Psyllid ID: psy3727

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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--
Protein Sequence
MRPVSGGFGRPAPYDRNDRFGGANRFGGGSGPGPIRGGPPRGGFRGGFNNDRWNDRPGGFAGPRPGGRWVNESSGPSRHTVHMRGLPFRANERDVADFFRPVVPVHVDIHYENGRPSGEADVDFATHEDAMQAMSKDRTNMQHRYIELFLNSSSPRGGVGGSGSIGGFGGSGGGRLGGFGGSDPSSPFERRNPNQAYVENTALSRSAVKDRAINVQLCPYHRHSRPKAPCLN
Secondary Structure (PSIPRED)
cccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccEEEEccccccccHHHHHHcccccccEEEEEEcccccEEEEEEEEEccHHHHHHHHHHcccccccEEEEEEEcccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccc
Secondary Structure Prediction (SSPRO)
ccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccEEEEEccccccccHHHHHHHHcccccEEEEEEccccccccEEEEEEccHHHHHHHHHHHHHHHcccEEEEEEccccccccccccccccccccccEEEEcccccccccccEccccccccEEccccccHHHcHHHHHHHHcccccccccccccccc
Coil and Loop (DISEMBL)
mrpvsggfgrpapydrndrfgganrfgggsgpgpirggpprggfrggfnndrwndrpggfagprpggrwvnessgpsrhtvhmrglpfranerdvadffrpvvpvhvdihyengrpsgeadvdfaTHEDAMQAMSKDRTNMQHRYIELFlnsssprggvggsgsiggfggsgggrlggfggsdpsspferrnpnqayveNTALSRsavkdrainvqlcpyhrhsrpkapcln
Flexible Loop (DISEMBL)
mrpvsggfgrpapydrndrfgganrfgggsgpgpirGGPPRGGFRGGFNNDRWNDRPGGFAGPRPGGRWVNESSGPSRHTVHMRGLPFRANERDVADFFRPVVPVHVDIHYENGRPSGEADVDFATHEDAMQAMSKDRTNMQHRYIELFLnsssprggvGGSGSIGGFGGSGGGRLGGFGGSDPSSPFERRNPNQAYVENTAlsrsavkdRAINVQlcpyhrhsrpkapcln
Low Complexity Region (SEG)
MRPVSGGFGRPAPYDrndrfgganrfgggsgpgpirggpprggfrggfnndrWNDrpggfagprpggrWVNESSGPSRHTVHMRGLPFRANERDVADFFRPVVPVHVDIHYENGRPSGEADVDFATHEDAMQAMSKDRTNMQHRYIELFLNsssprggvggsgsiggfggsgggrlggfggsdpsspfERRNPNQAYVENTALSRSAVKDRAINVQLCPYHRHSRPKAPCLN
Disordered region (IsUnstruct)
************************************************************************************GLPFRANERDVADFFRPVVPVHVDIHYE********************************YIELFL************************************************************RAINVQLCPY************
Disordered Region (DISOPRED)
*******************************************************************************TVHMRGLPFRANERDVADFFRPVVPVHVDIHYENGRPSGEADVDFATHEDAMQAMSKDRTNMQHRYIELF*****************************************************************VQLCPYHRHSR*******
Disordered Region (DISEMBL)
MRPVSGGFGRPAPYDRNDRFGGANRFGGGSGPGPIRGGPPRGGFRGGFNNDRWNDRPGGFAGPRPGGRWVNESSGPSRHTVHMRGLPFRANERDVADFFRPVVPVHVDIHYENGRPSGEADVDFATHEDAMQAMSKDRTNMQHRYIELFLNSSSPRGGVGGSGSIGGFGGSGGGRLGGFGGSDPSSPFERRNPNQAYVENTALSRSAVKDRAINVQLCPYH***********
Disordered Region (DISPRO)
*****GGFGRPAPYDRNDRFGGANRFGGGSGPGPIRGGPPRGGFRGGFNNDRWNDRPGGFAGPRP*********GPSRHTVHMRGLPFRANERDVADFFRPVVPVHVDIHYENGRPSGEADVDFATHEDAMQAMSKDRTNMQHRYIELFLNSS******************GGGRLGGFGGSDPSSPFERRNPNQAYVENTALSRSAVKDRAINVQLCPYHRHSRPKAPCLN
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MRPVSGGFGRPAPYDRNDRFGGANRFGGGSGPGPIRGGPPRGGFRGGFNNDRWNDRPGGFAGPRPGGRWVNESSGPSRHTVHMRGLPFRANERDVADFFRPVVPVHVDIHYENGRPSGEADVDFATHEDAMQAMSKDRTNMQHRYIELFLNSSSPRGGVGGSGSIGGFGGSGGGRLGGFGGSDPSSPFERRNPNQAYVENTALSRSAVKDRAINVQLCPYHRHSRPKAPCLN
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	232	2.2.26 [Sep-21-2011]
O35737	449	Heterogeneous nuclear rib	yes	N/A	0.741	0.383	0.425	2e-24
P31943	449	Heterogeneous nuclear rib	yes	N/A	0.741	0.383	0.425	2e-24
Q8VHV7	449	Heterogeneous nuclear rib	yes	N/A	0.741	0.383	0.425	2e-24
Q5E9J1	414	Heterogeneous nuclear rib	no	N/A	0.603	0.338	0.442	7e-24
Q794E4	415	Heterogeneous nuclear rib	no	N/A	0.607	0.339	0.439	1e-23
Q9Z2X1	415	Heterogeneous nuclear rib	no	N/A	0.607	0.339	0.439	1e-23
Q8C5Q4	479	G-rich sequence factor 1	no	N/A	0.465	0.225	0.491	1e-23
Q6AY09	449	Heterogeneous nuclear rib	no	N/A	0.448	0.231	0.537	2e-23
Q5RD26	449	Heterogeneous nuclear rib	yes	N/A	0.448	0.231	0.537	2e-23
P55795	449	Heterogeneous nuclear rib	yes	N/A	0.448	0.231	0.537	2e-23

>sp|O35737|HNRH1_MOUSE Heterogeneous nuclear ribonucleoprotein H OS=Mus musculus GN=Hnrnph1 PE=1 SV=3

 Score =  112 bits (281), Expect = 2e-24,   Method: Compositional matrix adjust.
 Identities = 88/207 (42%), Positives = 114/207 (55%), Gaps = 35/207 (16%)

Query: 10  RPAPYDRNDRFGGANRFGGGSGPGPIRGGPPRGGFRGG-----------FNNDRW-NDRP 57
           RP PYDR     G N  G G+G   +R G   GG+ G            F +DR+  D  
Sbjct: 206 RPGPYDRPGAGRGYNSIGRGAGFERMRRGAYGGGYGGYDDYNGYNDGYGFGSDRFGRDLN 265

Query: 58  GGFAGPRP-----GGRWVNESSGPSRHTVHMRGLPFRANERDVADFFRPVVPVHVDIHY- 111
             F+G        GG     ++G   H VHMRGLP+RA E D+ +FF P+ PV V I   
Sbjct: 266 YCFSGMSDHRYGDGGSTFQSTTG---HCVHMRGLPYRATENDIYNFFSPLNPVRVHIEIG 322

Query: 112 ENGRPSGEADVDFATHEDAMQAMSKDRTNMQHRYIELFLNSSSPRGGVGGS--------- 162
            +GR +GEADV+FATHEDA+ AMSKD+ NMQHRY+ELFLNS++  G  GG+         
Sbjct: 323 PDGRVTGEADVEFATHEDAVAAMSKDKANMQHRYVELFLNSTA--GASGGAYEHRYVELF 380

Query: 163 --GSIGGFGGSGGGR-LGGFGGSDPSS 186
              + G  GG+ G + +GG G S+ SS
Sbjct: 381 LNSTAGASGGAYGSQMMGGMGLSNQSS 407

This protein is a component of the heterogeneous nuclear ribonucleoprotein (hnRNP) complexes which provide the substrate for the processing events that pre-mRNAs undergo before becoming functional, translatable mRNAs in the cytoplasm. Mediates pre-mRNA alternative splicing regulation. Inhibits, together with CUGBP1, insulin receptor (IR) pre-mRNA exon 11 inclusion in myoblast. Binds to the IR RNA. Binds poly(RG).
Mus musculus (taxid: 10090)

>sp|P31943|HNRH1_HUMAN Heterogeneous nuclear ribonucleoprotein H OS=Homo sapiens GN=HNRNPH1 PE=1 SV=4

 Score =  112 bits (280), Expect = 2e-24,   Method: Compositional matrix adjust.
 Identities = 88/207 (42%), Positives = 114/207 (55%), Gaps = 35/207 (16%)

Query: 10  RPAPYDRNDRFGGANRFGGGSGPGPIRGGPPRGGFRGG-----------FNNDRW-NDRP 57
           RP PYDR     G N  G G+G   +R G   GG+ G            F +DR+  D  
Sbjct: 206 RPGPYDRPGAGRGYNSIGRGAGFERMRRGAYGGGYGGYDDYNGYNDGYGFGSDRFGRDLN 265

Query: 58  GGFAGPRP-----GGRWVNESSGPSRHTVHMRGLPFRANERDVADFFRPVVPVHVDIHY- 111
             F+G        GG     ++G   H VHMRGLP+RA E D+ +FF P+ PV V I   
Sbjct: 266 YCFSGMSDHRYGDGGSTFQSTTG---HCVHMRGLPYRATENDIYNFFSPLNPVRVHIEIG 322

Query: 112 ENGRPSGEADVDFATHEDAMQAMSKDRTNMQHRYIELFLNSSSPRGGVGGS--------- 162
            +GR +GEADV+FATHEDA+ AMSKD+ NMQHRY+ELFLNS++  G  GG+         
Sbjct: 323 PDGRVTGEADVEFATHEDAVAAMSKDKANMQHRYVELFLNSTA--GASGGAYEHRYVELF 380

Query: 163 --GSIGGFGGSGGGR-LGGFGGSDPSS 186
              + G  GG+ G + +GG G S+ SS
Sbjct: 381 LNSTAGASGGAYGSQMMGGMGLSNQSS 407

This protein is a component of the heterogeneous nuclear ribonucleoprotein (hnRNP) complexes which provide the substrate for the processing events that pre-mRNAs undergo before becoming functional, translatable mRNAs in the cytoplasm. Mediates pre-mRNA alternative splicing regulation. Inhibits, together with CUGBP1, insulin receptor (IR) pre-mRNA exon 11 inclusion in myoblast. Binds to the IR RNA. Binds poly(RG).

Homo sapiens (taxid: 9606)

>sp|Q8VHV7|HNRH1_RAT Heterogeneous nuclear ribonucleoprotein H OS=Rattus norvegicus GN=Hnrnph1 PE=1 SV=2

 Score =  112 bits (280), Expect = 2e-24,   Method: Compositional matrix adjust.
 Identities = 88/207 (42%), Positives = 114/207 (55%), Gaps = 35/207 (16%)

Query: 10  RPAPYDRNDRFGGANRFGGGSGPGPIRGGPPRGGFRGG-----------FNNDRW-NDRP 57
           RP PYDR     G N  G G+G   +R G   GG+ G            F +DR+  D  
Sbjct: 206 RPGPYDRPGAGRGYNSIGRGAGFERMRRGAYGGGYGGYDDYNGYNDGYGFGSDRFGRDLN 265

Query: 58  GGFAGPRP-----GGRWVNESSGPSRHTVHMRGLPFRANERDVADFFRPVVPVHVDIHY- 111
             F+G        GG     ++G   H VHMRGLP+RA E D+ +FF P+ PV V I   
Sbjct: 266 YCFSGMSDHRYGDGGSTFQSTTG---HCVHMRGLPYRATENDIYNFFSPLNPVRVHIETG 322

Query: 112 ENGRPSGEADVDFATHEDAMQAMSKDRTNMQHRYIELFLNSSSPRGGVGGS--------- 162
            +GR +GEADV+FATHEDA+ AMSKD+ NMQHRY+ELFLNS++  G  GG+         
Sbjct: 323 PDGRVTGEADVEFATHEDAVAAMSKDKANMQHRYVELFLNSTA--GASGGAYEHRYVELF 380

Query: 163 --GSIGGFGGSGGGR-LGGFGGSDPSS 186
              + G  GG+ G + +GG G S+ SS
Sbjct: 381 LNSTAGASGGAYGSQMMGGMGLSNQSS 407

This protein is a component of the heterogeneous nuclear ribonucleoprotein (hnRNP) complexes which provide the substrate for the processing events that pre-mRNAs undergo before becoming functional, translatable mRNAs in the cytoplasm. Mediates pre-mRNA alternative splicing regulation. Inhibits, together with CUGBP1, insulin receptor (IR) pre-mRNA exon 11 inclusion in myoblast. Binds to the IR RNA. Binds poly(RG).

Rattus norvegicus (taxid: 10116)

>sp|Q5E9J1|HNRPF_BOVIN Heterogeneous nuclear ribonucleoprotein F OS=Bos taurus GN=HNRNPF PE=2 SV=3

 Score =  110 bits (276), Expect = 7e-24,   Method: Compositional matrix adjust.
 Identities = 73/165 (44%), Positives = 95/165 (57%), Gaps = 25/165 (15%)

Query: 10  RPAPYDRNDRFGGANRFGG---GSGPGPIRGGPPRGGFRG-----------GFNNDRW-- 53
           RP PYDR    G A R+ G    +G   +R G    G+ G           GF  D +  
Sbjct: 206 RPGPYDRP---GTARRYIGIVKQAGLERMRSGAYSAGYGGYEEYSGLSDGYGFTTDLFGR 262

Query: 54  --NDRPGGFAGPRPG-GRWVNESSGPSRHTVHMRGLPFRANERDVADFFRPVVPVHVDIH 110
             +    G    R G G +  +S+  + H VHMRGLP++A E D+ +FF P+ PV V I 
Sbjct: 263 DLSYCLSGMYDHRYGDGEFTVQST--TGHCVHMRGLPYKATENDIYNFFSPLNPVRVHIE 320

Query: 111 Y-ENGRPSGEADVDFATHEDAMQAMSKDRTNMQHRYIELFLNSSS 154
              +GR +GEADV+FATHE+A+ AMSKDR NMQHRYIELFLNS++
Sbjct: 321 IGPDGRVTGEADVEFATHEEAVAAMSKDRANMQHRYIELFLNSTT 365

Component of the heterogeneous nuclear ribonucleoprotein (hnRNP) complexes which provide the substrate for the processing events that pre-mRNAs undergo before becoming functional, translatable mRNAs in the cytoplasm. Plays a role in the regulation of alternative splicing events. Binds G-rich sequences in pre-mRNAs and keeps target RNA in an unfolded state.

Bos taurus (taxid: 9913)

>sp|Q794E4|HNRPF_RAT Heterogeneous nuclear ribonucleoprotein F OS=Rattus norvegicus GN=Hnrnpf PE=1 SV=3

 Score =  110 bits (274), Expect = 1e-23,   Method: Compositional matrix adjust.
 Identities = 72/164 (43%), Positives = 91/164 (55%), Gaps = 23/164 (14%)

Query: 10  RPAPYDRNDRFGGANRFGG---GSGPGPIRGGPPRGGFRG-----------GFNNDRW-- 53
           RP PYDR    G A R+ G    +G   +R G    G+ G           GF  D +  
Sbjct: 206 RPGPYDRP---GTARRYIGIVKQAGLDRMRSGAYSAGYGGYEEYSGLSDGYGFTTDLFGR 262

Query: 54  --NDRPGGFAGPRPGGRWVNESSGPSRHTVHMRGLPFRANERDVADFFRPVVPVHVDIHY 111
             +    G    R G       S  + H VHMRGLP++A E D+ +FF P+ PV V I  
Sbjct: 263 DLSYCLSGMYDHRYGDSEFTVQS-TTGHCVHMRGLPYKATENDIYNFFSPLNPVRVHIEI 321

Query: 112 -ENGRPSGEADVDFATHEDAMQAMSKDRTNMQHRYIELFLNSSS 154
             +GR +GEADV+FATHE+A+ AMSKDR NMQHRYIELFLNS++
Sbjct: 322 GPDGRVTGEADVEFATHEEAVAAMSKDRANMQHRYIELFLNSTT 365

Component of the heterogeneous nuclear ribonucleoprotein (hnRNP) complexes which provide the substrate for the processing events that pre-mRNAs undergo before becoming functional, translatable mRNAs in the cytoplasm. Plays a role in the regulation of alternative splicing events. Binds G-rich sequences in pre-mRNAs and keeps target RNA in an unfolded state.

Rattus norvegicus (taxid: 10116)

>sp|Q9Z2X1|HNRPF_MOUSE Heterogeneous nuclear ribonucleoprotein F OS=Mus musculus GN=Hnrnpf PE=1 SV=3

 Score =  110 bits (274), Expect = 1e-23,   Method: Compositional matrix adjust.
 Identities = 72/164 (43%), Positives = 91/164 (55%), Gaps = 23/164 (14%)

Query: 10  RPAPYDRNDRFGGANRFGG---GSGPGPIRGGPPRGGFRG-----------GFNNDRW-- 53
           RP PYDR    G A R+ G    +G   +R G    G+ G           GF  D +  
Sbjct: 206 RPGPYDRP---GTARRYIGIVKQAGLDRMRSGAYSAGYGGYEEYSGLSDGYGFTTDLFGR 262

Query: 54  --NDRPGGFAGPRPGGRWVNESSGPSRHTVHMRGLPFRANERDVADFFRPVVPVHVDIHY 111
             +    G    R G       S  + H VHMRGLP++A E D+ +FF P+ PV V I  
Sbjct: 263 DLSYCLSGMYDHRYGDSEFTVQS-TTGHCVHMRGLPYKATENDIYNFFSPLNPVRVHIEI 321

Query: 112 -ENGRPSGEADVDFATHEDAMQAMSKDRTNMQHRYIELFLNSSS 154
             +GR +GEADV+FATHE+A+ AMSKDR NMQHRYIELFLNS++
Sbjct: 322 GPDGRVTGEADVEFATHEEAVAAMSKDRANMQHRYIELFLNSTT 365

Component of the heterogeneous nuclear ribonucleoprotein (hnRNP) complexes which provide the substrate for the processing events that pre-mRNAs undergo before becoming functional, translatable mRNAs in the cytoplasm. Plays a role in the regulation of alternative splicing events. Binds G-rich sequences in pre-mRNAs and keeps target RNA in an unfolded state.

Mus musculus (taxid: 10090)

>sp|Q8C5Q4|GRSF1_MOUSE G-rich sequence factor 1 OS=Mus musculus GN=Grsf1 PE=1 SV=2

 Score =  109 bits (273), Expect = 1e-23,   Method: Compositional matrix adjust.
 Identities = 55/112 (49%), Positives = 76/112 (67%), Gaps = 4/112 (3%)

Query: 47  GFNNDRWNDRPGGFAGPRPGGRWVNESSGPSRHTVHMRGLPFRANERDVADFFRPVVPVH 106
            F +D+  + P   +   P    V+  + PS H VHMRGLPF+AN +D+ +FF P+ PV 
Sbjct: 370 AFESDKEIELPKEMSEKLPEA--VDFGTLPSLHFVHMRGLPFQANAQDIINFFAPLKPVR 427

Query: 107 VDIHYEN-GRPSGEADVDFATHEDAMQAMSKDRTNMQHRYIELFLNSSSPRG 157
           + + Y + G+ +GEADV F THEDA+ AM KDR+++QHRYIELFLN S P+G
Sbjct: 428 ITMEYSSSGKATGEADVHFDTHEDAVAAMLKDRSHVQHRYIELFLN-SCPKG 478

Binds RNAs containing the 14 base G-rich element.

Mus musculus (taxid: 10090)

>sp|Q6AY09|HNRH2_RAT Heterogeneous nuclear ribonucleoprotein H2 OS=Rattus norvegicus GN=Hnrnph2 PE=1 SV=1

 Score =  109 bits (272), Expect = 2e-23,   Method: Compositional matrix adjust.
 Identities = 57/106 (53%), Positives = 72/106 (67%), Gaps = 2/106 (1%)

Query: 79  HTVHMRGLPFRANERDVADFFRPVVPVHVDIHY-ENGRPSGEADVDFATHEDAMQAMSKD 137
           H VHMRGLP+RA E D+ +FF P+ P+ V I    +GR +GEADV+FATHEDA+ AM+KD
Sbjct: 289 HCVHMRGLPYRATENDIYNFFSPLNPMRVHIEIGPDGRVTGEADVEFATHEDAVAAMAKD 348

Query: 138 RTNMQHRYIELFLNSSS-PRGGVGGSGSIGGFGGSGGGRLGGFGGS 182
           + NMQHRY+ELFLNS++   GG      +  F  S  G  GG  GS
Sbjct: 349 KANMQHRYVELFLNSTAGTSGGAYDHSYVELFLNSTAGASGGAYGS 394

This protein is a component of the heterogeneous nuclear ribonucleoprotein (hnRNP) complexes which provide the substrate for the processing events that pre-mRNAs undergo before becoming functional, translatable mRNAs in the cytoplasm. Binds poly(RG).

Rattus norvegicus (taxid: 10116)

>sp|Q5RD26|HNRH2_PONAB Heterogeneous nuclear ribonucleoprotein H2 OS=Pongo abelii GN=HNRNPH2 PE=2 SV=1

 Score =  109 bits (272), Expect = 2e-23,   Method: Compositional matrix adjust.
 Identities = 57/106 (53%), Positives = 72/106 (67%), Gaps = 2/106 (1%)

Query: 79  HTVHMRGLPFRANERDVADFFRPVVPVHVDIHY-ENGRPSGEADVDFATHEDAMQAMSKD 137
           H VHMRGLP+RA E D+ +FF P+ P+ V I    +GR +GEADV+FATHEDA+ AM+KD
Sbjct: 289 HCVHMRGLPYRATENDIYNFFSPLNPMRVHIEIGPDGRVTGEADVEFATHEDAVAAMAKD 348

Query: 138 RTNMQHRYIELFLNSSS-PRGGVGGSGSIGGFGGSGGGRLGGFGGS 182
           + NMQHRY+ELFLNS++   GG      +  F  S  G  GG  GS
Sbjct: 349 KANMQHRYVELFLNSTAGTSGGAYDHSYVELFLNSTAGASGGAYGS 394

This protein is a component of the heterogeneous nuclear ribonucleoprotein (hnRNP) complexes which provide the substrate for the processing events that pre-mRNAs undergo before becoming functional, translatable mRNAs in the cytoplasm. Binds poly(RG).

Pongo abelii (taxid: 9601)

>sp|P55795|HNRH2_HUMAN Heterogeneous nuclear ribonucleoprotein H2 OS=Homo sapiens GN=HNRNPH2 PE=1 SV=1

 Score =  109 bits (272), Expect = 2e-23,   Method: Compositional matrix adjust.
 Identities = 57/106 (53%), Positives = 72/106 (67%), Gaps = 2/106 (1%)

Query: 79  HTVHMRGLPFRANERDVADFFRPVVPVHVDIHY-ENGRPSGEADVDFATHEDAMQAMSKD 137
           H VHMRGLP+RA E D+ +FF P+ P+ V I    +GR +GEADV+FATHEDA+ AM+KD
Sbjct: 289 HCVHMRGLPYRATENDIYNFFSPLNPMRVHIEIGPDGRVTGEADVEFATHEDAVAAMAKD 348

Query: 138 RTNMQHRYIELFLNSSS-PRGGVGGSGSIGGFGGSGGGRLGGFGGS 182
           + NMQHRY+ELFLNS++   GG      +  F  S  G  GG  GS
Sbjct: 349 KANMQHRYVELFLNSTAGTSGGAYDHSYVELFLNSTAGASGGAYGS 394

This protein is a component of the heterogeneous nuclear ribonucleoprotein (hnRNP) complexes which provide the substrate for the processing events that pre-mRNAs undergo before becoming functional, translatable mRNAs in the cytoplasm. Binds poly(RG).

Homo sapiens (taxid: 9606)

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	232
427792669	302	Putative splicing factor hnrnp-f, partia	0.629	0.483	0.523	2e-31
427789699	411	hypothetical protein [Rhipicephalus pulc	0.629	0.355	0.523	3e-31
346465413	434	hypothetical protein [Amblyomma maculatu	0.568	0.304	0.532	3e-30
383858866	412	PREDICTED: LOW QUALITY PROTEIN: heteroge	0.560	0.315	0.505	8e-29
380029403	413	PREDICTED: LOW QUALITY PROTEIN: heteroge	0.607	0.341	0.520	2e-28
442746139	206	Putative splicing factor hnrnp-f, partia	0.568	0.640	0.525	2e-28
346473523	412	hypothetical protein [Amblyomma maculatu	0.568	0.320	0.519	2e-28
340722803	414	PREDICTED: LOW QUALITY PROTEIN: heteroge	0.599	0.335	0.512	3e-28
126328016	468	PREDICTED: heterogeneous nuclear ribonuc	0.625	0.309	0.464	6e-28
307176277	417	Heterogeneous nuclear ribonucleoprotein	0.551	0.306	0.474	1e-27

>gi|427792669|gb|JAA61786.1| Putative splicing factor hnrnp-f, partial [Rhipicephalus pulchellus]

 Score =  141 bits (355), Expect = 2e-31,   Method: Compositional matrix adjust.
 Identities = 90/172 (52%), Positives = 111/172 (64%), Gaps = 26/172 (15%)

Query: 1   MRPVSGGFGRPAPYDRNDRFGGANRFGGGSGPGPIRGGPPRGG--FRGGFNNDRWNDRPG 58
           MRP+  G  RP PYDR +RFGG          GP R G  RGG  FRG    D + D   
Sbjct: 95  MRPM--GSARPGPYDRAERFGG----------GPSRYGMGRGGRNFRGFVEEDGYAD--- 139

Query: 59  GFAGPRPGGRWVNESSGPSRHTVHMRGLPFRANERDVADFFRPVVPVHVDIHYEN-GRPS 117
            F G   G R+       + H VHMRGLPFRA ERD+ +FF+P+ P++V + YE+ GRPS
Sbjct: 140 -FGGSGGGARF-----SATGHFVHMRGLPFRATERDIFEFFQPMNPINVHLIYEDSGRPS 193

Query: 118 GEADVDFATHEDAMQAMSKDRTNMQHRYIELFLNSSSPRGGVGGSGSIGGFG 169
           GE DV+FATHE+A++AMSKD+ +MQHRYIELFLN S+P G   GS + GGFG
Sbjct: 194 GECDVEFATHEEAVKAMSKDKAHMQHRYIELFLN-STPSGLNSGSNA-GGFG 243

Source: Rhipicephalus pulchellus

Species: Rhipicephalus pulchellus

Genus: Rhipicephalus

Family: Ixodidae

Order: Ixodida

Class: Arachnida

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|427789699|gb|JAA60301.1| hypothetical protein [Rhipicephalus pulchellus]

 Score =  140 bits (354), Expect = 3e-31,   Method: Compositional matrix adjust.
 Identities = 90/172 (52%), Positives = 111/172 (64%), Gaps = 26/172 (15%)

Query: 1   MRPVSGGFGRPAPYDRNDRFGGANRFGGGSGPGPIRGGPPRGG--FRGGFNNDRWNDRPG 58
           MRP+  G  RP PYDR +RFGG          GP R G  RGG  FRG    D + D   
Sbjct: 204 MRPM--GSARPGPYDRAERFGG----------GPSRYGMGRGGRNFRGFVEEDGYAD--- 248

Query: 59  GFAGPRPGGRWVNESSGPSRHTVHMRGLPFRANERDVADFFRPVVPVHVDIHYEN-GRPS 117
            F G   G R+       + H VHMRGLPFRA ERD+ +FF+P+ P++V + YE+ GRPS
Sbjct: 249 -FGGSGGGARF-----SATGHFVHMRGLPFRATERDIFEFFQPMNPINVHLIYEDSGRPS 302

Query: 118 GEADVDFATHEDAMQAMSKDRTNMQHRYIELFLNSSSPRGGVGGSGSIGGFG 169
           GE DV+FATHE+A++AMSKD+ +MQHRYIELFLN S+P G   GS + GGFG
Sbjct: 303 GECDVEFATHEEAVKAMSKDKAHMQHRYIELFLN-STPSGLNSGSNA-GGFG 352

Source: Rhipicephalus pulchellus

Species: Rhipicephalus pulchellus

Genus: Rhipicephalus

Family: Ixodidae

Order: Ixodida

Class: Arachnida

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|346465413|gb|AEO32551.1| hypothetical protein [Amblyomma maculatum]

 Score =  137 bits (345), Expect = 3e-30,   Method: Compositional matrix adjust.
 Identities = 83/156 (53%), Positives = 101/156 (64%), Gaps = 24/156 (15%)

Query: 1   MRPVSGGFGRPAPYDRNDRFGGANRFGGGSGPGPIRGGPPRGG--FRGGFNNDRWNDRPG 58
           MRP+  G GRP PYDR +RFGG          GP R G  RGG  FRG    D + D   
Sbjct: 227 MRPM--GTGRPGPYDRVERFGG----------GPSRYGMGRGGRNFRGFVEEDGYGD--- 271

Query: 59  GFAGPRPGGRWVNESSGPSRHTVHMRGLPFRANERDVADFFRPVVPVHVDIHYEN-GRPS 117
            F G   G  +       + H VHMRGLPFRA ERD+ +FF+P+ PV+V   YE+ GRPS
Sbjct: 272 -FGGSVGGSHF-----SATGHFVHMRGLPFRATERDIFEFFQPMNPVNVHFIYEDSGRPS 325

Query: 118 GEADVDFATHEDAMQAMSKDRTNMQHRYIELFLNSS 153
           GE DV+FATHE+A++AMSKD+ +MQHRYIELFLNS+
Sbjct: 326 GECDVEFATHEEAVKAMSKDKAHMQHRYIELFLNST 361

Source: Amblyomma maculatum

Species: Amblyomma maculatum

Genus: Amblyomma

Family: Ixodidae

Order: Ixodida

Class: Arachnida

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|383858866|ref|XP_003704920.1| PREDICTED: LOW QUALITY PROTEIN: heterogeneous nuclear ribonucleoprotein H-like [Megachile rotundata]

 Score =  132 bits (333), Expect = 8e-29,   Method: Compositional matrix adjust.
 Identities = 89/176 (50%), Positives = 102/176 (57%), Gaps = 46/176 (26%)

Query: 1   MRPVSGGFG-RPAPYDRNDRFGGANRF---GGGSGPGPIRGGPPRGG------------- 43
           MR   GGF  RPAPYDR  RFGG NRF   G GS      GGP  G              
Sbjct: 211 MRGPMGGFNQRPAPYDRGARFGGMNRFSNNGRGSRNRDFDGGPWGGNNFDSRGGGMGMRG 270

Query: 44  -------FRGGFNNDRWNDRPGGFAGPRPGGRWVNESSGPSRHTVHMRGLPFRANERDVA 96
                  FRG  N D W            GG       G   H++HMRGLPF+A E+D+A
Sbjct: 271 GMDMKGNFRG--NGDAW------------GG-------GSGIHSIHMRGLPFKATEQDIA 309

Query: 97  DFFRPVVPVHVDIHYENG-RPSGEADVDFATHEDAMQAMSKDRTNMQHRYIELFLN 151
           DFFRP+ PV+V I  ENG RPSGEADV+FATHE+AM+AMSKD+++M HRYIELFLN
Sbjct: 310 DFFRPIEPVNVRIILENGGRPSGEADVEFATHEEAMKAMSKDKSHMSHRYIELFLN 365

Source: Megachile rotundata

Species: Megachile rotundata

Genus: Megachile

Family: Megachilidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|380029403|ref|XP_003698363.1| PREDICTED: LOW QUALITY PROTEIN: heterogeneous nuclear ribonucleoprotein H-like [Apis florea]

 Score =  132 bits (331), Expect = 2e-28,   Method: Compositional matrix adjust.
 Identities = 87/167 (52%), Positives = 103/167 (61%), Gaps = 26/167 (15%)

Query: 1   MRPVSGGFG-RPAPYDRNDRFGGANRFGGGSGPGPIRGGPPR---GGFRGGFNN------ 50
           MR   GGF  RPAPYDR  RFGG NRF   S     RG   R   GG  G  NN      
Sbjct: 211 MRGPMGGFNQRPAPYDRGSRFGGMNRFSNNS-----RGSRNRDFDGGPWGSGNNFDSRGG 265

Query: 51  -----DRWNDRPGGFAGPRPGGRWVNESSGPSRHTVHMRGLPFRANERDVADFFRPVVPV 105
                   + + G F G   G  W   S     H++HMRGLPF+A E+D+ADFFRP+ PV
Sbjct: 266 SMGMRGGLDMKGGNFRGS--GDTWGGNSG---IHSIHMRGLPFKATEQDIADFFRPIEPV 320

Query: 106 HVDIHYENG-RPSGEADVDFATHEDAMQAMSKDRTNMQHRYIELFLN 151
           +V I  ENG RPSGEADV+FATHE+A++AMSKD+++M HRYIELFLN
Sbjct: 321 NVRIILENGGRPSGEADVEFATHEEAVKAMSKDKSHMSHRYIELFLN 367

Source: Apis florea

Species: Apis florea

Genus: Apis

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|442746139|gb|JAA65229.1| Putative splicing factor hnrnp-f, partial [Ixodes ricinus]

 Score =  131 bits (330), Expect = 2e-28,   Method: Compositional matrix adjust.
 Identities = 81/154 (52%), Positives = 102/154 (66%), Gaps = 22/154 (14%)

Query: 1   MRPVSGGFGRPAPYDRNDRFGGANRFGGGSGPGPIRGGPPRGGFRGGFNNDRWNDRPGGF 60
           MRP+  G  RP PYDR DRFGG +R+G G      RGG     FRG    D + D     
Sbjct: 54  MRPL--GTARPGPYDRGDRFGGPSRYGMG------RGGR---NFRGFVEEDGYGD----- 97

Query: 61  AGPRPGGRWVNESSGPSRHTVHMRGLPFRANERDVADFFRPVVPVHVDIHYEN-GRPSGE 119
            G   G R+       + H VHMRGLPFRA ERD+ +FF+P+ P++V + YE+ GRPSGE
Sbjct: 98  FGGSGGARY-----SATGHFVHMRGLPFRATERDIFEFFQPMNPMNVHLIYEDSGRPSGE 152

Query: 120 ADVDFATHEDAMQAMSKDRTNMQHRYIELFLNSS 153
            DV+FATHE+A++AMSKD+ +MQHRYIELFLNS+
Sbjct: 153 CDVEFATHEEAVKAMSKDKAHMQHRYIELFLNST 186

Source: Ixodes ricinus

Species: Ixodes ricinus

Genus: Ixodes

Family: Ixodidae

Order: Ixodida

Class: Arachnida

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|346473523|gb|AEO36606.1| hypothetical protein [Amblyomma maculatum]

 Score =  131 bits (330), Expect = 2e-28,   Method: Compositional matrix adjust.
 Identities = 81/156 (51%), Positives = 98/156 (62%), Gaps = 24/156 (15%)

Query: 1   MRPVSGGFGRPAPYDRNDRFGGANRFGGGSGPGPIRGGPPRGG--FRGGFNNDRWNDRPG 58
           MRP+ G   RP PYDR DRFGG          GP R G  RGG  FRG    D +    G
Sbjct: 204 MRPMGGA--RPGPYDRADRFGG----------GPSRYGMGRGGRNFRGFVEEDGYGGFGG 251

Query: 59  GFAGPRPGGRWVNESSGPSRHTVHMRGLPFRANERDVADFFRPVVPVHVDIHYEN-GRPS 117
              G              + H VHMRGLPFRA ERD+ +FF+P+ PV+V + YE+ GRPS
Sbjct: 252 PGGGAHFSA---------TGHFVHMRGLPFRATERDIFEFFQPMNPVNVHLIYEDSGRPS 302

Query: 118 GEADVDFATHEDAMQAMSKDRTNMQHRYIELFLNSS 153
           GE DV+FATHE+A++AMSKD+ +MQHRYIELFLNS+
Sbjct: 303 GECDVEFATHEEAVKAMSKDKAHMQHRYIELFLNST 338

Source: Amblyomma maculatum

Species: Amblyomma maculatum

Genus: Amblyomma

Family: Ixodidae

Order: Ixodida

Class: Arachnida

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|340722803|ref|XP_003399791.1| PREDICTED: LOW QUALITY PROTEIN: heterogeneous nuclear ribonucleoprotein H-like [Bombus terrestris] gi|350424200|ref|XP_003493719.1| PREDICTED: LOW QUALITY PROTEIN: heterogeneous nuclear ribonucleoprotein H-like [Bombus impatiens]

 Score =  130 bits (328), Expect = 3e-28,   Method: Compositional matrix adjust.
 Identities = 84/164 (51%), Positives = 101/164 (61%), Gaps = 25/164 (15%)

Query: 3   PVSGGFGRPAPYDRNDRFGGANRFGGGSGPGPIRGGPPR---GGFRGGFNN--------- 50
           P+ G   RPAPYDR  RFGG NRF   S     RG   R   GG  G  NN         
Sbjct: 215 PMGGFNQRPAPYDRGSRFGGMNRFSNNS-----RGSRNRDFDGGPWGSGNNFDSRGGSMG 269

Query: 51  --DRWNDRPGGFAGPRPGGRWVNESSGPSRHTVHMRGLPFRANERDVADFFRPVVPVHVD 108
                + + G F G   G  W   S     H++HMRGLPF+A E+D+ADFFRP+ PV+V 
Sbjct: 270 MRGGLDMKGGNFRG--SGDTWGGNS---GIHSIHMRGLPFKATEQDIADFFRPIEPVNVR 324

Query: 109 IHYEN-GRPSGEADVDFATHEDAMQAMSKDRTNMQHRYIELFLN 151
           I  EN GRPSGEADV+FATHE+A++AMSKD+++M HRYIELFLN
Sbjct: 325 IILENGGRPSGEADVEFATHEEAVKAMSKDKSHMSHRYIELFLN 368

Source: Bombus terrestris

Species: Bombus terrestris

Genus: Bombus

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|126328016|ref|XP_001371380.1| PREDICTED: heterogeneous nuclear ribonucleoprotein H-like [Monodelphis domestica]

 Score =  130 bits (326), Expect = 6e-28,   Method: Compositional matrix adjust.
 Identities = 72/155 (46%), Positives = 92/155 (59%), Gaps = 10/155 (6%)

Query: 10  RPAPYDRNDRFGGANRFGGGSGPGPIRGGPPRGGFRG-----GFNND----RWNDRPGGF 60
           RP PYDR     G +  G G G   +R G    G+RG      +N+D    R+ +     
Sbjct: 206 RPGPYDRPQAGRGYSTLGRGVGFAGMRCGAYEAGYRGYDDYNWYNDDYCFGRYLNYYLAM 265

Query: 61  AGPRPGGRWVNESSGPSRHTVHMRGLPFRANERDVADFFRPVVPVHVDIHY-ENGRPSGE 119
           +G   G  W      P+ H VHMRGLP++A E D+ DFF P+ PV   I    +GR +GE
Sbjct: 266 SGHSYGDSWSTFHQSPAGHYVHMRGLPYKATENDICDFFSPLKPVGAYIEIGSDGRVTGE 325

Query: 120 ADVDFATHEDAMQAMSKDRTNMQHRYIELFLNSSS 154
           ADV+FATHEDA+ AMSKD+ NMQHRYIELFLNS++
Sbjct: 326 ADVEFATHEDAVAAMSKDKANMQHRYIELFLNSTT 360

Source: Monodelphis domestica

Species: Monodelphis domestica

Genus: Monodelphis

Family: Didelphidae

Order: Didelphimorphia

Class: Mammalia

Phylum: Chordata

Superkingdom: Eukaryota

>gi|307176277|gb|EFN65908.1| Heterogeneous nuclear ribonucleoprotein H2 [Camponotus floridanus]

 Score =  129 bits (323), Expect = 1e-27,   Method: Compositional matrix adjust.
 Identities = 83/175 (47%), Positives = 100/175 (57%), Gaps = 47/175 (26%)

Query: 3   PVSGGFGRPAPYDRNDRFGGANRF---GGGSGPGPIRGGPPRGG---------------- 43
           P+ G   RPAPY R DRFGG NRF   G GS       GP   G                
Sbjct: 217 PMGGFNQRPAPYTRGDRFGGMNRFSNNGRGSRNRDFDSGPWGSGNNYGSRGGNMGMRGGM 276

Query: 44  ------FRGGFNNDRWNDRPGGFAGPRPGGRWVNESSGPSRHTVHMRGLPFRANERDVAD 97
                 +RG  NND W    GG +G                H++HMRGLPF+A E+D+AD
Sbjct: 277 DMKGNNYRG--NNDSW----GGNSGV---------------HSIHMRGLPFKATEQDIAD 315

Query: 98  FFRPVVPVHVDIHYEN-GRPSGEADVDFATHEDAMQAMSKDRTNMQHRYIELFLN 151
           FFRP+ PV+V I  EN GRPSGEADV+FATHE+A++AM KD+++M HRYIELFLN
Sbjct: 316 FFRPIEPVNVRIILENGGRPSGEADVEFATHEEAVKAMCKDKSHMSHRYIELFLN 370

Source: Camponotus floridanus

Species: Camponotus floridanus

Genus: Camponotus

Family: Formicidae

Order: Hymenoptera

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	232
UNIPROTKB|Q5F3D2	342	HNRNPH3 "Uncharacterized prote	0.310	0.210	0.68	1.2e-24
ZFIN|ZDB-GENE-060421-3878	396	zgc:136953 "zgc:136953" [Danio	0.349	0.204	0.654	2.1e-24
ZFIN|ZDB-GENE-040426-1856	403	hnrnph1 "heterogeneous nuclear	0.314	0.181	0.648	4.8e-24
ZFIN|ZDB-GENE-030131-275	407	hnrnph1l "heterogeneous nuclea	0.314	0.179	0.648	1.8e-23
UNIPROTKB|E1BB17	346	HNRNPH3 "Uncharacterized prote	0.336	0.225	0.670	2.3e-23
UNIPROTKB|F1P8D3	346	HNRNPH3 "Uncharacterized prote	0.336	0.225	0.670	2.3e-23
UNIPROTKB|P31942	346	HNRNPH3 "Heterogeneous nuclear	0.336	0.225	0.670	2.3e-23
RGD|1310019	346	Hnrnph3 "heterogeneous nuclear	0.336	0.225	0.670	2.3e-23
UNIPROTKB|G3MYE8	248	G3MYE8 "Uncharacterized protei	0.336	0.314	0.670	2.3e-23
UNIPROTKB|B4DHY1	238	HNRNPH3 "cDNA FLJ57726, highly	0.336	0.327	0.670	2.3e-23

UNIPROTKB|Q5F3D2 HNRNPH3 "Uncharacterized protein" [Gallus gallus (taxid:9031)]

 Score = 263 (97.6 bits), Expect = 1.2e-24, Sum P(2) = 1.2e-24
 Identities = 51/75 (68%), Positives = 61/75 (81%)

Query:    79 HTVHMRGLPFRANERDVADFFRPVVP--VHVDIHYENGRPSGEADVDFATHEDAMQAMSK 136
             H VHMRGLPFRA E D+A+FF P+ P  VH+DI  + GR +GEADV+F THEDA+ AMSK
Sbjct:   198 HFVHMRGLPFRATENDIANFFSPLNPIRVHIDIGAD-GRATGEADVEFVTHEDAVAAMSK 256

Query:   137 DRTNMQHRYIELFLN 151
             D+ +MQHRYIELFLN
Sbjct:   257 DKNHMQHRYIELFLN 271

GO:0000166 "nucleotide binding" evidence=IEA

GO:0003676 "nucleic acid binding" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

ZFIN|ZDB-GENE-060421-3878 zgc:136953 "zgc:136953" [Danio rerio (taxid:7955)]

 Score = 262 (97.3 bits), Expect = 2.1e-24, Sum P(2) = 2.1e-24
 Identities = 55/84 (65%), Positives = 64/84 (76%)

Query:    71 NES-SG-PSRHTVHMRGLPFRANERDVADFFRPVVPVHVDIHY-ENGRPSGEADVDFATH 127
             N+S SG  S H VHMRGLPFRA E DVA FF P+ PV V I    NG+ +GEADV+F +H
Sbjct:   280 NDSNSGFHSGHFVHMRGLPFRATESDVAHFFGPLTPVRVHIDMGPNGKSTGEADVEFRSH 339

Query:   128 EDAMQAMSKDRTNMQHRYIELFLN 151
             EDA+ AMSKD+ +MQHRYIELFLN
Sbjct:   340 EDAVSAMSKDKNHMQHRYIELFLN 363

GO:0000166 "nucleotide binding" evidence=IEA

GO:0003676 "nucleic acid binding" evidence=IEA

GO:0008150 "biological_process" evidence=ND

ZFIN|ZDB-GENE-040426-1856 hnrnph1 "heterogeneous nuclear ribonucleoprotein H1" [Danio rerio (taxid:7955)]

 Score = 257 (95.5 bits), Expect = 4.8e-24, Sum P(2) = 4.8e-24
 Identities = 48/74 (64%), Positives = 59/74 (79%)

Query:    79 HTVHMRGLPFRANERDVADFFRPVVPVHVDIHY-ENGRPSGEADVDFATHEDAMQAMSKD 137
             H VHMRGLP+RA E D+ +FF P+ PV V +    +GR +GEADV+FATHEDA+ AMSKD
Sbjct:   251 HCVHMRGLPYRATETDIYNFFSPLNPVRVHLEIGPDGRVTGEADVEFATHEDAVAAMSKD 310

Query:   138 RTNMQHRYIELFLN 151
             + NMQHRY+ELFLN
Sbjct:   311 KANMQHRYVELFLN 324

GO:0003676 "nucleic acid binding" evidence=IEA

GO:0000166 "nucleotide binding" evidence=IEA

GO:0030529 "ribonucleoprotein complex" evidence=IEA

ZFIN|ZDB-GENE-030131-275 hnrnph1l "heterogeneous nuclear ribonucleoprotein H1, like" [Danio rerio (taxid:7955)]

 Score = 253 (94.1 bits), Expect = 1.8e-23, Sum P(2) = 1.8e-23
 Identities = 48/74 (64%), Positives = 58/74 (78%)

Query:    79 HTVHMRGLPFRANERDVADFFRPVVPVHVDIHY-ENGRPSGEADVDFATHEDAMQAMSKD 137
             H VHMRGLP+RA E D+ +FF P+ PV V I    +GR +GEADV+FATHEDA+ AMS D
Sbjct:   254 HCVHMRGLPYRATEPDIYNFFSPLNPVRVHIEIGPDGRVTGEADVEFATHEDAVAAMSND 313

Query:   138 RTNMQHRYIELFLN 151
             + NMQHRY+ELFLN
Sbjct:   314 KANMQHRYVELFLN 327

GO:0000166 "nucleotide binding" evidence=IEA

GO:0003676 "nucleic acid binding" evidence=IEA

UNIPROTKB|E1BB17 HNRNPH3 "Uncharacterized protein" [Bos taurus (taxid:9913)]

 Score = 269 (99.8 bits), Expect = 2.3e-23, P = 2.3e-23
 Identities = 55/82 (67%), Positives = 64/82 (78%)

Query:    73 SSG-PSRHTVHMRGLPFRANERDVADFFRPVVP--VHVDIHYENGRPSGEADVDFATHED 129
             SSG    H VHMRGLPFRA E D+A+FF P+ P  VH+DI  + GR +GEADV+F THED
Sbjct:   188 SSGFHGGHFVHMRGLPFRATENDIANFFSPLNPIRVHIDIGAD-GRATGEADVEFVTHED 246

Query:   130 AMQAMSKDRTNMQHRYIELFLN 151
             A+ AMSKD+ NMQHRYIELFLN
Sbjct:   247 AVAAMSKDKNNMQHRYIELFLN 268

GO:0005634 "nucleus" evidence=IEA

GO:0003676 "nucleic acid binding" evidence=IEA

GO:0000166 "nucleotide binding" evidence=IEA

UNIPROTKB|F1P8D3 HNRNPH3 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]

 Score = 269 (99.8 bits), Expect = 2.3e-23, P = 2.3e-23
 Identities = 55/82 (67%), Positives = 64/82 (78%)

Query:    73 SSG-PSRHTVHMRGLPFRANERDVADFFRPVVP--VHVDIHYENGRPSGEADVDFATHED 129
             SSG    H VHMRGLPFRA E D+A+FF P+ P  VH+DI  + GR +GEADV+F THED
Sbjct:   188 SSGFHGGHFVHMRGLPFRATENDIANFFSPLNPIRVHIDIGAD-GRATGEADVEFVTHED 246

Query:   130 AMQAMSKDRTNMQHRYIELFLN 151
             A+ AMSKD+ NMQHRYIELFLN
Sbjct:   247 AVAAMSKDKNNMQHRYIELFLN 268

GO:0003676 "nucleic acid binding" evidence=IEA

GO:0000166 "nucleotide binding" evidence=IEA

UNIPROTKB|P31942 HNRNPH3 "Heterogeneous nuclear ribonucleoprotein H3" [Homo sapiens (taxid:9606)]

 Score = 269 (99.8 bits), Expect = 2.3e-23, P = 2.3e-23
 Identities = 55/82 (67%), Positives = 64/82 (78%)

Query:    73 SSG-PSRHTVHMRGLPFRANERDVADFFRPVVP--VHVDIHYENGRPSGEADVDFATHED 129
             SSG    H VHMRGLPFRA E D+A+FF P+ P  VH+DI  + GR +GEADV+F THED
Sbjct:   188 SSGFHGGHFVHMRGLPFRATENDIANFFSPLNPIRVHIDIGAD-GRATGEADVEFVTHED 246

Query:   130 AMQAMSKDRTNMQHRYIELFLN 151
             A+ AMSKD+ NMQHRYIELFLN
Sbjct:   247 AVAAMSKDKNNMQHRYIELFLN 268

GO:0000166 "nucleotide binding" evidence=IEA

GO:0030529 "ribonucleoprotein complex" evidence=IEA

GO:0000398 "mRNA splicing, via spliceosome" evidence=NAS

GO:0003723 "RNA binding" evidence=NAS

GO:0008380 "RNA splicing" evidence=TAS

GO:0006396 "RNA processing" evidence=TAS

GO:0005634 "nucleus" evidence=IDA

GO:0005730 "nucleolus" evidence=IDA

RGD|1310019 Hnrnph3 "heterogeneous nuclear ribonucleoprotein H3 (2H9)" [Rattus norvegicus (taxid:10116)]

 Score = 269 (99.8 bits), Expect = 2.3e-23, P = 2.3e-23
 Identities = 55/82 (67%), Positives = 64/82 (78%)

Query:    73 SSG-PSRHTVHMRGLPFRANERDVADFFRPVVP--VHVDIHYENGRPSGEADVDFATHED 129
             SSG    H VHMRGLPFRA E D+A+FF P+ P  VH+DI  + GR +GEADV+F THED
Sbjct:   188 SSGFHGGHFVHMRGLPFRATENDIANFFSPLNPIRVHIDIGAD-GRATGEADVEFVTHED 246

Query:   130 AMQAMSKDRTNMQHRYIELFLN 151
             A+ AMSKD+ NMQHRYIELFLN
Sbjct:   247 AVAAMSKDKNNMQHRYIELFLN 268

GO:0000166 "nucleotide binding" evidence=IEA

GO:0003676 "nucleic acid binding" evidence=IEA

GO:0005634 "nucleus" evidence=ISO

GO:0030529 "ribonucleoprotein complex" evidence=IEA

GO:0005730 "nucleolus" evidence=ISO

UNIPROTKB|G3MYE8 G3MYE8 "Uncharacterized protein" [Bos taurus (taxid:9913)]

 Score = 269 (99.8 bits), Expect = 2.3e-23, P = 2.3e-23
 Identities = 55/82 (67%), Positives = 64/82 (78%)

Query:    73 SSG-PSRHTVHMRGLPFRANERDVADFFRPVVP--VHVDIHYENGRPSGEADVDFATHED 129
             SSG    H VHMRGLPFRA E D+A+FF P+ P  VH+DI  + GR +GEADV+F THED
Sbjct:    90 SSGFHGGHFVHMRGLPFRATENDIANFFSPLNPIRVHIDIGAD-GRATGEADVEFVTHED 148

Query:   130 AMQAMSKDRTNMQHRYIELFLN 151
             A+ AMSKD+ NMQHRYIELFLN
Sbjct:   149 AVAAMSKDKNNMQHRYIELFLN 170

GO:0003676 "nucleic acid binding" evidence=IEA

GO:0000166 "nucleotide binding" evidence=IEA

UNIPROTKB|B4DHY1 HNRNPH3 "cDNA FLJ57726, highly similar to Heterogeneous nuclear ribonucleoprotein H3" [Homo sapiens (taxid:9606)]

 Score = 269 (99.8 bits), Expect = 2.3e-23, P = 2.3e-23
 Identities = 55/82 (67%), Positives = 64/82 (78%)

Query:    73 SSG-PSRHTVHMRGLPFRANERDVADFFRPVVP--VHVDIHYENGRPSGEADVDFATHED 129
             SSG    H VHMRGLPFRA E D+A+FF P+ P  VH+DI  + GR +GEADV+F THED
Sbjct:    80 SSGFHGGHFVHMRGLPFRATENDIANFFSPLNPIRVHIDIGAD-GRATGEADVEFVTHED 138

Query:   130 AMQAMSKDRTNMQHRYIELFLN 151
             A+ AMSKD+ NMQHRYIELFLN
Sbjct:   139 AVAAMSKDKNNMQHRYIELFLN 160

GO:0000166 "nucleotide binding" evidence=IEA

GO:0003676 "nucleic acid binding" evidence=IEA

GO:0030529 "ribonucleoprotein complex" evidence=IEA

GO:0005634 "nucleus" evidence=IDA

GO:0005730 "nucleolus" evidence=IDA

---

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)
P55795	HNRH2_HUMAN	No assigned EC number	0.5377	0.4482	0.2316	yes	N/A
Q5RD26	HNRH2_PONAB	No assigned EC number	0.5377	0.4482	0.2316	yes	N/A
P70333	HNRH2_MOUSE	No assigned EC number	0.5377	0.4482	0.2316	yes	N/A
Q3SZF3	HNRH2_BOVIN	No assigned EC number	0.5377	0.4482	0.2316	yes	N/A

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

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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	232
cd12506	75	cd12506, RRM3_hnRNPH_CRSF1_like, RNA recognition m	9e-41
cd12733	75	cd12733, RRM3_GRSF1, RNA recognition motif 3 in G-	2e-33
cd12735	75	cd12735, RRM3_hnRNPH3, RNA recognition motif 3 in	5e-32
cd12734	76	cd12734, RRM3_hnRNPH_hnRNPH2_hnRNPF, RNA recogniti	1e-30
cd12254	73	cd12254, RRM_hnRNPH_ESRPs_RBM12_like, RNA recognit	1e-24
cd12508	80	cd12508, RRM2_ESRPs_Fusilli, RNA recognition motif	3e-17
cd12502	72	cd12502, RRM2_RMB19, RNA recognition motif 2 in RN	1e-16
cd12504	77	cd12504, RRM2_hnRNPH_like, RNA recognition motif 2	1e-15
cd12505	75	cd12505, RRM2_GRSF1, RNA recognition motif 2 in G-	2e-15
pfam14259	69	pfam14259, RRM_6, RNA recognition motif (a	1e-13
cd12503	77	cd12503, RRM1_hnRNPH_GRSF1_like, RNA recognition m	6e-13
cd12729	79	cd12729, RRM1_hnRNPH_hnRNPH2_hnRNPF, RNA recogniti	1e-11
cd12746	78	cd12746, RRM2_RBM12B, RNA recognition motif 2 in R	3e-11
cd12732	96	cd12732, RRM2_hnRNPH3, RNA recognition motif 2 in	9e-11
cd12511	73	cd12511, RRM2_RBM12_like, RNA recognition motif 2	2e-10
cd12509	81	cd12509, RRM3_ESRPs_Fusilli, RNA recognition motif	3e-10
cd12740	107	cd12740, RRM2_ESRP2, RNA recognition motif 2 in ep	3e-10
smart00360	73	smart00360, RRM, RNA recognition motif	3e-10
cd12739	109	cd12739, RRM2_ESRP1, RNA recognition motif 2 in ep	7e-10
cd12731	83	cd12731, RRM2_hnRNPH_hnRNPH2_hnRNPF, RNA recogniti	8e-09
cd12741	100	cd12741, RRM2_Fusilli, RNA recognition motif 2 in	1e-08
cd12514	73	cd12514, RRM4_RBM12_like, RNA recognition motif 4	5e-08
cd12510	74	cd12510, RRM1_RBM12_like, RNA recognition motif 1	5e-08
cd12515	75	cd12515, RRM5_RBM12_like, RNA recognition motif 5	9e-08
cd00590	72	cd00590, RRM_SF, RNA recognition motif (RRM) super	1e-07
cd12742	81	cd12742, RRM3_ESRP1_ESRP2, RNA recognition motif i	2e-07
cd12450	77	cd12450, RRM1_NUCLs, RNA recognition motif 1 found	3e-07
cd12747	75	cd12747, RRM2_RBM12, RNA recognition motif 2 in RN	6e-07
cd12507	75	cd12507, RRM1_ESRPs_Fusilli, RNA recognition motif	1e-06
cd12512	101	cd12512, RRM3_RBM12, RNA recognition motif 3 in RN	2e-06
cd12730	79	cd12730, RRM1_GRSF1, RNA recognition motif 1 in G-	3e-06
cd12316	74	cd12316, RRM3_RBM19_RRM2_MRD1, RNA recognition mot	5e-06
cd12674	79	cd12674, RRM1_Nop4p, RNA recognition motif 1 in ye	1e-05
cd12750	77	cd12750, RRM5_RBM12B, RNA recognition motif 5 in R	2e-05
cd12744	79	cd12744, RRM1_RBM12B, RNA recognition motif 1 in R	4e-05
cd12296	71	cd12296, RRM1_Prp24, RNA recognition motif 1 in fu	4e-05
pfam00076	70	pfam00076, RRM_1, RNA recognition motif	4e-05
cd12392	81	cd12392, RRM2_SART3, RNA recognition motif 2 in sq	5e-05
cd12738	80	cd12738, RRM1_Fusilli, RNA recognition motif 1 in	7e-05
cd12680	75	cd12680, RRM_THOC4, RNA recognition motif in THO c	7e-05
cd12387	72	cd12387, RRM3_hnRNPM_like, RNA recognition motif 3	8e-05
cd12415	82	cd12415, RRM3_RBM28_like, RNA recognition motif 3	2e-04
cd12418	75	cd12418, RRM_Aly_REF_like, RNA recognition motif i	2e-04
cd12399	78	cd12399, RRM_HP0827_like, RNA recognition motif in	2e-04
cd12737	80	cd12737, RRM1_ESRP2, RNA recognition motif 1 in ep	3e-04
cd12751	76	cd12751, RRM5_RBM12, RNA recognition motif 5 in RN	4e-04
cd12405	72	cd12405, RRM3_NCL, RNA recognition motif 3 in vert	4e-04
cd12736	85	cd12736, RRM1_ESRP1, RNA recognition motif 1 in ep	5e-04
cd12566	79	cd12566, RRM2_MRD1, RNA recognition motif 2 in yea	7e-04
COG0724	306	COG0724, COG0724, RNA-binding proteins (RRM domain	0.001
cd12513	81	cd12513, RRM3_RBM12B, RNA recognition motif 3 in R	0.002
cd12402	77	cd12402, RRM_eIF4B, RNA recognition motif in eukar	0.003
cd12743	85	cd12743, RRM3_Fusilli, RNA recognition motif 3 in	0.003

>gnl|CDD|240950 cd12506, RRM3_hnRNPH_CRSF1_like, RNA recognition motif 3 in heterogeneous nuclear ribonucleoprotein hnRNP H protein family, G-rich sequence factor 1 (GRSF-1) and similar proteins

 Score =  133 bits (338), Expect = 9e-41
 Identities = 52/75 (69%), Positives = 62/75 (82%), Gaps = 1/75 (1%)

Query: 79  HTVHMRGLPFRANERDVADFFRPVVPVHVDIHYE-NGRPSGEADVDFATHEDAMQAMSKD 137
           HTVHMRGLP+RA E D+ +FF P+ PV+V I Y  +GR +GEADV+FATHEDA+ AMSKD
Sbjct: 1   HTVHMRGLPYRATENDIFEFFSPLNPVNVRIEYNADGRATGEADVEFATHEDAVAAMSKD 60

Query: 138 RTNMQHRYIELFLNS 152
           R +M HRYIELFLNS
Sbjct: 61  REHMGHRYIELFLNS 75

This subfamily corresponds to the RRM3 of hnRNP H proteins and GRSF-1. The hnRNP H protein family includes hnRNP H (also termed mcs94-1), hnRNP H2 (also termed FTP-3 or hnRNP H'), hnRNP F and hnRNP H3 (also termed hnRNP 2H9), which represent a group of nuclear RNA binding proteins that are involved in pre-mRNA processing. These proteins have similar RNA binding affinities and specifically recognize the sequence GGGA. They can either stimulate or repress splicing upon binding to a GGG motif. hnRNP H binds to the RNA substrate in the presence or absence of these proteins, whereas hnRNP F binds to the nuclear mRNA only in the presence of cap-binding proteins. hnRNP H and hnRNP H2 are almost identical; both have been found to bind nuclear-matrix proteins. hnRNP H activates exon inclusion by binding G-rich intronic elements downstream of the 5' splice site in the transcripts of c-src, human immunodeficiency virus type 1 (HIV-1), Bcl-X, GRIN1, and myelin. It silences exons when bound to exonic elements in the transcripts of beta-tropomyosin, HIV-1, and alpha-tropomyosin. hnRNP H2 has been implicated in pre-mRNA 3' end formation. hnRNP H3 may be involved in the splicing arrest induced by heat shock. Most family members contain three RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), except for hnRNP H3, in which the RRM1 is absent. RRM1 and RRM2 are responsible for the binding to the RNA at DGGGD motifs, and they play an important role in efficiently silencing the exon. For instance, members in this family can regulate the alternative splicing of the fibroblast growth factor receptor 2 (FGFR2) transcripts, and function as silencers of FGFR2 exon IIIc through an interaction with the exonic GGG motifs. The lack of RRM1 could account for the reduced silencing activity within hnRNP H3. In addition, the family members have an extensive glycine-rich region near the C-terminus, which may allow them to homo- or heterodimerize. The family also includes a cytoplasmic poly(A)+ mRNA binding protein, GRSF-1, which interacts with RNA in a G-rich element-dependent manner. It may function in RNA packaging, stabilization of RNA secondary structure, or other macromolecular interactions. GRSF-1 also contains three potential RRMs responsible for the RNA binding, and two auxiliary domains (an acidic alpha-helical domain and an N-terminal alanine-rich region) that may play a role in protein-protein interactions and provide binding specificity. . Length = 75

>gnl|CDD|241177 cd12733, RRM3_GRSF1, RNA recognition motif 3 in G-rich sequence factor 1 (GRSF-1) and similar proteins

 Score =  115 bits (289), Expect = 2e-33
 Identities = 45/75 (60%), Positives = 59/75 (78%), Gaps = 1/75 (1%)

Query: 79  HTVHMRGLPFRANERDVADFFRPVVPVHVDIHY-ENGRPSGEADVDFATHEDAMQAMSKD 137
           H VHMRGLPF+A+ +D+ +FF P+ P  + I Y  +GR +GEADV F +H+DA+ AM+KD
Sbjct: 1   HFVHMRGLPFQASGQDIVNFFAPLKPTRILIEYSSDGRATGEADVHFESHDDAVAAMAKD 60

Query: 138 RTNMQHRYIELFLNS 152
           R +MQHRYIELFLNS
Sbjct: 61  RAHMQHRYIELFLNS 75

This subgroup corresponds to the RRM3 of G-rich sequence factor 1 (GRSF-1), a cytoplasmic poly(A)+ mRNA binding protein which interacts with RNA in a G-rich element-dependent manner. It may function in RNA packaging, stabilization of RNA secondary structure, or other macromolecular interactions. GRSF-1 contains three potential RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), which are responsible for the RNA binding. In addition, GRSF-1 has two auxiliary domains, an acidic alpha-helical domain and an N-terminal alanine-rich region, that may play a role in protein-protein interactions and provide binding specificity. . Length = 75

>gnl|CDD|241179 cd12735, RRM3_hnRNPH3, RNA recognition motif 3 in heterogeneous nuclear ribonucleoprotein H3 (hnRNP H3) and similar proteins

 Score =  111 bits (279), Expect = 5e-32
 Identities = 52/76 (68%), Positives = 62/76 (81%), Gaps = 3/76 (3%)

Query: 79  HTVHMRGLPFRANERDVADFFRPVVP--VHVDIHYENGRPSGEADVDFATHEDAMQAMSK 136
           H VHMRGLPFRA E D+A+FF P+ P  VH+DI   +GR +GEADV+F THEDA+ AMSK
Sbjct: 1   HFVHMRGLPFRATESDIANFFSPLTPIRVHIDIG-ADGRATGEADVEFVTHEDAVAAMSK 59

Query: 137 DRTNMQHRYIELFLNS 152
           D+ +MQHRYIELFLNS
Sbjct: 60  DKNHMQHRYIELFLNS 75

This subgroup corresponds to the RRM3 of hnRNP H3 (also termed hnRNP 2H9), a nuclear RNA binding protein that belongs to the hnRNP H protein family that also includes hnRNP H (also termed mcs94-1), hnRNP H2 (also termed FTP-3 or hnRNP H'), and hnRNP F. This family is involved in mRNA processing and exhibit extensive sequence homology. Currently, little is known about the functions of hnRNP H3 except for its role in the splicing arrest induced by heat shock. In addition, the typical hnRNP H proteins contain contain three RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), except for hnRNP H3, in which the RRM1 is absent. RRM1 and RRM2 are responsible for the binding to the RNA at DGGGD motifs, and they play an important role in efficiently silencing the exon. Members in this family can regulate the alternative splicing of the fibroblast growth factor receptor 2 (FGFR2) transcripts, and function as silencers of FGFR2 exon IIIc through an interaction with the exonic GGG motifs. The lack of RRM1 could account for the reduced silencing activity within hnRNP H3. In addition, like other hnRNP H protein family members, hnRNP H3 has an extensive glycine-rich region near the C-terminus, which may allow it to homo- or heterodimerize. . Length = 75

>gnl|CDD|241178 cd12734, RRM3_hnRNPH_hnRNPH2_hnRNPF, RNA recognition motif 3 in heterogeneous nuclear ribonucleoprotein hnRNP H , hnRNP H2, hnRNP F and similar proteins

 Score =  107 bits (269), Expect = 1e-30
 Identities = 50/76 (65%), Positives = 61/76 (80%), Gaps = 1/76 (1%)

Query: 79  HTVHMRGLPFRANERDVADFFRPVVPVHVDIHY-ENGRPSGEADVDFATHEDAMQAMSKD 137
           H VHMRGLP+RA E D+ +FF P+ PV V I    +GR +GEADV+FATHEDA+ AMSKD
Sbjct: 1   HCVHMRGLPYRATENDIYNFFSPLNPVRVHIEIGPDGRVTGEADVEFATHEDAVAAMSKD 60

Query: 138 RTNMQHRYIELFLNSS 153
           + NMQHRY+ELFLNS+
Sbjct: 61  KANMQHRYVELFLNST 76

This subgroup corresponds to the RRM3 of hnRNP H (also termed mcs94-1), hnRNP H2 (also termed FTP-3 or hnRNP H') and hnRNP F, which represent a group of nuclear RNA binding proteins that play important roles in the regulation of alternative splicing decisions. hnRNP H and hnRNP F are two closely related proteins, both of which bind to the RNA sequence DGGGD. They are present in a complex with the tissue-specific splicing factor Fox2, and regulate the alternative splicing of the fibroblast growth factor receptor 2 (FGFR2) transcripts. The presence of Fox 2 can allows hnRNP H and hnRNP F to better compete with the SR protein ASF/SF2 for binding to FGFR2 exon IIIc. Thus, hnRNP H and hnRNP F can function as potent silencers of FGFR2 exon IIIc inclusion through an interaction with the exonic GGG motifs. Furthermore, hnRNP H and hnRNP H2 are almost identical; bothe have been found to bind nuclear-matrix proteins. hnRNP H activates exon inclusion by binding G-rich intronic elements downstream of the 5' splice site in the transcripts of c-src, human immunodeficiency virus type 1 (HIV-1), Bcl-X, GRIN1, and myelin. It silences exons when bound to exonic elements in the transcripts of beta-tropomyosin, HIV-1, and alpha-tropomyosin. hnRNP H2 has been implicated in pre-mRNA 3' end formation. Members in this family contain three RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains). RRM1 and RRM2 are responsible for the binding to the RNA at DGGGD motifs, and they play an important role in efficiently silencing the exon. In addition, the family members have an extensive glycine-rich region near the C-terminus, which may allow them to homo- or heterodimerize. . Length = 76

>gnl|CDD|240700 cd12254, RRM_hnRNPH_ESRPs_RBM12_like, RNA recognition motif found in heterogeneous nuclear ribonucleoprotein (hnRNP) H protein family, epithelial splicing regulatory proteins (ESRPs), Drosophila RNA-binding protein Fusilli, RNA-binding protein 12 (RBM12) and similar proteins

 Score = 92.6 bits (231), Expect = 1e-24
 Identities = 34/73 (46%), Positives = 45/73 (61%), Gaps = 3/73 (4%)

Query: 80  TVHMRGLPFRANERDVADFFRPVVPVHVDIH---YENGRPSGEADVDFATHEDAMQAMSK 136
            V +RGLPF A E D+ DFF  +      IH    ++GRP+GEA V+FA+ EDA +A+ K
Sbjct: 1   VVRLRGLPFSATEEDIRDFFSGLDIPPDGIHIVYDDDGRPTGEAYVEFASPEDARRALRK 60

Query: 137 DRTNMQHRYIELF 149
               M  RYIE+F
Sbjct: 61  HNNKMGGRYIEVF 73

The family includes RRM domains in the hnRNP H protein family, G-rich sequence factor 1 (GRSF-1), ESRPs (also termed RBM35), Drosophila Fusilli, RBM12 (also termed SWAN), RBM12B, RBM19 (also termed RBD-1) and similar proteins. The hnRNP H protein family includes hnRNP H (also termed mcs94-1), hnRNP H2 (also termed FTP-3 or hnRNP H'), hnRNP F and hnRNP H3 (also termed hnRNP 2H9), which represent a group of nuclear RNA binding proteins that are involved in pre-mRNA processing. GRSF-1 is a cytoplasmic poly(A)+ mRNA binding protein which interacts with RNA in a G-rich element-dependent manner. It may function in RNA packaging, stabilization of RNA secondary structure, or other macromolecular interactions. ESRP1 (also termed RBM35A) and ESRP2 (also termed RBM35B) are epithelial-specific RNA binding proteins that promote splicing of the epithelial variant of fibroblast growth factor receptor 2 (FGFR2), ENAH (also termed hMena), CD44 and CTNND1 (also termed p120-Catenin) transcripts. Fusilli shows high sequence homology to ESRPs. It can regulate endogenous FGFR2 splicing and functions as a splicing factor. The biological roles of both, RBM12 and RBM12B, remain unclear. RBM19 is a nucleolar protein conserved in eukaryotes. It is involved in ribosome biogenesis by processing rRNA. In addition, it is essential for preimplantation development. Members in this family contain 2~6 conserved RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains). . Length = 73

>gnl|CDD|240952 cd12508, RRM2_ESRPs_Fusilli, RNA recognition motif 2 in epithelial splicing regulatory protein ESRP1, ESRP2, Drosophila RNA-binding protein Fusilli and similar proteins

 Score = 73.5 bits (181), Expect = 3e-17
 Identities = 31/76 (40%), Positives = 43/76 (56%), Gaps = 6/76 (7%)

Query: 80  TVHMRGLPFRANERDVADFFRPVVPVHVD------IHYENGRPSGEADVDFATHEDAMQA 133
            + MRGLP+ A   D+  FF  + PV         +   +GRP+G+A V F T EDA +A
Sbjct: 3   IIRMRGLPYSATAADILAFFGGLCPVVGGPDGILFVTGPDGRPTGDAFVLFETEEDAQRA 62

Query: 134 MSKDRTNMQHRYIELF 149
           + K + N+  RYIELF
Sbjct: 63  LGKHKENLGSRYIELF 78

This subfamily corresponds to the RRM2 of ESRPs and Fusilli. ESRP1 (also termed RBM35A) and ESRP2 (also termed RBM35B) are epithelial-specific RNA binding proteins that promote splicing of the epithelial variant of the fibroblast growth factor receptor 2 (FGFR2), ENAH (also termed hMena), CD44 and CTNND1 (also termed p120-Catenin) transcripts. They are highly conserved paralogs and specifically bind to GU-rich binding site. ESRP1 and ESRP2 contain three RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains). The family also includes Drosophila fusilli (fus) gene encoding RNA-binding protein Fusilli.Loss of fusilli activity causes lethality during embryogenesis in flies. Drosophila Fusilli can regulate endogenous FGFR2 splicing and functions as a splicing factor. It shows high sequence homology to ESRPs and contains three RRMs as well. It also has an N-terminal domain with unknown function and a C-terminal domain particularly rich in alanine, glutamine, and serine. . Length = 80

>gnl|CDD|240946 cd12502, RRM2_RMB19, RNA recognition motif 2 in RNA-binding protein 19 (RBM19) and similar proteins

 Score = 71.6 bits (176), Expect = 1e-16
 Identities = 30/72 (41%), Positives = 44/72 (61%), Gaps = 1/72 (1%)

Query: 79  HTVHMRGLPFRANERDVADFFRPVVPVHVDI-HYENGRPSGEADVDFATHEDAMQAMSKD 137
            TV MRG PF   E+ + +FF P+ PV + I   ++GR +G A VD  + ED  +A+ ++
Sbjct: 1   FTVKMRGAPFNVKEKHIREFFSPLKPVAIRIVKNDHGRKTGFAFVDLKSEEDLKKALKRN 60

Query: 138 RTNMQHRYIELF 149
           +  M  RYIELF
Sbjct: 61  KDYMGGRYIELF 72

This subfamily corresponds to the RRM2 of RBM19, also termed RNA-binding domain-1 (RBD-1), a nucleolar protein conserved in eukaryotes. It is involved in ribosome biogenesis by processing rRNA and is also essential for preimplantation development. RBM19 has a unique domain organization containing 6 conserved RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains). . Length = 72

>gnl|CDD|240948 cd12504, RRM2_hnRNPH_like, RNA recognition motif 2 in heterogeneous nuclear ribonucleoprotein (hnRNP) H protein family

 Score = 68.9 bits (169), Expect = 1e-15
 Identities = 30/77 (38%), Positives = 47/77 (61%), Gaps = 3/77 (3%)

Query: 79  HTVHMRGLPFRANERDVADFFR--PVVPVHVDIHYE-NGRPSGEADVDFATHEDAMQAMS 135
             V +RGLPF  ++ ++A FF    +VP  + +  +  GR +GEA V FA+ E A +A+ 
Sbjct: 1   GVVRLRGLPFGCSKEEIAQFFSGLEIVPNGITLPMDYRGRSTGEAYVQFASQESAERALG 60

Query: 136 KDRTNMQHRYIELFLNS 152
           K +  + HRYIE+F +S
Sbjct: 61  KHKEKIGHRYIEIFRSS 77

This subfamily corresponds to the RRM2 of hnRNP H protein family which includes hnRNP H (also termed mcs94-1), hnRNP H2 (also termed FTP-3 or hnRNP H'), hnRNP F and hnRNP H3 (also termed hnRNP 2H9). They represent a group of nuclear RNA binding proteins that are involved in pre-mRNA processing, having similar RNA binding affinities and specifically recognizing the sequence GGGA. They can either stimulate or repress splicing upon binding to a GGG motif. hnRNP H binds to the RNA substrate in the presence or absence of these proteins, whereas hnRNP F binds to the nuclear mRNA only in the presence of cap-binding proteins. Furthermore, hnRNP H and hnRNP H2 are almost identical; both have been found to bind nuclear-matrix proteins. hnRNP H activates exon inclusion by binding G-rich intronic elements downstream of the 5' splice site in the transcripts of c-src, human immunodeficiency virus type 1 (HIV-1), Bcl-X, GRIN1, and myelin. It silences exons when bound to exonic elements in the transcripts of beta-tropomyosin, HIV-1, and alpha-tropomyosin. hnRNP H2 has been implicated in pre-mRNA 3' end formation. hnRNP H3 may be involved in the splicing arrest induced by heat shock. Most family members contain three RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), except for hnRNP H3, in which the RRM1 is absent. RRM1 and RRM2 are responsible for the binding to the RNA at DGGGD motifs, and they play an important role in efficiently silencing the exon. Members in this family can regulate the alternative splicing of the fibroblast growth factor receptor 2 (FGFR2) transcripts, and function as silencers of FGFR2 exon IIIc through an interaction with the exonic GGG motifs. The lack of RRM1 could account for the reduced silencing activity within hnRNP H3. In addition, the family members have an extensive glycine-rich region near the C-terminus, which may allow them to homo- or heterodimerize. . Length = 77

>gnl|CDD|240949 cd12505, RRM2_GRSF1, RNA recognition motif 2 in G-rich sequence factor 1 (GRSF-1) and similar proteins

 Score = 68.6 bits (168), Expect = 2e-15
 Identities = 33/72 (45%), Positives = 43/72 (59%), Gaps = 3/72 (4%)

Query: 81  VHMRGLPFRANERDVADFFR--PVVPVHVDIHYE-NGRPSGEADVDFATHEDAMQAMSKD 137
           V +RGLP+   E D+ DFFR   +V   V I     GR +GEA V FAT E A +A+ K 
Sbjct: 4   VRLRGLPYSCTEDDIIDFFRGLDIVDDGVVIVLNRRGRKTGEAYVQFATPEMANKALLKH 63

Query: 138 RTNMQHRYIELF 149
           R  + +RYIE+F
Sbjct: 64  REEIGNRYIEVF 75

This subfamily corresponds to the RRM2 of GRSF-1, a cytoplasmic poly(A)+ mRNA binding protein which interacts with RNA in a G-rich element-dependent manner. It may function in RNA packaging, stabilization of RNA secondary structure, or other macromolecular interactions. GRSF-1 contains three potential RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), which are responsible for the RNA binding. In addition, GRSF-1 has two auxiliary domains, an acidic alpha-helical domain and an N-terminal alanine-rich region, that may play a role in protein-protein interactions and provide binding specificity. . Length = 75

>gnl|CDD|222631 pfam14259, RRM_6, RNA recognition motif (a

 Score = 63.3 bits (155), Expect = 1e-13
 Identities = 23/69 (33%), Positives = 35/69 (50%), Gaps = 2/69 (2%)

Query: 81  VHMRGLPFRANERDVADFFRPVVPVH-VDIHYENGRPSGEADVDFATHEDAMQAMSK-DR 138
           +++R LP    E D+ +FF P   V  V +     RP G A V+FA+ EDA  A+ K + 
Sbjct: 1   LYVRNLPPSVTEEDLREFFSPYGKVEGVRLVRNKDRPRGFAFVEFASPEDAEAALKKLNG 60

Query: 139 TNMQHRYIE 147
             +  R + 
Sbjct: 61  LVLDGRTLR 69

k.a. RRM, RBD, or RNP domain). Length = 69

>gnl|CDD|240947 cd12503, RRM1_hnRNPH_GRSF1_like, RNA recognition motif 1 in heterogeneous nuclear ribonucleoprotein (hnRNP) H protein family, G-rich sequence factor 1 (GRSF-1) and similar proteins

 Score = 62.0 bits (151), Expect = 6e-13
 Identities = 30/74 (40%), Positives = 42/74 (56%), Gaps = 5/74 (6%)

Query: 81  VHMRGLPFRANERDVADFFR--PVVPVHVDIHY---ENGRPSGEADVDFATHEDAMQAMS 135
           V +RGLP+ A   DV +FF    +      IH+     GRPSGEA ++  + ED  +A+ 
Sbjct: 2   VRIRGLPWSATAEDVLNFFSDCRIKGGENGIHFTYSREGRPSGEAFIELESEEDVEKALE 61

Query: 136 KDRTNMQHRYIELF 149
           K   +M HRYIE+F
Sbjct: 62  KHNEHMGHRYIEVF 75

This subfamily corresponds to the RRM1 of hnRNP H proteins and GRSF-1. The hnRNP H protein family includes hnRNP H (also termed mcs94-1), hnRNP H2 (also termed FTP-3 or hnRNP H'), hnRNP F and hnRNP H3 (also termed hnRNP 2H9), which represent a group of nuclear RNA binding proteins that are involved in pre-mRNA processing. These proteins have similar RNA binding affinities and specifically recognize the sequence GGGA. They can either stimulate or repress splicing upon binding to a GGG motif. hnRNP H binds to the RNA substrate in the presence or absence of these proteins, whereas hnRNP F binds to the nuclear mRNA only in the presence of cap-binding proteins. hnRNP H and hnRNP H2 are almost identical; both have been found to bind nuclear-matrix proteins. hnRNP H activates exon inclusion by binding G-rich intronic elements downstream of the 5' splice site in the transcripts of c-src, human immunodeficiency virus type 1 (HIV-1), Bcl-X, GRIN1, and myelin. It silences exons when bound to exonic elements in the transcripts of beta-tropomyosin, HIV-1, and alpha-tropomyosin. hnRNP H2 has been implicated in pre-mRNA 3' end formation. hnRNP H3 may be involved in splicing arrest induced by heat shock. Most family members contain three RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), except for hnRNP H3, in which the RRM1 is absent. RRM1 and RRM2 are responsible for the binding to the RNA at DGGGD motifs, and play an important role in efficiently silencing the exon. Members in this family can regulate the alternative splicing of fibroblast growth factor receptor 2 (FGFR2) transcripts, and function as silencers of FGFR2 exon IIIc through an interaction with the exonic GGG motifs. The lack of RRM1 could account for the reduced silencing activity within hnRNP H3. Members in this family have an extensive glycine-rich region near the C-terminus, which may allow them to homo- or heterodimerize. They also include a cytoplasmic poly(A)+ mRNA binding protein, GRSF-1, which interacts with RNA in a G-rich element-dependent manner. They may function in RNA packaging, stabilization of RNA secondary structure, or other macromolecular interactions. GRSF-1 contains three potential RRMs responsible for the RNA binding, and two auxiliary domains (an acidic alpha-helical domain and an N-terminal alanine-rich region) that may play a role in protein-protein interactions and provide binding specificity. . Length = 77

>gnl|CDD|241173 cd12729, RRM1_hnRNPH_hnRNPH2_hnRNPF, RNA recognition motif 1 in heterogeneous nuclear ribonucleoprotein hnRNP H , hnRNP H2, hnRNP F and similar proteins

 Score = 58.4 bits (141), Expect = 1e-11
 Identities = 30/75 (40%), Positives = 41/75 (54%), Gaps = 7/75 (9%)

Query: 81  VHMRGLPFRANERDVADFFRP------VVPVHVDIHYENGRPSGEADVDFATHEDAMQAM 134
           V +RGLP+  +  +V  FF           +H  I+   GRPSGEA V+  + ED   A+
Sbjct: 4   VKVRGLPWSCSVDEVQRFFSDCKIANGASGIHF-IYTREGRPSGEAFVELESEEDVKLAL 62

Query: 135 SKDRTNMQHRYIELF 149
            KDR  M HRY+E+F
Sbjct: 63  KKDRETMGHRYVEVF 77

This subgroup corresponds to the RRM1 of hnRNP H (also termed mcs94-1), hnRNP H2 (also termed FTP-3 or hnRNP H') and hnRNP F. These represent a group of nuclear RNA binding proteins that play important roles in the regulation of alternative splicing decisions. hnRNP H and hnRNP F are two closely related proteins, both of which bind to the RNA sequence DGGGD. They are present in a complex with the tissue-specific splicing factor Fox2, and regulate the alternative splicing of the fibroblast growth factor receptor 2 (FGFR2) transcripts. The presence of Fox 2 can allows hnRNP H and hnRNP F to better compete with the SR protein ASF/SF2 for binding to FGFR2 exon IIIc. Thus, hnRNP H and hnRNP F can function as potent silencers of FGFR2 exon IIIc inclusion through an interaction with the exonic GGG motifs. Furthermore, hnRNP H and hnRNP H2 are almost identical. Both of them have been found to bind nuclear-matrix proteins. hnRNP H activates exon inclusion by binding G-rich intronic elements downstream of the 5' splice site in the transcripts of c-src, human immunodeficiency virus type 1 (HIV-1), Bcl-X, GRIN1, and myelin. It silences exons when bound to exonic elements in the transcripts of beta-tropomyosin, HIV-1, and alpha-tropomyosin. hnRNP H2 has been implicated in pre-mRNA 3' end formation. Members in this family contain three RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains). RRM1 and RRM2 are responsible for the binding to the RNA at DGGGD motifs, and they play an important role in efficiently silencing the exon. In addition, the family members have an extensive glycine-rich region near the C-terminus, which may allow them to homo- or heterodimerize. . Length = 79

>gnl|CDD|241190 cd12746, RRM2_RBM12B, RNA recognition motif 2 in RNA-binding protein 12B (RBM12B) and similar proteins

 Score = 57.1 bits (138), Expect = 3e-11
 Identities = 28/70 (40%), Positives = 39/70 (55%), Gaps = 7/70 (10%)

Query: 83  MRGLPFRANERDVADFFRPVVPVHVD----IHYENGRPSGEADVDFATHEDAMQAMSKDR 138
           +RGLPF   E +V DFF  +    VD    +    G  +G + V FAT EDA++ + +DR
Sbjct: 4   LRGLPFSVTEDNVRDFFSGLK---VDGVIFLKNRRGLNNGNSMVKFATKEDAIEGLKRDR 60

Query: 139 TNMQHRYIEL 148
             M  RYIE+
Sbjct: 61  QYMGSRYIEI 70

This subgroup corresponds to the RRM2 of RBM12B which contains five distinct RNA binding motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains). Its biological role remains unclear. . Length = 78

>gnl|CDD|241176 cd12732, RRM2_hnRNPH3, RNA recognition motif 2 in heterogeneous nuclear ribonucleoprotein H3 (hnRNP H3) and similar proteins

 Score = 56.5 bits (136), Expect = 9e-11
 Identities = 36/94 (38%), Positives = 55/94 (58%), Gaps = 11/94 (11%)

Query: 69  WVNESSGP------SRHTVHMRGLPFRANERDVADFFR--PVVP--VHVDIHYENGRPSG 118
           WV + +GP      S  TV +RGLPF  ++ ++  FF    +VP  + + + Y+ GR +G
Sbjct: 3   WVLKHNGPTDYDGSSGGTVRLRGLPFGCSKEEIVQFFSGLEIVPNGITLTMDYQ-GRSTG 61

Query: 119 EADVDFATHEDAMQAMSKDRTNMQHRYIELFLNS 152
           EA V FA+ E A  A+ K +  + HRYIE+F +S
Sbjct: 62  EAFVQFASKEIAENALGKHKERIGHRYIEIFKSS 95

This subgroup corresponds to the RRM2 of hnRNP H3 (also termed hnRNP 2H9), a nuclear RNA binding protein that belongs to the hnRNP H protein family that also includes hnRNP H (also termed mcs94-1), hnRNP H2 (also termed FTP-3 or hnRNP H') and hnRNP F. This family is involved in mRNA processing and exhibit extensive sequence homology. Currently, little is known about the functions of hnRNP H3 except for its role in the splicing arrest induced by heat shock. In addition, the typical hnRNP H proteins contain contain three RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), except for hnRNP H3, in which the RRM1 is absent. RRM1 and RRM2 are responsible for the binding to the RNA at DGGGD motifs, and play an important role in efficiently silencing the exon. Members in this family can regulate the alternative splicing of the fibroblast growth factor receptor 2 (FGFR2) transcripts, and function as silencers of FGFR2 exon IIIc through an interaction with the exonic GGG motifs. The lack of RRM1 could account for the reduced silencing activity within hnRNP H3. In addition, like other hnRNP H protein family members, hnRNP H3 has an extensive glycine-rich region near the C-terminus, which may allow it to homo- or heterodimerize. . Length = 96

>gnl|CDD|240955 cd12511, RRM2_RBM12_like, RNA recognition motif 2 in RNA-binding protein RBM12, RBM12B and similar proteins

 Score = 54.8 bits (132), Expect = 2e-10
 Identities = 32/72 (44%), Positives = 42/72 (58%), Gaps = 3/72 (4%)

Query: 81  VHMRGLPFRANERDVADFFR--PVVPVHVDIHYENGRPSGEADVDFATHEDAMQAMSKDR 138
           V + GLP+ A+E DV +FF    V  V   +   NGR +G A V FAT +DA +A+ + R
Sbjct: 2   VFLHGLPYTADEHDVKEFFHGLDVEDVIF-LKRHNGRNNGNAIVKFATFQDAKEALKRHR 60

Query: 139 TNMQHRYIELFL 150
             M  RYIEL L
Sbjct: 61  ELMGSRYIELML 72

This subfamily corresponds to the RRM2 of RBM12 and RBM12B. RBM12, also termed SH3/WW domain anchor protein in the nucleus (SWAN), is ubiquitously expressed. It contains five distinct RNA binding motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), two proline-rich regions, and several putative transmembrane domains. RBM12B shows high sequence semilarity with RBM12. It contains five distinct RRMs as well. The biological roles of both RBM12 and RBM12B remain unclear. . Length = 73

>gnl|CDD|240953 cd12509, RRM3_ESRPs_Fusilli, RNA recognition motif 3 in epithelial splicing regulatory protein ESRP1, ESRP2, Drosophila RNA-binding protein Fusilli and similar proteins

 Score = 54.8 bits (132), Expect = 3e-10
 Identities = 26/79 (32%), Positives = 44/79 (55%), Gaps = 8/79 (10%)

Query: 78  RHTVHMRGLPFRANERDVADFF----RPVVP--VHVDIHYENGRPSGEADVDFATHEDA- 130
           ++ + +RGLP+ A   D+ +F     R + P  VH+ ++ + GRPSG+A +   + E A 
Sbjct: 1   KNCIRLRGLPYEATVEDILNFLGELARSIAPQGVHMVLNAQ-GRPSGDAFIQMLSAEFAT 59

Query: 131 MQAMSKDRTNMQHRYIELF 149
             A    + +M  RYIE+F
Sbjct: 60  RAANELHKHHMGERYIEVF 78

This subfamily corresponds to the RRM3 of ESRPs and Fusilli. ESRP1 (also termed RBM35A) and ESRP2 (also termed RBM35B) are epithelial-specific RNA binding proteins that promote splicing of the epithelial variant of the fibroblast growth factor receptor 2 (FGFR2), ENAH (also termed hMena), CD44 and CTNND1 (also termed p120-Catenin) transcripts. They are highly conserved paralogs and specifically bind to GU-rich binding site. ESRP1 and ESRP2 contain three RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains). The family also includes Drosophila fusilli (fus) gene encoding RNA-binding protein Fusilli. Loss of fusilli activity causes lethality during embryogenesis in flies. Drosophila Fusilli can regulate endogenous FGFR2 splicing and functions as a splicing factor. Fusilli shows high sequence homology to ESRPs and contains three RRMs as well. It also has an N-terminal domain with unknown function and a C-terminal domain particularly rich in alanine, glutamine, and serine. . Length = 81

>gnl|CDD|241184 cd12740, RRM2_ESRP2, RNA recognition motif 2 in epithelial splicing regulatory protein 2 (ESRP2) and similar proteins

 Score = 55.8 bits (134), Expect = 3e-10
 Identities = 32/80 (40%), Positives = 45/80 (56%), Gaps = 6/80 (7%)

Query: 81  VHMRGLPFRANERDVADFFRPVVPVH------VDIHYENGRPSGEADVDFATHEDAMQAM 134
           + MRGLPF A   DV  F  P  PV       + + Y +GRP+G+A V FA  E A  A+
Sbjct: 19  IRMRGLPFTATPTDVLGFLGPECPVTGGTEGLLFVKYPDGRPTGDAFVLFACEEYAQNAL 78

Query: 135 SKDRTNMQHRYIELFLNSSS 154
            K +  +  RYIELF ++++
Sbjct: 79  KKHKGILGKRYIELFRSTAA 98

This subgroup corresponds to the RRM2 of ESRP2, also termed RNA-binding motif protein 35B (RBM35B), which has been identified as an epithelial cell type-specific regulator of fibroblast growth factor receptor 2 (FGFR2) splicing. It is required for expression of epithelial FGFR2-IIIb and the regulation of CD44, CTNND1 (also termed p120-Catenin) and ENAH (also termed hMena) splicing. It enhances epithelial-specific exons of CD44 and ENAH, silences mesenchymal exons of CTNND1, or both within FGFR2. ESRP2 contains three RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains). . Length = 107

>gnl|CDD|214636 smart00360, RRM, RNA recognition motif

 Score = 54.5 bits (132), Expect = 3e-10
 Identities = 18/73 (24%), Positives = 34/73 (46%), Gaps = 4/73 (5%)

Query: 80  TVHMRGLPFRANERDVADFFR---PVVPVHVDIHYENGRPSGEADVDFATHEDAMQAMSK 136
           T+ +  LP    E ++ + F     V  V +    E G+  G A V+F + EDA +A+  
Sbjct: 1   TLFVGNLPPDTTEEELRELFSKFGKVESVRLVRDKETGKSKGFAFVEFESEEDAEKALEA 60

Query: 137 -DRTNMQHRYIEL 148
            +   +  R +++
Sbjct: 61  LNGKELDGRPLKV 73

Length = 73

>gnl|CDD|241183 cd12739, RRM2_ESRP1, RNA recognition motif 2 in epithelial splicing regulatory protein 1 (ESRP1) and similar proteins

 Score = 54.3 bits (130), Expect = 7e-10
 Identities = 31/80 (38%), Positives = 44/80 (55%), Gaps = 6/80 (7%)

Query: 81  VHMRGLPFRANERDVADFFRPVVPVH------VDIHYENGRPSGEADVDFATHEDAMQAM 134
           V MRGLPF A   +V  FF    PV       + + Y + RP+G+A V FA  E A  A+
Sbjct: 19  VRMRGLPFTATAEEVLAFFGQHCPVTGGKEGILFVTYPDSRPTGDAFVLFACEEYAQNAL 78

Query: 135 SKDRTNMQHRYIELFLNSSS 154
            K +  +  RYIELF ++++
Sbjct: 79  KKHKDLLGKRYIELFRSTAA 98

This subgroup corresponds to the RRM2 of ESRP1, also termed RNA-binding motif protein 35A (RBM35A), which has been identified as an epithelial cell type-specific regulator of fibroblast growth factor receptor 2 (FGFR2) splicing. It is required for expression of epithelial FGFR2-IIIb and the regulation of CD44, CTNND1 (also termed p120-Catenin) and ENAH (also termed hMena) splicing. It enhances epithelial-specific exons of CD44 and ENAH, silences mesenchymal exons of CTNND1, or both within FGFR2. Additional research indicated that ESRP1 functions as a tumor suppressor in colon cancer cells. It may be involved in posttranscriptional regulation of various genes by exerting a differential effect on protein translation via 5' untranslated regions (UTRs) of mRNAs. ESRP1 contains three RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains). . Length = 109

>gnl|CDD|241175 cd12731, RRM2_hnRNPH_hnRNPH2_hnRNPF, RNA recognition motif 2 in heterogeneous nuclear ribonucleoprotein hnRNP H, hnRNP H2, hnRNP F and similar proteins

 Score = 50.8 bits (121), Expect = 8e-09
 Identities = 29/75 (38%), Positives = 46/75 (61%), Gaps = 3/75 (4%)

Query: 81  VHMRGLPFRANERDVADFFR--PVVPVHVDIHYE-NGRPSGEADVDFATHEDAMQAMSKD 137
           V +RGLPF  ++ ++  FF    +VP  + +  +  GR +GEA V FA+ E A +A+ K 
Sbjct: 4   VRLRGLPFGCSKEEIVQFFSGLEIVPNGITLPVDFQGRSTGEAFVQFASQEIAEKALKKH 63

Query: 138 RTNMQHRYIELFLNS 152
           +  + HRYIE+F +S
Sbjct: 64  KERIGHRYIEIFKSS 78

This subgroup corresponds to the RRM2 of hnRNP H (also termed mcs94-1), hnRNP H2 (also termed FTP-3 or hnRNP H') and hnRNP F. These represent a group of nuclear RNA binding proteins that play important roles in the regulation of alternative splicing decisions. hnRNP H and hnRNP F are two closely related proteins, both of which bind to the RNA sequence DGGGD. They are present in a complex with the tissue-specific splicing factor Fox2, and regulate the alternative splicing of the fibroblast growth factor receptor 2 (FGFR2) transcripts. The presence of Fox 2 can allows hnRNP H and hnRNP F to better compete with the SR protein ASF/SF2 for binding to FGFR2 exon IIIc. Thus, hnRNP H and hnRNP F can function as potent silencers of FGFR2 exon IIIc inclusion through an interaction with the exonic GGG motifs. Furthermore, hnRNP H and hnRNP H2 are almost identical; both have been found to bind nuclear-matrix proteins. hnRNP H activates exon inclusion by binding G-rich intronic elements downstream of the 5' splice site in the transcripts of c-src, human immunodeficiency virus type 1 (HIV-1), Bcl-X, GRIN1, and myelin. It silences exons when bound to exonic elements in the transcripts of beta-tropomyosin, HIV-1, and alpha-tropomyosin. hnRNP H2 has been implicated in pre-mRNA 3' end formation. Members in this family contain three RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains). RRM1 and RRM2 are responsible for the binding to the RNA at DGGGD motifs, and they play an important role in efficiently silencing the exon. In addition, the family members have an extensive glycine-rich region near the C-terminus, which may allow them to homo- or heterodimerize. . Length = 83

>gnl|CDD|241185 cd12741, RRM2_Fusilli, RNA recognition motif 2 in Drosophila RNA-binding protein Fusilli and similar proteins

 Score = 50.7 bits (121), Expect = 1e-08
 Identities = 32/79 (40%), Positives = 43/79 (54%), Gaps = 10/79 (12%)

Query: 81  VHMRGLPFRANERDVADFFRP--VVPVHVD--------IHYENGRPSGEADVDFATHEDA 130
           V MRGLP+    + V +FF      P HV         +   +GR +G+A V FAT EDA
Sbjct: 20  VRMRGLPYDCTAKQVLEFFTTGDTPPCHVLDGNEGVLFVKKPDGRATGDAFVLFATEEDA 79

Query: 131 MQAMSKDRTNMQHRYIELF 149
            +A+ K R ++  RYIELF
Sbjct: 80  PKALGKHRESIGSRYIELF 98

This subgroup corresponds to the RRM2 of RNA-binding protein Fusilli which is encoded by Drosophila fusilli (fus) gene. Loss of Fusilli activity causes lethality during embryogenesis in flies. Drosophila Fusilli can regulate endogenous fibroblast growth factor receptor 2 (FGFR2) splicing and functions as a splicing factor. Fusilli contains three RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), an N-terminal domain with unknown function and a C-terminal domain particularly rich in alanine, glutamine, and serine. . Length = 100

>gnl|CDD|240958 cd12514, RRM4_RBM12_like, RNA recognition motif 4 in RNA-binding protein RBM12, RBM12B and similar proteins

 Score = 48.5 bits (116), Expect = 5e-08
 Identities = 22/71 (30%), Positives = 36/71 (50%), Gaps = 3/71 (4%)

Query: 81  VHMRGLPFRANERDVADFFRPVVPVHVDIHY---ENGRPSGEADVDFATHEDAMQAMSKD 137
           + ++ +PF   + +V  FF  +      IH    + G+  GEA V+F + EDAM+A    
Sbjct: 2   IKIKNIPFDVTKGEVLAFFAGIAIAEQGIHILYDKTGKTLGEAYVEFVSEEDAMRAERLH 61

Query: 138 RTNMQHRYIEL 148
           R  ++ R I L
Sbjct: 62  RKKLKGREILL 72

This subfamily corresponds to the RRM4 of RBM12 and RBM12B. RBM12, also termed SH3/WW domain anchor protein in the nucleus (SWAN), is ubiquitously expressed. It contains five distinct RNA binding motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), two proline-rich regions, and several putative transmembrane domains. RBM12B show high sequence semilarity with RBM12. It contains five distinct RRMs as well. The biological roles of both RBM12 and RBM12B remain unclear. . Length = 73

>gnl|CDD|240954 cd12510, RRM1_RBM12_like, RNA recognition motif 1 in RNA-binding protein RBM12, RBM12B and similar proteins

 Score = 48.4 bits (116), Expect = 5e-08
 Identities = 27/76 (35%), Positives = 42/76 (55%), Gaps = 9/76 (11%)

Query: 81  VHMRGLPFRANERDVADFFRPV-VP---VHVDIHYENGRPSGEADVDFATHEDAMQAMSK 136
           + ++ LP+ A   D+  FF  + +P   VH+      G   GEA + FAT EDA  AMS+
Sbjct: 4   IRLQNLPWEAGSLDIRRFFSGLTIPDGGVHI-----IGGEMGEAFIAFATDEDARLAMSR 58

Query: 137 DRTNMQHRYIELFLNS 152
           D   ++   ++LFL+S
Sbjct: 59  DGQTIKGSKVKLFLSS 74

This subfamily corresponds to the RRM1 of RBM12 and RBM12B. RBM12, also termed SH3/WW domain anchor protein in the nucleus (SWAN), is ubiquitously expressed. It contains five distinct RNA binding motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), two proline-rich regions, and several putative transmembrane domains. RBM12B show high sequence semilarity with RBM12. It contains five distinct RRMs as well. The biological roles of both RBM12 and RBM12B remain unclear. . Length = 74

>gnl|CDD|240959 cd12515, RRM5_RBM12_like, RNA recognition motif 5 in RNA-binding protein RBM12, RBM12B and similar proteins

 Score = 47.8 bits (114), Expect = 9e-08
 Identities = 27/74 (36%), Positives = 42/74 (56%), Gaps = 6/74 (8%)

Query: 81  VHMRGLPFRANERDVADFFR--PVVPVHVDIHY-ENGRPSGEADVDFATHEDAMQAMSKD 137
           V ++ LPF A   ++ DFF    V+P  V + Y +NG P+GEA V F TH +AM A+ ++
Sbjct: 3   VKVQNLPFTATIEEILDFFYGYRVIPGSVSLLYNDNGAPTGEATVAFDTHREAMAAV-RE 61

Query: 138 RTN--MQHRYIELF 149
                +  R ++L 
Sbjct: 62  LNGRPIGTRKVKLT 75

This subfamily corresponds to the RRM5 of RBM12 and RBM12B. RBM12, also termed SH3/WW domain anchor protein in the nucleus (SWAN), is ubiquitously expressed. It contains five distinct RNA binding motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), two proline-rich regions, and several putative transmembrane domains. RBM12B show high sequence semilarity with RBM12. It contains five distinct RRMs as well. The biological roles of both RBM12 and RBM12B remain unclear. . Length = 75

>gnl|CDD|240668 cd00590, RRM_SF, RNA recognition motif (RRM) superfamily

 Score = 47.3 bits (113), Expect = 1e-07
 Identities = 17/71 (23%), Positives = 34/71 (47%), Gaps = 3/71 (4%)

Query: 81  VHMRGLPFRANERDVADFFRPVVPV-HVDIHYE-NGRPSGEADVDFATHEDAMQAMSK-D 137
           + +  LP    E D+ + F     +  V I  + +G+  G A V+F + EDA +A+   +
Sbjct: 1   LFVGNLPPDTTEEDLRELFSKFGEIESVRIVRDKDGKSKGFAFVEFESPEDAEKALEALN 60

Query: 138 RTNMQHRYIEL 148
              +  R +++
Sbjct: 61  GKELDGRKLKV 71

RRM, also known as RBD (RNA binding domain) or RNP (ribonucleoprotein domain), is a highly abundant domain in eukaryotes found in proteins involved in post-transcriptional gene expression processes including mRNA and rRNA processing, RNA export, and RNA stability. This domain is 90 amino acids in length and consists of a four-stranded beta-sheet packed against two alpha-helices. RRM usually interacts with ssRNA, but is also known to interact with ssDNA as well as proteins. RRM binds a variable number of nucleotides, ranging from two to eight. The active site includes three aromatic side-chains located within the conserved RNP1 and RNP2 motifs of the domain. The RRM domain is found in a variety heterogeneous nuclear ribonucleoproteins (hnRNPs), proteins implicated in regulation of alternative splicing, and protein components of small nuclear ribonucleoproteins (snRNPs). Length = 72

>gnl|CDD|241186 cd12742, RRM3_ESRP1_ESRP2, RNA recognition motif in epithelial splicing regulatory protein ESRP1, ESRP2 and similar proteins

 Score = 46.7 bits (111), Expect = 2e-07
 Identities = 27/80 (33%), Positives = 43/80 (53%), Gaps = 10/80 (12%)

Query: 78  RHTVHMRGLPFRANERDVADFF-------RPVVPVHVDIHYENGRPSGEADVDFATHEDA 130
           R  + +RGLP+ A   D+ +F        RP   VH+ ++ + GRPSG+A +   + E A
Sbjct: 1   RDCIRLRGLPYTATIEDILEFLGEFAADIRP-HGVHMVLNQQ-GRPSGDAFIQMKSAERA 58

Query: 131 MQAMSK-DRTNMQHRYIELF 149
             A  K  +  M+ RY+E+F
Sbjct: 59  FLAAQKCHKKMMKDRYVEVF 78

This subgroup corresponds to the RRM3 of ESRP1 (also termed RBM35A) and ESRP2 (also termed RBM35B). These are epithelial-specific RNA binding proteins that promote splicing of the epithelial variant of the fibroblast growth factor receptor 2 (FGFR2), ENAH (also termed hMena), CD44 and CTNND1 (also termed p120-Catenin) transcripts. They are highly conserved paralogs and specifically bind to GU-rich binding site. ESRP1 and ESRP2 contain three RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains). . Length = 81

>gnl|CDD|240896 cd12450, RRM1_NUCLs, RNA recognition motif 1 found in nucleolin-like proteins mainly from plants

 Score = 46.2 bits (110), Expect = 3e-07
 Identities = 23/80 (28%), Positives = 41/80 (51%), Gaps = 6/80 (7%)

Query: 80  TVHMRGLPFRANERDVADFFR---PVVPVHVDIHYENGRPSGEADVDFATHEDAMQAMSK 136
           T+ +  L + A + D+ +FF+    VV V +     +GR  G   V+FAT E A +A+ K
Sbjct: 1   TLFVGNLSWSAEQDDLEEFFKECGEVVDVRIAQDD-DGRSKGFGHVEFATEEGAQKALEK 59

Query: 137 DRTNMQHRYIELFLNSSSPR 156
               +  R  E+ ++ ++ R
Sbjct: 60  SGEELLGR--EIRVDLATER 77

This subfamily corresponds to the RRM1 of a group of plant nucleolin-like proteins, including nucleolin 1 (also termed protein nucleolin like 1) and nucleolin 2 (also termed protein nucleolin like 2, or protein parallel like 1). They play roles in the regulation of ribosome synthesis and in the growth and development of plants. Like yeast nucleolin, nucleolin-like proteins possess two RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains). . Length = 77

>gnl|CDD|241191 cd12747, RRM2_RBM12, RNA recognition motif 2 in RNA-binding protein 12 (RBM12) and similar proteins

 Score = 45.6 bits (108), Expect = 6e-07
 Identities = 24/69 (34%), Positives = 38/69 (55%), Gaps = 1/69 (1%)

Query: 81  VHMRGLPFRANERDVADFFRPVVPVHVDIHYEN-GRPSGEADVDFATHEDAMQAMSKDRT 139
           V + GLPF   E D+ DFF  +    + +  ++ GR +G A V F +  D  +A+ ++R 
Sbjct: 4   VSLHGLPFSVLEHDIRDFFHGLRIDAIHLLKDHVGRNNGNALVKFYSPHDTFEALKRNRM 63

Query: 140 NMQHRYIEL 148
            M  RYIE+
Sbjct: 64  LMGQRYIEV 72

This subgroup corresponds to the RRM2 of RBM12, also termed SH3/WW domain anchor protein in the nucleus (SWAN), which is ubiquitously expressed. It contains five distinct RNA binding motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), two proline-rich regions, and several putative transmembrane domains. The biological role of RBM12 remains unclear. . Length = 75

>gnl|CDD|240951 cd12507, RRM1_ESRPs_Fusilli, RNA recognition motif 1 in epithelial splicing regulatory protein ESRP1, ESRP2, Drosophila RNA-binding protein Fusilli and similar proteins

 Score = 44.4 bits (105), Expect = 1e-06
 Identities = 24/72 (33%), Positives = 41/72 (56%), Gaps = 3/72 (4%)

Query: 81  VHMRGLPFRANERDVADFFR--PVVPVHVDIHY-ENGRPSGEADVDFATHEDAMQAMSKD 137
           V  RGLP++++++D+A FFR   +    V +     GR +GEA + F   E    A+ + 
Sbjct: 2   VRARGLPWQSSDQDIAQFFRGLNIAKGGVALCLSAQGRRNGEALIRFVDQEHRDLALQRH 61

Query: 138 RTNMQHRYIELF 149
           + +M  RYIE++
Sbjct: 62  KHHMGTRYIEVY 73

This subfamily corresponds to the RRM1 of ESRPs and Fusilli. ESRP1 (also termed RBM35A) and ESRP2 (also termed RBM35B). These are epithelial-specific RNA binding proteins that promote splicing of the epithelial variant of the fibroblast growth factor receptor 2 (FGFR2), ENAH (also termed hMena), CD44 and CTNND1 (also termed p120-Catenin) transcripts. They are highly conserved paralogs and specifically bind to GU-rich binding site. ESRP1 and ESRP2 contain three RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains). The family also includes Drosophila fusilli (fus) gene encoding RNA-binding protein Fusilli. Loss of fusilli activity causes lethality during embryogenesis in flies. Drosophila Fusilli can regulate endogenous fibroblast growth factor receptor 2 (FGFR2) splicing and functions as a splicing factor. It shows high sequence homology to ESRPs and contains three RRMs as well. It also has an N-terminal domain with unknown function and a C-terminal domain particularly rich in alanine, glutamine, and serine. . Length = 75

>gnl|CDD|240956 cd12512, RRM3_RBM12, RNA recognition motif 3 in RNA-binding protein 12 (RBM12) and similar proteins

 Score = 44.5 bits (105), Expect = 2e-06
 Identities = 25/81 (30%), Positives = 43/81 (53%), Gaps = 5/81 (6%)

Query: 73  SSGPSRH--TVHMRGLPFRANERDVADFFRP--VVPVHVDIHY-ENGRPSGEADVDFATH 127
           S  P      V+++GLP+ A  + V DFF+   +V   + I Y  NG+ +GE  V+F   
Sbjct: 2   SRSPHELGFCVYLKGLPYEAENKHVIDFFKKLDIVEDSIYIAYGPNGKATGEGFVEFRNE 61

Query: 128 EDAMQAMSKDRTNMQHRYIEL 148
            D   A+ + +  M +R+I++
Sbjct: 62  ADYKAALCRHKQYMGNRFIQV 82

This subfamily corresponds to the RRM3 of RBM12. RBM12, also termed SH3/WW domain anchor protein in the nucleus (SWAN), is ubiquitously expressed. It contains five distinct RNA binding motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), two proline-rich regions, and several putative transmembrane domains. The biological role of RBM12 remains unclear. . Length = 101

>gnl|CDD|241174 cd12730, RRM1_GRSF1, RNA recognition motif 1 in G-rich sequence factor 1 (GRSF-1) and similar proteins

 Score = 43.6 bits (103), Expect = 3e-06
 Identities = 22/75 (29%), Positives = 37/75 (49%), Gaps = 7/75 (9%)

Query: 81  VHMRGLPFRANERDVADFFRP------VVPVHVDIHYENGRPSGEADVDFATHEDAMQAM 134
           V  +GLP+     DV +FF           VH  +   +G+P G+A ++  + ED  +A+
Sbjct: 4   VRAKGLPWSCTAEDVMNFFDDCRIRNGENGVHF-LLNRDGKPRGDALIELESEEDVQKAL 62

Query: 135 SKDRTNMQHRYIELF 149
            + R  M  RY+E+ 
Sbjct: 63  EQHRHYMGQRYVEVR 77

This subgroup corresponds to the RRM1 of GRSF-1, a cytoplasmic poly(A)+ mRNA binding protein which interacts with RNA in a G-rich element-dependent manner. It may function in RNA packaging, stabilization of RNA secondary structure, or other macromolecular interactions. GRSF-1 contains three potential RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), which are responsible for the RNA binding. In addition, GRSF-1 has two auxiliary domains, an acidic alpha-helical domain and an N-terminal alanine-rich region, that may play a role in protein-protein interactions and provide binding specificity. . Length = 79

>gnl|CDD|240762 cd12316, RRM3_RBM19_RRM2_MRD1, RNA recognition motif 3 in RNA-binding protein 19 (RBM19) and RNA recognition motif 2 found in multiple RNA-binding domain-containing protein 1 (MRD1)

 Score = 42.7 bits (101), Expect = 5e-06
 Identities = 21/70 (30%), Positives = 32/70 (45%), Gaps = 4/70 (5%)

Query: 84  RGLPFRANERDVADFFR---PVVPVHVDIHYENGRPSGEADVDFATHEDAMQAMS-KDRT 139
           R LPF   E ++ + F     +  VH+ +  E  R  G A V F   E A++A S  D +
Sbjct: 5   RNLPFTTTEEELRELFEAFGEISEVHLPLDKETKRSKGFAFVSFMFPEHAVKAYSELDGS 64

Query: 140 NMQHRYIELF 149
             Q R + + 
Sbjct: 65  IFQGRLLHVL 74

This subfamily corresponds to the RRM3 of RBM19 and RRM2 of MRD1. RBM19, also termed RNA-binding domain-1 (RBD-1), is a nucleolar protein conserved in eukaryotes involved in ribosome biogenesis by processing rRNA and is essential for preimplantation development. It has a unique domain organization containing 6 conserved RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains). MRD1 is encoded by a novel yeast gene MRD1 (multiple RNA-binding domain). It is well conserved in yeast and its homologs exist in all eukaryotes. MRD1 is present in the nucleolus and the nucleoplasm. It interacts with the 35 S precursor rRNA (pre-rRNA) and U3 small nucleolar RNAs (snoRNAs). It is essential for the initial processing at the A0-A2 cleavage sites in the 35 S pre-rRNA. MRD1 contains 5 conserved RRMs, which may play an important structural role in organizing specific rRNA processing events. . Length = 74

>gnl|CDD|241118 cd12674, RRM1_Nop4p, RNA recognition motif 1 in yeast nucleolar protein 4 (Nop4p) and similar proteins

 Score = 42.1 bits (99), Expect = 1e-05
 Identities = 27/80 (33%), Positives = 38/80 (47%), Gaps = 4/80 (5%)

Query: 80  TVHMRGLPFRANERDVADFFRPVVPVH---VDIHYENGRPSGEADVDFATHEDAMQAMSK 136
           T+ +R L F   + D+ DFF  V P+    V    E G   G   V FA  EDA +A++K
Sbjct: 1   TLFVRNLAFSVTQEDLTDFFSDVAPIKHAVVVTDPETGESRGYGFVTFAMLEDAQEALAK 60

Query: 137 DRTNMQHRYIELFLNSSSPR 156
            +    H  I L L+ +  R
Sbjct: 61  LKNKKLHGRI-LRLDIAERR 79

This subgroup corresponds to the RRM1 of Nop4p (also known as Nop77p), encoded by YPL043W from Saccharomyces cerevisiae. It is an essential nucleolar protein involved in processing and maturation of 27S pre-rRNA and biogenesis of 60S ribosomal subunits. Nop4p has four RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains). . Length = 79

>gnl|CDD|241194 cd12750, RRM5_RBM12B, RNA recognition motif 5 in RNA-binding protein 12B (RBM12B) and similar proteins

 Score = 41.4 bits (97), Expect = 2e-05
 Identities = 20/59 (33%), Positives = 33/59 (55%), Gaps = 3/59 (5%)

Query: 81  VHMRGLPFRANERDVADFFR--PVVPVHVDIHY-ENGRPSGEADVDFATHEDAMQAMSK 136
           + +  LPF+A   ++ DFF    V+P  V + Y E G P+G A V    + +AM A+++
Sbjct: 3   IRLENLPFKATINEILDFFHGYRVIPDSVSMQYNEQGLPTGTAIVAMENYYEAMAAINE 61

This subgroup corresponds to the RRM5 of RBM12B which contains five distinct RNA binding motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains). Its biological role remains unclear. . Length = 77

>gnl|CDD|241188 cd12744, RRM1_RBM12B, RNA recognition motif 1 in RNA-binding protein 12B (RBM12B) and similar proteins

 Score = 40.6 bits (95), Expect = 4e-05
 Identities = 26/74 (35%), Positives = 40/74 (54%), Gaps = 1/74 (1%)

Query: 81  VHMRGLPFRANERDVADFFRPVVPVHVDIHYENGRPSGEADVDFATHEDAMQAMSKDRTN 140
           + ++GLP  A   D+  FF  +      +H   G   GEA + FAT EDA +AMS+    
Sbjct: 4   IRLQGLPVVAGSEDIRHFFTGLRIPDGGVHIIGGE-LGEAFIIFATDEDARRAMSRSGGF 62

Query: 141 MQHRYIELFLNSSS 154
           ++   +ELFL+S +
Sbjct: 63  IKDSTVELFLSSKA 76

This subgroup corresponds to the RRM1 of RBM12B which contains five distinct RNA binding motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains). Its biological role remains unclear. . Length = 79

>gnl|CDD|240742 cd12296, RRM1_Prp24, RNA recognition motif 1 in fungal pre-messenger RNA splicing protein 24 (Prp24) and similar proteins

 Score = 40.3 bits (95), Expect = 4e-05
 Identities = 17/59 (28%), Positives = 28/59 (47%), Gaps = 3/59 (5%)

Query: 80  TVHMRGLPFRANERDVADFFRPV-VPVHVDIHYENGRPSGEADVDFATHEDAMQAMSKD 137
           TV ++ LP    E  +  FF+       V I    G     A ++F T ++A+ A++KD
Sbjct: 2   TVKVKNLPKDTTENKIRQFFKDCGEIREVKIVESEGGLV--AVIEFETEDEALAALTKD 58

This subfamily corresponds to the RRM1 of Prp24, also termed U4/U6 snRNA-associated-splicing factor PRP24 (U4/U6 snRNP), an RNA-binding protein with four well conserved RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains). It facilitates U6 RNA base-pairing with U4 RNA during spliceosome assembly. Prp24 specifically binds free U6 RNA primarily with RRMs 1 and 2 and facilitates pairing of U6 RNA bases with U4 RNA bases. Additionally, it may also be involved in dissociation of the U4/U6 complex during spliceosome activation. . Length = 71

>gnl|CDD|215696 pfam00076, RRM_1, RNA recognition motif

 Score = 40.3 bits (95), Expect = 4e-05
 Identities = 19/56 (33%), Positives = 26/56 (46%), Gaps = 2/56 (3%)

Query: 83  MRGLPFRANERDVADFFRPVVPV-HVDIHY-ENGRPSGEADVDFATHEDAMQAMSK 136
           +  LP    E D+ D F    P+  + I   E GR  G A V+F   EDA +A+  
Sbjct: 3   VGNLPPDTTEEDLKDLFSKFGPIESIRIVRDETGRSKGFAFVEFEDEEDAEKALEA 58

(a.k.a. RRM, RBD, or RNP domain). The RRM motif is probably diagnostic of an RNA binding protein. RRMs are found in a variety of RNA binding proteins, including various hnRNP proteins, proteins implicated in regulation of alternative splicing, and protein components of snRNPs. The motif also appears in a few single stranded DNA binding proteins. The RRM structure consists of four strands and two helices arranged in an alpha/beta sandwich, with a third helix present during RNA binding in some cases The C-terminal beta strand (4th strand) and final helix are hard to align and have been omitted in the SEED alignment The LA proteins have an N terminal rrm which is included in the seed. There is a second region towards the C terminus that has some features characteristic of a rrm but does not appear to have the important structural core of a rrm. The LA proteins are one of the main autoantigens in Systemic lupus erythematosus (SLE), an autoimmune disease. Length = 70

>gnl|CDD|240838 cd12392, RRM2_SART3, RNA recognition motif 2 in squamous cell carcinoma antigen recognized by T-cells 3 (SART3) and similar proteins

 Score = 40.5 bits (95), Expect = 5e-05
 Identities = 21/82 (25%), Positives = 41/82 (50%), Gaps = 6/82 (7%)

Query: 78  RHTVHMRGLPFRANERDVADFFR---PVVPVHVDIHYENGRPSGEADVDFATHEDAMQA- 133
           +H + + GLPF   + ++   F+    V  V + +   +G+P G A V++     A QA 
Sbjct: 2   KHKLFVSGLPFSVTKEELEKLFKKHGVVKSVRL-VTNRSGKPKGLAYVEYENESSASQAV 60

Query: 134 MSKDRTNMQHRYIELFLNSSSP 155
           +  D T ++ + I + + S+ P
Sbjct: 61  LKMDGTEIKEKTISVAI-SNPP 81

This subfamily corresponds to the RRM2 of SART3, also termed Tat-interacting protein of 110 kDa (Tip110), is an RNA-binding protein expressed in the nucleus of the majority of proliferating cells, including normal cells and malignant cells, but not in normal tissues except for the testes and fetal liver. It is involved in the regulation of mRNA splicing probably via its complex formation with RNA-binding protein with a serine-rich domain (RNPS1), a pre-mRNA-splicing factor. SART3 has also been identified as a nuclear Tat-interacting protein that regulates Tat transactivation activity through direct interaction and functions as an important cellular factor for HIV-1 gene expression and viral replication. In addition, SART3 is required for U6 snRNP targeting to Cajal bodies. It binds specifically and directly to the U6 snRNA, interacts transiently with the U6 and U4/U6 snRNPs, and promotes the reassembly of U4/U6 snRNPs after splicing in vitro. SART3 contains an N-terminal half-a-tetratricopeptide repeat (HAT)-rich domain, a nuclearlocalization signal (NLS) domain, and two C-terminal RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains). . Length = 81

>gnl|CDD|241182 cd12738, RRM1_Fusilli, RNA recognition motif 1 in Drosophila RNA-binding protein Fusilli and similar proteins

 Score = 39.9 bits (93), Expect = 7e-05
 Identities = 23/72 (31%), Positives = 40/72 (55%), Gaps = 3/72 (4%)

Query: 81  VHMRGLPFRANERDVADFFRPVVPVHVDIHY---ENGRPSGEADVDFATHEDAMQAMSKD 137
           V  RGLP++++++D+A FFR +      +       GR +GEA V F   E    A+ + 
Sbjct: 2   VRARGLPWQSSDQDIAKFFRGLNIAKGGVALCLNPQGRRNGEALVRFTCTEHRDLALKRH 61

Query: 138 RTNMQHRYIELF 149
           + ++  RYIE++
Sbjct: 62  KHHIGQRYIEVY 73

This subgroup corresponds to the RRM1 of RNA-binding protein Fusilli which is encoded by Drosophila fusilli (fus) gene. Loss of Fusilli activity causes lethality during embryogenesis in flies. Drosophila Fusilli can regulate endogenous fibroblast growth factor receptor 2 (FGFR2) splicing and functions as a splicing factor. Fusilli contains three RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), an N-terminal domain with unknown function and a C-terminal domain particularly rich in alanine, glutamine, and serine. . Length = 80

>gnl|CDD|241124 cd12680, RRM_THOC4, RNA recognition motif in THO complex subunit 4 (THOC4) and similar proteins

 Score = 39.5 bits (93), Expect = 7e-05
 Identities = 17/59 (28%), Positives = 29/59 (49%), Gaps = 2/59 (3%)

Query: 80  TVHMRGLPFRANERDVADFFRPVVPV-HVDIHY-ENGRPSGEADVDFATHEDAMQAMSK 136
            + +  L F  ++ D+ + F     +    +HY  +GR  G ADV F    DA++AM +
Sbjct: 2   KLLVSNLDFGVSDDDIKELFAEFGALKKAAVHYDRSGRSLGTADVVFERRADALKAMKQ 60

This subgroup corresponds to the RRM of THOC4, also termed transcriptional coactivator Aly/REF, or ally of AML-1 and LEF-1, or bZIP-enhancing factor BEF, an mRNA transporter protein with a well conserved RNA recognition motif (RRM), also termed RBD (RNA binding domain) or RNP (ribonucleoprotein domain). It is involved in RNA transportation from the nucleus. THOC4 was initially identified as a transcription coactivator of LEF-1 and AML-1 for the TCRalpha enhancer function. In addition, THOC4 specifically binds to rhesus (RH) promoter in erythroid. It might be a novel transcription cofactor for erythroid-specific genes. . Length = 75

>gnl|CDD|240833 cd12387, RRM3_hnRNPM_like, RNA recognition motif 3 in heterogeneous nuclear ribonucleoprotein M (hnRNP M) and similar proteins

 Score = 39.6 bits (93), Expect = 8e-05
 Identities = 20/58 (34%), Positives = 29/58 (50%), Gaps = 2/58 (3%)

Query: 81  VHMRGLPFRANERDVADFFRPVVPV-HVDIHYEN-GRPSGEADVDFATHEDAMQAMSK 136
           + +R LPF    +D+ D FR    V   D+  +N GR  G   V F + EDA +A+  
Sbjct: 1   IFVRNLPFSVTWQDLKDLFRECGNVLRADVKTDNDGRSKGFGTVLFESPEDAQRAIEM 58

This subfamily corresponds to the RRM3 of heterogeneous nuclear ribonucleoprotein M (hnRNP M), myelin expression factor 2 (MEF-2 or MyEF-2 or MST156) and similar proteins. hnRNP M is pre-mRNA binding protein that may play an important role in the pre-mRNA processing. It also preferentially binds to poly(G) and poly(U) RNA homopolymers. hnRNP M is able to interact with early spliceosomes, further influencing splicing patterns of specific pre-mRNAs. hnRNP M functions as the receptor of carcinoembryonic antigen (CEA) that contains the penta-peptide sequence PELPK signaling motif. In addition, hnRNP M and another splicing factor Nova-1 work together as dopamine D2 receptor (D2R) pre-mRNA-binding proteins. They regulate alternative splicing of D2R pre-mRNA in an antagonistic manner. hnRNP M contains three RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), and an unusual hexapeptide-repeat region rich in methionine and arginine residues (MR repeat motif). MEF-2 is a sequence-specific single-stranded DNA (ssDNA) binding protein that binds specifically to ssDNA derived from the proximal (MB1) element of the myelin basic protein (MBP) promoter and represses transcription of the MBP gene. MEF-2 shows high sequence homology with hnRNP M. It also contains three RRMs, which may be responsible for its ssDNA binding activity. . Length = 72

>gnl|CDD|240861 cd12415, RRM3_RBM28_like, RNA recognition motif 3 in RNA-binding protein 28 (RBM28) and similar proteins

 Score = 39.1 bits (92), Expect = 2e-04
 Identities = 18/55 (32%), Positives = 23/55 (41%), Gaps = 3/55 (5%)

Query: 79  HTVHMRGLPFRANERDVADFFR---PVVPVHVDIHYENGRPSGEADVDFATHEDA 130
            TV +R LPF A E ++ + F     V    +      G   G A V F T E A
Sbjct: 1   RTVFIRNLPFDATEEELKELFSQFGEVKYARIVKDKLTGHSKGTAFVKFKTKESA 55

This subfamily corresponds to the RRM3 of RBM28 and Nop4p. RBM28 is a specific nucleolar component of the spliceosomal small nuclear ribonucleoproteins (snRNPs), possibly coordinating their transition through the nucleolus. It specifically associates with U1, U2, U4, U5, and U6 small nuclear RNAs (snRNAs), and may play a role in the maturation of both small nuclear and ribosomal RNAs. RBM28 has four RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), and an extremely acidic region between RRM2 and RRM3. The family also includes nucleolar protein 4 (Nop4p or Nop77p) encoded by YPL043W from Saccharomyces cerevisiae. It is an essential nucleolar protein involved in processing and maturation of 27S pre-rRNA and biogenesis of 60S ribosomal subunits. Nop4p also contains four RRMs. . Length = 82

>gnl|CDD|240864 cd12418, RRM_Aly_REF_like, RNA recognition motif in the Aly/REF family

 Score = 38.3 bits (90), Expect = 2e-04
 Identities = 20/60 (33%), Positives = 30/60 (50%), Gaps = 2/60 (3%)

Query: 79  HTVHMRGLPFRANERDVADFFRPVVPV-HVDIHY-ENGRPSGEADVDFATHEDAMQAMSK 136
             + +  L +   E D+ + F  V  V  V I+Y  +GR  G ADV F   EDA +A+ +
Sbjct: 1   TRLRVSNLHYDVTEEDLEELFGRVGEVKKVKINYDRSGRSEGTADVVFEKREDAERAIKQ 60

This subfamily corresponds to the RRM of Aly/REF family which includes THO complex subunit 4 (THOC4, also termed Aly/REF), S6K1 Aly/REF-like target (SKAR, also termed PDIP3 or PDIP46) and similar proteins. THOC4 is an mRNA transporter protein with a well conserved RNA recognition motif (RRM), also termed RBD (RNA binding domain) or RNP (ribonucleoprotein domain). It is involved in RNA transportation from the nucleus, and was initially identified as a transcription coactivator of LEF-1 and AML-1 for the TCRalpha enhancer function. In addition, THOC4 specifically binds to rhesus (RH) promoter in erythroid, and might be a novel transcription cofactor for erythroid-specific genes. SKAR shows high sequence homology with THOC4 and possesses one RRM as well. SKAR is widely expressed and localizes to the nucleus. It may be a critical player in the function of S6K1 in cell and organism growth control by binding the activated, hyperphosphorylated form of S6K1 but not S6K2. Furthermore, SKAR functions as a protein partner of the p50 subunit of DNA polymerase delta. In addition, SKAR may have particular importance in pancreatic beta cell size determination and insulin secretion. . Length = 75

>gnl|CDD|240845 cd12399, RRM_HP0827_like, RNA recognition motif in Helicobacter pylori HP0827 protein and similar proteins

 Score = 38.4 bits (90), Expect = 2e-04
 Identities = 20/71 (28%), Positives = 31/71 (43%), Gaps = 4/71 (5%)

Query: 80  TVHMRGLPFRANERDVADFFRP---VVPVHVDIHYENGRPSGEADVDFATHEDAMQAMSK 136
            +++  LP+   E D+ D F     V    V    E GR  G   V+  T E+A  A+ K
Sbjct: 1   NLYVGNLPYNVTEEDLKDLFGQFGEVTSARVITDRETGRSRGFGFVEMETAEEANAAIEK 60

Query: 137 -DRTNMQHRYI 146
            + T+   R +
Sbjct: 61  LNGTDFGGRTL 71

This subfamily corresponds to the RRM of H. pylori HP0827, a putative ssDNA-binding protein 12rnp2 precursor, containing one RNA recognition motif (RRM), also termed RBD (RNA binding domain) or RNP (ribonucleoprotein domain). The ssDNA binding may be important in activation of HP0827. . Length = 78

>gnl|CDD|241181 cd12737, RRM1_ESRP2, RNA recognition motif 1 in epithelial splicing regulatory protein 2 (ESRP2) and similar proteins

 Score = 38.1 bits (88), Expect = 3e-04
 Identities = 22/72 (30%), Positives = 40/72 (55%), Gaps = 3/72 (4%)

Query: 81  VHMRGLPFRANERDVADFFRPVVPVHVDIHY---ENGRPSGEADVDFATHEDAMQAMSKD 137
           +  RGLP++++++D+A FF+ +      +       GR +GEA V F   E    A+ + 
Sbjct: 2   IRARGLPWQSSDQDIARFFKGLNIAKGGVALCLNAQGRRNGEALVRFVNSEQRDLALQRH 61

Query: 138 RTNMQHRYIELF 149
           + +M  RYIE++
Sbjct: 62  KHHMGSRYIEVY 73

This subgroup corresponds to the RRM1 of ESRP2, also termed RNA-binding motif protein 35B (RBM35B), which has been identified as an epithelial cell type-specific regulator of fibroblast growth factor receptor 2 (FGFR2) splicing. It is required for expression of epithelial FGFR2-IIIb and the regulation of CD44, CTNND1 (also termed p120-Catenin) and ENAH (also termed hMena) splicing. It enhances epithelial-specific exons of CD44 and ENAH, silences mesenchymal exons of CTNND1, or both within FGFR2. ESRP2 contains three RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains). . Length = 80

>gnl|CDD|241195 cd12751, RRM5_RBM12, RNA recognition motif 5 in RNA-binding protein 12 (RBM12) and similar proteins

 Score = 37.6 bits (87), Expect = 4e-04
 Identities = 18/57 (31%), Positives = 33/57 (57%), Gaps = 3/57 (5%)

Query: 81  VHMRGLPFRANERDVADFFR--PVVPVHVDIHY-ENGRPSGEADVDFATHEDAMQAM 134
           + ++ +PF     ++ DFF    V+P  V + + + G P+GEA V F + ++AM A+
Sbjct: 4   IKVQNMPFTVTVDEILDFFYGYQVIPGSVCLKFSDKGMPTGEAMVAFESRDEAMAAV 60

This subgroup corresponds to the RRM5 of RBM12, also termed SH3/WW domain anchor protein in the nucleus (SWAN), which is ubiquitously expressed. It contains five distinct RNA binding motifs (RBMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), two proline-rich regions, and several putative transmembrane domains. The biological role of RBM12 remains unclear. . Length = 76

>gnl|CDD|240851 cd12405, RRM3_NCL, RNA recognition motif 3 in vertebrate nucleolin

 Score = 37.6 bits (87), Expect = 4e-04
 Identities = 22/64 (34%), Positives = 34/64 (53%), Gaps = 3/64 (4%)

Query: 86  LPFRANERDVADFFRPVVPVHVDIHYENGRPSGEADVDFATHEDAMQAM-SKDRTNMQHR 144
           L + A+E  + + F     +   I   NGRP G A V+F + EDA +A+ S + T ++ R
Sbjct: 9   LSYSASEDSLQEVFEKATSIR--IPQNNGRPKGYAFVEFESAEDAKEALNSCNNTEIEGR 66

Query: 145 YIEL 148
            I L
Sbjct: 67  SIRL 70

This subfamily corresponds to the RRM3 of ubiquitously expressed protein nucleolin, also termed protein C23, is a multifunctional major nucleolar phosphoprotein that has been implicated in various metabolic processes, such as ribosome biogenesis, cytokinesis, nucleogenesis, cell proliferation and growth, cytoplasmic-nucleolar transport of ribosomal components, transcriptional repression, replication, signal transduction, inducing chromatin decondensation, etc. Nucleolin exhibits intrinsic self-cleaving, DNA helicase, RNA helicase and DNA-dependent ATPase activities. It can be phosphorylated by many protein kinases, such as the major mitotic kinase Cdc2, casein kinase 2 (CK2), and protein kinase C-zeta. Nucleolin shares similar domain architecture with gar2 from Schizosaccharomyces pombe and NSR1 from Saccharomyces cerevisiae. The highly phosphorylated N-terminal domain of nucleolin is made up of highly acidic regions separated from each other by basic sequences, and contains multiple phosphorylation sites. The central domain of nucleolin contains four closely adjacent N-terminal RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), which suggests that nucleolin is potentially able to interact with multiple RNA targets. The C-terminal RGG (or GAR) domain of nucleolin is rich in glycine, arginine and phenylalanine residues, and contains high levels of NG,NG-dimethylarginines. . Length = 72

>gnl|CDD|241180 cd12736, RRM1_ESRP1, RNA recognition motif 1 in epithelial splicing regulatory protein 1 (ESRP1) and similar proteins

 Score = 37.7 bits (87), Expect = 5e-04
 Identities = 22/72 (30%), Positives = 41/72 (56%), Gaps = 3/72 (4%)

Query: 81  VHMRGLPFRANERDVADFFRPVVPVHVDIHY---ENGRPSGEADVDFATHEDAMQAMSKD 137
           +  RGLP++++++D+A FF+ +              GR +GEA V F + E    A+ + 
Sbjct: 7   IRARGLPWQSSDQDIARFFKGLNIAKGGAALCLNAQGRRNGEALVRFVSEEHRDLALQRH 66

Query: 138 RTNMQHRYIELF 149
           + +M +RYIE++
Sbjct: 67  KHHMGNRYIEVY 78

This subgroup corresponds to the RRM1 of ESRP1, also termed RNA-binding motif protein 35A (RBM35A), which has been identified as an epithelial cell type-specific regulator of fibroblast growth factor receptor 2 (FGFR2) splicing. It is required for expression of epithelial FGFR2-IIIb and the regulation of CD44, CTNND1 (p120-Catenin) and ENAH (hMena) splicing. It enhances epithelial-specific exons of CD44 and ENAH, silences mesenchymal exons of CTNND1, or both within FGFR2. Additional research indicated that ESRP1 functions as a tumor suppressor in colon cancer cells. It may be involved in posttranscriptional regulation of various genes by exerting a differential effect on protein translation via 5' untranslated regions (UTRs) of mRNAs. ESRP1 contains three RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains). . Length = 85

>gnl|CDD|241010 cd12566, RRM2_MRD1, RNA recognition motif 2 in yeast multiple RNA-binding domain-containing protein 1 (MRD1) and similar proteins

 Score = 37.0 bits (86), Expect = 7e-04
 Identities = 23/68 (33%), Positives = 33/68 (48%), Gaps = 4/68 (5%)

Query: 83  MRGLPFRANERDVADFFRP---VVPVHVDIHYENGRPSGEADVDFATHEDAMQAMSK-DR 138
           +R LP+   E D+   F     +  VHV I  ++G+  G A V F   EDA++A  + D 
Sbjct: 7   VRNLPYSCKEDDLEKLFSKFGELSEVHVAIDKKSGKSKGFAYVLFLDPEDAVKAYKELDG 66

Query: 139 TNMQHRYI 146
              Q R I
Sbjct: 67  KVFQGRLI 74

This subgroup corresponds to the RRM2 of MRD1 which is encoded by a novel yeast gene MRD1 (multiple RNA-binding domain). It is well-conserved in yeast and its homologs exist in all eukaryotes. MRD1 is present in the nucleolus and the nucleoplasm. It interacts with the 35 S precursor rRNA (pre-rRNA) and U3 small nucleolar RNAs (snoRNAs). It is essential for the initial processing at the A0-A2 cleavage sites in the 35 S pre-rRNA. MRD1 contains 5 conserved RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), which may play an important structural role in organizing specific rRNA processing events. . Length = 79

>gnl|CDD|223796 COG0724, COG0724, RNA-binding proteins (RRM domain) [General function prediction only]

 Score = 39.2 bits (90), Expect = 0.001
 Identities = 18/67 (26%), Positives = 33/67 (49%), Gaps = 3/67 (4%)

Query: 71  NESSGPSRHTVHMRGLPFRANERDVADFFRPVVPV-HVDIHYEN--GRPSGEADVDFATH 127
            + S    +T+ +  LP+   E D+ + F+   PV  V +  +   G+  G A V+F + 
Sbjct: 108 RQKSKEENNTLFVGNLPYDVTEEDLRELFKKFGPVKRVRLVRDRETGKSRGFAFVEFESE 167

Query: 128 EDAMQAM 134
           E A +A+
Sbjct: 168 ESAEKAI 174

Length = 306

>gnl|CDD|240957 cd12513, RRM3_RBM12B, RNA recognition motif 3 in RNA-binding protein 12B (RBM12B) and similar proteins

 Score = 35.8 bits (83), Expect = 0.002
 Identities = 17/74 (22%), Positives = 36/74 (48%), Gaps = 3/74 (4%)

Query: 79  HTVHMRGLPFRANERDVADFFRPV-VP-VHVDIHYE-NGRPSGEADVDFATHEDAMQAMS 135
           + +H+  LPF   +RD+  FF  + +P   +    +  G+ +  A V F +  D   A++
Sbjct: 1   YYIHLENLPFSVEKRDIRAFFGDLDLPDSQITFLSDKKGKRTRSAFVMFKSLRDYCAALA 60

Query: 136 KDRTNMQHRYIELF 149
             +  + +R + +F
Sbjct: 61  HHKRVLYNREVYVF 74

This subgroup corresponds to the RRM3 of RBM12B which contains five distinct RNA binding motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains). Its biological role remains unclear. . Length = 81

>gnl|CDD|240848 cd12402, RRM_eIF4B, RNA recognition motif in eukaryotic translation initiation factor 4B (eIF-4B) and similar proteins

 Score = 35.0 bits (81), Expect = 0.003
 Identities = 19/70 (27%), Positives = 35/70 (50%), Gaps = 3/70 (4%)

Query: 80  TVHMRGLPFRANERDVADFFRPVVPVHVDIHYENG---RPSGEADVDFATHEDAMQAMSK 136
           T ++  LP+   E D+ +FFR +    V +  E G   R  G    +F   +  +QA+S 
Sbjct: 3   TAYLGNLPYDVTEEDIKEFFRGLNVSSVRLPREPGDPGRLRGFGYAEFEDRDSLLQALSL 62

Query: 137 DRTNMQHRYI 146
           +  ++++R I
Sbjct: 63  NDESLKNRRI 72

This subfamily corresponds to the RRM of eIF-4B, a multi-domain RNA-binding protein that has been primarily implicated in promoting the binding of 40S ribosomal subunits to mRNA during translation initiation. It contains two RNA-binding domains; the N-terminal well-conserved RNA recognition motif (RRM), also termed RBD (RNA binding domain) or RNP (ribonucleoprotein domain), binds the 18S rRNA of the 40S ribosomal subunit and the C-terminal basic domain (BD), including two arginine-rich motifs (ARMs), binds mRNA during initiation, and is primarily responsible for the stimulation of the helicase activity of eIF-4A. eIF-4B also contains a DRYG domain (a region rich in Asp, Arg, Tyr, and Gly amino acids) in the middle, which is responsible for both, self-association of eIF-4B and binding to the p170 subunit of eIF3. Additional research indicates that eIF-4B can interact with the poly(A) binding protein (PABP) in mammalian cells, which can stimulate both, the eIF-4B-mediated activation of the helicase activity of eIF-4A and binding of poly(A) by PABP. eIF-4B has also been shown to interact specifically with the internal ribosome entry sites (IRES) of several picornaviruses which facilitate cap-independent translation initiation. . Length = 77

>gnl|CDD|241187 cd12743, RRM3_Fusilli, RNA recognition motif 3 in Drosophila RNA-binding protein Fusilli and similar proteins

 Score = 35.3 bits (81), Expect = 0.003
 Identities = 22/82 (26%), Positives = 37/82 (45%), Gaps = 10/82 (12%)

Query: 78  RHTVHMRGLPFRANERDV----ADFFRPVVPVHVDIHYEN-GRPSGEADVDFATHEDAMQ 132
           +  + +RGLP+ A    +     DF + +V   V + Y   G+PSGEA +   + + A  
Sbjct: 1   KDCIRLRGLPYEAQVEHILEFLGDFAKMIVFQGVHMVYNAQGQPSGEAFIQMDSEQSASA 60

Query: 133 AMSKDRTNM-----QHRYIELF 149
              +          + RYIE+F
Sbjct: 61  CAQQRHNRYMVFGKKQRYIEVF 82

This subgroup corresponds to the RRM3 of RNA-binding protein Fusilli which is encoded by Drosophila fusilli (fus) gene. Loss of Fusilli activity causes lethality during embryogenesis in flies. Drosophila Fusilli can regulate endogenous fibroblast growth factor receptor 2 (FGFR2) splicing and functions as a splicing factor. Fusilli contains three RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), an N-terminal domain with unknown function and a C-terminal domain particularly rich in alanine, glutamine, and serine. . Length = 85

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	232
KOG4211|consensus	510		99.88
TIGR01659	346	sex-lethal sex-lethal family splicing factor. This	99.87
PLN03134	144	glycine-rich RNA-binding protein 4; Provisional	99.82
TIGR01661	352	ELAV_HUD_SF ELAV/HuD family splicing factor. These	99.8
KOG0105|consensus	241		99.77
TIGR01622	457	SF-CC1 splicing factor, CC1-like family. A homolog	99.76
TIGR01645	612	half-pint poly-U binding splicing factor, half-pin	99.74
TIGR01628	562	PABP-1234 polyadenylate binding protein, human typ	99.72
TIGR01648	578	hnRNP-R-Q heterogeneous nuclear ribonucleoprotein	99.71
KOG4211|consensus	510		99.68
TIGR01659	346	sex-lethal sex-lethal family splicing factor. This	99.67
TIGR01661	352	ELAV_HUD_SF ELAV/HuD family splicing factor. These	99.65
TIGR01649	481	hnRNP-L_PTB hnRNP-L/PTB/hephaestus splicing factor	99.64
TIGR01628	562	PABP-1234 polyadenylate binding protein, human typ	99.63
TIGR01649	481	hnRNP-L_PTB hnRNP-L/PTB/hephaestus splicing factor	99.62
PF00076	70	RRM_1: RNA recognition motif. (a.k.a. RRM, RBD, or	99.62
PF14259	70	RRM_6: RNA recognition motif (a.k.a. RRM, RBD, or	99.62
KOG0148|consensus	321		99.58
TIGR01648	578	hnRNP-R-Q heterogeneous nuclear ribonucleoprotein	99.57
KOG0121|consensus	153		99.57
TIGR01642	509	U2AF_lg U2 snRNP auxilliary factor, large subunit,	99.57
KOG0127|consensus	678		99.56
KOG1365|consensus	508		99.56
PLN03120	260	nucleic acid binding protein; Provisional	99.56
KOG0125|consensus	376		99.55
KOG0149|consensus	247		99.55
KOG4212|consensus	608		99.54
KOG0113|consensus	335		99.53
KOG0117|consensus	506		99.52
KOG0131|consensus	203		99.51
PLN03121	243	nucleic acid binding protein; Provisional	99.5
TIGR01642	509	U2AF_lg U2 snRNP auxilliary factor, large subunit,	99.49
KOG0127|consensus	678		99.48
KOG0107|consensus	195		99.47
KOG4205|consensus	311		99.46
KOG0110|consensus	725		99.46
smart00362	72	RRM_2 RNA recognition motif.	99.46
TIGR01645	612	half-pint poly-U binding splicing factor, half-pin	99.43
KOG0122|consensus	270		99.42
KOG0145|consensus	360		99.42
cd00590	74	RRM RRM (RNA recognition motif), also known as RBD	99.41
KOG4207|consensus	256		99.41
COG0724	306	RNA-binding proteins (RRM domain) [General functio	99.41
TIGR01622	457	SF-CC1 splicing factor, CC1-like family. A homolog	99.4
KOG0117|consensus	506		99.39
KOG0109|consensus	346		99.38
PLN03213	759	repressor of silencing 3; Provisional	99.38
smart00360	71	RRM RNA recognition motif.	99.38
KOG0130|consensus	170		99.37
KOG0126|consensus	219		99.32
KOG0108|consensus	435		99.29
KOG0144|consensus	510		99.26
KOG4212|consensus	608		99.26
KOG0123|consensus	369		99.26
KOG0114|consensus	124		99.25
KOG0111|consensus	298		99.24
KOG0124|consensus	544		99.22
KOG1365|consensus	508		99.17
KOG0148|consensus	321		99.17
KOG0123|consensus	369		99.12
smart00361	70	RRM_1 RNA recognition motif.	99.11
KOG0116|consensus	419		99.1
PF13893	56	RRM_5: RNA recognition motif. (a.k.a. RRM, RBD, or	99.02
KOG0145|consensus	360		99.0
KOG0144|consensus	510		98.99
KOG0106|consensus	216		98.96
KOG4205|consensus	311		98.94
KOG0147|consensus	549		98.91
KOG0533|consensus	243		98.9
KOG1995|consensus	351		98.89
KOG4307|consensus	944		98.82
KOG4209|consensus	231		98.79
KOG0132|consensus	894		98.78
KOG1457|consensus	284		98.72
KOG0153|consensus	377		98.71
KOG0415|consensus	479		98.7
KOG0109|consensus	346		98.68
KOG0131|consensus	203		98.66
KOG1190|consensus	492		98.65
KOG4208|consensus	214		98.62
KOG0147|consensus	549		98.62
KOG0110|consensus	725		98.59
KOG4307|consensus	944		98.57
KOG4206|consensus	221		98.56
KOG1548|consensus	382		98.55
KOG0146|consensus	371		98.55
KOG0124|consensus	544		98.45
KOG0105|consensus	241		98.44
KOG4454|consensus	267		98.42
KOG4661|consensus	940		98.37
KOG0146|consensus	371		98.31
PF04059	97	RRM_2: RNA recognition motif 2; InterPro: IPR00720	98.27
KOG0226|consensus	290		98.21
KOG4210|consensus	285		98.08
KOG0129|consensus	520		98.0
KOG0106|consensus	216		97.99
PF11608	90	Limkain-b1: Limkain b1; InterPro: IPR024582 This e	97.95
PF08777	105	RRM_3: RNA binding motif; InterPro: IPR014886 This	97.85
KOG0128|consensus	881		97.8
KOG4660|consensus	549		97.7
KOG1456|consensus	494		97.66
KOG1457|consensus	284		97.52
KOG4849|consensus	498		97.46
KOG0129|consensus	520		97.42
KOG1190|consensus	492		97.42
KOG0120|consensus	500		97.34
KOG4206|consensus	221		97.29
KOG0151|consensus	877		97.25
KOG0128|consensus	881		97.23
KOG4210|consensus	285		97.22
PF10309	62	DUF2414: Protein of unknown function (DUF2414); In	97.11
COG5175	480	MOT2 Transcriptional repressor [Transcription]	97.1
KOG1548|consensus	382		96.93
KOG1456|consensus	494		96.89
PF14605	53	Nup35_RRM_2: Nup53/35/40-type RNA recognition moti	96.81
PF05172	100	Nup35_RRM: Nup53/35/40-type RNA recognition motif;	96.58
KOG2314|consensus	698		96.47
PF08952	146	DUF1866: Domain of unknown function (DUF1866) ; In	96.4
PF08675	87	RNA_bind: RNA binding domain; InterPro: IPR014789	96.32
KOG2591|consensus	684		96.01
KOG0120|consensus	500		95.56
KOG0115|consensus	275		95.48
KOG2202|consensus	260		95.4
KOG1855|consensus	484		95.35
PF14259	70	RRM_6: RNA recognition motif (a.k.a. RRM, RBD, or	95.02
PF00076	70	RRM_1: RNA recognition motif. (a.k.a. RRM, RBD, or	93.97
KOG4676|consensus	479		93.87
KOG3152|consensus	278		93.47
PF03467	176	Smg4_UPF3: Smg-4/UPF3 family; InterPro: IPR005120	93.19
PF07576	110	BRAP2: BRCA1-associated protein 2; InterPro: IPR01	93.06
PLN03134	144	glycine-rich RNA-binding protein 4; Provisional	92.89
KOG2193|consensus	584		92.39
KOG4285|consensus	350		92.2
PF03468	116	XS: XS domain; InterPro: IPR005380 The XS (rice ge	92.17
KOG1996|consensus	378		92.16
PF11767	66	SET_assoc: Histone lysine methyltransferase SET as	91.7
KOG0112|consensus	975		90.52
KOG0112|consensus	975		90.47
KOG2135|consensus	526		90.46
KOG0114|consensus	124		90.35
cd00590	74	RRM RRM (RNA recognition motif), also known as RBD	89.12
smart00362	72	RRM_2 RNA recognition motif.	88.78
PF04847	184	Calcipressin: Calcipressin; InterPro: IPR006931 Ca	88.59
PF03880	74	DbpA: DbpA RNA binding domain ; InterPro: IPR00558	88.22
KOG2416|consensus	718		87.85
KOG2068|consensus	327		87.17
COG0724	306	RNA-binding proteins (RRM domain) [General functio	84.52
KOG0121|consensus	153		83.74
KOG4660|consensus	549		83.23
smart00360	71	RRM RNA recognition motif.	81.52
KOG0804|consensus	493		81.07
PF07292	88	NID: Nmi/IFP 35 domain (NID); InterPro: IPR009909	80.91

>KOG4211|consensus

Probab=99.88  E-value=2.3e-22  Score=183.70  Aligned_cols=116  Identities=35%  Similarity=0.578  Sum_probs=98.2

Q ss_pred             CcEEEEcCCCCCCCHHHHHhccCCCCceEEEEeecCCCCccEEEEEeCCHHHHHHHHHhCCceeeeeEEEEEecCCCCCC
Q psy3727          78 RHTVHMRGLPFRANERDVADFFRPVVPVHVDIHYENGRPSGEADVDFATHEDAMQAMSKDRTNMQHRYIELFLNSSSPRG  157 (232)
Q Consensus        78 ~~~vfV~nLp~~~te~dl~~~F~~~~i~~v~i~~d~g~~kG~afVeF~s~eda~~Al~~~g~~i~gR~I~V~~~~~~~~~  157 (232)
                      .+.|.+++|||+||++||.+||+.|+|..+.+...+|++.|+|||||+++||+++||++|...|..|+|+|+.+...+..
T Consensus        10 ~~~vr~rGLPwsat~~ei~~Ff~~~~I~~~~~~r~~Gr~sGeA~Ve~~seedv~~AlkkdR~~mg~RYIEVf~~~~~e~d   89 (510)
T KOG4211|consen   10 AFEVRLRGLPWSATEKEILDFFSNCGIENLEIPRRNGRPSGEAYVEFTSEEDVEKALKKDRESMGHRYIEVFTAGGAEAD   89 (510)
T ss_pred             ceEEEecCCCccccHHHHHHHHhcCceeEEEEeccCCCcCcceEEEeechHHHHHHHHhhHHHhCCceEEEEccCCcccc
Confidence            48999999999999999999999999999888888899999999999999999999999999999999999999887532


Q ss_pred             CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCcceEEEcCCCccccHHHHHhhhC
Q psy3727         158 GVGGSGSIGGFGGSGGGRLGGFGGSDPSSPFERRNPNQAYVENTALSRSAVKDRAINVQL  217 (232)
Q Consensus       158 ~~~g~~g~gg~gg~~gg~~gg~g~~~~~~~~~~~~~~~~~v~~~gLp~~~t~~dl~~fF~  217 (232)
                      ..-..              .        .+  ....+..+|+|++|||+||++||.+||+
T Consensus        90 ~~~~~--------------~--------g~--~s~~~d~vVRLRGLPfscte~dI~~FFa  125 (510)
T KOG4211|consen   90 WVMRP--------------G--------GP--NSSANDGVVRLRGLPFSCTEEDIVEFFA  125 (510)
T ss_pred             ccccC--------------C--------CC--CCCCCCceEEecCCCccCcHHHHHHHhc
Confidence            21000              0        00  1112345899999999999999999995

>TIGR01659 sex-lethal sex-lethal family splicing factor

Probab=99.87  E-value=6.9e-21  Score=172.50  Aligned_cols=105  Identities=17%  Similarity=0.233  Sum_probs=93.2

Q ss_pred             CcEEEEcCCCCCCCHHHHHhccCCC-CceEEEEeecC--CCCccEEEEEeCCHHHHHHHHHh-CCceeeeeEEEEEecCC
Q psy3727          78 RHTVHMRGLPFRANERDVADFFRPV-VPVHVDIHYEN--GRPSGEADVDFATHEDAMQAMSK-DRTNMQHRYIELFLNSS  153 (232)
Q Consensus        78 ~~~vfV~nLp~~~te~dl~~~F~~~-~i~~v~i~~d~--g~~kG~afVeF~s~eda~~Al~~-~g~~i~gR~I~V~~~~~  153 (232)
                      .++|||+|||+++||++|+++|++| .|++|+|++|.  ++++|||||+|+++++|++||+. |+..|.++.|+|.++.+
T Consensus       107 ~~~LfVgnLp~~~te~~L~~lF~~~G~V~~v~i~~d~~tg~srGyaFVeF~~~e~A~~Ai~~LnG~~l~gr~i~V~~a~p  186 (346)
T TIGR01659       107 GTNLIVNYLPQDMTDRELYALFRTIGPINTCRIMRDYKTGYSFGYAFVDFGSEADSQRAIKNLNGITVRNKRLKVSYARP  186 (346)
T ss_pred             CcEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEecCCCCccCcEEEEEEccHHHHHHHHHHcCCCccCCceeeeecccc
Confidence            6999999999999999999999999 89999999986  89999999999999999999986 99999999999998765


Q ss_pred             CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCcceEEEcCCCccccHHHHHhhhC
Q psy3727         154 SPRGGVGGSGSIGGFGGSGGGRLGGFGGSDPSSPFERRNPNQAYVENTALSRSAVKDRAINVQL  217 (232)
Q Consensus       154 ~~~~~~~g~~g~gg~gg~~gg~~gg~g~~~~~~~~~~~~~~~~~v~~~gLp~~~t~~dl~~fF~  217 (232)
                      ..  .                               .  .....|+|.|||+++|++||+++|.
T Consensus       187 ~~--~-------------------------------~--~~~~~lfV~nLp~~vtee~L~~~F~  215 (346)
T TIGR01659       187 GG--E-------------------------------S--IKDTNLYVTNLPRTITDDQLDTIFG  215 (346)
T ss_pred             cc--c-------------------------------c--cccceeEEeCCCCcccHHHHHHHHH
Confidence            31  0                               0  0123689999999999999999995

This model describes the sex-lethal family of splicing factors found in Dipteran insects. The sex-lethal phenotype, however, may be limited to the Melanogasters and closely related species. In Drosophila the protein acts as an inhibitor of splicing. This subfamily is most closely related to the ELAV/HUD subfamily of splicing factors (TIGR01661).

>PLN03134 glycine-rich RNA-binding protein 4; Provisional

Probab=99.82  E-value=3.8e-19  Score=142.60  Aligned_cols=79  Identities=22%  Similarity=0.353  Sum_probs=74.2

Q ss_pred             CcEEEEcCCCCCCCHHHHHhccCCC-CceEEEEeecC--CCCccEEEEEeCCHHHHHHHHHh-CCceeeeeEEEEEecCC
Q psy3727          78 RHTVHMRGLPFRANERDVADFFRPV-VPVHVDIHYEN--GRPSGEADVDFATHEDAMQAMSK-DRTNMQHRYIELFLNSS  153 (232)
Q Consensus        78 ~~~vfV~nLp~~~te~dl~~~F~~~-~i~~v~i~~d~--g~~kG~afVeF~s~eda~~Al~~-~g~~i~gR~I~V~~~~~  153 (232)
                      ..+|||+|||+++||++|+++|++| .|++|.|++|.  ++++|||||+|+++++|++||+. |+++|+++.|+|.++..
T Consensus        34 ~~~lfVgnL~~~~te~~L~~~F~~~G~I~~v~i~~d~~tg~~kGfaFV~F~~~e~A~~Al~~lng~~i~Gr~l~V~~a~~  113 (144)
T PLN03134         34 STKLFIGGLSWGTDDASLRDAFAHFGDVVDAKVIVDRETGRSRGFGFVNFNDEGAATAAISEMDGKELNGRHIRVNPAND  113 (144)
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHhcCCCeEEEEEEecCCCCCcceEEEEEECCHHHHHHHHHHcCCCEECCEEEEEEeCCc
Confidence            4789999999999999999999999 89999999987  89999999999999999999986 99999999999999987


Q ss_pred             CCC
Q psy3727         154 SPR  156 (232)
Q Consensus       154 ~~~  156 (232)
                      ++.
T Consensus       114 ~~~  116 (144)
T PLN03134        114 RPS  116 (144)
T ss_pred             CCC
Confidence            653

>TIGR01661 ELAV_HUD_SF ELAV/HuD family splicing factor

Probab=99.80  E-value=2.9e-19  Score=160.88  Aligned_cols=105  Identities=14%  Similarity=0.237  Sum_probs=93.5

Q ss_pred             CcEEEEcCCCCCCCHHHHHhccCCC-CceEEEEeecC--CCCccEEEEEeCCHHHHHHHHHh-CCceeeeeEEEEEecCC
Q psy3727          78 RHTVHMRGLPFRANERDVADFFRPV-VPVHVDIHYEN--GRPSGEADVDFATHEDAMQAMSK-DRTNMQHRYIELFLNSS  153 (232)
Q Consensus        78 ~~~vfV~nLp~~~te~dl~~~F~~~-~i~~v~i~~d~--g~~kG~afVeF~s~eda~~Al~~-~g~~i~gR~I~V~~~~~  153 (232)
                      ..+|||+|||+++||+||+++|++| .|.+|.|++++  ++++|||||+|.++++|++||+. |+..|.++.|.|.++.+
T Consensus         3 ~~~l~V~nLp~~~~e~~l~~~F~~~G~i~~v~i~~d~~~g~s~g~afV~f~~~~~A~~Ai~~l~g~~l~g~~i~v~~a~~   82 (352)
T TIGR01661         3 KTNLIVNYLPQTMTQEEIRSLFTSIGEIESCKLVRDKVTGQSLGYGFVNYVRPEDAEKAVNSLNGLRLQNKTIKVSYARP   82 (352)
T ss_pred             CcEEEEeCCCCCCCHHHHHHHHHccCCEEEEEEEEcCCCCccceEEEEEECcHHHHHHHHhhcccEEECCeeEEEEeecc
Confidence            3789999999999999999999999 89999999987  89999999999999999999986 99999999999998765


Q ss_pred             CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCcceEEEcCCCccccHHHHHhhhC
Q psy3727         154 SPRGGVGGSGSIGGFGGSGGGRLGGFGGSDPSSPFERRNPNQAYVENTALSRSAVKDRAINVQL  217 (232)
Q Consensus       154 ~~~~~~~g~~g~gg~gg~~gg~~gg~g~~~~~~~~~~~~~~~~~v~~~gLp~~~t~~dl~~fF~  217 (232)
                      ...                                   ......|+|.|||+++|+++|+++|.
T Consensus        83 ~~~-----------------------------------~~~~~~l~v~~l~~~~~~~~l~~~f~  111 (352)
T TIGR01661        83 SSD-----------------------------------SIKGANLYVSGLPKTMTQHELESIFS  111 (352)
T ss_pred             ccc-----------------------------------ccccceEEECCccccCCHHHHHHHHh
Confidence            410                                   00124689999999999999999996

These proteins contain 3 RNA-recognition motifs (rrm: pfam00076).

>KOG0105|consensus

Probab=99.77  E-value=3.8e-18  Score=139.50  Aligned_cols=130  Identities=20%  Similarity=0.270  Sum_probs=93.2

Q ss_pred             CcEEEEcCCCCCCCHHHHHhccCCC-CceEEEEeecCCCCccEEEEEeCCHHHHHHHHHh-CCceeeeeEEEEEecCCCC
Q psy3727          78 RHTVHMRGLPFRANERDVADFFRPV-VPVHVDIHYENGRPSGEADVDFATHEDAMQAMSK-DRTNMQHRYIELFLNSSSP  155 (232)
Q Consensus        78 ~~~vfV~nLp~~~te~dl~~~F~~~-~i~~v~i~~d~g~~kG~afVeF~s~eda~~Al~~-~g~~i~gR~I~V~~~~~~~  155 (232)
                      .++|+|+|||-++.|.||+++|.+| .|+.|.|..-. .+..||||+|+++.||+.||.- |+..+++..|+|.++..- 
T Consensus         6 ~~~iyvGNLP~diRekeieDlFyKyg~i~~ieLK~r~-g~ppfafVeFEd~RDAeDAiygRdGYdydg~rLRVEfprgg-   83 (241)
T KOG0105|consen    6 SRRIYVGNLPGDIREKEIEDLFYKYGRIREIELKNRP-GPPPFAFVEFEDPRDAEDAIYGRDGYDYDGCRLRVEFPRGG-   83 (241)
T ss_pred             cceEEecCCCcchhhccHHHHHhhhcceEEEEeccCC-CCCCeeEEEecCccchhhhhhcccccccCcceEEEEeccCC-
Confidence            4899999999999999999999999 88888886544 3457999999999999999997 999999999999987664 


Q ss_pred             CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCcceEEEcCCCccccHHHHHhhhC
Q psy3727         156 RGGVGGSGSIGGFGGSGGGRLGGFGGSDPSSPFERRNPNQAYVENTALSRSAVKDRAINVQL  217 (232)
Q Consensus       156 ~~~~~g~~g~gg~gg~~gg~~gg~g~~~~~~~~~~~~~~~~~v~~~gLp~~~t~~dl~~fF~  217 (232)
                       +.+.-  .+|.+.+++.+   |.++.....+..+.+  ...|.|.+||.+.+|+||++..-
T Consensus        84 -r~s~~--~~G~y~gggrg---Ggg~gg~rgppsrrS--e~RVvVsGLp~SgSWQDLKDHmR  137 (241)
T KOG0105|consen   84 -RSSSD--RRGSYSGGGRG---GGGGGGRRGPPSRRS--EYRVVVSGLPPSGSWQDLKDHMR  137 (241)
T ss_pred             -Ccccc--cccccCCCCCC---CCCCCcccCCccccc--ceeEEEecCCCCCchHHHHHHHH
Confidence             21111  11222111111   111111111112222  34689999999999999998764

>TIGR01622 SF-CC1 splicing factor, CC1-like family

Probab=99.76  E-value=7.1e-18  Score=157.22  Aligned_cols=118  Identities=19%  Similarity=0.179  Sum_probs=96.1

Q ss_pred             CcEEEEcCCCCCCCHHHHHhccCCC-CceEEEEeecC--CCCccEEEEEeCCHHHHHHHHHhCCceeeeeEEEEEecCCC
Q psy3727          78 RHTVHMRGLPFRANERDVADFFRPV-VPVHVDIHYEN--GRPSGEADVDFATHEDAMQAMSKDRTNMQHRYIELFLNSSS  154 (232)
Q Consensus        78 ~~~vfV~nLp~~~te~dl~~~F~~~-~i~~v~i~~d~--g~~kG~afVeF~s~eda~~Al~~~g~~i~gR~I~V~~~~~~  154 (232)
                      ..+|||+|||+++|+++|++||++| .|+.|.|++++  ++++|||||+|.+.++|++||.++++.|.++.|.|..+...
T Consensus        89 ~~~l~V~nlp~~~~~~~l~~~F~~~G~v~~v~i~~d~~~~~skg~afVeF~~~e~A~~Al~l~g~~~~g~~i~v~~~~~~  168 (457)
T TIGR01622        89 DRTVFVLQLALKARERDLYEFFSKVGKVRDVQCIKDRNSRRSKGVAYVEFYDVESVIKALALTGQMLLGRPIIVQSSQAE  168 (457)
T ss_pred             CcEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEeecCCCCCcceEEEEEECCHHHHHHHHHhCCCEECCeeeEEeecchh
Confidence            5899999999999999999999999 89999999987  89999999999999999999999999999999999876554


Q ss_pred             CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCcceEEEcCCCccccHHHHHhhhCC
Q psy3727         155 PRGGVGGSGSIGGFGGSGGGRLGGFGGSDPSSPFERRNPNQAYVENTALSRSAVKDRAINVQLC  218 (232)
Q Consensus       155 ~~~~~~g~~g~gg~gg~~gg~~gg~g~~~~~~~~~~~~~~~~~v~~~gLp~~~t~~dl~~fF~~  218 (232)
                      ........                       .......+....|+|.|||+++|+++|+++|+.
T Consensus       169 ~~~~~~~~-----------------------~~~~~~~p~~~~l~v~nl~~~~te~~l~~~f~~  209 (457)
T TIGR01622       169 KNRAAKAA-----------------------THQPGDIPNFLKLYVGNLHFNITEQELRQIFEP  209 (457)
T ss_pred             hhhhhhcc-----------------------cccCCCCCCCCEEEEcCCCCCCCHHHHHHHHHh
Confidence            21110000                       000001122457999999999999999999963

A homologous gene from Plasmodium falciparum was identified in the course of the analysis of that genome at TIGR and was included in the model.

>TIGR01645 half-pint poly-U binding splicing factor, half-pint family

Probab=99.74  E-value=1.5e-17  Score=159.29  Aligned_cols=116  Identities=15%  Similarity=0.177  Sum_probs=93.9

Q ss_pred             CcEEEEcCCCCCCCHHHHHhccCCC-CceEEEEeecC--CCCccEEEEEeCCHHHHHHHHHh-CCceeeeeEEEEEecCC
Q psy3727          78 RHTVHMRGLPFRANERDVADFFRPV-VPVHVDIHYEN--GRPSGEADVDFATHEDAMQAMSK-DRTNMQHRYIELFLNSS  153 (232)
Q Consensus        78 ~~~vfV~nLp~~~te~dl~~~F~~~-~i~~v~i~~d~--g~~kG~afVeF~s~eda~~Al~~-~g~~i~gR~I~V~~~~~  153 (232)
                      .++|||+|||+++|+++|+++|++| .|++|+|+.|+  ++++|||||+|+++++|++||+. |+..|+||.|+|.....
T Consensus       107 ~~rLfVGnLp~~~tEe~Lr~lF~~fG~I~sV~I~~D~~TgkskGfAFVeF~s~e~A~~Ai~~lnG~~i~GR~IkV~rp~~  186 (612)
T TIGR01645       107 MCRVYVGSISFELREDTIRRAFDPFGPIKSINMSWDPATGKHKGFAFVEYEVPEAAQLALEQMNGQMLGGRNIKVGRPSN  186 (612)
T ss_pred             CCEEEEcCCCCCCCHHHHHHHHHccCCEEEEEEeecCCCCCcCCeEEEEeCcHHHHHHHHHhcCCeEEecceeeeccccc
Confidence            4899999999999999999999999 89999999987  89999999999999999999986 99999999999985433


Q ss_pred             CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCcceEEEcCCCccccHHHHHhhhC
Q psy3727         154 SPRGGVGGSGSIGGFGGSGGGRLGGFGGSDPSSPFERRNPNQAYVENTALSRSAVKDRAINVQL  217 (232)
Q Consensus       154 ~~~~~~~g~~g~gg~gg~~gg~~gg~g~~~~~~~~~~~~~~~~~v~~~gLp~~~t~~dl~~fF~  217 (232)
                      .+...                        ...............|+|.|||+++++++|+++|+
T Consensus       187 ~p~a~------------------------~~~~~~~~~~~~~~rLfVgnLp~~vteedLk~lFs  226 (612)
T TIGR01645       187 MPQAQ------------------------PIIDMVQEEAKKFNRIYVASVHPDLSETDIKSVFE  226 (612)
T ss_pred             ccccc------------------------cccccccccccccceEEeecCCCCCCHHHHHHHHh
Confidence            21100                        00000111111234799999999999999999996

In the case of PUF60 (GP|6176532), in complex with p54, and in the presence of U2AF, facilitates association of U2 snRNP with pre-mRNA.

>TIGR01628 PABP-1234 polyadenylate binding protein, human types 1, 2, 3, 4 family

Probab=99.72  E-value=3.5e-17  Score=156.66  Aligned_cols=106  Identities=16%  Similarity=0.219  Sum_probs=92.1

Q ss_pred             EEEEcCCCCCCCHHHHHhccCCC-CceEEEEeecC--CCCccEEEEEeCCHHHHHHHHHh-CCceeeeeEEEEEecCCCC
Q psy3727          80 TVHMRGLPFRANERDVADFFRPV-VPVHVDIHYEN--GRPSGEADVDFATHEDAMQAMSK-DRTNMQHRYIELFLNSSSP  155 (232)
Q Consensus        80 ~vfV~nLp~~~te~dl~~~F~~~-~i~~v~i~~d~--g~~kG~afVeF~s~eda~~Al~~-~g~~i~gR~I~V~~~~~~~  155 (232)
                      +|||+|||+++||++|+++|++| .|+.|+|++|.  ++++|||||+|.++++|++||+. |...|.++.|+|.++...+
T Consensus         2 sl~VgnLp~~vte~~L~~~F~~~G~v~~v~v~~d~~t~~s~G~afV~F~~~~~A~~Al~~ln~~~i~gk~i~i~~s~~~~   81 (562)
T TIGR01628         2 SLYVGDLDPDVTEAKLYDLFKPFGPVLSVRVCRDSVTRRSLGYGYVNFQNPADAERALETMNFKRLGGKPIRIMWSQRDP   81 (562)
T ss_pred             eEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEecCCCCCcceEEEEEECCHHHHHHHHHHhCCCEECCeeEEeecccccc
Confidence            69999999999999999999999 88999999987  88999999999999999999987 9999999999998875432


Q ss_pred             CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCcceEEEcCCCccccHHHHHhhhCC
Q psy3727         156 RGGVGGSGSIGGFGGSGGGRLGGFGGSDPSSPFERRNPNQAYVENTALSRSAVKDRAINVQLC  218 (232)
Q Consensus       156 ~~~~~g~~g~gg~gg~~gg~~gg~g~~~~~~~~~~~~~~~~~v~~~gLp~~~t~~dl~~fF~~  218 (232)
                      ...                                 ......|+|.|||+++|+++|+++|..
T Consensus        82 ~~~---------------------------------~~~~~~vfV~nLp~~~~~~~L~~~F~~  111 (562)
T TIGR01628        82 SLR---------------------------------RSGVGNIFVKNLDKSVDNKALFDTFSK  111 (562)
T ss_pred             ccc---------------------------------ccCCCceEEcCCCccCCHHHHHHHHHh
Confidence            110                                 011236889999999999999999973

There are four paralogs in Homo sapiens which are expressed in testis, platelets, broadly expressed, or of unknown tissue range.

>TIGR01648 hnRNP-R-Q heterogeneous nuclear ribonucleoprotein R, Q family

Probab=99.71  E-value=5e-17  Score=155.26  Aligned_cols=103  Identities=13%  Similarity=0.191  Sum_probs=89.5

Q ss_pred             CCCCcEEEEcCCCCCCCHHHHHhccCCC-CceEEEEeecC-CCCccEEEEEeCCHHHHHHHHHh-CCceee-eeEEEEEe
Q psy3727          75 GPSRHTVHMRGLPFRANERDVADFFRPV-VPVHVDIHYEN-GRPSGEADVDFATHEDAMQAMSK-DRTNMQ-HRYIELFL  150 (232)
Q Consensus        75 ~~s~~~vfV~nLp~~~te~dl~~~F~~~-~i~~v~i~~d~-g~~kG~afVeF~s~eda~~Al~~-~g~~i~-gR~I~V~~  150 (232)
                      ++..++|||+|||+++||++|+++|++| .|++|+|++|. ++++|||||+|.++|+|++||+. |+.+|. ++.|.|..
T Consensus        55 p~~~~~lFVgnLp~~~tEd~L~~~F~~~G~I~~vrl~~D~sG~sRGfaFV~F~~~e~A~~Ai~~lng~~i~~Gr~l~V~~  134 (578)
T TIGR01648        55 PGRGCEVFVGKIPRDLYEDELVPLFEKAGPIYELRLMMDFSGQNRGYAFVTFCGKEEAKEAVKLLNNYEIRPGRLLGVCI  134 (578)
T ss_pred             CCCCCEEEeCCCCCCCCHHHHHHHHHhhCCEEEEEEEECCCCCccceEEEEeCCHHHHHHHHHHcCCCeecCCccccccc
Confidence            4446999999999999999999999999 89999999998 99999999999999999999997 888774 67666643


Q ss_pred             cCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCcceEEEcCCCccccHHHHHhhhCC
Q psy3727         151 NSSSPRGGVGGSGSIGGFGGSGGGRLGGFGGSDPSSPFERRNPNQAYVENTALSRSAVKDRAINVQLC  218 (232)
Q Consensus       151 ~~~~~~~~~~g~~g~gg~gg~~gg~~gg~g~~~~~~~~~~~~~~~~~v~~~gLp~~~t~~dl~~fF~~  218 (232)
                      +..                                         ...|+|.|||+++|+++|.+.|..
T Consensus       135 S~~-----------------------------------------~~rLFVgNLP~~~TeeeL~eeFsk  161 (578)
T TIGR01648       135 SVD-----------------------------------------NCRLFVGGIPKNKKREEILEEFSK  161 (578)
T ss_pred             ccc-----------------------------------------CceeEeecCCcchhhHHHHHHhhc
Confidence            211                                         247999999999999999999874

Sequences in this subfamily include the human heterogeneous nuclear ribonucleoproteins (hnRNP) R, Q and APOBEC-1 complementation factor (aka APOBEC-1 stimulating protein). These proteins contain three RNA recognition domains (rrm: pfam00076) and a somewhat variable C-terminal domain.

>KOG4211|consensus

Probab=99.68  E-value=2.2e-15  Score=138.17  Aligned_cols=77  Identities=58%  Similarity=0.965  Sum_probs=73.9

Q ss_pred             CcEEEEcCCCCCCCHHHHHhccCCCCceEEEEeecC-CCCccEEEEEeCCHHHHHHHHHhCCceeeeeEEEEEecCCC
Q psy3727          78 RHTVHMRGLPFRANERDVADFFRPVVPVHVDIHYEN-GRPSGEADVDFATHEDAMQAMSKDRTNMQHRYIELFLNSSS  154 (232)
Q Consensus        78 ~~~vfV~nLp~~~te~dl~~~F~~~~i~~v~i~~d~-g~~kG~afVeF~s~eda~~Al~~~g~~i~gR~I~V~~~~~~  154 (232)
                      .+.|++++|||++++.+|.+||+.+.+..|+|.... |+.+|+|+|+|+|.|||..||.+++..|++|+|++++....
T Consensus       281 g~fv~MRGlpy~a~~~di~nfFspl~p~~v~i~ig~dGr~TGEAdveF~t~edav~Amskd~anm~hrYVElFln~~~  358 (510)
T KOG4211|consen  281 GHFVHMRGLPYDATENDIANFFSPLNPYRVHIEIGPDGRATGEADVEFATGEDAVGAMGKDGANMGHRYVELFLNGAP  358 (510)
T ss_pred             CceeeecCCCccCCCcchhhhcCCCCceeEEEEeCCCCccCCcceeecccchhhHhhhccCCcccCcceeeecccCCc
Confidence            489999999999999999999999999999999998 99999999999999999999999999999999999998765

>TIGR01659 sex-lethal sex-lethal family splicing factor

Probab=99.67  E-value=8.6e-16  Score=139.34  Aligned_cols=78  Identities=21%  Similarity=0.287  Sum_probs=71.3

Q ss_pred             CcEEEEcCCCCCCCHHHHHhccCCC-CceEEEEeecC--CCCccEEEEEeCCHHHHHHHHHh-CCceeee--eEEEEEec
Q psy3727          78 RHTVHMRGLPFRANERDVADFFRPV-VPVHVDIHYEN--GRPSGEADVDFATHEDAMQAMSK-DRTNMQH--RYIELFLN  151 (232)
Q Consensus        78 ~~~vfV~nLp~~~te~dl~~~F~~~-~i~~v~i~~d~--g~~kG~afVeF~s~eda~~Al~~-~g~~i~g--R~I~V~~~  151 (232)
                      ..+|||.|||+++||++|+++|++| +|+.|.|+.++  ++++|||||+|++.++|++||+. |++.|.+  +.|+|.++
T Consensus       193 ~~~lfV~nLp~~vtee~L~~~F~~fG~V~~v~i~~d~~tg~~kG~aFV~F~~~e~A~~Ai~~lng~~~~g~~~~l~V~~a  272 (346)
T TIGR01659       193 DTNLYVTNLPRTITDDQLDTIFGKYGQIVQKNILRDKLTGTPRGVAFVRFNKREEAQEAISALNNVIPEGGSQPLTVRLA  272 (346)
T ss_pred             cceeEEeCCCCcccHHHHHHHHHhcCCEEEEEEeecCCCCccceEEEEEECCHHHHHHHHHHhCCCccCCCceeEEEEEC
Confidence            4789999999999999999999999 89999999887  89999999999999999999997 9998876  68999888


Q ss_pred             CCCC
Q psy3727         152 SSSP  155 (232)
Q Consensus       152 ~~~~  155 (232)
                      ....
T Consensus       273 ~~~~  276 (346)
T TIGR01659       273 EEHG  276 (346)
T ss_pred             Cccc
Confidence            7653

This model describes the sex-lethal family of splicing factors found in Dipteran insects. The sex-lethal phenotype, however, may be limited to the Melanogasters and closely related species. In Drosophila the protein acts as an inhibitor of splicing. This subfamily is most closely related to the ELAV/HUD subfamily of splicing factors (TIGR01661).

>TIGR01661 ELAV_HUD_SF ELAV/HuD family splicing factor

Probab=99.65  E-value=6.9e-16  Score=138.98  Aligned_cols=78  Identities=14%  Similarity=0.204  Sum_probs=73.9

Q ss_pred             CcEEEEcCCCCCCCHHHHHhccCCC-CceEEEEeecC--CCCccEEEEEeCCHHHHHHHHHh-CCceeeeeEEEEEecCC
Q psy3727          78 RHTVHMRGLPFRANERDVADFFRPV-VPVHVDIHYEN--GRPSGEADVDFATHEDAMQAMSK-DRTNMQHRYIELFLNSS  153 (232)
Q Consensus        78 ~~~vfV~nLp~~~te~dl~~~F~~~-~i~~v~i~~d~--g~~kG~afVeF~s~eda~~Al~~-~g~~i~gR~I~V~~~~~  153 (232)
                      +.+|||+|||+++|+++|+++|++| .|++|+|++|.  +++||||||+|++.++|.+||+. |+..|+||.|+|.++..
T Consensus       269 ~~~lfV~NL~~~~~e~~L~~~F~~fG~v~~v~i~~d~~t~~skG~aFV~F~~~~~A~~Ai~~lnG~~~~gr~i~V~~~~~  348 (352)
T TIGR01661       269 GYCIFVYNLSPDTDETVLWQLFGPFGAVQNVKIIRDLTTNQCKGYGFVSMTNYDEAAMAILSLNGYTLGNRVLQVSFKTN  348 (352)
T ss_pred             CcEEEEeCCCCCCCHHHHHHHHHhCCCeEEEEEeEcCCCCCccceEEEEECCHHHHHHHHHHhCCCEECCeEEEEEEccC
Confidence            3689999999999999999999999 89999999997  99999999999999999999997 99999999999999987


Q ss_pred             CC
Q psy3727         154 SP  155 (232)
Q Consensus       154 ~~  155 (232)
                      ++
T Consensus       349 ~~  350 (352)
T TIGR01661       349 KA  350 (352)
T ss_pred             CC
Confidence            74

These proteins contain 3 RNA-recognition motifs (rrm: pfam00076).

>TIGR01649 hnRNP-L_PTB hnRNP-L/PTB/hephaestus splicing factor family

Probab=99.64  E-value=7e-15  Score=138.77  Aligned_cols=134  Identities=10%  Similarity=0.091  Sum_probs=93.5

Q ss_pred             CcEEEEcCCCC-CCCHHHHHhccCCC-CceEEEEeecCCCCccEEEEEeCCHHHHHHHHHh-CCceeeeeEEEEEecCCC
Q psy3727          78 RHTVHMRGLPF-RANERDVADFFRPV-VPVHVDIHYENGRPSGEADVDFATHEDAMQAMSK-DRTNMQHRYIELFLNSSS  154 (232)
Q Consensus        78 ~~~vfV~nLp~-~~te~dl~~~F~~~-~i~~v~i~~d~g~~kG~afVeF~s~eda~~Al~~-~g~~i~gR~I~V~~~~~~  154 (232)
                      ..+|||+|||+ .+|+++|+++|+.| .|++|.|+++   .+|+|||+|.+.++|++||+. |+..|.|+.|+|.++...
T Consensus       275 ~~~l~v~nL~~~~vt~~~L~~lF~~yG~V~~vki~~~---~~g~afV~f~~~~~A~~Ai~~lng~~l~g~~l~v~~s~~~  351 (481)
T TIGR01649       275 GSVLMVSGLHQEKVNCDRLFNLFCVYGNVERVKFMKN---KKETALIEMADPYQAQLALTHLNGVKLFGKPLRVCPSKQQ  351 (481)
T ss_pred             CCEEEEeCCCCCCCCHHHHHHHHHhcCCeEEEEEEeC---CCCEEEEEECCHHHHHHHHHHhCCCEECCceEEEEEcccc
Confidence            48999999998 69999999999999 9999999886   368999999999999999986 999999999999988654


Q ss_pred             CCCCCCCC---CCC---CCCCCCCCCCCCCCCCCCCCCCCCCCCCCcceEEEcCCCccccHHHHHhhhCC
Q psy3727         155 PRGGVGGS---GSI---GGFGGSGGGRLGGFGGSDPSSPFERRNPNQAYVENTALSRSAVKDRAINVQLC  218 (232)
Q Consensus       155 ~~~~~~g~---~g~---gg~gg~~gg~~gg~g~~~~~~~~~~~~~~~~~v~~~gLp~~~t~~dl~~fF~~  218 (232)
                      ........   -+.   ..+..   .....+..+.. .....-.+....|+|.|||+++|+++|+++|..
T Consensus       352 ~~~~~~~~~~~~~~~~~~d~~~---~~~~r~~~~~~-~~~~~~~~ps~~L~v~NLp~~~tee~L~~lF~~  417 (481)
T TIGR01649       352 NVQPPREGQLDDGLTSYKDYSS---SRNHRFKKPGS-ANKNNIQPPSATLHLSNIPLSVSEEDLKELFAE  417 (481)
T ss_pred             cccCCCCCcCcCCCcccccccC---CccccCCCccc-ccccccCCCCcEEEEecCCCCCCHHHHHHHHHh
Confidence            21100000   000   00100   00000110000 001111223457999999999999999999953

Included in this family of heterogeneous ribonucleoproteins are PTB (polypyrimidine tract binding protein ) and hnRNP-L. These proteins contain four RNA recognition motifs (rrm: pfam00067).

>TIGR01628 PABP-1234 polyadenylate binding protein, human types 1, 2, 3, 4 family

Probab=99.63  E-value=1.7e-15  Score=145.05  Aligned_cols=110  Identities=13%  Similarity=0.119  Sum_probs=92.6

Q ss_pred             cEEEEcCCCCCCCHHHHHhccCCC-CceEEEEeecC-CCCccEEEEEeCCHHHHHHHHHh-CCceeeeeEEEEEecCCCC
Q psy3727          79 HTVHMRGLPFRANERDVADFFRPV-VPVHVDIHYEN-GRPSGEADVDFATHEDAMQAMSK-DRTNMQHRYIELFLNSSSP  155 (232)
Q Consensus        79 ~~vfV~nLp~~~te~dl~~~F~~~-~i~~v~i~~d~-g~~kG~afVeF~s~eda~~Al~~-~g~~i~gR~I~V~~~~~~~  155 (232)
                      .+|||+|||.++|+++|+++|+.| .|+.|.|+.+. ++++|||||+|+++++|++||++ |+..+.++.|.|.....+.
T Consensus        89 ~~vfV~nLp~~~~~~~L~~~F~~~G~i~~~~i~~~~~g~skg~afV~F~~~e~A~~Ai~~lng~~~~~~~i~v~~~~~~~  168 (562)
T TIGR01628        89 GNIFVKNLDKSVDNKALFDTFSKFGNILSCKVATDENGKSRGYGFVHFEKEESAKAAIQKVNGMLLNDKEVYVGRFIKKH  168 (562)
T ss_pred             CceEEcCCCccCCHHHHHHHHHhcCCcceeEeeecCCCCcccEEEEEECCHHHHHHHHHHhcccEecCceEEEecccccc
Confidence            679999999999999999999999 89999999988 99999999999999999999998 9999999999986554431


Q ss_pred             CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCcceEEEcCCCccccHHHHHhhhCC
Q psy3727         156 RGGVGGSGSIGGFGGSGGGRLGGFGGSDPSSPFERRNPNQAYVENTALSRSAVKDRAINVQLC  218 (232)
Q Consensus       156 ~~~~~g~~g~gg~gg~~gg~~gg~g~~~~~~~~~~~~~~~~~v~~~gLp~~~t~~dl~~fF~~  218 (232)
                      ...                              .........|+|+|||+++|+++|+++|..
T Consensus       169 ~~~------------------------------~~~~~~~~~l~V~nl~~~~tee~L~~~F~~  201 (562)
T TIGR01628       169 ERE------------------------------AAPLKKFTNLYVKNLDPSVNEDKLRELFAK  201 (562)
T ss_pred             ccc------------------------------cccccCCCeEEEeCCCCcCCHHHHHHHHHh
Confidence            110                              001112246889999999999999999963

There are four paralogs in Homo sapiens which are expressed in testis, platelets, broadly expressed, or of unknown tissue range.

>TIGR01649 hnRNP-L_PTB hnRNP-L/PTB/hephaestus splicing factor family

Probab=99.62  E-value=4.6e-15  Score=139.98  Aligned_cols=111  Identities=20%  Similarity=0.140  Sum_probs=88.7

Q ss_pred             cEEEEcCCCCCCCHHHHHhccCCC-CceEEEEeecCCCCccEEEEEeCCHHHHHHHHHh---CCceeeeeEEEEEecCCC
Q psy3727          79 HTVHMRGLPFRANERDVADFFRPV-VPVHVDIHYENGRPSGEADVDFATHEDAMQAMSK---DRTNMQHRYIELFLNSSS  154 (232)
Q Consensus        79 ~~vfV~nLp~~~te~dl~~~F~~~-~i~~v~i~~d~g~~kG~afVeF~s~eda~~Al~~---~g~~i~gR~I~V~~~~~~  154 (232)
                      .+|||+|||+++||++|+++|++| .|..|.|++    .|++|||+|++.++|++||+.   +...|.|+.|.|.++..+
T Consensus         3 ~vv~V~nLp~~~te~~L~~~f~~fG~V~~v~i~~----~k~~afVef~~~e~A~~Ai~~~~~~~~~l~g~~l~v~~s~~~   78 (481)
T TIGR01649         3 PVVHVRNLPQDVVEADLVEALIPFGPVSYVMMLP----GKRQALVEFEDEESAKACVNFATSVPIYIRGQPAFFNYSTSQ   78 (481)
T ss_pred             cEEEEcCCCCCCCHHHHHHHHHhcCCeeEEEEEC----CCCEEEEEeCchHHHHHHHHHhhcCCceEcCeEEEEEecCCc
Confidence            899999999999999999999999 888998885    468999999999999999984   788999999999998765


Q ss_pred             CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC-cceEEEcCCCccccHHHHHhhhC
Q psy3727         155 PRGGVGGSGSIGGFGGSGGGRLGGFGGSDPSSPFERRNPN-QAYVENTALSRSAVKDRAINVQL  217 (232)
Q Consensus       155 ~~~~~~g~~g~gg~gg~~gg~~gg~g~~~~~~~~~~~~~~-~~~v~~~gLp~~~t~~dl~~fF~  217 (232)
                      +......                        .......++ -..|.|.||++++|+++|.++|.
T Consensus        79 ~~~~~~~------------------------~~~~~~~~~~~~~v~v~nl~~~vt~~~L~~~F~  118 (481)
T TIGR01649        79 EIKRDGN------------------------SDFDSAGPNKVLRVIVENPMYPITLDVLYQIFN  118 (481)
T ss_pred             ccccCCC------------------------CcccCCCCCceEEEEEcCCCCCCCHHHHHHHHh
Confidence            3111000                        000011111 24689999999999999999996

Included in this family of heterogeneous ribonucleoproteins are PTB (polypyrimidine tract binding protein ) and hnRNP-L. These proteins contain four RNA recognition motifs (rrm: pfam00067).

>PF00076 RRM_1: RNA recognition motif

Probab=99.62  E-value=1.1e-15  Score=105.64  Aligned_cols=67  Identities=25%  Similarity=0.440  Sum_probs=63.3

Q ss_pred             EEEcCCCCCCCHHHHHhccCCC-CceEEEEeecC-CCCccEEEEEeCCHHHHHHHHHh-CCceeeeeEEE
Q psy3727          81 VHMRGLPFRANERDVADFFRPV-VPVHVDIHYEN-GRPSGEADVDFATHEDAMQAMSK-DRTNMQHRYIE  147 (232)
Q Consensus        81 vfV~nLp~~~te~dl~~~F~~~-~i~~v~i~~d~-g~~kG~afVeF~s~eda~~Al~~-~g~~i~gR~I~  147 (232)
                      |||+|||.++|+++|+++|++| .+..+.+..+. ++++++|||+|+++++|++|++. |+..++++.|+
T Consensus         1 l~v~nlp~~~t~~~l~~~f~~~g~i~~~~~~~~~~~~~~~~a~V~F~~~~~a~~a~~~l~g~~~~~~~ir   70 (70)
T PF00076_consen    1 LYVGNLPPDVTEEELRDFFSQFGKIESIKVMRNSSGKSKGYAFVEFESEEDAEKALEELNGKKINGRKIR   70 (70)
T ss_dssp             EEEESETTTSSHHHHHHHHHTTSTEEEEEEEEETTSSEEEEEEEEESSHHHHHHHHHHHTTEEETTEEEE
T ss_pred             cEEcCCCCcCCHHHHHHHHHHhhhcccccccccccccccceEEEEEcCHHHHHHHHHHcCCCEECccCcC
Confidence            7999999999999999999999 88899999876 89999999999999999999996 99999999885

(a.k.a. RRM, RBD, or RNP domain); InterPro: IPR000504 Many eukaryotic proteins containing one or more copies of a putative RNA-binding domain of about 90 amino acids are known to bind single-stranded RNAs [, , ]. The largest group of single strand RNA-binding proteins is the eukaryotic RNA recognition motif (RRM) family that contains an eight amino acid RNP-1 consensus sequence [, ]. RRM proteins have a variety of RNA binding preferences and functions, and include heterogeneous nuclear ribonucleoproteins (hnRNPs), proteins implicated in regulation of alternative splicing (SR, U2AF, Sxl), protein components of small nuclear ribonucleoproteins (U1 and U2 snRNPs), and proteins that regulate RNA stability and translation (PABP, La, Hu) [, , ]. The RRM in heterodimeric splicing factor U2 snRNP auxiliary factor (U2AF) appears to have two RRM-like domains with specialised features for protein recognition []. The motif also appears in a few single stranded DNA binding proteins. The typical RRM consists of four anti-parallel beta-strands and two alpha-helices arranged in a beta-alpha-beta-beta-alpha-beta fold with side chains that stack with RNA bases. Specificity of RNA binding is determined by multiple contacts with surrounding amino acids. A third helix is present during RNA binding in some cases []. The RRM is reviewed in a number of publications [, , ].; GO: 0003676 nucleic acid binding; PDB: 2RNE_A 2DGO_A 2DO4_A 1YTY_B 2VOO_B 2VOP_A 2VON_B 1ZH5_B 2VOD_A 1S79_A ....

>PF14259 RRM_6: RNA recognition motif (a

Probab=99.62  E-value=2.3e-15  Score=105.11  Aligned_cols=67  Identities=27%  Similarity=0.425  Sum_probs=61.5

Q ss_pred             EEEcCCCCCCCHHHHHhccCCC-CceEEEEeecC-CCCccEEEEEeCCHHHHHHHHHh-CCceeeeeEEE
Q psy3727          81 VHMRGLPFRANERDVADFFRPV-VPVHVDIHYEN-GRPSGEADVDFATHEDAMQAMSK-DRTNMQHRYIE  147 (232)
Q Consensus        81 vfV~nLp~~~te~dl~~~F~~~-~i~~v~i~~d~-g~~kG~afVeF~s~eda~~Al~~-~g~~i~gR~I~  147 (232)
                      |+|+|||+++|+++|.++|+.+ .|..|.+.+++ ++++++|||+|.++++|++|++. ++..|+|+.|+
T Consensus         1 v~i~nlp~~~~~~~l~~~f~~~g~v~~v~~~~~~~~~~~~~a~v~f~~~~~a~~al~~~~~~~~~g~~l~   70 (70)
T PF14259_consen    1 VYISNLPPSTTEEDLRNFFSRFGPVEKVRLIKNKDGQSRGFAFVEFSSEEDAKRALELLNGKEIDGRKLR   70 (70)
T ss_dssp             EEEESSTTT--HHHHHHHCTTSSBEEEEEEEESTTSSEEEEEEEEESSHHHHHHHHHHHTTEEETTEEEE
T ss_pred             CEEeCCCCCCCHHHHHHHHHhcCCcceEEEEeeeccccCCEEEEEeCCHHHHHHHHHHCCCcEECCEEcC
Confidence            7999999999999999999999 78899999988 89999999999999999999998 77999999985

k.a. RRM, RBD, or RNP domain); PDB: 2DNN_A 1WI6_A 2EVZ_A 2ADC_A 1QM9_A 2KG1_A 2HGN_A 1U2F_A 2G4B_A 2HZC_A ....

>KOG0148|consensus

Probab=99.58  E-value=7.8e-15  Score=126.12  Aligned_cols=121  Identities=16%  Similarity=0.203  Sum_probs=104.0

Q ss_pred             CcEEEEcCCCCCCCHHHHHhccCCC-CceEEEEeecC--CCCccEEEEEeCCHHHHHHHHHh-CCceeeeeEEEEEecCC
Q psy3727          78 RHTVHMRGLPFRANERDVADFFRPV-VPVHVDIHYEN--GRPSGEADVDFATHEDAMQAMSK-DRTNMQHRYIELFLNSS  153 (232)
Q Consensus        78 ~~~vfV~nLp~~~te~dl~~~F~~~-~i~~v~i~~d~--g~~kG~afVeF~s~eda~~Al~~-~g~~i~gR~I~V~~~~~  153 (232)
                      -+-|||+.|..+++.++|++.|.+| +|.+++|++|.  +++|||+||.|.+.+||++||.. |++.|+.|.|+-.++..
T Consensus        62 hfhvfvgdls~eI~~e~lr~aF~pFGevS~akvirD~~T~KsKGYgFVSf~~k~dAEnAI~~MnGqWlG~R~IRTNWATR  141 (321)
T KOG0148|consen   62 HFHVFVGDLSPEIDNEKLREAFAPFGEVSDAKVIRDMNTGKSKGYGFVSFPNKEDAENAIQQMNGQWLGRRTIRTNWATR  141 (321)
T ss_pred             ceeEEehhcchhcchHHHHHHhccccccccceEeecccCCcccceeEEeccchHHHHHHHHHhCCeeeccceeecccccc
Confidence            4789999999999999999999999 99999999998  99999999999999999999997 99999999999999998


Q ss_pred             CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCcceEEEcCCCccccHHHHHhhhC
Q psy3727         154 SPRGGVGGSGSIGGFGGSGGGRLGGFGGSDPSSPFERRNPNQAYVENTALSRSAVKDRAINVQL  217 (232)
Q Consensus       154 ~~~~~~~g~~g~gg~gg~~gg~~gg~g~~~~~~~~~~~~~~~~~v~~~gLp~~~t~~dl~~fF~  217 (232)
                      ++....+.                   .-.-..-++..++..+.|.+.|++--.|+++|++.|.
T Consensus       142 Kp~e~n~~-------------------~ltfdeV~NQssp~NtsVY~G~I~~~lte~~mr~~Fs  186 (321)
T KOG0148|consen  142 KPSEMNGK-------------------PLTFDEVYNQSSPDNTSVYVGNIASGLTEDLMRQTFS  186 (321)
T ss_pred             CccccCCC-------------------CccHHHHhccCCCCCceEEeCCcCccccHHHHHHhcc
Confidence            86221100                   0011123467778889999999999999999999995

>TIGR01648 hnRNP-R-Q heterogeneous nuclear ribonucleoprotein R, Q family

Probab=99.57  E-value=1.7e-14  Score=137.92  Aligned_cols=134  Identities=18%  Similarity=0.150  Sum_probs=94.4

Q ss_pred             CcEEEEcCCCCCCCHHHHHhccCCC---CceEEEEeecCCCCccEEEEEeCCHHHHHHHHHh-CCceeeeeEEEEEecCC
Q psy3727          78 RHTVHMRGLPFRANERDVADFFRPV---VPVHVDIHYENGRPSGEADVDFATHEDAMQAMSK-DRTNMQHRYIELFLNSS  153 (232)
Q Consensus        78 ~~~vfV~nLp~~~te~dl~~~F~~~---~i~~v~i~~d~g~~kG~afVeF~s~eda~~Al~~-~g~~i~gR~I~V~~~~~  153 (232)
                      ..+|||+|||+++|+++|+++|++|   +|++|.++      ++||||+|++.++|++||+. |+.+|+++.|+|.++.+
T Consensus       233 ~k~LfVgNL~~~~tee~L~~~F~~f~~G~I~rV~~~------rgfAFVeF~s~e~A~kAi~~lnG~~i~Gr~I~V~~Akp  306 (578)
T TIGR01648       233 VKILYVRNLMTTTTEEIIEKSFSEFKPGKVERVKKI------RDYAFVHFEDREDAVKAMDELNGKELEGSEIEVTLAKP  306 (578)
T ss_pred             ccEEEEeCCCCCCCHHHHHHHHHhcCCCceEEEEee------cCeEEEEeCCHHHHHHHHHHhCCCEECCEEEEEEEccC
Confidence            3789999999999999999999999   67788765      46999999999999999986 99999999999999987


Q ss_pred             CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCcceEEEcCCCccccHHHHHhhhCCCCCCCC
Q psy3727         154 SPRGGVGGSGSIGGFGGSGGGRLGGFGGSDPSSPFERRNPNQAYVENTALSRSAVKDRAINVQLCPYHRHS  224 (232)
Q Consensus       154 ~~~~~~~g~~g~gg~gg~~gg~~gg~g~~~~~~~~~~~~~~~~~v~~~gLp~~~t~~dl~~fF~~~~~~~~  224 (232)
                      ....... +..++ .++++..+.     ...........+....+.+.+|||+++++.|.+||..+=+.++
T Consensus       307 ~~~~~~~-~~~rg-~gg~~~~~~-----~~~~~~g~~~sp~s~~~~~g~~~~~~~~~~~~~~f~~~g~~~~  370 (578)
T TIGR01648       307 VDKKSYV-RYTRG-TGGRGKERQ-----AARQSLGQVYDPASRSLAYEDYYYHPPYAPSLHFPRMPGPIRG  370 (578)
T ss_pred             CCccccc-ccccc-cCCCccccc-----ccccccCcccCccccccccccccccccccchhhccccCccccC
Confidence            6432111 10111 000000000     0000011122333457888899999999999999987644443

Sequences in this subfamily include the human heterogeneous nuclear ribonucleoproteins (hnRNP) R, Q and APOBEC-1 complementation factor (aka APOBEC-1 stimulating protein). These proteins contain three RNA recognition domains (rrm: pfam00076) and a somewhat variable C-terminal domain.

>KOG0121|consensus

Probab=99.57  E-value=4.5e-15  Score=114.94  Aligned_cols=78  Identities=19%  Similarity=0.275  Sum_probs=72.1

Q ss_pred             CcEEEEcCCCCCCCHHHHHhccCCC-CceEEEEeecC--CCCccEEEEEeCCHHHHHHHHHh-CCceeeeeEEEEEecCC
Q psy3727          78 RHTVHMRGLPFRANERDVADFFRPV-VPVHVDIHYEN--GRPSGEADVDFATHEDAMQAMSK-DRTNMQHRYIELFLNSS  153 (232)
Q Consensus        78 ~~~vfV~nLp~~~te~dl~~~F~~~-~i~~v~i~~d~--g~~kG~afVeF~s~eda~~Al~~-~g~~i~gR~I~V~~~~~  153 (232)
                      .+||||+||+|-+||++|.++|+.| .|.+|.|-.|+  -.+.|||||+|.+.+||+.||+- +++.|+.|.|.|+++-.
T Consensus        36 S~tvyVgNlSfyttEEqiyELFs~cG~irriiMGLdr~kktpCGFCFVeyy~~~dA~~AlryisgtrLddr~ir~D~D~G  115 (153)
T KOG0121|consen   36 SCTVYVGNLSFYTTEEQIYELFSKCGDIRRIIMGLDRFKKTPCGFCFVEYYSRDDAEDALRYISGTRLDDRPIRIDWDAG  115 (153)
T ss_pred             cceEEEeeeeeeecHHHHHHHHHhccchheeEeccccCCcCccceEEEEEecchhHHHHHHHhccCcccccceeeecccc
Confidence            4999999999999999999999999 88889888888  67999999999999999999998 99999999999998765


Q ss_pred             CC
Q psy3727         154 SP  155 (232)
Q Consensus       154 ~~  155 (232)
                      -.
T Consensus       116 F~  117 (153)
T KOG0121|consen  116 FV  117 (153)
T ss_pred             ch
Confidence            43

>TIGR01642 U2AF_lg U2 snRNP auxilliary factor, large subunit, splicing factor

Probab=99.57  E-value=2.8e-14  Score=134.66  Aligned_cols=131  Identities=15%  Similarity=0.089  Sum_probs=83.1

Q ss_pred             CcEEEEcCCCCCCCHHHHHhccCCC-C------------ceEEEEeecCCCCccEEEEEeCCHHHHHHHHHhCCceeeee
Q psy3727          78 RHTVHMRGLPFRANERDVADFFRPV-V------------PVHVDIHYENGRPSGEADVDFATHEDAMQAMSKDRTNMQHR  144 (232)
Q Consensus        78 ~~~vfV~nLp~~~te~dl~~~F~~~-~------------i~~v~i~~d~g~~kG~afVeF~s~eda~~Al~~~g~~i~gR  144 (232)
                      ..+|||+|||+++|+++|++||+++ .            |..|.+    .+.+|||||+|.+.++|+.||++|+..|.++
T Consensus       175 ~r~lyVgnLp~~~t~~~l~~~F~~~~~~~~~~~~~~~~~v~~~~~----~~~kg~afVeF~~~e~A~~Al~l~g~~~~g~  250 (509)
T TIGR01642       175 ARRLYVGGIPPEFVEEAVVDFFNDLMIATGYHKAEDGKHVSSVNI----NKEKNFAFLEFRTVEEATFAMALDSIIYSNV  250 (509)
T ss_pred             ccEEEEeCCCCCCCHHHHHHHHHHHHHhcCCCCCCCCCceEEEEE----CCCCCEEEEEeCCHHHHhhhhcCCCeEeeCc
Confidence            4789999999999999999999864 1            122222    4678999999999999999998899999999


Q ss_pred             EEEEEecCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCcceEEEcCCCccccHHHHHhhhCC
Q psy3727         145 YIELFLNSSSPRGGVGGSGSIGGFGGSGGGRLGGFGGSDPSSPFERRNPNQAYVENTALSRSAVKDRAINVQLC  218 (232)
Q Consensus       145 ~I~V~~~~~~~~~~~~g~~g~gg~gg~~gg~~gg~g~~~~~~~~~~~~~~~~~v~~~gLp~~~t~~dl~~fF~~  218 (232)
                      .|.|..................  ... .........  .... .........|+|.|||+++|+++|+++|+.
T Consensus       251 ~l~v~r~~~~~~~~~~~~~~~~--~~~-~~~~~~~~~--~~~~-~~~~~~~~~l~v~nlp~~~~~~~l~~~f~~  318 (509)
T TIGR01642       251 FLKIRRPHDYIPVPQITPEVSQ--KNP-DDNAKNVEK--LVNS-TTVLDSKDRIYIGNLPLYLGEDQIKELLES  318 (509)
T ss_pred             eeEecCccccCCccccCCCCCC--CCC-ccccccccc--cccc-ccCCCCCCEEEEeCCCCCCCHHHHHHHHHh
Confidence            9998644322100000000000  000 000000000  0000 000111347999999999999999999974

Members of this subfamily are found in plants, metazoa and fungi.

>KOG0127|consensus

Probab=99.56  E-value=1.7e-14  Score=133.76  Aligned_cols=77  Identities=22%  Similarity=0.365  Sum_probs=73.2

Q ss_pred             CcEEEEcCCCCCCCHHHHHhccCCC-CceEEEEeecC-CCCccEEEEEeCCHHHHHHHHHh-CCceeeeeEEEEEecCCC
Q psy3727          78 RHTVHMRGLPFRANERDVADFFRPV-VPVHVDIHYEN-GRPSGEADVDFATHEDAMQAMSK-DRTNMQHRYIELFLNSSS  154 (232)
Q Consensus        78 ~~~vfV~nLp~~~te~dl~~~F~~~-~i~~v~i~~d~-g~~kG~afVeF~s~eda~~Al~~-~g~~i~gR~I~V~~~~~~  154 (232)
                      .+.|+|+||||.|.++||+.+|+.| .|+.|.|+... ++.+|||||.|....+|..||+. |+.+|+||+|-|++|-.+
T Consensus       117 k~rLIIRNLPf~~k~~dLk~vFs~~G~V~Ei~IP~k~dgklcGFaFV~fk~~~dA~~Al~~~N~~~i~gR~VAVDWAV~K  196 (678)
T KOG0127|consen  117 KWRLIIRNLPFKCKKPDLKNVFSNFGKVVEIVIPRKKDGKLCGFAFVQFKEKKDAEKALEFFNGNKIDGRPVAVDWAVDK  196 (678)
T ss_pred             cceEEeecCCcccCcHHHHHHHhhcceEEEEEcccCCCCCccceEEEEEeeHHHHHHHHHhccCceecCceeEEeeeccc
Confidence            4899999999999999999999999 89999999888 88899999999999999999998 999999999999998765

>KOG1365|consensus

Probab=99.56  E-value=1.4e-15  Score=136.04  Aligned_cols=130  Identities=31%  Similarity=0.382  Sum_probs=94.4

Q ss_pred             CcEEEEcCCCCCCCHHHHHhccCC-C----CceEEEEeecC-CCCccEEEEEeCCHHHHHHHHHhCCceeeeeEEEEEec
Q psy3727          78 RHTVHMRGLPFRANERDVADFFRP-V----VPVHVDIHYEN-GRPSGEADVDFATHEDAMQAMSKDRTNMQHRYIELFLN  151 (232)
Q Consensus        78 ~~~vfV~nLp~~~te~dl~~~F~~-~----~i~~v~i~~d~-g~~kG~afVeF~s~eda~~Al~~~g~~i~gR~I~V~~~  151 (232)
                      .-.|.+++|||++|+.||.+||.+ |    ..+.|.+++.. |+++|.|||.|+.+++|+.||.+|.+.|+-|+|+|+.+
T Consensus       161 qvivRmRGLPfdat~~dVv~FF~~~cpv~~g~egvLFV~rpdgrpTGdAFvlfa~ee~aq~aL~khrq~iGqRYIElFRS  240 (508)
T KOG1365|consen  161 QVIVRMRGLPFDATALDVVEFFGPPCPVTGGTEGVLFVTRPDGRPTGDAFVLFACEEDAQFALRKHRQNIGQRYIELFRS  240 (508)
T ss_pred             ceEEEecCCCCCcchHHHHHhcCCCCcccCCccceEEEECCCCCcccceEEEecCHHHHHHHHHHHHHHHhHHHHHHHHH
Confidence            467888999999999999999974 3    45578888776 99999999999999999999999999999999999999


Q ss_pred             CCCCCC------CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCcceEEEcCCCccccHHHHHhhhC
Q psy3727         152 SSSPRG------GVGGSGSIGGFGGSGGGRLGGFGGSDPSSPFERRNPNQAYVENTALSRSAVKDRAINVQL  217 (232)
Q Consensus       152 ~~~~~~------~~~g~~g~gg~gg~~gg~~gg~g~~~~~~~~~~~~~~~~~v~~~gLp~~~t~~dl~~fF~  217 (232)
                      +.++..      .+.+-..  +       -..+-....+..-.+. .....+|.+++|||++|.+||.+||.
T Consensus       241 TaaEvqqvlnr~~s~pLi~--~-------~~sp~~p~~p~~~~p~-~~~kdcvRLRGLPy~AtvEdIL~Flg  302 (508)
T KOG1365|consen  241 TAAEVQQVLNREVSEPLIP--G-------LTSPLLPGGPARLVPP-TRSKDCVRLRGLPYEATVEDILDFLG  302 (508)
T ss_pred             hHHHHHHHHHhhccccccC--C-------CCCCCCCCCccccCCC-CCCCCeeEecCCChhhhHHHHHHHHH
Confidence            887521      1111000  0       0000000001000111 11256999999999999999999985

>PLN03120 nucleic acid binding protein; Provisional

Probab=99.56  E-value=1.3e-14  Score=125.50  Aligned_cols=75  Identities=23%  Similarity=0.281  Sum_probs=70.0

Q ss_pred             cEEEEcCCCCCCCHHHHHhccCCC-CceEEEEeecCCCCccEEEEEeCCHHHHHHHHHhCCceeeeeEEEEEecCCC
Q psy3727          79 HTVHMRGLPFRANERDVADFFRPV-VPVHVDIHYENGRPSGEADVDFATHEDAMQAMSKDRTNMQHRYIELFLNSSS  154 (232)
Q Consensus        79 ~~vfV~nLp~~~te~dl~~~F~~~-~i~~v~i~~d~g~~kG~afVeF~s~eda~~Al~~~g~~i~gR~I~V~~~~~~  154 (232)
                      .+|||+|||+++||++|++||+.| +|++|.|+.++ .++|||||+|+++++|+.||.+|+..|.+|.|+|.++...
T Consensus         5 rtVfVgNLs~~tTE~dLrefFS~~G~I~~V~I~~d~-~~~GfAFVtF~d~eaAe~AllLnG~~l~gr~V~Vt~a~~~   80 (260)
T PLN03120          5 RTVKVSNVSLKATERDIKEFFSFSGDIEYVEMQSEN-ERSQIAYVTFKDPQGAETALLLSGATIVDQSVTITPAEDY   80 (260)
T ss_pred             CEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEeecC-CCCCEEEEEeCcHHHHHHHHHhcCCeeCCceEEEEeccCC
Confidence            789999999999999999999999 99999999886 3579999999999999999988999999999999998654

>KOG0125|consensus

Probab=99.55  E-value=1.1e-14  Score=127.98  Aligned_cols=77  Identities=22%  Similarity=0.341  Sum_probs=73.1

Q ss_pred             CcEEEEcCCCCCCCHHHHHhccCCC-CceEEEEeecCCCCccEEEEEeCCHHHHHHHHHh-CCceeeeeEEEEEecCCC
Q psy3727          78 RHTVHMRGLPFRANERDVADFFRPV-VPVHVDIHYENGRPSGEADVDFATHEDAMQAMSK-DRTNMQHRYIELFLNSSS  154 (232)
Q Consensus        78 ~~~vfV~nLp~~~te~dl~~~F~~~-~i~~v~i~~d~g~~kG~afVeF~s~eda~~Al~~-~g~~i~gR~I~V~~~~~~  154 (232)
                      ..+|+|.||||...+.||+..|.+| .|++|+|+.+..-+|||+||+|++.+||++|-++ |++.|+||+|||..++.+
T Consensus        96 pkRLhVSNIPFrFRdpDL~aMF~kfG~VldVEIIfNERGSKGFGFVTmen~~dadRARa~LHgt~VEGRkIEVn~ATar  174 (376)
T KOG0125|consen   96 PKRLHVSNIPFRFRDPDLRAMFEKFGKVLDVEIIFNERGSKGFGFVTMENPADADRARAELHGTVVEGRKIEVNNATAR  174 (376)
T ss_pred             CceeEeecCCccccCccHHHHHHhhCceeeEEEEeccCCCCccceEEecChhhHHHHHHHhhcceeeceEEEEeccchh
Confidence            5899999999999999999999999 8999999999855899999999999999999998 999999999999998775

>KOG0149|consensus

Probab=99.55  E-value=5.6e-15  Score=124.76  Aligned_cols=75  Identities=20%  Similarity=0.287  Sum_probs=71.7

Q ss_pred             cEEEEcCCCCCCCHHHHHhccCCC-CceEEEEeecC--CCCccEEEEEeCCHHHHHHHHHhCCceeeeeEEEEEecCC
Q psy3727          79 HTVHMRGLPFRANERDVADFFRPV-VPVHVDIHYEN--GRPSGEADVDFATHEDAMQAMSKDRTNMQHRYIELFLNSS  153 (232)
Q Consensus        79 ~~vfV~nLp~~~te~dl~~~F~~~-~i~~v~i~~d~--g~~kG~afVeF~s~eda~~Al~~~g~~i~gR~I~V~~~~~  153 (232)
                      ..|||+||+|+++.++|+++|++| +|+++.|+.|+  +++|||+||+|.+.|.|++|++...-.|+||+..+.++.-
T Consensus        13 TKifVggL~w~T~~~~l~~yFeqfGeI~eavvitd~~t~rskGyGfVTf~d~~aa~rAc~dp~piIdGR~aNcnlA~l   90 (247)
T KOG0149|consen   13 TKIFVGGLAWETHKETLRRYFEQFGEIVEAVVITDKNTGRSKGYGFVTFRDAEAATRACKDPNPIIDGRKANCNLASL   90 (247)
T ss_pred             EEEEEcCcccccchHHHHHHHHHhCceEEEEEEeccCCccccceeeEEeecHHHHHHHhcCCCCcccccccccchhhh
Confidence            679999999999999999999999 99999999998  9999999999999999999999888899999999988876

>KOG4212|consensus

Probab=99.54  E-value=5.3e-14  Score=127.70  Aligned_cols=78  Identities=19%  Similarity=0.371  Sum_probs=72.9

Q ss_pred             CcEEEEcCCCCCCCHHHHHhccCCC--CceEEEEeecC-CCCccEEEEEeCCHHHHHHHHHh-CCceeeeeEEEEEecCC
Q psy3727          78 RHTVHMRGLPFRANERDVADFFRPV--VPVHVDIHYEN-GRPSGEADVDFATHEDAMQAMSK-DRTNMQHRYIELFLNSS  153 (232)
Q Consensus        78 ~~~vfV~nLp~~~te~dl~~~F~~~--~i~~v~i~~d~-g~~kG~afVeF~s~eda~~Al~~-~g~~i~gR~I~V~~~~~  153 (232)
                      ...|||.||||++.|+||+++|.+.  +|..|.|..|. |+++|+|.|||+++|.+++|+++ |+.++++|+|.|+....
T Consensus        44 ~R~vfItNIpyd~rWqdLKdLvrekvGev~yveLl~D~~GK~rGcavVEFk~~E~~qKa~E~lnk~~~~GR~l~vKEd~d  123 (608)
T KOG4212|consen   44 DRSVFITNIPYDYRWQDLKDLVREKVGEVEYVELLFDESGKARGCAVVEFKDPENVQKALEKLNKYEVNGRELVVKEDHD  123 (608)
T ss_pred             cceEEEecCcchhhhHhHHHHHHHhcCceEeeeeecccCCCcCCceEEEeeCHHHHHHHHHHhhhccccCceEEEeccCc
Confidence            4669999999999999999999976  89999999999 99999999999999999999998 99999999999998766


Q ss_pred             CC
Q psy3727         154 SP  155 (232)
Q Consensus       154 ~~  155 (232)
                      .+
T Consensus       124 ~q  125 (608)
T KOG4212|consen  124 EQ  125 (608)
T ss_pred             hh
Confidence            43

>KOG0113|consensus

Probab=99.53  E-value=4.4e-14  Score=122.89  Aligned_cols=85  Identities=15%  Similarity=0.205  Sum_probs=78.3

Q ss_pred             CcEEEEcCCCCCCCHHHHHhccCCC-CceEEEEeecC--CCCccEEEEEeCCHHHHHHHHHh-CCceeeeeEEEEEecCC
Q psy3727          78 RHTVHMRGLPFRANERDVADFFRPV-VPVHVDIHYEN--GRPSGEADVDFATHEDAMQAMSK-DRTNMQHRYIELFLNSS  153 (232)
Q Consensus        78 ~~~vfV~nLp~~~te~dl~~~F~~~-~i~~v~i~~d~--g~~kG~afVeF~s~eda~~Al~~-~g~~i~gR~I~V~~~~~  153 (232)
                      -+||||.-|+|+++|.+|+..|+.| .|..|+|+.|.  |+++|||||+|+++.++++|.+. ++..|++|.|.|++...
T Consensus       101 y~TLFv~RLnydT~EskLrreF~~YG~IkrirlV~d~vTgkskGYAFIeye~erdm~~AYK~adG~~Idgrri~VDvERg  180 (335)
T KOG0113|consen  101 YKTLFVARLNYDTSESKLRREFEKYGPIKRIRLVRDKVTGKSKGYAFIEYEHERDMKAAYKDADGIKIDGRRILVDVERG  180 (335)
T ss_pred             cceeeeeeccccccHHHHHHHHHhcCcceeEEEeeecccCCccceEEEEeccHHHHHHHHHhccCceecCcEEEEEeccc
Confidence            4899999999999999999999999 89999999998  99999999999999999999998 99999999999999887


Q ss_pred             CCCCCCCCC
Q psy3727         154 SPRGGVGGS  162 (232)
Q Consensus       154 ~~~~~~~g~  162 (232)
                      .....+-.+
T Consensus       181 RTvkgW~PR  189 (335)
T KOG0113|consen  181 RTVKGWLPR  189 (335)
T ss_pred             ccccccccc
Confidence            765555433

>KOG0117|consensus

Probab=99.52  E-value=5.9e-14  Score=127.61  Aligned_cols=102  Identities=15%  Similarity=0.256  Sum_probs=91.8

Q ss_pred             CCCcEEEEcCCCCCCCHHHHHhccCCC-CceEEEEeecC--CCCccEEEEEeCCHHHHHHHHHh-CCcee-eeeEEEEEe
Q psy3727          76 PSRHTVHMRGLPFRANERDVADFFRPV-VPVHVDIHYEN--GRPSGEADVDFATHEDAMQAMSK-DRTNM-QHRYIELFL  150 (232)
Q Consensus        76 ~s~~~vfV~nLp~~~te~dl~~~F~~~-~i~~v~i~~d~--g~~kG~afVeF~s~eda~~Al~~-~g~~i-~gR~I~V~~  150 (232)
                      +-++-|||+.||-++.|+||..+|+.. +|-+++|++|+  |.++|||||+|.+.++|++||+. |.++| .|+.|.|..
T Consensus        81 ~~G~EVfvGkIPrD~~EdeLvplfEkiG~I~elRLMmD~~sG~nRGYAFVtf~~Ke~Aq~Aik~lnn~Eir~GK~igvc~  160 (506)
T KOG0117|consen   81 PRGCEVFVGKIPRDVFEDELVPLFEKIGKIYELRLMMDPFSGDNRGYAFVTFCTKEEAQEAIKELNNYEIRPGKLLGVCV  160 (506)
T ss_pred             CCCceEEecCCCccccchhhHHHHHhccceeeEEEeecccCCCCcceEEEEeecHHHHHHHHHHhhCccccCCCEeEEEE
Confidence            337999999999999999999999999 89999999997  99999999999999999999997 88777 578888876


Q ss_pred             cCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCcceEEEcCCCccccHHHHHhhhCC
Q psy3727         151 NSSSPRGGVGGSGSIGGFGGSGGGRLGGFGGSDPSSPFERRNPNQAYVENTALSRSAVKDRAINVQLC  218 (232)
Q Consensus       151 ~~~~~~~~~~g~~g~gg~gg~~gg~~gg~g~~~~~~~~~~~~~~~~~v~~~gLp~~~t~~dl~~fF~~  218 (232)
                      +-.                                         .+.|+|.|+|-+.+++||.+-|..
T Consensus       161 Sva-----------------------------------------n~RLFiG~IPK~k~keeIlee~~k  187 (506)
T KOG0117|consen  161 SVA-----------------------------------------NCRLFIGNIPKTKKKEEILEEMKK  187 (506)
T ss_pred             eee-----------------------------------------cceeEeccCCccccHHHHHHHHHh
Confidence            543                                         358999999999999999999873

>KOG0131|consensus

Probab=99.51  E-value=4.5e-14  Score=115.26  Aligned_cols=107  Identities=17%  Similarity=0.117  Sum_probs=94.8

Q ss_pred             CcEEEEcCCCCCCCHHHHHhccCCC-CceEEEEeecC--CCCccEEEEEeCCHHHHHHHHHh-CCceeeeeEEEEEecCC
Q psy3727          78 RHTVHMRGLPFRANERDVADFFRPV-VPVHVDIHYEN--GRPSGEADVDFATHEDAMQAMSK-DRTNMQHRYIELFLNSS  153 (232)
Q Consensus        78 ~~~vfV~nLp~~~te~dl~~~F~~~-~i~~v~i~~d~--g~~kG~afVeF~s~eda~~Al~~-~g~~i~gR~I~V~~~~~  153 (232)
                      +.+|||+||+..+|++-|+++|-++ .|++|+|++|+  ..++|||||||.++|||+-||+- |...|-||+|+|..++.
T Consensus         9 d~tiyvgnld~kvs~~~l~EL~iqagpVv~i~iPkDrv~~~~qGygF~Ef~~eedadYAikiln~VkLYgrpIrv~kas~   88 (203)
T KOG0131|consen    9 DATLYVGNLDEKVSEELLYELFIQAGPVVNLHIPKDRVTQKHQGYGFAEFRTEEDADYAIKILNMVKLYGRPIRVNKASA   88 (203)
T ss_pred             CceEEEecCCHHHHHHHHHHHHHhcCceeeeecchhhhcccccceeEEEEechhhhHHHHHHHHHHHhcCceeEEEeccc
Confidence            6899999999999999999999999 78899999999  77999999999999999999997 98899999999998873


Q ss_pred             CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCcceEEEcCCCccccHHHHHhhhCC
Q psy3727         154 SPRGGVGGSGSIGGFGGSGGGRLGGFGGSDPSSPFERRNPNQAYVENTALSRSAVKDRAINVQLC  218 (232)
Q Consensus       154 ~~~~~~~g~~g~gg~gg~~gg~~gg~g~~~~~~~~~~~~~~~~~v~~~gLp~~~t~~dl~~fF~~  218 (232)
                      ..                                  ........+++.||-+.+++.-|.+.|..
T Consensus        89 ~~----------------------------------~nl~vganlfvgNLd~~vDe~~L~dtFsa  119 (203)
T KOG0131|consen   89 HQ----------------------------------KNLDVGANLFVGNLDPEVDEKLLYDTFSA  119 (203)
T ss_pred             cc----------------------------------ccccccccccccccCcchhHHHHHHHHHh
Confidence            31                                  11222357889999999999999999975

>PLN03121 nucleic acid binding protein; Provisional

Probab=99.50  E-value=9.3e-14  Score=118.73  Aligned_cols=76  Identities=21%  Similarity=0.176  Sum_probs=70.4

Q ss_pred             CcEEEEcCCCCCCCHHHHHhccCCC-CceEEEEeecCCCCccEEEEEeCCHHHHHHHHHhCCceeeeeEEEEEecCCC
Q psy3727          78 RHTVHMRGLPFRANERDVADFFRPV-VPVHVDIHYENGRPSGEADVDFATHEDAMQAMSKDRTNMQHRYIELFLNSSS  154 (232)
Q Consensus        78 ~~~vfV~nLp~~~te~dl~~~F~~~-~i~~v~i~~d~g~~kG~afVeF~s~eda~~Al~~~g~~i~gR~I~V~~~~~~  154 (232)
                      +++|||+||++++|++||++||+.| +|.+|+|+.|. ..++||||+|+++++|+.||.++++.|.++.|.|..+...
T Consensus         5 g~TV~V~NLS~~tTE~dLrefFS~~G~I~~V~I~~D~-et~gfAfVtF~d~~aaetAllLnGa~l~d~~I~It~~~~y   81 (243)
T PLN03121          5 GYTAEVTNLSPKATEKDVYDFFSHCGAIEHVEIIRSG-EYACTAYVTFKDAYALETAVLLSGATIVDQRVCITRWGQY   81 (243)
T ss_pred             ceEEEEecCCCCCCHHHHHHHHHhcCCeEEEEEecCC-CcceEEEEEECCHHHHHHHHhcCCCeeCCceEEEEeCccc
Confidence            4899999999999999999999999 99999999884 5668999999999999999999999999999999887654

>TIGR01642 U2AF_lg U2 snRNP auxilliary factor, large subunit, splicing factor

Probab=99.49  E-value=3e-13  Score=127.72  Aligned_cols=77  Identities=9%  Similarity=0.158  Sum_probs=72.1

Q ss_pred             CcEEEEcCCCCCCCHHHHHhccCCC-CceEEEEeecC--CCCccEEEEEeCCHHHHHHHHHh-CCceeeeeEEEEEecCC
Q psy3727          78 RHTVHMRGLPFRANERDVADFFRPV-VPVHVDIHYEN--GRPSGEADVDFATHEDAMQAMSK-DRTNMQHRYIELFLNSS  153 (232)
Q Consensus        78 ~~~vfV~nLp~~~te~dl~~~F~~~-~i~~v~i~~d~--g~~kG~afVeF~s~eda~~Al~~-~g~~i~gR~I~V~~~~~  153 (232)
                      ..+|||+|||+.+|+++|+++|+.| .|..|.|+++.  ++++|||||+|.+.++|+.||+. |+..|.++.|.|.++..
T Consensus       295 ~~~l~v~nlp~~~~~~~l~~~f~~~G~i~~~~~~~~~~~g~~~g~afv~f~~~~~a~~A~~~l~g~~~~~~~l~v~~a~~  374 (509)
T TIGR01642       295 KDRIYIGNLPLYLGEDQIKELLESFGDLKAFNLIKDIATGLSKGYAFCEYKDPSVTDVAIAALNGKDTGDNKLHVQRACV  374 (509)
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEEecCCCCCcCeEEEEEECCHHHHHHHHHHcCCCEECCeEEEEEECcc
Confidence            4899999999999999999999999 88899999886  89999999999999999999986 99999999999999865


Q ss_pred             C
Q psy3727         154 S  154 (232)
Q Consensus       154 ~  154 (232)
                      .
T Consensus       375 ~  375 (509)
T TIGR01642       375 G  375 (509)
T ss_pred             C
Confidence            4

Members of this subfamily are found in plants, metazoa and fungi.

>KOG0127|consensus

Probab=99.48  E-value=8.1e-14  Score=129.31  Aligned_cols=125  Identities=20%  Similarity=0.268  Sum_probs=96.6

Q ss_pred             CcEEEEcCCCCCCCHHHHHhccCCC-CceEEEEeecC--CCCccEEEEEeCCHHHHHHHHHh-CCceeeeeEEEEEecCC
Q psy3727          78 RHTVHMRGLPFRANERDVADFFRPV-VPVHVDIHYEN--GRPSGEADVDFATHEDAMQAMSK-DRTNMQHRYIELFLNSS  153 (232)
Q Consensus        78 ~~~vfV~nLp~~~te~dl~~~F~~~-~i~~v~i~~d~--g~~kG~afVeF~s~eda~~Al~~-~g~~i~gR~I~V~~~~~  153 (232)
                      +.||||++|||++|.++|.+||+.+ .|..+.++++.  ..++||+||+|+=+||++.|++. +.+.++||.|.|.++..
T Consensus         5 g~TlfV~~lp~~~~~~qL~e~FS~vGPik~~~vVt~~gs~~~RGfgfVtFam~ED~qrA~~e~~~~kf~Gr~l~v~~A~~   84 (678)
T KOG0127|consen    5 GATLFVSRLPFSSTGEQLEEFFSYVGPIKHAVVVTNKGSSEKRGFGFVTFAMEEDVQRALAETEQSKFEGRILNVDPAKK   84 (678)
T ss_pred             CceEEEecCCCccchhHHHHhhhcccCcceeEEecCCCcccccCccceeeehHhHHHHHHHHhhcCcccceecccccccc
Confidence            3799999999999999999999999 67788888888  68999999999999999999998 99999999999999988


Q ss_pred             CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC-----C--cceEEEcCCCccccHHHHHhhhCC
Q psy3727         154 SPRGGVGGSGSIGGFGGSGGGRLGGFGGSDPSSPFERRNP-----N--QAYVENTALSRSAVKDRAINVQLC  218 (232)
Q Consensus       154 ~~~~~~~g~~g~gg~gg~~gg~~gg~g~~~~~~~~~~~~~-----~--~~~v~~~gLp~~~t~~dl~~fF~~  218 (232)
                      +++..--.-+                -......+..+..+     +  ...|.++||||+|.+.||+.+|..
T Consensus        85 R~r~e~~~~~----------------e~~~veK~~~q~~~~k~~v~~~k~rLIIRNLPf~~k~~dLk~vFs~  140 (678)
T KOG0127|consen   85 RARSEEVEKG----------------ENKAVEKPIEQKRPTKAKVDLPKWRLIIRNLPFKCKKPDLKNVFSN  140 (678)
T ss_pred             cccchhcccc----------------cchhhhcccccCCcchhhccCccceEEeecCCcccCcHHHHHHHhh
Confidence            7532100000                00001111111111     1  357999999999999999999974

>KOG0107|consensus

Probab=99.47  E-value=2.9e-13  Score=109.93  Aligned_cols=77  Identities=27%  Similarity=0.323  Sum_probs=70.5

Q ss_pred             CcEEEEcCCCCCCCHHHHHhccCCC-CceEEEEeecCCCCccEEEEEeCCHHHHHHHHHh-CCceeeeeEEEEEecCCCC
Q psy3727          78 RHTVHMRGLPFRANERDVADFFRPV-VPVHVDIHYENGRPSGEADVDFATHEDAMQAMSK-DRTNMQHRYIELFLNSSSP  155 (232)
Q Consensus        78 ~~~vfV~nLp~~~te~dl~~~F~~~-~i~~v~i~~d~g~~kG~afVeF~s~eda~~Al~~-~g~~i~gR~I~V~~~~~~~  155 (232)
                      ++.|||+||+.++|+.||+..|..| .+-.|+|..   .+.|||||||+++.||+.|+.. |++.|.|..|+|.+++..+
T Consensus        10 ~~kVYVGnL~~~a~k~eLE~~F~~yG~lrsvWvAr---nPPGfAFVEFed~RDA~DAvr~LDG~~~cG~r~rVE~S~G~~   86 (195)
T KOG0107|consen   10 NTKVYVGNLGSRATKRELERAFSKYGPLRSVWVAR---NPPGFAFVEFEDPRDAEDAVRYLDGKDICGSRIRVELSTGRP   86 (195)
T ss_pred             CceEEeccCCCCcchHHHHHHHHhcCcceeEEEee---cCCCceEEeccCcccHHHHHhhcCCccccCceEEEEeecCCc
Confidence            4899999999999999999999999 677888887   4778999999999999999997 9999999999999999886


Q ss_pred             CC
Q psy3727         156 RG  157 (232)
Q Consensus       156 ~~  157 (232)
                      +.
T Consensus        87 r~   88 (195)
T KOG0107|consen   87 RG   88 (195)
T ss_pred             cc
Confidence            53

>KOG4205|consensus

Probab=99.46  E-value=8.6e-14  Score=123.97  Aligned_cols=113  Identities=15%  Similarity=0.146  Sum_probs=97.4

Q ss_pred             CcEEEEcCCCCCCCHHHHHhccCCC-CceEEEEeecC--CCCccEEEEEeCCHHHHHHHHHhCCceeeeeEEEEEecCCC
Q psy3727          78 RHTVHMRGLPFRANERDVADFFRPV-VPVHVDIHYEN--GRPSGEADVDFATHEDAMQAMSKDRTNMQHRYIELFLNSSS  154 (232)
Q Consensus        78 ~~~vfV~nLp~~~te~dl~~~F~~~-~i~~v~i~~d~--g~~kG~afVeF~s~eda~~Al~~~g~~i~gR~I~V~~~~~~  154 (232)
                      .+.|||++|+|++||+.|+++|++| +|.++.+++|.  ++++||+||+|++++.+.++|....+.|++|.|+++.+.++
T Consensus         6 ~~KlfiGgisw~ttee~Lr~yf~~~Gev~d~~vm~d~~t~rsrgFgfv~f~~~~~v~~vl~~~~h~~dgr~ve~k~av~r   85 (311)
T KOG4205|consen    6 SGKLFIGGLSWETTEESLREYFSQFGEVTDCVVMRDPSTGRSRGFGFVTFATPEGVDAVLNARTHKLDGRSVEPKRAVSR   85 (311)
T ss_pred             CcceeecCcCccccHHHHHHHhcccCceeeEEEeccCCCCCcccccceecCCCcchheeecccccccCCccccceeccCc
Confidence            4899999999999999999999999 99999999998  99999999999999999999998899999999999998887


Q ss_pred             CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCcceEEEcCCCccccHHHHHhhhCCC
Q psy3727         155 PRGGVGGSGSIGGFGGSGGGRLGGFGGSDPSSPFERRNPNQAYVENTALSRSAVKDRAINVQLCP  219 (232)
Q Consensus       155 ~~~~~~g~~g~gg~gg~~gg~~gg~g~~~~~~~~~~~~~~~~~v~~~gLp~~~t~~dl~~fF~~~  219 (232)
                      ......                             ........|+|.+||.++|+++|+++|+..
T Consensus        86 ~~~~~~-----------------------------~~~~~tkkiFvGG~~~~~~e~~~r~yfe~~  121 (311)
T KOG4205|consen   86 EDQTKV-----------------------------GRHLRTKKIFVGGLPPDTTEEDFKDYFEQF  121 (311)
T ss_pred             cccccc-----------------------------ccccceeEEEecCcCCCCchHHHhhhhhcc
Confidence            322100                             001123578999999999999999999853

>KOG0110|consensus

Probab=99.46  E-value=2.1e-13  Score=129.68  Aligned_cols=114  Identities=18%  Similarity=0.286  Sum_probs=91.9

Q ss_pred             EEEEcCCCCCCCHHHHHhccCCC-CceEEEEeecC-CC----CccEEEEEeCCHHHHHHHHHh-CCceeeeeEEEEEecC
Q psy3727          80 TVHMRGLPFRANERDVADFFRPV-VPVHVDIHYEN-GR----PSGEADVDFATHEDAMQAMSK-DRTNMQHRYIELFLNS  152 (232)
Q Consensus        80 ~vfV~nLp~~~te~dl~~~F~~~-~i~~v~i~~d~-g~----~kG~afVeF~s~eda~~Al~~-~g~~i~gR~I~V~~~~  152 (232)
                      +|||+||+|++|.++|...|+.. .|+.|.|.+.+ ..    +.|||||+|.++++|++|++. +++.|+|+.|+|.++.
T Consensus       517 ~lfvkNlnf~Tt~e~l~~~F~k~G~VlS~~I~kkkd~~~k~lSmGfgFVEF~~~e~A~~a~k~lqgtvldGH~l~lk~S~  596 (725)
T KOG0110|consen  517 KLFVKNLNFDTTLEDLEDLFSKQGTVLSIEISKKKDPANKYLSMGFGFVEFAKPESAQAALKALQGTVLDGHKLELKISE  596 (725)
T ss_pred             hhhhhcCCcccchhHHHHHHHhcCeEEEEEEeccccccccccccceeEEEecCHHHHHHHHHHhcCceecCceEEEEecc
Confidence            39999999999999999999999 88888888765 32    569999999999999999998 9999999999999998


Q ss_pred             CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCcceEEEcCCCccccHHHHHhhhCCCC
Q psy3727         153 SSPRGGVGGSGSIGGFGGSGGGRLGGFGGSDPSSPFERRNPNQAYVENTALSRSAVKDRAINVQLCPY  220 (232)
Q Consensus       153 ~~~~~~~~g~~g~gg~gg~~gg~~gg~g~~~~~~~~~~~~~~~~~v~~~gLp~~~t~~dl~~fF~~~~  220 (232)
                      .++....+                         ...... .....|.|+||||.+|..+|+++| |+|
T Consensus       597 ~k~~~~~g-------------------------K~~~~k-k~~tKIlVRNipFeAt~rEVr~LF-~aF  637 (725)
T KOG0110|consen  597 NKPASTVG-------------------------KKKSKK-KKGTKILVRNIPFEATKREVRKLF-TAF  637 (725)
T ss_pred             Cccccccc-------------------------cccccc-cccceeeeeccchHHHHHHHHHHH-hcc
Confidence            44211100                         000011 113579999999999999999999 665

>smart00362 RRM_2 RNA recognition motif

Probab=99.46  E-value=3.8e-13  Score=91.71  Aligned_cols=70  Identities=27%  Similarity=0.400  Sum_probs=64.1

Q ss_pred             EEEEcCCCCCCCHHHHHhccCCC-CceEEEEeecCCCCccEEEEEeCCHHHHHHHHHh-CCceeeeeEEEEE
Q psy3727          80 TVHMRGLPFRANERDVADFFRPV-VPVHVDIHYENGRPSGEADVDFATHEDAMQAMSK-DRTNMQHRYIELF  149 (232)
Q Consensus        80 ~vfV~nLp~~~te~dl~~~F~~~-~i~~v~i~~d~g~~kG~afVeF~s~eda~~Al~~-~g~~i~gR~I~V~  149 (232)
                      +|+|+|||..+++++|+++|+++ .+..+.+..+.+.++++|||+|.+.++|++|++. ++..+.++.|.|.
T Consensus         1 ~v~i~~l~~~~~~~~l~~~~~~~g~v~~~~~~~~~~~~~~~~~v~f~~~~~a~~a~~~~~~~~~~~~~i~v~   72 (72)
T smart00362        1 TLFVGNLPPDVTEEDLKELFSKFGPIESVKIPKDTGKSKGFAFVEFESEEDAEKAIEALNGTKLGGRPLRVE   72 (72)
T ss_pred             CEEEcCCCCcCCHHHHHHHHHhcCCEEEEEEecCCCCCCceEEEEeCCHHHHHHHHHHhCCcEECCEEEeeC
Confidence            58999999999999999999999 7888888877677889999999999999999997 8899999998873

>TIGR01645 half-pint poly-U binding splicing factor, half-pint family

Probab=99.43  E-value=4.5e-13  Score=128.69  Aligned_cols=79  Identities=10%  Similarity=0.186  Sum_probs=74.2

Q ss_pred             CcEEEEcCCCCCCCHHHHHhccCCC-CceEEEEeecC--CCCccEEEEEeCCHHHHHHHHHh-CCceeeeeEEEEEecCC
Q psy3727          78 RHTVHMRGLPFRANERDVADFFRPV-VPVHVDIHYEN--GRPSGEADVDFATHEDAMQAMSK-DRTNMQHRYIELFLNSS  153 (232)
Q Consensus        78 ~~~vfV~nLp~~~te~dl~~~F~~~-~i~~v~i~~d~--g~~kG~afVeF~s~eda~~Al~~-~g~~i~gR~I~V~~~~~  153 (232)
                      .++|||+|||+++++++|+++|+.| .|+.|+|..+.  ++++|||||+|+++++|++||+. |+..|+|+.|+|..+.+
T Consensus       204 ~~rLfVgnLp~~vteedLk~lFs~FG~I~svrl~~D~~tgksKGfGFVeFe~~e~A~kAI~amNg~elgGr~LrV~kAi~  283 (612)
T TIGR01645       204 FNRIYVASVHPDLSETDIKSVFEAFGEIVKCQLARAPTGRGHKGYGFIEYNNLQSQSEAIASMNLFDLGGQYLRVGKCVT  283 (612)
T ss_pred             cceEEeecCCCCCCHHHHHHHHhhcCCeeEEEEEecCCCCCcCCeEEEEECCHHHHHHHHHHhCCCeeCCeEEEEEecCC
Confidence            3799999999999999999999999 89999999987  78999999999999999999998 99999999999999887


Q ss_pred             CCC
Q psy3727         154 SPR  156 (232)
Q Consensus       154 ~~~  156 (232)
                      ++.
T Consensus       284 pP~  286 (612)
T TIGR01645       284 PPD  286 (612)
T ss_pred             Ccc
Confidence            653

In the case of PUF60 (GP|6176532), in complex with p54, and in the presence of U2AF, facilitates association of U2 snRNP with pre-mRNA.

>KOG0122|consensus

Probab=99.42  E-value=6e-13  Score=113.10  Aligned_cols=77  Identities=23%  Similarity=0.347  Sum_probs=73.2

Q ss_pred             CcEEEEcCCCCCCCHHHHHhccCCC-CceEEEEeecC--CCCccEEEEEeCCHHHHHHHHHh-CCceeeeeEEEEEecCC
Q psy3727          78 RHTVHMRGLPFRANERDVADFFRPV-VPVHVDIHYEN--GRPSGEADVDFATHEDAMQAMSK-DRTNMQHRYIELFLNSS  153 (232)
Q Consensus        78 ~~~vfV~nLp~~~te~dl~~~F~~~-~i~~v~i~~d~--g~~kG~afVeF~s~eda~~Al~~-~g~~i~gR~I~V~~~~~  153 (232)
                      ..+|.|.|||.+++|+||+++|.+| .|.+|.|.+|+  |.+||||||.|.+.+||.+||+. |+.-+++--|+|.++++
T Consensus       189 ~~tvRvtNLsed~~E~dL~eLf~~fg~i~rvylardK~TG~~kGFAFVtF~sRddA~rAI~~LnG~gyd~LILrvEwskP  268 (270)
T KOG0122|consen  189 EATVRVTNLSEDMREDDLEELFRPFGPITRVYLARDKETGLSKGFAFVTFESRDDAARAIADLNGYGYDNLILRVEWSKP  268 (270)
T ss_pred             cceeEEecCccccChhHHHHHhhccCccceeEEEEccccCcccceEEEEEecHHHHHHHHHHccCcccceEEEEEEecCC
Confidence            4899999999999999999999999 88899999998  99999999999999999999998 99999999999999987


Q ss_pred             C
Q psy3727         154 S  154 (232)
Q Consensus       154 ~  154 (232)
                      +
T Consensus       269 ~  269 (270)
T KOG0122|consen  269 S  269 (270)
T ss_pred             C
Confidence            5

>KOG0145|consensus

Probab=99.42  E-value=1.2e-12  Score=112.30  Aligned_cols=108  Identities=14%  Similarity=0.235  Sum_probs=95.8

Q ss_pred             CCCCcEEEEcCCCCCCCHHHHHhccCCC-CceEEEEeecC--CCCccEEEEEeCCHHHHHHHHHh-CCceeeeeEEEEEe
Q psy3727          75 GPSRHTVHMRGLPFRANERDVADFFRPV-VPVHVDIHYEN--GRPSGEADVDFATHEDAMQAMSK-DRTNMQHRYIELFL  150 (232)
Q Consensus        75 ~~s~~~vfV~nLp~~~te~dl~~~F~~~-~i~~v~i~~d~--g~~kG~afVeF~s~eda~~Al~~-~g~~i~gR~I~V~~  150 (232)
                      .++...|.|--||-..|++||+.+|... +|+.|.+++|+  |++-||+||.|-+++||++||.. |+-.|+.+.|+|.+
T Consensus        38 ~~skTNLIvNYLPQ~MTqdE~rSLF~SiGeiEScKLvRDKitGqSLGYGFVNYv~p~DAe~AintlNGLrLQ~KTIKVSy  117 (360)
T KOG0145|consen   38 DESKTNLIVNYLPQNMTQDELRSLFGSIGEIESCKLVRDKITGQSLGYGFVNYVRPKDAEKAINTLNGLRLQNKTIKVSY  117 (360)
T ss_pred             CcccceeeeeecccccCHHHHHHHhhcccceeeeeeeeccccccccccceeeecChHHHHHHHhhhcceeeccceEEEEe
Confidence            3445779999999999999999999999 99999999999  99999999999999999999997 99999999999999


Q ss_pred             cCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCcceEEEcCCCccccHHHHHhhhC
Q psy3727         151 NSSSPRGGVGGSGSIGGFGGSGGGRLGGFGGSDPSSPFERRNPNQAYVENTALSRSAVKDRAINVQL  217 (232)
Q Consensus       151 ~~~~~~~~~~g~~g~gg~gg~~gg~~gg~g~~~~~~~~~~~~~~~~~v~~~gLp~~~t~~dl~~fF~  217 (232)
                      +++....                                -+   ...|.|.+||-+.|..||.++|.
T Consensus       118 ARPSs~~--------------------------------Ik---~aNLYvSGlPktMtqkelE~iFs  149 (360)
T KOG0145|consen  118 ARPSSDS--------------------------------IK---DANLYVSGLPKTMTQKELEQIFS  149 (360)
T ss_pred             ccCChhh--------------------------------hc---ccceEEecCCccchHHHHHHHHH
Confidence            9886210                                11   23688899999999999999994

>cd00590 RRM RRM (RNA recognition motif), also known as RBD (RNA binding domain) or RNP (ribonucleoprotein domain), is a highly abundant domain in eukaryotes found in proteins involved in post-transcriptional gene expression processes including mRNA and rRNA processing, RNA export, and RNA stability

Probab=99.41  E-value=1.3e-12  Score=89.53  Aligned_cols=71  Identities=24%  Similarity=0.349  Sum_probs=65.8

Q ss_pred             EEEEcCCCCCCCHHHHHhccCCC-CceEEEEeecC-CCCccEEEEEeCCHHHHHHHHHh-CCceeeeeEEEEEe
Q psy3727          80 TVHMRGLPFRANERDVADFFRPV-VPVHVDIHYEN-GRPSGEADVDFATHEDAMQAMSK-DRTNMQHRYIELFL  150 (232)
Q Consensus        80 ~vfV~nLp~~~te~dl~~~F~~~-~i~~v~i~~d~-g~~kG~afVeF~s~eda~~Al~~-~g~~i~gR~I~V~~  150 (232)
                      +|+|+|||+.+++++|+++|+.+ .|..+.+..+. ..++++|||+|.+.++|+.|++. ++..++++.|.|.+
T Consensus         1 ~i~i~~l~~~~~~~~i~~~~~~~g~i~~~~~~~~~~~~~~~~~~v~f~s~~~a~~a~~~~~~~~~~~~~~~v~~   74 (74)
T cd00590           1 TLFVGNLPPDVTEEDLRELFSKFGKVESVRIVRDKDTKSKGFAFVEFEDEEDAEKALEALNGKELGGRPLRVEF   74 (74)
T ss_pred             CEEEeCCCCccCHHHHHHHHHhcCCEEEEEEeeCCCCCcceEEEEEECCHHHHHHHHHHhCCCeECCeEEEEeC
Confidence            48999999999999999999999 88899999887 77899999999999999999998 88889999998863

This domain is 90 amino acids in length and consists of a four-stranded beta-sheet packed against two alpha-helices. RRM usually interacts with ssRNA, but is also known to interact with ssDNA as well as proteins. RRM binds a variable number of nucleotides, ranging from two to eight. The active site includes three aromatic side-chains located within the conserved RNP1 and RNP2 motifs of the domain. The RRM domain is found in a variety heterogeneous nuclear ribonucleoproteins (hnRNPs), proteins implicated in regulation of alternative splicing, and protein components of small nuclear ribonucleoproteins (snRNPs).

>KOG4207|consensus

Probab=99.41  E-value=3.4e-13  Score=112.20  Aligned_cols=76  Identities=20%  Similarity=0.273  Sum_probs=72.6

Q ss_pred             cEEEEcCCCCCCCHHHHHhccCCC-CceEEEEeecC--CCCccEEEEEeCCHHHHHHHHHh-CCceeeeeEEEEEecCCC
Q psy3727          79 HTVHMRGLPFRANERDVADFFRPV-VPVHVDIHYEN--GRPSGEADVDFATHEDAMQAMSK-DRTNMQHRYIELFLNSSS  154 (232)
Q Consensus        79 ~~vfV~nLp~~~te~dl~~~F~~~-~i~~v~i~~d~--g~~kG~afVeF~s~eda~~Al~~-~g~~i~gR~I~V~~~~~~  154 (232)
                      .+|.|-||.|.+|.++|+.+|+.| .|.+|.|+.|+  ..++|||||.|.+..||+.||+. |+.+|+||.|.|.+|.--
T Consensus        14 ~SLkVdNLTyRTspd~LrrvFekYG~vgDVyIPrdr~Tr~sRgFaFVrf~~k~daedA~damDG~~ldgRelrVq~aryg   93 (256)
T KOG4207|consen   14 TSLKVDNLTYRTSPDDLRRVFEKYGRVGDVYIPRDRYTRQSRGFAFVRFHDKRDAEDALDAMDGAVLDGRELRVQMARYG   93 (256)
T ss_pred             eeEEecceeccCCHHHHHHHHHHhCcccceecccccccccccceeEEEeeecchHHHHHHhhcceeeccceeeehhhhcC
Confidence            689999999999999999999999 89999999999  88999999999999999999998 999999999999988654

>COG0724 RNA-binding proteins (RRM domain) [General function prediction only]

Probab=99.41  E-value=8.9e-13  Score=111.04  Aligned_cols=126  Identities=17%  Similarity=0.250  Sum_probs=93.9

Q ss_pred             cEEEEcCCCCCCCHHHHHhccCCC-CceEEEEeecC--CCCccEEEEEeCCHHHHHHHHHh-CCceeeeeEEEEEecCC-
Q psy3727          79 HTVHMRGLPFRANERDVADFFRPV-VPVHVDIHYEN--GRPSGEADVDFATHEDAMQAMSK-DRTNMQHRYIELFLNSS-  153 (232)
Q Consensus        79 ~~vfV~nLp~~~te~dl~~~F~~~-~i~~v~i~~d~--g~~kG~afVeF~s~eda~~Al~~-~g~~i~gR~I~V~~~~~-  153 (232)
                      ++|||+|||+++|+++|.++|++| .+..|.|..++  ++++|+|||+|.++++|..|++. ++..|.++.|.|..+.. 
T Consensus       116 ~~l~v~nL~~~~~~~~l~~~F~~~g~~~~~~~~~d~~~~~~~g~~~v~f~~~~~~~~a~~~~~~~~~~~~~~~v~~~~~~  195 (306)
T COG0724         116 NTLFVGNLPYDVTEEDLRELFKKFGPVKRVRLVRDRETGKSRGFAFVEFESEESAEKAIEELNGKELEGRPLRVQKAQPA  195 (306)
T ss_pred             ceEEEeCCCCCCCHHHHHHHHHhcCceeEEEeeeccccCccCceEEEEecCHHHHHHHHHHcCCCeECCceeEeeccccc
Confidence            899999999999999999999999 78899999996  99999999999999999999998 88999999999999653 


Q ss_pred             -CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCcceEEEcCCCccccHHHHHhhhC
Q psy3727         154 -SPRGGVGGSGSIGGFGGSGGGRLGGFGGSDPSSPFERRNPNQAYVENTALSRSAVKDRAINVQL  217 (232)
Q Consensus       154 -~~~~~~~g~~g~gg~gg~~gg~~gg~g~~~~~~~~~~~~~~~~~v~~~gLp~~~t~~dl~~fF~  217 (232)
                       .++......            ......... .............+.+.++++.++..++...|.
T Consensus       196 ~~~~~~~~~~------------~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  247 (306)
T COG0724         196 SQPRSELSNN------------LDASFAKKL-SRGKALLLEKSDNLYVGNLPLKTAEEELADLFK  247 (306)
T ss_pred             cccccccccc------------cchhhhccc-cccccccccccceeeccccccccchhHHHHhcc
Confidence             111110000            000000000 000011122245688889999999999999985

>TIGR01622 SF-CC1 splicing factor, CC1-like family

Probab=99.40  E-value=1.1e-12  Score=122.40  Aligned_cols=76  Identities=21%  Similarity=0.331  Sum_probs=71.3

Q ss_pred             CcEEEEcCCCCCCCHHHHHhccCCC-CceEEEEeecC--CCCccEEEEEeCCHHHHHHHHHh-CCceeeeeEEEEEecCC
Q psy3727          78 RHTVHMRGLPFRANERDVADFFRPV-VPVHVDIHYEN--GRPSGEADVDFATHEDAMQAMSK-DRTNMQHRYIELFLNSS  153 (232)
Q Consensus        78 ~~~vfV~nLp~~~te~dl~~~F~~~-~i~~v~i~~d~--g~~kG~afVeF~s~eda~~Al~~-~g~~i~gR~I~V~~~~~  153 (232)
                      ..+|||+|||+++|+++|+++|++| .|+.|.|+.+.  ++++|||||+|.+.++|++||+. |+..|.++.|.|.++..
T Consensus       186 ~~~l~v~nl~~~~te~~l~~~f~~~G~i~~v~~~~d~~~g~~~g~afV~f~~~e~A~~A~~~l~g~~i~g~~i~v~~a~~  265 (457)
T TIGR01622       186 FLKLYVGNLHFNITEQELRQIFEPFGDIEDVQLHRDPETGRSKGFGFIQFHDAEEAKEALEVMNGFELAGRPIKVGYAQD  265 (457)
T ss_pred             CCEEEEcCCCCCCCHHHHHHHHHhcCCeEEEEEEEcCCCCccceEEEEEECCHHHHHHHHHhcCCcEECCEEEEEEEccC
Confidence            3799999999999999999999999 88899999987  69999999999999999999986 99999999999999754

A homologous gene from Plasmodium falciparum was identified in the course of the analysis of that genome at TIGR and was included in the model.

>KOG0117|consensus

Probab=99.39  E-value=9.6e-13  Score=119.76  Aligned_cols=109  Identities=14%  Similarity=0.118  Sum_probs=91.8

Q ss_pred             CcEEEEcCCCCCCCHHHHHhccCCC--CceEEEEeecC---CCCccEEEEEeCCHHHHHHHHHh---CCceeeeeEEEEE
Q psy3727          78 RHTVHMRGLPFRANERDVADFFRPV--VPVHVDIHYEN---GRPSGEADVDFATHEDAMQAMSK---DRTNMQHRYIELF  149 (232)
Q Consensus        78 ~~~vfV~nLp~~~te~dl~~~F~~~--~i~~v~i~~d~---g~~kG~afVeF~s~eda~~Al~~---~g~~i~gR~I~V~  149 (232)
                      +++|||+|+|-+-++++|.+-|++.  .|++|.|....   .+++|||||+|+|+..|..|-.+   ..-.+.|..|.|.
T Consensus       164 n~RLFiG~IPK~k~keeIlee~~kVteGVvdVivy~~p~dk~KNRGFaFveYe~H~~Aa~aRrKl~~g~~klwgn~~tVd  243 (506)
T KOG0117|consen  164 NCRLFIGNIPKTKKKEEILEEMKKVTEGVVDVIVYPSPDDKTKNRGFAFVEYESHRAAAMARRKLMPGKIKLWGNAITVD  243 (506)
T ss_pred             cceeEeccCCccccHHHHHHHHHhhCCCeeEEEEecCccccccccceEEEEeecchhHHHHHhhccCCceeecCCcceee
Confidence            5999999999999999999999998  78898887655   88999999999999999999987   4567899999999


Q ss_pred             ecCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCc-ceEEEcCCCccccHHHHHhhhC
Q psy3727         150 LNSSSPRGGVGGSGSIGGFGGSGGGRLGGFGGSDPSSPFERRNPNQ-AYVENTALSRSAVKDRAINVQL  217 (232)
Q Consensus       150 ~~~~~~~~~~~g~~g~gg~gg~~gg~~gg~g~~~~~~~~~~~~~~~-~~v~~~gLp~~~t~~dl~~fF~  217 (232)
                      ++.+....                              ..+ .... ..|+|+||+-++|+|.|+++|+
T Consensus       244 WAep~~e~------------------------------ded-~ms~VKvLYVRNL~~~tTeE~lk~~F~  281 (506)
T KOG0117|consen  244 WAEPEEEP------------------------------DED-TMSKVKVLYVRNLMESTTEETLKKLFN  281 (506)
T ss_pred             ccCcccCC------------------------------Chh-hhhheeeeeeeccchhhhHHHHHHHHH
Confidence            99887311                              111 1112 3589999999999999999996

>KOG0109|consensus

Probab=99.38  E-value=5.3e-13  Score=115.94  Aligned_cols=96  Identities=14%  Similarity=0.130  Sum_probs=86.7

Q ss_pred             cEEEEcCCCCCCCHHHHHhccCCC-CceEEEEeecCCCCccEEEEEeCCHHHHHHHHHh-CCceeeeeEEEEEecCCCCC
Q psy3727          79 HTVHMRGLPFRANERDVADFFRPV-VPVHVDIHYENGRPSGEADVDFATHEDAMQAMSK-DRTNMQHRYIELFLNSSSPR  156 (232)
Q Consensus        79 ~~vfV~nLp~~~te~dl~~~F~~~-~i~~v~i~~d~g~~kG~afVeF~s~eda~~Al~~-~g~~i~gR~I~V~~~~~~~~  156 (232)
                      ..|||+|||-++++++|+.+|++| +|+.+.|+++      |+||..++...++.||.. ++..|+|..|.|..++.+  
T Consensus         3 ~KLFIGNLp~~~~~~elr~lFe~ygkVlECDIvKN------YgFVHiEdktaaedairNLhgYtLhg~nInVeaSksK--   74 (346)
T KOG0109|consen    3 VKLFIGNLPREATEQELRSLFEQYGKVLECDIVKN------YGFVHIEDKTAAEDAIRNLHGYTLHGVNINVEASKSK--   74 (346)
T ss_pred             cchhccCCCcccchHHHHHHHHhhCceEeeeeecc------cceEEeecccccHHHHhhcccceecceEEEEEecccc--
Confidence            469999999999999999999999 9999999876      999999999999999996 999999999999987665  


Q ss_pred             CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCcceEEEcCCCccccHHHHHhhhC
Q psy3727         157 GGVGGSGSIGGFGGSGGGRLGGFGGSDPSSPFERRNPNQAYVENTALSRSAVKDRAINVQL  217 (232)
Q Consensus       157 ~~~~g~~g~gg~gg~~gg~~gg~g~~~~~~~~~~~~~~~~~v~~~gLp~~~t~~dl~~fF~  217 (232)
                                                         +.....++|.||.+.+|.+||++.|+
T Consensus        75 -----------------------------------sk~stkl~vgNis~tctn~ElRa~fe  100 (346)
T KOG0109|consen   75 -----------------------------------SKASTKLHVGNISPTCTNQELRAKFE  100 (346)
T ss_pred             -----------------------------------CCCccccccCCCCccccCHHHhhhhc
Confidence                                               11235789999999999999999995

>PLN03213 repressor of silencing 3; Provisional

Probab=99.38  E-value=1.3e-12  Score=120.41  Aligned_cols=75  Identities=17%  Similarity=0.224  Sum_probs=69.5

Q ss_pred             CcEEEEcCCCCCCCHHHHHhccCCC-CceEEEEeecCCCCccEEEEEeCCH--HHHHHHHHh-CCceeeeeEEEEEecCC
Q psy3727          78 RHTVHMRGLPFRANERDVADFFRPV-VPVHVDIHYENGRPSGEADVDFATH--EDAMQAMSK-DRTNMQHRYIELFLNSS  153 (232)
Q Consensus        78 ~~~vfV~nLp~~~te~dl~~~F~~~-~i~~v~i~~d~g~~kG~afVeF~s~--eda~~Al~~-~g~~i~gR~I~V~~~~~  153 (232)
                      .-+|||+||+|++|++||.+.|++| .|.+|.|+++.|  +|||||+|.+.  .++++||+. |+..+.||.|+|..+++
T Consensus        10 gMRIYVGNLSydVTEDDLravFSeFGsVkdVEIpRETG--RGFAFVEMssdddaEeeKAISaLNGAEWKGR~LKVNKAKP   87 (759)
T PLN03213         10 GVRLHVGGLGESVGRDDLLKIFSPMGTVDAVEFVRTKG--RSFAYIDFSPSSTNSLTKLFSTYNGCVWKGGRLRLEKAKE   87 (759)
T ss_pred             ceEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEecccC--CceEEEEecCCcHHHHHHHHHHhcCCeecCceeEEeeccH
Confidence            5789999999999999999999999 899999996657  89999999987  789999997 99999999999999877


Q ss_pred             C
Q psy3727         154 S  154 (232)
Q Consensus       154 ~  154 (232)
                      .
T Consensus        88 ~   88 (759)
T PLN03213         88 H   88 (759)
T ss_pred             H
Confidence            3

>smart00360 RRM RNA recognition motif

Probab=99.38  E-value=1.7e-12  Score=87.98  Aligned_cols=66  Identities=23%  Similarity=0.404  Sum_probs=61.2

Q ss_pred             EcCCCCCCCHHHHHhccCCC-CceEEEEeecC--CCCccEEEEEeCCHHHHHHHHHh-CCceeeeeEEEE
Q psy3727          83 MRGLPFRANERDVADFFRPV-VPVHVDIHYEN--GRPSGEADVDFATHEDAMQAMSK-DRTNMQHRYIEL  148 (232)
Q Consensus        83 V~nLp~~~te~dl~~~F~~~-~i~~v~i~~d~--g~~kG~afVeF~s~eda~~Al~~-~g~~i~gR~I~V  148 (232)
                      |+|||+.+++++|+++|++| .|..+.|..++  ++++++|||+|.+.++|++|++. ++..++++.|.|
T Consensus         1 i~~l~~~~~~~~l~~~f~~~g~v~~~~i~~~~~~~~~~~~a~v~f~~~~~a~~a~~~~~~~~~~~~~~~v   70 (71)
T smart00360        1 VGNLPPDVTEEELRELFSKFGKIESVRLVRDKDTGKSKGFAFVEFESEEDAEKALEALNGKELDGRPLKV   70 (71)
T ss_pred             CCCCCcccCHHHHHHHHHhhCCEeEEEEEeCCCCCCCCceEEEEeCCHHHHHHHHHHcCCCeeCCcEEEe
Confidence            67999999999999999999 78899998876  78899999999999999999997 889999999887

>KOG0130|consensus

Probab=99.37  E-value=7.9e-13  Score=103.42  Aligned_cols=83  Identities=17%  Similarity=0.221  Sum_probs=76.3

Q ss_pred             CCCCCCCCcEEEEcCCCCCCCHHHHHhccCCC-CceEEEEeecC--CCCccEEEEEeCCHHHHHHHHHh-CCceeeeeEE
Q psy3727          71 NESSGPSRHTVHMRGLPFRANERDVADFFRPV-VPVHVDIHYEN--GRPSGEADVDFATHEDAMQAMSK-DRTNMQHRYI  146 (232)
Q Consensus        71 ~~~~~~s~~~vfV~nLp~~~te~dl~~~F~~~-~i~~v~i~~d~--g~~kG~afVeF~s~eda~~Al~~-~g~~i~gR~I  146 (232)
                      ...+.+ ++.|||.++..++||+||.+.|..| +|..|+|-.|+  |-.||||.|||++.++|++||+. |+..|-+..|
T Consensus        66 PqrSVE-GwIi~VtgvHeEatEedi~d~F~dyGeiKNihLNLDRRtGy~KGYaLvEYet~keAq~A~~~~Ng~~ll~q~v  144 (170)
T KOG0130|consen   66 PQRSVE-GWIIFVTGVHEEATEEDIHDKFADYGEIKNIHLNLDRRTGYVKGYALVEYETLKEAQAAIDALNGAELLGQNV  144 (170)
T ss_pred             Ccccee-eEEEEEeccCcchhHHHHHHHHhhcccccceeeccccccccccceeeeehHhHHHHHHHHHhccchhhhCCce
Confidence            333443 4999999999999999999999999 99999999998  99999999999999999999997 9999999999


Q ss_pred             EEEecCCC
Q psy3727         147 ELFLNSSS  154 (232)
Q Consensus       147 ~V~~~~~~  154 (232)
                      .|.++..+
T Consensus       145 ~VDw~Fv~  152 (170)
T KOG0130|consen  145 SVDWCFVK  152 (170)
T ss_pred             eEEEEEec
Confidence            99999776

>KOG0126|consensus

Probab=99.32  E-value=4.6e-13  Score=109.43  Aligned_cols=76  Identities=18%  Similarity=0.294  Sum_probs=71.7

Q ss_pred             cEEEEcCCCCCCCHHHHHhccCCC-CceEEEEeecC--CCCccEEEEEeCCHHHHHHHHHh-CCceeeeeEEEEEecCCC
Q psy3727          79 HTVHMRGLPFRANERDVADFFRPV-VPVHVDIHYEN--GRPSGEADVDFATHEDAMQAMSK-DRTNMQHRYIELFLNSSS  154 (232)
Q Consensus        79 ~~vfV~nLp~~~te~dl~~~F~~~-~i~~v~i~~d~--g~~kG~afVeF~s~eda~~Al~~-~g~~i~gR~I~V~~~~~~  154 (232)
                      ..|||+||||+.||.||.-.|++| +||+|.|+.|+  |++|||||+.|++..+-.-|+.. |+..|.+|.|+|+-....
T Consensus        36 A~Iyiggl~~~LtEgDil~VFSqyGe~vdinLiRDk~TGKSKGFaFLcYEDQRSTILAVDN~NGiki~gRtirVDHv~~Y  115 (219)
T KOG0126|consen   36 AYIYIGGLPYELTEGDILCVFSQYGEIVDINLIRDKKTGKSKGFAFLCYEDQRSTILAVDNLNGIKILGRTIRVDHVSNY  115 (219)
T ss_pred             eEEEECCCcccccCCcEEEEeeccCceEEEEEEecCCCCcccceEEEEecCccceEEEEeccCCceecceeEEeeecccc
Confidence            799999999999999999999999 99999999998  99999999999999999999998 999999999999766543

>KOG0108|consensus

Probab=99.29  E-value=5.9e-12  Score=116.77  Aligned_cols=77  Identities=19%  Similarity=0.414  Sum_probs=74.1

Q ss_pred             cEEEEcCCCCCCCHHHHHhccCCC-CceEEEEeecC--CCCccEEEEEeCCHHHHHHHHHh-CCceeeeeEEEEEecCCC
Q psy3727          79 HTVHMRGLPFRANERDVADFFRPV-VPVHVDIHYEN--GRPSGEADVDFATHEDAMQAMSK-DRTNMQHRYIELFLNSSS  154 (232)
Q Consensus        79 ~~vfV~nLp~~~te~dl~~~F~~~-~i~~v~i~~d~--g~~kG~afVeF~s~eda~~Al~~-~g~~i~gR~I~V~~~~~~  154 (232)
                      ++|||+|+||+++|++|.++|++. .|+.+++++|+  |++|||||++|.++++|+.|++. |+.++.+|+|+|.++...
T Consensus        19 ~~v~vgnip~~~se~~l~~~~~~~g~v~s~~~v~D~~tG~~~G~~f~~~~~~~~~~~a~~~lNg~~~~gr~l~v~~~~~~   98 (435)
T KOG0108|consen   19 SSVFVGNIPYEGSEEQLLSIFSGVGPVLSFRLVYDRETGKPKGFGFCEFTDEETAERAIRNLNGAEFNGRKLRVNYASNR   98 (435)
T ss_pred             cceEecCCCCcccHHHHHHHHhccCccceeeecccccCCCcCceeeEecCchhhHHHHHHhcCCcccCCceEEeeccccc
Confidence            789999999999999999999999 88999999998  99999999999999999999998 999999999999998876


Q ss_pred             C
Q psy3727         155 P  155 (232)
Q Consensus       155 ~  155 (232)
                      +
T Consensus        99 ~   99 (435)
T KOG0108|consen   99 K   99 (435)
T ss_pred             c
Confidence            5

>KOG0144|consensus

Probab=99.26  E-value=8.1e-12  Score=113.40  Aligned_cols=106  Identities=13%  Similarity=0.233  Sum_probs=88.8

Q ss_pred             CcEEEEcCCCCCCCHHHHHhccCCC-CceEEEEeecC--CCCccEEEEEeCCHHHHHHHHHh--CCceeee--eEEEEEe
Q psy3727          78 RHTVHMRGLPFRANERDVADFFRPV-VPVHVDIHYEN--GRPSGEADVDFATHEDAMQAMSK--DRTNMQH--RYIELFL  150 (232)
Q Consensus        78 ~~~vfV~nLp~~~te~dl~~~F~~~-~i~~v~i~~d~--g~~kG~afVeF~s~eda~~Al~~--~g~~i~g--R~I~V~~  150 (232)
                      .-.+||+-+|-.+||+||+++|++| .|.+|.|++|+  +.++|||||.|.+.+||.+|+..  |.+.|-|  ..|.|++
T Consensus        34 ~vKlfVgqIprt~sE~dlr~lFe~yg~V~einl~kDk~t~~s~gcCFv~~~trk~a~~a~~Alhn~ktlpG~~~pvqvk~  113 (510)
T KOG0144|consen   34 AVKLFVGQIPRTASEKDLRELFEKYGNVYEINLIKDKSTGQSKGCCFVKYYTRKEADEAINALHNQKTLPGMHHPVQVKY  113 (510)
T ss_pred             hhhheeccCCccccHHHHHHHHHHhCceeEEEeecccccCcccceEEEEeccHHHHHHHHHHhhcccccCCCCcceeecc
Confidence            4789999999999999999999999 88899999999  99999999999999999999996  6666654  5678877


Q ss_pred             cCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCcceEEEcCCCccccHHHHHhhhC
Q psy3727         151 NSSSPRGGVGGSGSIGGFGGSGGGRLGGFGGSDPSSPFERRNPNQAYVENTALSRSAVKDRAINVQL  217 (232)
Q Consensus       151 ~~~~~~~~~~g~~g~gg~gg~~gg~~gg~g~~~~~~~~~~~~~~~~~v~~~gLp~~~t~~dl~~fF~  217 (232)
                      +.....                                  +-.....|+|+-|+-.+||.||+++|.
T Consensus       114 Ad~E~e----------------------------------r~~~e~KLFvg~lsK~~te~evr~iFs  146 (510)
T KOG0144|consen  114 ADGERE----------------------------------RIVEERKLFVGMLSKQCTENEVREIFS  146 (510)
T ss_pred             cchhhh----------------------------------ccccchhhhhhhccccccHHHHHHHHH
Confidence            655411                                  112233678888999999999999996

>KOG4212|consensus

Probab=99.26  E-value=2.2e-11  Score=110.84  Aligned_cols=70  Identities=30%  Similarity=0.438  Sum_probs=65.3

Q ss_pred             CcEEEEcCCCCCCCHHHHHhccCCC-CceEEEEeecCCCCccEEEEEeCCHHHHHHHHHh-CCceeeeeEEEEEe
Q psy3727          78 RHTVHMRGLPFRANERDVADFFRPV-VPVHVDIHYENGRPSGEADVDFATHEDAMQAMSK-DRTNMQHRYIELFL  150 (232)
Q Consensus        78 ~~~vfV~nLp~~~te~dl~~~F~~~-~i~~v~i~~d~g~~kG~afVeF~s~eda~~Al~~-~g~~i~gR~I~V~~  150 (232)
                      .++|||+|||+++||+.|++-|.+| .|..+.| +.+|++||  .|.|.++++|+.|+.. |+..|++|.|+|.+
T Consensus       536 a~qIiirNlP~dfTWqmlrDKfre~G~v~yadi-me~GkskG--VVrF~s~edAEra~a~Mngs~l~Gr~I~V~y  607 (608)
T KOG4212|consen  536 ACQIIIRNLPFDFTWQMLRDKFREIGHVLYADI-MENGKSKG--VVRFFSPEDAERACALMNGSRLDGRNIKVTY  607 (608)
T ss_pred             ccEEEEecCCccccHHHHHHHHHhccceehhhh-hccCCccc--eEEecCHHHHHHHHHHhccCcccCceeeeee
Confidence            3999999999999999999999999 8888888 66688988  9999999999999998 99999999999976

>KOG0123|consensus

Probab=99.26  E-value=1.5e-11  Score=112.44  Aligned_cols=114  Identities=15%  Similarity=0.158  Sum_probs=93.4

Q ss_pred             EEEEcCCCCCCCHHHHHhccCCC-CceEEEEeecC-CCCccEEEEEeCCHHHHHHHHHh-CCceeeeeEEEEEecCCCCC
Q psy3727          80 TVHMRGLPFRANERDVADFFRPV-VPVHVDIHYEN-GRPSGEADVDFATHEDAMQAMSK-DRTNMQHRYIELFLNSSSPR  156 (232)
Q Consensus        80 ~vfV~nLp~~~te~dl~~~F~~~-~i~~v~i~~d~-g~~kG~afVeF~s~eda~~Al~~-~g~~i~gR~I~V~~~~~~~~  156 (232)
                      .|||.||+.+++.++|.++|+.| +|+.|.+..+. | +||+ ||+|+++++|++||++ |+..+.++.|.|-+...++.
T Consensus        78 ~~~i~nl~~~~~~~~~~d~f~~~g~ilS~kv~~~~~g-~kg~-FV~f~~e~~a~~ai~~~ng~ll~~kki~vg~~~~~~e  155 (369)
T KOG0123|consen   78 LVFIKNLDESIDNKSLYDTFSEFGNILSCKVATDENG-SKGY-FVQFESEESAKKAIEKLNGMLLNGKKIYVGLFERKEE  155 (369)
T ss_pred             eeeecCCCcccCcHHHHHHHHhhcCeeEEEEEEcCCC-ceee-EEEeCCHHHHHHHHHHhcCcccCCCeeEEeeccchhh
Confidence            49999999999999999999999 99999999999 7 9999 9999999999999998 99999999999988877643


Q ss_pred             CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCcceEEEcCCCccccHHHHHhhhCCCCCC
Q psy3727         157 GGVGGSGSIGGFGGSGGGRLGGFGGSDPSSPFERRNPNQAYVENTALSRSAVKDRAINVQLCPYHR  222 (232)
Q Consensus       157 ~~~~g~~g~gg~gg~~gg~~gg~g~~~~~~~~~~~~~~~~~v~~~gLp~~~t~~dl~~fF~~~~~~  222 (232)
                      +..                           +.......-.-|.+.+++.++|.++|.++|...-+.
T Consensus       156 r~~---------------------------~~~~~~~~~t~v~vk~~~~~~~~~~l~~~f~~~g~i  194 (369)
T KOG0123|consen  156 REA---------------------------PLGEYKKRFTNVYVKNLEEDSTDEELKDLFSAYGSI  194 (369)
T ss_pred             hcc---------------------------cccchhhhhhhhheeccccccchHHHHHhhcccCcc
Confidence            220                           000011112346677899999999999999765433

>KOG0114|consensus

Probab=99.25  E-value=3.9e-11  Score=89.99  Aligned_cols=76  Identities=21%  Similarity=0.349  Sum_probs=68.7

Q ss_pred             CcEEEEcCCCCCCCHHHHHhccCCC-CceEEEEeecCCCCccEEEEEeCCHHHHHHHHHh-CCceeeeeEEEEEecCCC
Q psy3727          78 RHTVHMRGLPFRANERDVADFFRPV-VPVHVDIHYENGRPSGEADVDFATHEDAMQAMSK-DRTNMQHRYIELFLNSSS  154 (232)
Q Consensus        78 ~~~vfV~nLp~~~te~dl~~~F~~~-~i~~v~i~~d~g~~kG~afVeF~s~eda~~Al~~-~g~~i~gR~I~V~~~~~~  154 (232)
                      ...|||+||||++|.+++.++|..| .|..|+|-.++ ..+|-|||.|++..||++|++. ++..+.+|++.|.+-.+.
T Consensus        18 nriLyirNLp~~ITseemydlFGkyg~IrQIRiG~~k-~TrGTAFVVYedi~dAk~A~dhlsg~n~~~ryl~vlyyq~~   95 (124)
T KOG0114|consen   18 NRILYIRNLPFKITSEEMYDLFGKYGTIRQIRIGNTK-ETRGTAFVVYEDIFDAKKACDHLSGYNVDNRYLVVLYYQPE   95 (124)
T ss_pred             heeEEEecCCccccHHHHHHHhhcccceEEEEecCcc-CcCceEEEEehHhhhHHHHHHHhcccccCCceEEEEecCHH
Confidence            6899999999999999999999999 88888886554 4679999999999999999998 999999999999876654

>KOG0111|consensus

Probab=99.24  E-value=6.7e-12  Score=105.48  Aligned_cols=78  Identities=22%  Similarity=0.299  Sum_probs=74.3

Q ss_pred             CcEEEEcCCCCCCCHHHHHhccCCC-CceEEEEeecC--CCCccEEEEEeCCHHHHHHHHHh-CCceeeeeEEEEEecCC
Q psy3727          78 RHTVHMRGLPFRANERDVADFFRPV-VPVHVDIHYEN--GRPSGEADVDFATHEDAMQAMSK-DRTNMQHRYIELFLNSS  153 (232)
Q Consensus        78 ~~~vfV~nLp~~~te~dl~~~F~~~-~i~~v~i~~d~--g~~kG~afVeF~s~eda~~Al~~-~g~~i~gR~I~V~~~~~  153 (232)
                      ..+|||++|..++||.-|...|-+| .|++|.|+.|.  ++++|||||+|+..|||.+||.. |..+|-||.|+|.++.+
T Consensus        10 KrtlYVGGladeVtekvLhaAFIPFGDI~dIqiPlDyesqkHRgFgFVefe~aEDAaaAiDNMnesEL~GrtirVN~AkP   89 (298)
T KOG0111|consen   10 KRTLYVGGLADEVTEKVLHAAFIPFGDIKDIQIPLDYESQKHRGFGFVEFEEAEDAAAAIDNMNESELFGRTIRVNLAKP   89 (298)
T ss_pred             ceeEEeccchHHHHHHHHHhccccccchhhcccccchhcccccceeEEEeeccchhHHHhhcCchhhhcceeEEEeecCC
Confidence            4899999999999999999999999 99999999987  99999999999999999999998 99999999999999988


Q ss_pred             CC
Q psy3727         154 SP  155 (232)
Q Consensus       154 ~~  155 (232)
                      ..
T Consensus        90 ~k   91 (298)
T KOG0111|consen   90 EK   91 (298)
T ss_pred             cc
Confidence            64

>KOG0124|consensus

Probab=99.22  E-value=4.6e-12  Score=113.09  Aligned_cols=127  Identities=15%  Similarity=0.191  Sum_probs=97.1

Q ss_pred             cEEEEcCCCCCCCHHHHHhccCCC-CceEEEEeecC--CCCccEEEEEeCCHHHHHHHHHh-CCceeeeeEEEEEecCCC
Q psy3727          79 HTVHMRGLPFRANERDVADFFRPV-VPVHVDIHYEN--GRPSGEADVDFATHEDAMQAMSK-DRTNMQHRYIELFLNSSS  154 (232)
Q Consensus        79 ~~vfV~nLp~~~te~dl~~~F~~~-~i~~v~i~~d~--g~~kG~afVeF~s~eda~~Al~~-~g~~i~gR~I~V~~~~~~  154 (232)
                      |.|||+.+.|+..|+.|+..|.+| -|..|.+--|.  +++||||||||+-+|.|+-|++. |+.+|+||.|+|-.-+.-
T Consensus       114 cRvYVGSIsfEl~EDtiR~AF~PFGPIKSInMSWDp~T~kHKgFAFVEYEvPEaAqLAlEqMNg~mlGGRNiKVgrPsNm  193 (544)
T KOG0124|consen  114 CRVYVGSISFELREDTIRRAFDPFGPIKSINMSWDPATGKHKGFAFVEYEVPEAAQLALEQMNGQMLGGRNIKVGRPSNM  193 (544)
T ss_pred             HheeeeeeEEEechHHHHhhccCCCCcceeecccccccccccceEEEEEeCcHHHHHHHHHhccccccCccccccCCCCC
Confidence            789999999999999999999999 78899998888  99999999999999999999998 999999999998743332


Q ss_pred             CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCcceEEEcCCCccccHHHHHhhhCC--CCCCCCCCCCC
Q psy3727         155 PRGGVGGSGSIGGFGGSGGGRLGGFGGSDPSSPFERRNPNQAYVENTALSRSAVKDRAINVQLC--PYHRHSRPKAP  229 (232)
Q Consensus       155 ~~~~~~g~~g~gg~gg~~gg~~gg~g~~~~~~~~~~~~~~~~~v~~~gLp~~~t~~dl~~fF~~--~~~~~~~~~~~  229 (232)
                      +...                        ...+..+.....-..++|..+..+.+++||+.+|++  +--.|-.+.+|
T Consensus       194 pQAQ------------------------piID~vqeeAk~fnRiYVaSvHpDLSe~DiKSVFEAFG~I~~C~LAr~p  246 (544)
T KOG0124|consen  194 PQAQ------------------------PIIDMVQEEAKKFNRIYVASVHPDLSETDIKSVFEAFGEIVKCQLARAP  246 (544)
T ss_pred             cccc------------------------hHHHHHHHHHHhhheEEeeecCCCccHHHHHHHHHhhcceeeEEeeccC
Confidence            1100                        000111111111235777789999999999999986  33345555554

>KOG1365|consensus

Probab=99.17  E-value=7.3e-11  Score=106.01  Aligned_cols=120  Identities=24%  Similarity=0.365  Sum_probs=92.9

Q ss_pred             CcEEEEcCCCCCCCHHHHHhccCCCCceE--EEEeecC-CCCccEEEEEeCCHHHHHHHHHhCCceeeeeEEEEEecCCC
Q psy3727          78 RHTVHMRGLPFRANERDVADFFRPVVPVH--VDIHYEN-GRPSGEADVDFATHEDAMQAMSKDRTNMQHRYIELFLNSSS  154 (232)
Q Consensus        78 ~~~vfV~nLp~~~te~dl~~~F~~~~i~~--v~i~~d~-g~~kG~afVeF~s~eda~~Al~~~g~~i~gR~I~V~~~~~~  154 (232)
                      ...|..++|||..++.+|..||+...|..  +.|+..- ++..|++.|.|.|+|.-+-|++++++.+..|+|+|..+...
T Consensus        60 ~vvvRaRglpwq~Sd~~ia~ff~gl~ia~gg~aKOG~~qgrRnge~lvrf~d~e~RdlalkRhkhh~g~ryievYka~ge  139 (508)
T KOG1365|consen   60 NVVVRARGLPWQSSDQDIARFFKGLNIANGGRALCLNAQGRRNGEALVRFVDPEGRDLALKRHKHHMGTRYIEVYKATGE  139 (508)
T ss_pred             ceEEEecCCCCCcccCCHHHHHhhhhccccceeeeehhhhccccceEEEecCchhhhhhhHhhhhhccCCceeeeccCch
Confidence            47788999999999999999999886663  4455555 89999999999999999999999999999999999988776


Q ss_pred             CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC-CCCCCcceEEEcCCCccccHHHHHhhhC
Q psy3727         155 PRGGVGGSGSIGGFGGSGGGRLGGFGGSDPSSPFE-RRNPNQAYVENTALSRSAVKDRAINVQL  217 (232)
Q Consensus       155 ~~~~~~g~~g~gg~gg~~gg~~gg~g~~~~~~~~~-~~~~~~~~v~~~gLp~~~t~~dl~~fF~  217 (232)
                      +.-.-.+                    +.+..... -...+...|.+++|||+||+.||.+||.
T Consensus       140 ~f~~iag--------------------g~s~e~~~flsk~~qvivRmRGLPfdat~~dVv~FF~  183 (508)
T KOG1365|consen  140 EFLKIAG--------------------GTSNEAAPFLSKENQVIVRMRGLPFDATALDVVEFFG  183 (508)
T ss_pred             hheEecC--------------------CccccCCCCCCcccceEEEecCCCCCcchHHHHHhcC
Confidence            3111000                    00111111 1112357899999999999999999997

>KOG0148|consensus

Probab=99.17  E-value=1.4e-10  Score=100.07  Aligned_cols=75  Identities=19%  Similarity=0.227  Sum_probs=69.8

Q ss_pred             CCcEEEEcCCCCCCCHHHHHhccCCC-CceEEEEeecCCCCccEEEEEeCCHHHHHHHHHh-CCceeeeeEEEEEecCCC
Q psy3727          77 SRHTVHMRGLPFRANERDVADFFRPV-VPVHVDIHYENGRPSGEADVDFATHEDAMQAMSK-DRTNMQHRYIELFLNSSS  154 (232)
Q Consensus        77 s~~~vfV~nLp~~~te~dl~~~F~~~-~i~~v~i~~d~g~~kG~afVeF~s~eda~~Al~~-~g~~i~gR~I~V~~~~~~  154 (232)
                      .+++|||+|++-.+||++|++.|++| .|.+|+|.++    +|||||.|+++|.|..||.. |+++|+|..|++.+-+..
T Consensus       163 ~NtsVY~G~I~~~lte~~mr~~Fs~fG~I~EVRvFk~----qGYaFVrF~tkEaAahAIv~mNntei~G~~VkCsWGKe~  238 (321)
T KOG0148|consen  163 DNTSVYVGNIASGLTEDLMRQTFSPFGPIQEVRVFKD----QGYAFVRFETKEAAAHAIVQMNNTEIGGQLVRCSWGKEG  238 (321)
T ss_pred             CCceEEeCCcCccccHHHHHHhcccCCcceEEEEecc----cceEEEEecchhhHHHHHHHhcCceeCceEEEEeccccC
Confidence            36999999999999999999999999 8999999976    58999999999999999998 999999999999988776


Q ss_pred             C
Q psy3727         155 P  155 (232)
Q Consensus       155 ~  155 (232)
                      .
T Consensus       239 ~  239 (321)
T KOG0148|consen  239 D  239 (321)
T ss_pred             C
Confidence            4

>KOG0123|consensus

Probab=99.12  E-value=2.2e-10  Score=104.86  Aligned_cols=96  Identities=17%  Similarity=0.181  Sum_probs=86.9

Q ss_pred             cEEEEcCCCCCCCHHHHHhccCCC-CceEEEEeecCCCCccEEEEEeCCHHHHHHHHHh-CCceeeeeEEEEEecCCCCC
Q psy3727          79 HTVHMRGLPFRANERDVADFFRPV-VPVHVDIHYENGRPSGEADVDFATHEDAMQAMSK-DRTNMQHRYIELFLNSSSPR  156 (232)
Q Consensus        79 ~~vfV~nLp~~~te~dl~~~F~~~-~i~~v~i~~d~g~~kG~afVeF~s~eda~~Al~~-~g~~i~gR~I~V~~~~~~~~  156 (232)
                      .+|||+   .++||..|.++|+++ .++.|+++.|.+ +-|||||.|.+++||++||+. |-..|.|+.|+|.++...+ 
T Consensus         2 ~sl~vg---~~v~e~~l~~~f~~~~~v~s~rvc~d~t-slgy~yvnf~~~~da~~A~~~~n~~~~~~~~~rim~s~rd~-   76 (369)
T KOG0123|consen    2 ASLYVG---PDVTEAMLFDKFSPAGPVLSIRVCRDAT-SLGYAYVNFQQPADAERALDTMNFDVLKGKPIRIMWSQRDP-   76 (369)
T ss_pred             CceecC---CcCChHHHHHHhcccCCceeEEEeecCC-ccceEEEecCCHHHHHHHHHHcCCcccCCcEEEeehhccCC-
Confidence            358998   999999999999999 899999999985 999999999999999999998 9999999999999876651 


Q ss_pred             CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCcceEEEcCCCccccHHHHHhhhCC
Q psy3727         157 GGVGGSGSIGGFGGSGGGRLGGFGGSDPSSPFERRNPNQAYVENTALSRSAVKDRAINVQLC  218 (232)
Q Consensus       157 ~~~~g~~g~gg~gg~~gg~~gg~g~~~~~~~~~~~~~~~~~v~~~gLp~~~t~~dl~~fF~~  218 (232)
                                                             ..|+|.||+.++|..+|.++|.+
T Consensus        77 ---------------------------------------~~~~i~nl~~~~~~~~~~d~f~~   99 (369)
T KOG0123|consen   77 ---------------------------------------SLVFIKNLDESIDNKSLYDTFSE   99 (369)
T ss_pred             ---------------------------------------ceeeecCCCcccCcHHHHHHHHh
Confidence                                                   12899999999999999999964

>smart00361 RRM_1 RNA recognition motif

Probab=99.11  E-value=2.7e-10  Score=80.04  Aligned_cols=57  Identities=19%  Similarity=0.301  Sum_probs=49.9

Q ss_pred             HHHHHhccC----CC-CceEEE-EeecC----CCCccEEEEEeCCHHHHHHHHHh-CCceeeeeEEEE
Q psy3727          92 ERDVADFFR----PV-VPVHVD-IHYEN----GRPSGEADVDFATHEDAMQAMSK-DRTNMQHRYIEL  148 (232)
Q Consensus        92 e~dl~~~F~----~~-~i~~v~-i~~d~----g~~kG~afVeF~s~eda~~Al~~-~g~~i~gR~I~V  148 (232)
                      +++|+++|+    .| .|.+|. |+.++    ++++|+|||+|+++++|++|++. |+..+.+|.|.+
T Consensus         2 ~~~l~~~~~~~~~~fG~v~~v~~v~~~~~~~~~~~rG~~fV~f~~~~dA~~A~~~l~g~~~~gr~l~~   69 (70)
T smart00361        2 DEDFEREFSEEEEYFGEVGKINKIYIDNVGYENHKRGNVYITFERSEDAARAIVDLNGRYFDGRTVKA   69 (70)
T ss_pred             chhHHHHHHHHHHhcCCeeEEEEEEeCCCCCCCCCcEEEEEEECCHHHHHHHHHHhCCCEECCEEEEe
Confidence            688999999    88 788775 55544    78999999999999999999997 999999999976

>KOG0116|consensus

Probab=99.10  E-value=3.7e-10  Score=104.39  Aligned_cols=78  Identities=13%  Similarity=0.175  Sum_probs=67.5

Q ss_pred             CcEEEEcCCCCCCCHHHHHhccCCC-CceEEEEeecC--CCCccEEEEEeCCHHHHHHHHHhCCceeeeeEEEEEecCCC
Q psy3727          78 RHTVHMRGLPFRANERDVADFFRPV-VPVHVDIHYEN--GRPSGEADVDFATHEDAMQAMSKDRTNMQHRYIELFLNSSS  154 (232)
Q Consensus        78 ~~~vfV~nLp~~~te~dl~~~F~~~-~i~~v~i~~d~--g~~kG~afVeF~s~eda~~Al~~~g~~i~gR~I~V~~~~~~  154 (232)
                      ..+|||+|||+++|+.+|+++|+.| .|+...|..-.  ++...||||+|++.++++.||+.+...|+++++.|......
T Consensus       288 ~~~i~V~nlP~da~~~~l~~~Fk~FG~Ik~~~I~vr~~~~~~~~fgFV~f~~~~~~~~~i~Asp~~ig~~kl~Veek~~~  367 (419)
T KOG0116|consen  288 GLGIFVKNLPPDATPAELEEVFKQFGPIKEGGIQVRSPGGKNPCFGFVEFENAAAVQNAIEASPLEIGGRKLNVEEKRPG  367 (419)
T ss_pred             ccceEeecCCCCCCHHHHHHHHhhcccccccceEEeccCCCcCceEEEEEeecchhhhhhhcCccccCCeeEEEEecccc
Confidence            3569999999999999999999999 77766665433  55559999999999999999999999999999999887775


Q ss_pred             C
Q psy3727         155 P  155 (232)
Q Consensus       155 ~  155 (232)
                      .
T Consensus       368 ~  368 (419)
T KOG0116|consen  368 F  368 (419)
T ss_pred             c
Confidence            3

>PF13893 RRM_5: RNA recognition motif

Probab=99.02  E-value=1.2e-09  Score=73.03  Aligned_cols=54  Identities=22%  Similarity=0.317  Sum_probs=47.9

Q ss_pred             HHhccCCC-CceEEEEeecCCCCccEEEEEeCCHHHHHHHHHh-CCceeeeeEEEEEec
Q psy3727          95 VADFFRPV-VPVHVDIHYENGRPSGEADVDFATHEDAMQAMSK-DRTNMQHRYIELFLN  151 (232)
Q Consensus        95 l~~~F~~~-~i~~v~i~~d~g~~kG~afVeF~s~eda~~Al~~-~g~~i~gR~I~V~~~  151 (232)
                      |.++|++| +|.+|.+..+.   +++|||+|++.++|++|++. |+..+.|++|+|.+|
T Consensus         1 L~~~f~~fG~V~~i~~~~~~---~~~a~V~f~~~~~A~~a~~~l~~~~~~g~~l~V~~a   56 (56)
T PF13893_consen    1 LYKLFSKFGEVKKIKIFKKK---RGFAFVEFASVEDAQKAIEQLNGRQFNGRPLKVSYA   56 (56)
T ss_dssp             HHHHHTTTS-EEEEEEETTS---TTEEEEEESSHHHHHHHHHHHTTSEETTEEEEEEEE
T ss_pred             ChHHhCCcccEEEEEEEeCC---CCEEEEEECCHHHHHHHHHHhCCCEECCcEEEEEEC
Confidence            67899999 88899887653   68999999999999999997 999999999999875

(a.k.a. RRM, RBD, or RNP domain); PDB: 2PE8_A 2PEH_A 2D9O_A 1A9N_D 2DIT_A 3S6E_A 2LQ5_A 1SJQ_A 2AD9_A 1X4D_A ....

>KOG0145|consensus

Probab=99.00  E-value=2.1e-09  Score=92.52  Aligned_cols=77  Identities=14%  Similarity=0.224  Sum_probs=73.0

Q ss_pred             CcEEEEcCCCCCCCHHHHHhccCCC-CceEEEEeecC--CCCccEEEEEeCCHHHHHHHHHh-CCceeeeeEEEEEecCC
Q psy3727          78 RHTVHMRGLPFRANERDVADFFRPV-VPVHVDIHYEN--GRPSGEADVDFATHEDAMQAMSK-DRTNMQHRYIELFLNSS  153 (232)
Q Consensus        78 ~~~vfV~nLp~~~te~dl~~~F~~~-~i~~v~i~~d~--g~~kG~afVeF~s~eda~~Al~~-~g~~i~gR~I~V~~~~~  153 (232)
                      +++|||=||..++.|.-|+++|.+| .|..|.|++|.  .+-|||+||.+.+.++|..||.. |+..|.+|.+.|.+.+.
T Consensus       278 g~ciFvYNLspd~de~~LWQlFgpFGAv~nVKvirD~ttnkCKGfgFVtMtNYdEAamAi~sLNGy~lg~rvLQVsFKtn  357 (360)
T KOG0145|consen  278 GWCIFVYNLSPDADESILWQLFGPFGAVTNVKVIRDFTTNKCKGFGFVTMTNYDEAAMAIASLNGYRLGDRVLQVSFKTN  357 (360)
T ss_pred             eeEEEEEecCCCchHhHHHHHhCcccceeeEEEEecCCcccccceeEEEecchHHHHHHHHHhcCccccceEEEEEEecC
Confidence            6999999999999999999999999 88999999997  88999999999999999999997 99999999999988766


Q ss_pred             C
Q psy3727         154 S  154 (232)
Q Consensus       154 ~  154 (232)
                      +
T Consensus       358 k  358 (360)
T KOG0145|consen  358 K  358 (360)
T ss_pred             C
Confidence            5

>KOG0144|consensus

Probab=98.99  E-value=3.6e-10  Score=102.86  Aligned_cols=79  Identities=19%  Similarity=0.210  Sum_probs=71.6

Q ss_pred             CcEEEEcCCCCCCCHHHHHhccCCC-CceEEEEeecC-CCCccEEEEEeCCHHHHHHHHHh-CC-ceeeee--EEEEEec
Q psy3727          78 RHTVHMRGLPFRANERDVADFFRPV-VPVHVDIHYEN-GRPSGEADVDFATHEDAMQAMSK-DR-TNMQHR--YIELFLN  151 (232)
Q Consensus        78 ~~~vfV~nLp~~~te~dl~~~F~~~-~i~~v~i~~d~-g~~kG~afVeF~s~eda~~Al~~-~g-~~i~gR--~I~V~~~  151 (232)
                      ++.|||+-|+-.+||.||+++|+.| .|++|.|++|. +.++|||||.|.+.|.|.+||+. |+ ..|.|.  +|.|+++
T Consensus       124 e~KLFvg~lsK~~te~evr~iFs~fG~Ied~~ilrd~~~~sRGcaFV~fstke~A~~Aika~ng~~tmeGcs~PLVVkFA  203 (510)
T KOG0144|consen  124 ERKLFVGMLSKQCTENEVREIFSRFGHIEDCYILRDPDGLSRGCAFVKFSTKEMAVAAIKALNGTQTMEGCSQPLVVKFA  203 (510)
T ss_pred             chhhhhhhccccccHHHHHHHHHhhCccchhhheecccccccceeEEEEehHHHHHHHHHhhccceeeccCCCceEEEec
Confidence            5899999999999999999999999 89999999999 99999999999999999999997 54 467764  7999999


Q ss_pred             CCCCC
Q psy3727         152 SSSPR  156 (232)
Q Consensus       152 ~~~~~  156 (232)
                      .+++.
T Consensus       204 Dtqkd  208 (510)
T KOG0144|consen  204 DTQKD  208 (510)
T ss_pred             ccCCC
Confidence            88753

>KOG0106|consensus

Probab=98.96  E-value=1.6e-09  Score=91.77  Aligned_cols=120  Identities=23%  Similarity=0.266  Sum_probs=86.6

Q ss_pred             cEEEEcCCCCCCCHHHHHhccCCC-CceEEEEeecCCCCccEEEEEeCCHHHHHHHHHh-CCceeeeeEEEEEecCCCCC
Q psy3727          79 HTVHMRGLPFRANERDVADFFRPV-VPVHVDIHYENGRPSGEADVDFATHEDAMQAMSK-DRTNMQHRYIELFLNSSSPR  156 (232)
Q Consensus        79 ~~vfV~nLp~~~te~dl~~~F~~~-~i~~v~i~~d~g~~kG~afVeF~s~eda~~Al~~-~g~~i~gR~I~V~~~~~~~~  156 (232)
                      ..|||++||+.+.+.||+.||..| ++.+|.|.      .||+||+|++..||..|+.. |+.+|.+-.+.|.++.....
T Consensus         2 ~rv~vg~~~~~~~~~d~E~~f~~yg~~~d~~mk------~gf~fv~fed~rda~Dav~~l~~~~l~~e~~vve~~r~~~~   75 (216)
T KOG0106|consen    2 PRVYIGRLPYRARERDVERFFKGYGKIPDADMK------NGFGFVEFEDPRDADDAVHDLDGKELCGERLVVEHARGKRR   75 (216)
T ss_pred             CceeecccCCccchhHHHHHHhhccccccceee------cccceeccCchhhhhcccchhcCceecceeeeeeccccccc
Confidence            359999999999999999999999 88788764      47999999999999999997 99998887777777665421


Q ss_pred             CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCcceEEEcCCCccccHHHHHhhhCCCC
Q psy3727         157 GGVGGSGSIGGFGGSGGGRLGGFGGSDPSSPFERRNPNQAYVENTALSRSAVKDRAINVQLCPY  220 (232)
Q Consensus       157 ~~~~g~~g~gg~gg~~gg~~gg~g~~~~~~~~~~~~~~~~~v~~~gLp~~~t~~dl~~fF~~~~  220 (232)
                      ..  +        .++++    + +.....-+.....+...+.+.+|+..+.|+||.+.| |++
T Consensus        76 ~~--g--------~~~~g----~-r~~~~~~~~~p~~s~~r~~~~~~~~r~~~qdl~d~~-~~~  123 (216)
T KOG0106|consen   76 GR--G--------RPRGG----D-RRSDSRRYRPPSRTHFRLIVRNLSLRVSWQDLKDHF-RPA  123 (216)
T ss_pred             cc--C--------CCCCC----C-ccchhhccCCcccccceeeeccchhhhhHHHHhhhh-ccc
Confidence            11  0        00000    0 000011112222334678899999999999999999 543

>KOG4205|consensus

Probab=98.94  E-value=8.7e-10  Score=98.46  Aligned_cols=77  Identities=21%  Similarity=0.356  Sum_probs=73.3

Q ss_pred             cEEEEcCCCCCCCHHHHHhccCCC-CceEEEEeecC--CCCccEEEEEeCCHHHHHHHHHhCCceeeeeEEEEEecCCCC
Q psy3727          79 HTVHMRGLPFRANERDVADFFRPV-VPVHVDIHYEN--GRPSGEADVDFATHEDAMQAMSKDRTNMQHRYIELFLNSSSP  155 (232)
Q Consensus        79 ~~vfV~nLp~~~te~dl~~~F~~~-~i~~v~i~~d~--g~~kG~afVeF~s~eda~~Al~~~g~~i~gR~I~V~~~~~~~  155 (232)
                      ..|||++||.++++++|+++|+++ .|.++.+++|.  .+++||+||+|.+++++++++.+.-+.|+++.|+|..|.++.
T Consensus        98 kkiFvGG~~~~~~e~~~r~yfe~~g~v~~~~~~~d~~~~~~rgFgfv~~~~e~sVdkv~~~~f~~~~gk~vevkrA~pk~  177 (311)
T KOG4205|consen   98 KKIFVGGLPPDTTEEDFKDYFEQFGKVADVVIMYDKTTSRPRGFGFVTFDSEDSVDKVTLQKFHDFNGKKVEVKRAIPKE  177 (311)
T ss_pred             eEEEecCcCCCCchHHHhhhhhccceeEeeEEeecccccccccceeeEeccccccceecccceeeecCceeeEeeccchh
Confidence            589999999999999999999999 78899999998  899999999999999999999999999999999999998875

>KOG0147|consensus

Probab=98.91  E-value=1.8e-09  Score=100.68  Aligned_cols=73  Identities=22%  Similarity=0.376  Sum_probs=68.3

Q ss_pred             EEEcCCCCCCCHHHHHhccCCC-CceEEEEeecC--CCCccEEEEEeCCHHHHHHHHHh-CCceeeeeEEEEEecCC
Q psy3727          81 VHMRGLPFRANERDVADFFRPV-VPVHVDIHYEN--GRPSGEADVDFATHEDAMQAMSK-DRTNMQHRYIELFLNSS  153 (232)
Q Consensus        81 vfV~nLp~~~te~dl~~~F~~~-~i~~v~i~~d~--g~~kG~afVeF~s~eda~~Al~~-~g~~i~gR~I~V~~~~~  153 (232)
                      |+|+||.+++|+++|+..|++| .|..|.+++|.  |++|||+||+|.+.++|++|++. |+-+|-||.|+|..-..
T Consensus       281 l~vgnLHfNite~~lr~ifepfg~Ie~v~l~~d~~tG~skgfGfi~f~~~~~ar~a~e~lngfelAGr~ikV~~v~~  357 (549)
T KOG0147|consen  281 LYVGNLHFNITEDMLRGIFEPFGKIENVQLTKDSETGRSKGFGFITFVNKEDARKALEQLNGFELAGRLIKVSVVTE  357 (549)
T ss_pred             hhhcccccCchHHHHhhhccCcccceeeeeccccccccccCcceEEEecHHHHHHHHHHhccceecCceEEEEEeee
Confidence            8999999999999999999999 89999999995  99999999999999999999987 99999999999866544

>KOG0533|consensus

Probab=98.90  E-value=3.2e-09  Score=91.62  Aligned_cols=76  Identities=29%  Similarity=0.522  Sum_probs=71.7

Q ss_pred             cEEEEcCCCCCCCHHHHHhccCCC-CceEEEEeecC-CCCccEEEEEeCCHHHHHHHHHh-CCceeeeeEEEEEecCCC
Q psy3727          79 HTVHMRGLPFRANERDVADFFRPV-VPVHVDIHYEN-GRPSGEADVDFATHEDAMQAMSK-DRTNMQHRYIELFLNSSS  154 (232)
Q Consensus        79 ~~vfV~nLp~~~te~dl~~~F~~~-~i~~v~i~~d~-g~~kG~afVeF~s~eda~~Al~~-~g~~i~gR~I~V~~~~~~  154 (232)
                      +.|.|.|||+.|+++||+++|.+| .+..+.|-+++ |++.|.|-|.|...+||.+|+++ ++..++|+.|.+.+....
T Consensus        84 ~~v~v~NL~~~V~~~Dl~eLF~~~~~~~r~~vhy~~~G~s~Gta~v~~~r~~DA~~avk~~~gv~ldG~~mk~~~i~~~  162 (243)
T KOG0533|consen   84 TKVNVSNLPYGVIDADLKELFAEFGELKRVAVHYDRAGRSLGTADVSFNRRDDAERAVKKYNGVALDGRPMKIEIISSP  162 (243)
T ss_pred             ceeeeecCCcCcchHHHHHHHHHhccceEEeeccCCCCCCCccceeeecchHhHHHHHHHhcCcccCCceeeeEEecCc
Confidence            889999999999999999999999 89999999999 99999999999999999999998 899999999988776654

>KOG1995|consensus

Probab=98.89  E-value=2.4e-08  Score=89.26  Aligned_cols=78  Identities=26%  Similarity=0.360  Sum_probs=70.9

Q ss_pred             CcEEEEcCCCCCCCHHHHHhccCCCCce---------EEEEeecC--CCCccEEEEEeCCHHHHHHHHHh-CCceeeeeE
Q psy3727          78 RHTVHMRGLPFRANERDVADFFRPVVPV---------HVDIHYEN--GRPSGEADVDFATHEDAMQAMSK-DRTNMQHRY  145 (232)
Q Consensus        78 ~~~vfV~nLp~~~te~dl~~~F~~~~i~---------~v~i~~d~--g~~kG~afVeF~s~eda~~Al~~-~g~~i~gR~  145 (232)
                      ..+|||.+||..+++++|.+||.+|.++         .|.|.+|+  +++||.|.|.|++...|++||++ +++.+.+..
T Consensus        66 ~~ti~v~g~~d~~~~~~~~~~f~qcg~ikrnK~t~kPki~~y~dkeT~~~KGeatvS~~D~~~akaai~~~agkdf~gn~  145 (351)
T KOG1995|consen   66 NETIFVWGCPDSVCENDNADFFLQCGVIKRNKRTGKPKIKIYTDKETGAPKGEATVSYEDPPAAKAAIEWFAGKDFCGNT  145 (351)
T ss_pred             cccceeeccCccchHHHHHHHHhhcceeccCCCCCCcchhccccccccCcCCceeeeecChhhhhhhhhhhccccccCCC
Confidence            5789999999999999999999999443         37788887  99999999999999999999998 999999999


Q ss_pred             EEEEecCCCC
Q psy3727         146 IELFLNSSSP  155 (232)
Q Consensus       146 I~V~~~~~~~  155 (232)
                      |+|.++..++
T Consensus       146 ikvs~a~~r~  155 (351)
T KOG1995|consen  146 IKVSLAERRT  155 (351)
T ss_pred             chhhhhhhcc
Confidence            9999998775

>KOG4307|consensus

Probab=98.82  E-value=7.7e-08  Score=92.17  Aligned_cols=71  Identities=27%  Similarity=0.536  Sum_probs=65.3

Q ss_pred             EEEEcCCCCCCCHHHHHhccCCCCc--eEEEEeecC-CCCccEEEEEeCCHHHHHHHHHh-CCceeeeeEEEEEe
Q psy3727          80 TVHMRGLPFRANERDVADFFRPVVP--VHVDIHYEN-GRPSGEADVDFATHEDAMQAMSK-DRTNMQHRYIELFL  150 (232)
Q Consensus        80 ~vfV~nLp~~~te~dl~~~F~~~~i--~~v~i~~d~-g~~kG~afVeF~s~eda~~Al~~-~g~~i~gR~I~V~~  150 (232)
                      +|.|.|+||++|.+||.+||..|++  .+|.|.++. |.++|+|.|-|++.++|.+|... +++.|..|.|.|.+
T Consensus       869 V~~~~n~Pf~v~l~dI~~FF~dY~~~p~sI~~r~nd~G~pTGe~mvAfes~~eAr~A~~dl~~~~i~nr~V~l~i  943 (944)
T KOG4307|consen  869 VLSCNNFPFDVTLEDIVEFFNDYEPDPNSIRIRRNDDGVPTGECMVAFESQEEARRASMDLDGQKIRNRVVSLRI  943 (944)
T ss_pred             EEEecCCCccccHHHHHHHhcccccCCCceeEeecCCCCcccceeEeecCHHHHHhhhhccccCcccceeEEEEe
Confidence            8999999999999999999999954  478888877 99999999999999999999986 99999999998864

>KOG4209|consensus

Probab=98.79  E-value=7.6e-09  Score=89.06  Aligned_cols=77  Identities=21%  Similarity=0.270  Sum_probs=72.4

Q ss_pred             CcEEEEcCCCCCCCHHHHHhccCCC-CceEEEEeecC--CCCccEEEEEeCCHHHHHHHHHhCCceeeeeEEEEEecCCC
Q psy3727          78 RHTVHMRGLPFRANERDVADFFRPV-VPVHVDIHYEN--GRPSGEADVDFATHEDAMQAMSKDRTNMQHRYIELFLNSSS  154 (232)
Q Consensus        78 ~~~vfV~nLp~~~te~dl~~~F~~~-~i~~v~i~~d~--g~~kG~afVeF~s~eda~~Al~~~g~~i~gR~I~V~~~~~~  154 (232)
                      ...|||+|+.+.+|.++|+.+|+.| .+..|.|++|+  +++||||||+|.+.+.+++|+..|+..|.++.|+|......
T Consensus       101 ~~sv~v~nvd~~~t~~~~e~hf~~Cg~i~~~ti~~d~~~~~~k~~~yvef~~~~~~~~ay~l~gs~i~~~~i~vt~~r~~  180 (231)
T KOG4209|consen  101 APSVWVGNVDFLVTLTKIELHFESCGGINRVTVPKDKFRGHPKGFAYVEFSSYELVEEAYKLDGSEIPGPAIEVTLKRTN  180 (231)
T ss_pred             CceEEEeccccccccchhhheeeccCCccceeeeccccCCCcceeEEEecccHhhhHHHhhcCCcccccccceeeeeeee
Confidence            4789999999999999999999999 88889999998  78999999999999999999999999999999999887765

>KOG0132|consensus

Probab=98.78  E-value=1.1e-07  Score=91.93  Aligned_cols=73  Identities=21%  Similarity=0.343  Sum_probs=67.7

Q ss_pred             CcEEEEcCCCCCCCHHHHHhccCCC-CceEEEEeecCCCCccEEEEEeCCHHHHHHHHHh-CCceeeeeEEEEEecCCC
Q psy3727          78 RHTVHMRGLPFRANERDVADFFRPV-VPVHVDIHYENGRPSGEADVDFATHEDAMQAMSK-DRTNMQHRYIELFLNSSS  154 (232)
Q Consensus        78 ~~~vfV~nLp~~~te~dl~~~F~~~-~i~~v~i~~d~g~~kG~afVeF~s~eda~~Al~~-~g~~i~gR~I~V~~~~~~  154 (232)
                      ..||||+.|+.+++|+||.++|+.| +|.+|.++-    ++++|||.+....||++||.+ +...+..+.|+|.++-.+
T Consensus       421 SrTLwvG~i~k~v~e~dL~~~feefGeiqSi~li~----~R~cAfI~M~~RqdA~kalqkl~n~kv~~k~Iki~Wa~g~  495 (894)
T KOG0132|consen  421 SRTLWVGGIPKNVTEQDLANLFEEFGEIQSIILIP----PRGCAFIKMVRRQDAEKALQKLSNVKVADKTIKIAWAVGK  495 (894)
T ss_pred             eeeeeeccccchhhHHHHHHHHHhcccceeEeecc----CCceeEEEEeehhHHHHHHHHHhcccccceeeEEeeeccC
Confidence            5899999999999999999999999 899998864    678999999999999999998 999999999999998766

>KOG1457|consensus

Probab=98.72  E-value=1e-07  Score=80.58  Aligned_cols=76  Identities=21%  Similarity=0.290  Sum_probs=62.8

Q ss_pred             cEEEEcCCCCCCCHHHHHhccCCC-CceEEEEeecC--C-CCccEEEEEeCCHHHHHHHHHh-CCceee---eeEEEEEe
Q psy3727          79 HTVHMRGLPFRANERDVADFFRPV-VPVHVDIHYEN--G-RPSGEADVDFATHEDAMQAMSK-DRTNMQ---HRYIELFL  150 (232)
Q Consensus        79 ~~vfV~nLp~~~te~dl~~~F~~~-~i~~v~i~~d~--g-~~kG~afVeF~s~eda~~Al~~-~g~~i~---gR~I~V~~  150 (232)
                      .||||.+||.++...||..+|..| .-+...|.+..  + -.+-+|||+|.+..+|++|+.. |+..++   +..+.|.+
T Consensus        35 RTLFVSGLP~DvKpREiynLFR~f~GYEgslLK~Tsk~~~~~~pvaFatF~s~q~A~aamnaLNGvrFDpE~~stLhiEl  114 (284)
T KOG1457|consen   35 RTLFVSGLPNDVKPREIYNLFRRFHGYEGSLLKYTSKGDQVCKPVAFATFTSHQFALAAMNALNGVRFDPETGSTLHIEL  114 (284)
T ss_pred             ceeeeccCCcccCHHHHHHHhccCCCccceeeeeccCCCccccceEEEEecchHHHHHHHHHhcCeeeccccCceeEeee
Confidence            799999999999999999999998 66666666554  2 2457999999999999999998 999886   45677777


Q ss_pred             cCCC
Q psy3727         151 NSSS  154 (232)
Q Consensus       151 ~~~~  154 (232)
                      ++..
T Consensus       115 AKSN  118 (284)
T KOG1457|consen  115 AKSN  118 (284)
T ss_pred             hhcC
Confidence            6554

>KOG0153|consensus

Probab=98.71  E-value=4.4e-08  Score=87.29  Aligned_cols=73  Identities=23%  Similarity=0.223  Sum_probs=66.8

Q ss_pred             CcEEEEcCCCCCCCHHHHHhccCCC-CceEEEEeecCCCCccEEEEEeCCHHHHHHHHHh--CCceeeeeEEEEEecCCC
Q psy3727          78 RHTVHMRGLPFRANERDVADFFRPV-VPVHVDIHYENGRPSGEADVDFATHEDAMQAMSK--DRTNMQHRYIELFLNSSS  154 (232)
Q Consensus        78 ~~~vfV~nLp~~~te~dl~~~F~~~-~i~~v~i~~d~g~~kG~afVeF~s~eda~~Al~~--~g~~i~gR~I~V~~~~~~  154 (232)
                      -.+|||++|-..++|+||+++|.+| +|..|.+...    +++|||+|.+.+.|+.|.++  |...|+|+.|.|.+.++.
T Consensus       228 I~tLyIg~l~d~v~e~dIrdhFyqyGeirsi~~~~~----~~CAFv~ftTR~aAE~Aae~~~n~lvI~G~Rl~i~Wg~~~  303 (377)
T KOG0153|consen  228 IKTLYIGGLNDEVLEQDIRDHFYQYGEIRSIRILPR----KGCAFVTFTTREAAEKAAEKSFNKLVINGFRLKIKWGRPK  303 (377)
T ss_pred             eeEEEecccccchhHHHHHHHHhhcCCeeeEEeecc----cccceeeehhhHHHHHHHHhhcceeeecceEEEEEeCCCc
Confidence            5899999998899999999999999 8888888754    46999999999999999998  899999999999988883

>KOG0415|consensus

Probab=98.70  E-value=2.9e-08  Score=88.74  Aligned_cols=78  Identities=21%  Similarity=0.261  Sum_probs=72.7

Q ss_pred             CCCcEEEEcCCCCCCCHHHHHhccCCC-CceEEEEeecC--CCCccEEEEEeCCHHHHHHHHHh-CCceeeeeEEEEEec
Q psy3727          76 PSRHTVHMRGLPFRANERDVADFFRPV-VPVHVDIHYEN--GRPSGEADVDFATHEDAMQAMSK-DRTNMQHRYIELFLN  151 (232)
Q Consensus        76 ~s~~~vfV~nLp~~~te~dl~~~F~~~-~i~~v~i~~d~--g~~kG~afVeF~s~eda~~Al~~-~g~~i~gR~I~V~~~  151 (232)
                      +...+|||--|..-+|.+||.-+|+.| .|+.|.|+.|.  |.+--||||||++.+++++|.=+ +...|+.|.|.|.++
T Consensus       237 PPeNVLFVCKLNPVTtDeDLeiIFSrFG~i~sceVIRD~ktgdsLqyaFiEFen~escE~AyFKMdNvLIDDrRIHVDFS  316 (479)
T KOG0415|consen  237 PPENVLFVCKLNPVTTDEDLEIIFSRFGKIVSCEVIRDRKTGDSLQYAFIEFENKESCEQAYFKMDNVLIDDRRIHVDFS  316 (479)
T ss_pred             CCcceEEEEecCCcccccchhhHHhhcccceeeeEEecccccchhheeeeeecchhhHHHHHhhhcceeeccceEEeehh
Confidence            345899999999999999999999999 89999999998  88999999999999999999987 999999999999887


Q ss_pred             CC
Q psy3727         152 SS  153 (232)
Q Consensus       152 ~~  153 (232)
                      ..
T Consensus       317 QS  318 (479)
T KOG0415|consen  317 QS  318 (479)
T ss_pred             hh
Confidence            55

>KOG0109|consensus

Probab=98.68  E-value=3.1e-08  Score=86.55  Aligned_cols=71  Identities=23%  Similarity=0.316  Sum_probs=66.5

Q ss_pred             cEEEEcCCCCCCCHHHHHhccCCC-CceEEEEeecCCCCccEEEEEeCCHHHHHHHHHh-CCceeeeeEEEEEecCCCC
Q psy3727          79 HTVHMRGLPFRANERDVADFFRPV-VPVHVDIHYENGRPSGEADVDFATHEDAMQAMSK-DRTNMQHRYIELFLNSSSP  155 (232)
Q Consensus        79 ~~vfV~nLp~~~te~dl~~~F~~~-~i~~v~i~~d~g~~kG~afVeF~s~eda~~Al~~-~g~~i~gR~I~V~~~~~~~  155 (232)
                      .+|+|+||.+.||.+||++.|++| .|+.+.|++|      ++||.|+-.++|..||+. |+++++|+.+.|.+++.+-
T Consensus        79 tkl~vgNis~tctn~ElRa~fe~ygpviecdivkd------y~fvh~d~~eda~~air~l~~~~~~gk~m~vq~stsrl  151 (346)
T KOG0109|consen   79 TKLHVGNISPTCTNQELRAKFEKYGPVIECDIVKD------YAFVHFDRAEDAVEAIRGLDNTEFQGKRMHVQLSTSRL  151 (346)
T ss_pred             cccccCCCCccccCHHHhhhhcccCCceeeeeecc------eeEEEEeeccchHHHHhcccccccccceeeeeeecccc
Confidence            889999999999999999999999 7889999865      999999999999999986 9999999999999998764

>KOG0131|consensus

Probab=98.66  E-value=2.7e-08  Score=81.61  Aligned_cols=77  Identities=17%  Similarity=0.210  Sum_probs=68.5

Q ss_pred             CcEEEEcCCCCCCCHHHHHhccCCCCceE--EEEeecC--CCCccEEEEEeCCHHHHHHHHHh-CCceeeeeEEEEEecC
Q psy3727          78 RHTVHMRGLPFRANERDVADFFRPVVPVH--VDIHYEN--GRPSGEADVDFATHEDAMQAMSK-DRTNMQHRYIELFLNS  152 (232)
Q Consensus        78 ~~~vfV~nLp~~~te~dl~~~F~~~~i~~--v~i~~d~--g~~kG~afVeF~s~eda~~Al~~-~g~~i~gR~I~V~~~~  152 (232)
                      +..|||+||.++++|.-|.+.|+.|.++-  =.|+.+.  +.++||+||.|++.|.+.+||.. |++.+..|+|.|..+.
T Consensus        96 ganlfvgNLd~~vDe~~L~dtFsafG~l~~~P~i~rd~~tg~~~~~g~i~~~sfeasd~ai~s~ngq~l~nr~itv~ya~  175 (203)
T KOG0131|consen   96 GANLFVGNLDPEVDEKLLYDTFSAFGVLISPPKIMRDPDTGNPKGFGFINYASFEASDAAIGSMNGQYLCNRPITVSYAF  175 (203)
T ss_pred             cccccccccCcchhHHHHHHHHHhccccccCCcccccccCCCCCCCeEEechhHHHHHHHHHHhccchhcCCceEEEEEE
Confidence            58899999999999999999999994332  2566665  89999999999999999999998 9999999999999988


Q ss_pred             CC
Q psy3727         153 SS  154 (232)
Q Consensus       153 ~~  154 (232)
                      .+
T Consensus       176 k~  177 (203)
T KOG0131|consen  176 KK  177 (203)
T ss_pred             ec
Confidence            76

>KOG1190|consensus

Probab=98.65  E-value=4.8e-07  Score=82.27  Aligned_cols=131  Identities=13%  Similarity=0.141  Sum_probs=94.9

Q ss_pred             CcEEEEcCC-CCCCCHHHHHhccCCC-CceEEEEeecCCCCccEEEEEeCCHHHHHHHHHh-CCceeeeeEEEEEecCCC
Q psy3727          78 RHTVHMRGL-PFRANERDVADFFRPV-VPVHVDIHYENGRPSGEADVDFATHEDAMQAMSK-DRTNMQHRYIELFLNSSS  154 (232)
Q Consensus        78 ~~~vfV~nL-p~~~te~dl~~~F~~~-~i~~v~i~~d~g~~kG~afVeF~s~eda~~Al~~-~g~~i~gR~I~V~~~~~~  154 (232)
                      ..+|-|.|| ++.+|.+.|..+|.-| +|.+|.|.++++   =-|.|.+.+...|+-|++. +++.|.|+.|+|.+++..
T Consensus       297 n~vllvsnln~~~VT~d~LftlFgvYGdVqRVkil~nkk---d~ALIQmsd~~qAqLA~~hL~g~~l~gk~lrvt~SKH~  373 (492)
T KOG1190|consen  297 NVVLLVSNLNEEAVTPDVLFTLFGVYGDVQRVKILYNKK---DNALIQMSDGQQAQLAMEHLEGHKLYGKKLRVTLSKHT  373 (492)
T ss_pred             ceEEEEecCchhccchhHHHHHHhhhcceEEEEeeecCC---cceeeeecchhHHHHHHHHhhcceecCceEEEeeccCc
Confidence            488999998 7789999999999999 999999999763   3699999999999999997 999999999999999876


Q ss_pred             CCCCCCCCCCCCCCCCCCCCCCCCCC--------CCCCCCCCCCCCCCcceEEEcCCCccccHHHHHhhhCCC
Q psy3727         155 PRGGVGGSGSIGGFGGSGGGRLGGFG--------GSDPSSPFERRNPNQAYVENTALSRSAVKDRAINVQLCP  219 (232)
Q Consensus       155 ~~~~~~g~~g~gg~gg~~gg~~gg~g--------~~~~~~~~~~~~~~~~~v~~~gLp~~~t~~dl~~fF~~~  219 (232)
                      .-.-....       ....+..-.|.        .+++ .-+..-.|....+++.|+|.++++|||++.|+.+
T Consensus       374 ~vqlp~eg-------q~d~glT~dy~~spLhrfkkpgs-KN~~ni~PpsatlHlsnip~svsee~lk~~f~~~  438 (492)
T KOG1190|consen  374 NVQLPREG-------QEDQGLTKDYGNSPLHRFKKPGS-KNYQNIFPPSATLHLSNIPPSVSEEDLKNLFQEP  438 (492)
T ss_pred             cccCCCCC-------CccccccccCCCCchhhccCccc-ccccccCCchhheeeccCCcccchhHHHHhhhcC
Confidence            31110000       00001111111        1111 1111222434679999999999999999999854

>KOG4208|consensus

Probab=98.62  E-value=8.4e-08  Score=80.09  Aligned_cols=77  Identities=18%  Similarity=0.264  Sum_probs=67.0

Q ss_pred             CcEEEEcCCCCCCCHHHHHhccCCC-C-ceEEEEeecC--CCCccEEEEEeCCHHHHHHHHHh-CCceeeeeEEEEEecC
Q psy3727          78 RHTVHMRGLPFRANERDVADFFRPV-V-PVHVDIHYEN--GRPSGEADVDFATHEDAMQAMSK-DRTNMQHRYIELFLNS  152 (232)
Q Consensus        78 ~~~vfV~nLp~~~te~dl~~~F~~~-~-i~~v~i~~d~--g~~kG~afVeF~s~eda~~Al~~-~g~~i~gR~I~V~~~~  152 (232)
                      ...++|.-||+-+-+.+|..+|.++ . +.++++-+++  |.+||||||||++++.|+=|-+. |...|.++-|++..-.
T Consensus        49 ~g~~~~~~~p~g~~e~~~~~~~~q~~g~v~r~rlsRnkrTGNSKgYAFVEFEs~eVA~IaAETMNNYLl~e~lL~c~vmp  128 (214)
T KOG4208|consen   49 EGVVYVDHIPHGFFETEILNYFRQFGGTVTRFRLSRNKRTGNSKGYAFVEFESEEVAKIAAETMNNYLLMEHLLECHVMP  128 (214)
T ss_pred             ccceeecccccchhHHHHhhhhhhcCCeeEEEEeecccccCCcCceEEEEeccHHHHHHHHHHhhhhhhhhheeeeEEeC
Confidence            4789999999999999999999998 4 5567776776  99999999999999999999986 9999999988887654


Q ss_pred             CC
Q psy3727         153 SS  154 (232)
Q Consensus       153 ~~  154 (232)
                      +.
T Consensus       129 pe  130 (214)
T KOG4208|consen  129 PE  130 (214)
T ss_pred             ch
Confidence            43

>KOG0147|consensus

Probab=98.62  E-value=9.4e-09  Score=96.03  Aligned_cols=124  Identities=19%  Similarity=0.172  Sum_probs=95.7

Q ss_pred             CcEEEEcCCCCCCCHHHHHhccCCC-CceEEEEeecC--CCCccEEEEEeCCHHHHHHHHHhCCceeeeeEEEEEecCCC
Q psy3727          78 RHTVHMRGLPFRANERDVADFFRPV-VPVHVDIHYEN--GRPSGEADVDFATHEDAMQAMSKDRTNMQHRYIELFLNSSS  154 (232)
Q Consensus        78 ~~~vfV~nLp~~~te~dl~~~F~~~-~i~~v~i~~d~--g~~kG~afVeF~s~eda~~Al~~~g~~i~gR~I~V~~~~~~  154 (232)
                      ..+||+--|+-.+++-||.+||+.+ +|.+|.|+.|+  +++||.|||||.+.+.+..||.+.++.+.|-+|.|..+...
T Consensus       179 ~Rtvf~~qla~r~~pRdL~efFs~~gkVrdVriI~Dr~s~rskgi~Yvef~D~~sVp~aiaLsGqrllg~pv~vq~sEae  258 (549)
T KOG0147|consen  179 QRTVFCMQLARRNPPRDLEEFFSIVGKVRDVRIIGDRNSRRSKGIAYVEFCDEQSVPLAIALSGQRLLGVPVIVQLSEAE  258 (549)
T ss_pred             HHHHHHHHHhhcCCchhHHHHHHhhcCcceeEeeccccchhhcceeEEEEecccchhhHhhhcCCcccCceeEecccHHH
Confidence            4688888899999999999999999 88999999998  89999999999999999999999999999999999876554


Q ss_pred             CCCC-CCCC-CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCcceEEEcCCCccccHHHHHhhhCCCCCCCCC
Q psy3727         155 PRGG-VGGS-GSIGGFGGSGGGRLGGFGGSDPSSPFERRNPNQAYVENTALSRSAVKDRAINVQLCPYHRHSR  225 (232)
Q Consensus       155 ~~~~-~~g~-~g~gg~gg~~gg~~gg~g~~~~~~~~~~~~~~~~~v~~~gLp~~~t~~dl~~fF~~~~~~~~~  225 (232)
                      .... .... -..+           +           -..| ...|.|.||.|..|+++|+..| .||-.+-.
T Consensus       259 knr~a~~s~a~~~k-----------~-----------~~~p-~~rl~vgnLHfNite~~lr~if-epfg~Ie~  307 (549)
T KOG0147|consen  259 KNRAANASPALQGK-----------G-----------FTGP-MRRLYVGNLHFNITEDMLRGIF-EPFGKIEN  307 (549)
T ss_pred             HHHHHhcccccccc-----------c-----------cccc-hhhhhhcccccCchHHHHhhhc-cCccccee
Confidence            2111 0000 0000           0           0111 1117889999999999999999 56655433

>KOG0110|consensus

Probab=98.59  E-value=2.9e-08  Score=95.09  Aligned_cols=77  Identities=26%  Similarity=0.350  Sum_probs=71.1

Q ss_pred             CcEEEEcCCCCCCCHHHHHhccCCC-CceEEEEeecC--CCCccEEEEEeCCHHHHHHHHHh-CCceeeeeEEEEEecCC
Q psy3727          78 RHTVHMRGLPFRANERDVADFFRPV-VPVHVDIHYEN--GRPSGEADVDFATHEDAMQAMSK-DRTNMQHRYIELFLNSS  153 (232)
Q Consensus        78 ~~~vfV~nLp~~~te~dl~~~F~~~-~i~~v~i~~d~--g~~kG~afVeF~s~eda~~Al~~-~g~~i~gR~I~V~~~~~  153 (232)
                      ...|+|+||||.+|..+|+++|..| .+..|+|++..  +.++|||||+|-++.+|.+|++. ..+.|-||.+.+.++..
T Consensus       613 ~tKIlVRNipFeAt~rEVr~LF~aFGqlksvRlPKK~~k~a~rGF~Fv~f~t~~ea~nA~~al~STHlyGRrLVLEwA~~  692 (725)
T KOG0110|consen  613 GTKILVRNIPFEATKREVRKLFTAFGQLKSVRLPKKIGKGAHRGFGFVDFLTPREAKNAFDALGSTHLYGRRLVLEWAKS  692 (725)
T ss_pred             cceeeeeccchHHHHHHHHHHHhcccceeeeccchhhcchhhccceeeeccCcHHHHHHHHhhcccceechhhheehhcc
Confidence            3689999999999999999999999 99999999874  77899999999999999999997 89999999999998876


Q ss_pred             C
Q psy3727         154 S  154 (232)
Q Consensus       154 ~  154 (232)
                      .
T Consensus       693 d  693 (725)
T KOG0110|consen  693 D  693 (725)
T ss_pred             c
Confidence            5

>KOG4307|consensus

Probab=98.57  E-value=3.2e-07  Score=88.04  Aligned_cols=140  Identities=13%  Similarity=0.074  Sum_probs=99.6

Q ss_pred             CcEEEEcCCCCCCCHHHHHhccCCCCceEEEEeecC-CCC-ccEEEEEeCCHHHHHHHHHhCCceeeeeEEEEEecCCCC
Q psy3727          78 RHTVHMRGLPFRANERDVADFFRPVVPVHVDIHYEN-GRP-SGEADVDFATHEDAMQAMSKDRTNMQHRYIELFLNSSSP  155 (232)
Q Consensus        78 ~~~vfV~nLp~~~te~dl~~~F~~~~i~~v~i~~d~-g~~-kG~afVeF~s~eda~~Al~~~g~~i~gR~I~V~~~~~~~  155 (232)
                      .+.|-+++++|++.+.|+++||-...+..++|..+. +.+ +|-++|+|....++++|+++|.+.+-.|+|+|.......
T Consensus       311 ~~y~~~~gm~fn~~~nd~rkfF~g~~~~~~~l~~~~v~~~~tG~~~v~f~~~~~~q~A~~rn~~~~~~R~~q~~P~g~~~  390 (944)
T KOG4307|consen  311 KYYNNYKGMEFNNDFNDGRKFFPGRNAQSTDLSENRVAPPQTGRKTVMFTPQAPFQNAFTRNPSDDVNRPFQTGPPGNLG  390 (944)
T ss_pred             hheeeecccccccccchhhhhcCcccccccchhhhhcCCCcCCceEEEecCcchHHHHHhcCchhhhhcceeecCCCccc
Confidence            588999999999999999999999888888888888 555 999999999999999999999999999999998877765


Q ss_pred             CCCCCCCCCCCC--CCCC-----CCCCCCCCCCCCCCCCCCCCCCCcceEEEcCCCccccHHHHHhhhCCCC
Q psy3727         156 RGGVGGSGSIGG--FGGS-----GGGRLGGFGGSDPSSPFERRNPNQAYVENTALSRSAVKDRAINVQLCPY  220 (232)
Q Consensus       156 ~~~~~g~~g~gg--~gg~-----~gg~~gg~g~~~~~~~~~~~~~~~~~v~~~gLp~~~t~~dl~~fF~~~~  220 (232)
                      +.+..+...+.+  -.+.     .+.-++-.. ++-..++  ..+...+|.|..||+.+++.+++++|...|
T Consensus       391 ~~~a~~~~~~~~~~~~~~~hg~p~~~pr~~~~-~gq~vp~--P~~ag~~lyv~~lP~~t~~~~~v~~f~~~~  459 (944)
T KOG4307|consen  391 RNGAPPFQAGVPPPVIQNNHGRPIAPPRAMVR-PGQNVPF--PGGAGGALYVFQLPVMTPIVPPVNKFMGAA  459 (944)
T ss_pred             cccCccccccCCCCcccccCCCCCCCcccccC-CCCCCCC--CCCccceEEeccCCccccccchhhhhhhhh
Confidence            433322211111  0000     000000000 0000111  123356899999999999999999998643

>KOG4206|consensus

Probab=98.56  E-value=4.1e-07  Score=76.94  Aligned_cols=138  Identities=13%  Similarity=0.084  Sum_probs=92.8

Q ss_pred             cEEEEcCCCCCCCHHHHHh----ccCCC-CceEEEEeecCCCCccEEEEEeCCHHHHHHHHHh-CCceeeeeEEEEEecC
Q psy3727          79 HTVHMRGLPFRANERDVAD----FFRPV-VPVHVDIHYENGRPSGEADVDFATHEDAMQAMSK-DRTNMQHRYIELFLNS  152 (232)
Q Consensus        79 ~~vfV~nLp~~~te~dl~~----~F~~~-~i~~v~i~~d~g~~kG~afVeF~s~eda~~Al~~-~g~~i~gR~I~V~~~~  152 (232)
                      .||||.||+..+..++|+.    +|++| +|++|...+. .+.+|-|||.|.+.+.|..|+.. ++--+-|++++|.+|.
T Consensus        10 ~TlYInnLnekI~~~elkrsL~~LFsqfG~ildI~a~kt-~KmRGQA~VvFk~~~~As~A~r~l~gfpFygK~mriqyA~   88 (221)
T KOG4206|consen   10 GTLYINNLNEKIKKDELKRSLYLLFSQFGKILDISAFKT-PKMRGQAFVVFKETEAASAALRALQGFPFYGKPMRIQYAK   88 (221)
T ss_pred             ceEeehhccccccHHHHHHHHHHHHHhhCCeEEEEecCC-CCccCceEEEecChhHHHHHHHHhcCCcccCchhheeccc
Confidence            5999999999999999988    99999 7988877654 47889999999999999999997 9999999999999987


Q ss_pred             CCCC---CCCCCC---CCCC-----CCCCCCCCCCCCCCC--CCCC-CCC-CCCCCCcceEEEcCCCccccHHHHHhhhC
Q psy3727         153 SSPR---GGVGGS---GSIG-----GFGGSGGGRLGGFGG--SDPS-SPF-ERRNPNQAYVENTALSRSAVKDRAINVQL  217 (232)
Q Consensus       153 ~~~~---~~~~g~---~g~g-----g~gg~~gg~~gg~g~--~~~~-~~~-~~~~~~~~~v~~~gLp~~~t~~dl~~fF~  217 (232)
                      ....   +..+-.   ....     ......---.+-+..  .... .++ ....+....+++.+||-+++.+.|..+|.
T Consensus        89 s~sdii~~~~~~~v~~~~k~~~~~~~~~~~~~~~ng~~~~~~~~~~p~p~~~~~~ppn~ilf~~niP~es~~e~l~~lf~  168 (221)
T KOG4206|consen   89 SDSDIIAQAPGTFVEKEKKINGEILARIKQPLDTNGHFYNMNRMNLPPPFLAQMAPPNNILFLTNIPSESESEMLSDLFE  168 (221)
T ss_pred             CccchhhccCceeccccCccccccccccCCcccccccccccccccCCCCccccCCCCceEEEEecCCcchhHHHHHHHHh
Confidence            7632   100000   0000     000000000000000  0000 001 12234456789999999999999999994

>KOG1548|consensus

Probab=98.55  E-value=1.7e-07  Score=83.56  Aligned_cols=77  Identities=17%  Similarity=0.274  Sum_probs=70.0

Q ss_pred             CcEEEEcCCCCCCCHHHHHhccCCCCce---------EEEEeecC-CCCccEEEEEeCCHHHHHHHHHh-CCceeeeeEE
Q psy3727          78 RHTVHMRGLPFRANERDVADFFRPVVPV---------HVDIHYEN-GRPSGEADVDFATHEDAMQAMSK-DRTNMQHRYI  146 (232)
Q Consensus        78 ~~~vfV~nLp~~~te~dl~~~F~~~~i~---------~v~i~~d~-g~~kG~afVeF~s~eda~~Al~~-~g~~i~gR~I  146 (232)
                      +..|||.|||.++|.+++.++|+.|.|+         .|.|..++ |+.||.|.+.|-..|+++-||+. |...|.|+.|
T Consensus       134 Nt~VYVsgLP~DiT~dE~~~~~sKcGiI~~d~~t~epk~KlYrd~~G~lKGDaLc~y~K~ESVeLA~~ilDe~~~rg~~~  213 (382)
T KOG1548|consen  134 NTSVYVSGLPLDITVDEFAEVMSKCGIIMRDPQTGEPKVKLYRDNQGKLKGDALCCYIKRESVELAIKILDEDELRGKKL  213 (382)
T ss_pred             CceEEecCCCCcccHHHHHHHHHhcceEeccCCCCCeeEEEEecCCCCccCceEEEeecccHHHHHHHHhCcccccCcEE
Confidence            4669999999999999999999999443         48888888 99999999999999999999998 9999999999


Q ss_pred             EEEecCCC
Q psy3727         147 ELFLNSSS  154 (232)
Q Consensus       147 ~V~~~~~~  154 (232)
                      +|..|.-.
T Consensus       214 rVerAkfq  221 (382)
T KOG1548|consen  214 RVERAKFQ  221 (382)
T ss_pred             EEehhhhh
Confidence            99887654

>KOG0146|consensus

Probab=98.55  E-value=6.8e-08  Score=83.64  Aligned_cols=78  Identities=13%  Similarity=0.211  Sum_probs=73.7

Q ss_pred             CcEEEEcCCCCCCCHHHHHhccCCC-CceEEEEeecC--CCCccEEEEEeCCHHHHHHHHHh-CCceeeeeEEEEEecCC
Q psy3727          78 RHTVHMRGLPFRANERDVADFFRPV-VPVHVDIHYEN--GRPSGEADVDFATHEDAMQAMSK-DRTNMQHRYIELFLNSS  153 (232)
Q Consensus        78 ~~~vfV~nLp~~~te~dl~~~F~~~-~i~~v~i~~d~--g~~kG~afVeF~s~eda~~Al~~-~g~~i~gR~I~V~~~~~  153 (232)
                      +|.|||=-||-+.++.||...|-+| .|+...+..|+  +++|-|+||.|+++.++++||.. |+-.|+-+.++|.+.++
T Consensus       285 GCNlFIYHLPQEFgDaEliQmF~PFGhivSaKVFvDRATNQSKCFGFVSfDNp~SaQaAIqAMNGFQIGMKRLKVQLKRP  364 (371)
T KOG0146|consen  285 GCNLFIYHLPQEFGDAELIQMFLPFGHIVSAKVFVDRATNQSKCFGFVSFDNPASAQAAIQAMNGFQIGMKRLKVQLKRP  364 (371)
T ss_pred             cceEEEEeCchhhccHHHHHHhccccceeeeeeeehhccccccceeeEecCCchhHHHHHHHhcchhhhhhhhhhhhcCc
Confidence            6999999999999999999999999 89988888888  89999999999999999999997 99999999999999888


Q ss_pred             CC
Q psy3727         154 SP  155 (232)
Q Consensus       154 ~~  155 (232)
                      +.
T Consensus       365 kd  366 (371)
T KOG0146|consen  365 KD  366 (371)
T ss_pred             cc
Confidence            73

>KOG0124|consensus

Probab=98.45  E-value=3e-07  Score=82.68  Aligned_cols=78  Identities=10%  Similarity=0.189  Sum_probs=72.5

Q ss_pred             CcEEEEcCCCCCCCHHHHHhccCCC-CceEEEEeecC--CCCccEEEEEeCCHHHHHHHHHh-CCceeeeeEEEEEecCC
Q psy3727          78 RHTVHMRGLPFRANERDVADFFRPV-VPVHVDIHYEN--GRPSGEADVDFATHEDAMQAMSK-DRTNMQHRYIELFLNSS  153 (232)
Q Consensus        78 ~~~vfV~nLp~~~te~dl~~~F~~~-~i~~v~i~~d~--g~~kG~afVeF~s~eda~~Al~~-~g~~i~gR~I~V~~~~~  153 (232)
                      -+.|||..+..+.+|+||+..|+.| +|+.|.+..+.  +.+|||+|+||++..+...||.- |--.|+|.+++|-.+-+
T Consensus       210 fnRiYVaSvHpDLSe~DiKSVFEAFG~I~~C~LAr~pt~~~HkGyGfiEy~n~qs~~eAiasMNlFDLGGQyLRVGk~vT  289 (544)
T KOG0124|consen  210 FNRIYVASVHPDLSETDIKSVFEAFGEIVKCQLARAPTGRGHKGYGFIEYNNLQSQSEAIASMNLFDLGGQYLRVGKCVT  289 (544)
T ss_pred             hheEEeeecCCCccHHHHHHHHHhhcceeeEEeeccCCCCCccceeeEEeccccchHHHhhhcchhhcccceEecccccC
Confidence            3789999999999999999999999 99999999998  78999999999999999999996 98999999999988776


Q ss_pred             CC
Q psy3727         154 SP  155 (232)
Q Consensus       154 ~~  155 (232)
                      ++
T Consensus       290 PP  291 (544)
T KOG0124|consen  290 PP  291 (544)
T ss_pred             CC
Confidence            65

>KOG0105|consensus

Probab=98.44  E-value=2.6e-06  Score=70.38  Aligned_cols=75  Identities=24%  Similarity=0.343  Sum_probs=60.0

Q ss_pred             CCCCcEEEEcCCCCCCCHHHHHhccCCC-CceEEEEeecCCCCccEEEEEeCCHHHHHHHHHh-CCceeee----eEEEE
Q psy3727          75 GPSRHTVHMRGLPFRANERDVADFFRPV-VPVHVDIHYENGRPSGEADVDFATHEDAMQAMSK-DRTNMQH----RYIEL  148 (232)
Q Consensus        75 ~~s~~~vfV~nLp~~~te~dl~~~F~~~-~i~~v~i~~d~g~~kG~afVeF~s~eda~~Al~~-~g~~i~g----R~I~V  148 (232)
                      ..|++.|.|.+||.+.+|+||+++..+. .|+...+.+|     |.+.|+|...||++-||.+ +.+.+..    -+|.|
T Consensus       112 rrSe~RVvVsGLp~SgSWQDLKDHmReaGdvCfadv~rD-----g~GvV~~~r~eDMkYAvr~ld~~~~~seGe~~yirv  186 (241)
T KOG0105|consen  112 RRSEYRVVVSGLPPSGSWQDLKDHMREAGDVCFADVQRD-----GVGVVEYLRKEDMKYAVRKLDDQKFRSEGETAYIRV  186 (241)
T ss_pred             cccceeEEEecCCCCCchHHHHHHHHhhCCeeeeeeecc-----cceeeeeeehhhHHHHHHhhccccccCcCcEeeEEe
Confidence            3457999999999999999999999998 8888888776     5899999999999999997 5554432    24555


Q ss_pred             EecCCC
Q psy3727         149 FLNSSS  154 (232)
Q Consensus       149 ~~~~~~  154 (232)
                      +.....
T Consensus       187 ~~~~~~  192 (241)
T KOG0105|consen  187 RGDENR  192 (241)
T ss_pred             cccCCC
Confidence            554443

>KOG4454|consensus

Probab=98.42  E-value=7.3e-08  Score=81.26  Aligned_cols=77  Identities=13%  Similarity=0.073  Sum_probs=69.2

Q ss_pred             CCCCcEEEEcCCCCCCCHHHHHhccCCC-CceEEEEeecC-CCCccEEEEEeCCHHHHHHHHHh-CCceeeeeEEEEEec
Q psy3727          75 GPSRHTVHMRGLPFRANERDVADFFRPV-VPVHVDIHYEN-GRPSGEADVDFATHEDAMQAMSK-DRTNMQHRYIELFLN  151 (232)
Q Consensus        75 ~~s~~~vfV~nLp~~~te~dl~~~F~~~-~i~~v~i~~d~-g~~kG~afVeF~s~eda~~Al~~-~g~~i~gR~I~V~~~  151 (232)
                      ++.+.||||.||...++|+-|.++|-+. -|++|.|..++ ++.| ||||+|+++..+.-|+++ |+..+.++.|.|.+-
T Consensus         6 ae~drtl~v~n~~~~v~eelL~ElfiqaGPV~kv~ip~~~d~~~k-Fa~v~f~~E~sv~~a~~L~ng~~l~~~e~q~~~r   84 (267)
T KOG4454|consen    6 AEMDRTLLVQNMYSGVSEELLSELFIQAGPVYKVGIPSGQDQEQK-FAYVFFPNENSVQLAGQLENGDDLEEDEEQRTLR   84 (267)
T ss_pred             cchhhHHHHHhhhhhhhHHHHHHHhhccCceEEEeCCCCccCCCc-eeeeecccccchhhhhhhcccchhccchhhcccc
Confidence            3346999999999999999999999999 77899999998 8888 999999999999999998 999999998887654


Q ss_pred             C
Q psy3727         152 S  152 (232)
Q Consensus       152 ~  152 (232)
                      .
T Consensus        85 ~   85 (267)
T KOG4454|consen   85 C   85 (267)
T ss_pred             c
Confidence            3

>KOG4661|consensus

Probab=98.37  E-value=6.3e-07  Score=84.48  Aligned_cols=78  Identities=17%  Similarity=0.244  Sum_probs=70.1

Q ss_pred             CcEEEEcCCCCCCCHHHHHhccCCC-CceEEEEeecC--CCCccEEEEEeCCHHHHHHHHHh-CCceeeeeEEEEEecCC
Q psy3727          78 RHTVHMRGLPFRANERDVADFFRPV-VPVHVDIHYEN--GRPSGEADVDFATHEDAMQAMSK-DRTNMQHRYIELFLNSS  153 (232)
Q Consensus        78 ~~~vfV~nLp~~~te~dl~~~F~~~-~i~~v~i~~d~--g~~kG~afVeF~s~eda~~Al~~-~g~~i~gR~I~V~~~~~  153 (232)
                      +..|+|.+|...+...||+.+|++| +|+.+.++++.  =-.+-|+||++.+.++|.+||+. +.++|.||.|.|..+..
T Consensus       405 gRNlWVSGLSstTRAtDLKnlFSKyGKVvGAKVVTNaRsPGaRCYGfVTMSts~eAtkCI~hLHrTELHGrmISVEkaKN  484 (940)
T KOG4661|consen  405 GRNLWVSGLSSTTRATDLKNLFSKYGKVVGAKVVTNARSPGARCYGFVTMSTSAEATKCIEHLHRTELHGRMISVEKAKN  484 (940)
T ss_pred             ccceeeeccccchhhhHHHHHHHHhcceeceeeeecCCCCCcceeEEEEecchHHHHHHHHHhhhhhhcceeeeeeeccc
Confidence            4789999999999999999999999 99998888876  22467999999999999999998 99999999999998876


Q ss_pred             CC
Q psy3727         154 SP  155 (232)
Q Consensus       154 ~~  155 (232)
                      .+
T Consensus       485 Ep  486 (940)
T KOG4661|consen  485 EP  486 (940)
T ss_pred             Cc
Confidence            54

>KOG0146|consensus

Probab=98.31  E-value=9.2e-07  Score=76.71  Aligned_cols=78  Identities=19%  Similarity=0.275  Sum_probs=67.9

Q ss_pred             CcEEEEcCCCCCCCHHHHHhccCCC-CceEEEEeecC-CCCccEEEEEeCCHHHHHHHHHh-CCc-eeee--eEEEEEec
Q psy3727          78 RHTVHMRGLPFRANERDVADFFRPV-VPVHVDIHYEN-GRPSGEADVDFATHEDAMQAMSK-DRT-NMQH--RYIELFLN  151 (232)
Q Consensus        78 ~~~vfV~nLp~~~te~dl~~~F~~~-~i~~v~i~~d~-g~~kG~afVeF~s~eda~~Al~~-~g~-~i~g--R~I~V~~~  151 (232)
                      +..|||+=|...-.|+|++.+|..| .+.+|++.... |.+||+|||.|.+..||+.||.. ++. .|-|  ..+.|+++
T Consensus        19 drklfvgml~kqq~e~dvrrlf~pfG~~~e~tvlrg~dg~sKGCAFVKf~s~~eAqaAI~aLHgSqTmpGASSSLVVK~A   98 (371)
T KOG0146|consen   19 DRKLFVGMLNKQQSEDDVRRLFQPFGNIEECTVLRGPDGNSKGCAFVKFSSHAEAQAAINALHGSQTMPGASSSLVVKFA   98 (371)
T ss_pred             chhhhhhhhcccccHHHHHHHhcccCCcceeEEecCCCCCCCCceEEEeccchHHHHHHHHhcccccCCCCccceEEEec
Confidence            4789999999999999999999999 88899999988 99999999999999999999996 543 3444  45888888


Q ss_pred             CCCC
Q psy3727         152 SSSP  155 (232)
Q Consensus       152 ~~~~  155 (232)
                      .+.+
T Consensus        99 DTdk  102 (371)
T KOG0146|consen   99 DTDK  102 (371)
T ss_pred             cchH
Confidence            7754

>PF04059 RRM_2: RNA recognition motif 2; InterPro: IPR007201 This RNA recognition motif 2 is found in Meiosis protein mei2

Probab=98.27  E-value=3.8e-06  Score=62.90  Aligned_cols=76  Identities=13%  Similarity=0.130  Sum_probs=61.0

Q ss_pred             cEEEEcCCCCCCCHHHHHhccCCC---CceEEEEeecC--CCCccEEEEEeCCHHHHHHHHHh-CCceee----eeEEEE
Q psy3727          79 HTVHMRGLPFRANERDVADFFRPV---VPVHVDIHYEN--GRPSGEADVDFATHEDAMQAMSK-DRTNMQ----HRYIEL  148 (232)
Q Consensus        79 ~~vfV~nLp~~~te~dl~~~F~~~---~i~~v~i~~d~--g~~kG~afVeF~s~eda~~Al~~-~g~~i~----gR~I~V  148 (232)
                      .||.|+|+|-..|.++|.+++.+.   ...-+-|+.|.  ..+.|||||-|.++++|.+-.+. ++..+.    .+.++|
T Consensus         2 TTvMirNIPn~~t~~~L~~~l~~~~~g~yDF~YLPiDf~~~~N~GYAFVNf~~~~~~~~F~~~f~g~~w~~~~s~Kvc~i   81 (97)
T PF04059_consen    2 TTVMIRNIPNKYTQEMLIQILDEHFKGKYDFFYLPIDFKNKCNLGYAFVNFTSPQAAIRFYKAFNGKKWPNFNSKKVCEI   81 (97)
T ss_pred             eeEEEecCCCCCCHHHHHHHHHHhccCcceEEEeeeeccCCCceEEEEEEcCCHHHHHHHHHHHcCCccccCCCCcEEEE
Confidence            589999999999999999998753   44456666665  78999999999999999998887 777664    345677


Q ss_pred             EecCCC
Q psy3727         149 FLNSSS  154 (232)
Q Consensus       149 ~~~~~~  154 (232)
                      .+|+..
T Consensus        82 ~yAriQ   87 (97)
T PF04059_consen   82 SYARIQ   87 (97)
T ss_pred             ehhHhh
Confidence            776554

It is found C-terminal to the RNA-binding region RNP-1 (IPR000504 from INTERPRO).

>KOG0226|consensus

Probab=98.21  E-value=8.4e-07  Score=76.34  Aligned_cols=77  Identities=18%  Similarity=0.209  Sum_probs=69.9

Q ss_pred             CcEEEEcCCCCCCCHHHHHhccCCC-CceEEEEeecC--CCCccEEEEEeCCHHHHHHHHHh-CCceeeeeEEEEEecCC
Q psy3727          78 RHTVHMRGLPFRANERDVADFFRPV-VPVHVDIHYEN--GRPSGEADVDFATHEDAMQAMSK-DRTNMQHRYIELFLNSS  153 (232)
Q Consensus        78 ~~~vfV~nLp~~~te~dl~~~F~~~-~i~~v~i~~d~--g~~kG~afVeF~s~eda~~Al~~-~g~~i~gR~I~V~~~~~  153 (232)
                      ++.||.+.|.-+++.+.|...|..| .-....+++|+  +++|||+||.|.+.+|+..|++. |+..++.|.|.+..+.-
T Consensus       190 DfRIfcgdlgNevnd~vl~raf~Kfpsf~~akviRdkRTgKSkgygfVSf~~pad~~rAmrem~gkyVgsrpiklRkS~w  269 (290)
T KOG0226|consen  190 DFRIFCGDLGNEVNDDVLARAFKKFPSFQKAKVIRDKRTGKSKGYGFVSFRDPADYVRAMREMNGKYVGSRPIKLRKSEW  269 (290)
T ss_pred             cceeecccccccccHHHHHHHHHhccchhhccccccccccccccceeeeecCHHHHHHHHHhhcccccccchhHhhhhhH
Confidence            7999999999999999999999999 66677888887  99999999999999999999997 99999999998866544


Q ss_pred             C
Q psy3727         154 S  154 (232)
Q Consensus       154 ~  154 (232)
                      +
T Consensus       270 k  270 (290)
T KOG0226|consen  270 K  270 (290)
T ss_pred             H
Confidence            4

>KOG4210|consensus

Probab=98.08  E-value=3.8e-06  Score=74.56  Aligned_cols=77  Identities=21%  Similarity=0.317  Sum_probs=69.8

Q ss_pred             cEEE-EcCCCCCCCHHHHHhccCCC-CceEEEEeecC--CCCccEEEEEeCCHHHHHHHHHhCCceeeeeEEEEEecCCC
Q psy3727          79 HTVH-MRGLPFRANERDVADFFRPV-VPVHVDIHYEN--GRPSGEADVDFATHEDAMQAMSKDRTNMQHRYIELFLNSSS  154 (232)
Q Consensus        79 ~~vf-V~nLp~~~te~dl~~~F~~~-~i~~v~i~~d~--g~~kG~afVeF~s~eda~~Al~~~g~~i~gR~I~V~~~~~~  154 (232)
                      .+++ |.+|++.+++++|+.+|..+ .|..|+++.+.  +..+|||+|+|.+..++..|+..+...+.++++.|......
T Consensus       185 ~~~~~~~~~~f~~~~d~~~~~~~~~~~i~~~r~~~~~~s~~~kg~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  264 (285)
T KOG4210|consen  185 DTIFFVGELDFSLTRDDLKEHFVSSGEITSVRLPTDEESGDSKGFAYVDFSAGNSKKLALNDQTRSIGGRPLRLEEDEPR  264 (285)
T ss_pred             ccceeecccccccchHHHhhhccCcCcceeeccCCCCCccchhhhhhhhhhhchhHHHHhhcccCcccCcccccccCCCC
Confidence            6666 99999999999999999999 88899999887  99999999999999999999987777899999999888777


Q ss_pred             C
Q psy3727         155 P  155 (232)
Q Consensus       155 ~  155 (232)
                      +
T Consensus       265 ~  265 (285)
T KOG4210|consen  265 P  265 (285)
T ss_pred             c
Confidence            4

>KOG0129|consensus

Probab=98.00  E-value=6.9e-05  Score=70.18  Aligned_cols=127  Identities=15%  Similarity=0.112  Sum_probs=77.6

Q ss_pred             CcEEEEcCCCCCCCHHHHHhccCCCCceEEEEeecC-----CCCcc---EEEEEeCCHHHHHHHHHhCCceeeeeEEEEE
Q psy3727          78 RHTVHMRGLPFRANERDVADFFRPVVPVHVDIHYEN-----GRPSG---EADVDFATHEDAMQAMSKDRTNMQHRYIELF  149 (232)
Q Consensus        78 ~~~vfV~nLp~~~te~dl~~~F~~~~i~~v~i~~d~-----g~~kG---~afVeF~s~eda~~Al~~~g~~i~gR~I~V~  149 (232)
                      ...|||++|||+++|++|...|..|..+.|..+...     --+||   |+|+.|+++..+++-|..--..-..-+|.|.
T Consensus       259 S~KVFvGGlp~dise~~i~~~F~~FGs~~VdWP~k~~~~~~~ppkGs~~YvflvFe~E~sV~~Ll~aC~~~~~~~yf~vs  338 (520)
T KOG0129|consen  259 SRKVFVGGLPWDITEAQINASFGQFGSVKVDWPGKANSRGRAPPKGSYGYVFLVFEDERSVQSLLSACSEGEGNYYFKVS  338 (520)
T ss_pred             ccceeecCCCccccHHHHHhhcccccceEeecCCCccccccCCCCCcccEEEEEecchHHHHHHHHHHhhcccceEEEEe
Confidence            488999999999999999999999977777777322     23788   9999999998888777641111122223332


Q ss_pred             ecCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCcceEEEcCCCccccHHHHHhhhCC
Q psy3727         150 LNSSSPRGGVGGSGSIGGFGGSGGGRLGGFGGSDPSSPFERRNPNQAYVENTALSRSAVKDRAINVQLC  218 (232)
Q Consensus       150 ~~~~~~~~~~~g~~g~gg~gg~~gg~~gg~g~~~~~~~~~~~~~~~~~v~~~gLp~~~t~~dl~~fF~~  218 (232)
                      ..+-+.. ...-+--.        -...-|    ... ....-....+|+|.+||--.|.+||..+|..
T Consensus       339 s~~~k~k-~VQIrPW~--------laDs~f----v~d-~sq~lDprrTVFVGgvprpl~A~eLA~imd~  393 (520)
T KOG0129|consen  339 SPTIKDK-EVQIRPWV--------LADSDF----VLD-HNQPIDPRRTVFVGGLPRPLTAEELAMIMED  393 (520)
T ss_pred             cCccccc-ceeEEeeE--------eccchh----hhc-cCcccCccceEEecCCCCcchHHHHHHHHHH
Confidence            2211110 00000000        000000    001 0111122468999999999999999999973

>KOG0106|consensus

Probab=97.99  E-value=3.4e-06  Score=71.62  Aligned_cols=68  Identities=31%  Similarity=0.425  Sum_probs=58.7

Q ss_pred             CCcEEEEcCCCCCCCHHHHHhccCCC-CceEEEEeecCCCCccEEEEEeCCHHHHHHHHHh-CCceeeeeEEEEEe
Q psy3727          77 SRHTVHMRGLPFRANERDVADFFRPV-VPVHVDIHYENGRPSGEADVDFATHEDAMQAMSK-DRTNMQHRYIELFL  150 (232)
Q Consensus        77 s~~~vfV~nLp~~~te~dl~~~F~~~-~i~~v~i~~d~g~~kG~afVeF~s~eda~~Al~~-~g~~i~gR~I~V~~  150 (232)
                      +.+.|+|.+|+..+.|++|.++|.++ .+..+.+      ..+++||+|++++||+.||++ ++..|.++.|.|..
T Consensus        98 s~~r~~~~~~~~r~~~qdl~d~~~~~g~~~~~~~------~~~~~~v~Fs~~~da~ra~~~l~~~~~~~~~l~~~~  167 (216)
T KOG0106|consen   98 THFRLIVRNLSLRVSWQDLKDHFRPAGEVTYVDA------RRNFAFVEFSEQEDAKRALEKLDGKKLNGRRISVEK  167 (216)
T ss_pred             ccceeeeccchhhhhHHHHhhhhcccCCCchhhh------hccccceeehhhhhhhhcchhccchhhcCceeeecc
Confidence            36999999999999999999999999 4433322      346999999999999999998 99999999999943

>PF11608 Limkain-b1: Limkain b1; InterPro: IPR024582 This entry represents a conserved domain found in limkain b1, which is a novel human autoantigen, localised to a subset of ABCD3 and PXF marked peroxisomes

Probab=97.95  E-value=2.2e-05  Score=56.98  Aligned_cols=68  Identities=15%  Similarity=0.213  Sum_probs=45.8

Q ss_pred             cEEEEcCCCCCCCHHHHH----hccCCC--CceEEEEeecCCCCccEEEEEeCCHHHHHHHHHh-CCceeeeeEEEEEec
Q psy3727          79 HTVHMRGLPFRANERDVA----DFFRPV--VPVHVDIHYENGRPSGEADVDFATHEDAMQAMSK-DRTNMQHRYIELFLN  151 (232)
Q Consensus        79 ~~vfV~nLp~~~te~dl~----~~F~~~--~i~~v~i~~d~g~~kG~afVeF~s~eda~~Al~~-~g~~i~gR~I~V~~~  151 (232)
                      ..|+|.|||.+.....|+    .++..|  +|+.|        ..+.|+|.|.+++.|.+|.++ ++..+-|++|.|.+.
T Consensus         3 s~L~V~NLP~~~d~~~I~~RL~qLsdNCGGkVl~v--------~~~tAilrF~~~~~A~RA~KRmegEdVfG~kI~v~~~   74 (90)
T PF11608_consen    3 SLLYVSNLPTNKDPSSIKNRLRQLSDNCGGKVLSV--------SGGTAILRFPNQEFAERAQKRMEGEDVFGNKISVSFS   74 (90)
T ss_dssp             EEEEEES--TTS-HHHHHHHHHHHHHTTT--EEE----------TT-EEEEESSHHHHHHHHHHHTT--SSSS--EEESS
T ss_pred             cEEEEecCCCCCCHHHHHHHHHHHhhccCCEEEEE--------eCCEEEEEeCCHHHHHHHHHhhcccccccceEEEEEc
Confidence            469999999999887755    455577  55555        246899999999999999998 999999999999887


Q ss_pred             CCC
Q psy3727         152 SSS  154 (232)
Q Consensus       152 ~~~  154 (232)
                      ...
T Consensus        75 ~~~   77 (90)
T PF11608_consen   75 PKN   77 (90)
T ss_dssp             --S
T ss_pred             CCc
Confidence            443

Limkain b1 may be a relatively common target of human autoantibodies reactive to cytoplasmic vesicle-like structures [].; PDB: 2DIU_A.

>PF08777 RRM_3: RNA binding motif; InterPro: IPR014886 This domain is found in protein La which functions as an RNA chaperone during RNA polymerase III transcription, and can also stimulate translation initiation

Probab=97.85  E-value=3.2e-05  Score=58.79  Aligned_cols=67  Identities=22%  Similarity=0.284  Sum_probs=41.5

Q ss_pred             cEEEEcCCCCCCCHHHHHhccCCC-CceEEEEeecCCCCccEEEEEeCCHHHHHHHHHh---C---CceeeeeEEEEE
Q psy3727          79 HTVHMRGLPFRANERDVADFFRPV-VPVHVDIHYENGRPSGEADVDFATHEDAMQAMSK---D---RTNMQHRYIELF  149 (232)
Q Consensus        79 ~~vfV~nLp~~~te~dl~~~F~~~-~i~~v~i~~d~g~~kG~afVeF~s~eda~~Al~~---~---g~~i~gR~I~V~  149 (232)
                      +.|+|.+++-.++.++|++.|++| .|..|.+...  .  -.|+|.|.++++|++|+++   .   +..|.+..+.+.
T Consensus         2 ~il~~~g~~~~~~re~iK~~f~~~g~V~yVD~~~G--~--~~g~VRf~~~~~A~~a~~~~~~~~~~~~~i~~~~~~~~   75 (105)
T PF08777_consen    2 CILKFSGLGEPTSREDIKEAFSQFGEVAYVDFSRG--D--TEGYVRFKTPEAAQKALEKLKEANDGKLKIKGKEVTLE   75 (105)
T ss_dssp             -EEEEEE--SS--HHHHHHHT-SS--EEEEE--TT-----SEEEEEESS---HHHHHHHHHHTTTS-B-TTSSSEEEE
T ss_pred             eEEEEecCCCCcCHHHHHHHHHhcCCcceEEecCC--C--CEEEEEECCcchHHHHHHHHHhccCCceEEcCceEEEE
Confidence            689999999999999999999999 7777777543  2  3899999999999999995   3   334555444443

It contains a five stranded beta sheet which forms an atypical RNA recognition motif []. ; PDB: 1OWX_A.

>KOG0128|consensus

Probab=97.80  E-value=2e-06  Score=84.24  Aligned_cols=88  Identities=22%  Similarity=0.240  Sum_probs=70.4

Q ss_pred             cEEEEcCCCCCCCHHHHHhccCCC---CceEEEEeecCCCCccEEEEEeCCHHHHHHHHHh-CCceeeeeEEEEEecCCC
Q psy3727          79 HTVHMRGLPFRANERDVADFFRPV---VPVHVDIHYENGRPSGEADVDFATHEDAMQAMSK-DRTNMQHRYIELFLNSSS  154 (232)
Q Consensus        79 ~~vfV~nLp~~~te~dl~~~F~~~---~i~~v~i~~d~g~~kG~afVeF~s~eda~~Al~~-~g~~i~gR~I~V~~~~~~  154 (232)
                      .++||+||+..+.++||..+|..+   +++.|.+..++++.+|.|||+|.+++++.+||.. +++.++            
T Consensus       668 ~~~fvsnl~~~~~~~dl~~~~~~~~~~e~vqi~~h~n~~~~rG~~Y~~F~~~~~~~aaV~f~d~~~~g------------  735 (881)
T KOG0128|consen  668 IKIFVSNLSPKMSEEDLSERFSPSGTIEVVQIVIHKNEKRFRGKAYVEFLKPEHAGAAVAFRDSCFFG------------  735 (881)
T ss_pred             HHHHHhhcchhhcCchhhhhcCccchhhhHHHHHHhhccccccceeeEeecCCchhhhhhhhhhhhhh------------
Confidence            689999999999999999999987   3334444445589999999999999999999997 444332            


Q ss_pred             CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCcceEEEcCCCccccHHHHHhhhCC
Q psy3727         155 PRGGVGGSGSIGGFGGSGGGRLGGFGGSDPSSPFERRNPNQAYVENTALSRSAVKDRAINVQLC  218 (232)
Q Consensus       155 ~~~~~~g~~g~gg~gg~~gg~~gg~g~~~~~~~~~~~~~~~~~v~~~gLp~~~t~~dl~~fF~~  218 (232)
                                                              ...|.++|+||.+|+++|+.+|..
T Consensus       736 ----------------------------------------K~~v~i~g~pf~gt~e~~k~l~~~  759 (881)
T KOG0128|consen  736 ----------------------------------------KISVAISGPPFQGTKEELKSLASK  759 (881)
T ss_pred             ----------------------------------------hhhhheeCCCCCCchHHHHhhccc
Confidence                                                    125677888888888888888763

>KOG4660|consensus

Probab=97.70  E-value=2.2e-05  Score=73.93  Aligned_cols=67  Identities=18%  Similarity=0.216  Sum_probs=60.6

Q ss_pred             CcEEEEcCCCCCCCHHHHHhccCCC-CceEEEEeecCCCCccEEEEEeCCHHHHHHHHHh-CCceeeeeEEE
Q psy3727          78 RHTVHMRGLPFRANERDVADFFRPV-VPVHVDIHYENGRPSGEADVDFATHEDAMQAMSK-DRTNMQHRYIE  147 (232)
Q Consensus        78 ~~~vfV~nLp~~~te~dl~~~F~~~-~i~~v~i~~d~g~~kG~afVeF~s~eda~~Al~~-~g~~i~gR~I~  147 (232)
                      ..+|+|-|||.++++++|..+|+.| +|..|+....   ..|..||+|-+..+|++|++. +..+|.++.|.
T Consensus        75 ~~~L~v~nl~~~Vsn~~L~~~f~~yGeir~ir~t~~---~~~~~~v~FyDvR~A~~Alk~l~~~~~~~~~~k  143 (549)
T KOG4660|consen   75 QGTLVVFNLPRSVSNDTLLRIFGAYGEIREIRETPN---KRGIVFVEFYDVRDAERALKALNRREIAGKRIK  143 (549)
T ss_pred             cceEEEEecCCcCCHHHHHHHHHhhcchhhhhcccc---cCceEEEEEeehHhHHHHHHHHHHHHhhhhhhc
Confidence            5899999999999999999999999 8888766543   467999999999999999998 99999999987

>KOG1456|consensus

Probab=97.66  E-value=0.0086  Score=54.60  Aligned_cols=133  Identities=14%  Similarity=0.168  Sum_probs=89.7

Q ss_pred             CcEEEEcCCCCC-CCHHHHHhccCCC-CceEEEEeecCCCCccEEEEEeCCHHHHHHHHHh-CCceeeeeEEEEEecCCC
Q psy3727          78 RHTVHMRGLPFR-ANERDVADFFRPV-VPVHVDIHYENGRPSGEADVDFATHEDAMQAMSK-DRTNMQHRYIELFLNSSS  154 (232)
Q Consensus        78 ~~~vfV~nLp~~-~te~dl~~~F~~~-~i~~v~i~~d~g~~kG~afVeF~s~eda~~Al~~-~g~~i~gR~I~V~~~~~~  154 (232)
                      ++++.|-+|... ..-+.|..+|-.| +|.+|.+++.+   .|-|.||+.+..+.++|+.. |+..|-|.+|.|..+...
T Consensus       287 g~VmMVyGLdh~k~N~drlFNl~ClYGNV~rvkFmkTk---~gtamVemgd~~aver~v~hLnn~~lfG~kl~v~~SkQ~  363 (494)
T KOG1456|consen  287 GCVMMVYGLDHGKMNCDRLFNLFCLYGNVERVKFMKTK---PGTAMVEMGDAYAVERAVTHLNNIPLFGGKLNVCVSKQN  363 (494)
T ss_pred             CcEEEEEeccccccchhhhhhhhhhcCceeeEEEeecc---cceeEEEcCcHHHHHHHHHHhccCccccceEEEeecccc
Confidence            699999999765 5666799999999 99999999864   46899999999999999997 888888999999887654


Q ss_pred             CCCCCC------CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCcceEEEcCCCccccHHHHHhhhC
Q psy3727         155 PRGGVG------GSGSIGGFGGSGGGRLGGFGGSDPSSPFERRNPNQAYVENTALSRSAVKDRAINVQL  217 (232)
Q Consensus       155 ~~~~~~------g~~g~gg~gg~~gg~~gg~g~~~~~~~~~~~~~~~~~v~~~gLp~~~t~~dl~~fF~  217 (232)
                      --....      +.-+-..|.+.+..   .|..++- ...++-.+....|+.-|.|..+|+|.|.++|.
T Consensus       364 ~v~~~~pflLpDgSpSfKdys~SkNn---RFssp~q-AsKNrIq~Ps~vLHffNaP~~vtEe~l~~i~n  428 (494)
T KOG1456|consen  364 FVSPVQPFLLPDGSPSFKDYSGSKNN---RFSSPEQ-ASKNRIQPPSNVLHFFNAPLGVTEEQLIGICN  428 (494)
T ss_pred             ccccCCceecCCCCcchhhccccccc---ccCChhH-hhcccccCCcceeEEecCCCccCHHHHHHHhh
Confidence            211000      00000111111111   1111110 00112223345788899999999999999985

>KOG1457|consensus

Probab=97.52  E-value=7.6e-05  Score=63.48  Aligned_cols=59  Identities=22%  Similarity=0.252  Sum_probs=45.4

Q ss_pred             cEEEEcCCCCCCCHHHHHhccCCC-CceEEEEeecCCCCccEEEEEeCCHHHHHHHHHh-CCc
Q psy3727          79 HTVHMRGLPFRANERDVADFFRPV-VPVHVDIHYENGRPSGEADVDFATHEDAMQAMSK-DRT  139 (232)
Q Consensus        79 ~~vfV~nLp~~~te~dl~~~F~~~-~i~~v~i~~d~g~~kG~afVeF~s~eda~~Al~~-~g~  139 (232)
                      .||||-||..+|||++|+.+|+.| ....++|....|.+  .|||+|++.|.|..||.. .+.
T Consensus       211 stlfianl~~~~~ed~l~~~~~~~~gf~~l~~~~~~g~~--vaf~~~~~~~~at~am~~lqg~  271 (284)
T KOG1457|consen  211 STLFIANLGPNCTEDELKQLLSRYPGFHILKIRARGGMP--VAFADFEEIEQATDAMNHLQGN  271 (284)
T ss_pred             hhHhhhccCCCCCHHHHHHHHHhCCCceEEEEecCCCcc--eEeecHHHHHHHHHHHHHhhcc
Confidence            589999999999999999999988 44333332222443  799999999999999875 443

>KOG4849|consensus

Probab=97.46  E-value=0.00015  Score=65.31  Aligned_cols=73  Identities=10%  Similarity=0.129  Sum_probs=61.5

Q ss_pred             CcEEEEcCCCCCCCHHHHHhccCCC---CceEEEEeecC--CCCccEEEEEeCCHHHHHHHHHh-CCceeeeeEEEEEe
Q psy3727          78 RHTVHMRGLPFRANERDVADFFRPV---VPVHVDIHYEN--GRPSGEADVDFATHEDAMQAMSK-DRTNMQHRYIELFL  150 (232)
Q Consensus        78 ~~~vfV~nLp~~~te~dl~~~F~~~---~i~~v~i~~d~--g~~kG~afVeF~s~eda~~Al~~-~g~~i~gR~I~V~~  150 (232)
                      ..++||+||-|-+|.+||.+.....   .+.++.+..++  |++||||.|...+....++-|+. -.++|.|..-.|..
T Consensus        80 k~~~YvGNL~W~TTD~DL~~A~~S~G~~~~~dmKFFENR~NGQSKG~AL~~~~SdAa~Kq~MeiLP~k~iHGQ~P~V~~  158 (498)
T KOG4849|consen   80 KYCCYVGNLLWYTTDADLLKALQSTGLAQFADMKFFENRTNGQSKGYALLVLNSDAAVKQTMEILPTKTIHGQSPTVLS  158 (498)
T ss_pred             eEEEEecceeEEeccHHHHHHHHhhhHHHHhhhhhhhcccCCcccceEEEEecchHHHHHHHHhcccceecCCCCeeec
Confidence            4789999999999999998888754   55677777676  99999999999999999999997 88888888655543

>KOG0129|consensus

Probab=97.42  E-value=0.00032  Score=65.80  Aligned_cols=59  Identities=25%  Similarity=0.390  Sum_probs=55.4

Q ss_pred             CcEEEEcCCCCCCCHHHHHhccCC-C-CceEEEEeecC--CCCccEEEEEeCCHHHHHHHHHh
Q psy3727          78 RHTVHMRGLPFRANERDVADFFRP-V-VPVHVDIHYEN--GRPSGEADVDFATHEDAMQAMSK  136 (232)
Q Consensus        78 ~~~vfV~nLp~~~te~dl~~~F~~-~-~i~~v~i~~d~--g~~kG~afVeF~s~eda~~Al~~  136 (232)
                      ..||||++||--+|.++|..+|+. | .|+.|-|.+|.  .-+||-|-|+|.+.....+||++
T Consensus       370 rrTVFVGgvprpl~A~eLA~imd~lyGgV~yaGIDtD~k~KYPkGaGRVtFsnqqsYi~AIsa  432 (520)
T KOG0129|consen  370 RRTVFVGGLPRPLTAEELAMIMEDLFGGVLYVGIDTDPKLKYPKGAGRVTFSNQQAYIKAISA  432 (520)
T ss_pred             cceEEecCCCCcchHHHHHHHHHHhcCceEEEEeccCcccCCCCCcceeeecccHHHHHHHhh
Confidence            489999999999999999999996 4 88899999995  88999999999999999999995

>KOG1190|consensus

Probab=97.42  E-value=9.1e-05  Score=67.72  Aligned_cols=135  Identities=16%  Similarity=0.123  Sum_probs=82.1

Q ss_pred             CCCcEEEEcCCCCCCCHHHHHhccCCC-CceEEEEeecCCCCccEEEEEeCCHHHHHHHHHh---CCceeeeeEEEEEec
Q psy3727          76 PSRHTVHMRGLPFRANERDVADFFRPV-VPVHVDIHYENGRPSGEADVDFATHEDAMQAMSK---DRTNMQHRYIELFLN  151 (232)
Q Consensus        76 ~s~~~vfV~nLp~~~te~dl~~~F~~~-~i~~v~i~~d~g~~kG~afVeF~s~eda~~Al~~---~g~~i~gR~I~V~~~  151 (232)
                      +| ..|+++||||++||+||.+++.+| +|+.+.+.+.+    --||+||++++.|..-+..   ---.|.++.|.|.++
T Consensus        27 pS-kV~HlRnlp~e~tE~elI~Lg~pFG~vtn~~~lkGk----nQAflem~d~~sAvtmv~~y~~~~p~lr~~~~yiq~s  101 (492)
T KOG1190|consen   27 PS-KVVHLRNLPWEVTEEELISLGLPFGKVTNLLMLKGK----NQAFLEMADEESAVTMVNYYTSVTPVLRGQPIYIQYS  101 (492)
T ss_pred             Cc-ceeEeccCCccccHHHHHHhcccccceeeeeeeccc----hhhhhhhcchhhhhheeecccccCccccCcceeehhh
Confidence            44 899999999999999999999999 88888776542    2799999999998874442   233567777777766


Q ss_pred             CCCCCCCCCCCC-CCC-----CCCCCCCCCCCCCCCCCCCCCCCCCCCCc-ceEEEcCCCccccHHHHHhhhC
Q psy3727         152 SSSPRGGVGGSG-SIG-----GFGGSGGGRLGGFGGSDPSSPFERRNPNQ-AYVENTALSRSAVKDRAINVQL  217 (232)
Q Consensus       152 ~~~~~~~~~g~~-g~g-----g~gg~~gg~~gg~g~~~~~~~~~~~~~~~-~~v~~~gLp~~~t~~dl~~fF~  217 (232)
                      ...........- -++     -+......-. .-. ...........++. ..+.+.+|-|.+|-|=|-++|.
T Consensus       102 n~~~lkt~s~p~q~r~~~vy~~~s~~q~~~~-~~s-~~~~~~G~~~~~n~vLr~iie~m~ypVslDVLHqvFS  172 (492)
T KOG1190|consen  102 NHSELKTDSQPNQIRGQAVYQAVSSVQEIVL-PLS-ASAVVVGNEDGPNPVLRTIIENMFYPVSLDVLHQVFS  172 (492)
T ss_pred             hHHHHhccCchhhhhhhhHHhhhhccccccc-ccc-cccccccccCCCceeEEEEeccceeeeEHHHHHHHHh
Confidence            544322111100 000     0000000000 000 00001111222332 4578889999999999999996

>KOG0120|consensus

Probab=97.34  E-value=0.00018  Score=68.04  Aligned_cols=81  Identities=14%  Similarity=0.196  Sum_probs=71.6

Q ss_pred             CCCCCcEEEEcCCCCCCCHHHHHhccCCC-CceEEEEeecC--CCCccEEEEEeCCHHHHHHHHHh-CCceeeeeEEEEE
Q psy3727          74 SGPSRHTVHMRGLPFRANERDVADFFRPV-VPVHVDIHYEN--GRPSGEADVDFATHEDAMQAMSK-DRTNMQHRYIELF  149 (232)
Q Consensus        74 ~~~s~~~vfV~nLp~~~te~dl~~~F~~~-~i~~v~i~~d~--g~~kG~afVeF~s~eda~~Al~~-~g~~i~gR~I~V~  149 (232)
                      .+.+.+.|+|++||...++.+++++...| .+....++++.  |.+|||||.+|.++.....|+.- |+..+.+.+|.|.
T Consensus       285 ~~~~~~ki~v~~lp~~l~~~q~~Ell~~fg~lk~f~lv~d~~~g~skg~af~ey~dpsvtd~A~agLnGm~lgd~~lvvq  364 (500)
T KOG0120|consen  285 VPDSPNKIFVGGLPLYLTEDQVKELLDSFGPLKAFRLVKDSATGNSKGFAFCEYCDPSVTDQAIAGLNGMQLGDKKLVVQ  364 (500)
T ss_pred             cccccchhhhccCcCccCHHHHHHHHHhcccchhheeecccccccccceeeeeeeCCcchhhhhcccchhhhcCceeEee
Confidence            33446899999999999999999999988 66677788887  89999999999999999999997 9999999999998


Q ss_pred             ecCCC
Q psy3727         150 LNSSS  154 (232)
Q Consensus       150 ~~~~~  154 (232)
                      .+...
T Consensus       365 ~A~~g  369 (500)
T KOG0120|consen  365 RAIVG  369 (500)
T ss_pred             hhhcc
Confidence            87664

>KOG4206|consensus

Probab=97.29  E-value=0.001  Score=56.57  Aligned_cols=74  Identities=15%  Similarity=0.253  Sum_probs=59.0

Q ss_pred             CCCCCcEEEEcCCCCCCCHHHHHhccCCC-CceEEEEeecCCCCccEEEEEeCCHHHHHHHHHh-CCceee-eeEEEEEe
Q psy3727          74 SGPSRHTVHMRGLPFRANERDVADFFRPV-VPVHVDIHYENGRPSGEADVDFATHEDAMQAMSK-DRTNMQ-HRYIELFL  150 (232)
Q Consensus        74 ~~~s~~~vfV~nLp~~~te~dl~~~F~~~-~i~~v~i~~d~g~~kG~afVeF~s~eda~~Al~~-~g~~i~-gR~I~V~~  150 (232)
                      .++. .++|+.|||.+++.+.|..+|.+| .-..|+++-.   .++.|||+|.+...|..|... .+..|- ...|.|..
T Consensus       143 ~ppn-~ilf~~niP~es~~e~l~~lf~qf~g~keir~i~~---~~~iAfve~~~d~~a~~a~~~lq~~~it~~~~m~i~~  218 (221)
T KOG4206|consen  143 APPN-NILFLTNIPSESESEMLSDLFEQFPGFKEIRLIPP---RSGIAFVEFLSDRQASAAQQALQGFKITKKNTMQITF  218 (221)
T ss_pred             CCCc-eEEEEecCCcchhHHHHHHHHhhCcccceeEeccC---CCceeEEecchhhhhHHHhhhhccceeccCceEEecc
Confidence            4444 999999999999999999999999 7778888764   357999999999998888875 555554 55566655


Q ss_pred             c
Q psy3727         151 N  151 (232)
Q Consensus       151 ~  151 (232)
                      +
T Consensus       219 a  219 (221)
T KOG4206|consen  219 A  219 (221)
T ss_pred             c
Confidence            4

>KOG0151|consensus

Probab=97.25  E-value=0.00088  Score=65.08  Aligned_cols=76  Identities=16%  Similarity=0.119  Sum_probs=65.2

Q ss_pred             cEEEEcCCCCCCCHHHHHhccCCC-CceEEEEeecC-----CCCccEEEEEeCCHHHHHHHHHh-CCceeeeeEEEEEec
Q psy3727          79 HTVHMRGLPFRANERDVADFFRPV-VPVHVDIHYEN-----GRPSGEADVDFATHEDAMQAMSK-DRTNMQHRYIELFLN  151 (232)
Q Consensus        79 ~~vfV~nLp~~~te~dl~~~F~~~-~i~~v~i~~d~-----g~~kG~afVeF~s~eda~~Al~~-~g~~i~gR~I~V~~~  151 (232)
                      .-|||.||+..++++.|...|..| -+..|.|+.-+     -+..-++||-|-+..||++|++. ++..+..+.+++-++
T Consensus       175 TNlyv~Nlnpsv~E~~ll~tfGrfgPlasvKimwpRtEeEk~r~r~cgfvafmnR~D~era~k~lqg~iv~~~e~K~gWg  254 (877)
T KOG0151|consen  175 TNLYVGNLNPSVDENFLLRTFGRFGPLASVKIMWPRTEEEKRRERNCGFVAFMNRADAERALKELQGIIVMEYEMKLGWG  254 (877)
T ss_pred             cceeeecCCccccHHHHHHHhcccCcccceeeecccchhhhccccccceeeehhhhhHHHHHHHhcceeeeeeeeeeccc
Confidence            679999999999999999999988 55566666433     55677999999999999999998 999999999998877


Q ss_pred             CCC
Q psy3727         152 SSS  154 (232)
Q Consensus       152 ~~~  154 (232)
                      ..-
T Consensus       255 k~V  257 (877)
T KOG0151|consen  255 KAV  257 (877)
T ss_pred             ccc
Confidence            543

>KOG0128|consensus

Probab=97.23  E-value=0.00011  Score=72.41  Aligned_cols=77  Identities=19%  Similarity=0.373  Sum_probs=70.3

Q ss_pred             CcEEEEcCCCCCCCHHHHHhccCCC-CceEEEEeecC-CCCccEEEEEeCCHHHHHHHHHh-CCceeeeeEEEEEecCCC
Q psy3727          78 RHTVHMRGLPFRANERDVADFFRPV-VPVHVDIHYEN-GRPSGEADVDFATHEDAMQAMSK-DRTNMQHRYIELFLNSSS  154 (232)
Q Consensus        78 ~~~vfV~nLp~~~te~dl~~~F~~~-~i~~v~i~~d~-g~~kG~afVeF~s~eda~~Al~~-~g~~i~gR~I~V~~~~~~  154 (232)
                      ...|+|+|+||.+|.++|+.+++.. ++.++.++..+ |++||.|+|.|.++.++..++.. +...+.-+.++|..+.+.
T Consensus       736 K~~v~i~g~pf~gt~e~~k~l~~~~gn~~~~~~vt~r~gkpkg~a~v~y~~ea~~s~~~~s~d~~~~rE~~~~v~vsnp~  815 (881)
T KOG0128|consen  736 KISVAISGPPFQGTKEELKSLASKTGNVTSLRLVTVRAGKPKGKARVDYNTEADASRKVASVDVAGKRENNGEVQVSNPE  815 (881)
T ss_pred             hhhhheeCCCCCCchHHHHhhccccCCccccchhhhhccccccceeccCCCcchhhhhcccchhhhhhhcCccccccCCc
Confidence            4789999999999999999999999 88888888888 99999999999999999999998 888888888888886653

>KOG4210|consensus

Probab=97.22  E-value=0.00039  Score=61.81  Aligned_cols=116  Identities=16%  Similarity=0.071  Sum_probs=81.5

Q ss_pred             CcEEEEcCCCCCCCHHHHHhccCCC-CceEEEEeecC--CCCccEEEEEeCCHHHHHHHHHhCC-ceeeeeEEEEEecCC
Q psy3727          78 RHTVHMRGLPFRANERDVADFFRPV-VPVHVDIHYEN--GRPSGEADVDFATHEDAMQAMSKDR-TNMQHRYIELFLNSS  153 (232)
Q Consensus        78 ~~~vfV~nLp~~~te~dl~~~F~~~-~i~~v~i~~d~--g~~kG~afVeF~s~eda~~Al~~~g-~~i~gR~I~V~~~~~  153 (232)
                      -.++|++++.+.+.+.++..++..+ ..+.+.+....  ..++++++|.|+..+.+..||.... ..+..+.++..+...
T Consensus        88 ~~~~f~g~~s~~~e~~~~~~~~~~~g~~~~~~~S~~~~~~~sk~~~s~~f~~ks~~~~~l~~s~~~~~~~~~~~~dl~~~  167 (285)
T KOG4210|consen   88 SSTFFVGELSENIEESEDDNFSSEAGLRVDARSSSLEDSLSSKGGLSVHFAGKSQFFAALEESGSKVLDGNKGEKDLNTR  167 (285)
T ss_pred             cccccccccccchhhccccccchhhcCcccchhhhhccccccccceeeccccHHHHHHHHHhhhccccccccccCccccc
Confidence            4789999999999999999999887 55555554433  8899999999999999999999865 466666666655554


Q ss_pred             CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCcceEEEcCCCccccHHHHHhhhC
Q psy3727         154 SPRGGVGGSGSIGGFGGSGGGRLGGFGGSDPSSPFERRNPNQAYVENTALSRSAVKDRAINVQL  217 (232)
Q Consensus       154 ~~~~~~~g~~g~gg~gg~~gg~~gg~g~~~~~~~~~~~~~~~~~v~~~gLp~~~t~~dl~~fF~  217 (232)
                      ........                       ... ....+......+.+|++++|++||..+|.
T Consensus       168 ~~~~~~n~-----------------------~~~-~~~~~s~~~~~~~~~~f~~~~d~~~~~~~  207 (285)
T KOG4210|consen  168 RGLRPKNK-----------------------LSR-LSSGPSDTIFFVGELDFSLTRDDLKEHFV  207 (285)
T ss_pred             ccccccch-----------------------hcc-cccCccccceeecccccccchHHHhhhcc
Confidence            42110000                       000 01122234556889999999999996664

>PF10309 DUF2414: Protein of unknown function (DUF2414); InterPro: IPR019416 This entry contains proteins that have no known function

Probab=97.11  E-value=0.0015  Score=44.87  Aligned_cols=52  Identities=23%  Similarity=0.429  Sum_probs=45.6

Q ss_pred             cEEEEcCCCCCCCHHHHHhccCCC----CceEEEEeecCCCCccEEEEEeCCHHHHHHHHHh
Q psy3727          79 HTVHMRGLPFRANERDVADFFRPV----VPVHVDIHYENGRPSGEADVDFATHEDAMQAMSK  136 (232)
Q Consensus        79 ~~vfV~nLp~~~te~dl~~~F~~~----~i~~v~i~~d~g~~kG~afVeF~s~eda~~Al~~  136 (232)
                      ..|+|++| -+.+.+||+.||..|    .+.+|..+-|.     -|-|.|.+++.|.+||..
T Consensus         6 eavhirGv-d~lsT~dI~~y~~~y~~~~~~~~IEWIdDt-----ScNvvf~d~~~A~~AL~~   61 (62)
T PF10309_consen    6 EAVHIRGV-DELSTDDIKAYFSEYFDEEGPFRIEWIDDT-----SCNVVFKDEETAARALVA   61 (62)
T ss_pred             ceEEEEcC-CCCCHHHHHHHHHHhcccCCCceEEEecCC-----cEEEEECCHHHHHHHHHc
Confidence            57999998 458889999999988    78899999885     689999999999999963

>COG5175 MOT2 Transcriptional repressor [Transcription]

Probab=97.10  E-value=0.001  Score=59.78  Aligned_cols=76  Identities=14%  Similarity=0.335  Sum_probs=60.9

Q ss_pred             CcEEEEcCCCCCCCHHH------HHhccCCC-CceEEEEeecC---CCCccEE--EEEeCCHHHHHHHHHh-CCceeeee
Q psy3727          78 RHTVHMRGLPFRANERD------VADFFRPV-VPVHVDIHYEN---GRPSGEA--DVDFATHEDAMQAMSK-DRTNMQHR  144 (232)
Q Consensus        78 ~~~vfV~nLp~~~te~d------l~~~F~~~-~i~~v~i~~d~---g~~kG~a--fVeF~s~eda~~Al~~-~g~~i~gR  144 (232)
                      ..-|||-+||..+..++      -.+||.+| +|..|.|-+..   ....+.+  ||+|.+.|||..||.. |+..++||
T Consensus       114 KNLvYVigi~pkva~Ee~~~vLk~~eyFGQyGkI~KIvvNkkt~s~nst~~h~gvYITy~~kedAarcIa~vDgs~~DGr  193 (480)
T COG5175         114 KNLVYVIGIPPKVADEEVAPVLKRHEYFGQYGKIKKIVVNKKTSSLNSTASHAGVYITYSTKEDAARCIAEVDGSLLDGR  193 (480)
T ss_pred             cceeEEecCCCCCCcccccccccchhhhhhccceeEEEecccccccccccccceEEEEecchHHHHHHHHHhccccccCc
Confidence            36789999999888887      35789999 88888876543   2222334  9999999999999998 99999999


Q ss_pred             EEEEEecCC
Q psy3727         145 YIELFLNSS  153 (232)
Q Consensus       145 ~I~V~~~~~  153 (232)
                      -|+..+-.+
T Consensus       194 ~lkatYGTT  202 (480)
T COG5175         194 VLKATYGTT  202 (480)
T ss_pred             eEeeecCch
Confidence            998876655

>KOG1548|consensus

Probab=96.93  E-value=0.0041  Score=56.03  Aligned_cols=76  Identities=21%  Similarity=0.328  Sum_probs=57.2

Q ss_pred             CcEEEEcCC--C--CCCCHHHH-------HhccCCCCceEEEEeecCCCCccEEEEEeCCHHHHHHHHHh-CCceeeeeE
Q psy3727          78 RHTVHMRGL--P--FRANERDV-------ADFFRPVVPVHVDIHYENGRPSGEADVDFATHEDAMQAMSK-DRTNMQHRY  145 (232)
Q Consensus        78 ~~~vfV~nL--p--~~~te~dl-------~~~F~~~~i~~v~i~~d~g~~kG~afVeF~s~eda~~Al~~-~g~~i~gR~  145 (232)
                      .++|.|+||  |  +..+.+.|       .+--+.|.+++-.+++++ .+.|.+.|.|.+.++|..||+. ++..++||.
T Consensus       265 ~~tVi~kn~Ftp~~~~~~~~l~~dlkedl~eec~K~G~v~~vvv~d~-hPdGvvtV~f~n~eeA~~ciq~m~GR~fdgRq  343 (382)
T KOG1548|consen  265 DRTVILKNMFTPEDFEKNPDLLNDLKEDLTEECEKFGQVRKVVVYDR-HPDGVVTVSFRNNEEADQCIQTMDGRWFDGRQ  343 (382)
T ss_pred             CcEEEeeecCCHHHhccCHHHHHHHHHHHHHHHHHhCCcceEEEecc-CCCceeEEEeCChHHHHHHHHHhcCeeecceE
Confidence            689999998  2  34453333       333456655554556664 6889999999999999999997 999999999


Q ss_pred             EEEEecCCC
Q psy3727         146 IELFLNSSS  154 (232)
Q Consensus       146 I~V~~~~~~  154 (232)
                      |.-++...+
T Consensus       344 l~A~i~DG~  352 (382)
T KOG1548|consen  344 LTASIWDGK  352 (382)
T ss_pred             EEEEEeCCc
Confidence            988776544

>KOG1456|consensus

Probab=96.89  E-value=0.0068  Score=55.25  Aligned_cols=108  Identities=17%  Similarity=0.102  Sum_probs=75.1

Q ss_pred             CcEEEEcCCCCCCCHHHHHhccCCC-CceEEEEeecCCCCccEEEEEeCCHHHHHHHHHh---CCceeeeeEEEEEecCC
Q psy3727          78 RHTVHMRGLPFRANERDVADFFRPV-VPVHVDIHYENGRPSGEADVDFATHEDAMQAMSK---DRTNMQHRYIELFLNSS  153 (232)
Q Consensus        78 ~~~vfV~nLp~~~te~dl~~~F~~~-~i~~v~i~~d~g~~kG~afVeF~s~eda~~Al~~---~g~~i~gR~I~V~~~~~  153 (232)
                      .-+|+|++|--.++|.||.+-.+.| .|..|.++-.    +--|.|||++.+.|++|+..   +...+.++.--+.+++.
T Consensus        31 spvvhvr~l~~~v~eadl~eal~~fG~i~yvt~~P~----~r~alvefedi~~akn~Vnfaa~n~i~i~gq~Al~NySts  106 (494)
T KOG1456|consen   31 SPVVHVRGLHQGVVEADLVEALSNFGPIAYVTCMPH----KRQALVEFEDIEGAKNCVNFAADNQIYIAGQQALFNYSTS  106 (494)
T ss_pred             CceEEEeccccccchhHHHHHHhcCCceEEEEeccc----cceeeeeeccccchhhheehhccCcccccCchhhcccchh
Confidence            3899999999999999999999999 5656655432    33699999999999999985   55567777766665544


Q ss_pred             CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCc-ceEEEcCCCccccHHHHHhhh
Q psy3727         154 SPRGGVGGSGSIGGFGGSGGGRLGGFGGSDPSSPFERRNPNQ-AYVENTALSRSAVKDRAINVQ  216 (232)
Q Consensus       154 ~~~~~~~g~~g~gg~gg~~gg~~gg~g~~~~~~~~~~~~~~~-~~v~~~gLp~~~t~~dl~~fF  216 (232)
                      ..-..                           .......++. ..+.+-|--|.+|.|=|.++.
T Consensus       107 q~i~R---------------------------~g~es~~pN~VLl~TIlNp~YpItvDVly~Ic  143 (494)
T KOG1456|consen  107 QCIER---------------------------PGDESATPNKVLLFTILNPQYPITVDVLYTIC  143 (494)
T ss_pred             hhhcc---------------------------CCCCCCCCCeEEEEEeecCccccchhhhhhhc
Confidence            31110                           0011223333 335666777888888887764

>PF14605 Nup35_RRM_2: Nup53/35/40-type RNA recognition motif

Probab=96.81  E-value=0.0021  Score=42.68  Aligned_cols=51  Identities=18%  Similarity=0.313  Sum_probs=41.3

Q ss_pred             cEEEEcCCCCCCCHHHHHhccCCC-CceEEEEeecCCCCccEEEEEeCCHHHHHHHH
Q psy3727          79 HTVHMRGLPFRANERDVADFFRPV-VPVHVDIHYENGRPSGEADVDFATHEDAMQAM  134 (232)
Q Consensus        79 ~~vfV~nLp~~~te~dl~~~F~~~-~i~~v~i~~d~g~~kG~afVeF~s~eda~~Al  134 (232)
                      .+|-|.+.+.+..+ +|..+|.+| +|+++.+.    ..+-+.+|+|.+..+|++||
T Consensus         2 ~wI~V~Gf~~~~~~-~vl~~F~~fGeI~~~~~~----~~~~~~~l~y~~~~~ae~Al   53 (53)
T PF14605_consen    2 TWISVSGFPPDLAE-EVLEHFASFGEIVDIYVP----ESTNWMYLKYKSRKDAEKAL   53 (53)
T ss_pred             cEEEEEeECchHHH-HHHHHHHhcCCEEEEEcC----CCCcEEEEEECCHHHHHhhC
Confidence            57889999987664 455588899 99998876    23458999999999999996

>PF05172 Nup35_RRM: Nup53/35/40-type RNA recognition motif; InterPro: IPR007846 The MPPN (Mitotic PhosphoProtein N end) family is uncharacterised however it probably plays a role in the cell cycle because the family includes mitotic phosphoproteins O13026 from SWISSPROT []

Probab=96.58  E-value=0.0079  Score=45.30  Aligned_cols=73  Identities=12%  Similarity=0.088  Sum_probs=50.3

Q ss_pred             CcEEEEcCCCCCCCHHHHHhccCCC-CceEEE-Eeec-------C-CCCccEEEEEeCCHHHHHHHHHhCCceeeeeEE-
Q psy3727          78 RHTVHMRGLPFRANERDVADFFRPV-VPVHVD-IHYE-------N-GRPSGEADVDFATHEDAMQAMSKDRTNMQHRYI-  146 (232)
Q Consensus        78 ~~~vfV~nLp~~~te~dl~~~F~~~-~i~~v~-i~~d-------~-g~~kG~afVeF~s~eda~~Al~~~g~~i~gR~I-  146 (232)
                      +..|.|=+.|.. ....|.++|++| +|++.. +..+       . -....+-.|+|+++.+|++||.+|+..|.+..| 
T Consensus         6 ~~wVtVFGfp~~-~~~~Vl~~F~~~G~Ile~~~~~~~~~~~~~~~~~~~~NWi~I~Y~~~~~A~rAL~~NG~i~~g~~mv   84 (100)
T PF05172_consen    6 ETWVTVFGFPPS-ASNQVLRHFSSFGTILEHFEVLRSSSGINPYPIPSGGNWIHITYDNPLSAQRALQKNGTIFSGSLMV   84 (100)
T ss_dssp             CCEEEEE---GG-GHHHHHHHHHCCS-EECEEGGG----------E-CCTTEEEEEESSHHHHHHHHTTTTEEETTCEEE
T ss_pred             CeEEEEEccCHH-HHHHHHHHHHhcceEEEeecccccccccccccCCCCCCEEEEECCCHHHHHHHHHhCCeEEcCcEEE
Confidence            478999999988 556788899999 777653 1111       1 123458999999999999999999999988654 


Q ss_pred             EEEec
Q psy3727         147 ELFLN  151 (232)
Q Consensus       147 ~V~~~  151 (232)
                      -|.+.
T Consensus        85 GV~~~   89 (100)
T PF05172_consen   85 GVKPC   89 (100)
T ss_dssp             EEEE-
T ss_pred             EEEEc
Confidence            45554

This family also includes Q05166 from SWISSPROT a suppressor of thermosensitive mutations in the DNA polymerase delta gene, Pol III []. The conserved central region appears to be distantly related to the RNA-binding region RNP-1 (RNA recognition motif, IPR000504 from INTERPRO), suggesting an RNA binding function for this protein.; PDB: 1WWH_C 3P3D_A.

>KOG2314|consensus

Probab=96.47  E-value=0.0037  Score=59.49  Aligned_cols=71  Identities=17%  Similarity=0.267  Sum_probs=56.6

Q ss_pred             CcEEEEcCCCCCCC------HHHHHhccCCC-CceEEEEeecC-CCCccEEEEEeCCHHHHHHHHHh-CCceeee-eEEE
Q psy3727          78 RHTVHMRGLPFRAN------ERDVADFFRPV-VPVHVDIHYEN-GRPSGEADVDFATHEDAMQAMSK-DRTNMQH-RYIE  147 (232)
Q Consensus        78 ~~~vfV~nLp~~~t------e~dl~~~F~~~-~i~~v~i~~d~-g~~kG~afVeF~s~eda~~Al~~-~g~~i~g-R~I~  147 (232)
                      +.+|+|-|+|---.      ..-|..+|+.+ +++.+.++.+. |..+|+.|+||++..+|+.|++. |++.|+- ++..
T Consensus        58 D~vVvv~g~PvV~~~rl~klk~vl~kvfsk~gk~vn~~~P~~e~ggtkG~lf~E~~~~~~A~~aVK~l~G~~ldknHtf~  137 (698)
T KOG2314|consen   58 DSVVVVDGAPVVGPARLEKLKKVLTKVFSKAGKIVNMYYPIDEEGGTKGYLFVEYASMRDAKKAVKSLNGKRLDKNHTFF  137 (698)
T ss_pred             ceEEEECCCcccChhHHHHHHHHHHHHHHhhccccceeeccCccCCeeeEEEEEecChhhHHHHHHhcccceecccceEE
Confidence            57999999986321      22367788899 88999999888 88999999999999999999998 8877643 3444


Q ss_pred             E
Q psy3727         148 L  148 (232)
Q Consensus       148 V  148 (232)
                      |
T Consensus       138 v  138 (698)
T KOG2314|consen  138 V  138 (698)
T ss_pred             e
Confidence            4

>PF08952 DUF1866: Domain of unknown function (DUF1866) ; InterPro: IPR015047 This domain, found in synaptojanin, has no known function

Probab=96.40  E-value=0.01  Score=47.58  Aligned_cols=71  Identities=18%  Similarity=0.150  Sum_probs=50.5

Q ss_pred             CcEEEEcCCCCC-----CCH----HHHHhccCCC-CceEEEEeecCCCCccEEEEEeCCHHHHHHHHHhCCceeeeeEEE
Q psy3727          78 RHTVHMRGLPFR-----ANE----RDVADFFRPV-VPVHVDIHYENGRPSGEADVDFATHEDAMQAMSKDRTNMQHRYIE  147 (232)
Q Consensus        78 ~~~vfV~nLp~~-----~te----~dl~~~F~~~-~i~~v~i~~d~g~~kG~afVeF~s~eda~~Al~~~g~~i~gR~I~  147 (232)
                      +.||.|.=+...     .-.    .+|.+.|++| +++=|++.-+      .-.|+|.+-+.|.+|+.+++..+.|+.|.
T Consensus        27 DaTVvVsv~~~~~~e~~~Fdd~l~~~ll~~~~~~GevvLvRfv~~------~mwVTF~dg~sALaals~dg~~v~g~~l~  100 (146)
T PF08952_consen   27 DATVVVSVDSPSEDEDSSFDDNLMDELLQKFAQYGEVVLVRFVGD------TMWVTFRDGQSALAALSLDGIQVNGRTLK  100 (146)
T ss_dssp             T-EEEEEECS-SCCCCHS--HHHHHHHHHHHHCCS-ECEEEEETT------CEEEEESSCHHHHHHHHGCCSEETTEEEE
T ss_pred             CceEEEEecCCCccccCcCCHHHHHHHHHHHHhCCceEEEEEeCC------eEEEEECccHHHHHHHccCCcEECCEEEE
Confidence            477887755411     122    2677788888 7777776643      68999999999999999999999999999


Q ss_pred             EEecCCC
Q psy3727         148 LFLNSSS  154 (232)
Q Consensus       148 V~~~~~~  154 (232)
                      |.+.++.
T Consensus       101 i~LKtpd  107 (146)
T PF08952_consen  101 IRLKTPD  107 (146)
T ss_dssp             EEE----
T ss_pred             EEeCCcc
Confidence            9998774

; PDB: 1UFW_A 2DNR_A.

>PF08675 RNA_bind: RNA binding domain; InterPro: IPR014789 This domain corresponds to the RNA binding domain of Poly(A)-specific ribonuclease (PARN)

Probab=96.32  E-value=0.022  Score=41.41  Aligned_cols=53  Identities=21%  Similarity=0.329  Sum_probs=44.1

Q ss_pred             CcEEEEcCCCCCCCHHHHHhccCCCCceEEEEeecCCCCccEEEEEeCCHHHHHHHHHh
Q psy3727          78 RHTVHMRGLPFRANERDVADFFRPVVPVHVDIHYENGRPSGEADVDFATHEDAMQAMSK  136 (232)
Q Consensus        78 ~~~vfV~nLp~~~te~dl~~~F~~~~i~~v~i~~d~g~~kG~afVeF~s~eda~~Al~~  136 (232)
                      +++.+|. .|-+-...||.++|++|.-+.|..+-|.     -|||.....+.|+.|+..
T Consensus         9 dHVFhlt-FPkeWK~~DI~qlFspfG~I~VsWi~dT-----SAfV~l~~r~~~~~v~~~   61 (87)
T PF08675_consen    9 DHVFHLT-FPKEWKTSDIYQLFSPFGQIYVSWINDT-----SAFVALHNRDQAKVVMNT   61 (87)
T ss_dssp             CCEEEEE---TT--HHHHHHHCCCCCCEEEEEECTT-----EEEEEECCCHHHHHHHHH
T ss_pred             ceEEEEe-CchHhhhhhHHHHhccCCcEEEEEEcCC-----cEEEEeecHHHHHHHHHH
Confidence            6888888 9999999999999999988889888774     799999999999998885

; GO: 0003723 RNA binding, 0004535 poly(A)-specific ribonuclease activity, 0046872 metal ion binding, 0006402 mRNA catabolic process, 0005634 nucleus, 0005737 cytoplasm; PDB: 3CTR_A 2ROK_A 3D45_B 1WHV_A.

>KOG2591|consensus

Probab=96.01  E-value=0.0092  Score=56.79  Aligned_cols=66  Identities=20%  Similarity=0.242  Sum_probs=55.6

Q ss_pred             CcEEEEcCCCCCCCHHHHHhccCC--C-CceEEEEeecCCCCccEEEEEeCCHHHHHHHHHh---CCceeeeeEEEE
Q psy3727          78 RHTVHMRGLPFRANERDVADFFRP--V-VPVHVDIHYENGRPSGEADVDFATHEDAMQAMSK---DRTNMQHRYIEL  148 (232)
Q Consensus        78 ~~~vfV~nLp~~~te~dl~~~F~~--~-~i~~v~i~~d~g~~kG~afVeF~s~eda~~Al~~---~g~~i~gR~I~V  148 (232)
                      .|.|.|+-||.++-+|+|+.+|+.  | ++++|.+..+.     -=||+|++.+||+.|.+.   ..++|.|+.|.-
T Consensus       175 RcIvilREIpettp~e~Vk~lf~~encPk~iscefa~N~-----nWyITfesd~DAQqAykylreevk~fqgKpImA  246 (684)
T KOG2591|consen  175 RCIVILREIPETTPIEVVKALFKGENCPKVISCEFAHND-----NWYITFESDTDAQQAYKYLREEVKTFQGKPIMA  246 (684)
T ss_pred             eeEEEEeecCCCChHHHHHHHhccCCCCCceeeeeeecC-----ceEEEeecchhHHHHHHHHHHHHHhhcCcchhh
Confidence            488999999999999999999985  6 88888887654     369999999999999983   667788887653

>KOG0120|consensus

Probab=95.56  E-value=0.035  Score=52.83  Aligned_cols=54  Identities=20%  Similarity=0.215  Sum_probs=43.9

Q ss_pred             CCC-CceEEEEeec-C----CCCccEEEEEeCCHHHHHHHHHh-CCceeeeeEEEEEecCC
Q psy3727         100 RPV-VPVHVDIHYE-N----GRPSGEADVDFATHEDAMQAMSK-DRTNMQHRYIELFLNSS  153 (232)
Q Consensus       100 ~~~-~i~~v~i~~d-~----g~~kG~afVeF~s~eda~~Al~~-~g~~i~gR~I~V~~~~~  153 (232)
                      +.| .|..|.|..+ .    .-..|-.||||++.++++.|++. +|..+.+|.|...+-..
T Consensus       431 ~k~g~v~~v~ipr~~~~~~~~~G~GkVFVefas~ed~qrA~~~L~GrKF~nRtVvtsYyde  491 (500)
T KOG0120|consen  431 AKFGAVRSVEIPRPYPDENPVPGTGKVFVEFADTEDSQRAMEELTGRKFANRTVVASYYDE  491 (500)
T ss_pred             cccCceeEEecCCCCCCCCcCCCcccEEEEecChHHHHHHHHHccCceeCCcEEEEEecCH
Confidence            456 6677888776 2    45678999999999999999997 99999999987665444

>KOG0115|consensus

Probab=95.48  E-value=0.012  Score=51.13  Aligned_cols=73  Identities=18%  Similarity=0.186  Sum_probs=58.5

Q ss_pred             cEEEEcCCCCCCCHHHHHhccCCC-CceEEEEeecC-CCCccEEEEEeCCHHHHHHHHHh--CCc---eeeeeEEEEEec
Q psy3727          79 HTVHMRGLPFRANERDVADFFRPV-VPVHVDIHYEN-GRPSGEADVDFATHEDAMQAMSK--DRT---NMQHRYIELFLN  151 (232)
Q Consensus        79 ~~vfV~nLp~~~te~dl~~~F~~~-~i~~v~i~~d~-g~~kG~afVeF~s~eda~~Al~~--~g~---~i~gR~I~V~~~  151 (232)
                      ..|+|.||+--++.+.|.+-|+.| .|....++.|. +++.+.++|+|+..-.|.+|+..  .+.   ...++.+-|.+.
T Consensus        32 a~l~V~nl~~~~sndll~~~f~~fg~~e~av~~vD~r~k~t~eg~v~~~~k~~a~~a~rr~~~~g~~~~~~~~p~~VeP~  111 (275)
T KOG0115|consen   32 AELYVVNLMQGASNDLLEQAFRRFGPIERAVAKVDDRGKPTREGIVEFAKKPNARKAARRCREGGFGGTTGGRPVGVEPM  111 (275)
T ss_pred             ceEEEEecchhhhhHHHHHhhhhcCccchheeeecccccccccchhhhhcchhHHHHHHHhccCccccCCCCCccCCChh
Confidence            679999999999999999999999 67666666666 99999999999999999999986  232   234455555443

>KOG2202|consensus

Probab=95.40  E-value=0.0047  Score=53.51  Aligned_cols=60  Identities=20%  Similarity=0.165  Sum_probs=46.2

Q ss_pred             HHHhccC-CC-CceEEEEeecC-CCCccEEEEEeCCHHHHHHHHHh-CCceeeeeEEEEEecCC
Q psy3727          94 DVADFFR-PV-VPVHVDIHYEN-GRPSGEADVDFATHEDAMQAMSK-DRTNMQHRYIELFLNSS  153 (232)
Q Consensus        94 dl~~~F~-~~-~i~~v~i~~d~-g~~kG~afVeF~s~eda~~Al~~-~g~~i~gR~I~V~~~~~  153 (232)
                      ||...|+ +| +|+.+.|..+- -...|-+||.|..+|+|++|++. |+..+.|++|...+...
T Consensus        84 d~f~E~~~kygEiee~~Vc~Nl~~hl~GNVYV~f~~Ee~ae~a~~~lnnRw~~G~pi~ae~~pv  147 (260)
T KOG2202|consen   84 DVFTELEDKYGEIEELNVCDNLGDHLVGNVYVKFRSEEDAEAALEDLNNRWYNGRPIHAELSPV  147 (260)
T ss_pred             HHHHHHHHHhhhhhhhhhhcccchhhhhhhhhhcccHHHHHHHHHHHcCccccCCcceeeecCc
Confidence            3333444 45 66677665554 45688999999999999999998 99999999998777654

>KOG1855|consensus

Probab=95.35  E-value=0.016  Score=53.71  Aligned_cols=60  Identities=22%  Similarity=0.240  Sum_probs=52.1

Q ss_pred             CcEEEEcCCCCCCCHHHHHhccCCC-CceEEEEeec---C----CCC--------ccEEEEEeCCHHHHHHHHHhC
Q psy3727          78 RHTVHMRGLPFRANERDVADFFRPV-VPVHVDIHYE---N----GRP--------SGEADVDFATHEDAMQAMSKD  137 (232)
Q Consensus        78 ~~~vfV~nLp~~~te~dl~~~F~~~-~i~~v~i~~d---~----g~~--------kG~afVeF~s~eda~~Al~~~  137 (232)
                      ..+|.+-|||.+-.-+.|.++|+.+ .|..|+|++-   .    +.+        +=+|+|||+..+.|.+|.++.
T Consensus       231 srtivaenLP~Dh~~enl~kiFg~~G~IksIRIckPgaip~d~r~~~~~~~~~~tk~~AlvEye~~~~A~KA~e~~  306 (484)
T KOG1855|consen  231 SRTIVAENLPLDHSYENLSKIFGTVGSIKSIRICKPGAIPEDVRGFPKKYFELQTKECALVEYEEVEAARKARELL  306 (484)
T ss_pred             cceEEEecCCcchHHHHHHHHhhcccceeeeeecCCCCCCcccccCCccchhhhhhhhhhhhhhhhHHHHHHHHhh
Confidence            3899999999999999999999999 8889999875   1    322        568999999999999999973

>PF14259 RRM_6: RNA recognition motif (a

Probab=95.02  E-value=0.018  Score=39.27  Aligned_cols=21  Identities=19%  Similarity=0.041  Sum_probs=17.1

Q ss_pred             EEEcCCCccccHHHHHhhhCC
Q psy3727         198 VENTALSRSAVKDRAINVQLC  218 (232)
Q Consensus       198 v~~~gLp~~~t~~dl~~fF~~  218 (232)
                      |+|+|||+++|++||+++|..
T Consensus         1 v~i~nlp~~~~~~~l~~~f~~   21 (70)
T PF14259_consen    1 VYISNLPPSTTEEDLRNFFSR   21 (70)
T ss_dssp             EEEESSTTT--HHHHHHHCTT
T ss_pred             CEEeCCCCCCCHHHHHHHHHh
Confidence            678999999999999999964

k.a. RRM, RBD, or RNP domain); PDB: 2DNN_A 1WI6_A 2EVZ_A 2ADC_A 1QM9_A 2KG1_A 2HGN_A 1U2F_A 2G4B_A 2HZC_A ....

>PF00076 RRM_1: RNA recognition motif

Probab=93.97  E-value=0.04  Score=37.01  Aligned_cols=21  Identities=5%  Similarity=-0.069  Sum_probs=19.3

Q ss_pred             EEEcCCCccccHHHHHhhhCC
Q psy3727         198 VENTALSRSAVKDRAINVQLC  218 (232)
Q Consensus       198 v~~~gLp~~~t~~dl~~fF~~  218 (232)
                      |+|.|||+++|+++|+++|..
T Consensus         1 l~v~nlp~~~t~~~l~~~f~~   21 (70)
T PF00076_consen    1 LYVGNLPPDVTEEELRDFFSQ   21 (70)
T ss_dssp             EEEESETTTSSHHHHHHHHHT
T ss_pred             cEEcCCCCcCCHHHHHHHHHH
Confidence            678999999999999999974

(a.k.a. RRM, RBD, or RNP domain); InterPro: IPR000504 Many eukaryotic proteins containing one or more copies of a putative RNA-binding domain of about 90 amino acids are known to bind single-stranded RNAs [, , ]. The largest group of single strand RNA-binding proteins is the eukaryotic RNA recognition motif (RRM) family that contains an eight amino acid RNP-1 consensus sequence [, ]. RRM proteins have a variety of RNA binding preferences and functions, and include heterogeneous nuclear ribonucleoproteins (hnRNPs), proteins implicated in regulation of alternative splicing (SR, U2AF, Sxl), protein components of small nuclear ribonucleoproteins (U1 and U2 snRNPs), and proteins that regulate RNA stability and translation (PABP, La, Hu) [, , ]. The RRM in heterodimeric splicing factor U2 snRNP auxiliary factor (U2AF) appears to have two RRM-like domains with specialised features for protein recognition []. The motif also appears in a few single stranded DNA binding proteins. The typical RRM consists of four anti-parallel beta-strands and two alpha-helices arranged in a beta-alpha-beta-beta-alpha-beta fold with side chains that stack with RNA bases. Specificity of RNA binding is determined by multiple contacts with surrounding amino acids. A third helix is present during RNA binding in some cases []. The RRM is reviewed in a number of publications [, , ].; GO: 0003676 nucleic acid binding; PDB: 2RNE_A 2DGO_A 2DO4_A 1YTY_B 2VOO_B 2VOP_A 2VON_B 1ZH5_B 2VOD_A 1S79_A ....

>KOG4676|consensus

Probab=93.87  E-value=0.082  Score=48.59  Aligned_cols=73  Identities=11%  Similarity=0.050  Sum_probs=57.4

Q ss_pred             cEEEEcCCCCCCCHHHHHhccCCC-CceEEEEeecC-----CCCccEEEEEeCCHHHHHHHHHhCCceeeeeEEEEEec
Q psy3727          79 HTVHMRGLPFRANERDVADFFRPV-VPVHVDIHYEN-----GRPSGEADVDFATHEDAMQAMSKDRTNMQHRYIELFLN  151 (232)
Q Consensus        79 ~~vfV~nLp~~~te~dl~~~F~~~-~i~~v~i~~d~-----g~~kG~afVeF~s~eda~~Al~~~g~~i~gR~I~V~~~  151 (232)
                      ..|.|.||..++|.++++.+|..+ +|..+.|+-..     --..=.|||.|.+...+..|-.+..+++=++.|.|.+.
T Consensus         8 ~vIqvanispsat~dqm~tlFg~lGkI~elrlyp~~~d~~~pv~sRtcyVkf~d~~sv~vaQhLtntvfvdraliv~p~   86 (479)
T KOG4676|consen    8 GVIQVANISPSATKDQMQTLFGNLGKIPELRLYPNVDDSKIPVISRTCYVKFLDSQSVTVAQHLTNTVFVDRALIVRPY   86 (479)
T ss_pred             ceeeecccCchhhHHHHHHHHhhccccccccccCCCCCccCcceeeeEEEeccCCcceeHHhhhccceeeeeeEEEEec
Confidence            589999999999999999999998 88877776422     22344899999999999999988555655666555444

>KOG3152|consensus

Probab=93.47  E-value=0.032  Score=48.52  Aligned_cols=67  Identities=13%  Similarity=0.116  Sum_probs=55.4

Q ss_pred             cEEEEcCCCCCCCHHHHHhccCCC-CceEEEEeecC-C---------C----CccEEEEEeCCHHHHHHHHHh-CCceee
Q psy3727          79 HTVHMRGLPFRANERDVADFFRPV-VPVHVDIHYEN-G---------R----PSGEADVDFATHEDAMQAMSK-DRTNMQ  142 (232)
Q Consensus        79 ~~vfV~nLp~~~te~dl~~~F~~~-~i~~v~i~~d~-g---------~----~kG~afVeF~s~eda~~Al~~-~g~~i~  142 (232)
                      .+||+++||......-|+++|+.| .|-+|.|..+. -         .    .--++.|||.+...|+.+.+. |++.|+
T Consensus        75 GVvylS~IPp~m~~~rlReil~~yGeVGRvylqpE~~s~~~~r~~~~~n~~~~y~EGWvEF~~KrvAK~iAe~Lnn~~Ig  154 (278)
T KOG3152|consen   75 GVVYLSNIPPYMDPVRLREILSQYGEVGRVYLQPEDDSKRAARKRKGGNYKKLYSEGWVEFISKRVAKRIAELLNNTPIG  154 (278)
T ss_pred             eEEEeccCCCccCHHHHHHHHHhccccceEEecchhhHHHHHHhhcCCCccccchhHHHHHHHHHHHHHHHHHhCCCccC
Confidence            789999999999999999999999 77788876433 1         1    222678999999999998887 999888


Q ss_pred             eeE
Q psy3727         143 HRY  145 (232)
Q Consensus       143 gR~  145 (232)
                      |+.
T Consensus       155 gkk  157 (278)
T KOG3152|consen  155 GKK  157 (278)
T ss_pred             CCC
Confidence            864

>PF03467 Smg4_UPF3: Smg-4/UPF3 family; InterPro: IPR005120 Nonsense-mediated mRNA decay (NMD) is a surveillance mechanism by which eukaryotic cells detect and degrade transcripts containing premature termination codons

Probab=93.19  E-value=0.27  Score=40.63  Aligned_cols=66  Identities=18%  Similarity=0.231  Sum_probs=42.7

Q ss_pred             CcEEEEcCCCCCCCHHHHHhccCC-C-Cc---eEEEEeecC----CCCccEEEEEeCCHHHHHHHHHh-CCceeee
Q psy3727          78 RHTVHMRGLPFRANERDVADFFRP-V-VP---VHVDIHYEN----GRPSGEADVDFATHEDAMQAMSK-DRTNMQH  143 (232)
Q Consensus        78 ~~~vfV~nLp~~~te~dl~~~F~~-~-~i---~~v~i~~d~----g~~kG~afVeF~s~eda~~Al~~-~g~~i~g  143 (232)
                      ...|-||+||.+.||+++.+.+++ + ..   ..+.-....    -...--|||.|.+.+++..-+.. +++.+-+
T Consensus         7 ~~KvVIR~LPP~LteeeF~~~i~~~l~~~~~w~y~~g~~~~~~~~~~~~SRaYi~F~~~~~~~~F~~~~~g~~F~D   82 (176)
T PF03467_consen    7 GTKVVIRRLPPNLTEEEFWEQISPWLPDEWDWYYFQGKYGKKSFKPPTYSRAYINFKNPEDLLEFRDRFDGHVFVD   82 (176)
T ss_dssp             --EEEEEEE-TTS-HHHHCCCCSS--SSE---EEEEEEES-SSSTTS--EEEEEEESSCHHHHHHHHHCTTEEEE-
T ss_pred             CceEEEeCCCCCCCHHHHHHHhhhhcccccceEEEecCCCCccCCCCcceEEEEEeCCHHHHHHHHHhcCCcEEEC
Confidence            478999999999999999998877 4 22   233322222    12345799999999998888887 8766543

Three 'up-frameshift' proteins, UPF1, UPF2 and UPF3, are essential for this process in organisms ranging from yeast, human to plants []. Exon junction complexes (EJCs) are deposited ~24 nucleotides upstream of exon-exon junctions after splicing. Translation causes displacement of the EJCs, however, premature translation termination upstream of one or more EJCs triggers the recruitment of UPF1, UPF2 and UPF3 and activates the NMD pathway [, ]. This family contains UPF3. The crystal structure of the complex between human UPF2 and UPF3b, which are, respectively, a MIF4G (middle portion of eIF4G) domain and an RNP domain (ribonucleoprotein-type RNA-binding domain) has been determined to 1.95A. The protein-protein interface is mediated by highly conserved charged residues in UPF2 and UPF3b and involves the beta-sheet surface of the UPF3b ribonucleoprotein (RNP) domain, which is generally used by these domains to bind nucleic acids. In UPF3b the RNP domain does not bind RNA, whereas the UPF2 construct and the complex do. It is clear that some RNP domains have evolved for specific protein-protein interactions rather than as nucleic acid binding modules [].; PDB: 1UW4_A 2L08_A.

>PF07576 BRAP2: BRCA1-associated protein 2; InterPro: IPR011422 These proteins include BRCA1-associated protein 2 (BRAP2), which binds nuclear localisation signals (NLSs) in vitro and in yeast two-hybrid screening []

Probab=93.06  E-value=1  Score=34.44  Aligned_cols=65  Identities=12%  Similarity=0.075  Sum_probs=51.1

Q ss_pred             cEEEEcCCCCCCCHHHHHhccCCC--CceEEEEeecCCCCccEEEEEeCCHHHHHHHHHh-CCceeee
Q psy3727          79 HTVHMRGLPFRANERDVADFFRPV--VPVHVDIHYENGRPSGEADVDFATHEDAMQAMSK-DRTNMQH  143 (232)
Q Consensus        79 ~~vfV~nLp~~~te~dl~~~F~~~--~i~~v~i~~d~g~~kG~afVeF~s~eda~~Al~~-~g~~i~g  143 (232)
                      ..+-+-..|+-++.++|..|.+.+  .|..++|++|...++=.+.++|.+.++|.+-.+. ||+.++.
T Consensus        14 ~~~~l~vp~~~~~~d~l~~f~~~~~~~i~~~riird~~pnrymVLikF~~~~~Ad~Fy~~fNGk~Fns   81 (110)
T PF07576_consen   14 TLCCLAVPPYMTPSDFLLFFGAPFREDIEHIRIIRDGTPNRYMVLIKFRDQESADEFYEEFNGKPFNS   81 (110)
T ss_pred             eEEEEEeCcccccHHHHHHhhhcccccEEEEEEeeCCCCceEEEEEEECCHHHHHHHHHHhCCCccCC
Confidence            556666778888888888777777  6678889888744556889999999999999988 8876643

These proteins share a region of sequence similarity at their N terminus. They also have IPR001607 from INTERPRO at the C terminus.

>PLN03134 glycine-rich RNA-binding protein 4; Provisional

Probab=92.89  E-value=0.086  Score=42.07  Aligned_cols=24  Identities=8%  Similarity=-0.143  Sum_probs=21.4

Q ss_pred             cceEEEcCCCccccHHHHHhhhCC
Q psy3727         195 QAYVENTALSRSAVKDRAINVQLC  218 (232)
Q Consensus       195 ~~~v~~~gLp~~~t~~dl~~fF~~  218 (232)
                      ...|+|.|||+++|++||+++|..
T Consensus        34 ~~~lfVgnL~~~~te~~L~~~F~~   57 (144)
T PLN03134         34 STKLFIGGLSWGTDDASLRDAFAH   57 (144)
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHhc
Confidence            357999999999999999999963

>KOG2193|consensus

Probab=92.39  E-value=0.13  Score=47.91  Aligned_cols=71  Identities=17%  Similarity=0.126  Sum_probs=56.8

Q ss_pred             EEEEcCCCCCCCHHHHHhccCCCCc-eEEEEeecCCCCccEEEEEeCCHHHHHHHHHh--CCceeeeeEEEEEecCCC
Q psy3727          80 TVHMRGLPFRANERDVADFFRPVVP-VHVDIHYENGRPSGEADVDFATHEDAMQAMSK--DRTNMQHRYIELFLNSSS  154 (232)
Q Consensus        80 ~vfV~nLp~~~te~dl~~~F~~~~i-~~v~i~~d~g~~kG~afVeF~s~eda~~Al~~--~g~~i~gR~I~V~~~~~~  154 (232)
                      .+++.||...++..||..+|....+ ..-.++.    ..|++||...+...|.+|++.  .+.++.|..++|..+-++
T Consensus         3 klyignL~p~~~psdl~svfg~ak~~~~g~fl~----k~gyafvd~pdq~wa~kaie~~sgk~elqGkr~e~~~sv~k   76 (584)
T KOG2193|consen    3 KLYIGNLSPQVTPSDLESVFGDAKIPGSGQFLV----KSGYAFVDCPDQQWANKAIETLSGKVELQGKRQEVEHSVPK   76 (584)
T ss_pred             cccccccCCCCChHHHHHHhccccCCCCcceee----ecceeeccCCchhhhhhhHHhhchhhhhcCceeeccchhhH
Confidence            5899999999999999999998732 2212221    358999999999999999997  456789999999877654

>KOG4285|consensus

Probab=92.20  E-value=0.49  Score=42.26  Aligned_cols=72  Identities=19%  Similarity=0.191  Sum_probs=56.1

Q ss_pred             CcEEEEcCCCCCCCHHHHHhccCCC-CceEEEEeecCCCCccEEEEEeCCHHHHHHHHHhCCceeeeeE-EEEEecCCC
Q psy3727          78 RHTVHMRGLPFRANERDVADFFRPV-VPVHVDIHYENGRPSGEADVDFATHEDAMQAMSKDRTNMQHRY-IELFLNSSS  154 (232)
Q Consensus        78 ~~~vfV~nLp~~~te~dl~~~F~~~-~i~~v~i~~d~g~~kG~afVeF~s~eda~~Al~~~g~~i~gR~-I~V~~~~~~  154 (232)
                      +..|-|=++|...+ .-|..+|+.| +|++.... .+|   .+-+|.|.+..+|++||.+|++.|++-. |-|..+..+
T Consensus       197 D~WVTVfGFppg~~-s~vL~~F~~cG~Vvkhv~~-~ng---NwMhirYssr~~A~KALskng~ii~g~vmiGVkpCtDk  270 (350)
T KOG4285|consen  197 DTWVTVFGFPPGQV-SIVLNLFSRCGEVVKHVTP-SNG---NWMHIRYSSRTHAQKALSKNGTIIDGDVMIGVKPCTDK  270 (350)
T ss_pred             cceEEEeccCccch-hHHHHHHHhhCeeeeeecC-CCC---ceEEEEecchhHHHHhhhhcCeeeccceEEeeeecCCH
Confidence            57888888887644 4567789999 88776554 223   4899999999999999999999999864 667776554

>PF03468 XS: XS domain; InterPro: IPR005380 The XS (rice gene X and SGS3) domain is found in a family of plant proteins including gene X Q9SBW2 from SWISSPROT and SGS3 Q9LDX1 from SWISSPROT

Probab=92.17  E-value=0.15  Score=39.31  Aligned_cols=58  Identities=19%  Similarity=0.223  Sum_probs=37.7

Q ss_pred             cEEEEcCCCCCC---------CHHHHHhccCCCCceEEEEeecCCCCccEEEEEeC-CHHHHHHHHHh
Q psy3727          79 HTVHMRGLPFRA---------NERDVADFFRPVVPVHVDIHYENGRPSGEADVDFA-THEDAMQAMSK  136 (232)
Q Consensus        79 ~~vfV~nLp~~~---------te~dl~~~F~~~~i~~v~i~~d~g~~kG~afVeF~-s~eda~~Al~~  136 (232)
                      .++.|-|+|.+.         +.++|++.|+.|.+.+|+.+.+..-++|++.|+|. |-.-...|+..
T Consensus         9 wmgIi~N~~~~~~~~g~~~g~~~~~l~~~l~~f~p~kv~~l~~~~gh~g~aiv~F~~~w~Gf~~A~~l   76 (116)
T PF03468_consen    9 WMGIIVNIPTEKDDDGRWVGMSNEELLDKLAEFNPLKVKPLYGKQGHTGFAIVEFNKDWSGFKNAMRL   76 (116)
T ss_dssp             -EEEEE----EE-TTS-EE---SHHHHHHHHH---SEEEEEEETTEEEEEEEEE--SSHHHHHHHHHH
T ss_pred             CEEEEEcCccccCCCCceeccCHHHHHHHHHhcCCceeEECcCCCCCcEEEEEEECCChHHHHHHHHH
Confidence            578888887654         56789999999988888888887567899999998 56666777765

SGS3 is thought to be involved in post-transcriptional gene silencing (PTGS). This domain contains a conserved aspartate residue that may be functionally important. The XS domain containing proteins contain coiled-coils, which suggests that they will oligomerise. Most coiled-coil proteins form either a dimeric or a trimeric structure. It is possible that different members of the XS domain family could oligomerise via their coiled-coils forming a variety of complexes [].; PDB: 4E8U_C.

>KOG1996|consensus

Probab=92.16  E-value=0.32  Score=43.31  Aligned_cols=58  Identities=16%  Similarity=0.136  Sum_probs=43.9

Q ss_pred             HHHHhccCCC-CceEEEEeecCCCC---ccEEEEEeCCHHHHHHHHHh-CCceeeeeEEEEEe
Q psy3727          93 RDVADFFRPV-VPVHVDIHYENGRP---SGEADVDFATHEDAMQAMSK-DRTNMQHRYIELFL  150 (232)
Q Consensus        93 ~dl~~~F~~~-~i~~v~i~~d~g~~---kG~afVeF~s~eda~~Al~~-~g~~i~gR~I~V~~  150 (232)
                      +++++-.++| +|..|.|....+.+   ----||+|+..++|.+|+-. |+.+++||.+.-.+
T Consensus       301 de~keEceKyg~V~~viifeip~~p~deavRiFveF~r~e~aiKA~VdlnGRyFGGr~v~A~F  363 (378)
T KOG1996|consen  301 DETKEECEKYGKVGNVIIFEIPSQPEDEAVRIFVEFERVESAIKAVVDLNGRYFGGRVVSACF  363 (378)
T ss_pred             HHHHHHHHhhcceeeEEEEecCCCccchhheeeeeeccHHHHHHHHHhcCCceecceeeehee
Confidence            4566666778 78888776655332   23468999999999999987 99999999886543

>PF11767 SET_assoc: Histone lysine methyltransferase SET associated; InterPro: IPR024636 The SET domain is a protein-protein interaction domain found in protein lysine methyltransferase enzymes

Probab=91.70  E-value=1.4  Score=30.60  Aligned_cols=54  Identities=13%  Similarity=0.097  Sum_probs=43.3

Q ss_pred             CCCHHHHHhccCCCCceEEEEeecCCCCccEEEEEeCCHHHHHHHHHh-CCceeeeeEEEE
Q psy3727          89 RANERDVADFFRPVVPVHVDIHYENGRPSGEADVDFATHEDAMQAMSK-DRTNMQHRYIEL  148 (232)
Q Consensus        89 ~~te~dl~~~F~~~~i~~v~i~~d~g~~kG~afVeF~s~eda~~Al~~-~g~~i~gR~I~V  148 (232)
                      .++-+||+.-+..|.-.+|....     +| =||.|.+.+||++|... |++.+-...|.+
T Consensus        11 ~~~v~d~K~~Lr~y~~~~I~~d~-----tG-fYIvF~~~~Ea~rC~~~~~~~~~f~y~m~M   65 (66)
T PF11767_consen   11 GVTVEDFKKRLRKYRWDRIRDDR-----TG-FYIVFNDSKEAERCFRAEDGTLFFTYRMQM   65 (66)
T ss_pred             CccHHHHHHHHhcCCcceEEecC-----CE-EEEEECChHHHHHHHHhcCCCEEEEEEEEe
Confidence            46788999999999777776532     34 48999999999999998 888887766654

This entry represents a domain of unknown function which is associated with the SET domain and found in histone lysine methyltransferases [].

>KOG0112|consensus

Probab=90.52  E-value=0.11  Score=52.14  Aligned_cols=59  Identities=19%  Similarity=0.144  Sum_probs=50.1

Q ss_pred             CcEEEEcCCCCCCCHHHHHhccCCC-CceEEEEeecC-CCCccEEEEEeCCHHHHHHHHHh
Q psy3727          78 RHTVHMRGLPFRANERDVADFFRPV-VPVHVDIHYEN-GRPSGEADVDFATHEDAMQAMSK  136 (232)
Q Consensus        78 ~~~vfV~nLp~~~te~dl~~~F~~~-~i~~v~i~~d~-g~~kG~afVeF~s~eda~~Al~~  136 (232)
                      ..+||++||+..+++.+|+..|..+ .+.+|.|..-. +.-.-++||.|.+...+-.|+..
T Consensus       372 trTLf~Gnl~~kl~eseiR~af~e~gkve~VDiKtP~~~~esa~~f~~~~n~dmtp~ak~e  432 (975)
T KOG0112|consen  372 TRTLFLGNLDSKLTESEIRPAFDESGKVEEVDIKTPHIKTESAYAFVSLLNTDMTPSAKFE  432 (975)
T ss_pred             hhhhhhcCcccchhhhhhhhhhhhhccccccccccCCCCcccchhhhhhhccccCcccchh
Confidence            5799999999999999999999999 78889888776 66666999999987777666654

>KOG0112|consensus

Probab=90.47  E-value=0.35  Score=48.73  Aligned_cols=78  Identities=21%  Similarity=0.315  Sum_probs=62.1

Q ss_pred             CCCCCCcEEEEcCCCCCCCHHHHHhccCCCCceEEEEeecCCCCccEEEEEeCCHHHHHHHHHh-CCceeee--eEEEEE
Q psy3727          73 SSGPSRHTVHMRGLPFRANERDVADFFRPVVPVHVDIHYENGRPSGEADVDFATHEDAMQAMSK-DRTNMQH--RYIELF  149 (232)
Q Consensus        73 ~~~~s~~~vfV~nLp~~~te~dl~~~F~~~~i~~v~i~~d~g~~kG~afVeF~s~eda~~Al~~-~g~~i~g--R~I~V~  149 (232)
                      .+.+. ..++|++|+..+....|...|..|..+++ |.++.|.+  ||+|.+++...++.|+.- -+..|++  +.|.|.
T Consensus       451 kst~t-tr~~sgglg~w~p~~~l~r~fd~fGpir~-Idy~hgq~--yayi~yes~~~aq~a~~~~rgap~G~P~~r~rvd  526 (975)
T KOG0112|consen  451 KSTPT-TRLQSGGLGPWSPVSRLNREFDRFGPIRI-IDYRHGQP--YAYIQYESPPAAQAATHDMRGAPLGGPPRRLRVD  526 (975)
T ss_pred             ccccc-eeeccCCCCCCChHHHHHHHhhccCccee-eecccCCc--ceeeecccCccchhhHHHHhcCcCCCCCcccccc
Confidence            33444 88999999999999999999999955554 55555665  999999999999999985 6666654  568888


Q ss_pred             ecCCC
Q psy3727         150 LNSSS  154 (232)
Q Consensus       150 ~~~~~  154 (232)
                      ++...
T Consensus       527 la~~~  531 (975)
T KOG0112|consen  527 LASPP  531 (975)
T ss_pred             cccCC
Confidence            88764

>KOG2135|consensus

Probab=90.46  E-value=0.14  Score=48.21  Aligned_cols=72  Identities=24%  Similarity=0.383  Sum_probs=60.2

Q ss_pred             cEEEEcCCCCCC-CHHHHHhccCCC-CceEEEEeecCCCCccEEEEEeCCHHHHHHHHHhCCceeeeeEEEEEecCCC
Q psy3727          79 HTVHMRGLPFRA-NERDVADFFRPV-VPVHVDIHYENGRPSGEADVDFATHEDAMQAMSKDRTNMQHRYIELFLNSSS  154 (232)
Q Consensus        79 ~~vfV~nLp~~~-te~dl~~~F~~~-~i~~v~i~~d~g~~kG~afVeF~s~eda~~Al~~~g~~i~gR~I~V~~~~~~  154 (232)
                      +.|-+.-.|+.. |.++|..+|.+| +|+.|.+.+.    .=-|.|+|.+..+|-.|..-++..|++|.|+|++..+.
T Consensus       373 s~l~lek~~~glnt~a~ln~hfA~fG~i~n~qv~~~----~~~a~vTF~t~aeag~a~~s~~avlnnr~iKl~whnps  446 (526)
T KOG2135|consen  373 SPLALEKSPFGLNTIADLNPHFAQFGEIENIQVDYS----SLHAVVTFKTRAEAGEAYASHGAVLNNRFIKLFWHNPS  446 (526)
T ss_pred             chhhhhccCCCCchHhhhhhhhhhcCccccccccCc----hhhheeeeeccccccchhccccceecCceeEEEEecCC
Confidence            567777667654 567899999999 8988888665    23599999999999888878999999999999998875

>KOG0114|consensus

Probab=90.35  E-value=0.23  Score=37.76  Aligned_cols=22  Identities=5%  Similarity=-0.091  Sum_probs=20.4

Q ss_pred             ceEEEcCCCccccHHHHHhhhC
Q psy3727         196 AYVENTALSRSAVKDRAINVQL  217 (232)
Q Consensus       196 ~~v~~~gLp~~~t~~dl~~fF~  217 (232)
                      ..|+++||||++|.||..++|.
T Consensus        19 riLyirNLp~~ITseemydlFG   40 (124)
T KOG0114|consen   19 RILYIRNLPFKITSEEMYDLFG   40 (124)
T ss_pred             eeEEEecCCccccHHHHHHHhh
Confidence            4689999999999999999996

>cd00590 RRM RRM (RNA recognition motif), also known as RBD (RNA binding domain) or RNP (ribonucleoprotein domain), is a highly abundant domain in eukaryotes found in proteins involved in post-transcriptional gene expression processes including mRNA and rRNA processing, RNA export, and RNA stability

Probab=89.12  E-value=0.32  Score=31.97  Aligned_cols=21  Identities=5%  Similarity=-0.099  Sum_probs=19.4

Q ss_pred             EEEcCCCccccHHHHHhhhCC
Q psy3727         198 VENTALSRSAVKDRAINVQLC  218 (232)
Q Consensus       198 v~~~gLp~~~t~~dl~~fF~~  218 (232)
                      |.+.|||+.+++++|+++|+.
T Consensus         2 i~i~~l~~~~~~~~i~~~~~~   22 (74)
T cd00590           2 LFVGNLPPDVTEEDLRELFSK   22 (74)
T ss_pred             EEEeCCCCccCHHHHHHHHHh
Confidence            678999999999999999975

This domain is 90 amino acids in length and consists of a four-stranded beta-sheet packed against two alpha-helices. RRM usually interacts with ssRNA, but is also known to interact with ssDNA as well as proteins. RRM binds a variable number of nucleotides, ranging from two to eight. The active site includes three aromatic side-chains located within the conserved RNP1 and RNP2 motifs of the domain. The RRM domain is found in a variety heterogeneous nuclear ribonucleoproteins (hnRNPs), proteins implicated in regulation of alternative splicing, and protein components of small nuclear ribonucleoproteins (snRNPs).

>smart00362 RRM_2 RNA recognition motif

Probab=88.78  E-value=0.35  Score=31.59  Aligned_cols=21  Identities=5%  Similarity=-0.094  Sum_probs=19.2

Q ss_pred             EEEcCCCccccHHHHHhhhCC
Q psy3727         198 VENTALSRSAVKDRAINVQLC  218 (232)
Q Consensus       198 v~~~gLp~~~t~~dl~~fF~~  218 (232)
                      |++.|||+.++++||+++|..
T Consensus         2 v~i~~l~~~~~~~~l~~~~~~   22 (72)
T smart00362        2 LFVGNLPPDVTEEDLKELFSK   22 (72)
T ss_pred             EEEcCCCCcCCHHHHHHHHHh
Confidence            678999999999999999963

>PF04847 Calcipressin: Calcipressin; InterPro: IPR006931 Calcipressin 1 negatively regulates calcineurin (IPR015757 from INTERPRO) by direct binding and is essential for the survival of T helper type 1 cells

Probab=88.59  E-value=1.1  Score=37.46  Aligned_cols=60  Identities=17%  Similarity=0.272  Sum_probs=42.7

Q ss_pred             CHHHHHhccCCC-CceEEEEeecCCCCccEEEEEeCCHHHHHHHHHh-C--CceeeeeEEEEEecCCC
Q psy3727          91 NERDVADFFRPV-VPVHVDIHYENGRPSGEADVDFATHEDAMQAMSK-D--RTNMQHRYIELFLNSSS  154 (232)
Q Consensus        91 te~dl~~~F~~~-~i~~v~i~~d~g~~kG~afVeF~s~eda~~Al~~-~--g~~i~gR~I~V~~~~~~  154 (232)
                      ..+.|+++|..+ .++.+.+..    +-.=..|.|.+.++|.+|... +  +..+.+..|+|+++...
T Consensus         8 ~~~~l~~l~~~~~~~~~~~~L~----sFrRi~v~f~~~~~A~~~r~~l~~~~~~~~g~~l~~yf~~~~   71 (184)
T PF04847_consen    8 NLAELEELFSTYDPPVQFSPLK----SFRRIRVVFESPESAQRARQLLHWDGTSFNGKRLRVYFGQPT   71 (184)
T ss_dssp             -HHHHHHHHHTT-SS-EEEEET----TTTEEEEE-SSTTHHHHHHHTST--TSEETTEE-EEE----S
T ss_pred             hHHHHHHHHHhcCCceEEEEcC----CCCEEEEEeCCHHHHHHHHHHhcccccccCCCceEEEEcccc
Confidence            457899999999 666655543    334589999999999999998 7  88999999999988554

Calcipressin 1 is a phosphoprotein that increases its capacity to inhibit calcineurin when phosphorylated at the FLISPP motif, and this phosphorylation also controls the half-life of calcipressin 1 by accelerating its degradation []. Calcineurin is a calcium-responsive enzyme that dephosphorylates the nuclear factor of activated T cells (NFAT). In so doing it promotes its nuclear translocation and uniquely links calcium signalling to transcriptional regulation []. Calcipressins are a family of proteins derived from three genes. Calcipressin 1 is also known as modulatory calcineurin-interacting protein 1 (MCIP1), Adapt78 and Down syndrome critical region 1 (DSCR1). Calcipressin 2 is variously known as MCIP2, ZAKI-4 and DSCR1-like 1. Calcipressin 3 is also called MCIP3 and DSCR1-like 2 []. DSCR1 (Adapt78) is associated with successful adaptation to oxidative stress and calcium stress as well as with diseases like Alzheimer's and Down syndrome. The DSCR1 (Adapt78) isoform 1 protein, calcipressin 1, inhibits calcineurin and protects against acute calcium-mediated stress damage, including transient oxidative stress []. Calcipressin 1 is encoded by DSCR1, a gene on human chromosome 21. Calcipressin 1 isoform 1 has an N-terminal coding region, which generates a new polypeptide of 252 amino acids. Endogenous calcipressin 1 exists as a complex together with the calcineurin A and B heterodimer []. ; GO: 0019722 calcium-mediated signaling; PDB: 1WEY_A.

>PF03880 DbpA: DbpA RNA binding domain ; InterPro: IPR005580 This RNA binding domain is found at the C terminus of a number of DEAD helicase proteins []

Probab=88.22  E-value=1  Score=31.54  Aligned_cols=58  Identities=12%  Similarity=0.056  Sum_probs=34.0

Q ss_pred             CCCCCHHHHHhccCCC------CceEEEEeecCCCCccEEEEEeCCHHHHHHHHHh-CCceeeeeEEEEEec
Q psy3727          87 PFRANERDVADFFRPV------VPVHVDIHYENGRPSGEADVDFATHEDAMQAMSK-DRTNMQHRYIELFLN  151 (232)
Q Consensus        87 p~~~te~dl~~~F~~~------~i~~v~i~~d~g~~kG~afVeF~s~eda~~Al~~-~g~~i~gR~I~V~~~  151 (232)
                      --.++..+|..++...      .|-.|.|..+      |+||+-.. +.|+.+++. ++..+.|++|.|..|
T Consensus        10 ~dg~~~~~iv~~i~~~~gi~~~~IG~I~I~~~------~S~vev~~-~~a~~v~~~l~~~~~~gk~v~ve~A   74 (74)
T PF03880_consen   10 KDGLTPRDIVGAICNEAGIPGRDIGRIDIFDN------FSFVEVPE-EVAEKVLEALNGKKIKGKKVRVERA   74 (74)
T ss_dssp             GGT--HHHHHHHHHTCTTB-GGGEEEEEE-SS-------EEEEE-T-T-HHHHHHHHTT--SSS----EEE-
T ss_pred             ccCCCHHHHHHHHHhccCCCHHhEEEEEEeee------EEEEEECH-HHHHHHHHHhcCCCCCCeeEEEEEC
Confidence            3457888999998754      3447777544      89999886 477888887 999999999999864

; PDB: 2G0C_A 3MOJ_B.

>KOG2416|consensus

Probab=87.85  E-value=0.37  Score=46.60  Aligned_cols=72  Identities=7%  Similarity=0.066  Sum_probs=53.4

Q ss_pred             CcEEEEcCCCCCCCHHHHHhccC-CC-CceEEEEeecCCCCccEEEEEeCCHHHHHHHHHh-CCcee---eeeEEEEEec
Q psy3727          78 RHTVHMRGLPFRANERDVADFFR-PV-VPVHVDIHYENGRPSGEADVDFATHEDAMQAMSK-DRTNM---QHRYIELFLN  151 (232)
Q Consensus        78 ~~~vfV~nLp~~~te~dl~~~F~-~~-~i~~v~i~~d~g~~kG~afVeF~s~eda~~Al~~-~g~~i---~gR~I~V~~~  151 (232)
                      .++|+|.||---.|.-+|++++. .+ .|+..+|  |  +.|-.|||.|.+.++|.+.+.. |+..+   +.+.|.+.+.
T Consensus       444 SnvlhI~nLvRPFTlgQLkelL~rtgg~Vee~Wm--D--kIKShCyV~yss~eEA~atr~AlhnV~WP~sNPK~L~adf~  519 (718)
T KOG2416|consen  444 SNVLHIDNLVRPFTLGQLKELLGRTGGNVEEFWM--D--KIKSHCYVSYSSVEEAAATREALHNVQWPPSNPKHLIADFV  519 (718)
T ss_pred             cceEeeecccccchHHHHHHHHhhccCchHHHHH--H--HhhcceeEecccHHHHHHHHHHHhccccCCCCCceeEeeec
Confidence            49999999977779999999998 56 5556544  3  3456799999999999988875 55433   4455666555


Q ss_pred             CC
Q psy3727         152 SS  153 (232)
Q Consensus       152 ~~  153 (232)
                      +.
T Consensus       520 ~~  521 (718)
T KOG2416|consen  520 RA  521 (718)
T ss_pred             ch
Confidence            44

>KOG2068|consensus

Probab=87.17  E-value=0.3  Score=44.03  Aligned_cols=76  Identities=16%  Similarity=0.233  Sum_probs=57.6

Q ss_pred             cEEEEcCCCCCCCHHHHH---hccCCC-CceEEEEeecC-----CCCccEEEEEeCCHHHHHHHHHh-CCceeeeeEEEE
Q psy3727          79 HTVHMRGLPFRANERDVA---DFFRPV-VPVHVDIHYEN-----GRPSGEADVDFATHEDAMQAMSK-DRTNMQHRYIEL  148 (232)
Q Consensus        79 ~~vfV~nLp~~~te~dl~---~~F~~~-~i~~v~i~~d~-----g~~kG~afVeF~s~eda~~Al~~-~g~~i~gR~I~V  148 (232)
                      .-|||-+|+.....+++.   ++|.+| .|..|.+-.+.     -...--++|+|+..|||..||.. ++..++++.|+.
T Consensus        78 nlvyvvgl~~~~ade~~l~~~eyfgqygki~ki~~~~~~S~~s~~~~~~s~yITy~~~eda~rci~~v~g~~~dg~~lka  157 (327)
T KOG2068|consen   78 NLVYVVGLPLDLADESVLERTEYFGQYGKINKIVKNKDPSSSSSSGGTCSVYITYEEEEDADRCIDDVDGFVDDGRALKA  157 (327)
T ss_pred             hhhhhhCCCccccchhhhhCcccccccccceEEeecCCcccccCCCCCCcccccccchHhhhhHHHHhhhHHhhhhhhHH
Confidence            678888898877666543   577788 78888776643     01122389999999999999998 999999998777


Q ss_pred             EecCCC
Q psy3727         149 FLNSSS  154 (232)
Q Consensus       149 ~~~~~~  154 (232)
                      .+..++
T Consensus       158 ~~gttk  163 (327)
T KOG2068|consen  158 SLGTTK  163 (327)
T ss_pred             hhCCCc
Confidence            776664

>COG0724 RNA-binding proteins (RRM domain) [General function prediction only]

Probab=84.52  E-value=0.74  Score=38.09  Aligned_cols=24  Identities=4%  Similarity=-0.119  Sum_probs=21.8

Q ss_pred             cceEEEcCCCccccHHHHHhhhCC
Q psy3727         195 QAYVENTALSRSAVKDRAINVQLC  218 (232)
Q Consensus       195 ~~~v~~~gLp~~~t~~dl~~fF~~  218 (232)
                      ...|+|.|||+++|+++|.++|..
T Consensus       115 ~~~l~v~nL~~~~~~~~l~~~F~~  138 (306)
T COG0724         115 NNTLFVGNLPYDVTEEDLRELFKK  138 (306)
T ss_pred             CceEEEeCCCCCCCHHHHHHHHHh
Confidence            468999999999999999999974

>KOG0121|consensus

Probab=83.74  E-value=0.68  Score=36.58  Aligned_cols=24  Identities=13%  Similarity=-0.043  Sum_probs=21.7

Q ss_pred             cceEEEcCCCccccHHHHHhhhCC
Q psy3727         195 QAYVENTALSRSAVKDRAINVQLC  218 (232)
Q Consensus       195 ~~~v~~~gLp~~~t~~dl~~fF~~  218 (232)
                      .++|.|.||+|.+|+|.|-++|..
T Consensus        36 S~tvyVgNlSfyttEEqiyELFs~   59 (153)
T KOG0121|consen   36 SCTVYVGNLSFYTTEEQIYELFSK   59 (153)
T ss_pred             cceEEEeeeeeeecHHHHHHHHHh
Confidence            358999999999999999999974

>KOG4660|consensus

Probab=83.23  E-value=1.4  Score=42.20  Aligned_cols=47  Identities=6%  Similarity=0.085  Sum_probs=32.6

Q ss_pred             EEEeecC--CCCccEEEEEeCCHHHHHHHHHh-CCce---eee-eEEEEEecCC
Q psy3727         107 VDIHYEN--GRPSGEADVDFATHEDAMQAMSK-DRTN---MQH-RYIELFLNSS  153 (232)
Q Consensus       107 v~i~~d~--g~~kG~afVeF~s~eda~~Al~~-~g~~---i~g-R~I~V~~~~~  153 (232)
                      +.++.|-  ....|||||-|.+++++..+.+. |++.   ++. +..+|.+|..
T Consensus       419 lYLPiDF~nkcNvGYAFINm~sp~ai~~F~kAFnGk~W~~FnS~Kia~itYArI  472 (549)
T KOG4660|consen  419 LYLPIDFKNKCNVGYAFINMTSPEAIIRFYKAFNGKKWEKFNSEKIASITYARI  472 (549)
T ss_pred             EEeccccccccccceeEEeecCHHHHHHHHHHHcCCchhhhcceeeeeeehhhh
Confidence            4555554  66899999999999999999987 6653   333 2344544443

>smart00360 RRM RNA recognition motif

Probab=81.52  E-value=0.84  Score=29.49  Aligned_cols=18  Identities=6%  Similarity=-0.012  Sum_probs=16.4

Q ss_pred             EcCCCccccHHHHHhhhC
Q psy3727         200 NTALSRSAVKDRAINVQL  217 (232)
Q Consensus       200 ~~gLp~~~t~~dl~~fF~  217 (232)
                      |.|||+.++++||+++|+
T Consensus         1 i~~l~~~~~~~~l~~~f~   18 (71)
T smart00360        1 VGNLPPDVTEEELRELFS   18 (71)
T ss_pred             CCCCCcccCHHHHHHHHH
Confidence            468999999999999996

>KOG0804|consensus

Probab=81.07  E-value=3.5  Score=38.80  Aligned_cols=66  Identities=11%  Similarity=0.111  Sum_probs=56.3

Q ss_pred             CcEEEEcCCCCCCCHHHHHhccCCC--CceEEEEeecCCCCccEEEEEeCCHHHHHHHHHh-CCceeee
Q psy3727          78 RHTVHMRGLPFRANERDVADFFRPV--VPVHVDIHYENGRPSGEADVDFATHEDAMQAMSK-DRTNMQH  143 (232)
Q Consensus        78 ~~~vfV~nLp~~~te~dl~~~F~~~--~i~~v~i~~d~g~~kG~afVeF~s~eda~~Al~~-~g~~i~g  143 (232)
                      ...|.|=-+|-.+|-.||..|...+  .|.+|+|++|.--.+=...|.|.+.+||..-.+. |++.++.
T Consensus        74 ~~mLcilaVP~~mt~~Dll~F~~~~~~~I~~irivRd~~pnrymvLIkFr~q~da~~Fy~efNGk~Fn~  142 (493)
T KOG0804|consen   74 STMLCILAVPAYMTSHDLLRFCASFIKQISDIRIVRDGMPNRYMVLIKFRDQADADTFYEEFNGKQFNS  142 (493)
T ss_pred             CcEEEEEeccccccHHHHHHHHHHHhhhhheeEEeecCCCceEEEEEEeccchhHHHHHHHcCCCcCCC
Confidence            5889999999999999999999987  7889999998633344789999999999999987 8876653

>PF07292 NID: Nmi/IFP 35 domain (NID); InterPro: IPR009909 This entry represents a domain of approximately 90 residues that is tandemly repeated within interferon-induced 35 kDa protein (IFP 35) and the homologous N-myc-interactor (Nmi)

Probab=80.91  E-value=1.7  Score=31.92  Aligned_cols=74  Identities=8%  Similarity=0.056  Sum_probs=48.8

Q ss_pred             EEEEeCCHHHHHHHHHh--CCceeeeeEEEEEecCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC-CCCCCcc
Q psy3727         120 ADVDFATHEDAMQAMSK--DRTNMQHRYIELFLNSSSPRGGVGGSGSIGGFGGSGGGRLGGFGGSDPSSPFE-RRNPNQA  196 (232)
Q Consensus       120 afVeF~s~eda~~Al~~--~g~~i~gR~I~V~~~~~~~~~~~~g~~g~gg~gg~~gg~~gg~g~~~~~~~~~-~~~~~~~  196 (232)
                      |.|+|++++-|++-+++  +.-.++...+.|..+.-.....                           ..++ .-..+..
T Consensus         1 AlITF~e~~VA~~i~~~~~~~v~l~~~~~~V~v~P~~~~~~---------------------------~k~qv~~~vs~r   53 (88)
T PF07292_consen    1 ALITFEEEGVAQRILKKKKHPVPLEDCCVRVKVSPVTLGHL---------------------------QKFQVFSGVSKR   53 (88)
T ss_pred             CEEEeCcHHHHHHHHhCCEEEEEECCEEEEEEEEeEecCCc---------------------------eEEEEEEcccCC
Confidence            68999999999999997  5556777777776543321010                           0010 1112234


Q ss_pred             eEEEcCCCccccHHHHHhhhCCCC
Q psy3727         197 YVENTALSRSAVKDRAINVQLCPY  220 (232)
Q Consensus       197 ~v~~~gLp~~~t~~dl~~fF~~~~  220 (232)
                      .|-+.|||-...+++|++..+.-|
T Consensus        54 tVlvsgip~~l~ee~l~D~LeIhF   77 (88)
T PF07292_consen   54 TVLVSGIPDVLDEEELRDKLEIHF   77 (88)
T ss_pred             EEEEeCCCCCCChhhheeeEEEEE
Confidence            688999999999999988755433

This domain mediates Nmi-Nmi protein interactions and subcellular localisation [].

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	232
2hgn_A	139	Nmr Structure Of The Third Qrrm Domain Of Human Hnr		3e-23
1wez_A	102	Solution Structure Of Rrm Domain In Heterogeneous N		4e-22
2dgw_A	91	Solution Structure Of The Second Rna Recognition Mo		6e-11
2db1_A	118	Solution Structure Of The Rna Binding Domain In Het		4e-09
2dha_A	123	Solution Structure Of The Second Rna Recognition Mo		1e-08
2hgl_A	136	Nmr Structure Of The First Qrrm Domain Of Human Hnr		2e-08
1wg5_A	104	Solution Structure Of The First Rrm Domain In Heter		3e-08
2hgm_A	126	Nmr Structure Of The Second Qrrm Domain Of Human Hn		6e-08
2lxu_A	108	Solution Nmr Structure Of The Eukaryotic Rna Recogn		5e-07
1wel_A	124	Solution Structure Of Rna Binding Domain In Np_0060		7e-06
2dnn_A	109	Solution Structure Of Rna Binding Domain In Rna-Bin		7e-05

>pdb|2HGN|A Chain A, Nmr Structure Of The Third Qrrm Domain Of Human Hnrnp F Length = 139

Iteration: 1
 Score =  105 bits (261), Expect = 3e-23,   Method: Compositional matrix adjust.
 Identities = 49/76 (64%), Positives = 60/76 (78%), Gaps = 1/76 (1%)
Query: 77  SRHTVHMRGLPFRANERDVADFFRPVVPVHVDIHYE-NGRPSGEADVDFATHEDAMQAMS 135
           + H VHMRGLP++A E D+ +FF P+ PV V I    +GR +GEADV+FATHE+A+ AMS
Sbjct: 45  TGHCVHMRGLPYKATENDIYNFFSPLNPVRVHIEIGPDGRVTGEADVEFATHEEAVAAMS 104
Query: 136 KDRTNMQHRYIELFLN 151
           KDR NMQHRYIELFLN
Sbjct: 105 KDRANMQHRYIELFLN 120

>pdb|1WEZ|A Chain A, Solution Structure Of Rrm Domain In Heterogeneous Nuclear Ribonucleoprotein H' Length = 102

Iteration: 1
 Score =  101 bits (251), Expect = 4e-22,   Method: Compositional matrix adjust.
 Identities = 47/74 (63%), Positives = 59/74 (79%), Gaps = 1/74 (1%)
Query: 79  HTVHMRGLPFRANERDVADFFRPVVPVHVDIHYE-NGRPSGEADVDFATHEDAMQAMSKD 137
           H VHMRGLP+RA E D+ +FF P+ P+ V I    +GR +GEADV+FATHEDA+ AM+KD
Sbjct: 16  HCVHMRGLPYRATENDIYNFFSPLNPMRVHIEIGPDGRVTGEADVEFATHEDAVAAMAKD 75
Query: 138 RTNMQHRYIELFLN 151
           + NMQHRY+ELFLN
Sbjct: 76  KANMQHRYVELFLN 89

>pdb|2DGW|A Chain A, Solution Structure Of The Second Rna Recognition Motif In Rna-Binding Protein 19 Length = 91

Iteration: 1
 Score = 64.3 bits (155), Expect = 6e-11,   Method: Compositional matrix adjust.
 Identities = 32/78 (41%), Positives = 46/78 (58%), Gaps = 1/78 (1%)
Query: 73  SSGPSRHTVHMRGLPFRANERDVADFFRPVVPVHVDI-HYENGRPSGEADVDFATHEDAM 131
           SSG + HTV +RG PF   E++V +F  P+ PV + I    +G  +G   VDF+  E+  
Sbjct: 5   SSGTTCHTVKLRGAPFNVTEKNVMEFLAPLKPVAIRIVRNAHGNKTGYIFVDFSNEEEVK 64
Query: 132 QAMSKDRTNMQHRYIELF 149
           QA+  +R  M  RYIE+F
Sbjct: 65  QALKCNREYMGGRYIEVF 82

>pdb|2DB1|A Chain A, Solution Structure Of The Rna Binding Domain In Heterogeneous Nuclear Ribonucleoprotein F Homolog Length = 118

Iteration: 1
 Score = 58.2 bits (139), Expect = 4e-09,   Method: Compositional matrix adjust.
 Identities = 32/81 (39%), Positives = 44/81 (54%), Gaps = 7/81 (8%)
Query: 75  GPSRHTVHMRGLPFRANERDVADFFR------PVVPVHVDIHYENGRPSGEADVDFATHE 128
           G   + V +RGLP+  +  DV +F         V  VH  I+   GR SGEA V+  + +
Sbjct: 14  GGEGYVVKLRGLPWSCSIEDVQNFLSDCTIHDGVAGVHF-IYTREGRQSGEAFVELESED 72
Query: 129 DAMQAMSKDRTNMQHRYIELF 149
           D   A+ KDR +M HRYIE+F
Sbjct: 73  DVKLALKKDRESMGHRYIEVF 93

>pdb|2DHA|A Chain A, Solution Structure Of The Second Rna Recognition Motif In Hypothetical Protein Flj201171 Length = 123

Iteration: 1
 Score = 56.6 bits (135), Expect = 1e-08,   Method: Compositional matrix adjust.
 Identities = 31/75 (41%), Positives = 41/75 (54%), Gaps = 6/75 (8%)
Query: 81  VHMRGLPFRANERDVADFFRPVVPVH------VDIHYENGRPSGEADVDFATHEDAMQAM 134
           V MRGLPF A   +V  FF    P+       + + Y +GRP+G+A V FA  E A  A+
Sbjct: 26  VRMRGLPFTATAEEVVAFFGQHCPITGGKEGILFVTYPDGRPTGDAFVLFACEEYAQNAL 85
Query: 135 SKDRTNMQHRYIELF 149
            K +  +  RYIELF
Sbjct: 86  RKHKDLLGKRYIELF 100

>pdb|2HGL|A Chain A, Nmr Structure Of The First Qrrm Domain Of Human Hnrnp F Length = 136

Iteration: 1
 Score = 55.8 bits (133), Expect = 2e-08,   Method: Compositional matrix adjust.
 Identities = 31/81 (38%), Positives = 42/81 (51%), Gaps = 7/81 (8%)
Query: 75  GPSRHTVHMRGLPFRANERDVADFFR------PVVPVHVDIHYENGRPSGEADVDFATHE 128
           G     V +RGLP+  +  DV +F            VH  I+   GR SGEA V+  + +
Sbjct: 41  GGEGFVVKLRGLPWSCSVEDVQNFLSDCTIHDGAAGVHF-IYTREGRQSGEAFVELGSED 99
Query: 129 DAMQAMSKDRTNMQHRYIELF 149
           D   A+ KDR +M HRYIE+F
Sbjct: 100 DVKMALKKDRESMGHRYIEVF 120

>pdb|1WG5|A Chain A, Solution Structure Of The First Rrm Domain In Heterogeneous Nuclear Ribonucleoprotein H Length = 104

Iteration: 1
 Score = 55.5 bits (132), Expect = 3e-08,   Method: Compositional matrix adjust.
 Identities = 28/72 (38%), Positives = 44/72 (61%), Gaps = 3/72 (4%)
Query: 81  VHMRGLPFRANERDVADFFR--PVVPVHVDIHYE-NGRPSGEADVDFATHEDAMQAMSKD 137
           V +RGLPF  ++ ++  FF    +VP  + +  +  GR +GEA V FA+ E A +A+ K 
Sbjct: 18  VRLRGLPFGCSKEEIVQFFSGLEIVPNGMTLPVDFQGRSTGEAFVQFASQEIAEKALKKH 77
Query: 138 RTNMQHRYIELF 149
           +  + HRYIE+F
Sbjct: 78  KERIGHRYIEIF 89

>pdb|2HGM|A Chain A, Nmr Structure Of The Second Qrrm Domain Of Human Hnrnp F Length = 126

Iteration: 1
 Score = 53.9 bits (128), Expect = 6e-08,   Method: Compositional matrix adjust.
 Identities = 27/72 (37%), Positives = 43/72 (59%), Gaps = 3/72 (4%)
Query: 81  VHMRGLPFRANERDVADFFR--PVVPVHVDIHYE-NGRPSGEADVDFATHEDAMQAMSKD 137
           V +RGLPF   + ++  FF    +VP  + +  +  G+ +GEA V FA+ E A +A+ K 
Sbjct: 45  VRLRGLPFGCTKEEIVQFFSGLEIVPNGITLPVDPEGKITGEAFVQFASQELAEKALGKH 104
Query: 138 RTNMQHRYIELF 149
           +  + HRYIE+F
Sbjct: 105 KERIGHRYIEVF 116

>pdb|2LXU|A Chain A, Solution Nmr Structure Of The Eukaryotic Rna Recognition Motif, Rrm1, From The Heterogeneous Nuclear Ribonucleoprotein H From Homo Sapiens, Northeast Structural Genomics Consortium (Nesg) Target Hr8614a Length = 108

Iteration: 1
 Score = 51.2 bits (121), Expect = 5e-07,   Method: Compositional matrix adjust.
 Identities = 28/80 (35%), Positives = 41/80 (51%), Gaps = 5/80 (6%)
Query: 75  GPSRHTVHMRGLPFRANERDVADFFRPVVPVHVD-----IHYENGRPSGEADVDFATHED 129
           G     V +RGLP+  +  +V  FF      +       I+   GRPSGEA V+  + ++
Sbjct: 4   GGEGFVVKVRGLPWSCSADEVQRFFSDCKIQNGAQGIRFIYTREGRPSGEAFVELESEDE 63
Query: 130 AMQAMSKDRTNMQHRYIELF 149
              A+ KDR  M HRY+E+F
Sbjct: 64  VKLALKKDRETMGHRYVEVF 83

>pdb|1WEL|A Chain A, Solution Structure Of Rna Binding Domain In Np_006038 Length = 124

Iteration: 1
 Score = 47.4 bits (111), Expect = 7e-06,   Method: Compositional matrix adjust.
 Identities = 23/72 (31%), Positives = 40/72 (55%), Gaps = 3/72 (4%)
Query: 80  TVHMRGLPFRANERDVADFFRPVVPVHVDIHYE---NGRPSGEADVDFATHEDAMQAMSK 136
            V+++GLPF A  + V DFF+ +  V   I+     NG+ +GE  V+F    D   A+ +
Sbjct: 27  CVYLKGLPFEAENKHVIDFFKKLDIVEDSIYIAYGPNGKATGEGFVEFRNEADYKAALCR 86
Query: 137 DRTNMQHRYIEL 148
            +  M +R+I++
Sbjct: 87  HKQYMGNRFIQV 98

>pdb|2DNN|A Chain A, Solution Structure Of Rna Binding Domain In Rna-Binding Protein 12 Length = 109

Iteration: 1
 Score = 43.9 bits (102), Expect = 7e-05,   Method: Compositional matrix adjust.
 Identities = 26/70 (37%), Positives = 39/70 (55%), Gaps = 3/70 (4%)
Query: 81  VHMRGLPFRANERDVADFFRP--VVPVHVDIHYENGRPSGEADVDFATHEDAMQAMSKDR 138
           V + G+PF A E DV DFF    V  VH+ +    GR +G   V F + +D  +A+ ++R
Sbjct: 19  VSVHGMPFSAMENDVRDFFHGLRVDAVHL-LKDHVGRNNGNGLVKFLSPQDTFEALKRNR 77
Query: 139 TNMQHRYIEL 148
             M  RY+E+
Sbjct: 78  MLMIQRYVEV 87

---

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	232
d1weza_	102	d.58.7.1 (A:) Heterogeneous nuclear ribonucleoprot	1e-10
d1wela1	112	d.58.7.1 (A:412-523) RNA-binding protein 12 {Human	2e-09
d2cqpa1	86	d.58.7.1 (A:917-1002) RNA-binding protein 12 {Mous	2e-08
d1wg5a_	104	d.58.7.1 (A:) Heterogeneous nuclear ribonucleoprot	3e-08
d2cpya1	103	d.58.7.1 (A:536-638) RNA-binding protein 12 {Human	4e-08
d1uawa_	77	d.58.7.1 (A:) Musashi-1 {Mouse (Mus musculus) [Tax	6e-08
d1zh5a2	85	d.58.7.1 (A:105-189) Lupus LA protein {Human (Homo	7e-07
d2cq4a1	101	d.58.7.1 (A:132-232) RNA binding protein 23 {Human	1e-06
d1hd0a_	75	d.58.7.1 (A:) Heterogeneous nuclear ribonucleoprot	1e-06
d2cpha1	94	d.58.7.1 (A:454-547) Probable RNA-binding protein	1e-06
d1fjca_	96	d.58.7.1 (A:) Nucleolin {Golden hamster (Mesocrice	1e-06
d1l3ka1	84	d.58.7.1 (A:8-91) Nuclear ribonucleoprotein A1 (RN	4e-06
d1cvja1	80	d.58.7.1 (A:11-90) Poly(A)-binding protein {Human	5e-06
d1b7fa2	85	d.58.7.1 (A:205-289) Sex-lethal protein {Drosophil	6e-06
d1fxla1	82	d.58.7.1 (A:37-118) Hu antigen D (Hud) {Human (Hom	7e-06
d2msta_	75	d.58.7.1 (A:) Neural RNA-binding protein Musashi-1	7e-06
d2f9da1	114	d.58.7.1 (A:12-125) Pre-mRNA branch site protein p	7e-06
d1x0fa1	75	d.58.7.1 (A:183-257) Nuclear ribonucleoprotein D0	1e-05
d2ghpa2	75	d.58.7.1 (A:41-115) U4/U6 snRNA-associated-splicin	1e-05
d2cqca1	83	d.58.7.1 (A:109-191) Arginine/serine-rich splicing	2e-05
d2cq3a1	93	d.58.7.1 (A:110-202) RNA-binding protein 9 {Human	2e-05
d1u1qa_	183	d.58.7.1 (A:) Nuclear ribonucleoprotein A1 (RNP A1	2e-05
d2cqga1	90	d.58.7.1 (A:96-185) TAR DNA-binding protein 43, TD	3e-05
d2cqba1	89	d.58.7.1 (A:1-89) Peptidyl-prolyl cis-trans isomer	5e-05
d2u2fa_	85	d.58.7.1 (A:) Splicing factor U2AF 65 KDa subunit	7e-05
d1b7fa1	82	d.58.7.1 (A:123-204) Sex-lethal protein {Drosophil	8e-05
d2cpfa1	85	d.58.7.1 (A:362-446) Probable RNA-binding protein	8e-05
d1x4ba1	103	d.58.7.1 (A:8-110) Heterogeneous nuclear ribonucle	9e-05
d1h2vz_	93	d.58.7.1 (Z:) CBP20, 20KDa nuclear cap-binding pro	9e-05
d1x4ga1	96	d.58.7.1 (A:8-103) Nucleolysin TIAR {Human (Homo s	1e-04
d1x5ta1	83	d.58.7.1 (A:8-90) Splicing factor 3B subunit 4 {Hu	1e-04
d2cq0a1	90	d.58.7.1 (A:231-320) Eukaryotic translation initia	2e-04
d2cq2a1	101	d.58.7.1 (A:25-125) Alkylation repair AlkB homolog	2e-04
d2cpza1	102	d.58.7.1 (A:383-484) CUG triplet repeat RNA-bindin	2e-04
d2disa1	96	d.58.7.1 (A:8-103) Hypothetical protein FLJ20273 {	2e-04
d1wi8a_	104	d.58.7.1 (A:) Eukaryotic translation initiation fa	3e-04
d1whwa_	99	d.58.7.1 (A:) Probable RNA-binding protein 19, Rbm	3e-04
d1no8a_	78	d.58.7.1 (A:) Nuclear factor Aly {Mouse (Mus muscu	4e-04
d2adba1	108	d.58.7.1 (A:177-284) Polypyrimidine tract-binding	5e-04
d2cqia1	90	d.58.7.1 (A:1-90) Nucleolysin TIAR {Human (Homo sa	6e-04
d1nu4a_	91	d.58.7.1 (A:) Splicesomal U1A protein {Human (Homo	7e-04
d2ghpa1	81	d.58.7.1 (A:116-196) U4/U6 snRNA-associated-splici	7e-04
d2cpja1	86	d.58.7.1 (A:65-150) Non-POU domain-containing octa	8e-04
d1x5ua1	93	d.58.7.1 (A:7-99) Splicing factor 3B subunit 4 {Hu	0.001
d1fxla2	85	d.58.7.1 (A:119-203) Hu antigen D (Hud) {Human (Ho	0.001
d1cvja2	89	d.58.7.1 (A:91-179) Poly(A)-binding protein {Human	0.001
d1x4ha1	98	d.58.7.1 (A:8-105) RNA-binding protein 28 {Mouse (	0.002
d2adca2	88	d.58.7.1 (A:444-531) Polypyrimidine tract-binding	0.003
d1x4ea1	72	d.58.7.1 (A:8-79) RNA-binding motif, single-strand	0.004

>d1weza_ d.58.7.1 (A:) Heterogeneous nuclear ribonucleoprotein H' {Human (Homo sapiens) [TaxId: 9606]} Length = 102

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Heterogeneous nuclear ribonucleoprotein H'
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 54.8 bits (131), Expect = 1e-10
 Identities = 49/97 (50%), Positives = 64/97 (65%), Gaps = 1/97 (1%)

Query: 67  GRWVNESSGPSRHTVHMRGLPFRANERDVADFFRPV-VPVHVDIHYENGRPSGEADVDFA 125
           G   +     + H VHMRGLP+RA E D+ +FF P+           +GR +GEADV+FA
Sbjct: 4   GSSGSSFQSTTGHCVHMRGLPYRATENDIYNFFSPLNPMRVHIEIGPDGRVTGEADVEFA 63

Query: 126 THEDAMQAMSKDRTNMQHRYIELFLNSSSPRGGVGGS 162
           THEDA+ AM+KD+ NMQHRY+ELFLNS++   G G S
Sbjct: 64  THEDAVAAMAKDKANMQHRYVELFLNSTAGTSGSGPS 100

>d1wela1 d.58.7.1 (A:412-523) RNA-binding protein 12 {Human (Homo sapiens) [TaxId: 9606]} Length = 112

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding protein 12
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 51.4 bits (122), Expect = 2e-09
 Identities = 25/97 (25%), Positives = 45/97 (46%), Gaps = 5/97 (5%)

Query: 63  PRPGGRWVNESSGPSRHTVHMRGLPFRANERDVADFFRP---VVPVHVDIHYENGRPSGE 119
           P    R  + S   +   V+++GLPF A  + V DFF+    V       +  NG+ +GE
Sbjct: 3   PSGQKRSRSRSPHEAGFCVYLKGLPFEAENKHVIDFFKKLDIVEDSIYIAYGPNGKATGE 62

Query: 120 ADVDFATHEDAMQAMSKDRTNMQHRYIELFLNSSSPR 156
             V+F    D   A+ + +  M +R+I++     + +
Sbjct: 63  GFVEFRNEADYKAALCRHKQYMGNRFIQVHP--ITKK 97

>d2cqpa1 d.58.7.1 (A:917-1002) RNA-binding protein 12 {Mouse (Mus musculus) [TaxId: 10090]} Length = 86

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding protein 12
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 47.7 bits (113), Expect = 2e-08
 Identities = 20/82 (24%), Positives = 38/82 (46%), Gaps = 4/82 (4%)

Query: 73  SSGPSRHTVHMRGLPFRANERDVADFFRPVVPVHVDIH---YENGRPSGEADVDFATHED 129
           S  P    + ++ +PF  +  ++ DFF     +   +     E G P+GEA V F + ++
Sbjct: 4   SGKPGPTIIKVQNMPFTVSIDEILDFFYGYQVIPGSVCLKYNEKGMPTGEAMVAFESRDE 63

Query: 130 AMQAMSK-DRTNMQHRYIELFL 150
           A  A+   +   +  R ++L L
Sbjct: 64  ATAAVIDLNDRPIGSRKVKLVL 85

>d1wg5a_ d.58.7.1 (A:) Heterogeneous nuclear ribonucleoprotein H' {Human (Homo sapiens) [TaxId: 9606]} Length = 104

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Heterogeneous nuclear ribonucleoprotein H'
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 47.9 bits (113), Expect = 3e-08
 Identities = 31/95 (32%), Positives = 48/95 (50%), Gaps = 3/95 (3%)

Query: 71  NESSGPSRHTVHMRGLPFRANERDVADFFRPVVPVHVDIHY---ENGRPSGEADVDFATH 127
           N     +   V +RGLPF  ++ ++  FF  +  V   +       GR +GEA V FA+ 
Sbjct: 8   NSPDTANDGFVRLRGLPFGCSKEEIVQFFSGLEIVPNGMTLPVDFQGRSTGEAFVQFASQ 67

Query: 128 EDAMQAMSKDRTNMQHRYIELFLNSSSPRGGVGGS 162
           E A +A+ K +  + HRYIE+F +S +     G S
Sbjct: 68  EIAEKALKKHKERIGHRYIEIFKSSRAEVRTSGPS 102

>d2cpya1 d.58.7.1 (A:536-638) RNA-binding protein 12 {Human (Homo sapiens) [TaxId: 9606]} Length = 103

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding protein 12
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 47.5 bits (112), Expect = 4e-08
 Identities = 19/98 (19%), Positives = 37/98 (37%), Gaps = 3/98 (3%)

Query: 76  PSRHTVHMRGLPFRANERDVADFFRPVVPVHVDIHY---ENGRPSGEADVDFATHEDAMQ 132
            ++   H+  +PF   + DV  F   +      +H     NG+  G+A V F   +DA +
Sbjct: 6   SAKVCAHITNIPFSITKMDVLQFLEGIPVDENAVHVLVDNNGQGLGQALVQFKNEDDARK 65

Query: 133 AMSKDRTNMQHRYIELFLNSSSPRGGVGGSGSIGGFGG 170
           +    R  +  R   + + +      +  +    G  G
Sbjct: 66  SERLHRKKLNGREAFVHVVTLEDMREIEKNPPAQGKSG 103

>d1uawa_ d.58.7.1 (A:) Musashi-1 {Mouse (Mus musculus) [TaxId: 10090]} Length = 77

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Musashi-1
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 46.5 bits (110), Expect = 6e-08
 Identities = 11/70 (15%), Positives = 26/70 (37%), Gaps = 3/70 (4%)

Query: 81  VHMRGLPFRANERDVADFFR---PVVPVHVDIHYENGRPSGEADVDFATHEDAMQAMSKD 137
           + + GL ++  +  + ++F     V    V       R  G   V F       + +++ 
Sbjct: 3   MFIGGLSWQTTQEGLREYFGQFGEVKECLVMRDPLTKRSRGFGFVTFMDQAGVDKVLAQS 62

Query: 138 RTNMQHRYIE 147
           R  +  + I+
Sbjct: 63  RHELDSKTID 72

>d1zh5a2 d.58.7.1 (A:105-189) Lupus LA protein {Human (Homo sapiens) [TaxId: 9606]} Length = 85

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Lupus LA protein
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 44.0 bits (103), Expect = 7e-07
 Identities = 11/73 (15%), Positives = 23/73 (31%), Gaps = 2/73 (2%)

Query: 77  SRHTVHMRGLPFRANERDVADFFRPVVPVHVDIHYEN--GRPSGEADVDFATHEDAMQAM 134
              +V+++G P  A   D+ ++      V              G   V F + E A + +
Sbjct: 5   KNRSVYIKGFPTDATLDDIKEWLEDKGQVLNIQMRRTLHKAFKGSIFVVFDSIESAKKFV 64

Query: 135 SKDRTNMQHRYIE 147
                  +   + 
Sbjct: 65  ETPGQKYKETDLL 77

>d2cq4a1 d.58.7.1 (A:132-232) RNA binding protein 23 {Human (Homo sapiens) [TaxId: 9606]} Length = 101

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA binding protein 23
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 43.9 bits (103), Expect = 1e-06
 Identities = 18/71 (25%), Positives = 25/71 (35%), Gaps = 3/71 (4%)

Query: 80  TVHMRGLPFRANERDVADFFRP---VVPVHVDIHYENGRPSGEADVDFATHEDAMQAMSK 136
           TV    L  R   RD+ DFF     V  V +     + R  G A V+F   +    A+  
Sbjct: 20  TVFCMQLAARIRPRDLEDFFSAVGKVRDVRIISDRNSRRSKGIAYVEFCEIQSVPLAIGL 79

Query: 137 DRTNMQHRYIE 147
               +    I 
Sbjct: 80  TGQRLLGVPII 90

>d1hd0a_ d.58.7.1 (A:) Heterogeneous nuclear ribonucleoprotein d0 {Human (Homo sapiens) [TaxId: 9606]} Length = 75

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Heterogeneous nuclear ribonucleoprotein d0
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 42.7 bits (100), Expect = 1e-06
 Identities = 14/70 (20%), Positives = 26/70 (37%), Gaps = 3/70 (4%)

Query: 81  VHMRGLPFRANERDVADFFRPVVPVHVDIHY---ENGRPSGEADVDFATHEDAMQAMSKD 137
           + + GL +   ++D+ D+F     V           GR  G   V F   E   + M + 
Sbjct: 2   MFIGGLSWDTTKKDLKDYFSKFGEVVDCTLKLDPITGRSRGFGFVLFKESESVDKVMDQK 61

Query: 138 RTNMQHRYIE 147
              +  + I+
Sbjct: 62  EHKLNGKVID 71

>d2cpha1 d.58.7.1 (A:454-547) Probable RNA-binding protein 19, Rbm19 {Mouse (Mus musculus) [TaxId: 10090]} Length = 94

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Probable RNA-binding protein 19, Rbm19
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 43.0 bits (101), Expect = 1e-06
 Identities = 20/80 (25%), Positives = 37/80 (46%), Gaps = 8/80 (10%)

Query: 76  PSRHTVHMRGLPFRANERDVADFFRPV-----VPVHVDIHYENGRPSGEADVDFATHEDA 130
            +   + +R +PF+AN+R++ + F        V +   +    G   G   VDF T +DA
Sbjct: 6   QTTSKILVRNIPFQANQREIRELFSTFGELKTVRLPKKMTG-TGAHRGFGFVDFITKQDA 64

Query: 131 MQAMSK--DRTNMQHRYIEL 148
            +A +     T++  R + L
Sbjct: 65  KKAFNALCHSTHLYGRRLVL 84

>d1fjca_ d.58.7.1 (A:) Nucleolin {Golden hamster (Mesocricetus auratus) [TaxId: 10036]} Length = 96

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Nucleolin
species: Golden hamster (Mesocricetus auratus) [TaxId: 10036]

 Score = 43.1 bits (101), Expect = 1e-06
 Identities = 16/83 (19%), Positives = 37/83 (44%), Gaps = 5/83 (6%)

Query: 80  TVHMRGLPFRANERDVADFFRPVVPVHVDIHYENGRPSGEADVDFATHEDAMQAMSK-DR 138
           T+  + L F   E ++ + F   + + +    ++G+  G A ++F +  DA + + +   
Sbjct: 18  TLLAKNLSFNITEDELKEVFEDALEIRLV--SQDGKSKGIAYIEFKSEADAEKNLEEKQG 75

Query: 139 TNMQHRYIELFLNSSSPRGGVGG 161
             +  R +   L  +  +GG  G
Sbjct: 76  AEIDGRSVS--LYYTGEKGGTRG 96

>d1l3ka1 d.58.7.1 (A:8-91) Nuclear ribonucleoprotein A1 (RNP A1, UP1) {Human (Homo sapiens) [TaxId: 9606]} Length = 84

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Nuclear ribonucleoprotein A1 (RNP A1, UP1)
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 41.6 bits (97), Expect = 4e-06
 Identities = 15/71 (21%), Positives = 24/71 (33%), Gaps = 3/71 (4%)

Query: 80  TVHMRGLPFRANERDVADFFRPV---VPVHVDIHYENGRPSGEADVDFATHEDAMQAMSK 136
            + + GL F   +  +   F          V       R  G   V +AT E+   AM+ 
Sbjct: 8   KLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMNA 67

Query: 137 DRTNMQHRYIE 147
               +  R +E
Sbjct: 68  RPHKVDGRVVE 78

>d1cvja1 d.58.7.1 (A:11-90) Poly(A)-binding protein {Human (Homo sapiens) [TaxId: 9606]} Length = 80

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Poly(A)-binding protein
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 41.1 bits (96), Expect = 5e-06
 Identities = 13/73 (17%), Positives = 31/73 (42%), Gaps = 4/73 (5%)

Query: 80  TVHMRGLPFRANERDVADFFR---PVVPVHVDIHYENGRPSGEADVDFATHEDAMQAMSK 136
           ++++  L     E  + + F    P++ + V       R  G A V+F    DA +A+  
Sbjct: 2   SLYVGDLHPDVTEAMLYEKFSPAGPILSIRVCRDMITRRSLGYAYVNFQQPADAERALDT 61

Query: 137 -DRTNMQHRYIEL 148
            +   ++ + + +
Sbjct: 62  MNFDVIKGKPVRI 74

>d1b7fa2 d.58.7.1 (A:205-289) Sex-lethal protein {Drosophila melanogaster [TaxId: 7227]} Length = 85

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Sex-lethal protein
species: Drosophila melanogaster [TaxId: 7227]

 Score = 41.1 bits (96), Expect = 6e-06
 Identities = 14/60 (23%), Positives = 26/60 (43%), Gaps = 3/60 (5%)

Query: 80  TVHMRGLPFRANERDVADFFR---PVVPVHVDIHYENGRPSGEADVDFATHEDAMQAMSK 136
            +++  LP    +  +   F     +V  ++      GRP G A V +   E+A +A+S 
Sbjct: 8   NLYVTNLPRTITDDQLDTIFGKYGSIVQKNILRDKLTGRPRGVAFVRYNKREEAQEAISA 67

>d1fxla1 d.58.7.1 (A:37-118) Hu antigen D (Hud) {Human (Homo sapiens) [TaxId: 9606]} Length = 82

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Hu antigen D (Hud)
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 40.9 bits (95), Expect = 7e-06
 Identities = 12/76 (15%), Positives = 31/76 (40%), Gaps = 4/76 (5%)

Query: 77  SRHTVHMRGLPFRANERDVADFFR---PVVPVHVDIHYENGRPSGEADVDFATHEDAMQA 133
           S+  + +  LP    + +    F     +    +      G+  G   V++   +DA +A
Sbjct: 1   SKTNLIVNYLPQNMTQEEFRSLFGSIGEIESCKLVRDKITGQSLGYGFVNYIDPKDAEKA 60

Query: 134 MSK-DRTNMQHRYIEL 148
           ++  +   +Q + I++
Sbjct: 61  INTLNGLRLQTKTIKV 76

>d2msta_ d.58.7.1 (A:) Neural RNA-binding protein Musashi-1 {Mouse (Mus musculus) [TaxId: 10090]} Length = 75

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Neural RNA-binding protein Musashi-1
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 40.9 bits (95), Expect = 7e-06
 Identities = 10/70 (14%), Positives = 21/70 (30%), Gaps = 3/70 (4%)

Query: 81  VHMRGLPFRANERDVADFFRPV---VPVHVDIHYENGRPSGEADVDFATHEDAMQAMSKD 137
           + + GL       DV  +F          +       R  G   V F + +   +     
Sbjct: 2   IFVGGLSVNTTVEDVKHYFEQFGKVDDAMLMFDKTTNRHRGFGFVTFESEDIVEKVCEIH 61

Query: 138 RTNMQHRYIE 147
              + ++ +E
Sbjct: 62  FHEINNKMVE 71

>d2f9da1 d.58.7.1 (A:12-125) Pre-mRNA branch site protein p14 {Human (Homo sapiens) [TaxId: 9606]} Length = 114

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Pre-mRNA branch site protein p14
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 41.5 bits (97), Expect = 7e-06
 Identities = 15/68 (22%), Positives = 27/68 (39%), Gaps = 1/68 (1%)

Query: 80  TVHMRGLPFRANERDVADFFRPVVPVHVDIHYENGRPSGEADVDFATHEDAMQAMSK-DR 138
            +++R LP++    ++ D F    P+            G A V +    DA  A      
Sbjct: 9   ILYIRNLPYKITAEEMYDIFGKYGPIRQIRVGNTPETRGTAYVVYEDIFDAKNACDHLSG 68

Query: 139 TNMQHRYI 146
            N+ +RY+
Sbjct: 69  FNVCNRYL 76

>d1x0fa1 d.58.7.1 (A:183-257) Nuclear ribonucleoprotein D0 (AUF1) {Human (Homo sapiens) [TaxId: 9606]} Length = 75

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Nuclear ribonucleoprotein D0 (AUF1)
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 39.9 bits (93), Expect = 1e-05
 Identities = 12/70 (17%), Positives = 25/70 (35%), Gaps = 3/70 (4%)

Query: 81  VHMRGLPFRANERDVADFFR---PVVPVHVDIHYENGRPSGEADVDFATHEDAMQAMSKD 137
           + + GL     E  + ++F     V  + + +  +  +  G   + F   E   + M K 
Sbjct: 2   IFVGGLSPDTPEEKIREYFGGFGEVESIELPMDNKTNKRRGFCFITFKEEEPVKKIMEKK 61

Query: 138 RTNMQHRYIE 147
             N+     E
Sbjct: 62  YHNVGLSKCE 71

>d2ghpa2 d.58.7.1 (A:41-115) U4/U6 snRNA-associated-splicing factor PRP24 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 75

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: U4/U6 snRNA-associated-splicing factor PRP24
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score = 40.2 bits (93), Expect = 1e-05
 Identities = 18/69 (26%), Positives = 34/69 (49%), Gaps = 1/69 (1%)

Query: 80  TVHMRGLPFRANERDVADFFRPVVPV-HVDIHYENGRPSGEADVDFATHEDAMQAMSKDR 138
           TV ++ LP   N+  V  +F+   P+ HVD+     +    A ++FA ++ A+ A++K  
Sbjct: 2   TVLVKNLPKSYNQNKVYKYFKHCGPIIHVDVADSLKKNFRFARIEFARYDGALAAITKTH 61

Query: 139 TNMQHRYIE 147
             +    I 
Sbjct: 62  KVVGQNEII 70

>d2cqca1 d.58.7.1 (A:109-191) Arginine/serine-rich splicing factor 10 {Human (Homo sapiens) [TaxId: 9606]} Length = 83

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Arginine/serine-rich splicing factor 10
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 39.7 bits (92), Expect = 2e-05
 Identities = 19/81 (23%), Positives = 34/81 (41%), Gaps = 4/81 (4%)

Query: 71  NESSGPSRHTVHMRGLPFRANERDVADFFR---PVVPVHVDIHYENGRPSGEADVDFATH 127
           N ++      + + GL     ERD+ + F    P+  V +    ++ R  G A V F   
Sbjct: 2   NRANPDPNCCLGVFGLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENV 61

Query: 128 EDAMQAMSK-DRTNMQHRYIE 147
           +DA +A  + +   +  R I 
Sbjct: 62  DDAKEAKERANGMELDGRRIR 82

>d2cq3a1 d.58.7.1 (A:110-202) RNA-binding protein 9 {Human (Homo sapiens) [TaxId: 9606]} Length = 93

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding protein 9
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 39.7 bits (92), Expect = 2e-05
 Identities = 22/79 (27%), Positives = 32/79 (40%), Gaps = 2/79 (2%)

Query: 71  NESSGPSRHTVHMRGLPFRANERDVADFFRPVVPVHVDIHYENGRPS-GEADVDFATHED 129
           N  S  +   +H+  +PFR  + D+   F     +       N R S G   V F    D
Sbjct: 4   NSESKSTPKRLHVSNIPFRFRDPDLRQMFGQFGKILDVEIIFNERGSKGFGFVTFENSAD 63

Query: 130 AMQAMSK-DRTNMQHRYIE 147
           A +A  K   T ++ R IE
Sbjct: 64  ADRAREKLHGTVVEGRKIE 82

>d1u1qa_ d.58.7.1 (A:) Nuclear ribonucleoprotein A1 (RNP A1, UP1) {Human (Homo sapiens) [TaxId: 9606]} Length = 183

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Nuclear ribonucleoprotein A1 (RNP A1, UP1)
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 41.5 bits (96), Expect = 2e-05
 Identities = 15/71 (21%), Positives = 25/71 (35%), Gaps = 3/71 (4%)

Query: 80  TVHMRGLPFRANERDVADFFR---PVVPVHVDIHYENGRPSGEADVDFATHEDAMQAMSK 136
            + + GL F   +  +   F     +    V       R  G   V +AT E+   AM+ 
Sbjct: 8   KLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMNA 67

Query: 137 DRTNMQHRYIE 147
               +  R +E
Sbjct: 68  RPHKVDGRVVE 78

>d2cqga1 d.58.7.1 (A:96-185) TAR DNA-binding protein 43, TDP-43 {Human (Homo sapiens) [TaxId: 9606]} Length = 90

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: TAR DNA-binding protein 43, TDP-43
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 39.2 bits (91), Expect = 3e-05
 Identities = 17/71 (23%), Positives = 33/71 (46%), Gaps = 4/71 (5%)

Query: 80  TVHMRGLPFRANERDVADFFR---PVVPVHVDIHYENGRPSGEADVDFATHEDAMQAMSK 136
            + + GLP++  E+D+ ++F     V+ V V    + G   G   V F  +E  ++ M  
Sbjct: 10  DLIVLGLPWKTTEQDLKEYFSTFGEVLMVQVKKDLKTGHSKGFGFVRFTEYETQVKVM-S 68

Query: 137 DRTNMQHRYIE 147
            R  +  R+ +
Sbjct: 69  QRHMIDGRWCD 79

>d2cqba1 d.58.7.1 (A:1-89) Peptidyl-prolyl cis-trans isomerase E, N-terminal domain {Human (Homo sapiens) [TaxId: 9606]} Length = 89

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Peptidyl-prolyl cis-trans isomerase E, N-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 38.9 bits (90), Expect = 5e-05
 Identities = 15/77 (19%), Positives = 35/77 (45%), Gaps = 4/77 (5%)

Query: 76  PSRHTVHMRGLPFRANERDVADF---FRPVVPVHVDIHYENGRPSGEADVDFATHEDAMQ 132
            ++  +++ GL    +++ +      F  +  + + + YE  +  G A V+F   EDA  
Sbjct: 3   TTKRVLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAA 62

Query: 133 AMSK-DRTNMQHRYIEL 148
           A+   + + +  R I +
Sbjct: 63  AIDNMNESELFGRTIRV 79

>d2u2fa_ d.58.7.1 (A:) Splicing factor U2AF 65 KDa subunit {Human (Homo sapiens) [TaxId: 9606]} Length = 85

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Splicing factor U2AF 65 KDa subunit
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 38.1 bits (88), Expect = 7e-05
 Identities = 14/83 (16%), Positives = 31/83 (37%), Gaps = 4/83 (4%)

Query: 79  HTVHMRGLPFRANERDVADF---FRPVVPVHVDIHYENGRPSGEADVDFATHEDAMQAMS 135
           H + + GLP   N+  V +    F P+   ++      G   G A  ++       QA++
Sbjct: 2   HKLFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAIA 61

Query: 136 K-DRTNMQHRYIELFLNSSSPRG 157
             +   +  + + +   S   + 
Sbjct: 62  GLNGMQLGDKKLLVQRASVGAKN 84

>d1b7fa1 d.58.7.1 (A:123-204) Sex-lethal protein {Drosophila melanogaster [TaxId: 7227]} Length = 82

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Sex-lethal protein
species: Drosophila melanogaster [TaxId: 7227]

 Score = 38.1 bits (88), Expect = 8e-05
 Identities = 16/76 (21%), Positives = 36/76 (47%), Gaps = 4/76 (5%)

Query: 77  SRHTVHMRGLPFRANERDVADFFR---PVVPVHVDIHYENGRPSGEADVDFATHEDAMQA 133
           S   + +  LP    +R++   FR   P+    +   Y+ G   G A VDF +  D+ +A
Sbjct: 1   SNTNLIVNYLPQDMTDRELYALFRAIGPINTCRIMRDYKTGYSYGYAFVDFTSEMDSQRA 60

Query: 134 MSK-DRTNMQHRYIEL 148
           +   +   ++++ +++
Sbjct: 61  IKVLNGITVRNKRLKV 76

>d2cpfa1 d.58.7.1 (A:362-446) Probable RNA-binding protein 19, Rbm19 {Mouse (Mus musculus) [TaxId: 10090]} Length = 85

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Probable RNA-binding protein 19, Rbm19
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 38.1 bits (88), Expect = 8e-05
 Identities = 11/80 (13%), Positives = 26/80 (32%), Gaps = 7/80 (8%)

Query: 84  RGLPFRANERDVADFFRPVVPVHVDI------HYENGRPSGEADVDFATHEDAMQAMSK- 136
           + L F   E  +   F  V  +                  G   V++   E A +A+ + 
Sbjct: 4   KNLNFSTTEETLKGVFSKVGAIKSCTISKKKNKAGVLLSMGFGFVEYKKPEQAQKALKQL 63

Query: 137 DRTNMQHRYIELFLNSSSPR 156
               +    +E+ ++  + +
Sbjct: 64  QGHTVDGHKLEVRISERATK 83

>d1x4ba1 d.58.7.1 (A:8-110) Heterogeneous nuclear ribonucleoproteins A2/B1 {Human (Homo sapiens) [TaxId: 9606]} Length = 103

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Heterogeneous nuclear ribonucleoproteins A2/B1
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 38.5 bits (89), Expect = 9e-05
 Identities = 13/73 (17%), Positives = 28/73 (38%), Gaps = 3/73 (4%)

Query: 78  RHTVHMRGLPFRANERDVADFFR---PVVPVHVDIHYENGRPSGEADVDFATHEDAMQAM 134
              + + GL F   E  + +++     +    V     + R  G   V F++  +   AM
Sbjct: 20  FRKLFIGGLSFETTEESLRNYYEQWGKLTDCVVMRDPASKRSRGFGFVTFSSMAEVDAAM 79

Query: 135 SKDRTNMQHRYIE 147
           +    ++  R +E
Sbjct: 80  AARPHSIDGRVVE 92

>d1h2vz_ d.58.7.1 (Z:) CBP20, 20KDa nuclear cap-binding protein {Human (Homo sapiens) [TaxId: 9606]} Length = 93

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: CBP20, 20KDa nuclear cap-binding protein
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 38.0 bits (88), Expect = 9e-05
 Identities = 16/82 (19%), Positives = 30/82 (36%), Gaps = 4/82 (4%)

Query: 80  TVHMRGLPFRANERDVADFFRPVVPVHVDIHYEN---GRPSGEADVDFATHEDAMQAMSK 136
           T+++  L F   E  + + F     +   I   +       G   V++ +  DA  AM  
Sbjct: 9   TLYVGNLSFYTTEEQIYELFSKSGDIKKIIMGLDKMKKTACGFCFVEYYSRADAENAMRY 68

Query: 137 -DRTNMQHRYIELFLNSSSPRG 157
            + T +  R I    ++    G
Sbjct: 69  INGTRLDDRIIRTDWDAGFKEG 90

>d1x4ga1 d.58.7.1 (A:8-103) Nucleolysin TIAR {Human (Homo sapiens) [TaxId: 9606]} Length = 96

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Nucleolysin TIAR
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 38.0 bits (88), Expect = 1e-04
 Identities = 19/88 (21%), Positives = 36/88 (40%), Gaps = 6/88 (6%)

Query: 70  VNESSGPSRHTVHMRGLPFRANERDVADFFRPVVP-VHVDIHYENGRPSGEADVDFATHE 128
           V   S P   TV+  G+     ++ +   F P    + + +        G + V F+THE
Sbjct: 10  VVNQSSPKNCTVYCGGIASGLTDQLMRQTFSPFGQIMEIRVF----PEKGYSFVRFSTHE 65

Query: 129 DAMQAMSK-DRTNMQHRYIELFLNSSSP 155
            A  A+   + T ++   ++ +    SP
Sbjct: 66  SAAHAIVSVNGTTIEGHVVKCYWGKESP 93

>d1x5ta1 d.58.7.1 (A:8-90) Splicing factor 3B subunit 4 {Human (Homo sapiens) [TaxId: 9606]} Length = 83

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Splicing factor 3B subunit 4
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 37.4 bits (86), Expect = 1e-04
 Identities = 13/83 (15%), Positives = 33/83 (39%), Gaps = 6/83 (7%)

Query: 81  VHMRGLPFRANERDVADFFRPVVPVH----VDIHYENGRPSGEADVDFATHEDAMQAMSK 136
           + +  L    +E+ + D F     +     +    + G   G A ++FA+ + +  A+  
Sbjct: 1   IFIGNLDPEIDEKLLYDTFSAFGVILQTPKIMRDPDTGNSKGYAFINFASFDASDAAIEA 60

Query: 137 -DRTNMQHRYIEL-FLNSSSPRG 157
            +   + +R I + +      +G
Sbjct: 61  MNGQYLCNRPITVSYAFKKDSKG 83

>d2cq0a1 d.58.7.1 (A:231-320) Eukaryotic translation initiation factor 3 subunit 4 {Human (Homo sapiens) [TaxId: 9606]} Length = 90

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Eukaryotic translation initiation factor 3 subunit 4
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 36.9 bits (85), Expect = 2e-04
 Identities = 16/73 (21%), Positives = 30/73 (41%), Gaps = 4/73 (5%)

Query: 80  TVHMRGLPFRANERDVADFFRPVVPV---HVDIHYENGRPSGEADVDFATHEDAMQAMSK 136
           T+ +  L     E D+ + FRP   +   ++      G+  G A + F   EDA +A++ 
Sbjct: 10  TIRVTNLSEDTRETDLQELFRPFGSISRIYLAKDKTTGQSKGFAFISFHRREDAARAIAG 69

Query: 137 -DRTNMQHRYIEL 148
                  H  + +
Sbjct: 70  VSGFGYDHLILNV 82

>d2cq2a1 d.58.7.1 (A:25-125) Alkylation repair AlkB homolog 8, ALKBH8 {Human (Homo sapiens) [TaxId: 9606]} Length = 101

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Alkylation repair AlkB homolog 8, ALKBH8
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 37.4 bits (86), Expect = 2e-04
 Identities = 9/68 (13%), Positives = 20/68 (29%), Gaps = 4/68 (5%)

Query: 70  VNESSGPSRHT-VHMRGLPFRANERDVADFFRPVVPVHVDIHYENGRPSGEADVDFATHE 128
           +   S  ++   V   GL    +   +         V   +   N      +   + T E
Sbjct: 11  IETVSYATQSLVVANGGLGNGVSRNQLLPVLEKCGLVDALLMPPNKP---YSFARYRTTE 67

Query: 129 DAMQAMSK 136
           ++ +A   
Sbjct: 68  ESKRAYVT 75

>d2cpza1 d.58.7.1 (A:383-484) CUG triplet repeat RNA-binding protein 1 {Human (Homo sapiens) [TaxId: 9606]} Length = 102

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: CUG triplet repeat RNA-binding protein 1
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 37.4 bits (86), Expect = 2e-04
 Identities = 13/80 (16%), Positives = 27/80 (33%), Gaps = 4/80 (5%)

Query: 72  ESSGPSRHTVHMRGLPFRANERDVADFFRPVVPV---HVDIHYENGRPSGEADVDFATHE 128
           +  GP    + +  LP    ++D+   F P   V    V I  +         V +    
Sbjct: 12  QKEGPEGANLFIYHLPQEFGDQDLLQMFMPFGNVVSAKVFIDKQTNLSKCFGFVSYDNPV 71

Query: 129 DAMQAMSK-DRTNMQHRYIE 147
            A  A+   +   +  + ++
Sbjct: 72  SAQAAIQSMNGFQIGMKRLK 91

>d2disa1 d.58.7.1 (A:8-103) Hypothetical protein FLJ20273 {Human (Homo sapiens) [TaxId: 9606]} Length = 96

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Hypothetical protein FLJ20273
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 37.0 bits (85), Expect = 2e-04
 Identities = 13/74 (17%), Positives = 28/74 (37%), Gaps = 9/74 (12%)

Query: 80  TVHMRGLPFRANERDVADFFRPVVPVHVDI-----HYENGRPSGEADVDFATHEDAMQAM 134
            + + G+P      ++ +    V    +D+       +  +  G A V++ +H  A  A 
Sbjct: 3   RLFIGGIPKMKKREEILEEIAKVTEGVLDVIVYASAADKMKNRGFAFVEYESHRAAAMAR 62

Query: 135 SKDRTNMQHRYIEL 148
            K    +    I+L
Sbjct: 63  RK----LMPGRIQL 72

>d1wi8a_ d.58.7.1 (A:) Eukaryotic translation initiation factor 4B {Human (Homo sapiens) [TaxId: 9606]} Length = 104

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Eukaryotic translation initiation factor 4B
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 37.0 bits (85), Expect = 3e-04
 Identities = 15/88 (17%), Positives = 33/88 (37%), Gaps = 3/88 (3%)

Query: 79  HTVHMRGLPFRANERDVADFFRPVVPVH---VDIHYENGRPSGEADVDFATHEDAMQAMS 135
           +T  +  LP+   E  + +FFR +               R  G    +F   +  + A+S
Sbjct: 16  YTAFLGNLPYDVTEESIKEFFRGLNISAVRLPREPSNPERLKGFGYAEFEDLDSLLSALS 75

Query: 136 KDRTNMQHRYIELFLNSSSPRGGVGGSG 163
            +  ++ ++ I + +   +     G S 
Sbjct: 76  LNEESLGNKRIRVDVADQAQDKDSGPSS 103

>d1whwa_ d.58.7.1 (A:) Probable RNA-binding protein 19, Rbm19 {Mouse (Mus musculus) [TaxId: 10090]} Length = 99

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Probable RNA-binding protein 19, Rbm19
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 36.6 bits (84), Expect = 3e-04
 Identities = 24/97 (24%), Positives = 40/97 (41%), Gaps = 5/97 (5%)

Query: 73  SSGPS-RHTVHMRGLPFRANERDVADFFRPV---VPVHVDIHYENGRPSGEADVDFATHE 128
           SSG S    + +R L + ++E D+   F        +H  I     +P G A V F   E
Sbjct: 2   SSGSSGSGRLFVRNLSYTSSEEDLEKLFSAYGPLSELHYPIDSLTKKPKGFAFVTFMFPE 61

Query: 129 DAMQAMSK-DRTNMQHRYIELFLNSSSPRGGVGGSGS 164
            A++A ++ D    Q R + +  ++        G  S
Sbjct: 62  HAVKAYAEVDGQVFQGRMLHVLPSTIKKEASQSGPSS 98

>d1no8a_ d.58.7.1 (A:) Nuclear factor Aly {Mouse (Mus musculus) [TaxId: 10090]} Length = 78

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Nuclear factor Aly
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 35.7 bits (82), Expect = 4e-04
 Identities = 20/76 (26%), Positives = 36/76 (47%), Gaps = 3/76 (3%)

Query: 81  VHMRGLPFRANERDVADFFRPVVP-VHVDIHY-ENGRPSGEADVDFATHEDAMQAMSK-D 137
           + +  L F  ++ D+ + F          +HY  +GR  G ADV F    DA++AM + +
Sbjct: 3   LLVSNLDFGVSDADIQELFAEFGTLKKAAVHYDRSGRSLGTADVHFERKADALKAMKQYN 62

Query: 138 RTNMQHRYIELFLNSS 153
              +  R + + L +S
Sbjct: 63  GVPLDGRPMNIQLVTS 78

>d2adba1 d.58.7.1 (A:177-284) Polypyrimidine tract-binding protein {Human (Homo sapiens) [TaxId: 9606]} Length = 108

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Polypyrimidine tract-binding protein
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 36.5 bits (84), Expect = 5e-04
 Identities = 14/85 (16%), Positives = 27/85 (31%), Gaps = 3/85 (3%)

Query: 74  SGPSR-HTVHMRGLPFRANERDVADFFRPVVPVHVDIHYENGRPSGEADVDFATHEDAMQ 132
           +G S    + +  L +      +   F     V + I         +A + +A    A  
Sbjct: 2   AGQSPVLRIIVENLFYPVTLDVLHQIFSKFGTV-LKIITFTKNNQFQALLQYADPVSAQH 60

Query: 133 AMSK-DRTNMQHRYIELFLNSSSPR 156
           A    D  N+ +    L ++ S   
Sbjct: 61  AKLSLDGQNIYNACCTLRIDFSKLT 85

>d2cqia1 d.58.7.1 (A:1-90) Nucleolysin TIAR {Human (Homo sapiens) [TaxId: 9606]} Length = 90

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Nucleolysin TIAR
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 35.8 bits (82), Expect = 6e-04
 Identities = 15/79 (18%), Positives = 31/79 (39%), Gaps = 3/79 (3%)

Query: 72  ESSGPSRHTVHMRGLPFRANERDVADFFRPVVP-VHVDIHYENGRPSGEADVDFATHEDA 130
           E  G  R T+++  L     E  +   F  + P     +  E+        V+F  H DA
Sbjct: 3   EDDGQPR-TLYVGNLSRDVTEVLILQLFSQIGPCKSCKMITEHTSNDPYCFVEFYEHRDA 61

Query: 131 MQAMSK-DRTNMQHRYIEL 148
             A++  +   +  + +++
Sbjct: 62  AAALAAMNGRKILGKEVKV 80

>d1nu4a_ d.58.7.1 (A:) Splicesomal U1A protein {Human (Homo sapiens) [TaxId: 9606]} Length = 91

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Splicesomal U1A protein
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 35.8 bits (82), Expect = 7e-04
 Identities = 10/78 (12%), Positives = 27/78 (34%), Gaps = 6/78 (7%)

Query: 76  PSRHTVHMRGLPFRANERDV----ADFFRPVVPVHVDIHYENGRPSGEADVDFATHEDAM 131
           P+  T+++  L  +  + ++       F     +   +   + +  G+A V F     A 
Sbjct: 2   PNH-TIYINNLNEKIKKDELKKSLHAIFSRFGQILDILVSRSLKMRGQAFVIFKEVSSAT 60

Query: 132 QAMSK-DRTNMQHRYIEL 148
            A+          + + +
Sbjct: 61  NALRSMQGFPFYDKPMRI 78

>d2ghpa1 d.58.7.1 (A:116-196) U4/U6 snRNA-associated-splicing factor PRP24 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 81

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: U4/U6 snRNA-associated-splicing factor PRP24
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score = 35.5 bits (81), Expect = 7e-04
 Identities = 12/72 (16%), Positives = 24/72 (33%), Gaps = 4/72 (5%)

Query: 80  TVHMRGLPFRANERDVADFFR---PVVPVHVDIHYENGRPSGEADVDFATHEDAMQAMSK 136
           T+ M   P    +R++ D  +    V                 A +D  + EDA   + K
Sbjct: 3   TLWMTNFPPSYTQRNIRDLLQDINVVALSIRLPSLRFNTSRRFAYIDVTSKEDARYCVEK 62

Query: 137 -DRTNMQHRYIE 147
            +   ++   + 
Sbjct: 63  LNGLKIEGYTLV 74

>d2cpja1 d.58.7.1 (A:65-150) Non-POU domain-containing octamer-binding protein, NonO {Mouse (Mus musculus) [TaxId: 10090]} Length = 86

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Non-POU domain-containing octamer-binding protein, NonO
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 35.3 bits (81), Expect = 8e-04
 Identities = 10/78 (12%), Positives = 25/78 (32%), Gaps = 4/78 (5%)

Query: 72  ESSGPSRHTVHMRGLPFRANERDVADFFRPVVPVHVDIHYENGRPSGEADVDFATHEDAM 131
           E +   R  + +  LP    E ++   F           +++        +   T   A 
Sbjct: 2   EKTFTQRSRLFVGNLPPDITEEEMRKLFEKYGKAGEVFIHKDKGF---GFIRLETRTLAE 58

Query: 132 QAMSK-DRTNMQHRYIEL 148
            A  + D   ++ + + +
Sbjct: 59  IAKVELDNMPLRGKQLRV 76

>d1x5ua1 d.58.7.1 (A:7-99) Splicing factor 3B subunit 4 {Human (Homo sapiens) [TaxId: 9606]} Length = 93

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Splicing factor 3B subunit 4
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 35.0 bits (80), Expect = 0.001
 Identities = 19/80 (23%), Positives = 33/80 (41%), Gaps = 4/80 (5%)

Query: 73  SSGPSRHTVHMRGLPFRANERDVADFFRPVVPVH---VDIHYENGRPSGEADVDFATHED 129
           S      TV++ GL  + +E  + + F    PV    +      G+  G   V+F + ED
Sbjct: 4   SERNQDATVYVGGLDEKVSEPLLWELFLQAGPVVNTHMPKDRVTGQHQGYGFVEFLSEED 63

Query: 130 AMQAMSK-DRTNMQHRYIEL 148
           A  A+   D   +  + I +
Sbjct: 64  ADYAIKIMDMIKLYGKPIRV 83

>d1fxla2 d.58.7.1 (A:119-203) Hu antigen D (Hud) {Human (Homo sapiens) [TaxId: 9606]} Length = 85

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Hu antigen D (Hud)
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 34.6 bits (79), Expect = 0.001
 Identities = 9/60 (15%), Positives = 23/60 (38%), Gaps = 3/60 (5%)

Query: 80  TVHMRGLPFRANERDVADFFRPV---VPVHVDIHYENGRPSGEADVDFATHEDAMQAMSK 136
            +++ GLP    ++++   F      +   + +    G   G   + F    +A +A+  
Sbjct: 8   NLYVSGLPKTMTQKELEQLFSQYGRIITSRILVDQVTGVSRGVGFIRFDKRIEAEEAIKG 67

>d1cvja2 d.58.7.1 (A:91-179) Poly(A)-binding protein {Human (Homo sapiens) [TaxId: 9606]} Length = 89

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Poly(A)-binding protein
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 34.6 bits (79), Expect = 0.001
 Identities = 12/70 (17%), Positives = 26/70 (37%), Gaps = 2/70 (2%)

Query: 80  TVHMRGLPFRANERDVADFFRPV-VPVHVDIHYENGRPSGEADVDFATHEDAMQAMSK-D 137
            + ++ L    + + + D F      +   +  +     G   V F T E A +A+ K +
Sbjct: 10  NIFIKNLDKSIDNKALYDTFSAFGNILSCKVVCDENGSKGYGFVHFETQEAAERAIEKMN 69

Query: 138 RTNMQHRYIE 147
              +  R + 
Sbjct: 70  GMLLNDRKVF 79

>d1x4ha1 d.58.7.1 (A:8-105) RNA-binding protein 28 {Mouse (Mus musculus) [TaxId: 10090]} Length = 98

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding protein 28
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 34.4 bits (78), Expect = 0.002
 Identities = 15/60 (25%), Positives = 25/60 (41%), Gaps = 3/60 (5%)

Query: 80  TVHMRGLPFRANERDVADFFRPVVP---VHVDIHYENGRPSGEADVDFATHEDAMQAMSK 136
           TV +R L F + E  + +  +       V V +H +     G A   F T E A + ++ 
Sbjct: 10  TVFIRNLSFDSEEEALGEVLQQFGDLKYVRVVLHPDTEHSKGCAFAQFMTQEAAQKCLAA 69

>d2adca2 d.58.7.1 (A:444-531) Polypyrimidine tract-binding protein {Human (Homo sapiens) [TaxId: 9606]} Length = 88

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Polypyrimidine tract-binding protein
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 33.6 bits (76), Expect = 0.003
 Identities = 15/59 (25%), Positives = 26/59 (44%), Gaps = 2/59 (3%)

Query: 76  PSRHTVHMRGLPFRANERDVADFFRPVVPVHVDIHYENGRPSGEADVDFATHEDAMQAM 134
           PS  T+H+  +P   +E D+   F     V V       +    A +   + E+A+QA+
Sbjct: 9   PSA-TLHLSNIPPSVSEEDLKVLFSSNGGV-VKGFKFFQKDRKMALIQMGSVEEAVQAL 65

>d1x4ea1 d.58.7.1 (A:8-79) RNA-binding motif, single-stranded-interacting protein 2, RBMS2 {Human (Homo sapiens) [TaxId: 9606]} Length = 72

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding motif, single-stranded-interacting protein 2, RBMS2
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 32.8 bits (74), Expect = 0.004
 Identities = 12/70 (17%), Positives = 29/70 (41%), Gaps = 4/70 (5%)

Query: 81  VHMRGLPFRANERDVADFFRPVVPVH---VDIHYENGRPSGEADVDFATHEDAMQAMSK- 136
           +++RGL     ++D+    +P   +      +     +  G   VDF +   A +A++  
Sbjct: 1   LYIRGLQPGTTDQDLVKLCQPYGKIVSTKAILDKTTNKCKGYGFVDFDSPSAAQKAVTAL 60

Query: 137 DRTNMQHRYI 146
             + +Q +  
Sbjct: 61  KASGVQAQMA 70

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	232
d1weza_	102	Heterogeneous nuclear ribonucleoprotein H' {Human	99.87
d1wg5a_	104	Heterogeneous nuclear ribonucleoprotein H' {Human	99.85
d1whwa_	99	Probable RNA-binding protein 19, Rbm19 {Mouse (Mus	99.84
d1wi8a_	104	Eukaryotic translation initiation factor 4B {Human	99.83
d1uawa_	77	Musashi-1 {Mouse (Mus musculus) [TaxId: 10090]}	99.82
d2cqca1	83	Arginine/serine-rich splicing factor 10 {Human (Ho	99.82
d1b7fa1	82	Sex-lethal protein {Drosophila melanogaster [TaxId	99.82
d1x4ba1	103	Heterogeneous nuclear ribonucleoproteins A2/B1 {Hu	99.81
d1x5ua1	93	Splicing factor 3B subunit 4 {Human (Homo sapiens)	99.81
d1fxla1	82	Hu antigen D (Hud) {Human (Homo sapiens) [TaxId: 9	99.81
d1l3ka1	84	Nuclear ribonucleoprotein A1 (RNP A1, UP1) {Human	99.81
d2cqga1	90	TAR DNA-binding protein 43, TDP-43 {Human (Homo sa	99.8
d2cqpa1	86	RNA-binding protein 12 {Mouse (Mus musculus) [TaxI	99.8
d1h2vz_	93	CBP20, 20KDa nuclear cap-binding protein {Human (H	99.8
d1rk8a_	88	RNA-binding protein 8 {Fruit fly (Drosophila melan	99.8
d2cqba1	89	Peptidyl-prolyl cis-trans isomerase E, N-terminal	99.8
d1hd0a_	75	Heterogeneous nuclear ribonucleoprotein d0 {Human	99.8
d1no8a_	78	Nuclear factor Aly {Mouse (Mus musculus) [TaxId: 1	99.8
d2ghpa1	81	U4/U6 snRNA-associated-splicing factor PRP24 {Bake	99.8
d1l3ka2	79	Nuclear ribonucleoprotein A1 (RNP A1, UP1) {Human	99.8
d2u2fa_	85	Splicing factor U2AF 65 KDa subunit {Human (Homo s	99.8
d2cq0a1	90	Eukaryotic translation initiation factor 3 subunit	99.8
d2cq3a1	93	RNA-binding protein 9 {Human (Homo sapiens) [TaxId	99.8
d2cpza1	102	CUG triplet repeat RNA-binding protein 1 {Human (H	99.8
d1cvja1	80	Poly(A)-binding protein {Human (Homo sapiens) [Tax	99.79
d2cqda1	103	RNA-binding region containing protein 1 {Human (Ho	99.79
d2cq4a1	101	RNA binding protein 23 {Human (Homo sapiens) [TaxI	99.79
d1cvja2	89	Poly(A)-binding protein {Human (Homo sapiens) [Tax	99.79
d1x0fa1	75	Nuclear ribonucleoprotein D0 (AUF1) {Human (Homo s	99.79
d1fjeb1	91	Nucleolin {Golden hamster (Mesocricetus auratus) [	99.79
d2ghpa2	75	U4/U6 snRNA-associated-splicing factor PRP24 {Bake	99.78
d2ghpa3	86	U4/U6 snRNA-associated-splicing factor PRP24 {Bake	99.78
d2cpya1	103	RNA-binding protein 12 {Human (Homo sapiens) [TaxI	99.78
d1u6fa1	139	RNA-binding protein UBP1 {Trypanosoma cruzi [TaxId	99.78
d1x5sa1	90	Cold-inducible RNA-binding protein {Human (Homo sa	99.78
d1x5ta1	83	Splicing factor 3B subunit 4 {Human (Homo sapiens)	99.78
d1wela1	112	RNA-binding protein 12 {Human (Homo sapiens) [TaxI	99.78
d1zh5a2	85	Lupus LA protein {Human (Homo sapiens) [TaxId: 960	99.78
d2cpfa1	85	Probable RNA-binding protein 19, Rbm19 {Mouse (Mus	99.77
d2msta_	75	Neural RNA-binding protein Musashi-1 {Mouse (Mus m	99.77
d2cpea1	101	RNA-binding protein EWS {Human (Homo sapiens) [Tax	99.77
d1u1qa_	183	Nuclear ribonucleoprotein A1 (RNP A1, UP1) {Human	99.77
d1p1ta_	104	Cleavage stimulation factor, 64 kda subunit {Human	99.77
d1x4aa1	95	Splicing factor, arginine/serine-rich 1, SFRS1 {Hu	99.76
d1b7fa2	85	Sex-lethal protein {Drosophila melanogaster [TaxId	99.76
d1x4ha1	98	RNA-binding protein 28 {Mouse (Mus musculus) [TaxI	99.76
d2cqia1	90	Nucleolysin TIAR {Human (Homo sapiens) [TaxId: 960	99.76
d2cpha1	94	Probable RNA-binding protein 19, Rbm19 {Mouse (Mus	99.76
d1fxla2	85	Hu antigen D (Hud) {Human (Homo sapiens) [TaxId: 9	99.75
d2f9da1	114	Pre-mRNA branch site protein p14 {Human (Homo sapi	99.75
d1wf0a_	88	TAR DNA-binding protein 43, TDP-43 {Human (Homo sa	99.75
d1wg4a_	98	Splicing factor, arginine/serine-rich 9 (SFRS9) {M	99.74
d1x5oa1	101	RNA-binding motif, single-stranded-interacting pro	99.73
d2cpxa1	102	RNA-binding protein 41, RBM41 {Human (Homo sapiens	99.71
d1wf2a_	98	Heterogeneous nuclear ribonucleoproteins C1/C2 {Hu	99.71
d1wg1a_	88	Probable RNA-binding protein KIAA1579 {Human (Homo	99.71
d1x4ea1	72	RNA-binding motif, single-stranded-interacting pro	99.71
d2adca2	88	Polypyrimidine tract-binding protein {Human (Homo	99.71
d2cpja1	86	Non-POU domain-containing octamer-binding protein,	99.7
d1x4ga1	96	Nucleolysin TIAR {Human (Homo sapiens) [TaxId: 960	99.69
d2cpia1	89	E3 ubiquitin protein ligase CNOT4 {Mouse (Mus musc	99.69
d1wi6a1	75	Ribonucleoprotein PTB-binding 1, Raver-1 {Mouse (M	99.69
d2bz2a1	79	Negative elongation factor E, NELF-E {Human (Homo	99.69
d1fjca_	96	Nucleolin {Golden hamster (Mesocricetus auratus) [	99.68
d3begb1	87	Splicing factor, arginine/serine-rich 1, SFRS1 {Hu	99.68
d2cpda1	86	APOBEC1 stimulating protein {Human (Homo sapiens)	99.68
d1whxa_	111	Probable RNA-binding protein 19, Rbm19 {Mouse (Mus	99.68
d2b0ga1	83	Splicesomal U1A protein {Drosophila melanogaster [	99.67
d1whya_	97	Putative RNA-binding protein 15B, Rbm15b {Mouse (M	99.66
d2disa1	96	Hypothetical protein FLJ20273 {Human (Homo sapiens	99.66
d2cqha1	80	IGF-II mRNA-binding protein 2 isoform A {Human (Ho	99.66
d2cq1a1	88	Polypyrimidine tract-binding protein 2, PTBP2 {Hum	99.66
d2adca1	109	Polypyrimidine tract-binding protein {Human (Homo	99.65
d1nu4a_	91	Splicesomal U1A protein {Human (Homo sapiens) [Tax	99.65
d2adba1	108	Polypyrimidine tract-binding protein {Human (Homo	99.64
d1wexa_	104	Heterogeneous nuclear ribonucleoprotein L-like {Mo	99.61
d1u1qa_	183	Nuclear ribonucleoprotein A1 (RNP A1, UP1) {Human	99.61
d1x4fa1	99	Matrin 3 {Mouse (Mus musculus) [TaxId: 10090]}	99.61
d1u2fa_	90	Splicing factor U2AF 65 KDa subunit {Human (Homo s	99.59
d1x4da1	89	Matrin 3 {Mouse (Mus musculus) [TaxId: 10090]}	99.52
d1weya_	104	Calcipressin-1 {Mouse (Mus musculus) [TaxId: 10090	99.46
U2AF35 (35 KDa subunit) {Human (Homo sapiens) [TaxId: 9606]}" target="_blank" href="http://scop.mrc-lmb.cam.ac.uk/scop/search.cgi?sid=d1jmta_">d1jmta_	104	U2	99.42
d1wwha1	81	Nucleoporin 35 {Mouse (Mus musculus) [TaxId: 10090	99.42
d1owxa_	113	Lupus LA protein {Human (Homo sapiens) [TaxId: 960	99.36
d2dita1	99	HIV Tat-specific factor 1 {Human (Homo sapiens) [T	99.34
d2cq2a1	101	Alkylation repair AlkB homolog 8, ALKBH8 {Human (H	99.32
d1o0pa_	104	Splicing factor U2AF 65 KDa subunit {Human (Homo s	99.21
d1wg5a_	104	Heterogeneous nuclear ribonucleoprotein H' {Human	97.48
d1weza_	102	Heterogeneous nuclear ribonucleoprotein H' {Human	97.47
d1ufwa_	95	Synaptojanin 2 {Human (Homo sapiens) [TaxId: 9606]	97.04
d2cqpa1	86	RNA-binding protein 12 {Mouse (Mus musculus) [TaxI	96.88
d1wela1	112	RNA-binding protein 12 {Human (Homo sapiens) [TaxI	96.73
d2cpya1	103	RNA-binding protein 12 {Human (Homo sapiens) [TaxI	96.72
d1uw4a_	91	RNA processing protein UPF3x, RRM domain {Human (H	96.6
d2dgxa1	73	Limkain-b1, LKAP {Human (Homo sapiens) [TaxId: 960	96.55
d1wi8a_	104	Eukaryotic translation initiation factor 4B {Human	96.33
d1wf0a_	88	TAR DNA-binding protein 43, TDP-43 {Human (Homo sa	96.21
d1l3ka2	79	Nuclear ribonucleoprotein A1 (RNP A1, UP1) {Human	96.21
d1wg4a_	98	Splicing factor, arginine/serine-rich 9 (SFRS9) {M	96.14
d2msta_	75	Neural RNA-binding protein Musashi-1 {Mouse (Mus m	96.09
d1uawa_	77	Musashi-1 {Mouse (Mus musculus) [TaxId: 10090]}	96.02
d2cpza1	102	CUG triplet repeat RNA-binding protein 1 {Human (H	95.99
d1x0fa1	75	Nuclear ribonucleoprotein D0 (AUF1) {Human (Homo s	95.97
d1x4aa1	95	Splicing factor, arginine/serine-rich 1, SFRS1 {Hu	95.95
d2cqga1	90	TAR DNA-binding protein 43, TDP-43 {Human (Homo sa	95.95
d1wg1a_	88	Probable RNA-binding protein KIAA1579 {Human (Homo	95.9
d2ghpa1	81	U4/U6 snRNA-associated-splicing factor PRP24 {Bake	95.9
d2cpea1	101	RNA-binding protein EWS {Human (Homo sapiens) [Tax	95.86
d2cqda1	103	RNA-binding region containing protein 1 {Human (Ho	95.82
d1x4ha1	98	RNA-binding protein 28 {Mouse (Mus musculus) [TaxI	95.8
d2ghpa2	75	U4/U6 snRNA-associated-splicing factor PRP24 {Bake	95.8
d1whwa_	99	Probable RNA-binding protein 19, Rbm19 {Mouse (Mus	95.76
d1b7fa1	82	Sex-lethal protein {Drosophila melanogaster [TaxId	95.76
d1wexa_	104	Heterogeneous nuclear ribonucleoprotein L-like {Mo	95.74
d1hd0a_	75	Heterogeneous nuclear ribonucleoprotein d0 {Human	95.73
d1fxla1	82	Hu antigen D (Hud) {Human (Homo sapiens) [TaxId: 9	95.68
d1rk8a_	88	RNA-binding protein 8 {Fruit fly (Drosophila melan	95.67
d1fjca_	96	Nucleolin {Golden hamster (Mesocricetus auratus) [	95.63
d1x4ba1	103	Heterogeneous nuclear ribonucleoproteins A2/B1 {Hu	95.62
d2cq3a1	93	RNA-binding protein 9 {Human (Homo sapiens) [TaxId	95.6
d1x5sa1	90	Cold-inducible RNA-binding protein {Human (Homo sa	95.57
d1u2fa_	90	Splicing factor U2AF 65 KDa subunit {Human (Homo s	95.57
d2cqca1	83	Arginine/serine-rich splicing factor 10 {Human (Ho	95.54
d1x4ea1	72	RNA-binding motif, single-stranded-interacting pro	95.51
d1l3ka1	84	Nuclear ribonucleoprotein A1 (RNP A1, UP1) {Human	95.46
d2cpfa1	85	Probable RNA-binding protein 19, Rbm19 {Mouse (Mus	95.45
d2b0ga1	83	Splicesomal U1A protein {Drosophila melanogaster [	95.43
d2cqba1	89	Peptidyl-prolyl cis-trans isomerase E, N-terminal	95.41
d3begb1	87	Splicing factor, arginine/serine-rich 1, SFRS1 {Hu	95.37
d1whxa_	111	Probable RNA-binding protein 19, Rbm19 {Mouse (Mus	95.35
d1wi6a1	75	Ribonucleoprotein PTB-binding 1, Raver-1 {Mouse (M	95.29
d1x5ua1	93	Splicing factor 3B subunit 4 {Human (Homo sapiens)	95.28
d1fjeb1	91	Nucleolin {Golden hamster (Mesocricetus auratus) [	95.27
d1no8a_	78	Nuclear factor Aly {Mouse (Mus musculus) [TaxId: 1	95.21
d1zh5a2	85	Lupus LA protein {Human (Homo sapiens) [TaxId: 960	95.19
d1x5ta1	83	Splicing factor 3B subunit 4 {Human (Homo sapiens)	95.18
d1x5oa1	101	RNA-binding motif, single-stranded-interacting pro	95.17
d2cq0a1	90	Eukaryotic translation initiation factor 3 subunit	95.13
d1h2vz_	93	CBP20, 20KDa nuclear cap-binding protein {Human (H	95.11
d2cq1a1	88	Polypyrimidine tract-binding protein 2, PTBP2 {Hum	95.06
d2cpja1	86	Non-POU domain-containing octamer-binding protein,	95.05
d1fxla2	85	Hu antigen D (Hud) {Human (Homo sapiens) [TaxId: 9	95.04
d2cqha1	80	IGF-II mRNA-binding protein 2 isoform A {Human (Ho	95.0
d2adca2	88	Polypyrimidine tract-binding protein {Human (Homo	95.0
d1cvja1	80	Poly(A)-binding protein {Human (Homo sapiens) [Tax	94.95
d2cpda1	86	APOBEC1 stimulating protein {Human (Homo sapiens)	94.9
d2u2fa_	85	Splicing factor U2AF 65 KDa subunit {Human (Homo s	94.87
d1b7fa2	85	Sex-lethal protein {Drosophila melanogaster [TaxId	94.85
d2disa1	96	Hypothetical protein FLJ20273 {Human (Homo sapiens	94.76
d2cq4a1	101	RNA binding protein 23 {Human (Homo sapiens) [TaxI	94.65
d1cvja2	89	Poly(A)-binding protein {Human (Homo sapiens) [Tax	94.62
d2adba1	108	Polypyrimidine tract-binding protein {Human (Homo	94.6
d2cqia1	90	Nucleolysin TIAR {Human (Homo sapiens) [TaxId: 960	94.58
d1whya_	97	Putative RNA-binding protein 15B, Rbm15b {Mouse (M	94.56
d1whva_	100	Poly(A)-specific ribonuclease PARN {Mouse (Mus mus	94.43
d2cpha1	94	Probable RNA-binding protein 19, Rbm19 {Mouse (Mus	94.34
d2f9da1	114	Pre-mRNA branch site protein p14 {Human (Homo sapi	94.28
d1u6fa1	139	RNA-binding protein UBP1 {Trypanosoma cruzi [TaxId	94.26
d1p1ta_	104	Cleavage stimulation factor, 64 kda subunit {Human	94.02
d2cpxa1	102	RNA-binding protein 41, RBM41 {Human (Homo sapiens	93.75
d1x4ga1	96	Nucleolysin TIAR {Human (Homo sapiens) [TaxId: 960	93.16
d2ghpa3	86	U4/U6 snRNA-associated-splicing factor PRP24 {Bake	92.89
d1x4fa1	99	Matrin 3 {Mouse (Mus musculus) [TaxId: 10090]}	92.68
d1owxa_	113	Lupus LA protein {Human (Homo sapiens) [TaxId: 960	92.61
d1wf2a_	98	Heterogeneous nuclear ribonucleoproteins C1/C2 {Hu	92.12
d2adca1	109	Polypyrimidine tract-binding protein {Human (Homo	91.87
d1nu4a_	91	Splicesomal U1A protein {Human (Homo sapiens) [Tax	91.84
d2cpia1	89	E3 ubiquitin protein ligase CNOT4 {Mouse (Mus musc	89.62
d1x4da1	89	Matrin 3 {Mouse (Mus musculus) [TaxId: 10090]}	88.38
d2cq2a1	101	Alkylation repair AlkB homolog 8, ALKBH8 {Human (H	87.84
d1wwha1	81	Nucleoporin 35 {Mouse (Mus musculus) [TaxId: 10090	84.23
d2bz2a1	79	Negative elongation factor E, NELF-E {Human (Homo	83.21

>d1weza_ d.58.7.1 (A:) Heterogeneous nuclear ribonucleoprotein H' {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Heterogeneous nuclear ribonucleoprotein H'
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.87  E-value=1.1e-22  Score=150.71  Aligned_cols=79  Identities=61%  Similarity=1.026  Sum_probs=75.0

Q ss_pred             CcEEEEcCCCCCCCHHHHHhccCCCCceEEEEeecC-CCCccEEEEEeCCHHHHHHHHHhCCceeeeeEEEEEecCCCCC
Q psy3727          78 RHTVHMRGLPFRANERDVADFFRPVVPVHVDIHYEN-GRPSGEADVDFATHEDAMQAMSKDRTNMQHRYIELFLNSSSPR  156 (232)
Q Consensus        78 ~~~vfV~nLp~~~te~dl~~~F~~~~i~~v~i~~d~-g~~kG~afVeF~s~eda~~Al~~~g~~i~gR~I~V~~~~~~~~  156 (232)
                      .++|||+||||++|++||++||++|.++.|.++++. ++++|||||+|.++++|++||++|++.|++|.|+|.+++.++.
T Consensus        15 ~~~v~v~nLp~~~te~dl~~~F~~~~~~~v~~~~~~~g~~~G~afVeF~~~~~a~~Al~~~~~~i~gR~I~V~~s~~~~~   94 (102)
T d1weza_          15 GHCVHMRGLPYRATENDIYNFFSPLNPMRVHIEIGPDGRVTGEADVEFATHEDAVAAMAKDKANMQHRYVELFLNSTAGT   94 (102)
T ss_dssp             SCEEEEESCCTTCCHHHHHHSSCSCCCSEEEEEESSSSCEEEEEEEECSSSHHHHHHHTTSSCCSSSSCCEEEEECCCCC
T ss_pred             CCEEEEeCCCCcCCHHHHHHHHhccCcceeeeEEecCCcceEEEEEEECCHHHHHHHHHcCCCEECCEEEEEEEcCCCCC
Confidence            489999999999999999999999988899999998 9999999999999999999998899999999999999988753

>d1wg5a_ d.58.7.1 (A:) Heterogeneous nuclear ribonucleoprotein H' {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Heterogeneous nuclear ribonucleoprotein H'
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.85  E-value=3e-21  Score=143.20  Aligned_cols=81  Identities=33%  Similarity=0.593  Sum_probs=70.8

Q ss_pred             CcEEEEcCCCCCCCHHHHHhccCCC-CceE-EEEeecC-CCCccEEEEEeCCHHHHHHHHHhCCceeeeeEEEEEecCCC
Q psy3727          78 RHTVHMRGLPFRANERDVADFFRPV-VPVH-VDIHYEN-GRPSGEADVDFATHEDAMQAMSKDRTNMQHRYIELFLNSSS  154 (232)
Q Consensus        78 ~~~vfV~nLp~~~te~dl~~~F~~~-~i~~-v~i~~d~-g~~kG~afVeF~s~eda~~Al~~~g~~i~gR~I~V~~~~~~  154 (232)
                      ..+|||+||||++||+||++||+++ .++. |.++.+. ++++|||||+|+++++|++||++|++.|++|.|+|.+++++
T Consensus        15 ~~~v~v~nLP~~~te~dI~~~F~~~g~v~~~v~~~~~~~~~~kG~afV~F~~~e~a~~a~~~~~~~i~gR~i~V~~~~~~   94 (104)
T d1wg5a_          15 DGFVRLRGLPFGCSKEEIVQFFSGLEIVPNGMTLPVDFQGRSTGEAFVQFASQEIAEKALKKHKERIGHRYIEIFKSSRA   94 (104)
T ss_dssp             CCEEEEESCCTTCCHHHHHHHTTTCCEEEEEEECCBCSSSCBCSEEEEEESSHHHHHHHHTTTTCCSSSSCCEEEEECTT
T ss_pred             CcEEEEeCCCCCCCHHHHHHHHHhcCCceEEEEEEeCCCCCcceEEEEEeCCHHHHHHHHhhCCCEEcceEEEEEECCHH
Confidence            4789999999999999999999999 4444 4444445 99999999999999999999988999999999999999888


Q ss_pred             CCCC
Q psy3727         155 PRGG  158 (232)
Q Consensus       155 ~~~~  158 (232)
                      +...
T Consensus        95 ~~~~   98 (104)
T d1wg5a_          95 EVRT   98 (104)
T ss_dssp             TSCC
T ss_pred             Hhcc
Confidence            6443

>d1whwa_ d.58.7.1 (A:) Probable RNA-binding protein 19, Rbm19 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Probable RNA-binding protein 19, Rbm19
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.84  E-value=5.6e-21  Score=140.46  Aligned_cols=77  Identities=21%  Similarity=0.346  Sum_probs=73.4

Q ss_pred             cEEEEcCCCCCCCHHHHHhccCCC-CceEEEEeecC--CCCccEEEEEeCCHHHHHHHHHh-CCceeeeeEEEEEecCCC
Q psy3727          79 HTVHMRGLPFRANERDVADFFRPV-VPVHVDIHYEN--GRPSGEADVDFATHEDAMQAMSK-DRTNMQHRYIELFLNSSS  154 (232)
Q Consensus        79 ~~vfV~nLp~~~te~dl~~~F~~~-~i~~v~i~~d~--g~~kG~afVeF~s~eda~~Al~~-~g~~i~gR~I~V~~~~~~  154 (232)
                      .+|||+|||+++|++||+++|++| .|++|.|++++  ++++|||||+|++.++|++||+. |+..|++|.|+|.++..+
T Consensus         9 ~~lfV~nL~~~~t~~~l~~~F~~~g~v~~v~i~~d~~tg~~~g~afV~f~~~~~a~~A~~~l~g~~~~gr~i~V~~a~~~   88 (99)
T d1whwa_           9 GRLFVRNLSYTSSEEDLEKLFSAYGPLSELHYPIDSLTKKPKGFAFVTFMFPEHAVKAYAEVDGQVFQGRMLHVLPSTIK   88 (99)
T ss_dssp             EEEEEECCCTTCCHHHHHHHHHTTSCEEEEECCCCTTTCCCCSEEEEEESSHHHHHHHHHHTTTEESSSCEEEEEECCCC
T ss_pred             CEEEEECCCCcCCHHHHHHHHHhcCCceeeeecccccccccCcceEEEECCHHHHHHHHHHcCCCEECCEEEEEEECCCC
Confidence            789999999999999999999999 88999999987  89999999999999999999987 999999999999999887


Q ss_pred             C
Q psy3727         155 P  155 (232)
Q Consensus       155 ~  155 (232)
                      +
T Consensus        89 ~   89 (99)
T d1whwa_          89 K   89 (99)
T ss_dssp             S
T ss_pred             C
Confidence            4

>d1wi8a_ d.58.7.1 (A:) Eukaryotic translation initiation factor 4B {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Eukaryotic translation initiation factor 4B
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.83  E-value=2.1e-20  Score=138.34  Aligned_cols=77  Identities=19%  Similarity=0.347  Sum_probs=71.6

Q ss_pred             cEEEEcCCCCCCCHHHHHhccCCCCceEEEEeecC---CCCccEEEEEeCCHHHHHHHHHhCCceeeeeEEEEEecCCCC
Q psy3727          79 HTVHMRGLPFRANERDVADFFRPVVPVHVDIHYEN---GRPSGEADVDFATHEDAMQAMSKDRTNMQHRYIELFLNSSSP  155 (232)
Q Consensus        79 ~~vfV~nLp~~~te~dl~~~F~~~~i~~v~i~~d~---g~~kG~afVeF~s~eda~~Al~~~g~~i~gR~I~V~~~~~~~  155 (232)
                      ++|||+|||+++|+++|++||++|.++.+.++.+.   ++++|||||+|+++++|++|+++|++.|++|.|+|.++.++.
T Consensus        16 ~~v~V~nLp~~~te~~l~~~f~~~g~~~~~~~~~~~~~g~~~g~afV~f~~~e~a~~~~~~~~~~~~gr~l~V~~a~~~~   95 (104)
T d1wi8a_          16 YTAFLGNLPYDVTEESIKEFFRGLNISAVRLPREPSNPERLKGFGYAEFEDLDSLLSALSLNEESLGNKRIRVDVADQAQ   95 (104)
T ss_dssp             EEEEEESCCSSCCHHHHHHHTTTSCEEEEECCBCSSCTTSBCSCEEEEESSHHHHHHHHGGGTCEETTEECEEEECCCCC
T ss_pred             CEEEEeCCCCcCCHHHHHHHHHHhccccceeeeeeccCCCcceeeeEEECCHHHHHHHHHcCCCEECCEEEEEEECCCCC
Confidence            89999999999999999999999998888887764   789999999999999999998889999999999999988764

>d1uawa_ d.58.7.1 (A:) Musashi-1 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Musashi-1
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.82  E-value=2.5e-21  Score=136.49  Aligned_cols=73  Identities=12%  Similarity=0.272  Sum_probs=69.8

Q ss_pred             cEEEEcCCCCCCCHHHHHhccCCC-CceEEEEeecC--CCCccEEEEEeCCHHHHHHHHHhCCceeeeeEEEEEec
Q psy3727          79 HTVHMRGLPFRANERDVADFFRPV-VPVHVDIHYEN--GRPSGEADVDFATHEDAMQAMSKDRTNMQHRYIELFLN  151 (232)
Q Consensus        79 ~~vfV~nLp~~~te~dl~~~F~~~-~i~~v~i~~d~--g~~kG~afVeF~s~eda~~Al~~~g~~i~gR~I~V~~~  151 (232)
                      +.|||+|||+++|+++|+++|++| .|++|.|++|+  ++++|||||+|+++++|++||++|++.|+||.|+|..|
T Consensus         1 cklfV~nLp~~~te~~l~~~F~~~G~i~~v~i~~d~~tg~~kG~aFV~f~~~~~a~~al~~~~~~i~Gr~i~V~~A   76 (77)
T d1uawa_           1 CKMFIGGLSWQTTQEGLREYFGQFGEVKECLVMRDPLTKRSRGFGFVTFMDQAGVDKVLAQSRHELDSKTIDPKVA   76 (77)
T ss_dssp             CCEEEESCCSSCCSHHHHHHHTTTSCCCCEEEECCCCSSSCSSEEEECCCCTTHHHHHHHTTTCCCSSCCCEEEEC
T ss_pred             CEEEEeCCCCcCCHHHHHHHHHHhCCcceeeeecccCCCCccceEEEEECCHHHHHHHHHcCCCEECCeEEEEEEC
Confidence            579999999999999999999999 89999999988  99999999999999999999999999999999999876

>d2cqca1 d.58.7.1 (A:109-191) Arginine/serine-rich splicing factor 10 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Arginine/serine-rich splicing factor 10
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.82  E-value=1.6e-20  Score=133.58  Aligned_cols=71  Identities=27%  Similarity=0.388  Sum_probs=67.7

Q ss_pred             CcEEEEcCCCCCCCHHHHHhccCCC-CceEEEEeecC--CCCccEEEEEeCCHHHHHHHHHh-CCceeeeeEEEE
Q psy3727          78 RHTVHMRGLPFRANERDVADFFRPV-VPVHVDIHYEN--GRPSGEADVDFATHEDAMQAMSK-DRTNMQHRYIEL  148 (232)
Q Consensus        78 ~~~vfV~nLp~~~te~dl~~~F~~~-~i~~v~i~~d~--g~~kG~afVeF~s~eda~~Al~~-~g~~i~gR~I~V  148 (232)
                      ..+|||+|||+++|+++|+++|++| .|++|.|++++  ++++|||||+|.++++|++||+. |+..|+||.|+|
T Consensus         9 ~~~l~V~nL~~~~te~~l~~~F~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~A~~Ai~~l~g~~~~gr~i~V   83 (83)
T d2cqca1           9 NCCLGVFGLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEAKERANGMELDGRRIRV   83 (83)
T ss_dssp             GGCEEEESCCSSCCHHHHHHHHHTTSCEEEEEEEECSSSSSEEEEEEEEESSHHHHHHHHHHHTTEEETTEEEEE
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHHhCCCccccccccccccccccceEEEECCHHHHHHHHHHcCCCEECCEEeEC
Confidence            4899999999999999999999999 88999999887  89999999999999999999986 999999999987

>d1b7fa1 d.58.7.1 (A:123-204) Sex-lethal protein {Drosophila melanogaster [TaxId: 7227]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Sex-lethal protein
species: Drosophila melanogaster [TaxId: 7227]

Probab=99.82  E-value=1.4e-20  Score=133.40  Aligned_cols=76  Identities=18%  Similarity=0.298  Sum_probs=71.8

Q ss_pred             CcEEEEcCCCCCCCHHHHHhccCCC-CceEEEEeecC--CCCccEEEEEeCCHHHHHHHHHh-CCceeeeeEEEEEecCC
Q psy3727          78 RHTVHMRGLPFRANERDVADFFRPV-VPVHVDIHYEN--GRPSGEADVDFATHEDAMQAMSK-DRTNMQHRYIELFLNSS  153 (232)
Q Consensus        78 ~~~vfV~nLp~~~te~dl~~~F~~~-~i~~v~i~~d~--g~~kG~afVeF~s~eda~~Al~~-~g~~i~gR~I~V~~~~~  153 (232)
                      +.+|||+|||+++|+++|+++|++| .|++|.|++++  ++++|||||+|+++++|++||+. |+..|.++.|.|.++++
T Consensus         2 ~t~l~V~nLp~~~t~~~l~~~F~~~G~v~~~~i~~~~~~g~~~g~afV~f~~~~~A~~ai~~lng~~~~g~~l~v~~a~p   81 (82)
T d1b7fa1           2 NTNLIVNYLPQDMTDRELYALFRAIGPINTCRIMRDYKTGYSYGYAFVDFTSEMDSQRAIKVLNGITVRNKRLKVSYARP   81 (82)
T ss_dssp             CSEEEEECCCTTCCHHHHHHHHHTTSCEEEEECCEETTTTEECSEEEEEESSHHHHHHHHHHHTTCEETTEECEEEECCC
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHHhCCcceeeeeeecccCCccccceEEECCHHHHHHHHHHhCCCEECCEEEEEEEcCC
Confidence            4789999999999999999999999 88999999886  89999999999999999999986 99999999999999865

>d1x4ba1 d.58.7.1 (A:8-110) Heterogeneous nuclear ribonucleoproteins A2/B1 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Heterogeneous nuclear ribonucleoproteins A2/B1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.81  E-value=2.6e-20  Score=138.29  Aligned_cols=78  Identities=15%  Similarity=0.238  Sum_probs=73.7

Q ss_pred             CcEEEEcCCCCCCCHHHHHhccCCC-CceEEEEeecC--CCCccEEEEEeCCHHHHHHHHHhCCceeeeeEEEEEecCCC
Q psy3727          78 RHTVHMRGLPFRANERDVADFFRPV-VPVHVDIHYEN--GRPSGEADVDFATHEDAMQAMSKDRTNMQHRYIELFLNSSS  154 (232)
Q Consensus        78 ~~~vfV~nLp~~~te~dl~~~F~~~-~i~~v~i~~d~--g~~kG~afVeF~s~eda~~Al~~~g~~i~gR~I~V~~~~~~  154 (232)
                      ..+|||+|||+++|+++|+++|++| +|+.|.|++|+  ++++|||||+|.+.++|++||+++++.|+|+.|.|..+.++
T Consensus        20 ~~~lfVgnLp~~~te~~L~~~F~~~G~i~~~~i~~d~~~~~~kg~aFV~f~~~~~a~~al~~~~~~l~G~~i~V~~a~~k   99 (103)
T d1x4ba1          20 FRKLFIGGLSFETTEESLRNYYEQWGKLTDCVVMRDPASKRSRGFGFVTFSSMAEVDAAMAARPHSIDGRVVEPKRAVAR   99 (103)
T ss_dssp             HTEEEEECCTTCCCHHHHHHHHTSSCCCSEEEEECCTTTSSCCSEEEEECSSHHHHHHHHTSCSEEETTEEEEEECCSSC
T ss_pred             CCEEEEeCCCCcCCHHHHHHHHHhhCcccceeecccccCCCccCeEEEEECCHHHHHHHHHhCCCeECCEEEEEEECccc
Confidence            3789999999999999999999999 99999999987  78999999999999999999988999999999999998876


Q ss_pred             C
Q psy3727         155 P  155 (232)
Q Consensus       155 ~  155 (232)
                      +
T Consensus       100 e  100 (103)
T d1x4ba1         100 E  100 (103)
T ss_dssp             C
T ss_pred             C
Confidence            4

>d1x5ua1 d.58.7.1 (A:7-99) Splicing factor 3B subunit 4 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Splicing factor 3B subunit 4
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.81  E-value=3.3e-20  Score=134.97  Aligned_cols=78  Identities=23%  Similarity=0.250  Sum_probs=73.8

Q ss_pred             CcEEEEcCCCCCCCHHHHHhccCCC-CceEEEEeecC--CCCccEEEEEeCCHHHHHHHHHh-CCceeeeeEEEEEecCC
Q psy3727          78 RHTVHMRGLPFRANERDVADFFRPV-VPVHVDIHYEN--GRPSGEADVDFATHEDAMQAMSK-DRTNMQHRYIELFLNSS  153 (232)
Q Consensus        78 ~~~vfV~nLp~~~te~dl~~~F~~~-~i~~v~i~~d~--g~~kG~afVeF~s~eda~~Al~~-~g~~i~gR~I~V~~~~~  153 (232)
                      ..+|||+|||+++|++||+++|++| .|+.|.|++++  ++++|||||+|.+.++|++||+. |+..|+|+.|+|.+|.+
T Consensus         9 ~~tlfV~nLp~~~t~~~l~~~F~~~G~v~~v~~~~d~~tg~~kg~afV~f~~~~~A~~Ai~~l~g~~~~g~~l~V~~A~~   88 (93)
T d1x5ua1           9 DATVYVGGLDEKVSEPLLWELFLQAGPVVNTHMPKDRVTGQHQGYGFVEFLSEEDADYAIKIMDMIKLYGKPIRVNKASA   88 (93)
T ss_dssp             TTEEEEECCCTTCCHHHHHHHHHTTSCEEEEECCBCSSSCSBCSCEEEEESSHHHHHHHHHHSSSCBCSSCBCEEEETTT
T ss_pred             CCEEEEeCCCCcCCHHHHHHHHHHhCCccccceeecccccccccceEEEECCHHHHHHHHHHcCCCEECCEEEEEEEcCC
Confidence            4899999999999999999999999 88999999987  89999999999999999999987 99999999999999987


Q ss_pred             CC
Q psy3727         154 SP  155 (232)
Q Consensus       154 ~~  155 (232)
                      ..
T Consensus        89 ~~   90 (93)
T d1x5ua1          89 HN   90 (93)
T ss_dssp             TS
T ss_pred             CC
Confidence            63

>d1fxla1 d.58.7.1 (A:37-118) Hu antigen D (Hud) {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Hu antigen D (Hud)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.81  E-value=4.2e-20  Score=130.82  Aligned_cols=75  Identities=15%  Similarity=0.262  Sum_probs=71.4

Q ss_pred             cEEEEcCCCCCCCHHHHHhccCCC-CceEEEEeecC--CCCccEEEEEeCCHHHHHHHHHh-CCceeeeeEEEEEecCC
Q psy3727          79 HTVHMRGLPFRANERDVADFFRPV-VPVHVDIHYEN--GRPSGEADVDFATHEDAMQAMSK-DRTNMQHRYIELFLNSS  153 (232)
Q Consensus        79 ~~vfV~nLp~~~te~dl~~~F~~~-~i~~v~i~~d~--g~~kG~afVeF~s~eda~~Al~~-~g~~i~gR~I~V~~~~~  153 (232)
                      .+|||+|||+++|+++|+++|++| .|+.|.|+++.  ++++|||||+|.++++|++|++. |+..|+++.|.|.++.+
T Consensus         3 t~l~V~nLp~~~te~~l~~~f~~~G~v~~v~i~~~~~~~~~~g~afv~f~~~~~a~~a~~~l~g~~~~g~~l~v~~AkP   81 (82)
T d1fxla1           3 TNLIVNYLPQNMTQEEFRSLFGSIGEIESCKLVRDKITGQSLGYGFVNYIDPKDAEKAINTLNGLRLQTKTIKVSYARP   81 (82)
T ss_dssp             SEEEEESCCTTCCHHHHHHHHHTTSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHHTTCEETTEECEEEECCC
T ss_pred             CEEEEECCCCCCCHHHHHHHHHHhCCcccccceeeccCCCceeeEEEEECCHHHHHHHHHHhCCCEECCEEEEEEEeeC
Confidence            679999999999999999999999 89999999886  89999999999999999999987 99999999999999875

>d1l3ka1 d.58.7.1 (A:8-91) Nuclear ribonucleoprotein A1 (RNP A1, UP1) {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Nuclear ribonucleoprotein A1 (RNP A1, UP1)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.81  E-value=2.7e-20  Score=133.06  Aligned_cols=75  Identities=19%  Similarity=0.241  Sum_probs=71.0

Q ss_pred             CcEEEEcCCCCCCCHHHHHhccCCC-CceEEEEeecC--CCCccEEEEEeCCHHHHHHHHHhCCceeeeeEEEEEecC
Q psy3727          78 RHTVHMRGLPFRANERDVADFFRPV-VPVHVDIHYEN--GRPSGEADVDFATHEDAMQAMSKDRTNMQHRYIELFLNS  152 (232)
Q Consensus        78 ~~~vfV~nLp~~~te~dl~~~F~~~-~i~~v~i~~d~--g~~kG~afVeF~s~eda~~Al~~~g~~i~gR~I~V~~~~  152 (232)
                      ..+|||+|||+++|+++|+++|++| .|+.|.|++|+  ++++|||||+|.++++|++||+.+++.|+||.|+|..|.
T Consensus         6 ~~~lfV~nlp~~~te~~l~~~F~~~G~i~~v~i~~d~~tg~~kG~afV~f~~~~~a~~ai~~~~~~i~Gr~i~V~~A~   83 (84)
T d1l3ka1           6 LRKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMNARPHKVDGRVVEPKRAV   83 (84)
T ss_dssp             GGEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHTCSCEETTEECEEEECC
T ss_pred             CcEEEEECCCCCCCHHHHHHHHHhhccccceeecccccCCCcccEEEEEEcCHHHHHHHHHhCCCEECCEEEEEEeee
Confidence            3789999999999999999999999 99999999987  999999999999999999999999999999999998774

>d2cqga1 d.58.7.1 (A:96-185) TAR DNA-binding protein 43, TDP-43 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: TAR DNA-binding protein 43, TDP-43
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.80  E-value=6.2e-20  Score=132.95  Aligned_cols=77  Identities=23%  Similarity=0.425  Sum_probs=71.5

Q ss_pred             CcEEEEcCCCCCCCHHHHHhccCCC-CceEEEEeecC--CCCccEEEEEeCCHHHHHHHHHhCCceeeeeEEEEEecCCC
Q psy3727          78 RHTVHMRGLPFRANERDVADFFRPV-VPVHVDIHYEN--GRPSGEADVDFATHEDAMQAMSKDRTNMQHRYIELFLNSSS  154 (232)
Q Consensus        78 ~~~vfV~nLp~~~te~dl~~~F~~~-~i~~v~i~~d~--g~~kG~afVeF~s~eda~~Al~~~g~~i~gR~I~V~~~~~~  154 (232)
                      ..+|||+|||+++|+++|+++|++| .|+.|.|++|+  ++++|||||+|.++++|++||+. .+.|+||.|.|.++.++
T Consensus         8 ~~~lfV~nLp~~~te~~l~~~F~~~G~i~~v~i~~d~~tg~srG~aFV~f~~~~~a~~al~~-~~~l~Gr~i~v~~a~~k   86 (90)
T d2cqga1           8 TSDLIVLGLPWKTTEQDLKEYFSTFGEVLMVQVKKDLKTGHSKGFGFVRFTEYETQVKVMSQ-RHMIDGRWCDCKLPNSK   86 (90)
T ss_dssp             CCCEEEESCCSSCCHHHHHHHHGGGSCEEEEEEEECSSSCSEEEEEEEEESSHHHHHHHHHS-CEEETTEEEEEECCCTT
T ss_pred             CCeEEEECCCCCCCHHHHHHHHHhhcccceeeeccCCCCcccCCEEEEEECCHHHHHHHHhc-CCccCCEEeEEEeCCCC
Confidence            3789999999999999999999999 89999999987  99999999999999999999985 56899999999998876


Q ss_pred             C
Q psy3727         155 P  155 (232)
Q Consensus       155 ~  155 (232)
                      +
T Consensus        87 ~   87 (90)
T d2cqga1          87 Q   87 (90)
T ss_dssp             C
T ss_pred             C
Confidence            3

>d2cqpa1 d.58.7.1 (A:917-1002) RNA-binding protein 12 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding protein 12
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.80  E-value=3.8e-20  Score=132.36  Aligned_cols=75  Identities=27%  Similarity=0.511  Sum_probs=67.1

Q ss_pred             CCcEEEEcCCCCCCCHHHHHhccCCC-Cce-EEEEeecC-CCCccEEEEEeCCHHHHHHHHHh-CCceeeeeEEEEEec
Q psy3727          77 SRHTVHMRGLPFRANERDVADFFRPV-VPV-HVDIHYEN-GRPSGEADVDFATHEDAMQAMSK-DRTNMQHRYIELFLN  151 (232)
Q Consensus        77 s~~~vfV~nLp~~~te~dl~~~F~~~-~i~-~v~i~~d~-g~~kG~afVeF~s~eda~~Al~~-~g~~i~gR~I~V~~~  151 (232)
                      +.++|||+|||+++|++||++||++| .+. .+.+..+. ++++|+|||+|+++++|++||++ |++.|++|+|+|.++
T Consensus         8 ~~~~l~v~nLp~~~~~~di~~~F~~~~~~~~~~~~~~~~~g~~~G~afV~f~~~e~a~~Ai~~l~~~~l~gr~i~v~l~   86 (86)
T d2cqpa1           8 GPTIIKVQNMPFTVSIDEILDFFYGYQVIPGSVCLKYNEKGMPTGEAMVAFESRDEATAAVIDLNDRPIGSRKVKLVLG   86 (86)
T ss_dssp             SSEEEEEESCCTTCCHHHHHHHTTTSCCCTTTCEEEECSSSCEEEEEEEEESCHHHHHHHHHHTTTCEETTEECEEEES
T ss_pred             CCCEEEEECCCCCCCHHHHHHHHhhcccceeEEEEEeCCCCCcceEEEEEEcCcHHHHHHHHHcCCCEECCEEEEEEEC
Confidence            34789999999999999999999999 444 35666666 99999999999999999999997 999999999999874

>d1h2vz_ d.58.7.1 (Z:) CBP20, 20KDa nuclear cap-binding protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: CBP20, 20KDa nuclear cap-binding protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.80  E-value=9.1e-20  Score=132.60  Aligned_cols=76  Identities=18%  Similarity=0.245  Sum_probs=72.3

Q ss_pred             cEEEEcCCCCCCCHHHHHhccCCC-CceEEEEeecC--CCCccEEEEEeCCHHHHHHHHHh-CCceeeeeEEEEEecCCC
Q psy3727          79 HTVHMRGLPFRANERDVADFFRPV-VPVHVDIHYEN--GRPSGEADVDFATHEDAMQAMSK-DRTNMQHRYIELFLNSSS  154 (232)
Q Consensus        79 ~~vfV~nLp~~~te~dl~~~F~~~-~i~~v~i~~d~--g~~kG~afVeF~s~eda~~Al~~-~g~~i~gR~I~V~~~~~~  154 (232)
                      ++|||+|||+++|+++|+++|++| .|++|.|+.++  ++++|||||+|.+.++|++||+. |+..|+++.|.|.++...
T Consensus         8 ~tlfV~nlp~~~te~~l~~~F~~~G~i~~v~i~~~~~~~~~kg~afV~f~~~~~A~~Ai~~l~g~~~~gr~i~V~~a~~~   87 (93)
T d1h2vz_           8 CTLYVGNLSFYTTEEQIYELFSKSGDIKKIIMGLDKMKKTACGFCFVEYYSRADAENAMRYINGTRLDDRIIRTDWDAGF   87 (93)
T ss_dssp             CEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHTTTSEETTEECEEEEESCC
T ss_pred             CEEEEeCCCCCCCHHHHHHHHHHHCCcceeccccccccccccceEEEEECCHHHHHHHHHHhCCCEECCEEEEEEEcCCC
Confidence            899999999999999999999999 89999999987  88999999999999999999987 999999999999998654

>d1rk8a_ d.58.7.1 (A:) RNA-binding protein 8 {Fruit fly (Drosophila melanogaster) [TaxId: 7227]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding protein 8
species: Fruit fly (Drosophila melanogaster) [TaxId: 7227]

Probab=99.80  E-value=5e-20  Score=132.62  Aligned_cols=77  Identities=16%  Similarity=0.228  Sum_probs=72.9

Q ss_pred             CcEEEEcCCCCCCCHHHHHhccCCC-CceEEEEeecC--CCCccEEEEEeCCHHHHHHHHHh-CCceeeeeEEEEEecCC
Q psy3727          78 RHTVHMRGLPFRANERDVADFFRPV-VPVHVDIHYEN--GRPSGEADVDFATHEDAMQAMSK-DRTNMQHRYIELFLNSS  153 (232)
Q Consensus        78 ~~~vfV~nLp~~~te~dl~~~F~~~-~i~~v~i~~d~--g~~kG~afVeF~s~eda~~Al~~-~g~~i~gR~I~V~~~~~  153 (232)
                      +++|||+|||+++|+++|+++|++| .|++|.|++|+  ++++|||||+|.+.++|++||+. |+..|+||.|.|.++.+
T Consensus         7 ~~~l~V~nL~~~~t~~~l~~~F~~~G~i~~v~i~~d~~tg~~~g~afV~f~~~~~A~~A~~~lng~~l~g~~l~V~~a~~   86 (88)
T d1rk8a_           7 GWILFVTSIHEEAQEDEIQEKFCDYGEIKNIHLNLDRRTGFSKGYALVEYETHKQALAAKEALNGAEIMGQTIQVDWCFV   86 (88)
T ss_dssp             CEEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEECTTTSSEEEEEEEEESSHHHHHHHHHHHTTCEETTEECEEEESEE
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHHcCCcccccccccccccccccceeEEECCHHHHHHHHHHcCCCEECCEEEEEEEecC
Confidence            4899999999999999999999999 89999999986  89999999999999999999987 99999999999999876


Q ss_pred             C
Q psy3727         154 S  154 (232)
Q Consensus       154 ~  154 (232)
                      +
T Consensus        87 k   87 (88)
T d1rk8a_          87 K   87 (88)
T ss_dssp             C
T ss_pred             C
Confidence            5

>d2cqba1 d.58.7.1 (A:1-89) Peptidyl-prolyl cis-trans isomerase E, N-terminal domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Peptidyl-prolyl cis-trans isomerase E, N-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.80  E-value=5e-20  Score=132.81  Aligned_cols=77  Identities=21%  Similarity=0.305  Sum_probs=73.1

Q ss_pred             CcEEEEcCCCCCCCHHHHHhccCCC-CceEEEEeecC--CCCccEEEEEeCCHHHHHHHHHh-CCceeeeeEEEEEecCC
Q psy3727          78 RHTVHMRGLPFRANERDVADFFRPV-VPVHVDIHYEN--GRPSGEADVDFATHEDAMQAMSK-DRTNMQHRYIELFLNSS  153 (232)
Q Consensus        78 ~~~vfV~nLp~~~te~dl~~~F~~~-~i~~v~i~~d~--g~~kG~afVeF~s~eda~~Al~~-~g~~i~gR~I~V~~~~~  153 (232)
                      ..+|||+|||+++|+++|+++|++| .|+.|.|++|+  ++++|||||+|.++++|++||+. |+..|+|+.|.|.++.+
T Consensus         5 ~~tlfV~nLp~~~te~~l~~~F~~~G~i~~v~i~~d~~~~~~kg~afV~f~~~~~A~~ai~~l~~~~i~g~~l~v~~a~p   84 (89)
T d2cqba1           5 KRVLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDNMNESELFGRTIRVNLAKP   84 (89)
T ss_dssp             CSCEEEESCCSSCCHHHHHHHHTTTSCCCCEECCCCSSSCCCSSEEEECCSSHHHHHHHHHHHTTEEETTEEEEEEECCC
T ss_pred             CcEEEEeCCCCcCCHHHHHHHHhhCCeEEecccccccccccccceeEEEECCHHHHHHHHHHcCCCEECCEEEEEEEeCC
Confidence            4799999999999999999999999 89999999987  89999999999999999999987 99999999999999976


Q ss_pred             C
Q psy3727         154 S  154 (232)
Q Consensus       154 ~  154 (232)
                      +
T Consensus        85 ~   85 (89)
T d2cqba1          85 M   85 (89)
T ss_dssp             C
T ss_pred             C
Confidence            5

>d1hd0a_ d.58.7.1 (A:) Heterogeneous nuclear ribonucleoprotein d0 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Heterogeneous nuclear ribonucleoprotein d0
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.80  E-value=2.2e-20  Score=130.69  Aligned_cols=72  Identities=19%  Similarity=0.365  Sum_probs=67.9

Q ss_pred             EEEEcCCCCCCCHHHHHhccCCC-CceEEEEeecC--CCCccEEEEEeCCHHHHHHHHHhCCceeeeeEEEEEec
Q psy3727          80 TVHMRGLPFRANERDVADFFRPV-VPVHVDIHYEN--GRPSGEADVDFATHEDAMQAMSKDRTNMQHRYIELFLN  151 (232)
Q Consensus        80 ~vfV~nLp~~~te~dl~~~F~~~-~i~~v~i~~d~--g~~kG~afVeF~s~eda~~Al~~~g~~i~gR~I~V~~~  151 (232)
                      .|||+|||+++||++|+++|++| .|..|.|+.++  ++++|||||+|+++++|++||+.+++.|+||.|+|..|
T Consensus         1 klfV~nl~~~~te~~l~~~F~~~G~i~~~~i~~d~~t~~~kg~afV~f~~~~~a~~Al~~~~~~l~Gr~i~V~rA   75 (75)
T d1hd0a_           1 KMFIGGLSWDTTKKDLKDYFSKFGEVVDCTLKLDPITGRSRGFGFVLFKESESVDKVMDQKEHKLNGKVIDPKRA   75 (75)
T ss_dssp             CEEEECCCTTCCHHHHHHHHHTTSCEEEEECCCBTTTTBCCSEEEEEESSHHHHHHHHHTCCCCBTTBCCEECCC
T ss_pred             CEEEeCCCCcCCHHHHHHHHHhhccccccccccCCCCCCcCceEEEEECCHHHHHHHHhcCCCEECCCEEEeeEC
Confidence            48999999999999999999999 89999999987  99999999999999999999998999999999999754

>d1no8a_ d.58.7.1 (A:) Nuclear factor Aly {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Nuclear factor Aly
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.80  E-value=3.9e-20  Score=130.31  Aligned_cols=73  Identities=26%  Similarity=0.521  Sum_probs=70.1

Q ss_pred             EEEEcCCCCCCCHHHHHhccCCC-CceEEEEeecC-CCCccEEEEEeCCHHHHHHHHHh-CCceeeeeEEEEEecC
Q psy3727          80 TVHMRGLPFRANERDVADFFRPV-VPVHVDIHYEN-GRPSGEADVDFATHEDAMQAMSK-DRTNMQHRYIELFLNS  152 (232)
Q Consensus        80 ~vfV~nLp~~~te~dl~~~F~~~-~i~~v~i~~d~-g~~kG~afVeF~s~eda~~Al~~-~g~~i~gR~I~V~~~~  152 (232)
                      .|||+|||+++|+++|+++|++| .|+.|.|..++ ++++|||||+|.++++|++||+. |+..|+||+|+|.+++
T Consensus         2 rl~V~nLp~~~~~~~l~~~F~~~G~v~~~~i~~~~~g~~~g~afV~f~~~~~A~~Ai~~l~g~~l~g~~l~V~~a~   77 (78)
T d1no8a_           2 KLLVSNLDFGVSDADIQELFAEFGTLKKAAVHYDRSGRSLGTADVHFERKADALKAMKQYNGVPLDGRPMNIQLVT   77 (78)
T ss_dssp             EEEEESCCTTCCHHHHHHHHHHHSCEEEEEESCSSCCCSCCEEEEEESCHHHHHHHHHHHTTCEETTEECEEEEEC
T ss_pred             EEEEECCCCCCCHHHHHHHHHHhCCCeEEEEEEeeccccceeEEEEECCHHHHHHHHHHhCCCEECCEEEEEEEee
Confidence            59999999999999999999999 89999999998 99999999999999999999997 9999999999999875

>d2ghpa1 d.58.7.1 (A:116-196) U4/U6 snRNA-associated-splicing factor PRP24 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: U4/U6 snRNA-associated-splicing factor PRP24
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.80  E-value=3.2e-20  Score=131.35  Aligned_cols=76  Identities=16%  Similarity=0.169  Sum_probs=65.9

Q ss_pred             CcEEEEcCCCCCCCHHHHHhccCCC-CceEEEEeecC--CCCccEEEEEeCCHHHHHHHHHh-CCceeeeeEEEEEecCC
Q psy3727          78 RHTVHMRGLPFRANERDVADFFRPV-VPVHVDIHYEN--GRPSGEADVDFATHEDAMQAMSK-DRTNMQHRYIELFLNSS  153 (232)
Q Consensus        78 ~~~vfV~nLp~~~te~dl~~~F~~~-~i~~v~i~~d~--g~~kG~afVeF~s~eda~~Al~~-~g~~i~gR~I~V~~~~~  153 (232)
                      +++|||+|||+++|+++|+++|++| .|..+.++.+.  ++++|||||+|.++++|++||+. |++.|+|++|.|.++.+
T Consensus         1 d~tl~v~nLp~~~t~~~l~~~f~~~G~v~~~~~~~~~~~~~~~g~afV~f~~~e~A~~Ai~~l~g~~~~g~~i~V~~a~P   80 (81)
T d2ghpa1           1 ECTLWMTNFPPSYTQRNIRDLLQDINVVALSIRLPSLRFNTSRRFAYIDVTSKEDARYCVEKLNGLKIEGYTLVTKVSNP   80 (81)
T ss_dssp             SCEEEEECCCTTCCHHHHHHHHHHTTCCCCEEECC-------CCEEEEECSSHHHHHHHHHHHTTCEETTEECEEEECCC
T ss_pred             CcEEEEECCCCcCCHHHHHHHHHHhCcEEeeeeecccccccccceeEEEECCHHHHHHHHHHhCCCEECCEEEEEEEccC
Confidence            4799999999999999999999999 77777776665  89999999999999999999997 99999999999999865

>d1l3ka2 d.58.7.1 (A:103-181) Nuclear ribonucleoprotein A1 (RNP A1, UP1) {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Nuclear ribonucleoprotein A1 (RNP A1, UP1)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.80  E-value=8.7e-20  Score=128.37  Aligned_cols=73  Identities=16%  Similarity=0.270  Sum_probs=69.1

Q ss_pred             cEEEEcCCCCCCCHHHHHhccCCC-CceEEEEeecC--CCCccEEEEEeCCHHHHHHHHHhCCceeeeeEEEEEec
Q psy3727          79 HTVHMRGLPFRANERDVADFFRPV-VPVHVDIHYEN--GRPSGEADVDFATHEDAMQAMSKDRTNMQHRYIELFLN  151 (232)
Q Consensus        79 ~~vfV~nLp~~~te~dl~~~F~~~-~i~~v~i~~d~--g~~kG~afVeF~s~eda~~Al~~~g~~i~gR~I~V~~~  151 (232)
                      .+|||+|||+++|+++|+++|++| .+..+.+..++  ++++|||||+|.++++|++|+++|++.|+||.|+|..|
T Consensus         3 r~lfV~nLp~~~te~~l~~~F~~~G~i~~~~~~~~~~~~~~~g~afV~f~~~e~~~~al~~~~~~l~Gr~i~V~~A   78 (79)
T d1l3ka2           3 KKIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKIVIQKYHTVNGHNCEVRKA   78 (79)
T ss_dssp             SEEEEECCTTTCCHHHHHHHHTTTSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHCSCCEETTEECEEEEC
T ss_pred             CEEEECCCCCcCCHHHHHHHHHHhccccccccccCCCCcccccEEEEEEcCHHHHHHHHHhCCCEECCEEEEEEEC
Confidence            689999999999999999999999 88899999887  88999999999999999999988999999999999875

>d2u2fa_ d.58.7.1 (A:) Splicing factor U2AF 65 KDa subunit {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Splicing factor U2AF 65 KDa subunit
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.80  E-value=5.2e-20  Score=131.79  Aligned_cols=77  Identities=16%  Similarity=0.239  Sum_probs=73.1

Q ss_pred             cEEEEcCCCCCCCHHHHHhccCCC-CceEEEEeecC--CCCccEEEEEeCCHHHHHHHHHh-CCceeeeeEEEEEecCCC
Q psy3727          79 HTVHMRGLPFRANERDVADFFRPV-VPVHVDIHYEN--GRPSGEADVDFATHEDAMQAMSK-DRTNMQHRYIELFLNSSS  154 (232)
Q Consensus        79 ~~vfV~nLp~~~te~dl~~~F~~~-~i~~v~i~~d~--g~~kG~afVeF~s~eda~~Al~~-~g~~i~gR~I~V~~~~~~  154 (232)
                      +.|||+|||+++|+++|+++|++| .|++|+|++|+  |+++|||||+|.++++|+.|++. |+..|.++.|.|.++...
T Consensus         2 ~rlfV~nlp~~~te~~l~~~F~~~G~v~~v~i~~d~~tg~~rg~aFV~f~~~~~A~~a~~~l~~~~l~g~~l~V~~A~~~   81 (85)
T d2u2fa_           2 HKLFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAIAGLNGMQLGDKKLLVQRASVG   81 (85)
T ss_dssp             CCEEEETCCSSCCSHHHHHHHTSSSCEEEEEEECCCSSSCCCCEEEEEESSSHHHHHHHHTSSSCCCSSSCCEEEECCCC
T ss_pred             CEEEEECCCCCCCHHHHHHHHHhcCccceEEeeccccccccceeEEEEECCHHHHHHHHHHhCCCEECCEEEEEEECCCC
Confidence            689999999999999999999999 89999999987  89999999999999999999997 999999999999999875


Q ss_pred             C
Q psy3727         155 P  155 (232)
Q Consensus       155 ~  155 (232)
                      .
T Consensus        82 ~   82 (85)
T d2u2fa_          82 A   82 (85)
T ss_dssp             C
T ss_pred             C
Confidence            3

>d2cq0a1 d.58.7.1 (A:231-320) Eukaryotic translation initiation factor 3 subunit 4 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Eukaryotic translation initiation factor 3 subunit 4
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.80  E-value=1.6e-19  Score=130.40  Aligned_cols=77  Identities=22%  Similarity=0.359  Sum_probs=73.3

Q ss_pred             CcEEEEcCCCCCCCHHHHHhccCCC-CceEEEEeecC--CCCccEEEEEeCCHHHHHHHHHh-CCceeeeeEEEEEecCC
Q psy3727          78 RHTVHMRGLPFRANERDVADFFRPV-VPVHVDIHYEN--GRPSGEADVDFATHEDAMQAMSK-DRTNMQHRYIELFLNSS  153 (232)
Q Consensus        78 ~~~vfV~nLp~~~te~dl~~~F~~~-~i~~v~i~~d~--g~~kG~afVeF~s~eda~~Al~~-~g~~i~gR~I~V~~~~~  153 (232)
                      ..+|||+|||+++|+++|+++|++| .|..|.|++++  ++++|||||+|.+.++|++||+. |+..|+++.|.|.++.+
T Consensus         8 ~~~i~V~nLp~~~t~~~l~~~f~~~G~v~~v~i~~d~~t~~~rg~afV~f~~~~~A~~Ai~~l~g~~~~g~~i~v~~akp   87 (90)
T d2cq0a1           8 NATIRVTNLSEDTRETDLQELFRPFGSISRIYLAKDKTTGQSKGFAFISFHRREDAARAIAGVSGFGYDHLILNVEWAKP   87 (90)
T ss_dssp             SEEEEEESCCTTCCHHHHHTTSTTTCCEEEEEEEECSSSCSEEEEEEEEESSHHHHHHHHHHTTTCEETTEECEEEESSC
T ss_pred             CCEEEEECCCCCCCHHHHHHHHHHhcccccccccccccccccccceeEEECCHHHHHHHHHHhCCCEECCEEEEEEeeeC
Confidence            3899999999999999999999999 88999999987  89999999999999999999997 99999999999999987


Q ss_pred             C
Q psy3727         154 S  154 (232)
Q Consensus       154 ~  154 (232)
                      +
T Consensus        88 ~   88 (90)
T d2cq0a1          88 S   88 (90)
T ss_dssp             C
T ss_pred             C
Confidence            6

>d2cq3a1 d.58.7.1 (A:110-202) RNA-binding protein 9 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding protein 9
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.80  E-value=2.3e-19  Score=130.35  Aligned_cols=78  Identities=24%  Similarity=0.358  Sum_probs=73.2

Q ss_pred             CcEEEEcCCCCCCCHHHHHhccCCC-CceEEEEeecCCCCccEEEEEeCCHHHHHHHHHh-CCceeeeeEEEEEecCCCC
Q psy3727          78 RHTVHMRGLPFRANERDVADFFRPV-VPVHVDIHYENGRPSGEADVDFATHEDAMQAMSK-DRTNMQHRYIELFLNSSSP  155 (232)
Q Consensus        78 ~~~vfV~nLp~~~te~dl~~~F~~~-~i~~v~i~~d~g~~kG~afVeF~s~eda~~Al~~-~g~~i~gR~I~V~~~~~~~  155 (232)
                      ..+|||+|||+++|+++|+++|++| .|+.|.|+.+...++|||||+|+++++|++||+. |+..|+|+.|.|.++.+++
T Consensus        11 ~~~l~v~nLp~~~t~~~L~~~F~~~G~v~~v~~~~~~~~~kg~afV~f~~~~~a~~Ai~~l~~~~~~g~~l~V~~A~~r~   90 (93)
T d2cq3a1          11 PKRLHVSNIPFRFRDPDLRQMFGQFGKILDVEIIFNERGSKGFGFVTFENSADADRAREKLHGTVVEGRKIEVNNATARV   90 (93)
T ss_dssp             CCEEEEESCCTTCCHHHHHHHGGGTSCEEEEEEECCTTTTCCEEEEEESCHHHHHHHHHHHTTCEETTEECEEEECCSSC
T ss_pred             CCEEEEECCCCCCCHHHHHHHHhhcceeeeccccccccCCcceeEEEECCHHHHHHHHHHcCCCEECCEEEEEEecCcCC
Confidence            4789999999999999999999999 8899999998866899999999999999999987 9999999999999998763

>d2cpza1 d.58.7.1 (A:383-484) CUG triplet repeat RNA-binding protein 1 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: CUG triplet repeat RNA-binding protein 1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.80  E-value=8.3e-20  Score=135.02  Aligned_cols=78  Identities=14%  Similarity=0.214  Sum_probs=73.3

Q ss_pred             CcEEEEcCCCCCCCHHHHHhccCCC-CceEEEEeecC--CCCccEEEEEeCCHHHHHHHHHh-CCceeeeeEEEEEecCC
Q psy3727          78 RHTVHMRGLPFRANERDVADFFRPV-VPVHVDIHYEN--GRPSGEADVDFATHEDAMQAMSK-DRTNMQHRYIELFLNSS  153 (232)
Q Consensus        78 ~~~vfV~nLp~~~te~dl~~~F~~~-~i~~v~i~~d~--g~~kG~afVeF~s~eda~~Al~~-~g~~i~gR~I~V~~~~~  153 (232)
                      +.+|||+|||+++|++||+++|++| .|+.|.++.+.  ++++|||||+|+++++|+.||+. |+..|.++.|+|.++.+
T Consensus        18 ~~~l~V~nLp~~~te~~l~~~F~~~G~i~~~~~~~~~~~g~~kG~afV~f~~~~~A~~Ai~~lng~~~~g~~i~V~~a~~   97 (102)
T d2cpza1          18 GANLFIYHLPQEFGDQDLLQMFMPFGNVVSAKVFIDKQTNLSKCFGFVSYDNPVSAQAAIQSMNGFQIGMKRLKVQLKRS   97 (102)
T ss_dssp             TCCEEEESCCSSCCHHHHHHHHGGGSCCSEEEEEECSSSCSEEEEEEEECSSHHHHHHHHHHHTTCEETTEECEEECCCC
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHhhccccccceeeecccCCCccceEEEeCCHHHHHHHHHHhCCCEECCEEEEEEEeCC
Confidence            3789999999999999999999999 89999999887  89999999999999999999986 99999999999999987


Q ss_pred             CC
Q psy3727         154 SP  155 (232)
Q Consensus       154 ~~  155 (232)
                      +.
T Consensus        98 k~   99 (102)
T d2cpza1          98 KN   99 (102)
T ss_dssp             SC
T ss_pred             CC
Confidence            73

>d1cvja1 d.58.7.1 (A:11-90) Poly(A)-binding protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Poly(A)-binding protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.79  E-value=6.8e-20  Score=129.57  Aligned_cols=74  Identities=16%  Similarity=0.234  Sum_probs=70.1

Q ss_pred             EEEEcCCCCCCCHHHHHhccCCC-CceEEEEeecC--CCCccEEEEEeCCHHHHHHHHHh-CCceeeeeEEEEEecCC
Q psy3727          80 TVHMRGLPFRANERDVADFFRPV-VPVHVDIHYEN--GRPSGEADVDFATHEDAMQAMSK-DRTNMQHRYIELFLNSS  153 (232)
Q Consensus        80 ~vfV~nLp~~~te~dl~~~F~~~-~i~~v~i~~d~--g~~kG~afVeF~s~eda~~Al~~-~g~~i~gR~I~V~~~~~  153 (232)
                      +|||+|||+++|+++|+++|++| .|..|.|++++  ++++|||||+|.++++|+.||+. |+..|+||.|+|.++..
T Consensus         2 slfV~nL~~~~te~~l~~~F~~~G~i~~v~i~~d~~tg~~~g~aFV~f~~~~~a~~ai~~l~g~~~~gr~i~v~~a~~   79 (80)
T d1cvja1           2 SLYVGDLHPDVTEAMLYEKFSPAGPILSIRVCRDMITRRSLGYAYVNFQQPADAERALDTMNFDVIKGKPVRIMWSQR   79 (80)
T ss_dssp             EEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHTTSTTCEETTEECEEEECCC
T ss_pred             EEEEeCCCCcCCHHHHHHHHHHhCCEeEEEEEecccccCCCCceEEEECCHHHHHHHHHHcCCCEECCEEEEEEEeCC
Confidence            69999999999999999999999 88999999987  89999999999999999999987 99999999999998853

>d2cqda1 d.58.7.1 (A:1-103) RNA-binding region containing protein 1 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding region containing protein 1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.79  E-value=2.5e-19  Score=132.63  Aligned_cols=76  Identities=16%  Similarity=0.253  Sum_probs=70.9

Q ss_pred             cEEEEcCCCCCCCHHHHHhccCCC-CceEEEEeecC--CCCccEEEEEeCCHHHHHHHHHhCCceeeeeEEEEEecCCC
Q psy3727          79 HTVHMRGLPFRANERDVADFFRPV-VPVHVDIHYEN--GRPSGEADVDFATHEDAMQAMSKDRTNMQHRYIELFLNSSS  154 (232)
Q Consensus        79 ~~vfV~nLp~~~te~dl~~~F~~~-~i~~v~i~~d~--g~~kG~afVeF~s~eda~~Al~~~g~~i~gR~I~V~~~~~~  154 (232)
                      .+|||+|||+++|++||+++|++| .|++|.|++++  ++++|||||+|+++++|++||+.....|+||.|.|.++...
T Consensus        11 ~~lfV~nLp~~~te~~l~~~F~~~G~i~~v~i~~d~~tg~~kg~afV~f~~~~~A~~Ai~~~~~~l~Gr~l~V~~a~~~   89 (103)
T d2cqda1          11 TKIFVGGLPYHTTDASLRKYFEGFGDIEEAVVITDRQTGKSRGYGFVTMADRAAAERACKDPNPIIDGRKANVNLAYLG   89 (103)
T ss_dssp             SEEEEECCCSSCCHHHHHHHHHTTSCEEEEEESCCSSSCCCCSEEEEEESSHHHHHHHHTCSSCEETTEECEEEESTTT
T ss_pred             cEEEEeCCCCcCcHHHHHHHHhhcccccceeccccccccccCCeEEEEECCHHHHHHHHHHCCCcCCCEEEEEEEcCCC
Confidence            679999999999999999999999 89999999987  89999999999999999999998445899999999998765

>d2cq4a1 d.58.7.1 (A:132-232) RNA binding protein 23 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA binding protein 23
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.79  E-value=8.7e-20  Score=134.89  Aligned_cols=76  Identities=25%  Similarity=0.257  Sum_probs=71.8

Q ss_pred             CcEEEEcCCCCCCCHHHHHhccCCC-CceEEEEeecC--CCCccEEEEEeCCHHHHHHHHHhCCceeeeeEEEEEecCC
Q psy3727          78 RHTVHMRGLPFRANERDVADFFRPV-VPVHVDIHYEN--GRPSGEADVDFATHEDAMQAMSKDRTNMQHRYIELFLNSS  153 (232)
Q Consensus        78 ~~~vfV~nLp~~~te~dl~~~F~~~-~i~~v~i~~d~--g~~kG~afVeF~s~eda~~Al~~~g~~i~gR~I~V~~~~~  153 (232)
                      ..+|||+|||+++|+++|+++|++| .|.+|.|+++.  ++++|||||+|.++++|++||++|+..|.|+.|.|.++..
T Consensus        18 ~~tifV~nL~~~~te~~l~~~F~~~G~V~~v~i~~d~~tg~~kG~afV~F~~~e~a~~A~~l~g~~~~G~~l~V~~a~~   96 (101)
T d2cq4a1          18 ARTVFCMQLAARIRPRDLEDFFSAVGKVRDVRIISDRNSRRSKGIAYVEFCEIQSVPLAIGLTGQRLLGVPIIVQASQA   96 (101)
T ss_dssp             HTEEEEESCCTTCCHHHHHHHHTTTSCEEEEEECCSCCSSSCCCCEEEEESCGGGHHHHHHHTTEEETTEEEEEEEHHH
T ss_pred             CCEEEEECCCCCCCHHHHHHHHcCCCeEEEEEeeecCCCccccceEEEEECCHHHHHHHHHHCCCEECCEEEEEEECCC
Confidence            3789999999999999999999999 89999999986  8999999999999999999998899999999999998754

>d1cvja2 d.58.7.1 (A:91-179) Poly(A)-binding protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Poly(A)-binding protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.79  E-value=9.9e-20  Score=131.23  Aligned_cols=77  Identities=17%  Similarity=0.205  Sum_probs=72.6

Q ss_pred             cEEEEcCCCCCCCHHHHHhccCCC-CceEEEEeecCCCCccEEEEEeCCHHHHHHHHHh-CCceeeeeEEEEEecCCCC
Q psy3727          79 HTVHMRGLPFRANERDVADFFRPV-VPVHVDIHYENGRPSGEADVDFATHEDAMQAMSK-DRTNMQHRYIELFLNSSSP  155 (232)
Q Consensus        79 ~~vfV~nLp~~~te~dl~~~F~~~-~i~~v~i~~d~g~~kG~afVeF~s~eda~~Al~~-~g~~i~gR~I~V~~~~~~~  155 (232)
                      .+|||+|||+++|+++|+++|++| .|+.|.|+.+.+.++|||||+|+++++|++||+. |+..|+|+.|.|.++.+++
T Consensus         9 ~~l~V~nLp~~~t~~~l~~~F~~~G~v~~~~i~~~~~~~kg~afV~f~~~~~A~~Ai~~l~g~~~~g~~i~V~~a~~~~   87 (89)
T d1cvja2           9 GNIFIKNLDKSIDNKALYDTFSAFGNILSCKVVCDENGSKGYGFVHFETQEAAERAIEKMNGMLLNDRKVFVGRFKSRK   87 (89)
T ss_dssp             TEEEEESCCSSCCHHHHHHHHHTTSCEEEEEECCBTTBCCSCEEEEESCHHHHHHHTTSSSEEEETTEEEEEEECCCTT
T ss_pred             CEEEEeCCCCCCCHHHHHHHHHhcCCceEEEEEeecCCCcceeEEEECCHHHHHHHHHHcCCCEECCEEEEEEECCCCC
Confidence            679999999999999999999999 8899999999877899999999999999999986 9999999999999998764

>d1x0fa1 d.58.7.1 (A:183-257) Nuclear ribonucleoprotein D0 (AUF1) {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Nuclear ribonucleoprotein D0 (AUF1)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.79  E-value=1.5e-20  Score=131.81  Aligned_cols=72  Identities=17%  Similarity=0.281  Sum_probs=68.2

Q ss_pred             EEEEcCCCCCCCHHHHHhccCCC-CceEEEEeecC--CCCccEEEEEeCCHHHHHHHHHhCCceeeeeEEEEEec
Q psy3727          80 TVHMRGLPFRANERDVADFFRPV-VPVHVDIHYEN--GRPSGEADVDFATHEDAMQAMSKDRTNMQHRYIELFLN  151 (232)
Q Consensus        80 ~vfV~nLp~~~te~dl~~~F~~~-~i~~v~i~~d~--g~~kG~afVeF~s~eda~~Al~~~g~~i~gR~I~V~~~  151 (232)
                      .|||+|||+++|+++|+++|++| .|++|.|+.++  ++++|||||+|+++++|++||+.+.+.|+|+.|+|..|
T Consensus         1 klfVgnLp~~~te~~l~~~F~~~G~I~~v~i~~d~~t~~~rG~~FV~f~~~~~a~~al~~~~~~i~g~~i~vk~A   75 (75)
T d1x0fa1           1 KIFVGGLSPDTPEEKIREYFGGFGEVESIELPMDNKTNKRRGFCFITFKEEEPVKKIMEKKYHNVGLSKCEIKVA   75 (75)
T ss_dssp             EEEEESCCSSCCHHHHHHHHHHHSCEEEEECCCCTTTCCTTCCEEEEESSSHHHHHHTTCSSCCBTTBCCEEECC
T ss_pred             CEEEcCCCCCCCHHHHHHHHHHhCCcccccccccccccccccEEEEEECCHHHHHHHHhhCCCEECCEEeEEEEC
Confidence            49999999999999999999999 89999999987  99999999999999999999998888999999999865

>d1fjeb1 d.58.7.1 (B:1-91) Nucleolin {Golden hamster (Mesocricetus auratus) [TaxId: 10036]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Nucleolin
species: Golden hamster (Mesocricetus auratus) [TaxId: 10036]

Probab=99.79  E-value=1.8e-20  Score=135.99  Aligned_cols=77  Identities=13%  Similarity=0.078  Sum_probs=71.0

Q ss_pred             CcEEEEcCCCCCCCHHHHHhccCCC-CceEEEEeecC-CCCccEEEEEeCCHHHHHHHHHhCCceeeeeEEEEEecCCC
Q psy3727          78 RHTVHMRGLPFRANERDVADFFRPV-VPVHVDIHYEN-GRPSGEADVDFATHEDAMQAMSKDRTNMQHRYIELFLNSSS  154 (232)
Q Consensus        78 ~~~vfV~nLp~~~te~dl~~~F~~~-~i~~v~i~~d~-g~~kG~afVeF~s~eda~~Al~~~g~~i~gR~I~V~~~~~~  154 (232)
                      .++|||+|||+++|+++|+++|++| .|..|.|+.+. ++++|||||+|.++++|++||++|+..|+||.|+|.++..+
T Consensus        13 ~~~ifV~nL~~~~te~~l~~~F~~~G~i~~~~v~~~~~g~~kg~afv~F~~~e~a~~Al~~~g~~~~g~~i~V~~ak~k   91 (91)
T d1fjeb1          13 PFNLFIGNLNPNKSVAELKVAISELFAKNDLAVVDVRTGTNRKFGYVDFESAEDLEKALELTGLKVFGNEIKLEKPKGR   91 (91)
T ss_dssp             SEEEEEECCCTTSCHHHHHHHHHHHHHHHTCCCCEEEEETTTTEEEEEESSHHHHHHHHHGGGEEETTEEEEEECCCCS
T ss_pred             CcEEEEeCccCcchHHHHHHHHhcCCcEEEeeeeecCCCCccEEeEEeeCCHHHHHHHHhcCCcEECCEEEEEEecCCC
Confidence            5899999999999999999999999 77777777666 99999999999999999999988999999999999988753

>d2ghpa2 d.58.7.1 (A:41-115) U4/U6 snRNA-associated-splicing factor PRP24 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: U4/U6 snRNA-associated-splicing factor PRP24
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.78  E-value=1.3e-19  Score=126.86  Aligned_cols=74  Identities=23%  Similarity=0.297  Sum_probs=68.3

Q ss_pred             cEEEEcCCCCCCCHHHHHhccCCC-CceEEEEeecCCCCccEEEEEeCCHHHHHHHHHhCCceeeeeEEEEEecC
Q psy3727          79 HTVHMRGLPFRANERDVADFFRPV-VPVHVDIHYENGRPSGEADVDFATHEDAMQAMSKDRTNMQHRYIELFLNS  152 (232)
Q Consensus        79 ~~vfV~nLp~~~te~dl~~~F~~~-~i~~v~i~~d~g~~kG~afVeF~s~eda~~Al~~~g~~i~gR~I~V~~~~  152 (232)
                      .+|||+|||+++|+++|+++|++| .|..|.|+.++...+++|||+|+++++|++||++|++.|+|+.|.|..++
T Consensus         1 Ttv~V~nlp~~~t~~~l~~~F~~~G~I~~v~~~~~~~~~~~~afV~F~~~~~a~~Al~~~~~~i~g~~i~V~~~T   75 (75)
T d2ghpa2           1 TTVLVKNLPKSYNQNKVYKYFKHCGPIIHVDVADSLKKNFRFARIEFARYDGALAAITKTHKVVGQNEIIVSHLT   75 (75)
T ss_dssp             CEEEEEEECTTCCHHHHHHHHGGGSCEEEEEEEECTTSSSEEEEEEESSHHHHHHHHTTTTCEETTEECEEEECC
T ss_pred             CEEEEECCCCCCCHHHHHHHHhcCCceEEEEEEeeccccceEEEEEEcchHHhHHHHHhcCcEECCEEEEEEECC
Confidence            379999999999999999999999 89999999998556789999999999999999889999999999998753

>d2ghpa3 d.58.7.1 (A:206-291) U4/U6 snRNA-associated-splicing factor PRP24 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: U4/U6 snRNA-associated-splicing factor PRP24
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.78  E-value=9.2e-20  Score=130.66  Aligned_cols=78  Identities=17%  Similarity=0.198  Sum_probs=69.8

Q ss_pred             CcEEEEcCCCCCCCH-HHHHhccCCC-CceEEEEeecC---CCCccEEEEEeCCHHHHHHHHHhCCceeeeeEEEEEecC
Q psy3727          78 RHTVHMRGLPFRANE-RDVADFFRPV-VPVHVDIHYEN---GRPSGEADVDFATHEDAMQAMSKDRTNMQHRYIELFLNS  152 (232)
Q Consensus        78 ~~~vfV~nLp~~~te-~dl~~~F~~~-~i~~v~i~~d~---g~~kG~afVeF~s~eda~~Al~~~g~~i~gR~I~V~~~~  152 (232)
                      ..+|||+|||+++|+ ++|+++|++| .|+.|.|+.+.   ++++|||||+|.+.++|++||++|++.|+||.|+|.++.
T Consensus         4 ~~~l~V~nLp~~~t~ed~l~~~F~~~G~i~~v~i~~~~~~~~~~kg~afV~f~~~~~a~~Al~~n~~~~~gr~l~V~~a~   83 (86)
T d2ghpa3           4 GREIMIRNLSTELLDENLLRESFEGFGSIEKINIPAGQKEHSFNNCCAFMVFENKDSAERALQMNRSLLGNREISVSLAD   83 (86)
T ss_dssp             TTEEEEEEECTTTCCHHHHHHHHGGGSCEEEEECCSCCC---CCCEEEEEEESSHHHHHHHGGGTTEEETTEEEEEEECC
T ss_pred             CCEEEEECCCCCcccHHHHHHHHHhhhhccceeeecccCCccccceeeeEEECCHHHHHHHHhcCCCEECCEEEEEEEcC
Confidence            389999999999875 5599999999 99999987643   899999999999999999999889999999999999998


Q ss_pred             CCC
Q psy3727         153 SSP  155 (232)
Q Consensus       153 ~~~  155 (232)
                      ++|
T Consensus        84 ~kP   86 (86)
T d2ghpa3          84 KKP   86 (86)
T ss_dssp             CCC
T ss_pred             CCC
Confidence            764

>d2cpya1 d.58.7.1 (A:536-638) RNA-binding protein 12 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding protein 12
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.78  E-value=1.6e-19  Score=133.35  Aligned_cols=77  Identities=23%  Similarity=0.400  Sum_probs=68.9

Q ss_pred             CcEEEEcCCCCCCCHHHHHhccCCC-CceE-EEEeecC-CCCccEEEEEeCCHHHHHHHHHhCCceeeeeEEEEEecCCC
Q psy3727          78 RHTVHMRGLPFRANERDVADFFRPV-VPVH-VDIHYEN-GRPSGEADVDFATHEDAMQAMSKDRTNMQHRYIELFLNSSS  154 (232)
Q Consensus        78 ~~~vfV~nLp~~~te~dl~~~F~~~-~i~~-v~i~~d~-g~~kG~afVeF~s~eda~~Al~~~g~~i~gR~I~V~~~~~~  154 (232)
                      ..+|||+||||++|++||++||+.| .+.. +.+..+. |+++|||||+|.++++|++||++|++.|+||.|.|.+++..
T Consensus         8 ~~~v~v~nLp~~~t~~~l~~~F~~~g~i~~~~~~~~~~~g~~~G~afV~F~s~~~a~~Al~~n~~~i~gr~i~V~~~~~~   87 (103)
T d2cpya1           8 KVCAHITNIPFSITKMDVLQFLEGIPVDENAVHVLVDNNGQGLGQALVQFKNEDDARKSERLHRKKLNGREAFVHVVTLE   87 (103)
T ss_dssp             CCEEEEESCCTTSCHHHHHHHTTTSCCCSTTEEECCCTTSSCSSCEEEECSSHHHHHHHGGGCSEEETTEEEEEEEECHH
T ss_pred             ceEEEEeCCCCCCCHHHHhhhhcccceEEEEEEEEeCCCCCcCccEEEEECCHHHHHHHHhcCCCeECCcEEEEEECCHH
Confidence            4789999999999999999999999 4544 5666666 99999999999999999999988999999999999987654

>d1u6fa1 d.58.7.1 (A:1-139) RNA-binding protein UBP1 {Trypanosoma cruzi [TaxId: 5693]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding protein UBP1
species: Trypanosoma cruzi [TaxId: 5693]

Probab=99.78  E-value=2.8e-19  Score=138.81  Aligned_cols=78  Identities=18%  Similarity=0.250  Sum_probs=73.4

Q ss_pred             CcEEEEcCCCCCCCHHHHHhccCCC-CceEEEEeecC--CCCccEEEEEeCCHHHHHHHHHh-CCceeeeeEEEEEecCC
Q psy3727          78 RHTVHMRGLPFRANERDVADFFRPV-VPVHVDIHYEN--GRPSGEADVDFATHEDAMQAMSK-DRTNMQHRYIELFLNSS  153 (232)
Q Consensus        78 ~~~vfV~nLp~~~te~dl~~~F~~~-~i~~v~i~~d~--g~~kG~afVeF~s~eda~~Al~~-~g~~i~gR~I~V~~~~~  153 (232)
                      ..+|||+|||+++|+++|+++|++| .|+.|.|+.++  ++++|||||+|.+.++|++||+. |+.+|+||.|+|.++..
T Consensus        42 ~~~l~V~nLp~~~te~~l~~~F~~~G~i~~v~i~~d~~t~~~rg~afV~f~~~~~A~~Ai~~lng~~~~gr~l~V~~a~~  121 (139)
T d1u6fa1          42 LRNLMVNYIPTTVDEVQLRQLFERYGPIESVKIVCDRETRQSRGYGFVKFQSGSSAQQAIAGLNGFNILNKRLKVALAAS  121 (139)
T ss_dssp             TSEEEEESCSTTCCHHHHHHHHHHHSCEEEEEEEEETTTTEEEEEEEEEESSHHHHHHHHHHTTTEECSSCEEEEEESSC
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHhhccccccccccccccccccceeeEEECCHHHHHHHHHHhCCCEECCEEEEEEEcCC
Confidence            3689999999999999999999999 89999999987  89999999999999999999986 99999999999999987


Q ss_pred             CC
Q psy3727         154 SP  155 (232)
Q Consensus       154 ~~  155 (232)
                      +.
T Consensus       122 ~~  123 (139)
T d1u6fa1         122 GH  123 (139)
T ss_dssp             CC
T ss_pred             CC
Confidence            64

>d1x5sa1 d.58.7.1 (A:8-97) Cold-inducible RNA-binding protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Cold-inducible RNA-binding protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.78  E-value=1e-19  Score=131.16  Aligned_cols=78  Identities=23%  Similarity=0.299  Sum_probs=72.7

Q ss_pred             CcEEEEcCCCCCCCHHHHHhccCCC-CceEEEEeecC--CCCccEEEEEeCCHHHHHHHHHh-CCceeeeeEEEEEecCC
Q psy3727          78 RHTVHMRGLPFRANERDVADFFRPV-VPVHVDIHYEN--GRPSGEADVDFATHEDAMQAMSK-DRTNMQHRYIELFLNSS  153 (232)
Q Consensus        78 ~~~vfV~nLp~~~te~dl~~~F~~~-~i~~v~i~~d~--g~~kG~afVeF~s~eda~~Al~~-~g~~i~gR~I~V~~~~~  153 (232)
                      ..+|||+|||+++|+++|+++|++| .|+.|.++.+.  ++++|||||+|+++++|++||+. |+..|+|+.|.|.++.+
T Consensus         5 ~~kifV~nLp~~~t~~~l~~~F~~~G~i~~~~~~~~~~~~~~~g~afV~f~~~~~a~~Ai~~l~~~~~~g~~l~V~~a~~   84 (90)
T d1x5sa1           5 EGKLFVGGLSFDTNEQSLEQVFSKYGQISEVVVVKDRETQRSRGFGFVTFENIDDAKDAMMAMNGKSVDGRQIRVDQAGK   84 (90)
T ss_dssp             CSEEEEESCCTTCCHHHHHHHHHHHSCCCEEEECCCSSSCSCCSEEEEECSSHHHHHHHHHHHTTCCTTSCCCEEEEEEC
T ss_pred             CCEEEEECCCCcCCHHHHHHhhhccccccceeeccccccccccceEEEEECCHHHHHHHHHHcCCCEECCEEEEEEEcCC
Confidence            3789999999999999999999999 88999988876  89999999999999999999987 99999999999999877


Q ss_pred             CC
Q psy3727         154 SP  155 (232)
Q Consensus       154 ~~  155 (232)
                      +.
T Consensus        85 ~~   86 (90)
T d1x5sa1          85 SS   86 (90)
T ss_dssp             CC
T ss_pred             CC
Confidence            64

>d1x5ta1 d.58.7.1 (A:8-90) Splicing factor 3B subunit 4 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Splicing factor 3B subunit 4
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.78  E-value=1.7e-19  Score=128.08  Aligned_cols=75  Identities=19%  Similarity=0.249  Sum_probs=68.5

Q ss_pred             EEEcCCCCCCCHHHHHhccCCC-CceE-EEEeecC--CCCccEEEEEeCCHHHHHHHHHh-CCceeeeeEEEEEecCCCC
Q psy3727          81 VHMRGLPFRANERDVADFFRPV-VPVH-VDIHYEN--GRPSGEADVDFATHEDAMQAMSK-DRTNMQHRYIELFLNSSSP  155 (232)
Q Consensus        81 vfV~nLp~~~te~dl~~~F~~~-~i~~-v~i~~d~--g~~kG~afVeF~s~eda~~Al~~-~g~~i~gR~I~V~~~~~~~  155 (232)
                      |||+|||+++|++||+++|++| .|+. +.|+++.  ++++|||||+|.++++|++||+. |+..|++|.|+|.++.+++
T Consensus         1 lfV~nLp~~~te~~l~~~F~~~G~i~~~~~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~~~g~~~~gr~l~v~~a~~k~   80 (83)
T d1x5ta1           1 IFIGNLDPEIDEKLLYDTFSAFGVILQTPKIMRDPDTGNSKGYAFINFASFDASDAAIEAMNGQYLCNRPITVSYAFKKD   80 (83)
T ss_dssp             EEEECCCTTCCHHHHHHHHHTTSCBSSCCEECCCTTTCSCCSEEEEEBSSHHHHHHHHHTTTTCEETTEECEEEESCCCC
T ss_pred             CEEcCCCCcCcHHHHHHHHHHhCceeeeEEEEeeccccccCceEEEEECCHHHHHHHHHhCCCcEECCEEEEEEEecCCC
Confidence            8999999999999999999999 6665 4677776  89999999999999999999986 9999999999999998763

>d1wela1 d.58.7.1 (A:412-523) RNA-binding protein 12 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding protein 12
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.78  E-value=5.5e-20  Score=138.19  Aligned_cols=77  Identities=29%  Similarity=0.547  Sum_probs=67.8

Q ss_pred             CcEEEEcCCCCCCCHHHHHhccCCCC-ceE-EEEeecC-CCCccEEEEEeCCHHHHHHHHHhCCceeeeeEEEEEecCCC
Q psy3727          78 RHTVHMRGLPFRANERDVADFFRPVV-PVH-VDIHYEN-GRPSGEADVDFATHEDAMQAMSKDRTNMQHRYIELFLNSSS  154 (232)
Q Consensus        78 ~~~vfV~nLp~~~te~dl~~~F~~~~-i~~-v~i~~d~-g~~kG~afVeF~s~eda~~Al~~~g~~i~gR~I~V~~~~~~  154 (232)
                      .++|||+||||++|++||++||+.|. +.. +.+..+. |+++|||||+|.+.++|++||++|++.|++|+|+|+.+...
T Consensus        18 ~~~i~v~nLp~~~t~~di~~~F~~~g~~~~~~~~~~~~~g~~~G~afVeF~~~e~a~~al~~~~~~i~gR~i~V~~~~~~   97 (112)
T d1wela1          18 GFCVYLKGLPFEAENKHVIDFFKKLDIVEDSIYIAYGPNGKATGEGFVEFRNEADYKAALCRHKQYMGNRFIQVHPITKK   97 (112)
T ss_dssp             CCEEEEECCCTTCCHHHHHHHSCSSCBCTTTCEEEECTTSSEEEEEEEEBSSSHHHHHHHTSCSBCSTTSCBEEEEECHH
T ss_pred             CeEEEEecCCCcCcHHHHhhHHhhccccccceeeecCcccceeeEEEEEECCHHHHHHHHHcCCCcCCCEEEEEEEcChH
Confidence            58999999999999999999999994 433 4444455 99999999999999999999988999999999999987654

>d1zh5a2 d.58.7.1 (A:105-189) Lupus LA protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Lupus LA protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.78  E-value=2.6e-19  Score=128.16  Aligned_cols=75  Identities=13%  Similarity=0.235  Sum_probs=70.7

Q ss_pred             CcEEEEcCCCCCCCHHHHHhccCCC-CceEEEEeecC-CCCccEEEEEeCCHHHHHHHHHhCCceeeeeEEEEEecC
Q psy3727          78 RHTVHMRGLPFRANERDVADFFRPV-VPVHVDIHYEN-GRPSGEADVDFATHEDAMQAMSKDRTNMQHRYIELFLNS  152 (232)
Q Consensus        78 ~~~vfV~nLp~~~te~dl~~~F~~~-~i~~v~i~~d~-g~~kG~afVeF~s~eda~~Al~~~g~~i~gR~I~V~~~~  152 (232)
                      ..+|||+|||+++|+++|+++|+.| .|+.|.|..+. ++++|||||+|.++++|++||+.++..+.|+.|.|.++.
T Consensus         6 ~rtvfV~nlp~~~te~~l~~~F~~~G~v~~v~l~~~~~~~~kG~afV~f~~~e~a~~al~~~~~~~~g~~l~v~~~~   82 (85)
T d1zh5a2           6 NRSVYIKGFPTDATLDDIKEWLEDKGQVLNIQMRRTLHKAFKGSIFVVFDSIESAKKFVETPGQKYKETDLLILFKD   82 (85)
T ss_dssp             TTEEEEECCCTTCCHHHHHHHHTTSCCEEEEEEEECTTCCEEEEEEEEESCHHHHHHHHTCCCCEETTEECEEEEGG
T ss_pred             cCEEEEECCCCCCCHHHHHHHHHHhcccccceeeeeccCCcceEEEEEEcCHHHHHHHHHHCCCEECCEEEEEEEcC
Confidence            3789999999999999999999999 88999999888 999999999999999999999889999999999998753

>d2cpfa1 d.58.7.1 (A:362-446) Probable RNA-binding protein 19, Rbm19 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Probable RNA-binding protein 19, Rbm19
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.77  E-value=1.9e-19  Score=128.39  Aligned_cols=74  Identities=16%  Similarity=0.282  Sum_probs=68.1

Q ss_pred             EEEcCCCCCCCHHHHHhccCCC-CceEEEEeecC--C---CCccEEEEEeCCHHHHHHHHHh-CCceeeeeEEEEEecCC
Q psy3727          81 VHMRGLPFRANERDVADFFRPV-VPVHVDIHYEN--G---RPSGEADVDFATHEDAMQAMSK-DRTNMQHRYIELFLNSS  153 (232)
Q Consensus        81 vfV~nLp~~~te~dl~~~F~~~-~i~~v~i~~d~--g---~~kG~afVeF~s~eda~~Al~~-~g~~i~gR~I~V~~~~~  153 (232)
                      |||+|||+++|+++|+++|++| .|+.|.|++++  +   +++|||||+|+++++|++||+. |+..|+||.|.|.++..
T Consensus         1 LfV~nLp~~~t~~~l~~~F~~~G~v~~v~i~~~~~~~~~~~~kG~afV~f~~~~~A~~A~~~~~~~~~~g~~i~V~~a~~   80 (85)
T d2cpfa1           1 LFIKNLNFSTTEETLKGVFSKVGAIKSCTISKKKNKAGVLLSMGFGFVEYKKPEQAQKALKQLQGHTVDGHKLEVRISER   80 (85)
T ss_dssp             EEEESCCTTCCHHHHHHHHHTTSCEEEEEEEEEECTTCCEEEEEEEEEEESSHHHHHHHHHHSTTCEETTEECEEECSSC
T ss_pred             CEEcCCCCCCCHHHHHHHHHHhCCccccceecccccccccccceEEEEEECCHHHHHHHHHHhCCCEECCEEEEEEECCC
Confidence            7999999999999999999999 88999998875  2   4699999999999999999987 99999999999999865


Q ss_pred             C
Q psy3727         154 S  154 (232)
Q Consensus       154 ~  154 (232)
                      .
T Consensus        81 ~   81 (85)
T d2cpfa1          81 A   81 (85)
T ss_dssp             S
T ss_pred             C
Confidence            4

>d2msta_ d.58.7.1 (A:) Neural RNA-binding protein Musashi-1 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Neural RNA-binding protein Musashi-1
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.77  E-value=1e-19  Score=126.60  Aligned_cols=72  Identities=14%  Similarity=0.239  Sum_probs=67.9

Q ss_pred             EEEEcCCCCCCCHHHHHhccCCC-CceEEEEeecC--CCCccEEEEEeCCHHHHHHHHHhCCceeeeeEEEEEec
Q psy3727          80 TVHMRGLPFRANERDVADFFRPV-VPVHVDIHYEN--GRPSGEADVDFATHEDAMQAMSKDRTNMQHRYIELFLN  151 (232)
Q Consensus        80 ~vfV~nLp~~~te~dl~~~F~~~-~i~~v~i~~d~--g~~kG~afVeF~s~eda~~Al~~~g~~i~gR~I~V~~~  151 (232)
                      .|||+|||+++|+++|+++|++| .++.+.++.++  ++++++|||+|.++++|++||+.|++.|+||+|+|..|
T Consensus         1 rlfV~nLp~~~te~~l~~~F~~~G~i~~~~~~~~~~~~~~~~~afV~F~~~~~a~~al~~~~~~l~gr~i~V~~A   75 (75)
T d2msta_           1 KIFVGGLSVNTTVEDVKHYFEQFGKVDDAMLMFDKTTNRHRGFGFVTFESEDIVEKVCEIHFHEINNKMVECKKA   75 (75)
T ss_dssp             CEEEECCCSSCCHHHHHHHHHTTSCCSEECCBCCTTCTTSCCEEEEECSCHHHHHHHHHCSSCCBTTBCCEEEEC
T ss_pred             CEEEeCCCCCCCHHHHHHHHHHhCCcceeeeeeeccccccCceeEEEECCHHHHHHHHhcCCCEECCeEEEEEEC
Confidence            48999999999999999999999 88899998887  89999999999999999999988999999999999875

>d2cpea1 d.58.7.1 (A:353-453) RNA-binding protein EWS {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding protein EWS
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.77  E-value=8.4e-19  Score=128.59  Aligned_cols=79  Identities=25%  Similarity=0.432  Sum_probs=71.0

Q ss_pred             CcEEEEcCCCCCCCHHHHHhccCCC-Cc--------eEEEEeecC--CCCccEEEEEeCCHHHHHHHHHh-CCceeeeeE
Q psy3727          78 RHTVHMRGLPFRANERDVADFFRPV-VP--------VHVDIHYEN--GRPSGEADVDFATHEDAMQAMSK-DRTNMQHRY  145 (232)
Q Consensus        78 ~~~vfV~nLp~~~te~dl~~~F~~~-~i--------~~v~i~~d~--g~~kG~afVeF~s~eda~~Al~~-~g~~i~gR~  145 (232)
                      ..+|||+|||+++|+++|+++|++| .|        ..+.+.++.  ++++|||||+|.++++|++||+. |+..|+||.
T Consensus         8 ~~~i~V~nLp~~~te~~l~~~F~~~G~i~~~~~~~~~~~~~~~d~~~~~~~g~afV~f~~~~~a~~Ai~~l~g~~~~gr~   87 (101)
T d2cpea1           8 NSAIYVQGLNDSVTLDDLADFFKQCGVVKMNKRTGQPMIHIYLDKETGKPKGDATVSYEDPPTAKAAVEWFDGKDFQGSK   87 (101)
T ss_dssp             CCEEEEECCCTTCCHHHHHHHHTTTSCBCBCSSSCCBSEECCBCTTTCSBCSEEEEEBSSHHHHHHHHHHHTTCEETTEE
T ss_pred             CCEEEEECCCCcCCHHHHHHHHHHCceEEEeeecccceeEEeeccccccccceeeEEecCHHHHHHHHHHhCCCEECCEE
Confidence            4899999999999999999999998 43        356677776  89999999999999999999997 999999999


Q ss_pred             EEEEecCCCCC
Q psy3727         146 IELFLNSSSPR  156 (232)
Q Consensus       146 I~V~~~~~~~~  156 (232)
                      |.|.++.+++.
T Consensus        88 i~V~~a~~~~p   98 (101)
T d2cpea1          88 LKVSLARKKPP   98 (101)
T ss_dssp             CEEECSSCCCC
T ss_pred             EEEEEcCCCCC
Confidence            99999988754

>d1u1qa_ d.58.7.1 (A:) Nuclear ribonucleoprotein A1 (RNP A1, UP1) {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Nuclear ribonucleoprotein A1 (RNP A1, UP1)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.77  E-value=1.4e-18  Score=139.42  Aligned_cols=111  Identities=14%  Similarity=0.119  Sum_probs=93.3

Q ss_pred             cEEEEcCCCCCCCHHHHHhccCCC-CceEEEEeecC--CCCccEEEEEeCCHHHHHHHHHhCCceeeeeEEEEEecCCCC
Q psy3727          79 HTVHMRGLPFRANERDVADFFRPV-VPVHVDIHYEN--GRPSGEADVDFATHEDAMQAMSKDRTNMQHRYIELFLNSSSP  155 (232)
Q Consensus        79 ~~vfV~nLp~~~te~dl~~~F~~~-~i~~v~i~~d~--g~~kG~afVeF~s~eda~~Al~~~g~~i~gR~I~V~~~~~~~  155 (232)
                      .+|||+|||+++|+++|+++|++| .|+.|.|+.+.  ++++|+|||+|.++++|++|++.+...+..+.|.+.......
T Consensus         7 r~lfV~nLp~~~te~~L~~~F~~~G~v~~~~~~~~~~~~~~~g~afv~f~~~~~a~~a~~~~~~~~~~~~~~~~~~~~~~   86 (183)
T d1u1qa_           7 RKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMNARPHKVDGRVVEPKRAVSRE   86 (183)
T ss_dssp             HEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHTCSCEETTEECEEEECCCTT
T ss_pred             CEEEEECCCCCCCHHHHHHHHHHcCCEEEEEeeecccCCCccCceecccCCHHHHHHHHHhcCCcccccchhhhhhhhcc
Confidence            689999999999999999999999 88899999886  899999999999999999999998888999998887765553


Q ss_pred             CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCcceEEEcCCCccccHHHHHhhhCC
Q psy3727         156 RGGVGGSGSIGGFGGSGGGRLGGFGGSDPSSPFERRNPNQAYVENTALSRSAVKDRAINVQLC  218 (232)
Q Consensus       156 ~~~~~g~~g~gg~gg~~gg~~gg~g~~~~~~~~~~~~~~~~~v~~~gLp~~~t~~dl~~fF~~  218 (232)
                      ....                             .........|+|.|||+++|+++|+++|..
T Consensus        87 ~~~~-----------------------------~~~~~~~~~i~V~~lp~~~te~~L~~~f~~  120 (183)
T d1u1qa_          87 DSQR-----------------------------PGAHLTVKKIFVGGIKEDTEEHHLRDYFEQ  120 (183)
T ss_dssp             GGGS-----------------------------TTTTCCCSEEEEECCCTTCCHHHHHHHHGG
T ss_pred             cccc-----------------------------cccccccceeEEccCCCcCCHHHHhhhhcc
Confidence            1110                             011112347999999999999999999964

>d1p1ta_ d.58.7.1 (A:) Cleavage stimulation factor, 64 kda subunit {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Cleavage stimulation factor, 64 kda subunit
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.77  E-value=2.1e-19  Score=132.98  Aligned_cols=77  Identities=23%  Similarity=0.455  Sum_probs=72.6

Q ss_pred             cEEEEcCCCCCCCHHHHHhccCCC-CceEEEEeecC--CCCccEEEEEeCCHHHHHHHHHh-CCceeeeeEEEEEecCCC
Q psy3727          79 HTVHMRGLPFRANERDVADFFRPV-VPVHVDIHYEN--GRPSGEADVDFATHEDAMQAMSK-DRTNMQHRYIELFLNSSS  154 (232)
Q Consensus        79 ~~vfV~nLp~~~te~dl~~~F~~~-~i~~v~i~~d~--g~~kG~afVeF~s~eda~~Al~~-~g~~i~gR~I~V~~~~~~  154 (232)
                      .+|||+|||+++|+++|+++|++| +|++|.|+.++  ++++|||||+|.+.++|++||+. |+..|.++.|.|.++.+.
T Consensus         9 rtl~V~nLp~~~te~~l~~~f~~~G~i~~v~i~~~~~tg~~~g~afV~f~~~~~a~~ai~~l~~~~~~g~~i~V~~a~~~   88 (104)
T d1p1ta_           9 RSVFVGNIPYEATEEQLKDIFSEVGPVVSFRLVYDRETGKPKGYGFCEYQDQETALSAMRNLNGREFSGRALRVDNAASE   88 (104)
T ss_dssp             SCEEEESCCTTSCHHHHHHHHHTTSCCSEEEEEEETTTTEEEEEEEEECSCHHHHHHHHHHSSSBSCSSSCBEEEETTCT
T ss_pred             CEEEEECCCCcCCHHHHHHhhhccccccccccccccceeccCCceEEEECCHHHHHHHHHHcCCCEECCEEEEEEECCCC
Confidence            689999999999999999999999 89999999886  89999999999999999999987 999999999999998765


Q ss_pred             C
Q psy3727         155 P  155 (232)
Q Consensus       155 ~  155 (232)
                      .
T Consensus        89 ~   89 (104)
T d1p1ta_          89 K   89 (104)
T ss_dssp             T
T ss_pred             C
Confidence            3

>d1x4aa1 d.58.7.1 (A:9-103) Splicing factor, arginine/serine-rich 1, SFRS1 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Splicing factor, arginine/serine-rich 1, SFRS1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.76  E-value=1.7e-18  Score=126.06  Aligned_cols=76  Identities=18%  Similarity=0.198  Sum_probs=68.5

Q ss_pred             CcEEEEcCCCCCCCHHHHHhccCCC-CceEEEEeecCCCCccEEEEEeCCHHHHHHHHHh-CCceeeeeEEEEEecCCC
Q psy3727          78 RHTVHMRGLPFRANERDVADFFRPV-VPVHVDIHYENGRPSGEADVDFATHEDAMQAMSK-DRTNMQHRYIELFLNSSS  154 (232)
Q Consensus        78 ~~~vfV~nLp~~~te~dl~~~F~~~-~i~~v~i~~d~g~~kG~afVeF~s~eda~~Al~~-~g~~i~gR~I~V~~~~~~  154 (232)
                      +++|||+|||+++|++||+++|++| .|+.|.+..+ ..+++||||+|+++++|++||+. |++.|+++.|+|.+++..
T Consensus        14 ~~~l~V~nLp~~~t~~~l~~~F~~~G~v~~~~~~~~-~~~~g~afV~f~~~e~a~~Ai~~l~g~~~~g~~l~V~~a~~~   91 (95)
T d1x4aa1          14 DCRIYVGNLPPDIRTKDIEDVFYKYGAIRDIDLKNR-RGGPPFAFVEFEDPRDAEDAVYGRDGYDYDGYRLRVEFPRSG   91 (95)
T ss_dssp             SSEEEEESCCTTCCHHHHHHHHGGGSCEEEEEECCS-SSSSCCEEEEESCHHHHHHHHHHHTTCEETTEECEEECCCCC
T ss_pred             CCEEEEECCCCCCCHHHHHHHHhcCCceEEEEeccc-ccccceEEEEECCHHHHHHHHHHhCCCEECCEEEEEEeccCC
Confidence            4899999999999999999999999 7777776544 56789999999999999999997 999999999999998664

>d1b7fa2 d.58.7.1 (A:205-289) Sex-lethal protein {Drosophila melanogaster [TaxId: 7227]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Sex-lethal protein
species: Drosophila melanogaster [TaxId: 7227]

Probab=99.76  E-value=4.9e-19  Score=126.39  Aligned_cols=74  Identities=22%  Similarity=0.325  Sum_probs=68.9

Q ss_pred             CcEEEEcCCCCCCCHHHHHhccCCC-CceEEEEeecC--CCCccEEEEEeCCHHHHHHHHHh-CCceeee--eEEEEEec
Q psy3727          78 RHTVHMRGLPFRANERDVADFFRPV-VPVHVDIHYEN--GRPSGEADVDFATHEDAMQAMSK-DRTNMQH--RYIELFLN  151 (232)
Q Consensus        78 ~~~vfV~nLp~~~te~dl~~~F~~~-~i~~v~i~~d~--g~~kG~afVeF~s~eda~~Al~~-~g~~i~g--R~I~V~~~  151 (232)
                      +.+|||+|||+++|+++|+++|++| .|..|.|++++  ++++|||||+|.++++|++||+. |+..+.+  ++|.|.+|
T Consensus         6 ~t~lfV~nlp~~~te~~l~~~F~~~G~i~~~~~~~d~~~g~~~g~afV~f~~~~~A~~Ai~~l~g~~~~g~~~~l~V~~A   85 (85)
T d1b7fa2           6 DTNLYVTNLPRTITDDQLDTIFGKYGSIVQKNILRDKLTGRPRGVAFVRYNKREEAQEAISALNNVIPEGGSQPLSVRLA   85 (85)
T ss_dssp             TCEEEEESCCTTCCHHHHHHHHTSSSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHHTTCCCTTCSSCCEEEEC
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHhhCCEeeeeeecccccccCceeEEEEECCHHHHHHHHHHHCCCEeCCCCeEEEEEEC
Confidence            3679999999999999999999999 89999999987  89999999999999999999997 9998876  88999875

>d1x4ha1 d.58.7.1 (A:8-105) RNA-binding protein 28 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding protein 28
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.76  E-value=9.6e-19  Score=127.48  Aligned_cols=78  Identities=19%  Similarity=0.278  Sum_probs=71.3

Q ss_pred             CcEEEEcCCCCCCCHHHHHhccCCC-CceEEEEeecC--CCCccEEEEEeCCHHHHHHHHHh-C------CceeeeeEEE
Q psy3727          78 RHTVHMRGLPFRANERDVADFFRPV-VPVHVDIHYEN--GRPSGEADVDFATHEDAMQAMSK-D------RTNMQHRYIE  147 (232)
Q Consensus        78 ~~~vfV~nLp~~~te~dl~~~F~~~-~i~~v~i~~d~--g~~kG~afVeF~s~eda~~Al~~-~------g~~i~gR~I~  147 (232)
                      +.+|||+|||+++|+++|+++|++| .++.+.++.+.  ++++|||||+|.++++|++||+. |      +..|+||.|+
T Consensus         8 ~~tlfV~nLp~~~te~~l~~~f~~~G~v~~~~~~~~~~~~~~~g~afV~F~~~~~a~~ai~~l~~~~~~~g~~~~gr~l~   87 (98)
T d1x4ha1           8 GKTVFIRNLSFDSEEEALGEVLQQFGDLKYVRVVLHPDTEHSKGCAFAQFMTQEAAQKCLAAASLEAEGGGLKLDGRQLK   87 (98)
T ss_dssp             CCCEEEESCCTTCCHHHHHHHHHTTSCEEEEECCBCSSSCCBCSEEEEEESSHHHHHHHHHHHCTTTTTCCEESSSCEEE
T ss_pred             CCEEEEcCCCCcCCHHHHHHHHhccccceeeeeccccccccccceEEEEEcCHHHHHHHHHHcccccccCCcEECCEEEE
Confidence            4899999999999999999999999 88889998887  88999999999999999999995 3      6789999999


Q ss_pred             EEecCCCC
Q psy3727         148 LFLNSSSP  155 (232)
Q Consensus       148 V~~~~~~~  155 (232)
                      |.++.+++
T Consensus        88 v~~a~~k~   95 (98)
T d1x4ha1          88 VDLAVTRD   95 (98)
T ss_dssp             EECCCCCC
T ss_pred             EEECCCCC
Confidence            99998764

>d2cqia1 d.58.7.1 (A:1-90) Nucleolysin TIAR {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Nucleolysin TIAR
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.76  E-value=1.2e-18  Score=125.78  Aligned_cols=76  Identities=14%  Similarity=0.178  Sum_probs=71.5

Q ss_pred             cEEEEcCCCCCCCHHHHHhccCCC-CceEEEEeecCCCCccEEEEEeCCHHHHHHHHHh-CCceeeeeEEEEEecCCC
Q psy3727          79 HTVHMRGLPFRANERDVADFFRPV-VPVHVDIHYENGRPSGEADVDFATHEDAMQAMSK-DRTNMQHRYIELFLNSSS  154 (232)
Q Consensus        79 ~~vfV~nLp~~~te~dl~~~F~~~-~i~~v~i~~d~g~~kG~afVeF~s~eda~~Al~~-~g~~i~gR~I~V~~~~~~  154 (232)
                      .+|||+|||+++|+++|+++|++| .|++|.|+.+....++||||+|++.++|++|++. |+..|.++.|+|.++.++
T Consensus         9 ~tl~V~nLp~~~te~~l~~~F~~~G~i~~v~i~~d~~~~~~~afV~f~~~~~A~~A~~~l~~~~~~g~~i~v~~a~~~   86 (90)
T d2cqia1           9 RTLYVGNLSRDVTEVLILQLFSQIGPCKSCKMITEHTSNDPYCFVEFYEHRDAAAALAAMNGRKILGKEVKVNWATTP   86 (90)
T ss_dssp             CEEEEESCCTTCCHHHHHHHHHHHSCEEEEEEECCCCSSCCEEEEEESSHHHHHHHHHHHTTEEETTEEEEEEECCCT
T ss_pred             CEEEEECCCCCCCHHHHHHHHHhcCCceeeeeecccCccceeeEEEECCHHHHHHHHHHcCCCEECCEEEEEEEcCCC
Confidence            799999999999999999999999 8889999998855689999999999999999997 999999999999999876

>d2cpha1 d.58.7.1 (A:454-547) Probable RNA-binding protein 19, Rbm19 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Probable RNA-binding protein 19, Rbm19
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.76  E-value=7.3e-19  Score=127.96  Aligned_cols=78  Identities=27%  Similarity=0.400  Sum_probs=72.1

Q ss_pred             CcEEEEcCCCCCCCHHHHHhccCCC-CceEEEEeecC---CCCccEEEEEeCCHHHHHHHHHh--CCceeeeeEEEEEec
Q psy3727          78 RHTVHMRGLPFRANERDVADFFRPV-VPVHVDIHYEN---GRPSGEADVDFATHEDAMQAMSK--DRTNMQHRYIELFLN  151 (232)
Q Consensus        78 ~~~vfV~nLp~~~te~dl~~~F~~~-~i~~v~i~~d~---g~~kG~afVeF~s~eda~~Al~~--~g~~i~gR~I~V~~~  151 (232)
                      ..+|||+|||+++|+++|+++|++| .|..|.|+.+.   |+++|||||+|.++++|++||+.  |+..|.||.|.|.+|
T Consensus         8 ~~~l~V~nLp~~~~e~~l~~~F~~~G~i~~v~i~~~~~~~g~~rg~afV~f~~~~~A~~Ai~~l~~~~~~~Gr~l~V~~A   87 (94)
T d2cpha1           8 TSKILVRNIPFQANQREIRELFSTFGELKTVRLPKKMTGTGAHRGFGFVDFITKQDAKKAFNALCHSTHLYGRRLVLEWA   87 (94)
T ss_dssp             CCCEEEESCCTTCCHHHHHHHHHTTSCEEEEECCCCCSSSCSSCSEEEEEESSHHHHHHHHHHHHTCCBSSSCBCEEEEC
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHHhCCceEEEEEeccccCCCcccEEEEEECCHHHHHHHHHHccCCcEECCEEEEEEEc
Confidence            3789999999999999999999999 89999998764   89999999999999999999984  899999999999999


Q ss_pred             CCCC
Q psy3727         152 SSSP  155 (232)
Q Consensus       152 ~~~~  155 (232)
                      ....
T Consensus        88 ~~~~   91 (94)
T d2cpha1          88 DSEV   91 (94)
T ss_dssp             CCCC
T ss_pred             CCCC
Confidence            8763

>d1fxla2 d.58.7.1 (A:119-203) Hu antigen D (Hud) {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Hu antigen D (Hud)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.75  E-value=7e-19  Score=125.72  Aligned_cols=74  Identities=15%  Similarity=0.249  Sum_probs=68.4

Q ss_pred             CcEEEEcCCCCCCCHHHHHhccCCC-CceEEEEeecC--CCCccEEEEEeCCHHHHHHHHHh-CCceeee--eEEEEEec
Q psy3727          78 RHTVHMRGLPFRANERDVADFFRPV-VPVHVDIHYEN--GRPSGEADVDFATHEDAMQAMSK-DRTNMQH--RYIELFLN  151 (232)
Q Consensus        78 ~~~vfV~nLp~~~te~dl~~~F~~~-~i~~v~i~~d~--g~~kG~afVeF~s~eda~~Al~~-~g~~i~g--R~I~V~~~  151 (232)
                      +.+|||+|||+++|+++|+++|++| .|++|.|++++  ++++|||||+|.++++|++|++. |+..+.|  ++|+|.+|
T Consensus         6 ~~~lfV~nLp~~~te~~L~~~F~~~G~v~~v~i~~d~~~g~~kg~afV~f~~~~~a~~Ai~~lng~~~~G~~~~i~V~~A   85 (85)
T d1fxla2           6 DANLYVSGLPKTMTQKELEQLFSQYGRIITSRILVDQVTGVSRGVGFIRFDKRIEAEEAIKGLNGQKPSGATEPITVKFA   85 (85)
T ss_dssp             TCEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHHTTCCCTTCSSCCEEEEC
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHHhCCccccccccccccccCCCeeEEEEcCHHHHHHHHHHhCCCEeCCCCEEEEEEeC
Confidence            4789999999999999999999999 99999999986  89999999999999999999986 9999987  45888775

>d2f9da1 d.58.7.1 (A:12-125) Pre-mRNA branch site protein p14 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Pre-mRNA branch site protein p14
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.75  E-value=2e-18  Score=129.37  Aligned_cols=76  Identities=18%  Similarity=0.310  Sum_probs=70.0

Q ss_pred             CcEEEEcCCCCCCCHHHHHhccCCC-CceEEEEeecCCCCccEEEEEeCCHHHHHHHHHh-CCceeeeeEEEEEecCCC
Q psy3727          78 RHTVHMRGLPFRANERDVADFFRPV-VPVHVDIHYENGRPSGEADVDFATHEDAMQAMSK-DRTNMQHRYIELFLNSSS  154 (232)
Q Consensus        78 ~~~vfV~nLp~~~te~dl~~~F~~~-~i~~v~i~~d~g~~kG~afVeF~s~eda~~Al~~-~g~~i~gR~I~V~~~~~~  154 (232)
                      +.+|||+|||+++|+++|+++|++| .|+.|+|..+ +.++|||||+|.+.++|+.||+. |+..|.|+.|.|.++...
T Consensus         7 ~r~l~V~nLp~~~te~~l~~~F~~~G~v~~i~~~~~-~~~kG~afV~f~~~~~A~~Ai~~l~g~~~~gr~l~V~~a~~~   84 (114)
T d2f9da1           7 NRILYIRNLPYKITAEEMYDIFGKYGPIRQIRVGNT-PETRGTAYVVYEDIFDAKNACDHLSGFNVCNRYLVVLYYNAN   84 (114)
T ss_dssp             CSEEEEESCCTTCCHHHHHHHHHTTSCEEEEEEECS-TTTTTEEEEEESSHHHHHHHHHHHTTCEETTEECEEEECCHH
T ss_pred             CCEEEEECCCCCCCHHHHHHHHhhcCCeEeeccccc-CCcCCeEEEEECCHHHHHHHHHHhCCCEECCEEEEEEEcCCC
Confidence            5899999999999999999999999 8999998765 57789999999999999999986 999999999999987653

>d1wf0a_ d.58.7.1 (A:) TAR DNA-binding protein 43, TDP-43 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: TAR DNA-binding protein 43, TDP-43
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.75  E-value=1e-18  Score=125.57  Aligned_cols=73  Identities=15%  Similarity=0.052  Sum_probs=66.5

Q ss_pred             cEEEEcCCCCCCCHHHHHhccCCC-CceEEEEeecCCCCccEEEEEeCCHHHHHHHHHhCCceeeeeEEEEEecCCCC
Q psy3727          79 HTVHMRGLPFRANERDVADFFRPV-VPVHVDIHYENGRPSGEADVDFATHEDAMQAMSKDRTNMQHRYIELFLNSSSP  155 (232)
Q Consensus        79 ~~vfV~nLp~~~te~dl~~~F~~~-~i~~v~i~~d~g~~kG~afVeF~s~eda~~Al~~~g~~i~gR~I~V~~~~~~~  155 (232)
                      .+|||+|||+++|++||+++|++| .|++|.+..   .+++||||+|+++++|++||. +++.|+|+.|+|.++.++.
T Consensus         6 ~~lfV~nLp~~~te~~L~~~F~~~G~v~~v~~~~---~~~gfafV~f~~~~~a~~a~~-~~~~i~g~~l~v~~a~~k~   79 (88)
T d1wf0a_           6 SGVFVGRCTGDMTEDELREFFSQYGDVMDVFIPK---PFRAFAFVTFADDQIAQSLCG-EDLIIKGISVHISNAEPKH   79 (88)
T ss_dssp             CEEEEESCCSSSCHHHHHHHSTTTSCCCEEECCS---SCCSCCEEECSCHHHHHHTTT-CEEEETTEEEEEECCCCCC
T ss_pred             CEEEEeCCCCCCCHHHHHHHHHHcCCceEEEEee---ccCceEEEEECCHHHHHHHHh-CCCEECCEEeEEEeCCCCC
Confidence            899999999999999999999999 888887654   468899999999999999996 7889999999999997764

>d1wg4a_ d.58.7.1 (A:) Splicing factor, arginine/serine-rich 9 (SFRS9) {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Splicing factor, arginine/serine-rich 9 (SFRS9)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.74  E-value=4e-18  Score=125.10  Aligned_cols=73  Identities=25%  Similarity=0.292  Sum_probs=67.1

Q ss_pred             CcEEEEcCCCCCCCHHHHHhccCCC-CceEEEEeecCCCCccEEEEEeCCHHHHHHHHHh-CCceeeeeEEEEEecCCCC
Q psy3727          78 RHTVHMRGLPFRANERDVADFFRPV-VPVHVDIHYENGRPSGEADVDFATHEDAMQAMSK-DRTNMQHRYIELFLNSSSP  155 (232)
Q Consensus        78 ~~~vfV~nLp~~~te~dl~~~F~~~-~i~~v~i~~d~g~~kG~afVeF~s~eda~~Al~~-~g~~i~gR~I~V~~~~~~~  155 (232)
                      .++|||+|||+++|++||+++|++| +|+.|.|.     ++|||||+|.++++|++||++ |+..|+++.|+|.+....+
T Consensus        15 ~~~i~V~Nlp~~~~~~~L~~~F~~~G~v~~~~i~-----~~g~afV~f~~~~~a~~Ai~~lng~~~~g~~i~v~~~~~~~   89 (98)
T d1wg4a_          15 DFRVLVSGLPPSGSWQDLKDHMREAGDVCYADVQ-----KDGMGMVEYLRKEDMEYALRKLDDTKFRSHEGETSYIRVYP   89 (98)
T ss_dssp             SCEEEEECCCSSCCHHHHHHHHTTSSCEEEEEEE-----TTTEEEEEESSHHHHHHHHHHHSSEEEECTTSCEEEEEEEC
T ss_pred             CCEEEEECCCCCCCHHHHHHHHHhhccccccccc-----ccceEEEEECCHHHHHHHHHHhCCCEeCCeEEEEEEEecCC
Confidence            5899999999999999999999999 88899885     458999999999999999987 9999999999998887654

>d1x5oa1 d.58.7.1 (A:8-108) RNA-binding motif, single-stranded-interacting protein 1, RBMS1 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding motif, single-stranded-interacting protein 1, RBMS1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.73  E-value=3.3e-18  Score=125.98  Aligned_cols=75  Identities=11%  Similarity=0.216  Sum_probs=69.5

Q ss_pred             cEEEEcCCCCCCCHHHHHhccCCC-CceEEEEeecC-CCCccEEEEEeCCHHHHHHHHHh-CCceeeeeEEEEEecCC
Q psy3727          79 HTVHMRGLPFRANERDVADFFRPV-VPVHVDIHYEN-GRPSGEADVDFATHEDAMQAMSK-DRTNMQHRYIELFLNSS  153 (232)
Q Consensus        79 ~~vfV~nLp~~~te~dl~~~F~~~-~i~~v~i~~d~-g~~kG~afVeF~s~eda~~Al~~-~g~~i~gR~I~V~~~~~  153 (232)
                      ++|||+|||+++|+++|+++|++| .|+.+.+..+. ++++|||||+|.++++|++||+. |+..|.+|++.|..+.+
T Consensus        19 ~~lfV~nLp~~~te~~L~~~F~~~G~i~~~~~~~~~~~~~~g~afV~f~~~~~A~~Ai~~lng~~i~gr~~~v~~~~P   96 (101)
T d1x5oa1          19 TNLYISNLPLSMDEQELENMLKPFGQVISTRILRDSSGTSRGVGFARMESTEKCEAVIGHFNGKFIKTPPGVSAPTEP   96 (101)
T ss_dssp             TEEEEESCCTTCCHHHHHHTTTTTSCEEEEEEEECSSSCEEEEEEEEESCHHHHHHHHHHHBTCCCCCCTTSCCCSSC
T ss_pred             CEEEEeCCCCCCCHHHHHHHHhhcccccceeeecccccccccceeEEeCCHHHHHHHHHHhCCCEECCcCCccCCCCC
Confidence            789999999999999999999999 88899988888 89999999999999999999987 99999999988866543

>d2cpxa1 d.58.7.1 (A:291-392) RNA-binding protein 41, RBM41 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding protein 41, RBM41
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.71  E-value=1.3e-18  Score=127.80  Aligned_cols=77  Identities=21%  Similarity=0.318  Sum_probs=71.0

Q ss_pred             cEEEEcCCCCCCCHHHHHhccCCC-CceEEEEeecC--CCCccEEEEEeCCHHHHHHHHHh-CCceeeeeEEEEEecCCC
Q psy3727          79 HTVHMRGLPFRANERDVADFFRPV-VPVHVDIHYEN--GRPSGEADVDFATHEDAMQAMSK-DRTNMQHRYIELFLNSSS  154 (232)
Q Consensus        79 ~~vfV~nLp~~~te~dl~~~F~~~-~i~~v~i~~d~--g~~kG~afVeF~s~eda~~Al~~-~g~~i~gR~I~V~~~~~~  154 (232)
                      ++|||+|||.++|+++|+++|++| .|+.+.|..+.  ++++|||||+|.+.++|++||+. |+..|.|+.|.|.++.++
T Consensus        19 ~tl~V~nLp~~~t~~~l~~~f~~~G~v~~~~~~~~~~~g~~~g~~fV~f~~~~~A~~Ai~~l~g~~~~g~~l~V~~ak~k   98 (102)
T d2cpxa1          19 KVLYLKNLSPRVTERDLVSLFARFQEKKGPPIQFRMMTGRMRGQAFITFPNKEIAWQALHLVNGYKLYGKILVIEFGKNK   98 (102)
T ss_dssp             SEEEEECCCTTCCHHHHHHHTHHHHHSSSSCCEEEEECSSSCSEEEEECSSHHHHHHHHHHSTTCBCSSCBCEEEECCCC
T ss_pred             CEEEEeCCCCCCCHHHHHHHHhhccceeeEEeecccccccccccceEEeccHHHHHHHHHHhCCCEECCEEEEEEeCCCc
Confidence            899999999999999999999999 77777776664  89999999999999999999987 999999999999999887


Q ss_pred             C
Q psy3727         155 P  155 (232)
Q Consensus       155 ~  155 (232)
                      .
T Consensus        99 ~   99 (102)
T d2cpxa1          99 K   99 (102)
T ss_dssp             S
T ss_pred             c
Confidence            4

>d1wf2a_ d.58.7.1 (A:) Heterogeneous nuclear ribonucleoproteins C1/C2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Heterogeneous nuclear ribonucleoproteins C1/C2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.71  E-value=2.2e-17  Score=121.03  Aligned_cols=71  Identities=18%  Similarity=0.263  Sum_probs=65.3

Q ss_pred             CcEEEEcCCC-CCCCHHHHHhccCCC-CceEEEEeecCCCCccEEEEEeCCHHHHHHHHHh-CCceeeeeEEEEEecCCC
Q psy3727          78 RHTVHMRGLP-FRANERDVADFFRPV-VPVHVDIHYENGRPSGEADVDFATHEDAMQAMSK-DRTNMQHRYIELFLNSSS  154 (232)
Q Consensus        78 ~~~vfV~nLp-~~~te~dl~~~F~~~-~i~~v~i~~d~g~~kG~afVeF~s~eda~~Al~~-~g~~i~gR~I~V~~~~~~  154 (232)
                      ..+|||+||| +.++++||+++|++| .|++|.|      ++|||||+|+++++|++||+. |+++|.|+.|+|.++..+
T Consensus        15 ~~~lfV~nL~~~~~~~~~L~~~F~~~G~i~~~~i------~rg~aFV~f~~~~~A~~Ai~~lng~~~~g~~l~V~~a~~~   88 (98)
T d1wf2a_          15 NSRVFIGNLNTLVVKKSDVEAIFSKYGKIVGCSV------HKGFAFVQYVNERNARAAVAGEDGRMIAGQVLDINLAAEP   88 (98)
T ss_dssp             CCCEEEEEECTTTCCHHHHHHSSTTSSCEEEEEE------ETEEEEEEESSHHHHHHHHHTTTTCEETTEECEEEETTSC
T ss_pred             CcEEEEeCCCcccCCHHHHHHHHhhcCCEEEEEE------eCCeEEEEECCHHHHHHHHHHcCCCEECCEEEEEEECCCC
Confidence            4789999996 788999999999999 8999988      468999999999999999997 999999999999999765

>d1wg1a_ d.58.7.1 (A:) Probable RNA-binding protein KIAA1579 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Probable RNA-binding protein KIAA1579
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.71  E-value=1.4e-17  Score=119.74  Aligned_cols=73  Identities=16%  Similarity=0.214  Sum_probs=65.1

Q ss_pred             cEEEEcCCCCCCCHHHHHhccCCCCceEEEEeecCCCCccEEEEEeCCHHHHHHHHHh-CCceeeeeEEEEEecCCCC
Q psy3727          79 HTVHMRGLPFRANERDVADFFRPVVPVHVDIHYENGRPSGEADVDFATHEDAMQAMSK-DRTNMQHRYIELFLNSSSP  155 (232)
Q Consensus        79 ~~vfV~nLp~~~te~dl~~~F~~~~i~~v~i~~d~g~~kG~afVeF~s~eda~~Al~~-~g~~i~gR~I~V~~~~~~~  155 (232)
                      .+|||+|||+++|++||+++|++|.++.+.+    ++++|||||+|+++++|++||+. |+..|+|+.|.|.++....
T Consensus         6 ~~i~V~nLp~~~t~~~l~~lF~~~G~~~~~~----~~~kg~afV~f~~~~~A~~Ai~~ln~~~~~G~~l~V~~a~~~~   79 (88)
T d1wg1a_           6 SGILVKNLPQDSNCQEVHDLLKDYDLKYCYV----DRNKRTAFVTLLNGEQAQNAIQMFHQYSFRGKDLIVQLQPTDA   79 (88)
T ss_dssp             CCEEEESCCSSCCHHHHHHHTCSSCCCCEEE----EGGGTEEEECCSCHHHHHHHHHHHTTEEETTEEEEEEECCCCC
T ss_pred             CEEEEeCCCCccChHHHHHHHHhcCceeeee----eccCCceEEEECCHHHHHHHHHHhCCCEECCEEEEEEEcCCCC
Confidence            6899999999999999999999997554544    35689999999999999999987 9999999999999987653

>d1x4ea1 d.58.7.1 (A:8-79) RNA-binding motif, single-stranded-interacting protein 2, RBMS2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding motif, single-stranded-interacting protein 2, RBMS2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.71  E-value=4.5e-18  Score=117.41  Aligned_cols=67  Identities=19%  Similarity=0.320  Sum_probs=62.9

Q ss_pred             EEEcCCCCCCCHHHHHhccCCC-CceEEEEeecC--CCCccEEEEEeCCHHHHHHHHHh-CCceeeeeEEE
Q psy3727          81 VHMRGLPFRANERDVADFFRPV-VPVHVDIHYEN--GRPSGEADVDFATHEDAMQAMSK-DRTNMQHRYIE  147 (232)
Q Consensus        81 vfV~nLp~~~te~dl~~~F~~~-~i~~v~i~~d~--g~~kG~afVeF~s~eda~~Al~~-~g~~i~gR~I~  147 (232)
                      |||+|||+++|+++|+++|++| .|..+.+.+++  ++++|+|||+|.++++|++||+. |+..|+||.|+
T Consensus         1 lyV~nLp~~~te~~l~~~F~~~G~v~~~~~~~~~~~~~~~g~afV~f~~~~~A~~Ai~~lng~~~~Gr~~k   71 (72)
T d1x4ea1           1 LYIRGLQPGTTDQDLVKLCQPYGKIVSTKAILDKTTNKCKGYGFVDFDSPSAAQKAVTALKASGVQAQMAK   71 (72)
T ss_dssp             EEEESCCTTCCHHHHHTTSTTTSCEEEEEEECCSSSCSCCSEEEEEESCHHHHHHHHHHHHHHTCCEESCC
T ss_pred             CEEeCCCCcCCHHHHHHHHhhhccccccccccccccccccceeEEEECCHHHHHHHHHHhCCCEECCEECc
Confidence            7999999999999999999999 88899998887  89999999999999999999987 99999998763

>d2adca2 d.58.7.1 (A:444-531) Polypyrimidine tract-binding protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Polypyrimidine tract-binding protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.71  E-value=1.3e-17  Score=119.54  Aligned_cols=77  Identities=19%  Similarity=0.318  Sum_probs=67.2

Q ss_pred             CCCCcEEEEcCCCCCCCHHHHHhccCCC-CceEEEEeecCCCCccEEEEEeCCHHHHHHHHHh-CCcee-eeeEEEEEec
Q psy3727          75 GPSRHTVHMRGLPFRANERDVADFFRPV-VPVHVDIHYENGRPSGEADVDFATHEDAMQAMSK-DRTNM-QHRYIELFLN  151 (232)
Q Consensus        75 ~~s~~~vfV~nLp~~~te~dl~~~F~~~-~i~~v~i~~d~g~~kG~afVeF~s~eda~~Al~~-~g~~i-~gR~I~V~~~  151 (232)
                      |++ .+|||+|||+++|+++|+++|++| .|+.+.+...  +.+++|||+|+++++|.+|+.. |+..| +++.|+|.++
T Consensus         8 pPs-~tL~V~NLp~~~te~~l~~~F~~~G~v~~~~~~~~--~~~~~afV~f~~~~~A~~A~~~l~~~~i~~g~~l~v~~s   84 (88)
T d2adca2           8 PPS-ATLHLSNIPPSVSEEDLKVLFSSNGGVVKGFKFFQ--KDRKMALIQMGSVEEAVQALIDLHNHDLGENHHLRVSFS   84 (88)
T ss_dssp             CSC-SEEEEECCCTTCCHHHHHHHHHTTSCCEEEEEECS--SSTTCEEEEESSHHHHHHHHHHHTTCBSSSSCBCEEEEC
T ss_pred             CCC-CEEEEECCCCCCCHHHHHHHhhccCCEEEEEEeee--cccceeEEEECCHHHHHHHHHhccCCEecCCCEEEEEeC
Confidence            445 899999999999999999999999 7887776554  4678999999999999999986 88877 6899999998


Q ss_pred             CCC
Q psy3727         152 SSS  154 (232)
Q Consensus       152 ~~~  154 (232)
                      ++.
T Consensus        85 k~~   87 (88)
T d2adca2          85 KST   87 (88)
T ss_dssp             SSC
T ss_pred             CCC
Confidence            753

>d2cpja1 d.58.7.1 (A:65-150) Non-POU domain-containing octamer-binding protein, NonO {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Non-POU domain-containing octamer-binding protein, NonO
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.70  E-value=2.2e-17  Score=118.16  Aligned_cols=72  Identities=18%  Similarity=0.214  Sum_probs=67.8

Q ss_pred             cEEEEcCCCCCCCHHHHHhccCCC-CceEEEEeecCCCCccEEEEEeCCHHHHHHHHHh-CCceeeeeEEEEEecCCC
Q psy3727          79 HTVHMRGLPFRANERDVADFFRPV-VPVHVDIHYENGRPSGEADVDFATHEDAMQAMSK-DRTNMQHRYIELFLNSSS  154 (232)
Q Consensus        79 ~~vfV~nLp~~~te~dl~~~F~~~-~i~~v~i~~d~g~~kG~afVeF~s~eda~~Al~~-~g~~i~gR~I~V~~~~~~  154 (232)
                      ++|||+|||+++|+++|+++|++| .|.+|.+..+    ++||||+|++.++|++||+. |+..|+|+.|.|.+|...
T Consensus         9 ~~l~V~nLp~~~~~~~l~~~F~~~G~i~~i~~~~~----k~~afV~f~~~~~A~~A~~~l~g~~i~g~~l~V~~A~~~   82 (86)
T d2cpja1           9 SRLFVGNLPPDITEEEMRKLFEKYGKAGEVFIHKD----KGFGFIRLETRTLAEIAKVELDNMPLRGKQLRVRFACHS   82 (86)
T ss_dssp             TEEEEESCCTTCCHHHHHHHTSTTCCCSEEEEETT----TTEEEEECSSSHHHHHHHHHHTTCCBTTBCCEEEESSCC
T ss_pred             CEEEEECCCCCCCHHHHHHHHHHhCCceEeeeecc----cceEEEEECCHHHHHHHHHHhCCCEECCEEEEEEECCCc
Confidence            789999999999999999999999 8999999754    68999999999999999997 999999999999999876

>d1x4ga1 d.58.7.1 (A:8-103) Nucleolysin TIAR {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Nucleolysin TIAR
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.69  E-value=1.9e-17  Score=120.86  Aligned_cols=74  Identities=23%  Similarity=0.362  Sum_probs=68.8

Q ss_pred             CcEEEEcCCCCCCCHHHHHhccCCC-CceEEEEeecCCCCccEEEEEeCCHHHHHHHHHh-CCceeeeeEEEEEecCCCC
Q psy3727          78 RHTVHMRGLPFRANERDVADFFRPV-VPVHVDIHYENGRPSGEADVDFATHEDAMQAMSK-DRTNMQHRYIELFLNSSSP  155 (232)
Q Consensus        78 ~~~vfV~nLp~~~te~dl~~~F~~~-~i~~v~i~~d~g~~kG~afVeF~s~eda~~Al~~-~g~~i~gR~I~V~~~~~~~  155 (232)
                      ..+|||+|||.++|+++|+++|++| .|++|.|+.+    +|||||+|.++++|++||+. |+..|+++.|+|.++...+
T Consensus        18 ~~~l~v~nL~~~~te~~L~~~F~~fG~i~~v~i~~~----kg~afV~f~~~~~A~~Ai~~l~~~~i~g~~l~v~~ak~~p   93 (96)
T d1x4ga1          18 NCTVYCGGIASGLTDQLMRQTFSPFGQIMEIRVFPE----KGYSFVRFSTHESAAHAIVSVNGTTIEGHVVKCYWGKESP   93 (96)
T ss_dssp             CCEEEEECCSSCCCHHHHHHHHHHHSCEEEEEEETT----TTEEEEEESSHHHHHHHHHHHTTCEETTEECEEECCCCCC
T ss_pred             CCEEEEcCCCCCCCHHHHHHHHHHhCCceEEEEEec----ceEEEEEECCHHHHHHHHHHhCCCEECCEEEEEEEcCCCC
Confidence            3799999999999999999999999 8999999865    68999999999999999987 9999999999999987764

>d2cpia1 d.58.7.1 (A:101-189) E3 ubiquitin protein ligase CNOT4 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: E3 ubiquitin protein ligase CNOT4
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.69  E-value=2.2e-17  Score=118.84  Aligned_cols=71  Identities=24%  Similarity=0.347  Sum_probs=64.9

Q ss_pred             cEEEEcCCCCCCCHHHH---HhccCCC-CceEEEEeecC--C---CCccEEEEEeCCHHHHHHHHHh-CCceeeeeEEEE
Q psy3727          79 HTVHMRGLPFRANERDV---ADFFRPV-VPVHVDIHYEN--G---RPSGEADVDFATHEDAMQAMSK-DRTNMQHRYIEL  148 (232)
Q Consensus        79 ~~vfV~nLp~~~te~dl---~~~F~~~-~i~~v~i~~d~--g---~~kG~afVeF~s~eda~~Al~~-~g~~i~gR~I~V  148 (232)
                      .+|||+|||+++|++||   +++|++| .|..|.|+.++  +   .++|||||+|+++++|++||+. |+..|+||.|+|
T Consensus         9 n~vyV~nLp~~~t~~~l~~~~e~F~~~G~I~~v~i~~~~~~~~~~~~~g~aFV~f~~~~~A~~Ai~~lng~~~~gr~lkv   88 (89)
T d2cpia1           9 NLVFVVGLSQRLADPEVLKRPEYFGKFGKIHKVVINNSTSYAGSQGPSASAYVTYIRSEDALRAIQCVNNVVVDGRTLKA   88 (89)
T ss_dssp             SCEEEEEECTTTCCHHHHHSTTTTTTTSCEEEEEEECCSSCCSSSCCCEEEEEEESSHHHHHHHHHHHTTEEETTEEEEE
T ss_pred             CEEEEECCCCccCHHHHHHHHHHhcccCCceEEEEeeccCcCCCCCcceEEEEecccchhHHHHHHHhCCCEECCEEEEE
Confidence            68999999999999999   7899999 89999999886  3   3469999999999999999986 999999999998


Q ss_pred             E
Q psy3727         149 F  149 (232)
Q Consensus       149 ~  149 (232)
                      .
T Consensus        89 S   89 (89)
T d2cpia1          89 S   89 (89)
T ss_dssp             E
T ss_pred             C
Confidence            4

>d1wi6a1 d.58.7.1 (A:69-143) Ribonucleoprotein PTB-binding 1, Raver-1 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Ribonucleoprotein PTB-binding 1, Raver-1
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.69  E-value=4.1e-17  Score=113.81  Aligned_cols=70  Identities=20%  Similarity=0.308  Sum_probs=63.8

Q ss_pred             EEEcCCCCCCCHHHHHhccCCCCceEEEEeecCCCCccEEEEEeCCHHHHHHHHHh-CCceeeeeEEEEEecCCC
Q psy3727          81 VHMRGLPFRANERDVADFFRPVVPVHVDIHYENGRPSGEADVDFATHEDAMQAMSK-DRTNMQHRYIELFLNSSS  154 (232)
Q Consensus        81 vfV~nLp~~~te~dl~~~F~~~~i~~v~i~~d~g~~kG~afVeF~s~eda~~Al~~-~g~~i~gR~I~V~~~~~~  154 (232)
                      |||+|||+++|++||+++|++|.+..+.+    ++++|+|||+|.+.++|++|++. |+..|+|++|.|.++...
T Consensus         1 i~V~nLp~~~t~~~l~~~F~~~g~~~~~~----~~~~g~afv~f~~~~~A~~Ai~~ln~~~~~g~~l~V~~a~~d   71 (75)
T d1wi6a1           1 ILIRGLPGDVTNQEVHDLLSDYELKYCFV----DKYKGTAFVTLLNGEQAEAAINTFHQSRLRERELSVQLQPTD   71 (75)
T ss_dssp             EEEECCCTTCCHHHHHHHTTTSCEEEEEE----ETTTTEEEEEESSHHHHHHHHHHHTTEESSSCEEEEEECCST
T ss_pred             CEEeCCCCcCCHHHHHHHHhcccccceee----cccceeEEEEECCHHHHHHHHHHhCCccCCCCEEEEEEeCCC
Confidence            79999999999999999999998666655    36789999999999999999987 999999999999998664

>d2bz2a1 d.58.7.1 (A:35-113) Negative elongation factor E, NELF-E {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Negative elongation factor E, NELF-E
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.69  E-value=3.6e-17  Score=115.08  Aligned_cols=74  Identities=18%  Similarity=0.240  Sum_probs=67.0

Q ss_pred             CCCcEEEEcCCCCCCCHHHHHhccCCC-CceEEEEeecCCCCccEEEEEeCCHHHHHHHHHh-CCceeeeeEEEEEecCC
Q psy3727          76 PSRHTVHMRGLPFRANERDVADFFRPV-VPVHVDIHYENGRPSGEADVDFATHEDAMQAMSK-DRTNMQHRYIELFLNSS  153 (232)
Q Consensus        76 ~s~~~vfV~nLp~~~te~dl~~~F~~~-~i~~v~i~~d~g~~kG~afVeF~s~eda~~Al~~-~g~~i~gR~I~V~~~~~  153 (232)
                      .+..+|||+||+  +|+++|+++|++| .|++|.+..    .++||||+|++.++|++|++. |+..|+|++|+|.++++
T Consensus         3 ~~~~ti~V~~~~--~te~~L~~~F~~~G~I~~v~~~~----~~~~afV~f~~~~~A~~Ai~~lng~~~~g~~l~V~~a~~   76 (79)
T d2bz2a1           3 RKGNTLYVYGED--MTPTLLRGAFSPFGNIIDLSMDP----PRNCAFVTYEKMESADQAVAELNGTQVESVQLKVNIARK   76 (79)
T ss_dssp             CCCCEEEEECSS--CCHHHHHHHHSTTCCCSCEEEET----TTTEEEEECSSHHHHHHHHHHHTTCBCSSCBCEEEECCS
T ss_pred             CCCCEEEEECCC--CCHHHHHHHHhccCccceeeecc----CCCEEEEEEcccHHHHHHHHHhCCCEECCEEEEEEEecC
Confidence            345899999986  8999999999999 899998864    568999999999999999987 99999999999999987


Q ss_pred             CC
Q psy3727         154 SP  155 (232)
Q Consensus       154 ~~  155 (232)
                      +|
T Consensus        77 ~P   78 (79)
T d2bz2a1          77 QP   78 (79)
T ss_dssp             SC
T ss_pred             CC
Confidence            64

>d1fjca_ d.58.7.1 (A:) Nucleolin {Golden hamster (Mesocricetus auratus) [TaxId: 10036]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Nucleolin
species: Golden hamster (Mesocricetus auratus) [TaxId: 10036]

Probab=99.68  E-value=3.1e-17  Score=119.47  Aligned_cols=74  Identities=19%  Similarity=0.398  Sum_probs=66.2

Q ss_pred             CcEEEEcCCCCCCCHHHHHhccCCC-CceEEEEeecCCCCccEEEEEeCCHHHHHHHHHh-CCceeeeeEEEEEecCCC
Q psy3727          78 RHTVHMRGLPFRANERDVADFFRPV-VPVHVDIHYENGRPSGEADVDFATHEDAMQAMSK-DRTNMQHRYIELFLNSSS  154 (232)
Q Consensus        78 ~~~vfV~nLp~~~te~dl~~~F~~~-~i~~v~i~~d~g~~kG~afVeF~s~eda~~Al~~-~g~~i~gR~I~V~~~~~~  154 (232)
                      ..+|||+|||+++|++||+++|++| .|..+   ...+++++||||+|.+.++|++||+. |+..|+||.|.|.++.++
T Consensus        16 ~~~l~V~nL~~~~te~~l~~~F~~~g~v~~~---~~~~~~~~~afV~f~~~~~A~~A~~~l~~~~~~gr~i~V~~a~~k   91 (96)
T d1fjca_          16 ARTLLAKNLSFNITEDELKEVFEDALEIRLV---SQDGKSKGIAYIEFKSEADAEKNLEEKQGAEIDGRSVSLYYTGEK   91 (96)
T ss_dssp             GGEEEEESCCSSCCHHHHHHHHCSEEEECCE---EETTEEEEEEEEEESSHHHHHHHHHHTTEEEETTEEEEEEECSSS
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHhcccceee---eecCccccEEEEEeCCHHHHHHHHHHcCCCEECCEEEEEEEeCCC
Confidence            4899999999999999999999998 44333   23478899999999999999999986 999999999999999887

>d3begb1 d.58.7.1 (B:121-207) Splicing factor, arginine/serine-rich 1, SFRS1 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Splicing factor, arginine/serine-rich 1, SFRS1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.68  E-value=3.9e-18  Score=122.28  Aligned_cols=71  Identities=25%  Similarity=0.290  Sum_probs=64.0

Q ss_pred             cEEEEcCCCCCCCHHHHHhccCCC-CceEEEEeecCCCCccEEEEEeCCHHHHHHHHHh-CCceeeeeEEEEEecCCC
Q psy3727          79 HTVHMRGLPFRANERDVADFFRPV-VPVHVDIHYENGRPSGEADVDFATHEDAMQAMSK-DRTNMQHRYIELFLNSSS  154 (232)
Q Consensus        79 ~~vfV~nLp~~~te~dl~~~F~~~-~i~~v~i~~d~g~~kG~afVeF~s~eda~~Al~~-~g~~i~gR~I~V~~~~~~  154 (232)
                      ++|||+|||+++|++||+++|++| .|+.|.|..     +|||||+|++.++|++||++ |+..|.++.|.|.++..+
T Consensus         1 nrvfV~nlp~~~~~~~l~~~F~~~G~v~~~~i~~-----~g~afV~f~~~~~a~~Ai~~l~g~~~~g~~i~v~~~~~~   73 (87)
T d3begb1           1 NRVVVSGLPPSGSWQDLKDHMREAGDVCYADVYR-----DGTGVVEFVRKEDMTYAVRKLDNTKFRSHEGETAYIRVK   73 (87)
T ss_dssp             CCEEEEECCSSCCTTHHHHHHGGGSCEEEEEECT-----TSEEEEEESSHHHHHHHHHHHTTCBCCCTTSCCCBCEEE
T ss_pred             CeEEEECCCCcCCHHHHHHHHhhhcccccccccc-----cceeeEEeCCHHHHHHHHHHhCCCEECCcEeEEeEEecC
Confidence            469999999999999999999999 888998864     38999999999999999986 999999999888776544

>d2cpda1 d.58.7.1 (A:223-308) APOBEC1 stimulating protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: APOBEC1 stimulating protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.68  E-value=7.5e-17  Score=114.97  Aligned_cols=73  Identities=21%  Similarity=0.248  Sum_probs=65.5

Q ss_pred             cEEEEcCCCCCCCHHHHHhccCCC-CceEEEEeecCCCCccEEEEEeCCHHHHHHHHHh-CCceeeeeEEEEEecCCCC
Q psy3727          79 HTVHMRGLPFRANERDVADFFRPV-VPVHVDIHYENGRPSGEADVDFATHEDAMQAMSK-DRTNMQHRYIELFLNSSSP  155 (232)
Q Consensus        79 ~~vfV~nLp~~~te~dl~~~F~~~-~i~~v~i~~d~g~~kG~afVeF~s~eda~~Al~~-~g~~i~gR~I~V~~~~~~~  155 (232)
                      .+|||+|||+++|+++|+++|++| .+..+.+.    +++|||||+|.++++|++||+. |+..|+|+.|.|.++.++.
T Consensus         9 k~l~V~nLp~~~te~~l~~~F~~~g~i~~~~~~----~~rg~afV~f~~~~~A~~Ai~~l~~~~i~g~~i~V~~akP~~   83 (86)
T d2cpda1           9 KILYVRNLMLSTSEEMIEKEFNNIKPGAVERVK----KIRDYAFVHFSNREDAVEAMKALNGKVLDGSPIEVTLAKPVD   83 (86)
T ss_dssp             CEEEEESCCTTCCHHHHHHHHHTTSTTCEEEEE----ECSSEEEEEESSHHHHHHHHHHHSSEEETTEEEEEECCCCCC
T ss_pred             CEEEEcCCCCCCCHHHHHHhhcccceeeeEEEc----cccEEEEEEeCCHHHHHHHHHHcCCCEECCEEEEEEeccCCC
Confidence            789999999999999999999999 55555553    4678999999999999999997 9999999999999998764

>d1whxa_ d.58.7.1 (A:) Probable RNA-binding protein 19, Rbm19 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Probable RNA-binding protein 19, Rbm19
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.68  E-value=1.7e-17  Score=123.43  Aligned_cols=73  Identities=15%  Similarity=0.144  Sum_probs=67.3

Q ss_pred             CcEEEEcCCCCCCCHHHHHhccCCC-CceEEEEeecCCCCccEEEEEeCCHHHHHHHHHh-CCceeeeeEEEEEecCCC
Q psy3727          78 RHTVHMRGLPFRANERDVADFFRPV-VPVHVDIHYENGRPSGEADVDFATHEDAMQAMSK-DRTNMQHRYIELFLNSSS  154 (232)
Q Consensus        78 ~~~vfV~nLp~~~te~dl~~~F~~~-~i~~v~i~~d~g~~kG~afVeF~s~eda~~Al~~-~g~~i~gR~I~V~~~~~~  154 (232)
                      .++|||+|||+++|+++|+++|++| .|+.|.|.    +.+|||||+|.++++|++||+. |+..|.++.|.|.++...
T Consensus        10 ~~~l~V~nLp~~~t~~~L~~~F~~fG~I~~v~l~----~~kg~afV~f~~~~~A~~A~~~lng~~~~gr~l~v~~a~~~   84 (111)
T d1whxa_          10 KTVILAKNLPAGTLAAEIQETFSRFGSLGRVLLP----EGGITAIVEFLEPLEARKAFRHLAYSKFHHVPLYLEWAPIG   84 (111)
T ss_dssp             EEEEEEESCCTTCCHHHHHHHHHTTSCEEEEECC----SSSSCEEEEESCHHHHHHHHHHHTTCBSSSSBCEEEEEETT
T ss_pred             CCEEEEECCCCCCCHHHHHhhhhccCCccEEEee----ccCceEEEEEcCHHHHHHHHHHHcCCccCCCeEEEEECCCC
Confidence            5899999999999999999999999 89898874    4678999999999999999997 999999999999988665

>d2b0ga1 d.58.7.1 (A:1-83) Splicesomal U1A protein {Drosophila melanogaster [TaxId: 7227]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Splicesomal U1A protein
species: Drosophila melanogaster [TaxId: 7227]

Probab=99.67  E-value=7.2e-17  Score=114.46  Aligned_cols=74  Identities=16%  Similarity=0.179  Sum_probs=66.3

Q ss_pred             CCCCcEEEEcCCCCCCCHHHHHhccCCC-CceEEEEeecCCCCccEEEEEeCCHHHHHHHHHh-CCcee-eeeEEEEEec
Q psy3727          75 GPSRHTVHMRGLPFRANERDVADFFRPV-VPVHVDIHYENGRPSGEADVDFATHEDAMQAMSK-DRTNM-QHRYIELFLN  151 (232)
Q Consensus        75 ~~s~~~vfV~nLp~~~te~dl~~~F~~~-~i~~v~i~~d~g~~kG~afVeF~s~eda~~Al~~-~g~~i-~gR~I~V~~~  151 (232)
                      +++ .+|||+|||+++|+++|+++|++| .|+.|.|+.+   .+|||||+|++.++|++|++. |+..| +++.|.|.+|
T Consensus         6 pP~-~tl~V~nLp~~~t~~~l~~~f~~~G~i~~v~~~~~---~~g~afV~f~~~~~A~~A~~~l~g~~~~~~~~i~v~~a   81 (83)
T d2b0ga1           6 PPN-QILFLTNLPEETNEMMLSMLFNQFPGFKEVRLVPN---RHDIAFVEFTTELQSNAAKEALQGFKITPTHAMKITFA   81 (83)
T ss_dssp             SCC-SEEEEESCCTTCCHHHHHHHHTTSTTEEEEEECTT---TCSCEEEEESSHHHHHHHHHHHTTCBSSTTCBCEEEEC
T ss_pred             CCC-CEEEEECCCCCCCHHHHHhhhccCccEEEeeeecc---cceeEEEecCCHHHHHHHHHHhCCcEeCCCcEEEEEEe
Confidence            444 899999999999999999999999 8899999765   468999999999999999997 88887 5689999988


Q ss_pred             C
Q psy3727         152 S  152 (232)
Q Consensus       152 ~  152 (232)
                      +
T Consensus        82 k   82 (83)
T d2b0ga1          82 K   82 (83)
T ss_dssp             C
T ss_pred             c
Confidence            6

>d1whya_ d.58.7.1 (A:) Putative RNA-binding protein 15B, Rbm15b {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Putative RNA-binding protein 15B, Rbm15b
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.66  E-value=1.6e-16  Score=115.89  Aligned_cols=77  Identities=16%  Similarity=0.151  Sum_probs=68.2

Q ss_pred             CCCCCCcEEEEcCCCCCCCHHHHHhccCCC-CceEEEEeecCCCCccEEEEEeCCHHHHHHHHHh-CCceeee--eEEEE
Q psy3727          73 SSGPSRHTVHMRGLPFRANERDVADFFRPV-VPVHVDIHYENGRPSGEADVDFATHEDAMQAMSK-DRTNMQH--RYIEL  148 (232)
Q Consensus        73 ~~~~s~~~vfV~nLp~~~te~dl~~~F~~~-~i~~v~i~~d~g~~kG~afVeF~s~eda~~Al~~-~g~~i~g--R~I~V  148 (232)
                      .++++ ++|||+|||+++|+++|+++|++| .|+.|.|..+    +++|||+|++.++|++|++. |+..|.+  +.|+|
T Consensus        13 ~~~Ps-~tl~V~nLp~~~t~~~l~~~f~~~G~i~~~~~~~~----~~~afV~f~~~~~A~~A~~~l~~~~i~g~~~~l~v   87 (97)
T d1whya_          13 KANPT-TRLWVGGLGPNTSLAALAREFDRFGSIRTIDHVKG----DSFAYIQYESLDAAQAACAKMRGFPLGGPDRRLRV   87 (97)
T ss_dssp             CCCCC-SCEEEECCCSSCCHHHHHHHHHTTSCEEEEEECSS----SCCEEEEESSHHHHHHHHHHHTTCBCSSSSCBCEE
T ss_pred             CCCCC-CEEEEcCCCCCCCHHHHHHHHHhhcccceEeeecc----ccEEEeccCCHHHHHHHHHHhCCCEeCCCceEEEE
Confidence            34455 899999999999999999999999 8889988754    67999999999999999997 9999976  57999


Q ss_pred             EecCCC
Q psy3727         149 FLNSSS  154 (232)
Q Consensus       149 ~~~~~~  154 (232)
                      .+++..
T Consensus        88 ~~ak~~   93 (97)
T d1whya_          88 DFAKSG   93 (97)
T ss_dssp             EECCCC
T ss_pred             EeCCCC
Confidence            998776

>d2disa1 d.58.7.1 (A:8-103) Hypothetical protein FLJ20273 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Hypothetical protein FLJ20273
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.66  E-value=2.8e-17  Score=119.69  Aligned_cols=78  Identities=17%  Similarity=0.166  Sum_probs=68.7

Q ss_pred             CcEEEEcCCCCCCCHHHHHhccCCC-C-ceEEEEeecC---CCCccEEEEEeCCHHHHHHHHHh-C--CceeeeeEEEEE
Q psy3727          78 RHTVHMRGLPFRANERDVADFFRPV-V-PVHVDIHYEN---GRPSGEADVDFATHEDAMQAMSK-D--RTNMQHRYIELF  149 (232)
Q Consensus        78 ~~~vfV~nLp~~~te~dl~~~F~~~-~-i~~v~i~~d~---g~~kG~afVeF~s~eda~~Al~~-~--g~~i~gR~I~V~  149 (232)
                      ++.|||+|||.++|+++|+++|++| . |..|.|+.+.   ++++|||||+|.++++|..||+. +  ...+.++.|.|.
T Consensus         1 n~rLyV~nLp~~~te~~l~~~f~~~g~~i~~v~~~~~~~~~~~~rg~aFV~F~~~~~A~~Ai~~l~~~~~~~~g~~i~V~   80 (96)
T d2disa1           1 NCRLFIGGIPKMKKREEILEEIAKVTEGVLDVIVYASAADKMKNRGFAFVEYESHRAAAMARRKLMPGRIQLWGHQIAVD   80 (96)
T ss_dssp             SEEEEEECCCTTSCHHHHHHHHHHHSTTEEEEECCSSSCTTTTTCCEEEEEESSHHHHHHHHTTTTTCCSCBTTBCCEEE
T ss_pred             CCEEEEcCCCCcCCHHHHHHHHHHhCCcceEEEEeeeccccccCCCeEEEEEcCHHHHHHHHHHHcCCCeEECCEEEEEE
Confidence            3789999999999999999999999 4 7789998764   78999999999999999999986 4  446679999999


Q ss_pred             ecCCCC
Q psy3727         150 LNSSSP  155 (232)
Q Consensus       150 ~~~~~~  155 (232)
                      ++.+++
T Consensus        81 ~A~p~~   86 (96)
T d2disa1          81 WAEPEI   86 (96)
T ss_dssp             ESCSSC
T ss_pred             EcCCCC
Confidence            998763

>d2cqha1 d.58.7.1 (A:2-81) IGF-II mRNA-binding protein 2 isoform A {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: IGF-II mRNA-binding protein 2 isoform A
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.66  E-value=1.8e-17  Score=117.04  Aligned_cols=73  Identities=18%  Similarity=0.265  Sum_probs=63.7

Q ss_pred             cEEEEcCCCCCCCHHHHHhccCCC-CceEEEEeecCCCCccEEEEEeCCHHHHHHHHHh-CCc-eeeeeEEEEEecCCCC
Q psy3727          79 HTVHMRGLPFRANERDVADFFRPV-VPVHVDIHYENGRPSGEADVDFATHEDAMQAMSK-DRT-NMQHRYIELFLNSSSP  155 (232)
Q Consensus        79 ~~vfV~nLp~~~te~dl~~~F~~~-~i~~v~i~~d~g~~kG~afVeF~s~eda~~Al~~-~g~-~i~gR~I~V~~~~~~~  155 (232)
                      ++|||+|||+++|+++|+++|++| .|+.+.+.    +++|||||+|.++++|++||+. |+. .|+|+.|.|.++.++.
T Consensus         2 n~l~V~nLp~~~te~~L~~~F~~~G~i~~~~~~----~~rg~aFV~f~~~~~A~~Ai~~lng~~~~~G~~i~V~~a~~k~   77 (80)
T d2cqha1           2 NKLYIGNLSPAVTADDLRQLFGDRKLPLAGQVL----LKSGYAFVDYPDQNWAIRAIETLSGKVELHGKIMEVDYSVSKK   77 (80)
T ss_dssp             CCEEEECCCTTCCHHHHHHHHHHTTCCCSSCEE----EETTEEEECCSCHHHHHHHHHHHTTTCEETTEECEEEECCCCC
T ss_pred             CEEEEECCCCCCCHHHHHHHHHHhCcEEEeEEe----cccceEEEEECCHHHHHHHHHHhCCCeEECCEEEEEEEcCCcC
Confidence            469999999999999999999999 55555554    3578999999999999999987 875 6999999999998863

>d2cq1a1 d.58.7.1 (A:51-138) Polypyrimidine tract-binding protein 2, PTBP2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Polypyrimidine tract-binding protein 2, PTBP2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.66  E-value=3.3e-16  Score=112.12  Aligned_cols=75  Identities=20%  Similarity=0.276  Sum_probs=67.5

Q ss_pred             CCCCcEEEEcCCCCCCCHHHHHhccCCC-CceEEEEeecCCCCccEEEEEeCCHHHHHHHHHh---CCceeeeeEEEEEe
Q psy3727          75 GPSRHTVHMRGLPFRANERDVADFFRPV-VPVHVDIHYENGRPSGEADVDFATHEDAMQAMSK---DRTNMQHRYIELFL  150 (232)
Q Consensus        75 ~~s~~~vfV~nLp~~~te~dl~~~F~~~-~i~~v~i~~d~g~~kG~afVeF~s~eda~~Al~~---~g~~i~gR~I~V~~  150 (232)
                      +++ .+|||+|||+++|+++|+++|++| .|..|.+..    .+++|||+|++.++|++|++.   +...|.||.|+|.+
T Consensus         6 ~Ps-~~l~V~nLp~~~t~~~L~~~f~~~G~i~~v~~~~----~~~~afV~f~~~e~A~~a~~~~~~~~~~~~g~~l~v~~   80 (88)
T d2cq1a1           6 APS-RVLHIRKLPGEVTETEVIALGLPFGKVTNILMLK----GKNQAFLELATEEAAITMVNYYSAVTPHLRNQPIYIQY   80 (88)
T ss_dssp             SCC-SEEEEESCCTTCCHHHHHHTTTTTSCEEEEEEET----TTTEEEEEESSHHHHHHHHHHHHHSCCEETTEECEEEE
T ss_pred             CCC-CEEEEeCCCCCCCHHHHHHHHhcccccccccccc----cceEEEEEeCCHHHHHHHHHHHccCCCccCCCEEEEEE
Confidence            345 999999999999999999999999 888998874    467999999999999999984   78899999999999


Q ss_pred             cCCC
Q psy3727         151 NSSS  154 (232)
Q Consensus       151 ~~~~  154 (232)
                      +..+
T Consensus        81 sk~~   84 (88)
T d2cq1a1          81 SNHK   84 (88)
T ss_dssp             CSCS
T ss_pred             CCCC
Confidence            8765

>d2adca1 d.58.7.1 (A:335-443) Polypyrimidine tract-binding protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Polypyrimidine tract-binding protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.65  E-value=6.6e-17  Score=119.86  Aligned_cols=73  Identities=19%  Similarity=0.212  Sum_probs=67.1

Q ss_pred             cEEEEcCCCC-CCCHHHHHhccCCC-CceEEEEeecCCCCccEEEEEeCCHHHHHHHHHh-CCceeeeeEEEEEecCCC
Q psy3727          79 HTVHMRGLPF-RANERDVADFFRPV-VPVHVDIHYENGRPSGEADVDFATHEDAMQAMSK-DRTNMQHRYIELFLNSSS  154 (232)
Q Consensus        79 ~~vfV~nLp~-~~te~dl~~~F~~~-~i~~v~i~~d~g~~kG~afVeF~s~eda~~Al~~-~g~~i~gR~I~V~~~~~~  154 (232)
                      .+|||+|||+ .+|+++|+++|+.| .|+.|.|+.++   +|+|||+|+++++|++||+. |+..|.|+.|+|.++...
T Consensus         3 ~~l~V~nL~p~~~te~~L~~~F~~fG~I~~v~i~~~~---kg~afV~f~~~~~A~~ai~~lng~~l~g~~l~v~~s~~~   78 (109)
T d2adca1           3 SVLLVSNLNPERVTPQSLFILFGVYGDVQRVKILFNK---KENALVQMADGNQAQLAMSHLNGHKLHGKPIRITLSKHQ   78 (109)
T ss_dssp             SEEEEESCCTTTCCHHHHHHHHHHHTCEEEEEECCTT---SCCEEEEESCHHHHHHHHHHHTTCBCSSSBCEEECCSCC
T ss_pred             CEEEEeCCCcccCCHHHHHHHHhhccccceEEEEecc---cceEEEEECCHHHHHHHHHHhCCCEECCEEEEEEECCCC
Confidence            7999999955 69999999999999 99999998873   78999999999999999997 999999999999998654

>d1nu4a_ d.58.7.1 (A:) Splicesomal U1A protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Splicesomal U1A protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.65  E-value=6.1e-17  Score=116.80  Aligned_cols=75  Identities=13%  Similarity=0.186  Sum_probs=67.0

Q ss_pred             cEEEEcCCCCCCCHHHHHh----ccCCC-CceEEEEeecCCCCccEEEEEeCCHHHHHHHHHh-CCceeeeeEEEEEecC
Q psy3727          79 HTVHMRGLPFRANERDVAD----FFRPV-VPVHVDIHYENGRPSGEADVDFATHEDAMQAMSK-DRTNMQHRYIELFLNS  152 (232)
Q Consensus        79 ~~vfV~nLp~~~te~dl~~----~F~~~-~i~~v~i~~d~g~~kG~afVeF~s~eda~~Al~~-~g~~i~gR~I~V~~~~  152 (232)
                      ++|||+|||+++|++||++    +|++| +|+.|.+..+ ++++|||||+|++.++|++|++. |+..|+++.|.|.++.
T Consensus         4 ~tl~V~nLp~~~t~~dl~~~l~~~f~~~G~i~~i~~~~~-~~~~g~afV~F~~~~~A~~A~~~~~~~~~~g~~l~v~~ak   82 (91)
T d1nu4a_           4 HTIYINNLNEKIKKDELKKSLHAIFSRFGQILDILVSRS-LKMRGQAFVIFKEVSSATNALRSMQGFPFYDKPMRIQYAK   82 (91)
T ss_dssp             SEEEEESCCTTSCHHHHHHHHHHHHGGGSCEEEEECCHH-HHHTTCEEEEESSHHHHHHHHHHHTTCEETTEECEEEECS
T ss_pred             CEEEEeCCCCCCCHHHHHHHHHHHhcccccccceEEeee-ccCCCceEEEECCHHHHHHHHHHhCCCEECCEEEEEEEeC
Confidence            8999999999999999865    57899 8888877543 67889999999999999999987 9999999999999998


Q ss_pred             CC
Q psy3727         153 SS  154 (232)
Q Consensus       153 ~~  154 (232)
                      ++
T Consensus        83 ~~   84 (91)
T d1nu4a_          83 TD   84 (91)
T ss_dssp             SC
T ss_pred             CC
Confidence            76

>d2adba1 d.58.7.1 (A:177-284) Polypyrimidine tract-binding protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Polypyrimidine tract-binding protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.64  E-value=1.1e-16  Score=118.98  Aligned_cols=74  Identities=11%  Similarity=0.092  Sum_probs=66.9

Q ss_pred             cEEEEcCCCCCCCHHHHHhccCCC-CceEEEEeecCCCCccEEEEEeCCHHHHHHHHHh-CCcee--eeeEEEEEecCCC
Q psy3727          79 HTVHMRGLPFRANERDVADFFRPV-VPVHVDIHYENGRPSGEADVDFATHEDAMQAMSK-DRTNM--QHRYIELFLNSSS  154 (232)
Q Consensus        79 ~~vfV~nLp~~~te~dl~~~F~~~-~i~~v~i~~d~g~~kG~afVeF~s~eda~~Al~~-~g~~i--~gR~I~V~~~~~~  154 (232)
                      .+|||+|||+++|+++|+++|++| .|+.|.|..+  +.+|+|||+|+++++|++||+. |+..|  .++.|+|.++...
T Consensus         8 ~~v~V~NL~~~vte~~L~~~F~~~G~i~~~~i~~~--~~~g~aFV~f~~~e~A~~Ai~~ln~~~l~~~~~~l~v~~s~~~   85 (108)
T d2adba1           8 LRIIVENLFYPVTLDVLHQIFSKFGTVLKIITFTK--NNQFQALLQYADPVSAQHAKLSLDGQNIYNACCTLRIDFSKLT   85 (108)
T ss_dssp             EEEESCSCCSTTHHHHHHHHHTTTSCEEEEEEEEE--TTEEEEEEEESCHHHHHHHHHHHHSCCSSTTCCCCEEEECSSC
T ss_pred             EEEEEeCcCCCCCHHHHHHHHccCCcEEEEEEEee--CCCCeEEEEECCHHHHHHHHHHHCCCEeccCCcEEEEEecCCc
Confidence            679999999999999999999999 8889999876  4689999999999999999997 88887  5788999988765

>d1wexa_ d.58.7.1 (A:) Heterogeneous nuclear ribonucleoprotein L-like {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Heterogeneous nuclear ribonucleoprotein L-like
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.61  E-value=3.7e-15  Score=109.86  Aligned_cols=76  Identities=18%  Similarity=0.128  Sum_probs=67.4

Q ss_pred             CCCCcEEEEcCCCCCCCHHHHHhccCCC-CceEEEEeecCCCCccEEEEEeCCHHHHHHHHHh---CCceeeeeEEEEEe
Q psy3727          75 GPSRHTVHMRGLPFRANERDVADFFRPV-VPVHVDIHYENGRPSGEADVDFATHEDAMQAMSK---DRTNMQHRYIELFL  150 (232)
Q Consensus        75 ~~s~~~vfV~nLp~~~te~dl~~~F~~~-~i~~v~i~~d~g~~kG~afVeF~s~eda~~Al~~---~g~~i~gR~I~V~~  150 (232)
                      +++ .+|||+|||+++||+||+++|++| .|+.|.|..    .|++|||+|++.++|++||+.   +...+.+++|+|.+
T Consensus        13 ~ps-~~l~v~nlp~~~te~~l~~~F~~fG~I~~~~~~~----~k~~AfV~f~~~e~A~~ai~~~~~~~~~~~g~~l~v~~   87 (104)
T d1wexa_          13 SVS-PVVHVRGLCESVVEADLVEALEKFGTICYVMMMP----FKRQALVEFENIDSAKECVTFAADVPVYIAGQQAFFNY   87 (104)
T ss_dssp             CCC-SEEEEESCCSSCCHHHHHHHHTTTSCEEEEEEET----TTTEEEEEESSHHHHHHHHHHHHHSCCBSSSSBCEEEE
T ss_pred             CCC-CEEEEeCCCCCCCHHHHHHhhhhcccceEEEEEe----cceeEEEEeCCHHHHHHHHHHHcCCCcEEeeEEEEEEE
Confidence            344 899999999999999999999999 888998864    578999999999999999984   66788999999999


Q ss_pred             cCCCC
Q psy3727         151 NSSSP  155 (232)
Q Consensus       151 ~~~~~  155 (232)
                      ++.++
T Consensus        88 s~~~~   92 (104)
T d1wexa_          88 STSKR   92 (104)
T ss_dssp             CSSSS
T ss_pred             cCCCc
Confidence            97763

>d1u1qa_ d.58.7.1 (A:) Nuclear ribonucleoprotein A1 (RNP A1, UP1) {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Nuclear ribonucleoprotein A1 (RNP A1, UP1)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.61  E-value=5e-16  Score=124.16  Aligned_cols=77  Identities=17%  Similarity=0.248  Sum_probs=72.5

Q ss_pred             CcEEEEcCCCCCCCHHHHHhccCCC-CceEEEEeecC--CCCccEEEEEeCCHHHHHHHHHhCCceeeeeEEEEEecCCC
Q psy3727          78 RHTVHMRGLPFRANERDVADFFRPV-VPVHVDIHYEN--GRPSGEADVDFATHEDAMQAMSKDRTNMQHRYIELFLNSSS  154 (232)
Q Consensus        78 ~~~vfV~nLp~~~te~dl~~~F~~~-~i~~v~i~~d~--g~~kG~afVeF~s~eda~~Al~~~g~~i~gR~I~V~~~~~~  154 (232)
                      ..+|||+|||+++|+++|+++|+.| .|..|.|+.+.  ++++|+|||+|.++++|++||+++++.|+|+.|+|.+|.++
T Consensus        97 ~~~i~V~~lp~~~te~~L~~~f~~~G~v~~~~i~~~~~~~~~~g~~fV~f~~~e~A~~Al~~~~~~~~G~~i~V~~A~~k  176 (183)
T d1u1qa_          97 VKKIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKIVIQKYHTVNGHNCEVRKALSK  176 (183)
T ss_dssp             CSEEEEECCCTTCCHHHHHHHHGGGSCEEEEEEEECTTTCCEEEEEEEEESCHHHHHHHHTSSCEEETTEEEEEEECCCH
T ss_pred             cceeEEccCCCcCCHHHHhhhhccCCceeeeeeecccccCccceeEEEEECCHHHHHHHHHhCCCeECCEEEEEEecCCc
Confidence            4899999999999999999999999 88999999887  89999999999999999999988889999999999998765

>d1x4fa1 d.58.7.1 (A:8-106) Matrin 3 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Matrin 3
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.61  E-value=1.7e-15  Score=110.90  Aligned_cols=73  Identities=21%  Similarity=0.266  Sum_probs=66.1

Q ss_pred             CcEEEEcCCCCC-CCHHHHHhccCCC-CceEEEEeecCCCCccEEEEEeCCHHHHHHHHH---hCCceeeeeEEEEEecC
Q psy3727          78 RHTVHMRGLPFR-ANERDVADFFRPV-VPVHVDIHYENGRPSGEADVDFATHEDAMQAMS---KDRTNMQHRYIELFLNS  152 (232)
Q Consensus        78 ~~~vfV~nLp~~-~te~dl~~~F~~~-~i~~v~i~~d~g~~kG~afVeF~s~eda~~Al~---~~g~~i~gR~I~V~~~~  152 (232)
                      ..+|||+|||++ +|+++|.++|+.| .|++|.|..    .+++|||+|++.++|.+||+   .++..|+||.|.|.++.
T Consensus        18 ~~~l~v~nLp~~~~te~~l~~~F~~fG~V~~v~~~~----~k~~afV~f~~~~~A~~Ai~~~~~~~~~~~gr~l~V~~s~   93 (99)
T d1x4fa1          18 GRVIHLSNLPHSGYSDSAVLKLAEPYGKIKNYILMR----MKSQAFIEMETREDAMAMVDHCLKKALWFQGRCVKVDLSE   93 (99)
T ss_dssp             CCEEEEESCCCSSCCSHHHHTTTTTTSCCSEEEEET----TTTEEEEECSSHHHHHHHHHHHHHSCCCSSSSCCEEEEEC
T ss_pred             CCEEEEeCCcCCccCHHHHHhhhccccceeEEEEee----cCCcEEEEecchHHHHHHHHHHhcCCceECCEEEEEEEcC
Confidence            489999999996 8999999999999 899999975    46899999999999999997   38889999999999987


Q ss_pred             CC
Q psy3727         153 SS  154 (232)
Q Consensus       153 ~~  154 (232)
                      ..
T Consensus        94 ~~   95 (99)
T d1x4fa1          94 KY   95 (99)
T ss_dssp             SC
T ss_pred             Cc
Confidence            65

>d1u2fa_ d.58.7.1 (A:) Splicing factor U2AF 65 KDa subunit {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Splicing factor U2AF 65 KDa subunit
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.59  E-value=7.4e-18  Score=121.29  Aligned_cols=74  Identities=18%  Similarity=0.236  Sum_probs=62.0

Q ss_pred             cEEEEcCCCCCCCHHHHHhccCCC-CceEEEEe-----ec-C-CCCccEEEEEeCCHHHHHHHHHhCCceeeeeEEEEEe
Q psy3727          79 HTVHMRGLPFRANERDVADFFRPV-VPVHVDIH-----YE-N-GRPSGEADVDFATHEDAMQAMSKDRTNMQHRYIELFL  150 (232)
Q Consensus        79 ~~vfV~nLp~~~te~dl~~~F~~~-~i~~v~i~-----~d-~-g~~kG~afVeF~s~eda~~Al~~~g~~i~gR~I~V~~  150 (232)
                      .+|||+|||+++||++|+++|++| .+..+.+.     .+ . ++++|||||+|+++|+|++|+++|+..|.||.|+|..
T Consensus         2 RrlyVgNLp~~~te~~l~~~F~~~g~~~~~~~~~~~~~~~~~~~~~kg~afV~f~~~e~a~~a~~l~g~~~~Gr~l~V~r   81 (90)
T d1u2fa_           2 RRLYVGNIPFGITEEAMMDFFNAQMRLGGLTQAPGNPVLAVQINQDKNFAFLEFRSVDETTQAMAFDGIIFQGQSLKIRR   81 (90)
T ss_dssp             CEEEECSCCTTCCTTHHHHHHHHHHTTTTSCCSSSCSEEECCEETTTTEEEEEESSCTTTTTGGGGSSCCSSSSCCCCBC
T ss_pred             CEEEEcCCCCccchHHHHHHHHhhCcEEEEEEeccceeeecccCCCceEEEEEeCCHHHHHHHHhhCCcEECCEEEEECC
Confidence            689999999999999999999976 44433321     22 2 7899999999999999999998899999999999975


Q ss_pred             cC
Q psy3727         151 NS  152 (232)
Q Consensus       151 ~~  152 (232)
                      +.
T Consensus        82 ~k   83 (90)
T d1u2fa_          82 PH   83 (90)
T ss_dssp             TT
T ss_pred             CC
Confidence            33

>d1x4da1 d.58.7.1 (A:8-96) Matrin 3 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Matrin 3
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.52  E-value=1.8e-14  Score=103.40  Aligned_cols=73  Identities=21%  Similarity=0.205  Sum_probs=65.6

Q ss_pred             CcEEEEcCCCCC-CCHHHHHhccCCC-CceEEEEeecCCCCccEEEEEeCCHHHHHHHHHh---CCceeeeeEEEEEecC
Q psy3727          78 RHTVHMRGLPFR-ANERDVADFFRPV-VPVHVDIHYENGRPSGEADVDFATHEDAMQAMSK---DRTNMQHRYIELFLNS  152 (232)
Q Consensus        78 ~~~vfV~nLp~~-~te~dl~~~F~~~-~i~~v~i~~d~g~~kG~afVeF~s~eda~~Al~~---~g~~i~gR~I~V~~~~  152 (232)
                      ..+|||+|||.. +|++||.++|++| .|+.|.|..+    +++|||+|++.++|++|++.   +...+.||+|.|.++.
T Consensus         8 sr~v~v~nl~~~~~t~~eL~~lF~~fG~I~~i~i~~~----k~~afV~f~~~~~A~~A~~~l~~~~~~~~gr~l~V~~s~   83 (89)
T d1x4da1           8 RRVVHIMDFQRGKNLRYQLLQLVEPFGVISNHLILNK----INEAFIEMATTEDAQAAVDYYTTTPALVFGKPVRVHLSQ   83 (89)
T ss_dssp             CCEEEEESCCCSSSHHHHHHTTTGGGSCEEEEEECSS----SSCEEEEESSHHHHHHHHHHHHHSCCEETTEECEEEEEC
T ss_pred             CcEEEEECCCCCcCCHHHHHHHHHhhCCeEEEEeecc----ceEEEEEEcchhhHHHHHHHHhhCCCccCCceEEEEECC
Confidence            389999999986 8899999999999 8999999754    56999999999999999983   7889999999999987


Q ss_pred             CC
Q psy3727         153 SS  154 (232)
Q Consensus       153 ~~  154 (232)
                      ..
T Consensus        84 ~~   85 (89)
T d1x4da1          84 KY   85 (89)
T ss_dssp             CC
T ss_pred             Cc
Confidence            54

>d1weya_ d.58.7.1 (A:) Calcipressin-1 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Calcipressin-1
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.46  E-value=2.7e-14  Score=105.46  Aligned_cols=73  Identities=11%  Similarity=0.128  Sum_probs=65.1

Q ss_pred             cEEEEcCCCCCC-CH----HHHHhccCCC-CceEEEEeecCCCCccEEEEEeCCHHHHHHHHHh-CCceeeeeEEEEEec
Q psy3727          79 HTVHMRGLPFRA-NE----RDVADFFRPV-VPVHVDIHYENGRPSGEADVDFATHEDAMQAMSK-DRTNMQHRYIELFLN  151 (232)
Q Consensus        79 ~~vfV~nLp~~~-te----~dl~~~F~~~-~i~~v~i~~d~g~~kG~afVeF~s~eda~~Al~~-~g~~i~gR~I~V~~~  151 (232)
                      .+|||+||+.++ ++    ++|+++|++| .|+.+.+.+    ++++|||+|+++++|++||+. |+..|.|+.|+|.++
T Consensus         6 ~~L~v~nl~~~v~~~d~~k~~l~~lF~~~G~i~~~~~~k----~~~~afV~f~~~~~A~~Ai~~lng~~~~g~~l~v~~a   81 (104)
T d1weya_           6 SGLIACVANDDVFSESETRAKFESLFRTYDKDTTFQYFK----SFKRVRINFSNPLSAADARLRLHKTEFLGKEMKLYFA   81 (104)
T ss_dssp             CEEEEECCCGGGGSTTTHHHHHHHHHHTTCSSCEEEEET----TTTEEEEECSSTTHHHHHHHTSTTSEETTEECEEECC
T ss_pred             ceEEEEeCCchhcCcHHHHHHHHHHhcccccceEEEEec----CCCEEEEEECCHHHHHHHHHHhcccccCCCEeEEeec
Confidence            789999999986 33    4699999999 888998874    578999999999999999998 999999999999999


Q ss_pred             CCCC
Q psy3727         152 SSSP  155 (232)
Q Consensus       152 ~~~~  155 (232)
                      .+..
T Consensus        82 ~~~~   85 (104)
T d1weya_          82 QTLH   85 (104)
T ss_dssp             CCSS
T ss_pred             ccCC
Confidence            7763

>d1jmta_ d.58.7.3 (A:) U2AF35 (35 KDa subunit) {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Splicing factor U2AF subunits
domain: U2AF35 (35 KDa subunit)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.42  E-value=5.1e-15  Score=109.42  Aligned_cols=73  Identities=16%  Similarity=0.086  Sum_probs=68.2

Q ss_pred             cEEEEcCCCCCCCHHHHHhccCCC-CceEEEEeecC-CCCccEEEEEeCCHHHHHHHHHh-CCceeeeeEEEEEec
Q psy3727          79 HTVHMRGLPFRANERDVADFFRPV-VPVHVDIHYEN-GRPSGEADVDFATHEDAMQAMSK-DRTNMQHRYIELFLN  151 (232)
Q Consensus        79 ~~vfV~nLp~~~te~dl~~~F~~~-~i~~v~i~~d~-g~~kG~afVeF~s~eda~~Al~~-~g~~i~gR~I~V~~~  151 (232)
                      ..|+|.+++.+++|++|+++|++| +|++|.|+.+. ++++|+|||+|++.++|++|++. |+.+++||.|+|.++
T Consensus        28 ~~~~v~~~~~~~~ed~l~e~f~k~G~I~~v~I~~~~~~~~~G~~fV~f~~~~~A~~Ai~~lng~~~~gr~i~v~~s  103 (104)
T d1jmta_          28 SDVEMQEHYDEFFEEVFTEMEEKYGEVEEMNVCDNLGDHLVGNVYVKFRREEDAEKAVIDLNNRWFNGQPIHAELS  103 (104)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHTCCEEEEEECCSSSSSSEEEEEEEESCHHHHHHHHHHHTTCEETTEECCEEEC
T ss_pred             chHHhhhhhhhhhHHHHHHHhccCCCEEEEEeecCCCCCEeeEEEEEEechhHHHHHHHHHCCCEECCEEEEEEEC
Confidence            358888999999999999999999 99999999888 99999999999999999999997 999999999999875

>d1wwha1 d.58.7.1 (A:169-249) Nucleoporin 35 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Nucleoporin 35
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.42  E-value=8.4e-14  Score=98.32  Aligned_cols=72  Identities=14%  Similarity=0.075  Sum_probs=61.7

Q ss_pred             CcEEEEcCCCCCCCHHHHHhccCCC-CceEEEEeecCCCCccEEEEEeCCHHHHHHHHHhCCceeeeeE-EEEEecCCC
Q psy3727          78 RHTVHMRGLPFRANERDVADFFRPV-VPVHVDIHYENGRPSGEADVDFATHEDAMQAMSKDRTNMQHRY-IELFLNSSS  154 (232)
Q Consensus        78 ~~~vfV~nLp~~~te~dl~~~F~~~-~i~~v~i~~d~g~~kG~afVeF~s~eda~~Al~~~g~~i~gR~-I~V~~~~~~  154 (232)
                      +.+|+|.+||+++|++.| ++|++| +|+++.+.    +.++||||+|+++++|++||++|++.|+|+. |.|.++..+
T Consensus         4 ~~wV~V~G~p~~~~~~il-~~F~~~G~I~~~~~~----~~~~~~fV~f~~~~~A~~Al~~nG~~~~g~~~vgV~~~~~k   77 (81)
T d1wwha1           4 DTWVTVFGFPQASASYIL-LQFAQYGNILKHVMS----NTGNWMHIRYQSKLQARKALSKDGRIFGESIMIGVKPCIDK   77 (81)
T ss_dssp             GGEEEEECCCGGGHHHHH-HHHHTTSCEEEEEEC----SSSSEEEEEESSHHHHHHHHTTTTCEETTTEECEEEECCCH
T ss_pred             ccEEEEECCChHHHHHHH-HHHHhhhhhheEEec----CCCCEEEEEEcccHHHHHHHhcCCCeECCcEEEEEEeCCCh
Confidence            478999999999987655 579999 89998874    5679999999999999999988999999986 568877653

>d1owxa_ d.58.7.1 (A:) Lupus LA protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Lupus LA protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.36  E-value=2.5e-13  Score=101.43  Aligned_cols=70  Identities=16%  Similarity=0.113  Sum_probs=59.0

Q ss_pred             cEEEEcCCCCCCCHHHHHhccCCC-CceEEEEeecCCCCccEEEEEeCCH-HHHHHHHHh-CCceeeeeEEEEEecC
Q psy3727          79 HTVHMRGLPFRANERDVADFFRPV-VPVHVDIHYENGRPSGEADVDFATH-EDAMQAMSK-DRTNMQHRYIELFLNS  152 (232)
Q Consensus        79 ~~vfV~nLp~~~te~dl~~~F~~~-~i~~v~i~~d~g~~kG~afVeF~s~-eda~~Al~~-~g~~i~gR~I~V~~~~  152 (232)
                      ..+||+|||+++|+++|+++|++| .|..|.|+.    .+|||||+|.++ ++|.+|+.. |+..|.++.+.|.++.
T Consensus        12 ~~~fvgnL~~~~tee~Lk~~F~~fG~V~~v~i~~----~kg~gfV~F~~~~~~A~~a~~~~~~~~l~~~~~~v~~~~   84 (113)
T d1owxa_          12 LLKFSGDLDDQTCREDLHILFSNHGEIKWIDFVR----GAKEGIILFKEKAKEALGKAKDANNGNLQLRNKEVTWEV   84 (113)
T ss_dssp             EEEEEESCCSSCCHHHHHHHTCSSCCEEEEECCT----TCSEEEEEESSCHHHHHHHHHHTTTSCBCTTSSSEEEEE
T ss_pred             eEEEECCCCCCCCHHHHHHHHHhcCChheEEEec----CCceEEEEecCcHHHHHHHHHHhcCCceecCceEEEEee
Confidence            445999999999999999999999 899999985    478999999985 788888887 8888877766665543

>d2dita1 d.58.7.1 (A:8-106) HIV Tat-specific factor 1 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: HIV Tat-specific factor 1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.34  E-value=1.2e-12  Score=95.51  Aligned_cols=75  Identities=17%  Similarity=0.187  Sum_probs=64.8

Q ss_pred             CcEEEEcCC--CCCCC---------HHHHHhccCCC-CceEEEEeecCCCCccEEEEEeCCHHHHHHHHHh-CCceeeee
Q psy3727          78 RHTVHMRGL--PFRAN---------ERDVADFFRPV-VPVHVDIHYENGRPSGEADVDFATHEDAMQAMSK-DRTNMQHR  144 (232)
Q Consensus        78 ~~~vfV~nL--p~~~t---------e~dl~~~F~~~-~i~~v~i~~d~g~~kG~afVeF~s~eda~~Al~~-~g~~i~gR  144 (232)
                      ..+|+|+||  |.++.         ++||++.|++| .|..|.+..+  .++|+|||+|+++++|++|++. |+..++||
T Consensus         8 ~r~v~l~nmf~~~~~~~~~~~~~~i~edv~~~~~~~G~V~~v~~~~~--~~~G~~fV~f~~~e~A~~A~~~lng~~~~gr   85 (99)
T d2dita1           8 ERVVIIKNMFHPMDFEDDPLVLNEIREDLRVECSKFGQIRKLLLFDR--HPDGVASVSFRDPEEADYCIQTLDGRWFGGR   85 (99)
T ss_dssp             CCEEEEESSCCTTHHHHCSHHHHHHHHHHHHHGGGTSCCSEEEEETT--CTTCEEEEECSCHHHHHHHHHHSTTCEETTE
T ss_pred             ccEEEEccCCCHHHhhcchHHHHHHHHHHHHHhcCcccEEEEeccCC--CCccEEEEEECCHHHHHHHHHHhCCcEECCE
Confidence            389999999  66532         36789999999 8889988765  5779999999999999999997 99999999


Q ss_pred             EEEEEecCCC
Q psy3727         145 YIELFLNSSS  154 (232)
Q Consensus       145 ~I~V~~~~~~  154 (232)
                      +|.|.+...+
T Consensus        86 ~i~v~~~~g~   95 (99)
T d2dita1          86 QITAQAWDGT   95 (99)
T ss_dssp             ECEEEECCSC
T ss_pred             EEEEEEeCCc
Confidence            9999987655

>d2cq2a1 d.58.7.1 (A:25-125) Alkylation repair AlkB homolog 8, ALKBH8 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Alkylation repair AlkB homolog 8, ALKBH8
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.32  E-value=6.3e-13  Score=97.40  Aligned_cols=69  Identities=12%  Similarity=0.141  Sum_probs=57.3

Q ss_pred             cEEEEcC--CCCCCCHHHHHhccCCC-CceEEEEeecCCCCccEEEEEeCCHHHHHHHHHh-CCceee---eeEEEEEec
Q psy3727          79 HTVHMRG--LPFRANERDVADFFRPV-VPVHVDIHYENGRPSGEADVDFATHEDAMQAMSK-DRTNMQ---HRYIELFLN  151 (232)
Q Consensus        79 ~~vfV~n--Lp~~~te~dl~~~F~~~-~i~~v~i~~d~g~~kG~afVeF~s~eda~~Al~~-~g~~i~---gR~I~V~~~  151 (232)
                      .+|+|.|  ||+++|+++|+++|++| .|..|.++.+    ++||||+|++.++|++|++. |+..|.   +..|.|.++
T Consensus        19 ~~l~V~ng~L~~~vte~~L~~~F~~~G~i~~i~~~~~----k~~aFV~f~~~e~A~~A~~~lng~~i~~~~~~~i~~~~~   94 (101)
T d2cq2a1          19 QSLVVANGGLGNGVSRNQLLPVLEKCGLVDALLMPPN----KPYSFARYRTTEESKRAYVTLNGKEVVDDLGQKITLYLN   94 (101)
T ss_dssp             SEEEEETCTGGGTCCHHHHHHHHHHHSCEEEEECCTT----CSCEEEEESSHHHHHHHHHHTTTCEEECTTSCEEECEEE
T ss_pred             ceEEEECCCCCCCCCHHHHHHHHHhhCcccEEeeccC----ccEEEEEECCHHHHHHHHHHhCCCCCCCCCCcEEEEEEE
Confidence            7888855  99999999999999999 8888888754    57999999999999999997 988773   245555433

>d1o0pa_ d.58.7.1 (A:) Splicing factor U2AF 65 KDa subunit {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Splicing factor U2AF 65 KDa subunit
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.21  E-value=4.6e-12  Score=93.03  Aligned_cols=78  Identities=17%  Similarity=0.166  Sum_probs=66.1

Q ss_pred             CCCCcEEEEcCC--CCCC--------CHHHHHhccCCC-CceEEEEeecC----CCCccEEEEEeCCHHHHHHHHHh-CC
Q psy3727          75 GPSRHTVHMRGL--PFRA--------NERDVADFFRPV-VPVHVDIHYEN----GRPSGEADVDFATHEDAMQAMSK-DR  138 (232)
Q Consensus        75 ~~s~~~vfV~nL--p~~~--------te~dl~~~F~~~-~i~~v~i~~d~----g~~kG~afVeF~s~eda~~Al~~-~g  138 (232)
                      +|| .+|.|.||  |.++        ..+||++.|++| .|++|.|+++.    ...+|++||+|++.++|.+|++. |+
T Consensus         2 ~Ps-~vl~l~N~~~~~~l~~~~~~~~i~edi~~e~~k~G~v~~v~I~~~~~~~~~~~~g~vfV~f~~~e~A~~A~~~l~G   80 (104)
T d1o0pa_           2 HPT-EVLCLMNMVLPEELLDDEEYEEIVEDVRDECSKYGLVKSIEIPRPVDGVEVPGCGKIFVEFTSVFDCQKAMQGLTG   80 (104)
T ss_dssp             CCC-SEEEEESSCCTTTTTSHHHHHHHHHHHHHHHTTTSCEEEEECCCCTTSSSCTTCCEEEEEESCHHHHHHHHHHHSS
T ss_pred             CCC-cEEEEeCCCCHHHcCCchhHHHHHHHHHHHhcccCceEEEEEeecCCCCccCCceEEEEEECCHHHHHHHHHHHCC
Confidence            345 89999999  5443        346799999999 99999998765    33569999999999999999997 99


Q ss_pred             ceeeeeEEEEEecCC
Q psy3727         139 TNMQHRYIELFLNSS  153 (232)
Q Consensus       139 ~~i~gR~I~V~~~~~  153 (232)
                      ..++||.|.|.+...
T Consensus        81 r~f~gR~v~v~f~~~   95 (104)
T d1o0pa_          81 RKFANRVVVTKYCDP   95 (104)
T ss_dssp             CCSSSSCCEEEEECH
T ss_pred             CEECCeEEEEEEcCH
Confidence            999999999988764

>d1wg5a_ d.58.7.1 (A:) Heterogeneous nuclear ribonucleoprotein H' {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Heterogeneous nuclear ribonucleoprotein H'
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.48  E-value=6.3e-05  Score=53.60  Aligned_cols=24  Identities=13%  Similarity=0.160  Sum_probs=21.9

Q ss_pred             cceEEEcCCCccccHHHHHhhhCC
Q psy3727         195 QAYVENTALSRSAVKDRAINVQLC  218 (232)
Q Consensus       195 ~~~v~~~gLp~~~t~~dl~~fF~~  218 (232)
                      ..+|+|+||||++|++||++||..
T Consensus        15 ~~~v~v~nLP~~~te~dI~~~F~~   38 (104)
T d1wg5a_          15 DGFVRLRGLPFGCSKEEIVQFFSG   38 (104)
T ss_dssp             CCEEEEESCCTTCCHHHHHHHTTT
T ss_pred             CcEEEEeCCCCCCCHHHHHHHHHh
Confidence            458999999999999999999964

>d1weza_ d.58.7.1 (A:) Heterogeneous nuclear ribonucleoprotein H' {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Heterogeneous nuclear ribonucleoprotein H'
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.47  E-value=6e-05  Score=53.56  Aligned_cols=26  Identities=15%  Similarity=0.037  Sum_probs=22.6

Q ss_pred             CCcceEEEcCCCccccHHHHHhhhCC
Q psy3727         193 PNQAYVENTALSRSAVKDRAINVQLC  218 (232)
Q Consensus       193 ~~~~~v~~~gLp~~~t~~dl~~fF~~  218 (232)
                      +...+|+|+||||++|++||++||..
T Consensus        13 ~~~~~v~v~nLp~~~te~dl~~~F~~   38 (102)
T d1weza_          13 TTGHCVHMRGLPYRATENDIYNFFSP   38 (102)
T ss_dssp             SSSCEEEEESCCTTCCHHHHHHSSCS
T ss_pred             CCCCEEEEeCCCCcCCHHHHHHHHhc
Confidence            33468999999999999999999964

>d1ufwa_ d.58.7.1 (A:) Synaptojanin 2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Synaptojanin 2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.04  E-value=0.00029  Score=49.11  Aligned_cols=69  Identities=19%  Similarity=0.159  Sum_probs=56.1

Q ss_pred             CcEEEEcCCCCCCCH---------HHHHhccCCC-CceEEEEeecCCCCccEEEEEeCCHHHHHHHHHhCCceeeeeEEE
Q psy3727          78 RHTVHMRGLPFRANE---------RDVADFFRPV-VPVHVDIHYENGRPSGEADVDFATHEDAMQAMSKDRTNMQHRYIE  147 (232)
Q Consensus        78 ~~~vfV~nLp~~~te---------~dl~~~F~~~-~i~~v~i~~d~g~~kG~afVeF~s~eda~~Al~~~g~~i~gR~I~  147 (232)
                      +.||.|.=+..+..+         .+|.+-|++| +|+-|+++.+      ...|+|.+-+.|.+|+++++.++.|+.|.
T Consensus        15 DgTIvV~i~~~s~e~~~~FDe~l~~~Llq~l~~~GeViLvRFv~d------~mwVTF~dG~SAL~al~l~g~~v~G~~l~   88 (95)
T d1ufwa_          15 DATVVVNLQSPTLEEKNEFPEDLRTELMQTLGSYGTIVLVRINQG------QMLVTFADSHSALSVLDVDGMKVKGRAVK   88 (95)
T ss_dssp             TCEEEEEESSCCHHHHHSCCHHHHHHHHHHHHHHSCCSEEEEETT------EEEEECSCSHHHHHHHHGGGSEETTEEEE
T ss_pred             CcEEEEEeccCCccccccCCHHHHHHHHHHHhhCCeEEEEEEeCC------eEEEEECCcHHHHHHhccCCeEEcceEEE
Confidence            478888655544433         3577778888 8889998876      69999999999999999999999999999


Q ss_pred             EEecC
Q psy3727         148 LFLNS  152 (232)
Q Consensus       148 V~~~~  152 (232)
                      |...+
T Consensus        89 It~~~   93 (95)
T d1ufwa_          89 ISGPS   93 (95)
T ss_dssp             EECCC
T ss_pred             EecCC
Confidence            97654

>d2cqpa1 d.58.7.1 (A:917-1002) RNA-binding protein 12 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding protein 12
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=96.88  E-value=0.00041  Score=47.24  Aligned_cols=25  Identities=4%  Similarity=0.072  Sum_probs=21.9

Q ss_pred             CcceEEEcCCCccccHHHHHhhhCC
Q psy3727         194 NQAYVENTALSRSAVKDRAINVQLC  218 (232)
Q Consensus       194 ~~~~v~~~gLp~~~t~~dl~~fF~~  218 (232)
                      ....|+|.|||+++|++||++||..
T Consensus         8 ~~~~l~v~nLp~~~~~~di~~~F~~   32 (86)
T d2cqpa1           8 GPTIIKVQNMPFTVSIDEILDFFYG   32 (86)
T ss_dssp             SSEEEEEESCCTTCCHHHHHHHTTT
T ss_pred             CCCEEEEECCCCCCCHHHHHHHHhh
Confidence            3457999999999999999999953

>d1wela1 d.58.7.1 (A:412-523) RNA-binding protein 12 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding protein 12
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.73  E-value=0.00096  Score=47.82  Aligned_cols=23  Identities=17%  Similarity=-0.023  Sum_probs=21.1

Q ss_pred             ceEEEcCCCccccHHHHHhhhCC
Q psy3727         196 AYVENTALSRSAVKDRAINVQLC  218 (232)
Q Consensus       196 ~~v~~~gLp~~~t~~dl~~fF~~  218 (232)
                      .+|+|+||||++|++||++||..
T Consensus        19 ~~i~v~nLp~~~t~~di~~~F~~   41 (112)
T d1wela1          19 FCVYLKGLPFEAENKHVIDFFKK   41 (112)
T ss_dssp             CEEEEECCCTTCCHHHHHHHSCS
T ss_pred             eEEEEecCCCcCcHHHHhhHHhh
Confidence            47999999999999999999964

>d2cpya1 d.58.7.1 (A:536-638) RNA-binding protein 12 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding protein 12
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.72  E-value=0.00059  Score=48.05  Aligned_cols=23  Identities=13%  Similarity=0.026  Sum_probs=21.4

Q ss_pred             cceEEEcCCCccccHHHHHhhhC
Q psy3727         195 QAYVENTALSRSAVKDRAINVQL  217 (232)
Q Consensus       195 ~~~v~~~gLp~~~t~~dl~~fF~  217 (232)
                      ..+|+|+||||++|++||++||.
T Consensus         8 ~~~v~v~nLp~~~t~~~l~~~F~   30 (103)
T d2cpya1           8 KVCAHITNIPFSITKMDVLQFLE   30 (103)
T ss_dssp             CCEEEEESCCTTSCHHHHHHHTT
T ss_pred             ceEEEEeCCCCCCCHHHHhhhhc
Confidence            46899999999999999999996

>d1uw4a_ d.58.7.4 (A:) RNA processing protein UPF3x, RRM domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Smg-4/UPF3
domain: RNA processing protein UPF3x, RRM domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.60  E-value=0.0043  Score=43.11  Aligned_cols=65  Identities=15%  Similarity=0.230  Sum_probs=51.5

Q ss_pred             cEEEEcCCCCCCCHHHHHhccCCC-CceEEEEeecC---C-CCccEEEEEeCCHHHHHHHHHh-CCceeee
Q psy3727          79 HTVHMRGLPFRANERDVADFFRPV-VPVHVDIHYEN---G-RPSGEADVDFATHEDAMQAMSK-DRTNMQH  143 (232)
Q Consensus        79 ~~vfV~nLp~~~te~dl~~~F~~~-~i~~v~i~~d~---g-~~kG~afVeF~s~eda~~Al~~-~g~~i~g  143 (232)
                      ..|-|+.||...||+++.+.++.+ ++........+   . ..---|||.|.+.+++..-.+. +++.+-+
T Consensus         2 tKvVvRrLPP~Lte~~F~~~l~~~~~~d~~~f~~Gk~s~~~~~~SRAYi~F~~~~~v~~F~~~f~g~~F~D   72 (91)
T d1uw4a_           2 SKVVIRRLPPTLTKEQLQEHLQPMPEHDYFEFFSNDTSLYPHMYARAYINFKNQEDIILFRDRFDGYVFLD   72 (91)
T ss_dssp             CEEEEEEECTTCCHHHHHHHHCSCCCEEEEEEEESCCSSTTCCCEEEEEEESSSHHHHHHHHHHTTCEEEC
T ss_pred             ceEEEecCCCCCCHHHHHHHhCCcCceEEEEEeCCCcCCCCCcceEEEEEeCCHHHHHHHHHHcCCcEEEc
Confidence            368999999999999999999987 66655555443   2 2335899999999999999988 8877643

>d2dgxa1 d.58.7.1 (A:563-635) Limkain-b1, LKAP {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Limkain-b1, LKAP
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.55  E-value=0.0026  Score=42.10  Aligned_cols=63  Identities=17%  Similarity=0.236  Sum_probs=50.5

Q ss_pred             CCCHHHH----HhccCCC-CceEEEEeecC-CCCccEEEEEeCCHHHHHHHHHh-CCceeeeeEEEEEecCC
Q psy3727          89 RANERDV----ADFFRPV-VPVHVDIHYEN-GRPSGEADVDFATHEDAMQAMSK-DRTNMQHRYIELFLNSS  153 (232)
Q Consensus        89 ~~te~dl----~~~F~~~-~i~~v~i~~d~-g~~kG~afVeF~s~eda~~Al~~-~g~~i~gR~I~V~~~~~  153 (232)
                      ...+++|    .+.|+++ .|..|.|.... +..  .|.|...+..||..|+.. +...|+.+.|.|.+++.
T Consensus         3 ~L~~kelqq~L~~~f~~h~~V~sv~l~~~~dg~~--~A~V~v~~~q~A~~~v~~LhR~KiG~KRI~Vs~~~~   72 (73)
T d2dgxa1           3 RLSRKELQQLLQEAFARHGKVKSVELSPHTDYQL--KAVVQMENLQDAIGAVNSLHRYKIGSKKILVSLATG   72 (73)
T ss_dssp             TSCHHHHHHHHHHHHHHHSCEEEEEECSCCSTTC--CEEEEESSHHHHHHHHHHHTTEEETTEEEEEEECCC
T ss_pred             cCCHHHHHHHHHHHHHhheeEEEEEEEeccCCcE--EEEEEcCCHHHHHHHHHHHHHHhcCCeEEEEEEecC
Confidence            3445554    4556677 78888886665 554  699999999999999998 99999999999998753

>d1wi8a_ d.58.7.1 (A:) Eukaryotic translation initiation factor 4B {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Eukaryotic translation initiation factor 4B
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.33  E-value=0.0022  Score=45.01  Aligned_cols=23  Identities=4%  Similarity=-0.201  Sum_probs=21.3

Q ss_pred             ceEEEcCCCccccHHHHHhhhCC
Q psy3727         196 AYVENTALSRSAVKDRAINVQLC  218 (232)
Q Consensus       196 ~~v~~~gLp~~~t~~dl~~fF~~  218 (232)
                      ..|+|.|||+++|++||++||+.
T Consensus        16 ~~v~V~nLp~~~te~~l~~~f~~   38 (104)
T d1wi8a_          16 YTAFLGNLPYDVTEESIKEFFRG   38 (104)
T ss_dssp             EEEEEESCCSSCCHHHHHHHTTT
T ss_pred             CEEEEeCCCCcCCHHHHHHHHHH
Confidence            67999999999999999999963

>d1wf0a_ d.58.7.1 (A:) TAR DNA-binding protein 43, TDP-43 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: TAR DNA-binding protein 43, TDP-43
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.21  E-value=0.0017  Score=44.36  Aligned_cols=24  Identities=8%  Similarity=-0.159  Sum_probs=21.5

Q ss_pred             cceEEEcCCCccccHHHHHhhhCC
Q psy3727         195 QAYVENTALSRSAVKDRAINVQLC  218 (232)
Q Consensus       195 ~~~v~~~gLp~~~t~~dl~~fF~~  218 (232)
                      ...|+|.|||+++|++||+++|..
T Consensus         5 s~~lfV~nLp~~~te~~L~~~F~~   28 (88)
T d1wf0a_           5 SSGVFVGRCTGDMTEDELREFFSQ   28 (88)
T ss_dssp             CCEEEEESCCSSSCHHHHHHHSTT
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHH
Confidence            358999999999999999999964

>d1l3ka2 d.58.7.1 (A:103-181) Nuclear ribonucleoprotein A1 (RNP A1, UP1) {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Nuclear ribonucleoprotein A1 (RNP A1, UP1)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.21  E-value=0.0013  Score=43.82  Aligned_cols=22  Identities=0%  Similarity=-0.168  Sum_probs=20.4

Q ss_pred             eEEEcCCCccccHHHHHhhhCC
Q psy3727         197 YVENTALSRSAVKDRAINVQLC  218 (232)
Q Consensus       197 ~v~~~gLp~~~t~~dl~~fF~~  218 (232)
                      .|+|.|||+++|++||+++|+.
T Consensus         4 ~lfV~nLp~~~te~~l~~~F~~   25 (79)
T d1l3ka2           4 KIFVGGIKEDTEEHHLRDYFEQ   25 (79)
T ss_dssp             EEEEECCTTTCCHHHHHHHHTT
T ss_pred             EEEECCCCCcCCHHHHHHHHHH
Confidence            6899999999999999999974

>d1wg4a_ d.58.7.1 (A:) Splicing factor, arginine/serine-rich 9 (SFRS9) {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Splicing factor, arginine/serine-rich 9 (SFRS9)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=96.14  E-value=0.0033  Score=43.86  Aligned_cols=23  Identities=13%  Similarity=-0.152  Sum_probs=21.0

Q ss_pred             ceEEEcCCCccccHHHHHhhhCC
Q psy3727         196 AYVENTALSRSAVKDRAINVQLC  218 (232)
Q Consensus       196 ~~v~~~gLp~~~t~~dl~~fF~~  218 (232)
                      ..|+|.|||+++|++||+++|..
T Consensus        16 ~~i~V~Nlp~~~~~~~L~~~F~~   38 (98)
T d1wg4a_          16 FRVLVSGLPPSGSWQDLKDHMRE   38 (98)
T ss_dssp             CEEEEECCCSSCCHHHHHHHHTT
T ss_pred             CEEEEECCCCCCCHHHHHHHHHh
Confidence            47999999999999999999963

>d2msta_ d.58.7.1 (A:) Neural RNA-binding protein Musashi-1 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Neural RNA-binding protein Musashi-1
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=96.09  E-value=0.0012  Score=43.34  Aligned_cols=22  Identities=9%  Similarity=-0.133  Sum_probs=19.9

Q ss_pred             eEEEcCCCccccHHHHHhhhCC
Q psy3727         197 YVENTALSRSAVKDRAINVQLC  218 (232)
Q Consensus       197 ~v~~~gLp~~~t~~dl~~fF~~  218 (232)
                      .|+|.|||+++|++||+++|+.
T Consensus         1 rlfV~nLp~~~te~~l~~~F~~   22 (75)
T d2msta_           1 KIFVGGLSVNTTVEDVKHYFEQ   22 (75)
T ss_dssp             CEEEECCCSSCCHHHHHHHHHT
T ss_pred             CEEEeCCCCCCCHHHHHHHHHH
Confidence            3789999999999999999974

>d1uawa_ d.58.7.1 (A:) Musashi-1 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Musashi-1
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=96.02  E-value=0.0012  Score=44.10  Aligned_cols=23  Identities=9%  Similarity=-0.169  Sum_probs=20.7

Q ss_pred             ceEEEcCCCccccHHHHHhhhCC
Q psy3727         196 AYVENTALSRSAVKDRAINVQLC  218 (232)
Q Consensus       196 ~~v~~~gLp~~~t~~dl~~fF~~  218 (232)
                      +.|+|.|||+++|+++|+++|..
T Consensus         1 cklfV~nLp~~~te~~l~~~F~~   23 (77)
T d1uawa_           1 CKMFIGGLSWQTTQEGLREYFGQ   23 (77)
T ss_dssp             CCEEEESCCSSCCSHHHHHHHTT
T ss_pred             CEEEEeCCCCcCCHHHHHHHHHH
Confidence            46899999999999999999963

>d2cpza1 d.58.7.1 (A:383-484) CUG triplet repeat RNA-binding protein 1 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: CUG triplet repeat RNA-binding protein 1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.99  E-value=0.0027  Score=44.55  Aligned_cols=26  Identities=12%  Similarity=0.047  Sum_probs=22.4

Q ss_pred             CCcceEEEcCCCccccHHHHHhhhCC
Q psy3727         193 PNQAYVENTALSRSAVKDRAINVQLC  218 (232)
Q Consensus       193 ~~~~~v~~~gLp~~~t~~dl~~fF~~  218 (232)
                      |....|+|.|||+++|++||+++|..
T Consensus        16 p~~~~l~V~nLp~~~te~~l~~~F~~   41 (102)
T d2cpza1          16 PEGANLFIYHLPQEFGDQDLLQMFMP   41 (102)
T ss_dssp             STTCCEEEESCCSSCCHHHHHHHHGG
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHh
Confidence            33457999999999999999999963

>d1x0fa1 d.58.7.1 (A:183-257) Nuclear ribonucleoprotein D0 (AUF1) {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Nuclear ribonucleoprotein D0 (AUF1)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.97  E-value=0.0016  Score=43.31  Aligned_cols=22  Identities=9%  Similarity=-0.102  Sum_probs=20.0

Q ss_pred             eEEEcCCCccccHHHHHhhhCC
Q psy3727         197 YVENTALSRSAVKDRAINVQLC  218 (232)
Q Consensus       197 ~v~~~gLp~~~t~~dl~~fF~~  218 (232)
                      .|+|.||||++|+++|+++|+.
T Consensus         1 klfVgnLp~~~te~~l~~~F~~   22 (75)
T d1x0fa1           1 KIFVGGLSPDTPEEKIREYFGG   22 (75)
T ss_dssp             EEEEESCCSSCCHHHHHHHHHH
T ss_pred             CEEEcCCCCCCCHHHHHHHHHH
Confidence            3789999999999999999973

>d1x4aa1 d.58.7.1 (A:9-103) Splicing factor, arginine/serine-rich 1, SFRS1 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Splicing factor, arginine/serine-rich 1, SFRS1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.95  E-value=0.004  Score=42.95  Aligned_cols=24  Identities=8%  Similarity=-0.072  Sum_probs=21.6

Q ss_pred             cceEEEcCCCccccHHHHHhhhCC
Q psy3727         195 QAYVENTALSRSAVKDRAINVQLC  218 (232)
Q Consensus       195 ~~~v~~~gLp~~~t~~dl~~fF~~  218 (232)
                      .+.|+|.|||+++|++||+++|..
T Consensus        14 ~~~l~V~nLp~~~t~~~l~~~F~~   37 (95)
T d1x4aa1          14 DCRIYVGNLPPDIRTKDIEDVFYK   37 (95)
T ss_dssp             SSEEEEESCCTTCCHHHHHHHHGG
T ss_pred             CCEEEEECCCCCCCHHHHHHHHhc
Confidence            457999999999999999999963

>d2cqga1 d.58.7.1 (A:96-185) TAR DNA-binding protein 43, TDP-43 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: TAR DNA-binding protein 43, TDP-43
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.95  E-value=0.0026  Score=43.73  Aligned_cols=23  Identities=4%  Similarity=-0.127  Sum_probs=20.9

Q ss_pred             ceEEEcCCCccccHHHHHhhhCC
Q psy3727         196 AYVENTALSRSAVKDRAINVQLC  218 (232)
Q Consensus       196 ~~v~~~gLp~~~t~~dl~~fF~~  218 (232)
                      ..|+|.||||++|++||+++|+.
T Consensus         9 ~~lfV~nLp~~~te~~l~~~F~~   31 (90)
T d2cqga1           9 SDLIVLGLPWKTTEQDLKEYFST   31 (90)
T ss_dssp             CCEEEESCCSSCCHHHHHHHHGG
T ss_pred             CeEEEECCCCCCCHHHHHHHHHh
Confidence            46899999999999999999973

>d1wg1a_ d.58.7.1 (A:) Probable RNA-binding protein KIAA1579 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Probable RNA-binding protein KIAA1579
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.90  E-value=0.0027  Score=43.37  Aligned_cols=22  Identities=5%  Similarity=-0.043  Sum_probs=20.4

Q ss_pred             ceEEEcCCCccccHHHHHhhhC
Q psy3727         196 AYVENTALSRSAVKDRAINVQL  217 (232)
Q Consensus       196 ~~v~~~gLp~~~t~~dl~~fF~  217 (232)
                      ..|+|.|||+++|++||+++|+
T Consensus         6 ~~i~V~nLp~~~t~~~l~~lF~   27 (88)
T d1wg1a_           6 SGILVKNLPQDSNCQEVHDLLK   27 (88)
T ss_dssp             CCEEEESCCSSCCHHHHHHHTC
T ss_pred             CEEEEeCCCCccChHHHHHHHH
Confidence            4689999999999999999996

>d2ghpa1 d.58.7.1 (A:116-196) U4/U6 snRNA-associated-splicing factor PRP24 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: U4/U6 snRNA-associated-splicing factor PRP24
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=95.90  E-value=0.0019  Score=43.24  Aligned_cols=23  Identities=9%  Similarity=-0.091  Sum_probs=21.0

Q ss_pred             ceEEEcCCCccccHHHHHhhhCC
Q psy3727         196 AYVENTALSRSAVKDRAINVQLC  218 (232)
Q Consensus       196 ~~v~~~gLp~~~t~~dl~~fF~~  218 (232)
                      +.|+|.|||+++|++||+++|+.
T Consensus         2 ~tl~v~nLp~~~t~~~l~~~f~~   24 (81)
T d2ghpa1           2 CTLWMTNFPPSYTQRNIRDLLQD   24 (81)
T ss_dssp             CEEEEECCCTTCCHHHHHHHHHH
T ss_pred             cEEEEECCCCcCCHHHHHHHHHH
Confidence            47999999999999999999963

>d2cpea1 d.58.7.1 (A:353-453) RNA-binding protein EWS {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding protein EWS
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.86  E-value=0.0034  Score=43.50  Aligned_cols=25  Identities=12%  Similarity=0.041  Sum_probs=22.0

Q ss_pred             CcceEEEcCCCccccHHHHHhhhCC
Q psy3727         194 NQAYVENTALSRSAVKDRAINVQLC  218 (232)
Q Consensus       194 ~~~~v~~~gLp~~~t~~dl~~fF~~  218 (232)
                      ....|+|.|||+++|++||+++|..
T Consensus         7 ~~~~i~V~nLp~~~te~~l~~~F~~   31 (101)
T d2cpea1           7 DNSAIYVQGLNDSVTLDDLADFFKQ   31 (101)
T ss_dssp             CCCEEEEECCCTTCCHHHHHHHHTT
T ss_pred             CCCEEEEECCCCcCCHHHHHHHHHH
Confidence            3468999999999999999999963

>d2cqda1 d.58.7.1 (A:1-103) RNA-binding region containing protein 1 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding region containing protein 1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.82  E-value=0.0029  Score=44.49  Aligned_cols=24  Identities=4%  Similarity=-0.219  Sum_probs=21.5

Q ss_pred             cceEEEcCCCccccHHHHHhhhCC
Q psy3727         195 QAYVENTALSRSAVKDRAINVQLC  218 (232)
Q Consensus       195 ~~~v~~~gLp~~~t~~dl~~fF~~  218 (232)
                      ...|+|.|||+++|++||+++|+.
T Consensus        10 ~~~lfV~nLp~~~te~~l~~~F~~   33 (103)
T d2cqda1          10 FTKIFVGGLPYHTTDASLRKYFEG   33 (103)
T ss_dssp             SSEEEEECCCSSCCHHHHHHHHHT
T ss_pred             CcEEEEeCCCCcCcHHHHHHHHhh
Confidence            356999999999999999999973

>d1x4ha1 d.58.7.1 (A:8-105) RNA-binding protein 28 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding protein 28
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=95.80  E-value=0.0029  Score=43.58  Aligned_cols=24  Identities=17%  Similarity=-0.110  Sum_probs=21.5

Q ss_pred             cceEEEcCCCccccHHHHHhhhCC
Q psy3727         195 QAYVENTALSRSAVKDRAINVQLC  218 (232)
Q Consensus       195 ~~~v~~~gLp~~~t~~dl~~fF~~  218 (232)
                      ...|+|.|||+++|++||+++|..
T Consensus         8 ~~tlfV~nLp~~~te~~l~~~f~~   31 (98)
T d1x4ha1           8 GKTVFIRNLSFDSEEEALGEVLQQ   31 (98)
T ss_dssp             CCCEEEESCCTTCCHHHHHHHHHT
T ss_pred             CCEEEEcCCCCcCCHHHHHHHHhc
Confidence            357999999999999999999974

>d2ghpa2 d.58.7.1 (A:41-115) U4/U6 snRNA-associated-splicing factor PRP24 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: U4/U6 snRNA-associated-splicing factor PRP24
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=95.80  E-value=0.0018  Score=42.99  Aligned_cols=22  Identities=14%  Similarity=0.013  Sum_probs=20.1

Q ss_pred             eEEEcCCCccccHHHHHhhhCC
Q psy3727         197 YVENTALSRSAVKDRAINVQLC  218 (232)
Q Consensus       197 ~v~~~gLp~~~t~~dl~~fF~~  218 (232)
                      .|+|+|||+++|++||+++|..
T Consensus         2 tv~V~nlp~~~t~~~l~~~F~~   23 (75)
T d2ghpa2           2 TVLVKNLPKSYNQNKVYKYFKH   23 (75)
T ss_dssp             EEEEEEECTTCCHHHHHHHHGG
T ss_pred             EEEEECCCCCCCHHHHHHHHhc
Confidence            5889999999999999999973

>d1whwa_ d.58.7.1 (A:) Probable RNA-binding protein 19, Rbm19 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Probable RNA-binding protein 19, Rbm19
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=95.76  E-value=0.0035  Score=43.55  Aligned_cols=24  Identities=8%  Similarity=-0.022  Sum_probs=21.4

Q ss_pred             cceEEEcCCCccccHHHHHhhhCC
Q psy3727         195 QAYVENTALSRSAVKDRAINVQLC  218 (232)
Q Consensus       195 ~~~v~~~gLp~~~t~~dl~~fF~~  218 (232)
                      ...|+|.|||+++|++||+++|..
T Consensus         8 ~~~lfV~nL~~~~t~~~l~~~F~~   31 (99)
T d1whwa_           8 SGRLFVRNLSYTSSEEDLEKLFSA   31 (99)
T ss_dssp             CEEEEEECCCTTCCHHHHHHHHHT
T ss_pred             CCEEEEECCCCcCCHHHHHHHHHh
Confidence            357999999999999999999963

>d1b7fa1 d.58.7.1 (A:123-204) Sex-lethal protein {Drosophila melanogaster [TaxId: 7227]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Sex-lethal protein
species: Drosophila melanogaster [TaxId: 7227]

Probab=95.76  E-value=0.0026  Score=42.56  Aligned_cols=23  Identities=4%  Similarity=-0.055  Sum_probs=21.0

Q ss_pred             ceEEEcCCCccccHHHHHhhhCC
Q psy3727         196 AYVENTALSRSAVKDRAINVQLC  218 (232)
Q Consensus       196 ~~v~~~gLp~~~t~~dl~~fF~~  218 (232)
                      ..|+|.|||+++|++||+++|+.
T Consensus         3 t~l~V~nLp~~~t~~~l~~~F~~   25 (82)
T d1b7fa1           3 TNLIVNYLPQDMTDRELYALFRA   25 (82)
T ss_dssp             SEEEEECCCTTCCHHHHHHHHHT
T ss_pred             CEEEEeCCCCCCCHHHHHHHHHH
Confidence            46999999999999999999974

>d1wexa_ d.58.7.1 (A:) Heterogeneous nuclear ribonucleoprotein L-like {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Heterogeneous nuclear ribonucleoprotein L-like
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=95.74  E-value=0.0064  Score=42.61  Aligned_cols=25  Identities=16%  Similarity=0.119  Sum_probs=22.0

Q ss_pred             CCcceEEEcCCCccccHHHHHhhhC
Q psy3727         193 PNQAYVENTALSRSAVKDRAINVQL  217 (232)
Q Consensus       193 ~~~~~v~~~gLp~~~t~~dl~~fF~  217 (232)
                      +....|+|+|||+++|++||+++|.
T Consensus        13 ~ps~~l~v~nlp~~~te~~l~~~F~   37 (104)
T d1wexa_          13 SVSPVVHVRGLCESVVEADLVEALE   37 (104)
T ss_dssp             CCCSEEEEESCCSSCCHHHHHHHHT
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHhhh
Confidence            3356899999999999999999996

>d1hd0a_ d.58.7.1 (A:) Heterogeneous nuclear ribonucleoprotein d0 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Heterogeneous nuclear ribonucleoprotein d0
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.73  E-value=0.0021  Score=42.52  Aligned_cols=22  Identities=14%  Similarity=-0.124  Sum_probs=19.9

Q ss_pred             eEEEcCCCccccHHHHHhhhCC
Q psy3727         197 YVENTALSRSAVKDRAINVQLC  218 (232)
Q Consensus       197 ~v~~~gLp~~~t~~dl~~fF~~  218 (232)
                      .|+|.|||+++|++||+++|+.
T Consensus         1 klfV~nl~~~~te~~l~~~F~~   22 (75)
T d1hd0a_           1 KMFIGGLSWDTTKKDLKDYFSK   22 (75)
T ss_dssp             CEEEECCCTTCCHHHHHHHHHT
T ss_pred             CEEEeCCCCcCCHHHHHHHHHh
Confidence            3788999999999999999973

>d1fxla1 d.58.7.1 (A:37-118) Hu antigen D (Hud) {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Hu antigen D (Hud)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.68  E-value=0.0029  Score=42.23  Aligned_cols=23  Identities=4%  Similarity=-0.052  Sum_probs=21.0

Q ss_pred             ceEEEcCCCccccHHHHHhhhCC
Q psy3727         196 AYVENTALSRSAVKDRAINVQLC  218 (232)
Q Consensus       196 ~~v~~~gLp~~~t~~dl~~fF~~  218 (232)
                      ..|+|.|||+++|++||+++|+.
T Consensus         3 t~l~V~nLp~~~te~~l~~~f~~   25 (82)
T d1fxla1           3 TNLIVNYLPQNMTQEEFRSLFGS   25 (82)
T ss_dssp             SEEEEESCCTTCCHHHHHHHHHT
T ss_pred             CEEEEECCCCCCCHHHHHHHHHH
Confidence            46999999999999999999964

>d1rk8a_ d.58.7.1 (A:) RNA-binding protein 8 {Fruit fly (Drosophila melanogaster) [TaxId: 7227]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding protein 8
species: Fruit fly (Drosophila melanogaster) [TaxId: 7227]

Probab=95.67  E-value=0.004  Score=42.38  Aligned_cols=25  Identities=12%  Similarity=-0.071  Sum_probs=21.7

Q ss_pred             CcceEEEcCCCccccHHHHHhhhCC
Q psy3727         194 NQAYVENTALSRSAVKDRAINVQLC  218 (232)
Q Consensus       194 ~~~~v~~~gLp~~~t~~dl~~fF~~  218 (232)
                      ....|+|.|||+++|++||+++|..
T Consensus         6 ~~~~l~V~nL~~~~t~~~l~~~F~~   30 (88)
T d1rk8a_           6 EGWILFVTSIHEEAQEDEIQEKFCD   30 (88)
T ss_dssp             -CEEEEEESCCTTCCHHHHHHHHGG
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHH
Confidence            3468999999999999999999963

>d1fjca_ d.58.7.1 (A:) Nucleolin {Golden hamster (Mesocricetus auratus) [TaxId: 10036]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Nucleolin
species: Golden hamster (Mesocricetus auratus) [TaxId: 10036]

Probab=95.63  E-value=0.0041  Score=42.99  Aligned_cols=24  Identities=17%  Similarity=-0.031  Sum_probs=21.7

Q ss_pred             cceEEEcCCCccccHHHHHhhhCC
Q psy3727         195 QAYVENTALSRSAVKDRAINVQLC  218 (232)
Q Consensus       195 ~~~v~~~gLp~~~t~~dl~~fF~~  218 (232)
                      ...|+|.|||+++|++||+++|..
T Consensus        16 ~~~l~V~nL~~~~te~~l~~~F~~   39 (96)
T d1fjca_          16 ARTLLAKNLSFNITEDELKEVFED   39 (96)
T ss_dssp             GGEEEEESCCSSCCHHHHHHHHCS
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHh
Confidence            467999999999999999999963

>d1x4ba1 d.58.7.1 (A:8-110) Heterogeneous nuclear ribonucleoproteins A2/B1 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Heterogeneous nuclear ribonucleoproteins A2/B1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.62  E-value=0.0031  Score=44.51  Aligned_cols=22  Identities=14%  Similarity=-0.090  Sum_probs=20.6

Q ss_pred             ceEEEcCCCccccHHHHHhhhC
Q psy3727         196 AYVENTALSRSAVKDRAINVQL  217 (232)
Q Consensus       196 ~~v~~~gLp~~~t~~dl~~fF~  217 (232)
                      ..|+|.|||+++|++||+++|.
T Consensus        21 ~~lfVgnLp~~~te~~L~~~F~   42 (103)
T d1x4ba1          21 RKLFIGGLSFETTEESLRNYYE   42 (103)
T ss_dssp             TEEEEECCTTCCCHHHHHHHHT
T ss_pred             CEEEEeCCCCcCCHHHHHHHHH
Confidence            4699999999999999999996

>d2cq3a1 d.58.7.1 (A:110-202) RNA-binding protein 9 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding protein 9
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.60  E-value=0.006  Score=41.88  Aligned_cols=24  Identities=0%  Similarity=-0.231  Sum_probs=21.3

Q ss_pred             cceEEEcCCCccccHHHHHhhhCC
Q psy3727         195 QAYVENTALSRSAVKDRAINVQLC  218 (232)
Q Consensus       195 ~~~v~~~gLp~~~t~~dl~~fF~~  218 (232)
                      ...|+|.|||+++|++||+++|..
T Consensus        11 ~~~l~v~nLp~~~t~~~L~~~F~~   34 (93)
T d2cq3a1          11 PKRLHVSNIPFRFRDPDLRQMFGQ   34 (93)
T ss_dssp             CCEEEEESCCTTCCHHHHHHHGGG
T ss_pred             CCEEEEECCCCCCCHHHHHHHHhh
Confidence            346999999999999999999963

>d1x5sa1 d.58.7.1 (A:8-97) Cold-inducible RNA-binding protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Cold-inducible RNA-binding protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.57  E-value=0.0043  Score=42.18  Aligned_cols=23  Identities=13%  Similarity=-0.142  Sum_probs=21.0

Q ss_pred             ceEEEcCCCccccHHHHHhhhCC
Q psy3727         196 AYVENTALSRSAVKDRAINVQLC  218 (232)
Q Consensus       196 ~~v~~~gLp~~~t~~dl~~fF~~  218 (232)
                      ..|+|.|||+++|++||+++|..
T Consensus         6 ~kifV~nLp~~~t~~~l~~~F~~   28 (90)
T d1x5sa1           6 GKLFVGGLSFDTNEQSLEQVFSK   28 (90)
T ss_dssp             SEEEEESCCTTCCHHHHHHHHHH
T ss_pred             CEEEEECCCCcCCHHHHHHhhhc
Confidence            46999999999999999999973

>d1u2fa_ d.58.7.1 (A:) Splicing factor U2AF 65 KDa subunit {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Splicing factor U2AF 65 KDa subunit
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.57  E-value=0.0019  Score=44.16  Aligned_cols=22  Identities=0%  Similarity=-0.064  Sum_probs=20.4

Q ss_pred             eEEEcCCCccccHHHHHhhhCC
Q psy3727         197 YVENTALSRSAVKDRAINVQLC  218 (232)
Q Consensus       197 ~v~~~gLp~~~t~~dl~~fF~~  218 (232)
                      .|+|.|||+++|++||+++|+.
T Consensus         3 rlyVgNLp~~~te~~l~~~F~~   24 (90)
T d1u2fa_           3 RLYVGNIPFGITEEAMMDFFNA   24 (90)
T ss_dssp             EEEECSCCTTCCTTHHHHHHHH
T ss_pred             EEEEcCCCCccchHHHHHHHHh
Confidence            6899999999999999999974

>d2cqca1 d.58.7.1 (A:109-191) Arginine/serine-rich splicing factor 10 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Arginine/serine-rich splicing factor 10
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.54  E-value=0.0039  Score=41.81  Aligned_cols=24  Identities=13%  Similarity=-0.076  Sum_probs=21.5

Q ss_pred             cceEEEcCCCccccHHHHHhhhCC
Q psy3727         195 QAYVENTALSRSAVKDRAINVQLC  218 (232)
Q Consensus       195 ~~~v~~~gLp~~~t~~dl~~fF~~  218 (232)
                      ...|+|.|||+++|++||+++|+.
T Consensus         9 ~~~l~V~nL~~~~te~~l~~~F~~   32 (83)
T d2cqca1           9 NCCLGVFGLSLYTTERDLREVFSK   32 (83)
T ss_dssp             GGCEEEESCCSSCCHHHHHHHHHT
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHH
Confidence            357999999999999999999963

>d1x4ea1 d.58.7.1 (A:8-79) RNA-binding motif, single-stranded-interacting protein 2, RBMS2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding motif, single-stranded-interacting protein 2, RBMS2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.51  E-value=0.0032  Score=41.01  Aligned_cols=21  Identities=5%  Similarity=-0.007  Sum_probs=19.2

Q ss_pred             EEEcCCCccccHHHHHhhhCC
Q psy3727         198 VENTALSRSAVKDRAINVQLC  218 (232)
Q Consensus       198 v~~~gLp~~~t~~dl~~fF~~  218 (232)
                      |+|.|||+++|+++|+++|..
T Consensus         1 lyV~nLp~~~te~~l~~~F~~   21 (72)
T d1x4ea1           1 LYIRGLQPGTTDQDLVKLCQP   21 (72)
T ss_dssp             EEEESCCTTCCHHHHHTTSTT
T ss_pred             CEEeCCCCcCCHHHHHHHHhh
Confidence            678999999999999999973

>d1l3ka1 d.58.7.1 (A:8-91) Nuclear ribonucleoprotein A1 (RNP A1, UP1) {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Nuclear ribonucleoprotein A1 (RNP A1, UP1)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.46  E-value=0.0039  Score=42.16  Aligned_cols=22  Identities=9%  Similarity=-0.171  Sum_probs=20.5

Q ss_pred             ceEEEcCCCccccHHHHHhhhC
Q psy3727         196 AYVENTALSRSAVKDRAINVQL  217 (232)
Q Consensus       196 ~~v~~~gLp~~~t~~dl~~fF~  217 (232)
                      ..|+|.|||+++|++||+++|+
T Consensus         7 ~~lfV~nlp~~~te~~l~~~F~   28 (84)
T d1l3ka1           7 RKLFIGGLSFETTDESLRSHFE   28 (84)
T ss_dssp             GEEEEESCCTTCCHHHHHHHHG
T ss_pred             cEEEEECCCCCCCHHHHHHHHH
Confidence            4699999999999999999996

>d2cpfa1 d.58.7.1 (A:362-446) Probable RNA-binding protein 19, Rbm19 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Probable RNA-binding protein 19, Rbm19
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=95.45  E-value=0.0031  Score=42.49  Aligned_cols=21  Identities=14%  Similarity=-0.059  Sum_probs=19.2

Q ss_pred             EEEcCCCccccHHHHHhhhCC
Q psy3727         198 VENTALSRSAVKDRAINVQLC  218 (232)
Q Consensus       198 v~~~gLp~~~t~~dl~~fF~~  218 (232)
                      |+|.|||+++|++||+++|+.
T Consensus         1 LfV~nLp~~~t~~~l~~~F~~   21 (85)
T d2cpfa1           1 LFIKNLNFSTTEETLKGVFSK   21 (85)
T ss_dssp             EEEESCCTTCCHHHHHHHHHT
T ss_pred             CEEcCCCCCCCHHHHHHHHHH
Confidence            678999999999999999964

>d2b0ga1 d.58.7.1 (A:1-83) Splicesomal U1A protein {Drosophila melanogaster [TaxId: 7227]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Splicesomal U1A protein
species: Drosophila melanogaster [TaxId: 7227]

Probab=95.43  E-value=0.0064  Score=40.76  Aligned_cols=26  Identities=12%  Similarity=-0.098  Sum_probs=22.4

Q ss_pred             CCcceEEEcCCCccccHHHHHhhhCC
Q psy3727         193 PNQAYVENTALSRSAVKDRAINVQLC  218 (232)
Q Consensus       193 ~~~~~v~~~gLp~~~t~~dl~~fF~~  218 (232)
                      |....|+|.|||+++|+++|.++|..
T Consensus         6 pP~~tl~V~nLp~~~t~~~l~~~f~~   31 (83)
T d2b0ga1           6 PPNQILFLTNLPEETNEMMLSMLFNQ   31 (83)
T ss_dssp             SCCSEEEEESCCTTCCHHHHHHHHTT
T ss_pred             CCCCEEEEECCCCCCCHHHHHhhhcc
Confidence            33568999999999999999999953

>d2cqba1 d.58.7.1 (A:1-89) Peptidyl-prolyl cis-trans isomerase E, N-terminal domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Peptidyl-prolyl cis-trans isomerase E, N-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.41  E-value=0.0049  Score=41.92  Aligned_cols=23  Identities=4%  Similarity=-0.142  Sum_probs=21.1

Q ss_pred             ceEEEcCCCccccHHHHHhhhCC
Q psy3727         196 AYVENTALSRSAVKDRAINVQLC  218 (232)
Q Consensus       196 ~~v~~~gLp~~~t~~dl~~fF~~  218 (232)
                      ..|+|.|||+++|++||+++|+.
T Consensus         6 ~tlfV~nLp~~~te~~l~~~F~~   28 (89)
T d2cqba1           6 RVLYVGGLAEEVDDKVLHAAFIP   28 (89)
T ss_dssp             SCEEEESCCSSCCHHHHHHHHTT
T ss_pred             cEEEEeCCCCcCCHHHHHHHHhh
Confidence            47999999999999999999974

>d3begb1 d.58.7.1 (B:121-207) Splicing factor, arginine/serine-rich 1, SFRS1 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Splicing factor, arginine/serine-rich 1, SFRS1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.37  E-value=0.0022  Score=43.63  Aligned_cols=21  Identities=14%  Similarity=-0.069  Sum_probs=19.5

Q ss_pred             eEEEcCCCccccHHHHHhhhC
Q psy3727         197 YVENTALSRSAVKDRAINVQL  217 (232)
Q Consensus       197 ~v~~~gLp~~~t~~dl~~fF~  217 (232)
                      .|+|.|||+++|++||+++|+
T Consensus         2 rvfV~nlp~~~~~~~l~~~F~   22 (87)
T d3begb1           2 RVVVSGLPPSGSWQDLKDHMR   22 (87)
T ss_dssp             CEEEEECCSSCCTTHHHHHHG
T ss_pred             eEEEECCCCcCCHHHHHHHHh
Confidence            478899999999999999996

>d1whxa_ d.58.7.1 (A:) Probable RNA-binding protein 19, Rbm19 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Probable RNA-binding protein 19, Rbm19
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=95.35  E-value=0.0041  Score=43.78  Aligned_cols=22  Identities=5%  Similarity=-0.011  Sum_probs=20.7

Q ss_pred             ceEEEcCCCccccHHHHHhhhC
Q psy3727         196 AYVENTALSRSAVKDRAINVQL  217 (232)
Q Consensus       196 ~~v~~~gLp~~~t~~dl~~fF~  217 (232)
                      ..|+|+|||+++|++||+++|.
T Consensus        11 ~~l~V~nLp~~~t~~~L~~~F~   32 (111)
T d1whxa_          11 TVILAKNLPAGTLAAEIQETFS   32 (111)
T ss_dssp             EEEEEESCCTTCCHHHHHHHHH
T ss_pred             CEEEEECCCCCCCHHHHHhhhh
Confidence            5799999999999999999996

>d1wi6a1 d.58.7.1 (A:69-143) Ribonucleoprotein PTB-binding 1, Raver-1 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Ribonucleoprotein PTB-binding 1, Raver-1
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=95.29  E-value=0.0046  Score=40.86  Aligned_cols=20  Identities=5%  Similarity=0.038  Sum_probs=18.7

Q ss_pred             EEEcCCCccccHHHHHhhhC
Q psy3727         198 VENTALSRSAVKDRAINVQL  217 (232)
Q Consensus       198 v~~~gLp~~~t~~dl~~fF~  217 (232)
                      |+|.|||+++|++||+++|+
T Consensus         1 i~V~nLp~~~t~~~l~~~F~   20 (75)
T d1wi6a1           1 ILIRGLPGDVTNQEVHDLLS   20 (75)
T ss_dssp             EEEECCCTTCCHHHHHHHTT
T ss_pred             CEEeCCCCcCCHHHHHHHHh
Confidence            67899999999999999996

>d1x5ua1 d.58.7.1 (A:7-99) Splicing factor 3B subunit 4 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Splicing factor 3B subunit 4
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.28  E-value=0.0068  Score=41.64  Aligned_cols=24  Identities=17%  Similarity=0.008  Sum_probs=21.5

Q ss_pred             cceEEEcCCCccccHHHHHhhhCC
Q psy3727         195 QAYVENTALSRSAVKDRAINVQLC  218 (232)
Q Consensus       195 ~~~v~~~gLp~~~t~~dl~~fF~~  218 (232)
                      ...|+|.|||+++|++||+++|+.
T Consensus         9 ~~tlfV~nLp~~~t~~~l~~~F~~   32 (93)
T d1x5ua1           9 DATVYVGGLDEKVSEPLLWELFLQ   32 (93)
T ss_dssp             TTEEEEECCCTTCCHHHHHHHHHT
T ss_pred             CCEEEEeCCCCcCCHHHHHHHHHH
Confidence            357999999999999999999963

>d1fjeb1 d.58.7.1 (B:1-91) Nucleolin {Golden hamster (Mesocricetus auratus) [TaxId: 10036]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Nucleolin
species: Golden hamster (Mesocricetus auratus) [TaxId: 10036]

Probab=95.27  E-value=0.0083  Score=41.06  Aligned_cols=23  Identities=4%  Similarity=-0.294  Sum_probs=20.9

Q ss_pred             ceEEEcCCCccccHHHHHhhhCC
Q psy3727         196 AYVENTALSRSAVKDRAINVQLC  218 (232)
Q Consensus       196 ~~v~~~gLp~~~t~~dl~~fF~~  218 (232)
                      ..|+|.|||+++|++||+++|..
T Consensus        14 ~~ifV~nL~~~~te~~l~~~F~~   36 (91)
T d1fjeb1          14 FNLFIGNLNPNKSVAELKVAISE   36 (91)
T ss_dssp             EEEEEECCCTTSCHHHHHHHHHH
T ss_pred             cEEEEeCccCcchHHHHHHHHhc
Confidence            46999999999999999999973

>d1no8a_ d.58.7.1 (A:) Nuclear factor Aly {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Nuclear factor Aly
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=95.21  E-value=0.0045  Score=41.09  Aligned_cols=21  Identities=5%  Similarity=-0.111  Sum_probs=19.7

Q ss_pred             eEEEcCCCccccHHHHHhhhC
Q psy3727         197 YVENTALSRSAVKDRAINVQL  217 (232)
Q Consensus       197 ~v~~~gLp~~~t~~dl~~fF~  217 (232)
                      .|+|.|||+++|++||+++|.
T Consensus         2 rl~V~nLp~~~~~~~l~~~F~   22 (78)
T d1no8a_           2 KLLVSNLDFGVSDADIQELFA   22 (78)
T ss_dssp             EEEEESCCTTCCHHHHHHHHH
T ss_pred             EEEEECCCCCCCHHHHHHHHH
Confidence            588999999999999999997

>d1zh5a2 d.58.7.1 (A:105-189) Lupus LA protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Lupus LA protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.19  E-value=0.0058  Score=41.31  Aligned_cols=23  Identities=13%  Similarity=-0.125  Sum_probs=20.9

Q ss_pred             ceEEEcCCCccccHHHHHhhhCC
Q psy3727         196 AYVENTALSRSAVKDRAINVQLC  218 (232)
Q Consensus       196 ~~v~~~gLp~~~t~~dl~~fF~~  218 (232)
                      ..|+|.|||+++|++||+++|+.
T Consensus         7 rtvfV~nlp~~~te~~l~~~F~~   29 (85)
T d1zh5a2           7 RSVYIKGFPTDATLDDIKEWLED   29 (85)
T ss_dssp             TEEEEECCCTTCCHHHHHHHHTT
T ss_pred             CEEEEECCCCCCCHHHHHHHHHH
Confidence            36999999999999999999964

>d1x5ta1 d.58.7.1 (A:8-90) Splicing factor 3B subunit 4 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Splicing factor 3B subunit 4
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.18  E-value=0.0049  Score=41.24  Aligned_cols=21  Identities=5%  Similarity=-0.145  Sum_probs=19.4

Q ss_pred             EEEcCCCccccHHHHHhhhCC
Q psy3727         198 VENTALSRSAVKDRAINVQLC  218 (232)
Q Consensus       198 v~~~gLp~~~t~~dl~~fF~~  218 (232)
                      |+|.|||+++|++||+++|..
T Consensus         1 lfV~nLp~~~te~~l~~~F~~   21 (83)
T d1x5ta1           1 IFIGNLDPEIDEKLLYDTFSA   21 (83)
T ss_dssp             EEEECCCTTCCHHHHHHHHHT
T ss_pred             CEEcCCCCcCcHHHHHHHHHH
Confidence            688999999999999999964

>d1x5oa1 d.58.7.1 (A:8-108) RNA-binding motif, single-stranded-interacting protein 1, RBMS1 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding motif, single-stranded-interacting protein 1, RBMS1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.17  E-value=0.0083  Score=41.75  Aligned_cols=23  Identities=13%  Similarity=-0.032  Sum_probs=21.0

Q ss_pred             cceEEEcCCCccccHHHHHhhhC
Q psy3727         195 QAYVENTALSRSAVKDRAINVQL  217 (232)
Q Consensus       195 ~~~v~~~gLp~~~t~~dl~~fF~  217 (232)
                      ...|+|.|||+++|++||+++|.
T Consensus        18 ~~~lfV~nLp~~~te~~L~~~F~   40 (101)
T d1x5oa1          18 PTNLYISNLPLSMDEQELENMLK   40 (101)
T ss_dssp             TTEEEEESCCTTCCHHHHHHTTT
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHh
Confidence            35799999999999999999996

>d2cq0a1 d.58.7.1 (A:231-320) Eukaryotic translation initiation factor 3 subunit 4 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Eukaryotic translation initiation factor 3 subunit 4
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.13  E-value=0.0074  Score=41.09  Aligned_cols=24  Identities=17%  Similarity=0.044  Sum_probs=21.7

Q ss_pred             cceEEEcCCCccccHHHHHhhhCC
Q psy3727         195 QAYVENTALSRSAVKDRAINVQLC  218 (232)
Q Consensus       195 ~~~v~~~gLp~~~t~~dl~~fF~~  218 (232)
                      ...|+|.|||+++|+++|+++|+.
T Consensus         8 ~~~i~V~nLp~~~t~~~l~~~f~~   31 (90)
T d2cq0a1           8 NATIRVTNLSEDTRETDLQELFRP   31 (90)
T ss_dssp             SEEEEEESCCTTCCHHHHHTTSTT
T ss_pred             CCEEEEECCCCCCCHHHHHHHHHH
Confidence            467999999999999999999964

>d1h2vz_ d.58.7.1 (Z:) CBP20, 20KDa nuclear cap-binding protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: CBP20, 20KDa nuclear cap-binding protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.11  E-value=0.0084  Score=41.14  Aligned_cols=24  Identities=8%  Similarity=-0.065  Sum_probs=21.7

Q ss_pred             cceEEEcCCCccccHHHHHhhhCC
Q psy3727         195 QAYVENTALSRSAVKDRAINVQLC  218 (232)
Q Consensus       195 ~~~v~~~gLp~~~t~~dl~~fF~~  218 (232)
                      .+.|+|.|||+++|+++|+++|+.
T Consensus         7 s~tlfV~nlp~~~te~~l~~~F~~   30 (93)
T d1h2vz_           7 SCTLYVGNLSFYTTEEQIYELFSK   30 (93)
T ss_dssp             CCEEEEESCCTTCCHHHHHHHHGG
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHH
Confidence            358999999999999999999973

>d2cq1a1 d.58.7.1 (A:51-138) Polypyrimidine tract-binding protein 2, PTBP2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Polypyrimidine tract-binding protein 2, PTBP2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.06  E-value=0.0093  Score=40.32  Aligned_cols=23  Identities=13%  Similarity=0.164  Sum_probs=21.1

Q ss_pred             cceEEEcCCCccccHHHHHhhhC
Q psy3727         195 QAYVENTALSRSAVKDRAINVQL  217 (232)
Q Consensus       195 ~~~v~~~gLp~~~t~~dl~~fF~  217 (232)
                      ...|+|.|||+++|++||+++|+
T Consensus         8 s~~l~V~nLp~~~t~~~L~~~f~   30 (88)
T d2cq1a1           8 SRVLHIRKLPGEVTETEVIALGL   30 (88)
T ss_dssp             CSEEEEESCCTTCCHHHHHHTTT
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHh
Confidence            45899999999999999999994

>d2cpja1 d.58.7.1 (A:65-150) Non-POU domain-containing octamer-binding protein, NonO {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Non-POU domain-containing octamer-binding protein, NonO
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=95.05  E-value=0.01  Score=40.11  Aligned_cols=24  Identities=4%  Similarity=-0.082  Sum_probs=21.4

Q ss_pred             cceEEEcCCCccccHHHHHhhhCC
Q psy3727         195 QAYVENTALSRSAVKDRAINVQLC  218 (232)
Q Consensus       195 ~~~v~~~gLp~~~t~~dl~~fF~~  218 (232)
                      ...|+|.|||+++|++||+++|+.
T Consensus         8 ~~~l~V~nLp~~~~~~~l~~~F~~   31 (86)
T d2cpja1           8 RSRLFVGNLPPDITEEEMRKLFEK   31 (86)
T ss_dssp             TTEEEEESCCTTCCHHHHHHHTST
T ss_pred             CCEEEEECCCCCCCHHHHHHHHHH
Confidence            357999999999999999999963

>d1fxla2 d.58.7.1 (A:119-203) Hu antigen D (Hud) {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Hu antigen D (Hud)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.04  E-value=0.0067  Score=40.91  Aligned_cols=22  Identities=9%  Similarity=0.064  Sum_probs=20.4

Q ss_pred             ceEEEcCCCccccHHHHHhhhC
Q psy3727         196 AYVENTALSRSAVKDRAINVQL  217 (232)
Q Consensus       196 ~~v~~~gLp~~~t~~dl~~fF~  217 (232)
                      ..|+|.|||+++|++||+++|+
T Consensus         7 ~~lfV~nLp~~~te~~L~~~F~   28 (85)
T d1fxla2           7 ANLYVSGLPKTMTQKELEQLFS   28 (85)
T ss_dssp             CEEEEESCCTTCCHHHHHHHHG
T ss_pred             CEEEEeCCCCCCCHHHHHHHHH
Confidence            4699999999999999999996

>d2cqha1 d.58.7.1 (A:2-81) IGF-II mRNA-binding protein 2 isoform A {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: IGF-II mRNA-binding protein 2 isoform A
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.00  E-value=0.0051  Score=41.07  Aligned_cols=21  Identities=14%  Similarity=-0.073  Sum_probs=19.7

Q ss_pred             eEEEcCCCccccHHHHHhhhC
Q psy3727         197 YVENTALSRSAVKDRAINVQL  217 (232)
Q Consensus       197 ~v~~~gLp~~~t~~dl~~fF~  217 (232)
                      .|+|.|||+++|++||+++|+
T Consensus         3 ~l~V~nLp~~~te~~L~~~F~   23 (80)
T d2cqha1           3 KLYIGNLSPAVTADDLRQLFG   23 (80)
T ss_dssp             CEEEECCCTTCCHHHHHHHHH
T ss_pred             EEEEECCCCCCCHHHHHHHHH
Confidence            588999999999999999996

>d2adca2 d.58.7.1 (A:444-531) Polypyrimidine tract-binding protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Polypyrimidine tract-binding protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.00  E-value=0.0066  Score=41.05  Aligned_cols=24  Identities=8%  Similarity=0.003  Sum_probs=21.5

Q ss_pred             cceEEEcCCCccccHHHHHhhhCC
Q psy3727         195 QAYVENTALSRSAVKDRAINVQLC  218 (232)
Q Consensus       195 ~~~v~~~gLp~~~t~~dl~~fF~~  218 (232)
                      ...|+|.|||+++|+++|+++|+.
T Consensus        10 s~tL~V~NLp~~~te~~l~~~F~~   33 (88)
T d2adca2          10 SATLHLSNIPPSVSEEDLKVLFSS   33 (88)
T ss_dssp             CSEEEEECCCTTCCHHHHHHHHHT
T ss_pred             CCEEEEECCCCCCCHHHHHHHhhc
Confidence            457999999999999999999964

>d1cvja1 d.58.7.1 (A:11-90) Poly(A)-binding protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Poly(A)-binding protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.95  E-value=0.0071  Score=40.21  Aligned_cols=22  Identities=5%  Similarity=-0.212  Sum_probs=20.0

Q ss_pred             eEEEcCCCccccHHHHHhhhCC
Q psy3727         197 YVENTALSRSAVKDRAINVQLC  218 (232)
Q Consensus       197 ~v~~~gLp~~~t~~dl~~fF~~  218 (232)
                      .|+|.|||+.+|++||+++|+.
T Consensus         2 slfV~nL~~~~te~~l~~~F~~   23 (80)
T d1cvja1           2 SLYVGDLHPDVTEAMLYEKFSP   23 (80)
T ss_dssp             EEEEESCCTTCCHHHHHHHHGG
T ss_pred             EEEEeCCCCcCCHHHHHHHHHH
Confidence            4889999999999999999963

>d2cpda1 d.58.7.1 (A:223-308) APOBEC1 stimulating protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: APOBEC1 stimulating protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.90  E-value=0.0065  Score=40.91  Aligned_cols=23  Identities=9%  Similarity=-0.175  Sum_probs=20.8

Q ss_pred             ceEEEcCCCccccHHHHHhhhCC
Q psy3727         196 AYVENTALSRSAVKDRAINVQLC  218 (232)
Q Consensus       196 ~~v~~~gLp~~~t~~dl~~fF~~  218 (232)
                      ..|+|.|||+++|++||+++|+.
T Consensus         9 k~l~V~nLp~~~te~~l~~~F~~   31 (86)
T d2cpda1           9 KILYVRNLMLSTSEEMIEKEFNN   31 (86)
T ss_dssp             CEEEEESCCTTCCHHHHHHHHHT
T ss_pred             CEEEEcCCCCCCCHHHHHHhhcc
Confidence            36999999999999999999964

>d2u2fa_ d.58.7.1 (A:) Splicing factor U2AF 65 KDa subunit {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Splicing factor U2AF 65 KDa subunit
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.87  E-value=0.0055  Score=41.38  Aligned_cols=22  Identities=9%  Similarity=-0.052  Sum_probs=20.3

Q ss_pred             eEEEcCCCccccHHHHHhhhCC
Q psy3727         197 YVENTALSRSAVKDRAINVQLC  218 (232)
Q Consensus       197 ~v~~~gLp~~~t~~dl~~fF~~  218 (232)
                      .|+|.|||+++|++||+++|..
T Consensus         3 rlfV~nlp~~~te~~l~~~F~~   24 (85)
T d2u2fa_           3 KLFIGGLPNYLNDDQVKELLTS   24 (85)
T ss_dssp             CEEEETCCSSCCSHHHHHHHTS
T ss_pred             EEEEECCCCCCCHHHHHHHHHh
Confidence            5889999999999999999974

>d1b7fa2 d.58.7.1 (A:205-289) Sex-lethal protein {Drosophila melanogaster [TaxId: 7227]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Sex-lethal protein
species: Drosophila melanogaster [TaxId: 7227]

Probab=94.85  E-value=0.0085  Score=40.26  Aligned_cols=23  Identities=17%  Similarity=0.055  Sum_probs=20.9

Q ss_pred             ceEEEcCCCccccHHHHHhhhCC
Q psy3727         196 AYVENTALSRSAVKDRAINVQLC  218 (232)
Q Consensus       196 ~~v~~~gLp~~~t~~dl~~fF~~  218 (232)
                      ..|+|.|||+++|+++|+++|+.
T Consensus         7 t~lfV~nlp~~~te~~l~~~F~~   29 (85)
T d1b7fa2           7 TNLYVTNLPRTITDDQLDTIFGK   29 (85)
T ss_dssp             CEEEEESCCTTCCHHHHHHHHTS
T ss_pred             CEEEEeCCCCCCCHHHHHHHHHh
Confidence            46999999999999999999973

>d2disa1 d.58.7.1 (A:8-103) Hypothetical protein FLJ20273 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Hypothetical protein FLJ20273
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.76  E-value=0.0082  Score=41.31  Aligned_cols=23  Identities=0%  Similarity=-0.048  Sum_probs=21.2

Q ss_pred             ceEEEcCCCccccHHHHHhhhCC
Q psy3727         196 AYVENTALSRSAVKDRAINVQLC  218 (232)
Q Consensus       196 ~~v~~~gLp~~~t~~dl~~fF~~  218 (232)
                      +.|+|.|||+++|+++|+++|..
T Consensus         2 ~rLyV~nLp~~~te~~l~~~f~~   24 (96)
T d2disa1           2 CRLFIGGIPKMKKREEILEEIAK   24 (96)
T ss_dssp             EEEEEECCCTTSCHHHHHHHHHH
T ss_pred             CEEEEcCCCCcCCHHHHHHHHHH
Confidence            57999999999999999999973

>d2cq4a1 d.58.7.1 (A:132-232) RNA binding protein 23 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA binding protein 23
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.65  E-value=0.0091  Score=41.74  Aligned_cols=23  Identities=9%  Similarity=-0.158  Sum_probs=21.1

Q ss_pred             ceEEEcCCCccccHHHHHhhhCC
Q psy3727         196 AYVENTALSRSAVKDRAINVQLC  218 (232)
Q Consensus       196 ~~v~~~gLp~~~t~~dl~~fF~~  218 (232)
                      ..|+|.|||+++|++||+++|+.
T Consensus        19 ~tifV~nL~~~~te~~l~~~F~~   41 (101)
T d2cq4a1          19 RTVFCMQLAARIRPRDLEDFFSA   41 (101)
T ss_dssp             TEEEEESCCTTCCHHHHHHHHTT
T ss_pred             CEEEEECCCCCCCHHHHHHHHcC
Confidence            46999999999999999999973

>d1cvja2 d.58.7.1 (A:91-179) Poly(A)-binding protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Poly(A)-binding protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.62  E-value=0.011  Score=40.05  Aligned_cols=23  Identities=9%  Similarity=-0.029  Sum_probs=20.7

Q ss_pred             ceEEEcCCCccccHHHHHhhhCC
Q psy3727         196 AYVENTALSRSAVKDRAINVQLC  218 (232)
Q Consensus       196 ~~v~~~gLp~~~t~~dl~~fF~~  218 (232)
                      ..|+|.|||+++|++||+++|..
T Consensus         9 ~~l~V~nLp~~~t~~~l~~~F~~   31 (89)
T d1cvja2           9 GNIFIKNLDKSIDNKALYDTFSA   31 (89)
T ss_dssp             TEEEEESCCSSCCHHHHHHHHHT
T ss_pred             CEEEEeCCCCCCCHHHHHHHHHh
Confidence            36899999999999999999963

>d2adba1 d.58.7.1 (A:177-284) Polypyrimidine tract-binding protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Polypyrimidine tract-binding protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.60  E-value=0.0066  Score=42.78  Aligned_cols=24  Identities=8%  Similarity=-0.182  Sum_probs=21.2

Q ss_pred             cceEEEcCCCccccHHHHHhhhCC
Q psy3727         195 QAYVENTALSRSAVKDRAINVQLC  218 (232)
Q Consensus       195 ~~~v~~~gLp~~~t~~dl~~fF~~  218 (232)
                      ...|+|+|||+++|++||+++|..
T Consensus         7 ~~~v~V~NL~~~vte~~L~~~F~~   30 (108)
T d2adba1           7 VLRIIVENLFYPVTLDVLHQIFSK   30 (108)
T ss_dssp             EEEEESCSCCSTTHHHHHHHHHTT
T ss_pred             eEEEEEeCcCCCCCHHHHHHHHcc
Confidence            357899999999999999999963

>d2cqia1 d.58.7.1 (A:1-90) Nucleolysin TIAR {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Nucleolysin TIAR
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.58  E-value=0.012  Score=40.00  Aligned_cols=22  Identities=14%  Similarity=0.009  Sum_probs=20.6

Q ss_pred             ceEEEcCCCccccHHHHHhhhC
Q psy3727         196 AYVENTALSRSAVKDRAINVQL  217 (232)
Q Consensus       196 ~~v~~~gLp~~~t~~dl~~fF~  217 (232)
                      ..|+|.|||+++|+++|+++|+
T Consensus         9 ~tl~V~nLp~~~te~~l~~~F~   30 (90)
T d2cqia1           9 RTLYVGNLSRDVTEVLILQLFS   30 (90)
T ss_dssp             CEEEEESCCTTCCHHHHHHHHH
T ss_pred             CEEEEECCCCCCCHHHHHHHHH
Confidence            4799999999999999999996

>d1whya_ d.58.7.1 (A:) Putative RNA-binding protein 15B, Rbm15b {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Putative RNA-binding protein 15B, Rbm15b
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=94.56  E-value=0.021  Score=39.28  Aligned_cols=23  Identities=4%  Similarity=-0.224  Sum_probs=21.0

Q ss_pred             cceEEEcCCCccccHHHHHhhhC
Q psy3727         195 QAYVENTALSRSAVKDRAINVQL  217 (232)
Q Consensus       195 ~~~v~~~gLp~~~t~~dl~~fF~  217 (232)
                      ...|+|.|||+++|+++|+++|+
T Consensus        17 s~tl~V~nLp~~~t~~~l~~~f~   39 (97)
T d1whya_          17 TTRLWVGGLGPNTSLAALAREFD   39 (97)
T ss_dssp             CSCEEEECCCSSCCHHHHHHHHH
T ss_pred             CCEEEEcCCCCCCCHHHHHHHHH
Confidence            35799999999999999999995

>d1whva_ d.58.7.1 (A:) Poly(A)-specific ribonuclease PARN {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Poly(A)-specific ribonuclease PARN
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=94.43  E-value=0.074  Score=37.04  Aligned_cols=53  Identities=15%  Similarity=0.165  Sum_probs=44.6

Q ss_pred             cEEEEcCCCCCCCHHHHHhccCCCCceEEEEeecCCCCccEEEEEeCCHHHHHHHHHh
Q psy3727          79 HTVHMRGLPFRANERDVADFFRPVVPVHVDIHYENGRPSGEADVDFATHEDAMQAMSK  136 (232)
Q Consensus        79 ~~vfV~nLp~~~te~dl~~~F~~~~i~~v~i~~d~g~~kG~afVeF~s~eda~~Al~~  136 (232)
                      .-||+-..|-.....||.++|++|..+.|..+-|.     -|||...+.|+|+.+++.
T Consensus        16 dHVf~~tFP~~Wk~~dI~~lFSpfG~V~VswIddT-----Sa~V~L~~~e~~~~v~~~   68 (100)
T d1whva_          16 DHVLHVTFPKEWKTSDLYQLFSAFGNIQISWIDDT-----SAFVSLSQPEQVQIAVNT   68 (100)
T ss_dssp             CSEEEEECCTTCCHHHHHHHHTTTCSCCCEEEETT-----EEEEECSCHHHHHHHHHH
T ss_pred             ceeEEEeCCcccchhHHHHHhcCCCceEEEEecCc-----eEEEEecCHHHHHHHHHH
Confidence            34666669999999999999999976777777654     799999999999998874

>d2cpha1 d.58.7.1 (A:454-547) Probable RNA-binding protein 19, Rbm19 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Probable RNA-binding protein 19, Rbm19
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=94.34  E-value=0.014  Score=39.97  Aligned_cols=23  Identities=4%  Similarity=-0.100  Sum_probs=20.9

Q ss_pred             ceEEEcCCCccccHHHHHhhhCC
Q psy3727         196 AYVENTALSRSAVKDRAINVQLC  218 (232)
Q Consensus       196 ~~v~~~gLp~~~t~~dl~~fF~~  218 (232)
                      ..|+|.|||+++|++||+++|..
T Consensus         9 ~~l~V~nLp~~~~e~~l~~~F~~   31 (94)
T d2cpha1           9 SKILVRNIPFQANQREIRELFST   31 (94)
T ss_dssp             CCEEEESCCTTCCHHHHHHHHHT
T ss_pred             CEEEEeCCCCCCCHHHHHHHHHH
Confidence            46999999999999999999974

>d2f9da1 d.58.7.1 (A:12-125) Pre-mRNA branch site protein p14 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Pre-mRNA branch site protein p14
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.28  E-value=0.012  Score=41.56  Aligned_cols=22  Identities=5%  Similarity=-0.058  Sum_probs=20.6

Q ss_pred             ceEEEcCCCccccHHHHHhhhC
Q psy3727         196 AYVENTALSRSAVKDRAINVQL  217 (232)
Q Consensus       196 ~~v~~~gLp~~~t~~dl~~fF~  217 (232)
                      ..|+|.|||+++|+++|.++|.
T Consensus         8 r~l~V~nLp~~~te~~l~~~F~   29 (114)
T d2f9da1           8 RILYIRNLPYKITAEEMYDIFG   29 (114)
T ss_dssp             SEEEEESCCTTCCHHHHHHHHH
T ss_pred             CEEEEECCCCCCCHHHHHHHHh
Confidence            4799999999999999999996

>d1u6fa1 d.58.7.1 (A:1-139) RNA-binding protein UBP1 {Trypanosoma cruzi [TaxId: 5693]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding protein UBP1
species: Trypanosoma cruzi [TaxId: 5693]

Probab=94.26  E-value=0.0097  Score=43.66  Aligned_cols=22  Identities=0%  Similarity=-0.165  Sum_probs=20.5

Q ss_pred             ceEEEcCCCccccHHHHHhhhC
Q psy3727         196 AYVENTALSRSAVKDRAINVQL  217 (232)
Q Consensus       196 ~~v~~~gLp~~~t~~dl~~fF~  217 (232)
                      ..|+|.|||+++|++||+++|+
T Consensus        43 ~~l~V~nLp~~~te~~l~~~F~   64 (139)
T d1u6fa1          43 RNLMVNYIPTTVDEVQLRQLFE   64 (139)
T ss_dssp             SEEEEESCSTTCCHHHHHHHHH
T ss_pred             CEEEEeCCCCCCCHHHHHHHHH
Confidence            4699999999999999999996

>d1p1ta_ d.58.7.1 (A:) Cleavage stimulation factor, 64 kda subunit {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Cleavage stimulation factor, 64 kda subunit
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.02  E-value=0.011  Score=41.09  Aligned_cols=21  Identities=10%  Similarity=0.014  Sum_probs=19.8

Q ss_pred             eEEEcCCCccccHHHHHhhhC
Q psy3727         197 YVENTALSRSAVKDRAINVQL  217 (232)
Q Consensus       197 ~v~~~gLp~~~t~~dl~~fF~  217 (232)
                      .|+|.|||+++|++||+++|+
T Consensus        10 tl~V~nLp~~~te~~l~~~f~   30 (104)
T d1p1ta_          10 SVFVGNIPYEATEEQLKDIFS   30 (104)
T ss_dssp             CEEEESCCTTSCHHHHHHHHH
T ss_pred             EEEEECCCCcCCHHHHHHhhh
Confidence            589999999999999999995

>d2cpxa1 d.58.7.1 (A:291-392) RNA-binding protein 41, RBM41 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding protein 41, RBM41
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.75  E-value=0.021  Score=39.30  Aligned_cols=23  Identities=9%  Similarity=0.027  Sum_probs=21.1

Q ss_pred             cceEEEcCCCccccHHHHHhhhC
Q psy3727         195 QAYVENTALSRSAVKDRAINVQL  217 (232)
Q Consensus       195 ~~~v~~~gLp~~~t~~dl~~fF~  217 (232)
                      ...|+|.|||+++|++||+++|.
T Consensus        18 s~tl~V~nLp~~~t~~~l~~~f~   40 (102)
T d2cpxa1          18 NKVLYLKNLSPRVTERDLVSLFA   40 (102)
T ss_dssp             CSEEEEECCCTTCCHHHHHHHTH
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHh
Confidence            35799999999999999999997

>d1x4ga1 d.58.7.1 (A:8-103) Nucleolysin TIAR {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Nucleolysin TIAR
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.16  E-value=0.032  Score=38.32  Aligned_cols=25  Identities=8%  Similarity=0.016  Sum_probs=22.0

Q ss_pred             CCcceEEEcCCCccccHHHHHhhhC
Q psy3727         193 PNQAYVENTALSRSAVKDRAINVQL  217 (232)
Q Consensus       193 ~~~~~v~~~gLp~~~t~~dl~~fF~  217 (232)
                      +....|+|.|||.++|+++|+++|.
T Consensus        16 ~~~~~l~v~nL~~~~te~~L~~~F~   40 (96)
T d1x4ga1          16 PKNCTVYCGGIASGLTDQLMRQTFS   40 (96)
T ss_dssp             SSCCEEEEECCSSCCCHHHHHHHHH
T ss_pred             CCCCEEEEcCCCCCCCHHHHHHHHH
Confidence            3346799999999999999999996

>d2ghpa3 d.58.7.1 (A:206-291) U4/U6 snRNA-associated-splicing factor PRP24 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: U4/U6 snRNA-associated-splicing factor PRP24
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=92.89  E-value=0.017  Score=38.89  Aligned_cols=23  Identities=9%  Similarity=-0.132  Sum_probs=18.9

Q ss_pred             ceEEEcCCCccccH-HHHHhhhCC
Q psy3727         196 AYVENTALSRSAVK-DRAINVQLC  218 (232)
Q Consensus       196 ~~v~~~gLp~~~t~-~dl~~fF~~  218 (232)
                      ..|+|.|||+++|+ ++|+++|+.
T Consensus         5 ~~l~V~nLp~~~t~ed~l~~~F~~   28 (86)
T d2ghpa3           5 REIMIRNLSTELLDENLLRESFEG   28 (86)
T ss_dssp             TEEEEEEECTTTCCHHHHHHHHGG
T ss_pred             CEEEEECCCCCcccHHHHHHHHHh
Confidence            47999999999875 569999963

>d1x4fa1 d.58.7.1 (A:8-106) Matrin 3 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Matrin 3
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=92.68  E-value=0.052  Score=37.38  Aligned_cols=23  Identities=9%  Similarity=0.088  Sum_probs=20.3

Q ss_pred             cceEEEcCCCcc-ccHHHHHhhhC
Q psy3727         195 QAYVENTALSRS-AVKDRAINVQL  217 (232)
Q Consensus       195 ~~~v~~~gLp~~-~t~~dl~~fF~  217 (232)
                      ...|+|.|||++ +|++||.++|+
T Consensus        18 ~~~l~v~nLp~~~~te~~l~~~F~   41 (99)
T d1x4fa1          18 GRVIHLSNLPHSGYSDSAVLKLAE   41 (99)
T ss_dssp             CCEEEEESCCCSSCCSHHHHTTTT
T ss_pred             CCEEEEeCCcCCccCHHHHHhhhc
Confidence            357999999996 79999999996

>d1owxa_ d.58.7.1 (A:) Lupus LA protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Lupus LA protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=92.61  E-value=0.047  Score=38.55  Aligned_cols=23  Identities=4%  Similarity=-0.114  Sum_probs=19.9

Q ss_pred             ceEEEcCCCccccHHHHHhhhCC
Q psy3727         196 AYVENTALSRSAVKDRAINVQLC  218 (232)
Q Consensus       196 ~~v~~~gLp~~~t~~dl~~fF~~  218 (232)
                      +.++|.|||+++|+++|+++|+.
T Consensus        12 ~~~fvgnL~~~~tee~Lk~~F~~   34 (113)
T d1owxa_          12 LLKFSGDLDDQTCREDLHILFSN   34 (113)
T ss_dssp             EEEEEESCCSSCCHHHHHHHTCS
T ss_pred             eEEEECCCCCCCCHHHHHHHHHh
Confidence            34588899999999999999963

>d1wf2a_ d.58.7.1 (A:) Heterogeneous nuclear ribonucleoproteins C1/C2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Heterogeneous nuclear ribonucleoproteins C1/C2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=92.12  E-value=0.058  Score=37.10  Aligned_cols=23  Identities=13%  Similarity=-0.080  Sum_probs=19.5

Q ss_pred             cceEEEcCCC-ccccHHHHHhhhC
Q psy3727         195 QAYVENTALS-RSAVKDRAINVQL  217 (232)
Q Consensus       195 ~~~v~~~gLp-~~~t~~dl~~fF~  217 (232)
                      ...|+|.||| +.++++||+++|.
T Consensus        15 ~~~lfV~nL~~~~~~~~~L~~~F~   38 (98)
T d1wf2a_          15 NSRVFIGNLNTLVVKKSDVEAIFS   38 (98)
T ss_dssp             CCCEEEEEECTTTCCHHHHHHSST
T ss_pred             CcEEEEeCCCcccCCHHHHHHHHh
Confidence            3569999996 6789999999996

>d2adca1 d.58.7.1 (A:335-443) Polypyrimidine tract-binding protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Polypyrimidine tract-binding protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=91.87  E-value=0.045  Score=37.97  Aligned_cols=22  Identities=5%  Similarity=-0.091  Sum_probs=19.2

Q ss_pred             ceEEEcCCCc-cccHHHHHhhhC
Q psy3727         196 AYVENTALSR-SAVKDRAINVQL  217 (232)
Q Consensus       196 ~~v~~~gLp~-~~t~~dl~~fF~  217 (232)
                      ..|+|.|||+ .+|+++|+++|.
T Consensus         3 ~~l~V~nL~p~~~te~~L~~~F~   25 (109)
T d2adca1           3 SVLLVSNLNPERVTPQSLFILFG   25 (109)
T ss_dssp             SEEEEESCCTTTCCHHHHHHHHH
T ss_pred             CEEEEeCCCcccCCHHHHHHHHh
Confidence            4799999966 589999999997

>d1nu4a_ d.58.7.1 (A:) Splicesomal U1A protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Splicesomal U1A protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=91.84  E-value=0.048  Score=36.82  Aligned_cols=21  Identities=14%  Similarity=0.022  Sum_probs=18.5

Q ss_pred             ceEEEcCCCccccHHHHHhhh
Q psy3727         196 AYVENTALSRSAVKDRAINVQ  216 (232)
Q Consensus       196 ~~v~~~gLp~~~t~~dl~~fF  216 (232)
                      ..|+|.|||+++|++||++.|
T Consensus         4 ~tl~V~nLp~~~t~~dl~~~l   24 (91)
T d1nu4a_           4 HTIYINNLNEKIKKDELKKSL   24 (91)
T ss_dssp             SEEEEESCCTTSCHHHHHHHH
T ss_pred             CEEEEeCCCCCCCHHHHHHHH
Confidence            479999999999999998765

>d2cpia1 d.58.7.1 (A:101-189) E3 ubiquitin protein ligase CNOT4 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: E3 ubiquitin protein ligase CNOT4
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=89.62  E-value=0.036  Score=37.45  Aligned_cols=21  Identities=14%  Similarity=-0.081  Sum_probs=18.1

Q ss_pred             eEEEcCCCccccHHHH---HhhhC
Q psy3727         197 YVENTALSRSAVKDRA---INVQL  217 (232)
Q Consensus       197 ~v~~~gLp~~~t~~dl---~~fF~  217 (232)
                      .|+|.|||+++|++||   .++|.
T Consensus        10 ~vyV~nLp~~~t~~~l~~~~e~F~   33 (89)
T d2cpia1          10 LVFVVGLSQRLADPEVLKRPEYFG   33 (89)
T ss_dssp             CEEEEEECTTTCCHHHHHSTTTTT
T ss_pred             EEEEECCCCccCHHHHHHHHHHhc
Confidence            5899999999999999   55664

>d1x4da1 d.58.7.1 (A:8-96) Matrin 3 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Matrin 3
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=88.38  E-value=0.17  Score=33.91  Aligned_cols=22  Identities=9%  Similarity=0.129  Sum_probs=19.9

Q ss_pred             ceEEEcCCCcc-ccHHHHHhhhC
Q psy3727         196 AYVENTALSRS-AVKDRAINVQL  217 (232)
Q Consensus       196 ~~v~~~gLp~~-~t~~dl~~fF~  217 (232)
                      -.|+|.|||.. +|++||.++|+
T Consensus         9 r~v~v~nl~~~~~t~~eL~~lF~   31 (89)
T d1x4da1           9 RVVHIMDFQRGKNLRYQLLQLVE   31 (89)
T ss_dssp             CEEEEESCCCSSSHHHHHHTTTG
T ss_pred             cEEEEECCCCCcCCHHHHHHHHH
Confidence            47999999986 79999999997

>d2cq2a1 d.58.7.1 (A:25-125) Alkylation repair AlkB homolog 8, ALKBH8 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Alkylation repair AlkB homolog 8, ALKBH8
species: Human (Homo sapiens) [TaxId: 9606]

Probab=87.84  E-value=0.073  Score=36.83  Aligned_cols=22  Identities=18%  Similarity=0.223  Sum_probs=18.6

Q ss_pred             ceEEEcCCCccccHHHHHhhhC
Q psy3727         196 AYVENTALSRSAVKDRAINVQL  217 (232)
Q Consensus       196 ~~v~~~gLp~~~t~~dl~~fF~  217 (232)
                      .+|.+.|||+++|+++|+++|.
T Consensus        21 l~V~ng~L~~~vte~~L~~~F~   42 (101)
T d2cq2a1          21 LVVANGGLGNGVSRNQLLPVLE   42 (101)
T ss_dssp             EEEETCTGGGTCCHHHHHHHHH
T ss_pred             EEEECCCCCCCCCHHHHHHHHH
Confidence            4455577999999999999996

>d1wwha1 d.58.7.1 (A:169-249) Nucleoporin 35 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Nucleoporin 35
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=84.23  E-value=0.27  Score=32.48  Aligned_cols=24  Identities=4%  Similarity=0.088  Sum_probs=18.7

Q ss_pred             cceEEEcCCCccccHHHHHhhhCC
Q psy3727         195 QAYVENTALSRSAVKDRAINVQLC  218 (232)
Q Consensus       195 ~~~v~~~gLp~~~t~~dl~~fF~~  218 (232)
                      ..+|.|.|||+++|++.|+.|.+|
T Consensus         4 ~~wV~V~G~p~~~~~~il~~F~~~   27 (81)
T d1wwha1           4 DTWVTVFGFPQASASYILLQFAQY   27 (81)
T ss_dssp             GGEEEEECCCGGGHHHHHHHHHTT
T ss_pred             ccEEEEECCChHHHHHHHHHHHhh
Confidence            468999999999998777655443

>d2bz2a1 d.58.7.1 (A:35-113) Negative elongation factor E, NELF-E {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Negative elongation factor E, NELF-E
species: Human (Homo sapiens) [TaxId: 9606]

Probab=83.21  E-value=0.4  Score=31.00  Aligned_cols=20  Identities=0%  Similarity=-0.335  Sum_probs=17.2

Q ss_pred             ceEEEcCCCccccHHHHHhhhC
Q psy3727         196 AYVENTALSRSAVKDRAINVQL  217 (232)
Q Consensus       196 ~~v~~~gLp~~~t~~dl~~fF~  217 (232)
                      ..|+|.||+  +|++||+++|+
T Consensus         6 ~ti~V~~~~--~te~~L~~~F~   25 (79)
T d2bz2a1           6 NTLYVYGED--MTPTLLRGAFS   25 (79)
T ss_dssp             CEEEEECSS--CCHHHHHHHHS
T ss_pred             CEEEEECCC--CCHHHHHHHHh
Confidence            368888986  89999999995