++.+|+.
T Consensus       156 ~n~f~i~~~~-~~~~~~l~~~~ar~iNHSC~PN~~~~~-~~~~~i~v~A~rdI~~GEElt~~Y~~~~~~~  223 (247)
T 3rq4_A          156 ENDFSIMYST-RKRSAQLWLGPAAFINHDCKPNCKFVP-ADGNAACVKVLRDIEPGDEVTCFYGEGFFGE  223 (247)
T ss_dssp             TSCTTEEEET-TTTEEEEEESGGGGCEECSSCSEEEEE-ETTTEEEEEESSCBCTTCBCEECCCTTSSSG
T ss_pred             CCcEEEEecC-CcccceeecchhhhcCCCCCCCEEEEE-eCCCEEEEEECCcCCCCCEEEEecCchhcCC
Confidence            4666665432 3456788886 8999999999997776 4456899999999999999999999998865

>1h3i_A Histone H3 lysine 4 specific methyltransferase; 2.1A {Homo sapiens} SCOP: b.76.2.1 b.85.7.1 PDB: 1mt6_A* 1n6c_A* 1muf_A

Probab=98.51  E-value=2.9e-08  Score=105.47  Aligned_cols=45  Identities=11%  Similarity=0.113  Sum_probs=36.7

Q ss_pred             hcccCCCCCCCeEEEEE-eCC-eE-EEEEEecccCCCCeEEeecCCCC
Q psy8224         624 TAMLSHNCKPNTKHVIV-NED-FS-LQLIALVNIRKGDIISTTYTQPF  668 (766)
Q Consensus       624 ~s~~NHsC~PN~~~~~~-~~g-~~-l~vra~r~I~~GeeI~isY~~~~  668 (766)
                      +.++||||+||+...+. ..+ .+ +.++|+|||++|||||++|....
T Consensus       241 ar~iNHsc~pN~~~~~~~~~~~~~~~~~~a~r~I~~geElt~~Yg~~~  288 (293)
T 1h3i_A          241 GHKANHSFTPNCIYDMFVHPRFGPIKCIRTLRAVEADEELTVAYGYDH  288 (293)
T ss_dssp             GGGSEEESSCSEEEEEEEETTTEEEEEEEESSCBCTTCEEEEEEETTB
T ss_pred             eeeeccCCCCCeEEEEEEcCCCCcEEEEEECCccCCCCEEEEecCCCC
Confidence            55889999999988873 222 34 58999999999999999998654

>2od1_A Protein CBFA2T1; zinc finger, cross-braced topology, metal binding protein; NMR {Homo sapiens}

Probab=98.48  E-value=2.7e-08  Score=79.49  Aligned_cols=45  Identities=33%  Similarity=0.702  Sum_probs=41.2

Q ss_pred             CCCCcccccCCcccCCCCCCCCcccCCchhhccccccccCCCccc
Q psy8224         312 MDSGKCEVCKVAASLKCGGCNQVFYCSKSHQKQHWKEHKPGCAKY  356 (766)
Q Consensus       312 ~~~~~C~~C~~~~~~~C~~C~~v~YCs~~cq~~~w~~Hk~~C~~l  356 (766)
                      ...+.|..|+..+.++|++|+.++|||++||..||+.|+.+|..+
T Consensus        11 ~~~~~C~~C~~~~~~~Cs~C~~v~YCs~~CQ~~dW~~Hk~~C~~~   55 (60)
T 2od1_A           11 DSSESCWNCGRKASETCSGCNTARYCGSFCQHKDWEKHHHICGQT   55 (60)
T ss_dssp             CCSSCCTTTSSCCCEECTTTSCCEESSHHHHHHHHHHHTTTSSCS
T ss_pred             CCCCccccCCCcccccCCCCCCeeecCHHHHHHHHHHHhHHHccc
Confidence            345789999999999999999999999999999999999999765

>1dtj_A RNA-binding neurooncological ventral antigen 2; KH domain, alpha-beta fold RNA-binding motif, immune system; 2.00A {Homo sapiens} SCOP: d.51.1.1 PDB: 1dt4_A

Probab=98.47  E-value=1.6e-07  Score=78.82  Aligned_cols=53  Identities=28%  Similarity=0.462  Sum_probs=48.8

Q ss_pred             hhhccccCCCCcHHHHHHHhhCceEEEeC----------ceEEEEcchhhHHHHHHHHHHhhc
Q psy8224         134 RAIGRLAGKGGRTKFTIENITKTRIVIAD----------SKIHVLGSYQNVQVALKALSNLIL  186 (766)
Q Consensus       134 r~~griiG~~G~t~~~ie~~t~~~I~v~~----------~~v~iiG~~~~l~~ar~~i~~~~~  186 (766)
                      ..+|+|||++|++++.|+..|||+|.|.+          ..|.|.|+.++++.|+..|..++.
T Consensus        12 ~~vg~IIGkgG~~Ik~I~~~tga~I~i~~~~~~~~~~~~~~v~I~G~~~~v~~A~~~I~~~i~   74 (76)
T 1dtj_A           12 NLVGAILGKGGKTLVEYQELTGARIQISKKGEFLPGTRNRRVTITGSPAATQAAQYLISQRVT   74 (76)
T ss_dssp             TTHHHHHCSTTHHHHHHHHHHCCEEEECCTTCCSTTCCEEEEEEEESHHHHHHHHHHHHHHCC
T ss_pred             HHcceEECCCchHHHHHHHHhCCEEEECcCCCCCCCCceeEEEEEeCHHHHHHHHHHHHHHHh
Confidence            45899999999999999999999999986          479999999999999999998764

>2dj8_A Protein CBFA2T1; zinc finger MYND domain, protein MTG8, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: g.85.1.1

Probab=98.46  E-value=3.3e-08  Score=79.02  Aligned_cols=45  Identities=33%  Similarity=0.701  Sum_probs=41.2

Q ss_pred             CCCcccccCCcccCCCCCCCCcccCCchhhccccccccCCCcccc
Q psy8224         313 DSGKCEVCKVAASLKCGGCNQVFYCSKSHQKQHWKEHKPGCAKYK  357 (766)
Q Consensus       313 ~~~~C~~C~~~~~~~C~~C~~v~YCs~~cq~~~w~~Hk~~C~~l~  357 (766)
                      ..+.|..|+..+..+|++|+.++|||++||..||+.|+.+|..+.
T Consensus        14 ~~~~C~~C~~~~~~~Cs~C~~v~YCs~~CQ~~~W~~Hk~~C~~~~   58 (60)
T 2dj8_A           14 SSESCWNCGRKASETCSGCNTARYCGSFCQHKDWEKHHHICSGPS   58 (60)
T ss_dssp             CSCCCSSSCSCCCEECTTTSCCEESSHHHHHHTHHHHTTTSCCSS
T ss_pred             CCcccccCCCCCcccCCCCCCEeeeCHHHHHHHHHHHHHHHHhcc
Confidence            357899999999999999999999999999999999999997663

>1ec6_A RNA-binding protein NOVA-2; KH domain, alpha-beta fold, RNA-binding motif, protein/RNA structure, RNA binding protein/RNA complex; 2.40A {Homo sapiens} SCOP: d.51.1.1

Probab=98.39  E-value=2.3e-07  Score=80.01  Aligned_cols=53  Identities=28%  Similarity=0.462  Sum_probs=49.2

Q ss_pred             hhhccccCCCCcHHHHHHHhhCceEEEeC----------ceEEEEcchhhHHHHHHHHHHhhc
Q psy8224         134 RAIGRLAGKGGRTKFTIENITKTRIVIAD----------SKIHVLGSYQNVQVALKALSNLIL  186 (766)
Q Consensus       134 r~~griiG~~G~t~~~ie~~t~~~I~v~~----------~~v~iiG~~~~l~~ar~~i~~~~~  186 (766)
                      ..+|+|||++|++++.|+..|||+|.|.+          ..|.|.|+.++++.|+..|..++.
T Consensus        12 ~~vG~IIGkgG~~Ik~I~~~tga~I~I~~~~~~~~g~~~r~v~I~G~~~~v~~A~~~I~~~i~   74 (87)
T 1ec6_A           12 NLVGAILGKGGKTLVEYQELTGARIQISKKGEFLPGTRNRRVTITGSPAATQAAQYLISQRVT   74 (87)
T ss_dssp             HHHHHHHCGGGHHHHHHHHHHCCEEEECCTTCBSTTSCEEEEEEESSHHHHHHHHHHHHHHHH
T ss_pred             HHcCeeECCCcHhHHHHHHHhCCEEEEccCCCCCCCCCceEEEEEcCHHHHHHHHHHHHHHHh
Confidence            56999999999999999999999999986          379999999999999999999874

>2r3a_A Histone-lysine N-methyltransferase SUV39H2; histone H3-K9 methyltransferase 2, H3 lysine-9 specific 2, alternative splicing, cell cycle; HET: SAM; 2.00A {Homo sapiens}

Probab=98.39  E-value=2.4e-07  Score=98.18  Aligned_cols=66  Identities=17%  Similarity=0.326  Sum_probs=44.7

Q ss_pred             hhcccCCCCCCCeEEEE--EeC----CeEEEEEEecccCCCCeEEeecCCCCCCHHHH----HHHHhCCCCcEEec
Q psy8224         623 KTAMLSHNCKPNTKHVI--VNE----DFSLQLIALVNIRKGDIISTTYTQPFWGTMDR----RLHLRMSKCFDCTC  688 (766)
Q Consensus       623 ~~s~~NHsC~PN~~~~~--~~~----g~~l~vra~r~I~~GeeI~isY~~~~~~~~~R----r~~L~~~y~F~C~C  688 (766)
                      .+.++||||+||+....  .+.    ..++.++|+|+|++|||||++|........+.    ...-+....|.|.|
T Consensus       215 ~aRfiNHSC~PN~~~~~v~~~~~d~~~~~i~~~A~rdI~~GEELt~dY~~~~~~~~~~~~~d~~~~~~~~~~~C~C  290 (300)
T 2r3a_A          215 VSHFVNHSCDPNLQVFNVFIDNLDTRLPRIALFSTRTINAGEELTFDYQMKGSGDISSDSIDHSPAKKRVRTVCKC  290 (300)
T ss_dssp             GGGGCEECSSCSEEEEEEESSCCCTTSCEEEEEESSCBCTTCEEEECGGGSSCC--------------CCCCBCCC
T ss_pred             hHHheecCCCCCEEEEEEEeccCCCCceEEEEEEccCCCCCCEEEEECCCCccccccccccccccccccCCCEeeC
Confidence            45689999999998753  221    25899999999999999999999874321110    01112235689988

>2p2r_A Poly(RC)-binding protein 2; protein-DNA complex, RNA and DNA binding protein/DNA complex; 1.60A {Homo sapiens}

Probab=98.38  E-value=2.6e-07  Score=77.52  Aligned_cols=53  Identities=21%  Similarity=0.346  Sum_probs=49.2

Q ss_pred             hhhccccCCCCcHHHHHHHhhCceEEEeC-------ceEEEEcchhhHHHHHHHHHHhhc
Q psy8224         134 RAIGRLAGKGGRTKFTIENITKTRIVIAD-------SKIHVLGSYQNVQVALKALSNLIL  186 (766)
Q Consensus       134 r~~griiG~~G~t~~~ie~~t~~~I~v~~-------~~v~iiG~~~~l~~ar~~i~~~~~  186 (766)
                      ..+|+|||++|++++.|+..|||+|.|.+       ..|.|.|+.++++.|+..|..++.
T Consensus        14 ~~vg~iIGkgG~~Ik~I~~~tga~I~i~~~~~~~~~~~v~I~G~~~~v~~A~~~I~~~i~   73 (76)
T 2p2r_A           14 DLIGCIIGRQGAKINEIRQMSGAQIKIANPVEGSTDRQVTITGSAASISLAQYLINVRLS   73 (76)
T ss_dssp             HHHHHHHCGGGHHHHHHHHHHCCEEEECCCCTTCSEEEEEEEECHHHHHHHHHHHHHHHT
T ss_pred             HHcceEECCCChHHHHHHHHHCCEEEEcCCCCCCCeEEEEEEeCHHHHHHHHHHHHHHHH
Confidence            45899999999999999999999999986       679999999999999999998875

>2opv_A KHSRP protein; KH domain, RNA binding protein, KSRP; NMR {Homo sapiens}

Probab=98.38  E-value=3e-07  Score=78.86  Aligned_cols=53  Identities=19%  Similarity=0.394  Sum_probs=48.1

Q ss_pred             hhhccccCCCCcHHHHHHHhhCceEEEeCc-e--------EEEEcchhhHHHHHHHHHHhhc
Q psy8224         134 RAIGRLAGKGGRTKFTIENITKTRIVIADS-K--------IHVLGSYQNVQVALKALSNLIL  186 (766)
Q Consensus       134 r~~griiG~~G~t~~~ie~~t~~~I~v~~~-~--------v~iiG~~~~l~~ar~~i~~~~~  186 (766)
                      ..+|+|||++|+|++.|++.|||+|.|.++ +        |.|.|+.++++.|+++|..++.
T Consensus        23 ~~ig~IIGkgG~~Ik~I~~~tga~I~i~~~~~~~~~~er~v~I~G~~~~v~~A~~~I~~i~~   84 (85)
T 2opv_A           23 GKAGLVIGKGGETIKQLQERAGVKMILIQDGSQNTNVDKPLRIIGDPYKVQQACEMVMDILR   84 (85)
T ss_dssp             TTHHHHHTTTTHHHHHHHHHHTCEEEECSSSCSSTTSCEEEEEEECHHHHHHHHHHHHHHHT
T ss_pred             hheeeeECCCCHHHHHHHHHHCCEEEEcCCCCCCCCCceEEEEEeCHHHHHHHHHHHHHHhc
Confidence            459999999999999999999999999753 3        9999999999999999998763

>1x4n_A FAR upstream element binding protein 1; KH domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Mus musculus} SCOP: d.51.1.1 PDB: 2opu_A

Probab=98.38  E-value=3.1e-07  Score=80.00  Aligned_cols=54  Identities=24%  Similarity=0.369  Sum_probs=50.1

Q ss_pred             hhhccccCCCCcHHHHHHHhhCceEEEeCc-------eEEEEcchhhHHHHHHHHHHhhcC
Q psy8224         134 RAIGRLAGKGGRTKFTIENITKTRIVIADS-------KIHVLGSYQNVQVALKALSNLILG  187 (766)
Q Consensus       134 r~~griiG~~G~t~~~ie~~t~~~I~v~~~-------~v~iiG~~~~l~~ar~~i~~~~~~  187 (766)
                      ..+|+|||++|+|++.|++.|||+|.|.+.       +|.|.|+.++++.|+..|..++..
T Consensus        24 ~~vG~IIGkgG~~Ik~I~~~tga~I~I~~~~~g~~~r~v~I~G~~e~v~~A~~~I~~~i~~   84 (92)
T 1x4n_A           24 GMVGFIIGRGGEQISRIQQESGCKIQIAPDSGGLPERSCMLTGTPESVQSAKRLLDQIVEK   84 (92)
T ss_dssp             HHHHHHHCSSSHHHHHHHHHSCCEEEECSCCTTCSEEEEEEEECHHHHHHHHHHHHHHHHH
T ss_pred             HHcceeECCCchHHHHHHHHhCCEEEEcCCCCCCCccEEEEEeCHHHHHHHHHHHHHHHHh
Confidence            569999999999999999999999999874       799999999999999999999854

>3bo5_A Histone-lysine N-methyltransferase setmar; SET domain, chromati regulator, DNA damage, DNA repair, DNA-binding, nucleus, ST genomics; HET: SAH; 1.59A {Homo sapiens}

Probab=98.35  E-value=3.4e-07  Score=96.71  Aligned_cols=66  Identities=23%  Similarity=0.343  Sum_probs=47.3

Q ss_pred             hhcccCCCCCCCeEEEEEe-CC--eEEEEEEecccCCCCeEEeecCCCCCCHHH--HHHHHh-CCCCcEEec
Q psy8224         623 KTAMLSHNCKPNTKHVIVN-ED--FSLQLIALVNIRKGDIISTTYTQPFWGTMD--RRLHLR-MSKCFDCTC  688 (766)
Q Consensus       623 ~~s~~NHsC~PN~~~~~~~-~g--~~l~vra~r~I~~GeeI~isY~~~~~~~~~--Rr~~L~-~~y~F~C~C  688 (766)
                      .+.++||||+||+....+. ++  .++.++|+|+|++|||||++|.+.+|....  ..+.+. ....|.|.|
T Consensus       205 ~arfiNHSC~PN~~~~~~~~~~~~~~i~~~A~rdI~~GEELt~dY~~~~~~~~~~~~~~~~~~~~~~~~C~C  276 (290)
T 3bo5_A          205 IGRFLNHSCEPNLLMIPVRIDSMVPKLALFAAKDIVPEEELSYDYSGRYLNLTVSASKERLDHGKLRKPCYC  276 (290)
T ss_dssp             GGGGCEECSSCSEEEEEEESSSSSCEEEEEESSCBCTTCEEEECTTSCTTCCSSSEEEEEEECSSCCCBCCC
T ss_pred             chheeeecCCCCEEEEEEEeCCCceEEEEEEccccCCCCEEEEECCCccccccccccccccccCCCCccccC
Confidence            4568999999999876432 22  689999999999999999999998875310  000111 124688988

>1zzk_A Heterogeneous nuclear ribonucleoprotein K; KH domian, alpha-beta fold, DNA binding protein; 0.95A {Homo sapiens} SCOP: d.51.1.1 PDB: 1zzj_A 1zzi_A

Probab=98.34  E-value=5.1e-07  Score=76.88  Aligned_cols=53  Identities=26%  Similarity=0.361  Sum_probs=49.0

Q ss_pred             hhhccccCCCCcHHHHHHHhhCceEEEeCc-------eEEEEcchhhHHHHHHHHHHhhc
Q psy8224         134 RAIGRLAGKGGRTKFTIENITKTRIVIADS-------KIHVLGSYQNVQVALKALSNLIL  186 (766)
Q Consensus       134 r~~griiG~~G~t~~~ie~~t~~~I~v~~~-------~v~iiG~~~~l~~ar~~i~~~~~  186 (766)
                      ..+|+|||++|++++.|++.|||+|.|.+.       .|.|.|+.++++.|+..|..++.
T Consensus        16 ~~vg~iIGkgG~~Ik~I~~~tga~I~i~~~~~~~~~~~v~I~G~~~~v~~A~~~I~~~i~   75 (82)
T 1zzk_A           16 DLAGSIIGKGGQRIKQIRHESGASIKIDEPLEGSEDRIITITGTQDQIQNAQYLLQNSVK   75 (82)
T ss_dssp             TTGGGGTCGGGHHHHHHHHHHCCEEEECCTTSCSSEEEEEEEECHHHHHHHHHHHHHHHH
T ss_pred             HhcCeeECCCchHHHHHHHHHCCEEEEcCCCCCCCceEEEEEeCHHHHHHHHHHHHHHHH
Confidence            459999999999999999999999999873       79999999999999999998874

>2hh2_A KH-type splicing regulatory protein; KH-RNA binding domain, RNA binding protein; NMR {Homo sapiens}

Probab=98.34  E-value=6.2e-07  Score=80.37  Aligned_cols=56  Identities=23%  Similarity=0.294  Sum_probs=51.1

Q ss_pred             hhhccccCCCCcHHHHHHHhhCceEEEeC----------ceEEEEcchhhHHHHHHHHHHhhcCCC
Q psy8224         134 RAIGRLAGKGGRTKFTIENITKTRIVIAD----------SKIHVLGSYQNVQVALKALSNLILGSP  189 (766)
Q Consensus       134 r~~griiG~~G~t~~~ie~~t~~~I~v~~----------~~v~iiG~~~~l~~ar~~i~~~~~~~~  189 (766)
                      ..+|+||||+|+|++.|++.|||+|.|.+          ++|.|.|+.++++.|+..|..++....
T Consensus        16 ~~vG~IIGkgG~~Ik~I~~~TGa~I~I~~~~~~~~~~~~r~V~I~G~~e~v~~A~~~I~~~i~e~~   81 (107)
T 2hh2_A           16 HKCGLVIGRGGENVKAINQQTGAFVEISRQLPPNGDPNFKLFIIRGSPQQIDHAKQLIEEKIEGPL   81 (107)
T ss_dssp             GGTTTTSTTTTCHHHHHHHHSSSEEEECCCCCTTCCTTEEEEEEESCHHHHHHHHHHHHHHSCSCC
T ss_pred             HHcCccCCCCcHHHHHHHHHhCCEEEEcCccCCCCCCCceEEEEECCHHHHHHHHHHHHHHHhccc
Confidence            45999999999999999999999999986          469999999999999999999996543

>3s8p_A Histone-lysine N-methyltransferase SUV420H1; SET domain, histone methyltransferase, transcription regulat histone lysine, SAM, methylation, nucleus; HET: MSE SAM; 1.85A {Homo sapiens}

Probab=98.32  E-value=2.2e-07  Score=96.28  Aligned_cols=50  Identities=32%  Similarity=0.502  Sum_probs=43.8

Q ss_pred             ecccccccccccCCceeeeecCccchhhhhhhcccCCCeeeecccCCCCCc
Q psy8224         557 YMKTAMLSHNCKPNTKHVIVNEDFSLQLIALVNICKGDIISTTYTQPFWGT  607 (766)
Q Consensus       557 yp~~SllNHSC~PN~~~~f~~~~~~l~~~A~r~I~~GeeI~~sY~~~~~~~  607 (766)
                      ...++++||||.||+...+ ++...+.++|+|+|++||||+++|++.+|+.
T Consensus       203 g~~arfiNHSC~PN~~~~~-~~~~~i~i~A~RdI~~GEELt~~Y~~~~~~~  252 (273)
T 3s8p_A          203 LGPAAFINHDCRPNCKFVS-TGRDTACVKALRDIEPGEEISCYYGDGFFGE  252 (273)
T ss_dssp             ESGGGGCEECSSCSEEEEE-EETTEEEEEESSCBCTTCBCEECCCTTTTSG
T ss_pred             cchHHhhCCCCCCCeEEEE-cCCCEEEEEECceeCCCCEEEEecCchhcCC
Confidence            3467999999999998887 5555789999999999999999999998875

>2ctm_A Vigilin; K homology type I domain, RNA-binding, cell sterol metabolism, beta-alpha-alpha-beta-BETA-alpha structure, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.51.1.1

Probab=98.29  E-value=5.9e-07  Score=78.64  Aligned_cols=53  Identities=28%  Similarity=0.306  Sum_probs=49.3

Q ss_pred             hhhccccCCCCcHHHHHHHhhCceEEEeCc------eEEEEcchhhHHHHHHHHHHhhc
Q psy8224         134 RAIGRLAGKGGRTKFTIENITKTRIVIADS------KIHVLGSYQNVQVALKALSNLIL  186 (766)
Q Consensus       134 r~~griiG~~G~t~~~ie~~t~~~I~v~~~------~v~iiG~~~~l~~ar~~i~~~~~  186 (766)
                      +.+|+|||++|++++.|++.|||+|.|.+.      +|.|.|..++++.|++.|..+..
T Consensus        26 ~~ig~IIG~gG~~Ir~I~e~tg~~I~i~~~g~~~~~~V~I~G~~e~v~~A~~~I~~i~~   84 (95)
T 2ctm_A           26 RVHARIIGARGKAIRKIMDEFKVDIRFPQSGAPDPNCVTVTGLPENVEEAIDHILNLEE   84 (95)
T ss_dssp             TTHHHHHCSSSCHHHHHHHHHTCEEECCCTTCSCTTEEEEESCHHHHHHHHHHHHHHHH
T ss_pred             HHccccCCCCcchHHHHHHHHCCeEEecCCCCCCCcEEEEEcCHHHHHHHHHHHHHHHH
Confidence            569999999999999999999999999875      79999999999999999999873

>1j5k_A Heterogeneous nuclear ribonucleoprotein K; single-stranded DNA binding protein, transcription factor, hnRNP K, CT element, C-MYC oncogene; NMR {Homo sapiens} SCOP: d.51.1.1 PDB: 1khm_A

Probab=98.29  E-value=5e-07  Score=78.22  Aligned_cols=53  Identities=26%  Similarity=0.357  Sum_probs=49.3

Q ss_pred             hhhccccCCCCcHHHHHHHhhCceEEEeC-------ceEEEEcchhhHHHHHHHHHHhhc
Q psy8224         134 RAIGRLAGKGGRTKFTIENITKTRIVIAD-------SKIHVLGSYQNVQVALKALSNLIL  186 (766)
Q Consensus       134 r~~griiG~~G~t~~~ie~~t~~~I~v~~-------~~v~iiG~~~~l~~ar~~i~~~~~  186 (766)
                      ..+|+|||++|++++.|++.|||+|.|.+       +.|.|.|+.++++.|+..|..++.
T Consensus        23 ~~vg~IIGkgG~~Ik~I~~~tga~I~I~~~~~~~~~~~v~I~G~~e~v~~A~~~I~~~i~   82 (89)
T 1j5k_A           23 DLAGSIIGKGGQRIKQIRHESGASIKIDEPLEGSEDRIITITGTQDQIQNAQYLLQNSVK   82 (89)
T ss_dssp             HHHHHHHCGGGHHHHHHHHHTCCEEEECSCCSSSSEEEEEEEEEHHHHHHHHHHHHHHHH
T ss_pred             hhcceeECCCCHhHHHHHHHhCCeEEecCCCCCCCccEEEEEcCHHHHHHHHHHHHHHHH
Confidence            56999999999999999999999999986       579999999999999999998874

>1we8_A Tudor and KH domain containing protein; structural genomics, riken structural genomics/proteomics initiative, RSGI, RNA binding protein; NMR {Mus musculus} SCOP: d.51.1.1

Probab=98.29  E-value=5.4e-07  Score=80.35  Aligned_cols=53  Identities=25%  Similarity=0.424  Sum_probs=49.2

Q ss_pred             hhhccccCCCCcHHHHHHHhhCceEEEeC---------ceEEEEcchhhHHHHHHHHHHhhc
Q psy8224         134 RAIGRLAGKGGRTKFTIENITKTRIVIAD---------SKIHVLGSYQNVQVALKALSNLIL  186 (766)
Q Consensus       134 r~~griiG~~G~t~~~ie~~t~~~I~v~~---------~~v~iiG~~~~l~~ar~~i~~~~~  186 (766)
                      ..+|+|||++|+|++.|+..|||+|.|.+         .+|.|.|+.++++.|+..|..++.
T Consensus        24 ~~ig~IIGkgG~~Ik~I~~~tga~I~I~~~~~~~~~~~~~V~I~G~~~~v~~A~~~I~~~i~   85 (104)
T 1we8_A           24 RSVGRIIGRGGETIRSICKASGAKITCDKESEGTLLLSRLIKISGTQKEVAAAKHLILEKVS   85 (104)
T ss_dssp             TTHHHHHTTTSHHHHHHHHHHCCEEEECCSSCCSSSSEEEEEEEEEHHHHHHHHHHHHHHHH
T ss_pred             hheeeeECCCCHHHHHHHHHHCCEEEEecCCCCCCCCcceEEEEcCHHHHHHHHHHHHHHHh
Confidence            45999999999999999999999999984         579999999999999999999885

>1x4m_A FAR upstream element binding protein 1; KH domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Mus musculus} SCOP: d.51.1.1

Probab=98.27  E-value=1e-06  Score=76.98  Aligned_cols=56  Identities=23%  Similarity=0.340  Sum_probs=50.5

Q ss_pred             hhhccccCCCCcHHHHHHHhhCceEEEeCc---------eEEEEcchhhHHHHHHHHHHhhcCCC
Q psy8224         134 RAIGRLAGKGGRTKFTIENITKTRIVIADS---------KIHVLGSYQNVQVALKALSNLILGSP  189 (766)
Q Consensus       134 r~~griiG~~G~t~~~ie~~t~~~I~v~~~---------~v~iiG~~~~l~~ar~~i~~~~~~~~  189 (766)
                      ..+|+||||+|+|++.|++.|||+|.|.+.         .|.|.|+.++++.|+..|..++....
T Consensus        24 ~~vG~IIGkgG~~Ik~I~~~tga~I~I~~~~~~~~~~~r~v~I~G~~~~v~~A~~~I~~~i~~~~   88 (94)
T 1x4m_A           24 SKAGLVIGKGGETIKQLQERAGVKMVMIQDGPQNTGADKPLRITGDPYKVQQAKEMVLELIRDQG   88 (94)
T ss_dssp             HHHHHHSCSSSSHHHHHHHHHTSEEEECCSCCCSSCSCEEEEEEECTTTHHHHHHHHHHHHCCCS
T ss_pred             hhcceEECCCCHHHHHHHHHHCCeEEecCCCCCCCCCceEEEEEeCHHHHHHHHHHHHHHHhccC
Confidence            459999999999999999999999999753         39999999999999999999996543

>1wvn_A Poly(RC)-binding protein 1; KH domain, RNA binding domain, RNA binding protein; 2.10A {Homo sapiens} SCOP: d.51.1.1

Probab=98.27  E-value=7.9e-07  Score=75.67  Aligned_cols=55  Identities=20%  Similarity=0.355  Sum_probs=49.2

Q ss_pred             hhhccccCCCCcHHHHHHHhhCceEEEeC-------ceEEEEcchhhHHHHHHHHHHhhcCC
Q psy8224         134 RAIGRLAGKGGRTKFTIENITKTRIVIAD-------SKIHVLGSYQNVQVALKALSNLILGS  188 (766)
Q Consensus       134 r~~griiG~~G~t~~~ie~~t~~~I~v~~-------~~v~iiG~~~~l~~ar~~i~~~~~~~  188 (766)
                      ..+|+|||++|++++.|++.|||+|.|.+       ..|.|.|+.++++.|+..|..++...
T Consensus        15 ~~vg~IIGkgG~~Ik~I~~~sga~I~i~~~~~~~~~r~v~I~G~~~~v~~A~~~I~~~i~~~   76 (82)
T 1wvn_A           15 NLIGCIIGRQGANINEIRQMSGAQIKIANPVEGSSGRQVTITGSAASISLAQYLINARLSSE   76 (82)
T ss_dssp             GGHHHHHCGGGHHHHHHHHHHCCEEEECCCCTTCSEEEEEEEECHHHHHHHHHHHHHHTC--
T ss_pred             HhccceeCCCchhHHHHHHHhCCEEEEecCCCCCCceEEEEEcCHHHHHHHHHHHHHHHHhh
Confidence            45899999999999999999999999976       36999999999999999999988644

>2ctk_A Vigilin; K homology type I domain, RNA-binding, cell sterol metabolism, beta-alpha-alpha-beta-BETA-alpha structure, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.51.1.1

Probab=98.25  E-value=8.2e-07  Score=79.07  Aligned_cols=53  Identities=15%  Similarity=0.115  Sum_probs=49.3

Q ss_pred             hhhccccCCCCcHHHHHHHhhCceEEEeCc-----eEEEEcchhhHHHHHHHHHHhhc
Q psy8224         134 RAIGRLAGKGGRTKFTIENITKTRIVIADS-----KIHVLGSYQNVQVALKALSNLIL  186 (766)
Q Consensus       134 r~~griiG~~G~t~~~ie~~t~~~I~v~~~-----~v~iiG~~~~l~~ar~~i~~~~~  186 (766)
                      ..+|+|||++|++++.|+..|||+|.|.+.     +|.|.|+.+++..|+..|..++.
T Consensus        26 ~~ig~IIG~gG~~Ir~I~eetg~~I~I~~~g~~~~~V~I~G~~e~v~~A~~~I~~i~~   83 (104)
T 2ctk_A           26 DLHRYVIGQKGSGIRKMMDEFEVNIHVPAPELQSDIIAITGLAANLDRAKAGLLERVK   83 (104)
T ss_dssp             HHHHHHHCSSSHHHHHHHHHTCCEEECCCTTTTCCEEEEEECHHHHHHHHHHHHHHHH
T ss_pred             HHccceeCCCchHHHHHHHHHCCEEEecCCCCCcceEEEEcCHHHHHHHHHHHHHHHh
Confidence            559999999999999999999999999875     89999999999999999998874

>3smt_A Histone-lysine N-methyltransferase SETD3; histone methyltransferase, histone modification, LYSI translational modification, structural genomics; HET: SAM; 2.04A {Homo sapiens}

Probab=98.24  E-value=7.3e-07  Score=101.28  Aligned_cols=63  Identities=19%  Similarity=0.093  Sum_probs=42.6

Q ss_pred             hhhhhhcccCCCCCCCeEEEEEeCCeEEEEEEecccCCCCeEEeecCCCCCCHHHHHHHHhCCCCcEEec
Q psy8224         619 WIYMKTAMLSHNCKPNTKHVIVNEDFSLQLIALVNIRKGDIISTTYTQPFWGTMDRRLHLRMSKCFDCTC  688 (766)
Q Consensus       619 glyp~~s~~NHsC~PN~~~~~~~~g~~l~vra~r~I~~GeeI~isY~~~~~~~~~Rr~~L~~~y~F~C~C  688 (766)
                      +++|.+.++||||.||...+. .+++.+.++|.++|++||||||||++.  +    ...|...|||.+.-
T Consensus       268 ~LvP~~Dm~NH~~~~~~~~~~-~~~~~~~~~a~~~i~~Geei~isYG~~--~----n~~Ll~~YGFv~~~  330 (497)
T 3smt_A          268 ALIPLWDMCNHTNGLITTGYN-LEDDRCECVALQDFRAGEQIYIFYGTR--S----NAEFVIHSGFFFDN  330 (497)
T ss_dssp             EECTTGGGCEECSCSEEEEEE-TTTTEEEEEESSCBCTTCEEEECCCSC--C----HHHHHHHHSCCCTT
T ss_pred             eeechHHhhcCCCcccceeee-ccCCeEEEEeCCccCCCCEEEEeCCCC--C----hHHHHHHCCCCCCC
Confidence            455555555555555433222 135678899999999999999999974  2    35666679998754

>3qxy_A N-lysine methyltransferase SETD6; epigenetics, protein lysine methyltransferase, transferase, network VIA methyllysine signaling; HET: SAM; 2.09A {Homo sapiens} PDB: 3rc0_A*

Probab=98.23  E-value=3.6e-07  Score=102.70  Aligned_cols=64  Identities=23%  Similarity=0.174  Sum_probs=55.6

Q ss_pred             cchhhhhhhcccCCCCCCCeEEEEEeCCeEEEEEEecccCCCCeEEeecCCCCCCHHHHHHHHhCCCCcEEe
Q psy8224         616 MSKWIYMKTAMLSHNCKPNTKHVIVNEDFSLQLIALVNIRKGDIISTTYTQPFWGTMDRRLHLRMSKCFDCT  687 (766)
Q Consensus       616 i~~glyp~~s~~NHsC~PN~~~~~~~~g~~l~vra~r~I~~GeeI~isY~~~~~~~~~Rr~~L~~~y~F~C~  687 (766)
                      .+.++.|.+.++||||.||+...|  +++.+.++|.++|++||||++||++.  +    ...|...|||...
T Consensus       215 ~~~~LvP~~D~~NH~~~~~~~~~~--~~~~~~~~a~~~i~~Geei~~~YG~~--~----n~~ll~~YGF~~~  278 (449)
T 3qxy_A          215 NSPVMVPAADILNHLANHNANLEY--SANCLRMVATQPIPKGHEIFNTYGQM--A----NWQLIHMYGFVEP  278 (449)
T ss_dssp             CCCBBCTTGGGCEECSSCSEEEEE--CSSEEEEEESSCBCTTCEEEECCSSC--C----HHHHHHHHSCCCC
T ss_pred             CceeEeecHHHhcCCCCCCeEEEE--eCCeEEEEECCCcCCCchhhccCCCC--C----HHHHHHhCCCCCC
Confidence            467899999999999999999888  46789999999999999999999983  2    4666777999874

>1vig_A Vigilin; RNA-binding protein, ribonucleoprotein; NMR {Homo sapiens} SCOP: d.51.1.1 PDB: 1vih_A

Probab=98.23  E-value=1.1e-06  Score=72.54  Aligned_cols=52  Identities=29%  Similarity=0.307  Sum_probs=47.3

Q ss_pred             hhhccccCCCCcHHHHHHHhhCceEEEeCc-----eEEEEcchhhHHHHHHHHHHhh
Q psy8224         134 RAIGRLAGKGGRTKFTIENITKTRIVIADS-----KIHVLGSYQNVQVALKALSNLI  185 (766)
Q Consensus       134 r~~griiG~~G~t~~~ie~~t~~~I~v~~~-----~v~iiG~~~~l~~ar~~i~~~~  185 (766)
                      ..+|+|||++|++++.|++.|||+|.|.+.     +|.|.|+.+.+..|+..|..+.
T Consensus        14 ~~ig~iIG~gG~~I~~I~e~tg~~I~i~~~g~~~~~V~I~G~~~~v~~A~~~I~~i~   70 (71)
T 1vig_A           14 KFHRHLIGKSGANINRIKDQYKVSVRIPPDSEKSNLIRIEGDPQGVQQAKRELLELA   70 (71)
T ss_dssp             SHHHHHTCSSCCHHHHHHHHTCCEEECCCCCSSSEEEEEEESSHHHHHHHHHHHHTC
T ss_pred             HHhhhhcCCCCccHHHHHHHHCCEEEECCCCCcccEEEEEcCHHHHHHHHHHHHHHh
Confidence            459999999999999999999999999753     8999999999999999998764

>2axy_A Poly(RC)-binding protein 2; protein-DNA complex, DNA binding protein-DNA complex; 1.70A {Homo sapiens} SCOP: d.51.1.1 PDB: 2pqu_A 2py9_A 1ztg_A 3vke_A*

Probab=98.22  E-value=1e-06  Score=73.30  Aligned_cols=53  Identities=19%  Similarity=0.342  Sum_probs=48.9

Q ss_pred             hhhccccCCCCcHHHHHHHhhCceEEEeCc-----eEEEEcchhhHHHHHHHHHHhhc
Q psy8224         134 RAIGRLAGKGGRTKFTIENITKTRIVIADS-----KIHVLGSYQNVQVALKALSNLIL  186 (766)
Q Consensus       134 r~~griiG~~G~t~~~ie~~t~~~I~v~~~-----~v~iiG~~~~l~~ar~~i~~~~~  186 (766)
                      ..+|+|||++|++++.|++.|||+|.|.+.     .|.|.|+.+++..|+..|...++
T Consensus        14 ~~ig~iIGkgG~~Ik~I~~~tga~I~i~~~~~~er~v~I~G~~~~v~~A~~~I~~~l~   71 (73)
T 2axy_A           14 KEVGSIIGKKGESVKKMREESGARINISEGNCPERIITLAGPTNAIFKAFAMIIDKLE   71 (73)
T ss_dssp             HHHHHHHCGGGHHHHHHHHHHCCEEEECSSCCSEEEEEEEECHHHHHHHHHHHHHHHH
T ss_pred             hHeeeEECCCCHHHHHHHHHHCCEEEEecCCCCcEEEEEEeCHHHHHHHHHHHHHHHh
Confidence            559999999999999999999999999875     59999999999999999988774

>2hh3_A KH-type splicing regulatory protein; KH-RNA binding domain, RNA binding protein; NMR {Homo sapiens}

Probab=98.19  E-value=1.4e-06  Score=77.81  Aligned_cols=55  Identities=20%  Similarity=0.376  Sum_probs=49.6

Q ss_pred             hhhccccCCCCcHHHHHHHhhCceEEEeCc-------eEEEEcchhhHHHHHHHHHHhhcCC
Q psy8224         134 RAIGRLAGKGGRTKFTIENITKTRIVIADS-------KIHVLGSYQNVQVALKALSNLILGS  188 (766)
Q Consensus       134 r~~griiG~~G~t~~~ie~~t~~~I~v~~~-------~v~iiG~~~~l~~ar~~i~~~~~~~  188 (766)
                      ..+|+||||+|+|++.|++.|||+|.|.++       +|.|.|+.++++.|++.|..++...
T Consensus        20 ~~iG~IIGkgG~~Ik~I~~~TGakI~I~~~~~~~~er~V~I~G~~e~v~~A~~~I~~ii~~~   81 (106)
T 2hh3_A           20 HSVGVVIGRSGEMIKKIQNDAGVRIQFKQDDGTGPEKIAHIMGPPDRCEHAARIINDLLQSL   81 (106)
T ss_dssp             TTHHHHHTTTTHHHHHHHHHHTCEEEECSSCSSSSEEEEEEESSHHHHHHHHHHHHHHHHHH
T ss_pred             HHcCccCCCCcHHHHHHHHHHCcEEEEecCCCCCceeEEEEEeCHHHHHHHHHHHHHHHhcc
Confidence            459999999999999999999999999742       6999999999999999999998543

>2dgr_A Ring finger and KH domain-containing protein 1; structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=98.15  E-value=2.2e-06  Score=72.98  Aligned_cols=52  Identities=31%  Similarity=0.365  Sum_probs=48.1

Q ss_pred             hhhccccCCCCcHHHHHHHhhCceEEEe----CceEEEEcchhhHHHHHHHHHHhh
Q psy8224         134 RAIGRLAGKGGRTKFTIENITKTRIVIA----DSKIHVLGSYQNVQVALKALSNLI  185 (766)
Q Consensus       134 r~~griiG~~G~t~~~ie~~t~~~I~v~----~~~v~iiG~~~~l~~ar~~i~~~~  185 (766)
                      ..+|.||||+|+|++.||+.|||+|.|.    +..|.|.|+.+++..|++.|...+
T Consensus        19 ~~vG~IIGkgG~tIk~Iqe~Tga~I~I~~~~~~~~v~ItG~~e~v~~A~~~I~~~i   74 (83)
T 2dgr_A           19 RVVGLVVGPKGATIKRIQQRTHTYIVTPGRDKEPVFAVTGMPENVDRAREEIEAHI   74 (83)
T ss_dssp             HHHHHHHTTTTSSHHHHHHHTTCEEECCCSSSCCEEEEEECTTTHHHHHHHHHHHH
T ss_pred             HHeeeeECCCchHHHHHHHHhCCeEEecCCCCCCeEEEEcCHHHHHHHHHHHHHHH
Confidence            5599999999999999999999999997    356999999999999999999975

>2ctl_A Vigilin; K homology type I domain, RNA-binding, cell sterol metabolism, beta-alpha-alpha-beta-BETA-alpha structure, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.51.1.1

Probab=98.10  E-value=2.9e-06  Score=74.57  Aligned_cols=53  Identities=19%  Similarity=0.258  Sum_probs=48.1

Q ss_pred             hhhccccCCCCcHHHHHHHhhCceEEEeCc--------eEEEEcchhhHHHHHHHHHHhhc
Q psy8224         134 RAIGRLAGKGGRTKFTIENITKTRIVIADS--------KIHVLGSYQNVQVALKALSNLIL  186 (766)
Q Consensus       134 r~~griiG~~G~t~~~ie~~t~~~I~v~~~--------~v~iiG~~~~l~~ar~~i~~~~~  186 (766)
                      ..+|+|||++|++++.|+..|||+|.|.+.        .|.|.|+.+++..|+..|..++.
T Consensus        26 ~~ig~IIGkgG~~Ik~I~~etg~~I~i~~~g~~~~~~~~V~I~G~~e~v~~A~~~I~~iv~   86 (97)
T 2ctl_A           26 KYHPKIIGRKGAVITQIRLEHDVNIQFPDKDDGNQPQDQITITGYEKNTEAARDAILRIVG   86 (97)
T ss_dssp             TTHHHHSCSSSCHHHHHHHHHTCEEECCCTTTCSSCSSEEEEESCHHHHHHHHHHHHHHHH
T ss_pred             HHhhhcCCCCchhHHHHHHHHCCEEEecCCCCCCCCccEEEEEeCHHHHHHHHHHHHHHHH
Confidence            459999999999999999999999999653        79999999999999999998863

>2qpw_A PR domain zinc finger protein 2; methyltransferase, activator, alternative initiation, alternative splicing, DNA-binding, metal-binding, nucleus; 1.79A {Homo sapiens} PDB: 2jv0_A*

Probab=98.10  E-value=2e-06  Score=81.70  Aligned_cols=45  Identities=13%  Similarity=0.067  Sum_probs=39.3

Q ss_pred             hcccCCCCCC---CeEEEEEeCCeEEEEEEecccCCCCeEEeecCCCCCC
Q psy8224         624 TAMLSHNCKP---NTKHVIVNEDFSLQLIALVNIRKGDIISTTYTQPFWG  670 (766)
Q Consensus       624 ~s~~NHsC~P---N~~~~~~~~g~~l~vra~r~I~~GeeI~isY~~~~~~  670 (766)
                      +-++||||.|   |+..+-  .++++.++|+|||++||||+..|.+..++
T Consensus       100 ~RfINhSc~p~eqNl~~~~--~~~~I~~~A~RdI~~GEEL~~dY~~~~~~  147 (149)
T 2qpw_A          100 LRYVNWACSGEEQNLFPLE--INRAIYYKTLKPIAPGEELLVWYNGEDNP  147 (149)
T ss_dssp             GGGCEECBTTBTCCEEEEE--ETTEEEEEESSCBCTTCBCEECCCCCCCC
T ss_pred             eeeeeccCChhhcCEEEEE--ECCEEEEEEccCCCCCCEEEEccCCccCC
Confidence            5688999999   998754  36899999999999999999999987764

>3n89_A Defective in GERM LINE development protein 3, ISO; KH domains, RNA binding, cell cycle; 2.79A {Caenorhabditis elegans}

Probab=98.06  E-value=1.7e-05  Score=85.59  Aligned_cols=156  Identities=13%  Similarity=0.106  Sum_probs=106.6

Q ss_pred             cCCCCceEEEecCCCcchhhhccCc--ccHHHHHHhcCcEEEEEc----------ccCeEEEEeCCCCCCHHHHHHHHHH
Q psy8224          25 KAKHVDMRKVPVPNHRYGPLKENWM--KIFTPIVEHLKLQVRFNL----------KSRNVEIRLSPETEDISNLQKAADF   92 (766)
Q Consensus        25 ~~~~~~~~~i~iP~~r~~~l~~~~~--~i~~~i~~~~~~~i~i~~----------~~~~v~i~~~~~t~d~~~~~ka~~~   92 (766)
                      .....-|.++.||+.-.+.|||+.|  .-++.|++.++++|.+--          +...|+|.+     .+..+.+|+..
T Consensus        25 ~~~~~VTl~v~Ip~~~Hs~IIGkgG~~sNIkkImeEtgv~I~fPD~~~~~~~~~~ks~~VtItG-----~~enVE~AR~~   99 (376)
T 3n89_A           25 INPTRVTLNMEFESQYYSLMTSDNGDHENVASIMAETNTLIQLPDRSVGGTTPDPFAQQVTITG-----YFGDVDRARML   99 (376)
T ss_dssp             CCTTEEEEEEECCGGGHHHHHSCCSSSCSHHHHHHHHTCEEECCCCCCCSSSCCTTTTEEEEEE-----EHHHHHHHHHH
T ss_pred             ecCCEEEEEEEEchhhhhhhccCCChHHHHHHHHHHhCCeEECCCCcccccCCcCCCCeEEEEc-----CHHHHHHHHHH
Confidence            3344478899999999999999999  999999999999999932          234688987     88999999999


Q ss_pred             HHHHH---c-------CCChhhHHhhcc-ccccee---------------eeeeecccccccc----c---hh-------
Q psy8224          93 VKAFV---Y-------GFDVDDALALLR-LDNLFI---------------ESFEIKDVKTLKG----D---HL-------  132 (766)
Q Consensus        93 i~ai~---~-------gf~~~~a~~ll~-~d~~~~---------------~~~~i~~~~~~~~----~---~~-------  132 (766)
                      |+++.   .       +.+..+--+.+. .+.+-+               +.+-|.....+-.    .   .+       
T Consensus       100 I~~l~Pl~i~~elp~~~i~~~~l~~~I~qq~~y~V~I~Fp~~~~~~~~~sd~V~IrG~~~nv~~akeA~~~Ll~~l~~~e  179 (376)
T 3n89_A          100 MRRNCHFTVFMALSKMKMPLHELQAHVRQNPIQNVEMSFVDAPEKNGIVTTYLRITAREKNQHELIEAAKRLNEILFRES  179 (376)
T ss_dssp             HHHSCEEEEEEECTTCSSCHHHHHHHHHHCCCTTCEEEEEEEC-----CEEEEEEEEEGGGHHHHHHHHHHHHHHHCC--
T ss_pred             HHhcCCceEEEEccccccCcchhhhhhccceeCceEEEeCCcccccCCCCCEEEEEcChhhHHHHHHHHHHHHHHHHhhh
Confidence            98841   0       111101001111 011112               2222222110000    0   00       


Q ss_pred             --------------hhhhccccCCCC--cHHHHHHHhhCceEEEeC-----------ceEEEEcchhhHHHHHHHHHHhh
Q psy8224         133 --------------SRAIGRLAGKGG--RTKFTIENITKTRIVIAD-----------SKIHVLGSYQNVQVALKALSNLI  185 (766)
Q Consensus       133 --------------~r~~griiG~~G--~t~~~ie~~t~~~I~v~~-----------~~v~iiG~~~~l~~ar~~i~~~~  185 (766)
                                    ....++|||++|  .+++-|.+-|||+|.+.+           .+|.|.|+.+++..||+.|..++
T Consensus       180 ~~~~~~~s~~v~V~~~~H~~IIGk~G~n~~IkkIr~eTGv~I~FP~~~d~~d~~~~~~~ItItGs~e~V~~Ark~I~~lL  259 (376)
T 3n89_A          180 PAPENNFTLHFTLSTYYVDQVLGSSSTAQLMPVIERETTTIISYPCYNNRNETRGNIYEIKVVGNIDNVLKARRYIMDLL  259 (376)
T ss_dssp             CCCSSCEEEEEEEEGGGHHHHTCCTTSCCHHHHHHHHHTCEEECC---------CCEEEEEEESCHHHHHHHHHHHHHTS
T ss_pred             cccccceEEEEEeCHHHHHHhhcCCCcchHHHHHHHhhCCEEECCCCCCcccccCCceEEEEEeCHHHHHHHHHHHHhhC
Confidence                          124567999998  677999999999999863           25999999999999999999876

>2cte_A Vigilin; K homology type I domain, RNA-binding, cell sterol metabolism, beta-alpha-alpha-beta-BETA-alpha structure, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.51.1.1

Probab=98.06  E-value=2.3e-06  Score=74.77  Aligned_cols=53  Identities=21%  Similarity=0.248  Sum_probs=48.5

Q ss_pred             hhhccccCCCCcHHHHHHHhhCceEEEeC-----ceEEEEcchhhHHHHHHHHHHhhc
Q psy8224         134 RAIGRLAGKGGRTKFTIENITKTRIVIAD-----SKIHVLGSYQNVQVALKALSNLIL  186 (766)
Q Consensus       134 r~~griiG~~G~t~~~ie~~t~~~I~v~~-----~~v~iiG~~~~l~~ar~~i~~~~~  186 (766)
                      ..+|.|||++|+|++.|+..|||+|.|.+     .+|.|.|+.+++..|+..|..++.
T Consensus        26 ~~ig~IIG~gG~~Ik~I~~etg~~I~i~~~~~~~~~V~I~G~~e~v~~A~~~I~~i~~   83 (94)
T 2cte_A           26 EHHRFVIGKNGEKLQDLELKTATKIQIPRPDDPSNQIKITGTKEGIEKARHEVLLISA   83 (94)
T ss_dssp             TTHHHHHCSSSCHHHHHHHHTTCCCBCCCTTSSCCEEEEEECHHHHHHHHHHHHHHHH
T ss_pred             HHeeeeECCCChhHHHHHHHHCCEEEeCCCCCCCCeEEEEECHHHHHHHHHHHHHHhh
Confidence            45899999999999999999999999973     689999999999999999998873

>2opv_A KHSRP protein; KH domain, RNA binding protein, KSRP; NMR {Homo sapiens}

Probab=98.04  E-value=1.6e-05  Score=68.07  Aligned_cols=63  Identities=13%  Similarity=0.174  Sum_probs=56.9

Q ss_pred             ceEEEecCCCcchhhhccCcccHHHHHHhcCcEEEEEcccCe--------EEEEeCCCCCCHHHHHHHHHHHHHHHc
Q psy8224          30 DMRKVPVPNHRYGPLKENWMKIFTPIVEHLKLQVRFNLKSRN--------VEIRLSPETEDISNLQKAADFVKAFVY   98 (766)
Q Consensus        30 ~~~~i~iP~~r~~~l~~~~~~i~~~i~~~~~~~i~i~~~~~~--------v~i~~~~~t~d~~~~~ka~~~i~ai~~   98 (766)
                      .+..+.||+++++.|||+.|++++.|++.+|++|.|+. ++.        |.|.+     +|..+.+|+++|.++.+
T Consensus        14 ~~~~i~Ip~~~ig~IIGkgG~~Ik~I~~~tga~I~i~~-~~~~~~~~er~v~I~G-----~~~~v~~A~~~I~~i~~   84 (85)
T 2opv_A           14 TVQEIMIPAGKAGLVIGKGGETIKQLQERAGVKMILIQ-DGSQNTNVDKPLRIIG-----DPYKVQQACEMVMDILR   84 (85)
T ss_dssp             EEEEEEECTTTHHHHHTTTTHHHHHHHHHHTCEEEECS-SSCSSTTSCEEEEEEE-----CHHHHHHHHHHHHHHHT
T ss_pred             EEEEEEeChhheeeeECCCCHHHHHHHHHHCCEEEEcC-CCCCCCCCceEEEEEe-----CHHHHHHHHHHHHHHhc
Confidence            67899999999999999999999999999999999986 344        88886     88999999999998853

>1dtj_A RNA-binding neurooncological ventral antigen 2; KH domain, alpha-beta fold RNA-binding motif, immune system; 2.00A {Homo sapiens} SCOP: d.51.1.1 PDB: 1dt4_A

Probab=98.03  E-value=9.1e-06  Score=67.93  Aligned_cols=63  Identities=19%  Similarity=0.206  Sum_probs=57.1

Q ss_pred             ceEEEecCCCcchhhhccCcccHHHHHHhcCcEEEEEcc--------cCeEEEEeCCCCCCHHHHHHHHHHHHHHH
Q psy8224          30 DMRKVPVPNHRYGPLKENWMKIFTPIVEHLKLQVRFNLK--------SRNVEIRLSPETEDISNLQKAADFVKAFV   97 (766)
Q Consensus        30 ~~~~i~iP~~r~~~l~~~~~~i~~~i~~~~~~~i~i~~~--------~~~v~i~~~~~t~d~~~~~ka~~~i~ai~   97 (766)
                      .+..+.||++.+|.|||+.|++++.|.+.+|++|.|+..        ++.|.|.+     ++.++.+|+++|.++.
T Consensus         3 ~~~~i~Ip~~~vg~IIGkgG~~Ik~I~~~tga~I~i~~~~~~~~~~~~~~v~I~G-----~~~~v~~A~~~I~~~i   73 (76)
T 1dtj_A            3 ELVEMAVPENLVGAILGKGGKTLVEYQELTGARIQISKKGEFLPGTRNRRVTITG-----SPAATQAAQYLISQRV   73 (76)
T ss_dssp             EEEEEEEETTTHHHHHCSTTHHHHHHHHHHCCEEEECCTTCCSTTCCEEEEEEEE-----SHHHHHHHHHHHHHHC
T ss_pred             eEEEEEEChHHcceEECCCchHHHHHHHHhCCEEEECcCCCCCCCCceeEEEEEe-----CHHHHHHHHHHHHHHH
Confidence            578899999999999999999999999999999999864        47888987     6899999999999874

>2yqr_A KIAA0907 protein; structure genomics, KH domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=97.96  E-value=6.4e-06  Score=74.75  Aligned_cols=53  Identities=17%  Similarity=0.168  Sum_probs=47.3

Q ss_pred             hhhccccCCCCcHHHHHHHhhCceEEEeCc-----------------eEEEEcc-hhhHHHHHHHHHHhhc
Q psy8224         134 RAIGRLAGKGGRTKFTIENITKTRIVIADS-----------------KIHVLGS-YQNVQVALKALSNLIL  186 (766)
Q Consensus       134 r~~griiG~~G~t~~~ie~~t~~~I~v~~~-----------------~v~iiG~-~~~l~~ar~~i~~~~~  186 (766)
                      ..+|+|||++|+|++.||..|||+|.|.|+                 +|.|.+. .+.++.|+..|+.++.
T Consensus        28 n~ig~IIGpgG~tiK~I~~eTG~kI~I~G~gS~~~e~~~~~e~~e~l~V~I~a~~~e~i~~A~~~Ie~Ll~   98 (119)
T 2yqr_A           28 NVKEKVEGPGCSYLQHIQIETGAKVFLRGKGSGCIEPASGREAFEPMYIYISHPKPEGLAAAKKLCENLLQ   98 (119)
T ss_dssp             CHHHHHSCGGGHHHHHHHHHHCCEEEEESBTTTCCCTTTSSCCSSBCEEEEEESSHHHHHHHHHHHHHHHH
T ss_pred             CeeeeEECCCChHHHHHHHHHCCEEEEecCCccccccccccccCCCcEEEEEeCCHHHHHHHHHHHHHHhh
Confidence            459999999999999999999999999855                 7999865 6789999999999875

>2cte_A Vigilin; K homology type I domain, RNA-binding, cell sterol metabolism, beta-alpha-alpha-beta-BETA-alpha structure, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.51.1.1

Probab=97.92  E-value=1.1e-05  Score=70.38  Aligned_cols=63  Identities=11%  Similarity=0.058  Sum_probs=57.7

Q ss_pred             ceEEEecCCCcchhhhccCcccHHHHHHhcCcEEEEEcc---cCeEEEEeCCCCCCHHHHHHHHHHHHHHH
Q psy8224          30 DMRKVPVPNHRYGPLKENWMKIFTPIVEHLKLQVRFNLK---SRNVEIRLSPETEDISNLQKAADFVKAFV   97 (766)
Q Consensus        30 ~~~~i~iP~~r~~~l~~~~~~i~~~i~~~~~~~i~i~~~---~~~v~i~~~~~t~d~~~~~ka~~~i~ai~   97 (766)
                      .+..+.||++.++.|||++|++++.|++.+|++|.|+..   ++.|.|.+     ++..+.+|+++|.++.
T Consensus        17 ~t~~i~Ip~~~ig~IIG~gG~~Ik~I~~etg~~I~i~~~~~~~~~V~I~G-----~~e~v~~A~~~I~~i~   82 (94)
T 2cte_A           17 ASATVAIPKEHHRFVIGKNGEKLQDLELKTATKIQIPRPDDPSNQIKITG-----TKEGIEKARHEVLLIS   82 (94)
T ss_dssp             EEEEEECCTTTHHHHHCSSSCHHHHHHHHTTCCCBCCCTTSSCCEEEEEE-----CHHHHHHHHHHHHHHH
T ss_pred             eEEEEEEChHHeeeeECCCChhHHHHHHHHCCEEEeCCCCCCCCeEEEEE-----CHHHHHHHHHHHHHHh
Confidence            578899999999999999999999999999999999753   58999987     4899999999999985

>1k1g_A SF1-BO isoform; splicing, branch point sequence, protein/RNA recognition, complex E, KH domain, QUA2 homology; NMR {Homo sapiens} SCOP: d.51.1.1

Probab=97.91  E-value=8.9e-06  Score=75.27  Aligned_cols=54  Identities=26%  Similarity=0.376  Sum_probs=47.8

Q ss_pred             hhhccccCCCCcHHHHHHHhhCceEEEeCc-----------------------eEEEEcc-hhhHHHHHHHHHHhhcC
Q psy8224         134 RAIGRLAGKGGRTKFTIENITKTRIVIADS-----------------------KIHVLGS-YQNVQVALKALSNLILG  187 (766)
Q Consensus       134 r~~griiG~~G~t~~~ie~~t~~~I~v~~~-----------------------~v~iiG~-~~~l~~ar~~i~~~~~~  187 (766)
                      ..+|||||++|+|+|.||..|||+|.|.|+                       +|.|.|+ .+.+..|+..|+.++.-
T Consensus        22 n~iG~IIGP~G~tiK~Iq~eTG~kI~IrgkgS~~~~~~~~~~~~~~~~~~e~lhV~I~a~~~e~~~~A~~~I~~ll~~   99 (131)
T 1k1g_A           22 NFVGLLIGPRGNTLKNIEKECNAKIMIRGKGSVKEGKVGRKDGQMLPGEDEPLHALVTANTMENVKKAVEQIRNILKQ   99 (131)
T ss_dssp             HHHHHHHCSSSHHHHHHHHHSCCEEEEEESTTSSSSSSSSCCCCCSCCSSCCEEEEEEESSHHHHHHHHHHHHHHHTT
T ss_pred             ceeeeEECCCcHHHHHHHHHHCCeEEecCCcccccccccccccccccccCCCeEEEEEECCHHHHHHHHHHHHHHHhc
Confidence            359999999999999999999999999763                       6888884 56899999999999865

>1wvn_A Poly(RC)-binding protein 1; KH domain, RNA binding domain, RNA binding protein; 2.10A {Homo sapiens} SCOP: d.51.1.1

Probab=97.89  E-value=2e-05  Score=66.93  Aligned_cols=65  Identities=15%  Similarity=0.150  Sum_probs=58.3

Q ss_pred             CceEEEecCCCcchhhhccCcccHHHHHHhcCcEEEEEcc-----cCeEEEEeCCCCCCHHHHHHHHHHHHHHHc
Q psy8224          29 VDMRKVPVPNHRYGPLKENWMKIFTPIVEHLKLQVRFNLK-----SRNVEIRLSPETEDISNLQKAADFVKAFVY   98 (766)
Q Consensus        29 ~~~~~i~iP~~r~~~l~~~~~~i~~~i~~~~~~~i~i~~~-----~~~v~i~~~~~t~d~~~~~ka~~~i~ai~~   98 (766)
                      ..+..+.||++.+|.|||+.|++++.|.+.+|++|.|+..     ++.|+|.+     ++.++.+|+++|.++..
T Consensus         5 ~~~~~i~Ip~~~vg~IIGkgG~~Ik~I~~~sga~I~i~~~~~~~~~r~v~I~G-----~~~~v~~A~~~I~~~i~   74 (82)
T 1wvn_A            5 QTTHELTIPNNLIGCIIGRQGANINEIRQMSGAQIKIANPVEGSSGRQVTITG-----SAASISLAQYLINARLS   74 (82)
T ss_dssp             CEEEEEEEEGGGHHHHHCGGGHHHHHHHHHHCCEEEECCCCTTCSEEEEEEEE-----CHHHHHHHHHHHHHHTC
T ss_pred             cEEEEEEEchHhccceeCCCchhHHHHHHHhCCEEEEecCCCCCCceEEEEEc-----CHHHHHHHHHHHHHHHH
Confidence            3678999999999999999999999999999999999752     67899987     67999999999998853

>1we8_A Tudor and KH domain containing protein; structural genomics, riken structural genomics/proteomics initiative, RSGI, RNA binding protein; NMR {Mus musculus} SCOP: d.51.1.1

Probab=97.89  E-value=1.9e-05  Score=70.21  Aligned_cols=64  Identities=14%  Similarity=0.143  Sum_probs=58.1

Q ss_pred             ceEEEecCCCcchhhhccCcccHHHHHHhcCcEEEEEc-------ccCeEEEEeCCCCCCHHHHHHHHHHHHHHHc
Q psy8224          30 DMRKVPVPNHRYGPLKENWMKIFTPIVEHLKLQVRFNL-------KSRNVEIRLSPETEDISNLQKAADFVKAFVY   98 (766)
Q Consensus        30 ~~~~i~iP~~r~~~l~~~~~~i~~~i~~~~~~~i~i~~-------~~~~v~i~~~~~t~d~~~~~ka~~~i~ai~~   98 (766)
                      .+..+.||+++++.|||+.|++++.|++.+|++|.|+.       .++.|+|.+     ++..+.+|+++|.++..
T Consensus        15 ~~~~i~Ip~~~ig~IIGkgG~~Ik~I~~~tga~I~I~~~~~~~~~~~~~V~I~G-----~~~~v~~A~~~I~~~i~   85 (104)
T 1we8_A           15 VFEQLSVPQRSVGRIIGRGGETIRSICKASGAKITCDKESEGTLLLSRLIKISG-----TQKEVAAAKHLILEKVS   85 (104)
T ss_dssp             EEEEEEEETTTHHHHHTTTSHHHHHHHHHHCCEEEECCSSCCSSSSEEEEEEEE-----EHHHHHHHHHHHHHHHH
T ss_pred             EEEEEEEChhheeeeECCCCHHHHHHHHHHCCEEEEecCCCCCCCCcceEEEEc-----CHHHHHHHHHHHHHHHh
Confidence            67899999999999999999999999999999999986       478999987     55689999999999864

>2p2r_A Poly(RC)-binding protein 2; protein-DNA complex, RNA and DNA binding protein/DNA complex; 1.60A {Homo sapiens}

Probab=97.85  E-value=1.6e-05  Score=66.47  Aligned_cols=64  Identities=14%  Similarity=0.147  Sum_probs=58.4

Q ss_pred             ceEEEecCCCcchhhhccCcccHHHHHHhcCcEEEEEc-----ccCeEEEEeCCCCCCHHHHHHHHHHHHHHHc
Q psy8224          30 DMRKVPVPNHRYGPLKENWMKIFTPIVEHLKLQVRFNL-----KSRNVEIRLSPETEDISNLQKAADFVKAFVY   98 (766)
Q Consensus        30 ~~~~i~iP~~r~~~l~~~~~~i~~~i~~~~~~~i~i~~-----~~~~v~i~~~~~t~d~~~~~ka~~~i~ai~~   98 (766)
                      .+..+.||++.+|.|||+.|+.++.|.+.+|++|.|+.     .++.|.|.+     ++.++.+|+++|.++..
T Consensus         5 ~~~~i~Ip~~~vg~iIGkgG~~Ik~I~~~tga~I~i~~~~~~~~~~~v~I~G-----~~~~v~~A~~~I~~~i~   73 (76)
T 2p2r_A            5 TSHELTIPNDLIGCIIGRQGAKINEIRQMSGAQIKIANPVEGSTDRQVTITG-----SAASISLAQYLINVRLS   73 (76)
T ss_dssp             EEEEEEEEHHHHHHHHCGGGHHHHHHHHHHCCEEEECCCCTTCSEEEEEEEE-----CHHHHHHHHHHHHHHHT
T ss_pred             eEEEEEEChHHcceEECCCChHHHHHHHHHCCEEEEcCCCCCCCeEEEEEEe-----CHHHHHHHHHHHHHHHH
Confidence            57889999999999999999999999999999999985     478999987     68999999999998754

>3qww_A SET and MYND domain-containing protein 2; methyltransferase, HSP90, transferase-transferase inhibitor; HET: SFG; 1.80A {Mus musculus} PDB: 3qwv_A* 3s7d_A* 3s7b_A* 3s7f_A* 3s7j_A* 3tg4_A* 3tg5_A* 3rib_A*

Probab=97.82  E-value=2.3e-06  Score=95.76  Aligned_cols=63  Identities=29%  Similarity=0.424  Sum_probs=55.6

Q ss_pred             eecccccccccccCCceeeeecCccchhhhhhhcccCCCeeeecccCCCCCccccccccccchhh
Q psy8224         556 IYMKTAMLSHNCKPNTKHVIVNEDFSLQLIALVNICKGDIISTTYTQPFWGTMDRRLHLRMSKWI  620 (766)
Q Consensus       556 Lyp~~SllNHSC~PN~~~~f~~~~~~l~~~A~r~I~~GeeI~~sY~~~~~~~~~r~~~~~i~~gl  620 (766)
                      |||.+|++||||.||+.+.| ++ ..+.++|+++|++||||+++|++..|+..+|+..+...++|
T Consensus       198 l~p~~s~~NHsC~PN~~~~~-~~-~~~~~~a~r~I~~Geel~i~Y~~~~~~~~~R~~~L~~~~~F  260 (433)
T 3qww_A          198 IFPDVALMNHSCCPNVIVTY-KG-TLAEVRAVQEIHPGDEVFTSYIDLLYPTEDRNDRLRDSYFF  260 (433)
T ss_dssp             ECTTGGGSEECSSCSEEEEE-ET-TEEEEEESSCBCTTCEEEECCSCTTSCHHHHHHHHHHHHSC
T ss_pred             ecccccccCCCCCCCceEEE-cC-CEEEEEeccCcCCCCEEEEeecCCcCCHHHHHHHHhCcCCE
Confidence            79999999999999999999 54 47899999999999999999999999888887776655554

>1x4n_A FAR upstream element binding protein 1; KH domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Mus musculus} SCOP: d.51.1.1 PDB: 2opu_A

Probab=97.81  E-value=2.8e-05  Score=67.54  Aligned_cols=65  Identities=14%  Similarity=0.118  Sum_probs=58.4

Q ss_pred             CceEEEecCCCcchhhhccCcccHHHHHHhcCcEEEEEcc-----cCeEEEEeCCCCCCHHHHHHHHHHHHHHHc
Q psy8224          29 VDMRKVPVPNHRYGPLKENWMKIFTPIVEHLKLQVRFNLK-----SRNVEIRLSPETEDISNLQKAADFVKAFVY   98 (766)
Q Consensus        29 ~~~~~i~iP~~r~~~l~~~~~~i~~~i~~~~~~~i~i~~~-----~~~v~i~~~~~t~d~~~~~ka~~~i~ai~~   98 (766)
                      ..+..+.||.+.++.|||+.|++++.|++.++++|.|+..     ++.|+|.+     ++..+.+|+++|.++..
T Consensus        14 ~~~~~i~Ip~~~vG~IIGkgG~~Ik~I~~~tga~I~I~~~~~g~~~r~v~I~G-----~~e~v~~A~~~I~~~i~   83 (92)
T 1x4n_A           14 VMTEEYKVPDGMVGFIIGRGGEQISRIQQESGCKIQIAPDSGGLPERSCMLTG-----TPESVQSAKRLLDQIVE   83 (92)
T ss_dssp             CEEEEEEEEHHHHHHHHCSSSHHHHHHHHHSCCEEEECSCCTTCSEEEEEEEE-----CHHHHHHHHHHHHHHHH
T ss_pred             CEEEEEEEChHHcceeECCCchHHHHHHHHhCCEEEEcCCCCCCCccEEEEEe-----CHHHHHHHHHHHHHHHH
Confidence            4788999999999999999999999999999999999864     36888987     68999999999998854

>2cpq_A FragIle X mental retardation syndrome related protein 1, isoform B'; KH domain, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.51.1.1

Probab=97.80  E-value=9.6e-06  Score=69.76  Aligned_cols=64  Identities=11%  Similarity=0.040  Sum_probs=58.7

Q ss_pred             ceEEEecCCCcchhhhccCcccHHHHHHhcCcE-EEEEcccCeEEEEeCCCCCCHHHHHHHHHHHHHHH
Q psy8224          30 DMRKVPVPNHRYGPLKENWMKIFTPIVEHLKLQ-VRFNLKSRNVEIRLSPETEDISNLQKAADFVKAFV   97 (766)
Q Consensus        30 ~~~~i~iP~~r~~~l~~~~~~i~~~i~~~~~~~-i~i~~~~~~v~i~~~~~t~d~~~~~ka~~~i~ai~   97 (766)
                      .+..+.||+++++.+||..|++++.|.+.+|++ |.|+.++|.|.|..    .|..++.+|+++|..+-
T Consensus        15 ~i~~i~I~~dkIg~vIG~gGk~Ik~I~e~tGv~~IdI~eddG~V~I~g----~~~ea~~~A~~~I~~ie   79 (91)
T 2cpq_A           15 FHEEFVVREDLMGLAIGTHGSNIQQARKVPGVTAIELDEDTGTFRIYG----ESADAVKKARGFLEFVE   79 (91)
T ss_dssp             EEEEEECCHHHHHHHHTTTTHHHHHHHTSTTEEEEEEETTTTEEEEEE----SSHHHHHHHHHHHSCCC
T ss_pred             eEEEEEEChHHhhhhcCCCcHHHHHHHHHhCCeEEEEEcCCCEEEEEE----CCHHHHHHHHHHHHhhh
Confidence            677899999999999999999999999999998 99997779999997    58899999999998653

>2dgr_A Ring finger and KH domain-containing protein 1; structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=97.78  E-value=2.5e-05  Score=66.41  Aligned_cols=64  Identities=14%  Similarity=0.052  Sum_probs=56.0

Q ss_pred             CceEEEecCCCcchhhhccCcccHHHHHHhcCcEEEEE--cccCeEEEEeCCCCCCHHHHHHHHHHHHHHH
Q psy8224          29 VDMRKVPVPNHRYGPLKENWMKIFTPIVEHLKLQVRFN--LKSRNVEIRLSPETEDISNLQKAADFVKAFV   97 (766)
Q Consensus        29 ~~~~~i~iP~~r~~~l~~~~~~i~~~i~~~~~~~i~i~--~~~~~v~i~~~~~t~d~~~~~ka~~~i~ai~   97 (766)
                      ..+..+.||++.++.|||++|++++.|++.++++|+|.  ..++.|+|.+     ++.++.+|+++|..+.
T Consensus         9 ~~~~~i~VP~~~vG~IIGkgG~tIk~Iqe~Tga~I~I~~~~~~~~v~ItG-----~~e~v~~A~~~I~~~i   74 (83)
T 2dgr_A            9 QTTIQVRVPYRVVGLVVGPKGATIKRIQQRTHTYIVTPGRDKEPVFAVTG-----MPENVDRAREEIEAHI   74 (83)
T ss_dssp             SEEEEEECCHHHHHHHHTTTTSSHHHHHHHTTCEEECCCSSSCCEEEEEE-----CTTTHHHHHHHHHHHH
T ss_pred             ceEEEEEeChHHeeeeECCCchHHHHHHHHhCCeEEecCCCCCCeEEEEc-----CHHHHHHHHHHHHHHH
Confidence            37789999999999999999999999999999999998  3455667766     6789999999999863

>1zzk_A Heterogeneous nuclear ribonucleoprotein K; KH domian, alpha-beta fold, DNA binding protein; 0.95A {Homo sapiens} SCOP: d.51.1.1 PDB: 1zzj_A 1zzi_A

Probab=97.77  E-value=4.7e-05  Score=64.58  Aligned_cols=64  Identities=14%  Similarity=0.135  Sum_probs=57.4

Q ss_pred             ceEEEecCCCcchhhhccCcccHHHHHHhcCcEEEEEcc-----cCeEEEEeCCCCCCHHHHHHHHHHHHHHHc
Q psy8224          30 DMRKVPVPNHRYGPLKENWMKIFTPIVEHLKLQVRFNLK-----SRNVEIRLSPETEDISNLQKAADFVKAFVY   98 (766)
Q Consensus        30 ~~~~i~iP~~r~~~l~~~~~~i~~~i~~~~~~~i~i~~~-----~~~v~i~~~~~t~d~~~~~ka~~~i~ai~~   98 (766)
                      .+..+.||++.++.|||+.|++++.|.+.+|++|.|+..     ++.|+|.+     ++.++.+|+++|..+..
T Consensus         7 ~~~~i~Vp~~~vg~iIGkgG~~Ik~I~~~tga~I~i~~~~~~~~~~~v~I~G-----~~~~v~~A~~~I~~~i~   75 (82)
T 1zzk_A            7 ITTQVTIPKDLAGSIIGKGGQRIKQIRHESGASIKIDEPLEGSEDRIITITG-----TQDQIQNAQYLLQNSVK   75 (82)
T ss_dssp             EEEEEEEETTTGGGGTCGGGHHHHHHHHHHCCEEEECCTTSCSSEEEEEEEE-----CHHHHHHHHHHHHHHHH
T ss_pred             EEEEEEEChHhcCeeECCCchHHHHHHHHHCCEEEEcCCCCCCCceEEEEEe-----CHHHHHHHHHHHHHHHH
Confidence            678899999999999999999999999999999999753     46888987     68999999999998753

>1ec6_A RNA-binding protein NOVA-2; KH domain, alpha-beta fold, RNA-binding motif, protein/RNA structure, RNA binding protein/RNA complex; 2.40A {Homo sapiens} SCOP: d.51.1.1

Probab=97.76  E-value=2.6e-05  Score=67.03  Aligned_cols=64  Identities=19%  Similarity=0.200  Sum_probs=57.5

Q ss_pred             ceEEEecCCCcchhhhccCcccHHHHHHhcCcEEEEEcc--------cCeEEEEeCCCCCCHHHHHHHHHHHHHHHc
Q psy8224          30 DMRKVPVPNHRYGPLKENWMKIFTPIVEHLKLQVRFNLK--------SRNVEIRLSPETEDISNLQKAADFVKAFVY   98 (766)
Q Consensus        30 ~~~~i~iP~~r~~~l~~~~~~i~~~i~~~~~~~i~i~~~--------~~~v~i~~~~~t~d~~~~~ka~~~i~ai~~   98 (766)
                      .+..+.||++.+|.|||+.|++++.|.+.+|++|.|+..        ++.|.|.+     ++.++.+|+++|.++..
T Consensus         3 ~t~~i~IP~~~vG~IIGkgG~~Ik~I~~~tga~I~I~~~~~~~~g~~~r~v~I~G-----~~~~v~~A~~~I~~~i~   74 (87)
T 1ec6_A            3 ELVEIAVPENLVGAILGKGGKTLVEYQELTGARIQISKKGEFLPGTRNRRVTITG-----SPAATQAAQYLISQRVT   74 (87)
T ss_dssp             SEEEEEEEHHHHHHHHCGGGHHHHHHHHHHCCEEEECCTTCBSTTSCEEEEEEES-----SHHHHHHHHHHHHHHHH
T ss_pred             eEEEEEEChHHcCeeECCCcHhHHHHHHHhCCEEEEccCCCCCCCCCceEEEEEc-----CHHHHHHHHHHHHHHHh
Confidence            578899999999999999999999999999999999864        36888876     68999999999998854

>2odd_A Protein CBFA2T1; MYND zinc finger, cross-braced topology, poly-proline, proline-tryptophan interaction, metal binding protein; NMR {Homo sapiens}

Probab=97.75  E-value=1.8e-06  Score=69.82  Aligned_cols=56  Identities=21%  Similarity=0.424  Sum_probs=34.8

Q ss_pred             ccccCCceEeeecccccccCCCCCCCcccccCCCCCCCcccCCCCCcccCCCCCc-cccCccCC--CCCCcHhhhhhhh
Q psy8224         372 KDIREGEIILEEKPLVVGPKTASVPLCLGCHRTLKPTSMEENEPLSFYKCSDCGW-PLCAPRCK--SLPSHQKECKLMK  447 (766)
Q Consensus       372 r~~~~ge~Il~e~P~~~~p~~~~~~~C~~C~~~~~~~~~~~~~~~~~~~C~~C~~-~yCS~~C~--~~~~H~~EC~~l~  447 (766)
                      ++|.+|++|+.+.|.        ...|..|...            .+.+|++|+. .|||.+|+  +|..|+.+|..+.
T Consensus         2 ~~~~~G~~il~~~~~--------~~~C~~C~~~------------~~~~Cs~C~~~~YCs~~CQ~~~W~~Hk~~C~~~~   60 (64)
T 2odd_A            2 NLYFQGENLYFQGDS--------SESCWNCGRK------------ASETCSGCNTARYCGSFCQHKDWEKHHHICGQTL   60 (64)
T ss_dssp             -------------CC--------SSSCTTTSSC------------CCEEETTTSCCEESSHHHHHHHHHHHTTTTTSSC
T ss_pred             CcCCCCCEEeeCCCC--------CCcCccccCC------------CcccCCCCCChhhCCHHHHHHHHHHHhHHHhccc
Confidence            579999999999882        4689999873            2789999998 89999998  4888999998543

>3qwp_A SET and MYND domain-containing protein 3; SMYD3,SET and MYND domain, zinc finger MYND domain-containin 1, structural genomics; HET: SAM; 1.53A {Homo sapiens} PDB: 3mek_A* 3oxg_A* 3oxf_A* 3pdn_A* 3oxl_A* 3ru0_A*

Probab=97.73  E-value=2.7e-06  Score=95.02  Aligned_cols=63  Identities=29%  Similarity=0.453  Sum_probs=55.3

Q ss_pred             eecccccccccccCCceeeeecCccchhhhhhhcccCCCeeeecccCCCCCccccccccccchhh
Q psy8224         556 IYMKTAMLSHNCKPNTKHVIVNEDFSLQLIALVNICKGDIISTTYTQPFWGTMDRRLHLRMSKWI  620 (766)
Q Consensus       556 Lyp~~SllNHSC~PN~~~~f~~~~~~l~~~A~r~I~~GeeI~~sY~~~~~~~~~r~~~~~i~~gl  620 (766)
                      |||.+|++||||.||+...| + +..+.++|+++|++||||+++|++..++..+|+..+...++|
T Consensus       198 l~~~~s~~NHsC~PN~~~~~-~-~~~~~~~a~r~I~~GeEl~isY~~~~~~~~~R~~~L~~~~~F  260 (429)
T 3qwp_A          198 LYPSISLLNHSCDPNCSIVF-N-GPHLLLRAVRDIEVGEELTICYLDMLMTSEERRKQLRDQYCF  260 (429)
T ss_dssp             ECTTGGGCEECSSCSEEEEE-E-TTEEEEEECSCBCTTCEEEECCSCSSCCHHHHHHHHHHHHCC
T ss_pred             EchhhHhhCcCCCCCeEEEE-e-CCEEEEEEeeeECCCCEEEEEecCCCCCHHHHHHHHhccCCe
Confidence            69999999999999999999 5 457999999999999999999999998888887766655544

>1x4m_A FAR upstream element binding protein 1; KH domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Mus musculus} SCOP: d.51.1.1

Probab=97.73  E-value=2.8e-05  Score=67.77  Aligned_cols=64  Identities=13%  Similarity=0.205  Sum_probs=57.2

Q ss_pred             ceEEEecCCCcchhhhccCcccHHHHHHhcCcEEEEEcc-------cCeEEEEeCCCCCCHHHHHHHHHHHHHHHc
Q psy8224          30 DMRKVPVPNHRYGPLKENWMKIFTPIVEHLKLQVRFNLK-------SRNVEIRLSPETEDISNLQKAADFVKAFVY   98 (766)
Q Consensus        30 ~~~~i~iP~~r~~~l~~~~~~i~~~i~~~~~~~i~i~~~-------~~~v~i~~~~~t~d~~~~~ka~~~i~ai~~   98 (766)
                      .+..+.||+++++.|||+.|++++.|++.++++|.|+..       ++.|.|.+     ++..+.+|+++|.++.+
T Consensus        15 ~~~~i~Ip~~~vG~IIGkgG~~Ik~I~~~tga~I~I~~~~~~~~~~~r~v~I~G-----~~~~v~~A~~~I~~~i~   85 (94)
T 1x4m_A           15 AVQEIMIPASKAGLVIGKGGETIKQLQERAGVKMVMIQDGPQNTGADKPLRITG-----DPYKVQQAKEMVLELIR   85 (94)
T ss_dssp             EEEEEEECHHHHHHHSCSSSSHHHHHHHHHTSEEEECCSCCCSSCSCEEEEEEE-----CTTTHHHHHHHHHHHHC
T ss_pred             EEEEEEEChhhcceEECCCCHHHHHHHHHHCCeEEecCCCCCCCCCceEEEEEe-----CHHHHHHHHHHHHHHHh
Confidence            788999999999999999999999999999999999753       34588887     66799999999999865

>1j5k_A Heterogeneous nuclear ribonucleoprotein K; single-stranded DNA binding protein, transcription factor, hnRNP K, CT element, C-MYC oncogene; NMR {Homo sapiens} SCOP: d.51.1.1 PDB: 1khm_A

Probab=97.72  E-value=2.7e-05  Score=67.22  Aligned_cols=64  Identities=14%  Similarity=0.135  Sum_probs=58.1

Q ss_pred             ceEEEecCCCcchhhhccCcccHHHHHHhcCcEEEEEcc-----cCeEEEEeCCCCCCHHHHHHHHHHHHHHHc
Q psy8224          30 DMRKVPVPNHRYGPLKENWMKIFTPIVEHLKLQVRFNLK-----SRNVEIRLSPETEDISNLQKAADFVKAFVY   98 (766)
Q Consensus        30 ~~~~i~iP~~r~~~l~~~~~~i~~~i~~~~~~~i~i~~~-----~~~v~i~~~~~t~d~~~~~ka~~~i~ai~~   98 (766)
                      .+.++.||++.++.|||+.|++++.|++.++++|+|+..     ++.|+|.+     ++.++.+|+++|..+..
T Consensus        14 ~~~~i~Ip~~~vg~IIGkgG~~Ik~I~~~tga~I~I~~~~~~~~~~~v~I~G-----~~e~v~~A~~~I~~~i~   82 (89)
T 1j5k_A           14 ITTQVTIPKDLAGSIIGKGGQRIKQIRHESGASIKIDEPLEGSEDRIITITG-----TQDQIQNAQYLLQNSVK   82 (89)
T ss_dssp             EEEEEEEEHHHHHHHHCGGGHHHHHHHHHTCCEEEECSCCSSSSEEEEEEEE-----EHHHHHHHHHHHHHHHH
T ss_pred             EEEEEEEChhhcceeECCCCHhHHHHHHHhCCeEEecCCCCCCCccEEEEEc-----CHHHHHHHHHHHHHHHH
Confidence            678899999999999999999999999999999999863     68899987     58899999999998853

>2w5y_A Histone-lysine N-methyltransferase HRX; transcription regulation, chromosomal rearrangement, protein lysine methyltransferase, proto-oncogene; HET: SAH; 2.00A {Homo sapiens} PDB: 2w5z_A*

Probab=97.70  E-value=1e-05  Score=80.02  Aligned_cols=49  Identities=18%  Similarity=0.482  Sum_probs=36.6

Q ss_pred             ccccccccccCCceeeee--cCccchhhhhhhcccCCCeeeecccCCCCCc
Q psy8224         559 KTAMLSHNCKPNTKHVIV--NEDFSLQLIALVNICKGDIISTTYTQPFWGT  607 (766)
Q Consensus       559 ~~SllNHSC~PN~~~~f~--~~~~~l~~~A~r~I~~GeeI~~sY~~~~~~~  607 (766)
                      .+.++||||.||+...++  +....+.++|+|+|++||||+++|+..+|..
T Consensus       124 ~arfiNHSC~PN~~~~~~~~~g~~~i~i~A~rdI~~GEELt~dY~~~~~~~  174 (192)
T 2w5y_A          124 AARFINHSCEPNCYSRVINIDGQKHIVIFAMRKIYRGEELTYDYKFPIEDA  174 (192)
T ss_dssp             GGGGCEECSSCSEEEEEEEETTEEEEEEEESSCBCTTCEEEECCCC-----
T ss_pred             hhHhhccCCCCCEEEEEEEECCcEEEEEEECcccCCCCEEEEEcCCchhcC
Confidence            467899999999976431  3334688999999999999999999987753

>3f9x_A Histone-lysine N-methyltransferase SETD8; methyltransferase, SET, lysine, alternative splicing, cell cycle, cell division, chromatin regulator, chromosomal protein, coiled coil; HET: MLY SAH; 1.25A {Homo sapiens} PDB: 3f9w_A* 3f9y_A* 3f9z_A* 1zkk_A* 4ij8_A* 2bqz_A*

Probab=97.70  E-value=7.3e-06  Score=79.28  Aligned_cols=49  Identities=18%  Similarity=0.146  Sum_probs=38.0

Q ss_pred             ccccccccccCCceee--eecCccchhhhhhhcccCCCeeeecccCCCCCc
Q psy8224         559 KTAMLSHNCKPNTKHV--IVNEDFSLQLIALVNICKGDIISTTYTQPFWGT  607 (766)
Q Consensus       559 ~~SllNHSC~PN~~~~--f~~~~~~l~~~A~r~I~~GeeI~~sY~~~~~~~  607 (766)
                      .+.++||||.||+...  +.+...++.++|+|+|.+||||+++|+..++..
T Consensus       107 ~aRfiNHSC~PN~~~~~~~~~~~~~i~~~A~rdI~~GEELt~dY~~~~~~~  157 (166)
T 3f9x_A          107 LGRLINHSKCGNCQTKLHDIDGVPHLILIASRDIAAGEELLFDYGDRSKAS  157 (166)
T ss_dssp             SGGGCEECTTCSEEEEEEEETTEEEEEEEESSCBCTTCBCEECCCCCCHHH
T ss_pred             hhheeecCCCCCeeEEEEEECCeeEEEEEECCcCCCCCEEEEEcCCChhhH
Confidence            3567999999997643  212334688999999999999999999876544

>2hh2_A KH-type splicing regulatory protein; KH-RNA binding domain, RNA binding protein; NMR {Homo sapiens}

Probab=97.68  E-value=5e-05  Score=67.89  Aligned_cols=64  Identities=13%  Similarity=0.121  Sum_probs=57.2

Q ss_pred             ceEEEecCCCcchhhhccCcccHHHHHHhcCcEEEEEcc--------cCeEEEEeCCCCCCHHHHHHHHHHHHHHHc
Q psy8224          30 DMRKVPVPNHRYGPLKENWMKIFTPIVEHLKLQVRFNLK--------SRNVEIRLSPETEDISNLQKAADFVKAFVY   98 (766)
Q Consensus        30 ~~~~i~iP~~r~~~l~~~~~~i~~~i~~~~~~~i~i~~~--------~~~v~i~~~~~t~d~~~~~ka~~~i~ai~~   98 (766)
                      .+.++.||.+.++.|||+.|++++.|++.++++|+|+..        ++.|+|.+     ++.++.+|+++|..+..
T Consensus         7 ~~~~i~IP~~~vG~IIGkgG~~Ik~I~~~TGa~I~I~~~~~~~~~~~~r~V~I~G-----~~e~v~~A~~~I~~~i~   78 (107)
T 2hh2_A            7 GEMTFSIPTHKCGLVIGRGGENVKAINQQTGAFVEISRQLPPNGDPNFKLFIIRG-----SPQQIDHAKQLIEEKIE   78 (107)
T ss_dssp             CCEEEEEEGGGTTTTSTTTTCHHHHHHHHSSSEEEECCCCCTTCCTTEEEEEEES-----CHHHHHHHHHHHHHHSC
T ss_pred             CeEEEEECHHHcCccCCCCcHHHHHHHHHhCCEEEEcCccCCCCCCCceEEEEEC-----CHHHHHHHHHHHHHHHh
Confidence            368899999999999999999999999999999999865        37888876     88999999999998753

>2hh3_A KH-type splicing regulatory protein; KH-RNA binding domain, RNA binding protein; NMR {Homo sapiens}

Probab=97.67  E-value=6.6e-05  Score=66.92  Aligned_cols=64  Identities=17%  Similarity=0.249  Sum_probs=56.2

Q ss_pred             ceEEEecCCCcchhhhccCcccHHHHHHhcCcEEEEEccc-----CeEEEEeCCCCCCHHHHHHHHHHHHHHHc
Q psy8224          30 DMRKVPVPNHRYGPLKENWMKIFTPIVEHLKLQVRFNLKS-----RNVEIRLSPETEDISNLQKAADFVKAFVY   98 (766)
Q Consensus        30 ~~~~i~iP~~r~~~l~~~~~~i~~~i~~~~~~~i~i~~~~-----~~v~i~~~~~t~d~~~~~ka~~~i~ai~~   98 (766)
                      .+..+.||++.++.|||+.|++++.|++.++++|+|+.+.     +.|+|..     ++.++.+|+++|..+..
T Consensus        11 ~~~~i~Ip~~~iG~IIGkgG~~Ik~I~~~TGakI~I~~~~~~~~er~V~I~G-----~~e~v~~A~~~I~~ii~   79 (106)
T 2hh3_A           11 GGIDVPVPRHSVGVVIGRSGEMIKKIQNDAGVRIQFKQDDGTGPEKIAHIMG-----PPDRCEHAARIINDLLQ   79 (106)
T ss_dssp             -CEEEEEETTTHHHHHTTTTHHHHHHHHHHTCEEEECSSCSSSSEEEEEEES-----SHHHHHHHHHHHHHHHH
T ss_pred             eEEEEEECHHHcCccCCCCcHHHHHHHHHHCcEEEEecCCCCCceeEEEEEe-----CHHHHHHHHHHHHHHHh
Confidence            5689999999999999999999999999999999997543     3688886     58999999999998853

>2h21_A Ribulose-1,5 bisphosphate carboxylase/oxygenase; SET domain, protein lysine methyltransferase, transferase; HET: SAM; 2.45A {Pisum sativum} SCOP: a.166.1.1 b.85.7.3 PDB: 2h23_A* 2h2e_A* 2h2j_A* 1p0y_A* 1ozv_A* 1mlv_A*

Probab=97.67  E-value=1.7e-05  Score=88.85  Aligned_cols=67  Identities=12%  Similarity=0.161  Sum_probs=50.1

Q ss_pred             chhhhhhhcccCCCCCCCe---EEEEE------eCCeEEEEEEecccCCCCeEEeecCCCCCCHHHHHHHHhCCCCcEEe
Q psy8224         617 SKWIYMKTAMLSHNCKPNT---KHVIV------NEDFSLQLIALVNIRKGDIISTTYTQPFWGTMDRRLHLRMSKCFDCT  687 (766)
Q Consensus       617 ~~glyp~~s~~NHsC~PN~---~~~~~------~~g~~l~vra~r~I~~GeeI~isY~~~~~~~~~Rr~~L~~~y~F~C~  687 (766)
                      +.++.|.+-|+||+|.||.   .+.+.      +.+..++++|.++|++||||++||++.. +    ...|...|||...
T Consensus       183 ~~~LvP~~D~~NH~~~~~~~~~~~~~~~~~~~~~~~~~~~l~a~~~i~~Geei~~sYG~~~-~----N~~LL~~YGFv~~  257 (440)
T 2h21_A          183 NLVVVPMADLINHSAGVTTEDHAYEVKGAAGLFSWDYLFSLKSPLSVKAGEQVYIQYDLNK-S----NAELALDYGFIEP  257 (440)
T ss_dssp             CCBCCSSTTSCEECTTCCCCCCEEEC----------CEEEEEESSCBCTTSBCEECSCTTC-C----HHHHHHHSSCCCS
T ss_pred             ceEEeechHhhcCCCCcccccceeeecCcccccCCCceEEEEECCCCCCCCEEEEeCCCCC-C----HHHHHHhCCCCcC
Confidence            4689999999999999974   22221      1246799999999999999999999752 1    3455667999765


Q ss_pred             c
Q psy8224         688 C  688 (766)
Q Consensus       688 C  688 (766)
                      -
T Consensus       258 ~  258 (440)
T 2h21_A          258 N  258 (440)
T ss_dssp             C
T ss_pred             C
Confidence            3

>2bl5_A MGC83862 protein, quaking protein; STAR proteins, GSG proteins, RNA binding; NMR {Xenopus laevis} SCOP: d.51.1.1

Probab=97.65  E-value=5e-05  Score=70.67  Aligned_cols=55  Identities=20%  Similarity=0.342  Sum_probs=46.1

Q ss_pred             hhhccccCCCCcHHHHHHHhhCceEEEeCc-------------------------eEEEEcch-h-----hHHHHHHHHH
Q psy8224         134 RAIGRLAGKGGRTKFTIENITKTRIVIADS-------------------------KIHVLGSY-Q-----NVQVALKALS  182 (766)
Q Consensus       134 r~~griiG~~G~t~~~ie~~t~~~I~v~~~-------------------------~v~iiG~~-~-----~l~~ar~~i~  182 (766)
                      ..+|||||++|.|.|.||..|||+|.|.|+                         .|.|.|.- +     .+..|++.|.
T Consensus        17 NfiG~IiGPrG~t~K~ie~eTg~kI~IrGkGS~kd~~~e~~~~g~~~~~~~~epLHV~Isa~~~~~~~~~~l~~A~~~I~   96 (140)
T 2bl5_A           17 NFVGRILGPRGLTAKQLEAETGCKIMVRGKGSMRDKKKEEQNRGKPNWEHLNEDLHVLITVEDAQNRAELKLKRAVEEVK   96 (140)
T ss_dssp             CHHHHHTTTTHHHHHHHHHHHSEEEEEESTTSSCCHHHHHTSTTSHHHHTTTSCCEEEEEECSCCHHHHHHHHHHHHHHH
T ss_pred             CeeeEEECCCcchHHHHHHHHCCeEEEecCCCcccccccccccCCCCccccCCCcEEEEEecCchhhHHHHHHHHHHHHH
Confidence            349999999999999999999999999872                         67788843 3     6888999999


Q ss_pred             HhhcCC
Q psy8224         183 NLILGS  188 (766)
Q Consensus       183 ~~~~~~  188 (766)
                      .++.-.
T Consensus        97 ~lL~p~  102 (140)
T 2bl5_A           97 KLLVPA  102 (140)
T ss_dssp             HHSSCC
T ss_pred             HHCCCC
Confidence            988543

>1vig_A Vigilin; RNA-binding protein, ribonucleoprotein; NMR {Homo sapiens} SCOP: d.51.1.1 PDB: 1vih_A

Probab=97.64  E-value=7.5e-05  Score=61.49  Aligned_cols=62  Identities=18%  Similarity=0.132  Sum_probs=54.8

Q ss_pred             ceEEEecCCCcchhhhccCcccHHHHHHhcCcEEEEEccc---CeEEEEeCCCCCCHHHHHHHHHHHHHH
Q psy8224          30 DMRKVPVPNHRYGPLKENWMKIFTPIVEHLKLQVRFNLKS---RNVEIRLSPETEDISNLQKAADFVKAF   96 (766)
Q Consensus        30 ~~~~i~iP~~r~~~l~~~~~~i~~~i~~~~~~~i~i~~~~---~~v~i~~~~~t~d~~~~~ka~~~i~ai   96 (766)
                      .+..+.||+..++.|||++|+.++.|++.+|++|.|+...   +.|.|.+     ++.++.+|+++|..+
T Consensus         5 ~~~~i~I~~~~ig~iIG~gG~~I~~I~e~tg~~I~i~~~g~~~~~V~I~G-----~~~~v~~A~~~I~~i   69 (71)
T 1vig_A            5 DYVEINIDHKFHRHLIGKSGANINRIKDQYKVSVRIPPDSEKSNLIRIEG-----DPQGVQQAKRELLEL   69 (71)
T ss_dssp             EEEEEEECSSHHHHHTCSSCCHHHHHHHHTCCEEECCCCCSSSEEEEEEE-----SSHHHHHHHHHHHHT
T ss_pred             EEEEEEECHHHhhhhcCCCCccHHHHHHHHCCEEEECCCCCcccEEEEEc-----CHHHHHHHHHHHHHH
Confidence            5678999999999999999999999999999999997543   2899998     357899999999875

>3n71_A Histone lysine methyltransferase SMYD1; heart development, transcription; HET: SFG MES; 2.30A {Mus musculus}

Probab=97.58  E-value=5.9e-06  Score=93.86  Aligned_cols=65  Identities=25%  Similarity=0.480  Sum_probs=51.2

Q ss_pred             hhhccccccccccccccccccccccCCCCcccccCCc--ccCCCCCCCCcccCCchhhccccccccCCCcccccc
Q psy8224         287 ETSVEDQKCQLNVDDQKCQLNVDKKMDSGKCEVCKVA--ASLKCGGCNQVFYCSKSHQKQHWKEHKPGCAKYKVV  359 (766)
Q Consensus       287 g~~ll~e~~~l~~~~~~~~~~~~~~~~~~~C~~C~~~--~~~~C~~C~~v~YCs~~cq~~~w~~Hk~~C~~l~v~  359 (766)
                      |.+++.+++.+        .++........|..|+..  ...+|++|+.++|||++||+.+|+.|+.+|+.+...
T Consensus        30 Ge~Il~e~P~~--------~v~~~~~~~~~C~~C~~~~~~~~~C~~C~~~~yCs~~Cq~~~w~~Hk~eC~~~~~~   96 (490)
T 3n71_A           30 ADVIFAERAYS--------AVVFDSLINFVCHTCFKRQEKLHRCGQCKFAHYCDRTCQKDAWLNHKNECAAIKKY   96 (490)
T ss_dssp             TCEEEEECCSE--------EEECGGGTTTBCTTTCCBCSCCEECTTTSCCEESSHHHHHHHHHHHHHHHHHHHHH
T ss_pred             CCEEEecCCce--------EEecccccCCcCCCCCCCCCCCCCCCCCCCcCcCCHHHhhhhhhHHHHHhHHHHhc
Confidence            55566665543        334445677899999875  467899999999999999999999999999887543

>2cpq_A FragIle X mental retardation syndrome related protein 1, isoform B'; KH domain, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.51.1.1

Probab=97.58  E-value=4e-05  Score=65.90  Aligned_cols=54  Identities=17%  Similarity=0.150  Sum_probs=47.6

Q ss_pred             hhhccccCCCCcHHHHHHHhhCce-EEEeC--ceEEEEc-chhhHHHHHHHHHHhhcC
Q psy8224         134 RAIGRLAGKGGRTKFTIENITKTR-IVIAD--SKIHVLG-SYQNVQVALKALSNLILG  187 (766)
Q Consensus       134 r~~griiG~~G~t~~~ie~~t~~~-I~v~~--~~v~iiG-~~~~l~~ar~~i~~~~~~  187 (766)
                      ..+|-+||++|++++.|.+.||++ |.|.+  .+|.|.| +.+.++.|+..|+.+.+-
T Consensus        24 dkIg~vIG~gGk~Ik~I~e~tGv~~IdI~eddG~V~I~g~~~ea~~~A~~~I~~ie~~   81 (91)
T 2cpq_A           24 DLMGLAIGTHGSNIQQARKVPGVTAIELDEDTGTFRIYGESADAVKKARGFLEFVEDF   81 (91)
T ss_dssp             HHHHHHHTTTTHHHHHHHTSTTEEEEEEETTTTEEEEEESSHHHHHHHHHHHSCCCCC
T ss_pred             HHhhhhcCCCcHHHHHHHHHhCCeEEEEEcCCCEEEEEECCHHHHHHHHHHHHhhheE
Confidence            448999999999999999999998 99983  8999999 788999999998776543

>2ctj_A Vigilin; K homology type I domain, RNA-binding, cell sterol metabolism, beta-alpha-alpha-beta-BETA-alpha structure, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.51.1.1

Probab=97.57  E-value=9.2e-05  Score=64.57  Aligned_cols=53  Identities=23%  Similarity=0.218  Sum_probs=48.6

Q ss_pred             hhhccccCCCCcHHHHHHHhh-CceEEEeC-c----eEEEEcchhhHHHHHHHHHHhhc
Q psy8224         134 RAIGRLAGKGGRTKFTIENIT-KTRIVIAD-S----KIHVLGSYQNVQVALKALSNLIL  186 (766)
Q Consensus       134 r~~griiG~~G~t~~~ie~~t-~~~I~v~~-~----~v~iiG~~~~l~~ar~~i~~~~~  186 (766)
                      ..++.|||++|++++.|++.| |++|.|.+ .    +|.|.|+...+..|+..|..+..
T Consensus        26 ~~i~~iIG~gGk~Ir~I~eetggv~I~i~~~g~~~~~V~I~G~~~~v~~A~~~I~~iv~   84 (95)
T 2ctj_A           26 KLHNSLIGTKGRLIRSIMEECGGVHIHFPVEGSGSDTVVIRGPSSDVEKAKKQLLHLAE   84 (95)
T ss_dssp             HHHHHHHCSSSHHHHHHHHHHTSCEEECCCTTTTCCEEEEESCHHHHHHHHHHHHHHHH
T ss_pred             HHHhhhCCCCchhHHHHHHHcCCCEEEeCCCCCCcceEEEEcCHHHHHHHHHHHHHHHh
Confidence            458999999999999999999 99999975 3    89999999999999999999875

>2axy_A Poly(RC)-binding protein 2; protein-DNA complex, DNA binding protein-DNA complex; 1.70A {Homo sapiens} SCOP: d.51.1.1 PDB: 2pqu_A 2py9_A 1ztg_A 3vke_A*

Probab=97.56  E-value=8.1e-05  Score=61.64  Aligned_cols=64  Identities=8%  Similarity=0.018  Sum_probs=56.6

Q ss_pred             ceEEEecCCCcchhhhccCcccHHHHHHhcCcEEEEEccc---CeEEEEeCCCCCCHHHHHHHHHHHHHHHc
Q psy8224          30 DMRKVPVPNHRYGPLKENWMKIFTPIVEHLKLQVRFNLKS---RNVEIRLSPETEDISNLQKAADFVKAFVY   98 (766)
Q Consensus        30 ~~~~i~iP~~r~~~l~~~~~~i~~~i~~~~~~~i~i~~~~---~~v~i~~~~~t~d~~~~~ka~~~i~ai~~   98 (766)
                      .+..+.||++.+|.|||+.|++++.|.+.+|++|.|+...   +.|+|.+     ++.++.+|.++|..+.+
T Consensus         5 ~~~~i~ip~~~ig~iIGkgG~~Ik~I~~~tga~I~i~~~~~~er~v~I~G-----~~~~v~~A~~~I~~~l~   71 (73)
T 2axy_A            5 LTIRLLMHGKEVGSIIGKKGESVKKMREESGARINISEGNCPERIITLAG-----PTNAIFKAFAMIIDKLE   71 (73)
T ss_dssp             EEEEEEEEHHHHHHHHCGGGHHHHHHHHHHCCEEEECSSCCSEEEEEEEE-----CHHHHHHHHHHHHHHHH
T ss_pred             EEEEEEEChhHeeeEECCCCHHHHHHHHHHCCEEEEecCCCCcEEEEEEe-----CHHHHHHHHHHHHHHHh
Confidence            5688999999999999999999999999999999998652   3688887     68999999999987653

>2ctm_A Vigilin; K homology type I domain, RNA-binding, cell sterol metabolism, beta-alpha-alpha-beta-BETA-alpha structure, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.51.1.1

Probab=97.56  E-value=0.00022  Score=62.19  Aligned_cols=64  Identities=17%  Similarity=0.206  Sum_probs=56.6

Q ss_pred             ceEEEecCCCcchhhhccCcccHHHHHHhcCcEEEEEccc----CeEEEEeCCCCCCHHHHHHHHHHHHHHHc
Q psy8224          30 DMRKVPVPNHRYGPLKENWMKIFTPIVEHLKLQVRFNLKS----RNVEIRLSPETEDISNLQKAADFVKAFVY   98 (766)
Q Consensus        30 ~~~~i~iP~~r~~~l~~~~~~i~~~i~~~~~~~i~i~~~~----~~v~i~~~~~t~d~~~~~ka~~~i~ai~~   98 (766)
                      -+..+.||+..++.|||+.|++++.|++.++++|.|....    +.|.|.+     .+..+.+|+++|..+..
T Consensus        17 vt~~i~Ip~~~ig~IIG~gG~~Ir~I~e~tg~~I~i~~~g~~~~~~V~I~G-----~~e~v~~A~~~I~~i~~   84 (95)
T 2ctm_A           17 VSEDVPLDHRVHARIIGARGKAIRKIMDEFKVDIRFPQSGAPDPNCVTVTG-----LPENVEEAIDHILNLEE   84 (95)
T ss_dssp             CCEEEECCTTTHHHHHCSSSCHHHHHHHHHTCEEECCCTTCSCTTEEEEES-----CHHHHHHHHHHHHHHHH
T ss_pred             EEEEEEECHHHccccCCCCcchHHHHHHHHCCeEEecCCCCCCCcEEEEEc-----CHHHHHHHHHHHHHHHH
Confidence            5788999999999999999999999999999999997542    2799987     57899999999999853

>3ope_A Probable histone-lysine N-methyltransferase ASH1L; SET, nucleus; HET: SAM; 2.90A {Homo sapiens}

Probab=97.56  E-value=2.4e-05  Score=79.42  Aligned_cols=49  Identities=20%  Similarity=0.396  Sum_probs=39.7

Q ss_pred             ccccccccccCCceeeee--cCccchhhhhhhcccCCCeeeecccCCCCCc
Q psy8224         559 KTAMLSHNCKPNTKHVIV--NEDFSLQLIALVNICKGDIISTTYTQPFWGT  607 (766)
Q Consensus       559 ~~SllNHSC~PN~~~~f~--~~~~~l~~~A~r~I~~GeeI~~sY~~~~~~~  607 (766)
                      .+.++||||.||+.....  +...++.++|+|+|++||||+++|+..+|..
T Consensus       146 ~aRfiNHSC~PN~~~~~~~~~~~~~i~~~A~RdI~~GEELT~dY~~~~~~~  196 (222)
T 3ope_A          146 EARFINHSCDPNCEMQKWSVNGVYRIGLYALKDMPAGTELTYDYNFHSFNV  196 (222)
T ss_dssp             GGGGCEECSSCSEEEEEEEETTEEEEEEEESSCBCTTCBCEECTTSSBCCC
T ss_pred             cceeeccCCCCCeEeEEEEECCeEEEEEEECCccCCCCEEEEECCCcccCC
Confidence            456889999999875431  3334688999999999999999999988765

>2ctk_A Vigilin; K homology type I domain, RNA-binding, cell sterol metabolism, beta-alpha-alpha-beta-BETA-alpha structure, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.51.1.1

Probab=97.55  E-value=6.9e-05  Score=66.57  Aligned_cols=67  Identities=12%  Similarity=0.023  Sum_probs=58.5

Q ss_pred             ceEEEecCCCcchhhhccCcccHHHHHHhcCcEEEEEccc---CeEEEEeCCCCCCHHHHHHHHHHHHHHHcCCC
Q psy8224          30 DMRKVPVPNHRYGPLKENWMKIFTPIVEHLKLQVRFNLKS---RNVEIRLSPETEDISNLQKAADFVKAFVYGFD  101 (766)
Q Consensus        30 ~~~~i~iP~~r~~~l~~~~~~i~~~i~~~~~~~i~i~~~~---~~v~i~~~~~t~d~~~~~ka~~~i~ai~~gf~  101 (766)
                      -+..+.||++.++.|||++|++++.|++.+|++|.|+...   +.|.|.+     .+..+.+|+++|..+...+.
T Consensus        17 ~~~~i~Ip~~~ig~IIG~gG~~Ir~I~eetg~~I~I~~~g~~~~~V~I~G-----~~e~v~~A~~~I~~i~~e~e   86 (104)
T 2ctk_A           17 VTIEVEVPFDLHRYVIGQKGSGIRKMMDEFEVNIHVPAPELQSDIIAITG-----LAANLDRAKAGLLERVKELQ   86 (104)
T ss_dssp             EEEEEECCHHHHHHHHCSSSHHHHHHHHHTCCEEECCCTTTTCCEEEEEE-----CHHHHHHHHHHHHHHHHHHH
T ss_pred             EEEEEEEChHHccceeCCCchHHHHHHHHHCCEEEecCCCCCcceEEEEc-----CHHHHHHHHHHHHHHHhhHH
Confidence            6788999999999999999999999999999999997542   3899998     45899999999999975443

>2jvz_A KH type-splicing, FAR upstream element-binding protein 2; RNA binding protein, KH domain, KSRP, posttranscriptional regulation, mRNA decay; NMR {Homo sapiens}

Probab=97.52  E-value=0.00011  Score=70.71  Aligned_cols=56  Identities=18%  Similarity=0.356  Sum_probs=50.1

Q ss_pred             hhhccccCCCCcHHHHHHHhhCceEEEeC---------ceEEEEcchhhHHHHHHHHHHhhcCCC
Q psy8224         134 RAIGRLAGKGGRTKFTIENITKTRIVIAD---------SKIHVLGSYQNVQVALKALSNLILGSP  189 (766)
Q Consensus       134 r~~griiG~~G~t~~~ie~~t~~~I~v~~---------~~v~iiG~~~~l~~ar~~i~~~~~~~~  189 (766)
                      ...|+|||++|++++.|++.||++|.|..         +.|.|.|+.+++..|+.+|..++...+
T Consensus        11 ~~~g~iIGk~G~~Ik~i~~~tg~~I~i~~~~~~~~~~~r~v~I~G~~~~v~~A~~~I~~ii~e~~   75 (164)
T 2jvz_A           11 GKAGLVIGKGGETIKQLQERAGVKMILIQDGSQNTNVDKPLRIIGDPYKVQQACEMVMDILRERD   75 (164)
T ss_dssp             TCHHHHTCTTTHHHHHHHHTSCSEEEECCCTTSSSSSCEEEEEEECHHHHHHHHHHHHHHTTCSS
T ss_pred             hheeEEECCChHHHHHHHHHhCCeEEEecCCCCCCCCceEEEEEcCHHHHHHHHHHHHHHHHhcc
Confidence            45999999999999999999999999952         379999999999999999999987554

>3ooi_A Histone-lysine N-methyltransferase, H3 lysine-36 lysine-20 specific; SET domain, S-adenosyl-L methionine; HET: SAM; 1.75A {Homo sapiens}

Probab=97.50  E-value=3.3e-05  Score=78.84  Aligned_cols=49  Identities=29%  Similarity=0.476  Sum_probs=40.0

Q ss_pred             ccccccccccCCceeee--ecCccchhhhhhhcccCCCeeeecccCCCCCc
Q psy8224         559 KTAMLSHNCKPNTKHVI--VNEDFSLQLIALVNICKGDIISTTYTQPFWGT  607 (766)
Q Consensus       559 ~~SllNHSC~PN~~~~f--~~~~~~l~~~A~r~I~~GeeI~~sY~~~~~~~  607 (766)
                      .+.++||||.||+...+  .+...++.++|+|+|.+||||+++|+..+|..
T Consensus       165 ~aRfiNHSC~PN~~~~~~~~~~~~~i~~~A~RdI~~GEELT~dY~~~~~~~  215 (232)
T 3ooi_A          165 YARFMNHCCQPNCETQKWSVNGDTRVGLFALSDIKAGTELTFNYNLECLGN  215 (232)
T ss_dssp             GGGGCEECSSCSEEEEEEEETTEEEEEEEESSCBCTTCBCEECCTTCSTTC
T ss_pred             ccccccccCCCCeEEEEEEECCceEEEEEECCccCCCCEEEEECCCCcCCC
Confidence            56789999999986532  14445788999999999999999999887754

>2anr_A Neuro-oncological ventral antigen 1; protein-RNA complex, KH domain, hairpin, RNA-binding protein complex; HET: 5BU; 1.94A {Homo sapiens} PDB: 2ann_A*

Probab=97.49  E-value=9.4e-05  Score=72.22  Aligned_cols=57  Identities=23%  Similarity=0.348  Sum_probs=51.1

Q ss_pred             hhhccccCCCCcHHHHHHHhhCceEEEeCc----------eEEEEcchhhHHHHHHHHHHhhcCCCC
Q psy8224         134 RAIGRLAGKGGRTKFTIENITKTRIVIADS----------KIHVLGSYQNVQVALKALSNLILGSPP  190 (766)
Q Consensus       134 r~~griiG~~G~t~~~ie~~t~~~I~v~~~----------~v~iiG~~~~l~~ar~~i~~~~~~~~p  190 (766)
                      ..+|+|||++|++++.|+..||++|.|.+.          .|.|.|+.+++..|+..|...+...++
T Consensus        15 ~~ig~iIGkgG~~Ik~i~~~tg~~I~i~~~~~~~~~~~er~v~I~G~~~~v~~A~~~I~~~~~~~~~   81 (178)
T 2anr_A           15 YAAGSIIGKGGQTIVQLQKETGATIKLSKSKDFYPGTTERVCLIQGTIEALNAVHGFIAEKIREMPQ   81 (178)
T ss_dssp             HHHHHHHCGGGHHHHHHHHHHCCEEEECCTTCBCTTSSEEEEEEEECHHHHHHHHHHHHHHHTCCCC
T ss_pred             hHeeeeECCCcHHHHHHHHHhCCeEEEecCCCCCCCCCCceEEEEeCHHHHHHHHHHHHHHHhccCC
Confidence            569999999999999999999999999742          589999999999999999999876544

>2jzx_A Poly(RC)-binding protein 2; PCBP2, KH domains, RNA binding, DNA-binding, nucleus, phosph ribonucleoprotein, RNA-binding, RNA binding protein; NMR {Homo sapiens}

Probab=97.48  E-value=8.4e-05  Score=71.25  Aligned_cols=53  Identities=19%  Similarity=0.342  Sum_probs=48.2

Q ss_pred             hhhccccCCCCcHHHHHHHhhCceEEEeCc-----eEEEEcchhhHHHHHHHHHHhhc
Q psy8224         134 RAIGRLAGKGGRTKFTIENITKTRIVIADS-----KIHVLGSYQNVQVALKALSNLIL  186 (766)
Q Consensus       134 r~~griiG~~G~t~~~ie~~t~~~I~v~~~-----~v~iiG~~~~l~~ar~~i~~~~~  186 (766)
                      ...|+|||++|++++.|++.||++|.|.+.     .|.|.|+.+++..|+..|...+.
T Consensus        14 ~~~g~iIGkgG~~Ik~i~~~tg~~I~i~~~~~~~r~v~I~G~~~~v~~A~~~I~~~i~   71 (160)
T 2jzx_A           14 KEVGSIIGKKGESVKKMREESGARINISEGNCPERIITLAGPTNAIFKAFAMIIDKLE   71 (160)
T ss_dssp             HHHHHHHCGGGHHHHHHHHHHCSEEEEECCTTTEEEEEEEEEHHHHHHHHHHHHHHHH
T ss_pred             hheeeeECCCcHHHHHHHHHHCCEEEEcCCCCCceEEEEEeCHHHHHHHHHHHHHHHH
Confidence            559999999999999999999999999865     79999999999999998887663

>1j4w_A FUSE binding protein; single-stranded DNA binding protein; HET: DNA; NMR {Homo sapiens} SCOP: d.51.1.1 d.51.1.1

Probab=97.45  E-value=9.3e-05  Score=72.02  Aligned_cols=56  Identities=21%  Similarity=0.289  Sum_probs=50.2

Q ss_pred             hhhccccCCCCcHHHHHHHhhCceEEEeC-------ceEEEEcchhhHHHHHHHHHHhhcCCC
Q psy8224         134 RAIGRLAGKGGRTKFTIENITKTRIVIAD-------SKIHVLGSYQNVQVALKALSNLILGSP  189 (766)
Q Consensus       134 r~~griiG~~G~t~~~ie~~t~~~I~v~~-------~~v~iiG~~~~l~~ar~~i~~~~~~~~  189 (766)
                      ..+|+|||++|++++.|++.|||+|.|.+       +.|.|.|+.+++..|+..|..+++...
T Consensus        12 ~~vg~iIGkgG~~Ik~i~~~tg~~I~i~~~~~~~~~r~v~I~G~~~~v~~A~~~I~~~~~~~~   74 (174)
T 1j4w_A           12 FAVGIVIGRNGEMIKKIQNDAGVRIQFKPDDGTTPERIAQITGPPDRAQHAAEIITDLLRSVQ   74 (174)
T ss_dssp             HHHHHHHCGGGHHHHHHHHHHCCEEEEECCTTSCSEEEEEEEECHHHHHHHHHHHHHHHHHHC
T ss_pred             hheeeeecCCchHHHHHHHHhCCEEEEecCCCCCCccEEEEEeCHHHHHHHHHHHHHHHHhcc
Confidence            45999999999999999999999999974       369999999999999999999886543

>2ctl_A Vigilin; K homology type I domain, RNA-binding, cell sterol metabolism, beta-alpha-alpha-beta-BETA-alpha structure, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.51.1.1

Probab=97.44  E-value=0.00024  Score=62.17  Aligned_cols=64  Identities=17%  Similarity=0.045  Sum_probs=57.1

Q ss_pred             ceEEEecCCCcchhhhccCcccHHHHHHhcCcEEEEEccc------CeEEEEeCCCCCCHHHHHHHHHHHHHHHc
Q psy8224          30 DMRKVPVPNHRYGPLKENWMKIFTPIVEHLKLQVRFNLKS------RNVEIRLSPETEDISNLQKAADFVKAFVY   98 (766)
Q Consensus        30 ~~~~i~iP~~r~~~l~~~~~~i~~~i~~~~~~~i~i~~~~------~~v~i~~~~~t~d~~~~~ka~~~i~ai~~   98 (766)
                      .+..+.||+..++.|||+.|++++.|.+.+|++|.|....      +.|.|.+     .+.++.+|+++|..+..
T Consensus        17 ~~~~i~Ip~~~ig~IIGkgG~~Ik~I~~etg~~I~i~~~g~~~~~~~~V~I~G-----~~e~v~~A~~~I~~iv~   86 (97)
T 2ctl_A           17 FKLSVTVDPKYHPKIIGRKGAVITQIRLEHDVNIQFPDKDDGNQPQDQITITG-----YEKNTEAARDAILRIVG   86 (97)
T ss_dssp             CEEEEECCTTTHHHHSCSSSCHHHHHHHHHTCEEECCCTTTCSSCSSEEEEES-----CHHHHHHHHHHHHHHHH
T ss_pred             eeEEEEECHHHhhhcCCCCchhHHHHHHHHCCEEEecCCCCCCCCccEEEEEe-----CHHHHHHHHHHHHHHHH
Confidence            6789999999999999999999999999999999997543      3788987     47899999999999863

>3bo5_A Histone-lysine N-methyltransferase setmar; SET domain, chromati regulator, DNA damage, DNA repair, DNA-binding, nucleus, ST genomics; HET: SAH; 1.59A {Homo sapiens}

Probab=97.37  E-value=6.4e-05  Score=79.23  Aligned_cols=49  Identities=24%  Similarity=0.381  Sum_probs=40.2

Q ss_pred             ccccccccccCCceeeee--cC-ccchhhhhhhcccCCCeeeecccCCCCCc
Q psy8224         559 KTAMLSHNCKPNTKHVIV--NE-DFSLQLIALVNICKGDIISTTYTQPFWGT  607 (766)
Q Consensus       559 ~~SllNHSC~PN~~~~f~--~~-~~~l~~~A~r~I~~GeeI~~sY~~~~~~~  607 (766)
                      .+.++||||.||+....+  +. ..++.++|+|+|++||||+++|+..||..
T Consensus       205 ~arfiNHSC~PN~~~~~~~~~~~~~~i~~~A~rdI~~GEELt~dY~~~~~~~  256 (290)
T 3bo5_A          205 IGRFLNHSCEPNLLMIPVRIDSMVPKLALFAAKDIVPEEELSYDYSGRYLNL  256 (290)
T ss_dssp             GGGGCEECSSCSEEEEEEESSSSSCEEEEEESSCBCTTCEEEECTTSCTTCC
T ss_pred             chheeeecCCCCEEEEEEEeCCCceEEEEEEccccCCCCEEEEECCCccccc
Confidence            567899999999976421  32 13688999999999999999999999875

>3krm_A Insulin-like growth factor 2 mRNA-binding protein 1; KH domain, cell projection, cytoplasm, nucleus, phosphoprotein, translation regulation; 2.75A {Homo sapiens}

Probab=97.27  E-value=0.00019  Score=68.90  Aligned_cols=54  Identities=19%  Similarity=0.242  Sum_probs=48.4

Q ss_pred             hhhccccCCCCcHHHHHHHhhCceEEEeCc--------eEEEEcchhhHHHHHHHHHHhhcC
Q psy8224         134 RAIGRLAGKGGRTKFTIENITKTRIVIADS--------KIHVLGSYQNVQVALKALSNLILG  187 (766)
Q Consensus       134 r~~griiG~~G~t~~~ie~~t~~~I~v~~~--------~v~iiG~~~~l~~ar~~i~~~~~~  187 (766)
                      ...|.|||++|++++.|+..||++|.|.+.        .|.|.|+.+++..|+..|...+..
T Consensus        12 ~~~g~iIGk~G~~Ik~i~~~tg~~I~i~~~~~~~~~~r~v~I~G~~e~v~~A~~~I~~~~~e   73 (163)
T 3krm_A           12 QAVGAIIGKKGQHIKQLSRFASASIKIAPPETPDSKVRMVIITGPPEAQFKAQGRIYGKLKE   73 (163)
T ss_dssp             GGHHHHHCGGGHHHHHHHHHHTCEEEECCCSSTTCSEEEEEEEECHHHHHHHHHHHHHHHHH
T ss_pred             hhcceeECCCcHHHHHHHHHHCCeEEEcCCCCCCCCceEEEEEcCHHHHHHHHHHHHHHHhc
Confidence            458999999999999999999999999763        499999999999999999887743

>3qxy_A N-lysine methyltransferase SETD6; epigenetics, protein lysine methyltransferase, transferase, network VIA methyllysine signaling; HET: SAM; 2.09A {Homo sapiens} PDB: 3rc0_A*

Probab=97.26  E-value=0.00014  Score=81.60  Aligned_cols=76  Identities=20%  Similarity=0.163  Sum_probs=60.9

Q ss_pred             CCHHHHHHHHhhhccccccccccC----CceeEEEeecccccccccccCCceeeeecCccchhhhhhhcccCCCeeeecc
Q psy8224         525 VSEETILRIAGILDTNAFDIRRSV----GKIKIRGIYMKTAMLSHNCKPNTKHVIVNEDFSLQLIALVNICKGDIISTTY  600 (766)
Q Consensus       525 ~s~~~i~~i~~~l~~Naf~i~~~~----~~~~~~gLyp~~SllNHSC~PN~~~~f~~~~~~l~~~A~r~I~~GeeI~~sY  600 (766)
                      ++.+.+....+.+..-+|.+....    .+..+.+|.|.+.|+||+|.||+...| ++ +.+.++|.++|++||||+++|
T Consensus       184 ~t~e~f~wA~~~v~SRsf~~~~~~~~~~~~~~~~~LvP~~D~~NH~~~~~~~~~~-~~-~~~~~~a~~~i~~Geei~~~Y  261 (449)
T 3qxy_A          184 RSLELYHQLVALVMAYSFQEPLEEEEDEKEPNSPVMVPAADILNHLANHNANLEY-SA-NCLRMVATQPIPKGHEIFNTY  261 (449)
T ss_dssp             CCHHHHHHHHHHHHHHCBCCCCC-----CCCCCCBBCTTGGGCEECSSCSEEEEE-CS-SEEEEEESSCBCTTCEEEECC
T ss_pred             CcHHHHHHHHHHHHHHhcccccCcccccccCCceeEeecHHHhcCCCCCCeEEEE-eC-CeEEEEECCCcCCCchhhccC
Confidence            566777777777777777664321    124567899999999999999999888 54 478999999999999999999


Q ss_pred             cC
Q psy8224         601 TQ  602 (766)
Q Consensus       601 ~~  602 (766)
                      |+
T Consensus       262 G~  263 (449)
T 3qxy_A          262 GQ  263 (449)
T ss_dssp             SS
T ss_pred             CC
Confidence            97

>2f69_A Histone-lysine N-methyltransferase, H3 lysine-4 specific SET7; SET domain, protein lysine methyltransferase, enzyme- peptide-adohcy complex; HET: MLZ SAH; 1.30A {Homo sapiens} SCOP: b.76.2.1 b.85.7.1 PDB: 3m53_A* 3m55_A* 3m54_A* 3m56_A* 3m58_A* 3m57_A* 3m59_A* 3m5a_A* 1xqh_A* 4e47_A* 1n6a_A* 1o9s_A* 3cbp_A* 3cbm_A* 3cbo_A* 3os5_A*

Probab=97.24  E-value=9.9e-05  Score=76.54  Aligned_cols=47  Identities=11%  Similarity=0.043  Sum_probs=36.5

Q ss_pred             ccccccccccCCceeeee-cC--ccchhhhhhhcccCCCeeeecccCCCC
Q psy8224         559 KTAMLSHNCKPNTKHVIV-NE--DFSLQLIALVNICKGDIISTTYTQPFW  605 (766)
Q Consensus       559 ~~SllNHSC~PN~~~~f~-~~--~~~l~~~A~r~I~~GeeI~~sY~~~~~  605 (766)
                      .+.++||||.||+...+. ++  +..+.++|+|+|++||||+++|+..+-
T Consensus       186 ~aRfiNHSC~PN~~~~~~~~~~~~~~i~i~A~RdI~~GEELt~dYg~~~~  235 (261)
T 2f69_A          186 LGHKANHSFTPNCIYDMFVHPRFGPIKCIRTLRAVEADEELTVAYGYDHS  235 (261)
T ss_dssp             CGGGCEECSSCSEEEEEEEETTTEEEEEEEESSCBCTTCEEEECCCCCSC
T ss_pred             ceeeEeeCCCCCeEEEEEEcCCCCcEEEEEECcccCCCCEEEEEcCCccc
Confidence            357899999999987652 22  223478999999999999999997543

>1ml9_A Histone H3 methyltransferase DIM-5; adoMet-dependent methyltransferase histone H3 lysine- 9 methylation; 1.98A {Neurospora crassa} SCOP: b.85.7.1 PDB: 1peg_A*

Probab=97.17  E-value=0.00011  Score=78.03  Aligned_cols=49  Identities=29%  Similarity=0.466  Sum_probs=35.2

Q ss_pred             ccccccccccCCceeeeecCc------cchhhhhhhcccCCCeeeecccCCCCCc
Q psy8224         559 KTAMLSHNCKPNTKHVIVNED------FSLQLIALVNICKGDIISTTYTQPFWGT  607 (766)
Q Consensus       559 ~~SllNHSC~PN~~~~f~~~~------~~l~~~A~r~I~~GeeI~~sY~~~~~~~  607 (766)
                      .+.++||||.||+....+..+      .++.++|+|+|++||||+++|+..+|..
T Consensus       220 ~arfiNHSC~PN~~~~~~~~~~~~~~~~~i~~~A~rdI~~GeELt~dY~~~~~~~  274 (302)
T 1ml9_A          220 PTRFINHSCDPNMAIFARVGDHADKHIHDLALFAIKDIPKGTELTFDYVNGLTGL  274 (302)
T ss_dssp             GGGGCEECSSCSEEEEEEESSGGGGGGCEEEEEESSCBCTTCEEEECTTC-----
T ss_pred             HHHhcccCCCCCeeEEEEEeccCCCCceEEEEEECCCcCCCCEEEEEECCCcccc
Confidence            467899999999965431111      2578999999999999999999988764

>1h3i_A Histone H3 lysine 4 specific methyltransferase; 2.1A {Homo sapiens} SCOP: b.76.2.1 b.85.7.1 PDB: 1mt6_A* 1n6c_A* 1muf_A

Probab=97.09  E-value=0.00012  Score=77.52  Aligned_cols=45  Identities=11%  Similarity=0.073  Sum_probs=35.3

Q ss_pred             ccccccccccCCceeeee-cCc-cc-hhhhhhhcccCCCeeeecccCC
Q psy8224         559 KTAMLSHNCKPNTKHVIV-NED-FS-LQLIALVNICKGDIISTTYTQP  603 (766)
Q Consensus       559 ~~SllNHSC~PN~~~~f~-~~~-~~-l~~~A~r~I~~GeeI~~sY~~~  603 (766)
                      .+.++||||.||+...++ ++. .. +.++|+|+|++||||+++|+-.
T Consensus       240 ~ar~iNHsc~pN~~~~~~~~~~~~~~~~~~a~r~I~~geElt~~Yg~~  287 (293)
T 1h3i_A          240 LGHKANHSFTPNCIYDMFVHPRFGPIKCIRTLRAVEADEELTVAYGYD  287 (293)
T ss_dssp             CGGGSEEESSCSEEEEEEEETTTEEEEEEEESSCBCTTCEEEEEEETT
T ss_pred             ceeeeccCCCCCeEEEEEEcCCCCcEEEEEECCccCCCCEEEEecCCC
Confidence            356889999999987652 211 23 4789999999999999999854

>1mvh_A Cryptic LOCI regulator 4; lysine methyltransferase, CLR4, SET-domain; 2.30A {Schizosaccharomyces pombe} SCOP: b.85.7.1 PDB: 1mvx_A

Probab=97.06  E-value=0.00019  Score=75.87  Aligned_cols=48  Identities=19%  Similarity=0.290  Sum_probs=38.1

Q ss_pred             ccccccccccCCceee--eecC----ccchhhhhhhcccCCCeeeecccCCCCC
Q psy8224         559 KTAMLSHNCKPNTKHV--IVNE----DFSLQLIALVNICKGDIISTTYTQPFWG  606 (766)
Q Consensus       559 ~~SllNHSC~PN~~~~--f~~~----~~~l~~~A~r~I~~GeeI~~sY~~~~~~  606 (766)
                      .+.++||||.||+...  +.+.    ..++.++|+|+|++||||+++|+..+|.
T Consensus       213 ~aRfiNHSC~PN~~~~~v~~~~~~~~~~~i~~~A~rdI~~GEELt~dY~~~~~~  266 (299)
T 1mvh_A          213 VSRFFNHSCSPNIAIYSAVRNHGFRTIYDLAFFAIKDIQPLEELTFDYAGAKDF  266 (299)
T ss_dssp             GGGGCEECSSCSEEEEEEESCTTCTTSCEEEEEESSCBCTTCBCEECCCTTSSS
T ss_pred             hhheEeecCCCCeEEEEEEeecCCCCceEEEEEEccCcCCCCEEEEEcCCcccc
Confidence            5668999999999652  2121    1267899999999999999999998883

>3hna_A Histone-lysine N-methyltransferase, H3 lysine-9 specific 5; EHMT1, structural genomics, SGC, structural genomics consortium, alternative splicing, ANK repeat; HET: MLZ SAH; 1.50A {Homo sapiens} PDB: 2rfi_A* 2igq_A* 3mo0_A* 3mo2_A* 3mo5_A* 3sw9_A* 3swc_A* 4h4h_A* 4i51_A* 3fpd_A* 3k5k_A* 3nni_A* 3rjw_A* 2o8j_A*

Probab=97.06  E-value=9.1e-05  Score=77.91  Aligned_cols=49  Identities=20%  Similarity=0.493  Sum_probs=37.5

Q ss_pred             ccccccccccCCcee--eeecCc----cchhhhhhhcccCCCeeeecccCCCCCc
Q psy8224         559 KTAMLSHNCKPNTKH--VIVNED----FSLQLIALVNICKGDIISTTYTQPFWGT  607 (766)
Q Consensus       559 ~~SllNHSC~PN~~~--~f~~~~----~~l~~~A~r~I~~GeeI~~sY~~~~~~~  607 (766)
                      .+.++||||.||+..  .+....    .++.++|+|+|++||||+++|+..+|..
T Consensus       216 ~aRFiNHSC~PN~~~~~v~~~~~d~~~~~i~~~A~RdI~~GEELT~dYg~~~~~~  270 (287)
T 3hna_A          216 VSRFINHHCEPNLVPVRVFMAHQDLRFPRIAFFSTRLIEAGEQLGFDYGERFWDI  270 (287)
T ss_dssp             GGGGCEECSSCSEEEEEEESSCCCTTCCEEEEEESSCBCTTCBCEECCCHHHHHH
T ss_pred             chheeeecCCCCceeEEEEEecCCCCceeEEEEEcceeCCCCeEEEeCCCccccc
Confidence            456789999999863  231221    2678999999999999999999876643

>2ctj_A Vigilin; K homology type I domain, RNA-binding, cell sterol metabolism, beta-alpha-alpha-beta-BETA-alpha structure, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.51.1.1

Probab=97.01  E-value=0.00072  Score=58.89  Aligned_cols=62  Identities=19%  Similarity=0.249  Sum_probs=55.4

Q ss_pred             ceEEEecCCCcchhhhccCcccHHHHHHhc-CcEEEEEcccC----eEEEEeCCCCCCHHHHHHHHHHHHHHH
Q psy8224          30 DMRKVPVPNHRYGPLKENWMKIFTPIVEHL-KLQVRFNLKSR----NVEIRLSPETEDISNLQKAADFVKAFV   97 (766)
Q Consensus        30 ~~~~i~iP~~r~~~l~~~~~~i~~~i~~~~-~~~i~i~~~~~----~v~i~~~~~t~d~~~~~ka~~~i~ai~   97 (766)
                      .+..+.||+..++.|||..|++++.|++.+ |++|.|.. .|    .|.|.+     ....+.+|++.|+.+.
T Consensus        17 vt~~i~Ip~~~i~~iIG~gGk~Ir~I~eetggv~I~i~~-~g~~~~~V~I~G-----~~~~v~~A~~~I~~iv   83 (95)
T 2ctj_A           17 AEVEVSIPAKLHNSLIGTKGRLIRSIMEECGGVHIHFPV-EGSGSDTVVIRG-----PSSDVEKAKKQLLHLA   83 (95)
T ss_dssp             CCEEEECCHHHHHHHHCSSSHHHHHHHHHHTSCEEECCC-TTTTCCEEEEES-----CHHHHHHHHHHHHHHH
T ss_pred             EEEEEEECHHHHhhhCCCCchhHHHHHHHcCCCEEEeCC-CCCCcceEEEEc-----CHHHHHHHHHHHHHHH
Confidence            678899999999999999999999999999 99999974 45    999998     3349999999999885

>3u1k_A Polyribonucleotide nucleotidyltransferase 1, MITO; RNAse PH, KH domain, exoribonuclease; HET: CIT; 2.13A {Homo sapiens}

Probab=96.96  E-value=0.00057  Score=79.07  Aligned_cols=64  Identities=11%  Similarity=0.098  Sum_probs=57.6

Q ss_pred             CceEEEecCCCcchhhhccCcccHHHHHHhcCcEEEEEcccCeEEEEeCCCCCCHHHHHHHHHHHHHHH
Q psy8224          29 VDMRKVPVPNHRYGPLKENWMKIFTPIVEHLKLQVRFNLKSRNVEIRLSPETEDISNLQKAADFVKAFV   97 (766)
Q Consensus        29 ~~~~~i~iP~~r~~~l~~~~~~i~~~i~~~~~~~i~i~~~~~~v~i~~~~~t~d~~~~~ka~~~i~ai~   97 (766)
                      +-+..+.||+++++.|||+.|++++.|++.+|++|.|+ ++|.|.|..    .|+.++.+|+++|++|.
T Consensus       566 p~~~~~~I~~~kI~~vIG~gG~~Ik~I~e~tg~~I~I~-d~G~V~I~~----~~~~~~~~A~~~I~~i~  629 (630)
T 3u1k_A          566 PVVETVQVPLSKRAKFVGPGGYNLKKLQAETGVTISQV-DEETFSVFA----PTPSAMHEARDFITEIC  629 (630)
T ss_dssp             CEEEEEECCHHHHHHHHCGGGHHHHHHHHHHCCEEEEC-SSSEEEEEE----SSHHHHHHHHHHTTC--
T ss_pred             CeEEEEEeChhHhheeECCCChhHHHHHHHHCCEEEEc-CCcEEEEEe----CCHHHHHHHHHHHHHHh
Confidence            35788999999999999999999999999999999998 679999998    58899999999998774

>2ctf_A Vigilin; K homology type I domain, RNA-binding, cell sterol metabolism, beta-alpha-alpha-beta-BETA-alpha structure, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.51.1.1

Probab=96.88  E-value=0.0011  Score=58.56  Aligned_cols=53  Identities=23%  Similarity=0.345  Sum_probs=48.1

Q ss_pred             hhhccccCCCCcHHHHHHH-hhCceEEEe--CceEEEEcchhhHHHHHHHHHHhhc
Q psy8224         134 RAIGRLAGKGGRTKFTIEN-ITKTRIVIA--DSKIHVLGSYQNVQVALKALSNLIL  186 (766)
Q Consensus       134 r~~griiG~~G~t~~~ie~-~t~~~I~v~--~~~v~iiG~~~~l~~ar~~i~~~~~  186 (766)
                      +..+.|||++|.+++.|+. .++++|.+.  ++.|.|-|+.+.+..|+..|..+++
T Consensus        36 ~~h~~IIG~~G~~Ik~i~~~~~~v~I~fp~~~~~ItI~G~~~~V~~a~~~I~~~v~   91 (102)
T 2ctf_A           36 WLHRFIIGKKGQNLAKITQQMPKVHIEFTEGEDKITLEGPTEDVSVAQEQIEGMVK   91 (102)
T ss_dssp             TTHHHHHTTTTCHHHHHHHHCSSSEEEECSSSCEEEEEECHHHHHHHHHHHHHHHH
T ss_pred             HHHhhhcCCCCccHHHHHHHcCCcEEEeCCCCCEEEEECCHHHHHHHHHHHHHHHH
Confidence            5688999999999999999 589999998  6779999999999999999988874

>3db5_A PR domain zinc finger protein 4; methyltransferase, PRDM4, structural genomics, structural GE consortium, SGC, DNA-binding, metal-binding, nucleus; 2.15A {Homo sapiens}

Probab=96.85  E-value=0.00073  Score=64.11  Aligned_cols=45  Identities=9%  Similarity=0.003  Sum_probs=36.8

Q ss_pred             hhcccCCCCCC---CeEEEEEeCCeEEEEEEecccCCCCeEEeecCCCCC
Q psy8224         623 KTAMLSHNCKP---NTKHVIVNEDFSLQLIALVNIRKGDIISTTYTQPFW  669 (766)
Q Consensus       623 ~~s~~NHsC~P---N~~~~~~~~g~~l~vra~r~I~~GeeI~isY~~~~~  669 (766)
                      .+.++||+|.+   |+...-.  ++++.++|+|+|++||||++-|++.++
T Consensus        97 WmR~Vn~A~~~~eqNl~a~q~--~~~I~~~a~rdI~pGeELlv~Yg~~y~  144 (151)
T 3db5_A           97 WMMFVRKARNREEQNLVAYPH--DGKIFFCTSQDIPPENELLFYYSRDYA  144 (151)
T ss_dssp             GGGGCEECSSTTTCCEEEEEE--TTEEEEEESSCBCTTCBCEEEECC---
T ss_pred             ceeEEEecCCcccCceEEEEE--CCEEEEEEccccCCCCEEEEecCHHHH
Confidence            45689999965   9987653  789999999999999999999998875

>2r3a_A Histone-lysine N-methyltransferase SUV39H2; histone H3-K9 methyltransferase 2, H3 lysine-9 specific 2, alternative splicing, cell cycle; HET: SAM; 2.00A {Homo sapiens}

Probab=96.70  E-value=0.00064  Score=71.88  Aligned_cols=46  Identities=17%  Similarity=0.353  Sum_probs=36.7

Q ss_pred             ccccccccccCCceee--eecC----ccchhhhhhhcccCCCeeeecccCCC
Q psy8224         559 KTAMLSHNCKPNTKHV--IVNE----DFSLQLIALVNICKGDIISTTYTQPF  604 (766)
Q Consensus       559 ~~SllNHSC~PN~~~~--f~~~----~~~l~~~A~r~I~~GeeI~~sY~~~~  604 (766)
                      .+.++||||.||+...  +++.    ..++.++|+|+|++||||+++|+..+
T Consensus       215 ~aRfiNHSC~PN~~~~~v~~~~~d~~~~~i~~~A~rdI~~GEELt~dY~~~~  266 (300)
T 2r3a_A          215 VSHFVNHSCDPNLQVFNVFIDNLDTRLPRIALFSTRTINAGEELTFDYQMKG  266 (300)
T ss_dssp             GGGGCEECSSCSEEEEEEESSCCCTTSCEEEEEESSCBCTTCEEEECGGGSS
T ss_pred             hHHheecCCCCCEEEEEEEeccCCCCceEEEEEEccCCCCCCEEEEECCCCc
Confidence            5678999999999753  2121    13678999999999999999999864

>2e3u_A PH-DIM2P, hypothetical protein PH1566; PRE-ribosomal RNA processing factor, RNA binding protein; 2.30A {Pyrococcus horikoshii} PDB: 3aev_B

Probab=96.66  E-value=0.0013  Score=66.07  Aligned_cols=58  Identities=31%  Similarity=0.342  Sum_probs=52.3

Q ss_pred             hhhccccCCCCcHHHHHHHhhCceEEEe--CceEEEEcch-----hhHHHHHHHHHHhhcCCCCc
Q psy8224         134 RAIGRLAGKGGRTKFTIENITKTRIVIA--DSKIHVLGSY-----QNVQVALKALSNLILGSPPN  191 (766)
Q Consensus       134 r~~griiG~~G~t~~~ie~~t~~~I~v~--~~~v~iiG~~-----~~l~~ar~~i~~~~~~~~p~  191 (766)
                      ..+|-|||++|+|++.|++.||++|.|.  +.+|.|-|+.     +.+..|+.+|..+.+|.+|.
T Consensus        43 ~kig~lIG~gGk~Ik~I~e~tgvkI~I~~~~g~V~I~~~~~t~d~~~i~kA~~~I~~i~rg~~~e  107 (219)
T 2e3u_A           43 DRIAVLIGKKGQTKKEIEKRTKTKITIDSETGEVWITSTKETEDPLAVWKARDIVLAIGRGFSPE  107 (219)
T ss_dssp             HHHHHHHCGGGHHHHHHHHHHTEEEEECTTTCEEEEEECTTCCSHHHHHHHHHHHHHHHTTCCHH
T ss_pred             HHhhhhhcccHHHHHHHHHHHCcEEEEEcCCCEEEEecCCCCCCHHHHHHHHHHHHHHhccCCcc
Confidence            5699999999999999999999999998  5679998874     89999999999999988773

>3ep0_A PR domain zinc finger protein 12; PR domain-containing protein 12, structural genomics, structural genomics consortium, SGC, DNA-binding; 2.10A {Homo sapiens}

Probab=96.57  E-value=0.0016  Score=62.92  Aligned_cols=45  Identities=13%  Similarity=0.030  Sum_probs=36.6

Q ss_pred             hhcccCCCCC---CCeEEEEEeCCeEEEEEEecccCCCCeEEeecCCCCC
Q psy8224         623 KTAMLSHNCK---PNTKHVIVNEDFSLQLIALVNIRKGDIISTTYTQPFW  669 (766)
Q Consensus       623 ~~s~~NHsC~---PN~~~~~~~~g~~l~vra~r~I~~GeeI~isY~~~~~  669 (766)
                      .+-++||+|.   +|+...-.  ++++.++|+|+|++||||++-|++.+.
T Consensus       101 WmR~Vn~A~~~~eqNl~a~q~--~~~I~~~a~RdI~pGeELlvwYg~~y~  148 (170)
T 3ep0_A          101 WMTYIKCARNEQEQNLEVVQI--GTSIFYKAIEMIPPDQELLVWYGNSHN  148 (170)
T ss_dssp             GGGGCEECSSTTTCCEEEEEE--TTEEEEEESSCBCTTCBCEEEECC---
T ss_pred             eeeeEEecCCcccCCeeeEEE--CCEEEEEECcCcCCCCEEEEeeCHHHH
Confidence            3467899997   89876653  689999999999999999999998764

>1k1g_A SF1-BO isoform; splicing, branch point sequence, protein/RNA recognition, complex E, KH domain, QUA2 homology; NMR {Homo sapiens} SCOP: d.51.1.1

Probab=96.54  E-value=0.006  Score=56.23  Aligned_cols=66  Identities=15%  Similarity=0.168  Sum_probs=56.8

Q ss_pred             ceEEEecCCC------cchhhhccCcccHHHHHHhcCcEEEEEcc---------------------cCeEEEEeCCCCCC
Q psy8224          30 DMRKVPVPNH------RYGPLKENWMKIFTPIVEHLKLQVRFNLK---------------------SRNVEIRLSPETED   82 (766)
Q Consensus        30 ~~~~i~iP~~------r~~~l~~~~~~i~~~i~~~~~~~i~i~~~---------------------~~~v~i~~~~~t~d   82 (766)
                      -+.+|.||.+      .+|.|+|..|.+.+.|++.+|++|.|.-+                     .+.|.|..    .|
T Consensus         7 ~~~kv~IP~~~~P~~n~iG~IIGP~G~tiK~Iq~eTG~kI~IrgkgS~~~~~~~~~~~~~~~~~~e~lhV~I~a----~~   82 (131)
T 1k1g_A            7 VSDKVMIPQDEYPEINFVGLLIGPRGNTLKNIEKECNAKIMIRGKGSVKEGKVGRKDGQMLPGEDEPLHALVTA----NT   82 (131)
T ss_dssp             EEEEEECCTTTCCSHHHHHHHHCSSSHHHHHHHHHSCCEEEEEESTTSSSSSSSSCCCCCSCCSSCCEEEEEEE----SS
T ss_pred             EEEEEEECCccccCcceeeeEECCCcHHHHHHHHHHCCeEEecCCcccccccccccccccccccCCCeEEEEEE----CC
Confidence            3567888887      78899999999999999999999999752                     56788877    57


Q ss_pred             HHHHHHHHHHHHHHHcC
Q psy8224          83 ISNLQKAADFVKAFVYG   99 (766)
Q Consensus        83 ~~~~~ka~~~i~ai~~g   99 (766)
                      +..+.+|.++|+.|..-
T Consensus        83 ~e~~~~A~~~I~~ll~~   99 (131)
T 1k1g_A           83 MENVKKAVEQIRNILKQ   99 (131)
T ss_dssp             HHHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHHHHhc
Confidence            89999999999998754

>2yqr_A KIAA0907 protein; structure genomics, KH domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=96.54  E-value=0.0062  Score=55.08  Aligned_cols=65  Identities=11%  Similarity=-0.032  Sum_probs=55.0

Q ss_pred             ceEEEecCCC-------cchhhhccCcccHHHHHHhcCcEEEEEc---------------ccCeEEEEeCCCCCCHHHHH
Q psy8224          30 DMRKVPVPNH-------RYGPLKENWMKIFTPIVEHLKLQVRFNL---------------KSRNVEIRLSPETEDISNLQ   87 (766)
Q Consensus        30 ~~~~i~iP~~-------r~~~l~~~~~~i~~~i~~~~~~~i~i~~---------------~~~~v~i~~~~~t~d~~~~~   87 (766)
                      -+.+|+||-+       .++.|+|..|++.+.|++.+|++|.|.-               +.+.|.|..    .|+..+.
T Consensus        12 ~~~ki~ip~~~~~p~fn~ig~IIGpgG~tiK~I~~eTG~kI~I~G~gS~~~e~~~~~e~~e~l~V~I~a----~~~e~i~   87 (119)
T 2yqr_A           12 VQDKLFVGLEHAVPTFNVKEKVEGPGCSYLQHIQIETGAKVFLRGKGSGCIEPASGREAFEPMYIYISH----PKPEGLA   87 (119)
T ss_dssp             EEEEEECCCTTSCTTTCHHHHHSCGGGHHHHHHHHHHCCEEEEESBTTTCCCTTTSSCCSSBCEEEEEE----SSHHHHH
T ss_pred             EEEEEEcCCccCCCCCCeeeeEECCCChHHHHHHHHHCCEEEEecCCccccccccccccCCCcEEEEEe----CCHHHHH
Confidence            4566777654       7899999999999999999999999972               347888887    5889999


Q ss_pred             HHHHHHHHHHc
Q psy8224          88 KAADFVKAFVY   98 (766)
Q Consensus        88 ka~~~i~ai~~   98 (766)
                      +|+.+|+.|..
T Consensus        88 ~A~~~Ie~Ll~   98 (119)
T 2yqr_A           88 AAKKLCENLLQ   98 (119)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHhh
Confidence            99999998864

>2qpw_A PR domain zinc finger protein 2; methyltransferase, activator, alternative initiation, alternative splicing, DNA-binding, metal-binding, nucleus; 1.79A {Homo sapiens} PDB: 2jv0_A*

Probab=96.48  E-value=0.00097  Score=63.07  Aligned_cols=45  Identities=13%  Similarity=0.076  Sum_probs=37.4

Q ss_pred             cccccccccC---CceeeeecCccchhhhhhhcccCCCeeeecccCCCCC
Q psy8224         560 TAMLSHNCKP---NTKHVIVNEDFSLQLIALVNICKGDIISTTYTQPFWG  606 (766)
Q Consensus       560 ~SllNHSC~P---N~~~~f~~~~~~l~~~A~r~I~~GeeI~~sY~~~~~~  606 (766)
                      +.++||||.|   |+...-  .+..+.++|.|+|.+|||++..|+...+.
T Consensus       100 ~RfINhSc~p~eqNl~~~~--~~~~I~~~A~RdI~~GEEL~~dY~~~~~~  147 (149)
T 2qpw_A          100 LRYVNWACSGEEQNLFPLE--INRAIYYKTLKPIAPGEELLVWYNGEDNP  147 (149)
T ss_dssp             GGGCEECBTTBTCCEEEEE--ETTEEEEEESSCBCTTCBCEECCCCCCCC
T ss_pred             eeeeeccCChhhcCEEEEE--ECCEEEEEEccCCCCCCEEEEccCCccCC
Confidence            5689999999   887543  34578899999999999999999987553

>2h21_A Ribulose-1,5 bisphosphate carboxylase/oxygenase; SET domain, protein lysine methyltransferase, transferase; HET: SAM; 2.45A {Pisum sativum} SCOP: a.166.1.1 b.85.7.3 PDB: 2h23_A* 2h2e_A* 2h2j_A* 1p0y_A* 1ozv_A* 1mlv_A*

Probab=96.43  E-value=0.0011  Score=74.09  Aligned_cols=75  Identities=17%  Similarity=0.240  Sum_probs=55.5

Q ss_pred             CCCHHHHHHHHhhhccccccccccCCceeEEEeecccccccccccCCce---eeee------cCccchhhhhhhcccCCC
Q psy8224         524 DVSEETILRIAGILDTNAFDIRRSVGKIKIRGIYMKTAMLSHNCKPNTK---HVIV------NEDFSLQLIALVNICKGD  594 (766)
Q Consensus       524 ~~s~~~i~~i~~~l~~Naf~i~~~~~~~~~~gLyp~~SllNHSC~PN~~---~~f~------~~~~~l~~~A~r~I~~Ge  594 (766)
                      .++.+.+....+++...+|....    ....+|.|.+.|+||+|.||+.   ..+.      +.+..+.++|.++|++||
T Consensus       158 ~~t~~~f~wA~~~v~SRaf~~~~----~~~~~LvP~~D~~NH~~~~~~~~~~~~~~~~~~~~~~~~~~~l~a~~~i~~Ge  233 (440)
T 2h21_A          158 PVTLDDFFWAFGILRSRAFSRLR----NENLVVVPMADLINHSAGVTTEDHAYEVKGAAGLFSWDYLFSLKSPLSVKAGE  233 (440)
T ss_dssp             CCCHHHHHHHHHHHHHHCBCCC-------CCBCCSSTTSCEECTTCCCCCCEEEC----------CEEEEEESSCBCTTS
T ss_pred             CCCHHHHHHHHHHhcccceeccC----CCceEEeechHhhcCCCCcccccceeeecCcccccCCCceEEEEECCCCCCCC
Confidence            35677788888888888886532    2346899999999999998752   1110      123468899999999999


Q ss_pred             eeeecccC
Q psy8224         595 IISTTYTQ  602 (766)
Q Consensus       595 eI~~sY~~  602 (766)
                      ||+++||+
T Consensus       234 ei~~sYG~  241 (440)
T 2h21_A          234 QVYIQYDL  241 (440)
T ss_dssp             BCEECSCT
T ss_pred             EEEEeCCC
Confidence            99999996

>2od1_A Protein CBFA2T1; zinc finger, cross-braced topology, metal binding protein; NMR {Homo sapiens}

Probab=96.41  E-value=0.00024  Score=56.44  Aligned_cols=50  Identities=26%  Similarity=0.580  Sum_probs=35.0

Q ss_pred             ccccccCCCCCCCcccccCCCCCCCcccCCCCCcccCCCCCc-cccCccCC--CCCCcHhhhhhh
Q psy8224         385 PLVVGPKTASVPLCLGCHRTLKPTSMEENEPLSFYKCSDCGW-PLCAPRCK--SLPSHQKECKLM  446 (766)
Q Consensus       385 P~~~~p~~~~~~~C~~C~~~~~~~~~~~~~~~~~~~C~~C~~-~yCS~~C~--~~~~H~~EC~~l  446 (766)
                      |-+..|.......|..|...            .+.+|.+|+. .|||.+|+  +|..|+.+|..+
T Consensus         3 ~~~~~~~~~~~~~C~~C~~~------------~~~~Cs~C~~v~YCs~~CQ~~dW~~Hk~~C~~~   55 (60)
T 2od1_A            3 PNSGSPNSDSSESCWNCGRK------------ASETCSGCNTARYCGSFCQHKDWEKHHHICGQT   55 (60)
T ss_dssp             --------CCSSCCTTTSSC------------CCEECTTTSCCEESSHHHHHHHHHHHTTTSSCS
T ss_pred             CcccCcCCCCCCccccCCCc------------ccccCCCCCCeeecCHHHHHHHHHHHhHHHccc
Confidence            33445555566899999873            2789999998 89999997  488899999754

>2ctf_A Vigilin; K homology type I domain, RNA-binding, cell sterol metabolism, beta-alpha-alpha-beta-BETA-alpha structure, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.51.1.1

Probab=96.34  E-value=0.011  Score=52.14  Aligned_cols=64  Identities=11%  Similarity=0.185  Sum_probs=58.1

Q ss_pred             ceEEEecCCCcchhhhccCcccHHHHHHhc-CcEEEEEcccCeEEEEeCCCCCCHHHHHHHHHHHHHHHc
Q psy8224          30 DMRKVPVPNHRYGPLKENWMKIFTPIVEHL-KLQVRFNLKSRNVEIRLSPETEDISNLQKAADFVKAFVY   98 (766)
Q Consensus        30 ~~~~i~iP~~r~~~l~~~~~~i~~~i~~~~-~~~i~i~~~~~~v~i~~~~~t~d~~~~~ka~~~i~ai~~   98 (766)
                      .+..+.||+.--+.|||+.|..++.|++++ ++.|.+...++.|+|++     ++..+.+|+..|.++..
T Consensus        27 ~t~~i~vp~~~h~~IIG~~G~~Ik~i~~~~~~v~I~fp~~~~~ItI~G-----~~~~V~~a~~~I~~~v~   91 (102)
T 2ctf_A           27 TVSSVAAPSWLHRFIIGKKGQNLAKITQQMPKVHIEFTEGEDKITLEG-----PTEDVSVAQEQIEGMVK   91 (102)
T ss_dssp             EEEEEECCSTTHHHHHTTTTCHHHHHHHHCSSSEEEECSSSCEEEEEE-----CHHHHHHHHHHHHHHHH
T ss_pred             EEEEEEeCHHHHhhhcCCCCccHHHHHHHcCCcEEEeCCCCCEEEEEC-----CHHHHHHHHHHHHHHHH
Confidence            578899999999999999999999999975 99999987788999998     68999999999988764

>3u1k_A Polyribonucleotide nucleotidyltransferase 1, MITO; RNAse PH, KH domain, exoribonuclease; HET: CIT; 2.13A {Homo sapiens}

Probab=96.23  E-value=0.0018  Score=74.92  Aligned_cols=52  Identities=13%  Similarity=0.214  Sum_probs=43.9

Q ss_pred             hhhccccCCCCcHHHHHHHhhCceEEEe-CceEEEEcch-hhHHHHHHHHHHhh
Q psy8224         134 RAIGRLAGKGGRTKFTIENITKTRIVIA-DSKIHVLGSY-QNVQVALKALSNLI  185 (766)
Q Consensus       134 r~~griiG~~G~t~~~ie~~t~~~I~v~-~~~v~iiG~~-~~l~~ar~~i~~~~  185 (766)
                      ..+|+|||+||++++.|++.||++|.|. +.+|.|.|+- +.++.|+++|..+.
T Consensus       576 ~kI~~vIG~gG~~Ik~I~e~tg~~I~I~d~G~V~I~~~~~~~~~~A~~~I~~i~  629 (630)
T 3u1k_A          576 SKRAKFVGPGGYNLKKLQAETGVTISQVDEETFSVFAPTPSAMHEARDFITEIC  629 (630)
T ss_dssp             HHHHHHHCGGGHHHHHHHHHHCCEEEECSSSEEEEEESSHHHHHHHHHHTTC--
T ss_pred             hHhheeECCCChhHHHHHHHHCCEEEEcCCcEEEEEeCCHHHHHHHHHHHHHHh
Confidence            4589999999999999999999999995 5789999975 57888888887654

>2dj8_A Protein CBFA2T1; zinc finger MYND domain, protein MTG8, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: g.85.1.1

Probab=96.23  E-value=0.00057  Score=54.19  Aligned_cols=42  Identities=26%  Similarity=0.582  Sum_probs=34.5

Q ss_pred             CCCCcccccCCCCCCCcccCCCCCcccCCCCCc-cccCccCC--CCCCcHhhhhhhh
Q psy8224         394 SVPLCLGCHRTLKPTSMEENEPLSFYKCSDCGW-PLCAPRCK--SLPSHQKECKLMK  447 (766)
Q Consensus       394 ~~~~C~~C~~~~~~~~~~~~~~~~~~~C~~C~~-~yCS~~C~--~~~~H~~EC~~l~  447 (766)
                      ....|..|...            .+.+|.+|+. .|||.+|+  +|..|+.+|..+.
T Consensus        14 ~~~~C~~C~~~------------~~~~Cs~C~~v~YCs~~CQ~~~W~~Hk~~C~~~~   58 (60)
T 2dj8_A           14 SSESCWNCGRK------------ASETCSGCNTARYCGSFCQHKDWEKHHHICSGPS   58 (60)
T ss_dssp             CSCCCSSSCSC------------CCEECTTTSCCEESSHHHHHHTHHHHTTTSCCSS
T ss_pred             CCcccccCCCC------------CcccCCCCCCEeeeCHHHHHHHHHHHHHHHHhcc
Confidence            34789999872            2789999998 89999997  5888999997654

>2jw6_A Deformed epidermal autoregulatory factor 1 homolo; zinc binding domain, transcription, alternative splicing, DI mutation, DNA-binding; NMR {Homo sapiens} SCOP: g.85.1.1

Probab=95.98  E-value=0.0014  Score=50.22  Aligned_cols=38  Identities=26%  Similarity=0.739  Sum_probs=31.0

Q ss_pred             CCCcccccCCCCCCCcccCCCCCcccCCCCCc-cccCccCC--CCCCcHhhhh
Q psy8224         395 VPLCLGCHRTLKPTSMEENEPLSFYKCSDCGW-PLCAPRCK--SLPSHQKECK  444 (766)
Q Consensus       395 ~~~C~~C~~~~~~~~~~~~~~~~~~~C~~C~~-~yCS~~C~--~~~~H~~EC~  444 (766)
                      ...|..|...            .+.+|++|+. .|||.+|+  +|..|+.+|.
T Consensus         9 ~~~C~~C~~~------------~~~~C~~C~~~~YCs~~CQ~~~W~~Hk~~C~   49 (52)
T 2jw6_A            9 EQSCVNCGRE------------AMSECTGCHKVNYCSTFCQRKDWKDHQHICG   49 (52)
T ss_dssp             --CCSSSSSS------------CSEECTTTCSSEESSHHHHHHHTTTGGGTTT
T ss_pred             CCcCCCCCCC------------CcCcCCCCCCEeecCHHHHHHHHHHHCHHHc
Confidence            4689999873            2789999998 89999998  4888999996

>3dal_A PR domain zinc finger protein 1; methyltransferase, PRDM1, structural genomics, structural genomics consortium, SGC, DNA-binding, metal-binding; 1.65A {Homo sapiens}

Probab=95.88  E-value=0.0045  Score=60.98  Aligned_cols=44  Identities=9%  Similarity=0.090  Sum_probs=37.1

Q ss_pred             hhcccCCCCC---CCeEEEEEeCCeEEEEEEecccCCCCeEEeecCCCC
Q psy8224         623 KTAMLSHNCK---PNTKHVIVNEDFSLQLIALVNIRKGDIISTTYTQPF  668 (766)
Q Consensus       623 ~~s~~NHsC~---PN~~~~~~~~g~~l~vra~r~I~~GeeI~isY~~~~  668 (766)
                      .+-++||+|.   +|+...-.  ++++.++|+|+|++||||++-|++.+
T Consensus       131 WmRfVn~A~~~~eqNl~a~q~--~~~I~y~a~RdI~pGeELlvwYg~~Y  177 (196)
T 3dal_A          131 WMRYVNPAHSPREQNLAACQN--GMNIYFYTIKPIPANQELLVWYCRDF  177 (196)
T ss_dssp             GGGGCEECSSTTTCCEEEEEE--TTEEEEEESSCBCTTCBCEEEECHHH
T ss_pred             eEEeEEecCCcccCCcEEEEE--CCEEEEEECcccCCCCEEEEecCHHH
Confidence            3568899996   79877653  78999999999999999999999543

>2d8q_A BLU protein, zinc finger MYND domain containing protein 10; zmynd10, ZF-MYND, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: g.85.1.1 PDB: 2dan_A

Probab=95.59  E-value=0.0014  Score=53.66  Aligned_cols=42  Identities=29%  Similarity=0.631  Sum_probs=34.7

Q ss_pred             CCCcccccCCCCCCCcccCCCCCcccCCCCCc-cccCccCC--CCCCcHhhhhhhhh
Q psy8224         395 VPLCLGCHRTLKPTSMEENEPLSFYKCSDCGW-PLCAPRCK--SLPSHQKECKLMKD  448 (766)
Q Consensus       395 ~~~C~~C~~~~~~~~~~~~~~~~~~~C~~C~~-~yCS~~C~--~~~~H~~EC~~l~~  448 (766)
                      ...|..|...            .+.+|.+|+. .|||.+||  +|..|+.+|..+..
T Consensus        15 ~~~C~~C~~~------------~~~~Cs~Ck~v~YCs~eCQ~~~W~~HK~~C~~~~~   59 (70)
T 2d8q_A           15 RPRCAYCSAE------------ASKRCSRCQNEWYCCRECQVKHWEKHGKTCVLAAQ   59 (70)
T ss_dssp             CCBCSSSCCB------------CCCBCTTTSCCBCSCHHHHHHTHHHHHHHCCCCCC
T ss_pred             CCcCCCCCCc------------ccccCCCCCCEeeCCHHHhHHHHHHHHHHHHHHHH
Confidence            4689999773            2689999998 89999998  58779999987654

>3ihx_A PR domain zinc finger protein 10; PRDM10, methyltransferase, structural genomics, structural G consortium, SGC, DNA-binding, metal-binding, nucleus; 2.50A {Homo sapiens}

Probab=95.38  E-value=0.0093  Score=56.45  Aligned_cols=43  Identities=7%  Similarity=0.087  Sum_probs=37.5

Q ss_pred             hcccCCCCC---CCeEEEEEeCCeEEEEEEecccCCCCeEEeecCCCC
Q psy8224         624 TAMLSHNCK---PNTKHVIVNEDFSLQLIALVNIRKGDIISTTYTQPF  668 (766)
Q Consensus       624 ~s~~NHsC~---PN~~~~~~~~g~~l~vra~r~I~~GeeI~isY~~~~  668 (766)
                      +.++||+|.   +|+...-  .++++.++|+|+|++|+||++-|.+.+
T Consensus        97 mr~vn~a~~~~eqNl~a~q--~~~~I~~~~~r~I~pGeELlv~Y~~~y  142 (152)
T 3ihx_A           97 MMFVRPAQNHLEQNLVAYQ--YGHHVYYTTIKNVEPKQELKVWYAASY  142 (152)
T ss_dssp             GGGCCBCCSTTTCCEEEEE--CSSSEEEEESSCBCTTCBCCEEECHHH
T ss_pred             eeeeeccCCccCCCcEEEE--eCCeEEEEEeeecCCCCEEEEechHHH
Confidence            568999998   7988765  478999999999999999999998654

>3n89_A Defective in GERM LINE development protein 3, ISO; KH domains, RNA binding, cell cycle; 2.79A {Caenorhabditis elegans}

Probab=95.36  E-value=0.012  Score=63.63  Aligned_cols=53  Identities=19%  Similarity=0.225  Sum_probs=47.3

Q ss_pred             hhhhhccccCCCC--cHHHHHHHhhCceEEEeCc------------eEEEEcchhhHHHHHHHHHHh
Q psy8224         132 LSRAIGRLAGKGG--RTKFTIENITKTRIVIADS------------KIHVLGSYQNVQVALKALSNL  184 (766)
Q Consensus       132 ~~r~~griiG~~G--~t~~~ie~~t~~~I~v~~~------------~v~iiG~~~~l~~ar~~i~~~  184 (766)
                      ...-.+.|||++|  .+++.|..-|||+|.+.+.            .|.|-|..++++.||..|..+
T Consensus        37 p~~~Hs~IIGkgG~~sNIkkImeEtgv~I~fPD~~~~~~~~~~ks~~VtItG~~enVE~AR~~I~~l  103 (376)
T 3n89_A           37 ESQYYSLMTSDNGDHENVASIMAETNTLIQLPDRSVGGTTPDPFAQQVTITGYFGDVDRARMLMRRN  103 (376)
T ss_dssp             CGGGHHHHHSCCSSSCSHHHHHHHHTCEEECCCCCCCSSSCCTTTTEEEEEEEHHHHHHHHHHHHHS
T ss_pred             chhhhhhhccCCChHHHHHHHHHHhCCeEECCCCcccccCCcCCCCeEEEEcCHHHHHHHHHHHHhc
Confidence            3455788999999  9999999999999999653            399999999999999999885

>2qnd_A FMR1 protein; KH domain, eukaryotic KH domains, tandem KH domains, type I domains, fragIle X mental retardation protein, RNA BI protein; 1.90A {Homo sapiens} PDB: 2fmr_A

Probab=95.31  E-value=0.021  Score=53.52  Aligned_cols=62  Identities=15%  Similarity=0.179  Sum_probs=52.6

Q ss_pred             EEEecCCCcchhhhccCcccHHHHHHhcCc-EEEEEccc--------C--eEEEEeCCCCCCHHHHHHHHHHHHHHHc
Q psy8224          32 RKVPVPNHRYGPLKENWMKIFTPIVEHLKL-QVRFNLKS--------R--NVEIRLSPETEDISNLQKAADFVKAFVY   98 (766)
Q Consensus        32 ~~i~iP~~r~~~l~~~~~~i~~~i~~~~~~-~i~i~~~~--------~--~v~i~~~~~t~d~~~~~ka~~~i~ai~~   98 (766)
                      .+|.||++.++.+||+.|...+.+.+.+|+ +|.|....        +  .|+|.+     ++.++.+|+.+|.....
T Consensus        69 ~~v~Vp~~~~g~~IGK~G~nIr~i~~~tG~~~I~i~~~~~~~~~~~~~~~~vtI~G-----~~~~v~~Ak~li~~~l~  141 (144)
T 2qnd_A           69 DVIQVPRNLVGKVIGKNGKLIQEIVDKSGVVRVRIEAENEKNVPQEEGMVPFVFVG-----TKDSIANATVLLDYHLN  141 (144)
T ss_dssp             EEEEEEGGGHHHHHCGGGHHHHHHHHHHTCSEEEEEEECTTCCCCCTTEEEEEEEE-----EHHHHHHHHHHHHHHHH
T ss_pred             EEEEECHHHcCeeECCCCHHHHHHHHHHCCEEEEEcCCCCCCccccCCeeEEEEEe-----CHHHHHHHHHHHHHHHH
Confidence            789999999999999999999999999996 89886532        2  366776     88999999999987643

>3v69_A Protein filia; RNA-binding, embryogenesis, KH domain, RNA binding, P binding; 2.20A {Mus musculus}

Probab=95.26  E-value=0.018  Score=52.47  Aligned_cols=52  Identities=21%  Similarity=0.288  Sum_probs=45.3

Q ss_pred             hhhccccCCCCcHHHHHHHhhCceEEEe------CceEEEEcchhhHHHHHHHHHHhh
Q psy8224         134 RAIGRLAGKGGRTKFTIENITKTRIVIA------DSKIHVLGSYQNVQVALKALSNLI  185 (766)
Q Consensus       134 r~~griiG~~G~t~~~ie~~t~~~I~v~------~~~v~iiG~~~~l~~ar~~i~~~~  185 (766)
                      ...|+|+|++|.-++.||.+|+|.|.|.      ...|.|.|++.-=+.|+..|..+.
T Consensus        65 ~lve~IFGp~Gs~Ip~IE~~SqTLIqV~~~~s~g~tEVtIfG~~~~Q~rak~MI~sLA  122 (140)
T 3v69_A           65 RLLEIMFGKDGEHIPHLESMLHTLIHVNVWGPERRAEIWIFGPPPFRRDVDRMLTDLA  122 (140)
T ss_dssp             GGHHHHHCGGGTTHHHHHHHHTSEEEEECCCTTSCEEEEEESCHHHHHHHHHHHHHHH
T ss_pred             hhhhcccCCCcCccchHHhhcceeEEEeccCCCCcEEEEEECCHHHHHHHHHHHHHHH
Confidence            4599999999999999999999999995      234999999998888888887765

>1tua_A Hypothetical protein APE0754; structural genomics, protein structure initiative, MCSG, four layers alpha-beta sandwich, PSI; 1.50A {Aeropyrum pernix} SCOP: d.51.1.1 d.51.1.1

Probab=94.92  E-value=0.021  Score=55.98  Aligned_cols=59  Identities=29%  Similarity=0.339  Sum_probs=53.2

Q ss_pred             hhhccccCCCCcHHHHHHHhhCceEEEeC--ceEEEE-----cchhhHHHHHHHHHHhhcCCCCcc
Q psy8224         134 RAIGRLAGKGGRTKFTIENITKTRIVIAD--SKIHVL-----GSYQNVQVALKALSNLILGSPPNK  192 (766)
Q Consensus       134 r~~griiG~~G~t~~~ie~~t~~~I~v~~--~~v~ii-----G~~~~l~~ar~~i~~~~~~~~p~~  192 (766)
                      .+.|-|||++|.+++.||+.+|++|.|..  +.|.|-     |+...+..|+++|..+.+|-+|..
T Consensus        13 ~rvg~liGk~g~~~k~i~e~~g~~i~id~~~~~V~i~t~~~t~dp~~i~KA~dlI~ai~rgf~~e~   78 (191)
T 1tua_A           13 ERLGAVIGPRGEVKAEIMRRTGTVITVDTENSMVIVEPEAEGIPPVNLMKAAEVVKAISLGFPPEK   78 (191)
T ss_dssp             GGHHHHHCGGGHHHHHHHHHHTEEEEEETTTTEEEEEESSTTSCHHHHHHHHHHHHHHHHTCCHHH
T ss_pred             HHhhHHHhcCHhHHHHHHHHHCcEEEEEcCCCeEEEEeCCCCCCHHHHHHHHHHHHHHHcCCCHHH
Confidence            66999999999999999999999999985  568888     888899999999999999988744

>3ray_A PR domain-containing protein 11; structural genomics consortium, SGC, histone methylation, Zn transcriptional regulation, chromatin, transcription; 1.73A {Homo sapiens}

Probab=94.63  E-value=0.02  Score=57.77  Aligned_cols=44  Identities=14%  Similarity=0.135  Sum_probs=37.4

Q ss_pred             hhcccCCCCC---CCeEEEEEeCCeEEEEEEecccCCCCeEEeecCCCC
Q psy8224         623 KTAMLSHNCK---PNTKHVIVNEDFSLQLIALVNIRKGDIISTTYTQPF  668 (766)
Q Consensus       623 ~~s~~NHsC~---PN~~~~~~~~g~~l~vra~r~I~~GeeI~isY~~~~  668 (766)
                      .+.++||+|.   +|+.....  ++++.++|+|+|.+|+||++-|++.+
T Consensus       140 WmRfVn~Ar~~~EqNL~A~q~--~~~Iyy~a~RdI~pGeELlVwYg~~Y  186 (237)
T 3ray_A          140 WMRYVVISREEREQNLLAFQH--SERIYFRACRDIRPGEWLRVWYSEDY  186 (237)
T ss_dssp             GGGGCEECCCTTTCCEEEEEE--TTEEEEEESSCBCTTCBCEEEECHHH
T ss_pred             ceeEEEcCCCcccccceeEEe--CCEEEEEEccccCCCCEEEEeeCHHH
Confidence            3468999996   68877653  78999999999999999999999654

>4aid_A Polyribonucleotide nucleotidyltransferase; transferase-peptide complex; 2.60A {Caulobacter vibrioides} PDB: 4aim_A 4am3_A

Probab=94.11  E-value=0.01  Score=69.46  Aligned_cols=66  Identities=21%  Similarity=0.335  Sum_probs=10.5

Q ss_pred             hhhccccCCCCcHHHHHHHhhCceEEEe-CceEEEEcc-hhhHHHHHHHHHHhhcCCCCcccccceee
Q psy8224         134 RAIGRLAGKGGRTKFTIENITKTRIVIA-DSKIHVLGS-YQNVQVALKALSNLILGSPPNKVYGGILC  199 (766)
Q Consensus       134 r~~griiG~~G~t~~~ie~~t~~~I~v~-~~~v~iiG~-~~~l~~ar~~i~~~~~~~~p~~~~s~l~c  199 (766)
                      ..+|.|||+||++++.|++-||+.|.|. +.+|.|.+. .+.++.|+..|..+..--..|.+|..-..
T Consensus       579 ~ki~~vig~gg~~i~~i~~~tg~~idi~ddG~v~I~~~~~~~~~~A~~~i~~i~~~~~vG~v~~G~V~  646 (726)
T 4aid_A          579 DKIREVIGSGGKVIREIVATTGAKVDINDDGVVKVSASDGAKIKAAIDWIKSITDEAEVGKIYDGKVV  646 (726)
T ss_dssp             -----------------------------------CCSCHHHHHHHHHC-------------------
T ss_pred             HHHHhhcCCCchhHHHHHHHHCCceeEECCceEEEEeCCHHHHHHHHHHHHHHhhhhcCCcEEEEEEE
Confidence            4489999999999999999999999997 467888776 45788999999999987777776655444

>4aid_A Polyribonucleotide nucleotidyltransferase; transferase-peptide complex; 2.60A {Caulobacter vibrioides} PDB: 4aim_A 4am3_A

Probab=94.05  E-value=0.016  Score=67.89  Aligned_cols=64  Identities=17%  Similarity=0.290  Sum_probs=13.1

Q ss_pred             ceEEEecCCCcchhhhccCcccHHHHHHhcCcEEEEEcccCeEEEEeCCCCCCHHHHHHHHHHHHHHHc
Q psy8224          30 DMRKVPVPNHRYGPLKENWMKIFTPIVEHLKLQVRFNLKSRNVEIRLSPETEDISNLQKAADFVKAFVY   98 (766)
Q Consensus        30 ~~~~i~iP~~r~~~l~~~~~~i~~~i~~~~~~~i~i~~~~~~v~i~~~~~t~d~~~~~ka~~~i~ai~~   98 (766)
                      -...+.||+++++.+||..|++++.|.+.+|++|.|+ ++|.|.|..    .|..++.+|+++|++|..
T Consensus       570 ~~~~~~i~~~ki~~vig~gg~~i~~i~~~tg~~idi~-ddG~v~I~~----~~~~~~~~A~~~i~~i~~  633 (726)
T 4aid_A          570 KIETINIPTDKIREVIGSGGKVIREIVATTGAKVDIN-DDGVVKVSA----SDGAKIKAAIDWIKSITD  633 (726)
T ss_dssp             C--------------------------------------------CC----SCHHHHHHHHHC------
T ss_pred             eEEEEeCCHHHHHhhcCCCchhHHHHHHHHCCceeEE-CCceEEEEe----CCHHHHHHHHHHHHHHhh
Confidence            4678999999999999999999999999999999998 679999987    588999999999998864

>2bl5_A MGC83862 protein, quaking protein; STAR proteins, GSG proteins, RNA binding; NMR {Xenopus laevis} SCOP: d.51.1.1

Probab=93.92  E-value=0.12  Score=47.88  Aligned_cols=66  Identities=20%  Similarity=0.161  Sum_probs=51.7

Q ss_pred             eEEEecCCCc------chhhhccCcccHHHHHHhcCcEEEEEccc------------C-----------eEEEEeCCCCC
Q psy8224          31 MRKVPVPNHR------YGPLKENWMKIFTPIVEHLKLQVRFNLKS------------R-----------NVEIRLSPETE   81 (766)
Q Consensus        31 ~~~i~iP~~r------~~~l~~~~~~i~~~i~~~~~~~i~i~~~~------------~-----------~v~i~~~~~t~   81 (766)
                      +.+|.||-+.      +|.|+|..|.+.+.|++.+|++|.|.-+.            |           .|.|..    .
T Consensus         3 ~~Ki~IP~~~~P~~NfiG~IiGPrG~t~K~ie~eTg~kI~IrGkGS~kd~~~e~~~~g~~~~~~~~epLHV~Isa----~   78 (140)
T 2bl5_A            3 QEKLYVPVKEYPDFNFVGRILGPRGLTAKQLEAETGCKIMVRGKGSMRDKKKEEQNRGKPNWEHLNEDLHVLITV----E   78 (140)
T ss_dssp             EEEEECCTTTCSSSCHHHHHTTTTHHHHHHHHHHHSEEEEEESTTSSCCHHHHHTSTTSHHHHTTTSCCEEEEEE----C
T ss_pred             eeEEEcCcccCCCCCeeeEEECCCcchHHHHHHHHCCeEEEecCCCcccccccccccCCCCccccCCCcEEEEEe----c
Confidence            4577888655      99999999999999999999999998532            1           666776    2


Q ss_pred             CH-----HHHHHHHHHHHHHHcCC
Q psy8224          82 DI-----SNLQKAADFVKAFVYGF  100 (766)
Q Consensus        82 d~-----~~~~ka~~~i~ai~~gf  100 (766)
                      |+     ..+.+|.++|+.+..-+
T Consensus        79 ~~~~~~~~~l~~A~~~I~~lL~p~  102 (140)
T 2bl5_A           79 DAQNRAELKLKRAVEEVKKLLVPA  102 (140)
T ss_dssp             SCCHHHHHHHHHHHHHHHHHSSCC
T ss_pred             CchhhHHHHHHHHHHHHHHHCCCC
Confidence            33     37899999999886533

>3v69_A Protein filia; RNA-binding, embryogenesis, KH domain, RNA binding, P binding; 2.20A {Mus musculus}

Probab=93.88  E-value=0.33  Score=44.30  Aligned_cols=91  Identities=11%  Similarity=0.030  Sum_probs=65.3

Q ss_pred             CCccccccCcccccc------------C-CCCCCccccCCCCceEEEecCCCcchhhhccCcccHHHHHHhcCcEEEEEc
Q psy8224           1 MKTTKRSADAMEVDD------------A-KAQEPAVKKAKHVDMRKVPVPNHRYGPLKENWMKIFTPIVEHLKLQVRFNL   67 (766)
Q Consensus         1 ~~~~~~~~~~~~~~~------------~-~~~~~~~~~~~~~~~~~i~iP~~r~~~l~~~~~~i~~~i~~~~~~~i~i~~   67 (766)
                      |.++++-.+.+++++            . ++=|+|++-.+.   .-+.+...-+++|+|..|+-++.|+..+++.|++|.
T Consensus        17 m~~~~~~~t~~~~~~~~~~~~~~~g~~~~PwW~~~e~L~dP---lVF~vE~~lve~IFGp~Gs~Ip~IE~~SqTLIqV~~   93 (140)
T 3v69_A           17 MASLKRFQTLVPLDHKQGTLFEIIGEPKLPKWFHVECLEDP---KRLYVEPRLLEIMFGKDGEHIPHLESMLHTLIHVNV   93 (140)
T ss_dssp             -CCSCCCCCSSCEEEEETTEEEECSCCCCCTTCCGGGGSSC---EEEEECGGGHHHHHCGGGTTHHHHHHHHTSEEEEEC
T ss_pred             cccccccchHHhhhhccCceeeccCCCCCCCccCHHHCCCC---eEEEEehhhhhcccCCCcCccchHHhhcceeEEEec
Confidence            445555556666553            2 334444433333   566789999999999999999999999999999985


Q ss_pred             cc--CeEEEEeCCCCCCHHHHHHHHHHHHHHH
Q psy8224          68 KS--RNVEIRLSPETEDISNLQKAADFVKAFV   97 (766)
Q Consensus        68 ~~--~~v~i~~~~~t~d~~~~~ka~~~i~ai~   97 (766)
                      -+  |..+|.-   .+.|.+-.+|+++|..++
T Consensus        94 ~~s~g~tEVtI---fG~~~~Q~rak~MI~sLA  122 (140)
T 3v69_A           94 WGPERRAEIWI---FGPPPFRRDVDRMLTDLA  122 (140)
T ss_dssp             CCTTSCEEEEE---ESCHHHHHHHHHHHHHHH
T ss_pred             cCCCCcEEEEE---ECCHHHHHHHHHHHHHHH
Confidence            43  3444333   248999999999999876

>2yqq_A Zinc finger HIT domain-containing protein 3; structure genomics, ZF-HIT domain, TRIP-3, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=88.51  E-value=0.16  Score=39.23  Aligned_cols=37  Identities=27%  Similarity=0.583  Sum_probs=30.5

Q ss_pred             ccCCCCcccccCCcccCCCCCCCCcccCCchhhccccc
Q psy8224         310 KKMDSGKCEVCKVAASLKCGGCNQVFYCSKSHQKQHWK  347 (766)
Q Consensus       310 ~~~~~~~C~~C~~~~~~~C~~C~~v~YCs~~cq~~~w~  347 (766)
                      .+..+..|..|+..+..+|++|. +.|||-+|-+.|-.
T Consensus         8 ~~~~~~~C~vC~~~~kY~CPrC~-~~yCSl~C~k~Hk~   44 (56)
T 2yqq_A            8 LKCSTVVCVICLEKPKYRCPACR-VPYCSVVCFRKHKE   44 (56)
T ss_dssp             CCCCCCCCTTTCSCCSEECTTTC-CEESSHHHHHHHHH
T ss_pred             cCCCCCccCcCcCCCeeeCCCCC-CCeeCHHHHHHHHh
Confidence            34556689999998889999997 88999999877644

>3db5_A PR domain zinc finger protein 4; methyltransferase, PRDM4, structural genomics, structural GE consortium, SGC, DNA-binding, metal-binding, nucleus; 2.15A {Homo sapiens}

Probab=87.33  E-value=0.2  Score=47.20  Aligned_cols=47  Identities=9%  Similarity=-0.003  Sum_probs=34.6

Q ss_pred             ccccccccccC---CceeeeecCccchhhhhhhcccCCCeeeecccCCCCCc
Q psy8224         559 KTAMLSHNCKP---NTKHVIVNEDFSLQLIALVNICKGDIISTTYTQPFWGT  607 (766)
Q Consensus       559 ~~SllNHSC~P---N~~~~f~~~~~~l~~~A~r~I~~GeeI~~sY~~~~~~~  607 (766)
                      .+.++||+|.+   |+...-  .+..+.++|.|+|.+|||+...|++.++..
T Consensus        97 WmR~Vn~A~~~~eqNl~a~q--~~~~I~~~a~rdI~pGeELlv~Yg~~y~~~  146 (151)
T 3db5_A           97 WMMFVRKARNREEQNLVAYP--HDGKIFFCTSQDIPPENELLFYYSRDYAQQ  146 (151)
T ss_dssp             GGGGCEECSSTTTCCEEEEE--ETTEEEEEESSCBCTTCBCEEEECC-----
T ss_pred             ceeEEEecCCcccCceEEEE--ECCEEEEEEccccCCCCEEEEecCHHHHHH
Confidence            45788999965   776543  345788999999999999999999987643

>2cxc_A NUSA; transcription termination, RNA binding protein, archaeal NUS domain, structural genomics, NPPSFA; 2.00A {Aeropyrum pernix} PDB: 2cy1_A

Probab=86.64  E-value=0.57  Score=43.57  Aligned_cols=102  Identities=14%  Similarity=0.118  Sum_probs=66.8

Q ss_pred             ceEEEecCCCcchhhhccCcccHHHHHHhcCcEEEEEcccCeEEEEeCCCCCCHHHHHHHHHHHHHHHcCCChhhHHhhc
Q psy8224          30 DMRKVPVPNHRYGPLKENWMKIFTPIVEHLKLQVRFNLKSRNVEIRLSPETEDISNLQKAADFVKAFVYGFDVDDALALL  109 (766)
Q Consensus        30 ~~~~i~iP~~r~~~l~~~~~~i~~~i~~~~~~~i~i~~~~~~v~i~~~~~t~d~~~~~ka~~~i~ai~~gf~~~~a~~ll  109 (766)
                      ....+.|++..+|..+|.+|...+.|++.+|-+|+|=        .   -+.||.      .||...   ++|..-..+-
T Consensus        36 dr~i~vVk~g~vGa~IG~~G~ri~~i~~elgekIdIV--------~---~s~d~~------~fI~na---LsPA~V~~V~   95 (144)
T 2cxc_A           36 NRLIFLVSEGEAGRAIGRGGRLIKLLREALGKNIEVV--------E---YSSDLE------RIVKNL---FPGVKIESIN   95 (144)
T ss_dssp             TEEEEEECTTCHHHHHCGGGHHHHHHHHHHSSEEEEE--------E---CCSSHH------HHHHHH---STTSCEEEEE
T ss_pred             CEEEEEEeCCCccccCccCchHHHHHHHHhCCeeEEE--------E---cCCCHH------HHHHHh---cCCceEEEEE
Confidence            5577899999999999999999999999988777552        1   234653      344332   4554422221


Q ss_pred             cc--ccceeeeeeeccccccccchhhhhhccccCCCCcHHHHHHHhhCceEEEe
Q psy8224         110 RL--DNLFIESFEIKDVKTLKGDHLSRAIGRLAGKGGRTKFTIENITKTRIVIA  161 (766)
Q Consensus       110 ~~--d~~~~~~~~i~~~~~~~~~~~~r~~griiG~~G~t~~~ie~~t~~~I~v~  161 (766)
                      -+  |+-     ..-.+. -    ..+.+++.|||+|++.+....+||.+|-|.
T Consensus        96 i~~~~~~-----~~~~V~-V----~~~q~slAIGk~G~NvrLa~~Ltg~~idI~  139 (144)
T 2cxc_A           96 VRERNGV-----KQVVIK-V----SEDDKGAAIGKGGKNVKRARLVLSKLFGVE  139 (144)
T ss_dssp             EEEETTE-----EEEEEE-E----CTTTHHHHHCGGGHHHHHHHHHHHHHHCEE
T ss_pred             EeecCCc-----EEEEEE-E----ChHHhhhccCCCCHHHHHHHHHhCCeeCce
Confidence            00  000     000011 1    124588999999999999999999988664

>3ep0_A PR domain zinc finger protein 12; PR domain-containing protein 12, structural genomics, structural genomics consortium, SGC, DNA-binding; 2.10A {Homo sapiens}

Probab=84.81  E-value=0.32  Score=46.73  Aligned_cols=47  Identities=13%  Similarity=-0.051  Sum_probs=34.4

Q ss_pred             cccccccccc---CCceeeeecCccchhhhhhhcccCCCeeeecccCCCCCc
Q psy8224         559 KTAMLSHNCK---PNTKHVIVNEDFSLQLIALVNICKGDIISTTYTQPFWGT  607 (766)
Q Consensus       559 ~~SllNHSC~---PN~~~~f~~~~~~l~~~A~r~I~~GeeI~~sY~~~~~~~  607 (766)
                      .+.++||+|.   +|+...-  .+..+.++|.|+|.+|+|+...|++.++..
T Consensus       101 WmR~Vn~A~~~~eqNl~a~q--~~~~I~~~a~RdI~pGeELlvwYg~~y~~~  150 (170)
T 3ep0_A          101 WMTYIKCARNEQEQNLEVVQ--IGTSIFYKAIEMIPPDQELLVWYGNSHNTF  150 (170)
T ss_dssp             GGGGCEECSSTTTCCEEEEE--ETTEEEEEESSCBCTTCBCEEEECC-----
T ss_pred             eeeeEEecCCcccCCeeeEE--ECCEEEEEECcCcCCCCEEEEeeCHHHHHH
Confidence            4467899996   7866543  345788999999999999999999976543

---

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST

Original result of RPS-BLAST against SCOP70(version1.75) database

ID	Length	Definition	E-value
Query	766
d1tuaa2	104	d.51.1.1 (A:85-188) Hypothetical protein APE0754 {	3e-24
d2dana1	47	g.85.1.1 (A:8-54) Zinc finger MYND domain-containi	4e-12
d2dj8a1	47	g.85.1.1 (A:8-54) Zinc finger MYND domain-containi	2e-11
d2jw6a1	38	g.85.1.1 (A:503-540) Zinc finger MYND domain-conta	2e-11
d2h2ja2	261	b.85.7.3 (A:50-310) RuBisCo LSMT catalytic domain	6e-08
d2g46a1	119	b.85.7.2 (A:1-119) Viral histone H3 Lysine 27 Meth	5e-06
d2g46a1	119	b.85.7.2 (A:1-119) Viral histone H3 Lysine 27 Meth	8e-04

>d1tuaa2 d.51.1.1 (A:85-188) Hypothetical protein APE0754 {Aeropyrum pernix [TaxId: 56636]} Length = 104

class: Alpha and beta proteins (a+b)
fold: Eukaryotic type KH-domain (KH-domain type I)
superfamily: Eukaryotic type KH-domain (KH-domain type I)
family: Eukaryotic type KH-domain (KH-domain type I)
domain: Hypothetical protein APE0754
species: Aeropyrum pernix [TaxId: 56636]

 Score = 95.6 bits (238), Expect = 3e-24
 Identities = 25/84 (29%), Positives = 44/84 (52%)

Query: 114 LFIESFEIKDVKTLKGDHLSRAIGRLAGKGGRTKFTIENITKTRIVIADSKIHVLGSYQN 173
             +   ++K V     +HL R  GR+ G+GGR + TIE +T T I + + ++ ++G Y+ 
Sbjct: 2   QILVVVDLKQVVGDSQNHLKRIKGRIIGEGGRARRTIEEMTDTYINVGEYEVAIIGDYER 61

Query: 174 VQVALKALSNLILGSPPNKVYGGI 197
              A +A+  L  G   + VY  +
Sbjct: 62  AMAAKQAIEMLAEGRMHSTVYRHL 85

>d2dana1 g.85.1.1 (A:8-54) Zinc finger MYND domain-containing protein 10, ZMYND10 {Human (Homo sapiens) [TaxId: 9606]} Length = 47

class: Small proteins
fold: HIT/MYND zinc finger-like
superfamily: HIT/MYND zinc finger-like
family: MYND zinc finger
domain: Zinc finger MYND domain-containing protein 10, ZMYND10
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 59.3 bits (143), Expect = 4e-12
 Identities = 13/41 (31%), Positives = 21/41 (51%)

Query: 313 DSGKCEVCKVAASLKCGGCNQVFYCSKSHQKQHWKEHKPGC 353
           +  +C  C   AS +C  C   +YC +  Q +HW++H   C
Sbjct: 7   ERPRCAYCSAEASKRCSRCQNEWYCCRECQVKHWEKHGKTC 47

>d2dj8a1 g.85.1.1 (A:8-54) Zinc finger MYND domain-containing protein 2, MTG8 {Human (Homo sapiens) [TaxId: 9606]} Length = 47

class: Small proteins
fold: HIT/MYND zinc finger-like
superfamily: HIT/MYND zinc finger-like
family: MYND zinc finger
domain: Zinc finger MYND domain-containing protein 2, MTG8
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 57.3 bits (138), Expect = 2e-11
 Identities = 15/45 (33%), Positives = 20/45 (44%)

Query: 309 DKKMDSGKCEVCKVAASLKCGGCNQVFYCSKSHQKQHWKEHKPGC 353
            ++  S  C  C   AS  C GCN   YC    Q + W++H   C
Sbjct: 3   QQEDSSESCWNCGRKASETCSGCNTARYCGSFCQHKDWEKHHHIC 47

>d2jw6a1 g.85.1.1 (A:503-540) Zinc finger MYND domain-containing protein 2, MTG8 {Human (Homo sapiens) [TaxId: 9606]} Length = 38

class: Small proteins
fold: HIT/MYND zinc finger-like
superfamily: HIT/MYND zinc finger-like
family: MYND zinc finger
domain: Zinc finger MYND domain-containing protein 2, MTG8
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 56.9 bits (137), Expect = 2e-11
 Identities = 15/37 (40%), Positives = 22/37 (59%)

Query: 317 CEVCKVAASLKCGGCNQVFYCSKSHQKQHWKEHKPGC 353
           C  C   A  +C GC++V YCS   Q++ WK+H+  C
Sbjct: 2   CVNCGREAMSECTGCHKVNYCSTFCQRKDWKDHQHIC 38

>d2h2ja2 b.85.7.3 (A:50-310) RuBisCo LSMT catalytic domain {Garden pea (Pisum sativum) [TaxId: 3888]} Length = 261

class: All beta proteins
fold: beta-clip
superfamily: SET domain
family: RuBisCo LSMT catalytic domain
domain: RuBisCo LSMT catalytic domain
species: Garden pea (Pisum sativum) [TaxId: 3888]

 Score = 52.3 bits (124), Expect = 6e-08
 Identities = 33/246 (13%), Positives = 77/246 (31%), Gaps = 49/246 (19%)

Query: 365 GRHMVATKDIREGEIILEE-KPLVVGPKTASVPLCLGCHRTLKPTSMEENEPLSFYKCSD 423
           G  +VA KDI   ++IL+  K L + P   +          LKP        +  +    
Sbjct: 32  GLGLVALKDISRNDVILQVPKRLWINPDAVAASEIGRVCSELKP-----WLSVILFLI-- 84

Query: 424 CGWPLCAPRCKSLPSHQKECKLMKDNQYKSTIQFENETKKESAYCCIAPLRSPLRCLLLE 483
                           ++  +      Y   +  E ++    +   +  L+         
Sbjct: 85  ---------------RERSREDSVWKHYFGILPQETDSTIYWSEEELQELQGS------- 122

Query: 484 RPLLDELLTLDAHLNERINTKLYEIYRVNLVRFIKDVLHMDVSEETILRIAGILDTNAFD 543
             LL   +++  ++               ++   K +    V+ +      GIL + AF 
Sbjct: 123 -QLLKTTVSVKEYVKNE-----CLKLEQEIILPNKRLFPDPVTLDDFFWAFGILRSRAFS 176

Query: 544 IRRSVGKIKIRGIYMKTAMLSHNCKPNTKHV---------IVNEDFSLQLIALVNICKGD 594
             R+        +     +++H+    T+           + + D+   L + +++  G+
Sbjct: 177 RLRNEN----LVVVPMADLINHSAGVTTEDHAYEVKGAAGLFSWDYLFSLKSPLSVKAGE 232

Query: 595 IISTTY 600
            +   Y
Sbjct: 233 QVYIQY 238

>d2g46a1 b.85.7.2 (A:1-119) Viral histone H3 Lysine 27 Methyltransferase {Paramecium bursaria chlorella virus 1, PBCV-1 [TaxId: 10506]} Length = 119

class: All beta proteins
fold: beta-clip
superfamily: SET domain
family: Viral histone H3 Lysine 27 Methyltransferase
domain: Viral histone H3 Lysine 27 Methyltransferase
species: Paramecium bursaria chlorella virus 1, PBCV-1 [TaxId: 10506]

 Score = 44.0 bits (103), Expect = 5e-06
 Identities = 15/99 (15%), Positives = 33/99 (33%), Gaps = 7/99 (7%)

Query: 584 LIALVNICKGDIISTTYTQPFWGTMDRRLHLRMSKWIYMKTAMLS-------HNCKPNTK 636
           + A  +  KG+++                           +AM         H+  PN +
Sbjct: 18  VFARKSFEKGELVEECLCIVRHNDDWGTALEDYLFSRKNMSAMALGFGAIFNHSKDPNAR 77

Query: 637 HVIVNEDFSLQLIALVNIRKGDIISTTYTQPFWGTMDRR 675
           H +      +++  +  I  G+ I+ +Y   +W +  R 
Sbjct: 78  HELTAGLKRMRIFTIKPIAIGEEITISYGDDYWLSRPRL 116

>d2g46a1 b.85.7.2 (A:1-119) Viral histone H3 Lysine 27 Methyltransferase {Paramecium bursaria chlorella virus 1, PBCV-1 [TaxId: 10506]} Length = 119

class: All beta proteins
fold: beta-clip
superfamily: SET domain
family: Viral histone H3 Lysine 27 Methyltransferase
domain: Viral histone H3 Lysine 27 Methyltransferase
species: Paramecium bursaria chlorella virus 1, PBCV-1 [TaxId: 10506]

 Score = 37.9 bits (87), Expect = 8e-04
 Identities = 11/51 (21%), Positives = 25/51 (49%)

Query: 561 AMLSHNCKPNTKHVIVNEDFSLQLIALVNICKGDIISTTYTQPFWGTMDRR 611
           A+ +H+  PN +H +      +++  +  I  G+ I+ +Y   +W +  R 
Sbjct: 66  AIFNHSKDPNARHELTAGLKRMRIFTIKPIAIGEEITISYGDDYWLSRPRL 116

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	766
d1tuaa2	104	Hypothetical protein APE0754 {Aeropyrum pernix [Ta	99.84
d1tuaa1	84	Hypothetical protein APE0754 {Aeropyrum pernix [Ta	99.56
d2h2ja2	261	RuBisCo LSMT catalytic domain {Garden pea (Pisum s	99.33
d2g46a1	119	Viral histone H3 Lysine 27 Methyltransferase {Para	99.13
d2jw6a1	38	Zinc finger MYND domain-containing protein 2, MTG8	98.79
d2dj8a1	47	Zinc finger MYND domain-containing protein 2, MTG8	98.75
d2dana1	47	Zinc finger MYND domain-containing protein 10, ZMY	98.73
d2f69a2	171	Histone H3 K4-specific methyltransferase SET7/9 ca	98.69
d1ml9a_	284	Dim-5 {Fungus (Neurospora crassa) [TaxId: 5141]}	98.66
d2ba0a3	84	Exosome complex RNA-binding protein 1, ECR1 {Archa	98.4
d1mvha_	269	SET domain of Clr4 {Fission yeast (Schizosaccharom	98.36
d2g46a1	119	Viral histone H3 Lysine 27 Methyltransferase {Para	98.28
d1j4wa2	71	Far upstream binding element, FBP {Human (Homo sap	98.26
d1j4wa1	74	Far upstream binding element, FBP {Human (Homo sap	98.18
d1zzka1	75	HnRNP K, KH3 {Human (Homo sapiens) [TaxId: 9606]}	98.17
d1dtja_	74	Neuro-oncological ventral antigen 2, nova-2, KH3 {	98.17
d1wvna1	70	Poly(RC)-binding protein 1 {Human (Homo sapiens) [	98.15
d2je6i3	69	Exosome complex RNA-binding protein 1, ECR1 {Sulfo	98.13
d2z0sa2	87	Exosome complex RNA-binding protein 1, ECR1 {Aerop	98.13
d2axya1	71	Poly(RC)-binding protein 2 {Human (Homo sapiens) [	98.12
d1viga_	71	Vigilin {Human (Homo sapiens) [TaxId: 9606]}	98.11
d2cpqa1	78	Fragile X mental retardation syndrome related prot	98.1
d2ctma1	81	Vigilin {Human (Homo sapiens) [TaxId: 9606]}	98.07
d1x4ma1	81	Far upstream binding element, FBP {Mouse (Mus musc	98.06
d2ctla1	84	Vigilin {Human (Homo sapiens) [TaxId: 9606]}	98.04
d1x4na1	79	Far upstream binding element, FBP {Mouse (Mus musc	98.02
d1tuaa1	84	Hypothetical protein APE0754 {Aeropyrum pernix [Ta	97.98
d1we8a_	104	Tudor and KH domain containing protein, Tdrkh {Mou	97.98
d2ctea1	81	Vigilin {Human (Homo sapiens) [TaxId: 9606]}	97.95
d2cpqa1	78	Fragile X mental retardation syndrome related prot	97.84
d2z0sa2	87	Exosome complex RNA-binding protein 1, ECR1 {Aerop	97.82
d2ctka1	91	Vigilin {Human (Homo sapiens) [TaxId: 9606]}	97.81
d1zzka1	75	HnRNP K, KH3 {Human (Homo sapiens) [TaxId: 9606]}	97.77
d2je6i3	69	Exosome complex RNA-binding protein 1, ECR1 {Sulfo	97.74
d2ba0a3	84	Exosome complex RNA-binding protein 1, ECR1 {Archa	97.73
d2ctfa1	90	Vigilin {Human (Homo sapiens) [TaxId: 9606]}	97.72
d1j4wa1	74	Far upstream binding element, FBP {Human (Homo sap	97.72
d1wvna1	70	Poly(RC)-binding protein 1 {Human (Homo sapiens) [	97.65
d1j4wa2	71	Far upstream binding element, FBP {Human (Homo sap	97.63
d2ctja1	82	Vigilin {Human (Homo sapiens) [TaxId: 9606]}	97.63
d1viga_	71	Vigilin {Human (Homo sapiens) [TaxId: 9606]}	97.52
d1dtja_	74	Neuro-oncological ventral antigen 2, nova-2, KH3 {	97.5
d1x4na1	79	Far upstream binding element, FBP {Mouse (Mus musc	97.44
d1k1ga_	122	RNA splicing factor 1 {Human (Homo sapiens) [TaxId	97.37
d2ctma1	81	Vigilin {Human (Homo sapiens) [TaxId: 9606]}	97.36
d1e3ha4	54	Polynucleotide phosphorylase/guanosine pentaphosph	97.36
d1x4ma1	81	Far upstream binding element, FBP {Mouse (Mus musc	97.32
d2axya1	71	Poly(RC)-binding protein 2 {Human (Homo sapiens) [	97.28
d2ctfa1	90	Vigilin {Human (Homo sapiens) [TaxId: 9606]}	97.27
d2ctka1	91	Vigilin {Human (Homo sapiens) [TaxId: 9606]}	97.26
d1we8a_	104	Tudor and KH domain containing protein, Tdrkh {Mou	97.23
d2ctla1	84	Vigilin {Human (Homo sapiens) [TaxId: 9606]}	97.19
d2ctea1	81	Vigilin {Human (Homo sapiens) [TaxId: 9606]}	97.16
d1ml9a_	284	Dim-5 {Fungus (Neurospora crassa) [TaxId: 5141]}	97.0
d2ctja1	82	Vigilin {Human (Homo sapiens) [TaxId: 9606]}	96.93
d2jw6a1	38	Zinc finger MYND domain-containing protein 2, MTG8	96.87
d2f69a2	171	Histone H3 K4-specific methyltransferase SET7/9 ca	96.78
d1e3ha4	54	Polynucleotide phosphorylase/guanosine pentaphosph	96.76
d2bl5a1	134	Quaking protein A (Xqua) {African clawed frog (Xen	96.69
d1mvha_	269	SET domain of Clr4 {Fission yeast (Schizosaccharom	96.55
d2dana1	47	Zinc finger MYND domain-containing protein 10, ZMY	96.41
d2dj8a1	47	Zinc finger MYND domain-containing protein 2, MTG8	96.4
d1tuaa2	104	Hypothetical protein APE0754 {Aeropyrum pernix [Ta	96.0
d2h2ja2	261	RuBisCo LSMT catalytic domain {Garden pea (Pisum s	93.14
d1k1ga_	122	RNA splicing factor 1 {Human (Homo sapiens) [TaxId	90.25

>d1tuaa2 d.51.1.1 (A:85-188) Hypothetical protein APE0754 {Aeropyrum pernix [TaxId: 56636]}

class: Alpha and beta proteins (a+b)
fold: Eukaryotic type KH-domain (KH-domain type I)
superfamily: Eukaryotic type KH-domain (KH-domain type I)
family: Eukaryotic type KH-domain (KH-domain type I)
domain: Hypothetical protein APE0754
species: Aeropyrum pernix [TaxId: 56636]

Probab=99.84  E-value=2.2e-22  Score=175.66  Aligned_cols=87  Identities=29%  Similarity=0.479  Sum_probs=84.2

Q ss_pred             cceeeeeeeccccccccchhhhhhccccCCCCcHHHHHHHhhCceEEEeCceEEEEcchhhHHHHHHHHHHhhcCCCCcc
Q psy8224         113 NLFIESFEIKDVKTLKGDHLSRAIGRLAGKGGRTKFTIENITKTRIVIADSKIHVLGSYQNVQVALKALSNLILGSPPNK  192 (766)
Q Consensus       113 ~~~~~~~~i~~~~~~~~~~~~r~~griiG~~G~t~~~ie~~t~~~I~v~~~~v~iiG~~~~l~~ar~~i~~~~~~~~p~~  192 (766)
                      |++|++|||++++.++++|++|.+|||||+||+|+++||++|||+|.|+|++|+|+|++++++.|+.+|++|+.|.+|++
T Consensus         1 d~~l~iidi~~~~~~~~~~l~R~~GrIIG~gGktik~Ie~~Tg~~I~I~d~~v~iig~~e~i~~A~~~Ie~li~~~e~g~   80 (104)
T d1tuaa2           1 DQILVVVDLKQVVGDSQNHLKRIKGRIIGEGGRARRTIEEMTDTYINVGEYEVAIIGDYERAMAAKQAIEMLAEGRMHST   80 (104)
T ss_dssp             TEEEEEEETHHHHTTCHHHHHHHHHHHHCGGGHHHHHHHHHHTCEEEECSSEEEEEEEHHHHHHHHHHHHHHHTTCCHHH
T ss_pred             CceEEEEEHHHhhcccHHHHHHHhcceeCCCcHHHHHHHHHHCCeEEEeCCeEEEEECchhHHHHHHHHHHHHcCCCccH
Confidence            67899999999998888999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             cccceee
Q psy8224         193 VYGGILC  199 (766)
Q Consensus       193 ~~s~l~c  199 (766)
                      +|++|+.
T Consensus        81 VY~~le~   87 (104)
T d1tuaa2          81 VYRHLER   87 (104)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            9999975

>d1tuaa1 d.51.1.1 (A:1-84) Hypothetical protein APE0754 {Aeropyrum pernix [TaxId: 56636]}

class: Alpha and beta proteins (a+b)
fold: Eukaryotic type KH-domain (KH-domain type I)
superfamily: Eukaryotic type KH-domain (KH-domain type I)
family: Eukaryotic type KH-domain (KH-domain type I)
domain: Hypothetical protein APE0754
species: Aeropyrum pernix [TaxId: 56636]

Probab=99.56  E-value=4.1e-15  Score=124.84  Aligned_cols=78  Identities=26%  Similarity=0.278  Sum_probs=76.3

Q ss_pred             EEecCCCcchhhhccCcccHHHHHHhcCcEEEEEcccCeEEEEeCCCCCCHHHHHHHHHHHHHHHcCCChhhHHhhcc
Q psy8224          33 KVPVPNHRYGPLKENWMKIFTPIVEHLKLQVRFNLKSRNVEIRLSPETEDISNLQKAADFVKAFVYGFDVDDALALLR  110 (766)
Q Consensus        33 ~i~iP~~r~~~l~~~~~~i~~~i~~~~~~~i~i~~~~~~v~i~~~~~t~d~~~~~ka~~~i~ai~~gf~~~~a~~ll~  110 (766)
                      +|.||++++|.|||+.|++++.|++.+|++|+||.+++.|.+.+...+.++.++++|+++|+||+|||+||.|++||+
T Consensus         6 ~i~ip~~~ig~vIG~gG~~Ik~i~~~tg~~I~Id~d~g~v~i~~~~~~~~~~a~~~a~~iI~aI~rGf~Pe~a~~ll~   83 (84)
T d1tuaa1           6 YVKVKPERLGAVIGPRGEVKAEIMRRTGTVITVDTENSMVIVEPEAEGIPPVNLMKAAEVVKAISLGFPPEKAFRLLE   83 (84)
T ss_dssp             EEECCGGGHHHHHCGGGHHHHHHHHHHTEEEEEETTTTEEEEEESSTTSCHHHHHHHHHHHHHHHHTCCHHHHGGGGS
T ss_pred             EEEeCHHHcCeeecCCchhHHHHHHHHCCEEEEEcCCCeEEEecCCccccHHHHHHHHHHHHHHhCCCChHHHHHhcc
Confidence            699999999999999999999999999999999999999999999999999999999999999999999999999996

>d2h2ja2 b.85.7.3 (A:50-310) RuBisCo LSMT catalytic domain {Garden pea (Pisum sativum) [TaxId: 3888]}

class: All beta proteins
fold: beta-clip
superfamily: SET domain
family: RuBisCo LSMT catalytic domain
domain: RuBisCo LSMT catalytic domain
species: Garden pea (Pisum sativum) [TaxId: 3888]

Probab=99.33  E-value=3e-13  Score=138.44  Aligned_cols=99  Identities=16%  Similarity=0.175  Sum_probs=66.3

Q ss_pred             CCCHHHHHHHHhhhccccccccccCCceeEEEeecccccccccccCCceeeeecCccchhhhhhhcccCCCeeeecccCC
Q psy8224         524 DVSEETILRIAGILDTNAFDIRRSVGKIKIRGIYMKTAMLSHNCKPNTKHVIVNEDFSLQLIALVNICKGDIISTTYTQP  603 (766)
Q Consensus       524 ~~s~~~i~~i~~~l~~Naf~i~~~~~~~~~~gLyp~~SllNHSC~PN~~~~f~~~~~~l~~~A~r~I~~GeeI~~sY~~~  603 (766)
                      .++.+....+.+.+..++|....    ..+.+|||.++|+||||.||+...+ ++..                       
T Consensus       157 ~~~~~~~~~a~~~v~sr~~~~~~----~~~~~l~P~~d~~NHsc~pn~~~~~-~~~~-----------------------  208 (261)
T d2h2ja2         157 PVTLDDFFWAFGILRSRAFSRLR----NENLVVVPMADLINHSAGVTTEDHA-YEVK-----------------------  208 (261)
T ss_dssp             CCCHHHHHHHHHHHHHHSBCCC-------CCBCCTTGGGCEECSSCCSCCCC-CC-------------------------
T ss_pred             ccCHHHHHHHHHHhhcccccccc----cccccchhhhHHhhcCCCCCccccc-cccc-----------------------
Confidence            45677777778888888886642    3456788888888888888887766 2210                       


Q ss_pred             CCCccccccccccchhhhhhhcccCCCCCCCeEEEEEeCCeEEEEEEecccCCCCeEEeecCCCCCCHHHHHHHHhCCCC
Q psy8224         604 FWGTMDRRLHLRMSKWIYMKTAMLSHNCKPNTKHVIVNEDFSLQLIALVNIRKGDIISTTYTQPFWGTMDRRLHLRMSKC  683 (766)
Q Consensus       604 ~~~~~~r~~~~~i~~glyp~~s~~NHsC~PN~~~~~~~~g~~l~vra~r~I~~GeeI~isY~~~~~~~~~Rr~~L~~~y~  683 (766)
                                                     ........++.++++|+|+|++||||||||++.. +.    ..|...|+
T Consensus       209 -------------------------------~~~~~~~~~~~~~l~A~r~I~~GEEI~isYG~~~-~n----~~ll~~yG  252 (261)
T d2h2ja2         209 -------------------------------GAAGLFSWDYLFSLKSPLSVKAGEQVYIQYDLNK-SN----AELALDYG  252 (261)
T ss_dssp             ----------------------------------------CEEEEECSSCCCTTSBCEECSCSSC-CH----HHHHHHSS
T ss_pred             -------------------------------CcccccCCCcEEEEEECCCCCCCCEEEEecCCCC-CH----HHHHHhCC
Confidence                                           0000001357899999999999999999998643 32    23666799


Q ss_pred             cEE
Q psy8224         684 FDC  686 (766)
Q Consensus       684 F~C  686 (766)
                      |.+
T Consensus       253 Fv~  255 (261)
T d2h2ja2         253 FIE  255 (261)
T ss_dssp             CCC
T ss_pred             CCC
Confidence            975

>d2g46a1 b.85.7.2 (A:1-119) Viral histone H3 Lysine 27 Methyltransferase {Paramecium bursaria chlorella virus 1, PBCV-1 [TaxId: 10506]}

class: All beta proteins
fold: beta-clip
superfamily: SET domain
family: Viral histone H3 Lysine 27 Methyltransferase
domain: Viral histone H3 Lysine 27 Methyltransferase
species: Paramecium bursaria chlorella virus 1, PBCV-1 [TaxId: 10506]

Probab=99.13  E-value=7.3e-12  Score=112.86  Aligned_cols=87  Identities=17%  Similarity=0.259  Sum_probs=60.2

Q ss_pred             hhhhhcccCCCeeeecccCCCCCcc--cc-----ccccccchhhhhhhcccCCCCCCCeEEEEEeCCeEEEEEEecccCC
Q psy8224         584 LIALVNICKGDIISTTYTQPFWGTM--DR-----RLHLRMSKWIYMKTAMLSHNCKPNTKHVIVNEDFSLQLIALVNIRK  656 (766)
Q Consensus       584 ~~A~r~I~~GeeI~~sY~~~~~~~~--~r-----~~~~~i~~glyp~~s~~NHsC~PN~~~~~~~~g~~l~vra~r~I~~  656 (766)
                      |.|.++|++|+.|....+.......  .+     ...........+.++++||||.||+...+...+..+.++|+|+|++
T Consensus        18 vfA~~~i~~g~~i~~~~g~~~~~~~~~~~~~~y~~~~~~~~~~~~~~~~~~NHsc~pN~~~~~~~~~~~~~~~A~rdI~~   97 (119)
T d2g46a1          18 VFARKSFEKGELVEECLCIVRHNDDWGTALEDYLFSRKNMSAMALGFGAIFNHSKDPNARHELTAGLKRMRIFTIKPIAI   97 (119)
T ss_dssp             EEECSCBCTTCCCEEEECEEECSTHHHHHTCSSEEEETTEEEECCSTTSSCCCCSSCCCEEEECSSSSEEEEECSSCBCT
T ss_pred             EEECchhhCCCEEecccEEEecHHHHhhhhhceeeecccccceecCCeEEEEecCCcCceEEEECCCCEEEEEECcccCC
Confidence            4566778888877553332111110  00     0111122333456889999999999988866678899999999999


Q ss_pred             CCeEEeecCCCCCC
Q psy8224         657 GDIISTTYTQPFWG  670 (766)
Q Consensus       657 GeeI~isY~~~~~~  670 (766)
                      ||||+++|++.+|.
T Consensus        98 GEEL~~dYg~~yw~  111 (119)
T d2g46a1          98 GEEITISYGDDYWL  111 (119)
T ss_dssp             TEEECCCCCSSSCC
T ss_pred             CCEEEEecChhHhc
Confidence            99999999999885

>d2jw6a1 g.85.1.1 (A:503-540) Zinc finger MYND domain-containing protein 2, MTG8 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: HIT/MYND zinc finger-like
superfamily: HIT/MYND zinc finger-like
family: MYND zinc finger
domain: Zinc finger MYND domain-containing protein 2, MTG8
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.79  E-value=5.2e-10  Score=78.69  Aligned_cols=38  Identities=39%  Similarity=0.927  Sum_probs=35.5

Q ss_pred             cccccCCcccCCCCCCCCcccCCchhhccccccccCCC
Q psy8224         316 KCEVCKVAASLKCGGCNQVFYCSKSHQKQHWKEHKPGC  353 (766)
Q Consensus       316 ~C~~C~~~~~~~C~~C~~v~YCs~~cq~~~w~~Hk~~C  353 (766)
                      .|..|+.++..+|++|+.++|||++||+.||+.|+.+|
T Consensus         1 sC~~C~~~~~~~C~~C~~~~YCs~~CQ~~~W~~Hk~~C   38 (38)
T d2jw6a1           1 SCVNCGREAMSECTGCHKVNYCSTFCQRKDWKDHQHIC   38 (38)
T ss_dssp             CCSSSSSSCSEECTTTCSSEESSHHHHHHHTTTGGGTT
T ss_pred             CccccCccccccCCCCCCEeeCCHHHHHHHHHHHhhhC
Confidence            38899999999999999999999999999999999877

>d2dj8a1 g.85.1.1 (A:8-54) Zinc finger MYND domain-containing protein 2, MTG8 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: HIT/MYND zinc finger-like
superfamily: HIT/MYND zinc finger-like
family: MYND zinc finger
domain: Zinc finger MYND domain-containing protein 2, MTG8
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.75  E-value=8.4e-10  Score=81.45  Aligned_cols=42  Identities=36%  Similarity=0.751  Sum_probs=38.8

Q ss_pred             CCCCcccccCCcccCCCCCCCCcccCCchhhccccccccCCC
Q psy8224         312 MDSGKCEVCKVAASLKCGGCNQVFYCSKSHQKQHWKEHKPGC  353 (766)
Q Consensus       312 ~~~~~C~~C~~~~~~~C~~C~~v~YCs~~cq~~~w~~Hk~~C  353 (766)
                      .....|..|+.++...|++|+.++|||++||..||+.|+.+|
T Consensus         6 ~~~~~C~~C~~~~~~~C~~C~~~~YCs~~CQ~~dW~~Hk~~C   47 (47)
T d2dj8a1           6 DSSESCWNCGRKASETCSGCNTARYCGSFCQHKDWEKHHHIC   47 (47)
T ss_dssp             CCSCCCSSSCSCCCEECTTTSCCEESSHHHHHHTHHHHTTTS
T ss_pred             cCCCcCCCCCccccccCCCCCCeeeCCHHHHHHHHHHHhhhC
Confidence            446789999999999999999999999999999999999887

>d2dana1 g.85.1.1 (A:8-54) Zinc finger MYND domain-containing protein 10, ZMYND10 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: HIT/MYND zinc finger-like
superfamily: HIT/MYND zinc finger-like
family: MYND zinc finger
domain: Zinc finger MYND domain-containing protein 10, ZMYND10
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.73  E-value=8.4e-10  Score=81.26  Aligned_cols=40  Identities=33%  Similarity=0.953  Sum_probs=37.3

Q ss_pred             CCcccccCCcccCCCCCCCCcccCCchhhccccccccCCC
Q psy8224         314 SGKCEVCKVAASLKCGGCNQVFYCSKSHQKQHWKEHKPGC  353 (766)
Q Consensus       314 ~~~C~~C~~~~~~~C~~C~~v~YCs~~cq~~~w~~Hk~~C  353 (766)
                      .+.|..|+.++...|++|+.++|||++||+.||+.|+..|
T Consensus         8 ~~~C~~Cg~~~~~~Cs~C~~~~YCs~~CQ~~dW~~Hk~~C   47 (47)
T d2dana1           8 RPRCAYCSAEASKRCSRCQNEWYCCRECQVKHWEKHGKTC   47 (47)
T ss_dssp             CCCCSSSCCCCCEECTTTSCSEESSHHHHHHTHHHHTTTC
T ss_pred             CCcCcCCCChhhccCCCCCCEeeCCHHHHHHHHHHHhhhC
Confidence            4579999999999999999999999999999999899877

>d2f69a2 b.85.7.1 (A:194-364) Histone H3 K4-specific methyltransferase SET7/9 catalytic domain {Human (Homo sapiens) [TaxId: 9606]}

class: All beta proteins
fold: beta-clip
superfamily: SET domain
family: Histone lysine methyltransferases
domain: Histone H3 K4-specific methyltransferase SET7/9 catalytic domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.69  E-value=1.1e-08  Score=97.66  Aligned_cols=46  Identities=11%  Similarity=0.062  Sum_probs=37.3

Q ss_pred             hhcccCCCCCCCeEEEEE---eCCeEEEEEEecccCCCCeEEeecCCCC
Q psy8224         623 KTAMLSHNCKPNTKHVIV---NEDFSLQLIALVNIRKGDIISTTYTQPF  668 (766)
Q Consensus       623 ~~s~~NHsC~PN~~~~~~---~~g~~l~vra~r~I~~GeeI~isY~~~~  668 (766)
                      .+.++||||.||+.....   ..+..+.++|+|+|++|||||++|+...
T Consensus        98 ~~rfiNHsc~pN~~~~~~~~~~~~~~i~~~A~RdI~~GEEL~~dYG~~~  146 (171)
T d2f69a2          98 LGHKANHSFTPNCIYDMFVHPRFGPIKCIRTLRAVEADEELTVAYGYDH  146 (171)
T ss_dssp             CGGGCEECSSCSEEEEEEEETTTEEEEEEEESSCBCTTCEEEECCCCCS
T ss_pred             cceeeEccCCCCceEEEEEecCCCeEEEEEEccCcCCCCEEEEEeCCCC
Confidence            456899999999976432   2346788999999999999999999544

>d1ml9a_ b.85.7.1 (A:) Dim-5 {Fungus (Neurospora crassa) [TaxId: 5141]}

class: All beta proteins
fold: beta-clip
superfamily: SET domain
family: Histone lysine methyltransferases
domain: Dim-5
species: Fungus (Neurospora crassa) [TaxId: 5141]

Probab=98.66  E-value=7.1e-09  Score=107.07  Aligned_cols=65  Identities=26%  Similarity=0.445  Sum_probs=36.5

Q ss_pred             hcccCCCCCCCeEEEEEeC------CeEEEEEEecccCCCCeEEeecCCCCCCH-HHHHHHHhCCCCcEEec
Q psy8224         624 TAMLSHNCKPNTKHVIVNE------DFSLQLIALVNIRKGDIISTTYTQPFWGT-MDRRLHLRMSKCFDCTC  688 (766)
Q Consensus       624 ~s~~NHsC~PN~~~~~~~~------g~~l~vra~r~I~~GeeI~isY~~~~~~~-~~Rr~~L~~~y~F~C~C  688 (766)
                      +.++||||+||+....+..      ..++.++|+|+|++|||||+.|++..++. .+.....+....|.|.|
T Consensus       213 aRfiNHSC~PN~~~~~v~~~~~~~~~~~i~~~A~rdI~~GEELt~dYg~~~~~~~~~~~~~~~~~~~~~C~C  284 (284)
T d1ml9a_         213 TRFINHSCDPNMAIFARVGDHADKHIHDLALFAIKDIPKGTELTFDYVNGLTGLESDAHDPSKISEMTKCLC  284 (284)
T ss_dssp             GGGCEECSSCSEEEEEEESSGGGGGGCEEEEEESSCBCTTCEEEECTTC-----------------------
T ss_pred             hheeeccccCCcceEEEEeccCCCCceEEEEEECCccCCCCEEEEecCCCCCCchhhcchhhcccCCceeeC
Confidence            5678999999998765311      25799999999999999999999988764 33444455556788988

>d2ba0a3 d.51.1.1 (A:136-219) Exosome complex RNA-binding protein 1, ECR1 {Archaeoglobus fulgidus [TaxId: 2234]}

class: Alpha and beta proteins (a+b)
fold: Eukaryotic type KH-domain (KH-domain type I)
superfamily: Eukaryotic type KH-domain (KH-domain type I)
family: Eukaryotic type KH-domain (KH-domain type I)
domain: Exosome complex RNA-binding protein 1, ECR1
species: Archaeoglobus fulgidus [TaxId: 2234]

Probab=98.40  E-value=1.2e-07  Score=78.75  Aligned_cols=58  Identities=21%  Similarity=0.265  Sum_probs=52.7

Q ss_pred             hhhccccCCCCcHHHHHHHhhCceEEEe-CceEEEEcchhhHHHHHHHHHHhhcCCCCc
Q psy8224         134 RAIGRLAGKGGRTKFTIENITKTRIVIA-DSKIHVLGSYQNVQVALKALSNLILGSPPN  191 (766)
Q Consensus       134 r~~griiG~~G~t~~~ie~~t~~~I~v~-~~~v~iiG~~~~l~~ar~~i~~~~~~~~p~  191 (766)
                      ..+|||||++|++++.|+..|||+|.|. +.+|.|.|+.+++..|+.+|..+++-.+..
T Consensus        10 ~~ig~IIG~gG~~I~~I~~~tg~~I~i~~~g~v~I~G~~e~v~~A~~~I~~i~~ea~~~   68 (84)
T d2ba0a3          10 ARVPRVIGKKGSMIKLLKSELDVQIVVGQNGLIWVNGDRRKVSIAEEAIYLIEQEAHTE   68 (84)
T ss_dssp             GGHHHHHCGGGHHHHHHHHHHTCEEEECTTSEEEEESCHHHHHHHHHHHHHHHHCSCCS
T ss_pred             hhcceeeCCcHHHHHHHHHHHCCEEEECCCCEEEEEeCHHHHHHHHHHHHHHHHhcccC
Confidence            4599999999999999999999999996 457999999999999999999999877653

>d1mvha_ b.85.7.1 (A:) SET domain of Clr4 {Fission yeast (Schizosaccharomyces pombe) [TaxId: 4896]}

class: All beta proteins
fold: beta-clip
superfamily: SET domain
family: Histone lysine methyltransferases
domain: SET domain of Clr4
species: Fission yeast (Schizosaccharomyces pombe) [TaxId: 4896]

Probab=98.36  E-value=7.6e-08  Score=98.13  Aligned_cols=45  Identities=20%  Similarity=0.407  Sum_probs=36.2

Q ss_pred             hcccCCCCCCCeEEEEE--eC----CeEEEEEEecccCCCCeEEeecCCCC
Q psy8224         624 TAMLSHNCKPNTKHVIV--NE----DFSLQLIALVNIRKGDIISTTYTQPF  668 (766)
Q Consensus       624 ~s~~NHsC~PN~~~~~~--~~----g~~l~vra~r~I~~GeeI~isY~~~~  668 (766)
                      +-++||||+||+.....  +.    ..++.+.|+|+|++|||||+.|++..
T Consensus       213 aRFiNHSC~PN~~~~~v~~~~~~~~~~~i~~fA~rdI~~GEELt~DYG~~~  263 (269)
T d1mvha_         213 SRFFNHSCSPNIAIYSAVRNHGFRTIYDLAFFAIKDIQPLEELTFDYAGAK  263 (269)
T ss_dssp             GGGCEECSSCSEEEEEEESCTTCTTSCEEEEEESSCBCTTCBCEECCCTTS
T ss_pred             eEEeecCCCCCcEEEEEEecCCcCccceEEEEECCccCCCCEEEEecCCCc
Confidence            44789999999976542  21    25799999999999999999999753

>d2g46a1 b.85.7.2 (A:1-119) Viral histone H3 Lysine 27 Methyltransferase {Paramecium bursaria chlorella virus 1, PBCV-1 [TaxId: 10506]}

class: All beta proteins
fold: beta-clip
superfamily: SET domain
family: Viral histone H3 Lysine 27 Methyltransferase
domain: Viral histone H3 Lysine 27 Methyltransferase
species: Paramecium bursaria chlorella virus 1, PBCV-1 [TaxId: 10506]

Probab=98.28  E-value=1.3e-07  Score=84.31  Aligned_cols=50  Identities=20%  Similarity=0.435  Sum_probs=42.8

Q ss_pred             cccccccccccCCceeeeecCccchhhhhhhcccCCCeeeecccCCCCCc
Q psy8224         558 MKTAMLSHNCKPNTKHVIVNEDFSLQLIALVNICKGDIISTTYTQPFWGT  607 (766)
Q Consensus       558 p~~SllNHSC~PN~~~~f~~~~~~l~~~A~r~I~~GeeI~~sY~~~~~~~  607 (766)
                      +.++++||||.||+...+......+.++|+|+|++||||+++|++.||..
T Consensus        63 ~~~~~~NHsc~pN~~~~~~~~~~~~~~~A~rdI~~GEEL~~dYg~~yw~~  112 (119)
T d2g46a1          63 GFGAIFNHSKDPNARHELTAGLKRMRIFTIKPIAIGEEITISYGDDYWLS  112 (119)
T ss_dssp             STTSSCCCCSSCCCEEEECSSSSEEEEECSSCBCTTEEECCCCCSSSCCS
T ss_pred             CCeEEEEecCCcCceEEEECCCCEEEEEECcccCCCCEEEEecChhHhcc
Confidence            45688999999999887733444688999999999999999999999975

>d1j4wa2 d.51.1.1 (A:104-174) Far upstream binding element, FBP {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Eukaryotic type KH-domain (KH-domain type I)
superfamily: Eukaryotic type KH-domain (KH-domain type I)
family: Eukaryotic type KH-domain (KH-domain type I)
domain: Far upstream binding element, FBP
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.26  E-value=3.8e-07  Score=73.43  Aligned_cols=52  Identities=25%  Similarity=0.365  Sum_probs=46.2

Q ss_pred             hhhccccCCCCcHHHHHHHhhCceEEEeC----------ceEEEEcchhhHHHHHHHHHHhh
Q psy8224         134 RAIGRLAGKGGRTKFTIENITKTRIVIAD----------SKIHVLGSYQNVQVALKALSNLI  185 (766)
Q Consensus       134 r~~griiG~~G~t~~~ie~~t~~~I~v~~----------~~v~iiG~~~~l~~ar~~i~~~~  185 (766)
                      ..+|+|||++|.+++.|++.|||+|.|..          +.|.|.|+.++++.|++.|...+
T Consensus        10 ~~vg~IIGk~G~~Ik~I~~~sga~I~i~~~~~~~~~~~~r~v~I~G~~~~v~~A~~~I~e~i   71 (71)
T d1j4wa2          10 GKTGLIIGKGGETIKSISQQSGARIELQRNPPPNADPNMKLFTIRGTPQQIDYARQLIEEKI   71 (71)
T ss_dssp             TTHHHHHCGGGHHHHHHHHHHCCEEEEECCCTTTSCTTEEEEEEECCHHHHHHHHHHHHHHC
T ss_pred             HhcceEECCCCcChHHHHhhcCcEEEEeecCCCCCCCCeEEEEEEeCHHHHHHHHHHHHhhC
Confidence            45899999999999999999999999952          35999999999999999987653

>d1j4wa1 d.51.1.1 (A:1-74) Far upstream binding element, FBP {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Eukaryotic type KH-domain (KH-domain type I)
superfamily: Eukaryotic type KH-domain (KH-domain type I)
family: Eukaryotic type KH-domain (KH-domain type I)
domain: Far upstream binding element, FBP
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.18  E-value=6.8e-07  Score=72.51  Aligned_cols=53  Identities=23%  Similarity=0.310  Sum_probs=48.2

Q ss_pred             hhhccccCCCCcHHHHHHHhhCceEEEeC-------ceEEEEcchhhHHHHHHHHHHhhc
Q psy8224         134 RAIGRLAGKGGRTKFTIENITKTRIVIAD-------SKIHVLGSYQNVQVALKALSNLIL  186 (766)
Q Consensus       134 r~~griiG~~G~t~~~ie~~t~~~I~v~~-------~~v~iiG~~~~l~~ar~~i~~~~~  186 (766)
                      ..+|+|||++|.|++.|++.|||+|.|..       +.|.|.|+.+++..|++.|..+++
T Consensus        12 ~~vg~iIGk~G~~I~~I~~~tga~I~i~~~~~~~~~r~v~I~G~~~~v~~A~~~I~~~i~   71 (74)
T d1j4wa1          12 FAVGIVIGRNGEMIKKIQNDAGVRIQFKPDDGTTPERIAQITGPPDRAQHAAEIITDLLR   71 (74)
T ss_dssp             HHHHHHHCGGGHHHHHHHHHHCCEEEEECCTTSCSEEEEEEEECHHHHHHHHHHHHHHHH
T ss_pred             HHCCeeECCCCcHHHHHHHHcCCEEEeccCCCCCCeeEEEEEeCHHHHHHHHHHHHHHHH
Confidence            56999999999999999999999999952       259999999999999999998875

>d1zzka1 d.51.1.1 (A:11-85) HnRNP K, KH3 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Eukaryotic type KH-domain (KH-domain type I)
superfamily: Eukaryotic type KH-domain (KH-domain type I)
family: Eukaryotic type KH-domain (KH-domain type I)
domain: HnRNP K, KH3
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.17  E-value=9.9e-07  Score=71.67  Aligned_cols=53  Identities=26%  Similarity=0.357  Sum_probs=47.8

Q ss_pred             hhhccccCCCCcHHHHHHHhhCceEEEeC-------ceEEEEcchhhHHHHHHHHHHhhc
Q psy8224         134 RAIGRLAGKGGRTKFTIENITKTRIVIAD-------SKIHVLGSYQNVQVALKALSNLIL  186 (766)
Q Consensus       134 r~~griiG~~G~t~~~ie~~t~~~I~v~~-------~~v~iiG~~~~l~~ar~~i~~~~~  186 (766)
                      ..+|+|||++|.+++.|++.|||+|.|.+       +.|.|.|+.++++.|++.|..+++
T Consensus        13 ~~vg~iIG~~G~~I~~I~~~sga~I~i~~~~~~~~~r~i~I~G~~~~v~~A~~~I~~~i~   72 (75)
T d1zzka1          13 DLAGSIIGKGGQRIKQIRHESGASIKIDEPLEGSEDRIITITGTQDQIQNAQYLLQNSVK   72 (75)
T ss_dssp             TTGGGGTCGGGHHHHHHHHHHCCEEEECCTTSCSSEEEEEEEECHHHHHHHHHHHHHHHH
T ss_pred             HhcCeeECCCCchHHHHHhhcCCeEEEccCCCCCCceEEEEEeCHHHHHHHHHHHHHHHH
Confidence            45999999999999999999999999953       359999999999999999988764

>d1dtja_ d.51.1.1 (A:) Neuro-oncological ventral antigen 2, nova-2, KH3 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Eukaryotic type KH-domain (KH-domain type I)
superfamily: Eukaryotic type KH-domain (KH-domain type I)
family: Eukaryotic type KH-domain (KH-domain type I)
domain: Neuro-oncological ventral antigen 2, nova-2, KH3
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.17  E-value=7.6e-07  Score=72.22  Aligned_cols=52  Identities=29%  Similarity=0.479  Sum_probs=46.7

Q ss_pred             hhhccccCCCCcHHHHHHHhhCceEEEeC----------ceEEEEcchhhHHHHHHHHHHhh
Q psy8224         134 RAIGRLAGKGGRTKFTIENITKTRIVIAD----------SKIHVLGSYQNVQVALKALSNLI  185 (766)
Q Consensus       134 r~~griiG~~G~t~~~ie~~t~~~I~v~~----------~~v~iiG~~~~l~~ar~~i~~~~  185 (766)
                      ..+|.|||++|++++.|++.|||+|.|..          +.|.|.|+.++++.|++.|...+
T Consensus        12 ~~vg~iIGk~G~~Ik~I~~~sga~I~i~~~~~~~~~~~~r~v~I~G~~~~v~~A~~~I~~~i   73 (74)
T d1dtja_          12 NLVGAILGKGGKTLVEYQELTGARIQISKKGEFLPGTRNRRVTITGSPAATQAAQYLISQRV   73 (74)
T ss_dssp             TTHHHHHCSTTHHHHHHHHHHCCEEEECCTTCCSTTCCEEEEEEEESHHHHHHHHHHHHHHC
T ss_pred             HHcceeECCCChhHHHHHHHcCCEEEEccCCCCCCCCCceEEEEEeCHHHHHHHHHHHHHHc
Confidence            45999999999999999999999999953          35999999999999999987754

>d1wvna1 d.51.1.1 (A:5-74) Poly(RC)-binding protein 1 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Eukaryotic type KH-domain (KH-domain type I)
superfamily: Eukaryotic type KH-domain (KH-domain type I)
family: Eukaryotic type KH-domain (KH-domain type I)
domain: Poly(RC)-binding protein 1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.15  E-value=7.6e-07  Score=71.39  Aligned_cols=52  Identities=21%  Similarity=0.385  Sum_probs=46.6

Q ss_pred             hhhccccCCCCcHHHHHHHhhCceEEEeC-------ceEEEEcchhhHHHHHHHHHHhh
Q psy8224         134 RAIGRLAGKGGRTKFTIENITKTRIVIAD-------SKIHVLGSYQNVQVALKALSNLI  185 (766)
Q Consensus       134 r~~griiG~~G~t~~~ie~~t~~~I~v~~-------~~v~iiG~~~~l~~ar~~i~~~~  185 (766)
                      ..+|.|||++|.+++.|+..||++|.|.+       +.|.|.|+.++++.|+..|..-+
T Consensus        11 ~~vg~iIGk~G~~I~~I~~~tga~I~i~~~~~~~~~r~v~I~G~~~~v~~A~~~I~~~i   69 (70)
T d1wvna1          11 NLIGCIIGRQGANINEIRQMSGAQIKIANPVEGSSGRQVTITGSAASISLAQYLINARL   69 (70)
T ss_dssp             GGHHHHHCGGGHHHHHHHHHHCCEEEECCCCTTCSEEEEEEEECHHHHHHHHHHHHHHT
T ss_pred             HhcceeECCCChHHHHHHHHcCcEEEEcCCCCCCCcEEEEEEeCHHHHHHHHHHHHHHc
Confidence            56999999999999999999999999953       35999999999999999887643

>d2je6i3 d.51.1.1 (I:153-221) Exosome complex RNA-binding protein 1, ECR1 {Sulfolobus solfataricus [TaxId: 2287]}

class: Alpha and beta proteins (a+b)
fold: Eukaryotic type KH-domain (KH-domain type I)
superfamily: Eukaryotic type KH-domain (KH-domain type I)
family: Eukaryotic type KH-domain (KH-domain type I)
domain: Exosome complex RNA-binding protein 1, ECR1
species: Sulfolobus solfataricus [TaxId: 2287]

Probab=98.13  E-value=1.2e-07  Score=75.78  Aligned_cols=56  Identities=16%  Similarity=0.189  Sum_probs=42.5

Q ss_pred             hhhccccCCCCcHHHHHHHhhCceEEEe-CceEEEEcc-hhhHHHHHHHHHHhhcCCC
Q psy8224         134 RAIGRLAGKGGRTKFTIENITKTRIVIA-DSKIHVLGS-YQNVQVALKALSNLILGSP  189 (766)
Q Consensus       134 r~~griiG~~G~t~~~ie~~t~~~I~v~-~~~v~iiG~-~~~l~~ar~~i~~~~~~~~  189 (766)
                      ..+|||||++|++++.||..|||+|.|. +.+|.|.|. .+.+..|+++|..+.+-++
T Consensus        10 ~~ig~iIGkgG~~Ik~i~~~tg~~I~i~~~g~v~I~g~~~~~v~~A~~~I~~i~~ea~   67 (69)
T d2je6i3          10 VKVPRVIGKNKSMYETLTSKSGCSIFVANNGRIWATCPSRFSEEILIEAIRKIENESH   67 (69)
T ss_dssp             GGHHHHHCGGGHHHHHHHTTC---CEECTTSEEEC-----CTTCCTHHHHTTTTTTTT
T ss_pred             hhccceECCchhHHHHHHHHHCCEEEEcCCCEEEEEeCCHHHHHHHHHHHHHHHHhhc
Confidence            4489999999999999999999999996 468999996 5689999999988776543

>d2z0sa2 d.51.1.1 (A:148-234) Exosome complex RNA-binding protein 1, ECR1 {Aeropyrum pernix [TaxId: 56636]}

class: Alpha and beta proteins (a+b)
fold: Eukaryotic type KH-domain (KH-domain type I)
superfamily: Eukaryotic type KH-domain (KH-domain type I)
family: Eukaryotic type KH-domain (KH-domain type I)
domain: Exosome complex RNA-binding protein 1, ECR1
species: Aeropyrum pernix [TaxId: 56636]

Probab=98.13  E-value=1.7e-06  Score=71.80  Aligned_cols=57  Identities=19%  Similarity=0.195  Sum_probs=50.6

Q ss_pred             hhhccccCCCCcHHHHHHHhhCceEEEeC-ceEEEEcc-hhhHHHHHHHHHHhhcCCCC
Q psy8224         134 RAIGRLAGKGGRTKFTIENITKTRIVIAD-SKIHVLGS-YQNVQVALKALSNLILGSPP  190 (766)
Q Consensus       134 r~~griiG~~G~t~~~ie~~t~~~I~v~~-~~v~iiG~-~~~l~~ar~~i~~~~~~~~p  190 (766)
                      ..+|||||++|++++.|+..|||+|.|.+ .+|.|.|+ .+.+..|+.+|..+.+-.+-
T Consensus        10 ~ki~~vIG~gG~~ik~i~~~t~~~I~I~d~G~V~I~g~~~~~~~~A~~~I~~I~~ea~v   68 (87)
T d2z0sa2          10 AKVPRVIGRKMSMLKTLEEKTECKIFVARNGRIHLECPNEDLEAIAVMAIKIIDEEAYT   68 (87)
T ss_dssp             GGSGGGTCGGGHHHHHHHHHHCCEEEEETTTEEEEECSCHHHHHHHHHHHHHHHHCSCC
T ss_pred             hhcceeECCCCcHHHHHHHHHCCEEEECCCcEEEEEeCCHHHHHHHHHHHHHHHHhchh
Confidence            34999999999999999999999999986 67999996 57889999999999877653

>d2axya1 d.51.1.1 (A:11-81) Poly(RC)-binding protein 2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Eukaryotic type KH-domain (KH-domain type I)
superfamily: Eukaryotic type KH-domain (KH-domain type I)
family: Eukaryotic type KH-domain (KH-domain type I)
domain: Poly(RC)-binding protein 2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.12  E-value=8.9e-07  Score=71.18  Aligned_cols=53  Identities=19%  Similarity=0.339  Sum_probs=47.8

Q ss_pred             hhhccccCCCCcHHHHHHHhhCceEEEeC-----ceEEEEcchhhHHHHHHHHHHhhc
Q psy8224         134 RAIGRLAGKGGRTKFTIENITKTRIVIAD-----SKIHVLGSYQNVQVALKALSNLIL  186 (766)
Q Consensus       134 r~~griiG~~G~t~~~ie~~t~~~I~v~~-----~~v~iiG~~~~l~~ar~~i~~~~~  186 (766)
                      ...|.|||++|.+++.|+..|||+|.|.+     +.|.|.|+.+++..|+..|...++
T Consensus        13 ~~~g~IIGk~G~~I~~I~~~tga~I~i~~~~~~er~v~I~G~~~~v~~A~~~I~~~l~   70 (71)
T d2axya1          13 KEVGSIIGKKGESVKKMREESGARINISEGNCPERIITLAGPTNAIFKAFAMIIDKLE   70 (71)
T ss_dssp             HHHHHHHCGGGHHHHHHHHHHCCEEEECSSCCSEEEEEEEECHHHHHHHHHHHHHHHH
T ss_pred             HHcCeEECCCChhHHHHHHHhCCEEEEcCCCCCcceEEEEECHHHHHHHHHHHHHHhc
Confidence            56999999999999999999999999975     348899999999999999988764

>d1viga_ d.51.1.1 (A:) Vigilin {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Eukaryotic type KH-domain (KH-domain type I)
superfamily: Eukaryotic type KH-domain (KH-domain type I)
family: Eukaryotic type KH-domain (KH-domain type I)
domain: Vigilin
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.11  E-value=1.4e-06  Score=70.08  Aligned_cols=52  Identities=29%  Similarity=0.317  Sum_probs=47.2

Q ss_pred             hhhccccCCCCcHHHHHHHhhCceEEEe-----CceEEEEcchhhHHHHHHHHHHhh
Q psy8224         134 RAIGRLAGKGGRTKFTIENITKTRIVIA-----DSKIHVLGSYQNVQVALKALSNLI  185 (766)
Q Consensus       134 r~~griiG~~G~t~~~ie~~t~~~I~v~-----~~~v~iiG~~~~l~~ar~~i~~~~  185 (766)
                      +..|+|||++|.+++.|+..|||+|.+.     +++|.|.|+.++++.|+..|..+.
T Consensus        14 ~~~~~iIG~~G~~i~~I~~~tg~~I~i~~~~~~~~~v~I~G~~~~v~~A~~~I~~i~   70 (71)
T d1viga_          14 KFHRHLIGKSGANINRIKDQYKVSVRIPPDSEKSNLIRIEGDPQGVQQAKRELLELA   70 (71)
T ss_dssp             SHHHHHTCSSCCHHHHHHHHTCCEEECCCCCSSSEEEEEEESSHHHHHHHHHHHHTC
T ss_pred             HHhcccCCCCCchHHHHHHHhCCEEEeCCCCCCCCEEEEECCHHHHHHHHHHHHHHh
Confidence            5689999999999999999999999994     356999999999999999998764

>d2cpqa1 d.51.1.1 (A:212-289) Fragile X mental retardation syndrome related protein 1, FXR1 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Eukaryotic type KH-domain (KH-domain type I)
superfamily: Eukaryotic type KH-domain (KH-domain type I)
family: Eukaryotic type KH-domain (KH-domain type I)
domain: Fragile X mental retardation syndrome related protein 1, FXR1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.10  E-value=7.5e-07  Score=72.85  Aligned_cols=54  Identities=17%  Similarity=0.124  Sum_probs=47.8

Q ss_pred             hhhccccCCCCcHHHHHHHhhCceEEEeC---ceEEEEc-chhhHHHHHHHHHHhhcC
Q psy8224         134 RAIGRLAGKGGRTKFTIENITKTRIVIAD---SKIHVLG-SYQNVQVALKALSNLILG  187 (766)
Q Consensus       134 r~~griiG~~G~t~~~ie~~t~~~I~v~~---~~v~iiG-~~~~l~~ar~~i~~~~~~  187 (766)
                      ..+|.|||++|++++.|+..||++|.+.+   .+|.|.| +.+.++.||+.|+.+...
T Consensus        17 ~~ig~vIG~gG~~I~~I~~~tGa~i~i~~~~~g~v~I~g~~~eav~~A~~~Ie~~~~~   74 (78)
T d2cpqa1          17 DLMGLAIGTHGSNIQQARKVPGVTAIELDEDTGTFRIYGESADAVKKARGFLEFVEDF   74 (78)
T ss_dssp             HHHHHHHTTTTHHHHHHHTSTTEEEEEEETTTTEEEEEESSHHHHHHHHHHHSCCCCC
T ss_pred             HHHHHHcCCChHHHHHHHHhcCcEEEEecCCCceEEEEECCHHHHHHHHHHHHHhhee
Confidence            56999999999999999999999999854   5799999 589999999999876643

>d2ctma1 d.51.1.1 (A:8-88) Vigilin {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Eukaryotic type KH-domain (KH-domain type I)
superfamily: Eukaryotic type KH-domain (KH-domain type I)
family: Eukaryotic type KH-domain (KH-domain type I)
domain: Vigilin
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.07  E-value=1.6e-06  Score=71.48  Aligned_cols=53  Identities=26%  Similarity=0.288  Sum_probs=47.8

Q ss_pred             hhhccccCCCCcHHHHHHHhhCceEEEe------CceEEEEcchhhHHHHHHHHHHhhc
Q psy8224         134 RAIGRLAGKGGRTKFTIENITKTRIVIA------DSKIHVLGSYQNVQVALKALSNLIL  186 (766)
Q Consensus       134 r~~griiG~~G~t~~~ie~~t~~~I~v~------~~~v~iiG~~~~l~~ar~~i~~~~~  186 (766)
                      +..|+|||++|.+++.|+.-|||+|.+.      .+.|.|.|+.+++..|++.|..+++
T Consensus        19 ~~~~~iIG~~G~~i~~I~~~tg~~I~~p~~~~~~~~~v~I~G~~~~V~~A~~~I~~i~~   77 (81)
T d2ctma1          19 RVHARIIGARGKAIRKIMDEFKVDIRFPQSGAPDPNCVTVTGLPENVEEAIDHILNLEE   77 (81)
T ss_dssp             TTHHHHHCSSSCHHHHHHHHHTCEEECCCTTCSCTTEEEEESCHHHHHHHHHHHHHHHH
T ss_pred             HHHhhccCCCCccHHHHHHHhCCEEEeCCccCCCCCEEEEeCCHHHHHHHHHHHHHHHH
Confidence            6689999999999999999999999993      2469999999999999999988764

>d1x4ma1 d.51.1.1 (A:8-88) Far upstream binding element, FBP {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Eukaryotic type KH-domain (KH-domain type I)
superfamily: Eukaryotic type KH-domain (KH-domain type I)
family: Eukaryotic type KH-domain (KH-domain type I)
domain: Far upstream binding element, FBP
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=98.06  E-value=2.3e-06  Score=70.54  Aligned_cols=54  Identities=24%  Similarity=0.359  Sum_probs=48.7

Q ss_pred             hhhccccCCCCcHHHHHHHhhCceEEEeC---------ceEEEEcchhhHHHHHHHHHHhhcC
Q psy8224         134 RAIGRLAGKGGRTKFTIENITKTRIVIAD---------SKIHVLGSYQNVQVALKALSNLILG  187 (766)
Q Consensus       134 r~~griiG~~G~t~~~ie~~t~~~I~v~~---------~~v~iiG~~~~l~~ar~~i~~~~~~  187 (766)
                      ...|+|||++|.+++.|++.|||+|.|..         +.|.|.|+.+++..|+..|..+++.
T Consensus        17 ~~~g~iIGk~G~~Ik~I~~~tga~I~i~~~~~~~~~~~r~v~I~G~~~~v~~A~~~I~~~i~e   79 (81)
T d1x4ma1          17 SKAGLVIGKGGETIKQLQERAGVKMVMIQDGPQNTGADKPLRITGDPYKVQQAKEMVLELIRD   79 (81)
T ss_dssp             HHHHHHSCSSSSHHHHHHHHHTSEEEECCSCCCSSCSCEEEEEEECTTTHHHHHHHHHHHHCC
T ss_pred             HHcCeeECCCCchHHHHHHHhCCeEEEccCCCCCCCCceEEEEEeCHHHHHHHHHHHHHHHHh
Confidence            56899999999999999999999999942         3599999999999999999998853

>d2ctla1 d.51.1.1 (A:8-91) Vigilin {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Eukaryotic type KH-domain (KH-domain type I)
superfamily: Eukaryotic type KH-domain (KH-domain type I)
family: Eukaryotic type KH-domain (KH-domain type I)
domain: Vigilin
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.04  E-value=2.2e-06  Score=71.19  Aligned_cols=53  Identities=17%  Similarity=0.237  Sum_probs=47.8

Q ss_pred             hhhccccCCCCcHHHHHHHhhCceEEEe--------CceEEEEcchhhHHHHHHHHHHhhc
Q psy8224         134 RAIGRLAGKGGRTKFTIENITKTRIVIA--------DSKIHVLGSYQNVQVALKALSNLIL  186 (766)
Q Consensus       134 r~~griiG~~G~t~~~ie~~t~~~I~v~--------~~~v~iiG~~~~l~~ar~~i~~~~~  186 (766)
                      +..|+|||++|.+++.|+..|||+|.|.        .+.|.|.|+.+++..|+..|..++.
T Consensus        19 ~~~~~iIG~~G~~i~~I~~~t~~~I~~~~~~~~~~~~~~i~I~G~~e~v~~A~~~I~~~i~   79 (84)
T d2ctla1          19 KYHPKIIGRKGAVITQIRLEHDVNIQFPDKDDGNQPQDQITITGYEKNTEAARDAILRIVG   79 (84)
T ss_dssp             TTHHHHSCSSSCHHHHHHHHHTCEEECCCTTTCSSCSSEEEEESCHHHHHHHHHHHHHHHH
T ss_pred             HHHhhhcCCCchhHHHHHHHhCCEEEECCCCCCCCCcceEEEECCHHHHHHHHHHHHHHHH
Confidence            5699999999999999999999999994        2469999999999999999988763

>d1x4na1 d.51.1.1 (A:8-86) Far upstream binding element, FBP {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Eukaryotic type KH-domain (KH-domain type I)
superfamily: Eukaryotic type KH-domain (KH-domain type I)
family: Eukaryotic type KH-domain (KH-domain type I)
domain: Far upstream binding element, FBP
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=98.02  E-value=2e-06  Score=70.57  Aligned_cols=53  Identities=25%  Similarity=0.378  Sum_probs=48.0

Q ss_pred             hhhccccCCCCcHHHHHHHhhCceEEEeC-------ceEEEEcchhhHHHHHHHHHHhhc
Q psy8224         134 RAIGRLAGKGGRTKFTIENITKTRIVIAD-------SKIHVLGSYQNVQVALKALSNLIL  186 (766)
Q Consensus       134 r~~griiG~~G~t~~~ie~~t~~~I~v~~-------~~v~iiG~~~~l~~ar~~i~~~~~  186 (766)
                      ..+|.|||++|.+++.|+..|||+|.|..       +.|.|.|+.+++..|+..|..++.
T Consensus        17 ~~~g~iIG~~G~~i~~I~~~tg~~I~i~~~~~~~~~r~v~I~G~~~~v~~A~~~I~~~i~   76 (79)
T d1x4na1          17 GMVGFIIGRGGEQISRIQQESGCKIQIAPDSGGLPERSCMLTGTPESVQSAKRLLDQIVE   76 (79)
T ss_dssp             HHHHHHHCSSSHHHHHHHHHSCCEEEECSCCTTCSEEEEEEEECHHHHHHHHHHHHHHHH
T ss_pred             HhhcceECCCchhHHHHHHHhCCEEEEcCCCCCCCceEEEEEeCHHHHHHHHHHHHHHHH
Confidence            56999999999999999999999999952       359999999999999999998873

>d1tuaa1 d.51.1.1 (A:1-84) Hypothetical protein APE0754 {Aeropyrum pernix [TaxId: 56636]}

class: Alpha and beta proteins (a+b)
fold: Eukaryotic type KH-domain (KH-domain type I)
superfamily: Eukaryotic type KH-domain (KH-domain type I)
family: Eukaryotic type KH-domain (KH-domain type I)
domain: Hypothetical protein APE0754
species: Aeropyrum pernix [TaxId: 56636]

Probab=97.98  E-value=2.1e-06  Score=71.01  Aligned_cols=62  Identities=27%  Similarity=0.359  Sum_probs=51.9

Q ss_pred             hhhccccCCCCcHHHHHHHhhCceEEEeC--ceEEEEcc-----hhhHHHHHHHHHHhhcCCCCccccc
Q psy8224         134 RAIGRLAGKGGRTKFTIENITKTRIVIAD--SKIHVLGS-----YQNVQVALKALSNLILGSPPNKVYG  195 (766)
Q Consensus       134 r~~griiG~~G~t~~~ie~~t~~~I~v~~--~~v~iiG~-----~~~l~~ar~~i~~~~~~~~p~~~~s  195 (766)
                      ..+|.|||++|+|++.||+.|||+|.|..  ..|.+.+.     ...+..|+.+|..+-+|-.|...+.
T Consensus        12 ~~ig~vIG~gG~~Ik~i~~~tg~~I~Id~d~g~v~i~~~~~~~~~~a~~~a~~iI~aI~rGf~Pe~a~~   80 (84)
T d1tuaa1          12 ERLGAVIGPRGEVKAEIMRRTGTVITVDTENSMVIVEPEAEGIPPVNLMKAAEVVKAISLGFPPEKAFR   80 (84)
T ss_dssp             GGHHHHHCGGGHHHHHHHHHHTEEEEEETTTTEEEEEESSTTSCHHHHHHHHHHHHHHHHTCCHHHHGG
T ss_pred             HHcCeeecCCchhHHHHHHHHCCEEEEEcCCCeEEEecCCccccHHHHHHHHHHHHHHhCCCChHHHHH
Confidence            45999999999999999999999999964  45776653     4468899999999999999876554

>d1we8a_ d.51.1.1 (A:) Tudor and KH domain containing protein, Tdrkh {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Eukaryotic type KH-domain (KH-domain type I)
superfamily: Eukaryotic type KH-domain (KH-domain type I)
family: Eukaryotic type KH-domain (KH-domain type I)
domain: Tudor and KH domain containing protein, Tdrkh
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=97.98  E-value=2.4e-06  Score=73.95  Aligned_cols=53  Identities=25%  Similarity=0.424  Sum_probs=47.9

Q ss_pred             hhhccccCCCCcHHHHHHHhhCceEEEeC---------ceEEEEcchhhHHHHHHHHHHhhc
Q psy8224         134 RAIGRLAGKGGRTKFTIENITKTRIVIAD---------SKIHVLGSYQNVQVALKALSNLIL  186 (766)
Q Consensus       134 r~~griiG~~G~t~~~ie~~t~~~I~v~~---------~~v~iiG~~~~l~~ar~~i~~~~~  186 (766)
                      ..+|+|||++|.+++.|++.|||+|.|..         +.|.|.|+.+++..|+..|...+.
T Consensus        24 ~~vg~vIGk~G~~Ik~I~~~tga~I~i~~~~~~~~~~~r~v~I~G~~~~v~~A~~~I~~~i~   85 (104)
T d1we8a_          24 RSVGRIIGRGGETIRSICKASGAKITCDKESEGTLLLSRLIKISGTQKEVAAAKHLILEKVS   85 (104)
T ss_dssp             TTHHHHHTTTSHHHHHHHHHHCCEEEECCSSCCSSSSEEEEEEEEEHHHHHHHHHHHHHHHH
T ss_pred             HHhcceECCCCcchHHHHHHcCCEEEECCCCCCCCCCccEEEEEeCHHHHHHHHHHHHHHHh
Confidence            45999999999999999999999999942         359999999999999999988873

>d2ctea1 d.51.1.1 (A:8-88) Vigilin {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Eukaryotic type KH-domain (KH-domain type I)
superfamily: Eukaryotic type KH-domain (KH-domain type I)
family: Eukaryotic type KH-domain (KH-domain type I)
domain: Vigilin
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.95  E-value=2.3e-06  Score=70.62  Aligned_cols=53  Identities=21%  Similarity=0.253  Sum_probs=48.1

Q ss_pred             hhhccccCCCCcHHHHHHHhhCceEEEe-----CceEEEEcchhhHHHHHHHHHHhhc
Q psy8224         134 RAIGRLAGKGGRTKFTIENITKTRIVIA-----DSKIHVLGSYQNVQVALKALSNLIL  186 (766)
Q Consensus       134 r~~griiG~~G~t~~~ie~~t~~~I~v~-----~~~v~iiG~~~~l~~ar~~i~~~~~  186 (766)
                      ..+|+|||++|.+++.|+..|||+|.+.     .+.|.|.|+.+++..|++.|..++.
T Consensus        19 ~~~~~iIG~~G~~i~~I~~~tg~~I~~p~~~~~~~~v~I~G~~~~v~~A~~~I~~iv~   76 (81)
T d2ctea1          19 EHHRFVIGKNGEKLQDLELKTATKIQIPRPDDPSNQIKITGTKEGIEKARHEVLLISA   76 (81)
T ss_dssp             TTHHHHHCSSSCHHHHHHHHTTCCCBCCCTTSSCCEEEEEECHHHHHHHHHHHHHHHH
T ss_pred             HHHhhccCCCChhHHHHHHHhCCEEEECCCCCCCCEEEEEeCHHHHHHHHHHHHHHHH
Confidence            4589999999999999999999999993     4669999999999999999988763

>d2cpqa1 d.51.1.1 (A:212-289) Fragile X mental retardation syndrome related protein 1, FXR1 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Eukaryotic type KH-domain (KH-domain type I)
superfamily: Eukaryotic type KH-domain (KH-domain type I)
family: Eukaryotic type KH-domain (KH-domain type I)
domain: Fragile X mental retardation syndrome related protein 1, FXR1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.84  E-value=5.1e-06  Score=67.79  Aligned_cols=64  Identities=11%  Similarity=-0.047  Sum_probs=56.7

Q ss_pred             ceEEEecCCCcchhhhccCcccHHHHHHhcCcEEEEE-cccCeEEEEeCCCCCCHHHHHHHHHHHHHHH
Q psy8224          30 DMRKVPVPNHRYGPLKENWMKIFTPIVEHLKLQVRFN-LKSRNVEIRLSPETEDISNLQKAADFVKAFV   97 (766)
Q Consensus        30 ~~~~i~iP~~r~~~l~~~~~~i~~~i~~~~~~~i~i~-~~~~~v~i~~~~~t~d~~~~~ka~~~i~ai~   97 (766)
                      .+..+.||++.+|.|||..|++++.|.+.+|+++.++ ..+|.|.|.+    .|+.++.+|+++|.-+.
T Consensus         8 ~t~~i~Ip~~~ig~vIG~gG~~I~~I~~~tGa~i~i~~~~~g~v~I~g----~~~eav~~A~~~Ie~~~   72 (78)
T d2cpqa1           8 FHEEFVVREDLMGLAIGTHGSNIQQARKVPGVTAIELDEDTGTFRIYG----ESADAVKKARGFLEFVE   72 (78)
T ss_dssp             EEEEEECCHHHHHHHHTTTTHHHHHHHTSTTEEEEEEETTTTEEEEEE----SSHHHHHHHHHHHSCCC
T ss_pred             ceEEEEECHHHHHHHcCCChHHHHHHHHhcCcEEEEecCCCceEEEEE----CCHHHHHHHHHHHHHhh
Confidence            5678999999999999999999999999999999875 5569999987    58999999999996443

>d2z0sa2 d.51.1.1 (A:148-234) Exosome complex RNA-binding protein 1, ECR1 {Aeropyrum pernix [TaxId: 56636]}

class: Alpha and beta proteins (a+b)
fold: Eukaryotic type KH-domain (KH-domain type I)
superfamily: Eukaryotic type KH-domain (KH-domain type I)
family: Eukaryotic type KH-domain (KH-domain type I)
domain: Exosome complex RNA-binding protein 1, ECR1
species: Aeropyrum pernix [TaxId: 56636]

Probab=97.82  E-value=2.1e-05  Score=65.09  Aligned_cols=62  Identities=8%  Similarity=0.064  Sum_probs=57.4

Q ss_pred             EEEecCCCcchhhhccCcccHHHHHHhcCcEEEEEcccCeEEEEeCCCCCCHHHHHHHHHHHHHHHc
Q psy8224          32 RKVPVPNHRYGPLKENWMKIFTPIVEHLKLQVRFNLKSRNVEIRLSPETEDISNLQKAADFVKAFVY   98 (766)
Q Consensus        32 ~~i~iP~~r~~~l~~~~~~i~~~i~~~~~~~i~i~~~~~~v~i~~~~~t~d~~~~~ka~~~i~ai~~   98 (766)
                      .-+.||+++++.|||..|++++.|.+.++++|.|+ ++|.|.|.+    .|+..+.+|+.+|++|.+
T Consensus         3 ~vi~I~~~ki~~vIG~gG~~ik~i~~~t~~~I~I~-d~G~V~I~g----~~~~~~~~A~~~I~~I~~   64 (87)
T d2z0sa2           3 KIVEISPAKVPRVIGRKMSMLKTLEEKTECKIFVA-RNGRIHLEC----PNEDLEAIAVMAIKIIDE   64 (87)
T ss_dssp             EEEECCGGGSGGGTCGGGHHHHHHHHHHCCEEEEE-TTTEEEEEC----SCHHHHHHHHHHHHHHHH
T ss_pred             EEEEEChhhcceeECCCCcHHHHHHHHHCCEEEEC-CCcEEEEEe----CCHHHHHHHHHHHHHHHH
Confidence            46899999999999999999999999999999998 679999998    588999999999999854

>d2ctka1 d.51.1.1 (A:8-98) Vigilin {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Eukaryotic type KH-domain (KH-domain type I)
superfamily: Eukaryotic type KH-domain (KH-domain type I)
family: Eukaryotic type KH-domain (KH-domain type I)
domain: Vigilin
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.81  E-value=7.5e-06  Score=68.96  Aligned_cols=53  Identities=15%  Similarity=0.120  Sum_probs=47.9

Q ss_pred             hhhccccCCCCcHHHHHHHhhCceEEEe-----CceEEEEcchhhHHHHHHHHHHhhc
Q psy8224         134 RAIGRLAGKGGRTKFTIENITKTRIVIA-----DSKIHVLGSYQNVQVALKALSNLIL  186 (766)
Q Consensus       134 r~~griiG~~G~t~~~ie~~t~~~I~v~-----~~~v~iiG~~~~l~~ar~~i~~~~~  186 (766)
                      ...|+|||++|.+++.|+..|||+|.+.     .+.|.|.|+.++++.|++.|..++.
T Consensus        19 ~~~~~iIG~~G~~i~~I~~~tg~~I~~p~~~~~~~~v~I~G~~~~V~~A~~~I~~~v~   76 (91)
T d2ctka1          19 DLHRYVIGQKGSGIRKMMDEFEVNIHVPAPELQSDIIAITGLAANLDRAKAGLLERVK   76 (91)
T ss_dssp             HHHHHHHCSSSHHHHHHHHHTCCEEECCCTTTTCCEEEEEECHHHHHHHHHHHHHHHH
T ss_pred             HHHhHhcCCCchhHHHHHHHhCCEEEECCCCCCcceEEEECCHHHHHHHHHHHHHHHH
Confidence            5689999999999999999999999994     3569999999999999999988764

>d1zzka1 d.51.1.1 (A:11-85) HnRNP K, KH3 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Eukaryotic type KH-domain (KH-domain type I)
superfamily: Eukaryotic type KH-domain (KH-domain type I)
family: Eukaryotic type KH-domain (KH-domain type I)
domain: HnRNP K, KH3
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.77  E-value=1.3e-05  Score=64.86  Aligned_cols=64  Identities=14%  Similarity=0.145  Sum_probs=56.7

Q ss_pred             ceEEEecCCCcchhhhccCcccHHHHHHhcCcEEEEEc-----ccCeEEEEeCCCCCCHHHHHHHHHHHHHHHc
Q psy8224          30 DMRKVPVPNHRYGPLKENWMKIFTPIVEHLKLQVRFNL-----KSRNVEIRLSPETEDISNLQKAADFVKAFVY   98 (766)
Q Consensus        30 ~~~~i~iP~~r~~~l~~~~~~i~~~i~~~~~~~i~i~~-----~~~~v~i~~~~~t~d~~~~~ka~~~i~ai~~   98 (766)
                      .|.+|.||.+.+|.|||+.|..++.|.+.+|++|.++.     .++.|.|.+     ++.++.+|+.+|..+.+
T Consensus         4 ~t~~i~VP~~~vg~iIG~~G~~I~~I~~~sga~I~i~~~~~~~~~r~i~I~G-----~~~~v~~A~~~I~~~i~   72 (75)
T d1zzka1           4 ITTQVTIPKDLAGSIIGKGGQRIKQIRHESGASIKIDEPLEGSEDRIITITG-----TQDQIQNAQYLLQNSVK   72 (75)
T ss_dssp             EEEEEEEETTTGGGGTCGGGHHHHHHHHHHCCEEEECCTTSCSSEEEEEEEE-----CHHHHHHHHHHHHHHHH
T ss_pred             EEEEEEEChHhcCeeECCCCchHHHHHhhcCCeEEEccCCCCCCceEEEEEe-----CHHHHHHHHHHHHHHHH
Confidence            46789999999999999999999999999999999953     345688887     78999999999998764

>d2je6i3 d.51.1.1 (I:153-221) Exosome complex RNA-binding protein 1, ECR1 {Sulfolobus solfataricus [TaxId: 2287]}

class: Alpha and beta proteins (a+b)
fold: Eukaryotic type KH-domain (KH-domain type I)
superfamily: Eukaryotic type KH-domain (KH-domain type I)
family: Eukaryotic type KH-domain (KH-domain type I)
domain: Exosome complex RNA-binding protein 1, ECR1
species: Sulfolobus solfataricus [TaxId: 2287]

Probab=97.74  E-value=1.1e-06  Score=70.07  Aligned_cols=62  Identities=0%  Similarity=-0.063  Sum_probs=48.5

Q ss_pred             EEEecCCCcchhhhccCcccHHHHHHhcCcEEEEEcccCeEEEEeCCCCCCHHHHHHHHHHHHHHHc
Q psy8224          32 RKVPVPNHRYGPLKENWMKIFTPIVEHLKLQVRFNLKSRNVEIRLSPETEDISNLQKAADFVKAFVY   98 (766)
Q Consensus        32 ~~i~iP~~r~~~l~~~~~~i~~~i~~~~~~~i~i~~~~~~v~i~~~~~t~d~~~~~ka~~~i~ai~~   98 (766)
                      +-+.||+++++.|||+.|++++.|++.++++|.|+ ++|.|.|.+    .|+..+.+|+++|++|.+
T Consensus         3 ~vi~Ip~~~ig~iIGkgG~~Ik~i~~~tg~~I~i~-~~g~v~I~g----~~~~~v~~A~~~I~~i~~   64 (69)
T d2je6i3           3 IVIDIMPVKVPRVIGKNKSMYETLTSKSGCSIFVA-NNGRIWATC----PSRFSEEILIEAIRKIEN   64 (69)
T ss_dssp             CEEECCGGGHHHHHCGGGHHHHHHHTTC---CEEC-TTSEEEC---------CTTCCTHHHHTTTTT
T ss_pred             EEEEEChhhccceECCchhHHHHHHHHHCCEEEEc-CCCEEEEEe----CCHHHHHHHHHHHHHHHH
Confidence            45899999999999999999999999999999998 678999987    466788999999987653

>d2ba0a3 d.51.1.1 (A:136-219) Exosome complex RNA-binding protein 1, ECR1 {Archaeoglobus fulgidus [TaxId: 2234]}

class: Alpha and beta proteins (a+b)
fold: Eukaryotic type KH-domain (KH-domain type I)
superfamily: Eukaryotic type KH-domain (KH-domain type I)
family: Eukaryotic type KH-domain (KH-domain type I)
domain: Exosome complex RNA-binding protein 1, ECR1
species: Archaeoglobus fulgidus [TaxId: 2234]

Probab=97.73  E-value=2e-05  Score=65.04  Aligned_cols=61  Identities=11%  Similarity=0.075  Sum_probs=55.8

Q ss_pred             EEEecCCCcchhhhccCcccHHHHHHhcCcEEEEEcccCeEEEEeCCCCCCHHHHHHHHHHHHHHHc
Q psy8224          32 RKVPVPNHRYGPLKENWMKIFTPIVEHLKLQVRFNLKSRNVEIRLSPETEDISNLQKAADFVKAFVY   98 (766)
Q Consensus        32 ~~i~iP~~r~~~l~~~~~~i~~~i~~~~~~~i~i~~~~~~v~i~~~~~t~d~~~~~ka~~~i~ai~~   98 (766)
                      .-|.||++.++.|||+.|++++.|.+.++++|.|+ ++|.|.|.+     ++..+.+|+.+|+.|.+
T Consensus         3 ~vi~Ip~~~ig~IIG~gG~~I~~I~~~tg~~I~i~-~~g~v~I~G-----~~e~v~~A~~~I~~i~~   63 (84)
T d2ba0a3           3 RIVAINPARVPRVIGKKGSMIKLLKSELDVQIVVG-QNGLIWVNG-----DRRKVSIAEEAIYLIEQ   63 (84)
T ss_dssp             EEEECCGGGHHHHHCGGGHHHHHHHHHHTCEEEEC-TTSEEEEES-----CHHHHHHHHHHHHHHHH
T ss_pred             EEEEEChhhcceeeCCcHHHHHHHHHHHCCEEEEC-CCCEEEEEe-----CHHHHHHHHHHHHHHHH
Confidence            45899999999999999999999999999999997 568999976     78999999999998865

>d2ctfa1 d.51.1.1 (A:7-96) Vigilin {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Eukaryotic type KH-domain (KH-domain type I)
superfamily: Eukaryotic type KH-domain (KH-domain type I)
family: Eukaryotic type KH-domain (KH-domain type I)
domain: Vigilin
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.72  E-value=1.7e-05  Score=66.52  Aligned_cols=53  Identities=23%  Similarity=0.317  Sum_probs=46.9

Q ss_pred             hhhccccCCCCcHHHHHHHh-hCceEEEeC--ceEEEEcchhhHHHHHHHHHHhhc
Q psy8224         134 RAIGRLAGKGGRTKFTIENI-TKTRIVIAD--SKIHVLGSYQNVQVALKALSNLIL  186 (766)
Q Consensus       134 r~~griiG~~G~t~~~ie~~-t~~~I~v~~--~~v~iiG~~~~l~~ar~~i~~~~~  186 (766)
                      +..++|||++|.+++.|+.- +|++|.+..  +.|.|.|+.+++..|++.|..++.
T Consensus        30 ~~h~~iIG~~G~~I~~i~~~~~~v~I~~~~~~~~v~i~G~~~~ve~Ak~~I~~iv~   85 (90)
T d2ctfa1          30 WLHRFIIGKKGQNLAKITQQMPKVHIEFTEGEDKITLEGPTEDVSVAQEQIEGMVK   85 (90)
T ss_dssp             TTHHHHHTTTTCHHHHHHHHCSSSEEEECSSSCEEEEEECHHHHHHHHHHHHHHHH
T ss_pred             HHHhhcCCCCchhHHHHHHHcCCcEEeeCCCCceEEEeCCHHHHHHHHHHHHHHHH
Confidence            66899999999999999876 689999975  559999999999999999988763

>d1j4wa1 d.51.1.1 (A:1-74) Far upstream binding element, FBP {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Eukaryotic type KH-domain (KH-domain type I)
superfamily: Eukaryotic type KH-domain (KH-domain type I)
family: Eukaryotic type KH-domain (KH-domain type I)
domain: Far upstream binding element, FBP
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.72  E-value=2.3e-05  Score=63.08  Aligned_cols=64  Identities=19%  Similarity=0.288  Sum_probs=56.4

Q ss_pred             ceEEEecCCCcchhhhccCcccHHHHHHhcCcEEEEEcc-----cCeEEEEeCCCCCCHHHHHHHHHHHHHHHc
Q psy8224          30 DMRKVPVPNHRYGPLKENWMKIFTPIVEHLKLQVRFNLK-----SRNVEIRLSPETEDISNLQKAADFVKAFVY   98 (766)
Q Consensus        30 ~~~~i~iP~~r~~~l~~~~~~i~~~i~~~~~~~i~i~~~-----~~~v~i~~~~~t~d~~~~~ka~~~i~ai~~   98 (766)
                      .+.++.||.+-+|.|||+.|.+++.|.+.+|++|.|+..     ++.|+|.+     ++.++.+|+++|..+.+
T Consensus         3 ~~~~i~VP~~~vg~iIGk~G~~I~~I~~~tga~I~i~~~~~~~~~r~v~I~G-----~~~~v~~A~~~I~~~i~   71 (74)
T d1j4wa1           3 HMIDVPIPRFAVGIVIGRNGEMIKKIQNDAGVRIQFKPDDGTTPERIAQITG-----PPDRAQHAAEIITDLLR   71 (74)
T ss_dssp             EEEEEEEEHHHHHHHHCGGGHHHHHHHHHHCCEEEEECCTTSCSEEEEEEEE-----CHHHHHHHHHHHHHHHH
T ss_pred             eEEEEEeCHHHCCeeECCCCcHHHHHHHHcCCEEEeccCCCCCCeeEEEEEe-----CHHHHHHHHHHHHHHHH
Confidence            568899999999999999999999999999999999643     34688887     78999999999988754

>d1wvna1 d.51.1.1 (A:5-74) Poly(RC)-binding protein 1 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Eukaryotic type KH-domain (KH-domain type I)
superfamily: Eukaryotic type KH-domain (KH-domain type I)
family: Eukaryotic type KH-domain (KH-domain type I)
domain: Poly(RC)-binding protein 1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.65  E-value=2.8e-05  Score=61.92  Aligned_cols=62  Identities=16%  Similarity=0.169  Sum_probs=54.8

Q ss_pred             ceEEEecCCCcchhhhccCcccHHHHHHhcCcEEEEEc-----ccCeEEEEeCCCCCCHHHHHHHHHHHHHH
Q psy8224          30 DMRKVPVPNHRYGPLKENWMKIFTPIVEHLKLQVRFNL-----KSRNVEIRLSPETEDISNLQKAADFVKAF   96 (766)
Q Consensus        30 ~~~~i~iP~~r~~~l~~~~~~i~~~i~~~~~~~i~i~~-----~~~~v~i~~~~~t~d~~~~~ka~~~i~ai   96 (766)
                      .|.++.||.+.+|+|||+.|..++.|.+.+|++|.|+.     .++.|+|.+     ++..+.+|+.+|.+.
T Consensus         2 ~T~~i~VP~~~vg~iIGk~G~~I~~I~~~tga~I~i~~~~~~~~~r~v~I~G-----~~~~v~~A~~~I~~~   68 (70)
T d1wvna1           2 TTHELTIPNNLIGCIIGRQGANINEIRQMSGAQIKIANPVEGSSGRQVTITG-----SAASISLAQYLINAR   68 (70)
T ss_dssp             EEEEEEEEGGGHHHHHCGGGHHHHHHHHHHCCEEEECCCCTTCSEEEEEEEE-----CHHHHHHHHHHHHHH
T ss_pred             eEEEEEEChHhcceeECCCChHHHHHHHHcCcEEEEcCCCCCCCcEEEEEEe-----CHHHHHHHHHHHHHH
Confidence            46789999999999999999999999999999999953     345688887     789999999999763

>d1j4wa2 d.51.1.1 (A:104-174) Far upstream binding element, FBP {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Eukaryotic type KH-domain (KH-domain type I)
superfamily: Eukaryotic type KH-domain (KH-domain type I)
family: Eukaryotic type KH-domain (KH-domain type I)
domain: Far upstream binding element, FBP
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.63  E-value=5.9e-05  Score=60.14  Aligned_cols=61  Identities=11%  Similarity=0.109  Sum_probs=53.3

Q ss_pred             eEEEecCCCcchhhhccCcccHHHHHHhcCcEEEEEcc--------cCeEEEEeCCCCCCHHHHHHHHHHHHHH
Q psy8224          31 MRKVPVPNHRYGPLKENWMKIFTPIVEHLKLQVRFNLK--------SRNVEIRLSPETEDISNLQKAADFVKAF   96 (766)
Q Consensus        31 ~~~i~iP~~r~~~l~~~~~~i~~~i~~~~~~~i~i~~~--------~~~v~i~~~~~t~d~~~~~ka~~~i~ai   96 (766)
                      .+++.||...+|.|||+.|...+.|.+.+|++|.|+..        ++.|+|.+     +|..+.+|+++|...
T Consensus         2 ~~~~~IP~~~vg~IIGk~G~~Ik~I~~~sga~I~i~~~~~~~~~~~~r~v~I~G-----~~~~v~~A~~~I~e~   70 (71)
T d1j4wa2           2 EFNFIVPTGKTGLIIGKGGETIKSISQQSGARIELQRNPPPNADPNMKLFTIRG-----TPQQIDYARQLIEEK   70 (71)
T ss_dssp             EEEEEEETTTHHHHHCGGGHHHHHHHHHHCCEEEEECCCTTTSCTTEEEEEEEC-----CHHHHHHHHHHHHHH
T ss_pred             EEEEEEChHhcceEECCCCcChHHHHhhcCcEEEEeecCCCCCCCCeEEEEEEe-----CHHHHHHHHHHHHhh
Confidence            57899999999999999999999999999999999632        34677776     899999999999753

>d2ctja1 d.51.1.1 (A:8-89) Vigilin {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Eukaryotic type KH-domain (KH-domain type I)
superfamily: Eukaryotic type KH-domain (KH-domain type I)
family: Eukaryotic type KH-domain (KH-domain type I)
domain: Vigilin
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.63  E-value=2e-05  Score=64.84  Aligned_cols=53  Identities=23%  Similarity=0.246  Sum_probs=46.4

Q ss_pred             hhhccccCCCCcHHHHHHH-hhCceEEEe-----CceEEEEcchhhHHHHHHHHHHhhc
Q psy8224         134 RAIGRLAGKGGRTKFTIEN-ITKTRIVIA-----DSKIHVLGSYQNVQVALKALSNLIL  186 (766)
Q Consensus       134 r~~griiG~~G~t~~~ie~-~t~~~I~v~-----~~~v~iiG~~~~l~~ar~~i~~~~~  186 (766)
                      +..|+|||++|.+++.|+. .|+++|.+.     .+.|.|.|+.+++..|++.|..+++
T Consensus        19 ~~~~~iIGk~G~~I~~I~~~~~~~~I~~~~~~~~~~~v~I~G~~~~v~~A~~~I~~~v~   77 (82)
T d2ctja1          19 KLHNSLIGTKGRLIRSIMEECGGVHIHFPVEGSGSDTVVIRGPSSDVEKAKKQLLHLAE   77 (82)
T ss_dssp             HHHHHHHCSSSHHHHHHHHHHTSCEEECCCTTTTCCEEEEESCHHHHHHHHHHHHHHHH
T ss_pred             HHHhhcCCCCCccHHHHHHHcCCcEEEEeCCCCCCceEEEeCCHHHHHHHHHHHHHHHh
Confidence            6699999999999999975 579999994     3569999999999999999988764

>d1viga_ d.51.1.1 (A:) Vigilin {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Eukaryotic type KH-domain (KH-domain type I)
superfamily: Eukaryotic type KH-domain (KH-domain type I)
family: Eukaryotic type KH-domain (KH-domain type I)
domain: Vigilin
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.52  E-value=5.2e-05  Score=60.50  Aligned_cols=63  Identities=19%  Similarity=0.142  Sum_probs=55.6

Q ss_pred             ceEEEecCCCcchhhhccCcccHHHHHHhcCcEEEEE---cccCeEEEEeCCCCCCHHHHHHHHHHHHHHH
Q psy8224          30 DMRKVPVPNHRYGPLKENWMKIFTPIVEHLKLQVRFN---LKSRNVEIRLSPETEDISNLQKAADFVKAFV   97 (766)
Q Consensus        30 ~~~~i~iP~~r~~~l~~~~~~i~~~i~~~~~~~i~i~---~~~~~v~i~~~~~t~d~~~~~ka~~~i~ai~   97 (766)
                      .+.++.||+.-.++|+|+.|...+.|++.++++|++.   ..++.|+|++     ++..+.+|++.|..|+
T Consensus         5 ~~~ei~V~~~~~~~iIG~~G~~i~~I~~~tg~~I~i~~~~~~~~~v~I~G-----~~~~v~~A~~~I~~i~   70 (71)
T d1viga_           5 DYVEINIDHKFHRHLIGKSGANINRIKDQYKVSVRIPPDSEKSNLIRIEG-----DPQGVQQAKRELLELA   70 (71)
T ss_dssp             EEEEEEECSSHHHHHTCSSCCHHHHHHHHTCCEEECCCCCSSSEEEEEEE-----SSHHHHHHHHHHHHTC
T ss_pred             EEEEEEECHHHhcccCCCCCchHHHHHHHhCCEEEeCCCCCCCCEEEEEC-----CHHHHHHHHHHHHHHh
Confidence            4678999999999999999999999999999999994   3456788987     7789999999998764

>d1dtja_ d.51.1.1 (A:) Neuro-oncological ventral antigen 2, nova-2, KH3 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Eukaryotic type KH-domain (KH-domain type I)
superfamily: Eukaryotic type KH-domain (KH-domain type I)
family: Eukaryotic type KH-domain (KH-domain type I)
domain: Neuro-oncological ventral antigen 2, nova-2, KH3
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.50  E-value=9.8e-05  Score=59.29  Aligned_cols=62  Identities=18%  Similarity=0.191  Sum_probs=54.3

Q ss_pred             ceEEEecCCCcchhhhccCcccHHHHHHhcCcEEEEEcc--------cCeEEEEeCCCCCCHHHHHHHHHHHHHH
Q psy8224          30 DMRKVPVPNHRYGPLKENWMKIFTPIVEHLKLQVRFNLK--------SRNVEIRLSPETEDISNLQKAADFVKAF   96 (766)
Q Consensus        30 ~~~~i~iP~~r~~~l~~~~~~i~~~i~~~~~~~i~i~~~--------~~~v~i~~~~~t~d~~~~~ka~~~i~ai   96 (766)
                      ++.++.||.+.+|.|||+.|...+.|++.+|++|+|...        ++.|+|.+     ++.++.+|+++|...
T Consensus         3 ~~i~i~VP~~~vg~iIGk~G~~Ik~I~~~sga~I~i~~~~~~~~~~~~r~v~I~G-----~~~~v~~A~~~I~~~   72 (74)
T d1dtja_           3 ELVEMAVPENLVGAILGKGGKTLVEYQELTGARIQISKKGEFLPGTRNRRVTITG-----SPAATQAAQYLISQR   72 (74)
T ss_dssp             EEEEEEEETTTHHHHHCSTTHHHHHHHHHHCCEEEECCTTCCSTTCCEEEEEEEE-----SHHHHHHHHHHHHHH
T ss_pred             EEEEEEeCHHHcceeECCCChhHHHHHHHcCCEEEEccCCCCCCCCCceEEEEEe-----CHHHHHHHHHHHHHH
Confidence            567899999999999999999999999999999999542        34688887     789999999999753

>d1x4na1 d.51.1.1 (A:8-86) Far upstream binding element, FBP {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Eukaryotic type KH-domain (KH-domain type I)
superfamily: Eukaryotic type KH-domain (KH-domain type I)
family: Eukaryotic type KH-domain (KH-domain type I)
domain: Far upstream binding element, FBP
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=97.44  E-value=6.5e-05  Score=61.19  Aligned_cols=63  Identities=13%  Similarity=0.112  Sum_probs=56.0

Q ss_pred             ceEEEecCCCcchhhhccCcccHHHHHHhcCcEEEEEc-----ccCeEEEEeCCCCCCHHHHHHHHHHHHHHH
Q psy8224          30 DMRKVPVPNHRYGPLKENWMKIFTPIVEHLKLQVRFNL-----KSRNVEIRLSPETEDISNLQKAADFVKAFV   97 (766)
Q Consensus        30 ~~~~i~iP~~r~~~l~~~~~~i~~~i~~~~~~~i~i~~-----~~~~v~i~~~~~t~d~~~~~ka~~~i~ai~   97 (766)
                      -+.+|.||...++.|+|+.|..++.|.+.+|++|.|..     .++.|.|.+     ++.++.+|+++|..+.
T Consensus         8 ~t~~i~IP~~~~g~iIG~~G~~i~~I~~~tg~~I~i~~~~~~~~~r~v~I~G-----~~~~v~~A~~~I~~~i   75 (79)
T d1x4na1           8 MTEEYKVPDGMVGFIIGRGGEQISRIQQESGCKIQIAPDSGGLPERSCMLTG-----TPESVQSAKRLLDQIV   75 (79)
T ss_dssp             EEEEEEEEHHHHHHHHCSSSHHHHHHHHHSCCEEEECSCCTTCSEEEEEEEE-----CHHHHHHHHHHHHHHH
T ss_pred             EEEEEEEChHhhcceECCCchhHHHHHHHhCCEEEEcCCCCCCCceEEEEEe-----CHHHHHHHHHHHHHHH
Confidence            67889999999999999999999999999999999953     344588887     8899999999998874

>d1k1ga_ d.51.1.1 (A:) RNA splicing factor 1 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Eukaryotic type KH-domain (KH-domain type I)
superfamily: Eukaryotic type KH-domain (KH-domain type I)
family: Eukaryotic type KH-domain (KH-domain type I)
domain: RNA splicing factor 1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.37  E-value=9e-05  Score=65.32  Aligned_cols=55  Identities=25%  Similarity=0.345  Sum_probs=46.6

Q ss_pred             hhhccccCCCCcHHHHHHHhhCceEEEeCc-----------------------eEEEEcchh-hHHHHHHHHHHhhcCC
Q psy8224         134 RAIGRLAGKGGRTKFTIENITKTRIVIADS-----------------------KIHVLGSYQ-NVQVALKALSNLILGS  188 (766)
Q Consensus       134 r~~griiG~~G~t~~~ie~~t~~~I~v~~~-----------------------~v~iiG~~~-~l~~ar~~i~~~~~~~  188 (766)
                      ..+|||||++|.|.|.||+.|||+|+|-|+                       .|.|.|+.. .+..|+..|+.++.-.
T Consensus        18 NfvG~IlGPrG~t~K~Le~eTgckI~IrGrGS~kd~~~~~~~~~~~~~~~epLHv~I~a~~~~~~~~A~~~i~~ll~~~   96 (122)
T d1k1ga_          18 NFVGLLIGPRGNTLKNIEKECNAKIMIRGKGSVKEGKVGRKDGQMLPGEDEPLHALVTANTMENVKKAVEQIRNILKQG   96 (122)
T ss_dssp             HHHHHHHCSSSHHHHHHHHHSCCEEEEEESTTSSSSSSSSCCCCCSCCSSCCEEEEEEESSHHHHHHHHHHHHHHHTTT
T ss_pred             CeeeeEeCCCCchHHHHHHHHCCEEEEEecCCcccccccccCCCCCCCCCCCceEEEecCChhhHHHHHHHHHHHHHhc
Confidence            349999999999999999999999999652                       377877654 7999999999999543

>d2ctma1 d.51.1.1 (A:8-88) Vigilin {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Eukaryotic type KH-domain (KH-domain type I)
superfamily: Eukaryotic type KH-domain (KH-domain type I)
family: Eukaryotic type KH-domain (KH-domain type I)
domain: Vigilin
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.36  E-value=0.00011  Score=60.20  Aligned_cols=64  Identities=17%  Similarity=0.208  Sum_probs=56.2

Q ss_pred             ceEEEecCCCcchhhhccCcccHHHHHHhcCcEEEEEc----ccCeEEEEeCCCCCCHHHHHHHHHHHHHHHc
Q psy8224          30 DMRKVPVPNHRYGPLKENWMKIFTPIVEHLKLQVRFNL----KSRNVEIRLSPETEDISNLQKAADFVKAFVY   98 (766)
Q Consensus        30 ~~~~i~iP~~r~~~l~~~~~~i~~~i~~~~~~~i~i~~----~~~~v~i~~~~~t~d~~~~~ka~~~i~ai~~   98 (766)
                      -+..+.||+.-.+.|+|+.|...+.|++.+|++|.|..    ....|+|++     ++..+.+|++.|..+..
T Consensus        10 ~t~~i~Vp~~~~~~iIG~~G~~i~~I~~~tg~~I~~p~~~~~~~~~v~I~G-----~~~~V~~A~~~I~~i~~   77 (81)
T d2ctma1          10 VSEDVPLDHRVHARIIGARGKAIRKIMDEFKVDIRFPQSGAPDPNCVTVTG-----LPENVEEAIDHILNLEE   77 (81)
T ss_dssp             CCEEEECCTTTHHHHHCSSSCHHHHHHHHHTCEEECCCTTCSCTTEEEEES-----CHHHHHHHHHHHHHHHH
T ss_pred             EEEEEEECHHHHhhccCCCCccHHHHHHHhCCEEEeCCccCCCCCEEEEeC-----CHHHHHHHHHHHHHHHH
Confidence            45789999999999999999999999999999999943    345788886     88999999999998764

>d1e3ha4 d.52.3.1 (A:579-632) Polynucleotide phosphorylase/guanosine pentaphosphate synthase (PNPase/GPSI), domain 6 {Streptomyces antibioticus [TaxId: 1890]}

class: Alpha and beta proteins (a+b)
fold: Alpha-lytic protease prodomain-like
superfamily: Prokaryotic type KH domain (KH-domain type II)
family: Prokaryotic type KH domain (KH-domain type II)
domain: Polynucleotide phosphorylase/guanosine pentaphosphate synthase (PNPase/GPSI), domain 6
species: Streptomyces antibioticus [TaxId: 1890]

Probab=97.36  E-value=8.7e-06  Score=61.11  Aligned_cols=38  Identities=24%  Similarity=0.253  Sum_probs=13.9

Q ss_pred             hhhccccCCCCcHHHHHHHhhCceEEEeC-ceEEEEcch
Q psy8224         134 RAIGRLAGKGGRTKFTIENITKTRIVIAD-SKIHVLGSY  171 (766)
Q Consensus       134 r~~griiG~~G~t~~~ie~~t~~~I~v~~-~~v~iiG~~  171 (766)
                      ..+|.|||++|+++|.|+..||++|.|.+ .+|.|.|.-
T Consensus        12 ~kig~vIG~GG~~Ik~I~~~tga~I~i~ddg~v~I~a~~   50 (54)
T d1e3ha4          12 DKIGEVIGPKRQMINQIQEDTGAEITIEDDGTIYIGAAD   50 (54)
T ss_dssp             ---------------CHHHHSCCCC--------CCCCBS
T ss_pred             HHeeEEECCccHHHHHHHHHHCCEEEEeCCeEEEEEecC
Confidence            45999999999999999999999999954 568777753

>d1x4ma1 d.51.1.1 (A:8-88) Far upstream binding element, FBP {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Eukaryotic type KH-domain (KH-domain type I)
superfamily: Eukaryotic type KH-domain (KH-domain type I)
family: Eukaryotic type KH-domain (KH-domain type I)
domain: Far upstream binding element, FBP
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=97.32  E-value=0.00012  Score=59.88  Aligned_cols=64  Identities=13%  Similarity=0.200  Sum_probs=56.2

Q ss_pred             ceEEEecCCCcchhhhccCcccHHHHHHhcCcEEEEEc-------ccCeEEEEeCCCCCCHHHHHHHHHHHHHHHc
Q psy8224          30 DMRKVPVPNHRYGPLKENWMKIFTPIVEHLKLQVRFNL-------KSRNVEIRLSPETEDISNLQKAADFVKAFVY   98 (766)
Q Consensus        30 ~~~~i~iP~~r~~~l~~~~~~i~~~i~~~~~~~i~i~~-------~~~~v~i~~~~~t~d~~~~~ka~~~i~ai~~   98 (766)
                      .+.++.||+..++.|||+.|.+++.|.+.++++|.|..       .++.|+|.+     ++..+.+|+.+|..+.+
T Consensus         8 ~~~~i~Vp~~~~g~iIGk~G~~Ik~I~~~tga~I~i~~~~~~~~~~~r~v~I~G-----~~~~v~~A~~~I~~~i~   78 (81)
T d1x4ma1           8 AVQEIMIPASKAGLVIGKGGETIKQLQERAGVKMVMIQDGPQNTGADKPLRITG-----DPYKVQQAKEMVLELIR   78 (81)
T ss_dssp             EEEEEEECHHHHHHHSCSSSSHHHHHHHHHTSEEEECCSCCCSSCSCEEEEEEE-----CTTTHHHHHHHHHHHHC
T ss_pred             EEEEEEECHHHcCeeECCCCchHHHHHHHhCCeEEEccCCCCCCCCceEEEEEe-----CHHHHHHHHHHHHHHHH
Confidence            78899999999999999999999999999999999953       244688887     66799999999988754

>d2axya1 d.51.1.1 (A:11-81) Poly(RC)-binding protein 2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Eukaryotic type KH-domain (KH-domain type I)
superfamily: Eukaryotic type KH-domain (KH-domain type I)
family: Eukaryotic type KH-domain (KH-domain type I)
domain: Poly(RC)-binding protein 2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.28  E-value=0.00016  Score=57.56  Aligned_cols=63  Identities=8%  Similarity=0.032  Sum_probs=54.7

Q ss_pred             ceEEEecCCCcchhhhccCcccHHHHHHhcCcEEEEEccc---CeEEEEeCCCCCCHHHHHHHHHHHHHHH
Q psy8224          30 DMRKVPVPNHRYGPLKENWMKIFTPIVEHLKLQVRFNLKS---RNVEIRLSPETEDISNLQKAADFVKAFV   97 (766)
Q Consensus        30 ~~~~i~iP~~r~~~l~~~~~~i~~~i~~~~~~~i~i~~~~---~~v~i~~~~~t~d~~~~~ka~~~i~ai~   97 (766)
                      -+.++.||...+|.|||+.|...+.|.+.+|++|.+....   +.|+|.+     +|..+.+|..+|..+.
T Consensus         4 vt~~i~vp~~~~g~IIGk~G~~I~~I~~~tga~I~i~~~~~~er~v~I~G-----~~~~v~~A~~~I~~~l   69 (71)
T d2axya1           4 LTIRLLMHGKEVGSIIGKKGESVKKMREESGARINISEGNCPERIITLAG-----PTNAIFKAFAMIIDKL   69 (71)
T ss_dssp             EEEEEEEEHHHHHHHHCGGGHHHHHHHHHHCCEEEECSSCCSEEEEEEEE-----CHHHHHHHHHHHHHHH
T ss_pred             EEEEEEECHHHcCeEECCCChhHHHHHHHhCCEEEEcCCCCCcceEEEEE-----CHHHHHHHHHHHHHHh
Confidence            4678999999999999999999999999999999996443   4677877     7999999999997653

>d2ctfa1 d.51.1.1 (A:7-96) Vigilin {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Eukaryotic type KH-domain (KH-domain type I)
superfamily: Eukaryotic type KH-domain (KH-domain type I)
family: Eukaryotic type KH-domain (KH-domain type I)
domain: Vigilin
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.27  E-value=0.00035  Score=58.22  Aligned_cols=64  Identities=11%  Similarity=0.185  Sum_probs=59.2

Q ss_pred             ceEEEecCCCcchhhhccCcccHHHHHHhc-CcEEEEEcccCeEEEEeCCCCCCHHHHHHHHHHHHHHHc
Q psy8224          30 DMRKVPVPNHRYGPLKENWMKIFTPIVEHL-KLQVRFNLKSRNVEIRLSPETEDISNLQKAADFVKAFVY   98 (766)
Q Consensus        30 ~~~~i~iP~~r~~~l~~~~~~i~~~i~~~~-~~~i~i~~~~~~v~i~~~~~t~d~~~~~ka~~~i~ai~~   98 (766)
                      .+..|.||..-.+.|||..|.+++.|++.+ +++|.+...+..|+|++     ++..+.+|++.|.++..
T Consensus        21 ~t~~v~VP~~~h~~iIG~~G~~I~~i~~~~~~v~I~~~~~~~~v~i~G-----~~~~ve~Ak~~I~~iv~   85 (90)
T d2ctfa1          21 TVSSVAAPSWLHRFIIGKKGQNLAKITQQMPKVHIEFTEGEDKITLEG-----PTEDVSVAQEQIEGMVK   85 (90)
T ss_dssp             EEEEEECCSTTHHHHHTTTTCHHHHHHHHCSSSEEEECSSSCEEEEEE-----CHHHHHHHHHHHHHHHH
T ss_pred             EEEEEEcCHHHHhhcCCCCchhHHHHHHHcCCcEEeeCCCCceEEEeC-----CHHHHHHHHHHHHHHHH
Confidence            788999999999999999999999999885 89999999999999998     88999999999998853

>d2ctka1 d.51.1.1 (A:8-98) Vigilin {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Eukaryotic type KH-domain (KH-domain type I)
superfamily: Eukaryotic type KH-domain (KH-domain type I)
family: Eukaryotic type KH-domain (KH-domain type I)
domain: Vigilin
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.26  E-value=0.00011  Score=61.57  Aligned_cols=66  Identities=15%  Similarity=0.065  Sum_probs=58.2

Q ss_pred             ceEEEecCCCcchhhhccCcccHHHHHHhcCcEEEEE---cccCeEEEEeCCCCCCHHHHHHHHHHHHHHHcCC
Q psy8224          30 DMRKVPVPNHRYGPLKENWMKIFTPIVEHLKLQVRFN---LKSRNVEIRLSPETEDISNLQKAADFVKAFVYGF  100 (766)
Q Consensus        30 ~~~~i~iP~~r~~~l~~~~~~i~~~i~~~~~~~i~i~---~~~~~v~i~~~~~t~d~~~~~ka~~~i~ai~~gf  100 (766)
                      -+..|.||+...+.|+|+.|..++.|++.+|++|.+.   .....|+|.+     ++..+.+|++.|..+..-+
T Consensus        10 vt~~i~Vp~~~~~~iIG~~G~~i~~I~~~tg~~I~~p~~~~~~~~v~I~G-----~~~~V~~A~~~I~~~v~e~   78 (91)
T d2ctka1          10 VTIEVEVPFDLHRYVIGQKGSGIRKMMDEFEVNIHVPAPELQSDIIAITG-----LAANLDRAKAGLLERVKEL   78 (91)
T ss_dssp             EEEEEECCHHHHHHHHCSSSHHHHHHHHHTCCEEECCCTTTTCCEEEEEE-----CHHHHHHHHHHHHHHHHHH
T ss_pred             EEEEEEECHHHHhHhcCCCchhHHHHHHHhCCEEEECCCCCCcceEEEEC-----CHHHHHHHHHHHHHHHHHH
Confidence            5788999999999999999999999999999999994   4455788887     7899999999999887644

>d1we8a_ d.51.1.1 (A:) Tudor and KH domain containing protein, Tdrkh {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Eukaryotic type KH-domain (KH-domain type I)
superfamily: Eukaryotic type KH-domain (KH-domain type I)
family: Eukaryotic type KH-domain (KH-domain type I)
domain: Tudor and KH domain containing protein, Tdrkh
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=97.23  E-value=0.00019  Score=61.55  Aligned_cols=63  Identities=14%  Similarity=0.155  Sum_probs=55.4

Q ss_pred             ceEEEecCCCcchhhhccCcccHHHHHHhcCcEEEEEc-------ccCeEEEEeCCCCCCHHHHHHHHHHHHHHH
Q psy8224          30 DMRKVPVPNHRYGPLKENWMKIFTPIVEHLKLQVRFNL-------KSRNVEIRLSPETEDISNLQKAADFVKAFV   97 (766)
Q Consensus        30 ~~~~i~iP~~r~~~l~~~~~~i~~~i~~~~~~~i~i~~-------~~~~v~i~~~~~t~d~~~~~ka~~~i~ai~   97 (766)
                      -+..+.||.+.++.|||+.|..++.|++.+|++|.|+.       .++.|+|.+     ++..+.+|+.+|..+.
T Consensus        15 v~~~i~IP~~~vg~vIGk~G~~Ik~I~~~tga~I~i~~~~~~~~~~~r~v~I~G-----~~~~v~~A~~~I~~~i   84 (104)
T d1we8a_          15 VFEQLSVPQRSVGRIIGRGGETIRSICKASGAKITCDKESEGTLLLSRLIKISG-----TQKEVAAAKHLILEKV   84 (104)
T ss_dssp             EEEEEEEETTTHHHHHTTTSHHHHHHHHHHCCEEEECCSSCCSSSSEEEEEEEE-----EHHHHHHHHHHHHHHH
T ss_pred             EEEEEEECHHHhcceECCCCcchHHHHHHcCCEEEECCCCCCCCCCccEEEEEe-----CHHHHHHHHHHHHHHH
Confidence            56789999999999999999999999999999999943       234688876     7899999999998876

>d2ctla1 d.51.1.1 (A:8-91) Vigilin {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Eukaryotic type KH-domain (KH-domain type I)
superfamily: Eukaryotic type KH-domain (KH-domain type I)
family: Eukaryotic type KH-domain (KH-domain type I)
domain: Vigilin
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.19  E-value=0.00031  Score=57.70  Aligned_cols=64  Identities=16%  Similarity=0.036  Sum_probs=55.7

Q ss_pred             ceEEEecCCCcchhhhccCcccHHHHHHhcCcEEEEE------cccCeEEEEeCCCCCCHHHHHHHHHHHHHHHc
Q psy8224          30 DMRKVPVPNHRYGPLKENWMKIFTPIVEHLKLQVRFN------LKSRNVEIRLSPETEDISNLQKAADFVKAFVY   98 (766)
Q Consensus        30 ~~~~i~iP~~r~~~l~~~~~~i~~~i~~~~~~~i~i~------~~~~~v~i~~~~~t~d~~~~~ka~~~i~ai~~   98 (766)
                      .+..+.||....+.|+|+.|..++.|++.+|++|.+.      ..++.|.|.+     ++..+.+|++.|.++..
T Consensus        10 ~~~~i~Vp~~~~~~iIG~~G~~i~~I~~~t~~~I~~~~~~~~~~~~~~i~I~G-----~~e~v~~A~~~I~~~i~   79 (84)
T d2ctla1          10 FKLSVTVDPKYHPKIIGRKGAVITQIRLEHDVNIQFPDKDDGNQPQDQITITG-----YEKNTEAARDAILRIVG   79 (84)
T ss_dssp             CEEEEECCTTTHHHHSCSSSCHHHHHHHHHTCEEECCCTTTCSSCSSEEEEES-----CHHHHHHHHHHHHHHHH
T ss_pred             EEEEEEECHHHHhhhcCCCchhHHHHHHHhCCEEEECCCCCCCCCcceEEEEC-----CHHHHHHHHHHHHHHHH
Confidence            4567999999999999999999999999999999994      2345788886     78999999999998753

>d2ctea1 d.51.1.1 (A:8-88) Vigilin {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Eukaryotic type KH-domain (KH-domain type I)
superfamily: Eukaryotic type KH-domain (KH-domain type I)
family: Eukaryotic type KH-domain (KH-domain type I)
domain: Vigilin
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.16  E-value=0.00023  Score=58.08  Aligned_cols=63  Identities=11%  Similarity=0.049  Sum_probs=56.9

Q ss_pred             ceEEEecCCCcchhhhccCcccHHHHHHhcCcEEEEE---cccCeEEEEeCCCCCCHHHHHHHHHHHHHHH
Q psy8224          30 DMRKVPVPNHRYGPLKENWMKIFTPIVEHLKLQVRFN---LKSRNVEIRLSPETEDISNLQKAADFVKAFV   97 (766)
Q Consensus        30 ~~~~i~iP~~r~~~l~~~~~~i~~~i~~~~~~~i~i~---~~~~~v~i~~~~~t~d~~~~~ka~~~i~ai~   97 (766)
                      .+..|.||+...+.|+|+.|...+.|++.+|++|.+.   ..+..|+|.+     ++..+.+|+..|.++.
T Consensus        10 ~t~~i~Ip~~~~~~iIG~~G~~i~~I~~~tg~~I~~p~~~~~~~~v~I~G-----~~~~v~~A~~~I~~iv   75 (81)
T d2ctea1          10 ASATVAIPKEHHRFVIGKNGEKLQDLELKTATKIQIPRPDDPSNQIKITG-----TKEGIEKARHEVLLIS   75 (81)
T ss_dssp             EEEEEECCTTTHHHHHCSSSCHHHHHHHHTTCCCBCCCTTSSCCEEEEEE-----CHHHHHHHHHHHHHHH
T ss_pred             eEEEEEECHHHHhhccCCCChhHHHHHHHhCCEEEECCCCCCCCEEEEEe-----CHHHHHHHHHHHHHHH
Confidence            5789999999999999999999999999999999983   4677888887     7899999999999875

>d1ml9a_ b.85.7.1 (A:) Dim-5 {Fungus (Neurospora crassa) [TaxId: 5141]}

class: All beta proteins
fold: beta-clip
superfamily: SET domain
family: Histone lysine methyltransferases
domain: Dim-5
species: Fungus (Neurospora crassa) [TaxId: 5141]

Probab=97.00  E-value=0.00011  Score=74.76  Aligned_cols=49  Identities=27%  Similarity=0.470  Sum_probs=34.1

Q ss_pred             ccccccccccCCceeeee--cCc----cchhhhhhhcccCCCeeeecccCCCCCc
Q psy8224         559 KTAMLSHNCKPNTKHVIV--NED----FSLQLIALVNICKGDIISTTYTQPFWGT  607 (766)
Q Consensus       559 ~~SllNHSC~PN~~~~f~--~~~----~~l~~~A~r~I~~GeeI~~sY~~~~~~~  607 (766)
                      .+.++||||.||+....+  +..    .++.++|+|+|++||||++.|+..+|+.
T Consensus       212 ~aRfiNHSC~PN~~~~~v~~~~~~~~~~~i~~~A~rdI~~GEELt~dYg~~~~~~  266 (284)
T d1ml9a_         212 PTRFINHSCDPNMAIFARVGDHADKHIHDLALFAIKDIPKGTELTFDYVNGLTGL  266 (284)
T ss_dssp             GGGGCEECSSCSEEEEEEESSGGGGGGCEEEEEESSCBCTTCEEEECTTC-----
T ss_pred             hhheeeccccCCcceEEEEeccCCCCceEEEEEECCccCCCCEEEEecCCCCCCc
Confidence            467899999999865321  111    1356789999999999999999987765

>d2ctja1 d.51.1.1 (A:8-89) Vigilin {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Eukaryotic type KH-domain (KH-domain type I)
superfamily: Eukaryotic type KH-domain (KH-domain type I)
family: Eukaryotic type KH-domain (KH-domain type I)
domain: Vigilin
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.93  E-value=0.00039  Score=56.78  Aligned_cols=63  Identities=21%  Similarity=0.218  Sum_probs=54.7

Q ss_pred             ceEEEecCCCcchhhhccCcccHHHHHHh-cCcEEEEE---cccCeEEEEeCCCCCCHHHHHHHHHHHHHHH
Q psy8224          30 DMRKVPVPNHRYGPLKENWMKIFTPIVEH-LKLQVRFN---LKSRNVEIRLSPETEDISNLQKAADFVKAFV   97 (766)
Q Consensus        30 ~~~~i~iP~~r~~~l~~~~~~i~~~i~~~-~~~~i~i~---~~~~~v~i~~~~~t~d~~~~~ka~~~i~ai~   97 (766)
                      .+..|.||..-.+.|||+.|..++.|.+. +++.|.+.   ..++.|+|.+     ++..+.+|+++|..+.
T Consensus        10 ~t~~i~Vp~~~~~~iIGk~G~~I~~I~~~~~~~~I~~~~~~~~~~~v~I~G-----~~~~v~~A~~~I~~~v   76 (82)
T d2ctja1          10 AEVEVSIPAKLHNSLIGTKGRLIRSIMEECGGVHIHFPVEGSGSDTVVIRG-----PSSDVEKAKKQLLHLA   76 (82)
T ss_dssp             CCEEEECCHHHHHHHHCSSSHHHHHHHHHHTSCEEECCCTTTTCCEEEEES-----CHHHHHHHHHHHHHHH
T ss_pred             EEEEEEECHHHHhhcCCCCCccHHHHHHHcCCcEEEEeCCCCCCceEEEeC-----CHHHHHHHHHHHHHHH
Confidence            57889999999999999999999999876 59999883   4556788886     8899999999998775

>d2jw6a1 g.85.1.1 (A:503-540) Zinc finger MYND domain-containing protein 2, MTG8 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: HIT/MYND zinc finger-like
superfamily: HIT/MYND zinc finger-like
family: MYND zinc finger
domain: Zinc finger MYND domain-containing protein 2, MTG8
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.87  E-value=9.2e-05  Score=51.27  Aligned_cols=26  Identities=27%  Similarity=0.769  Sum_probs=23.5

Q ss_pred             cccCCCCCc-cccCccCC--CCCCcHhhh
Q psy8224         418 FYKCSDCGW-PLCAPRCK--SLPSHQKEC  443 (766)
Q Consensus       418 ~~~C~~C~~-~yCS~~C~--~~~~H~~EC  443 (766)
                      +.+|++|+. .|||.+||  +|..|+.+|
T Consensus        10 ~~~C~~C~~~~YCs~~CQ~~~W~~Hk~~C   38 (38)
T d2jw6a1          10 MSECTGCHKVNYCSTFCQRKDWKDHQHIC   38 (38)
T ss_dssp             SEECTTTCSSEESSHHHHHHHTTTGGGTT
T ss_pred             cccCCCCCCEeeCCHHHHHHHHHHHhhhC
Confidence            678999998 99999998  599999887

>d2f69a2 b.85.7.1 (A:194-364) Histone H3 K4-specific methyltransferase SET7/9 catalytic domain {Human (Homo sapiens) [TaxId: 9606]}

class: All beta proteins
fold: beta-clip
superfamily: SET domain
family: Histone lysine methyltransferases
domain: Histone H3 K4-specific methyltransferase SET7/9 catalytic domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.78  E-value=0.00016  Score=67.81  Aligned_cols=44  Identities=11%  Similarity=0.030  Sum_probs=33.7

Q ss_pred             cccccccccCCceeee--ec-CccchhhhhhhcccCCCeeeecccCC
Q psy8224         560 TAMLSHNCKPNTKHVI--VN-EDFSLQLIALVNICKGDIISTTYTQP  603 (766)
Q Consensus       560 ~SllNHSC~PN~~~~f--~~-~~~~l~~~A~r~I~~GeeI~~sY~~~  603 (766)
                      +.++||||.||+....  .+ .+..+.++|+|+|++||||+++|+-.
T Consensus        99 ~rfiNHsc~pN~~~~~~~~~~~~~~i~~~A~RdI~~GEEL~~dYG~~  145 (171)
T d2f69a2          99 GHKANHSFTPNCIYDMFVHPRFGPIKCIRTLRAVEADEELTVAYGYD  145 (171)
T ss_dssp             GGGCEECSSCSEEEEEEEETTTEEEEEEEESSCBCTTCEEEECCCCC
T ss_pred             ceeeEccCCCCceEEEEEecCCCeEEEEEEccCcCCCCEEEEEeCCC
Confidence            4579999999986421  01 22356789999999999999999954

>d1e3ha4 d.52.3.1 (A:579-632) Polynucleotide phosphorylase/guanosine pentaphosphate synthase (PNPase/GPSI), domain 6 {Streptomyces antibioticus [TaxId: 1890]}

class: Alpha and beta proteins (a+b)
fold: Alpha-lytic protease prodomain-like
superfamily: Prokaryotic type KH domain (KH-domain type II)
family: Prokaryotic type KH domain (KH-domain type II)
domain: Polynucleotide phosphorylase/guanosine pentaphosphate synthase (PNPase/GPSI), domain 6
species: Streptomyces antibioticus [TaxId: 1890]

Probab=96.76  E-value=5.3e-05  Score=56.70  Aligned_cols=47  Identities=13%  Similarity=0.219  Sum_probs=14.9

Q ss_pred             eEEEecCCCcchhhhccCcccHHHHHHhcCcEEEEEcccCeEEEEeCC
Q psy8224          31 MRKVPVPNHRYGPLKENWMKIFTPIVEHLKLQVRFNLKSRNVEIRLSP   78 (766)
Q Consensus        31 ~~~i~iP~~r~~~l~~~~~~i~~~i~~~~~~~i~i~~~~~~v~i~~~~   78 (766)
                      +..+.||+++++.|||..|++++.|++.+|++|.|+ ++|.|.|...+
T Consensus         4 ~~~i~Ip~~kig~vIG~GG~~Ik~I~~~tga~I~i~-ddg~v~I~a~~   50 (54)
T d1e3ha4           4 IITVKIPVDKIGEVIGPKRQMINQIQEDTGAEITIE-DDGTIYIGAAD   50 (54)
T ss_dssp             CC---------------------CHHHHSCCCC---------CCCCBS
T ss_pred             EEEEEeCHHHeeEEECCccHHHHHHHHHHCCEEEEe-CCeEEEEEecC
Confidence            357899999999999999999999999999999998 56888887643

>d2bl5a1 d.51.1.1 (A:1-134) Quaking protein A (Xqua) {African clawed frog (Xenopus laevis) [TaxId: 8355]}

class: Alpha and beta proteins (a+b)
fold: Eukaryotic type KH-domain (KH-domain type I)
superfamily: Eukaryotic type KH-domain (KH-domain type I)
family: Eukaryotic type KH-domain (KH-domain type I)
domain: Quaking protein A (Xqua)
species: African clawed frog (Xenopus laevis) [TaxId: 8355]

Probab=96.69  E-value=0.00027  Score=62.97  Aligned_cols=29  Identities=28%  Similarity=0.429  Sum_probs=27.4

Q ss_pred             hhccccCCCCcHHHHHHHhhCceEEEeCc
Q psy8224         135 AIGRLAGKGGRTKFTIENITKTRIVIADS  163 (766)
Q Consensus       135 ~~griiG~~G~t~~~ie~~t~~~I~v~~~  163 (766)
                      .+|||||++|.|.|.||+.|||+|.|.|+
T Consensus        18 fvG~IiGPrG~t~K~le~eTg~kI~IrGr   46 (134)
T d2bl5a1          18 FVGRILGPRGLTAKQLEAETGCKIMVRGK   46 (134)
T ss_dssp             HHHHHTTTTHHHHHHHHHHHSEEEEEEST
T ss_pred             eeEEEECCCCchHHHHHHHHCCEEEEEec
Confidence            48999999999999999999999999874

>d1mvha_ b.85.7.1 (A:) SET domain of Clr4 {Fission yeast (Schizosaccharomyces pombe) [TaxId: 4896]}

class: All beta proteins
fold: beta-clip
superfamily: SET domain
family: Histone lysine methyltransferases
domain: SET domain of Clr4
species: Fission yeast (Schizosaccharomyces pombe) [TaxId: 4896]

Probab=96.55  E-value=0.00039  Score=69.98  Aligned_cols=45  Identities=20%  Similarity=0.440  Sum_probs=33.8

Q ss_pred             ccccccccccCCceee--eecCc----cchhhhhhhcccCCCeeeecccCC
Q psy8224         559 KTAMLSHNCKPNTKHV--IVNED----FSLQLIALVNICKGDIISTTYTQP  603 (766)
Q Consensus       559 ~~SllNHSC~PN~~~~--f~~~~----~~l~~~A~r~I~~GeeI~~sY~~~  603 (766)
                      .+.++||||.||+...  +.+..    .++.+.|+|+|++||||++.|+..
T Consensus       212 ~aRFiNHSC~PN~~~~~v~~~~~~~~~~~i~~fA~rdI~~GEELt~DYG~~  262 (269)
T d1mvha_         212 VSRFFNHSCSPNIAIYSAVRNHGFRTIYDLAFFAIKDIQPLEELTFDYAGA  262 (269)
T ss_dssp             GGGGCEECSSCSEEEEEEESCTTCTTSCEEEEEESSCBCTTCBCEECCCTT
T ss_pred             ceEEeecCCCCCcEEEEEEecCCcCccceEEEEECCccCCCCEEEEecCCC
Confidence            3557899999998643  21211    136688999999999999999864

>d2dana1 g.85.1.1 (A:8-54) Zinc finger MYND domain-containing protein 10, ZMYND10 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: HIT/MYND zinc finger-like
superfamily: HIT/MYND zinc finger-like
family: MYND zinc finger
domain: Zinc finger MYND domain-containing protein 10, ZMYND10
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.41  E-value=0.00013  Score=52.95  Aligned_cols=36  Identities=31%  Similarity=0.713  Sum_probs=29.7

Q ss_pred             CCcccccCCCCCCCcccCCCCCcccCCCCCc-cccCccCC--CCCCcHhhh
Q psy8224         396 PLCLGCHRTLKPTSMEENEPLSFYKCSDCGW-PLCAPRCK--SLPSHQKEC  443 (766)
Q Consensus       396 ~~C~~C~~~~~~~~~~~~~~~~~~~C~~C~~-~yCS~~C~--~~~~H~~EC  443 (766)
                      +.|..|.+..            ..+|++|+. .|||.+||  +|..|+.+|
T Consensus         9 ~~C~~Cg~~~------------~~~Cs~C~~~~YCs~~CQ~~dW~~Hk~~C   47 (47)
T d2dana1           9 PRCAYCSAEA------------SKRCSRCQNEWYCCRECQVKHWEKHGKTC   47 (47)
T ss_dssp             CCCSSSCCCC------------CEECTTTSCSEESSHHHHHHTHHHHTTTC
T ss_pred             CcCcCCCChh------------hccCCCCCCEeeCCHHHHHHHHHHHhhhC
Confidence            4699997641            578999997 99999998  688898877

>d2dj8a1 g.85.1.1 (A:8-54) Zinc finger MYND domain-containing protein 2, MTG8 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: HIT/MYND zinc finger-like
superfamily: HIT/MYND zinc finger-like
family: MYND zinc finger
domain: Zinc finger MYND domain-containing protein 2, MTG8
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.40  E-value=0.00016  Score=52.51  Aligned_cols=38  Identities=29%  Similarity=0.701  Sum_probs=30.7

Q ss_pred             CCCCcccccCCCCCCCcccCCCCCcccCCCCCc-cccCccCC--CCCCcHhhh
Q psy8224         394 SVPLCLGCHRTLKPTSMEENEPLSFYKCSDCGW-PLCAPRCK--SLPSHQKEC  443 (766)
Q Consensus       394 ~~~~C~~C~~~~~~~~~~~~~~~~~~~C~~C~~-~yCS~~C~--~~~~H~~EC  443 (766)
                      ....|..|.++            .+..|++|+. .|||.+||  +|..|+.+|
T Consensus         7 ~~~~C~~C~~~------------~~~~C~~C~~~~YCs~~CQ~~dW~~Hk~~C   47 (47)
T d2dj8a1           7 SSESCWNCGRK------------ASETCSGCNTARYCGSFCQHKDWEKHHHIC   47 (47)
T ss_dssp             CSCCCSSSCSC------------CCEECTTTSCCEESSHHHHHHTHHHHTTTS
T ss_pred             CCCcCCCCCcc------------ccccCCCCCCeeeCCHHHHHHHHHHHhhhC
Confidence            34688888763            2678999987 99999998  588899887

>d1tuaa2 d.51.1.1 (A:85-188) Hypothetical protein APE0754 {Aeropyrum pernix [TaxId: 56636]}

class: Alpha and beta proteins (a+b)
fold: Eukaryotic type KH-domain (KH-domain type I)
superfamily: Eukaryotic type KH-domain (KH-domain type I)
family: Eukaryotic type KH-domain (KH-domain type I)
domain: Hypothetical protein APE0754
species: Aeropyrum pernix [TaxId: 56636]

Probab=96.00  E-value=0.0056  Score=51.79  Aligned_cols=63  Identities=14%  Similarity=0.020  Sum_probs=54.2

Q ss_pred             chhhhccCcccHHHHHHhcCcEEEEEcccCeEEEEeCCCCCCHHHHHHHHHHHHHHHcCCChhhHHhhcc
Q psy8224          41 YGPLKENWMKIFTPIVEHLKLQVRFNLKSRNVEIRLSPETEDISNLQKAADFVKAFVYGFDVDDALALLR  110 (766)
Q Consensus        41 ~~~l~~~~~~i~~~i~~~~~~~i~i~~~~~~v~i~~~~~t~d~~~~~ka~~~i~ai~~gf~~~~a~~ll~  110 (766)
                      .|-|||+.|++++.|++.+|+.|.|+-  ..|.|.+     ++..+..|+++|..+..|-.+....+-|+
T Consensus        24 ~GrIIG~gGktik~Ie~~Tg~~I~I~d--~~v~iig-----~~e~i~~A~~~Ie~li~~~e~g~VY~~le   86 (104)
T d1tuaa2          24 KGRIIGEGGRARRTIEEMTDTYINVGE--YEVAIIG-----DYERAMAAKQAIEMLAEGRMHSTVYRHLE   86 (104)
T ss_dssp             HHHHHCGGGHHHHHHHHHHTCEEEECS--SEEEEEE-----EHHHHHHHHHHHHHHHTTCCHHHHHHHHH
T ss_pred             hcceeCCCcHHHHHHHHHHCCeEEEeC--CeEEEEE-----CchhHHHHHHHHHHHHcCCCccHHHHHHH
Confidence            688999999999999999999998864  4677766     78899999999999999987776666664

>d2h2ja2 b.85.7.3 (A:50-310) RuBisCo LSMT catalytic domain {Garden pea (Pisum sativum) [TaxId: 3888]}

class: All beta proteins
fold: beta-clip
superfamily: SET domain
family: RuBisCo LSMT catalytic domain
domain: RuBisCo LSMT catalytic domain
species: Garden pea (Pisum sativum) [TaxId: 3888]

Probab=93.14  E-value=0.0061  Score=59.96  Aligned_cols=25  Identities=8%  Similarity=0.080  Sum_probs=21.4

Q ss_pred             ccchhhhhhhcccCCCCCCCeEEEE
Q psy8224         615 RMSKWIYMKTAMLSHNCKPNTKHVI  639 (766)
Q Consensus       615 ~i~~glyp~~s~~NHsC~PN~~~~~  639 (766)
                      ..+.++||.++++||||+||+.+.+
T Consensus       180 ~~~~~l~P~~d~~NHsc~pn~~~~~  204 (261)
T d2h2ja2         180 NENLVVVPMADLINHSAGVTTEDHA  204 (261)
T ss_dssp             --CCBCCTTGGGCEECSSCCSCCCC
T ss_pred             cccccchhhhHHhhcCCCCCccccc
Confidence            4567899999999999999998877

>d1k1ga_ d.51.1.1 (A:) RNA splicing factor 1 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Eukaryotic type KH-domain (KH-domain type I)
superfamily: Eukaryotic type KH-domain (KH-domain type I)
family: Eukaryotic type KH-domain (KH-domain type I)
domain: RNA splicing factor 1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=90.25  E-value=0.46  Score=40.81  Aligned_cols=64  Identities=16%  Similarity=0.212  Sum_probs=51.7

Q ss_pred             eEEEecCCCc------chhhhccCcccHHHHHHhcCcEEEEEcc---------------------cCeEEEEeCCCCCCH
Q psy8224          31 MRKVPVPNHR------YGPLKENWMKIFTPIVEHLKLQVRFNLK---------------------SRNVEIRLSPETEDI   83 (766)
Q Consensus        31 ~~~i~iP~~r------~~~l~~~~~~i~~~i~~~~~~~i~i~~~---------------------~~~v~i~~~~~t~d~   83 (766)
                      +.+|.||-+.      +|.|+|..|.+.+.|++.+|++|.|--+                     .=-|-|..    .++
T Consensus         4 ~~Ki~iP~~~~P~fNfvG~IlGPrG~t~K~Le~eTgckI~IrGrGS~kd~~~~~~~~~~~~~~~epLHv~I~a----~~~   79 (122)
T d1k1ga_           4 SDKVMIPQDEYPEINFVGLLIGPRGNTLKNIEKECNAKIMIRGKGSVKEGKVGRKDGQMLPGEDEPLHALVTA----NTM   79 (122)
T ss_dssp             EEEEECCTTTCCSHHHHHHHHCSSSHHHHHHHHHSCCEEEEEESTTSSSSSSSSCCCCCSCCSSCCEEEEEEE----SSH
T ss_pred             eEEEecCCccCCCCCeeeeEeCCCCchHHHHHHHHCCEEEEEecCCcccccccccCCCCCCCCCCCceEEEec----CCh
Confidence            5789999988      8999999999999999999999999421                     11344554    578


Q ss_pred             HHHHHHHHHHHHHHc
Q psy8224          84 SNLQKAADFVKAFVY   98 (766)
Q Consensus        84 ~~~~ka~~~i~ai~~   98 (766)
                      ..+.+|..+|..+..
T Consensus        80 ~~~~~A~~~i~~ll~   94 (122)
T d1k1ga_          80 ENVKKAVEQIRNILK   94 (122)
T ss_dssp             HHHHHHHHHHHHHHT
T ss_pred             hhHHHHHHHHHHHHH
Confidence            899999999987753