Psyllid ID: psy5142

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-------270-------280-------290-------300-------310-------320-------330-------340-------350-------360-------370-------380-------390-------400-------410
Protein Sequence
MAETDSSATNGNSGAEAEVSKLENQIIEQIEYYFSDINLARDKFLQGEIKKDDGWVELTTMLKFARLAKMTTEAKVIVDALKKSTSKLIEVNEDGTKIRRNPEKELPTFDIDFVKDLIAQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLKFNENCEHKNAEKFLNENKDKNLKFNENCEHSLLIKWQQEYHEEKKQEVRSKRDKSKKSTEGDGEGNTEGSKQVVLELPTGALLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVGEPTAFVRYKKENNAEAVLKALGSKEIVIKDVKVSIEVVTGEEEQTVLDRMKIDIFKRRQKLMNEKKSGRKFGKKGPRGTKRSRGGNFESNKKAKVE
Secondary Structure (PSIPRED)
cccccccccccccccccccHHHHHHHHHHHHHHcccccccccHHHHHHHcccccEEEHHHHHccHHHHHccccHHHHHHHHHHccccEEEEcccccEEEcccccccccccHHHHHHHHHHccccccccccccHHHHHHHHHHHccccccEEEEEEcccccHHHHccccccEEEEEEccHHHHHHHHHHHHccccccccHHHHHHHHHHHHHHHHcccccccccHHHHHHHHHHHHHHHHHHHHHHHHHccccccccccccccccccccccccccccEEEEccccccccHHHHHHHHHHHcccccccEEEEEEccccEEEEEcccHHHHHHHHHHHccccEEEccEEEEEEEcccHHHHHHHHHHHHHHHHHHHHHHHHHccccccccccccccccccccccccccccccc
Secondary Structure Prediction (SSPRO)
ccccccccccccccccccHHHHHHHHHHHHHHHHcccccccHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHccccEEEEcccccEEEcccccccccccHHHHHHHHccEEEEEcccccccHHHHHHHHHHccccccEEEEEEEEcccccccccccccEEEEEEEccHHHHHHHHHHccccccccccHHHHHHHHHHHHHcHHHcccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccHHHHHHHHHHccccccEEEEccccccccHHHHHHHHHHHcccccEEEEEEEEccccEEEEEEccHHHHHHHHHHHccccEEEEccEEEEEEEccHHHHHHHHHHHHHHHHHHHHHHHccccccccccccccccccccccccccccccccc
Coil and Loop (DISEMBL)
maetdssatngnsgaeAEVSKLENQIIEQIEYYFSDINLARDKFLqgeikkddgWVELTTMLKFARLAKMTTEAKVIVDALKKSTSKLIevnedgtkirrnpekelptfdidFVKDLIAQSLYvkyipvdatldDIKDFFKKNTSEDVKITNIIMRNYQDKlanqkkfkgsifvtfdnKENAEKFLNENkdknlkfnencEHKNAEKFLNEnkdknlkfneNCEHSLLIKWQQEYHEEKKQEVRskrdkskkstegdgegntegsKQVVLelptgallkisdikepvsrEDIREVLEKVQTDDQEIVFIEfnvgeptafvrykkENNAEAVLKALGSKEIVIKDVKVSIEVVtgeeeqtvLDRMKIDIFKRRQKLMNEkksgrkfgkkgprgtkrsrggnfesnkkakve
Flexible Loop (DISEMBL)
maetdssatngnsgaeaeVSKLENQIIEQIEYYFSDINLARDKFLQgeikkddgwvELTTMLKFARLAKMTTEAKVIVDalkkstsklievnedgtkirrnpekelptfDIDFVKDLIAQSLYVKYIPVDATLDDIKDFFkkntsedvkitNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNenkdknlkfNENCEHKNAEKFLNENKDKNLKFNENCEHSLLIKWQQEYHeekkqevrskrdkskkstegdgegntegskqvvlelptgallkisdikepvsrEDIREVLekvqtddqeivFIEFNVGEPTAFVRYKKENNAEAVLkalgskeivikdVKVSievvtgeeeqtvldrmkiDIFKRrqklmnekksgrkfgkkgprgtkrsrggnfesnkkakve
Low Complexity Region (SEG)
MAETDSSATNGNSGAEAEVSKLENQIIEQIEYYFSDINLARDKFLQGEIKKDDGWVELTTMLKFARLAKMTTEAKVIVDALKKSTSKLIEVNEDGTKIRRNPEKELPTFDIDFVKDLIAQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLKFNENCEHKNAEKFLNENKDKNLKFNENCEHSLLIKWQQEYHEEKKQEVRSKRDKSKKSTEGDGEGNTEGSKQVVLELPTGALLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVGEPTAFVRYKKENNAEAVLKALGSKEIVIKDVKVSIEVVTGEEEQTVLDRMKIDIFKRRQKLMNEKKSGRKFGKKGPRGTKRSRGGNFESNKKAKVE
Disordered region (IsUnstruct)
***********************NQIIEQIEYYFSDINLARDKFLQGEIKKDDGWVELTTMLKFARLAKMTTEAKVIVDALKKSTSKLIEV**************LPTFDIDFVKDLIAQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDN***************************************KFNENCEHSLLIKWQ************************************VLELPTGALLKISDIKE*V**EDIREVLEKVQTDDQEIVFIEFNVGEPTAFVRYKKENNAEAVLKALGSKEIVIKDVKVSIEVVTGEEEQTVLDRMKIDIFK****************************************
Disordered Region (DISOPRED)
************************QIIEQIEYYFSDINLARDKFLQGEIKKDDGWVELTTMLKFARLAKMTTEAKVIVDALKKSTSKLIEVNEDGTKIRRNPEKELPTFDIDFVKDLIAQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNI************K*FKGSIFVTFDNKENAEKFLNENKDKNLKFNE************************************************************************************************VLEKVQTDDQEIVFIEFNVGEPTAFVRYKKENNAEA*L**LGSKEIVIKDVKVSIEVVTGEEEQTVLDR***********************************************
Disordered Region (DISEMBL)
****************AEVSKLENQIIEQIEYYFSDINLARDKFLQGEIKKDDGWVELTTMLKFARLAKMTTEAKVIVDALKKSTSKLIEVNEDGTKIRRNPEKELPTFDIDFVKDLIAQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLKFNENCEHKNAEKFLNENKDKNLKFNENCEHSLLIKWQQEY*****************************SKQVVLELPTGALLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVGEPTAFVRYKKENNAEAVLKALGSKEIVIKDVKVSIEVVTGEEEQTVLDRMKIDIFKRRQKLMNEK*******************************
Disordered Region (DISPRO)
****************AEVSKLENQIIEQIEYYFSDINLARDKFLQGEIKKDDGWVELTTMLKFARLAKMTTEAKVIVDALKKSTSKLIEVNEDGTKIRRNPEKELPTFDIDFVKDLIAQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLKFNENCEHKNAEKFLNENKDKN*KFNENCEHSLLIKWQQEYHEEKKQEVRSKRDK*************EGSKQVVLELPTGALLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVGEPTAFVRYKKENNAEAVLKALGSKEIVIKDVKVSIEVVTGEEEQTVLDRMKIDIFKRRQK************************************
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
oooooooooooooooooooooooooooohhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MAETDSSATNGNSGAEAEVSKLENQIIEQIEYYFSDINLARDKFLQGEIKKDDGWVELTTMLKFARLAKMTTEAKVIVDALKKSTSKLIEVNEDGTKIRRNPEKELPTFDIDFVKDLIAQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLKFNENCEHKNAEKFLNENKDKNLKFNENCEHSLLIKWQQEYHEEKKQEVRSKRDKSKKSTEGDGEGNTEGSKQVVLELPTGALLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVGEPTAFVRYKKENNAEAVLKALGSKEIVIKDVKVSIEVVTGEEEQTVLDRMKIDIFKRRQKLMNEKKSGRKFGKKGPRGTKRSRGGNFESNKKAKVE
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	410	2.2.26 [Sep-21-2011]
P40796	390	La protein homolog OS=Dro	yes	N/A	0.817	0.858	0.339	7e-45
P05455	408	Lupus La protein OS=Homo	yes	N/A	0.812	0.816	0.353	9e-44
P32067	415	Lupus La protein homolog	yes	N/A	0.797	0.787	0.356	2e-43
P10881	404	Lupus La protein homolog	yes	N/A	0.826	0.839	0.340	9e-43
P38656	415	Lupus La protein homolog	yes	N/A	0.812	0.802	0.339	1e-42
P28048	428	Lupus La protein homolog	N/A	N/A	0.763	0.731	0.346	1e-42
Q26457	383	La protein homolog OS=Aed	N/A	N/A	0.821	0.879	0.341	6e-42
P28049	427	Lupus La protein homolog	N/A	N/A	0.763	0.733	0.346	2e-41
P87058	298	La protein homolog OS=Sch	yes	N/A	0.395	0.543	0.374	9e-20
Q7ZWE3	555	La-related protein 7 OS=D	no	N/A	0.368	0.272	0.305	6e-15

>sp|P40796|LA_DROME La protein homolog OS=Drosophila melanogaster GN=La PE=1 SV=2

 Score =  181 bits (460), Expect = 7e-45,   Method: Compositional matrix adjust.
 Identities = 130/383 (33%), Positives = 198/383 (51%), Gaps = 48/383 (12%)

Query: 20  SKLENQIIEQIEYYFSDINLARDKFLQGEI-KKDDGWVELTTMLKFARLAKMTTEAKVIV 78
           +K E  II Q+EYYF D NL RDKFL+ +I K +DGWV L+ ++ F RLA ++T+   IV
Sbjct: 48  TKQERAIIRQVEYYFGDANLNRDKFLREQIGKNEDGWVPLSVLVTFKRLASLSTDLSEIV 107

Query: 79  DALKKSTSKLIEVNEDGTKIRRNPEKELPTFDIDFVKDLIAQSLYVKYIPVDATLDDIKD 138
            AL KS   L+E++ED   +RR+PE+ +P  + +  K++  ++ Y K  P+D+ + ++ D
Sbjct: 108 AALNKSEEGLVEISEDKLSLRRHPERPIPEHNEERRKEIQERTAYAKGFPLDSQISELLD 167

Query: 139 FFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLKFNE 198
           F     +   K+ N+ MR + DK     KFKGSIF+TF+ K+ A+ FL +         E
Sbjct: 168 F----AANYDKVVNLTMRKHYDKPTKSYKFKGSIFLTFETKDQAKAFLEQ---------E 214

Query: 199 NCEHKNAEKFLNENKDKNLKFNENCEHSLLIKWQQEYHEEKKQEVRSKRDKSKKSTEGDG 258
              +K                    E  LL KWQ +Y +EK++E   K +K K   E   
Sbjct: 215 KIVYK--------------------ERELLRKWQVDYLKEKQEEYAQKNEKRKNKKEAKP 254

Query: 259 EGNTEGSKQVVLELPTGALLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVGEPTA 318
           E           ELP  A++      E  SRE+IRE  EK++  D E+ +IEF  GE   
Sbjct: 255 EP--------AFELPKNAIVVFEGAPETSSREEIREAFEKIK--DFEVAYIEFAKGETKG 304

Query: 319 FVRYKKENNAEAVLKALGSKEIVIKD-VKVSIEVVTGEEEQTVLDRMKIDIFKRRQKLMN 377
            VR  + + AE  +  +   ++  KD V +S+   T EEE+  +D+  I+  K+R+    
Sbjct: 305 SVRLTEADAAEKYIAKVEEGKLKFKDEVSLSLRKATEEEEKEFIDKA-IEFMKKRRDFTR 363

Query: 378 EKKSGRKFGKKGPRGTKRSRGGN 400
            K  G++F +K   G     GG 
Sbjct: 364 NK--GKRFNRKRHGGNDHKHGGG 384

May be involved in transcription termination by RNA polymerase III. Binds RNA and DNA. Binds to precursors of RNA polymerase III transcripts. May play a specialized role during fly development.
Drosophila melanogaster (taxid: 7227)

>sp|P05455|LA_HUMAN Lupus La protein OS=Homo sapiens GN=SSB PE=1 SV=2

 Score =  177 bits (450), Expect = 9e-44,   Method: Compositional matrix adjust.
 Identities = 142/402 (35%), Positives = 223/402 (55%), Gaps = 69/402 (17%)

Query: 13  SGAEAEVSKLENQIIEQIEYYFSDINLARDKFLQGEIKKDDGWVELTTMLKFARLAKMTT 72
           +G   +++ LE +I  QIEYYF D NL RDKFL+ +IK D+GWV L  M+KF RL ++TT
Sbjct: 4   NGDNEKMAALEAKICHQIEYYFGDFNLPRDKFLKEQIKLDEGWVPLEIMIKFNRLNRLTT 63

Query: 73  EAKVIVDALKKSTSKLIEVNEDGTKIRRNPEKELPTFDIDFVKDLIAQSLYVKYIPVDAT 132
           +  VIV+AL KS ++L+E++ED TKIRR+P K LP    ++  D+  +S+Y+K  P DAT
Sbjct: 64  DFNVIVEALSKSKAELMEISEDKTKIRRSPSKPLPEVTDEYKNDVKNRSVYIKGFPTDAT 123

Query: 133 LDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDK 192
           LDDIK++ +    +  ++ NI MR         K FKGSIFV FD+ E+A+KF+ E   +
Sbjct: 124 LDDIKEWLE----DKGQVLNIQMRR-----TLHKAFKGSIFVVFDSIESAKKFV-ETPGQ 173

Query: 193 NLKFNENCEHKNAEKFLNENKDKNLKFNENCEHSLLIKWQQEY----HEEKKQ-----EV 243
             K                            E  LLI ++ +Y    +EE+KQ     ++
Sbjct: 174 KYK----------------------------ETDLLILFKDDYFAKKNEERKQNKVEAKL 205

Query: 244 RSKRDK-SKKSTEGDGEGNTEGSKQVVLELPTGALLKIS-DIKEPVSREDIREVLEKVQT 301
           R+K+++ +K+  E D E  +       LE   G LLK S D+ +   RED+  +     +
Sbjct: 206 RAKQEQEAKQKLEEDAEMKS-------LEEKIGCLLKFSGDLDDQTCREDLHILF----S 254

Query: 302 DDQEIVFIEFNVGEPTAFVRYKKENNAEAVLKA--LGSKEIVIKDVKVSIEVVTGEEEQT 359
           +  EI +I+F  G     + + KE   EA+ KA    +  + +++ +V+ EV+ GE E+ 
Sbjct: 255 NHGEIKWIDFVRGAKEGIILF-KEKAKEALGKAKDANNGNLQLRNKEVTWEVLEGEVEKE 313

Query: 360 VLDRMKIDIFKRRQKLMNEKKS-GRKFGKKGPRGTKRSRGGN 400
            L +    I + +Q+ +N+ KS GR+F  KG +G K ++ G+
Sbjct: 314 ALKK----IIEDQQESLNKWKSKGRRFKGKG-KGNKAAQPGS 350

Binds to the 3' poly(U) terminii of nascent RNA polymerase III transcripts, protecting them from exonuclease digestion and facilitating their folding and maturation.

Homo sapiens (taxid: 9606)

>sp|P32067|LA_MOUSE Lupus La protein homolog OS=Mus musculus GN=Ssb PE=2 SV=1

 Score =  176 bits (447), Expect = 2e-43,   Method: Compositional matrix adjust.
 Identities = 138/387 (35%), Positives = 209/387 (54%), Gaps = 60/387 (15%)

Query: 13  SGAEAEVSKLENQIIEQIEYYFSDINLARDKFLQGEIKKDDGWVELTTMLKFARLAKMTT 72
           +G   +++ LE +I  QIEYYF D NL RDKFL+ +IK D+GWV L TM+KF RL ++TT
Sbjct: 4   NGDNEKMTALEAKICHQIEYYFGDFNLPRDKFLKEQIKLDEGWVPLETMIKFNRLNRLTT 63

Query: 73  EAKVIVDALKKSTSKLIEVNEDGTKIRRNPEKELPTFDIDFVKDLIAQSLYVKYIPVDAT 132
           +  VIV AL KS +KL+EV+ D TKIRR+P + LP    ++  D+  +S+Y+K  P DAT
Sbjct: 64  DFNVIVQALSKSKAKLMEVSADKTKIRRSPSRPLPEVTDEYKNDVKNRSVYIKGFPTDAT 123

Query: 133 LDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDK 192
           LDDIK++      +  +I NI MR         K FKGSIF  FD+ ++A+KF+     K
Sbjct: 124 LDDIKEWL----DDKGQILNIQMRR-----TLHKTFKGSIFAVFDSIQSAKKFVEIPGQK 174

Query: 193 NLKFNENCEHKNAEKFLNENKDKNLKFNENCEHSLLIKWQQEY----HEEKKQEVRSKRD 248
                               KD N          LLI ++++Y    +EE+KQ     + 
Sbjct: 175 -------------------YKDTN----------LLILFKEDYFAKKNEERKQSKVEAKL 205

Query: 249 KSKKSTEGDGE-GNTEGSKQVVLELPTGALLKIS-DIKEPVSREDIREVLEKVQTDDQEI 306
           K+K+  EG  + G+TE      LE   G LLK S D+ +   RED+  +     ++  EI
Sbjct: 206 KAKQEHEGRHKPGSTE---TRALEGKMGCLLKFSGDLDDQTCREDLHFLF----SNHGEI 258

Query: 307 VFIEFNVGEPTAFVRYKKENNAEAVLKALGSK--EIVIKDVKVSIEVVTGEEEQTVLDRM 364
            +++F  G     + + KE   EA+ KA  +    +++++ KV+ +V+ G  E+  L ++
Sbjct: 259 KWVDFARGAKEGIILF-KEKAKEALEKARNANNGNLLLRNKKVTWKVLEGHAEKEALKKI 317

Query: 365 KIDIFKRRQKLMNEKKSGRKFGKKGPR 391
             D    +Q+ +N+ KS  K G  G R
Sbjct: 318 TDD----QQESLNKWKS--KGGHAGGR 338

Binds to the 3' poly(U) terminii of nascent RNA polymerase III transcripts, protecting them from exonuclease digestion and facilitating their folding and maturation.

Mus musculus (taxid: 10090)

>sp|P10881|LA_BOVIN Lupus La protein homolog OS=Bos taurus GN=SSB PE=2 SV=2

 Score =  174 bits (442), Expect = 9e-43,   Method: Compositional matrix adjust.
 Identities = 135/396 (34%), Positives = 218/396 (55%), Gaps = 57/396 (14%)

Query: 13  SGAEAEVSKLENQIIEQIEYYFSDINLARDKFLQGEIKKDDGWVELTTMLKFARLAKMTT 72
           +G   +++ LE +I  QIEYYF D NL RDKFL+ +IK D+GWV L  M+KF RL ++TT
Sbjct: 4   NGDNEKMAALEAKICHQIEYYFGDFNLPRDKFLKEQIKLDEGWVPLEIMIKFNRLNRLTT 63

Query: 73  EAKVIVDALKKSTSKLIEVNEDGTKIRRNPEKELPTFDIDFVKDLIAQSLYVKYIPVDAT 132
           +  VIV+AL KS ++L+E++ED TKIRR+P K LP    ++  D+  +S+Y+K  P DA 
Sbjct: 64  DFNVIVEALSKSKAELMEISEDKTKIRRSPSKPLPEVTDEYKNDVKNRSVYIKGFPTDAA 123

Query: 133 LDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDK 192
           LDDIK++ +    +  ++ NI MR         K FKGSIF  FD+ E+A+KF+     K
Sbjct: 124 LDDIKEWLE----DKGQVLNIQMRR-----TLHKAFKGSIFAVFDSIESAKKFVETPGQK 174

Query: 193 NLKFNENCEHKNAEKFLNENKDKNLKFNENCEHSLLIKWQQEY----HEEKKQEVRSKRD 248
                    +K+ +                    LLI ++++Y    +EE+KQ     + 
Sbjct: 175 ---------YKDTD--------------------LLILFKEDYFTKKNEERKQNKMEAKL 205

Query: 249 KSKKSTEGDGEGNTEGSKQVVLELPTGALLKIS-DIKEPVSREDIREVLEKVQTDDQEIV 307
           ++K+  E + +   E ++   LE   G LLK S D+ +   RED+  +     ++  EI 
Sbjct: 206 RAKQEQE-EKQKLAENAEMKSLEEKIGCLLKFSGDLDDQTCREDLHTLF----SNHGEIK 260

Query: 308 FIEFNVGEPTAFVRYKKENNAEAVLKA--LGSKEIVIKDVKVSIEVVTGEEEQTVLDRMK 365
           +I F  G     + + KE   EA+ KA    +  + +++ +V+ EV+ G+ E+  L +  
Sbjct: 261 WIHFVRGAKEGIILF-KEKAKEALDKAKEANNGNLQLRNKEVTWEVLEGDVEKEALKK-- 317

Query: 366 IDIFKRRQKLMNEKKS-GRKFGKKGPRGTKRSRGGN 400
             I + +Q+ +N+ KS GR+F  KG +G K ++ G+
Sbjct: 318 --IIEDQQESLNKWKSKGRRFKGKG-KGNKAAQAGS 350

Binds to the 3' poly(U) terminii of nascent RNA polymerase III transcripts, protecting them from exonuclease digestion and facilitating their folding and maturation.

Bos taurus (taxid: 9913)

>sp|P38656|LA_RAT Lupus La protein homolog OS=Rattus norvegicus GN=Ssb PE=2 SV=1

 Score =  174 bits (441), Expect = 1e-42,   Method: Compositional matrix adjust.
 Identities = 134/395 (33%), Positives = 210/395 (53%), Gaps = 62/395 (15%)

Query: 13  SGAEAEVSKLENQIIEQIEYYFSDINLARDKFLQGEIKKDDGWVELTTMLKFARLAKMTT 72
           +G   +++ LE +I  QIEYYF D NL RDKFL+ +IK D+GWV L TM+KF RL ++TT
Sbjct: 4   NGDNEKMAALEAKICHQIEYYFGDFNLPRDKFLKEQIKLDEGWVPLETMIKFNRLNRLTT 63

Query: 73  EAKVIVDALKKSTSKLIEVNEDGTKIRRNPEKELPTFDIDFVKDLIAQSLYVKYIPVDAT 132
           +  VIV AL KS + L+EV+ D TKIRR+P + LP    ++  D+  +S+Y+K  P DAT
Sbjct: 64  DFNVIVQALSKSKANLMEVSADKTKIRRSPSRPLPEVTDEYKNDVKNRSVYIKGFPTDAT 123

Query: 133 LDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDK 192
           LDDIK++      +  +I NI MR         K FKGSIF  FD+ ++A+KF++    K
Sbjct: 124 LDDIKEWL----DDKGQILNIQMRR-----TLHKTFKGSIFAVFDSIQSAKKFVDTPGQK 174

Query: 193 NLKFNENCEHKNAEKFLNENKDKNLKFNENCEHSLLIKWQQEY----HEEKKQEVRSKRD 248
                               KD N          LLI ++++Y    +EE+KQ     + 
Sbjct: 175 -------------------YKDTN----------LLILFKEDYFAKKNEERKQSKVEAKL 205

Query: 249 KSKKSTEGDGE-GNTEGSKQVVLELPTGALLKIS-DIKEPVSREDIREVLEKVQTDDQEI 306
           K+K+  EG  + G+TE      LE   G LLK S D+ +   RED   +     ++  EI
Sbjct: 206 KAKQEHEGRHKPGSTETR---ALEGKMGCLLKFSGDLDDQTCREDFHFLF----SNHGEI 258

Query: 307 VFIEFNVGEPTAFVRYK-KENNAEAVLKALGSKEIVIKDVKVSIEVVTGEEEQTVLDRMK 365
            +I+F  G     + +K K  +A    ++  +  +++++ KV+ +V+ G  E+  + ++ 
Sbjct: 259 KWIDFVRGAKEGIILFKEKAKDALEKARSANNGNLLLRNKKVTWKVLEGHAEKDAMKKIT 318

Query: 366 IDIFKRRQKLMNEKKSGRKFGKKGPRGTKRSRGGN 400
            D    +Q+ +N+ KS      KG    +R +G +
Sbjct: 319 DD----QQESLNKWKS------KGGHAARRFKGSH 343

Binds to the 3' poly(U) terminii of nascent RNA polymerase III transcripts, protecting them from exonuclease digestion and facilitating their folding and maturation.

Rattus norvegicus (taxid: 10116)

>sp|P28048|LAA_XENLA Lupus La protein homolog A OS=Xenopus laevis GN=ssb-a PE=2 SV=1

 Score =  174 bits (441), Expect = 1e-42,   Method: Compositional matrix adjust.
 Identities = 127/367 (34%), Positives = 202/367 (55%), Gaps = 54/367 (14%)

Query: 23  ENQIIEQIEYYFSDINLARDKFLQGEIKKDDGWVELTTMLKFARLAKMTTEAKVIVDALK 82
           + +I EQIEYYF D NL RDKFL+ +I  DDGWV L TM+KF RL+K+TT+   I+ ALK
Sbjct: 14  DTKICEQIEYYFGDHNLPRDKFLKQQILLDDGWVPLETMIKFNRLSKLTTDFNTILQALK 73

Query: 83  KSTSKLIEVNEDGTKIRRNPEKELPTFDIDFVKDLIAQSLYVKYIPVDATLDDIKDFFKK 142
           KS ++L+E+NE+  KIRR+P K LP  + ++   L  +S+Y+K  P  A LDD+K++ K 
Sbjct: 74  KSKTELLEINEEKCKIRRSPAKPLPELNDEYKNSLKHKSVYIKGFPTSAILDDVKEWLKD 133

Query: 143 NTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLKFNENCEH 202
                  I NI MR        Q++FKGSIF+ F+  ++A+KFL   +++NLK+ +N   
Sbjct: 134 KGP----IENIQMRR-----TLQREFKGSIFIIFNTDDDAKKFL---ENRNLKYKDN--- 178

Query: 203 KNAEKFLNENKDKNLKFNENCEHSLLIKWQQEYHEEKKQEVRSKRDKSK---KSTEGDGE 259
                                   + +  ++EYH +K +E +  + + K   K  + + +
Sbjct: 179 -----------------------DMTVLSREEYHAKKNEERKLNKSEEKAKSKQVKKEAQ 215

Query: 260 GNTEGSKQVVLELPTGALLKIS-DIKEPVSREDIREVLEKVQTDDQEIVFIEFNVGEPTA 318
              E +++ ++E   G+LLK S D+    SRED+  +    QT   +I +I+F+ G    
Sbjct: 216 KQAEDAERKLVEERVGSLLKFSGDLDNMTSREDLHALF---QTHG-DIEWIDFSRGAKEG 271

Query: 319 FVRYKKENNAEAV--LKALGSKEIVIKDVKVSIEVVTGEEEQTVLDRMKIDIFKRRQKLM 376
            V +K  N  EA+   KA  S  + +K   V  E++ G+ E+  L +    I + +Q+  
Sbjct: 272 IVLFKM-NAKEALDKAKAANSDNLKLKGKDVKWELIEGDTEKEALKK----ILEGKQESF 326

Query: 377 NEKKSGR 383
           N++K GR
Sbjct: 327 NKRK-GR 332

La protein plays a role in the transcription of RNA polymerase III. It is most probably a transcription termination factor. Binds to the 3' termini of virtually all nascent polymerase III transcripts.

Xenopus laevis (taxid: 8355)

>sp|Q26457|LA_AEDAL La protein homolog OS=Aedes albopictus PE=1 SV=1

 Score =  172 bits (435), Expect = 6e-42,   Method: Compositional matrix adjust.
 Identities = 134/392 (34%), Positives = 205/392 (52%), Gaps = 55/392 (14%)

Query: 19  VSKLENQIIEQIEYYFSDINLARDKFLQGEIKKDDGWVELTTMLKFARLAKMTTEAKVIV 78
           VSKLE   I Q+EYYF D NLARDKFLQ +I KD+GWV +  +L F RL  ++ + KVIV
Sbjct: 40  VSKLEASTIRQLEYYFGDANLARDKFLQEQISKDEGWVPVDVLLTFKRLKSLSEDKKVIV 99

Query: 79  DALKKSTSKLIEVNEDGTKIRRNPEKELPTFDIDFVKDLIAQSLYVK-YIPVDAT-LDDI 136
           DA++KS   LIEV+ED  K+RR+PE+ LP  + +  K++  +++YVK + P + T + ++
Sbjct: 100 DAIEKSDEGLIEVSEDREKLRRHPERPLPEQNEETRKEIYGRTVYVKGFAPEEGTQMSEL 159

Query: 137 KDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLKF 196
            +FF+       KITNI+MR Y DK   +  FKGS+FVTF  K++  +FL          
Sbjct: 160 LEFFEPFE----KITNIVMRKYHDKATKKYLFKGSVFVTFATKDHCAEFLK--------- 206

Query: 197 NENCEHKNAEKFLNENKDKNLKFNENCEHSLLIKWQQEYHEEKKQEVRSKRDKSKKSTEG 256
            E   +K  E                    L+ K Q +Y EEKK E R K  K ++    
Sbjct: 207 KEKLGYKGKE--------------------LIRKMQDDYFEEKKAERRKKDKKKEEDRFN 246

Query: 257 DGEGNTEGSKQVVLELPTGALLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVGEP 316
                       +  LP GA + +S   +  SRE I+E + K+  +  E+ FI++   + 
Sbjct: 247 ------------IDHLPKGASVHLSGFNKDTSRETIKETILKLD-ESLEVAFIDYAKTDT 293

Query: 317 TAFVRYKKENNAEAVLKALGSKEIVIKDVKVSIEVVTGEEEQTVLDRMKIDIFKRRQKLM 376
              VR+  ++  +  ++ L   +I I + +++  ++ G+EE+  L ++  D   RRQ   
Sbjct: 294 EGTVRFAADDAGKKFMEKLTDSKIQIDEEEITARLLEGDEEKEFLRKVVKDQQARRQ-AS 352

Query: 377 NEKKSGRKFGKKGPRGTKRSRGGNFESNKKAK 408
           N +  GR      P G + SR    E  +KAK
Sbjct: 353 NARNKGRT-----PEGRQASRPPQ-EWRRKAK 378

May be involved in transcription termination by RNA polymerase III. Binds RNA and DNA. Binds to the 3' end of the minus strand of Sindbis virus RNA. This may be significant for Sindbis virus RNA replication.

Aedes albopictus (taxid: 7160)

>sp|P28049|LAB_XENLA Lupus La protein homolog B OS=Xenopus laevis GN=ssb-b PE=2 SV=1

 Score =  169 bits (429), Expect = 2e-41,   Method: Compositional matrix adjust.
 Identities = 128/369 (34%), Positives = 204/369 (55%), Gaps = 56/369 (15%)

Query: 22  LENQIIEQIEYYFSDINLARDKFLQGEIKKDDGWVELTTMLKFARLAKMTTEAKVIVDAL 81
           L+ +I EQIEYYF D NL RDKFL+ ++  D+GWV L TM+KF RL+K+TT+  +I+ AL
Sbjct: 12  LDTKICEQIEYYFGDHNLPRDKFLKQQVLLDNGWVPLETMIKFNRLSKLTTDFNIILQAL 71

Query: 82  KKSTSKLIEVNEDGTKIRRNPEKELPTFDIDFVKDLIAQSLYVKYIPVDATLDDIKDFFK 141
           KKS ++L+E+NE+  KIRR+P K LP  + D+      +S+Y+K  P    LD+IK++  
Sbjct: 72  KKSKTELLEINEEKCKIRRSPAKPLPELNEDYKNSFKHRSVYIKGFPTITNLDEIKEWL- 130

Query: 142 KNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLKFNENCE 201
              ++   I NI MR        Q++FKGS+F+ F+ ++ A+KFL   +DKNLK+ +N  
Sbjct: 131 ---NDKGPIENIQMRR-----TLQREFKGSVFLVFNTEDGAKKFL---EDKNLKYKDN-- 177

Query: 202 HKNAEKFLNENKDKNLKFNENCEHSLLIKWQQEY----HEEKKQEVRSKRDKSKKSTEGD 257
                                    ++I  ++EY    +EE+K     ++ KSK+  E +
Sbjct: 178 ------------------------DMIILSREEYFAKKNEERKLNKSEEKAKSKQEKE-E 212

Query: 258 GEGNTEGSKQVVLELPTGALLKIS-DIKEPVSREDIREVLEKVQTDDQEIVFIEFNVGEP 316
            +   E +++ ++E   G LLK S D+    SRED+  +    QT   EI +I+F+ G  
Sbjct: 213 AQKQAEDAERKLMEERVGCLLKFSGDLDNMTSREDLHALF---QTHG-EIEWIDFSRGAK 268

Query: 317 TAFVRYKKENNAEAV--LKALGSKEIVIKDVKVSIEVVTGEEEQTVLDRMKIDIFKRRQK 374
              V +K  N  EA+   KA  +  + +K   V  E++ G+ E+  L +    I + +Q+
Sbjct: 269 EGIVLFKM-NAKEALDKAKAANNDNLKLKGKNVKWELIEGDAEKEALKK----IMEGKQE 323

Query: 375 LMNEKKSGR 383
             N++K GR
Sbjct: 324 SFNKRK-GR 331

La protein plays a role in the transcription of RNA polymerase III. It is most probably a transcription termination factor. Binds to the 3' termini of virtually all nascent polymerase III transcripts.

Xenopus laevis (taxid: 8355)

>sp|P87058|LAH1_SCHPO La protein homolog OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN=sla1 PE=1 SV=1

 Score = 98.6 bits (244), Expect = 9e-20,   Method: Compositional matrix adjust.
 Identities = 67/179 (37%), Positives = 103/179 (57%), Gaps = 17/179 (9%)

Query: 23  ENQIIEQIEYYFSDINLARDKFLQGEIKKDDGWVELTTMLKFARLAKMTTEAKVIVDALK 82
           E ++++Q+E+YFSD NL  DKFL    +K+DGWV + T+  F R+ +     + IV+AL+
Sbjct: 64  EAEVLKQVEFYFSDTNLPHDKFLWTTSQKNDGWVPIQTIANFKRMRRFQP-LEAIVNALR 122

Query: 83  KSTSKLIEVNEDGTKIRRNPEKELPTFDIDFVKDLIAQSLYVKYI--PVDATLDDIKDFF 140
           KS  +L+EV+E G K+RR     +P   +D  K ++ +S+Y K      D T   ++ FF
Sbjct: 123 KSP-ELLEVDEAGEKVRRM----IPLVRVD-NKSVMERSVYCKGFGDEKDDTQIALEKFF 176

Query: 141 KKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLKFNEN 199
           ++N      I+ + MR   D     KKFKGS+FV F   + A KFL + K   LK+ E+
Sbjct: 177 EENAG---PISAVRMRRDDD-----KKFKGSVFVEFKEPDVANKFLEKVKTAPLKWGED 227

Binds to the precursors of polymerase III RNAs. Functions in tRNA maturation.

Schizosaccharomyces pombe (strain 972 / ATCC 24843) (taxid: 284812)

>sp|Q7ZWE3|LARP7_DANRE La-related protein 7 OS=Danio rerio GN=larp7 PE=2 SV=1

 Score = 82.4 bits (202), Expect = 6e-15,   Method: Compositional matrix adjust.
 Identities = 52/170 (30%), Positives = 98/170 (57%), Gaps = 19/170 (11%)

Query: 17  AEVSKLENQIIEQIEYYFSDINLARDKFLQGEIKKD-DGWVELTTMLKFARLAKMTTEAK 75
           + V +L + + +Q+E++F D+NL +D+F++  I++  DG++++  +  F R+  +T + K
Sbjct: 37  SRVKQLLSDVKKQVEFWFGDVNLHKDRFMKSIIEQSRDGYIDIAVLTTFNRMKNLTADVK 96

Query: 76  VIVDALKKSTSKLIEVNEDGTKIRRN-PEKELPTFDIDFVKDLIAQSLYVKYIPVDATLD 134
           +I  ALK ST  ++EVN++GT+IRR  P  E P       KD+ ++++YV+ +P   T  
Sbjct: 97  LIARALKNST--IVEVNDEGTRIRRKEPLGETP-------KDVDSRTVYVELLPKTVTHI 147

Query: 135 DIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEK 184
            ++  F K       +  I +  Y+    + +  KG  FV F+ +E A+K
Sbjct: 148 WLERVFSKCGH----VVYISIPRYK----STRHSKGFAFVEFETQEQAQK 189

Danio rerio (taxid: 7955)

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	410
357617844	384	hypothetical protein KGM_09976 [Danaus p	0.778	0.830	0.371	1e-54
427787869	417	Putative receptor-mediated endocytosis [	0.726	0.714	0.364	1e-49
158299618	429	AGAP008952-PA [Anopheles gambiae str. PE	0.814	0.778	0.340	5e-49
312383017	402	hypothetical protein AND_04034 [Anophele	0.770	0.786	0.353	5e-47
346468663	398	hypothetical protein [Amblyomma maculatu	0.809	0.834	0.335	1e-46
195436884	404	GK18125 [Drosophila willistoni] gi|19416	0.817	0.829	0.337	2e-46
380012601	404	PREDICTED: la protein homolog [Apis flor	0.858	0.871	0.331	2e-46
110759433	404	PREDICTED: la protein homolog [Apis mell	0.858	0.871	0.331	2e-46
383848821	406	PREDICTED: la protein homolog [Megachile	0.831	0.839	0.332	2e-46
194760049	391	GF15376 [Drosophila ananassae] gi|190615	0.826	0.867	0.345	1e-44

>gi|357617844|gb|EHJ71027.1| hypothetical protein KGM_09976 [Danaus plexippus]

 Score =  220 bits (561), Expect = 1e-54,   Method: Compositional matrix adjust.
 Identities = 133/358 (37%), Positives = 205/358 (57%), Gaps = 39/358 (10%)

Query: 18  EVSKLENQIIEQIEYYFSDINLARDKFLQGEIKKDDGWVELTTMLKFARLAKMTTEAKVI 77
           E S+L++ II QIEYYF D+NL RDKFL+ ++K DDGWV L  + +F RLAK+TT+  VI
Sbjct: 36  EKSELDSSIIRQIEYYFGDLNLPRDKFLREQVKLDDGWVPLEVLTRFNRLAKLTTDIGVI 95

Query: 78  VDALKKSTSKLIEVNEDGTKIRRNPEKELPTFDIDFVKDLIAQSLYVKYIPVDATLDDIK 137
            +A+ KSTS L+E+++D  K+RRNPE  +P  + +  K+L+++++Y K    DA+LDDI 
Sbjct: 96  ANAISKSTSGLLEISDDNLKVRRNPELPIPEMNEERRKELVSRTIYAKGFGKDASLDDIL 155

Query: 138 DFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLKFN 197
            +FK+      ++ NIIMR YQD+      FKGS+F TF  K+ A+KF+   + K+ KFN
Sbjct: 156 KYFKQFE----EVENIIMRKYQDRKTKTFIFKGSVFATFKTKDQADKFM---ETKDYKFN 208

Query: 198 ENCEHKNAEKFLNENKDKNLKFNENCEHSLLIKWQQEYHEEKKQEVRSKRDKSKKSTEGD 257
           +                            LL+ WQ  Y E+K++E       S      +
Sbjct: 209 DT--------------------------DLLVMWQDAYVEKKREEYAK---LSANKKNKN 239

Query: 258 GEGNTEGSKQVVLELPTGALLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVGEPT 317
             G +E  ++   +LPTG +L  S   + ++RED++EVL  +     E+ FI F VG+  
Sbjct: 240 KNGESEQKEKSEFKLPTGTVLHFSQGHDKMTREDVKEVLTPLGG---EVAFISFKVGDTE 296

Query: 318 AFVRYKKENNAEAVLKALGSKEIVIKDVKVSIEVVTGEEEQTVLDRMKIDIFKRRQKL 375
            +VR   E +A+ V + +   +I I + +V   V+ GEEE+  LD+   ++ KRRQ +
Sbjct: 297 GWVRLANEGDAKKVAEKIPDGKIKIGESEVVFRVLEGEEEKNYLDKTIEEMSKRRQNM 354

Source: Danaus plexippus

Species: Danaus plexippus

Genus: Danaus

Family: Nymphalidae

Order: Lepidoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|427787869|gb|JAA59386.1| Putative receptor-mediated endocytosis [Rhipicephalus pulchellus]

 Score =  203 bits (516), Expect = 1e-49,   Method: Compositional matrix adjust.
 Identities = 126/346 (36%), Positives = 193/346 (55%), Gaps = 48/346 (13%)

Query: 19  VSKLENQIIEQIEYYFSDINLARDKFLQGEIKKDDGWVELTTMLKFARLAKMTTEAKVIV 78
           VS LE +II Q+EYYF D NL RDKFLQG++K+DDGWV + T+L F RL  +TTE+ V+ 
Sbjct: 14  VSALETKIITQVEYYFGDYNLPRDKFLQGKLKEDDGWVTIGTLLTFNRLRSLTTESDVVA 73

Query: 79  DALKKSTSKLIEVNEDGTKIRRNPEKELPTFDIDFVKDLIAQSLYVKYIPVDATLDDIKD 138
            AL+KSTS+L+EV+EDGTKIRR+P K  P  + +  + L   S+YVK  P  AT+D++ +
Sbjct: 74  AALRKSTSQLLEVSEDGTKIRRSPAKPAPESNKEQQQKLDELSVYVKGFPPTATIDELLE 133

Query: 139 FFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLKFNE 198
           FF +      K  N+ MR Y       +KFKGS+F TF  KE A+ FL +   +++K+N 
Sbjct: 134 FFGRFG----KCINVFMRRY----PKSRKFKGSVFATFATKEEADAFLAK---EDVKYN- 181

Query: 199 NCEHKNAEKFLNENKDKNLKFNENCEHSLLIKWQQEYHEEKKQEVRSK-RDKSKKSTEGD 257
                                    E  L    + EY   KKQE +++  +K+KK    D
Sbjct: 182 -------------------------ELELTRALKTEYVARKKQERQARFEEKAKKKAAND 216

Query: 258 ----GEGNTEGSKQVVLELPTGALLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNV 313
               G G     +    E+  G +L++  + +  + E+++E          ++ F+++  
Sbjct: 217 EASSGGGGDAAEESEPPEIVLGCILRVKGLGDKTTWENLKEAFAPY----AKVAFVDYTR 272

Query: 314 GEPTAFVRYKKENNAEAVLKALGSKEIVIK--DVKVSIEVVTGEEE 357
           G+P A +R+ +E +A+AVL  LG++E  +K    +V+ E V G+EE
Sbjct: 273 GQPEAVLRFAEEGSAQAVLAKLGAQEEALKINGDEVTAEAVEGDEE 318

Source: Rhipicephalus pulchellus

Species: Rhipicephalus pulchellus

Genus: Rhipicephalus

Family: Ixodidae

Order: Ixodida

Class: Arachnida

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|158299618|ref|XP_319705.4| AGAP008952-PA [Anopheles gambiae str. PEST] gi|157013603|gb|EAA14810.4| AGAP008952-PA [Anopheles gambiae str. PEST]

 Score =  201 bits (512), Expect = 5e-49,   Method: Compositional matrix adjust.
 Identities = 130/382 (34%), Positives = 212/382 (55%), Gaps = 48/382 (12%)

Query: 1   MAETDSSAT-------NGNS-GAEAEVSKLENQIIEQIEYYFSDINLARDKFLQGEIKKD 52
           M ETD  A         GN   A A VS  E  II Q+EYYF D NLA+DKF++ +I KD
Sbjct: 20  MTETDVQAPAVEETKPEGNEENATATVSTTEAAIIRQLEYYFGDANLAKDKFMKDQIAKD 79

Query: 53  DGWVELTTMLKFARLAKMTTEAKVIVDALKKSTSKLIEVNEDGTKIRRNPEKELPTFDID 112
           +GWV L  +L F RL  ++ + KVIVDA+ KS   L+EV+ED  K+RR+PE+ LP  + +
Sbjct: 80  EGWVPLDVLLTFKRLKSLSEDKKVIVDAIAKSDEGLVEVSEDREKLRRHPERPLPEMNEE 139

Query: 113 FVKDLIAQSLYVK-YIPVDA-TLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKG 170
             +++ A+++YVK + P +  T+ ++ +FF+  T    K+TNI+MR Y DK   +  FKG
Sbjct: 140 RRQEIYARTVYVKGFAPQNGTTMSELVEFFEPFT----KVTNIVMRKYHDKPTKKYLFKG 195

Query: 171 SIFVTFDNKENAEKFLNENKDKNLKFNENCEHKNAEKFLNENKDKNLKFNENCEHSLLIK 230
           S+FVTF  KE  EKFL +   K         +K  E                    L+ K
Sbjct: 196 SVFVTFAEKEQCEKFLAQGPLK---------YKGKE--------------------LICK 226

Query: 231 WQQEYHEEKKQEVRSKRDKSKKSTEGDGEGNTEGSKQVVLELPTGALLKISDIKEPVSRE 290
            Q +Y+E KK E++ + +K ++      EGN      ++ +LPTGA + +  + +  +RE
Sbjct: 227 MQNDYYEAKKVEIKERAEKIEERKRKKEEGNN----ALLAQLPTGACVFMEGLGKETTRE 282

Query: 291 DIREVLEKVQTDDQEIVFIEFNVGEPTAFVRYKKENNAEAVLKALGSKEIVIKDVKVSIE 350
            I+E +  +  +  E  +I++  G+ + +VR+ K++  + +L+ L  K++ I D +V+ +
Sbjct: 283 SIKEAIRALD-ETLEFAYIDYQKGDASGYVRFNKQDAGKQLLEKLTDKKLKIDDAEVTAD 341

Query: 351 VVTGEEEQTVLDRMKIDIFKRR 372
           ++  E+E   L ++  +  KR+
Sbjct: 342 LLVDEKETEYLKKIAEEQAKRK 363

Source: Anopheles gambiae str. PEST

Species: Anopheles gambiae

Genus: Anopheles

Family: Culicidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|312383017|gb|EFR28258.1| hypothetical protein AND_04034 [Anopheles darlingi]

 Score =  194 bits (494), Expect = 5e-47,   Method: Compositional matrix adjust.
 Identities = 126/356 (35%), Positives = 197/356 (55%), Gaps = 40/356 (11%)

Query: 18  EVSKLENQIIEQIEYYFSDINLARDKFLQGEIKKDDGWVELTTMLKFARLAKMTTEAKVI 77
           EVS  E+ II Q+EYYF D NL +DKFL+ +IK+D+GWV L  +L F RL  ++ + KVI
Sbjct: 23  EVSANESAIIRQLEYYFGDANLLKDKFLKEKIKEDNGWVTLDVLLSFKRLKALSEDKKVI 82

Query: 78  VDALKKSTSKLIEVNEDGTKIRRNPEKELPTFDIDFVKDLIAQSLYVK-YIPVDAT-LDD 135
           VDA++KST  LIEV+ED  K+RR+PE+ LP  D +  K++  +++YVK + P D T +++
Sbjct: 83  VDAIEKSTEGLIEVSEDREKLRRHPERPLPELDEETRKEIYTRTVYVKGFAPQDGTSMNE 142

Query: 136 IKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLK 195
           + +FF+       K+ NI+MR Y DK   +  FKGS+FVTF N E  EKFL         
Sbjct: 143 LVEFFQPYD----KVVNIVMRKYHDKPTKKYLFKGSVFVTFVNTEQCEKFLA-------- 190

Query: 196 FNENCEHKNAEKFLNENKDKNLKFNENCEHSLLIKWQQEYHEEKKQEVRSKRDKSKKSTE 255
             E   +K  E                    L+ K Q +Y   K+ E + +++K ++   
Sbjct: 191 -IEKLSYKGKE--------------------LIRKMQNDYFVAKQAENKERQEKIEQRKR 229

Query: 256 GDGEGNTEGSKQVVLELPTGALLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVGE 315
              E  T  +      LPTGA + +  +    SRE I+E ++KV  D  E  F++F +G+
Sbjct: 230 KKEEAQTLATAH----LPTGASVFLEGLGAETSRETIKEAIKKVD-DTLEFAFVDFKIGD 284

Query: 316 PTAFVRYKKENNAEAVLKALGSKEIVIKDVKVSIEVVTGEEEQTVLDRMKIDIFKR 371
            + +VR+ +E   +   + L   ++ I DV+V++E++  E+E   L ++  D   R
Sbjct: 285 KSGYVRFNQEGAGKRFTEKLTDNKLKIDDVEVTVELLVEEKESEYLKKVAQDQLAR 340

Source: Anopheles darlingi

Species: Anopheles darlingi

Genus: Anopheles

Family: Culicidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|346468663|gb|AEO34176.1| hypothetical protein [Amblyomma maculatum]

 Score =  193 bits (490), Expect = 1e-46,   Method: Compositional matrix adjust.
 Identities = 129/385 (33%), Positives = 208/385 (54%), Gaps = 53/385 (13%)

Query: 10  NGNSGAEAEVSKLENQIIEQIEYYFSDINLARDKFLQGEIKKDDGWVELTTMLKFARLAK 69
            G   A A+VS L+ +II+Q+EYYF D NL RDKFLQG++K+DDGWV + T+L F RL  
Sbjct: 4   TGTENAPADVSALDAKIIKQVEYYFGDFNLPRDKFLQGKVKEDDGWVTIETLLTFNRLKS 63

Query: 70  MTTEAKVIVDALKKSTSKLIEVNEDGTKIRRNPEKELPTFDIDFVKDLIAQSLYVKYIPV 129
           +TTE  V+ +ALKKST++L+EV+ DG KIRR+P K LP  D +  K L   ++Y K  P 
Sbjct: 64  LTTEENVVAEALKKSTNQLLEVSSDGKKIRRSPAKPLPDGDKERQK-LDELTVYAKGFPP 122

Query: 130 DATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNEN 189
             T+D++ +FF     +  +  N+ MR +       +KFKGS+F TF  K  AE F+ + 
Sbjct: 123 TTTIDELLEFF----GQFGQCINVFMRRF----PGNRKFKGSVFATFATKAEAEAFIAK- 173

Query: 190 KDKNLKFNENCEHKNAEKFLNENKDKNLKFNENCEHSLLIKWQQEYHEEKKQEVRSK-RD 248
             + LKFNE  E K + K                          +Y   KK+E +++  +
Sbjct: 174 --EGLKFNE-LELKRSMKV-------------------------DYVARKKEERQARLEE 205

Query: 249 KSKKSTEGDGEGNTEGSKQVVLELPTGALLKISDIKEPVSREDIREVLEKVQTDDQEIVF 308
           K+KK     G G     +    ++  G LL+++ + +  +RE +++ +E   T    + F
Sbjct: 206 KAKKKAANQGSGADASEEAEAEDVVLGCLLRVTGLGDKTTRETLKQAVEPYAT----LAF 261

Query: 309 IEFNVGEPTAFVRYKKENNAEAVLKALGSK--EIVIKDVKVSIEVVTGEEEQTVLDRMKI 366
           ++++ G P A +R+ +E +A+AVL  L ++   + +    V+   V G+EE        +
Sbjct: 262 VDYSRGNPDAILRFVEEGSAQAVLAKLEAQGEGLKVDGCDVTATAVEGDEE--------L 313

Query: 367 DIFKRRQKLMNEKKSGRKFGKKGPR 391
           + +K+      +KK+  K G++G R
Sbjct: 314 EYWKKLAAAKRDKKNRFKRGQRGNR 338

Source: Amblyomma maculatum

Species: Amblyomma maculatum

Genus: Amblyomma

Family: Ixodidae

Order: Ixodida

Class: Arachnida

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|195436884|ref|XP_002066385.1| GK18125 [Drosophila willistoni] gi|194162470|gb|EDW77371.1| GK18125 [Drosophila willistoni]

 Score =  193 bits (490), Expect = 2e-46,   Method: Compositional matrix adjust.
 Identities = 132/391 (33%), Positives = 210/391 (53%), Gaps = 56/391 (14%)

Query: 19  VSKLENQIIEQIEYYFSDINLARDKFLQGEIKKDDG---WVELTTMLKFARLAKMTTEAK 75
           ++K E  II Q+EYYF D NL RDKFL+ +I+K +G   WV L+ ++ F RLA +TT+ +
Sbjct: 58  LTKQERAIIRQVEYYFGDANLNRDKFLREQIEKSEGGEGWVPLSVLITFKRLAALTTDFQ 117

Query: 76  VIVDALKKSTSKLIEVNEDGTKIRRNPEKELPTFDIDFVKDLIAQSLYVKYIPVDATLDD 135
            I+DAL KS+  L++V+ED  K+RR+PE+ +P  + +  K++  ++ Y K  P+D+ + D
Sbjct: 118 EIIDALNKSSEGLLQVSEDKEKLRRHPERPIPEHNEERRKEIQERTAYAKGFPLDSKMSD 177

Query: 136 IKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLK 195
           + DF     S   K+ N+ MR + DK     KFKGSIF+TF  KE A+KFL         
Sbjct: 178 LLDF----VSPYEKVVNLTMRKHYDKPTKSYKFKGSIFLTFQTKEQAKKFL--------- 224

Query: 196 FNENCEHKNAEKFLNENKDKNLKFNENCEHSLLIKWQQEYHEEKKQEVRSKRDKSKKSTE 255
                     EK L +            E  LL KWQ +Y +EK++E + K +K K + +
Sbjct: 225 --------EGEKILYQ------------ERELLRKWQIDYLKEKQEEYQKKTEKRKSNQK 264

Query: 256 GDGEGNTEGSKQVVLELPTGALLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVGE 315
            D +   +      +ELP  A++      +  +RE+IRE  EK++  D  I +IEFN G+
Sbjct: 265 KDAKPEPQ------IELPKNAIVVFEGAPDTSTREEIREAFEKIK--DFPIAYIEFNKGD 316

Query: 316 PTAFVRYKKENNAEAVLKALGSKEIVIKD-VKVSIEVVTGEEEQTVLDRMKIDIFKRRQ- 373
               VR  + + A+  L+ +   ++ + D + +++   T +EE+  LD+  ID  K+R+ 
Sbjct: 317 IKGSVRLTEADAADKYLEKVEDGKLQLNDEISLTLRKATEDEEKEFLDKA-IDFMKKRRD 375

Query: 374 ------KLMNEKKSGRKFGKKGPRGTKRSRG 398
                 K  N K+ G   G     G K++R 
Sbjct: 376 FSRNKNKRFNRKRHG---GHDHKSGAKKARA 403

Source: Drosophila willistoni

Species: Drosophila willistoni

Genus: Drosophila

Family: Drosophilidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|380012601|ref|XP_003690368.1| PREDICTED: la protein homolog [Apis florea]

 Score =  192 bits (489), Expect = 2e-46,   Method: Compositional matrix adjust.
 Identities = 133/401 (33%), Positives = 206/401 (51%), Gaps = 49/401 (12%)

Query: 20  SKLENQIIEQIEYYFSDINLARDKFLQGEIKKDDGWVELTTMLKFARLAKMTTEAKVIVD 79
           S+L  +I  QIE+YF D+N+ RDKFL  + K DDGWV +T ML F  LA M+ E  VI+ 
Sbjct: 43  SELLEKIKNQIEFYFGDVNMQRDKFLIEQTKLDDGWVPMTVMLNFKMLASMSQEPDVILK 102

Query: 80  ALKKSTSKLIEVNEDGTKIRRNPEKELPTFDIDFVKDLIAQSLYVKYIPV-DATLDDIKD 138
           A++   SKL+E++ED  KIRR+P+  LP ++ ++ K   A++ YVK  P+ D  ++ +K 
Sbjct: 103 AIE--LSKLMEISEDKKKIRRSPKCPLPIYNEEYRKAQEARTAYVKGFPLQDTNIEKLKT 160

Query: 139 FFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLKFNE 198
           FF    S      NI+MR YQDK   + +FKGSIFV F   E+A+ F+           E
Sbjct: 161 FF----SAYEPFENIVMRKYQDK-GKKLQFKGSIFVQFKTLEDAKAFMA---------RE 206

Query: 199 NCEHKNAEKFLNENKDKNLKFNENCEHSLLIKWQQEYHEEKKQEVRSKRDKSKKSTEGDG 258
           + ++ + E                    L+ KW  +Y  EK +E   +R K  +      
Sbjct: 207 SIKYGDTE--------------------LIRKWSADYSAEKAKETEDRRQKRSEMKAKKS 246

Query: 259 EGNTEGSKQVV---------LELPTGALLKISDIKEPVSREDIREVLEKVQTDDQEIVFI 309
           E   +               + LP G ++   D+ E  +REDI+E L ++   D  I F+
Sbjct: 247 ESMKDKEDDESGEEDENEKDISLPKGCVIHFVDVPEKCTREDIKERLGEL---DANIAFV 303

Query: 310 EFNVGEPTAFVRYKKENNAEAVLKALGSKEIVIKDVKVSIEVVTGEEEQTVLDRMKIDIF 369
           +F +G+   +VR ++EN A+ ++  +   +I+I+D  V+  V+ GEEE+  L + K  I 
Sbjct: 304 DFKIGDKEGWVRLQEENTAKTIIDKMTDNQILIQDKTVTCRVLEGEEEEKYLTKAKTQIV 363

Query: 370 KRRQKLMNEKKSGRKFGKKGPRGTKRSRGGNFESNKKAKVE 410
             RQK    KK  +    +G R  + S   +   NKKA +E
Sbjct: 364 NTRQKYNKGKKGKKGRNTRGQRKRRNSDNNDLVPNKKAAIE 404

Source: Apis florea

Species: Apis florea

Genus: Apis

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|110759433|ref|XP_395300.3| PREDICTED: la protein homolog [Apis mellifera]

 Score =  192 bits (488), Expect = 2e-46,   Method: Compositional matrix adjust.
 Identities = 133/401 (33%), Positives = 206/401 (51%), Gaps = 49/401 (12%)

Query: 20  SKLENQIIEQIEYYFSDINLARDKFLQGEIKKDDGWVELTTMLKFARLAKMTTEAKVIVD 79
           S+L  +I  QIE+YF D+N+ RDKFL  + K DDGWV +T ML F  LA M+ E  VI+ 
Sbjct: 43  SELLEKIKNQIEFYFGDVNMQRDKFLIEQTKLDDGWVPMTVMLNFKMLASMSQEPDVILK 102

Query: 80  ALKKSTSKLIEVNEDGTKIRRNPEKELPTFDIDFVKDLIAQSLYVKYIPV-DATLDDIKD 138
           A++   SKL+E++ED  KIRR+P+  LP ++ ++ K   A++ YVK  P+ D  ++ +K 
Sbjct: 103 AIE--LSKLMEISEDKKKIRRSPKCPLPIYNEEYRKAQEARTAYVKGFPLQDTNIEKLKT 160

Query: 139 FFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLKFNE 198
           FF    S      NI+MR YQDK   + +FKGSIFV F   E+A+ F+           E
Sbjct: 161 FF----SAYEPFENIVMRKYQDK-GKKLQFKGSIFVQFKTLEDAKAFMA---------RE 206

Query: 199 NCEHKNAEKFLNENKDKNLKFNENCEHSLLIKWQQEYHEEKKQEVRSKRDKSKKSTEGDG 258
           + ++ + E                    L+ KW  +Y  EK +E   +R K  +      
Sbjct: 207 SIKYGDTE--------------------LIRKWSADYSAEKAKETEDRRQKRSEMKAKKS 246

Query: 259 EGNTEGSKQVV---------LELPTGALLKISDIKEPVSREDIREVLEKVQTDDQEIVFI 309
           E   +               + LP G ++   D+ E  +REDI+E L ++   D  I F+
Sbjct: 247 ESMKDKEDDESGEEDENEKDISLPKGCVIHFIDVPEKCTREDIKERLGEL---DANIAFV 303

Query: 310 EFNVGEPTAFVRYKKENNAEAVLKALGSKEIVIKDVKVSIEVVTGEEEQTVLDRMKIDIF 369
           +F +G+   +VR ++EN A+ ++  +   +I+I+D  V+  V+ GEEE+  L + K  I 
Sbjct: 304 DFKIGDKEGWVRLQEENTAKTIIDKMTDNQILIQDKTVTCRVLEGEEEEKYLTKAKTQIV 363

Query: 370 KRRQKLMNEKKSGRKFGKKGPRGTKRSRGGNFESNKKAKVE 410
             RQK    KK  +    +G R  + S   +   NKKA +E
Sbjct: 364 NTRQKYNKGKKGKKGRNTRGQRKRRNSDNNDLVPNKKAAIE 404

Source: Apis mellifera

Species: Apis mellifera

Genus: Apis

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|383848821|ref|XP_003700046.1| PREDICTED: la protein homolog [Megachile rotundata]

 Score =  192 bits (488), Expect = 2e-46,   Method: Compositional matrix adjust.
 Identities = 133/400 (33%), Positives = 213/400 (53%), Gaps = 59/400 (14%)

Query: 10  NGNSGAEAEVSKLENQIIEQIEYYFSDINLARDKFLQGEIKKDDGWVELTTMLKFARLAK 69
           N    AE    +L  +I  QIE+YF D+N+ RDKFL  + K DDGW+ +T ML F  L  
Sbjct: 34  NAKQTAEEPSKELLEKIKNQIEFYFGDVNMQRDKFLIEQTKLDDGWIPMTVMLNFKMLTS 93

Query: 70  MTTEAKVIVDALKKSTSKLIEVNEDGTKIRRNPEKELPTFDIDFVKDLIAQSLYVKYIPV 129
           M+T+ +VI+ AL+  +S+L+E++ED  KIRR+P+  LP ++ ++ K   A+++Y+K  P+
Sbjct: 94  MSTDTEVILKALE--SSELMEISEDRKKIRRSPKHPLPVYNEEYRKAQEARTIYLKGFPL 151

Query: 130 -DATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNE 188
            D  ++ +K FF    S      NIIMR Y DK   + +FKGSIF+ F   E+A+ F+  
Sbjct: 152 NDTNIEKLKTFF----SVYEPFENIIMRKYLDK-EKKLQFKGSIFIQFKTLEDAKAFMAR 206

Query: 189 NKDKNLKFNENCEHKNAEKFLNENKDKNLKFNENCEHSLLIKWQQEYHEEK---KQEVRS 245
           +    +K+ E                            L+ KW  +Y+ EK   K+E R 
Sbjct: 207 DP---IKYGET--------------------------ELIRKWSADYNVEKTKEKEERRQ 237

Query: 246 KRDKSK-------KSTEGDGEGNTEGSKQVVLELPTGALLKISDIKEPVSREDIREVLEK 298
           KR + K       K  E D  G  E +++    LP G ++  +D  +  +REDI+E L +
Sbjct: 238 KRSEGKGKKHDNAKEKEADHSGEEEENEKDA-SLPKGCVIHFTDAPDKCTREDIKERLGE 296

Query: 299 VQTDDQEIVFIEFNVGEPTAFVRYKKENNAEAVLKALGSKEIVIKDVKVSIEVVTGEEEQ 358
           +   D  I F++F +G+   +VR + EN+A+AV+  +   +++I   +V+  V+ GEEEQ
Sbjct: 297 L---DASIAFVDFKIGDQEGWVRLQGENSAKAVVDKMKDSKVLIHGKEVTCRVLEGEEEQ 353

Query: 359 TVLDRMKIDIFKRRQKLMNEKKSGRKFGKKGPRGTKRSRG 398
             L + K ++   RQK +         GK+G +G  + RG
Sbjct: 354 KYLIKAKEEMANMRQKFVK--------GKRGKKGRNQQRG 385

Source: Megachile rotundata

Species: Megachile rotundata

Genus: Megachile

Family: Megachilidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|194760049|ref|XP_001962254.1| GF15376 [Drosophila ananassae] gi|190615951|gb|EDV31475.1| GF15376 [Drosophila ananassae]

 Score =  187 bits (474), Expect = 1e-44,   Method: Compositional matrix adjust.
 Identities = 135/391 (34%), Positives = 209/391 (53%), Gaps = 52/391 (13%)

Query: 18  EVSKLENQIIEQIEYYFSDINLARDKFLQGEI-KKDDGWVELTTMLKFARLAKMTTEAKV 76
           + SK E  II Q+EYYF D NL RDKFL+ +I K +DGWV L+ ++ F RLA ++T+ + 
Sbjct: 46  DFSKQERAIIRQVEYYFGDANLNRDKFLREQIGKNEDGWVPLSVLITFKRLASLSTDFEE 105

Query: 77  IVDALKKSTSKLIEVNEDGTKIRRNPEKELPTFDIDFVKDLIAQSLYVKYIPVDATLDDI 136
           IV AL KS   LI+++ED   +RR+PE+ +P  + +  K++  ++ Y K  P+++ + ++
Sbjct: 106 IVAALNKSEEGLIQISEDKQSLRRHPERPIPEHNEERRKEIQERTAYAKGFPLESQMTEL 165

Query: 137 KDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLKF 196
            DFF    S D K+ NI MR + DK     KFKGSIF+TF+ KE A  FL ++K      
Sbjct: 166 LDFF---ASYD-KVVNITMRKHYDKPTKSYKFKGSIFLTFETKEQATDFLAKDK------ 215

Query: 197 NENCEHKNAEKFLNENKDKNLKFNENCEHSLLIKWQQEYHEEKKQEVRSKRDKSKKSTEG 256
                +K                    E  LL KWQ +Y +EK++E   K +K K   E 
Sbjct: 216 ---VVYK--------------------ERELLRKWQVDYLKEKQEEYAQKNEKRKNKKEA 252

Query: 257 DGEGNTEGSKQVVLELPTGALLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVGEP 316
                     +  +ELP  A++      E  +RE++RE  EKV   D EI FIEF+ G+ 
Sbjct: 253 -------AKAEPAIELPKNAIVVFEGAPETATREEVREAFEKVA--DFEIAFIEFSKGDT 303

Query: 317 TAFVRYKKENNAEAVLKALGSKEIVIK-DVKVSIEVVTGEEEQTVLDRMKIDIFKRRQKL 375
              VR  + + AE  +  +   ++ +  DV +++   T EEE+  LD+  I+  K+R+  
Sbjct: 304 KGSVRLTEADAAEKYIAKVEEGKLKLNDDVSLTLRKATEEEEKEFLDKA-IEFMKKRRDF 362

Query: 376 MNEKKSGRKFGKKGPRGTKRSRGGNFESNKK 406
           +  K  G++F  +     KR  GG+++ N K
Sbjct: 363 VRNK--GKRFNNR-----KRQGGGDYKHNSK 386

Source: Drosophila ananassae

Species: Drosophila ananassae

Genus: Drosophila

Family: Drosophilidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	410
MGI|MGI:98423	415	Ssb "Sjogren syndrome antigen	0.495	0.489	0.431	6.8e-49
UNIPROTKB|Q66HM7	415	Ssb "Sjogren syndrome antigen	0.495	0.489	0.426	2.9e-48
RGD|620804	415	Ssb "Sjogren syndrome antigen	0.495	0.489	0.426	4.7e-48
RGD|1592944	402	LOC680385 "similar to Sjogren	0.495	0.504	0.435	6e-48
UNIPROTKB|P05455	408	SSB "Lupus La protein" [Homo s	0.546	0.549	0.410	4.3e-38
UNIPROTKB|E9PFH8	361	SSB "Lupus La protein" [Homo s	0.546	0.620	0.410	4.3e-38
UNIPROTKB|E2RH09	406	SSB "Uncharacterized protein"	0.546	0.551	0.401	5.5e-38
WB|WBGene00016653	396	C44E4.4 [Caenorhabditis elegan	0.375	0.388	0.409	9.3e-38
UNIPROTKB|F1S1V1	402	SSB "Uncharacterized protein"	0.524	0.534	0.418	4.9e-37
UNIPROTKB|P10881	404	SSB "Lupus La protein homolog"	0.546	0.554	0.397	6.3e-37

MGI|MGI:98423 Ssb "Sjogren syndrome antigen B" [Mus musculus (taxid:10090)]

 Score = 395 (144.1 bits), Expect = 6.8e-49, Sum P(2) = 6.8e-49
 Identities = 94/218 (43%), Positives = 131/218 (60%)

Query:    13 SGAEAEVSKLENQIIEQIEYYFSDINLARDKFLQGEIKKDDGWVELTTMLKFARLAKMTT 72
             +G   +++ LE +I  QIEYYF D NL RDKFL+ +IK D+GWV L TM+KF RL ++TT
Sbjct:     4 NGDNEKMTALEAKICHQIEYYFGDFNLPRDKFLKEQIKLDEGWVPLETMIKFNRLNRLTT 63

Query:    73 EAKVIVDALKKSTSKLIEVNEDGTKIRRNPEKELPTFDIDFVKDLIAQSLYVKYIPVDAT 132
             +  VIV AL KS +KL+EV+ D TKIRR+P + LP    ++  D+  +S+Y+K  P DAT
Sbjct:    64 DFNVIVQALSKSKAKLMEVSADKTKIRRSPSRPLPEVTDEYKNDVKNRSVYIKGFPTDAT 123

Query:   133 LDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLN----E 188
             LDDIK++      +  +I NI MR         K FKGSIF  FD+ ++A+KF+     +
Sbjct:   124 LDDIKEWL----DDKGQILNIQMRR-----TLHKTFKGSIFAVFDSIQSAKKFVEIPGQK 174

Query:   189 NKDKNLK--FNENCEHKNAEKFLNENKDKNLKFNENCE 224
              KD NL   F E+   K  E+      +  LK  +  E
Sbjct:   175 YKDTNLLILFKEDYFAKKNEERKQSKVEAKLKAKQEHE 212

GO:0000166 "nucleotide binding" evidence=IEA

GO:0003676 "nucleic acid binding" evidence=IEA

GO:0003723 "RNA binding" evidence=IDA

GO:0005634 "nucleus" evidence=IDA

GO:0006396 "RNA processing" evidence=IEA

GO:0008033 "tRNA processing" evidence=ISO

GO:0030529 "ribonucleoprotein complex" evidence=IEA

UNIPROTKB|Q66HM7 Ssb "Sjogren syndrome antigen B" [Rattus norvegicus (taxid:10116)]

 Score = 391 (142.7 bits), Expect = 2.9e-48, Sum P(2) = 2.9e-48
 Identities = 93/218 (42%), Positives = 131/218 (60%)

Query:    13 SGAEAEVSKLENQIIEQIEYYFSDINLARDKFLQGEIKKDDGWVELTTMLKFARLAKMTT 72
             +G   +++ LE +I  QIEYYF D NL RDKFL+ +IK D+GWV L TM+KF RL ++TT
Sbjct:     4 NGDNEKMAALEAKICHQIEYYFGDFNLPRDKFLKEQIKLDEGWVPLETMIKFNRLNRLTT 63

Query:    73 EAKVIVDALKKSTSKLIEVNEDGTKIRRNPEKELPTFDIDFVKDLIAQSLYVKYIPVDAT 132
             +  VIV AL KS + L+EV+ D TKIRR+P + LP    ++  D+  +S+Y+K  P DAT
Sbjct:    64 DFNVIVQALSKSKANLMEVSADKTKIRRSPSRPLPEVTDEYKNDVKNRSVYIKGFPTDAT 123

Query:   133 LDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLN----E 188
             LDDIK++      +  +I NI MR         K FKGSIF  FD+ ++A+KF++    +
Sbjct:   124 LDDIKEWL----DDKGQILNIQMRR-----TLHKTFKGSIFAVFDSIQSAKKFVDTPGQK 174

Query:   189 NKDKNLK--FNENCEHKNAEKFLNENKDKNLKFNENCE 224
              KD NL   F E+   K  E+      +  LK  +  E
Sbjct:   175 YKDTNLLILFKEDYFAKKNEERKQSKVEAKLKAKQEHE 212

GO:0000166 "nucleotide binding" evidence=IEA

GO:0030529 "ribonucleoprotein complex" evidence=IEA

RGD|620804 Ssb "Sjogren syndrome antigen B" [Rattus norvegicus (taxid:10116)]

 Score = 391 (142.7 bits), Expect = 4.7e-48, Sum P(2) = 4.7e-48
 Identities = 93/218 (42%), Positives = 131/218 (60%)

Query:    13 SGAEAEVSKLENQIIEQIEYYFSDINLARDKFLQGEIKKDDGWVELTTMLKFARLAKMTT 72
             +G   +++ LE +I  QIEYYF D NL RDKFL+ +IK D+GWV L TM+KF RL ++TT
Sbjct:     4 NGDNEKMAALEAKICHQIEYYFGDFNLPRDKFLKEQIKLDEGWVPLETMIKFNRLNRLTT 63

Query:    73 EAKVIVDALKKSTSKLIEVNEDGTKIRRNPEKELPTFDIDFVKDLIAQSLYVKYIPVDAT 132
             +  VIV AL KS + L+EV+ D TKIRR+P + LP    ++  D+  +S+Y+K  P DAT
Sbjct:    64 DFNVIVQALSKSKANLMEVSADKTKIRRSPSRPLPEVTDEYKNDVKNRSVYIKGFPTDAT 123

Query:   133 LDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLN----E 188
             LDDIK++      +  +I NI MR         K FKGSIF  FD+ ++A+KF++    +
Sbjct:   124 LDDIKEWL----DDKGQILNIQMRR-----TLHKTFKGSIFAVFDSIQSAKKFVDTPGQK 174

Query:   189 NKDKNLK--FNENCEHKNAEKFLNENKDKNLKFNENCE 224
              KD NL   F E+   K  E+      +  LK  +  E
Sbjct:   175 YKDTNLLILFKEDYFAKKNEERKQSKVEAKLKAKQEHE 212

GO:0000166 "nucleotide binding" evidence=IEA

GO:0003723 "RNA binding" evidence=IEA;ISO

GO:0005634 "nucleus" evidence=IEA;ISO

GO:0006396 "RNA processing" evidence=IEA

GO:0008033 "tRNA processing" evidence=IMP

GO:0030529 "ribonucleoprotein complex" evidence=IEA

RGD|1592944 LOC680385 "similar to Sjogren syndrome antigen B" [Rattus norvegicus (taxid:10116)]

 Score = 396 (144.5 bits), Expect = 6.0e-48, Sum P(2) = 6.0e-48
 Identities = 95/218 (43%), Positives = 134/218 (61%)

Query:    13 SGAEAEVSKLENQIIEQIEYYFSDINLARDKFLQGEIKKDDGWVELTTMLKFARLAKMTT 72
             +G   +++ LE +I  QIEYYF D NL +DKFL+ +IK D+GWV L TM+KF RL ++TT
Sbjct:     4 NGDNEKMAALEAKICHQIEYYFGDFNLPQDKFLKEQIKLDEGWVSLETMIKFNRLNRLTT 63

Query:    73 EAKVIVDALKKSTSKLIEVNEDGTKIRRNPEKELPTFDIDFVKDLIAQSLYVKYIPVDAT 132
             +  VIV AL KS +KL+EV+ D TKIRR+P + LP    ++  D+  +S+Y+K  P DAT
Sbjct:    64 DFNVIVQALSKSKAKLMEVSADKTKIRRSPSRPLPEVMDEYKNDVKNRSVYIKGFPTDAT 123

Query:   133 LDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLN----E 188
             LDDIK++      +  +I NI MR    KL   K FKGSIF  FD+ ++A+KF++    +
Sbjct:   124 LDDIKEWL----DDKGQILNIQMRR---KL--HKTFKGSIFAVFDSIQSAKKFVDTPGQK 174

Query:   189 NKDKNLK--FNENCEHKNAEKFLNENKDKNLKFNENCE 224
              KD NL   F E+   K  E+      +  LK  +  E
Sbjct:   175 YKDTNLLILFKEDYFAKKNEERKQSKVEAKLKAKQEHE 212

GO:0000166 "nucleotide binding" evidence=IEA

GO:0003723 "RNA binding" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

GO:0006396 "RNA processing" evidence=IEA

GO:0030529 "ribonucleoprotein complex" evidence=IEA

UNIPROTKB|P05455 SSB "Lupus La protein" [Homo sapiens (taxid:9606)]

 Score = 408 (148.7 bits), Expect = 4.3e-38, P = 4.3e-38
 Identities = 98/239 (41%), Positives = 147/239 (61%)

Query:    13 SGAEAEVSKLENQIIEQIEYYFSDINLARDKFLQGEIKKDDGWVELTTMLKFARLAKMTT 72
             +G   +++ LE +I  QIEYYF D NL RDKFL+ +IK D+GWV L  M+KF RL ++TT
Sbjct:     4 NGDNEKMAALEAKICHQIEYYFGDFNLPRDKFLKEQIKLDEGWVPLEIMIKFNRLNRLTT 63

Query:    73 EAKVIVDALKKSTSKLIEVNEDGTKIRRNPEKELPTFDIDFVKDLIAQSLYVKYIPVDAT 132
             +  VIV+AL KS ++L+E++ED TKIRR+P K LP    ++  D+  +S+Y+K  P DAT
Sbjct:    64 DFNVIVEALSKSKAELMEISEDKTKIRRSPSKPLPEVTDEYKNDVKNRSVYIKGFPTDAT 123

Query:   133 LDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDK 192
             LDDIK++ +    +  ++ NI MR         K FKGSIFV FD+ E+A+KF+ E   +
Sbjct:   124 LDDIKEWLE----DKGQVLNIQMRR-----TLHKAFKGSIFVVFDSIESAKKFV-ETPGQ 173

Query:   193 NLKFNENCEHKNAEKFLNENKDKNLKFNENCEHSLLIKWQQEYHE--EKKQEVRSKRDK 249
               K  +       + F  +N+++  K N+  E  L  K +QE  +  E+  E++S  +K
Sbjct:   174 KYKETDLLILFKDDYFAKKNEER--KQNK-VEAKLRAKQEQEAKQKLEEDAEMKSLEEK 229

GO:0000166 "nucleotide binding" evidence=IEA

GO:0030529 "ribonucleoprotein complex" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

GO:0000049 "tRNA binding" evidence=TAS

GO:0003729 "mRNA binding" evidence=TAS

GO:0006400 "tRNA modification" evidence=TAS

GO:0008334 "histone mRNA metabolic process" evidence=TAS

UNIPROTKB|E9PFH8 SSB "Lupus La protein" [Homo sapiens (taxid:9606)]

 Score = 408 (148.7 bits), Expect = 4.3e-38, P = 4.3e-38
 Identities = 98/239 (41%), Positives = 147/239 (61%)

Query:    13 SGAEAEVSKLENQIIEQIEYYFSDINLARDKFLQGEIKKDDGWVELTTMLKFARLAKMTT 72
             +G   +++ LE +I  QIEYYF D NL RDKFL+ +IK D+GWV L  M+KF RL ++TT
Sbjct:     4 NGDNEKMAALEAKICHQIEYYFGDFNLPRDKFLKEQIKLDEGWVPLEIMIKFNRLNRLTT 63

Query:    73 EAKVIVDALKKSTSKLIEVNEDGTKIRRNPEKELPTFDIDFVKDLIAQSLYVKYIPVDAT 132
             +  VIV+AL KS ++L+E++ED TKIRR+P K LP    ++  D+  +S+Y+K  P DAT
Sbjct:    64 DFNVIVEALSKSKAELMEISEDKTKIRRSPSKPLPEVTDEYKNDVKNRSVYIKGFPTDAT 123

Query:   133 LDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDK 192
             LDDIK++ +    +  ++ NI MR         K FKGSIFV FD+ E+A+KF+ E   +
Sbjct:   124 LDDIKEWLE----DKGQVLNIQMRR-----TLHKAFKGSIFVVFDSIESAKKFV-ETPGQ 173

Query:   193 NLKFNENCEHKNAEKFLNENKDKNLKFNENCEHSLLIKWQQEYHE--EKKQEVRSKRDK 249
               K  +       + F  +N+++  K N+  E  L  K +QE  +  E+  E++S  +K
Sbjct:   174 KYKETDLLILFKDDYFAKKNEER--KQNK-VEAKLRAKQEQEAKQKLEEDAEMKSLEEK 229

GO:0000166 "nucleotide binding" evidence=IEA

GO:0003723 "RNA binding" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

GO:0006396 "RNA processing" evidence=IEA

GO:0030529 "ribonucleoprotein complex" evidence=IEA

UNIPROTKB|E2RH09 SSB "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]

 Score = 407 (148.3 bits), Expect = 5.5e-38, P = 5.5e-38
 Identities = 96/239 (40%), Positives = 146/239 (61%)

Query:    13 SGAEAEVSKLENQIIEQIEYYFSDINLARDKFLQGEIKKDDGWVELTTMLKFARLAKMTT 72
             +G   +++ LE +I  QIEYYF D NL RDKFL+ +IK D+GWV L  M+KF RL ++TT
Sbjct:     4 NGDNEKMAALEAKICHQIEYYFGDFNLPRDKFLKEQIKLDEGWVPLEIMIKFNRLNRLTT 63

Query:    73 EAKVIVDALKKSTSKLIEVNEDGTKIRRNPEKELPTFDIDFVKDLIAQSLYVKYIPVDAT 132
             +  VIV+AL KS ++L+E++ED TKIRR+P K LP    ++  D+  +S+Y+K  P DAT
Sbjct:    64 DFNVIVEALSKSKAELMEISEDKTKIRRSPSKPLPEVTDEYKNDVKNRSVYIKGFPTDAT 123

Query:   133 LDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDK 192
             LDDIK++ +    +  ++ NI MR         K FKGSIF  FD+ E+A KF+ +  D+
Sbjct:   124 LDDIKEWLE----DKGQVLNIQMRR-----TLHKAFKGSIFAVFDSIESARKFV-DTPDQ 173

Query:   193 NLKFNENCEHKNAEKFLNENKDKNLKFNENCEHSLLIKWQQEYHEE--KKQEVRSKRDK 249
               K  +       + F  +N+++  K N+  E  L  K +QE  ++  +  E++S  +K
Sbjct:   174 KYKDTDLLILFKEDYFAKKNEER--KQNK-VEAKLRAKQEQEEKQKLAESAEIKSLEEK 229

GO:0030529 "ribonucleoprotein complex" evidence=IEA

GO:0006396 "RNA processing" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

GO:0003723 "RNA binding" evidence=IEA

GO:0000166 "nucleotide binding" evidence=IEA

WB|WBGene00016653 C44E4.4 [Caenorhabditis elegans (taxid:6239)]

 Score = 321 (118.1 bits), Expect = 9.3e-38, Sum P(2) = 9.3e-38
 Identities = 66/161 (40%), Positives = 104/161 (64%)

Query:    23 ENQIIEQIEYYFSDINLARDKFLQGEIKKDDGWVELTTMLKFARLAKMTTEAKVIVDALK 82
             + +II+Q+EYYF +INL RDKFLQ ++K+DDGWV +TTML F RLA ++ + + I +A+K
Sbjct:    13 DQKIIKQLEYYFGNINLPRDKFLQEKLKEDDGWVPITTMLNFNRLASISKDTEKIANAVK 72

Query:    83 KSTSKLIEVNEDGTKIRRNPEKELPTFDIDFVKDLIAQSLYVKYIPVDATLDDIKDFFKK 142
              S S +I V+ED  KIRRN E  +P   +++ + +  +++Y+K    D  LDDI  +   
Sbjct:    73 NSGSGIISVSEDNQKIRRNEENPVPENSLEYWQKIKHRTVYMKGFSTDTQLDDIIQW--A 130

Query:   143 NTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAE 183
             N   + +  N++MR  +      + FKGS+F+T+  +E AE
Sbjct:   131 NQFGETE--NVLMRRLKP---GDRTFKGSVFITYKTREEAE 166

GO:0003676 "nucleic acid binding" evidence=IEA

GO:0003723 "RNA binding" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

GO:0006396 "RNA processing" evidence=IEA

GO:0030529 "ribonucleoprotein complex" evidence=IEA

GO:0040010 "positive regulation of growth rate" evidence=IMP

GO:0009792 "embryo development ending in birth or egg hatching" evidence=IMP

GO:0018991 "oviposition" evidence=IMP

GO:0008406 "gonad development" evidence=IMP

GO:0040027 "negative regulation of vulval development" evidence=IMP

GO:0000003 "reproduction" evidence=IMP

GO:0040007 "growth" evidence=IMP

GO:0002119 "nematode larval development" evidence=IMP

GO:0006898 "receptor-mediated endocytosis" evidence=IMP

UNIPROTKB|F1S1V1 SSB "Uncharacterized protein" [Sus scrofa (taxid:9823)]

 Score = 398 (145.2 bits), Expect = 4.9e-37, P = 4.9e-37
 Identities = 98/234 (41%), Positives = 137/234 (58%)

Query:    13 SGAEAEVSKLENQIIEQIEYYFSDINLARDKFLQGEIKKDDGWVELTTMLKFARLAKMTT 72
             +G   +++ LE +I  QIEYYF D NL RDKFL+ +IK D+GWV L  M+KF RL ++TT
Sbjct:     4 NGDNEKLAALEAKICHQIEYYFGDFNLPRDKFLKEQIKLDEGWVPLEIMIKFNRLNRLTT 63

Query:    73 EAKVIVDALKKSTSKLIEVNEDGTKIRRNPEKELPTFDIDFVKDLIAQSLYVKYIPVDAT 132
             +  VI++AL KS ++L+E++ED TKIRR+P K LP    ++  DL  +S+YVK  P DAT
Sbjct:    64 DFNVIIEALSKSKAELMEISEDKTKIRRSPSKPLPEVTDEYKNDLKNRSVYVKGFPTDAT 123

Query:   133 LDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLN----E 188
             LDDIKD+ +    +  +I NI MR         K FKGSIF  FD+ E+A+KF+     +
Sbjct:   124 LDDIKDWLE----DKGEILNIQMRR-----TLHKTFKGSIFAVFDSIESAKKFVKTPGQK 174

Query:   189 NKDKNLK--FNENCEHKNAEKFLNENKDKNLKFNENCEHSLLIKWQQEYHEEKK 240
              KD +L   F E    K  E    E K   ++     +H    K +   H E +
Sbjct:   175 YKDTDLLILFKEEYFAKKNE----ERKKHKIEAKLRAKHRQQEKLKLAEHPEMR 224

GO:0005634 "nucleus" evidence=IEA

GO:0003723 "RNA binding" evidence=IEA

GO:0030529 "ribonucleoprotein complex" evidence=IEA

GO:0006396 "RNA processing" evidence=IEA

GO:0000166 "nucleotide binding" evidence=IEA

UNIPROTKB|P10881 SSB "Lupus La protein homolog" [Bos taurus (taxid:9913)]

 Score = 397 (144.8 bits), Expect = 6.3e-37, P = 6.3e-37
 Identities = 95/239 (39%), Positives = 145/239 (60%)

Query:    13 SGAEAEVSKLENQIIEQIEYYFSDINLARDKFLQGEIKKDDGWVELTTMLKFARLAKMTT 72
             +G   +++ LE +I  QIEYYF D NL RDKFL+ +IK D+GWV L  M+KF RL ++TT
Sbjct:     4 NGDNEKMAALEAKICHQIEYYFGDFNLPRDKFLKEQIKLDEGWVPLEIMIKFNRLNRLTT 63

Query:    73 EAKVIVDALKKSTSKLIEVNEDGTKIRRNPEKELPTFDIDFVKDLIAQSLYVKYIPVDAT 132
             +  VIV+AL KS ++L+E++ED TKIRR+P K LP    ++  D+  +S+Y+K  P DA 
Sbjct:    64 DFNVIVEALSKSKAELMEISEDKTKIRRSPSKPLPEVTDEYKNDVKNRSVYIKGFPTDAA 123

Query:   133 LDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDK 192
             LDDIK++ +    +  ++ NI MR         K FKGSIF  FD+ E+A+KF+ E   +
Sbjct:   124 LDDIKEWLE----DKGQVLNIQMRR-----TLHKAFKGSIFAVFDSIESAKKFV-ETPGQ 173

Query:   193 NLKFNENCEHKNAEKFLNENKDKNLKFNENCEHSLLIKWQQEYHEE--KKQEVRSKRDK 249
               K  +       + F  +N+++  K N+  E  L  K +QE  ++  +  E++S  +K
Sbjct:   174 KYKDTDLLILFKEDYFTKKNEER--KQNK-MEAKLRAKQEQEEKQKLAENAEMKSLEEK 229

GO:0005634 "nucleus" evidence=IEA

GO:0003723 "RNA binding" evidence=IEA

GO:0030529 "ribonucleoprotein complex" evidence=IEA

GO:0006396 "RNA processing" evidence=IEA

GO:0000166 "nucleotide binding" evidence=IEA

---

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)
P40796	LA_DROME	No assigned EC number	0.3394	0.8170	0.8589	yes	N/A
P38656	LA_RAT	No assigned EC number	0.3392	0.8121	0.8024	yes	N/A
P10881	LA_BOVIN	No assigned EC number	0.3409	0.8268	0.8391	yes	N/A
P32067	LA_MOUSE	No assigned EC number	0.3565	0.7975	0.7879	yes	N/A
P05455	LA_HUMAN	No assigned EC number	0.3532	0.8121	0.8161	yes	N/A

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

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	410
cd08028	82	cd08028, LARP_3, La RNA-binding domain of La-relat	7e-34
smart00715	80	smart00715, LA, Domain in the RNA-binding Lupus La	1e-25
cd07323	75	cd07323, LAM, LA motif RNA-binding domain	2e-22
pfam05383	59	pfam05383, La, La domain	6e-21
cd08033	77	cd08033, LARP_6, La RNA-binding domain of La-relat	3e-15
cd08029	76	cd08029, LA_like_fungal, La-motif domain of fungal	2e-14
cd12291	72	cd12291, RRM1_La, RNA recognition motif 1 in La au	2e-13
cd08032	82	cd08032, LARP_7, La RNA-binding domain of La-relat	5e-13
cd08030	90	cd08030, LA_like_plant, La-motif domain of plant p	4e-11
cd12541	76	cd12541, RRM2_La, RNA recognition motif 2 in La au	6e-11
pfam08777	102	pfam08777, RRM_3, RNA binding motif	2e-10
cd08034	73	cd08034, LARP_1_2, La RNA-binding domain proteins	2e-09
cd08031	75	cd08031, LARP_4_5_like, La RNA-binding domain of p	4e-09
cd08037	73	cd08037, LARP_1, La RNA-binding domain of La-relat	8e-07
cd08038	73	cd08038, LARP_2, La RNA-binding domain of La-relat	1e-06
smart00360	73	smart00360, RRM, RNA recognition motif	4e-06
pfam14259	69	pfam14259, RRM_6, RNA recognition motif (a	5e-06
pfam00076	70	pfam00076, RRM_1, RNA recognition motif	2e-05
cd12254	73	cd12254, RRM_hnRNPH_ESRPs_RBM12_like, RNA recognit	4e-05
COG5193	438	COG5193, LHP1, La protein, small RNA-binding pol I	5e-05
cd00590	72	cd00590, RRM_SF, RNA recognition motif (RRM) super	8e-05
cd12292	75	cd12292, RRM2_La_like, RNA recognition motif 2 in	1e-04
cd08036	75	cd08036, LARP_5, La RNA-binding domain of La-relat	3e-04
cd08035	75	cd08035, LARP_4, La RNA-binding domain of La-relat	3e-04
cd12431	80	cd12431, RRM_ALKBH8, RNA recognition motif in alky	0.004

>gnl|CDD|153397 cd08028, LARP_3, La RNA-binding domain of La-related protein 3

 Score =  120 bits (304), Expect = 7e-34
 Identities = 50/82 (60%), Positives = 62/82 (75%)

Query: 19  VSKLENQIIEQIEYYFSDINLARDKFLQGEIKKDDGWVELTTMLKFARLAKMTTEAKVIV 78
           +  LE +II QIEYYF D NL RDKFL+ +IK+DDGWV +  MLKF RL  ++++ +VI 
Sbjct: 1   MDDLEKKIIRQIEYYFGDFNLPRDKFLKEQIKEDDGWVPMEVMLKFNRLKSLSSDPEVIA 60

Query: 79  DALKKSTSKLIEVNEDGTKIRR 100
            ALKKS S LIEV+ED TKIRR
Sbjct: 61  KALKKSKSGLIEVSEDKTKIRR 82

This domain is found at the N-terminus of the La autoantigen and similar proteins, and co-occurs with an RNA-recognition motif (RRM). Together these domains function to bind primary transcripts of RNA polymerase III at their 3' terminus and protect them from exonucleolytic degradation. Binding is specific for the 3'-terminal UUU-OH motif. The La autoantigen is also called Lupus La protein, LARP3, or Sjoegren syndrome type B antigen (SS-B). Length = 82

>gnl|CDD|128955 smart00715, LA, Domain in the RNA-binding Lupus La protein; unknown function

 Score = 98.8 bits (247), Expect = 1e-25
 Identities = 38/82 (46%), Positives = 60/82 (73%), Gaps = 2/82 (2%)

Query: 20  SKLENQIIEQIEYYFSDINLARDKFLQGEIKKDDGWVELTTMLKFARLAKMTTEAKVIVD 79
            +L+ +I +Q+EYYFSD NL RDKFL+ ++ K+DG+V ++T+  F R+  +TT+  +IV+
Sbjct: 1   EELKQKIKKQVEYYFSDENLPRDKFLRKKMDKNDGYVPISTIASFKRVKSLTTDVNLIVE 60

Query: 80  ALKKSTSKLIEVNEDGTKIRRN 101
           AL+ S    +EV+EDG K+RR 
Sbjct: 61  ALRSSP--KLEVSEDGLKVRRR 80

Length = 80

>gnl|CDD|153396 cd07323, LAM, LA motif RNA-binding domain

 Score = 89.9 bits (224), Expect = 2e-22
 Identities = 37/77 (48%), Positives = 58/77 (75%), Gaps = 3/77 (3%)

Query: 24  NQIIEQIEYYFSDINLARDKFLQGEIKKDDGWVELTTMLKFARLAKMTTEAKVIVDALKK 83
            +I +Q+EYYFSD NL +D+FL+  +  DDGWV L+ +  F R+ K+TT+ ++I++AL+ 
Sbjct: 2   EKIKKQVEYYFSDENLCKDRFLRSLM-DDDGWVPLSLLASFNRVKKLTTDVELILEALR- 59

Query: 84  STSKLIEVNEDGTKIRR 100
             S ++EV+EDGTK+RR
Sbjct: 60  -DSSVVEVSEDGTKVRR 75

This domain is found at the N-terminus of La RNA-binding proteins as well as in other related proteins. Typically, the domain co-occurs with an RNA-recognition motif (RRM), and together these domains function to bind primary transcripts of RNA polymerase III in the La autoantigen (Lupus La protein, LARP3, or Sjoegren syndrome type B antigen, SS-B). A variety of La-related proteins (LARPs or La ribonucleoproteins), with differing domain architecture, appear to function as RNA-binding proteins in eukaryotic cellular processes. Length = 75

>gnl|CDD|203243 pfam05383, La, La domain

 Score = 85.3 bits (212), Expect = 6e-21
 Identities = 30/59 (50%), Positives = 45/59 (76%)

Query: 26 IIEQIEYYFSDINLARDKFLQGEIKKDDGWVELTTMLKFARLAKMTTEAKVIVDALKKS 84
          I +Q+EYYFSD NL RDKFL+ ++ KD G+V ++T+  F R+ K+TT+  +IV+AL+ S
Sbjct: 1  IKKQVEYYFSDENLPRDKFLRKQMDKDPGYVPISTIASFKRIKKLTTDVNLIVEALRSS 59

This presumed domain is found at the N-terminus of La RNA-binding proteins as well as other proteins. The function of this region is uncertain. Length = 59

>gnl|CDD|153402 cd08033, LARP_6, La RNA-binding domain of La-related protein 6

 Score = 70.0 bits (172), Expect = 3e-15
 Identities = 28/78 (35%), Positives = 53/78 (67%), Gaps = 3/78 (3%)

Query: 24  NQIIEQIEYYFSDINLARDKFLQGEIKKD-DGWVELTTMLKFARLAKMTTEAKVIVDALK 82
            +I++Q+EYYFSD NL +D FL   ++++ +G+V +  +  F ++  +T + +V+  AL+
Sbjct: 2   QKIVKQVEYYFSDENLLKDAFLLKHVRRNKEGYVPIKLIASFKKVKALTRDWRVVAAALR 61

Query: 83  KSTSKLIEVNEDGTKIRR 100
           +S+   + V+EDG K+RR
Sbjct: 62  RSS--KLVVSEDGKKVRR 77

This domain is found in animal and plant proteins related to the La autoantigen. A variety of La-related proteins (LARPs or La ribonucleoproteins), with differing domain architecture, appear to function as RNA-binding proteins in eukaryotic cellular processes. Length = 77

>gnl|CDD|153398 cd08029, LA_like_fungal, La-motif domain of fungal proteins similar to the La autoantigen

 Score = 67.3 bits (165), Expect = 2e-14
 Identities = 32/79 (40%), Positives = 49/79 (62%), Gaps = 4/79 (5%)

Query: 23  ENQIIEQIEYYFSDINLARDKFLQGEI-KKDDGWVELTTMLKFARLAKMTTEAKVIVDAL 81
             +I +Q+E+YFSD NL  DKFL       ++GWV + T+  F R+ +      V V+AL
Sbjct: 1   PEEIRKQVEFYFSDSNLPTDKFLWTLTGGSNNGWVPIKTIASFKRMRRFQPLEAV-VEAL 59

Query: 82  KKSTSKLIEVNEDGTKIRR 100
           ++  S+L+EV+EDG  +RR
Sbjct: 60  RE--SELLEVSEDGENVRR 76

This domain is found in fungal proteins related to the La autoantigen. A variety of La-related proteins (LARPs or La ribonucleoproteins), with differing domain architecture, appear to function as RNA-binding proteins in eukaryotic cellular processes. Length = 76

>gnl|CDD|240737 cd12291, RRM1_La, RNA recognition motif 1 in La autoantigen (La or LARP3) and similar proteins

 Score = 64.5 bits (158), Expect = 2e-13
 Identities = 37/79 (46%), Positives = 50/79 (63%), Gaps = 12/79 (15%)

Query: 121 SLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKE 180
           ++YVK  P DATLDDI++FF+K      K+ NI MR   DK     KFKGS+FV F  +E
Sbjct: 1   TVYVKGFPKDATLDDIQEFFEK----FGKVNNIRMRRDLDK-----KFKGSVFVEFKTEE 51

Query: 181 NAEKFLNENKDKNLKFNEN 199
           +A+KFL +   + LK+ E 
Sbjct: 52  DAKKFLEK---EKLKYKEK 67

This subfamily corresponds to the RRM1 of La autoantigen, also termed Lupus La protein, or La ribonucleoprotein, or Sjoegren syndrome type B antigen (SS-B), a highly abundant nuclear phosphoprotein and well conserved in eukaryotes. It specifically binds the 3'-terminal UUU-OH motif of nascent RNA polymerase III transcripts and protects them from exonucleolytic degradation by 3' exonucleases. In addition, La can directly facilitate the translation and/or metabolism of many UUU-3' OH-lacking cellular and viral mRNAs, through binding internal RNA sequences within the untranslated regions of target mRNAs. La contains an N-terminal La motif (LAM), followed by two RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains). It also possesses a short basic motif (SBM) and a nuclear localization signal (NLS) at the C-terminus. . Length = 72

>gnl|CDD|153401 cd08032, LARP_7, La RNA-binding domain of La-related protein 7

 Score = 63.8 bits (155), Expect = 5e-13
 Identities = 32/83 (38%), Positives = 62/83 (74%), Gaps = 3/83 (3%)

Query: 19  VSKLENQIIEQIEYYFSDINLARDKFLQGEIKKD-DGWVELTTMLKFARLAKMTTEAKVI 77
           V +L   I +Q++++F D+NL +D+FL+ +I+K  DG+++++ ++ F ++ K+TT+ K+I
Sbjct: 2   VKQLLADIAKQVDFWFGDVNLHKDRFLREQIEKSRDGYIDISLLVSFNKMKKLTTDGKLI 61

Query: 78  VDALKKSTSKLIEVNEDGTKIRR 100
             ALK S+  ++E+N +GT+IRR
Sbjct: 62  ARALKNSS--VVELNLEGTRIRR 82

LARP7 is a component of the 7SK snRNP, a key factor in the regulation of RNA polymerase II transcription. 7SK functionality is dependent on the presence of LARP7, which is thought to stabilize the 7SK RNA by interacting with its 3' end. The release of 7SK RNA from P-TEFb/HEXIM/7SK complexes activates the cyclin-dependent kinase P-TEFb, which in turn phosphorylates the C-terminal domain of RNA pol II and mediates a transition into productive transcription elongation. Length = 82

>gnl|CDD|153399 cd08030, LA_like_plant, La-motif domain of plant proteins similar to the La autoantigen

 Score = 58.6 bits (142), Expect = 4e-11
 Identities = 32/86 (37%), Positives = 48/86 (55%), Gaps = 11/86 (12%)

Query: 26  IIEQIEYYFSDINLARDKFLQGEIKKD-DGWVELTTMLKFARLAKM-----TTEAKVIVD 79
           ++ Q+E+YFSD NL RD FL  E+++D DG V L  +  F+R+  +          V  D
Sbjct: 5   VLRQVEFYFSDSNLPRDDFLLEEVEEDPDGMVSLALICSFSRMRSLLGLGGGKPEDVPED 64

Query: 80  ALKK-----STSKLIEVNEDGTKIRR 100
            LK       TS L++V+EDG ++ R
Sbjct: 65  TLKAVAEALRTSTLLKVSEDGKRVGR 90

This domain is found in plant proteins related to the La autoantigen. A variety of La-related proteins (LARPs or La ribonucleoproteins), with differing domain architecture, appear to function as RNA-binding proteins in eukaryotic cellular processes. Length = 90

>gnl|CDD|240985 cd12541, RRM2_La, RNA recognition motif 2 in La autoantigen (La or LARP3) and similar proteins

 Score = 57.6 bits (140), Expect = 6e-11
 Identities = 25/78 (32%), Positives = 47/78 (60%), Gaps = 5/78 (6%)

Query: 275 GALLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVGEPTAFVRYKKENNAEAVLKA 334
           G +L  S + E  SRED++E  E+      E+ +++F  G+   +VR+K+EN A+  L+ 
Sbjct: 1   GCVLHFSGVGEQTSREDLKEAFEEFG----EVAWVDFARGQTEGYVRFKEENAAKEALEK 56

Query: 335 LG-SKEIVIKDVKVSIEV 351
           L  +K + IK  +V++++
Sbjct: 57  LKEAKNLKIKGSEVTVKL 74

This subgroup corresponds to the RRM2 of La autoantigen, also termed Lupus La protein, or La ribonucleoprotein, or Sjoegren syndrome type B antigen (SS-B), a highly abundant nuclear phosphoprotein and well conserved in eukaryotes. It specifically binds the 3'-terminal UUU-OH motif of nascent RNA polymerase III transcripts and protects them from exonucleolytic degradation by 3' exonucleases. In addition, La can directly facilitate the translation and/or metabolism of many UUU-3' OH-lacking cellular and viral mRNAs, through binding internal RNA sequences within the untranslated regions of target mRNAs. La contains an N-terminal La motif (LAM), followed by two RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains). In addition, it possesses a short basic motif (SBM) and a nuclear localization signal (NLS) at the C-terminus. . Length = 76

>gnl|CDD|220013 pfam08777, RRM_3, RNA binding motif

 Score = 57.4 bits (139), Expect = 2e-10
 Identities = 30/108 (27%), Positives = 58/108 (53%), Gaps = 8/108 (7%)

Query: 275 GALLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVGEPTAFVRYKKENNAEAVLKA 334
           G +LK S + +P SREDI+E   +      E+ +++F  G+   +VR+K    A+  L+ 
Sbjct: 1   GVILKFSGLNKPTSREDIKEAFSQHG----EVKYVDFLEGDKEGYVRFKTPEAAKKALEK 56

Query: 335 LGSKEIVIKDVKVSIEVVTGEEEQTVLDRMKIDIFKRRQKLMNEKKSG 382
               ++ IK+ +V++E++ GEEE+    +    I + +Q  +N  +  
Sbjct: 57  ATEAKLKIKEAEVTLELLEGEEEKEYWKK----IIEDQQAKLNNPREK 100

This domain is found in protein La which functions as an RNA chaperone during RNA polymerase III transcription, and can also stimulate translation initiation. It contains a five stranded beta sheet which forms an atypical RNA recognition motif. Length = 102

>gnl|CDD|153403 cd08034, LARP_1_2, La RNA-binding domain proteins similar to La-related proteins 1 and 2

 Score = 53.6 bits (129), Expect = 2e-09
 Identities = 27/75 (36%), Positives = 44/75 (58%), Gaps = 5/75 (6%)

Query: 26  IIEQIEYYFSDINLARDKFLQGEIKKDDGWVELTTMLKFARLAKMTTEAKVIVDALKKST 85
           I +QIEYYFS  NL +D FL+ ++   +G++ +  +  F R+  +TT+  +I++ALK ST
Sbjct: 4   IKKQIEYYFSVDNLEKDFFLRRKM-DPEGYLPIALIASFHRVQALTTDVNLILEALKDST 62

Query: 86  SKLIEVNEDGTKIRR 100
                V     K+R 
Sbjct: 63  ----VVELVDEKVRC 73

This domain is found in proteins similar to vertebrate La-related proteins 1 and 2 (LARP1, LARP2). A variety of La-related proteins (LARPs or La ribonucleoproteins), with differing domain architecture, appear to function as RNA-binding proteins in eukaryotic cellular processes. Length = 73

>gnl|CDD|153400 cd08031, LARP_4_5_like, La RNA-binding domain of proteins similar to La-related proteins 4 and 5

 Score = 52.4 bits (126), Expect = 4e-09
 Identities = 28/76 (36%), Positives = 48/76 (63%), Gaps = 3/76 (3%)

Query: 24 NQIIEQIEYYFSDINLARDKFLQGEIKKDDGWVELTTMLKFARLAKMTTEAKVIVDALKK 83
            +  Q+EYYFS  NLA D +L  ++  D  +V + T+  F ++ K+TT+  +IV+AL++
Sbjct: 2  ELLKRQLEYYFSRENLANDAYLLSQMDSDQ-YVPIWTIANFNKIKKLTTDIDLIVEALRE 60

Query: 84 STSKLIEVNEDGTKIR 99
          S    ++V+E G K+R
Sbjct: 61 SP--NVQVDEKGEKVR 74

This domain is found in proteins similar to La-related proteins 4 and 5 (LARP4, LARP5). A variety of La-related proteins (LARPs or La ribonucleoproteins), with differing domain architecture, appear to function as RNA-binding proteins in eukaryotic cellular processes. Length = 75

>gnl|CDD|153406 cd08037, LARP_1, La RNA-binding domain of La-related protein 1

 Score = 46.0 bits (109), Expect = 8e-07
 Identities = 32/78 (41%), Positives = 51/78 (65%), Gaps = 5/78 (6%)

Query: 23  ENQIIEQIEYYFSDINLARDKFLQGEIKKDDGWVELTTMLKFARLAKMTTEAKVIVDALK 82
           ++ I  QIEYYFS  NL RD FL+ ++  +DG++ +T +  F R+  +TT+  +I+ ALK
Sbjct: 1   KDYIKRQIEYYFSVDNLERDFFLRRKM-DEDGFLPVTLIASFHRVQALTTDISLIIKALK 59

Query: 83  KSTSKLIEVNEDGTKIRR 100
              SK++E+ +   KIRR
Sbjct: 60  D--SKVVEIIDM--KIRR 73

This domain is found in vertebrate La-related protein 1 (LARP1). A variety of La-related proteins (LARPs or La ribonucleoproteins), with differing domain architecture, appear to function as RNA-binding proteins in eukaryotic cellular processes. Length = 73

>gnl|CDD|153407 cd08038, LARP_2, La RNA-binding domain of La-related protein 2

 Score = 45.3 bits (107), Expect = 1e-06
 Identities = 31/75 (41%), Positives = 44/75 (58%), Gaps = 5/75 (6%)

Query: 26  IIEQIEYYFSDINLARDKFLQGEIKKDDGWVELTTMLKFARLAKMTTEAKVIVDALKKST 85
           I  QIEYYFS  NL RD FL+ ++    G++ ++ +  F R+  +TT   +I++ALK ST
Sbjct: 4   IKRQIEYYFSTENLERDFFLRRKMDL-QGFLPISLIAGFYRVQALTTNVDLILEALKDST 62

Query: 86  SKLIEVNEDGTKIRR 100
               EV     KIRR
Sbjct: 63  ----EVEIVDQKIRR 73

This domain is found in vertebrate La-related protein 2 (LARP2). A variety of La-related proteins (LARPs or La ribonucleoproteins), with differing domain architecture, appear to function as RNA-binding proteins in eukaryotic cellular processes. Length = 73

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

 Score = 44.1 bits (105), Expect = 4e-06
 Identities = 21/75 (28%), Positives = 39/75 (52%), Gaps = 8/75 (10%)

Query: 121 SLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKE 180
           +L+V  +P D T +++++ F K      K+ ++ +   ++      K KG  FV F+++E
Sbjct: 1   TLFVGNLPPDTTEEELRELFSKFG----KVESVRLVRDKET----GKSKGFAFVEFESEE 52

Query: 181 NAEKFLNENKDKNLK 195
           +AEK L     K L 
Sbjct: 53  DAEKALEALNGKELD 67

Length = 73

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

 Score = 43.7 bits (104), Expect = 5e-06
 Identities = 20/74 (27%), Positives = 35/74 (47%), Gaps = 10/74 (13%)

Query: 122 LYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKEN 181
           LYV+ +P   T +D+++FF    S   K+  + +        N+ + +G  FV F + E+
Sbjct: 1   LYVRNLPPSVTEEDLREFF----SPYGKVEGVRLVR------NKDRPRGFAFVEFASPED 50

Query: 182 AEKFLNENKDKNLK 195
           AE  L +     L 
Sbjct: 51  AEAALKKLNGLVLD 64

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

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

 Score = 42.2 bits (100), Expect = 2e-05
 Identities = 24/68 (35%), Positives = 36/68 (52%), Gaps = 11/68 (16%)

Query: 122 LYVKYIPVDATLDDIKDFFKKNTSEDVKITNI-IMRNYQDKLANQKKFKGSIFVTFDNKE 180
           L+V  +P D T +D+KD F K       I +I I+R+         + KG  FV F+++E
Sbjct: 1   LFVGNLPPDTTEEDLKDLFSKFG----PIESIRIVRD------ETGRSKGFAFVEFEDEE 50

Query: 181 NAEKFLNE 188
           +AEK L  
Sbjct: 51  DAEKALEA 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|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 = 41.4 bits (98), Expect = 4e-05
 Identities = 18/71 (25%), Positives = 34/71 (47%), Gaps = 8/71 (11%)

Query: 122 LYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKEN 181
           + ++ +P  AT +DI+DFF      D+    I +    D      +  G  +V F + E+
Sbjct: 2   VRLRGLPFSATEEDIRDFFS---GLDIPPDGIHIVYDDDG-----RPTGEAYVEFASPED 53

Query: 182 AEKFLNENKDK 192
           A + L ++ +K
Sbjct: 54  ARRALRKHNNK 64

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|227520 COG5193, LHP1, La protein, small RNA-binding pol III transcript stabilizing protein and related La-motif-containing proteins involved in translation [Posttranslational modification, protein turnover, chaperones / Translation, ribosomal structure and biogenesis]

 Score = 45.0 bits (106), Expect = 5e-05
 Identities = 45/200 (22%), Positives = 89/200 (44%), Gaps = 18/200 (9%)

Query: 3   ETDSSATNGNSGAEAEVSKLENQIIEQIEYYFS-----DINLARDKFLQGEIKKD---DG 54
            T+SS +       ++++      ++Q+E+YFS     D N  +DKFL+    K+   D 
Sbjct: 52  LTESSKSKKEDKNPSKLTSNTKWTLKQVEFYFSGSKDTDSNFPKDKFLKTTAPKNKKRDK 111

Query: 55  WVELTTMLKFARLAKMTTEAKVIVDALKKS-TSKLIEVNEDGTKIRRNPEKELPTFDIDF 113
           WV + T+  F R+    +    +  AL+KS  ++++EV+  G+   R   ++L + +   
Sbjct: 112 WVPIKTIATFNRMKNSGSPVSAVSGALRKSLDARVLEVSSSGSNKNRT--EKLISNNNK- 168

Query: 114 VKDLIAQSLYVKYIPVDATLDDIKDFFKKNTSEDVK----ITNIIMRNYQDKLANQKKFK 169
               + + +Y      +   +  +   +++               +RN +D L   K F+
Sbjct: 169 STSQMQRDVYQNGFGKEDVNNASRPEQQEDLEIQFPPHYHAPPSQIRNRRDWL--NKNFR 226

Query: 170 GSIFVTFDNKENAEKFLNEN 189
           GS+FV F     A++F N  
Sbjct: 227 GSVFVEFKYFREAQRFNNGF 246

Length = 438

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

 Score = 40.4 bits (95), Expect = 8e-05
 Identities = 23/74 (31%), Positives = 37/74 (50%), Gaps = 9/74 (12%)

Query: 122 LYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKEN 181
           L+V  +P D T +D+++ F K      +I ++ +   +D      K KG  FV F++ E+
Sbjct: 1   LFVGNLPPDTTEEDLRELFSKFG----EIESVRIVRDKDG-----KSKGFAFVEFESPED 51

Query: 182 AEKFLNENKDKNLK 195
           AEK L     K L 
Sbjct: 52  AEKALEALNGKELD 65

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|240738 cd12292, RRM2_La_like, RNA recognition motif 2 in La autoantigen (La or SS-B or LARP3), La-related protein 7 (LARP7 or PIP7S) and similar proteins

 Score = 40.0 bits (94), Expect = 1e-04
 Identities = 20/79 (25%), Positives = 39/79 (49%), Gaps = 4/79 (5%)

Query: 275 GALLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVGEPTAFVRYKKENNAEAVLKA 334
           G +LKI+ I   V+REDI+ V  +      E+ +++F  G  T ++R+K    A+   +A
Sbjct: 1   GVILKITSIGPGVTREDIKAVFAQFG----EVKYVDFTEGADTGYIRFKTPEAAQKAREA 56

Query: 335 LGSKEIVIKDVKVSIEVVT 353
              K   +   ++ +  + 
Sbjct: 57  FVEKGEGLLGKEIKLSALE 75

This subfamily corresponds to the RRM2 of La and LARP7. La is a highly abundant nuclear phosphoprotein and well conserved in eukaryotes. It specifically binds the 3'-terminal UUU-OH motif of nascent RNA polymerase III transcripts and protects them from exonucleolytic degradation by 3' exonucleases. In addition, La can directly facilitate the translation and/or metabolism of many UUU-3' OH-lacking cellular and viral mRNAs, through binding internal RNA sequences within the untranslated regions of target mRNAs. LARP7 is an oligopyrimidine-binding protein that binds to the highly conserved 3'-terminal U-rich stretch (3' -UUU-OH) of 7SK RNA. It is a stable component of the 7SK small nuclear ribonucleoprotein (7SK snRNP), intimately associates with all the nuclear 7SK and is required for 7SK stability. LARP7 also acts as a negative transcriptional regulator of cellular and viral polymerase II genes, acting by means of the 7SK snRNP system. LARP7 plays an essential role in the inhibition of positive transcription elongation factor b (P-TEFb)-dependent transcription, which has been linked to the global control of cell growth and tumorigenesis. Both La and LARP7 contain an N-terminal La motif (LAM), followed by two RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains). . Length = 75

>gnl|CDD|153405 cd08036, LARP_5, La RNA-binding domain of La-related protein 5

 Score = 38.8 bits (90), Expect = 3e-04
 Identities = 22/75 (29%), Positives = 43/75 (57%), Gaps = 3/75 (4%)

Query: 25 QIIEQIEYYFSDINLARDKFLQGEIKKDDGWVELTTMLKFARLAKMTTEAKVIVDALKKS 84
           + + +E+  S  NLA D +L  ++  D  +V + T+     + K++T+  +IVD L+  
Sbjct: 3  LLKKTLEFCLSRENLASDMYLISQMDSDQ-YVPIMTVANLDHIKKLSTDVDLIVDVLR-- 59

Query: 85 TSKLIEVNEDGTKIR 99
          +  L++V+E G K+R
Sbjct: 60 SLPLVQVDEKGEKVR 74

This domain is found in vertebrate La-related protein 5 (LARP5). A variety of La-related proteins (LARPs or La ribonucleoproteins), with differing domain architecture, appear to function as RNA-binding proteins in eukaryotic cellular processes. Length = 75

>gnl|CDD|153404 cd08035, LARP_4, La RNA-binding domain of La-related protein 4

 Score = 38.5 bits (89), Expect = 3e-04
 Identities = 23/72 (31%), Positives = 46/72 (63%), Gaps = 3/72 (4%)

Query: 28 EQIEYYFSDINLARDKFLQGEIKKDDGWVELTTMLKFARLAKMTTEAKVIVDALKKSTSK 87
          +Q+E+ FS  NL++D +L  ++  D  +V + T+     + K+TT+  +I+D L+  +S 
Sbjct: 6  KQLEFCFSRENLSKDLYLISQMDSDQ-FVPIWTVANMEGIKKLTTDMDLILDVLR--SSP 62

Query: 88 LIEVNEDGTKIR 99
          +++V+E G K+R
Sbjct: 63 MVQVDETGEKVR 74

This domain is found in vertebrate La-related protein 4 (LARP4), also known as c-MPL binding protein. La-type domains often co-occur with RNA-recognition motifs (RRMs). A variety of La-related proteins (LARPs or La ribonucleoproteins), with differing domain architecture, appear to function as RNA-binding proteins in eukaryotic cellular processes. Length = 75

>gnl|CDD|240877 cd12431, RRM_ALKBH8, RNA recognition motif in alkylated DNA repair protein alkB homolog 8 (ALKBH8) and similar proteins

 Score = 35.7 bits (83), Expect = 0.004
 Identities = 20/63 (31%), Positives = 29/63 (46%), Gaps = 4/63 (6%)

Query: 287 VSREDIREVLEKVQTDDQEIVFIEFNVGEPTAFVRYKKENNAEAVLKALGSKEIVIKDVK 346
           VSRE++  V EK  T +  +V      G+P  FV Y    +A A   AL  KE+ +    
Sbjct: 15  VSREELLRVFEKYGTVED-LVMPP---GKPYCFVSYSSIEDAAAAYDALNGKELELPQQN 70

Query: 347 VSI 349
             +
Sbjct: 71  KPL 73

This subfamily corresponds to the RRM of ALKBH8, also termed alpha-ketoglutarate-dependent dioxygenase ABH8, or S-adenosyl-L-methionine-dependent tRNA methyltransferase ABH8, expressed in various types of human cancers. It is essential in urothelial carcinoma cell survival mediated by NOX-1-dependent ROS signals. ALKBH8 has also been identified as a tRNA methyltransferase that catalyzes methylation of tRNA to yield 5-methylcarboxymethyl uridine (mcm5U) at the wobble position of the anticodon loop. Thus, ALKBH8 plays a crucial role in the DNA damage survival pathway through a distinct mechanism involving the regulation of tRNA modification. ALKBH8 localizes to the cytoplasm. It contains the characteristic AlkB domain that is composed of a tRNA methyltransferase motif, a motif homologous to the bacterial AlkB DNA/RNA repair enzyme, and a dioxygenase catalytic core domain encompassing cofactor-binding sites for iron and 2-oxoglutarate. In addition, unlike other AlkB homologs, ALKBH8 contains an N-terminal RNA recognition motif (RRM), also termed RBD (RNA binding domain) or RNP (ribonucleoprotein domain), and a C-terminal S-adenosylmethionine (SAM)-dependent methyltransferase (MT) domain. . Length = 80

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	410
KOG4213|consensus	205		100.0
KOG1855|consensus	484		99.98
cd08032	82	LARP_7 La RNA-binding domain of La-related protein	99.96
cd08028	82	LARP_3 La RNA-binding domain of La-related protein	99.96
cd08033	77	LARP_6 La RNA-binding domain of La-related protein	99.96
smart00715	80	LA Domain in the RNA-binding Lupus La protein; unk	99.96
cd08035	75	LARP_4 La RNA-binding domain of La-related protein	99.96
cd08036	75	LARP_5 La RNA-binding domain of La-related protein	99.95
cd08029	76	LA_like_fungal La-motif domain of fungal proteins	99.95
TIGR01659	346	sex-lethal sex-lethal family splicing factor. This	99.95
cd08031	75	LARP_4_5_like La RNA-binding domain of proteins si	99.95
cd08030	90	LA_like_plant La-motif domain of plant proteins si	99.95
cd08037	73	LARP_1 La RNA-binding domain of La-related protein	99.94
cd08038	73	LARP_2 La RNA-binding domain of La-related protein	99.94
cd08034	73	LARP_1_2 La RNA-binding domain proteins similar to	99.94
cd07323	75	LAM LA motif RNA-binding domain. This domain is fo	99.93
KOG0117|consensus	506		99.91
TIGR01648	578	hnRNP-R-Q heterogeneous nuclear ribonucleoprotein	99.9
PF05383	61	La: La domain; InterPro: IPR006630 Human Ro ribonu	99.89
KOG2591|consensus	684		99.89
TIGR01645	612	half-pint poly-U binding splicing factor, half-pin	99.89
TIGR01622	457	SF-CC1 splicing factor, CC1-like family. A homolog	99.88
TIGR01661	352	ELAV_HUD_SF ELAV/HuD family splicing factor. These	99.87
TIGR01661	352	ELAV_HUD_SF ELAV/HuD family splicing factor. These	99.87
KOG0148|consensus	321		99.87
TIGR01628	562	PABP-1234 polyadenylate binding protein, human typ	99.86
PF08777	105	RRM_3: RNA binding motif; InterPro: IPR014886 This	99.86
KOG0127|consensus	678		99.85
TIGR01628	562	PABP-1234 polyadenylate binding protein, human typ	99.85
TIGR01642	509	U2AF_lg U2 snRNP auxilliary factor, large subunit,	99.81
TIGR01649	481	hnRNP-L_PTB hnRNP-L/PTB/hephaestus splicing factor	99.8
TIGR01642	509	U2AF_lg U2 snRNP auxilliary factor, large subunit,	99.79
TIGR01649	481	hnRNP-L_PTB hnRNP-L/PTB/hephaestus splicing factor	99.78
KOG0145|consensus	360		99.78
KOG0131|consensus	203		99.76
KOG0144|consensus	510		99.75
KOG0127|consensus	678		99.75
TIGR01622	457	SF-CC1 splicing factor, CC1-like family. A homolog	99.73
KOG0145|consensus	360		99.69
KOG0124|consensus	544		99.69
KOG0123|consensus	369		99.66
COG5193	438	LHP1 La protein, small RNA-binding pol III transcr	99.64
KOG0105|consensus	241		99.63
KOG0110|consensus	725		99.58
KOG0109|consensus	346		99.57
KOG0147|consensus	549		99.55
TIGR01645	612	half-pint poly-U binding splicing factor, half-pin	99.53
PLN03134	144	glycine-rich RNA-binding protein 4; Provisional	99.51
KOG4211|consensus	510		99.5
KOG4205|consensus	311		99.49
KOG0144|consensus	510		99.48
KOG0146|consensus	371		99.48
KOG4206|consensus	221		99.47
KOG0123|consensus	369		99.46
PLN03134	144	glycine-rich RNA-binding protein 4; Provisional	99.41
KOG0110|consensus	725		99.38
PF00076	70	RRM_1: RNA recognition motif. (a.k.a. RRM, RBD, or	99.35
KOG0106|consensus	216		99.34
KOG0147|consensus	549		99.32
KOG1548|consensus	382		99.29
PF14259	70	RRM_6: RNA recognition motif (a.k.a. RRM, RBD, or	99.27
PLN03120	260	nucleic acid binding protein; Provisional	99.21
TIGR01659	346	sex-lethal sex-lethal family splicing factor. This	99.2
PF00076	70	RRM_1: RNA recognition motif. (a.k.a. RRM, RBD, or	99.19
KOG0121|consensus	153		99.17
KOG0122|consensus	270		99.16
COG0724	306	RNA-binding proteins (RRM domain) [General functio	99.13
KOG4212|consensus	608		99.12
KOG1457|consensus	284		99.12
KOG0148|consensus	321		99.1
KOG0107|consensus	195		99.09
smart00362	72	RRM_2 RNA recognition motif.	99.07
KOG0149|consensus	247		99.06
KOG0105|consensus	241		99.05
PLN03213	759	repressor of silencing 3; Provisional	99.04
PLN03121	243	nucleic acid binding protein; Provisional	99.03
PF14259	70	RRM_6: RNA recognition motif (a.k.a. RRM, RBD, or	99.0
KOG0113|consensus	335		98.98
KOG4207|consensus	256		98.98
cd00590	74	RRM RRM (RNA recognition motif), also known as RBD	98.98
TIGR01648	578	hnRNP-R-Q heterogeneous nuclear ribonucleoprotein	98.98
KOG0107|consensus	195		98.96
smart00362	72	RRM_2 RNA recognition motif.	98.96
smart00360	71	RRM RNA recognition motif.	98.95
KOG4207|consensus	256		98.94
PLN03120	260	nucleic acid binding protein; Provisional	98.91
KOG0114|consensus	124		98.9
KOG0126|consensus	219		98.89
PLN03121	243	nucleic acid binding protein; Provisional	98.88
PLN03213	759	repressor of silencing 3; Provisional	98.87
KOG0125|consensus	376		98.86
KOG1365|consensus	508		98.84
KOG0108|consensus	435		98.82
smart00360	71	RRM RNA recognition motif.	98.77
KOG0130|consensus	170		98.75
cd00590	74	RRM RRM (RNA recognition motif), also known as RBD	98.74
KOG0111|consensus	298		98.74
KOG1190|consensus	492		98.7
COG5193	438	LHP1 La protein, small RNA-binding pol III transcr	98.69
KOG0121|consensus	153		98.67
KOG0125|consensus	376		98.64
PF13893	56	RRM_5: RNA recognition motif. (a.k.a. RRM, RBD, or	98.64
KOG0114|consensus	124		98.64
KOG4212|consensus	608		98.61
KOG0116|consensus	419		98.61
smart00361	70	RRM_1 RNA recognition motif.	98.6
KOG0113|consensus	335		98.6
KOG0122|consensus	270		98.59
KOG1190|consensus	492		98.58
KOG0124|consensus	544		98.55
KOG2590|consensus	448		98.54
KOG0120|consensus	500		98.52
PF13893	56	RRM_5: RNA recognition motif. (a.k.a. RRM, RBD, or	98.49
COG0724	306	RNA-binding proteins (RRM domain) [General functio	98.45
KOG0149|consensus	247		98.39
KOG0109|consensus	346		98.37
KOG0130|consensus	170		98.36
KOG4211|consensus	510		98.35
KOG0131|consensus	203		98.33
KOG0128|consensus	881		98.3
KOG0132|consensus	894		98.28
KOG0146|consensus	371		98.24
KOG0112|consensus	975		98.24
KOG4454|consensus	267		98.23
KOG4208|consensus	214		98.23
KOG0153|consensus	377		98.22
KOG0129|consensus	520		98.2
KOG0117|consensus	506		98.18
smart00361	70	RRM_1 RNA recognition motif.	98.12
KOG0153|consensus	377		98.09
KOG1456|consensus	494		98.07
KOG4205|consensus	311		98.01
KOG1456|consensus	494		97.97
KOG0116|consensus	419		97.96
KOG0533|consensus	243		97.96
KOG0132|consensus	894		97.95
KOG4209|consensus	231		97.95
KOG0111|consensus	298		97.94
KOG0126|consensus	219		97.94
KOG1365|consensus	508		97.91
KOG0533|consensus	243		97.88
KOG0415|consensus	479		97.85
KOG0108|consensus	435		97.81
KOG0415|consensus	479		97.79
PF04059	97	RRM_2: RNA recognition motif 2; InterPro: IPR00720	97.77
KOG4206|consensus	221		97.66
KOG4210|consensus	285		97.65
KOG0120|consensus	500		97.64
KOG4660|consensus	549		97.61
KOG4661|consensus	940		97.52
KOG4208|consensus	214		97.47
KOG4661|consensus	940		97.44
PF08777	105	RRM_3: RNA binding motif; InterPro: IPR014886 This	97.43
KOG0226|consensus	290		97.37
KOG4307|consensus	944		97.35
PF14605	53	Nup35_RRM_2: Nup53/35/40-type RNA recognition moti	97.34
KOG1457|consensus	284		97.28
KOG2193|consensus	584		97.11
PF14605	53	Nup35_RRM_2: Nup53/35/40-type RNA recognition moti	97.05
PF11608	90	Limkain-b1: Limkain b1; InterPro: IPR024582 This e	97.01
KOG0106|consensus	216		96.88
PF11608	90	Limkain-b1: Limkain b1; InterPro: IPR024582 This e	96.83
KOG4660|consensus	549		96.73
KOG0151|consensus	877		96.65
KOG4454|consensus	267		96.61
KOG0151|consensus	877		96.54
KOG1548|consensus	382		96.52
KOG4210|consensus	285		96.28
PF10309	62	DUF2414: Protein of unknown function (DUF2414); In	96.26
KOG1995|consensus	351		96.22
KOG4307|consensus	944		96.06
COG5175	480	MOT2 Transcriptional repressor [Transcription]	96.02
KOG2314|consensus	698		95.99
KOG3152|consensus	278		95.97
KOG0226|consensus	290		95.95
KOG4676|consensus	479		95.73
KOG1995|consensus	351		95.62
PF05172	100	Nup35_RRM: Nup53/35/40-type RNA recognition motif;	95.56
COG5175	480	MOT2 Transcriptional repressor [Transcription]	95.28
KOG4209|consensus	231		95.19
PF08952	146	DUF1866: Domain of unknown function (DUF1866) ; In	95.18
PF04059	97	RRM_2: RNA recognition motif 2; InterPro: IPR00720	95.18
PF08675	87	RNA_bind: RNA binding domain; InterPro: IPR014789	95.07
KOG0129|consensus	520		95.06
PF05172	100	Nup35_RRM: Nup53/35/40-type RNA recognition motif;	95.02
KOG3152|consensus	278		94.48
KOG0115|consensus	275		93.54
KOG1855|consensus	484		93.49
KOG4676|consensus	479		93.15
KOG0128|consensus	881		93.08
PF15023	166	DUF4523: Protein of unknown function (DUF4523)	93.07
PF09421	989	FRQ: Frequency clock protein; InterPro: IPR018554	92.76
KOG2591|consensus	684		92.66
KOG4849|consensus	498		92.24
PF10309	62	DUF2414: Protein of unknown function (DUF2414); In	92.09
KOG3293|consensus	134		91.53
KOG2416|consensus	718		91.04
KOG4849|consensus	498		90.6
KOG2202|consensus	260		90.46
PF05918	556	API5: Apoptosis inhibitory protein 5 (API5); Inter	90.12
KOG2416|consensus	718		89.17
KOG2314|consensus	698		89.13
PF07576	110	BRAP2: BRCA1-associated protein 2; InterPro: IPR01	89.12
PF08675	87	RNA_bind: RNA binding domain; InterPro: IPR014789	88.65
KOG0115|consensus	275		88.44
PF03467	176	Smg4_UPF3: Smg-4/UPF3 family; InterPro: IPR005120	88.44
KOG0804|consensus	493		88.28
KOG2202|consensus	260		87.81
KOG2068|consensus	327		87.28
PF15023	166	DUF4523: Protein of unknown function (DUF4523)	87.0
PF03467	176	Smg4_UPF3: Smg-4/UPF3 family; InterPro: IPR005120	86.88
PF05918	556	API5: Apoptosis inhibitory protein 5 (API5); Inter	84.76
KOG1996|consensus	378		83.91
PF01885	186	PTS_2-RNA: RNA 2'-phosphotransferase, Tpt1 / KptA	82.67
KOG3973|consensus	465		82.11
KOG4285|consensus	350		80.04

>KOG4213|consensus

Probab=100.00  E-value=3.2e-33  Score=241.25  Aligned_cols=168  Identities=44%  Similarity=0.683  Sum_probs=151.4

Q ss_pred             CccchhHHHHHHHHHHHHHhCCCCCCCChhHHhhh-ccCCCeEehHHHHhhHHHHhccCcHHHHHHHHhhcCCceEEEec
Q psy5142          15 AEAEVSKLENQIIEQIEYYFSDINLARDKFLQGEI-KKDDGWVELTTMLKFARLAKMTTEAKVIVDALKKSTSKLIEVNE   93 (410)
Q Consensus        15 ~~~~~~~~~~~i~~QlEfYfsd~Nl~~D~fl~~~~-~~~~g~v~l~~l~~F~r~k~l~~d~~~i~~Al~~~~S~~levse   93 (410)
                      +...++++.++|+.||||||+|.||++|+||+++| ..++|||||.++++|||+..|++|..+|+.||+.|.+.++++|+
T Consensus         6 ~~~~~a~lE~kii~qleyy~Gd~nl~rdkfl~eqi~k~~~gwvpi~i~i~FnRla~lttD~~~Iv~al~ksk~~l~eise   85 (205)
T KOG4213|consen    6 DAVKMAALEAKIIHQLEYYFGDLNLPRDKFLREQIHKLDDGWVPIEIMIKFNRLASLTTDFNVIVEALSKSKAELMEISE   85 (205)
T ss_pred             cccchhHHHHhhhhhhhhhhcccCchHHHHHHHHhhhhccCCccchhhhhhhhhhhccccHHHHHHHHhhCHHhhhhhhh
Confidence            33448999999999999999999999999999999 55789999999999999999999999999999999999999999


Q ss_pred             CccceecCCCCCCCCCchhhhhhccceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEE
Q psy5142          94 DGTKIRRNPEKELPTFDIDFVKDLIAQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIF  173 (410)
Q Consensus        94 d~~~vrR~~~~p~p~~~~~~~~~~~~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~af  173 (410)
                      |++++||.++.|+|+.+++++.....|++|.+  |.+...++|..|-+      |.+.+|.|++...+.   ..++|..|
T Consensus        86 dk~k~rr~~skplpEvt~e~~~~~~~r~v~~K--~td~ql~~l~qw~~------~k~~nv~mr~~~~k~---~~fkGsvk  154 (205)
T KOG4213|consen   86 DKTKIRRSPSKPLPEVTDEYKEGIKERTVYKK--ITDDQLDDLNQWAS------GKGHNVKMRRHGNKA---HPFKGSVK  154 (205)
T ss_pred             chhhhhcCcCCCCccccHHHHHHHHHhhhhcc--CCHHHHHHHHHHhc------ccceEeeccccCCCC---CCCCCceE
Confidence            99999999999999999999999999999999  66667777777665      688899999887663   36999999


Q ss_pred             EEecCHHHHHHHHHhcCCCCccc
Q psy5142         174 VTFDNKENAEKFLNENKDKNLKF  196 (410)
Q Consensus       174 VeF~~~e~A~~Al~~~~g~~~~~  196 (410)
                      |+|.+.++|..+++...   ..+
T Consensus       155 v~f~tk~qa~a~~~~~e---~~~  174 (205)
T KOG4213|consen  155 VTFQTKEQAFANDDTHE---EKG  174 (205)
T ss_pred             EEeecHHHHHhhhhhhh---hhc
Confidence            99999999999888766   455

>KOG1855|consensus

Probab=99.98  E-value=1.3e-32  Score=265.58  Aligned_cols=163  Identities=28%  Similarity=0.503  Sum_probs=146.5

Q ss_pred             cchhHHHHHHHHHHHHHhCCCCCCCChhHHhhhccC-CCeEehHHHHhhHHHHhccCcHHHHHHHHhhcCCceEEEecCc
Q psy5142          17 AEVSKLENQIIEQIEYYFSDINLARDKFLQGEIKKD-DGWVELTTMLKFARLAKMTTEAKVIVDALKKSTSKLIEVNEDG   95 (410)
Q Consensus        17 ~~~~~~~~~i~~QlEfYfsd~Nl~~D~fl~~~~~~~-~g~v~l~~l~~F~r~k~l~~d~~~i~~Al~~~~S~~levsed~   95 (410)
                      ..-+++.++|++||||||||.||.+|.||+++|.+| +|||||++|++|+|||+||.|+.+|+.||+  .|..|+||+|+
T Consensus       135 ~lsedl~~kIv~QVEyyFSDenL~~d~fLlkhvrrnkeGyVpv~~vaSFKKvK~LTrd~~~va~ALr--~S~kL~vseDg  212 (484)
T KOG1855|consen  135 ILSEDLAAKIVDQVEYYFSDENLLKDAFLLKHVRRNKEGYVPVKLVASFKKVKALTRDWKLVADALR--KSSKLEVSEDG  212 (484)
T ss_pred             cccHHHHHHHHHHhheeeccccccchHHHHHHHhcCCCCceeeehhhhHHHHHHHhhhhHHHHHHHh--hcceEEEccCC
Confidence            346789999999999999999999999999999998 699999999999999999999999999999  88999999999


Q ss_pred             cceecCCCCCCCCCchhhhhhccceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEccc---Ccc------ccccc
Q psy5142          96 TKIRRNPEKELPTFDIDFVKDLIAQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNY---QDK------LANQK  166 (410)
Q Consensus        96 ~~vrR~~~~p~p~~~~~~~~~~~~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~---~~~------~~~~~  166 (410)
                      ++|||.  .|+|++++   .+...|||.+.|||.+-..+.|.++|+.+    |.|.+|+|.+.   +..      ++.+.
T Consensus       213 kKVrRi--sPlp~~~~---eel~srtivaenLP~Dh~~enl~kiFg~~----G~IksIRIckPgaip~d~r~~~~~~~~~  283 (484)
T KOG1855|consen  213 KKVRRI--SPLPEFDE---EELPSRTIVAENLPLDHSYENLSKIFGTV----GSIKSIRICKPGAIPEDVRGFPKKYFEL  283 (484)
T ss_pred             ceeeec--CCCCCccc---cccccceEEEecCCcchHHHHHHHHhhcc----cceeeeeecCCCCCCcccccCCccchhh
Confidence            999999  58998865   35889999999999998889999999999    99999999876   211      11223


Q ss_pred             ccccEEEEEecCHHHHHHHHHhcC
Q psy5142         167 KFKGSIFVTFDNKENAEKFLNENK  190 (410)
Q Consensus       167 ~~kG~afVeF~~~e~A~~Al~~~~  190 (410)
                      ..+-+|+|+|+..+.|.+|.+.++
T Consensus       284 ~tk~~AlvEye~~~~A~KA~e~~~  307 (484)
T KOG1855|consen  284 QTKECALVEYEEVEAARKARELLN  307 (484)
T ss_pred             hhhhhhhhhhhhhHHHHHHHHhhc
Confidence            347899999999999999999986

>cd08032 LARP_7 La RNA-binding domain of La-related protein 7

Probab=99.96  E-value=2.5e-30  Score=200.60  Aligned_cols=79  Identities=39%  Similarity=0.821  Sum_probs=76.0

Q ss_pred             hHHHHHHHHHHHHHhCCCCCCCChhHHhhhcc-CCCeEehHHHHhhHHHHhccCcHHHHHHHHhhcCCceEEEecCccce
Q psy5142          20 SKLENQIIEQIEYYFSDINLARDKFLQGEIKK-DDGWVELTTMLKFARLAKMTTEAKVIVDALKKSTSKLIEVNEDGTKI   98 (410)
Q Consensus        20 ~~~~~~i~~QlEfYfsd~Nl~~D~fl~~~~~~-~~g~v~l~~l~~F~r~k~l~~d~~~i~~Al~~~~S~~levsed~~~v   98 (410)
                      .+++++|++||||||||+||++|+||+++|.+ .+|||||++|++|+|||+|+.|.+.|++||+  .|+.|||++|+++|
T Consensus         3 ~~l~~~I~~QvEfYFSd~NL~~D~fL~~~~~~~~dG~Vpl~~i~~F~rmk~lt~d~~~i~~Al~--~S~~lev~ed~~~V   80 (82)
T cd08032           3 KQLLADIAKQVDFWFGDVNLHKDRFLREQIEKSRDGYIDISLLVSFNKMKKLTTDGKLIARALK--NSSVVELNLEGTRI   80 (82)
T ss_pred             HHHHHHHHHHHHhhcchhhcccCHHHHHHhcCCCCCCEeHHHHhcchHHHHHcCCHHHHHHHHh--cCCEEEEcCCCCcc
Confidence            57899999999999999999999999999997 4799999999999999999999999999999  88999999999999


Q ss_pred             ec
Q psy5142          99 RR  100 (410)
Q Consensus        99 rR  100 (410)
                      ||
T Consensus        81 RR   82 (82)
T cd08032          81 RR   82 (82)
T ss_pred             CC
Confidence            98

LARP7 is a component of the 7SK snRNP, a key factor in the regulation of RNA polymerase II transcription. 7SK functionality is dependent on the presence of LARP7, which is thought to stabilize the 7SK RNA by interacting with its 3' end. The release of 7SK RNA from P-TEFb/HEXIM/7SK complexes activates the cyclin-dependent kinase P-TEFb, which in turn phosphorylates the C-terminal domain of RNA pol II and mediates a transition into productive transcription elongation.

>cd08028 LARP_3 La RNA-binding domain of La-related protein 3

Probab=99.96  E-value=3e-30  Score=200.61  Aligned_cols=82  Identities=61%  Similarity=0.980  Sum_probs=77.0

Q ss_pred             hhHHHHHHHHHHHHHhCCCCCCCChhHHhhhccCCCeEehHHHHhhHHHHhccCcHHHHHHHHhhcCCceEEEecCccce
Q psy5142          19 VSKLENQIIEQIEYYFSDINLARDKFLQGEIKKDDGWVELTTMLKFARLAKMTTEAKVIVDALKKSTSKLIEVNEDGTKI   98 (410)
Q Consensus        19 ~~~~~~~i~~QlEfYfsd~Nl~~D~fl~~~~~~~~g~v~l~~l~~F~r~k~l~~d~~~i~~Al~~~~S~~levsed~~~v   98 (410)
                      ++++..+|++||||||||+||++|+||+++|..++|||||++|++|+|||+|+.|.+.|++||+.|++.+|||++|+++|
T Consensus         1 ~~~l~~~I~~QvEfYFSd~NL~~D~fLr~~m~~~~G~Vpl~~i~~F~rmk~l~~d~~~i~~Al~~S~~~~lev~~d~~~V   80 (82)
T cd08028           1 MDDLEKKIIRQIEYYFGDFNLPRDKFLKEQIKEDDGWVPMEVMLKFNRLKSLSSDPEVIAKALKKSKSGLIEVSEDKTKI   80 (82)
T ss_pred             ChHHHHHHHHHHHhhcCHhhhccCHHHHHHHhccCCCEEhHHHhCChhHHHhcCCHHHHHHHHHhCCCCEEEEcCCCCcc
Confidence            57899999999999999999999999999999778999999999999999999999999999995444499999999999


Q ss_pred             ec
Q psy5142          99 RR  100 (410)
Q Consensus        99 rR  100 (410)
                      ||
T Consensus        81 RR   82 (82)
T cd08028          81 RR   82 (82)
T ss_pred             CC
Confidence            98

This domain is found at the N-terminus of the La autoantigen and similar proteins, and co-occurs with an RNA-recognition motif (RRM). Together these domains function to bind primary transcripts of RNA polymerase III at their 3' terminus and protect them from exonucleolytic degradation. Binding is specific for the 3'-terminal UUU-OH motif. The La autoantigen is also called Lupus La protein, LARP3, or Sjoegren syndrome type B antigen (SS-B).

>cd08033 LARP_6 La RNA-binding domain of La-related protein 6

Probab=99.96  E-value=5.9e-30  Score=196.59  Aligned_cols=75  Identities=37%  Similarity=0.744  Sum_probs=72.5

Q ss_pred             HHHHHHHHHHhCCCCCCCChhHHhhhccC-CCeEehHHHHhhHHHHhccCcHHHHHHHHhhcCCceEEEecCccceec
Q psy5142          24 NQIIEQIEYYFSDINLARDKFLQGEIKKD-DGWVELTTMLKFARLAKMTTEAKVIVDALKKSTSKLIEVNEDGTKIRR  100 (410)
Q Consensus        24 ~~i~~QlEfYfsd~Nl~~D~fl~~~~~~~-~g~v~l~~l~~F~r~k~l~~d~~~i~~Al~~~~S~~levsed~~~vrR  100 (410)
                      ++|++||||||||+||++|+||+++|..+ +|||||++|++|+|||+|+.|.+.|++||+  .|+.|||++|+++|||
T Consensus         2 ~~i~~QvEfYFSd~NL~~D~fL~~~~~~~~dG~Vpl~~i~~F~rmk~l~~d~~~I~~Al~--~S~~lev~~d~~~VRR   77 (77)
T cd08033           2 QKIVKQVEYYFSDENLLKDAFLLKHVRRNKEGYVPIKLIASFKKVKALTRDWRVVAAALR--RSSKLVVSEDGKKVRR   77 (77)
T ss_pred             hHHHhHHHhhcCHhhhccCHHHHHHhccCCCCcEehHHHhcchHHHHHcCCHHHHHHHHH--hCCeEEEcCCCCccCC
Confidence            68999999999999999999999999875 799999999999999999999999999999  8889999999999998

This domain is found in animal and plant proteins related to the La autoantigen. A variety of La-related proteins (LARPs or La ribonucleoproteins), with differing domain architecture, appear to function as RNA-binding proteins in eukaryotic cellular processes.

>smart00715 LA Domain in the RNA-binding Lupus La protein; unknown function

Probab=99.96  E-value=1.6e-29  Score=196.41  Aligned_cols=80  Identities=48%  Similarity=0.845  Sum_probs=76.9

Q ss_pred             hHHHHHHHHHHHHHhCCCCCCCChhHHhhhccCCCeEehHHHHhhHHHHhccCcHHHHHHHHhhcCCceEEEecCcccee
Q psy5142          20 SKLENQIIEQIEYYFSDINLARDKFLQGEIKKDDGWVELTTMLKFARLAKMTTEAKVIVDALKKSTSKLIEVNEDGTKIR   99 (410)
Q Consensus        20 ~~~~~~i~~QlEfYfsd~Nl~~D~fl~~~~~~~~g~v~l~~l~~F~r~k~l~~d~~~i~~Al~~~~S~~levsed~~~vr   99 (410)
                      +++.++|++||||||||+||++|.||+++|..++|||||++|++|+||++|+.|.+.|++||+  .|..|+|++|+++||
T Consensus         1 ~~~~~~i~~QvEfYFSd~NL~~D~fLr~~~~~~~g~Vpl~~i~~F~r~k~l~~d~~~i~~Al~--~S~~lel~~d~~~VR   78 (80)
T smart00715        1 EELKQKIKKQVEYYFSDENLPRDKFLRKKMDKNDGYVPISTIASFKRVKSLTTDVNLIVEALR--SSPKLEVSEDGLKVR   78 (80)
T ss_pred             ChHHHHHHHHHHHHcCHhhhhhCHHHHHHhccCCCCEEhHHHhCchhHHHHcCCHHHHHHHHH--hCCeEEEcCCCCeeC
Confidence            368899999999999999999999999999997799999999999999999999999999999  889999999999999


Q ss_pred             cC
Q psy5142         100 RN  101 (410)
Q Consensus       100 R~  101 (410)
                      |.
T Consensus        79 R~   80 (80)
T smart00715       79 RR   80 (80)
T ss_pred             cC
Confidence            95

>cd08035 LARP_4 La RNA-binding domain of La-related protein 4

Probab=99.96  E-value=3.4e-29  Score=189.74  Aligned_cols=74  Identities=31%  Similarity=0.596  Sum_probs=70.8

Q ss_pred             HHHHHHHHHHhCCCCCCCChhHHhhhccCCCeEehHHHHhhHHHHhccCcHHHHHHHHhhcCCceEEEecCccceec
Q psy5142          24 NQIIEQIEYYFSDINLARDKFLQGEIKKDDGWVELTTMLKFARLAKMTTEAKVIVDALKKSTSKLIEVNEDGTKIRR  100 (410)
Q Consensus        24 ~~i~~QlEfYfsd~Nl~~D~fl~~~~~~~~g~v~l~~l~~F~r~k~l~~d~~~i~~Al~~~~S~~levsed~~~vrR  100 (410)
                      ++|++||||||||+||++|.||+++|+. +|||||++|++|+||++||.|++.|++||+  .|..|+||+||++||.
T Consensus         2 e~i~~QvEyYFSd~NL~~D~fL~~~md~-~G~Vpi~~iasF~rik~lt~d~~~I~~AL~--~S~~levsedg~kVRp   75 (75)
T cd08035           2 ECLKKQLEFCFSRENLSKDLYLISQMDS-DQFVPIWTVANMEGIKKLTTDMDLILDVLR--SSPMVQVDETGEKVRP   75 (75)
T ss_pred             hHHHhhHHhhcCHhhcccCHHHHHhhCc-CCCEehHHHhccHHHHHhcCCHHHHHHHHH--cCCeEEEcCCCCccCc
Confidence            5899999999999999999999999976 599999999999999999999999999999  8899999999999983

This domain is found in vertebrate La-related protein 4 (LARP4), also known as c-MPL binding protein. La-type domains often co-occur with RNA-recognition motifs (RRMs). A variety of La-related proteins (LARPs or La ribonucleoproteins), with differing domain architecture, appear to function as RNA-binding proteins in eukaryotic cellular processes.

>cd08036 LARP_5 La RNA-binding domain of La-related protein 5

Probab=99.95  E-value=2.4e-29  Score=188.84  Aligned_cols=74  Identities=30%  Similarity=0.578  Sum_probs=70.6

Q ss_pred             HHHHHHHHHHhCCCCCCCChhHHhhhccCCCeEehHHHHhhHHHHhccCcHHHHHHHHhhcCCceEEEecCccceec
Q psy5142          24 NQIIEQIEYYFSDINLARDKFLQGEIKKDDGWVELTTMLKFARLAKMTTEAKVIVDALKKSTSKLIEVNEDGTKIRR  100 (410)
Q Consensus        24 ~~i~~QlEfYfsd~Nl~~D~fl~~~~~~~~g~v~l~~l~~F~r~k~l~~d~~~i~~Al~~~~S~~levsed~~~vrR  100 (410)
                      +.|++||||||||+||++|.||+++|+. +|||||++|++|+|||+||+|.+.|++||+  .|..|+||++|++||.
T Consensus         2 e~i~kQvEyYFS~~NL~~D~fLr~~md~-~g~Vpi~~ia~F~rik~Lt~D~~lI~~aL~--~S~~vevse~g~kVRp   75 (75)
T cd08036           2 ELLKKTLEFCLSRENLASDMYLISQMDS-DQYVPIMTVANLDHIKKLSTDVDLIVDVLR--SLPLVQVDEKGEKVRP   75 (75)
T ss_pred             hhhhcceeeeechhhccccHHHHHHhcc-CCCEehHHHhccHHHHHhcCCHHHHHHHHh--hCCeEEECCCCCccCc
Confidence            5799999999999999999999999986 599999999999999999999999999999  7899999999999983

This domain is found in vertebrate La-related protein 5 (LARP5). A variety of La-related proteins (LARPs or La ribonucleoproteins), with differing domain architecture, appear to function as RNA-binding proteins in eukaryotic cellular processes.

>cd08029 LA_like_fungal La-motif domain of fungal proteins similar to the La autoantigen

Probab=99.95  E-value=8e-29  Score=190.25  Aligned_cols=74  Identities=42%  Similarity=0.779  Sum_probs=70.4

Q ss_pred             HHHHHHHHHHhCCCCCCCChhHHhhhcc-CCCeEehHHHHhhHHHHhccCcHHHHHHHHhhcCCceEEEecCccceec
Q psy5142          24 NQIIEQIEYYFSDINLARDKFLQGEIKK-DDGWVELTTMLKFARLAKMTTEAKVIVDALKKSTSKLIEVNEDGTKIRR  100 (410)
Q Consensus        24 ~~i~~QlEfYfsd~Nl~~D~fl~~~~~~-~~g~v~l~~l~~F~r~k~l~~d~~~i~~Al~~~~S~~levsed~~~vrR  100 (410)
                      ++|++||||||||+||++|.||+++|.. .+|||||++|++|+|||+|+.+ +.|++||+  .|+.|+|++|+++|||
T Consensus         2 ~~I~~QvEfYFSd~NL~~D~fLr~~~~~~~~G~Vpl~~i~~F~rmk~l~~~-~~i~~Al~--~S~~lev~~d~~~VRR   76 (76)
T cd08029           2 EEIRKQVEFYFSDSNLPTDKFLWTLTGGSNNGWVPIKTIASFKRMRRFQPL-EAVVEALR--ESELLEVSEDGENVRR   76 (76)
T ss_pred             hHHHhhHHhhcCHhhhccCHHHHHHhccCCCCcEehHHHhCchHHHHcCCH-HHHHHHHH--hCCeEEEeCCCCcccC
Confidence            5899999999999999999999999986 4799999999999999999976 99999999  8899999999999998

This domain is found in fungal proteins related to the La autoantigen. A variety of La-related proteins (LARPs or La ribonucleoproteins), with differing domain architecture, appear to function as RNA-binding proteins in eukaryotic cellular processes.

>TIGR01659 sex-lethal sex-lethal family splicing factor

Probab=99.95  E-value=5.7e-27  Score=231.77  Aligned_cols=161  Identities=16%  Similarity=0.280  Sum_probs=134.7

Q ss_pred             ccceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCCccc
Q psy5142         117 LIAQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLKF  196 (410)
Q Consensus       117 ~~~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~~~  196 (410)
                      ...++|||++||+++|+++|+++|+.|    |.|.+|+|+++..++    +++|||||+|.++++|++|++.+++  ..+
T Consensus       105 ~~~~~LfVgnLp~~~te~~L~~lF~~~----G~V~~v~i~~d~~tg----~srGyaFVeF~~~e~A~~Ai~~LnG--~~l  174 (346)
T TIGR01659       105 NSGTNLIVNYLPQDMTDRELYALFRTI----GPINTCRIMRDYKTG----YSFGYAFVDFGSEADSQRAIKNLNG--ITV  174 (346)
T ss_pred             CCCcEEEEeCCCCCCCHHHHHHHHHhc----CCEEEEEEEecCCCC----ccCcEEEEEEccHHHHHHHHHHcCC--Ccc
Confidence            457899999999999999999999999    999999999987765    8899999999999999999999986  445


Q ss_pred             cccccchhhhhhhhcccccccccCcccccchhhhchHHHHHHHHHHHHhhhhccccCccCCCCCCCCCCcccccCCCCCe
Q psy5142         197 NENCEHKNAEKFLNENKDKNLKFNENCEHSLLIKWQQEYHEEKKQEVRSKRDKSKKSTEGDGEGNTEGSKQVVLELPTGA  276 (410)
Q Consensus       197 ~~~~~~~~~~k~~~~~~~~~~~~~g~~~~~L~v~~k~~~~~~k~~e~~~~~~k~k~~~e~~~~~~~~~~~~~~~~~~~g~  276 (410)
                                             .+   +.|.|.+....                                  ......+
T Consensus       175 -----------------------~g---r~i~V~~a~p~----------------------------------~~~~~~~  194 (346)
T TIGR01659       175 -----------------------RN---KRLKVSYARPG----------------------------------GESIKDT  194 (346)
T ss_pred             -----------------------CC---ceeeeeccccc----------------------------------ccccccc
Confidence                                   55   77777642110                                  0012245


Q ss_pred             EEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCCC------ceEEEEeCChhHHHHHHHHhcCCCeEEcC--eEEE
Q psy5142         277 LLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVGE------PTAFVRYKKENNAEAVLKALGSKEIVIKD--VKVS  348 (410)
Q Consensus       277 ~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g~------~~afV~F~~~e~A~~Al~~l~~~~~~i~g--~~v~  348 (410)
                      .|||.|||..+++++|+++|++||    .|..|.+.++.      .+|||+|.+.++|++||+.|+  +..+.+  +.|+
T Consensus       195 ~lfV~nLp~~vtee~L~~~F~~fG----~V~~v~i~~d~~tg~~kG~aFV~F~~~e~A~~Ai~~ln--g~~~~g~~~~l~  268 (346)
T TIGR01659       195 NLYVTNLPRTITDDQLDTIFGKYG----QIVQKNILRDKLTGTPRGVAFVRFNKREEAQEAISALN--NVIPEGGSQPLT  268 (346)
T ss_pred             eeEEeCCCCcccHHHHHHHHHhcC----CEEEEEEeecCCCCccceEEEEEECCHHHHHHHHHHhC--CCccCCCceeEE
Confidence            799999999999999999999999    99999888653      479999999999999999994  555554  6888


Q ss_pred             EEecC
Q psy5142         349 IEVVT  353 (410)
Q Consensus       349 v~~l~  353 (410)
                      |.+.+
T Consensus       269 V~~a~  273 (346)
T TIGR01659       269 VRLAE  273 (346)
T ss_pred             EEECC
Confidence            88766

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).

>cd08031 LARP_4_5_like La RNA-binding domain of proteins similar to La-related proteins 4 and 5

Probab=99.95  E-value=2.3e-28  Score=186.83  Aligned_cols=74  Identities=38%  Similarity=0.672  Sum_probs=70.7

Q ss_pred             HHHHHHHHHHhCCCCCCCChhHHhhhccCCCeEehHHHHhhHHHHhccCcHHHHHHHHhhcCCceEEEecCccceec
Q psy5142          24 NQIIEQIEYYFSDINLARDKFLQGEIKKDDGWVELTTMLKFARLAKMTTEAKVIVDALKKSTSKLIEVNEDGTKIRR  100 (410)
Q Consensus        24 ~~i~~QlEfYfsd~Nl~~D~fl~~~~~~~~g~v~l~~l~~F~r~k~l~~d~~~i~~Al~~~~S~~levsed~~~vrR  100 (410)
                      ++|++||||||||+||++|.||+++|.. +|||||++|++|+||++|+.|.+.|++||+  .|+.|+|++|+++||.
T Consensus         2 ~~i~~QvEfYFSd~NL~~D~fL~~~m~~-dG~Vpl~~i~~F~rmk~lt~d~~~i~~Al~--~S~~lev~ed~~~VR~   75 (75)
T cd08031           2 ELLKRQLEYYFSRENLANDAYLLSQMDS-DQYVPIWTIANFNKIKKLTTDIDLIVEALR--ESPNVQVDEKGEKVRP   75 (75)
T ss_pred             hHHHHHHHHHcCHhhhccCHHHHHHhCC-CCCEEHHHHhCchhHHHHcCCHHHHHHHHH--hCCeEEEcCCCCccCc
Confidence            5899999999999999999999999986 599999999999999999999999999999  8889999999999983

This domain is found in proteins similar to La-related proteins 4 and 5 (LARP4, LARP5). A variety of La-related proteins (LARPs or La ribonucleoproteins), with differing domain architecture, appear to function as RNA-binding proteins in eukaryotic cellular processes.

>cd08030 LA_like_plant La-motif domain of plant proteins similar to the La autoantigen

Probab=99.95  E-value=3.9e-28  Score=191.18  Aligned_cols=76  Identities=41%  Similarity=0.777  Sum_probs=71.3

Q ss_pred             HHHHHHHHHHHhCCCCCCCChhHHhhhccC-CCeEehHHHHhhHHHHhccC------------cHHHHHHHHhhcCCceE
Q psy5142          23 ENQIIEQIEYYFSDINLARDKFLQGEIKKD-DGWVELTTMLKFARLAKMTT------------EAKVIVDALKKSTSKLI   89 (410)
Q Consensus        23 ~~~i~~QlEfYfsd~Nl~~D~fl~~~~~~~-~g~v~l~~l~~F~r~k~l~~------------d~~~i~~Al~~~~S~~l   89 (410)
                      .++|++||||||||+||++|+||+++|..+ +|||||++|++|+|||+|+.            +.+.|++||+  .|..|
T Consensus         2 ~~~i~~QvEfYFSd~NL~~D~fL~~~~~~~~dG~V~i~~i~~F~rmk~l~~~~~~~~~~~~~~~~~~I~~ALk--~S~~l   79 (90)
T cd08030           2 KEKVLRQVEFYFSDSNLPRDDFLLEEVEEDPDGMVSLALICSFSRMRSLLGLGGGKPEDVPEDTLKAVAEALR--TSTLL   79 (90)
T ss_pred             hHHHHHHHHcccchhhcccCHHHHHHhccCCCCCEehHHHhcChHHHHHhhcccccccccchhHHHHHHHHHc--cCCEE
Confidence            578999999999999999999999999875 79999999999999999985            3689999999  88899


Q ss_pred             EEecCccceec
Q psy5142          90 EVNEDGTKIRR  100 (410)
Q Consensus        90 evsed~~~vrR  100 (410)
                      +|++|+++|||
T Consensus        80 evseD~~~VRR   90 (90)
T cd08030          80 KVSEDGKRVGR   90 (90)
T ss_pred             EEcCCCCccCC
Confidence            99999999998

This domain is found in plant proteins related to the La autoantigen. A variety of La-related proteins (LARPs or La ribonucleoproteins), with differing domain architecture, appear to function as RNA-binding proteins in eukaryotic cellular processes.

>cd08037 LARP_1 La RNA-binding domain of La-related protein 1

Probab=99.94  E-value=1.9e-27  Score=179.73  Aligned_cols=72  Identities=43%  Similarity=0.693  Sum_probs=67.4

Q ss_pred             HHHHHHHHHHhCCCCCCCChhHHhhhccCCCeEehHHHHhhHHHHhccCcHHHHHHHHhhcCCceEEEecCccceec
Q psy5142          24 NQIIEQIEYYFSDINLARDKFLQGEIKKDDGWVELTTMLKFARLAKMTTEAKVIVDALKKSTSKLIEVNEDGTKIRR  100 (410)
Q Consensus        24 ~~i~~QlEfYfsd~Nl~~D~fl~~~~~~~~g~v~l~~l~~F~r~k~l~~d~~~i~~Al~~~~S~~levsed~~~vrR  100 (410)
                      ++|++||||||||+||++|.||+++|.. +|||||++|++|+||++|+.|.+.|++||+  .|+.|||+++.  |||
T Consensus         2 ~~I~~QvEyYFSd~NL~~D~fLr~~md~-dG~Vpi~~ia~F~rmk~Lt~d~~~I~~Al~--~S~~vev~~~~--~r~   73 (73)
T cd08037           2 DYIKRQIEYYFSVDNLERDFFLRRKMDE-DGFLPVTLIASFHRVQALTTDISLIIKALK--DSKVVEIIDMK--IRR   73 (73)
T ss_pred             hHHHHHHHHhccHhhhccCHHHHHHhcc-CCCEeHHHHhcchHHHHhcCCHHHHHHHHH--cCCeEEEecch--hcC
Confidence            5899999999999999999999999976 599999999999999999999999999999  89999999874  554

This domain is found in vertebrate La-related protein 1 (LARP1). A variety of La-related proteins (LARPs or La ribonucleoproteins), with differing domain architecture, appear to function as RNA-binding proteins in eukaryotic cellular processes.

>cd08038 LARP_2 La RNA-binding domain of La-related protein 2

Probab=99.94  E-value=3e-27  Score=178.67  Aligned_cols=72  Identities=39%  Similarity=0.648  Sum_probs=67.4

Q ss_pred             HHHHHHHHHHhCCCCCCCChhHHhhhccCCCeEehHHHHhhHHHHhccCcHHHHHHHHhhcCCceEEEecCccceec
Q psy5142          24 NQIIEQIEYYFSDINLARDKFLQGEIKKDDGWVELTTMLKFARLAKMTTEAKVIVDALKKSTSKLIEVNEDGTKIRR  100 (410)
Q Consensus        24 ~~i~~QlEfYfsd~Nl~~D~fl~~~~~~~~g~v~l~~l~~F~r~k~l~~d~~~i~~Al~~~~S~~levsed~~~vrR  100 (410)
                      ++|++||||||||+||++|.||+++|.. +|||||++|++|+||++|+.|.+.|++||+  .|..|||++++  |||
T Consensus         2 e~I~~QvEfYFSd~NL~~D~fLr~~m~~-~G~Vpl~~ia~F~rmk~lt~d~~~I~~Al~--~S~~ve~~~~~--~r~   73 (73)
T cd08038           2 EYIKRQIEYYFSTENLERDFFLRRKMDL-QGFLPISLIAGFYRVQALTTNVDLILEALK--DSTEVEIVDQK--IRR   73 (73)
T ss_pred             hHHHhhHHhhcchhhhccCHHHHHHhCC-CCCEeHHHHhcchHHHHhcCCHHHHHHHHH--cCCeEEEeCCc--ccC
Confidence            5899999999999999999999999976 599999999999999999999999999999  89999999885  554

This domain is found in vertebrate La-related protein 2 (LARP2). A variety of La-related proteins (LARPs or La ribonucleoproteins), with differing domain architecture, appear to function as RNA-binding proteins in eukaryotic cellular processes.

>cd08034 LARP_1_2 La RNA-binding domain proteins similar to La-related proteins 1 and 2

Probab=99.94  E-value=4e-27  Score=178.84  Aligned_cols=72  Identities=36%  Similarity=0.654  Sum_probs=68.0

Q ss_pred             HHHHHHHHHHhCCCCCCCChhHHhhhccCCCeEehHHHHhhHHHHhccCcHHHHHHHHhhcCCceEEEecCccceec
Q psy5142          24 NQIIEQIEYYFSDINLARDKFLQGEIKKDDGWVELTTMLKFARLAKMTTEAKVIVDALKKSTSKLIEVNEDGTKIRR  100 (410)
Q Consensus        24 ~~i~~QlEfYfsd~Nl~~D~fl~~~~~~~~g~v~l~~l~~F~r~k~l~~d~~~i~~Al~~~~S~~levsed~~~vrR  100 (410)
                      ++|++||||||||+||++|.||+++|.. +|||||++|++|+||++|+.|.+.|++||+  .|+.|+|++  .+|||
T Consensus         2 ~~i~~QvEfYFSd~NL~~D~fLr~~m~~-~G~Vpl~~i~~F~rmk~l~~d~~~i~~Al~--~S~~lev~e--~kvR~   73 (73)
T cd08034           2 EYIKKQIEYYFSVDNLEKDFFLRRKMDP-EGYLPIALIASFHRVQALTTDVNLILEALK--DSTVVELVD--EKVRC   73 (73)
T ss_pred             hHHHhhHHhhcCHhhhccCHHHHHHcCC-CCCEeHHHHhccHHHHHHcCCHHHHHHHHH--cCCeEEEec--CeecC
Confidence            6899999999999999999999999975 599999999999999999999999999999  899999999  56775

This domain is found in proteins similar to vertebrate La-related proteins 1 and 2 (LARP1, LARP2). A variety of La-related proteins (LARPs or La ribonucleoproteins), with differing domain architecture, appear to function as RNA-binding proteins in eukaryotic cellular processes.

>cd07323 LAM LA motif RNA-binding domain

Probab=99.93  E-value=7.9e-27  Score=179.59  Aligned_cols=74  Identities=50%  Similarity=0.934  Sum_probs=70.8

Q ss_pred             HHHHHHHHHHhCCCCCCCChhHHhhhccCCCeEehHHHHhhHHHHhccCcHHHHHHHHhhcCCceEEEecCccceec
Q psy5142          24 NQIIEQIEYYFSDINLARDKFLQGEIKKDDGWVELTTMLKFARLAKMTTEAKVIVDALKKSTSKLIEVNEDGTKIRR  100 (410)
Q Consensus        24 ~~i~~QlEfYfsd~Nl~~D~fl~~~~~~~~g~v~l~~l~~F~r~k~l~~d~~~i~~Al~~~~S~~levsed~~~vrR  100 (410)
                      ++|++||||||||+||++|.||+++| .++|||||++|++|+||++|+.|.+.|++||+  .|..|+|++++++|||
T Consensus         2 ~~i~~QvEfYFSd~NL~~D~fL~~~~-~~~g~Vpl~~i~~F~r~k~l~~~~~~i~~Al~--~s~~lel~~~~~~Vrr   75 (75)
T cd07323           2 EKIKKQVEYYFSDENLCKDRFLRSLM-DDDGWVPLSLLASFNRVKKLTTDVELILEALR--DSSVVEVSEDGTKVRR   75 (75)
T ss_pred             hHHHhhhHhccCHhhhCcCHHHHHhc-CCCCCEEHHHHhCchHHHHHcCCHHHHHHHHH--hCCeEEEeCCCCccCC
Confidence            57999999999999999999999999 44699999999999999999999999999999  7889999999999997

This domain is found at the N-terminus of La RNA-binding proteins as well as in other related proteins. Typically, the domain co-occurs with an RNA-recognition motif (RRM), and together these domains function to bind primary transcripts of RNA polymerase III in the La autoantigen (Lupus La protein, LARP3, or Sjoegren syndrome type B antigen, SS-B). A variety of La-related proteins (LARPs or La ribonucleoproteins), with differing domain architecture, appear to function as RNA-binding proteins in eukaryotic cellular processes.

>KOG0117|consensus

Probab=99.91  E-value=5.8e-23  Score=199.79  Aligned_cols=266  Identities=15%  Similarity=0.181  Sum_probs=173.6

Q ss_pred             HHHHHHHhhcCCceEEEecCccceecCCCCCCCCCchhhhhhccceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEE
Q psy5142          75 KVIVDALKKSTSKLIEVNEDGTKIRRNPEKELPTFDIDFVKDLIAQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNII  154 (410)
Q Consensus        75 ~~i~~Al~~~~S~~levsed~~~vrR~~~~p~p~~~~~~~~~~~~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~  154 (410)
                      +..+.||-.-+-..|+|...    .|+-..|.|.++  ......-+-|||+.||.++.+++|.-+|++.    |+|-.+|
T Consensus        45 eaal~al~E~tgy~l~ve~g----qrk~ggPpP~we--g~~p~~G~EVfvGkIPrD~~EdeLvplfEki----G~I~elR  114 (506)
T KOG0117|consen   45 EAALKALLERTGYTLVVENG----QRKYGGPPPGWE--GPPPPRGCEVFVGKIPRDVFEDELVPLFEKI----GKIYELR  114 (506)
T ss_pred             HHHHHHHHHhcCceEEEecc----ccccCCCCCccc--CCCCCCCceEEecCCCccccchhhHHHHHhc----cceeeEE
Confidence            44445555435556777654    344334666653  2233556789999999999999999999999    9999999


Q ss_pred             EcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCCcc---ccccccchhhhhhh--hcccccc---------cccC
Q psy5142         155 MRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLK---FNENCEHKNAEKFL--NENKDKN---------LKFN  220 (410)
Q Consensus       155 l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~~---~~~~~~~~~~~k~~--~~~~~~~---------~~~~  220 (410)
                      |..++.++    .++|||||+|.+.++|+.|++.+|+..+.   +-+-|.+..--.|+  +.++.+.         -...
T Consensus       115 LMmD~~sG----~nRGYAFVtf~~Ke~Aq~Aik~lnn~Eir~GK~igvc~Svan~RLFiG~IPK~k~keeIlee~~kVte  190 (506)
T KOG0117|consen  115 LMMDPFSG----DNRGYAFVTFCTKEEAQEAIKELNNYEIRPGKLLGVCVSVANCRLFIGNIPKTKKKEEILEEMKKVTE  190 (506)
T ss_pred             EeecccCC----CCcceEEEEeecHHHHHHHHHHhhCccccCCCEeEEEEeeecceeEeccCCccccHHHHHHHHHhhCC
Confidence            99998776    89999999999999999999999963221   11112221111111  0111110         0001


Q ss_pred             cccccchhhhc------h------HHHHHHHHHHHHhhhhccccCccCCC---CCCCCC-CcccccCCCCCeEEEEeCCC
Q psy5142         221 ENCEHSLLIKW------Q------QEYHEEKKQEVRSKRDKSKKSTEGDG---EGNTEG-SKQVVLELPTGALLKISDIK  284 (410)
Q Consensus       221 g~~~~~L~v~~------k------~~~~~~k~~e~~~~~~k~k~~~e~~~---~~~~~~-~~~~~~~~~~g~~l~v~nL~  284 (410)
                      |.  ..+++-.      +      .+|...+.+.+...+--.-.=+-+..   .++++. ++.....+..-.+|||+||+
T Consensus       191 GV--vdVivy~~p~dk~KNRGFaFveYe~H~~Aa~aRrKl~~g~~klwgn~~tVdWAep~~e~ded~ms~VKvLYVRNL~  268 (506)
T KOG0117|consen  191 GV--VDVIVYPSPDDKTKNRGFAFVEYESHRAAAMARRKLMPGKIKLWGNAITVDWAEPEEEPDEDTMSKVKVLYVRNLM  268 (506)
T ss_pred             Ce--eEEEEecCccccccccceEEEEeecchhHHHHHhhccCCceeecCCcceeeccCcccCCChhhhhheeeeeeeccc
Confidence            10  0000000      0      02333333333322110000000000   011111 12223355666799999999


Q ss_pred             CCCCHHHHHHHHHhcCCCCCCeeEEEeeCCCceEEEEeCChhHHHHHHHHhcCCCeEEcCeEEEEEecCchHHHHHHHHh
Q psy5142         285 EPVSREDIREVLEKVQTDDQEIVFIEFNVGEPTAFVRYKKENNAEAVLKALGSKEIVIKDVKVSIEVVTGEEEQTVLDRM  364 (410)
Q Consensus       285 ~~~t~edLk~~F~~~G~~~~~V~~V~~~~g~~~afV~F~~~e~A~~Al~~l~~~~~~i~g~~v~v~~l~g~eE~~yw~k~  364 (410)
                      .+||+|.|+++|++||    .|..|..++  ++|||+|.+.++|.+|++.+  ++.+|+|..|.|.++..-.++.+|.+.
T Consensus       269 ~~tTeE~lk~~F~~~G----~veRVkk~r--DYaFVHf~eR~davkAm~~~--ngkeldG~~iEvtLAKP~~k~k~~r~~  340 (506)
T KOG0117|consen  269 ESTTEETLKKLFNEFG----KVERVKKPR--DYAFVHFAEREDAVKAMKET--NGKELDGSPIEVTLAKPVDKKKKERKA  340 (506)
T ss_pred             hhhhHHHHHHHHHhcc----ceEEeeccc--ceeEEeecchHHHHHHHHHh--cCceecCceEEEEecCChhhhccchhh
Confidence            9999999999999999    999998886  59999999999999999999  789999999999999999999999753

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

Probab=99.90  E-value=1.2e-22  Score=211.13  Aligned_cols=228  Identities=14%  Similarity=0.186  Sum_probs=145.9

Q ss_pred             CCCCCCchhhhhhccceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHH
Q psy5142         104 KELPTFDIDFVKDLIAQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAE  183 (410)
Q Consensus       104 ~p~p~~~~~~~~~~~~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~  183 (410)
                      .|.|.++  .......++|||+|||+++|+++|+++|++|    |.|.+|+|+++..+     .++|||||+|.+.++|+
T Consensus        45 ~Pp~~~~--~~~p~~~~~lFVgnLp~~~tEd~L~~~F~~~----G~I~~vrl~~D~sG-----~sRGfaFV~F~~~e~A~  113 (578)
T TIGR01648        45 GPPPGWS--GVQPGRGCEVFVGKIPRDLYEDELVPLFEKA----GPIYELRLMMDFSG-----QNRGYAFVTFCGKEEAK  113 (578)
T ss_pred             CCCCccc--CCCCCCCCEEEeCCCCCCCCHHHHHHHHHhh----CCEEEEEEEECCCC-----CccceEEEEeCCHHHHH
Confidence            4666542  1122346899999999999999999999999    99999999999544     89999999999999999


Q ss_pred             HHHHhcCCCCcccc-cccc----c--------------hhhhhhhhcccccccccCcccccchhhhc------h------
Q psy5142         184 KFLNENKDKNLKFN-ENCE----H--------------KNAEKFLNENKDKNLKFNENCEHSLLIKW------Q------  232 (410)
Q Consensus       184 ~Al~~~~g~~~~~~-~~~~----~--------------~~~~k~~~~~~~~~~~~~g~~~~~L~v~~------k------  232 (410)
                      +||+.+++.  .+. ....    .              ...+.+..+-...   ..+.  ..+++..      +      
T Consensus       114 ~Ai~~lng~--~i~~Gr~l~V~~S~~~~rLFVgNLP~~~TeeeL~eeFskv---~egv--v~vIv~~~~~~kgKnRGFAF  186 (578)
T TIGR01648       114 EAVKLLNNY--EIRPGRLLGVCISVDNCRLFVGGIPKNKKREEILEEFSKV---TEGV--VDVIVYHSAADKKKNRGFAF  186 (578)
T ss_pred             HHHHHcCCC--eecCCccccccccccCceeEeecCCcchhhHHHHHHhhcc---cCCc--eEEEEeccccccCccCceEE
Confidence            999999862  221 1110    0              0111111100000   0000  0000000      0      


Q ss_pred             HHHHHHHHHHHHhhhhcc-c----c---CccCCCCCCCCCCcccccCCCCCeEEEEeCCCCCCCHHHHHHHHHhc--CCC
Q psy5142         233 QEYHEEKKQEVRSKRDKS-K----K---STEGDGEGNTEGSKQVVLELPTGALLKISDIKEPVSREDIREVLEKV--QTD  302 (410)
Q Consensus       233 ~~~~~~k~~e~~~~~~k~-k----~---~~e~~~~~~~~~~~~~~~~~~~g~~l~v~nL~~~~t~edLk~~F~~~--G~~  302 (410)
                      ..|.....+.+...+... +    .   ..+...    ...........+..+|||.||++.+++++|+++|++|  |  
T Consensus       187 VeF~s~edAa~AirkL~~gki~l~Gr~I~VdwA~----p~~~~d~~~~~~~k~LfVgNL~~~~tee~L~~~F~~f~~G--  260 (578)
T TIGR01648       187 VEYESHRAAAMARRKLMPGRIQLWGHVIAVDWAE----PEEEVDEDVMAKVKILYVRNLMTTTTEEIIEKSFSEFKPG--  260 (578)
T ss_pred             EEcCCHHHHHHHHHHhhccceEecCceEEEEeec----ccccccccccccccEEEEeCCCCCCCHHHHHHHHHhcCCC--
Confidence            012111111111110000 0    0   000000    0001111223445789999999999999999999999  9  


Q ss_pred             CCCeeEEEeeCCCceEEEEeCChhHHHHHHHHhcCCCeEEcCeEEEEEecCchHHHHHH
Q psy5142         303 DQEIVFIEFNVGEPTAFVRYKKENNAEAVLKALGSKEIVIKDVKVSIEVVTGEEEQTVL  361 (410)
Q Consensus       303 ~~~V~~V~~~~g~~~afV~F~~~e~A~~Al~~l~~~~~~i~g~~v~v~~l~g~eE~~yw  361 (410)
                        .|..|.+.+  ++|||+|.+.++|++|++.|  ++..|+|+.|+|..........++
T Consensus       261 --~I~rV~~~r--gfAFVeF~s~e~A~kAi~~l--nG~~i~Gr~I~V~~Akp~~~~~~~  313 (578)
T TIGR01648       261 --KVERVKKIR--DYAFVHFEDREDAVKAMDEL--NGKELEGSEIEVTLAKPVDKKSYV  313 (578)
T ss_pred             --ceEEEEeec--CeEEEEeCCHHHHHHHHHHh--CCCEECCEEEEEEEccCCCccccc
Confidence              999998876  58999999999999999999  678999999999998776555444

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.

>PF05383 La: La domain; InterPro: IPR006630 Human Ro ribonucleoproteins (RNPs) are composed of one of the four small Y RNAs and at least two proteins, Ro60 and La

Probab=99.89  E-value=4.1e-24  Score=157.75  Aligned_cols=57  Identities=51%  Similarity=0.972  Sum_probs=52.6

Q ss_pred             HHHHHHHHhCCCCCCCChhHHhhhccC-CCeEehHHHHhhHHHHhcc-CcHHHHHHHHh
Q psy5142          26 IIEQIEYYFSDINLARDKFLQGEIKKD-DGWVELTTMLKFARLAKMT-TEAKVIVDALK   82 (410)
Q Consensus        26 i~~QlEfYfsd~Nl~~D~fl~~~~~~~-~g~v~l~~l~~F~r~k~l~-~d~~~i~~Al~   82 (410)
                      |++||||||||+||++|+||+++|..+ +|||||++|++|+|||+|+ .|.+.|++||+
T Consensus         1 I~~QvEfYFSd~NL~~D~fL~~~~~~~~~g~Vpi~~i~~F~r~k~l~~~~~~~I~~al~   59 (61)
T PF05383_consen    1 IKKQVEFYFSDENLPRDKFLRSQMDSNPDGWVPISTILSFNRMKALTNTDIELIVDALR   59 (61)
T ss_dssp             HHHHHHHHTSHHHHCC-HHHHHHHCTTTTTBEEHHHHTTSHHHHHH--S-HHHHHHHHH
T ss_pred             ChhHHHHhcCHHHhCcCHHHHHHHHhcCCCcEeHHHHHchHHHHHHhcCCHHHHHHHHH
Confidence            789999999999999999999999996 7999999999999999999 89999999999

The La protein is a 47 kDa polypeptide that frequently acts as an autoantigen in systemic lupus erythematosus and Sjogren's syndrome []. In the nucleus, La acts as a RNA polymerase III (RNAP III) transcription factor, while in the cytoplasm, La acts as a translation factor []. In the nucleus, La binds to the 3'UTR of nascent RNAP III transcripts to assist in folding and maturation []. In the cytoplasm, La recognises specific classes of mRNAs that contain a 5'-terminal oligopyrimidine (5'TOP) motif known to control protein synthesis []. The specific recognition is mediated by the N-terminal domain of La, which comprises a La motif and a RNA recognition motif (RRM). The La motif adopts an alpha/beta fold that comprises a winged-helix motif []. Homologous La domain-containing proteins have been identified in a wide range of organisms except Archaea, bacteria and viruses [].; PDB: 1S29_A 1YTY_B 2VOO_B 1S7A_A 2VOP_A 2VON_B 1ZH5_B 2VOD_A 2CQK_A.

>KOG2591|consensus

Probab=99.89  E-value=5.3e-23  Score=204.22  Aligned_cols=137  Identities=27%  Similarity=0.511  Sum_probs=124.6

Q ss_pred             HHHHHHHHHHHHHhCCCCCCCChhHHhhhccCCCeEehHHHHhhHHHHhccCcHHHHHHHHhhcCCceEEEecCccceec
Q psy5142          21 KLENQIIEQIEYYFSDINLARDKFLQGEIKKDDGWVELTTMLKFARLAKMTTEAKVIVDALKKSTSKLIEVNEDGTKIRR  100 (410)
Q Consensus        21 ~~~~~i~~QlEfYfsd~Nl~~D~fl~~~~~~~~g~v~l~~l~~F~r~k~l~~d~~~i~~Al~~~~S~~levsed~~~vrR  100 (410)
                      ++.+-|++|||||||.+||..|.||..+|++| .||||-+++.|..|++|++|+++|+++|+  .|..|+|++++.+||-
T Consensus        95 ~~kq~lk~qlEy~fSreNlssD~YL~sQMDSD-qyVPI~tva~~~~i~klttDvdLI~Evlr--esp~VqvDekgekVrp  171 (684)
T KOG2591|consen   95 DLKQLLKKQLEYYFSRENLSSDRYLISQMDSD-QYVPINTVANFPEIMKLTTDVDLIVEVLR--ESPNVQVDEKGEKVRP  171 (684)
T ss_pred             hHHHHHHHHHHHhhccccccchhhhhhhcccc-cccchhhhccchhhhhhccchHHHHHHHh--cCCCceeccCcccccc
Confidence            89999999999999999999999999999986 99999999999999999999999999999  8999999999999997


Q ss_pred             CCCCCCCCCchhhhhhccceeeEeecCCCCCCHHHHHHHHhh--ccCCCCceEEEEEcccCcccccccccccEEEEEecC
Q psy5142         101 NPEKELPTFDIDFVKDLIAQSLYVKYIPVDATLDDIKDFFKK--NTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDN  178 (410)
Q Consensus       101 ~~~~p~p~~~~~~~~~~~~rtv~V~~lp~~~t~~~L~~~F~~--~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~  178 (410)
                      .               .+.|.|+++-||..+.+++|+.+|+.  |    -.+.++..           .....|||+|++
T Consensus       172 ~---------------~kRcIvilREIpettp~e~Vk~lf~~enc----Pk~iscef-----------a~N~nWyITfes  221 (684)
T KOG2591|consen  172 N---------------HKRCIVILREIPETTPIEVVKALFKGENC----PKVISCEF-----------AHNDNWYITFES  221 (684)
T ss_pred             C---------------cceeEEEEeecCCCChHHHHHHHhccCCC----CCceeeee-----------eecCceEEEeec
Confidence            6               35688999999999999999999975  4    46666655           345569999999


Q ss_pred             HHHHHHHHHhcC
Q psy5142         179 KENAEKFLNENK  190 (410)
Q Consensus       179 ~e~A~~Al~~~~  190 (410)
                      .+||+.|.+.+.
T Consensus       222 d~DAQqAykylr  233 (684)
T KOG2591|consen  222 DTDAQQAYKYLR  233 (684)
T ss_pred             chhHHHHHHHHH
Confidence            999999998775

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

Probab=99.89  E-value=3.3e-22  Score=208.27  Aligned_cols=171  Identities=18%  Similarity=0.212  Sum_probs=138.1

Q ss_pred             cceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCCcccc
Q psy5142         118 IAQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLKFN  197 (410)
Q Consensus       118 ~~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~~~~  197 (410)
                      ..++|||+|||+++|+++|+++|++|    |.|.+|+|+++..++    +++|||||+|.+.++|++|++.++|  ..+ 
T Consensus       106 ~~~rLfVGnLp~~~tEe~Lr~lF~~f----G~I~sV~I~~D~~Tg----kskGfAFVeF~s~e~A~~Ai~~lnG--~~i-  174 (612)
T TIGR01645       106 IMCRVYVGSISFELREDTIRRAFDPF----GPIKSINMSWDPATG----KHKGFAFVEYEVPEAAQLALEQMNG--QML-  174 (612)
T ss_pred             CCCEEEEcCCCCCCCHHHHHHHHHcc----CCEEEEEEeecCCCC----CcCCeEEEEeCcHHHHHHHHHhcCC--eEE-
Confidence            45799999999999999999999999    999999999988776    8999999999999999999999986  455 


Q ss_pred             ccccchhhhhhhhcccccccccCcccccchhhhchHHHHHHHHHHHHhhhhccccCccCCCCCCCCCCcccccCCCCCeE
Q psy5142         198 ENCEHKNAEKFLNENKDKNLKFNENCEHSLLIKWQQEYHEEKKQEVRSKRDKSKKSTEGDGEGNTEGSKQVVLELPTGAL  277 (410)
Q Consensus       198 ~~~~~~~~~k~~~~~~~~~~~~~g~~~~~L~v~~k~~~~~~k~~e~~~~~~k~k~~~e~~~~~~~~~~~~~~~~~~~g~~  277 (410)
                                            .|   +.|.|.+...+..            ....           ...........+.
T Consensus       175 ----------------------~G---R~IkV~rp~~~p~------------a~~~-----------~~~~~~~~~~~~r  206 (612)
T TIGR01645       175 ----------------------GG---RNIKVGRPSNMPQ------------AQPI-----------IDMVQEEAKKFNR  206 (612)
T ss_pred             ----------------------ec---ceeeecccccccc------------cccc-----------cccccccccccce
Confidence                                  66   7777653211100            0000           0000011223468


Q ss_pred             EEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCC------CceEEEEeCChhHHHHHHHHhcCCCeEEcCeEEEEEe
Q psy5142         278 LKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVG------EPTAFVRYKKENNAEAVLKALGSKEIVIKDVKVSIEV  351 (410)
Q Consensus       278 l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g------~~~afV~F~~~e~A~~Al~~l~~~~~~i~g~~v~v~~  351 (410)
                      |||.|||+++++++|+++|+.||    .|..|.+.++      +++|||+|.+.++|.+||..|  +++.++|+.|+|..
T Consensus       207 LfVgnLp~~vteedLk~lFs~FG----~I~svrl~~D~~tgksKGfGFVeFe~~e~A~kAI~am--Ng~elgGr~LrV~k  280 (612)
T TIGR01645       207 IYVASVHPDLSETDIKSVFEAFG----EIVKCQLARAPTGRGHKGYGFIEYNNLQSQSEAIASM--NLFDLGGQYLRVGK  280 (612)
T ss_pred             EEeecCCCCCCHHHHHHHHhhcC----CeeEEEEEecCCCCCcCCeEEEEECCHHHHHHHHHHh--CCCeeCCeEEEEEe
Confidence            99999999999999999999999    9999988764      357999999999999999999  68999999999976


Q ss_pred             cC
Q psy5142         352 VT  353 (410)
Q Consensus       352 l~  353 (410)
                      ..
T Consensus       281 Ai  282 (612)
T TIGR01645       281 CV  282 (612)
T ss_pred             cC
Confidence            54

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.

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

Probab=99.88  E-value=1.9e-21  Score=200.53  Aligned_cols=173  Identities=13%  Similarity=0.263  Sum_probs=137.5

Q ss_pred             hccceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCCcc
Q psy5142         116 DLIAQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLK  195 (410)
Q Consensus       116 ~~~~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~~  195 (410)
                      +...+||||+|||..+|+++|+++|++|    |.|..|+|+++..++    .++|||||+|.+.++|.+||.. +|  ..
T Consensus        86 ~~~~~~l~V~nlp~~~~~~~l~~~F~~~----G~v~~v~i~~d~~~~----~skg~afVeF~~~e~A~~Al~l-~g--~~  154 (457)
T TIGR01622        86 ERDDRTVFVLQLALKARERDLYEFFSKV----GKVRDVQCIKDRNSR----RSKGVAYVEFYDVESVIKALAL-TG--QM  154 (457)
T ss_pred             ccCCcEEEEeCCCCCCCHHHHHHHHHhc----CCeeEEEEeecCCCC----CcceEEEEEECCHHHHHHHHHh-CC--CE
Confidence            4567999999999999999999999999    999999999987765    8999999999999999999985 43  45


Q ss_pred             ccccccchhhhhhhhcccccccccCcccccchhhhchHHHHHHHHHHHHhhhhccccCccCCCCCCCCCCcccccCCCCC
Q psy5142         196 FNENCEHKNAEKFLNENKDKNLKFNENCEHSLLIKWQQEYHEEKKQEVRSKRDKSKKSTEGDGEGNTEGSKQVVLELPTG  275 (410)
Q Consensus       196 ~~~~~~~~~~~k~~~~~~~~~~~~~g~~~~~L~v~~k~~~~~~k~~e~~~~~~k~k~~~e~~~~~~~~~~~~~~~~~~~g  275 (410)
                      +                       .|   +.|.|........     ..        ...         ........+..
T Consensus       155 ~-----------------------~g---~~i~v~~~~~~~~-----~~--------~~~---------~~~~~~~~p~~  186 (457)
T TIGR01622       155 L-----------------------LG---RPIIVQSSQAEKN-----RA--------AKA---------ATHQPGDIPNF  186 (457)
T ss_pred             E-----------------------CC---eeeEEeecchhhh-----hh--------hhc---------ccccCCCCCCC
Confidence            5                       55   6666653211000     00        000         00001112336


Q ss_pred             eEEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCC------CceEEEEeCChhHHHHHHHHhcCCCeEEcCeEEEE
Q psy5142         276 ALLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVG------EPTAFVRYKKENNAEAVLKALGSKEIVIKDVKVSI  349 (410)
Q Consensus       276 ~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g------~~~afV~F~~~e~A~~Al~~l~~~~~~i~g~~v~v  349 (410)
                      ++|||.|||..+++++|+++|++||    .|..|.+..+      .++|||.|.+.++|.+|+..|  +++.|.|+.|.|
T Consensus       187 ~~l~v~nl~~~~te~~l~~~f~~~G----~i~~v~~~~d~~~g~~~g~afV~f~~~e~A~~A~~~l--~g~~i~g~~i~v  260 (457)
T TIGR01622       187 LKLYVGNLHFNITEQELRQIFEPFG----DIEDVQLHRDPETGRSKGFGFIQFHDAEEAKEALEVM--NGFELAGRPIKV  260 (457)
T ss_pred             CEEEEcCCCCCCCHHHHHHHHHhcC----CeEEEEEEEcCCCCccceEEEEEECCHHHHHHHHHhc--CCcEECCEEEEE
Confidence            7899999999999999999999999    9999988843      356999999999999999999  679999999999


Q ss_pred             EecC
Q psy5142         350 EVVT  353 (410)
Q Consensus       350 ~~l~  353 (410)
                      ....
T Consensus       261 ~~a~  264 (457)
T TIGR01622       261 GYAQ  264 (457)
T ss_pred             EEcc
Confidence            9865

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.

>TIGR01661 ELAV_HUD_SF ELAV/HuD family splicing factor

Probab=99.87  E-value=5.8e-21  Score=190.26  Aligned_cols=232  Identities=11%  Similarity=0.174  Sum_probs=148.9

Q ss_pred             cHHHHHHHHhhcCCceEEEecCccceecCCCCCCCCCchhhhhhccceeeEeecCCCCCCHHHHHHHHhhccCCCCceEE
Q psy5142          73 EAKVIVDALKKSTSKLIEVNEDGTKIRRNPEKELPTFDIDFVKDLIAQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITN  152 (410)
Q Consensus        73 d~~~i~~Al~~~~S~~levsed~~~vrR~~~~p~p~~~~~~~~~~~~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~  152 (410)
                      +.+....||.  .-+...+.....+|...  .|..       .....++|||+|||.++++++|+.+|++|    |.|..
T Consensus        54 ~~~~A~~Ai~--~l~g~~l~g~~i~v~~a--~~~~-------~~~~~~~l~v~~l~~~~~~~~l~~~f~~~----G~i~~  118 (352)
T TIGR01661        54 RPEDAEKAVN--SLNGLRLQNKTIKVSYA--RPSS-------DSIKGANLYVSGLPKTMTQHELESIFSPF----GQIIT  118 (352)
T ss_pred             cHHHHHHHHh--hcccEEECCeeEEEEee--cccc-------cccccceEEECCccccCCHHHHHHHHhcc----CCEEE
Confidence            3566667776  33344444333344322  1211       12346789999999999999999999999    99999


Q ss_pred             EEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCCccccccccchhhhhhhhcccccccccCcccccchhhhch
Q psy5142         153 IIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLKFNENCEHKNAEKFLNENKDKNLKFNENCEHSLLIKWQ  232 (410)
Q Consensus       153 v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~~~~~~~~~~~~~k~~~~~~~~~~~~~g~~~~~L~v~~k  232 (410)
                      +.++.+..++    .++|||||+|.+.++|+.|++.++|  ..+.+..                        ..|.+.+.
T Consensus       119 ~~~~~~~~~~----~~~g~~fv~f~~~~~A~~ai~~l~g--~~~~g~~------------------------~~i~v~~a  168 (352)
T TIGR01661       119 SRILSDNVTG----LSKGVGFIRFDKRDEADRAIKTLNG--TTPSGCT------------------------EPITVKFA  168 (352)
T ss_pred             EEEEecCCCC----CcCcEEEEEECCHHHHHHHHHHhCC--CccCCCc------------------------eeEEEEEC
Confidence            9998877654    7899999999999999999999997  3331110                        11111110


Q ss_pred             H--------HHHHHHHH----H-HH------------------hhh----hc------cccCccCC-CCC------CCC-
Q psy5142         233 Q--------EYHEEKKQ----E-VR------------------SKR----DK------SKKSTEGD-GEG------NTE-  263 (410)
Q Consensus       233 ~--------~~~~~k~~----e-~~------------------~~~----~k------~k~~~e~~-~~~------~~~-  263 (410)
                      .        .+......    . ..                  ...    ..      ........ ..+      ... 
T Consensus       169 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  248 (352)
T TIGR01661       169 NNPSSSNSKGLLSQLEAVQNPQTTRVPLSTILTAAGIGPMHHAAARFRPSAGDFTAVLAHQQQQHAVAQQHAAQRASPPA  248 (352)
T ss_pred             CCCCcCCchhcCchhhcccCcccCCCCccccccccCCCCccCcccccccCcchhhhhhhhhhhhcccccccccccCCCcc
Confidence            0        00000000    0 00                  000    00      00000000 000      000 


Q ss_pred             -CC--------cccccCCCCCeEEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCC------CceEEEEeCChhHH
Q psy5142         264 -GS--------KQVVLELPTGALLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVG------EPTAFVRYKKENNA  328 (410)
Q Consensus       264 -~~--------~~~~~~~~~g~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g------~~~afV~F~~~e~A  328 (410)
                       ..        .........+..|||.|||+++++++|+++|++||    .|..|.+..+      +++|||.|.+.++|
T Consensus       249 ~~~~~~~~~~~~~~~~~~~~~~~lfV~NL~~~~~e~~L~~~F~~fG----~v~~v~i~~d~~t~~skG~aFV~F~~~~~A  324 (352)
T TIGR01661       249 TDGQTAGLAAGAQIAASDGAGYCIFVYNLSPDTDETVLWQLFGPFG----AVQNVKIIRDLTTNQCKGYGFVSMTNYDEA  324 (352)
T ss_pred             ccccccccccCCCCCCCCCCCcEEEEeCCCCCCCHHHHHHHHHhCC----CeEEEEEeEcCCCCCccceEEEEECCHHHH
Confidence             00        00001123456899999999999999999999999    9999998864      35799999999999


Q ss_pred             HHHHHHhcCCCeEEcCeEEEEEecCch
Q psy5142         329 EAVLKALGSKEIVIKDVKVSIEVVTGE  355 (410)
Q Consensus       329 ~~Al~~l~~~~~~i~g~~v~v~~l~g~  355 (410)
                      ..|+..|  +|..++|+.|+|...+..
T Consensus       325 ~~Ai~~l--nG~~~~gr~i~V~~~~~~  349 (352)
T TIGR01661       325 AMAILSL--NGYTLGNRVLQVSFKTNK  349 (352)
T ss_pred             HHHHHHh--CCCEECCeEEEEEEccCC
Confidence            9999999  689999999999987654

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

>TIGR01661 ELAV_HUD_SF ELAV/HuD family splicing factor

Probab=99.87  E-value=1.7e-21  Score=194.01  Aligned_cols=159  Identities=18%  Similarity=0.333  Sum_probs=132.1

Q ss_pred             ceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCCccccc
Q psy5142         119 AQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLKFNE  198 (410)
Q Consensus       119 ~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~~~~~  198 (410)
                      ..+|||+|||.++|+++|+++|++|    |+|.+|+|++++.++    +++|||||+|.+.++|++||+.++|  ..+  
T Consensus         3 ~~~l~V~nLp~~~~e~~l~~~F~~~----G~i~~v~i~~d~~~g----~s~g~afV~f~~~~~A~~Ai~~l~g--~~l--   70 (352)
T TIGR01661         3 KTNLIVNYLPQTMTQEEIRSLFTSI----GEIESCKLVRDKVTG----QSLGYGFVNYVRPEDAEKAVNSLNG--LRL--   70 (352)
T ss_pred             CcEEEEeCCCCCCCHHHHHHHHHcc----CCEEEEEEEEcCCCC----ccceEEEEEECcHHHHHHHHhhccc--EEE--
Confidence            4799999999999999999999999    999999999987765    8999999999999999999999986  445  


Q ss_pred             cccchhhhhhhhcccccccccCcccccchhhhchHHHHHHHHHHHHhhhhccccCccCCCCCCCCCCcccccCCCCCeEE
Q psy5142         199 NCEHKNAEKFLNENKDKNLKFNENCEHSLLIKWQQEYHEEKKQEVRSKRDKSKKSTEGDGEGNTEGSKQVVLELPTGALL  278 (410)
Q Consensus       199 ~~~~~~~~k~~~~~~~~~~~~~g~~~~~L~v~~k~~~~~~k~~e~~~~~~k~k~~~e~~~~~~~~~~~~~~~~~~~g~~l  278 (410)
                                           .|   +.|.|.+...                                  ......++.|
T Consensus        71 ---------------------~g---~~i~v~~a~~----------------------------------~~~~~~~~~l   92 (352)
T TIGR01661        71 ---------------------QN---KTIKVSYARP----------------------------------SSDSIKGANL   92 (352)
T ss_pred             ---------------------CC---eeEEEEeecc----------------------------------cccccccceE
Confidence                                 66   7777764210                                  0012345689


Q ss_pred             EEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCC------CceEEEEeCChhHHHHHHHHhcCCCeEEcC--eEEEEE
Q psy5142         279 KISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVG------EPTAFVRYKKENNAEAVLKALGSKEIVIKD--VKVSIE  350 (410)
Q Consensus       279 ~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g------~~~afV~F~~~e~A~~Al~~l~~~~~~i~g--~~v~v~  350 (410)
                      +|.|||..+++++|+++|++||    .|..+.+...      .++|||+|.+.++|+.|+..|+  +..+.|  ..|.+.
T Consensus        93 ~v~~l~~~~~~~~l~~~f~~~G----~i~~~~~~~~~~~~~~~g~~fv~f~~~~~A~~ai~~l~--g~~~~g~~~~i~v~  166 (352)
T TIGR01661        93 YVSGLPKTMTQHELESIFSPFG----QIITSRILSDNVTGLSKGVGFIRFDKRDEADRAIKTLN--GTTPSGCTEPITVK  166 (352)
T ss_pred             EECCccccCCHHHHHHHHhccC----CEEEEEEEecCCCCCcCcEEEEEECCHHHHHHHHHHhC--CCccCCCceeEEEE
Confidence            9999999999999999999999    9988877643      3479999999999999999994  455655  566776


Q ss_pred             ecC
Q psy5142         351 VVT  353 (410)
Q Consensus       351 ~l~  353 (410)
                      ...
T Consensus       167 ~a~  169 (352)
T TIGR01661       167 FAN  169 (352)
T ss_pred             ECC
Confidence            654

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

>KOG0148|consensus

Probab=99.87  E-value=8.1e-22  Score=181.07  Aligned_cols=172  Identities=16%  Similarity=0.240  Sum_probs=142.9

Q ss_pred             ceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCCccccc
Q psy5142         119 AQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLKFNE  198 (410)
Q Consensus       119 ~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~~~~~  198 (410)
                      .-.|||+.|..+++-++|++.|.+|    |+|.+.+++||..++    ++|||+||.|-..++|+.||..++|   .|- 
T Consensus        62 hfhvfvgdls~eI~~e~lr~aF~pF----GevS~akvirD~~T~----KsKGYgFVSf~~k~dAEnAI~~MnG---qWl-  129 (321)
T KOG0148|consen   62 HFHVFVGDLSPEIDNEKLREAFAPF----GEVSDAKVIRDMNTG----KSKGYGFVSFPNKEDAENAIQQMNG---QWL-  129 (321)
T ss_pred             ceeEEehhcchhcchHHHHHHhccc----cccccceEeecccCC----cccceeEEeccchHHHHHHHHHhCC---eee-
Confidence            4579999999999999999999999    999999999999987    8999999999999999999999996   551 


Q ss_pred             cccchhhhhhhhcccccccccCcccccchhhhchHHHHHHHHHHHHhhhhccccCccCCCCCCCCCCcccccCCCCCeEE
Q psy5142         199 NCEHKNAEKFLNENKDKNLKFNENCEHSLLIKWQQEYHEEKKQEVRSKRDKSKKSTEGDGEGNTEGSKQVVLELPTGALL  278 (410)
Q Consensus       199 ~~~~~~~~k~~~~~~~~~~~~~g~~~~~L~v~~k~~~~~~k~~e~~~~~~k~k~~~e~~~~~~~~~~~~~~~~~~~g~~l  278 (410)
                                           ..   |.|+..|.    .+|..++..             ++.. -++.-....+.+|.|
T Consensus       130 ---------------------G~---R~IRTNWA----TRKp~e~n~-------------~~lt-fdeV~NQssp~NtsV  167 (321)
T KOG0148|consen  130 ---------------------GR---RTIRTNWA----TRKPSEMNG-------------KPLT-FDEVYNQSSPDNTSV  167 (321)
T ss_pred             ---------------------cc---ceeecccc----ccCccccCC-------------CCcc-HHHHhccCCCCCceE
Confidence                                 44   77777663    222211110             0000 001122356889999


Q ss_pred             EEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCCCceEEEEeCChhHHHHHHHHhcCCCeEEcCeEEEEE
Q psy5142         279 KISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVGEPTAFVRYKKENNAEAVLKALGSKEIVIKDVKVSIE  350 (410)
Q Consensus       279 ~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g~~~afV~F~~~e~A~~Al~~l~~~~~~i~g~~v~v~  350 (410)
                      |+.|++..++++.|+++|+.||    .|..|++-+..++|||+|.+.|+|..||..+  ++.+|.|+.|+..
T Consensus       168 Y~G~I~~~lte~~mr~~Fs~fG----~I~EVRvFk~qGYaFVrF~tkEaAahAIv~m--Nntei~G~~VkCs  233 (321)
T KOG0148|consen  168 YVGNIASGLTEDLMRQTFSPFG----PIQEVRVFKDQGYAFVRFETKEAAAHAIVQM--NNTEIGGQLVRCS  233 (321)
T ss_pred             EeCCcCccccHHHHHHhcccCC----cceEEEEecccceEEEEecchhhHHHHHHHh--cCceeCceEEEEe
Confidence            9999999999999999999999    9999999999999999999999999999999  6789999998774

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

Probab=99.86  E-value=1.8e-20  Score=198.32  Aligned_cols=187  Identities=19%  Similarity=0.279  Sum_probs=139.9

Q ss_pred             ccceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCCccc
Q psy5142         117 LIAQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLKF  196 (410)
Q Consensus       117 ~~~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~~~  196 (410)
                      ...++|||+|||.++|+++|+++|+.|    |.|.+|.+.++..+     ..+|||||+|.+.++|.+|++.++|  ..+
T Consensus       176 ~~~~~l~V~nl~~~~tee~L~~~F~~f----G~i~~~~i~~~~~g-----~~~G~afV~F~~~e~A~~Av~~l~g--~~i  244 (562)
T TIGR01628       176 KKFTNLYVKNLDPSVNEDKLRELFAKF----GEITSAAVMKDGSG-----RSRGFAFVNFEKHEDAAKAVEEMNG--KKI  244 (562)
T ss_pred             cCCCeEEEeCCCCcCCHHHHHHHHHhc----CCEEEEEEEECCCC-----CcccEEEEEECCHHHHHHHHHHhCC--cEe
Confidence            345789999999999999999999999    99999999988765     7899999999999999999999986  334


Q ss_pred             cccccchhhhhhhhcccccccccCcccccchhhhchHHHHHHHHHHHHhhhhccccCccCCCCCCCCCCcccccCCCCCe
Q psy5142         197 NENCEHKNAEKFLNENKDKNLKFNENCEHSLLIKWQQEYHEEKKQEVRSKRDKSKKSTEGDGEGNTEGSKQVVLELPTGA  276 (410)
Q Consensus       197 ~~~~~~~~~~k~~~~~~~~~~~~~g~~~~~L~v~~k~~~~~~k~~e~~~~~~k~k~~~e~~~~~~~~~~~~~~~~~~~g~  276 (410)
                      ...                   ..|   ..|.+.+.....+......... +..               .........++
T Consensus       245 ~~~-------------------~~g---~~l~v~~a~~k~er~~~~~~~~-~~~---------------~~~~~~~~~~~  286 (562)
T TIGR01628       245 GLA-------------------KEG---KKLYVGRAQKRAEREAELRRKF-EEL---------------QQERKMKAQGV  286 (562)
T ss_pred             ccc-------------------ccc---eeeEeecccChhhhHHHHHhhH-Hhh---------------hhhhhcccCCC
Confidence            100                   013   4444432111110000000000 000               00011234567


Q ss_pred             EEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCCC-----ceEEEEeCChhHHHHHHHHhcCCCeEEcCeEEEEEe
Q psy5142         277 LLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVGE-----PTAFVRYKKENNAEAVLKALGSKEIVIKDVKVSIEV  351 (410)
Q Consensus       277 ~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g~-----~~afV~F~~~e~A~~Al~~l~~~~~~i~g~~v~v~~  351 (410)
                      .|||.||++.+++++|+++|++||    .|..|.+..+.     ++|||.|.+.++|.+|+..|  ++..++|+.|.|.+
T Consensus       287 ~l~V~nl~~~~~~~~L~~~F~~~G----~i~~~~i~~d~~g~~~g~gfV~f~~~~~A~~A~~~~--~g~~~~gk~l~V~~  360 (562)
T TIGR01628       287 NLYVKNLDDTVTDEKLRELFSECG----EITSAKVMLDEKGVSRGFGFVCFSNPEEANRAVTEM--HGRMLGGKPLYVAL  360 (562)
T ss_pred             EEEEeCCCCccCHHHHHHHHHhcC----CeEEEEEEECCCCCcCCeEEEEeCCHHHHHHHHHHh--cCCeeCCceeEEEe
Confidence            899999999999999999999999    99999887643     57999999999999999999  67999999999999


Q ss_pred             cCchHHH
Q psy5142         352 VTGEEEQ  358 (410)
Q Consensus       352 l~g~eE~  358 (410)
                      +..+++.
T Consensus       361 a~~k~~~  367 (562)
T TIGR01628       361 AQRKEQR  367 (562)
T ss_pred             ccCcHHH
Confidence            8876655

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

>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=99.86  E-value=8.4e-22  Score=162.14  Aligned_cols=96  Identities=35%  Similarity=0.650  Sum_probs=71.3

Q ss_pred             CeEEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCCCceEEEEeCChhHHHHHHHHh---cCCCeEEcCeEEEEEe
Q psy5142         275 GALLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVGEPTAFVRYKKENNAEAVLKAL---GSKEIVIKDVKVSIEV  351 (410)
Q Consensus       275 g~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g~~~afV~F~~~e~A~~Al~~l---~~~~~~i~g~~v~v~~  351 (410)
                      ||+|+|.|++..+++++|+++|++||    .|.||||.+|..+|||||.++++|++|+..+   +++++.|++..+++++
T Consensus         1 G~il~~~g~~~~~~re~iK~~f~~~g----~V~yVD~~~G~~~g~VRf~~~~~A~~a~~~~~~~~~~~~~i~~~~~~~~v   76 (105)
T PF08777_consen    1 GCILKFSGLGEPTSREDIKEAFSQFG----EVAYVDFSRGDTEGYVRFKTPEAAQKALEKLKEANDGKLKIKGKEVTLEV   76 (105)
T ss_dssp             --EEEEEE--SS--HHHHHHHT-SS------EEEEE--TT-SEEEEEESS---HHHHHHHHHHTTTS-B-TTSSSEEEE-
T ss_pred             CeEEEEecCCCCcCHHHHHHHHHhcC----CcceEEecCCCCEEEEEECCcchHHHHHHHHHhccCCceEEcCceEEEEE
Confidence            68999999999999999999999999    9999999999999999999999999999999   3458999999999999


Q ss_pred             cCchHHHHHHHHhHHHHHHHHHh
Q psy5142         352 VTGEEEQTVLDRMKIDIFKRRQK  374 (410)
Q Consensus       352 l~g~eE~~yw~k~~~~~~~~~~~  374 (410)
                      |+|+||+.||++|.+++++++++
T Consensus        77 LeGeeE~~Yw~ki~e~~~~k~~~   99 (105)
T PF08777_consen   77 LEGEEEEEYWKKIIEDRQKKRNK   99 (105)
T ss_dssp             --HHHHHHHHHHHHHHHHHHH--
T ss_pred             CCCHHHHHHHHHHHHHHHHHHhc
Confidence            99999999999999999999877

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

>KOG0127|consensus

Probab=99.85  E-value=6.6e-20  Score=182.18  Aligned_cols=281  Identities=21%  Similarity=0.357  Sum_probs=184.6

Q ss_pred             HHHHHHHhCCCCCCCChhHHhhhccCC----CeEehHHHHhhHHHHhccCcHHHHHHHHhhcC--CceEEEecCccceec
Q psy5142          27 IEQIEYYFSDINLARDKFLQGEIKKDD----GWVELTTMLKFARLAKMTTEAKVIVDALKKST--SKLIEVNEDGTKIRR  100 (410)
Q Consensus        27 ~~QlEfYfsd~Nl~~D~fl~~~~~~~~----g~v~l~~l~~F~r~k~l~~d~~~i~~Al~~~~--S~~levsed~~~vrR  100 (410)
                      -.||+-+||+..=.+--|+...-..++    |||..+.+-.-+|          .+.-+.++.  --.|.|.....+.|.
T Consensus        19 ~~qL~e~FS~vGPik~~~vVt~~gs~~~RGfgfVtFam~ED~qr----------A~~e~~~~kf~Gr~l~v~~A~~R~r~   88 (678)
T KOG0127|consen   19 GEQLEEFFSYVGPIKHAVVVTNKGSSEKRGFGFVTFAMEEDVQR----------ALAETEQSKFEGRILNVDPAKKRARS   88 (678)
T ss_pred             hhHHHHhhhcccCcceeEEecCCCcccccCccceeeehHhHHHH----------HHHHhhcCcccceecccccccccccc
Confidence            369999999999999999887666532    7887766433222          222222111  112222222111111


Q ss_pred             C-------------CCCCCCCCchhhhhhccceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccc
Q psy5142         101 N-------------PEKELPTFDIDFVKDLIAQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKK  167 (410)
Q Consensus       101 ~-------------~~~p~p~~~~~~~~~~~~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~  167 (410)
                      .             ...+-|..   ...+.....|+|+|||+.+..++|+.+|+.|    |.|..|.||+..++     +
T Consensus        89 e~~~~~e~~~veK~~~q~~~~k---~~v~~~k~rLIIRNLPf~~k~~dLk~vFs~~----G~V~Ei~IP~k~dg-----k  156 (678)
T KOG0127|consen   89 EEVEKGENKAVEKPIEQKRPTK---AKVDLPKWRLIIRNLPFKCKKPDLKNVFSNF----GKVVEIVIPRKKDG-----K  156 (678)
T ss_pred             hhcccccchhhhcccccCCcch---hhccCccceEEeecCCcccCcHHHHHHHhhc----ceEEEEEcccCCCC-----C
Confidence            1             01111111   1112336789999999999999999999999    99999999988887     4


Q ss_pred             cccEEEEEecCHHHHHHHHHhcCCCCccccccccchhhhhhhhcccccccccCcccccchhhhch---HHHHHHHHHHHH
Q psy5142         168 FKGSIFVTFDNKENAEKFLNENKDKNLKFNENCEHKNAEKFLNENKDKNLKFNENCEHSLLIKWQ---QEYHEEKKQEVR  244 (410)
Q Consensus       168 ~kG~afVeF~~~e~A~~Al~~~~g~~~~~~~~~~~~~~~k~~~~~~~~~~~~~g~~~~~L~v~~k---~~~~~~k~~e~~  244 (410)
                      ..|||||.|.+..+|.+|++.+++  .++                       .|   +++-|.|.   ..|......+..
T Consensus       157 lcGFaFV~fk~~~dA~~Al~~~N~--~~i-----------------------~g---R~VAVDWAV~Kd~ye~ta~~~~~  208 (678)
T KOG0127|consen  157 LCGFAFVQFKEKKDAEKALEFFNG--NKI-----------------------DG---RPVAVDWAVDKDTYEDTAHEEKQ  208 (678)
T ss_pred             ccceEEEEEeeHHHHHHHHHhccC--cee-----------------------cC---ceeEEeeecccccccccchhhhh
Confidence            569999999999999999999997  455                       66   78877773   233331111100


Q ss_pred             hhh-------------hccc----------cCccC--CCC------------------CCC----CCCc------ccccC
Q psy5142         245 SKR-------------DKSK----------KSTEG--DGE------------------GNT----EGSK------QVVLE  271 (410)
Q Consensus       245 ~~~-------------~k~k----------~~~e~--~~~------------------~~~----~~~~------~~~~~  271 (410)
                      ..+             +..+          ...++  +..                  +..    ....      .....
T Consensus       209 s~Kk~~~eEed~e~~~d~~~~~~~Ed~e~d~edeEe~D~~se~~ee~~~~Eee~~~vDd~e~S~~~~~~k~~q~k~~~en  288 (678)
T KOG0127|consen  209 SLKKAVKEEEDKEADEDDGKDFDEEDGEEDSEDEEETDGNSEAFEEGEESEEEEDDVDDEESSGKKESDKKAQNKTTREN  288 (678)
T ss_pred             hhhhccchhhhcccccccccccchhcccccccccccccccchhhhccccccccccccccccccccCcccchhcccccccc
Confidence            000             0000          00000  000                  000    0000      00112


Q ss_pred             CCCCeEEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCC------CceEEEEeCChhHHHHHHHHh----cCCCeE
Q psy5142         272 LPTGALLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVG------EPTAFVRYKKENNAEAVLKAL----GSKEIV  341 (410)
Q Consensus       272 ~~~g~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g------~~~afV~F~~~e~A~~Al~~l----~~~~~~  341 (410)
                      ...+.+|||+|||++++++.|+++|++||    +|.|+.++..      .++|||.|.++.+|.+||.+.    .++++.
T Consensus       289 ~~~~~tVFvRNL~fD~tEEel~~~fskFG----~v~ya~iV~~k~T~~skGtAFv~Fkt~~~~~~ci~~Aspa~e~g~~l  364 (678)
T KOG0127|consen  289 ITEGKTVFVRNLPFDTTEEELKEHFSKFG----EVKYAIIVKDKDTGHSKGTAFVKFKTQIAAQNCIEAASPASEDGSVL  364 (678)
T ss_pred             ccccceEEEecCCccccHHHHHHHHHhhc----cceeEEEEeccCCCCcccceEEEeccHHHHHHHHHhcCccCCCceEE
Confidence            34468999999999999999999999999    9999877753      346999999999999999998    455599


Q ss_pred             EcCeEEEEEecCchHHHHHH
Q psy5142         342 IKDVKVSIEVVTGEEEQTVL  361 (410)
Q Consensus       342 i~g~~v~v~~l~g~eE~~yw  361 (410)
                      |.|+.|+|.++-+..|..-+
T Consensus       365 l~GR~Lkv~~Av~RkeA~dm  384 (678)
T KOG0127|consen  365 LDGRLLKVTLAVTRKEAADM  384 (678)
T ss_pred             EeccEEeeeeccchHHHHHH
Confidence            99999999999888887644

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

Probab=99.85  E-value=1.9e-20  Score=198.05  Aligned_cols=158  Identities=20%  Similarity=0.295  Sum_probs=132.3

Q ss_pred             eeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCCccccccc
Q psy5142         121 SLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLKFNENC  200 (410)
Q Consensus       121 tv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~~~~~~~  200 (410)
                      +|||+|||.++|+++|.++|++|    |.|.+|+|.++..++    +++|||||+|.+.++|++|++.+++  ..+    
T Consensus         2 sl~VgnLp~~vte~~L~~~F~~~----G~v~~v~v~~d~~t~----~s~G~afV~F~~~~~A~~Al~~ln~--~~i----   67 (562)
T TIGR01628         2 SLYVGDLDPDVTEAKLYDLFKPF----GPVLSVRVCRDSVTR----RSLGYGYVNFQNPADAERALETMNF--KRL----   67 (562)
T ss_pred             eEEEeCCCCCCCHHHHHHHHHhc----CCEEEEEEEecCCCC----CcceEEEEEECCHHHHHHHHHHhCC--CEE----
Confidence            79999999999999999999999    999999999998865    8999999999999999999999884  335    


Q ss_pred             cchhhhhhhhcccccccccCcccccchhhhchHHHHHHHHHHHHhhhhccccCccCCCCCCCCCCcccccCCCCCeEEEE
Q psy5142         201 EHKNAEKFLNENKDKNLKFNENCEHSLLIKWQQEYHEEKKQEVRSKRDKSKKSTEGDGEGNTEGSKQVVLELPTGALLKI  280 (410)
Q Consensus       201 ~~~~~~k~~~~~~~~~~~~~g~~~~~L~v~~k~~~~~~k~~e~~~~~~k~k~~~e~~~~~~~~~~~~~~~~~~~g~~l~v  280 (410)
                                         .|   +.|+|.|...-.                                .........|||
T Consensus        68 -------------------~g---k~i~i~~s~~~~--------------------------------~~~~~~~~~vfV   93 (562)
T TIGR01628        68 -------------------GG---KPIRIMWSQRDP--------------------------------SLRRSGVGNIFV   93 (562)
T ss_pred             -------------------CC---eeEEeecccccc--------------------------------cccccCCCceEE
Confidence                               66   888887632100                                000111236999


Q ss_pred             eCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCC-----CceEEEEeCChhHHHHHHHHhcCCCeEEcCeEEEEEec
Q psy5142         281 SDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVG-----EPTAFVRYKKENNAEAVLKALGSKEIVIKDVKVSIEVV  352 (410)
Q Consensus       281 ~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g-----~~~afV~F~~~e~A~~Al~~l~~~~~~i~g~~v~v~~l  352 (410)
                      .|||.++++++|+++|++||    .|..|.+..+     +++|||+|.+.++|.+|++.+  ++..++|+.|.+...
T Consensus        94 ~nLp~~~~~~~L~~~F~~~G----~i~~~~i~~~~~g~skg~afV~F~~~e~A~~Ai~~l--ng~~~~~~~i~v~~~  164 (562)
T TIGR01628        94 KNLDKSVDNKALFDTFSKFG----NILSCKVATDENGKSRGYGFVHFEKEESAKAAIQKV--NGMLLNDKEVYVGRF  164 (562)
T ss_pred             cCCCccCCHHHHHHHHHhcC----CcceeEeeecCCCCcccEEEEEECCHHHHHHHHHHh--cccEecCceEEEecc
Confidence            99999999999999999999    8988887653     457999999999999999999  678889988887543

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

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

Probab=99.81  E-value=6.4e-19  Score=184.10  Aligned_cols=186  Identities=18%  Similarity=0.241  Sum_probs=128.2

Q ss_pred             hhccceeeEeecCCCCCCHHHHHHHHhhccCC--------CCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHH
Q psy5142         115 KDLIAQSLYVKYIPVDATLDDIKDFFKKNTSE--------DVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFL  186 (410)
Q Consensus       115 ~~~~~rtv~V~~lp~~~t~~~L~~~F~~~~~~--------~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al  186 (410)
                      .....|+|||+|||+++|+++|.+||++++..        .+.|.+|.+.          ..+|||||+|.+.++|..||
T Consensus       171 ~~~~~r~lyVgnLp~~~t~~~l~~~F~~~~~~~~~~~~~~~~~v~~~~~~----------~~kg~afVeF~~~e~A~~Al  240 (509)
T TIGR01642       171 ATRQARRLYVGGIPPEFVEEAVVDFFNDLMIATGYHKAEDGKHVSSVNIN----------KEKNFAFLEFRTVEEATFAM  240 (509)
T ss_pred             CCccccEEEEeCCCCCCCHHHHHHHHHHHHHhcCCCCCCCCCceEEEEEC----------CCCCEEEEEeCCHHHHhhhh
Confidence            35678999999999999999999999985210        1345555543          46899999999999999999


Q ss_pred             HhcCCCCccccccccchhhhhhhhcccccccccCcccccchhhhchHHHHHHHHHHHHhhhhccccCccCCCCCCCCC--
Q psy5142         187 NENKDKNLKFNENCEHKNAEKFLNENKDKNLKFNENCEHSLLIKWQQEYHEEKKQEVRSKRDKSKKSTEGDGEGNTEG--  264 (410)
Q Consensus       187 ~~~~g~~~~~~~~~~~~~~~k~~~~~~~~~~~~~g~~~~~L~v~~k~~~~~~k~~e~~~~~~k~k~~~e~~~~~~~~~--  264 (410)
                      + ++|  +.|                       .|   ..|.|....+|.......       ...............  
T Consensus       241 ~-l~g--~~~-----------------------~g---~~l~v~r~~~~~~~~~~~-------~~~~~~~~~~~~~~~~~  284 (509)
T TIGR01642       241 A-LDS--IIY-----------------------SN---VFLKIRRPHDYIPVPQIT-------PEVSQKNPDDNAKNVEK  284 (509)
T ss_pred             c-CCC--eEe-----------------------eC---ceeEecCccccCCccccC-------CCCCCCCCccccccccc
Confidence            5 665  556                       55   666654333332100000       000000000000000  


Q ss_pred             CcccccCCCCCeEEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCC------CceEEEEeCChhHHHHHHHHhcCC
Q psy5142         265 SKQVVLELPTGALLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVG------EPTAFVRYKKENNAEAVLKALGSK  338 (410)
Q Consensus       265 ~~~~~~~~~~g~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g------~~~afV~F~~~e~A~~Al~~l~~~  338 (410)
                      .............|||.|||..+++++|+++|+.||    .|..+.+..+      .++|||.|.+.++|..|+..|  +
T Consensus       285 ~~~~~~~~~~~~~l~v~nlp~~~~~~~l~~~f~~~G----~i~~~~~~~~~~~g~~~g~afv~f~~~~~a~~A~~~l--~  358 (509)
T TIGR01642       285 LVNSTTVLDSKDRIYIGNLPLYLGEDQIKELLESFG----DLKAFNLIKDIATGLSKGYAFCEYKDPSVTDVAIAAL--N  358 (509)
T ss_pred             ccccccCCCCCCEEEEeCCCCCCCHHHHHHHHHhcC----CeeEEEEEecCCCCCcCeEEEEEECCHHHHHHHHHHc--C
Confidence            000111223457899999999999999999999999    8988877643      457999999999999999999  6


Q ss_pred             CeEEcCeEEEEEec
Q psy5142         339 EIVIKDVKVSIEVV  352 (410)
Q Consensus       339 ~~~i~g~~v~v~~l  352 (410)
                      +..|+|+.|.|..+
T Consensus       359 g~~~~~~~l~v~~a  372 (509)
T TIGR01642       359 GKDTGDNKLHVQRA  372 (509)
T ss_pred             CCEECCeEEEEEEC
Confidence            88999999988876

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

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

Probab=99.80  E-value=9.9e-19  Score=181.46  Aligned_cols=166  Identities=14%  Similarity=0.191  Sum_probs=124.5

Q ss_pred             ceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCCccccc
Q psy5142         119 AQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLKFNE  198 (410)
Q Consensus       119 ~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~~~~~  198 (410)
                      .++|||+|||+++|+++|+++|++|    |.|.+|.|++          .+|+|||+|.+.++|++|++.++.....+  
T Consensus         2 s~vv~V~nLp~~~te~~L~~~f~~f----G~V~~v~i~~----------~k~~afVef~~~e~A~~Ai~~~~~~~~~l--   65 (481)
T TIGR01649         2 SPVVHVRNLPQDVVEADLVEALIPF----GPVSYVMMLP----------GKRQALVEFEDEESAKACVNFATSVPIYI--   65 (481)
T ss_pred             ccEEEEcCCCCCCCHHHHHHHHHhc----CCeeEEEEEC----------CCCEEEEEeCchHHHHHHHHHhhcCCceE--
Confidence            5899999999999999999999999    9999999873          46899999999999999998753212445  


Q ss_pred             cccchhhhhhhhcccccccccCcccccchhhhchHHHHHHHHHHHHhhhhccccCccCCCCCCCCCCcccccCCCCCeEE
Q psy5142         199 NCEHKNAEKFLNENKDKNLKFNENCEHSLLIKWQQEYHEEKKQEVRSKRDKSKKSTEGDGEGNTEGSKQVVLELPTGALL  278 (410)
Q Consensus       199 ~~~~~~~~k~~~~~~~~~~~~~g~~~~~L~v~~k~~~~~~k~~e~~~~~~k~k~~~e~~~~~~~~~~~~~~~~~~~g~~l  278 (410)
                                           .|   +.|.|.+...-.                 .......     .........-..|
T Consensus        66 ---------------------~g---~~l~v~~s~~~~-----------------~~~~~~~-----~~~~~~~~~~~~v   99 (481)
T TIGR01649        66 ---------------------RG---QPAFFNYSTSQE-----------------IKRDGNS-----DFDSAGPNKVLRV   99 (481)
T ss_pred             ---------------------cC---eEEEEEecCCcc-----------------cccCCCC-----cccCCCCCceEEE
Confidence                                 66   888887531100                 0000000     0000011223578


Q ss_pred             EEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCCCc--eEEEEeCChhHHHHHHHHhcCCCeEEcC--eEEEEEec
Q psy5142         279 KISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVGEP--TAFVRYKKENNAEAVLKALGSKEIVIKD--VKVSIEVV  352 (410)
Q Consensus       279 ~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g~~--~afV~F~~~e~A~~Al~~l~~~~~~i~g--~~v~v~~l  352 (410)
                      +|.||++.+++++|+++|+.||    .|..|.+.+...  .|||+|.+.++|.+|++.|  ++..|.|  ..|+|...
T Consensus       100 ~v~nl~~~vt~~~L~~~F~~~G----~V~~v~i~~~~~~~~afVef~~~~~A~~A~~~L--ng~~i~~~~~~l~v~~s  171 (481)
T TIGR01649       100 IVENPMYPITLDVLYQIFNPYG----KVLRIVTFTKNNVFQALVEFESVNSAQHAKAAL--NGADIYNGCCTLKIEYA  171 (481)
T ss_pred             EEcCCCCCCCHHHHHHHHhccC----CEEEEEEEecCCceEEEEEECCHHHHHHHHHHh--cCCcccCCceEEEEEEe
Confidence            9999999999999999999999    999998876554  6999999999999999999  4566643  45666544

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).

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

Probab=99.79  E-value=5.2e-18  Score=177.29  Aligned_cols=188  Identities=11%  Similarity=0.130  Sum_probs=130.7

Q ss_pred             cceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCCcccc
Q psy5142         118 IAQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLKFN  197 (410)
Q Consensus       118 ~~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~~~~  197 (410)
                      ..++|||+|||+.+|+++|+++|+.|    |.|..+.|+++..++    .++|||||+|.+.++|..|+..++|  ..+ 
T Consensus       294 ~~~~l~v~nlp~~~~~~~l~~~f~~~----G~i~~~~~~~~~~~g----~~~g~afv~f~~~~~a~~A~~~l~g--~~~-  362 (509)
T TIGR01642       294 SKDRIYIGNLPLYLGEDQIKELLESF----GDLKAFNLIKDIATG----LSKGYAFCEYKDPSVTDVAIAALNG--KDT-  362 (509)
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhc----CCeeEEEEEecCCCC----CcCeEEEEEECCHHHHHHHHHHcCC--CEE-
Confidence            35799999999999999999999999    999999999887665    7899999999999999999999997  445 


Q ss_pred             ccccchhhhhhhhcccccccccCcccccchhhhchHHHHHHHHHHHHhhhhccccCccCCCCCCCCCCcccccCCCCCeE
Q psy5142         198 ENCEHKNAEKFLNENKDKNLKFNENCEHSLLIKWQQEYHEEKKQEVRSKRDKSKKSTEGDGEGNTEGSKQVVLELPTGAL  277 (410)
Q Consensus       198 ~~~~~~~~~k~~~~~~~~~~~~~g~~~~~L~v~~k~~~~~~k~~e~~~~~~k~k~~~e~~~~~~~~~~~~~~~~~~~g~~  277 (410)
                                            .|   +.|.|.+.......      ...........-.................+..+
T Consensus       363 ----------------------~~---~~l~v~~a~~~~~~------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~s~v  411 (509)
T TIGR01642       363 ----------------------GD---NKLHVQRACVGANQ------ATIDTSNGMAPVTLLAKALSQSILQIGGKPTKV  411 (509)
T ss_pred             ----------------------CC---eEEEEEECccCCCC------CCccccccccccccccccchhhhccccCCCceE
Confidence                                  44   45544431100000      000000000000000000000000011234568


Q ss_pred             EEEeCCCCC--C--------CHHHHHHHHHhcCCCCCCeeEEEeeCC---------CceEEEEeCChhHHHHHHHHhcCC
Q psy5142         278 LKISDIKEP--V--------SREDIREVLEKVQTDDQEIVFIEFNVG---------EPTAFVRYKKENNAEAVLKALGSK  338 (410)
Q Consensus       278 l~v~nL~~~--~--------t~edLk~~F~~~G~~~~~V~~V~~~~g---------~~~afV~F~~~e~A~~Al~~l~~~  338 (410)
                      |+|.|+...  +        ..++|+++|++||    .|..|.+++.         .+.|||+|.+.++|++|+.+|  +
T Consensus       412 ~~l~N~~~~~~l~~d~~~~~~~edl~~~f~~~G----~v~~v~i~~~~~~~~~~~~~G~~fV~F~~~e~A~~A~~~l--n  485 (509)
T TIGR01642       412 VQLTNLVTGDDLMDDEEYEEIYEDVKTEFSKYG----PLINIVIPRPNGDRNSTPGVGKVFLEYADVRSAEKAMEGM--N  485 (509)
T ss_pred             EEeccCCchhHhcCcchHHHHHHHHHHHHHhcC----CeeEEEeeccCcCCCcCCCcceEEEEECCHHHHHHHHHHc--C
Confidence            889997531  1        2368999999999    9999988753         356899999999999999999  7


Q ss_pred             CeEEcCeEEEEEecC
Q psy5142         339 EIVIKDVKVSIEVVT  353 (410)
Q Consensus       339 ~~~i~g~~v~v~~l~  353 (410)
                      |..++|+.|.+....
T Consensus       486 Gr~~~gr~v~~~~~~  500 (509)
T TIGR01642       486 GRKFNDRVVVAAFYG  500 (509)
T ss_pred             CCEECCeEEEEEEeC
Confidence            899999999999876

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

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

Probab=99.78  E-value=5.4e-18  Score=175.95  Aligned_cols=187  Identities=15%  Similarity=0.167  Sum_probs=127.8

Q ss_pred             cceeeEeecCCC-CCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCCccc
Q psy5142         118 IAQSLYVKYIPV-DATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLKF  196 (410)
Q Consensus       118 ~~rtv~V~~lp~-~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~~~  196 (410)
                      ..++|||+|||+ .+|+++|+++|+.|    |.|.+|.+.++         .+|+|||+|.+.++|..|+..++|  ..+
T Consensus       274 ~~~~l~v~nL~~~~vt~~~L~~lF~~y----G~V~~vki~~~---------~~g~afV~f~~~~~A~~Ai~~lng--~~l  338 (481)
T TIGR01649       274 PGSVLMVSGLHQEKVNCDRLFNLFCVY----GNVERVKFMKN---------KKETALIEMADPYQAQLALTHLNG--VKL  338 (481)
T ss_pred             CCCEEEEeCCCCCCCCHHHHHHHHHhc----CCeEEEEEEeC---------CCCEEEEEECCHHHHHHHHHHhCC--CEE
Confidence            457999999998 69999999999999    99999998763         369999999999999999999996  455


Q ss_pred             cccccchhhhhhhhcccccccccCcccccchhhhchHHHHHHHHHHHHhhhhccccCccCCC---CCCCC-CCcccccCC
Q psy5142         197 NENCEHKNAEKFLNENKDKNLKFNENCEHSLLIKWQQEYHEEKKQEVRSKRDKSKKSTEGDG---EGNTE-GSKQVVLEL  272 (410)
Q Consensus       197 ~~~~~~~~~~k~~~~~~~~~~~~~g~~~~~L~v~~k~~~~~~k~~e~~~~~~k~k~~~e~~~---~~~~~-~~~~~~~~~  272 (410)
                                             .|   +.|.|.+...-......+.. .........+-..   ..... .........
T Consensus       339 -----------------------~g---~~l~v~~s~~~~~~~~~~~~-~~~~~~~~~d~~~~~~~r~~~~~~~~~~~~~  391 (481)
T TIGR01649       339 -----------------------FG---KPLRVCPSKQQNVQPPREGQ-LDDGLTSYKDYSSSRNHRFKKPGSANKNNIQ  391 (481)
T ss_pred             -----------------------CC---ceEEEEEcccccccCCCCCc-CcCCCcccccccCCccccCCCcccccccccC
Confidence                                   44   55555431100000000000 0000000000000   00000 000001124


Q ss_pred             CCCeEEEEeCCCCCCCHHHHHHHHHhcCCCCCC--eeEEEeeCCC----ceEEEEeCChhHHHHHHHHhcCCCeEEcCeE
Q psy5142         273 PTGALLKISDIKEPVSREDIREVLEKVQTDDQE--IVFIEFNVGE----PTAFVRYKKENNAEAVLKALGSKEIVIKDVK  346 (410)
Q Consensus       273 ~~g~~l~v~nL~~~~t~edLk~~F~~~G~~~~~--V~~V~~~~g~----~~afV~F~~~e~A~~Al~~l~~~~~~i~g~~  346 (410)
                      ++..+|+|.|||+.+++++|+++|+.||    .  |..|.+.+..    +.|||+|.+.++|.+||..|  ++..|+++.
T Consensus       392 ~ps~~L~v~NLp~~~tee~L~~lF~~~G----~~~i~~ik~~~~~~~~~~~gfVeF~~~e~A~~Al~~l--n~~~l~~~~  465 (481)
T TIGR01649       392 PPSATLHLSNIPLSVSEEDLKELFAENG----VHKVKKFKFFPKDNERSKMGLLEWESVEDAVEALIAL--NHHQLNEPN  465 (481)
T ss_pred             CCCcEEEEecCCCCCCHHHHHHHHHhcC----CccceEEEEecCCCCcceeEEEEcCCHHHHHHHHHHh--cCCccCCCC
Confidence            5678999999999999999999999999    6  7777776543    67999999999999999999  678888774


Q ss_pred             ------EEEEec
Q psy5142         347 ------VSIEVV  352 (410)
Q Consensus       347 ------v~v~~l  352 (410)
                            |+|...
T Consensus       466 ~~~~~~lkv~fs  477 (481)
T TIGR01649       466 GSAPYHLKVSFS  477 (481)
T ss_pred             CCccceEEEEec
Confidence                  666643

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).

>KOG0145|consensus

Probab=99.78  E-value=8.6e-19  Score=160.26  Aligned_cols=165  Identities=17%  Similarity=0.304  Sum_probs=132.3

Q ss_pred             ccceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCCccc
Q psy5142         117 LIAQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLKF  196 (410)
Q Consensus       117 ~~~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~~~  196 (410)
                      .....|+|..||..+|+|+|+.+|+..    |+|+++.+.|++-++    .+-||+||.|.+++||++|+..++|  +.+
T Consensus        39 ~skTNLIvNYLPQ~MTqdE~rSLF~Si----GeiEScKLvRDKitG----qSLGYGFVNYv~p~DAe~AintlNG--LrL  108 (360)
T KOG0145|consen   39 ESKTNLIVNYLPQNMTQDELRSLFGSI----GEIESCKLVRDKITG----QSLGYGFVNYVRPKDAEKAINTLNG--LRL  108 (360)
T ss_pred             cccceeeeeecccccCHHHHHHHhhcc----cceeeeeeeeccccc----cccccceeeecChHHHHHHHhhhcc--eee
Confidence            345679999999999999999999999    999999999999887    8999999999999999999999997  666


Q ss_pred             cccccchhhhhhhhcccccccccCcccccchhhhchHHHHHHHHHHHHhhhhccccCccCCCCCCCCCCcccccCCCCCe
Q psy5142         197 NENCEHKNAEKFLNENKDKNLKFNENCEHSLLIKWQQEYHEEKKQEVRSKRDKSKKSTEGDGEGNTEGSKQVVLELPTGA  276 (410)
Q Consensus       197 ~~~~~~~~~~k~~~~~~~~~~~~~g~~~~~L~v~~k~~~~~~k~~e~~~~~~k~k~~~e~~~~~~~~~~~~~~~~~~~g~  276 (410)
                                             ..   +.|+|...                                  .++....++.
T Consensus       109 -----------------------Q~---KTIKVSyA----------------------------------RPSs~~Ik~a  128 (360)
T KOG0145|consen  109 -----------------------QN---KTIKVSYA----------------------------------RPSSDSIKDA  128 (360)
T ss_pred             -----------------------cc---ceEEEEec----------------------------------cCChhhhccc
Confidence                                   44   55666531                                  1223456788


Q ss_pred             EEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeE----EEeeCC--CceEEEEeCChhHHHHHHHHhcCCCeEEcCeEEEEE
Q psy5142         277 LLKISDIKEPVSREDIREVLEKVQTDDQEIVF----IEFNVG--EPTAFVRYKKENNAEAVLKALGSKEIVIKDVKVSIE  350 (410)
Q Consensus       277 ~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~----V~~~~g--~~~afV~F~~~e~A~~Al~~l~~~~~~i~g~~v~v~  350 (410)
                      .|||.|||..+|..+|.++|++||    .|..    ||-..|  ++.|||||+...+|+.||..||+..-.-...+|+|.
T Consensus       129 NLYvSGlPktMtqkelE~iFs~fG----rIItSRiL~dqvtg~srGVgFiRFDKr~EAe~AIk~lNG~~P~g~tepItVK  204 (360)
T KOG0145|consen  129 NLYVSGLPKTMTQKELEQIFSPFG----RIITSRILVDQVTGLSRGVGFIRFDKRIEAEEAIKGLNGQKPSGCTEPITVK  204 (360)
T ss_pred             ceEEecCCccchHHHHHHHHHHhh----hhhhhhhhhhcccceecceeEEEecchhHHHHHHHhccCCCCCCCCCCeEEE
Confidence            999999999999999999999999    6533    233333  346999999999999999999543322234577777


Q ss_pred             ecCch
Q psy5142         351 VVTGE  355 (410)
Q Consensus       351 ~l~g~  355 (410)
                      ...-.
T Consensus       205 FannP  209 (360)
T KOG0145|consen  205 FANNP  209 (360)
T ss_pred             ecCCc
Confidence            66544

>KOG0131|consensus

Probab=99.76  E-value=3e-18  Score=149.46  Aligned_cols=165  Identities=13%  Similarity=0.162  Sum_probs=132.6

Q ss_pred             cceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCCcccc
Q psy5142         118 IAQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLKFN  197 (410)
Q Consensus       118 ~~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~~~~  197 (410)
                      ...||||+||+..++++-|.++|-+.    |+|.+|+||++.-+.    .++|||||+|.++|+|+-|++-++.  +++ 
T Consensus         8 qd~tiyvgnld~kvs~~~l~EL~iqa----gpVv~i~iPkDrv~~----~~qGygF~Ef~~eedadYAikiln~--VkL-   76 (203)
T KOG0131|consen    8 QDATLYVGNLDEKVSEELLYELFIQA----GPVVNLHIPKDRVTQ----KHQGYGFAEFRTEEDADYAIKILNM--VKL-   76 (203)
T ss_pred             CCceEEEecCCHHHHHHHHHHHHHhc----Cceeeeecchhhhcc----cccceeEEEEechhhhHHHHHHHHH--HHh-
Confidence            35799999999999999999999999    999999999998875    6999999999999999999999984  555 


Q ss_pred             ccccchhhhhhhhcccccccccCcccccchhhhchHHHHHHHHHHHHhhhhccccCccCCCCCCCCCCcccccCCCCCeE
Q psy5142         198 ENCEHKNAEKFLNENKDKNLKFNENCEHSLLIKWQQEYHEEKKQEVRSKRDKSKKSTEGDGEGNTEGSKQVVLELPTGAL  277 (410)
Q Consensus       198 ~~~~~~~~~k~~~~~~~~~~~~~g~~~~~L~v~~k~~~~~~k~~e~~~~~~k~k~~~e~~~~~~~~~~~~~~~~~~~g~~  277 (410)
                                            -|   ++|+|....                                 .......-|..
T Consensus        77 ----------------------Yg---rpIrv~kas---------------------------------~~~~nl~vgan   98 (203)
T KOG0131|consen   77 ----------------------YG---RPIRVNKAS---------------------------------AHQKNLDVGAN   98 (203)
T ss_pred             ----------------------cC---ceeEEEecc---------------------------------ccccccccccc
Confidence                                  66   888875211                                 01123455689


Q ss_pred             EEEeCCCCCCCHHHHHHHHHhcCCCC--CCeeEEEe-eCCCceEEEEeCChhHHHHHHHHhcCCCeEEcCeEEEEEecC
Q psy5142         278 LKISDIKEPVSREDIREVLEKVQTDD--QEIVFIEF-NVGEPTAFVRYKKENNAEAVLKALGSKEIVIKDVKVSIEVVT  353 (410)
Q Consensus       278 l~v~nL~~~~t~edLk~~F~~~G~~~--~~V~~V~~-~~g~~~afV~F~~~e~A~~Al~~l~~~~~~i~g~~v~v~~l~  353 (410)
                      |||.||.+.+++..|.++|+.||.-.  -+|..... ....+.|||.|.+.+.+.+|+..|  ++..++++.+++...-
T Consensus        99 lfvgNLd~~vDe~~L~dtFsafG~l~~~P~i~rd~~tg~~~~~g~i~~~sfeasd~ai~s~--ngq~l~nr~itv~ya~  175 (203)
T KOG0131|consen   99 LFVGNLDPEVDEKLLYDTFSAFGVLISPPKIMRDPDTGNPKGFGFINYASFEASDAAIGSM--NGQYLCNRPITVSYAF  175 (203)
T ss_pred             ccccccCcchhHHHHHHHHHhccccccCCcccccccCCCCCCCeEEechhHHHHHHHHHHh--ccchhcCCceEEEEEE
Confidence            99999999999999999999999110  11221111 123447999999999999999999  6788899999998753

>KOG0144|consensus

Probab=99.75  E-value=6.3e-18  Score=164.19  Aligned_cols=172  Identities=19%  Similarity=0.303  Sum_probs=134.1

Q ss_pred             hccceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCCcc
Q psy5142         116 DLIAQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLK  195 (410)
Q Consensus       116 ~~~~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~~  195 (410)
                      +.+.-.+||+.+|..+++.||+.+|++|    |.|..|.|++|+.++    .++|||||.|.+.++|.+|+..+++. .+
T Consensus        31 d~~~vKlfVgqIprt~sE~dlr~lFe~y----g~V~einl~kDk~t~----~s~gcCFv~~~trk~a~~a~~Alhn~-kt  101 (510)
T KOG0144|consen   31 DGSAVKLFVGQIPRTASEKDLRELFEKY----GNVYEINLIKDKSTG----QSKGCCFVKYYTRKEADEAINALHNQ-KT  101 (510)
T ss_pred             CchhhhheeccCCccccHHHHHHHHHHh----CceeEEEeecccccC----cccceEEEEeccHHHHHHHHHHhhcc-cc
Confidence            3556789999999999999999999999    999999999999987    89999999999999999999999852 23


Q ss_pred             ccccccchhhhhhhhcccccccccCcccccchhhhchHHHHHHHHHHHHhhhhccccCccCCCCCCCCCCcccccCCCCC
Q psy5142         196 FNENCEHKNAEKFLNENKDKNLKFNENCEHSLLIKWQQEYHEEKKQEVRSKRDKSKKSTEGDGEGNTEGSKQVVLELPTG  275 (410)
Q Consensus       196 ~~~~~~~~~~~k~~~~~~~~~~~~~g~~~~~L~v~~k~~~~~~k~~e~~~~~~k~k~~~e~~~~~~~~~~~~~~~~~~~g  275 (410)
                      +                       .|. -.++.+...+.       |                          ....+..
T Consensus       102 l-----------------------pG~-~~pvqvk~Ad~-------E--------------------------~er~~~e  124 (510)
T KOG0144|consen  102 L-----------------------PGM-HHPVQVKYADG-------E--------------------------RERIVEE  124 (510)
T ss_pred             c-----------------------CCC-Ccceeecccch-------h--------------------------hhccccc
Confidence            4                       220 02333322110       0                          0011333


Q ss_pred             eEEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCC-----CceEEEEeCChhHHHHHHHHhcCCCeEEcCe--EEE
Q psy5142         276 ALLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVG-----EPTAFVRYKKENNAEAVLKALGSKEIVIKDV--KVS  348 (410)
Q Consensus       276 ~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g-----~~~afV~F~~~e~A~~Al~~l~~~~~~i~g~--~v~  348 (410)
                      ..|||.-|+..+|+.+++++|++||    .|+.|.+.+|     +++|||.|.+.+.|..||++|+ +..++.|.  +|.
T Consensus       125 ~KLFvg~lsK~~te~evr~iFs~fG----~Ied~~ilrd~~~~sRGcaFV~fstke~A~~Aika~n-g~~tmeGcs~PLV  199 (510)
T KOG0144|consen  125 RKLFVGMLSKQCTENEVREIFSRFG----HIEDCYILRDPDGLSRGCAFVKFSTKEMAVAAIKALN-GTQTMEGCSQPLV  199 (510)
T ss_pred             hhhhhhhccccccHHHHHHHHHhhC----ccchhhheecccccccceeEEEEehHHHHHHHHHhhc-cceeeccCCCceE
Confidence            4688999999999999999999999    9998888875     3569999999999999999996 45677765  667


Q ss_pred             EEecCchHHH
Q psy5142         349 IEVVTGEEEQ  358 (410)
Q Consensus       349 v~~l~g~eE~  358 (410)
                      |+.+.-+.++
T Consensus       200 VkFADtqkdk  209 (510)
T KOG0144|consen  200 VKFADTQKDK  209 (510)
T ss_pred             EEecccCCCc
Confidence            7766544443

>KOG0127|consensus

Probab=99.75  E-value=1.1e-17  Score=166.55  Aligned_cols=182  Identities=19%  Similarity=0.299  Sum_probs=135.0

Q ss_pred             ceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCCccccc
Q psy5142         119 AQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLKFNE  198 (410)
Q Consensus       119 ~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~~~~~  198 (410)
                      ..||||++||+.+|.++|.++|+.+    |+|..+.+..+..+.    ..+||+||+|+-.||++.|++...+  .+|  
T Consensus         5 g~TlfV~~lp~~~~~~qL~e~FS~v----GPik~~~vVt~~gs~----~~RGfgfVtFam~ED~qrA~~e~~~--~kf--   72 (678)
T KOG0127|consen    5 GATLFVSRLPFSSTGEQLEEFFSYV----GPIKHAVVVTNKGSS----EKRGFGFVTFAMEEDVQRALAETEQ--SKF--   72 (678)
T ss_pred             CceEEEecCCCccchhHHHHhhhcc----cCcceeEEecCCCcc----cccCccceeeehHhHHHHHHHHhhc--Ccc--
Confidence            3799999999999999999999999    999999999887765    7899999999999999999999874  456  


Q ss_pred             cccchhhhhhhhcccccccccCcccccchhhhchHHHHHHHHHHHHhhh--hccccCccCCCCCCCCCCcccccCCCCCe
Q psy5142         199 NCEHKNAEKFLNENKDKNLKFNENCEHSLLIKWQQEYHEEKKQEVRSKR--DKSKKSTEGDGEGNTEGSKQVVLELPTGA  276 (410)
Q Consensus       199 ~~~~~~~~k~~~~~~~~~~~~~g~~~~~L~v~~k~~~~~~k~~e~~~~~--~k~k~~~e~~~~~~~~~~~~~~~~~~~g~  276 (410)
                                           .|   +.|.|.........+..+...+.  ++...+...         ...... .+.-
T Consensus        73 ---------------------~G---r~l~v~~A~~R~r~e~~~~~e~~~veK~~~q~~~---------~k~~v~-~~k~  118 (678)
T KOG0127|consen   73 ---------------------EG---RILNVDPAKKRARSEEVEKGENKAVEKPIEQKRP---------TKAKVD-LPKW  118 (678)
T ss_pred             ---------------------cc---eecccccccccccchhcccccchhhhcccccCCc---------chhhcc-Cccc
Confidence                                 66   66666542111100000000000  000000000         000011 1234


Q ss_pred             EEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCCC-----ceEEEEeCChhHHHHHHHHhcCCCeEEcCeEEEEEe
Q psy5142         277 LLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVGE-----PTAFVRYKKENNAEAVLKALGSKEIVIKDVKVSIEV  351 (410)
Q Consensus       277 ~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g~-----~~afV~F~~~e~A~~Al~~l~~~~~~i~g~~v~v~~  351 (410)
                      .|.|+|||+.|...+|+.+|+.||    .|..|.+++..     ++|||.|....+|.+|++.+  ++.+|+|++|-|..
T Consensus       119 rLIIRNLPf~~k~~dLk~vFs~~G----~V~Ei~IP~k~dgklcGFaFV~fk~~~dA~~Al~~~--N~~~i~gR~VAVDW  192 (678)
T KOG0127|consen  119 RLIIRNLPFKCKKPDLKNVFSNFG----KVVEIVIPRKKDGKLCGFAFVQFKEKKDAEKALEFF--NGNKIDGRPVAVDW  192 (678)
T ss_pred             eEEeecCCcccCcHHHHHHHhhcc----eEEEEEcccCCCCCccceEEEEEeeHHHHHHHHHhc--cCceecCceeEEee
Confidence            688999999999999999999999    99999888632     46999999999999999999  67899999998886


Q ss_pred             c
Q psy5142         352 V  352 (410)
Q Consensus       352 l  352 (410)
                      +
T Consensus       193 A  193 (678)
T KOG0127|consen  193 A  193 (678)
T ss_pred             e
Confidence            5

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

Probab=99.73  E-value=8.5e-17  Score=166.00  Aligned_cols=193  Identities=16%  Similarity=0.241  Sum_probs=130.0

Q ss_pred             ceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCCccccc
Q psy5142         119 AQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLKFNE  198 (410)
Q Consensus       119 ~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~~~~~  198 (410)
                      .++|||+|||..+|+++|+++|++|    |.|..|.|+++..++    .++|||||+|.+.++|.+|+..++|  ..+. 
T Consensus       186 ~~~l~v~nl~~~~te~~l~~~f~~~----G~i~~v~~~~d~~~g----~~~g~afV~f~~~e~A~~A~~~l~g--~~i~-  254 (457)
T TIGR01622       186 FLKLYVGNLHFNITEQELRQIFEPF----GDIEDVQLHRDPETG----RSKGFGFIQFHDAEEAKEALEVMNG--FELA-  254 (457)
T ss_pred             CCEEEEcCCCCCCCHHHHHHHHHhc----CCeEEEEEEEcCCCC----ccceEEEEEECCHHHHHHHHHhcCC--cEEC-
Confidence            5899999999999999999999999    999999999888765    7899999999999999999999997  4442 


Q ss_pred             cccchhhhhhhhcccccccccCcccccchhhhchHHHHHHH------------------------HHHHHhhhh-ccc--
Q psy5142         199 NCEHKNAEKFLNENKDKNLKFNENCEHSLLIKWQQEYHEEK------------------------KQEVRSKRD-KSK--  251 (410)
Q Consensus       199 ~~~~~~~~k~~~~~~~~~~~~~g~~~~~L~v~~k~~~~~~k------------------------~~e~~~~~~-k~k--  251 (410)
                                            |   +.|.|.+..+.....                        ......... ...  
T Consensus       255 ----------------------g---~~i~v~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  309 (457)
T TIGR01622       255 ----------------------G---RPIKVGYAQDSTYLLDAANTFEDIDKQQQMGKNLNTEEREQLMEKLDRDDGDGG  309 (457)
T ss_pred             ----------------------C---EEEEEEEccCCCccccchhhhccccccccCCcCCCccchHHHHHhhccCCCCcc
Confidence                                  2   233332211000000                        000000000 000  


Q ss_pred             -------------cCccCCCCCC------------CCCCcc--ccc--CCCCCeEEEEeCCCCCCC----------HHHH
Q psy5142         252 -------------KSTEGDGEGN------------TEGSKQ--VVL--ELPTGALLKISDIKEPVS----------REDI  292 (410)
Q Consensus       252 -------------~~~e~~~~~~------------~~~~~~--~~~--~~~~g~~l~v~nL~~~~t----------~edL  292 (410)
                                   ..........            ......  ...  ......+|.|.||-...+          .+||
T Consensus       310 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~l~n~~~~~~~~~~~~~~~~~~dv  389 (457)
T TIGR01622       310 LLIPGTGSKIALMQKLQRDGIIDPNIPSRYATGALAIMARNSFVPSTNNNLATTCLVLSNMFDPATEEEPNFDNEILDDV  389 (457)
T ss_pred             ccCCCccchhhhhccccccccccccccccccccccccccCCCCCCcccCCCCCcEEEEecCCCCcccccchHHHHHHHHH
Confidence                         0000000000            000000  000  123456788899743332          3789


Q ss_pred             HHHHHhcCCCCCCeeEEEeeC--CCceEEEEeCChhHHHHHHHHhcCCCeEEcCeEEEEEecC
Q psy5142         293 REVLEKVQTDDQEIVFIEFNV--GEPTAFVRYKKENNAEAVLKALGSKEIVIKDVKVSIEVVT  353 (410)
Q Consensus       293 k~~F~~~G~~~~~V~~V~~~~--g~~~afV~F~~~e~A~~Al~~l~~~~~~i~g~~v~v~~l~  353 (410)
                      ++.|++||    .|..|.+..  ..+.+||+|.+.++|.+|+..|  +|..++|+.|.+..+.
T Consensus       390 ~~e~~k~G----~v~~v~v~~~~~~G~~fV~F~~~e~A~~A~~~l--nGr~f~gr~i~~~~~~  446 (457)
T TIGR01622       390 KEECSKYG----GVVHIYVDTKNSAGKIYLKFSSVDAALAAFQAL--NGRYFGGKMITAAFVV  446 (457)
T ss_pred             HHHHHhcC----CeeEEEEeCCCCceeEEEEECCHHHHHHHHHHh--cCcccCCeEEEEEEEc
Confidence            99999999    998888863  3567999999999999999999  7899999999999887

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.

>KOG0145|consensus

Probab=99.69  E-value=7.2e-16  Score=141.22  Aligned_cols=244  Identities=14%  Similarity=0.166  Sum_probs=154.8

Q ss_pred             cHHHHHHHHhhcCCceEEEecCccceecCCCCCCCCCchhhhhhccceeeEeecCCCCCCHHHHHHHHhhccCCCCceEE
Q psy5142          73 EAKVIVDALKKSTSKLIEVNEDGTKIRRNPEKELPTFDIDFVKDLIAQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITN  152 (410)
Q Consensus        73 d~~~i~~Al~~~~S~~levsed~~~vrR~~~~p~p~~~~~~~~~~~~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~  152 (410)
                      ++++..+|+.  .-+.|.+...-.+|--    .-|..     ..+....|||++||..+|..+|+.+|++|    |.|..
T Consensus        92 ~p~DAe~Ain--tlNGLrLQ~KTIKVSy----ARPSs-----~~Ik~aNLYvSGlPktMtqkelE~iFs~f----GrIIt  156 (360)
T KOG0145|consen   92 RPKDAEKAIN--TLNGLRLQNKTIKVSY----ARPSS-----DSIKDANLYVSGLPKTMTQKELEQIFSPF----GRIIT  156 (360)
T ss_pred             ChHHHHHHHh--hhcceeeccceEEEEe----ccCCh-----hhhcccceEEecCCccchHHHHHHHHHHh----hhhhh
Confidence            4666667776  5556666654444432    22332     23667899999999999999999999999    99999


Q ss_pred             EEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCCccccccccchhhhhhhhc---------------cccccc
Q psy5142         153 IIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLKFNENCEHKNAEKFLNE---------------NKDKNL  217 (410)
Q Consensus       153 v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~~~~~~~~~~~~~k~~~~---------------~~~~~~  217 (410)
                      -+|..+.-++    .++|++||.|+..++|+.|+..++|   .-+.+|...-..|+.+-               .|..+ 
T Consensus       157 SRiL~dqvtg----~srGVgFiRFDKr~EAe~AIk~lNG---~~P~g~tepItVKFannPsq~t~~a~ls~ly~sp~rr-  228 (360)
T KOG0145|consen  157 SRILVDQVTG----LSRGVGFIRFDKRIEAEEAIKGLNG---QKPSGCTEPITVKFANNPSQKTNQALLSQLYQSPARR-  228 (360)
T ss_pred             hhhhhhcccc----eecceeEEEecchhHHHHHHHhccC---CCCCCCCCCeEEEecCCcccccchhhhHHhhcCcccc-
Confidence            9998888776    8999999999999999999999997   22223322111111110               11111 


Q ss_pred             ccCcccccchhhhchHHHHHHHHHHHHhhhhccccCccCCCCCCCCCCcccccCCCCCeEEEEeCCCCCCCHHHHHHHHH
Q psy5142         218 KFNENCEHSLLIKWQQEYHEEKKQEVRSKRDKSKKSTEGDGEGNTEGSKQVVLELPTGALLKISDIKEPVSREDIREVLE  297 (410)
Q Consensus       218 ~~~g~~~~~L~v~~k~~~~~~k~~e~~~~~~k~k~~~e~~~~~~~~~~~~~~~~~~~g~~l~v~nL~~~~t~edLk~~F~  297 (410)
                       +.|+. +.-...++-++.-......    .+.. -+--+.... -.....+.....|-.|||.||.+++++.-|+++|+
T Consensus       229 -~~Gp~-hh~~~r~r~~~~~~~~~~~----~rfs-P~~~d~m~~-l~~~~lp~~~~~g~ciFvYNLspd~de~~LWQlFg  300 (360)
T KOG0145|consen  229 -YGGPM-HHQAQRFRLDNLLNPHAAQ----ARFS-PMTIDGMSG-LAGVNLPGGPGGGWCIFVYNLSPDADESILWQLFG  300 (360)
T ss_pred             -CCCcc-cchhhhhccccccchhhhh----ccCC-Cccccccce-eeeeccCCCCCCeeEEEEEecCCCchHhHHHHHhC
Confidence             11100 0000000000000000000    0000 000000000 00001122233467899999999999999999999


Q ss_pred             hcCCCCCCeeEEEeeCC------CceEEEEeCChhHHHHHHHHhcCCCeEEcCeEEEEEecC
Q psy5142         298 KVQTDDQEIVFIEFNVG------EPTAFVRYKKENNAEAVLKALGSKEIVIKDVKVSIEVVT  353 (410)
Q Consensus       298 ~~G~~~~~V~~V~~~~g------~~~afV~F~~~e~A~~Al~~l~~~~~~i~g~~v~v~~l~  353 (410)
                      +||    .|..|++.++      +++|||.+.+-++|.-||..|  ++..++++.+.|+..+
T Consensus       301 pFG----Av~nVKvirD~ttnkCKGfgFVtMtNYdEAamAi~sL--NGy~lg~rvLQVsFKt  356 (360)
T KOG0145|consen  301 PFG----AVTNVKVIRDFTTNKCKGFGFVTMTNYDEAAMAIASL--NGYRLGDRVLQVSFKT  356 (360)
T ss_pred             ccc----ceeeEEEEecCCcccccceeEEEecchHHHHHHHHHh--cCccccceEEEEEEec
Confidence            999    9988888765      456999999999999999999  7899999999998754

>KOG0124|consensus

Probab=99.69  E-value=2.3e-16  Score=150.35  Aligned_cols=162  Identities=18%  Similarity=0.225  Sum_probs=133.8

Q ss_pred             cceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCCcccc
Q psy5142         118 IAQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLKFN  197 (410)
Q Consensus       118 ~~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~~~~  197 (410)
                      .-+.|||+.+.++.-+|.|+..|.+|    |+|.+|.|.-++-++    +++|||||||+-+|.|+-|++.+||  ..+ 
T Consensus       112 iMcRvYVGSIsfEl~EDtiR~AF~PF----GPIKSInMSWDp~T~----kHKgFAFVEYEvPEaAqLAlEqMNg--~ml-  180 (544)
T KOG0124|consen  112 IMCRVYVGSISFELREDTIRRAFDPF----GPIKSINMSWDPATG----KHKGFAFVEYEVPEAAQLALEQMNG--QML-  180 (544)
T ss_pred             HhHheeeeeeEEEechHHHHhhccCC----CCcceeecccccccc----cccceEEEEEeCcHHHHHHHHHhcc--ccc-
Confidence            35789999999999999999999999    999999999998887    8999999999999999999999997  556 


Q ss_pred             ccccchhhhhhhhcccccccccCcccccchhhhchH------HHHHHHHHHHHhhhhccccCccCCCCCCCCCCcccccC
Q psy5142         198 ENCEHKNAEKFLNENKDKNLKFNENCEHSLLIKWQQ------EYHEEKKQEVRSKRDKSKKSTEGDGEGNTEGSKQVVLE  271 (410)
Q Consensus       198 ~~~~~~~~~k~~~~~~~~~~~~~g~~~~~L~v~~k~------~~~~~k~~e~~~~~~k~k~~~e~~~~~~~~~~~~~~~~  271 (410)
                                            +|   +.|+|....      ...++-.++                             
T Consensus       181 ----------------------GG---RNiKVgrPsNmpQAQpiID~vqee-----------------------------  206 (544)
T KOG0124|consen  181 ----------------------GG---RNIKVGRPSNMPQAQPIIDMVQEE-----------------------------  206 (544)
T ss_pred             ----------------------cC---ccccccCCCCCcccchHHHHHHHH-----------------------------
Confidence                                  66   766665211      111111111                             


Q ss_pred             CCCCeEEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCCC------ceEEEEeCChhHHHHHHHHhcCCCeEEcCe
Q psy5142         272 LPTGALLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVGE------PTAFVRYKKENNAEAVLKALGSKEIVIKDV  345 (410)
Q Consensus       272 ~~~g~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g~------~~afV~F~~~e~A~~Al~~l~~~~~~i~g~  345 (410)
                      ..+-..|||..++++.+++|||.+|.-||    +|.+|.+.++.      ++|||+|.+..+...||..|  +-+.++|.
T Consensus       207 Ak~fnRiYVaSvHpDLSe~DiKSVFEAFG----~I~~C~LAr~pt~~~HkGyGfiEy~n~qs~~eAiasM--NlFDLGGQ  280 (544)
T KOG0124|consen  207 AKKFNRIYVASVHPDLSETDIKSVFEAFG----EIVKCQLARAPTGRGHKGYGFIEYNNLQSQSEAIASM--NLFDLGGQ  280 (544)
T ss_pred             HHhhheEEeeecCCCccHHHHHHHHHhhc----ceeeEEeeccCCCCCccceeeEEeccccchHHHhhhc--chhhcccc
Confidence            11223689999999999999999999999    99999988653      46999999999999999999  67888888


Q ss_pred             EEEEE
Q psy5142         346 KVSIE  350 (410)
Q Consensus       346 ~v~v~  350 (410)
                      .++|-
T Consensus       281 yLRVG  285 (544)
T KOG0124|consen  281 YLRVG  285 (544)
T ss_pred             eEecc
Confidence            87764

>KOG0123|consensus

Probab=99.66  E-value=1.2e-15  Score=152.08  Aligned_cols=153  Identities=20%  Similarity=0.331  Sum_probs=130.7

Q ss_pred             eeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCCcccccc
Q psy5142         120 QSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLKFNEN  199 (410)
Q Consensus       120 rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~~~~~~  199 (410)
                      .+|||+   +++|+..|.++|+++    |+|.+|++.++. +      +-|+|||.|.++++|.+|++.++.  -.+   
T Consensus         2 ~sl~vg---~~v~e~~l~~~f~~~----~~v~s~rvc~d~-t------slgy~yvnf~~~~da~~A~~~~n~--~~~---   62 (369)
T KOG0123|consen    2 ASLYVG---PDVTEAMLFDKFSPA----GPVLSIRVCRDA-T------SLGYAYVNFQQPADAERALDTMNF--DVL---   62 (369)
T ss_pred             CceecC---CcCChHHHHHHhccc----CCceeEEEeecC-C------ccceEEEecCCHHHHHHHHHHcCC--ccc---
Confidence            368999   899999999999999    999999999987 5      689999999999999999999983  223   


Q ss_pred             ccchhhhhhhhcccccccccCcccccchhhhchHHHHHHHHHHHHhhhhccccCccCCCCCCCCCCcccccCCCCCeEEE
Q psy5142         200 CEHKNAEKFLNENKDKNLKFNENCEHSLLIKWQQEYHEEKKQEVRSKRDKSKKSTEGDGEGNTEGSKQVVLELPTGALLK  279 (410)
Q Consensus       200 ~~~~~~~k~~~~~~~~~~~~~g~~~~~L~v~~k~~~~~~k~~e~~~~~~k~k~~~e~~~~~~~~~~~~~~~~~~~g~~l~  279 (410)
                                          .|   ++++++|...                                       ....|+
T Consensus        63 --------------------~~---~~~rim~s~r---------------------------------------d~~~~~   80 (369)
T KOG0123|consen   63 --------------------KG---KPIRIMWSQR---------------------------------------DPSLVF   80 (369)
T ss_pred             --------------------CC---cEEEeehhcc---------------------------------------CCceee
Confidence                                67   9999997421                                       001299


Q ss_pred             EeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCCCc---eEEEEeCChhHHHHHHHHhcCCCeEEcCeEEEEEecCchH
Q psy5142         280 ISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVGEP---TAFVRYKKENNAEAVLKALGSKEIVIKDVKVSIEVVTGEE  356 (410)
Q Consensus       280 v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g~~---~afV~F~~~e~A~~Al~~l~~~~~~i~g~~v~v~~l~g~e  356 (410)
                      |.||+++++..+|.++|+.||    +|..|.+.+...   ..||+|+++++|++|++.+  ++..++|+.|-+-+..-++
T Consensus        81 i~nl~~~~~~~~~~d~f~~~g----~ilS~kv~~~~~g~kg~FV~f~~e~~a~~ai~~~--ng~ll~~kki~vg~~~~~~  154 (369)
T KOG0123|consen   81 IKNLDESIDNKSLYDTFSEFG----NILSCKVATDENGSKGYFVQFESEESAKKAIEKL--NGMLLNGKKIYVGLFERKE  154 (369)
T ss_pred             ecCCCcccCcHHHHHHHHhhc----CeeEEEEEEcCCCceeeEEEeCCHHHHHHHHHHh--cCcccCCCeeEEeeccchh
Confidence            999999999999999999999    999998886432   2499999999999999999  6788999999998887666


Q ss_pred             HHH
Q psy5142         357 EQT  359 (410)
Q Consensus       357 E~~  359 (410)
                      |..
T Consensus       155 er~  157 (369)
T KOG0123|consen  155 ERE  157 (369)
T ss_pred             hhc
Confidence            653

>COG5193 LHP1 La protein, small RNA-binding pol III transcript stabilizing protein and related La-motif-containing proteins involved in translation [Posttranslational modification, protein turnover, chaperones / Translation, ribosomal structure and biogenesis]

Probab=99.64  E-value=3.8e-17  Score=157.86  Aligned_cols=151  Identities=26%  Similarity=0.454  Sum_probs=129.0

Q ss_pred             HHHHHHHHhC-----CCCCCCChhHHhhhccC---CCeEehHHHHhhHHHHhccCcHHHHHHHHhhcCC---ceEEEecC
Q psy5142          26 IIEQIEYYFS-----DINLARDKFLQGEIKKD---DGWVELTTMLKFARLAKMTTEAKVIVDALKKSTS---KLIEVNED   94 (410)
Q Consensus        26 i~~QlEfYfs-----d~Nl~~D~fl~~~~~~~---~g~v~l~~l~~F~r~k~l~~d~~~i~~Al~~~~S---~~levsed   94 (410)
                      +..|+|||||     |.|+++|+||+....++   +|||||.++.+|+||+.++...+.+..||+  .|   .+++++.+
T Consensus        75 ~l~qvE~~fS~s~~~d~n~~~dk~~ktta~Kn~~~~kwVpIkt~~tfn~~k~~gs~~~~v~~a~r--ks~~~rv~e~Sss  152 (438)
T COG5193          75 TLKQVEFYFSGSKDTDSNFPKDKFLKTTAPKNKKRDKWVPIKTIATFNRMKNSGSPVSAVSGALR--KSLDARVLEVSSS  152 (438)
T ss_pred             cccceeEEeeccccccccccchhhhccccccccCCCCceeeeeeeeeccccccCCchhhhhhhhh--cCcccceeeeccc
Confidence            8999999999     99999999999999987   899999999999999999999999999999  67   79999999


Q ss_pred             ccceecCCCCCCCCCchhhhhhccceeeEeecCCCCCCHH--------HHHHHHhh--ccCCCCceEEEEEcccCccccc
Q psy5142          95 GTKIRRNPEKELPTFDIDFVKDLIAQSLYVKYIPVDATLD--------DIKDFFKK--NTSEDVKITNIIMRNYQDKLAN  164 (410)
Q Consensus        95 ~~~vrR~~~~p~p~~~~~~~~~~~~rtv~V~~lp~~~t~~--------~L~~~F~~--~~~~~G~I~~v~l~~~~~~~~~  164 (410)
                      |..++|..  ++-.... ...+.-.|.+|+.+|+...+.+        ++..+|.+  .    +++..|+++++....  
T Consensus       153 gsn~~r~~--k~~s~n~-~s~~~~qr~~y~n~fG~e~~~~a~~~e~~~d~~~~~p~h~h----~~~~~i~~rrd~~nk--  223 (438)
T COG5193         153 GSNKNRTE--KLISNNN-KSTSQMQRDVYQNGFGKEDVNNASRPEQQEDLEIQFPPHYH----APPSQIRNRRDWLNK--  223 (438)
T ss_pred             cccccccc--hhhhhhh-hhhhhHhhhHHhhcCCcccccccccchhhhhHHhhCCCccc----CChhhccchhhhhhc--
Confidence            99999983  2222211 1125667999999999875544        99999998  7    899999999987433  


Q ss_pred             ccccccEEEEEecCHHHHHHHHHhc
Q psy5142         165 QKKFKGSIFVTFDNKENAEKFLNEN  189 (410)
Q Consensus       165 ~~~~kG~afVeF~~~e~A~~Al~~~  189 (410)
                        .++|..|++|.....+++++...
T Consensus       224 --n~~gSv~~efk~~~~~q~~nn~~  246 (438)
T COG5193         224 --NFRGSVFVEFKYFREAQRFNNGF  246 (438)
T ss_pred             --cccCcccccccChHHHHHHhccc
Confidence              89999999999999999998543

>KOG0105|consensus

Probab=99.63  E-value=9.6e-15  Score=127.80  Aligned_cols=176  Identities=17%  Similarity=0.304  Sum_probs=130.9

Q ss_pred             ccceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCCccc
Q psy5142         117 LIAQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLKF  196 (410)
Q Consensus       117 ~~~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~~~  196 (410)
                      ...++|||+|||.++-+.+|+.+|.+|    |.|..|.|....       ...+||||+|+++-+|+.||..-+|  ..|
T Consensus         4 r~~~~iyvGNLP~diRekeieDlFyKy----g~i~~ieLK~r~-------g~ppfafVeFEd~RDAeDAiygRdG--Ydy   70 (241)
T KOG0105|consen    4 RNSRRIYVGNLPGDIREKEIEDLFYKY----GRIREIELKNRP-------GPPPFAFVEFEDPRDAEDAIYGRDG--YDY   70 (241)
T ss_pred             cccceEEecCCCcchhhccHHHHHhhh----cceEEEEeccCC-------CCCCeeEEEecCccchhhhhhcccc--ccc
Confidence            346899999999999999999999999    999999885432       4578999999999999999998886  555


Q ss_pred             cccccchhhhhhhhcccccccccCcccccchhhhchHHHHHHHHHHHHhhhhccccCccCCCC------C-CCCCCcccc
Q psy5142         197 NENCEHKNAEKFLNENKDKNLKFNENCEHSLLIKWQQEYHEEKKQEVRSKRDKSKKSTEGDGE------G-NTEGSKQVV  269 (410)
Q Consensus       197 ~~~~~~~~~~k~~~~~~~~~~~~~g~~~~~L~v~~k~~~~~~k~~e~~~~~~k~k~~~e~~~~------~-~~~~~~~~~  269 (410)
                                             .|   ..|+|.+..-.-               ........      . .......-+
T Consensus        71 -----------------------dg---~rLRVEfprggr---------------~s~~~~G~y~gggrgGgg~gg~rgp  109 (241)
T KOG0105|consen   71 -----------------------DG---CRLRVEFPRGGR---------------SSSDRRGSYSGGGRGGGGGGGRRGP  109 (241)
T ss_pred             -----------------------Cc---ceEEEEeccCCC---------------cccccccccCCCCCCCCCCCcccCC
Confidence                                   66   677776532110               00000000      0 000011112


Q ss_pred             cCCCCCeEEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCCCceEEEEeCChhHHHHHHHHhcCCCeEEcCeEEEE
Q psy5142         270 LELPTGALLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVGEPTAFVRYKKENNAEAVLKALGSKEIVIKDVKVSI  349 (410)
Q Consensus       270 ~~~~~g~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g~~~afV~F~~~e~A~~Al~~l~~~~~~i~g~~v~v  349 (410)
                      +.......|.|.+||+..+|+|||++..+-|    +|.|.++.++ ++|.|.|-..++.+-|+..|.+..+.--|...-+
T Consensus       110 psrrSe~RVvVsGLp~SgSWQDLKDHmReaG----dvCfadv~rD-g~GvV~~~r~eDMkYAvr~ld~~~~~seGe~~yi  184 (241)
T KOG0105|consen  110 PSRRSEYRVVVSGLPPSGSWQDLKDHMREAG----DVCFADVQRD-GVGVVEYLRKEDMKYAVRKLDDQKFRSEGETAYI  184 (241)
T ss_pred             cccccceeEEEecCCCCCchHHHHHHHHhhC----Ceeeeeeecc-cceeeeeeehhhHHHHHHhhccccccCcCcEeeE
Confidence            3334456788999999999999999999999    9999999885 5899999999999999999976665555655555


Q ss_pred             Ee
Q psy5142         350 EV  351 (410)
Q Consensus       350 ~~  351 (410)
                      .+
T Consensus       185 rv  186 (241)
T KOG0105|consen  185 RV  186 (241)
T ss_pred             Ee
Confidence            44

>KOG0110|consensus

Probab=99.58  E-value=6.7e-15  Score=151.13  Aligned_cols=174  Identities=18%  Similarity=0.294  Sum_probs=135.2

Q ss_pred             eeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCCcccccc
Q psy5142         120 QSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLKFNEN  199 (410)
Q Consensus       120 rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~~~~~~  199 (410)
                      .+|||+||++++|.++|...|+..    |.|.+|.|...++... ...+.||+||+|.++++|+.|+..++|  ..+   
T Consensus       516 t~lfvkNlnf~Tt~e~l~~~F~k~----G~VlS~~I~kkkd~~~-k~lSmGfgFVEF~~~e~A~~a~k~lqg--tvl---  585 (725)
T KOG0110|consen  516 TKLFVKNLNFDTTLEDLEDLFSKQ----GTVLSIEISKKKDPAN-KYLSMGFGFVEFAKPESAQAALKALQG--TVL---  585 (725)
T ss_pred             hhhhhhcCCcccchhHHHHHHHhc----CeEEEEEEeccccccc-cccccceeEEEecCHHHHHHHHHHhcC--cee---
Confidence            349999999999999999999999    9999999987665411 224679999999999999999999986  234   


Q ss_pred             ccchhhhhhhhcccccccccCcccccchhhhchHHHHHHHHHHHHhhhhccccCccCCCCCCCCCCcccccCCCCCeEEE
Q psy5142         200 CEHKNAEKFLNENKDKNLKFNENCEHSLLIKWQQEYHEEKKQEVRSKRDKSKKSTEGDGEGNTEGSKQVVLELPTGALLK  279 (410)
Q Consensus       200 ~~~~~~~k~~~~~~~~~~~~~g~~~~~L~v~~k~~~~~~k~~e~~~~~~k~k~~~e~~~~~~~~~~~~~~~~~~~g~~l~  279 (410)
                                          .|   +.|.+....  .              +++         ...........+++-|.
T Consensus       586 --------------------dG---H~l~lk~S~--~--------------k~~---------~~~gK~~~~kk~~tKIl  617 (725)
T KOG0110|consen  586 --------------------DG---HKLELKISE--N--------------KPA---------STVGKKKSKKKKGTKIL  617 (725)
T ss_pred             --------------------cC---ceEEEEecc--C--------------ccc---------cccccccccccccceee
Confidence                                66   666665321  0              000         00001112223367899


Q ss_pred             EeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCC------CceEEEEeCChhHHHHHHHHhcCCCeEEcCeEEEEEecC
Q psy5142         280 ISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVG------EPTAFVRYKKENNAEAVLKALGSKEIVIKDVKVSIEVVT  353 (410)
Q Consensus       280 v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g------~~~afV~F~~~e~A~~Al~~l~~~~~~i~g~~v~v~~l~  353 (410)
                      |+|||+..+..+++.+|..||    .|..|+++.-      .++|||.|-++.+|..|+.+|  +.+.+-|+.+.++...
T Consensus       618 VRNipFeAt~rEVr~LF~aFG----qlksvRlPKK~~k~a~rGF~Fv~f~t~~ea~nA~~al--~STHlyGRrLVLEwA~  691 (725)
T KOG0110|consen  618 VRNIPFEATKREVRKLFTAFG----QLKSVRLPKKIGKGAHRGFGFVDFLTPREAKNAFDAL--GSTHLYGRRLVLEWAK  691 (725)
T ss_pred             eeccchHHHHHHHHHHHhccc----ceeeeccchhhcchhhccceeeeccCcHHHHHHHHhh--cccceechhhheehhc
Confidence            999999999999999999999    9999999863      346899999999999999999  5788899998888776


Q ss_pred             chHH
Q psy5142         354 GEEE  357 (410)
Q Consensus       354 g~eE  357 (410)
                      .+.-
T Consensus       692 ~d~~  695 (725)
T KOG0110|consen  692 SDNT  695 (725)
T ss_pred             cchH
Confidence            5543

>KOG0109|consensus

Probab=99.57  E-value=6.8e-15  Score=136.95  Aligned_cols=145  Identities=17%  Similarity=0.333  Sum_probs=123.8

Q ss_pred             eeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCCccccccc
Q psy5142         121 SLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLKFNENC  200 (410)
Q Consensus       121 tv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~~~~~~~  200 (410)
                      .|||+|||..+++.+|+.+|++|    |.|+.+.|+            |.++||..++...|+.|+..++|  .++    
T Consensus         4 KLFIGNLp~~~~~~elr~lFe~y----gkVlECDIv------------KNYgFVHiEdktaaedairNLhg--YtL----   61 (346)
T KOG0109|consen    4 KLFIGNLPREATEQELRSLFEQY----GKVLECDIV------------KNYGFVHIEDKTAAEDAIRNLHG--YTL----   61 (346)
T ss_pred             chhccCCCcccchHHHHHHHHhh----CceEeeeee------------cccceEEeecccccHHHHhhccc--cee----
Confidence            58999999999999999999999    999999886            67899999999999999998886  555    


Q ss_pred             cchhhhhhhhcccccccccCcccccchhhhchHHHHHHHHHHHHhhhhccccCccCCCCCCCCCCcccccCCCCCeEEEE
Q psy5142         201 EHKNAEKFLNENKDKNLKFNENCEHSLLIKWQQEYHEEKKQEVRSKRDKSKKSTEGDGEGNTEGSKQVVLELPTGALLKI  280 (410)
Q Consensus       201 ~~~~~~k~~~~~~~~~~~~~g~~~~~L~v~~k~~~~~~k~~e~~~~~~k~k~~~e~~~~~~~~~~~~~~~~~~~g~~l~v  280 (410)
                                         .|   ..|.|...                  +.                  ....-+.|+|
T Consensus        62 -------------------hg---~nInVeaS------------------ks------------------Ksk~stkl~v   83 (346)
T KOG0109|consen   62 -------------------HG---VNINVEAS------------------KS------------------KSKASTKLHV   83 (346)
T ss_pred             -------------------cc---eEEEEEec------------------cc------------------cCCCcccccc
Confidence                               55   55555310                  00                  0112246889


Q ss_pred             eCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCCCceEEEEeCChhHHHHHHHHhcCCCeEEcCeEEEEEecC
Q psy5142         281 SDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVGEPTAFVRYKKENNAEAVLKALGSKEIVIKDVKVSIEVVT  353 (410)
Q Consensus       281 ~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g~~~afV~F~~~e~A~~Al~~l~~~~~~i~g~~v~v~~l~  353 (410)
                      .||.+.|+.++|+..|.+||    .|..+|+++  +.+||.|+-.++|..|+..|  ++.++.|+.+.|.+-+
T Consensus        84 gNis~tctn~ElRa~fe~yg----pviecdivk--dy~fvh~d~~eda~~air~l--~~~~~~gk~m~vq~st  148 (346)
T KOG0109|consen   84 GNISPTCTNQELRAKFEKYG----PVIECDIVK--DYAFVHFDRAEDAVEAIRGL--DNTEFQGKRMHVQLST  148 (346)
T ss_pred             CCCCccccCHHHhhhhcccC----Cceeeeeec--ceeEEEEeeccchHHHHhcc--cccccccceeeeeeec
Confidence            99999999999999999999    999999987  78999999999999999999  6789999999999865

>KOG0147|consensus

Probab=99.55  E-value=1.1e-14  Score=146.08  Aligned_cols=177  Identities=12%  Similarity=0.216  Sum_probs=138.0

Q ss_pred             hhhccceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCC
Q psy5142         114 VKDLIAQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKN  193 (410)
Q Consensus       114 ~~~~~~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~  193 (410)
                      ..+.+.||||+-.++...+.-+|.+||+.+    |.|..|+|+.+...+    .++|.+||+|.+.+++..||..-+   
T Consensus       174 ~eERd~Rtvf~~qla~r~~pRdL~efFs~~----gkVrdVriI~Dr~s~----rskgi~Yvef~D~~sVp~aiaLsG---  242 (549)
T KOG0147|consen  174 PEERDQRTVFCMQLARRNPPRDLEEFFSIV----GKVRDVRIIGDRNSR----RSKGIAYVEFCDEQSVPLAIALSG---  242 (549)
T ss_pred             chHHhHHHHHHHHHhhcCCchhHHHHHHhh----cCcceeEeeccccch----hhcceeEEEEecccchhhHhhhcC---
Confidence            457889999999999999999999999999    999999999998876    899999999999999999997655   


Q ss_pred             ccccccccchhhhhhhhcccccccccCcccccchhhhchHHHHHHHHHHHHhhhhccccCccCCCCCCCCCCcccccCCC
Q psy5142         194 LKFNENCEHKNAEKFLNENKDKNLKFNENCEHSLLIKWQQEYHEEKKQEVRSKRDKSKKSTEGDGEGNTEGSKQVVLELP  273 (410)
Q Consensus       194 ~~~~~~~~~~~~~k~~~~~~~~~~~~~g~~~~~L~v~~k~~~~~~k~~e~~~~~~k~k~~~e~~~~~~~~~~~~~~~~~~  273 (410)
                      ..+                       -|   .+|.|...+. .  ++.  .+..      ..         .........
T Consensus       243 qrl-----------------------lg---~pv~vq~sEa-e--knr--~a~~------s~---------a~~~k~~~~  276 (549)
T KOG0147|consen  243 QRL-----------------------LG---VPVIVQLSEA-E--KNR--AANA------SP---------ALQGKGFTG  276 (549)
T ss_pred             Ccc-----------------------cC---ceeEecccHH-H--HHH--HHhc------cc---------ccccccccc
Confidence            444                       45   6666654221 1  000  0000      00         000000111


Q ss_pred             CCeEEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCC------CceEEEEeCChhHHHHHHHHhcCCCeEEcCeEE
Q psy5142         274 TGALLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVG------EPTAFVRYKKENNAEAVLKALGSKEIVIKDVKV  347 (410)
Q Consensus       274 ~g~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g------~~~afV~F~~~e~A~~Al~~l~~~~~~i~g~~v  347 (410)
                      +...|+|.||++.+++++|+.+|..||    .|..|+++.+      +++|||+|.+.++|.+|+..|  ++++|.|+.|
T Consensus       277 p~~rl~vgnLHfNite~~lr~ifepfg----~Ie~v~l~~d~~tG~skgfGfi~f~~~~~ar~a~e~l--ngfelAGr~i  350 (549)
T KOG0147|consen  277 PMRRLYVGNLHFNITEDMLRGIFEPFG----KIENVQLTKDSETGRSKGFGFITFVNKEDARKALEQL--NGFELAGRLI  350 (549)
T ss_pred             chhhhhhcccccCchHHHHhhhccCcc----cceeeeeccccccccccCcceEEEecHHHHHHHHHHh--ccceecCceE
Confidence            122289999999999999999999999    9999988865      346999999999999999999  5699999999


Q ss_pred             EEEecC
Q psy5142         348 SIEVVT  353 (410)
Q Consensus       348 ~v~~l~  353 (410)
                      +|.+++
T Consensus       351 kV~~v~  356 (549)
T KOG0147|consen  351 KVSVVT  356 (549)
T ss_pred             EEEEee
Confidence            998875

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

Probab=99.53  E-value=8.8e-13  Score=138.06  Aligned_cols=109  Identities=16%  Similarity=0.136  Sum_probs=80.6

Q ss_pred             cHHHHHHHHhhcCCceEEEecCccceecCCCCCCCC--CchhhhhhccceeeEeecCCCCCCHHHHHHHHhhccCCCCce
Q psy5142          73 EAKVIVDALKKSTSKLIEVNEDGTKIRRNPEKELPT--FDIDFVKDLIAQSLYVKYIPVDATLDDIKDFFKKNTSEDVKI  150 (410)
Q Consensus        73 d~~~i~~Al~~~~S~~levsed~~~vrR~~~~p~p~--~~~~~~~~~~~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I  150 (410)
                      +.+....|+.  .-+...+..-..+|+|....|.+.  .+.........++|||+|||.++++++|+++|+.|    |.|
T Consensus       158 s~e~A~~Ai~--~lnG~~i~GR~IkV~rp~~~p~a~~~~~~~~~~~~~~~rLfVgnLp~~vteedLk~lFs~F----G~I  231 (612)
T TIGR01645       158 VPEAAQLALE--QMNGQMLGGRNIKVGRPSNMPQAQPIIDMVQEEAKKFNRIYVASVHPDLSETDIKSVFEAF----GEI  231 (612)
T ss_pred             cHHHHHHHHH--hcCCeEEecceeeecccccccccccccccccccccccceEEeecCCCCCCHHHHHHHHhhc----CCe
Confidence            5677777887  334555655555565532111111  00000112245799999999999999999999999    999


Q ss_pred             EEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCC
Q psy5142         151 TNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKD  191 (410)
Q Consensus       151 ~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g  191 (410)
                      .+++|.++..++    .++|||||+|.+.++|.+|++.+|+
T Consensus       232 ~svrl~~D~~tg----ksKGfGFVeFe~~e~A~kAI~amNg  268 (612)
T TIGR01645       232 VKCQLARAPTGR----GHKGYGFIEYNNLQSQSEAIASMNL  268 (612)
T ss_pred             eEEEEEecCCCC----CcCCeEEEEECCHHHHHHHHHHhCC
Confidence            999999988775    7899999999999999999999986

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.

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

Probab=99.51  E-value=1.6e-13  Score=119.71  Aligned_cols=75  Identities=13%  Similarity=0.219  Sum_probs=67.4

Q ss_pred             CCCeEEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCC------CceEEEEeCChhHHHHHHHHhcCCCeEEcCeE
Q psy5142         273 PTGALLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVG------EPTAFVRYKKENNAEAVLKALGSKEIVIKDVK  346 (410)
Q Consensus       273 ~~g~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g------~~~afV~F~~~e~A~~Al~~l~~~~~~i~g~~  346 (410)
                      ...+.|||.|||+++++++|+++|++||    .|..|.++.+      ..+|||.|.++++|+.|++.|  ++..|+|+.
T Consensus        32 ~~~~~lfVgnL~~~~te~~L~~~F~~~G----~I~~v~i~~d~~tg~~kGfaFV~F~~~e~A~~Al~~l--ng~~i~Gr~  105 (144)
T PLN03134         32 LMSTKLFIGGLSWGTDDASLRDAFAHFG----DVVDAKVIVDRETGRSRGFGFVNFNDEGAATAAISEM--DGKELNGRH  105 (144)
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHhcCC----CeEEEEEEecCCCCCcceEEEEEECCHHHHHHHHHHc--CCCEECCEE
Confidence            4456899999999999999999999999    9999988754      357999999999999999999  678999999


Q ss_pred             EEEEecC
Q psy5142         347 VSIEVVT  353 (410)
Q Consensus       347 v~v~~l~  353 (410)
                      |+|.+..
T Consensus       106 l~V~~a~  112 (144)
T PLN03134        106 IRVNPAN  112 (144)
T ss_pred             EEEEeCC
Confidence            9999865

>KOG4211|consensus

Probab=99.50  E-value=2.4e-13  Score=134.77  Aligned_cols=169  Identities=19%  Similarity=0.272  Sum_probs=117.7

Q ss_pred             ceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCCccccc
Q psy5142         119 AQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLKFNE  198 (410)
Q Consensus       119 ~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~~~~~  198 (410)
                      ..-|-+.+|||++|++||++||+.|     .|.++.+++..  +    +..|-|||+|.++|++++|++..-   ..+  
T Consensus        10 ~~~vr~rGLPwsat~~ei~~Ff~~~-----~I~~~~~~r~~--G----r~sGeA~Ve~~seedv~~AlkkdR---~~m--   73 (510)
T KOG4211|consen   10 AFEVRLRGLPWSATEKEILDFFSNC-----GIENLEIPRRN--G----RPSGEAYVEFTSEEDVEKALKKDR---ESM--   73 (510)
T ss_pred             ceEEEecCCCccccHHHHHHHHhcC-----ceeEEEEeccC--C----CcCcceEEEeechHHHHHHHHhhH---HHh--
Confidence            4567889999999999999999999     78887776642  2    679999999999999999998754   222  


Q ss_pred             cccchhhhhhhhcccccccccCcccccchhhhch---H-HHHHHHHHHHHhhhhccccCccCCCCCCCCCCccccc-CCC
Q psy5142         199 NCEHKNAEKFLNENKDKNLKFNENCEHSLLIKWQ---Q-EYHEEKKQEVRSKRDKSKKSTEGDGEGNTEGSKQVVL-ELP  273 (410)
Q Consensus       199 ~~~~~~~~k~~~~~~~~~~~~~g~~~~~L~v~~k---~-~~~~~k~~e~~~~~~k~k~~~e~~~~~~~~~~~~~~~-~~~  273 (410)
                                           ..   +=|.|-..   + +|.                            .....+ ...
T Consensus        74 ---------------------g~---RYIEVf~~~~~e~d~~----------------------------~~~~g~~s~~  101 (510)
T KOG4211|consen   74 ---------------------GH---RYIEVFTAGGAEADWV----------------------------MRPGGPNSSA  101 (510)
T ss_pred             ---------------------CC---ceEEEEccCCcccccc----------------------------ccCCCCCCCC
Confidence                                 11   22222210   0 000                            000001 113


Q ss_pred             CCeEEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCCCc--eEEEEeCChhHHHHHHHHhcCCCeEEcCeEEEEEe
Q psy5142         274 TGALLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVGEP--TAFVRYKKENNAEAVLKALGSKEIVIKDVKVSIEV  351 (410)
Q Consensus       274 ~g~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g~~--~afV~F~~~e~A~~Al~~l~~~~~~i~g~~v~v~~  351 (410)
                      ...+|.+++||+.||++||.++|+-+-+.+..|..+.-.++..  .|||+|.+++.|++|+...   ...|+-+-|.|-.
T Consensus       102 ~d~vVRLRGLPfscte~dI~~FFaGL~Iv~~gi~l~~d~rgR~tGEAfVqF~sqe~ae~Al~rh---re~iGhRYIEvF~  178 (510)
T KOG4211|consen  102 NDGVVRLRGLPFSCTEEDIVEFFAGLEIVPDGILLPMDQRGRPTGEAFVQFESQESAEIALGRH---RENIGHRYIEVFR  178 (510)
T ss_pred             CCceEEecCCCccCcHHHHHHHhcCCcccccceeeeccCCCCcccceEEEecCHHHHHHHHHHH---HHhhccceEEeeh
Confidence            4568999999999999999999998762222444444444443  5999999999999999986   4667777777765


Q ss_pred             cCchHHH
Q psy5142         352 VTGEEEQ  358 (410)
Q Consensus       352 l~g~eE~  358 (410)
                      ..=.|.+
T Consensus       179 Ss~~e~~  185 (510)
T KOG4211|consen  179 SSRAEVK  185 (510)
T ss_pred             hHHHHHH
Confidence            5433333

>KOG4205|consensus

Probab=99.49  E-value=7.5e-14  Score=135.11  Aligned_cols=169  Identities=16%  Similarity=0.221  Sum_probs=131.4

Q ss_pred             cceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCCcccc
Q psy5142         118 IAQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLKFN  197 (410)
Q Consensus       118 ~~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~~~~  197 (410)
                      +.+.|+|++|+|++|++.|+.+|++|    |+|..+.+.++..++    +.+||+||+|++++.+..++....   +++ 
T Consensus         5 ~~~KlfiGgisw~ttee~Lr~yf~~~----Gev~d~~vm~d~~t~----rsrgFgfv~f~~~~~v~~vl~~~~---h~~-   72 (311)
T KOG4205|consen    5 ESGKLFIGGLSWETTEESLREYFSQF----GEVTDCVVMRDPSTG----RSRGFGFVTFATPEGVDAVLNART---HKL-   72 (311)
T ss_pred             CCcceeecCcCccccHHHHHHHhccc----CceeeEEEeccCCCC----CcccccceecCCCcchheeecccc---ccc-
Confidence            57899999999999999999999999    999999999998886    899999999999999999988766   455 


Q ss_pred             ccccchhhhhhhhcccccccccCcccccchhhhchHHHHHHHHHHHHhhhhccccCccCCCCCCCCCCcccccCCCCCeE
Q psy5142         198 ENCEHKNAEKFLNENKDKNLKFNENCEHSLLIKWQQEYHEEKKQEVRSKRDKSKKSTEGDGEGNTEGSKQVVLELPTGAL  277 (410)
Q Consensus       198 ~~~~~~~~~k~~~~~~~~~~~~~g~~~~~L~v~~k~~~~~~k~~e~~~~~~k~k~~~e~~~~~~~~~~~~~~~~~~~g~~  277 (410)
                                            .+   +.+.+..  ...                + +         ..........-..
T Consensus        73 ----------------------dg---r~ve~k~--av~----------------r-~---------~~~~~~~~~~tkk   99 (311)
T KOG4205|consen   73 ----------------------DG---RSVEPKR--AVS----------------R-E---------DQTKVGRHLRTKK   99 (311)
T ss_pred             ----------------------CC---cccccee--ccC----------------c-c---------cccccccccceeE
Confidence                                  44   3333221  000                0 0         0000111123457


Q ss_pred             EEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCC------CceEEEEeCChhHHHHHHHHhcCCCeEEcCeEEEEEe
Q psy5142         278 LKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVG------EPTAFVRYKKENNAEAVLKALGSKEIVIKDVKVSIEV  351 (410)
Q Consensus       278 l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g------~~~afV~F~~~e~A~~Al~~l~~~~~~i~g~~v~v~~  351 (410)
                      +||.+||.+++++++++.|.+||    .|..+.++.+      .++|||.|.++++.++++..-   -+.++|+.|.|..
T Consensus       100 iFvGG~~~~~~e~~~r~yfe~~g----~v~~~~~~~d~~~~~~rgFgfv~~~~e~sVdkv~~~~---f~~~~gk~vevkr  172 (311)
T KOG4205|consen  100 IFVGGLPPDTTEEDFKDYFEQFG----KVADVVIMYDKTTSRPRGFGFVTFDSEDSVDKVTLQK---FHDFNGKKVEVKR  172 (311)
T ss_pred             EEecCcCCCCchHHHhhhhhccc----eeEeeEEeecccccccccceeeEeccccccceecccc---eeeecCceeeEee
Confidence            89999999999999999999999    7776655543      345999999999988887664   7899999999999


Q ss_pred             cCchHHH
Q psy5142         352 VTGEEEQ  358 (410)
Q Consensus       352 l~g~eE~  358 (410)
                      +...+..
T Consensus       173 A~pk~~~  179 (311)
T KOG4205|consen  173 AIPKEVM  179 (311)
T ss_pred             ccchhhc
Confidence            8866555

>KOG0144|consensus

Probab=99.48  E-value=1.4e-13  Score=134.27  Aligned_cols=140  Identities=21%  Similarity=0.264  Sum_probs=94.0

Q ss_pred             HHHHHHHHHHHHHhC--CCCCCCChhHHhhhccCCCeEehHHHHhhHHHHhccCcHHHHHHHHhhcCCceEEEecCccce
Q psy5142          21 KLENQIIEQIEYYFS--DINLARDKFLQGEIKKDDGWVELTTMLKFARLAKMTTEAKVIVDALKKSTSKLIEVNEDGTKI   98 (410)
Q Consensus        21 ~~~~~i~~QlEfYfs--d~Nl~~D~fl~~~~~~~~g~v~l~~l~~F~r~k~l~~d~~~i~~Al~~~~S~~levsed~~~v   98 (410)
                      -....|+.-.|-|=.  ..||.||+--.    ...||.=|    +|..    ..+....+.||.  +-..|.  ....-|
T Consensus        46 ~sE~dlr~lFe~yg~V~einl~kDk~t~----~s~gcCFv----~~~t----rk~a~~a~~Alh--n~ktlp--G~~~pv  109 (510)
T KOG0144|consen   46 ASEKDLRELFEKYGNVYEINLIKDKSTG----QSKGCCFV----KYYT----RKEADEAINALH--NQKTLP--GMHHPV  109 (510)
T ss_pred             ccHHHHHHHHHHhCceeEEEeecccccC----cccceEEE----Eecc----HHHHHHHHHHhh--cccccC--CCCcce
Confidence            344555655665522  35778887433    12365322    2222    135667788888  322221  111111


Q ss_pred             ecCCCCCCCCCchhhhhhccceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecC
Q psy5142          99 RRNPEKELPTFDIDFVKDLIAQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDN  178 (410)
Q Consensus        99 rR~~~~p~p~~~~~~~~~~~~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~  178 (410)
                      .=+     |.. -|...-.+++.|||+-|+..+|+.+|+++|++|    |.|+++.|.|+.++     .++|||||.|.+
T Consensus       110 qvk-----~Ad-~E~er~~~e~KLFvg~lsK~~te~evr~iFs~f----G~Ied~~ilrd~~~-----~sRGcaFV~fst  174 (510)
T KOG0144|consen  110 QVK-----YAD-GERERIVEERKLFVGMLSKQCTENEVREIFSRF----GHIEDCYILRDPDG-----LSRGCAFVKFST  174 (510)
T ss_pred             eec-----ccc-hhhhccccchhhhhhhccccccHHHHHHHHHhh----Cccchhhheecccc-----cccceeEEEEeh
Confidence            111     011 111112457899999999999999999999999    99999999999988     899999999999


Q ss_pred             HHHHHHHHHhcCC
Q psy5142         179 KENAEKFLNENKD  191 (410)
Q Consensus       179 ~e~A~~Al~~~~g  191 (410)
                      .|-|..|++.++|
T Consensus       175 ke~A~~Aika~ng  187 (510)
T KOG0144|consen  175 KEMAVAAIKALNG  187 (510)
T ss_pred             HHHHHHHHHhhcc
Confidence            9999999999997

>KOG0146|consensus

Probab=99.48  E-value=1.5e-13  Score=126.53  Aligned_cols=66  Identities=21%  Similarity=0.297  Sum_probs=63.1

Q ss_pred             ccceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCC
Q psy5142         117 LIAQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKD  191 (410)
Q Consensus       117 ~~~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g  191 (410)
                      -++|.|||+-|...-.+||++.+|..|    |+|.++.+.+..++     .+||||||.|.+..+|+.||..++|
T Consensus        17 ~~drklfvgml~kqq~e~dvrrlf~pf----G~~~e~tvlrg~dg-----~sKGCAFVKf~s~~eAqaAI~aLHg   82 (371)
T KOG0146|consen   17 GDDRKLFVGMLNKQQSEDDVRRLFQPF----GNIEECTVLRGPDG-----NSKGCAFVKFSSHAEAQAAINALHG   82 (371)
T ss_pred             ccchhhhhhhhcccccHHHHHHHhccc----CCcceeEEecCCCC-----CCCCceEEEeccchHHHHHHHHhcc
Confidence            478999999999999999999999999    99999999998888     8999999999999999999999997

>KOG4206|consensus

Probab=99.47  E-value=1.2e-12  Score=118.68  Aligned_cols=186  Identities=19%  Similarity=0.283  Sum_probs=125.1

Q ss_pred             eeeEeecCCCCCCHHHHHH----HHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCCcc
Q psy5142         120 QSLYVKYIPVDATLDDIKD----FFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLK  195 (410)
Q Consensus       120 rtv~V~~lp~~~t~~~L~~----~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~~  195 (410)
                      .||||.||+..+..++|+.    +|++|    |.|.+|.+.+..       +.+|-|||.|.+.+.|-.|+..++|  .-
T Consensus        10 ~TlYInnLnekI~~~elkrsL~~LFsqf----G~ildI~a~kt~-------KmRGQA~VvFk~~~~As~A~r~l~g--fp   76 (221)
T KOG4206|consen   10 GTLYINNLNEKIKKDELKRSLYLLFSQF----GKILDISAFKTP-------KMRGQAFVVFKETEAASAALRALQG--FP   76 (221)
T ss_pred             ceEeehhccccccHHHHHHHHHHHHHhh----CCeEEEEecCCC-------CccCceEEEecChhHHHHHHHHhcC--Cc
Confidence            4999999999999999988    99999    999999987643       6799999999999999999999997  55


Q ss_pred             ccccccchhhhhhhhcccccccccCcccccchhhhchH---HHHHHHHHHHHhh-----hhc-cccCccCCCCCC----C
Q psy5142         196 FNENCEHKNAEKFLNENKDKNLKFNENCEHSLLIKWQQ---EYHEEKKQEVRSK-----RDK-SKKSTEGDGEGN----T  262 (410)
Q Consensus       196 ~~~~~~~~~~~k~~~~~~~~~~~~~g~~~~~L~v~~k~---~~~~~k~~e~~~~-----~~k-~k~~~e~~~~~~----~  262 (410)
                      |                       -|   +++++....   +...+.......+     .++ .......+.+..    .
T Consensus        77 F-----------------------yg---K~mriqyA~s~sdii~~~~~~~v~~~~k~~~~~~~~~~~~~~~ng~~~~~~  130 (221)
T KOG4206|consen   77 F-----------------------YG---KPMRIQYAKSDSDIIAQAPGTFVEKEKKINGEILARIKQPLDTNGHFYNMN  130 (221)
T ss_pred             c-----------------------cC---chhheecccCccchhhccCceeccccCccccccccccCCcccccccccccc
Confidence            5                       33   444433211   1111100000000     000 000000000000    0


Q ss_pred             -CCC--cccccCCCCCeEEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCCC-ceEEEEeCChhHHHHHHHHhcCC
Q psy5142         263 -EGS--KQVVLELPTGALLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVGE-PTAFVRYKKENNAEAVLKALGSK  338 (410)
Q Consensus       263 -~~~--~~~~~~~~~g~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g~-~~afV~F~~~e~A~~Al~~l~~~  338 (410)
                       ...  .......+++.+|++.|||..++.+.|..+|.+|.    .-..|.+..+. ..|||+|.+...|..|...++  
T Consensus       131 ~~~~p~p~~~~~~ppn~ilf~~niP~es~~e~l~~lf~qf~----g~keir~i~~~~~iAfve~~~d~~a~~a~~~lq--  204 (221)
T KOG4206|consen  131 RMNLPPPFLAQMAPPNNILFLTNIPSESESEMLSDLFEQFP----GFKEIRLIPPRSGIAFVEFLSDRQASAAQQALQ--  204 (221)
T ss_pred             cccCCCCccccCCCCceEEEEecCCcchhHHHHHHHHhhCc----ccceeEeccCCCceeEEecchhhhhHHHhhhhc--
Confidence             000  00123478889999999999999999999999998    77777777754 569999999999999999994  


Q ss_pred             CeEEc-CeEEEEE
Q psy5142         339 EIVIK-DVKVSIE  350 (410)
Q Consensus       339 ~~~i~-g~~v~v~  350 (410)
                      +..|- ...+.+.
T Consensus       205 ~~~it~~~~m~i~  217 (221)
T KOG4206|consen  205 GFKITKKNTMQIT  217 (221)
T ss_pred             cceeccCceEEec
Confidence            44443 4555543

>KOG0123|consensus

Probab=99.46  E-value=4.6e-13  Score=133.69  Aligned_cols=178  Identities=24%  Similarity=0.312  Sum_probs=132.6

Q ss_pred             ccceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCCccc
Q psy5142         117 LIAQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLKF  196 (410)
Q Consensus       117 ~~~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~~~  196 (410)
                      .....+||.+++.+++.+.|..+|+.+    |+|.++.++++..+     .++||+||.|++.++|..|+..+++  ..+
T Consensus       165 ~~~t~v~vk~~~~~~~~~~l~~~f~~~----g~i~s~~v~~~~~g-----~~~~~gfv~f~~~e~a~~av~~l~~--~~~  233 (369)
T KOG0123|consen  165 KRFTNVYVKNLEEDSTDEELKDLFSAY----GSITSVAVMRDSIG-----KSKGFGFVNFENPEDAKKAVETLNG--KIF  233 (369)
T ss_pred             hhhhhhheeccccccchHHHHHhhccc----CcceEEEEeecCCC-----CCCCccceeecChhHHHHHHHhccC--CcC
Confidence            345689999999999999999999999    99999999998887     7899999999999999999999996  334


Q ss_pred             cccccchhhhhhhhcccccccccCcccccchhhhchHHHHHHHHHHHHhhhhccccCccCCCCCCCCCCcccccCCCCCe
Q psy5142         197 NENCEHKNAEKFLNENKDKNLKFNENCEHSLLIKWQQEYHEEKKQEVRSKRDKSKKSTEGDGEGNTEGSKQVVLELPTGA  276 (410)
Q Consensus       197 ~~~~~~~~~~k~~~~~~~~~~~~~g~~~~~L~v~~k~~~~~~k~~e~~~~~~k~k~~~e~~~~~~~~~~~~~~~~~~~g~  276 (410)
                                             .+   ..+.|.....-.+. ..+-..     .....          ...........
T Consensus       234 -----------------------~~---~~~~V~~aqkk~e~-~~~l~~-----~~~~~----------~~~~~~~~~~~  271 (369)
T KOG0123|consen  234 -----------------------GD---KELYVGRAQKKSER-EAELKR-----KFEQE----------FAKRSVSLQGA  271 (369)
T ss_pred             -----------------------Cc---cceeecccccchhh-HHHHhh-----hhHhh----------hhhcccccccc
Confidence                                   22   33333321110000 000000     00000          00111234456


Q ss_pred             EEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCC-----CceEEEEeCChhHHHHHHHHhcCCCeEEcCeEEEEEe
Q psy5142         277 LLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVG-----EPTAFVRYKKENNAEAVLKALGSKEIVIKDVKVSIEV  351 (410)
Q Consensus       277 ~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g-----~~~afV~F~~~e~A~~Al~~l~~~~~~i~g~~v~v~~  351 (410)
                      .|+|.|++..++.+.|+..|+.||    +|..+.+...     .++|||.|.++++|.+|+..+  ++-.+.++.+.|.+
T Consensus       272 nl~vknld~~~~~e~L~~~f~~~G----eI~s~kv~~~~~g~skG~gfV~fs~~eeA~~A~~~~--n~~~i~~k~l~vav  345 (369)
T KOG0123|consen  272 NLYVKNLDETLSDEKLRKIFSSFG----EITSAKVMVDENGKSKGFGFVEFSSPEEAKKAMTEM--NGRLIGGKPLYVAV  345 (369)
T ss_pred             ccccccCccccchhHHHHHHhccc----ceeeEEEEeccCCCccceEEEEcCCHHHHHHHHHhh--ChhhhcCCchhhhH
Confidence            899999999999999999999999    9988777653     456999999999999999999  67788888888876


Q ss_pred             cC
Q psy5142         352 VT  353 (410)
Q Consensus       352 l~  353 (410)
                      +.
T Consensus       346 ~q  347 (369)
T KOG0123|consen  346 AQ  347 (369)
T ss_pred             Hh
Confidence            54

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

Probab=99.41  E-value=7.4e-13  Score=115.51  Aligned_cols=69  Identities=13%  Similarity=0.218  Sum_probs=63.4

Q ss_pred             cceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCCccc
Q psy5142         118 IAQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLKF  196 (410)
Q Consensus       118 ~~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~~~  196 (410)
                      ..++|||+|||+++|+++|+++|++|    |.|.+|.|+.+..++    +++|||||+|.+.++|+.|++.+++  ..+
T Consensus        33 ~~~~lfVgnL~~~~te~~L~~~F~~~----G~I~~v~i~~d~~tg----~~kGfaFV~F~~~e~A~~Al~~lng--~~i  101 (144)
T PLN03134         33 MSTKLFIGGLSWGTDDASLRDAFAHF----GDVVDAKVIVDRETG----RSRGFGFVNFNDEGAATAAISEMDG--KEL  101 (144)
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHhcC----CCeEEEEEEecCCCC----CcceEEEEEECCHHHHHHHHHHcCC--CEE
Confidence            45789999999999999999999999    999999999988775    8999999999999999999999886  445

>KOG0110|consensus

Probab=99.38  E-value=4.6e-12  Score=130.49  Aligned_cols=214  Identities=19%  Similarity=0.255  Sum_probs=131.9

Q ss_pred             hhccceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCCc
Q psy5142         115 KDLIAQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNL  194 (410)
Q Consensus       115 ~~~~~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~  194 (410)
                      ++...+-|+|+|||..+..++|..+|..|    |.|..|.||+...          .++|+|.++.+|.+|+..+..  .
T Consensus       381 ~~rs~~vil~kNlpa~t~~~elt~~F~~f----G~i~rvllp~~G~----------~aiv~fl~p~eAr~Afrklay--s  444 (725)
T KOG0110|consen  381 AERSDTVILVKNLPAGTLSEELTEAFLRF----GEIGRVLLPPGGT----------GAIVEFLNPLEARKAFRKLAY--S  444 (725)
T ss_pred             hhhhcceeeeccCccccccHHHHHHhhcc----cccceeecCcccc----------eeeeeecCccchHHHHHHhch--h
Confidence            45667889999999999999999999999    9999998773211          299999999999999999873  2


Q ss_pred             ccccc--ccchhhhhhhhcccccccccCcccccchhhhchHHHHHHHHHHHHhhhhccccCccCCCCCCCCC-CcccccC
Q psy5142         195 KFNEN--CEHKNAEKFLNENKDKNLKFNENCEHSLLIKWQQEYHEEKKQEVRSKRDKSKKSTEGDGEGNTEG-SKQVVLE  271 (410)
Q Consensus       195 ~~~~~--~~~~~~~k~~~~~~~~~~~~~g~~~~~L~v~~k~~~~~~k~~e~~~~~~k~k~~~e~~~~~~~~~-~~~~~~~  271 (410)
                      .+...  +-...+......+ +....+.... ... +.       ....+....   ..+....+.....+. .......
T Consensus       445 r~k~~plyle~aP~dvf~~~-pka~~~~~e~-~~~-~e-------e~~~Er~s~---~d~~v~eD~d~te~ss~a~~a~~  511 (725)
T KOG0110|consen  445 RFKSAPLYLEWAPEDVFTED-PKADDLSAES-RSK-ME-------ENPSERVSA---EDGQVEEDKDPTEESSLARVAED  511 (725)
T ss_pred             hhccCccccccChhhhccCC-cccccccccc-ccc-cc-------cCcceeccc---ccccccccCCccccccchhhhhc
Confidence            22100  0011111111111 1100000000 000 00       000000000   000000000000000 0001112


Q ss_pred             CCCCeEEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCCC---------ceEEEEeCChhHHHHHHHHhcCCCeEE
Q psy5142         272 LPTGALLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVGE---------PTAFVRYKKENNAEAVLKALGSKEIVI  342 (410)
Q Consensus       272 ~~~g~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g~---------~~afV~F~~~e~A~~Al~~l~~~~~~i  342 (410)
                      ...-+.||+.||+++++.++|..+|.+.|    .|..+.|..-.         ++|||+|.++++|+.|++.|  ++..|
T Consensus       512 ~~~~t~lfvkNlnf~Tt~e~l~~~F~k~G----~VlS~~I~kkkd~~~k~lSmGfgFVEF~~~e~A~~a~k~l--qgtvl  585 (725)
T KOG0110|consen  512 EETETKLFVKNLNFDTTLEDLEDLFSKQG----TVLSIEISKKKDPANKYLSMGFGFVEFAKPESAQAALKAL--QGTVL  585 (725)
T ss_pred             cccchhhhhhcCCcccchhHHHHHHHhcC----eEEEEEEeccccccccccccceeEEEecCHHHHHHHHHHh--cCcee
Confidence            23334499999999999999999999999    88888665422         67999999999999999999  68999


Q ss_pred             cCeEEEEEecC------chHHHHHHHH
Q psy5142         343 KDVKVSIEVVT------GEEEQTVLDR  363 (410)
Q Consensus       343 ~g~~v~v~~l~------g~eE~~yw~k  363 (410)
                      +|+.|.|++..      +.....+|++
T Consensus       586 dGH~l~lk~S~~k~~~~~gK~~~~kk~  612 (725)
T KOG0110|consen  586 DGHKLELKISENKPASTVGKKKSKKKK  612 (725)
T ss_pred             cCceEEEEeccCccccccccccccccc
Confidence            99999999876      3355556665

>PF00076 RRM_1: RNA recognition motif

Probab=99.35  E-value=2.5e-12  Score=97.06  Aligned_cols=64  Identities=39%  Similarity=0.572  Sum_probs=58.5

Q ss_pred             eEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCCccc
Q psy5142         122 LYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLKF  196 (410)
Q Consensus       122 v~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~~~  196 (410)
                      |||+|||.++|.++|+++|++|    |.|..+.+..+..+     .++|+|||+|.+.++|++|++.++|  ..+
T Consensus         1 l~v~nlp~~~t~~~l~~~f~~~----g~i~~~~~~~~~~~-----~~~~~a~V~F~~~~~a~~a~~~l~g--~~~   64 (70)
T PF00076_consen    1 LYVGNLPPDVTEEELRDFFSQF----GKIESIKVMRNSSG-----KSKGYAFVEFESEEDAEKALEELNG--KKI   64 (70)
T ss_dssp             EEEESETTTSSHHHHHHHHHTT----STEEEEEEEEETTS-----SEEEEEEEEESSHHHHHHHHHHHTT--EEE
T ss_pred             cEEcCCCCcCCHHHHHHHHHHh----hhcccccccccccc-----cccceEEEEEcCHHHHHHHHHHcCC--CEE
Confidence            7999999999999999999999    99999999887444     7899999999999999999999886  445

(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 ....

>KOG0106|consensus

Probab=99.34  E-value=2e-12  Score=118.22  Aligned_cols=167  Identities=20%  Similarity=0.353  Sum_probs=120.7

Q ss_pred             eeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCCcccccc
Q psy5142         120 QSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLKFNEN  199 (410)
Q Consensus       120 rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~~~~~~  199 (410)
                      ..|||++||+.+.+.+|..||..|    |.|..|.|.            .||+||+|.+.-+|..|+..++++  .|   
T Consensus         2 ~rv~vg~~~~~~~~~d~E~~f~~y----g~~~d~~mk------------~gf~fv~fed~rda~Dav~~l~~~--~l---   60 (216)
T KOG0106|consen    2 PRVYIGRLPYRARERDVERFFKGY----GKIPDADMK------------NGFGFVEFEDPRDADDAVHDLDGK--EL---   60 (216)
T ss_pred             CceeecccCCccchhHHHHHHhhc----cccccceee------------cccceeccCchhhhhcccchhcCc--ee---
Confidence            368999999999999999999999    999998774            678899999999999999988852  33   


Q ss_pred             ccchhhhhhhhcccccccccCcccccchhhhchHHHHHHHHHHHHhhhhccccCccCCCCCCCCCCcccccCCCCCeEEE
Q psy5142         200 CEHKNAEKFLNENKDKNLKFNENCEHSLLIKWQQEYHEEKKQEVRSKRDKSKKSTEGDGEGNTEGSKQVVLELPTGALLK  279 (410)
Q Consensus       200 ~~~~~~~k~~~~~~~~~~~~~g~~~~~L~v~~k~~~~~~k~~e~~~~~~k~k~~~e~~~~~~~~~~~~~~~~~~~g~~l~  279 (410)
                                          .+   ..+.+.+.....-             .+..-..+ .-...........-..|.+.
T Consensus        61 --------------------~~---e~~vve~~r~~~~-------------~~g~~~~g-~r~~~~~~~~~p~~s~~r~~  103 (216)
T KOG0106|consen   61 --------------------CG---ERLVVEHARGKRR-------------GRGRPRGG-DRRSDSRRYRPPSRTHFRLI  103 (216)
T ss_pred             --------------------cc---eeeeeeccccccc-------------ccCCCCCC-CccchhhccCCcccccceee
Confidence                                22   2244443211000             00000000 00000001112244578999


Q ss_pred             EeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCCCceEEEEeCChhHHHHHHHHhcCCCeEEcCeEEEEEec
Q psy5142         280 ISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVGEPTAFVRYKKENNAEAVLKALGSKEIVIKDVKVSIEVV  352 (410)
Q Consensus       280 v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g~~~afV~F~~~e~A~~Al~~l~~~~~~i~g~~v~v~~l  352 (410)
                      |.+++..+++.+|++.|.++|    .+.+++..  ...|||+|.+.++|..|+..+  .+..+.++.|++..-
T Consensus       104 ~~~~~~r~~~qdl~d~~~~~g----~~~~~~~~--~~~~~v~Fs~~~da~ra~~~l--~~~~~~~~~l~~~~~  168 (216)
T KOG0106|consen  104 VRNLSLRVSWQDLKDHFRPAG----EVTYVDAR--RNFAFVEFSEQEDAKRALEKL--DGKKLNGRRISVEKN  168 (216)
T ss_pred             eccchhhhhHHHHhhhhcccC----CCchhhhh--ccccceeehhhhhhhhcchhc--cchhhcCceeeeccc
Confidence            999999999999999999999    88666653  367999999999999999999  678899999988433

>KOG0147|consensus

Probab=99.32  E-value=5.4e-12  Score=126.83  Aligned_cols=220  Identities=19%  Similarity=0.211  Sum_probs=137.3

Q ss_pred             eeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCCccccccc
Q psy5142         121 SLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLKFNENC  200 (410)
Q Consensus       121 tv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~~~~~~~  200 (410)
                      .|||+||-..+|+++|+.+|++|    |.|..|.++++..++    .++||+||+|.+.++|.+|+..+||  +.+++.+
T Consensus       280 rl~vgnLHfNite~~lr~ifepf----g~Ie~v~l~~d~~tG----~skgfGfi~f~~~~~ar~a~e~lng--felAGr~  349 (549)
T KOG0147|consen  280 RLYVGNLHFNITEDMLRGIFEPF----GKIENVQLTKDSETG----RSKGFGFITFVNKEDARKALEQLNG--FELAGRL  349 (549)
T ss_pred             hhhhcccccCchHHHHhhhccCc----ccceeeeeccccccc----cccCcceEEEecHHHHHHHHHHhcc--ceecCce
Confidence            39999999999999999999999    999999999998665    8999999999999999999999997  6676666


Q ss_pred             cchhhhhhhhcccccccc---cCcccccch--hhhchHHHHHHHHHHHHhhhhccc--------cCccCCCC-----CCC
Q psy5142         201 EHKNAEKFLNENKDKNLK---FNENCEHSL--LIKWQQEYHEEKKQEVRSKRDKSK--------KSTEGDGE-----GNT  262 (410)
Q Consensus       201 ~~~~~~k~~~~~~~~~~~---~~g~~~~~L--~v~~k~~~~~~k~~e~~~~~~k~k--------~~~e~~~~-----~~~  262 (410)
                      +.+......-..+...+.   +...-...|  -...       +.+.+....+...        ........     +..
T Consensus       350 ikV~~v~~r~~~~~a~~~~~d~D~~d~~gl~~~~~g-------~~Ql~~kla~~~~~~~~s~~~~~l~~~~~~~~~~~~~  422 (549)
T KOG0147|consen  350 IKVSVVTERVDTKEAAVTQFDFDEDDRQGLSLGSGG-------RNQLMAKLAEGKGRSLPSTAISALLLLAKLASAAQFN  422 (549)
T ss_pred             EEEEEeeeecccccccccccccchhhcccccccccc-------HHHHHHHHhccCCccccchhhhHHHhccccchHHhhc
Confidence            543111100000000000   000000011  0000       0000000000000        00000000     000


Q ss_pred             --------CC-CcccccCCCCCeEEEEeCC--CCCCC--------HHHHHHHHHhcCCCCCCeeEEEeeCCC-ceEEEEe
Q psy5142         263 --------EG-SKQVVLELPTGALLKISDI--KEPVS--------REDIREVLEKVQTDDQEIVFIEFNVGE-PTAFVRY  322 (410)
Q Consensus       263 --------~~-~~~~~~~~~~g~~l~v~nL--~~~~t--------~edLk~~F~~~G~~~~~V~~V~~~~g~-~~afV~F  322 (410)
                              .. ...+....+..| +.+.|+  |.+.|        ++|+.+-+.+||    .|..|.+.++. +.-||+|
T Consensus       423 ~~~~~~~~~p~~~~p~~~i~t~C-~lL~nMFdpstete~n~d~eI~edV~Eec~k~g----~v~hi~vd~ns~g~VYvrc  497 (549)
T KOG0147|consen  423 GVVRVRSVDPADASPAFDIPTQC-LLLSNMFDPSTETEPNWDQEIREDVIEECGKHG----KVCHIFVDKNSAGCVYVRC  497 (549)
T ss_pred             CCcCccccCccccccccCCccHH-HHHhhcCCcccccCcchhhHHHHHHHHHHHhcC----CeeEEEEccCCCceEEEec
Confidence                    00 000111123334 335552  22222        588999999999    99998887766 6789999


Q ss_pred             CChhHHHHHHHHhcCCCeEEcCeEEEEEecCchHHHHHHHHhHHH
Q psy5142         323 KKENNAEAVLKALGSKEIVIKDVKVSIEVVTGEEEQTVLDRMKID  367 (410)
Q Consensus       323 ~~~e~A~~Al~~l~~~~~~i~g~~v~v~~l~g~eE~~yw~k~~~~  367 (410)
                      .+.+.|..|+.+|  ++-.+.|+-|++..+.   ...|..++++.
T Consensus       498 ~s~~~A~~a~~al--hgrWF~gr~Ita~~~~---~~~Y~~~FP~~  537 (549)
T KOG0147|consen  498 PSAEAAGTAVKAL--HGRWFAGRMITAKYLP---LERYHSKFPDS  537 (549)
T ss_pred             CcHHHHHHHHHHH--hhhhhccceeEEEEee---hhhhhhhCCCc
Confidence            9999999999999  8899999999999886   56777766553

>KOG1548|consensus

Probab=99.29  E-value=2.9e-11  Score=115.37  Aligned_cols=194  Identities=16%  Similarity=0.246  Sum_probs=122.9

Q ss_pred             ccceeeEeecCCCCCCHHHHHHHHhhccCCCCceEE--------EEEcccCcccccccccccEEEEEecCHHHHHHHHHh
Q psy5142         117 LIAQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITN--------IIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNE  188 (410)
Q Consensus       117 ~~~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~--------v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~  188 (410)
                      .....|||+|||.++|.+++.++|++|    |-|..        |.|-++.++     .++|=|.+.|-..|++.-|+..
T Consensus       132 ~~Nt~VYVsgLP~DiT~dE~~~~~sKc----GiI~~d~~t~epk~KlYrd~~G-----~lKGDaLc~y~K~ESVeLA~~i  202 (382)
T KOG1548|consen  132 KVNTSVYVSGLPLDITVDEFAEVMSKC----GIIMRDPQTGEPKVKLYRDNQG-----KLKGDALCCYIKRESVELAIKI  202 (382)
T ss_pred             ccCceEEecCCCCcccHHHHHHHHHhc----ceEeccCCCCCeeEEEEecCCC-----CccCceEEEeecccHHHHHHHH
Confidence            345669999999999999999999999    86632        334444443     8999999999999999999999


Q ss_pred             cCCCCccccccccchhhhhhhhcccccccccCcccccchhhhch-----HHHHHHHHHHHHhhhhccccCccCCCCCCCC
Q psy5142         189 NKDKNLKFNENCEHKNAEKFLNENKDKNLKFNENCEHSLLIKWQ-----QEYHEEKKQEVRSKRDKSKKSTEGDGEGNTE  263 (410)
Q Consensus       189 ~~g~~~~~~~~~~~~~~~k~~~~~~~~~~~~~g~~~~~L~v~~k-----~~~~~~k~~e~~~~~~k~k~~~e~~~~~~~~  263 (410)
                      +++  ..+                       .|   ..|+|.-.     ..|...++........+..+.+....-... 
T Consensus       203 lDe--~~~-----------------------rg---~~~rVerAkfq~Kge~~~~~k~k~k~~~~kk~~k~q~k~~dw~-  253 (382)
T KOG1548|consen  203 LDE--DEL-----------------------RG---KKLRVERAKFQMKGEYDASKKEKGKCKDKKKLKKQQQKLLDWR-  253 (382)
T ss_pred             hCc--ccc-----------------------cC---cEEEEehhhhhhccCcCcccccccccccHHHHHHHHHhhcccC-
Confidence            986  344                       33   44443311     111110000000000000000000000000 


Q ss_pred             CCcccccCCCCCeEEEEeCC--CC--CCC-------HHHHHHHHHhcCCCCCCeeEEEee--CCCceEEEEeCChhHHHH
Q psy5142         264 GSKQVVLELPTGALLKISDI--KE--PVS-------REDIREVLEKVQTDDQEIVFIEFN--VGEPTAFVRYKKENNAEA  330 (410)
Q Consensus       264 ~~~~~~~~~~~g~~l~v~nL--~~--~~t-------~edLk~~F~~~G~~~~~V~~V~~~--~g~~~afV~F~~~e~A~~  330 (410)
                      ..........-.++|.|.|+  |.  ..+       .++|++-+.+||    .|..|.+-  ...+.+-|+|.+.+.|..
T Consensus       254 pd~~~~sk~r~~~tVi~kn~Ftp~~~~~~~~l~~dlkedl~eec~K~G----~v~~vvv~d~hPdGvvtV~f~n~eeA~~  329 (382)
T KOG1548|consen  254 PDRDDPSKARADRTVILKNMFTPEDFEKNPDLLNDLKEDLTEECEKFG----QVRKVVVYDRHPDGVVTVSFRNNEEADQ  329 (382)
T ss_pred             CCccccccccCCcEEEeeecCCHHHhccCHHHHHHHHHHHHHHHHHhC----CcceEEEeccCCCceeEEEeCChHHHHH
Confidence            00001122334568888884  22  223       578888899999    88887665  445678899999999999


Q ss_pred             HHHHhcCCCeEEcCeEEEEEecCc
Q psy5142         331 VLKALGSKEIVIKDVKVSIEVVTG  354 (410)
Q Consensus       331 Al~~l~~~~~~i~g~~v~v~~l~g  354 (410)
                      ||+.|  +|..++|+.|+.++-.|
T Consensus       330 ciq~m--~GR~fdgRql~A~i~DG  351 (382)
T KOG1548|consen  330 CIQTM--DGRWFDGRQLTASIWDG  351 (382)
T ss_pred             HHHHh--cCeeecceEEEEEEeCC
Confidence            99999  78999999999887654

>PF14259 RRM_6: RNA recognition motif (a

Probab=99.27  E-value=1.2e-11  Score=93.87  Aligned_cols=64  Identities=22%  Similarity=0.466  Sum_probs=57.2

Q ss_pred             eEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCCccc
Q psy5142         122 LYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLKF  196 (410)
Q Consensus       122 v~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~~~  196 (410)
                      |||+|||+++|.++|+++|+.|    |.|..|+|.+.+.+     .++|+|||+|.++++|.+|+...++  ..+
T Consensus         1 v~i~nlp~~~~~~~l~~~f~~~----g~v~~v~~~~~~~~-----~~~~~a~v~f~~~~~a~~al~~~~~--~~~   64 (70)
T PF14259_consen    1 VYISNLPPSTTEEDLRNFFSRF----GPVEKVRLIKNKDG-----QSRGFAFVEFSSEEDAKRALELLNG--KEI   64 (70)
T ss_dssp             EEEESSTTT--HHHHHHHCTTS----SBEEEEEEEESTTS-----SEEEEEEEEESSHHHHHHHHHHHTT--EEE
T ss_pred             CEEeCCCCCCCHHHHHHHHHhc----CCcceEEEEeeecc-----ccCCEEEEEeCCHHHHHHHHHHCCC--cEE
Confidence            7999999999999999999999    99999999988774     8999999999999999999999885  445

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 ....

>PLN03120 nucleic acid binding protein; Provisional

Probab=99.21  E-value=2.4e-11  Score=113.96  Aligned_cols=64  Identities=25%  Similarity=0.333  Sum_probs=57.3

Q ss_pred             ceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCCccc
Q psy5142         119 AQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLKF  196 (410)
Q Consensus       119 ~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~~~  196 (410)
                      .++|||+|||+.+|+++|++||+.|    |.|.+|.|+++..       .+|||||+|.++++|+.||. ++|  ..+
T Consensus         4 ~rtVfVgNLs~~tTE~dLrefFS~~----G~I~~V~I~~d~~-------~~GfAFVtF~d~eaAe~All-LnG--~~l   67 (260)
T PLN03120          4 VRTVKVSNVSLKATERDIKEFFSFS----GDIEYVEMQSENE-------RSQIAYVTFKDPQGAETALL-LSG--ATI   67 (260)
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHhc----CCeEEEEEeecCC-------CCCEEEEEeCcHHHHHHHHH-hcC--Cee
Confidence            5899999999999999999999999    9999999987653       47999999999999999996 565  455

>TIGR01659 sex-lethal sex-lethal family splicing factor

Probab=99.20  E-value=6.2e-11  Score=117.75  Aligned_cols=100  Identities=21%  Similarity=0.249  Sum_probs=76.8

Q ss_pred             cHHHHHHHHhhcCCceEEEecCccceecCCCCCCCCCchhhhhhccceeeEeecCCCCCCHHHHHHHHhhccCCCCceEE
Q psy5142          73 EAKVIVDALKKSTSKLIEVNEDGTKIRRNPEKELPTFDIDFVKDLIAQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITN  152 (410)
Q Consensus        73 d~~~i~~Al~~~~S~~levsed~~~vrR~~~~p~p~~~~~~~~~~~~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~  152 (410)
                      |.+.+..||..  -+...+.....+|...    .|..     .....++|||.|||.++|+++|+++|++|    |.|..
T Consensus       158 ~~e~A~~Ai~~--LnG~~l~gr~i~V~~a----~p~~-----~~~~~~~lfV~nLp~~vtee~L~~~F~~f----G~V~~  222 (346)
T TIGR01659       158 SEADSQRAIKN--LNGITVRNKRLKVSYA----RPGG-----ESIKDTNLYVTNLPRTITDDQLDTIFGKY----GQIVQ  222 (346)
T ss_pred             cHHHHHHHHHH--cCCCccCCceeeeecc----cccc-----cccccceeEEeCCCCcccHHHHHHHHHhc----CCEEE
Confidence            56777777773  2334444333333322    1211     12346789999999999999999999999    99999


Q ss_pred             EEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCC
Q psy5142         153 IIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKD  191 (410)
Q Consensus       153 v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g  191 (410)
                      |.|+++..++    +++|||||+|.+.++|++||+.+++
T Consensus       223 v~i~~d~~tg----~~kG~aFV~F~~~e~A~~Ai~~lng  257 (346)
T TIGR01659       223 KNILRDKLTG----TPRGVAFVRFNKREEAQEAISALNN  257 (346)
T ss_pred             EEEeecCCCC----ccceEEEEEECCHHHHHHHHHHhCC
Confidence            9999987665    7899999999999999999999996

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).

>PF00076 RRM_1: RNA recognition motif

Probab=99.19  E-value=9.9e-11  Score=88.17  Aligned_cols=65  Identities=25%  Similarity=0.408  Sum_probs=59.0

Q ss_pred             EEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCC-----CceEEEEeCChhHHHHHHHHhcCCCeEEcCeEEE
Q psy5142         278 LKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVG-----EPTAFVRYKKENNAEAVLKALGSKEIVIKDVKVS  348 (410)
Q Consensus       278 l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g-----~~~afV~F~~~e~A~~Al~~l~~~~~~i~g~~v~  348 (410)
                      |+|.|||+++++++|+++|++||    .|..+.+.+.     ...|||+|.+.++|++|++.+  ++..++|+.|+
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 LYVGNLPPDVTEEELRDFFSQFG----KIESIKVMRNSSGKSKGYAFVEFESEEDAEKALEEL--NGKKINGRKIR   70 (70)
T ss_dssp             EEEESETTTSSHHHHHHHHHTTS----TEEEEEEEEETTSSEEEEEEEEESSHHHHHHHHHHH--TTEEETTEEEE
T ss_pred             cEEcCCCCcCCHHHHHHHHHHhh----hcccccccccccccccceEEEEEcCHHHHHHHHHHc--CCCEECccCcC
Confidence            68999999999999999999999    9988888873     345999999999999999999  67999999874

(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 ....

>KOG0121|consensus

Probab=99.17  E-value=5.1e-11  Score=98.77  Aligned_cols=72  Identities=24%  Similarity=0.235  Sum_probs=65.6

Q ss_pred             hhccceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCCc
Q psy5142         115 KDLIAQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNL  194 (410)
Q Consensus       115 ~~~~~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~  194 (410)
                      .-...+||||+||..-+|++.|.++|+.|    |+|..|.|=.++.+.    .+-|||||+|-+.++|..|+..++|  .
T Consensus        32 a~r~S~tvyVgNlSfyttEEqiyELFs~c----G~irriiMGLdr~kk----tpCGFCFVeyy~~~dA~~Alryisg--t  101 (153)
T KOG0121|consen   32 ALRKSCTVYVGNLSFYTTEEQIYELFSKC----GDIRRIIMGLDRFKK----TPCGFCFVEYYSRDDAEDALRYISG--T  101 (153)
T ss_pred             HHhhcceEEEeeeeeeecHHHHHHHHHhc----cchheeEeccccCCc----CccceEEEEEecchhHHHHHHHhcc--C
Confidence            44667999999999999999999999999    999999998888775    8999999999999999999999997  4


Q ss_pred             cc
Q psy5142         195 KF  196 (410)
Q Consensus       195 ~~  196 (410)
                      .+
T Consensus       102 rL  103 (153)
T KOG0121|consen  102 RL  103 (153)
T ss_pred             cc
Confidence            45

>KOG0122|consensus

Probab=99.16  E-value=5.3e-11  Score=108.83  Aligned_cols=67  Identities=21%  Similarity=0.326  Sum_probs=64.4

Q ss_pred             ccceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCC
Q psy5142         117 LIAQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKD  191 (410)
Q Consensus       117 ~~~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g  191 (410)
                      .+..||-|.|||.++++++|+++|.+|    |.|..|.|.+++.++    .++|||||+|.+.++|.+||+.++|
T Consensus       187 ~D~~tvRvtNLsed~~E~dL~eLf~~f----g~i~rvylardK~TG----~~kGFAFVtF~sRddA~rAI~~LnG  253 (270)
T KOG0122|consen  187 DDEATVRVTNLSEDMREDDLEELFRPF----GPITRVYLARDKETG----LSKGFAFVTFESRDDAARAIADLNG  253 (270)
T ss_pred             CccceeEEecCccccChhHHHHHhhcc----CccceeEEEEccccC----cccceEEEEEecHHHHHHHHHHccC
Confidence            367899999999999999999999999    999999999999997    9999999999999999999999997

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

Probab=99.13  E-value=3.7e-10  Score=106.24  Aligned_cols=145  Identities=21%  Similarity=0.310  Sum_probs=104.3

Q ss_pred             ceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCCccccc
Q psy5142         119 AQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLKFNE  198 (410)
Q Consensus       119 ~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~~~~~  198 (410)
                      .++|||+|||+++|+++|.++|.+|    |.|..|.|..+..++    .++|+|||+|.+.++|..|+..+++  ..|  
T Consensus       115 ~~~l~v~nL~~~~~~~~l~~~F~~~----g~~~~~~~~~d~~~~----~~~g~~~v~f~~~~~~~~a~~~~~~--~~~--  182 (306)
T COG0724         115 NNTLFVGNLPYDVTEEDLRELFKKF----GPVKRVRLVRDRETG----KSRGFAFVEFESEESAEKAIEELNG--KEL--  182 (306)
T ss_pred             CceEEEeCCCCCCCHHHHHHHHHhc----CceeEEEeeeccccC----ccCceEEEEecCHHHHHHHHHHcCC--CeE--
Confidence            5999999999999999999999999    999999999987554    8999999999999999999999996  455  


Q ss_pred             cccchhhhhhhhcccccccccCcccccchhhhchHH-HHHHHHHHHHhhhhccccCccCCCCCCCCCCcccccCCCCCeE
Q psy5142         199 NCEHKNAEKFLNENKDKNLKFNENCEHSLLIKWQQE-YHEEKKQEVRSKRDKSKKSTEGDGEGNTEGSKQVVLELPTGAL  277 (410)
Q Consensus       199 ~~~~~~~~k~~~~~~~~~~~~~g~~~~~L~v~~k~~-~~~~k~~e~~~~~~k~k~~~e~~~~~~~~~~~~~~~~~~~g~~  277 (410)
                                           .|   +.|.|.+... ....  ....      ..   ...................+..
T Consensus       183 ---------------------~~---~~~~v~~~~~~~~~~--~~~~------~~---~~~~~~~~~~~~~~~~~~~~~~  227 (306)
T COG0724         183 ---------------------EG---RPLRVQKAQPASQPR--SELS------NN---LDASFAKKLSRGKALLLEKSDN  227 (306)
T ss_pred             ---------------------CC---ceeEeeccccccccc--cccc------cc---cchhhhccccccccccccccce
Confidence                                 55   6666665321 0000  0000      00   0000000000111234556778


Q ss_pred             EEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCC
Q psy5142         278 LKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVG  314 (410)
Q Consensus       278 l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g  314 (410)
                      +++.+++..++...+...|..+|    .+..+.+...
T Consensus       228 ~~~~~~~~~~~~~~~~~~~~~~~----~~~~~~~~~~  260 (306)
T COG0724         228 LYVGNLPLKTAEEELADLFKSRG----DIVRASLPPS  260 (306)
T ss_pred             eeccccccccchhHHHHhccccc----cceeeeccCC
Confidence            89999999999999999999999    7766666543

>KOG4212|consensus

Probab=99.12  E-value=5.6e-10  Score=109.36  Aligned_cols=191  Identities=19%  Similarity=0.325  Sum_probs=126.8

Q ss_pred             ccceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCCccc
Q psy5142         117 LIAQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLKF  196 (410)
Q Consensus       117 ~~~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~~~  196 (410)
                      ...|++||.|+|+++.+.+|+++|....   |+|+.|.|.-+..+     +.+|||.|||+++|.+++|++.++  +..|
T Consensus        42 ~r~R~vfItNIpyd~rWqdLKdLvrekv---Gev~yveLl~D~~G-----K~rGcavVEFk~~E~~qKa~E~ln--k~~~  111 (608)
T KOG4212|consen   42 ARDRSVFITNIPYDYRWQDLKDLVREKV---GEVEYVELLFDESG-----KARGCAVVEFKDPENVQKALEKLN--KYEV  111 (608)
T ss_pred             cccceEEEecCcchhhhHhHHHHHHHhc---CceEeeeeecccCC-----CcCCceEEEeeCHHHHHHHHHHhh--hccc
Confidence            3468899999999999999999998643   99999999998887     899999999999999999999998  2455


Q ss_pred             cccccchhhhhhhhcccccccccCcccccchhhhchHHHHHHHHHHHHhhhh------------------c---------
Q psy5142         197 NENCEHKNAEKFLNENKDKNLKFNENCEHSLLIKWQQEYHEEKKQEVRSKRD------------------K---------  249 (410)
Q Consensus       197 ~~~~~~~~~~k~~~~~~~~~~~~~g~~~~~L~v~~k~~~~~~k~~e~~~~~~------------------k---------  249 (410)
                                             .|   ++|.|.-..  ..++......-+.                  +         
T Consensus       112 -----------------------~G---R~l~vKEd~--d~q~~~~~~~~r~g~~~f~~~~~~q~G~~~l~~~g~ggG~~  163 (608)
T KOG4212|consen  112 -----------------------NG---RELVVKEDH--DEQRDQYGRIVRDGGGGFGGGGGVQGGNGGLNGGGGGGGDR  163 (608)
T ss_pred             -----------------------cC---ceEEEeccC--chhhhhhhheeeccCcccccCcceecccccccccCCCCccc
Confidence                                   66   777765311  1110000000000                  0         


Q ss_pred             --cccCccCCCC-----CCC-C----CCc-------------ccccCCCC-CeEEEEeCCCCCCCHHHHHHHHHhcCCCC
Q psy5142         250 --SKKSTEGDGE-----GNT-E----GSK-------------QVVLELPT-GALLKISDIKEPVSREDIREVLEKVQTDD  303 (410)
Q Consensus       250 --~k~~~e~~~~-----~~~-~----~~~-------------~~~~~~~~-g~~l~v~nL~~~~t~edLk~~F~~~G~~~  303 (410)
                        .....+.+..     ... +    ...             +-..-.+| --.+||.||...+....|++.|.-.|   
T Consensus       164 ~Rg~~~~D~Dr~sr~~~t~t~~~~~~~~~~~~lfgl~~~Flr~~h~f~pPl~~k~fvanl~~~vg~~kL~qvfgmAG---  240 (608)
T KOG4212|consen  164 DRGFSRRDDDRLSRRNNTNTMSNDYNNSSNYNLFGLSASFLRSLHIFSPPLHNKVFVANLDYKVGNKKLKQVFGMAG---  240 (608)
T ss_pred             cCCCCcccccccccccCccccccccccchhhhcccchhhhhhhccCCCCCccceeeeeccccccchHHHHHHhccce---
Confidence              0000000000     000 0    000             00001122 23577999999999999999999999   


Q ss_pred             CCeeEEEeeCCC-----ceEEEEeCChhHHHHHHHHhcCCCeEEcCeEEEEEe
Q psy5142         304 QEIVFIEFNVGE-----PTAFVRYKKENNAEAVLKALGSKEIVIKDVKVSIEV  351 (410)
Q Consensus       304 ~~V~~V~~~~g~-----~~afV~F~~~e~A~~Al~~l~~~~~~i~g~~v~v~~  351 (410)
                       .|.+|++..++     +.|.++|..+-.|-.||.+++.++  +..++.++++
T Consensus       241 -kv~~vdf~idKeG~s~G~~vi~y~hpveavqaIsml~~~g--~~~~~~~~Rl  290 (608)
T KOG4212|consen  241 -KVQSVDFSIDKEGNSRGFAVIEYDHPVEAVQAISMLDRQG--LFDRRMTVRL  290 (608)
T ss_pred             -eeeeeceeeccccccCCeeEEEecchHHHHHHHHhhccCC--Cccccceeec
Confidence             89999987543     358899999999999999994322  2334444443

>KOG1457|consensus

Probab=99.12  E-value=2.2e-10  Score=103.41  Aligned_cols=209  Identities=16%  Similarity=0.249  Sum_probs=108.5

Q ss_pred             cceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCCcccc
Q psy5142         118 IAQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLKFN  197 (410)
Q Consensus       118 ~~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~~~~  197 (410)
                      .-|||||.+||.++..-+|..+|..|-.    -+...|... .++  ..-.+.+|||+|.+..+|..|+..++|  +.|.
T Consensus        33 ~VRTLFVSGLP~DvKpREiynLFR~f~G----YEgslLK~T-sk~--~~~~~pvaFatF~s~q~A~aamnaLNG--vrFD  103 (284)
T KOG1457|consen   33 AVRTLFVSGLPNDVKPREIYNLFRRFHG----YEGSLLKYT-SKG--DQVCKPVAFATFTSHQFALAAMNALNG--VRFD  103 (284)
T ss_pred             ccceeeeccCCcccCHHHHHHHhccCCC----ccceeeeec-cCC--CccccceEEEEecchHHHHHHHHHhcC--eeec
Confidence            3699999999999999999999998832    223333222 111  013578999999999999999999998  6773


Q ss_pred             ccccchhhhhhhhc-ccccccccCc--ccccchhhh--ch----HHHHHHHHHHHHhhh--h-ccccC-ccCCC---CC-
Q psy5142         198 ENCEHKNAEKFLNE-NKDKNLKFNE--NCEHSLLIK--WQ----QEYHEEKKQEVRSKR--D-KSKKS-TEGDG---EG-  260 (410)
Q Consensus       198 ~~~~~~~~~k~~~~-~~~~~~~~~g--~~~~~L~v~--~k----~~~~~~k~~e~~~~~--~-k~k~~-~e~~~---~~-  260 (410)
                      ..+-...--.+... .+-++-+..+  ..+..+.+.  .+    ..+...-........  + ...+. ++.+.   ++ 
T Consensus       104 pE~~stLhiElAKSNtK~kr~k~sgtP~~s~al~~~~~~~~qr~sa~~qhd~~l~~p~~l~~~~~a~al~~~~~t~~~~l  183 (284)
T KOG1457|consen  104 PETGSTLHIELAKSNTKRKRRKGSGTPGSSPALVIDNRNKEQRKSADDQHDEGLSDPDELQEPGNADALKENDTTKSEAL  183 (284)
T ss_pred             cccCceeEeeehhcCcccccCCCCCCCCCCccccccccChhhcccchhhccccccCccccCCccccccCCCccccchhhh
Confidence            22211000000000 0000000000  000000000  00    000000000000000  0 00000 00000   00 


Q ss_pred             -CCC-----CCc--ccccCCCC----CeEEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCCCceEEEEeCChhHH
Q psy5142         261 -NTE-----GSK--QVVLELPT----GALLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVGEPTAFVRYKKENNA  328 (410)
Q Consensus       261 -~~~-----~~~--~~~~~~~~----g~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g~~~afV~F~~~e~A  328 (410)
                       +..     ...  ....+.-.    -.+|||.||...|++++|+.+|+.|.  +..|..+.-.-|...|||.|++-+.|
T Consensus       184 ~a~~~~~P~a~a~l~ks~q~~~~~~acstlfianl~~~~~ed~l~~~~~~~~--gf~~l~~~~~~g~~vaf~~~~~~~~a  261 (284)
T KOG1457|consen  184 SAPDSKAPSANAHLEKSSQGGSGARACSTLFIANLGPNCTEDELKQLLSRYP--GFHILKIRARGGMPVAFADFEEIEQA  261 (284)
T ss_pred             hhhhhcCCcccchhhhhhcccccchhhhhHhhhccCCCCCHHHHHHHHHhCC--CceEEEEecCCCcceEeecHHHHHHH
Confidence             000     000  00011111    14799999999999999999999998  22444444445566799999999999


Q ss_pred             HHHHHHhcC
Q psy5142         329 EAVLKALGS  337 (410)
Q Consensus       329 ~~Al~~l~~  337 (410)
                      ..|+..|++
T Consensus       262 t~am~~lqg  270 (284)
T KOG1457|consen  262 TDAMNHLQG  270 (284)
T ss_pred             HHHHHHhhc
Confidence            999988853

>KOG0148|consensus

Probab=99.10  E-value=5e-10  Score=103.83  Aligned_cols=71  Identities=14%  Similarity=0.247  Sum_probs=60.6

Q ss_pred             EEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCC------CceEEEEeCChhHHHHHHHHhcCCCeEEcCeEEEEE
Q psy5142         277 LLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVG------EPTAFVRYKKENNAEAVLKALGSKEIVIKDVKVSIE  350 (410)
Q Consensus       277 ~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g------~~~afV~F~~~e~A~~Al~~l~~~~~~i~g~~v~v~  350 (410)
                      .++|..|...++-++|++.|.+||    +|...++.++      +++|||.|-+.++|+.||..|  ++-.|+++.|+..
T Consensus        64 hvfvgdls~eI~~e~lr~aF~pFG----evS~akvirD~~T~KsKGYgFVSf~~k~dAEnAI~~M--nGqWlG~R~IRTN  137 (321)
T KOG0148|consen   64 HVFVGDLSPEIDNEKLREAFAPFG----EVSDAKVIRDMNTGKSKGYGFVSFPNKEDAENAIQQM--NGQWLGRRTIRTN  137 (321)
T ss_pred             eEEehhcchhcchHHHHHHhcccc----ccccceEeecccCCcccceeEEeccchHHHHHHHHHh--CCeeeccceeecc
Confidence            577888999999999999999999    8877766653      457999999999999999999  7889998888765


Q ss_pred             ecC
Q psy5142         351 VVT  353 (410)
Q Consensus       351 ~l~  353 (410)
                      .++
T Consensus       138 WAT  140 (321)
T KOG0148|consen  138 WAT  140 (321)
T ss_pred             ccc
Confidence            543

>KOG0107|consensus

Probab=99.09  E-value=8.3e-10  Score=96.40  Aligned_cols=77  Identities=14%  Similarity=0.251  Sum_probs=66.3

Q ss_pred             CCCeEEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeC-CCceEEEEeCChhHHHHHHHHhcCCCeEEcCeEEEEEe
Q psy5142         273 PTGALLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNV-GEPTAFVRYKKENNAEAVLKALGSKEIVIKDVKVSIEV  351 (410)
Q Consensus       273 ~~g~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~-g~~~afV~F~~~e~A~~Al~~l~~~~~~i~g~~v~v~~  351 (410)
                      +.++.|||.||+..+++.+|..+|..||    .+..|=+.. -.++|||+|+++-+|+.|+..|  ++..|+|..|.|++
T Consensus         8 ~~~~kVYVGnL~~~a~k~eLE~~F~~yG----~lrsvWvArnPPGfAFVEFed~RDA~DAvr~L--DG~~~cG~r~rVE~   81 (195)
T KOG0107|consen    8 NGNTKVYVGNLGSRATKRELERAFSKYG----PLRSVWVARNPPGFAFVEFEDPRDAEDAVRYL--DGKDICGSRIRVEL   81 (195)
T ss_pred             CCCceEEeccCCCCcchHHHHHHHHhcC----cceeEEEeecCCCceEEeccCcccHHHHHhhc--CCccccCceEEEEe
Confidence            4578999999999999999999999999    774443332 2478999999999999999999  78999999999999


Q ss_pred             cCch
Q psy5142         352 VTGE  355 (410)
Q Consensus       352 l~g~  355 (410)
                      -+|.
T Consensus        82 S~G~   85 (195)
T KOG0107|consen   82 STGR   85 (195)
T ss_pred             ecCC
Confidence            8754

>smart00362 RRM_2 RNA recognition motif

Probab=99.07  E-value=5.2e-10  Score=83.45  Aligned_cols=61  Identities=33%  Similarity=0.511  Sum_probs=56.8

Q ss_pred             eeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCC
Q psy5142         121 SLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKD  191 (410)
Q Consensus       121 tv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g  191 (410)
                      ||||+|||..++.++|+++|++|    |.|..+.+.+.. +     .++|+|||+|.+.++|+.|+..+++
T Consensus         1 ~v~i~~l~~~~~~~~l~~~~~~~----g~v~~~~~~~~~-~-----~~~~~~~v~f~~~~~a~~a~~~~~~   61 (72)
T smart00362        1 TLFVGNLPPDVTEEDLKELFSKF----GPIESVKIPKDT-G-----KSKGFAFVEFESEEDAEKAIEALNG   61 (72)
T ss_pred             CEEEcCCCCcCCHHHHHHHHHhc----CCEEEEEEecCC-C-----CCCceEEEEeCCHHHHHHHHHHhCC
Confidence            68999999999999999999999    999999998776 3     6899999999999999999998885

>KOG0149|consensus

Probab=99.06  E-value=3.3e-10  Score=103.32  Aligned_cols=66  Identities=17%  Similarity=0.290  Sum_probs=62.3

Q ss_pred             ccceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcC
Q psy5142         117 LIAQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENK  190 (410)
Q Consensus       117 ~~~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~  190 (410)
                      ..-..|||+||||+++.++|+++|++|    |+|+.+.++.|+.++    ++||++||+|.+.|+|.+|++..+
T Consensus        10 T~~TKifVggL~w~T~~~~l~~yFeqf----GeI~eavvitd~~t~----rskGyGfVTf~d~~aa~rAc~dp~   75 (247)
T KOG0149|consen   10 TTFTKIFVGGLAWETHKETLRRYFEQF----GEIVEAVVITDKNTG----RSKGYGFVTFRDAEAATRACKDPN   75 (247)
T ss_pred             ceEEEEEEcCcccccchHHHHHHHHHh----CceEEEEEEeccCCc----cccceeeEEeecHHHHHHHhcCCC
Confidence            445789999999999999999999999    999999999999987    999999999999999999999876

>KOG0105|consensus

Probab=99.05  E-value=7e-10  Score=97.55  Aligned_cols=73  Identities=18%  Similarity=0.327  Sum_probs=65.9

Q ss_pred             CeEEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeC--C-CceEEEEeCChhHHHHHHHHhcCCCeEEcCeEEEEEe
Q psy5142         275 GALLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNV--G-EPTAFVRYKKENNAEAVLKALGSKEIVIKDVKVSIEV  351 (410)
Q Consensus       275 g~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~--g-~~~afV~F~~~e~A~~Al~~l~~~~~~i~g~~v~v~~  351 (410)
                      .|.|+|.|||.++-+.+|.++|-+||    .|..|++..  + ..+|||+|+++-+|+.||..-  ++..++|..|.|++
T Consensus         6 ~~~iyvGNLP~diRekeieDlFyKyg----~i~~ieLK~r~g~ppfafVeFEd~RDAeDAiygR--dGYdydg~rLRVEf   79 (241)
T KOG0105|consen    6 SRRIYVGNLPGDIREKEIEDLFYKYG----RIREIELKNRPGPPPFAFVEFEDPRDAEDAIYGR--DGYDYDGCRLRVEF   79 (241)
T ss_pred             cceEEecCCCcchhhccHHHHHhhhc----ceEEEEeccCCCCCCeeEEEecCccchhhhhhcc--cccccCcceEEEEe
Confidence            47899999999999999999999999    999998763  3 458999999999999999998  78999999999998


Q ss_pred             cC
Q psy5142         352 VT  353 (410)
Q Consensus       352 l~  353 (410)
                      ..
T Consensus        80 pr   81 (241)
T KOG0105|consen   80 PR   81 (241)
T ss_pred             cc
Confidence            64

>PLN03213 repressor of silencing 3; Provisional

Probab=99.04  E-value=7e-10  Score=110.09  Aligned_cols=90  Identities=13%  Similarity=0.145  Sum_probs=76.1

Q ss_pred             ccceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCH--HHHHHHHHhcCCCCc
Q psy5142         117 LIAQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNK--ENAEKFLNENKDKNL  194 (410)
Q Consensus       117 ~~~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~--e~A~~Al~~~~g~~~  194 (410)
                      ....+|||+||++++|.++|+..|++|    |.|.+|.|+|  .+      .+|||||+|.+.  .++.+||..++|  .
T Consensus         8 ~~gMRIYVGNLSydVTEDDLravFSeF----GsVkdVEIpR--ET------GRGFAFVEMssdddaEeeKAISaLNG--A   73 (759)
T PLN03213          8 GGGVRLHVGGLGESVGRDDLLKIFSPM----GTVDAVEFVR--TK------GRSFAYIDFSPSSTNSLTKLFSTYNG--C   73 (759)
T ss_pred             CcceEEEEeCCCCCCCHHHHHHHHHhc----CCeeEEEEec--cc------CCceEEEEecCCcHHHHHHHHHHhcC--C
Confidence            445799999999999999999999999    9999999994  33      399999999987  789999999997  7


Q ss_pred             cccccccchhhhhhhhcccccccccCcccccchhhhc-hHHHHHHHHHHHHhh
Q psy5142         195 KFNENCEHKNAEKFLNENKDKNLKFNENCEHSLLIKW-QQEYHEEKKQEVRSK  246 (410)
Q Consensus       195 ~~~~~~~~~~~~k~~~~~~~~~~~~~g~~~~~L~v~~-k~~~~~~k~~e~~~~  246 (410)
                      .|                       .|   +.|+|.. +..|+.+-+.|+...
T Consensus        74 EW-----------------------KG---R~LKVNKAKP~YLeRLkrEReea  100 (759)
T PLN03213         74 VW-----------------------KG---GRLRLEKAKEHYLARLKREWEAA  100 (759)
T ss_pred             ee-----------------------cC---ceeEEeeccHHHHHHHHHHHHHh
Confidence            88                       78   8888876 456777766666543

>PLN03121 nucleic acid binding protein; Provisional

Probab=99.03  E-value=4.9e-10  Score=103.71  Aligned_cols=64  Identities=19%  Similarity=0.230  Sum_probs=57.1

Q ss_pred             ceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCCccc
Q psy5142         119 AQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLKF  196 (410)
Q Consensus       119 ~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~~~  196 (410)
                      -+||||+||++.+|+++|++||+.|    |+|.+|+|+++.       ..+++|||+|.++++|+.|+.+ +|  ..+
T Consensus         5 g~TV~V~NLS~~tTE~dLrefFS~~----G~I~~V~I~~D~-------et~gfAfVtF~d~~aaetAllL-nG--a~l   68 (243)
T PLN03121          5 GYTAEVTNLSPKATEKDVYDFFSHC----GAIEHVEIIRSG-------EYACTAYVTFKDAYALETAVLL-SG--ATI   68 (243)
T ss_pred             ceEEEEecCCCCCCHHHHHHHHHhc----CCeEEEEEecCC-------CcceEEEEEECCHHHHHHHHhc-CC--Cee
Confidence            4799999999999999999999999    999999999874       4468999999999999999965 44  555

>PF14259 RRM_6: RNA recognition motif (a

Probab=99.00  E-value=1.5e-09  Score=82.18  Aligned_cols=65  Identities=22%  Similarity=0.354  Sum_probs=57.4

Q ss_pred             EEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCCC-----ceEEEEeCChhHHHHHHHHhcCCCeEEcCeEEE
Q psy5142         278 LKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVGE-----PTAFVRYKKENNAEAVLKALGSKEIVIKDVKVS  348 (410)
Q Consensus       278 l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g~-----~~afV~F~~~e~A~~Al~~l~~~~~~i~g~~v~  348 (410)
                      |+|.|||++++.++|.++|+.||    .|..|.+....     +.|||+|.++++|..|+..+  ++..++|+.|.
T Consensus         1 v~i~nlp~~~~~~~l~~~f~~~g----~v~~v~~~~~~~~~~~~~a~v~f~~~~~a~~al~~~--~~~~~~g~~l~   70 (70)
T PF14259_consen    1 VYISNLPPSTTEEDLRNFFSRFG----PVEKVRLIKNKDGQSRGFAFVEFSSEEDAKRALELL--NGKEIDGRKLR   70 (70)
T ss_dssp             EEEESSTTT--HHHHHHHCTTSS----BEEEEEEEESTTSSEEEEEEEEESSHHHHHHHHHHH--TTEEETTEEEE
T ss_pred             CEEeCCCCCCCHHHHHHHHHhcC----CcceEEEEeeeccccCCEEEEEeCCHHHHHHHHHHC--CCcEECCEEcC
Confidence            68999999999999999999999    89999888763     56999999999999999999  67999999874

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 ....

>KOG0113|consensus

Probab=98.98  E-value=8.7e-10  Score=103.52  Aligned_cols=70  Identities=17%  Similarity=0.264  Sum_probs=65.5

Q ss_pred             ccceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCCccc
Q psy5142         117 LIAQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLKF  196 (410)
Q Consensus       117 ~~~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~~~  196 (410)
                      -.-+||||.-|+++++++.|+..|+.|    |+|..|+|++++-++    +++|||||+|+++-+...|.+..+|  +++
T Consensus        99 DPy~TLFv~RLnydT~EskLrreF~~Y----G~IkrirlV~d~vTg----kskGYAFIeye~erdm~~AYK~adG--~~I  168 (335)
T KOG0113|consen   99 DPYKTLFVARLNYDTSESKLRREFEKY----GPIKRIRLVRDKVTG----KSKGYAFIEYEHERDMKAAYKDADG--IKI  168 (335)
T ss_pred             CccceeeeeeccccccHHHHHHHHHhc----CcceeEEEeeecccC----CccceEEEEeccHHHHHHHHHhccC--cee
Confidence            446899999999999999999999999    999999999998887    8999999999999999999999987  555

>KOG4207|consensus

Probab=98.98  E-value=1.4e-09  Score=97.19  Aligned_cols=76  Identities=22%  Similarity=0.356  Sum_probs=67.7

Q ss_pred             CCCCeEEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCCC------ceEEEEeCChhHHHHHHHHhcCCCeEEcCe
Q psy5142         272 LPTGALLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVGE------PTAFVRYKKENNAEAVLKALGSKEIVIKDV  345 (410)
Q Consensus       272 ~~~g~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g~------~~afV~F~~~e~A~~Al~~l~~~~~~i~g~  345 (410)
                      ...-..|+|.||...|+.++|+.+|++||    .|-.|.|+.+.      ++|||+|....+|+.|+++|  ++.+++|+
T Consensus        10 v~gm~SLkVdNLTyRTspd~LrrvFekYG----~vgDVyIPrdr~Tr~sRgFaFVrf~~k~daedA~dam--DG~~ldgR   83 (256)
T KOG4207|consen   10 VEGMTSLKVDNLTYRTSPDDLRRVFEKYG----RVGDVYIPRDRYTRQSRGFAFVRFHDKRDAEDALDAM--DGAVLDGR   83 (256)
T ss_pred             cccceeEEecceeccCCHHHHHHHHHHhC----cccceecccccccccccceeEEEeeecchHHHHHHhh--cceeeccc
Confidence            33446899999999999999999999999    99999888753      46999999999999999999  78999999


Q ss_pred             EEEEEecC
Q psy5142         346 KVSIEVVT  353 (410)
Q Consensus       346 ~v~v~~l~  353 (410)
                      .|.|.++.
T Consensus        84 elrVq~ar   91 (256)
T KOG4207|consen   84 ELRVQMAR   91 (256)
T ss_pred             eeeehhhh
Confidence            99998753

>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=98.98  E-value=2.2e-09  Score=80.50  Aligned_cols=62  Identities=34%  Similarity=0.558  Sum_probs=57.8

Q ss_pred             eeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCC
Q psy5142         121 SLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKD  191 (410)
Q Consensus       121 tv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g  191 (410)
                      +|+|+|||..++.++|+++|+.|    |.|..+.+.....+     .++|+|||+|.+.++|..|+..+++
T Consensus         1 ~i~i~~l~~~~~~~~i~~~~~~~----g~i~~~~~~~~~~~-----~~~~~~~v~f~s~~~a~~a~~~~~~   62 (74)
T cd00590           1 TLFVGNLPPDVTEEDLRELFSKF----GKVESVRIVRDKDT-----KSKGFAFVEFEDEEDAEKALEALNG   62 (74)
T ss_pred             CEEEeCCCCccCHHHHHHHHHhc----CCEEEEEEeeCCCC-----CcceEEEEEECCHHHHHHHHHHhCC
Confidence            58999999999999999999999    99999999987665     6799999999999999999999885

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).

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

Probab=98.98  E-value=3.9e-09  Score=110.62  Aligned_cols=133  Identities=14%  Similarity=0.148  Sum_probs=88.8

Q ss_pred             ceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCCccccc
Q psy5142         119 AQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLKFNE  198 (410)
Q Consensus       119 ~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~~~~~  198 (410)
                      .++|||+|||+++|+++|+++|++|  ..|.|..|.+            .++||||+|.+.++|.+|++.+++  ..+  
T Consensus       233 ~k~LfVgNL~~~~tee~L~~~F~~f--~~G~I~rV~~------------~rgfAFVeF~s~e~A~kAi~~lnG--~~i--  294 (578)
T TIGR01648       233 VKILYVRNLMTTTTEEIIEKSFSEF--KPGKVERVKK------------IRDYAFVHFEDREDAVKAMDELNG--KEL--  294 (578)
T ss_pred             ccEEEEeCCCCCCCHHHHHHHHHhc--CCCceEEEEe------------ecCeEEEEeCCHHHHHHHHHHhCC--CEE--
Confidence            5789999999999999999999998  2378988864            367999999999999999999986  455  


Q ss_pred             cccchhhhhhhhcccccccccCcccccchhhhchHHHHHHHHHHHHhh-hhccccCccCCCCCCCCCCcccccCCCCCeE
Q psy5142         199 NCEHKNAEKFLNENKDKNLKFNENCEHSLLIKWQQEYHEEKKQEVRSK-RDKSKKSTEGDGEGNTEGSKQVVLELPTGAL  277 (410)
Q Consensus       199 ~~~~~~~~k~~~~~~~~~~~~~g~~~~~L~v~~k~~~~~~k~~e~~~~-~~k~k~~~e~~~~~~~~~~~~~~~~~~~g~~  277 (410)
                                           .|   +.|.|.|.......   ..... ..........   ++ ..........+.-..
T Consensus       295 ---------------------~G---r~I~V~~Akp~~~~---~~~~~~rg~gg~~~~~---~~-~~~~~g~~~sp~s~~  343 (578)
T TIGR01648       295 ---------------------EG---SEIEVTLAKPVDKK---SYVRYTRGTGGRGKER---QA-ARQSLGQVYDPASRS  343 (578)
T ss_pred             ---------------------CC---EEEEEEEccCCCcc---cccccccccCCCcccc---cc-cccccCcccCccccc
Confidence                                 66   88888764221000   00000 0000000000   00 000001122334567


Q ss_pred             EEEeCCCCCCCHHHHHHHHHhcC
Q psy5142         278 LKISDIKEPVSREDIREVLEKVQ  300 (410)
Q Consensus       278 l~v~nL~~~~t~edLk~~F~~~G  300 (410)
                      +++.|+++.++.+.+.++|..+|
T Consensus       344 ~~~g~~~~~~~~~~~~~~f~~~g  366 (578)
T TIGR01648       344 LAYEDYYYHPPYAPSLHFPRMPG  366 (578)
T ss_pred             cccccccccccccchhhccccCc
Confidence            88999999999999999999988

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.

>KOG0107|consensus

Probab=98.96  E-value=8.2e-10  Score=96.45  Aligned_cols=61  Identities=21%  Similarity=0.307  Sum_probs=57.4

Q ss_pred             ceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCC
Q psy5142         119 AQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDK  192 (410)
Q Consensus       119 ~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~  192 (410)
                      .+.|||+||+..+|..||+..|..|    |+|.+|.|-+         .+.|||||||+++-+|+.|+..++|+
T Consensus        10 ~~kVYVGnL~~~a~k~eLE~~F~~y----G~lrsvWvAr---------nPPGfAFVEFed~RDA~DAvr~LDG~   70 (195)
T KOG0107|consen   10 NTKVYVGNLGSRATKRELERAFSKY----GPLRSVWVAR---------NPPGFAFVEFEDPRDAEDAVRYLDGK   70 (195)
T ss_pred             CceEEeccCCCCcchHHHHHHHHhc----CcceeEEEee---------cCCCceEEeccCcccHHHHHhhcCCc
Confidence            6889999999999999999999999    9999999976         56899999999999999999999973

>smart00362 RRM_2 RNA recognition motif

Probab=98.96  E-value=4.7e-09  Score=78.19  Aligned_cols=66  Identities=23%  Similarity=0.396  Sum_probs=60.7

Q ss_pred             EEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCCC----ceEEEEeCChhHHHHHHHHhcCCCeEEcCeEEEE
Q psy5142         278 LKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVGE----PTAFVRYKKENNAEAVLKALGSKEIVIKDVKVSI  349 (410)
Q Consensus       278 l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g~----~~afV~F~~~e~A~~Al~~l~~~~~~i~g~~v~v  349 (410)
                      |+|.|||..++.++|+++|.+||    .|..+.+....    +.|||+|.+.++|+.|+..+  ++..++|+.+.|
T Consensus         2 v~i~~l~~~~~~~~l~~~~~~~g----~v~~~~~~~~~~~~~~~~~v~f~~~~~a~~a~~~~--~~~~~~~~~i~v   71 (72)
T smart00362        2 LFVGNLPPDVTEEDLKELFSKFG----PIESVKIPKDTGKSKGFAFVEFESEEDAEKAIEAL--NGTKLGGRPLRV   71 (72)
T ss_pred             EEEcCCCCcCCHHHHHHHHHhcC----CEEEEEEecCCCCCCceEEEEeCCHHHHHHHHHHh--CCcEECCEEEee
Confidence            78999999999999999999999    99999888776    78999999999999999999  568889988876

>smart00360 RRM RNA recognition motif

Probab=98.95  E-value=2.4e-09  Score=79.48  Aligned_cols=60  Identities=33%  Similarity=0.482  Sum_probs=54.8

Q ss_pred             eecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCC
Q psy5142         124 VKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKD  191 (410)
Q Consensus       124 V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g  191 (410)
                      |+|||..++.++|+.+|++|    |.|..+.+++...++    .++|+|||+|.+.++|..|+..+++
T Consensus         1 i~~l~~~~~~~~l~~~f~~~----g~v~~~~i~~~~~~~----~~~~~a~v~f~~~~~a~~a~~~~~~   60 (71)
T smart00360        1 VGNLPPDVTEEELRELFSKF----GKIESVRLVRDKDTG----KSKGFAFVEFESEEDAEKALEALNG   60 (71)
T ss_pred             CCCCCcccCHHHHHHHHHhh----CCEeEEEEEeCCCCC----CCCceEEEEeCCHHHHHHHHHHcCC
Confidence            57999999999999999999    999999998876543    7899999999999999999999884

>KOG4207|consensus

Probab=98.94  E-value=9.6e-10  Score=98.29  Aligned_cols=68  Identities=22%  Similarity=0.352  Sum_probs=64.1

Q ss_pred             ceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCCccc
Q psy5142         119 AQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLKF  196 (410)
Q Consensus       119 ~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~~~  196 (410)
                      ..+|.|-||-+-+|.++|+.+|++|    |.|.+|.|+++.-++    .++|||||-|....+|+.|++.++|  ..+
T Consensus        13 m~SLkVdNLTyRTspd~LrrvFekY----G~vgDVyIPrdr~Tr----~sRgFaFVrf~~k~daedA~damDG--~~l   80 (256)
T KOG4207|consen   13 MTSLKVDNLTYRTSPDDLRRVFEKY----GRVGDVYIPRDRYTR----QSRGFAFVRFHDKRDAEDALDAMDG--AVL   80 (256)
T ss_pred             ceeEEecceeccCCHHHHHHHHHHh----Ccccceecccccccc----cccceeEEEeeecchHHHHHHhhcc--eee
Confidence            5689999999999999999999999    999999999999886    8999999999999999999999997  555

>PLN03120 nucleic acid binding protein; Provisional

Probab=98.91  E-value=6.5e-09  Score=97.74  Aligned_cols=72  Identities=25%  Similarity=0.383  Sum_probs=65.0

Q ss_pred             CeEEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCCC---ceEEEEeCChhHHHHHHHHhcCCCeEEcCeEEEEEe
Q psy5142         275 GALLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVGE---PTAFVRYKKENNAEAVLKALGSKEIVIKDVKVSIEV  351 (410)
Q Consensus       275 g~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g~---~~afV~F~~~e~A~~Al~~l~~~~~~i~g~~v~v~~  351 (410)
                      ...|||.|||+.+++++|+++|+.||    .|..|++..+.   ++|||.|.++++|+.||. |  ++..|.|+.|+|..
T Consensus         4 ~rtVfVgNLs~~tTE~dLrefFS~~G----~I~~V~I~~d~~~~GfAFVtF~d~eaAe~All-L--nG~~l~gr~V~Vt~   76 (260)
T PLN03120          4 VRTVKVSNVSLKATERDIKEFFSFSG----DIEYVEMQSENERSQIAYVTFKDPQGAETALL-L--SGATIVDQSVTITP   76 (260)
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHhcC----CeEEEEEeecCCCCCEEEEEeCcHHHHHHHHH-h--cCCeeCCceEEEEe
Confidence            35899999999999999999999999    99999998653   579999999999999995 7  57899999999998


Q ss_pred             cC
Q psy5142         352 VT  353 (410)
Q Consensus       352 l~  353 (410)
                      ..
T Consensus        77 a~   78 (260)
T PLN03120         77 AE   78 (260)
T ss_pred             cc
Confidence            64

>KOG0114|consensus

Probab=98.90  E-value=6.1e-09  Score=83.44  Aligned_cols=62  Identities=24%  Similarity=0.453  Sum_probs=57.1

Q ss_pred             ceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCC
Q psy5142         119 AQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKD  191 (410)
Q Consensus       119 ~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g  191 (410)
                      .|.|||.|||+++|.++.-++|..|    |.|..|++=..+.       -+|.|||.|++..+|.+|++.+.|
T Consensus        18 nriLyirNLp~~ITseemydlFGky----g~IrQIRiG~~k~-------TrGTAFVVYedi~dAk~A~dhlsg   79 (124)
T KOG0114|consen   18 NRILYIRNLPFKITSEEMYDLFGKY----GTIRQIRIGNTKE-------TRGTAFVVYEDIFDAKKACDHLSG   79 (124)
T ss_pred             heeEEEecCCccccHHHHHHHhhcc----cceEEEEecCccC-------cCceEEEEehHhhhHHHHHHHhcc
Confidence            5899999999999999999999999    9999999865444       489999999999999999999986

>KOG0126|consensus

Probab=98.89  E-value=7e-11  Score=103.55  Aligned_cols=70  Identities=19%  Similarity=0.263  Sum_probs=65.3

Q ss_pred             ccceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCCccc
Q psy5142         117 LIAQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLKF  196 (410)
Q Consensus       117 ~~~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~~~  196 (410)
                      .+.-=|||+|||++.|+.||...||+|    |+|++|.|.|++.||    +++||||..|++.-+..-|+..++|  +++
T Consensus        33 kdsA~Iyiggl~~~LtEgDil~VFSqy----Ge~vdinLiRDk~TG----KSKGFaFLcYEDQRSTILAVDN~NG--iki  102 (219)
T KOG0126|consen   33 KDSAYIYIGGLPYELTEGDILCVFSQY----GEIVDINLIRDKKTG----KSKGFAFLCYEDQRSTILAVDNLNG--IKI  102 (219)
T ss_pred             ccceEEEECCCcccccCCcEEEEeecc----CceEEEEEEecCCCC----cccceEEEEecCccceEEEEeccCC--cee
Confidence            345679999999999999999999999    999999999999998    9999999999999999999999997  666

>PLN03121 nucleic acid binding protein; Provisional

Probab=98.88  E-value=1.2e-08  Score=94.46  Aligned_cols=75  Identities=20%  Similarity=0.307  Sum_probs=66.8

Q ss_pred             CCCeEEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCCC---ceEEEEeCChhHHHHHHHHhcCCCeEEcCeEEEE
Q psy5142         273 PTGALLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVGE---PTAFVRYKKENNAEAVLKALGSKEIVIKDVKVSI  349 (410)
Q Consensus       273 ~~g~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g~---~~afV~F~~~e~A~~Al~~l~~~~~~i~g~~v~v  349 (410)
                      +.|.+|+|.||++.+|+++|+++|+.||    .|..|.+.++.   .+|||+|.++++|+.|+ .|  ++.+|.++.|.|
T Consensus         3 ~~g~TV~V~NLS~~tTE~dLrefFS~~G----~I~~V~I~~D~et~gfAfVtF~d~~aaetAl-lL--nGa~l~d~~I~I   75 (243)
T PLN03121          3 PGGYTAEVTNLSPKATEKDVYDFFSHCG----AIEHVEIIRSGEYACTAYVTFKDAYALETAV-LL--SGATIVDQRVCI   75 (243)
T ss_pred             CCceEEEEecCCCCCCHHHHHHHHHhcC----CeEEEEEecCCCcceEEEEEECCHHHHHHHH-hc--CCCeeCCceEEE
Confidence            4578999999999999999999999999    99999998764   36999999999999999 56  578999999999


Q ss_pred             EecCc
Q psy5142         350 EVVTG  354 (410)
Q Consensus       350 ~~l~g  354 (410)
                      .....
T Consensus        76 t~~~~   80 (243)
T PLN03121         76 TRWGQ   80 (243)
T ss_pred             EeCcc
Confidence            87663

>PLN03213 repressor of silencing 3; Provisional

Probab=98.87  E-value=2.2e-08  Score=99.68  Aligned_cols=90  Identities=19%  Similarity=0.325  Sum_probs=78.9

Q ss_pred             CCCCeEEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeC--CCceEEEEeCCh--hHHHHHHHHhcCCCeEEcCeEE
Q psy5142         272 LPTGALLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNV--GEPTAFVRYKKE--NNAEAVLKALGSKEIVIKDVKV  347 (410)
Q Consensus       272 ~~~g~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~--g~~~afV~F~~~--e~A~~Al~~l~~~~~~i~g~~v  347 (410)
                      ...+..|||.||+++++++||+.+|+.||    .|..|.+++  |+++|||.|.+.  .++.+||..|  ++..+.|+.|
T Consensus         7 ~~~gMRIYVGNLSydVTEDDLravFSeFG----sVkdVEIpRETGRGFAFVEMssdddaEeeKAISaL--NGAEWKGR~L   80 (759)
T PLN03213          7 GGGGVRLHVGGLGESVGRDDLLKIFSPMG----TVDAVEFVRTKGRSFAYIDFSPSSTNSLTKLFSTY--NGCVWKGGRL   80 (759)
T ss_pred             CCcceEEEEeCCCCCCCHHHHHHHHHhcC----CeeEEEEecccCCceEEEEecCCcHHHHHHHHHHh--cCCeecCcee
Confidence            35568999999999999999999999999    999999985  567899999987  6799999999  7899999999


Q ss_pred             EEEecCchHHHHHHHHhHHHHHHH
Q psy5142         348 SIEVVTGEEEQTVLDRMKIDIFKR  371 (410)
Q Consensus       348 ~v~~l~g~eE~~yw~k~~~~~~~~  371 (410)
                      +|..+.    ..|+.++..+++..
T Consensus        81 KVNKAK----P~YLeRLkrEReea  100 (759)
T PLN03213         81 RLEKAK----EHYLARLKREWEAA  100 (759)
T ss_pred             EEeecc----HHHHHHHHHHHHHh
Confidence            999875    67888888776654

>KOG0125|consensus

Probab=98.86  E-value=2.6e-09  Score=101.52  Aligned_cols=65  Identities=25%  Similarity=0.267  Sum_probs=60.3

Q ss_pred             ccceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCC
Q psy5142         117 LIAQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKD  191 (410)
Q Consensus       117 ~~~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g  191 (410)
                      -..+.|||+|+|+..-+.||+.+|.+|    |.|.+|.|+-+..      .+|||+||+|++.+||++|-+.++|
T Consensus        94 ~~pkRLhVSNIPFrFRdpDL~aMF~kf----G~VldVEIIfNER------GSKGFGFVTmen~~dadRARa~LHg  158 (376)
T KOG0125|consen   94 DTPKRLHVSNIPFRFRDPDLRAMFEKF----GKVLDVEIIFNER------GSKGFGFVTMENPADADRARAELHG  158 (376)
T ss_pred             CCCceeEeecCCccccCccHHHHHHhh----CceeeEEEEeccC------CCCccceEEecChhhHHHHHHHhhc
Confidence            446899999999999999999999999    9999999987655      4899999999999999999999997

>KOG1365|consensus

Probab=98.84  E-value=3.8e-08  Score=95.32  Aligned_cols=195  Identities=18%  Similarity=0.238  Sum_probs=120.2

Q ss_pred             ceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCCccccc
Q psy5142         119 AQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLKFNE  198 (410)
Q Consensus       119 ~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~~~~~  198 (410)
                      .-.|.+++||+++|..++.+||.+-+-.-|-++.|...+..++     +..|-|||.|.++++|+.||....   ..+  
T Consensus       161 qvivRmRGLPfdat~~dVv~FF~~~cpv~~g~egvLFV~rpdg-----rpTGdAFvlfa~ee~aq~aL~khr---q~i--  230 (508)
T KOG1365|consen  161 QVIVRMRGLPFDATALDVVEFFGPPCPVTGGTEGVLFVTRPDG-----RPTGDAFVLFACEEDAQFALRKHR---QNI--  230 (508)
T ss_pred             ceEEEecCCCCCcchHHHHHhcCCCCcccCCccceEEEECCCC-----CcccceEEEecCHHHHHHHHHHHH---HHH--
Confidence            3456778999999999999999754221245556666666666     789999999999999999998754   222  


Q ss_pred             cccchhhhhhhhcccccccccCcccccchhhhchHHHHHHHHHHHHhhhhccccCccCCCCCCCC-C--CcccccCCCCC
Q psy5142         199 NCEHKNAEKFLNENKDKNLKFNENCEHSLLIKWQQEYHEEKKQEVRSKRDKSKKSTEGDGEGNTE-G--SKQVVLELPTG  275 (410)
Q Consensus       199 ~~~~~~~~k~~~~~~~~~~~~~g~~~~~L~v~~k~~~~~~k~~e~~~~~~k~k~~~e~~~~~~~~-~--~~~~~~~~~~g  275 (410)
                                            |-...+|....+.+|..--+.+....-        -...+... .  -....+...+.
T Consensus       231 ----------------------GqRYIElFRSTaaEvqqvlnr~~s~pL--------i~~~~sp~~p~~p~~~~p~~~~k  280 (508)
T KOG1365|consen  231 ----------------------GQRYIELFRSTAAEVQQVLNREVSEPL--------IPGLTSPLLPGGPARLVPPTRSK  280 (508)
T ss_pred             ----------------------hHHHHHHHHHhHHHHHHHHHhhccccc--------cCCCCCCCCCCCccccCCCCCCC
Confidence                                  100012222222222221111110000        00000000 0  00001112223


Q ss_pred             eEEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeE--EEeeC---C--CceEEEEeCChhHHHHHHHHhcCCCeEEcCeEEE
Q psy5142         276 ALLKISDIKEPVSREDIREVLEKVQTDDQEIVF--IEFNV---G--EPTAFVRYKKENNAEAVLKALGSKEIVIKDVKVS  348 (410)
Q Consensus       276 ~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~--V~~~~---g--~~~afV~F~~~e~A~~Al~~l~~~~~~i~g~~v~  348 (410)
                      -+|.++|||...+.|||-++|..|-+   .|.+  |.+.-   |  .+.|||+|.+++.|..|....  ++.....+.|+
T Consensus       281 dcvRLRGLPy~AtvEdIL~FlgdFa~---~i~f~gVHmv~N~qGrPSGeAFIqm~nae~a~aaaqk~--hk~~mk~RYiE  355 (508)
T KOG1365|consen  281 DCVRLRGLPYEATVEDILDFLGDFAT---DIRFQGVHMVLNGQGRPSGEAFIQMRNAERARAAAQKC--HKKLMKSRYIE  355 (508)
T ss_pred             CeeEecCCChhhhHHHHHHHHHHHhh---hcccceeEEEEcCCCCcChhhhhhhhhhHHHHHHHHHH--HHhhcccceEE
Confidence            46889999999999999999999873   4444  44442   3  245999999999999998887  45555788888


Q ss_pred             EEecCchHHH
Q psy5142         349 IEVVTGEEEQ  358 (410)
Q Consensus       349 v~~l~g~eE~  358 (410)
                      |-..++||=.
T Consensus       356 vfp~S~eeln  365 (508)
T KOG1365|consen  356 VFPCSVEELN  365 (508)
T ss_pred             EeeccHHHHH
Confidence            8877765544

>KOG0108|consensus

Probab=98.82  E-value=5.5e-09  Score=105.73  Aligned_cols=80  Identities=20%  Similarity=0.324  Sum_probs=74.2

Q ss_pred             eeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCCcccccc
Q psy5142         120 QSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLKFNEN  199 (410)
Q Consensus       120 rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~~~~~~  199 (410)
                      ++|||+|+|+++++++|..+|+..    |.|.++++..|..++    +++||+|++|.+.++|..|++.++|  ..+   
T Consensus        19 ~~v~vgnip~~~se~~l~~~~~~~----g~v~s~~~v~D~~tG----~~~G~~f~~~~~~~~~~~a~~~lNg--~~~---   85 (435)
T KOG0108|consen   19 SSVFVGNIPYEGSEEQLLSIFSGV----GPVLSFRLVYDRETG----KPKGFGFCEFTDEETAERAIRNLNG--AEF---   85 (435)
T ss_pred             cceEecCCCCcccHHHHHHHHhcc----CccceeeecccccCC----CcCceeeEecCchhhHHHHHHhcCC--ccc---
Confidence            899999999999999999999999    999999999999987    9999999999999999999999997  566   


Q ss_pred             ccchhhhhhhhcccccccccCcccccchhhhchHHH
Q psy5142         200 CEHKNAEKFLNENKDKNLKFNENCEHSLLIKWQQEY  235 (410)
Q Consensus       200 ~~~~~~~k~~~~~~~~~~~~~g~~~~~L~v~~k~~~  235 (410)
                                          .|   +.|+|.|+..+
T Consensus        86 --------------------~g---r~l~v~~~~~~   98 (435)
T KOG0108|consen   86 --------------------NG---RKLRVNYASNR   98 (435)
T ss_pred             --------------------CC---ceEEeeccccc
Confidence                                77   89998876543

>smart00360 RRM RNA recognition motif

Probab=98.77  E-value=3.1e-08  Score=73.36  Aligned_cols=64  Identities=23%  Similarity=0.420  Sum_probs=56.7

Q ss_pred             EeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCCC------ceEEEEeCChhHHHHHHHHhcCCCeEEcCeEEEE
Q psy5142         280 ISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVGE------PTAFVRYKKENNAEAVLKALGSKEIVIKDVKVSI  349 (410)
Q Consensus       280 v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g~------~~afV~F~~~e~A~~Al~~l~~~~~~i~g~~v~v  349 (410)
                      |.|||..+++++|+++|++||    .|..+.+....      +.|||+|.+.++|..|+..+  ++..++|+.|.|
T Consensus         1 i~~l~~~~~~~~l~~~f~~~g----~v~~~~i~~~~~~~~~~~~a~v~f~~~~~a~~a~~~~--~~~~~~~~~~~v   70 (71)
T smart00360        1 VGNLPPDVTEEELRELFSKFG----KIESVRLVRDKDTGKSKGFAFVEFESEEDAEKALEAL--NGKELDGRPLKV   70 (71)
T ss_pred             CCCCCcccCHHHHHHHHHhhC----CEeEEEEEeCCCCCCCCceEEEEeCCHHHHHHHHHHc--CCCeeCCcEEEe
Confidence            468999999999999999999    99998887654      37999999999999999999  568889988876

>KOG0130|consensus

Probab=98.75  E-value=1.5e-08  Score=84.86  Aligned_cols=67  Identities=21%  Similarity=0.257  Sum_probs=63.2

Q ss_pred             ccceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCC
Q psy5142         117 LIAQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKD  191 (410)
Q Consensus       117 ~~~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g  191 (410)
                      +.-..|||.++...+|+++|.+.|..|    |+|.+|+|-.+..++    -.+|||.|+|++.++|++|+..+||
T Consensus        70 VEGwIi~VtgvHeEatEedi~d~F~dy----GeiKNihLNLDRRtG----y~KGYaLvEYet~keAq~A~~~~Ng  136 (170)
T KOG0130|consen   70 VEGWIIFVTGVHEEATEEDIHDKFADY----GEIKNIHLNLDRRTG----YVKGYALVEYETLKEAQAAIDALNG  136 (170)
T ss_pred             eeeEEEEEeccCcchhHHHHHHHHhhc----ccccceeeccccccc----cccceeeeehHhHHHHHHHHHhccc
Confidence            556789999999999999999999999    999999999988886    7899999999999999999999997

>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=98.74  E-value=8.3e-08  Score=71.75  Aligned_cols=67  Identities=25%  Similarity=0.416  Sum_probs=60.2

Q ss_pred             EEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCC-----CceEEEEeCChhHHHHHHHHhcCCCeEEcCeEEEEE
Q psy5142         278 LKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVG-----EPTAFVRYKKENNAEAVLKALGSKEIVIKDVKVSIE  350 (410)
Q Consensus       278 l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g-----~~~afV~F~~~e~A~~Al~~l~~~~~~i~g~~v~v~  350 (410)
                      |+|.|||..+++++|+++|+.+|    .|..+.+...     .+.|||+|.+.++|..|+..+  ++..++|+.+.|.
T Consensus         2 i~i~~l~~~~~~~~i~~~~~~~g----~i~~~~~~~~~~~~~~~~~~v~f~s~~~a~~a~~~~--~~~~~~~~~~~v~   73 (74)
T cd00590           2 LFVGNLPPDVTEEDLRELFSKFG----KVESVRIVRDKDTKSKGFAFVEFEDEEDAEKALEAL--NGKELGGRPLRVE   73 (74)
T ss_pred             EEEeCCCCccCHHHHHHHHHhcC----CEEEEEEeeCCCCCcceEEEEEECCHHHHHHHHHHh--CCCeECCeEEEEe
Confidence            78999999999999999999999    9988888865     357999999999999999999  5677899998875

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).

>KOG0111|consensus

Probab=98.74  E-value=3.9e-09  Score=95.19  Aligned_cols=67  Identities=21%  Similarity=0.247  Sum_probs=63.2

Q ss_pred             ccceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCC
Q psy5142         117 LIAQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKD  191 (410)
Q Consensus       117 ~~~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g  191 (410)
                      ...|||||++|..++|+.-|.+.|-+|    |.|..|.||.+..++    +++||+||+|.-.|+|..|+..+++
T Consensus         8 ~~KrtlYVGGladeVtekvLhaAFIPF----GDI~dIqiPlDyesq----kHRgFgFVefe~aEDAaaAiDNMne   74 (298)
T KOG0111|consen    8 NQKRTLYVGGLADEVTEKVLHAAFIPF----GDIKDIQIPLDYESQ----KHRGFGFVEFEEAEDAAAAIDNMNE   74 (298)
T ss_pred             ccceeEEeccchHHHHHHHHHhccccc----cchhhcccccchhcc----cccceeEEEeeccchhHHHhhcCch
Confidence            457999999999999999999999999    999999999998776    8999999999999999999999985

>KOG1190|consensus

Probab=98.70  E-value=8.7e-08  Score=93.61  Aligned_cols=175  Identities=18%  Similarity=0.152  Sum_probs=106.7

Q ss_pred             cceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCCcccc
Q psy5142         118 IAQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLKFN  197 (410)
Q Consensus       118 ~~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~~~~  197 (410)
                      ..+-|.+++||+++|+++|.+++.+|    |.|+++.|.+.          +..||++|.+.++|...+.......-.+ 
T Consensus        27 pSkV~HlRnlp~e~tE~elI~Lg~pF----G~vtn~~~lkG----------knQAflem~d~~sAvtmv~~y~~~~p~l-   91 (492)
T KOG1190|consen   27 PSKVVHLRNLPWEVTEEELISLGLPF----GKVTNLLMLKG----------KNQAFLEMADEESAVTMVNYYTSVTPVL-   91 (492)
T ss_pred             CcceeEeccCCccccHHHHHHhcccc----cceeeeeeecc----------chhhhhhhcchhhhhheeecccccCccc-
Confidence            46789999999999999999999999    99999998753          4469999999999887554433100011 


Q ss_pred             ccccchhhhhhhhcccccccccCcccccchhhhchHHHHHHHHH-----HHHh--hhhccccCccCC-CCCCCCCCcccc
Q psy5142         198 ENCEHKNAEKFLNENKDKNLKFNENCEHSLLIKWQQEYHEEKKQ-----EVRS--KRDKSKKSTEGD-GEGNTEGSKQVV  269 (410)
Q Consensus       198 ~~~~~~~~~k~~~~~~~~~~~~~g~~~~~L~v~~k~~~~~~k~~-----e~~~--~~~k~k~~~e~~-~~~~~~~~~~~~  269 (410)
                                            .|   .++.+... .+...+..     .+..  ...-+. ..+.. ..++........
T Consensus        92 ----------------------r~---~~~yiq~s-n~~~lkt~s~p~q~r~~~vy~~~s~-~q~~~~~~s~~~~~~G~~  144 (492)
T KOG1190|consen   92 ----------------------RG---QPIYIQYS-NHSELKTDSQPNQIRGQAVYQAVSS-VQEIVLPLSASAVVVGNE  144 (492)
T ss_pred             ----------------------cC---cceeehhh-hHHHHhccCchhhhhhhhHHhhhhc-cccccccccccccccccc
Confidence                                  22   44443321 00000000     0000  000000 00000 000000000000


Q ss_pred             cCCCCCeEEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeE-EEeeCCCce-EEEEeCChhHHHHHHHHhcCC
Q psy5142         270 LELPTGALLKISDIKEPVSREDIREVLEKVQTDDQEIVF-IEFNVGEPT-AFVRYKKENNAEAVLKALGSK  338 (410)
Q Consensus       270 ~~~~~g~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~-V~~~~g~~~-afV~F~~~e~A~~Al~~l~~~  338 (410)
                      ..-.+-.++.|.++-..+|-+-|..+|++||    -|.. |.|.+..++ |.|+|.+++.|+.|-.+|++.
T Consensus       145 ~~~n~vLr~iie~m~ypVslDVLHqvFS~fG----~VlKIiTF~Knn~FQALvQy~d~~sAq~AK~aLdGq  211 (492)
T KOG1190|consen  145 DGPNPVLRTIIENMFYPVSLDVLHQVFSKFG----FVLKIITFTKNNGFQALVQYTDAVSAQAAKLALDGQ  211 (492)
T ss_pred             CCCceeEEEEeccceeeeEHHHHHHHHhhcc----eeEEEEEEecccchhhhhhccchhhHHHHHHhccCC
Confidence            1111224566778989999999999999999    7744 567777665 999999999999999999543

>COG5193 LHP1 La protein, small RNA-binding pol III transcript stabilizing protein and related La-motif-containing proteins involved in translation [Posttranslational modification, protein turnover, chaperones / Translation, ribosomal structure and biogenesis]

Probab=98.69  E-value=8e-09  Score=100.70  Aligned_cols=61  Identities=38%  Similarity=0.560  Sum_probs=56.7

Q ss_pred             HHHHHHHHHHHHhCCCCCCCChhHHhhhccCCCeEehHHHHhhHHHHhccCcHHHHHHHHhh
Q psy5142          22 LENQIIEQIEYYFSDINLARDKFLQGEIKKDDGWVELTTMLKFARLAKMTTEAKVIVDALKK   83 (410)
Q Consensus        22 ~~~~i~~QlEfYfsd~Nl~~D~fl~~~~~~~~g~v~l~~l~~F~r~k~l~~d~~~i~~Al~~   83 (410)
                      .+..+..|||||||-.||..|.||+.+++++ ||||++.|.+|.|...+..|..+|..||+.
T Consensus       270 sI~a~k~QiEyYFseenl~~d~~lrkk~~ka-Gf~plsfi~kf~Rn~Sf~gd~nLilaa~ke  330 (438)
T COG5193         270 SIMAKKEQIEYYFSEENLKSDEFLRKKFKKA-GFIPLSFIGKFYRNLSFGGDKNLILAAMKE  330 (438)
T ss_pred             ehhhHHhhhHhhhhHHhhhhhhHHHhhhhhc-ccccHhhhhhhhhccccCCchhhhHHHHHH
Confidence            3556777999999999999999999999987 999999999999999999999999999994

>KOG0121|consensus

Probab=98.67  E-value=7.9e-08  Score=80.00  Aligned_cols=76  Identities=20%  Similarity=0.309  Sum_probs=66.0

Q ss_pred             CCCeEEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCCC------ceEEEEeCChhHHHHHHHHhcCCCeEEcCeE
Q psy5142         273 PTGALLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVGE------PTAFVRYKKENNAEAVLKALGSKEIVIKDVK  346 (410)
Q Consensus       273 ~~g~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g~------~~afV~F~~~e~A~~Al~~l~~~~~~i~g~~  346 (410)
                      ...|+|+|.||+.-|++|+|.++|+++|    +|..|-+--+.      ++|||.|-+.++|+.|+.-+  +++.++.++
T Consensus        34 r~S~tvyVgNlSfyttEEqiyELFs~cG----~irriiMGLdr~kktpCGFCFVeyy~~~dA~~Alryi--sgtrLddr~  107 (153)
T KOG0121|consen   34 RKSCTVYVGNLSFYTTEEQIYELFSKCG----DIRRIIMGLDRFKKTPCGFCFVEYYSRDDAEDALRYI--SGTRLDDRP  107 (153)
T ss_pred             hhcceEEEeeeeeeecHHHHHHHHHhcc----chheeEeccccCCcCccceEEEEEecchhHHHHHHHh--ccCcccccc
Confidence            4457999999999999999999999999    99988765432      35999999999999999999  678999999


Q ss_pred             EEEEecCc
Q psy5142         347 VSIEVVTG  354 (410)
Q Consensus       347 v~v~~l~g  354 (410)
                      |.+..=-|
T Consensus       108 ir~D~D~G  115 (153)
T KOG0121|consen  108 IRIDWDAG  115 (153)
T ss_pred             eeeecccc
Confidence            99986543

>KOG0125|consensus

Probab=98.64  E-value=9.9e-08  Score=90.94  Aligned_cols=74  Identities=22%  Similarity=0.336  Sum_probs=66.8

Q ss_pred             CeEEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeC---C-CceEEEEeCChhHHHHHHHHhcCCCeEEcCeEEEEE
Q psy5142         275 GALLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNV---G-EPTAFVRYKKENNAEAVLKALGSKEIVIKDVKVSIE  350 (410)
Q Consensus       275 g~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~---g-~~~afV~F~~~e~A~~Al~~l~~~~~~i~g~~v~v~  350 (410)
                      ...|+|.|||+..-+.||+.+|.+||    .|..|.|.-   | +++|||.|++.++|++|-++|  ++.+|.|++|+|.
T Consensus        96 pkRLhVSNIPFrFRdpDL~aMF~kfG----~VldVEIIfNERGSKGFGFVTmen~~dadRARa~L--Hgt~VEGRkIEVn  169 (376)
T KOG0125|consen   96 PKRLHVSNIPFRFRDPDLRAMFEKFG----KVLDVEIIFNERGSKGFGFVTMENPADADRARAEL--HGTVVEGRKIEVN  169 (376)
T ss_pred             CceeEeecCCccccCccHHHHHHhhC----ceeeEEEEeccCCCCccceEEecChhhHHHHHHHh--hcceeeceEEEEe
Confidence            45899999999999999999999999    888888763   3 457999999999999999999  8899999999999


Q ss_pred             ecCc
Q psy5142         351 VVTG  354 (410)
Q Consensus       351 ~l~g  354 (410)
                      .++.
T Consensus       170 ~ATa  173 (376)
T KOG0125|consen  170 NATA  173 (376)
T ss_pred             ccch
Confidence            8764

>PF13893 RRM_5: RNA recognition motif

Probab=98.64  E-value=1.8e-07  Score=67.82  Aligned_cols=54  Identities=15%  Similarity=0.238  Sum_probs=49.0

Q ss_pred             HHHHHHhcCCCCCCeeEEEeeCCC-ceEEEEeCChhHHHHHHHHhcCCCeEEcCeEEEEEe
Q psy5142         292 IREVLEKVQTDDQEIVFIEFNVGE-PTAFVRYKKENNAEAVLKALGSKEIVIKDVKVSIEV  351 (410)
Q Consensus       292 Lk~~F~~~G~~~~~V~~V~~~~g~-~~afV~F~~~e~A~~Al~~l~~~~~~i~g~~v~v~~  351 (410)
                      |+++|++||    .|..|.+.+.. ..|||+|.+.++|+.|+..|  ++..++|+.|+|..
T Consensus         1 L~~~f~~fG----~V~~i~~~~~~~~~a~V~f~~~~~A~~a~~~l--~~~~~~g~~l~V~~   55 (56)
T PF13893_consen    1 LYKLFSKFG----EVKKIKIFKKKRGFAFVEFASVEDAQKAIEQL--NGRQFNGRPLKVSY   55 (56)
T ss_dssp             HHHHHTTTS-----EEEEEEETTSTTEEEEEESSHHHHHHHHHHH--TTSEETTEEEEEEE
T ss_pred             ChHHhCCcc----cEEEEEEEeCCCCEEEEEECCHHHHHHHHHHh--CCCEECCcEEEEEE
Confidence            688999999    99999999887 88999999999999999999  67889999999875

(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 ....

>KOG0114|consensus

Probab=98.64  E-value=4e-07  Score=73.15  Aligned_cols=79  Identities=18%  Similarity=0.225  Sum_probs=68.4

Q ss_pred             CCCeEEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCC---CceEEEEeCChhHHHHHHHHhcCCCeEEcCeEEEE
Q psy5142         273 PTGALLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVG---EPTAFVRYKKENNAEAVLKALGSKEIVIKDVKVSI  349 (410)
Q Consensus       273 ~~g~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g---~~~afV~F~~~e~A~~Al~~l~~~~~~i~g~~v~v  349 (410)
                      .-+.+|||.|||..+|.|+..++|++||    .|.-|++.-.   .++|||.|++-.+|++|++.|  .+..+.++.+.|
T Consensus        16 evnriLyirNLp~~ITseemydlFGkyg----~IrQIRiG~~k~TrGTAFVVYedi~dAk~A~dhl--sg~n~~~ryl~v   89 (124)
T KOG0114|consen   16 EVNRILYIRNLPFKITSEEMYDLFGKYG----TIRQIRIGNTKETRGTAFVVYEDIFDAKKACDHL--SGYNVDNRYLVV   89 (124)
T ss_pred             hhheeEEEecCCccccHHHHHHHhhccc----ceEEEEecCccCcCceEEEEehHhhhHHHHHHHh--cccccCCceEEE
Confidence            4467999999999999999999999999    9999888643   357999999999999999999  788999999888


Q ss_pred             EecCchHH
Q psy5142         350 EVVTGEEE  357 (410)
Q Consensus       350 ~~l~g~eE  357 (410)
                      -..+.+.+
T Consensus        90 lyyq~~~~   97 (124)
T KOG0114|consen   90 LYYQPEDA   97 (124)
T ss_pred             EecCHHHH
Confidence            76664443

>KOG4212|consensus

Probab=98.61  E-value=7e-08  Score=94.87  Aligned_cols=74  Identities=9%  Similarity=0.244  Sum_probs=67.6

Q ss_pred             CCCCeEEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEee-CCCceEEEEeCChhHHHHHHHHhcCCCeEEcCeEEEEE
Q psy5142         272 LPTGALLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFN-VGEPTAFVRYKKENNAEAVLKALGSKEIVIKDVKVSIE  350 (410)
Q Consensus       272 ~~~g~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~-~g~~~afV~F~~~e~A~~Al~~l~~~~~~i~g~~v~v~  350 (410)
                      ..+-|.|+|+|||+++||+.|++-|..||    .|.|+|+. .|+..+.|+|.++++|+.|+..|  ++..++|+.|+|+
T Consensus       533 arKa~qIiirNlP~dfTWqmlrDKfre~G----~v~yadime~GkskGVVrF~s~edAEra~a~M--ngs~l~Gr~I~V~  606 (608)
T KOG4212|consen  533 ARKACQIIIRNLPFDFTWQMLRDKFREIG----HVLYADIMENGKSKGVVRFFSPEDAERACALM--NGSRLDGRNIKVT  606 (608)
T ss_pred             cccccEEEEecCCccccHHHHHHHHHhcc----ceehhhhhccCCccceEEecCHHHHHHHHHHh--ccCcccCceeeee
Confidence            45568999999999999999999999999    99999984 57778999999999999999999  6789999999987


Q ss_pred             e
Q psy5142         351 V  351 (410)
Q Consensus       351 ~  351 (410)
                      +
T Consensus       607 y  607 (608)
T KOG4212|consen  607 Y  607 (608)
T ss_pred             e
Confidence            5

>KOG0116|consensus

Probab=98.61  E-value=8.3e-08  Score=96.69  Aligned_cols=70  Identities=17%  Similarity=0.289  Sum_probs=59.7

Q ss_pred             CeEEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeC----CC--ceEEEEeCChhHHHHHHHHhcCCCeEEcCeEEE
Q psy5142         275 GALLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNV----GE--PTAFVRYKKENNAEAVLKALGSKEIVIKDVKVS  348 (410)
Q Consensus       275 g~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~----g~--~~afV~F~~~e~A~~Al~~l~~~~~~i~g~~v~  348 (410)
                      +..|||.|||.+++...|+++|++||    .|+...|..    +.  .+|||.|.+.++++.||.+-   .+.|+++.|.
T Consensus       288 ~~~i~V~nlP~da~~~~l~~~Fk~FG----~Ik~~~I~vr~~~~~~~~fgFV~f~~~~~~~~~i~As---p~~ig~~kl~  360 (419)
T KOG0116|consen  288 GLGIFVKNLPPDATPAELEEVFKQFG----PIKEGGIQVRSPGGKNPCFGFVEFENAAAVQNAIEAS---PLEIGGRKLN  360 (419)
T ss_pred             ccceEeecCCCCCCHHHHHHHHhhcc----cccccceEEeccCCCcCceEEEEEeecchhhhhhhcC---ccccCCeeEE
Confidence            44599999999999999999999999    786655543    22  57999999999999999885   8999999999


Q ss_pred             EEe
Q psy5142         349 IEV  351 (410)
Q Consensus       349 v~~  351 (410)
                      |+-
T Consensus       361 Vee  363 (419)
T KOG0116|consen  361 VEE  363 (419)
T ss_pred             EEe
Confidence            874

>smart00361 RRM_1 RNA recognition motif

Probab=98.60  E-value=9.7e-08  Score=72.71  Aligned_cols=51  Identities=16%  Similarity=0.232  Sum_probs=43.4

Q ss_pred             HHHHHHHHh----hccCCCCceEEEE-EcccCcc--cccccccccEEEEEecCHHHHHHHHHhcCC
Q psy5142         133 LDDIKDFFK----KNTSEDVKITNII-MRNYQDK--LANQKKFKGSIFVTFDNKENAEKFLNENKD  191 (410)
Q Consensus       133 ~~~L~~~F~----~~~~~~G~I~~v~-l~~~~~~--~~~~~~~kG~afVeF~~~e~A~~Al~~~~g  191 (410)
                      +++|+++|+    .|    |.|.+|. +..+..+  +    .++|++||+|.+.++|.+|+..++|
T Consensus         2 ~~~l~~~~~~~~~~f----G~v~~v~~v~~~~~~~~~----~~rG~~fV~f~~~~dA~~A~~~l~g   59 (70)
T smart00361        2 DEDFEREFSEEEEYF----GEVGKINKIYIDNVGYEN----HKRGNVYITFERSEDAARAIVDLNG   59 (70)
T ss_pred             chhHHHHHHHHHHhc----CCeeEEEEEEeCCCCCCC----CCcEEEEEEECCHHHHHHHHHHhCC
Confidence            578999998    99    9999995 5554433  3    7899999999999999999999997

>KOG0113|consensus

Probab=98.60  E-value=2.2e-07  Score=87.65  Aligned_cols=77  Identities=22%  Similarity=0.279  Sum_probs=68.5

Q ss_pred             CCCCeEEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCC------CceEEEEeCChhHHHHHHHHhcCCCeEEcCe
Q psy5142         272 LPTGALLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVG------EPTAFVRYKKENNAEAVLKALGSKEIVIKDV  345 (410)
Q Consensus       272 ~~~g~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g------~~~afV~F~~~e~A~~Al~~l~~~~~~i~g~  345 (410)
                      ..+=++|||.-|+.+|++..|+..|+.||    .|+.|.++.+      .++|||.|+++-+...|.+..  ++++|+|+
T Consensus        98 gDPy~TLFv~RLnydT~EskLrreF~~YG----~IkrirlV~d~vTgkskGYAFIeye~erdm~~AYK~a--dG~~Idgr  171 (335)
T KOG0113|consen   98 GDPYKTLFVARLNYDTSESKLRREFEKYG----PIKRIRLVRDKVTGKSKGYAFIEYEHERDMKAAYKDA--DGIKIDGR  171 (335)
T ss_pred             CCccceeeeeeccccccHHHHHHHHHhcC----cceeEEEeeecccCCccceEEEEeccHHHHHHHHHhc--cCceecCc
Confidence            35668999999999999999999999999    9999988764      357999999999999999998  78999999


Q ss_pred             EEEEEecCc
Q psy5142         346 KVSIEVVTG  354 (410)
Q Consensus       346 ~v~v~~l~g  354 (410)
                      .|.|.+=-|
T Consensus       172 ri~VDvERg  180 (335)
T KOG0113|consen  172 RILVDVERG  180 (335)
T ss_pred             EEEEEeccc
Confidence            999987443

>KOG0122|consensus

Probab=98.59  E-value=1.5e-07  Score=86.42  Aligned_cols=74  Identities=15%  Similarity=0.309  Sum_probs=63.9

Q ss_pred             CCeEEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCCC------ceEEEEeCChhHHHHHHHHhcCCCeEEcCeEE
Q psy5142         274 TGALLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVGE------PTAFVRYKKENNAEAVLKALGSKEIVIKDVKV  347 (410)
Q Consensus       274 ~g~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g~------~~afV~F~~~e~A~~Al~~l~~~~~~i~g~~v  347 (410)
                      ..+.|.|.||++++++++|.++|.+||    .|..|.+.+++      ++|||.|.+.++|.+||..|  +|+=+++-.|
T Consensus       188 D~~tvRvtNLsed~~E~dL~eLf~~fg----~i~rvylardK~TG~~kGFAFVtF~sRddA~rAI~~L--nG~gyd~LIL  261 (270)
T KOG0122|consen  188 DEATVRVTNLSEDMREDDLEELFRPFG----PITRVYLARDKETGLSKGFAFVTFESRDDAARAIADL--NGYGYDNLIL  261 (270)
T ss_pred             ccceeEEecCccccChhHHHHHhhccC----ccceeEEEEccccCcccceEEEEEecHHHHHHHHHHc--cCcccceEEE
Confidence            457899999999999999999999999    99888887654      46999999999999999999  5666777788


Q ss_pred             EEEecC
Q psy5142         348 SIEVVT  353 (410)
Q Consensus       348 ~v~~l~  353 (410)
                      .|+...
T Consensus       262 rvEwsk  267 (270)
T KOG0122|consen  262 RVEWSK  267 (270)
T ss_pred             EEEecC
Confidence            877644

>KOG1190|consensus

Probab=98.58  E-value=5.1e-07  Score=88.34  Aligned_cols=188  Identities=16%  Similarity=0.202  Sum_probs=118.3

Q ss_pred             ceeeEeecCCC-CCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCCcccc
Q psy5142         119 AQSLYVKYIPV-DATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLKFN  197 (410)
Q Consensus       119 ~rtv~V~~lp~-~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~~~~  197 (410)
                      ...|.|.||.. .+|.+-|-.+|+-|    |.|..|.|...+         +-.|.|.+.+...|+-|+..++|  .+|-
T Consensus       297 n~vllvsnln~~~VT~d~LftlFgvY----GdVqRVkil~nk---------kd~ALIQmsd~~qAqLA~~hL~g--~~l~  361 (492)
T KOG1190|consen  297 NVVLLVSNLNEEAVTPDVLFTLFGVY----GDVQRVKILYNK---------KDNALIQMSDGQQAQLAMEHLEG--HKLY  361 (492)
T ss_pred             ceEEEEecCchhccchhHHHHHHhhh----cceEEEEeeecC---------CcceeeeecchhHHHHHHHHhhc--ceec
Confidence            36788899875 49999999999999    999999998743         35699999999999999999997  5662


Q ss_pred             ccccchhhhhhhhcccccccccCcccccchhhhchHHHHHHHHHHHHhhhhccccCccCCCCCCCCCCcccccCCCCCeE
Q psy5142         198 ENCEHKNAEKFLNENKDKNLKFNENCEHSLLIKWQQEYHEEKKQEVRSKRDKSKKSTEGDGEGNTEGSKQVVLELPTGAL  277 (410)
Q Consensus       198 ~~~~~~~~~k~~~~~~~~~~~~~g~~~~~L~v~~k~~~~~~k~~e~~~~~~k~k~~~e~~~~~~~~~~~~~~~~~~~g~~  277 (410)
                      +..++....|-++-..++    +|...+.|...    |....      ....+++           ....-..-+|+-.+
T Consensus       362 gk~lrvt~SKH~~vqlp~----egq~d~glT~d----y~~sp------Lhrfkkp-----------gsKN~~ni~Ppsat  416 (492)
T KOG1190|consen  362 GKKLRVTLSKHTNVQLPR----EGQEDQGLTKD----YGNSP------LHRFKKP-----------GSKNYQNIFPPSAT  416 (492)
T ss_pred             CceEEEeeccCccccCCC----CCCcccccccc----CCCCc------hhhccCc-----------ccccccccCCchhh
Confidence            211222211111111111    00000000000    00000      0000000           00111123577789


Q ss_pred             EEEeCCCCCCCHHHHHHHHHhcCCCCCCee-EEEeeCCCceEEEEeCChhHHHHHHHHhcCCCeEEcCe-EEEEEe
Q psy5142         278 LKISDIKEPVSREDIREVLEKVQTDDQEIV-FIEFNVGEPTAFVRYKKENNAEAVLKALGSKEIVIKDV-KVSIEV  351 (410)
Q Consensus       278 l~v~nL~~~~t~edLk~~F~~~G~~~~~V~-~V~~~~g~~~afV~F~~~e~A~~Al~~l~~~~~~i~g~-~v~v~~  351 (410)
                      |++.|+|..+++|+|+..|..-|   ..|. +.-+..+...|.+.+.+.+.|-.|+-.+  +...+++. -++|+.
T Consensus       417 lHlsnip~svsee~lk~~f~~~g---~~vkafkff~kd~kmal~q~~sveeA~~ali~~--hnh~lgen~hlRvSF  487 (492)
T KOG1190|consen  417 LHLSNIPPSVSEEDLKNLFQEPG---GQVKAFKFFQKDRKMALPQLESVEEAIQALIDL--HNHYLGENHHLRVSF  487 (492)
T ss_pred             eeeccCCcccchhHHHHhhhcCC---ceEEeeeecCCCcceeecccCChhHhhhhcccc--ccccCCCCceEEEEe
Confidence            99999999999999999999988   2343 3344556678999999999998888888  44555543 555553

>KOG0124|consensus

Probab=98.55  E-value=2.6e-06  Score=82.31  Aligned_cols=105  Identities=17%  Similarity=0.181  Sum_probs=75.5

Q ss_pred             HHHHHHhhcCCceEEEecCccceecCCCCCC--CCCchhhhhhccceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEE
Q psy5142          76 VIVDALKKSTSKLIEVNEDGTKIRRNPEKEL--PTFDIDFVKDLIAQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNI  153 (410)
Q Consensus        76 ~i~~Al~~~~S~~levsed~~~vrR~~~~p~--p~~~~~~~~~~~~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v  153 (410)
                      ...-||.+  -+..-+-.-+.+|.|-...|-  |--+.....-..-..|||..+..+.+++||+..|+-|    |+|..+
T Consensus       167 aAqLAlEq--MNg~mlGGRNiKVgrPsNmpQAQpiID~vqeeAk~fnRiYVaSvHpDLSe~DiKSVFEAF----G~I~~C  240 (544)
T KOG0124|consen  167 AAQLALEQ--MNGQMLGGRNIKVGRPSNMPQAQPIIDMVQEEAKKFNRIYVASVHPDLSETDIKSVFEAF----GEIVKC  240 (544)
T ss_pred             HHHHHHHH--hccccccCccccccCCCCCcccchHHHHHHHHHHhhheEEeeecCCCccHHHHHHHHHhh----cceeeE
Confidence            34445553  223334444556666532221  1112222233456789999999999999999999999    999999


Q ss_pred             EEcccCcccccccccccEEEEEecCHHHHHHHHHhcC
Q psy5142         154 IMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENK  190 (410)
Q Consensus       154 ~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~  190 (410)
                      .+.+.+.+.    .++||+|+||.+..+...|+..+|
T Consensus       241 ~LAr~pt~~----~HkGyGfiEy~n~qs~~eAiasMN  273 (544)
T KOG0124|consen  241 QLARAPTGR----GHKGYGFIEYNNLQSQSEAIASMN  273 (544)
T ss_pred             EeeccCCCC----CccceeeEEeccccchHHHhhhcc
Confidence            999988875    899999999999998888888876

>KOG2590|consensus

Probab=98.54  E-value=1.8e-08  Score=101.64  Aligned_cols=68  Identities=34%  Similarity=0.599  Sum_probs=59.8

Q ss_pred             chhHHHHHHHHHHHHHhCCCCCCCChhHHhhhccCCCeEehHHHHhhHHHHhccCcHHHHHHHHhhcCCceEEEec
Q psy5142          18 EVSKLENQIIEQIEYYFSDINLARDKFLQGEIKKDDGWVELTTMLKFARLAKMTTEAKVIVDALKKSTSKLIEVNE   93 (410)
Q Consensus        18 ~~~~~~~~i~~QlEfYfsd~Nl~~D~fl~~~~~~~~g~v~l~~l~~F~r~k~l~~d~~~i~~Al~~~~S~~levse   93 (410)
                      ++-...+.|.+|||||||-+||.+|.|+++      |||||.+|++|+||..|+.|+++|.+||+  .+.+|++..
T Consensus       296 pi~~~~~~~~~~ie~~FSeE~~~~d~~n~~------k~~~l~~ia~F~r~ad~s~d~nli~~alr--~s~ive~~~  363 (448)
T KOG2590|consen  296 PIGNVIAFIQEPIEFYFSEENLQRDRFNRE------KFVPLRVIAKFKRVADLSSDINLILAALR--NSLIVEETG  363 (448)
T ss_pred             cccccccccccccccccchHHHhhhhhhhc------ccchhhhhhhhhhhhhcccCHHHHHHHHh--hhhhhhccc
Confidence            445567789999999999999999999986      88999999999999999999999999999  666666553

>KOG0120|consensus

Probab=98.52  E-value=2.8e-07  Score=94.17  Aligned_cols=183  Identities=10%  Similarity=0.152  Sum_probs=121.7

Q ss_pred             cceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCCcccc
Q psy5142         118 IAQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLKFN  197 (410)
Q Consensus       118 ~~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~~~~  197 (410)
                      ....+||++||...+.+++.++...|    |.+....+..+..++    .++||||.+|.++-....|++.++|  +.+ 
T Consensus       288 ~~~ki~v~~lp~~l~~~q~~Ell~~f----g~lk~f~lv~d~~~g----~skg~af~ey~dpsvtd~A~agLnG--m~l-  356 (500)
T KOG0120|consen  288 SPNKIFVGGLPLYLTEDQVKELLDSF----GPLKAFRLVKDSATG----NSKGFAFCEYCDPSVTDQAIAGLNG--MQL-  356 (500)
T ss_pred             ccchhhhccCcCccCHHHHHHHHHhc----ccchhheeecccccc----cccceeeeeeeCCcchhhhhcccch--hhh-
Confidence            45678999999999999999999999    999999999888765    7899999999999999999999997  334 


Q ss_pred             ccccchhhhhhhhcccccccccCcccccchhhhchHHHHHHHHHHHHhhhhccccCccCCCCCCCC-CCcccccCCCCCe
Q psy5142         198 ENCEHKNAEKFLNENKDKNLKFNENCEHSLLIKWQQEYHEEKKQEVRSKRDKSKKSTEGDGEGNTE-GSKQVVLELPTGA  276 (410)
Q Consensus       198 ~~~~~~~~~k~~~~~~~~~~~~~g~~~~~L~v~~k~~~~~~k~~e~~~~~~k~k~~~e~~~~~~~~-~~~~~~~~~~~g~  276 (410)
                                            .+   ..|.+...  +...+..    +....     ..+.+... ..........+-.
T Consensus       357 ----------------------gd---~~lvvq~A--~~g~~~~----~~~~~-----~~~~~~~~i~~~~~q~~g~~t~  400 (500)
T KOG0120|consen  357 ----------------------GD---KKLVVQRA--IVGASNA----NVNFN-----ISQSQVPGIPLLMTQMAGIPTE  400 (500)
T ss_pred             ----------------------cC---ceeEeehh--hccchhc----cccCC-----ccccccccchhhhcccCCCcch
Confidence                                  33   44444311  1000000    00000     00000000 0000011122333


Q ss_pred             EEEEeCC--CCCC-C-------HHHHHHHHHhcCCCCCCeeEEEeeCC---------CceEEEEeCChhHHHHHHHHhcC
Q psy5142         277 LLKISDI--KEPV-S-------REDIREVLEKVQTDDQEIVFIEFNVG---------EPTAFVRYKKENNAEAVLKALGS  337 (410)
Q Consensus       277 ~l~v~nL--~~~~-t-------~edLk~~F~~~G~~~~~V~~V~~~~g---------~~~afV~F~~~e~A~~Al~~l~~  337 (410)
                      +|.+.|+  |.+. .       -|+++.-|++||    .|..|.+++.         .+.-||+|.+.++++.|.++|  
T Consensus       401 Vl~L~n~Vt~deLkdd~EyeeIlEdvr~ec~k~g----~v~~v~ipr~~~~~~~~~G~GkVFVefas~ed~qrA~~~L--  474 (500)
T KOG0120|consen  401 VLCLTNVVTPDELKDDEEYEEILEDVRTECAKFG----AVRSVEIPRPYPDENPVPGTGKVFVEFADTEDSQRAMEEL--  474 (500)
T ss_pred             hhhhhhcCCHHHhcchHHHHHHHHHHHHHhcccC----ceeEEecCCCCCCCCcCCCcccEEEEecChHHHHHHHHHc--
Confidence            4444441  2222 1       256666788899    8888887764         234699999999999999999  


Q ss_pred             CCeEEcCeEEEEEecC
Q psy5142         338 KEIVIKDVKVSIEVVT  353 (410)
Q Consensus       338 ~~~~i~g~~v~v~~l~  353 (410)
                      +|.+++|+.|...-..
T Consensus       475 ~GrKF~nRtVvtsYyd  490 (500)
T KOG0120|consen  475 TGRKFANRTVVASYYD  490 (500)
T ss_pred             cCceeCCcEEEEEecC
Confidence            8899999999887654

>PF13893 RRM_5: RNA recognition motif

Probab=98.49  E-value=2.8e-07  Score=66.80  Aligned_cols=46  Identities=24%  Similarity=0.372  Sum_probs=39.0

Q ss_pred             HHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCCccc
Q psy5142         136 IKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLKF  196 (410)
Q Consensus       136 L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~~~  196 (410)
                      |.++|++|    |+|..|.+.+.         .+++|||+|.+.++|++|++.++|  ..|
T Consensus         1 L~~~f~~f----G~V~~i~~~~~---------~~~~a~V~f~~~~~A~~a~~~l~~--~~~   46 (56)
T PF13893_consen    1 LYKLFSKF----GEVKKIKIFKK---------KRGFAFVEFASVEDAQKAIEQLNG--RQF   46 (56)
T ss_dssp             HHHHHTTT----S-EEEEEEETT---------STTEEEEEESSHHHHHHHHHHHTT--SEE
T ss_pred             ChHHhCCc----ccEEEEEEEeC---------CCCEEEEEECCHHHHHHHHHHhCC--CEE
Confidence            67899999    99999998752         258999999999999999999996  456

(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 ....

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

Probab=98.45  E-value=8.7e-07  Score=83.14  Aligned_cols=74  Identities=19%  Similarity=0.322  Sum_probs=67.1

Q ss_pred             CeEEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCCC------ceEEEEeCChhHHHHHHHHhcCCCeEEcCeEEE
Q psy5142         275 GALLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVGE------PTAFVRYKKENNAEAVLKALGSKEIVIKDVKVS  348 (410)
Q Consensus       275 g~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g~------~~afV~F~~~e~A~~Al~~l~~~~~~i~g~~v~  348 (410)
                      .++|+|.|||..+++++|.++|.+||    .|..|.+..+.      +.|||.|.+.++|..|+..+  ++..+.|+.|.
T Consensus       115 ~~~l~v~nL~~~~~~~~l~~~F~~~g----~~~~~~~~~d~~~~~~~g~~~v~f~~~~~~~~a~~~~--~~~~~~~~~~~  188 (306)
T COG0724         115 NNTLFVGNLPYDVTEEDLRELFKKFG----PVKRVRLVRDRETGKSRGFAFVEFESEESAEKAIEEL--NGKELEGRPLR  188 (306)
T ss_pred             CceEEEeCCCCCCCHHHHHHHHHhcC----ceeEEEeeeccccCccCceEEEEecCHHHHHHHHHHc--CCCeECCceeE
Confidence            68999999999999999999999999    88888776653      56999999999999999999  68999999999


Q ss_pred             EEecCc
Q psy5142         349 IEVVTG  354 (410)
Q Consensus       349 v~~l~g  354 (410)
                      |.....
T Consensus       189 v~~~~~  194 (306)
T COG0724         189 VQKAQP  194 (306)
T ss_pred             eecccc
Confidence            998654

>KOG0149|consensus

Probab=98.39  E-value=5.6e-07  Score=82.43  Aligned_cols=71  Identities=17%  Similarity=0.204  Sum_probs=59.5

Q ss_pred             CeEEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCC------CceEEEEeCChhHHHHHHHHhcCCCeEEcCeEEE
Q psy5142         275 GALLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVG------EPTAFVRYKKENNAEAVLKALGSKEIVIKDVKVS  348 (410)
Q Consensus       275 g~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g------~~~afV~F~~~e~A~~Al~~l~~~~~~i~g~~v~  348 (410)
                      -+.|||.||+|.|..++|+.+|++||    +|....+..+      +++|||.|.+.++|.+|++--   .-.|+|+...
T Consensus        12 ~TKifVggL~w~T~~~~l~~yFeqfG----eI~eavvitd~~t~rskGyGfVTf~d~~aa~rAc~dp---~piIdGR~aN   84 (247)
T KOG0149|consen   12 FTKIFVGGLAWETHKETLRRYFEQFG----EIVEAVVITDKNTGRSKGYGFVTFRDAEAATRACKDP---NPIIDGRKAN   84 (247)
T ss_pred             EEEEEEcCcccccchHHHHHHHHHhC----ceEEEEEEeccCCccccceeeEEeecHHHHHHHhcCC---CCcccccccc
Confidence            45799999999999999999999999    9887766543      346999999999999998765   4688998877


Q ss_pred             EEec
Q psy5142         349 IEVV  352 (410)
Q Consensus       349 v~~l  352 (410)
                      +.++
T Consensus        85 cnlA   88 (247)
T KOG0149|consen   85 CNLA   88 (247)
T ss_pred             cchh
Confidence            7664

>KOG0109|consensus

Probab=98.37  E-value=7e-07  Score=83.96  Aligned_cols=70  Identities=16%  Similarity=0.346  Sum_probs=65.4

Q ss_pred             EEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCCCceEEEEeCChhHHHHHHHHhcCCCeEEcCeEEEEEecCc
Q psy5142         277 LLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVGEPTAFVRYKKENNAEAVLKALGSKEIVIKDVKVSIEVVTG  354 (410)
Q Consensus       277 ~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g~~~afV~F~~~e~A~~Al~~l~~~~~~i~g~~v~v~~l~g  354 (410)
                      -|||.|||..++...|+.+|++||    .|..+|+++  .+|||..++...|+.||..|  ++.+|+|..|.|+..+.
T Consensus         4 KLFIGNLp~~~~~~elr~lFe~yg----kVlECDIvK--NYgFVHiEdktaaedairNL--hgYtLhg~nInVeaSks   73 (346)
T KOG0109|consen    4 KLFIGNLPREATEQELRSLFEQYG----KVLECDIVK--NYGFVHIEDKTAAEDAIRNL--HGYTLHGVNINVEASKS   73 (346)
T ss_pred             chhccCCCcccchHHHHHHHHhhC----ceEeeeeec--ccceEEeecccccHHHHhhc--ccceecceEEEEEeccc
Confidence            489999999999999999999999    999999998  78999999999999999999  88999999999987653

>KOG0130|consensus

Probab=98.36  E-value=9e-07  Score=74.38  Aligned_cols=77  Identities=23%  Similarity=0.333  Sum_probs=64.8

Q ss_pred             ccCCCCCeEEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCCC------ceEEEEeCChhHHHHHHHHhcCCCeEE
Q psy5142         269 VLELPTGALLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVGE------PTAFVRYKKENNAEAVLKALGSKEIVI  342 (410)
Q Consensus       269 ~~~~~~g~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g~------~~afV~F~~~e~A~~Al~~l~~~~~~i  342 (410)
                      +.....|-||+|.|+++.+++++|.+.|..||    +|+.+.+.-+.      ++|.|+|.+.+.|++|+..+  ++..+
T Consensus        66 PqrSVEGwIi~VtgvHeEatEedi~d~F~dyG----eiKNihLNLDRRtGy~KGYaLvEYet~keAq~A~~~~--Ng~~l  139 (170)
T KOG0130|consen   66 PQRSVEGWIIFVTGVHEEATEEDIHDKFADYG----EIKNIHLNLDRRTGYVKGYALVEYETLKEAQAAIDAL--NGAEL  139 (170)
T ss_pred             CccceeeEEEEEeccCcchhHHHHHHHHhhcc----cccceeeccccccccccceeeeehHhHHHHHHHHHhc--cchhh
Confidence            34466789999999999999999999999999    99998877553      35779999999999999999  56667


Q ss_pred             cCeEEEEEe
Q psy5142         343 KDVKVSIEV  351 (410)
Q Consensus       343 ~g~~v~v~~  351 (410)
                      -|..|.|..
T Consensus       140 l~q~v~VDw  148 (170)
T KOG0130|consen  140 LGQNVSVDW  148 (170)
T ss_pred             hCCceeEEE
Confidence            777766653

>KOG4211|consensus

Probab=98.35  E-value=9.9e-06  Score=81.32  Aligned_cols=64  Identities=25%  Similarity=0.403  Sum_probs=53.1

Q ss_pred             cceeeEeecCCCCCCHHHHHHHHhhccCCCCceEE-EEEcccCcccccccccccEEEEEecCHHHHHHHHHhcC
Q psy5142         118 IAQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITN-IIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENK  190 (410)
Q Consensus       118 ~~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~-v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~  190 (410)
                      ..-.|-+++||+.+|++||.+||+..    -.|.. |.|+.+...     ++.|-|||.|++++.|++|+....
T Consensus       102 ~d~vVRLRGLPfscte~dI~~FFaGL----~Iv~~gi~l~~d~rg-----R~tGEAfVqF~sqe~ae~Al~rhr  166 (510)
T KOG4211|consen  102 NDGVVRLRGLPFSCTEEDIVEFFAGL----EIVPDGILLPMDQRG-----RPTGEAFVQFESQESAEIALGRHR  166 (510)
T ss_pred             CCceEEecCCCccCcHHHHHHHhcCC----cccccceeeeccCCC-----CcccceEEEecCHHHHHHHHHHHH
Confidence            45689999999999999999999987    33333 556666666     789999999999999999997754

>KOG0131|consensus

Probab=98.33  E-value=9.7e-07  Score=77.88  Aligned_cols=76  Identities=17%  Similarity=0.294  Sum_probs=68.2

Q ss_pred             CCCCeEEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCC------CceEEEEeCChhHHHHHHHHhcCCCeEEcCe
Q psy5142         272 LPTGALLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVG------EPTAFVRYKKENNAEAVLKALGSKEIVIKDV  345 (410)
Q Consensus       272 ~~~g~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g------~~~afV~F~~~e~A~~Al~~l~~~~~~i~g~  345 (410)
                      ...+.+|||.||++.++++-|+++|-+.|    .|..+.++++      .++|||+|.++++|+-|++-|  +.+.+-|+
T Consensus         6 rnqd~tiyvgnld~kvs~~~l~EL~iqag----pVv~i~iPkDrv~~~~qGygF~Ef~~eedadYAikil--n~VkLYgr   79 (203)
T KOG0131|consen    6 RNQDATLYVGNLDEKVSEELLYELFIQAG----PVVNLHIPKDRVTQKHQGYGFAEFRTEEDADYAIKIL--NMVKLYGR   79 (203)
T ss_pred             cCCCceEEEecCCHHHHHHHHHHHHHhcC----ceeeeecchhhhcccccceeEEEEechhhhHHHHHHH--HHHHhcCc
Confidence            34567999999999999999999999999    9999988864      457999999999999999999  58999999


Q ss_pred             EEEEEecC
Q psy5142         346 KVSIEVVT  353 (410)
Q Consensus       346 ~v~v~~l~  353 (410)
                      +|+|..++
T Consensus        80 pIrv~kas   87 (203)
T KOG0131|consen   80 PIRVNKAS   87 (203)
T ss_pred             eeEEEecc
Confidence            99998876

>KOG0128|consensus

Probab=98.30  E-value=5e-08  Score=102.93  Aligned_cols=142  Identities=15%  Similarity=0.194  Sum_probs=113.6

Q ss_pred             ccceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCCccc
Q psy5142         117 LIAQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLKF  196 (410)
Q Consensus       117 ~~~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~~~  196 (410)
                      .+..++||+||+..+...+|...|+.+    |.+..|++......+    +++|.|||+|..++++.+||....   .++
T Consensus       665 R~~~~~fvsnl~~~~~~~dl~~~~~~~----~~~e~vqi~~h~n~~----~~rG~~Y~~F~~~~~~~aaV~f~d---~~~  733 (881)
T KOG0128|consen  665 RDLIKIFVSNLSPKMSEEDLSERFSPS----GTIEVVQIVIHKNEK----RFRGKAYVEFLKPEHAGAAVAFRD---SCF  733 (881)
T ss_pred             HHHHHHHHhhcchhhcCchhhhhcCcc----chhhhHHHHHHhhcc----ccccceeeEeecCCchhhhhhhhh---hhh
Confidence            456789999999999999999999999    988888887555554    899999999999999999998766   233


Q ss_pred             cccccchhhhhhhhcccccccccCcccccchhhhchHHHHHHHHHHHHhhhhccccCccCCCCCCCCCCcccccCCCCCe
Q psy5142         197 NENCEHKNAEKFLNENKDKNLKFNENCEHSLLIKWQQEYHEEKKQEVRSKRDKSKKSTEGDGEGNTEGSKQVVLELPTGA  276 (410)
Q Consensus       197 ~~~~~~~~~~k~~~~~~~~~~~~~g~~~~~L~v~~k~~~~~~k~~e~~~~~~k~k~~~e~~~~~~~~~~~~~~~~~~~g~  276 (410)
                                             .|                                                     ..
T Consensus       734 -----------------------~g-----------------------------------------------------K~  737 (881)
T KOG0128|consen  734 -----------------------FG-----------------------------------------------------KI  737 (881)
T ss_pred             -----------------------hh-----------------------------------------------------hh
Confidence                                   22                                                     12


Q ss_pred             EEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCC-----CceEEEEeCChhHHHHHHHHhcCCCeEEcCeEEEEEe
Q psy5142         277 LLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVG-----EPTAFVRYKKENNAEAVLKALGSKEIVIKDVKVSIEV  351 (410)
Q Consensus       277 ~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g-----~~~afV~F~~~e~A~~Al~~l~~~~~~i~g~~v~v~~  351 (410)
                      .|+|.|+|+..|.+.|+.+|+.+|    .+..+.++..     ++.|||.|.++.+|..++..+  ....++...+.+.+
T Consensus       738 ~v~i~g~pf~gt~e~~k~l~~~~g----n~~~~~~vt~r~gkpkg~a~v~y~~ea~~s~~~~s~--d~~~~rE~~~~v~v  811 (881)
T KOG0128|consen  738 SVAISGPPFQGTKEELKSLASKTG----NVTSLRLVTVRAGKPKGKARVDYNTEADASRKVASV--DVAGKRENNGEVQV  811 (881)
T ss_pred             hhheeCCCCCCchHHHHhhccccC----CccccchhhhhccccccceeccCCCcchhhhhcccc--hhhhhhhcCccccc
Confidence            577999999999999999999999    6666554432     345899999999999999888  44555555555544

>KOG0132|consensus

Probab=98.28  E-value=1.4e-06  Score=91.23  Aligned_cols=62  Identities=26%  Similarity=0.460  Sum_probs=58.2

Q ss_pred             hccceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCC
Q psy5142         116 DLIAQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKD  191 (410)
Q Consensus       116 ~~~~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g  191 (410)
                      .+..|||||++||..+++.+|..+|+.|    |+|.+|.|.          -++|||||.+....+|.+|+..+.+
T Consensus       418 sV~SrTLwvG~i~k~v~e~dL~~~feef----GeiqSi~li----------~~R~cAfI~M~~RqdA~kalqkl~n  479 (894)
T KOG0132|consen  418 SVCSRTLWVGGIPKNVTEQDLANLFEEF----GEIQSIILI----------PPRGCAFIKMVRRQDAEKALQKLSN  479 (894)
T ss_pred             eEeeeeeeeccccchhhHHHHHHHHHhc----ccceeEeec----------cCCceeEEEEeehhHHHHHHHHHhc
Confidence            4778999999999999999999999999    999999987          5799999999999999999999874

>KOG0146|consensus

Probab=98.24  E-value=1.7e-06  Score=80.46  Aligned_cols=75  Identities=15%  Similarity=0.112  Sum_probs=68.1

Q ss_pred             CchhhhhhccceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHh
Q psy5142         109 FDIDFVKDLIAQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNE  188 (410)
Q Consensus       109 ~~~~~~~~~~~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~  188 (410)
                      .....+...+-|.|||-.||.+....+|..+|-+|    |.|.+..+--|+.+.    .+|.|+||.|+++.+|+.||..
T Consensus       275 ~~qqqreGPeGCNlFIYHLPQEFgDaEliQmF~PF----GhivSaKVFvDRATN----QSKCFGFVSfDNp~SaQaAIqA  346 (371)
T KOG0146|consen  275 LPQQQREGPEGCNLFIYHLPQEFGDAELIQMFLPF----GHIVSAKVFVDRATN----QSKCFGFVSFDNPASAQAAIQA  346 (371)
T ss_pred             hhhhhhcCCCcceEEEEeCchhhccHHHHHHhccc----cceeeeeeeehhccc----cccceeeEecCCchhHHHHHHH
Confidence            33445667889999999999999999999999999    999999998888876    8999999999999999999999


Q ss_pred             cCC
Q psy5142         189 NKD  191 (410)
Q Consensus       189 ~~g  191 (410)
                      +||
T Consensus       347 MNG  349 (371)
T KOG0146|consen  347 MNG  349 (371)
T ss_pred             hcc
Confidence            997

>KOG0112|consensus

Probab=98.24  E-value=1.3e-06  Score=92.93  Aligned_cols=159  Identities=13%  Similarity=0.205  Sum_probs=124.1

Q ss_pred             hhccceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCCc
Q psy5142         115 KDLIAQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNL  194 (410)
Q Consensus       115 ~~~~~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~  194 (410)
                      .....+|||++||+..+++.+|+..|..+    |.|..|.|-+...+     .-.-++||.|.+...+..|...+.+  .
T Consensus       368 D~~atrTLf~Gnl~~kl~eseiR~af~e~----gkve~VDiKtP~~~-----~esa~~f~~~~n~dmtp~ak~e~s~--~  436 (975)
T KOG0112|consen  368 DFRATRTLFLGNLDSKLTESEIRPAFDES----GKVEEVDIKTPHIK-----TESAYAFVSLLNTDMTPSAKFEESG--P  436 (975)
T ss_pred             chhhhhhhhhcCcccchhhhhhhhhhhhh----ccccccccccCCCC-----cccchhhhhhhccccCcccchhhcC--C
Confidence            45778999999999999999999999999    99999999776544     4567899999999999888877763  1


Q ss_pred             cccccccchhhhhhhhcccccccccCcccccchhhhchHHHHHHHHHHHHhhhhccccCccCCCCCCCCCCcccccCCCC
Q psy5142         195 KFNENCEHKNAEKFLNENKDKNLKFNENCEHSLLIKWQQEYHEEKKQEVRSKRDKSKKSTEGDGEGNTEGSKQVVLELPT  274 (410)
Q Consensus       195 ~~~~~~~~~~~~k~~~~~~~~~~~~~g~~~~~L~v~~k~~~~~~k~~e~~~~~~k~k~~~e~~~~~~~~~~~~~~~~~~~  274 (410)
                      .+.                      .|    .+++.    |-                                .+....
T Consensus       437 ~I~----------------------~g----~~r~g----lG--------------------------------~~kst~  454 (975)
T KOG0112|consen  437 LIG----------------------NG----THRIG----LG--------------------------------QPKSTP  454 (975)
T ss_pred             ccc----------------------cC----ccccc----cc--------------------------------cccccc
Confidence            110                      11    11111    00                                001233


Q ss_pred             CeEEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCCCceEEEEeCChhHHHHHHHHhcCCCeEEcC--eEEEEEec
Q psy5142         275 GALLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVGEPTAFVRYKKENNAEAVLKALGSKEIVIKD--VKVSIEVV  352 (410)
Q Consensus       275 g~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g~~~afV~F~~~e~A~~Al~~l~~~~~~i~g--~~v~v~~l  352 (410)
                      .+.+.+.+|+..+....|...|..||    .|..|+|..|..+|||.|.+...|+.|+..|  .+..+++  +.+.|.++
T Consensus       455 ttr~~sgglg~w~p~~~l~r~fd~fG----pir~Idy~hgq~yayi~yes~~~aq~a~~~~--rgap~G~P~~r~rvdla  528 (975)
T KOG0112|consen  455 TTRLQSGGLGPWSPVSRLNREFDRFG----PIRIIDYRHGQPYAYIQYESPPAAQAATHDM--RGAPLGGPPRRLRVDLA  528 (975)
T ss_pred             ceeeccCCCCCCChHHHHHHHhhccC----cceeeecccCCcceeeecccCccchhhHHHH--hcCcCCCCCcccccccc
Confidence            45688899999999999999999999    9999999999999999999999999999999  5666765  44555544

>KOG4454|consensus

Probab=98.23  E-value=4.2e-07  Score=82.27  Aligned_cols=63  Identities=14%  Similarity=0.183  Sum_probs=59.7

Q ss_pred             ceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCC
Q psy5142         119 AQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKD  191 (410)
Q Consensus       119 ~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g  191 (410)
                      +|||||.||-..+|++-|.++|-+-    |+|..|.|+..++.     ..+ ||||.|.++-++.-|++.++|
T Consensus         9 drtl~v~n~~~~v~eelL~Elfiqa----GPV~kv~ip~~~d~-----~~k-Fa~v~f~~E~sv~~a~~L~ng   71 (267)
T KOG4454|consen    9 DRTLLVQNMYSGVSEELLSELFIQA----GPVYKVGIPSGQDQ-----EQK-FAYVFFPNENSVQLAGQLENG   71 (267)
T ss_pred             hhHHHHHhhhhhhhHHHHHHHhhcc----CceEEEeCCCCccC-----CCc-eeeeecccccchhhhhhhccc
Confidence            6999999999999999999999999    99999999998887     566 999999999999999999997

>KOG4208|consensus

Probab=98.23  E-value=2.4e-06  Score=76.94  Aligned_cols=67  Identities=22%  Similarity=0.312  Sum_probs=60.6

Q ss_pred             cceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCC
Q psy5142         118 IAQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKD  191 (410)
Q Consensus       118 ~~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g  191 (410)
                      ..--+||..+|..+-+.+|..+|.++.   |.|..++|.|++.||    .++|||||+|++++.|.-|-+.+|+
T Consensus        48 ~~g~~~~~~~p~g~~e~~~~~~~~q~~---g~v~r~rlsRnkrTG----NSKgYAFVEFEs~eVA~IaAETMNN  114 (214)
T KOG4208|consen   48 IEGVVYVDHIPHGFFETEILNYFRQFG---GTVTRFRLSRNKRTG----NSKGYAFVEFESEEVAKIAAETMNN  114 (214)
T ss_pred             CccceeecccccchhHHHHhhhhhhcC---CeeEEEEeecccccC----CcCceEEEEeccHHHHHHHHHHhhh
Confidence            345689999999999999999999883   789999998888887    8999999999999999999999985

>KOG0153|consensus

Probab=98.22  E-value=4.5e-06  Score=80.41  Aligned_cols=75  Identities=23%  Similarity=0.264  Sum_probs=68.0

Q ss_pred             CCeEEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCCCceEEEEeCChhHHHHHHHHhcCCCeEEcCeEEEEEecC
Q psy5142         274 TGALLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVGEPTAFVRYKKENNAEAVLKALGSKEIVIKDVKVSIEVVT  353 (410)
Q Consensus       274 ~g~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g~~~afV~F~~~e~A~~Al~~l~~~~~~i~g~~v~v~~l~  353 (410)
                      .=.+|+|.||.+.+++.+|+++|-+||    +|.+|.+..+...|||.|.+.++|+.|.+..- +.+.|+|..|+|..-.
T Consensus       227 ~I~tLyIg~l~d~v~e~dIrdhFyqyG----eirsi~~~~~~~CAFv~ftTR~aAE~Aae~~~-n~lvI~G~Rl~i~Wg~  301 (377)
T KOG0153|consen  227 SIKTLYIGGLNDEVLEQDIRDHFYQYG----EIRSIRILPRKGCAFVTFTTREAAEKAAEKSF-NKLVINGFRLKIKWGR  301 (377)
T ss_pred             ceeEEEecccccchhHHHHHHHHhhcC----CeeeEEeecccccceeeehhhHHHHHHHHhhc-ceeeecceEEEEEeCC
Confidence            346899999999999999999999999    99999999999999999999999999998885 3799999999987533

>KOG0129|consensus

Probab=98.20  E-value=2.3e-05  Score=79.24  Aligned_cols=166  Identities=11%  Similarity=0.261  Sum_probs=109.4

Q ss_pred             hhhccceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCccccccccccc---EEEEEecCHHHHHHHHHhcC
Q psy5142         114 VKDLIAQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKG---SIFVTFDNKENAEKFLNENK  190 (410)
Q Consensus       114 ~~~~~~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG---~afVeF~~~e~A~~Al~~~~  190 (410)
                      +.....+.|||++||++++++.|...|..|    |.+. |.-+..... ....-++|   |+|..|+++.+++..+....
T Consensus       254 ~~~~~S~KVFvGGlp~dise~~i~~~F~~F----Gs~~-VdWP~k~~~-~~~~ppkGs~~YvflvFe~E~sV~~Ll~aC~  327 (520)
T KOG0129|consen  254 RSPRYSRKVFVGGLPWDITEAQINASFGQF----GSVK-VDWPGKANS-RGRAPPKGSYGYVFLVFEDERSVQSLLSACS  327 (520)
T ss_pred             CccccccceeecCCCccccHHHHHhhcccc----cceE-eecCCCccc-cccCCCCCcccEEEEEecchHHHHHHHHHHh
Confidence            345678999999999999999999999999    9874 445531111 01113566   99999999999998877654


Q ss_pred             CCCccccccccchhhhhhhhcccccccccCcccccchhhh-c---hHHHHHHHHHHHHhhhhccccCccCCCCCCCCCCc
Q psy5142         191 DKNLKFNENCEHKNAEKFLNENKDKNLKFNENCEHSLLIK-W---QQEYHEEKKQEVRSKRDKSKKSTEGDGEGNTEGSK  266 (410)
Q Consensus       191 g~~~~~~~~~~~~~~~k~~~~~~~~~~~~~g~~~~~L~v~-~---k~~~~~~k~~e~~~~~~k~k~~~e~~~~~~~~~~~  266 (410)
                      -....|-   ......+         .  ..   +.+.|. |   ..+|..                             
T Consensus       328 ~~~~~~y---f~vss~~---------~--k~---k~VQIrPW~laDs~fv~-----------------------------  361 (520)
T KOG0129|consen  328 EGEGNYY---FKVSSPT---------I--KD---KEVQIRPWVLADSDFVL-----------------------------  361 (520)
T ss_pred             hcccceE---EEEecCc---------c--cc---cceeEEeeEeccchhhh-----------------------------
Confidence            1001110   0000000         0  00   111111 1   112220                             


Q ss_pred             ccccCCCCCeEEEEeCCCCCCCHHHHHHHHH-hcCCCCCCeeEEEeeCCC------ceEEEEeCChhHHHHHHHHh
Q psy5142         267 QVVLELPTGALLKISDIKEPVSREDIREVLE-KVQTDDQEIVFIEFNVGE------PTAFVRYKKENNAEAVLKAL  335 (410)
Q Consensus       267 ~~~~~~~~g~~l~v~nL~~~~t~edLk~~F~-~~G~~~~~V~~V~~~~g~------~~afV~F~~~e~A~~Al~~l  335 (410)
                      .......+-.+|||.+||.-++-++|-.+|. -||    .|.||-|.++.      +.|=|.|.+..+=-+||.+-
T Consensus       362 d~sq~lDprrTVFVGgvprpl~A~eLA~imd~lyG----gV~yaGIDtD~k~KYPkGaGRVtFsnqqsYi~AIsar  433 (520)
T KOG0129|consen  362 DHNQPIDPRRTVFVGGLPRPLTAEELAMIMEDLFG----GVLYVGIDTDPKLKYPKGAGRVTFSNQQAYIKAISAR  433 (520)
T ss_pred             ccCcccCccceEEecCCCCcchHHHHHHHHHHhcC----ceEEEEeccCcccCCCCCcceeeecccHHHHHHHhhh
Confidence            1223456677999999999999999999999 599    99998777652      34899999998888888875

>KOG0117|consensus

Probab=98.18  E-value=6.7e-06  Score=81.55  Aligned_cols=75  Identities=19%  Similarity=0.311  Sum_probs=63.4

Q ss_pred             cCCCCCeEEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCC------CceEEEEeCChhHHHHHHHHhcCCCeEEc
Q psy5142         270 LELPTGALLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVG------EPTAFVRYKKENNAEAVLKALGSKEIVIK  343 (410)
Q Consensus       270 ~~~~~g~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g------~~~afV~F~~~e~A~~Al~~l~~~~~~i~  343 (410)
                      +..+.||-|||..||.++.+++|.-+|.+.|    .|-.++++.+      +++|||.|.+.+.|++||+.||  +.+|.
T Consensus        78 ~~p~~G~EVfvGkIPrD~~EdeLvplfEkiG----~I~elRLMmD~~sG~nRGYAFVtf~~Ke~Aq~Aik~ln--n~Eir  151 (506)
T KOG0117|consen   78 PPPPRGCEVFVGKIPRDVFEDELVPLFEKIG----KIYELRLMMDPFSGDNRGYAFVTFCTKEEAQEAIKELN--NYEIR  151 (506)
T ss_pred             CCCCCCceEEecCCCccccchhhHHHHHhcc----ceeeEEEeecccCCCCcceEEEEeecHHHHHHHHHHhh--Ccccc
Confidence            3458899999999999999999999999999    9988888764      4579999999999999999994  45554


Q ss_pred             -CeEEEEE
Q psy5142         344 -DVKVSIE  350 (410)
Q Consensus       344 -g~~v~v~  350 (410)
                       |+.|.|.
T Consensus       152 ~GK~igvc  159 (506)
T KOG0117|consen  152 PGKLLGVC  159 (506)
T ss_pred             CCCEeEEE
Confidence             6655554

>smart00361 RRM_1 RNA recognition motif

Probab=98.12  E-value=1.1e-05  Score=61.36  Aligned_cols=55  Identities=13%  Similarity=0.237  Sum_probs=45.0

Q ss_pred             HHHHHHHHH----hcCCCCCCeeEEE---eeC----C--CceEEEEeCChhHHHHHHHHhcCCCeEEcCeEEEE
Q psy5142         289 REDIREVLE----KVQTDDQEIVFIE---FNV----G--EPTAFVRYKKENNAEAVLKALGSKEIVIKDVKVSI  349 (410)
Q Consensus       289 ~edLk~~F~----~~G~~~~~V~~V~---~~~----g--~~~afV~F~~~e~A~~Al~~l~~~~~~i~g~~v~v  349 (410)
                      +++|+++|+    +||    .|..|.   +.+    +  .+.|||.|.+.++|.+|+..|  ++..++|+.|++
T Consensus         2 ~~~l~~~~~~~~~~fG----~v~~v~~v~~~~~~~~~~~rG~~fV~f~~~~dA~~A~~~l--~g~~~~gr~l~~   69 (70)
T smart00361        2 DEDFEREFSEEEEYFG----EVGKINKIYIDNVGYENHKRGNVYITFERSEDAARAIVDL--NGRYFDGRTVKA   69 (70)
T ss_pred             chhHHHHHHHHHHhcC----CeeEEEEEEeCCCCCCCCCcEEEEEEECCHHHHHHHHHHh--CCCEECCEEEEe
Confidence            578888888    999    887763   322    2  346999999999999999999  678999999876

>KOG0153|consensus

Probab=98.09  E-value=4.3e-06  Score=80.56  Aligned_cols=62  Identities=31%  Similarity=0.410  Sum_probs=55.6

Q ss_pred             hhccceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcC
Q psy5142         115 KDLIAQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENK  190 (410)
Q Consensus       115 ~~~~~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~  190 (410)
                      ++..-+||||++|-..+++.+|+++|-+|    |+|.+|++.          ..+++|||+|.+.++|+.|.+..-
T Consensus       224 eD~~I~tLyIg~l~d~v~e~dIrdhFyqy----Geirsi~~~----------~~~~CAFv~ftTR~aAE~Aae~~~  285 (377)
T KOG0153|consen  224 EDTSIKTLYIGGLNDEVLEQDIRDHFYQY----GEIRSIRIL----------PRKGCAFVTFTTREAAEKAAEKSF  285 (377)
T ss_pred             cccceeEEEecccccchhHHHHHHHHhhc----CCeeeEEee----------cccccceeeehhhHHHHHHHHhhc
Confidence            35667899999998899999999999999    999999986          347899999999999999998765

>KOG1456|consensus

Probab=98.07  E-value=5.9e-05  Score=73.35  Aligned_cols=165  Identities=15%  Similarity=0.158  Sum_probs=110.4

Q ss_pred             ceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCCccccc
Q psy5142         119 AQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLKFNE  198 (410)
Q Consensus       119 ~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~~~~~  198 (410)
                      .-.|.|++|-..+++.+|.+.++.|    |.|..|.+..          ++..|.|+|++.+.|..++.......+-.  
T Consensus        31 spvvhvr~l~~~v~eadl~eal~~f----G~i~yvt~~P----------~~r~alvefedi~~akn~Vnfaa~n~i~i--   94 (494)
T KOG1456|consen   31 SPVVHVRGLHQGVVEADLVEALSNF----GPIAYVTCMP----------HKRQALVEFEDIEGAKNCVNFAADNQIYI--   94 (494)
T ss_pred             CceEEEeccccccchhHHHHHHhcC----CceEEEEecc----------ccceeeeeeccccchhhheehhccCcccc--
Confidence            3468999999999999999999999    9999998763          34569999999999999886644211111  


Q ss_pred             cccchhhhhhhhcccccccccCcccccchhhhchHHHHHHHHHHHHhhhhccccCccCCCCCCCCCCcccccCCCCCeEE
Q psy5142         199 NCEHKNAEKFLNENKDKNLKFNENCEHSLLIKWQQEYHEEKKQEVRSKRDKSKKSTEGDGEGNTEGSKQVVLELPTGALL  278 (410)
Q Consensus       199 ~~~~~~~~k~~~~~~~~~~~~~g~~~~~L~v~~k~~~~~~k~~e~~~~~~k~k~~~e~~~~~~~~~~~~~~~~~~~g~~l  278 (410)
                                           .|   ......    |...+.-             ++          +-.....++.+|
T Consensus        95 ---------------------~g---q~Al~N----yStsq~i-------------~R----------~g~es~~pN~VL  123 (494)
T KOG1456|consen   95 ---------------------AG---QQALFN----YSTSQCI-------------ER----------PGDESATPNKVL  123 (494)
T ss_pred             ---------------------cC---chhhcc----cchhhhh-------------cc----------CCCCCCCCCeEE
Confidence                                 22   111111    1100000             00          001123344455


Q ss_pred             EEe--CCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCCCc-eEEEEeCChhHHHHHHHHhcCCCeEEcCeEEEEEecCc
Q psy5142         279 KIS--DIKEPVSREDIREVLEKVQTDDQEIVFIEFNVGEP-TAFVRYKKENNAEAVLKALGSKEIVIKDVKVSIEVVTG  354 (410)
Q Consensus       279 ~v~--nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g~~-~afV~F~~~e~A~~Al~~l~~~~~~i~g~~v~v~~l~g  354 (410)
                      .|.  |--..+|-+-|..++...|    .|..|-+.+-.+ .|.|+|++.+.|++|..+||+..+--+=..|+|+.+..
T Consensus       124 l~TIlNp~YpItvDVly~Icnp~G----kVlRIvIfkkngVQAmVEFdsv~~AqrAk~alNGADIYsGCCTLKIeyAkP  198 (494)
T KOG1456|consen  124 LFTILNPQYPITVDVLYTICNPQG----KVLRIVIFKKNGVQAMVEFDSVEVAQRAKAALNGADIYSGCCTLKIEYAKP  198 (494)
T ss_pred             EEEeecCccccchhhhhhhcCCCC----ceEEEEEEeccceeeEEeechhHHHHHHHhhcccccccccceeEEEEecCc
Confidence            554  4345678999999999999    998887776544 49999999999999999996544333334666665543

>KOG4205|consensus

Probab=98.01  E-value=3.2e-06  Score=82.33  Aligned_cols=64  Identities=25%  Similarity=0.476  Sum_probs=58.6

Q ss_pred             cceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhc
Q psy5142         118 IAQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNEN  189 (410)
Q Consensus       118 ~~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~  189 (410)
                      ..+.|||++||.++++.+++++|.+|    |.|..+.++.+..+.    +.+||+||+|.+++++.+++...
T Consensus        96 ~tkkiFvGG~~~~~~e~~~r~yfe~~----g~v~~~~~~~d~~~~----~~rgFgfv~~~~e~sVdkv~~~~  159 (311)
T KOG4205|consen   96 RTKKIFVGGLPPDTTEEDFKDYFEQF----GKVADVVIMYDKTTS----RPRGFGFVTFDSEDSVDKVTLQK  159 (311)
T ss_pred             ceeEEEecCcCCCCchHHHhhhhhcc----ceeEeeEEeeccccc----ccccceeeEeccccccceecccc
Confidence            35689999999999999999999999    999999999998876    89999999999999999988653

>KOG1456|consensus

Probab=97.97  E-value=9.8e-05  Score=71.87  Aligned_cols=182  Identities=12%  Similarity=0.107  Sum_probs=112.4

Q ss_pred             cceeeEeecCCCC-CCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCCccc
Q psy5142         118 IAQSLYVKYIPVD-ATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLKF  196 (410)
Q Consensus       118 ~~rtv~V~~lp~~-~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~~~  196 (410)
                      +..-+.|.+|... +.-+.|-.+|-.|    |+|..|.+.+.         -.|.|.|++.+..++++|+..+++..+ |
T Consensus       286 ~g~VmMVyGLdh~k~N~drlFNl~ClY----GNV~rvkFmkT---------k~gtamVemgd~~aver~v~hLnn~~l-f  351 (494)
T KOG1456|consen  286 PGCVMMVYGLDHGKMNCDRLFNLFCLY----GNVERVKFMKT---------KPGTAMVEMGDAYAVERAVTHLNNIPL-F  351 (494)
T ss_pred             CCcEEEEEeccccccchhhhhhhhhhc----CceeeEEEeec---------ccceeEEEcCcHHHHHHHHHHhccCcc-c
Confidence            3456778888865 7789999999999    99999998763         356799999999999999999996322 3


Q ss_pred             cccccchhhhhhh--hcccccccccCcccccchhhhchHHHHHHHHHHHHhhhhccccCccCCCCCCCCCCcccccCCCC
Q psy5142         197 NENCEHKNAEKFL--NENKDKNLKFNENCEHSLLIKWQQEYHEEKKQEVRSKRDKSKKSTEGDGEGNTEGSKQVVLELPT  274 (410)
Q Consensus       197 ~~~~~~~~~~k~~--~~~~~~~~~~~g~~~~~L~v~~k~~~~~~k~~e~~~~~~k~k~~~e~~~~~~~~~~~~~~~~~~~  274 (410)
                      .... .....+..  .+..+..+ -.|   .   .. -++|...++...            ...+|     +....-.++
T Consensus       352 G~kl-~v~~SkQ~~v~~~~pflL-pDg---S---pS-fKdys~SkNnRF------------ssp~q-----AsKNrIq~P  405 (494)
T KOG1456|consen  352 GGKL-NVCVSKQNFVSPVQPFLL-PDG---S---PS-FKDYSGSKNNRF------------SSPEQ-----ASKNRIQPP  405 (494)
T ss_pred             cceE-EEeeccccccccCCceec-CCC---C---cc-hhhccccccccc------------CChhH-----hhcccccCC
Confidence            2111 10000000  00000000 000   0   00 012211100000            00000     011123466


Q ss_pred             CeEEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCCCc----eEEEEeCChhHHHHHHHHhcCCCeEEcC
Q psy5142         275 GALLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVGEP----TAFVRYKKENNAEAVLKALGSKEIVIKD  344 (410)
Q Consensus       275 g~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g~~----~afV~F~~~e~A~~Al~~l~~~~~~i~g  344 (410)
                      .++|++.|.|..+|++.|-.+|...++   ....|++-+.++    .|.++|++.++|-.||..+  +-+.|++
T Consensus       406 s~vLHffNaP~~vtEe~l~~i~nek~v---~~~svkvFp~kserSssGllEfe~~s~Aveal~~~--NH~pi~~  474 (494)
T KOG1456|consen  406 SNVLHFFNAPLGVTEEQLIGICNEKDV---PPTSVKVFPLKSERSSSGLLEFENKSDAVEALMKL--NHYPIEG  474 (494)
T ss_pred             cceeEEecCCCccCHHHHHHHhhhcCC---CcceEEeecccccccccceeeeehHHHHHHHHHHh--ccccccC
Confidence            789999999999999999999998772   234556655443    4999999999999999999  4566653

>KOG0116|consensus

Probab=97.96  E-value=7.3e-06  Score=82.79  Aligned_cols=68  Identities=22%  Similarity=0.258  Sum_probs=56.6

Q ss_pred             cceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCCccc
Q psy5142         118 IAQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLKF  196 (410)
Q Consensus       118 ~~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~~~  196 (410)
                      ...+|||+|||.++|.++|+++|+.|    |.|....|..-...+    +...|+||+|.+.++++.||....   +.+
T Consensus       287 ~~~~i~V~nlP~da~~~~l~~~Fk~F----G~Ik~~~I~vr~~~~----~~~~fgFV~f~~~~~~~~~i~Asp---~~i  354 (419)
T KOG0116|consen  287 DGLGIFVKNLPPDATPAELEEVFKQF----GPIKEGGIQVRSPGG----KNPCFGFVEFENAAAVQNAIEASP---LEI  354 (419)
T ss_pred             cccceEeecCCCCCCHHHHHHHHhhc----ccccccceEEeccCC----CcCceEEEEEeecchhhhhhhcCc---ccc
Confidence            34569999999999999999999999    999999886544221    233999999999999999999875   555

>KOG0533|consensus

Probab=97.96  E-value=1.9e-05  Score=74.14  Aligned_cols=77  Identities=17%  Similarity=0.332  Sum_probs=65.4

Q ss_pred             eEEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCC-----CceEEEEeCChhHHHHHHHHhcCCCeEEcCeEEEEE
Q psy5142         276 ALLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVG-----EPTAFVRYKKENNAEAVLKALGSKEIVIKDVKVSIE  350 (410)
Q Consensus       276 ~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g-----~~~afV~F~~~e~A~~Al~~l~~~~~~i~g~~v~v~  350 (410)
                      +.|.|.|||..|+.+||+++|.+||    .+..|-+..+     .++|-|.|...++|..|++.+  +++.++|..+++.
T Consensus        84 ~~v~v~NL~~~V~~~Dl~eLF~~~~----~~~r~~vhy~~~G~s~Gta~v~~~r~~DA~~avk~~--~gv~ldG~~mk~~  157 (243)
T KOG0533|consen   84 TKVNVSNLPYGVIDADLKELFAEFG----ELKRVAVHYDRAGRSLGTADVSFNRRDDAERAVKKY--NGVALDGRPMKIE  157 (243)
T ss_pred             ceeeeecCCcCcchHHHHHHHHHhc----cceEEeeccCCCCCCCccceeeecchHhHHHHHHHh--cCcccCCceeeeE
Confidence            7899999999999999999999999    7766655432     256999999999999999999  5699999999999


Q ss_pred             ecCchHHH
Q psy5142         351 VVTGEEEQ  358 (410)
Q Consensus       351 ~l~g~eE~  358 (410)
                      ++......
T Consensus       158 ~i~~~~~~  165 (243)
T KOG0533|consen  158 IISSPSQS  165 (243)
T ss_pred             EecCcccc
Confidence            88755443

>KOG0132|consensus

Probab=97.95  E-value=1.8e-05  Score=83.14  Aligned_cols=83  Identities=22%  Similarity=0.341  Sum_probs=71.9

Q ss_pred             CeEEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCCCceEEEEeCChhHHHHHHHHhcCCCeEEcCeEEEEEec--
Q psy5142         275 GALLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVGEPTAFVRYKKENNAEAVLKALGSKEIVIKDVKVSIEVV--  352 (410)
Q Consensus       275 g~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g~~~afV~F~~~e~A~~Al~~l~~~~~~i~g~~v~v~~l--  352 (410)
                      .++|+|.+|+..+++.||+.+|+.||    +|..|.+......|||.+....+|.+|+.+|  .++.+.++.|++...  
T Consensus       421 SrTLwvG~i~k~v~e~dL~~~feefG----eiqSi~li~~R~cAfI~M~~RqdA~kalqkl--~n~kv~~k~Iki~Wa~g  494 (894)
T KOG0132|consen  421 SRTLWVGGIPKNVTEQDLANLFEEFG----EIQSIILIPPRGCAFIKMVRRQDAEKALQKL--SNVKVADKTIKIAWAVG  494 (894)
T ss_pred             eeeeeeccccchhhHHHHHHHHHhcc----cceeEeeccCCceeEEEEeehhHHHHHHHHH--hcccccceeeEEeeecc
Confidence            46899999999999999999999999    9999999999999999999999999999999  467888887755544  


Q ss_pred             CchHH--HHHHHH
Q psy5142         353 TGEEE--QTVLDR  363 (410)
Q Consensus       353 ~g~eE--~~yw~k  363 (410)
                      .|-.+  +.||.-
T Consensus       495 ~G~kse~k~~wD~  507 (894)
T KOG0132|consen  495 KGPKSEYKDYWDV  507 (894)
T ss_pred             CCcchhhhhhhhc
Confidence            44444  668865

>KOG4209|consensus

Probab=97.95  E-value=7.6e-06  Score=76.77  Aligned_cols=70  Identities=21%  Similarity=0.191  Sum_probs=64.3

Q ss_pred             hhhhccceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCC
Q psy5142         113 FVKDLIAQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKD  191 (410)
Q Consensus       113 ~~~~~~~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g  191 (410)
                      ...+++.+.+||+|+.+.+|.+++...|+.|    |.|..|.|+.+...+    .++||+||+|.+.+.++.|+. +++
T Consensus        95 ~~~~~d~~sv~v~nvd~~~t~~~~e~hf~~C----g~i~~~ti~~d~~~~----~~k~~~yvef~~~~~~~~ay~-l~g  164 (231)
T KOG4209|consen   95 RQKEVDAPSVWVGNVDFLVTLTKIELHFESC----GGINRVTVPKDKFRG----HPKGFAYVEFSSYELVEEAYK-LDG  164 (231)
T ss_pred             hhhccCCceEEEeccccccccchhhheeecc----CCccceeeeccccCC----CcceeEEEecccHhhhHHHhh-cCC
Confidence            4567889999999999999999999999999    999999999998876    789999999999999999999 554

>KOG0111|consensus

Probab=97.94  E-value=6.8e-06  Score=74.53  Aligned_cols=75  Identities=12%  Similarity=0.247  Sum_probs=65.5

Q ss_pred             CCeEEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCC------CceEEEEeCChhHHHHHHHHhcCCCeEEcCeEE
Q psy5142         274 TGALLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVG------EPTAFVRYKKENNAEAVLKALGSKEIVIKDVKV  347 (410)
Q Consensus       274 ~g~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g------~~~afV~F~~~e~A~~Al~~l~~~~~~i~g~~v  347 (410)
                      ...+|||.||.+++++.-|...|-+||    +|..|.++.+      .++|||+|.-.++|.+||..|  ++.++-|+.|
T Consensus         9 ~KrtlYVGGladeVtekvLhaAFIPFG----DI~dIqiPlDyesqkHRgFgFVefe~aEDAaaAiDNM--nesEL~Grti   82 (298)
T KOG0111|consen    9 QKRTLYVGGLADEVTEKVLHAAFIPFG----DIKDIQIPLDYESQKHRGFGFVEFEEAEDAAAAIDNM--NESELFGRTI   82 (298)
T ss_pred             cceeEEeccchHHHHHHHHHhcccccc----chhhcccccchhcccccceeEEEeeccchhHHHhhcC--chhhhcceeE
Confidence            346899999999999999999999999    8888877643      457999999999999999999  6788999999


Q ss_pred             EEEecCc
Q psy5142         348 SIEVVTG  354 (410)
Q Consensus       348 ~v~~l~g  354 (410)
                      +|.++..
T Consensus        83 rVN~AkP   89 (298)
T KOG0111|consen   83 RVNLAKP   89 (298)
T ss_pred             EEeecCC
Confidence            9987643

>KOG0126|consensus

Probab=97.94  E-value=1.8e-06  Score=76.10  Aligned_cols=76  Identities=21%  Similarity=0.274  Sum_probs=67.5

Q ss_pred             CCCCeEEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCCC------ceEEEEeCChhHHHHHHHHhcCCCeEEcCe
Q psy5142         272 LPTGALLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVGE------PTAFVRYKKENNAEAVLKALGSKEIVIKDV  345 (410)
Q Consensus       272 ~~~g~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g~------~~afV~F~~~e~A~~Al~~l~~~~~~i~g~  345 (410)
                      +...+-|||.|||.+.|+.||--+|++||    +|..|.+.++.      ++||+.|++.-+.--|+..|  +|+.|.|+
T Consensus        32 YkdsA~Iyiggl~~~LtEgDil~VFSqyG----e~vdinLiRDk~TGKSKGFaFLcYEDQRSTILAVDN~--NGiki~gR  105 (219)
T KOG0126|consen   32 YKDSAYIYIGGLPYELTEGDILCVFSQYG----EIVDINLIRDKKTGKSKGFAFLCYEDQRSTILAVDNL--NGIKILGR  105 (219)
T ss_pred             cccceEEEECCCcccccCCcEEEEeeccC----ceEEEEEEecCCCCcccceEEEEecCccceEEEEecc--CCceecce
Confidence            44557899999999999999999999999    99999888754      35999999999988999999  78999999


Q ss_pred             EEEEEecC
Q psy5142         346 KVSIEVVT  353 (410)
Q Consensus       346 ~v~v~~l~  353 (410)
                      .|+|..+.
T Consensus       106 tirVDHv~  113 (219)
T KOG0126|consen  106 TIRVDHVS  113 (219)
T ss_pred             eEEeeecc
Confidence            99999874

>KOG1365|consensus

Probab=97.91  E-value=8.8e-05  Score=72.42  Aligned_cols=157  Identities=17%  Similarity=0.267  Sum_probs=99.1

Q ss_pred             eeEeecCCCCCCHHHHHHHHhhccCCCC-ceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCCcccccc
Q psy5142         121 SLYVKYIPVDATLDDIKDFFKKNTSEDV-KITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLKFNEN  199 (410)
Q Consensus       121 tv~V~~lp~~~t~~~L~~~F~~~~~~~G-~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~~~~~~  199 (410)
                      -|..++|||..+..+|..||.-....+| .+...    ...+     +-.|++.|.|.++|.-+-|++...   ...   
T Consensus        62 vvRaRglpwq~Sd~~ia~ff~gl~ia~gg~aKOG----~~qg-----rRnge~lvrf~d~e~RdlalkRhk---hh~---  126 (508)
T KOG1365|consen   62 VVRARGLPWQSSDQDIARFFKGLNIANGGRALCL----NAQG-----RRNGEALVRFVDPEGRDLALKRHK---HHM---  126 (508)
T ss_pred             EEEecCCCCCcccCCHHHHHhhhhccccceeeee----hhhh-----ccccceEEEecCchhhhhhhHhhh---hhc---
Confidence            4557899999999999999986522112 22221    2222     668999999999999999998754   222   


Q ss_pred             ccchhhhhhhhcccccccccCcccccchhhhc--hHHHHHHHHHHHHhhhhccccCccCCCCCCCCCCcccccCCCCCeE
Q psy5142         200 CEHKNAEKFLNENKDKNLKFNENCEHSLLIKW--QQEYHEEKKQEVRSKRDKSKKSTEGDGEGNTEGSKQVVLELPTGAL  277 (410)
Q Consensus       200 ~~~~~~~k~~~~~~~~~~~~~g~~~~~L~v~~--k~~~~~~k~~e~~~~~~k~k~~~e~~~~~~~~~~~~~~~~~~~g~~  277 (410)
                                          .+   +.+.|-.  -.++..                 -.   .....+...-+....-.+
T Consensus       127 --------------------g~---ryievYka~ge~f~~-----------------ia---gg~s~e~~~flsk~~qvi  163 (508)
T KOG1365|consen  127 --------------------GT---RYIEVYKATGEEFLK-----------------IA---GGTSNEAAPFLSKENQVI  163 (508)
T ss_pred             --------------------cC---CceeeeccCchhheE-----------------ec---CCccccCCCCCCcccceE
Confidence                                22   2222210  001100                 00   000001111112222468


Q ss_pred             EEEeCCCCCCCHHHHHHHHHhcC---CCCCCeeEEEeeCCCc--eEEEEeCChhHHHHHHHHh
Q psy5142         278 LKISDIKEPVSREDIREVLEKVQ---TDDQEIVFIEFNVGEP--TAFVRYKKENNAEAVLKAL  335 (410)
Q Consensus       278 l~v~nL~~~~t~edLk~~F~~~G---~~~~~V~~V~~~~g~~--~afV~F~~~e~A~~Al~~l  335 (410)
                      |..+|||++++..|+.++|.+.-   .....|.||..+.|+.  .|||.|..+++|+.|+.+-
T Consensus       164 vRmRGLPfdat~~dVv~FF~~~cpv~~g~egvLFV~rpdgrpTGdAFvlfa~ee~aq~aL~kh  226 (508)
T KOG1365|consen  164 VRMRGLPFDATALDVVEFFGPPCPVTGGTEGVLFVTRPDGRPTGDAFVLFACEEDAQFALRKH  226 (508)
T ss_pred             EEecCCCCCcchHHHHHhcCCCCcccCCccceEEEECCCCCcccceEEEecCHHHHHHHHHHH
Confidence            89999999999999999997421   1124688888876654  4999999999999999886

>KOG0533|consensus

Probab=97.88  E-value=2.9e-05  Score=72.92  Aligned_cols=64  Identities=16%  Similarity=0.325  Sum_probs=60.7

Q ss_pred             ceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCC
Q psy5142         119 AQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKD  191 (410)
Q Consensus       119 ~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g  191 (410)
                      ..+|+|.|||+.++.+||+++|..|    |++..+.|..++.+     .+.|+|-|.|...++|..|++.++|
T Consensus        83 ~~~v~v~NL~~~V~~~Dl~eLF~~~----~~~~r~~vhy~~~G-----~s~Gta~v~~~r~~DA~~avk~~~g  146 (243)
T KOG0533|consen   83 STKVNVSNLPYGVIDADLKELFAEF----GELKRVAVHYDRAG-----RSLGTADVSFNRRDDAERAVKKYNG  146 (243)
T ss_pred             cceeeeecCCcCcchHHHHHHHHHh----ccceEEeeccCCCC-----CCCccceeeecchHhHHHHHHHhcC
Confidence            4689999999999999999999999    99999999988888     8999999999999999999999996

>KOG0415|consensus

Probab=97.85  E-value=4.2e-05  Score=73.90  Aligned_cols=77  Identities=16%  Similarity=0.343  Sum_probs=68.5

Q ss_pred             CCCCCeEEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCCCc------eEEEEeCChhHHHHHHHHhcCCCeEEcC
Q psy5142         271 ELPTGALLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVGEP------TAFVRYKKENNAEAVLKALGSKEIVIKD  344 (410)
Q Consensus       271 ~~~~g~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g~~------~afV~F~~~e~A~~Al~~l~~~~~~i~g  344 (410)
                      ..|+..+|||--|.+-|+++||.-+|+.||    .|..+.+.++..      +|||+|.+.++.++|.=+|  .++.|++
T Consensus       235 ~~PPeNVLFVCKLNPVTtDeDLeiIFSrFG----~i~sceVIRD~ktgdsLqyaFiEFen~escE~AyFKM--dNvLIDD  308 (479)
T KOG0415|consen  235 VKPPENVLFVCKLNPVTTDEDLEIIFSRFG----KIVSCEVIRDRKTGDSLQYAFIEFENKESCEQAYFKM--DNVLIDD  308 (479)
T ss_pred             cCCCcceEEEEecCCcccccchhhHHhhcc----cceeeeEEecccccchhheeeeeecchhhHHHHHhhh--cceeecc
Confidence            356778999999999999999999999999    999998887643      5999999999999999999  6799999


Q ss_pred             eEEEEEecC
Q psy5142         345 VKVSIEVVT  353 (410)
Q Consensus       345 ~~v~v~~l~  353 (410)
                      +.|.|...+
T Consensus       309 rRIHVDFSQ  317 (479)
T KOG0415|consen  309 RRIHVDFSQ  317 (479)
T ss_pred             ceEEeehhh
Confidence            999998654

>KOG0108|consensus

Probab=97.81  E-value=4.6e-05  Score=77.51  Aligned_cols=74  Identities=14%  Similarity=0.247  Sum_probs=65.8

Q ss_pred             eEEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCC------CceEEEEeCChhHHHHHHHHhcCCCeEEcCeEEEE
Q psy5142         276 ALLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVG------EPTAFVRYKKENNAEAVLKALGSKEIVIKDVKVSI  349 (410)
Q Consensus       276 ~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g------~~~afV~F~~~e~A~~Al~~l~~~~~~i~g~~v~v  349 (410)
                      +.+||.|+|+++++++|.++|+..|    .|..+++..+      +++||+.|.+.++|..|++.|  ++.+++|+.|++
T Consensus        19 ~~v~vgnip~~~se~~l~~~~~~~g----~v~s~~~v~D~~tG~~~G~~f~~~~~~~~~~~a~~~l--Ng~~~~gr~l~v   92 (435)
T KOG0108|consen   19 SSVFVGNIPYEGSEEQLLSIFSGVG----PVLSFRLVYDRETGKPKGFGFCEFTDEETAERAIRNL--NGAEFNGRKLRV   92 (435)
T ss_pred             cceEecCCCCcccHHHHHHHHhccC----ccceeeecccccCCCcCceeeEecCchhhHHHHHHhc--CCcccCCceEEe
Confidence            8999999999999999999999999    8877776643      346999999999999999999  789999999999


Q ss_pred             EecCch
Q psy5142         350 EVVTGE  355 (410)
Q Consensus       350 ~~l~g~  355 (410)
                      .....+
T Consensus        93 ~~~~~~   98 (435)
T KOG0108|consen   93 NYASNR   98 (435)
T ss_pred             eccccc
Confidence            987643

>KOG0415|consensus

Probab=97.79  E-value=2.8e-05  Score=75.11  Aligned_cols=67  Identities=19%  Similarity=0.173  Sum_probs=61.4

Q ss_pred             ccceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCC
Q psy5142         117 LIAQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKD  191 (410)
Q Consensus       117 ~~~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g  191 (410)
                      .....|||=-|.+-+|.++|.-+||.|    |.|.++.++++..++    .+--+|||+|++.++.++|.=.+++
T Consensus       237 PPeNVLFVCKLNPVTtDeDLeiIFSrF----G~i~sceVIRD~ktg----dsLqyaFiEFen~escE~AyFKMdN  303 (479)
T KOG0415|consen  237 PPENVLFVCKLNPVTTDEDLEIIFSRF----GKIVSCEVIRDRKTG----DSLQYAFIEFENKESCEQAYFKMDN  303 (479)
T ss_pred             CCcceEEEEecCCcccccchhhHHhhc----ccceeeeEEeccccc----chhheeeeeecchhhHHHHHhhhcc
Confidence            445789999999999999999999999    999999999999887    7888999999999999999977774

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

Probab=97.77  E-value=0.00013  Score=59.00  Aligned_cols=69  Identities=16%  Similarity=0.183  Sum_probs=61.2

Q ss_pred             eeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCCccc
Q psy5142         120 QSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLKF  196 (410)
Q Consensus       120 rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~~~  196 (410)
                      +||-|+|+|...|.++|.+++...  +.|..--+-||-|..++    ...|+|||.|.+++.|.+..+..+|  ..|
T Consensus         2 TTvMirNIPn~~t~~~L~~~l~~~--~~g~yDF~YLPiDf~~~----~N~GYAFVNf~~~~~~~~F~~~f~g--~~w   70 (97)
T PF04059_consen    2 TTVMIRNIPNKYTQEMLIQILDEH--FKGKYDFFYLPIDFKNK----CNLGYAFVNFTSPQAAIRFYKAFNG--KKW   70 (97)
T ss_pred             eeEEEecCCCCCCHHHHHHHHHHh--ccCcceEEEeeeeccCC----CceEEEEEEcCCHHHHHHHHHHHcC--Ccc
Confidence            689999999999999999999875  34888889999887764    7899999999999999999999997  566

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

>KOG4206|consensus

Probab=97.66  E-value=0.00015  Score=66.38  Aligned_cols=75  Identities=20%  Similarity=0.336  Sum_probs=62.9

Q ss_pred             CCCeEEEEeCCCCCCCHHHHHH----HHHhcCCCCCCeeEEEeeCC---CceEEEEeCChhHHHHHHHHhcCCCeEEcCe
Q psy5142         273 PTGALLKISDIKEPVSREDIRE----VLEKVQTDDQEIVFIEFNVG---EPTAFVRYKKENNAEAVLKALGSKEIVIKDV  345 (410)
Q Consensus       273 ~~g~~l~v~nL~~~~t~edLk~----~F~~~G~~~~~V~~V~~~~g---~~~afV~F~~~e~A~~Al~~l~~~~~~i~g~  345 (410)
                      .++-+|||.||++.+..++|+.    +|++||    .|..|...+.   .+-|||.|++.+.|-.|+..|  +|+-+-|+
T Consensus         7 ~pn~TlYInnLnekI~~~elkrsL~~LFsqfG----~ildI~a~kt~KmRGQA~VvFk~~~~As~A~r~l--~gfpFygK   80 (221)
T KOG4206|consen    7 NPNGTLYINNLNEKIKKDELKRSLYLLFSQFG----KILDISAFKTPKMRGQAFVVFKETEAASAALRAL--QGFPFYGK   80 (221)
T ss_pred             CCCceEeehhccccccHHHHHHHHHHHHHhhC----CeEEEEecCCCCccCceEEEecChhHHHHHHHHh--cCCcccCc
Confidence            4444999999999999999998    999999    8876655432   356999999999999999999  78889999


Q ss_pred             EEEEEecC
Q psy5142         346 KVSIEVVT  353 (410)
Q Consensus       346 ~v~v~~l~  353 (410)
                      .+++.-+.
T Consensus        81 ~mriqyA~   88 (221)
T KOG4206|consen   81 PMRIQYAK   88 (221)
T ss_pred             hhheeccc
Confidence            98887654

>KOG4210|consensus

Probab=97.65  E-value=4.4e-05  Score=73.98  Aligned_cols=166  Identities=17%  Similarity=0.225  Sum_probs=111.5

Q ss_pred             cceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCCcccc
Q psy5142         118 IAQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLKFN  197 (410)
Q Consensus       118 ~~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~~~~  197 (410)
                      ...+.|++++-+.+...++..+|..+    |.+....+.......    .++|+++|.|...+.+..|+....   ....
T Consensus        87 ~~~~~f~g~~s~~~e~~~~~~~~~~~----g~~~~~~~S~~~~~~----~sk~~~s~~f~~ks~~~~~l~~s~---~~~~  155 (285)
T KOG4210|consen   87 SSSTFFVGELSENIEESEDDNFSSEA----GLRVDARSSSLEDSL----SSKGGLSVHFAGKSQFFAALEESG---SKVL  155 (285)
T ss_pred             ccccccccccccchhhccccccchhh----cCcccchhhhhcccc----ccccceeeccccHHHHHHHHHhhh---cccc
Confidence            46889999999999988899999999    988877776654443    689999999999999999998865   1110


Q ss_pred             ccccchhhhhhhhcccccccccCcccccchhhhchHHHHHHHHHHHHhhhhccccCccCCCCCCCCCCcccccCCCCCeE
Q psy5142         198 ENCEHKNAEKFLNENKDKNLKFNENCEHSLLIKWQQEYHEEKKQEVRSKRDKSKKSTEGDGEGNTEGSKQVVLELPTGAL  277 (410)
Q Consensus       198 ~~~~~~~~~k~~~~~~~~~~~~~g~~~~~L~v~~k~~~~~~k~~e~~~~~~k~k~~~e~~~~~~~~~~~~~~~~~~~g~~  277 (410)
                      ....                  ..   ..|..... .+.            +.+              .......+...+
T Consensus       156 ~~~~------------------~~---~dl~~~~~-~~~------------~n~--------------~~~~~~~~s~~~  187 (285)
T KOG4210|consen  156 DGNK------------------GE---KDLNTRRG-LRP------------KNK--------------LSRLSSGPSDTI  187 (285)
T ss_pred             cccc------------------cc---Cccccccc-ccc------------cch--------------hcccccCccccc
Confidence            0000                  00   00000000 000            000              000112344556


Q ss_pred             EEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCCCc------eEEEEeCChhHHHHHHHHhcCCCeEEcCeEEEE
Q psy5142         278 LKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVGEP------TAFVRYKKENNAEAVLKALGSKEIVIKDVKVSI  349 (410)
Q Consensus       278 l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g~~------~afV~F~~~e~A~~Al~~l~~~~~~i~g~~v~v  349 (410)
                      +++.+|++.+++++|+.+|..+|    .|..|+++....      .|||.|.....+..++..   +...+.+.++.+
T Consensus       188 ~~~~~~~f~~~~d~~~~~~~~~~----~i~~~r~~~~~~s~~~kg~a~~~~~~~~~~~~~~~~---~~~~~~~~~~~~  258 (285)
T KOG4210|consen  188 FFVGELDFSLTRDDLKEHFVSSG----EITSVRLPTDEESGDSKGFAYVDFSAGNSKKLALND---QTRSIGGRPLRL  258 (285)
T ss_pred             eeecccccccchHHHhhhccCcC----cceeeccCCCCCccchhhhhhhhhhhchhHHHHhhc---ccCcccCccccc
Confidence            66899999999999999999999    999998886543      489999998877777654   234555555444

>KOG0120|consensus

Probab=97.64  E-value=0.00013  Score=74.88  Aligned_cols=181  Identities=14%  Similarity=0.220  Sum_probs=117.0

Q ss_pred             hhccceeeEeecCCCCCCHHHHHHHHhhccC-------CCC-ceEEEEEcccCcccccccccccEEEEEecCHHHHHHHH
Q psy5142         115 KDLIAQSLYVKYIPVDATLDDIKDFFKKNTS-------EDV-KITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFL  186 (410)
Q Consensus       115 ~~~~~rtv~V~~lp~~~t~~~L~~~F~~~~~-------~~G-~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al  186 (410)
                      ...+.+.+||+++|..++++....||..-+.       ..| .|..+.+-          .-+.|||++|.+.++|..|+
T Consensus       171 ~t~q~~r~~v~~~~~~~~e~~~~~f~~~~~~~~gl~~~~~g~~~~s~~~n----------~~~nfa~ie~~s~~~at~~~  240 (500)
T KOG0120|consen  171 ATRQARRLYVGNIPFTSNEESMMSFFNSRMHASGLNQAPDGPSFVSVQLN----------LEKNFAFIEFRSISEATEAM  240 (500)
T ss_pred             hhhhhhhhcccccCCccCcHhhhhhhhhhhhhcccccCCCCCceeeeeec----------ccccceeEEecCCCchhhhh
Confidence            3567899999999999999999999975411       101 24444332          45889999999999999998


Q ss_pred             HhcCCCCccccccccchhhhhhhhcccccccccCcccccchhhhchHHHHHHHHHHHHhhhhccccCccCCCCCCC-CCC
Q psy5142         187 NENKDKNLKFNENCEHKNAEKFLNENKDKNLKFNENCEHSLLIKWQQEYHEEKKQEVRSKRDKSKKSTEGDGEGNT-EGS  265 (410)
Q Consensus       187 ~~~~g~~~~~~~~~~~~~~~k~~~~~~~~~~~~~g~~~~~L~v~~k~~~~~~k~~e~~~~~~k~k~~~e~~~~~~~-~~~  265 (410)
                      ....   ..|                       .|   .++.+.-..+|......--.     -.+       ++. ...
T Consensus       241 ~~~~---~~f-----------------------~g---~~~~~~r~~d~~~~p~~~~~-----~~~-------~~~~~~~  279 (500)
T KOG0120|consen  241 ALDG---IIF-----------------------EG---RPLKIRRPHDYQPVPGITLS-----PSQ-------LGKVGLL  279 (500)
T ss_pred             cccc---hhh-----------------------CC---CCceecccccccCCccchhh-----hcc-------ccccCCc
Confidence            7755   445                       44   44333321111100000000     000       000 000


Q ss_pred             cccccCCCCCeEEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeC------CCceEEEEeCChhHHHHHHHHhcCCC
Q psy5142         266 KQVVLELPTGALLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNV------GEPTAFVRYKKENNAEAVLKALGSKE  339 (410)
Q Consensus       266 ~~~~~~~~~g~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~------g~~~afV~F~~~e~A~~Al~~l~~~~  339 (410)
                      ..........+-+++.|||...++.+++++...||    .+.-..+..      ++++||..|-++.....|+..|  +|
T Consensus       280 ~~~t~~~~~~~ki~v~~lp~~l~~~q~~Ell~~fg----~lk~f~lv~d~~~g~skg~af~ey~dpsvtd~A~agL--nG  353 (500)
T KOG0120|consen  280 PASTDVPDSPNKIFVGGLPLYLTEDQVKELLDSFG----PLKAFRLVKDSATGNSKGFAFCEYCDPSVTDQAIAGL--NG  353 (500)
T ss_pred             ccccCcccccchhhhccCcCccCHHHHHHHHHhcc----cchhheeecccccccccceeeeeeeCCcchhhhhccc--ch
Confidence            00111233456788999999999999999999999    665444433      3456999999999999999999  67


Q ss_pred             eEEcCeEEEEEec
Q psy5142         340 IVIKDVKVSIEVV  352 (410)
Q Consensus       340 ~~i~g~~v~v~~l  352 (410)
                      ..++++.+.+...
T Consensus       354 m~lgd~~lvvq~A  366 (500)
T KOG0120|consen  354 MQLGDKKLVVQRA  366 (500)
T ss_pred             hhhcCceeEeehh
Confidence            8888888777643

>KOG4660|consensus

Probab=97.61  E-value=8e-05  Score=76.01  Aligned_cols=64  Identities=25%  Similarity=0.330  Sum_probs=58.3

Q ss_pred             hhccceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCC
Q psy5142         115 KDLIAQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKD  191 (410)
Q Consensus       115 ~~~~~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g  191 (410)
                      .+...++|+|-|||.+++.++|+.+|+.|    |+|..|++-+         ...|.+||+|-+.-+|+.|++.+++
T Consensus        71 ~~~~~~~L~v~nl~~~Vsn~~L~~~f~~y----Geir~ir~t~---------~~~~~~~v~FyDvR~A~~Alk~l~~  134 (549)
T KOG4660|consen   71 KDMNQGTLVVFNLPRSVSNDTLLRIFGAY----GEIREIRETP---------NKRGIVFVEFYDVRDAERALKALNR  134 (549)
T ss_pred             ccCccceEEEEecCCcCCHHHHHHHHHhh----cchhhhhccc---------ccCceEEEEEeehHhHHHHHHHHHH
Confidence            46788999999999999999999999999    9999987754         4578999999999999999999885

>KOG4661|consensus

Probab=97.52  E-value=0.00014  Score=74.10  Aligned_cols=66  Identities=18%  Similarity=0.242  Sum_probs=59.0

Q ss_pred             ccceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcC
Q psy5142         117 LIAQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENK  190 (410)
Q Consensus       117 ~~~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~  190 (410)
                      ...|.|||.+|...+-..+|+++|++|    |.|+-..+..+..++    .-+.|+||++.+.++|.++|+.++
T Consensus       403 ~~gRNlWVSGLSstTRAtDLKnlFSKy----GKVvGAKVVTNaRsP----GaRCYGfVTMSts~eAtkCI~hLH  468 (940)
T KOG4661|consen  403 TLGRNLWVSGLSSTTRATDLKNLFSKY----GKVVGAKVVTNARSP----GARCYGFVTMSTSAEATKCIEHLH  468 (940)
T ss_pred             ccccceeeeccccchhhhHHHHHHHHh----cceeceeeeecCCCC----CcceeEEEEecchHHHHHHHHHhh
Confidence            346889999999999999999999999    999999988776654    568899999999999999999876

>KOG4208|consensus

Probab=97.47  E-value=0.00051  Score=62.13  Aligned_cols=76  Identities=12%  Similarity=0.225  Sum_probs=64.7

Q ss_pred             CeEEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCC------CceEEEEeCChhHHHHHHHHhcCCCeEEcCeEEE
Q psy5142         275 GALLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVG------EPTAFVRYKKENNAEAVLKALGSKEIVIKDVKVS  348 (410)
Q Consensus       275 g~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g------~~~afV~F~~~e~A~~Al~~l~~~~~~i~g~~v~  348 (410)
                      --++++..+|..+.+..|..+|.+||+   .|..+.+.+.      +++|||+|.+++.|+-|-+.|  +++.+.++.|.
T Consensus        49 ~g~~~~~~~p~g~~e~~~~~~~~q~~g---~v~r~rlsRnkrTGNSKgYAFVEFEs~eVA~IaAETM--NNYLl~e~lL~  123 (214)
T KOG4208|consen   49 EGVVYVDHIPHGFFETEILNYFRQFGG---TVTRFRLSRNKRTGNSKGYAFVEFESEEVAKIAAETM--NNYLLMEHLLE  123 (214)
T ss_pred             ccceeecccccchhHHHHhhhhhhcCC---eeEEEEeecccccCCcCceEEEEeccHHHHHHHHHHh--hhhhhhhheee
Confidence            347788999999999999999999941   6777777653      346999999999999999999  67999999999


Q ss_pred             EEecCch
Q psy5142         349 IEVVTGE  355 (410)
Q Consensus       349 v~~l~g~  355 (410)
                      +.++..+
T Consensus       124 c~vmppe  130 (214)
T KOG4208|consen  124 CHVMPPE  130 (214)
T ss_pred             eEEeCch
Confidence            9988766

>KOG4661|consensus

Probab=97.44  E-value=0.00027  Score=72.15  Aligned_cols=75  Identities=16%  Similarity=0.233  Sum_probs=63.9

Q ss_pred             CCCeEEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCCC------ceEEEEeCChhHHHHHHHHhcCCCeEEcCeE
Q psy5142         273 PTGALLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVGE------PTAFVRYKKENNAEAVLKALGSKEIVIKDVK  346 (410)
Q Consensus       273 ~~g~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g~------~~afV~F~~~e~A~~Al~~l~~~~~~i~g~~  346 (410)
                      ..+..|.|.||+..|--.||+.+|++||    .|.-..++++.      .+|||.+.+.+.|.+||..|  +..++.|+.
T Consensus       403 ~~gRNlWVSGLSstTRAtDLKnlFSKyG----KVvGAKVVTNaRsPGaRCYGfVTMSts~eAtkCI~hL--HrTELHGrm  476 (940)
T KOG4661|consen  403 TLGRNLWVSGLSSTTRATDLKNLFSKYG----KVVGAKVVTNARSPGARCYGFVTMSTSAEATKCIEHL--HRTELHGRM  476 (940)
T ss_pred             ccccceeeeccccchhhhHHHHHHHHhc----ceeceeeeecCCCCCcceeEEEEecchHHHHHHHHHh--hhhhhccee
Confidence            4467899999999999999999999999    77666665432      35999999999999999999  788999999


Q ss_pred             EEEEecC
Q psy5142         347 VSIEVVT  353 (410)
Q Consensus       347 v~v~~l~  353 (410)
                      |.|+...
T Consensus       477 ISVEkaK  483 (940)
T KOG4661|consen  477 ISVEKAK  483 (940)
T ss_pred             eeeeecc
Confidence            9998654

>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=97.43  E-value=0.0003  Score=57.93  Aligned_cols=57  Identities=21%  Similarity=0.209  Sum_probs=38.2

Q ss_pred             eeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcC
Q psy5142         120 QSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENK  190 (410)
Q Consensus       120 rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~  190 (410)
                      ..|++.+++..++.++|++.|++|    |.|..|.+.+.          ...|||.|.+++.|+.|++.+.
T Consensus         2 ~il~~~g~~~~~~re~iK~~f~~~----g~V~yVD~~~G----------~~~g~VRf~~~~~A~~a~~~~~   58 (105)
T PF08777_consen    2 CILKFSGLGEPTSREDIKEAFSQF----GEVAYVDFSRG----------DTEGYVRFKTPEAAQKALEKLK   58 (105)
T ss_dssp             -EEEEEE--SS--HHHHHHHT-SS------EEEEE--TT-----------SEEEEEESS---HHHHHHHHH
T ss_pred             eEEEEecCCCCcCHHHHHHHHHhc----CCcceEEecCC----------CCEEEEEECCcchHHHHHHHHH
Confidence            368899999999999999999999    99999988753          3359999999999999998765

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

>KOG0226|consensus

Probab=97.37  E-value=0.00037  Score=64.85  Aligned_cols=67  Identities=16%  Similarity=0.118  Sum_probs=61.4

Q ss_pred             ccceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCC
Q psy5142         117 LIAQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKD  191 (410)
Q Consensus       117 ~~~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g  191 (410)
                      .++..||++.|.-+++.+-|-..|.+|    -.-....+.|++.++    +++||+||.|.+++++..|+.+++|
T Consensus       188 ~~DfRIfcgdlgNevnd~vl~raf~Kf----psf~~akviRdkRTg----KSkgygfVSf~~pad~~rAmrem~g  254 (290)
T KOG0226|consen  188 EDDFRIFCGDLGNEVNDDVLARAFKKF----PSFQKAKVIRDKRTG----KSKGYGFVSFRDPADYVRAMREMNG  254 (290)
T ss_pred             cccceeecccccccccHHHHHHHHHhc----cchhhcccccccccc----ccccceeeeecCHHHHHHHHHhhcc
Confidence            456789999999999999999999999    777778888998887    8999999999999999999999996

>KOG4307|consensus

Probab=97.35  E-value=0.00052  Score=71.68  Aligned_cols=196  Identities=11%  Similarity=0.030  Sum_probs=114.3

Q ss_pred             cceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCCcccc
Q psy5142         118 IAQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLKFN  197 (410)
Q Consensus       118 ~~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~~~~  197 (410)
                      +.+-+-+++.++.+...++++||...     .|..+.|..+.-.+    .-.|.++|+|....++++|+...+   ..+.
T Consensus       310 d~~y~~~~gm~fn~~~nd~rkfF~g~-----~~~~~~l~~~~v~~----~~tG~~~v~f~~~~~~q~A~~rn~---~~~~  377 (944)
T KOG4307|consen  310 DKYYNNYKGMEFNNDFNDGRKFFPGR-----NAQSTDLSENRVAP----PQTGRKTVMFTPQAPFQNAFTRNP---SDDV  377 (944)
T ss_pred             hhheeeecccccccccchhhhhcCcc-----cccccchhhhhcCC----CcCCceEEEecCcchHHHHHhcCc---hhhh
Confidence            34556678999999999999999875     56666666555442    337899999999999999998866   3331


Q ss_pred             ccccchhhhhhhhcccccccccCcccccchhhhchHHHHHHHHHHHHhhhhccccCccCCCCCCC-CCCcccccCCCCCe
Q psy5142         198 ENCEHKNAEKFLNENKDKNLKFNENCEHSLLIKWQQEYHEEKKQEVRSKRDKSKKSTEGDGEGNT-EGSKQVVLELPTGA  276 (410)
Q Consensus       198 ~~~~~~~~~k~~~~~~~~~~~~~g~~~~~L~v~~k~~~~~~k~~e~~~~~~k~k~~~e~~~~~~~-~~~~~~~~~~~~g~  276 (410)
                      .+...        -.|.....+.+...+.-.+-.. .         .   ...-..... ...+. ...........-+.
T Consensus       378 ~R~~q--------~~P~g~~~~~~a~~~~~~~~~~-~---------~---~~~hg~p~~-~pr~~~~~gq~vp~P~~ag~  435 (944)
T KOG4307|consen  378 NRPFQ--------TGPPGNLGRNGAPPFQAGVPPP-V---------I---QNNHGRPIA-PPRAMVRPGQNVPFPGGAGG  435 (944)
T ss_pred             hccee--------ecCCCccccccCccccccCCCC-c---------c---cccCCCCCC-CcccccCCCCCCCCCCCccc
Confidence            11111        0111111111100000000000 0         0   000000000 00000 00011122344567


Q ss_pred             EEEEeCCCCCCCHHHHHHHHHhcCCCCCCe-eEEEeeCCC-----ceEEEEeCChhHHHHHHHHhcCCCeEEcCeEEEEE
Q psy5142         277 LLKISDIKEPVSREDIREVLEKVQTDDQEI-VFIEFNVGE-----PTAFVRYKKENNAEAVLKALGSKEIVIKDVKVSIE  350 (410)
Q Consensus       277 ~l~v~nL~~~~t~edLk~~F~~~G~~~~~V-~~V~~~~g~-----~~afV~F~~~e~A~~Al~~l~~~~~~i~g~~v~v~  350 (410)
                      .|||.+||..++..++-..|+..-    .| .+|.+.++.     ..|||.|..++++..|...-  ..+-++.+.|.|.
T Consensus       436 ~lyv~~lP~~t~~~~~v~~f~~~~----~Ved~I~lt~~P~~~~~~~afv~F~~~~a~~~a~~~~--~k~y~G~r~irv~  509 (944)
T KOG4307|consen  436 ALYVFQLPVMTPIVPPVNKFMGAA----AVEDFIELTRLPTDLLRPAAFVAFIHPTAPLTASSVK--TKFYPGHRIIRVD  509 (944)
T ss_pred             eEEeccCCccccccchhhhhhhhh----hhhheeEeccCCcccccchhhheeccccccchhhhcc--cccccCceEEEee
Confidence            899999999999999999999865    33 346655432     35999999988888887665  5677777888888


Q ss_pred             ecC
Q psy5142         351 VVT  353 (410)
Q Consensus       351 ~l~  353 (410)
                      -.+
T Consensus       510 si~  512 (944)
T KOG4307|consen  510 SIA  512 (944)
T ss_pred             chh
Confidence            665

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

Probab=97.34  E-value=0.0005  Score=49.28  Aligned_cols=52  Identities=19%  Similarity=0.369  Sum_probs=43.7

Q ss_pred             eeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHH
Q psy5142         120 QSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFL  186 (410)
Q Consensus       120 rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al  186 (410)
                      +.|-|.|+|.+.. +.+..+|.+|    |+|..+.++          ....+.||.|.+..+|++||
T Consensus         2 ~wI~V~Gf~~~~~-~~vl~~F~~f----GeI~~~~~~----------~~~~~~~l~y~~~~~ae~Al   53 (53)
T PF14605_consen    2 TWISVSGFPPDLA-EEVLEHFASF----GEIVDIYVP----------ESTNWMYLKYKSRKDAEKAL   53 (53)
T ss_pred             cEEEEEeECchHH-HHHHHHHHhc----CCEEEEEcC----------CCCcEEEEEECCHHHHHhhC
Confidence            6789999997765 5667799999    999999886          23567999999999999985

>KOG1457|consensus

Probab=97.28  E-value=0.0013  Score=60.08  Aligned_cols=74  Identities=19%  Similarity=0.335  Sum_probs=59.7

Q ss_pred             eEEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCCC-----ceEEEEeCChhHHHHHHHHhcCCCeEEc---CeEE
Q psy5142         276 ALLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVGE-----PTAFVRYKKENNAEAVLKALGSKEIVIK---DVKV  347 (410)
Q Consensus       276 ~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g~-----~~afV~F~~~e~A~~Al~~l~~~~~~i~---g~~v  347 (410)
                      .+|||.|||.++..-+|..+|..|-  +.+-..+++..+.     ..|||.|.+...|.+|+.+|  +|+.++   +..+
T Consensus        35 RTLFVSGLP~DvKpREiynLFR~f~--GYEgslLK~Tsk~~~~~~pvaFatF~s~q~A~aamnaL--NGvrFDpE~~stL  110 (284)
T KOG1457|consen   35 RTLFVSGLPNDVKPREIYNLFRRFH--GYEGSLLKYTSKGDQVCKPVAFATFTSHQFALAAMNAL--NGVRFDPETGSTL  110 (284)
T ss_pred             ceeeeccCCcccCHHHHHHHhccCC--CccceeeeeccCCCccccceEEEEecchHHHHHHHHHh--cCeeeccccCcee
Confidence            5899999999999999999999986  2234445555433     46999999999999999999  678887   6788


Q ss_pred             EEEecC
Q psy5142         348 SIEVVT  353 (410)
Q Consensus       348 ~v~~l~  353 (410)
                      .++++.
T Consensus       111 hiElAK  116 (284)
T KOG1457|consen  111 HIELAK  116 (284)
T ss_pred             Eeeehh
Confidence            888753

>KOG2193|consensus

Probab=97.11  E-value=0.00028  Score=69.72  Aligned_cols=148  Identities=15%  Similarity=0.226  Sum_probs=101.2

Q ss_pred             eeeEeecCCCCCCHHHHHHHHhhc-cCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCCccccc
Q psy5142         120 QSLYVKYIPVDATLDDIKDFFKKN-TSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLKFNE  198 (410)
Q Consensus       120 rtv~V~~lp~~~t~~~L~~~F~~~-~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~~~~~  198 (410)
                      ..+|++||....|..+|+.+|... +...|.+    |           .-.|++||...+...|.+|++.++|+ ..+  
T Consensus         2 nklyignL~p~~~psdl~svfg~ak~~~~g~f----l-----------~k~gyafvd~pdq~wa~kaie~~sgk-~el--   63 (584)
T KOG2193|consen    2 NKLYIGNLSPQVTPSDLESVFGDAKIPGSGQF----L-----------VKSGYAFVDCPDQQWANKAIETLSGK-VEL--   63 (584)
T ss_pred             CcccccccCCCCChHHHHHHhccccCCCCcce----e-----------eecceeeccCCchhhhhhhHHhhchh-hhh--
Confidence            358999999999999999999754 1111221    1           23799999999999999999999863 333  


Q ss_pred             cccchhhhhhhhcccccccccCcccccchhhhchHHHHHHHHHHHHhhhhccccCccCCCCCCCCCCcccccCCCCCeEE
Q psy5142         199 NCEHKNAEKFLNENKDKNLKFNENCEHSLLIKWQQEYHEEKKQEVRSKRDKSKKSTEGDGEGNTEGSKQVVLELPTGALL  278 (410)
Q Consensus       199 ~~~~~~~~k~~~~~~~~~~~~~g~~~~~L~v~~k~~~~~~k~~e~~~~~~k~k~~~e~~~~~~~~~~~~~~~~~~~g~~l  278 (410)
                                           .|   ..+.+...-.    + ..+                               ..-+
T Consensus        64 ---------------------qG---kr~e~~~sv~----k-kqr-------------------------------srk~   83 (584)
T KOG2193|consen   64 ---------------------QG---KRQEVEHSVP----K-KQR-------------------------------SRKI   83 (584)
T ss_pred             ---------------------cC---ceeeccchhh----H-HHH-------------------------------hhhh
Confidence                                 44   4333321100    0 000                               0014


Q ss_pred             EEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEee-CCCceE--EEEeCChhHHHHHHHHhcCCCeEEcCeEEEEEe
Q psy5142         279 KISDIKEPVSREDIREVLEKVQTDDQEIVFIEFN-VGEPTA--FVRYKKENNAEAVLKALGSKEIVIKDVKVSIEV  351 (410)
Q Consensus       279 ~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~-~g~~~a--fV~F~~~e~A~~Al~~l~~~~~~i~g~~v~v~~  351 (410)
                      .|.|+|+..-|+-|..++.+||    .|..+... ....++  -|.|.+.+.++-||..+  ++..+.+..+++..
T Consensus        84 Qirnippql~wevld~Ll~qyg----~ve~~eqvnt~~etavvnvty~~~~~~~~ai~kl--~g~Q~en~~~k~~Y  153 (584)
T KOG2193|consen   84 QIRNIPPQLQWEVLDSLLAQYG----TVENCEQVNTDSETAVVNVTYSAQQQHRQAIHKL--NGPQLENQHLKVGY  153 (584)
T ss_pred             hHhcCCHHHHHHHHHHHHhccC----CHhHhhhhccchHHHHHHHHHHHHHHHHHHHHhh--cchHhhhhhhhccc
Confidence            4889999999999999999999    66655433 233344  46889999999999999  55666555555543

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

Probab=97.05  E-value=0.0016  Score=46.72  Aligned_cols=51  Identities=24%  Similarity=0.353  Sum_probs=42.9

Q ss_pred             EEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCCCceEEEEeCChhHHHHHH
Q psy5142         277 LLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVGEPTAFVRYKKENNAEAVL  332 (410)
Q Consensus       277 ~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g~~~afV~F~~~e~A~~Al  332 (410)
                      -|.|.|.+++.. +.+..+|..||    +|..+.+.......||+|.+..+|++||
T Consensus         3 wI~V~Gf~~~~~-~~vl~~F~~fG----eI~~~~~~~~~~~~~l~y~~~~~ae~Al   53 (53)
T PF14605_consen    3 WISVSGFPPDLA-EEVLEHFASFG----EIVDIYVPESTNWMYLKYKSRKDAEKAL   53 (53)
T ss_pred             EEEEEeECchHH-HHHHHHHHhcC----CEEEEEcCCCCcEEEEEECCHHHHHhhC
Confidence            467888887665 45566999999    9999999877789999999999999985

>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=97.01  E-value=0.0039  Score=48.61  Aligned_cols=68  Identities=18%  Similarity=0.289  Sum_probs=44.0

Q ss_pred             eEEEEeCCCCCCCHHHHH----HHHHhcCCCCCCeeEEEeeCCCceEEEEeCChhHHHHHHHHhcCCCeEEcCeEEEEEe
Q psy5142         276 ALLKISDIKEPVSREDIR----EVLEKVQTDDQEIVFIEFNVGEPTAFVRYKKENNAEAVLKALGSKEIVIKDVKVSIEV  351 (410)
Q Consensus       276 ~~l~v~nL~~~~t~edLk----~~F~~~G~~~~~V~~V~~~~g~~~afV~F~~~e~A~~Al~~l~~~~~~i~g~~v~v~~  351 (410)
                      ..|+|.|||.+.+...|+    .++..+|.   .|..|  .  .++|+|+|.+++.|..|.+.|  .+-.+=|..|.|+.
T Consensus         3 s~L~V~NLP~~~d~~~I~~RL~qLsdNCGG---kVl~v--~--~~tAilrF~~~~~A~RA~KRm--egEdVfG~kI~v~~   73 (90)
T PF11608_consen    3 SLLYVSNLPTNKDPSSIKNRLRQLSDNCGG---KVLSV--S--GGTAILRFPNQEFAERAQKRM--EGEDVFGNKISVSF   73 (90)
T ss_dssp             EEEEEES--TTS-HHHHHHHHHHHHHTTT-----EEE------TT-EEEEESSHHHHHHHHHHH--TT--SSSS--EEES
T ss_pred             cEEEEecCCCCCCHHHHHHHHHHHhhccCC---EEEEE--e--CCEEEEEeCCHHHHHHHHHhh--cccccccceEEEEE
Confidence            479999999988766555    45556762   45443  2  478999999999999999999  45556688888886


Q ss_pred             c
Q psy5142         352 V  352 (410)
Q Consensus       352 l  352 (410)
                      .
T Consensus        74 ~   74 (90)
T PF11608_consen   74 S   74 (90)
T ss_dssp             S
T ss_pred             c
Confidence            6

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

>KOG0106|consensus

Probab=96.88  E-value=0.0011  Score=61.23  Aligned_cols=67  Identities=12%  Similarity=0.201  Sum_probs=57.4

Q ss_pred             EEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCCCceEEEEeCChhHHHHHHHHhcCCCeEEcCeEEEEEe
Q psy5142         277 LLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVGEPTAFVRYKKENNAEAVLKALGSKEIVIKDVKVSIEV  351 (410)
Q Consensus       277 ~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g~~~afV~F~~~e~A~~Al~~l~~~~~~i~g~~v~v~~  351 (410)
                      -+||.+||+.+.+.||..+|..||    .+..|++..  ++|||.|.+.-+|..|+..+  ++.++.|..+.++.
T Consensus         3 rv~vg~~~~~~~~~d~E~~f~~yg----~~~d~~mk~--gf~fv~fed~rda~Dav~~l--~~~~l~~e~~vve~   69 (216)
T KOG0106|consen    3 RVYIGRLPYRARERDVERFFKGYG----KIPDADMKN--GFGFVEFEDPRDADDAVHDL--DGKELCGERLVVEH   69 (216)
T ss_pred             ceeecccCCccchhHHHHHHhhcc----ccccceeec--ccceeccCchhhhhcccchh--cCceecceeeeeec
Confidence            478999999999999999999999    898888876  56799999999999999999  56777776644443

>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=96.83  E-value=0.0036  Score=48.81  Aligned_cols=58  Identities=22%  Similarity=0.356  Sum_probs=39.1

Q ss_pred             eeeEeecCCCCCCHHHHHHHHhhcc-CCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCC
Q psy5142         120 QSLYVKYIPVDATLDDIKDFFKKNT-SEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKD  191 (410)
Q Consensus       120 rtv~V~~lp~~~t~~~L~~~F~~~~-~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g  191 (410)
                      ..|||.|||.+.+...|+.-+++.. +|.|.|.+|.              .+.|+|.|.+++.|.+|.+.++|
T Consensus         3 s~L~V~NLP~~~d~~~I~~RL~qLsdNCGGkVl~v~--------------~~tAilrF~~~~~A~RA~KRmeg   61 (90)
T PF11608_consen    3 SLLYVSNLPTNKDPSSIKNRLRQLSDNCGGKVLSVS--------------GGTAILRFPNQEFAERAQKRMEG   61 (90)
T ss_dssp             EEEEEES--TTS-HHHHHHHHHHHHHTTT--EEE----------------TT-EEEEESSHHHHHHHHHHHTT
T ss_pred             cEEEEecCCCCCCHHHHHHHHHHHhhccCCEEEEEe--------------CCEEEEEeCCHHHHHHHHHhhcc
Confidence            5799999999988877664444321 1357888772              46799999999999999999986

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

>KOG4660|consensus

Probab=96.73  E-value=0.0011  Score=67.84  Aligned_cols=63  Identities=24%  Similarity=0.272  Sum_probs=53.8

Q ss_pred             EEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCCC-ceEEEEeCChhHHHHHHHHhcCCCeEEcCe
Q psy5142         277 LLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVGE-PTAFVRYKKENNAEAVLKALGSKEIVIKDV  345 (410)
Q Consensus       277 ~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g~-~~afV~F~~~e~A~~Al~~l~~~~~~i~g~  345 (410)
                      .|.|.|||.+++.++|..+|+.||    +|+.|...+.. +..||+|-+.-+|+.|+++|  +...|.|+
T Consensus        77 ~L~v~nl~~~Vsn~~L~~~f~~yG----eir~ir~t~~~~~~~~v~FyDvR~A~~Alk~l--~~~~~~~~  140 (549)
T KOG4660|consen   77 TLVVFNLPRSVSNDTLLRIFGAYG----EIREIRETPNKRGIVFVEFYDVRDAERALKAL--NRREIAGK  140 (549)
T ss_pred             eEEEEecCCcCCHHHHHHHHHhhc----chhhhhcccccCceEEEEEeehHhHHHHHHHH--HHHHhhhh
Confidence            678999999999999999999999    99998877654 45999999999999999999  44444443

>KOG0151|consensus

Probab=96.65  E-value=0.0024  Score=67.12  Aligned_cols=71  Identities=18%  Similarity=0.232  Sum_probs=59.2

Q ss_pred             hccceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCC
Q psy5142         116 DLIAQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKD  191 (410)
Q Consensus       116 ~~~~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g  191 (410)
                      +.....|||+||++.++++.|...|..|    |+|.+|.+.-...-- .....+.|+||-|-+..+|++|++.++|
T Consensus       171 DP~TTNlyv~Nlnpsv~E~~ll~tfGrf----gPlasvKimwpRtEe-Ek~r~r~cgfvafmnR~D~era~k~lqg  241 (877)
T KOG0151|consen  171 DPQTTNLYVGNLNPSVDENFLLRTFGRF----GPLASVKIMWPRTEE-EKRRERNCGFVAFMNRADAERALKELQG  241 (877)
T ss_pred             CCcccceeeecCCccccHHHHHHHhccc----Ccccceeeecccchh-hhccccccceeeehhhhhHHHHHHHhcc
Confidence            4556789999999999999999999999    999999886443210 0115688999999999999999999997

>KOG4454|consensus

Probab=96.61  E-value=0.0014  Score=59.84  Aligned_cols=90  Identities=14%  Similarity=0.194  Sum_probs=74.0

Q ss_pred             CCeEEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCCCc----eEEEEeCChhHHHHHHHHhcCCCeEEcCeEEEE
Q psy5142         274 TGALLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVGEP----TAFVRYKKENNAEAVLKALGSKEIVIKDVKVSI  349 (410)
Q Consensus       274 ~g~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g~~----~afV~F~~~e~A~~Al~~l~~~~~~i~g~~v~v  349 (410)
                      ...+|+|.|+...++++-|.++|-+-|    .|..|.++.+..    +|||.|.++.+..-|++.+  +++.+-+.++.+
T Consensus         8 ~drtl~v~n~~~~v~eelL~ElfiqaG----PV~kv~ip~~~d~~~kFa~v~f~~E~sv~~a~~L~--ng~~l~~~e~q~   81 (267)
T KOG4454|consen    8 MDRTLLVQNMYSGVSEELLSELFIQAG----PVYKVGIPSGQDQEQKFAYVFFPNENSVQLAGQLE--NGDDLEEDEEQR   81 (267)
T ss_pred             hhhHHHHHhhhhhhhHHHHHHHhhccC----ceEEEeCCCCccCCCceeeeecccccchhhhhhhc--ccchhccchhhc
Confidence            345899999999999999999999999    999998887643    5999999999999999999  678888888888


Q ss_pred             EecCchHHHHHHHHhHHHHH
Q psy5142         350 EVVTGEEEQTVLDRMKIDIF  369 (410)
Q Consensus       350 ~~l~g~eE~~yw~k~~~~~~  369 (410)
                      .+-.|..-..-.+.+..++.
T Consensus        82 ~~r~G~shapld~r~~~ei~  101 (267)
T KOG4454|consen   82 TLRCGNSHAPLDERVTEEIL  101 (267)
T ss_pred             ccccCCCcchhhhhcchhhh
Confidence            88887755544444444443

>KOG0151|consensus

Probab=96.54  E-value=0.0048  Score=64.88  Aligned_cols=69  Identities=14%  Similarity=0.297  Sum_probs=58.4

Q ss_pred             CeEEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeC---------CCceEEEEeCChhHHHHHHHHhcCCCeEEcCe
Q psy5142         275 GALLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNV---------GEPTAFVRYKKENNAEAVLKALGSKEIVIKDV  345 (410)
Q Consensus       275 g~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~---------g~~~afV~F~~~e~A~~Al~~l~~~~~~i~g~  345 (410)
                      -+.|++.||++.++++.|-..|+.||    .|..|.+.=         +..+|||-|-+..+|++|++.|  +++.+.+.
T Consensus       174 TTNlyv~Nlnpsv~E~~ll~tfGrfg----PlasvKimwpRtEeEk~r~r~cgfvafmnR~D~era~k~l--qg~iv~~~  247 (877)
T KOG0151|consen  174 TTNLYVGNLNPSVDENFLLRTFGRFG----PLASVKIMWPRTEEEKRRERNCGFVAFMNRADAERALKEL--QGIIVMEY  247 (877)
T ss_pred             ccceeeecCCccccHHHHHHHhcccC----cccceeeecccchhhhccccccceeeehhhhhHHHHHHHh--cceeeeee
Confidence            47899999999999999999999999    888877652         3446999999999999999999  66777666


Q ss_pred             EEEE
Q psy5142         346 KVSI  349 (410)
Q Consensus       346 ~v~v  349 (410)
                      .+++
T Consensus       248 e~K~  251 (877)
T KOG0151|consen  248 EMKL  251 (877)
T ss_pred             eeee
Confidence            5554

>KOG1548|consensus

Probab=96.52  E-value=0.0095  Score=57.90  Aligned_cols=79  Identities=16%  Similarity=0.204  Sum_probs=60.6

Q ss_pred             CCCCeEEEEeCCCCCCCHHHHHHHHHhcCCC----CCCeeEEEeeCC-----CceEEEEeCChhHHHHHHHHhcCCCeEE
Q psy5142         272 LPTGALLKISDIKEPVSREDIREVLEKVQTD----DQEIVFIEFNVG-----EPTAFVRYKKENNAEAVLKALGSKEIVI  342 (410)
Q Consensus       272 ~~~g~~l~v~nL~~~~t~edLk~~F~~~G~~----~~~V~~V~~~~g-----~~~afV~F~~~e~A~~Al~~l~~~~~~i  342 (410)
                      ...++.|||.|||.++|.+.+.++|++||+-    ...--.|.+-+.     ++.|.+.|-..++..-|+..|  ++..+
T Consensus       131 ~~~Nt~VYVsgLP~DiT~dE~~~~~sKcGiI~~d~~t~epk~KlYrd~~G~lKGDaLc~y~K~ESVeLA~~il--De~~~  208 (382)
T KOG1548|consen  131 PKVNTSVYVSGLPLDITVDEFAEVMSKCGIIMRDPQTGEPKVKLYRDNQGKLKGDALCCYIKRESVELAIKIL--DEDEL  208 (382)
T ss_pred             cccCceEEecCCCCcccHHHHHHHHHhcceEeccCCCCCeeEEEEecCCCCccCceEEEeecccHHHHHHHHh--Ccccc
Confidence            3456789999999999999999999999911    011112333332     234899999999999999999  56788


Q ss_pred             cCeEEEEEec
Q psy5142         343 KDVKVSIEVV  352 (410)
Q Consensus       343 ~g~~v~v~~l  352 (410)
                      +|+.|+|+.+
T Consensus       209 rg~~~rVerA  218 (382)
T KOG1548|consen  209 RGKKLRVERA  218 (382)
T ss_pred             cCcEEEEehh
Confidence            8999999876

>KOG4210|consensus

Probab=96.28  E-value=0.002  Score=62.54  Aligned_cols=62  Identities=23%  Similarity=0.378  Sum_probs=57.1

Q ss_pred             ceeeE-eecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHh
Q psy5142         119 AQSLY-VKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNE  188 (410)
Q Consensus       119 ~rtv~-V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~  188 (410)
                      ..++| |.+|+..+|.++|..+|..+    |.|..|+++.+..++    ..+||+||.|.+...+..++..
T Consensus       184 s~~~~~~~~~~f~~~~d~~~~~~~~~----~~i~~~r~~~~~~s~----~~kg~a~~~~~~~~~~~~~~~~  246 (285)
T KOG4210|consen  184 SDTIFFVGELDFSLTRDDLKEHFVSS----GEITSVRLPTDEESG----DSKGFAYVDFSAGNSKKLALND  246 (285)
T ss_pred             cccceeecccccccchHHHhhhccCc----CcceeeccCCCCCcc----chhhhhhhhhhhchhHHHHhhc
Confidence            45666 99999999999999999999    999999999998886    8999999999999999999985

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

Probab=96.26  E-value=0.019  Score=42.42  Aligned_cols=54  Identities=24%  Similarity=0.382  Sum_probs=43.1

Q ss_pred             EEEEeCCCCCCCHHHHHHHHHhcC--CCCCCeeEEEeeCCCceEEEEeCChhHHHHHHHHh
Q psy5142         277 LLKISDIKEPVSREDIREVLEKVQ--TDDQEIVFIEFNVGEPTAFVRYKKENNAEAVLKAL  335 (410)
Q Consensus       277 ~l~v~nL~~~~t~edLk~~F~~~G--~~~~~V~~V~~~~g~~~afV~F~~~e~A~~Al~~l  335 (410)
                      .|+|.|+. +.+-+||+.+|..|.  ..+..|.||+    +.+|-|.|.+.+.|.+||.+|
T Consensus         7 avhirGvd-~lsT~dI~~y~~~y~~~~~~~~IEWId----DtScNvvf~d~~~A~~AL~~L   62 (62)
T PF10309_consen    7 AVHIRGVD-ELSTDDIKAYFSEYFDEEGPFRIEWID----DTSCNVVFKDEETAARALVAL   62 (62)
T ss_pred             eEEEEcCC-CCCHHHHHHHHHHhcccCCCceEEEec----CCcEEEEECCHHHHHHHHHcC
Confidence            58899985 578899999999992  1134677764    477999999999999999865

>KOG1995|consensus

Probab=96.22  E-value=0.0057  Score=59.75  Aligned_cols=76  Identities=11%  Similarity=0.145  Sum_probs=60.0

Q ss_pred             CCCCeEEEEeCCCCCCCHHHHHHHHHhcCCCCCCe------------eEEEeeC--CCceEEEEeCChhHHHHHHHHhcC
Q psy5142         272 LPTGALLKISDIKEPVSREDIREVLEKVQTDDQEI------------VFIEFNV--GEPTAFVRYKKENNAEAVLKALGS  337 (410)
Q Consensus       272 ~~~g~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V------------~~V~~~~--g~~~afV~F~~~e~A~~Al~~l~~  337 (410)
                      ......+||.+||..++..+|-++|.+++    .|            .|.+..+  .+..|-|.|.++..|+.|+.-+  
T Consensus        63 ~s~~~ti~v~g~~d~~~~~~~~~~f~qcg----~ikrnK~t~kPki~~y~dkeT~~~KGeatvS~~D~~~akaai~~~--  136 (351)
T KOG1995|consen   63 KSDNETIFVWGCPDSVCENDNADFFLQCG----VIKRNKRTGKPKIKIYTDKETGAPKGEATVSYEDPPAAKAAIEWF--  136 (351)
T ss_pred             ccccccceeeccCccchHHHHHHHHhhcc----eeccCCCCCCcchhccccccccCcCCceeeeecChhhhhhhhhhh--
Confidence            44566899999999999999999999999    33            1122222  2345999999999999999999  


Q ss_pred             CCeEEcCeEEEEEecC
Q psy5142         338 KEIVIKDVKVSIEVVT  353 (410)
Q Consensus       338 ~~~~i~g~~v~v~~l~  353 (410)
                      .+..+.+..|+|.+++
T Consensus       137 agkdf~gn~ikvs~a~  152 (351)
T KOG1995|consen  137 AGKDFCGNTIKVSLAE  152 (351)
T ss_pred             ccccccCCCchhhhhh
Confidence            5667788888888775

>KOG4307|consensus

Probab=96.06  E-value=0.0097  Score=62.54  Aligned_cols=66  Identities=26%  Similarity=0.359  Sum_probs=55.7

Q ss_pred             ccceeeEeecCCCCCCHHHHHHHHhhccCCCCce-EEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCC
Q psy5142         117 LIAQSLYVKYIPVDATLDDIKDFFKKNTSEDVKI-TNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKD  191 (410)
Q Consensus       117 ~~~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I-~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g  191 (410)
                      .-.|.|-+.|+|++++.+||.+||..|    -.+ .+|++++..++     ...|-|-|-|++.++|..|+..+++
T Consensus       865 pGp~V~~~~n~Pf~v~l~dI~~FF~dY----~~~p~sI~~r~nd~G-----~pTGe~mvAfes~~eAr~A~~dl~~  931 (944)
T KOG4307|consen  865 PGPRVLSCNNFPFDVTLEDIVEFFNDY----EPDPNSIRIRRNDDG-----VPTGECMVAFESQEEARRASMDLDG  931 (944)
T ss_pred             CCCeEEEecCCCccccHHHHHHHhccc----ccCCCceeEeecCCC-----CcccceeEeecCHHHHHhhhhcccc
Confidence            334578899999999999999999999    332 46677766665     8999999999999999999998886

>COG5175 MOT2 Transcriptional repressor [Transcription]

Probab=96.02  E-value=0.025  Score=54.80  Aligned_cols=72  Identities=14%  Similarity=0.224  Sum_probs=56.9

Q ss_pred             CeEEEEeCCCCCCCHHH----H--HHHHHhcCCCCCCeeEEEeeCCCc---------eEEEEeCChhHHHHHHHHhcCCC
Q psy5142         275 GALLKISDIKEPVSRED----I--REVLEKVQTDDQEIVFIEFNVGEP---------TAFVRYKKENNAEAVLKALGSKE  339 (410)
Q Consensus       275 g~~l~v~nL~~~~t~ed----L--k~~F~~~G~~~~~V~~V~~~~g~~---------~afV~F~~~e~A~~Al~~l~~~~  339 (410)
                      ..++||.|||+.+..|.    |  .++|++||    .|..|-+.+-..         .-||.|.+.++|..||..+  ++
T Consensus       114 KNLvYVigi~pkva~Ee~~~vLk~~eyFGQyG----kI~KIvvNkkt~s~nst~~h~gvYITy~~kedAarcIa~v--Dg  187 (480)
T COG5175         114 KNLVYVIGIPPKVADEEVAPVLKRHEYFGQYG----KIKKIVVNKKTSSLNSTASHAGVYITYSTKEDAARCIAEV--DG  187 (480)
T ss_pred             cceeEEecCCCCCCcccccccccchhhhhhcc----ceeEEEecccccccccccccceEEEEecchHHHHHHHHHh--cc
Confidence            45789999998886554    3  46899999    998887765321         1399999999999999999  67


Q ss_pred             eEEcCeEEEEEec
Q psy5142         340 IVIKDVKVSIEVV  352 (410)
Q Consensus       340 ~~i~g~~v~v~~l  352 (410)
                      ..++|+.|+..--
T Consensus       188 s~~DGr~lkatYG  200 (480)
T COG5175         188 SLLDGRVLKATYG  200 (480)
T ss_pred             ccccCceEeeecC
Confidence            8889998887654

>KOG2314|consensus

Probab=95.99  E-value=0.014  Score=60.14  Aligned_cols=66  Identities=26%  Similarity=0.354  Sum_probs=55.4

Q ss_pred             cceeeEeecCCCC--CCHHH----HHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCC
Q psy5142         118 IAQSLYVKYIPVD--ATLDD----IKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKD  191 (410)
Q Consensus       118 ~~rtv~V~~lp~~--~t~~~----L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g  191 (410)
                      .+..|+|.|.|.-  .-.+-    |..+|+++    |+|.++.+|-+..+     ..+|++|++|.++.+|+.|++.++|
T Consensus        57 ~D~vVvv~g~PvV~~~rl~klk~vl~kvfsk~----gk~vn~~~P~~e~g-----gtkG~lf~E~~~~~~A~~aVK~l~G  127 (698)
T KOG2314|consen   57 FDSVVVVDGAPVVGPARLEKLKKVLTKVFSKA----GKIVNMYYPIDEEG-----GTKGYLFVEYASMRDAKKAVKSLNG  127 (698)
T ss_pred             cceEEEECCCcccChhHHHHHHHHHHHHHHhh----ccccceeeccCccC-----CeeeEEEEEecChhhHHHHHHhccc
Confidence            4578999999953  33344    45789999    99999999988877     6899999999999999999999998


Q ss_pred             C
Q psy5142         192 K  192 (410)
Q Consensus       192 ~  192 (410)
                      +
T Consensus       128 ~  128 (698)
T KOG2314|consen  128 K  128 (698)
T ss_pred             c
Confidence            3

>KOG3152|consensus

Probab=95.97  E-value=0.0045  Score=57.84  Aligned_cols=63  Identities=16%  Similarity=0.264  Sum_probs=53.8

Q ss_pred             eEEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCCCc------------------eEEEEeCChhHHHHHHHHhcC
Q psy5142         276 ALLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVGEP------------------TAFVRYKKENNAEAVLKALGS  337 (410)
Q Consensus       276 ~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g~~------------------~afV~F~~~e~A~~Al~~l~~  337 (410)
                      -+|||.+||+.....-|+++|++||    .|-.|.+.+...                  .|+|+|.+...|..+...|| 
T Consensus        75 GVvylS~IPp~m~~~rlReil~~yG----eVGRvylqpE~~s~~~~r~~~~~n~~~~y~EGWvEF~~KrvAK~iAe~Ln-  149 (278)
T KOG3152|consen   75 GVVYLSNIPPYMDPVRLREILSQYG----EVGRVYLQPEDDSKRAARKRKGGNYKKLYSEGWVEFISKRVAKRIAELLN-  149 (278)
T ss_pred             eEEEeccCCCccCHHHHHHHHHhcc----ccceEEecchhhHHHHHHhhcCCCccccchhHHHHHHHHHHHHHHHHHhC-
Confidence            4899999999999999999999999    998888775322                  28999999999999999994 


Q ss_pred             CCeEEcC
Q psy5142         338 KEIVIKD  344 (410)
Q Consensus       338 ~~~~i~g  344 (410)
                       +..|+|
T Consensus       150 -n~~Igg  155 (278)
T KOG3152|consen  150 -NTPIGG  155 (278)
T ss_pred             -CCccCC
Confidence             455665

>KOG0226|consensus

Probab=95.95  E-value=0.012  Score=55.02  Aligned_cols=73  Identities=7%  Similarity=0.134  Sum_probs=57.7

Q ss_pred             CeEEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEee------CCCceEEEEeCChhHHHHHHHHhcCCCeEEcCeEEE
Q psy5142         275 GALLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFN------VGEPTAFVRYKKENNAEAVLKALGSKEIVIKDVKVS  348 (410)
Q Consensus       275 g~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~------~g~~~afV~F~~~e~A~~Al~~l~~~~~~i~g~~v~  348 (410)
                      ...||...|.-+++++-|...|.+|.    .-....+.      ..+++|||.|.++.++..|+..|  ++--++.++|+
T Consensus       190 DfRIfcgdlgNevnd~vl~raf~Kfp----sf~~akviRdkRTgKSkgygfVSf~~pad~~rAmrem--~gkyVgsrpik  263 (290)
T KOG0226|consen  190 DFRIFCGDLGNEVNDDVLARAFKKFP----SFQKAKVIRDKRTGKSKGYGFVSFRDPADYVRAMREM--NGKYVGSRPIK  263 (290)
T ss_pred             cceeecccccccccHHHHHHHHHhcc----chhhccccccccccccccceeeeecCHHHHHHHHHhh--cccccccchhH
Confidence            45777888999999999999999998    33222222      23456999999999999999999  67788888988


Q ss_pred             EEecC
Q psy5142         349 IEVVT  353 (410)
Q Consensus       349 v~~l~  353 (410)
                      ++.-+
T Consensus       264 lRkS~  268 (290)
T KOG0226|consen  264 LRKSE  268 (290)
T ss_pred             hhhhh
Confidence            87544

>KOG4676|consensus

Probab=95.73  E-value=0.0095  Score=58.72  Aligned_cols=175  Identities=13%  Similarity=0.137  Sum_probs=105.2

Q ss_pred             eeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCCcccccc
Q psy5142         120 QSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLKFNEN  199 (410)
Q Consensus       120 rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~~~~~~  199 (410)
                      ..|.|.||.+.+|.++++.+|...    |.|..++|....+.- +-....-.|||-|.+...+..|--+-+   ..|.+.
T Consensus         8 ~vIqvanispsat~dqm~tlFg~l----GkI~elrlyp~~~d~-~~pv~sRtcyVkf~d~~sv~vaQhLtn---tvfvdr   79 (479)
T KOG4676|consen    8 GVIQVANISPSATKDQMQTLFGNL----GKIPELRLYPNVDDS-KIPVISRTCYVKFLDSQSVTVAQHLTN---TVFVDR   79 (479)
T ss_pred             ceeeecccCchhhHHHHHHHHhhc----cccccccccCCCCCc-cCcceeeeEEEeccCCcceeHHhhhcc---ceeeee
Confidence            478899999999999999999999    999999876532210 001346789999999999888766655   344222


Q ss_pred             ccch---------hhhh---hhhcc-cccccccCcc--cccchhhhchHHHHHHHHHHHHhhhhccccCccCCCCCCCCC
Q psy5142         200 CEHK---------NAEK---FLNEN-KDKNLKFNEN--CEHSLLIKWQQEYHEEKKQEVRSKRDKSKKSTEGDGEGNTEG  264 (410)
Q Consensus       200 ~~~~---------~~~k---~~~~~-~~~~~~~~g~--~~~~L~v~~k~~~~~~k~~e~~~~~~k~k~~~e~~~~~~~~~  264 (410)
                      ....         ..+.   +.+++ -+.-+.++|.  ...+|...-.                         ..++   
T Consensus        80 aliv~p~~~~~~p~r~af~~l~~~navprll~pdg~Lp~~~~lt~~nh-------------------------~p~a---  131 (479)
T KOG4676|consen   80 ALIVRPYGDEVIPDRFAFVELADQNAVPRLLPPDGVLPGDRPLTKINH-------------------------SPNA---  131 (479)
T ss_pred             eEEEEecCCCCCccHHHHHhcCcccccccccCCCCccCCCCccccccC-------------------------Cccc---
Confidence            2111         0000   00100 0001111110  0011111000                         0000   


Q ss_pred             CcccccCCCC----------CeEEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCCC--ceEEEEeCChhHHHHHH
Q psy5142         265 SKQVVLELPT----------GALLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVGE--PTAFVRYKKENNAEAVL  332 (410)
Q Consensus       265 ~~~~~~~~~~----------g~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g~--~~afV~F~~~e~A~~Al  332 (410)
                       .-..+.+++          ..++++.+|+..+-..++-+.|..+|    +|.|..+..+.  ..|-|.|....+...|+
T Consensus       132 -ilktP~Lp~~~~A~kleeirRt~~v~sl~~~~~l~e~~e~f~r~G----ev~ya~~ask~~s~~c~~sf~~qts~~hal  206 (479)
T KOG4676|consen  132 -ILKTPELPPQAAAKKLEEIRRTREVQSLISAAILPESGESFERKG----EVSYAHTASKSRSSSCSHSFRKQTSSKHAL  206 (479)
T ss_pred             -eecCCCCChHhhhhhhHHHHhhhhhhcchhhhcchhhhhhhhhcc----hhhhhhhhccCCCcchhhhHhhhhhHHHHH
Confidence             000000110          14677888999998999999999999    99887776543  45889999988888888


Q ss_pred             HHh
Q psy5142         333 KAL  335 (410)
Q Consensus       333 ~~l  335 (410)
                      .++
T Consensus       207 r~~  209 (479)
T KOG4676|consen  207 RSH  209 (479)
T ss_pred             Hhc
Confidence            876

>KOG1995|consensus

Probab=95.62  E-value=0.019  Score=56.25  Aligned_cols=67  Identities=18%  Similarity=0.174  Sum_probs=55.2

Q ss_pred             ccceeeEeecCCCCCCHHHHHHHHhhccCCCCceEE--------EEEcccCcccccccccccEEEEEecCHHHHHHHHHh
Q psy5142         117 LIAQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITN--------IIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNE  188 (410)
Q Consensus       117 ~~~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~--------v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~  188 (410)
                      ...-||||.++|..+|.++|.++|.+|    |.|..        |.|-+++.++    ..||-|.|+|+++-.|+.|+.-
T Consensus        64 s~~~ti~v~g~~d~~~~~~~~~~f~qc----g~ikrnK~t~kPki~~y~dkeT~----~~KGeatvS~~D~~~akaai~~  135 (351)
T KOG1995|consen   64 SDNETIFVWGCPDSVCENDNADFFLQC----GVIKRNKRTGKPKIKIYTDKETG----APKGEATVSYEDPPAAKAAIEW  135 (351)
T ss_pred             cccccceeeccCccchHHHHHHHHhhc----ceeccCCCCCCcchhcccccccc----CcCCceeeeecChhhhhhhhhh
Confidence            456799999999999999999999999    76632        2233333343    7899999999999999999999


Q ss_pred             cCC
Q psy5142         189 NKD  191 (410)
Q Consensus       189 ~~g  191 (410)
                      +++
T Consensus       136 ~ag  138 (351)
T KOG1995|consen  136 FAG  138 (351)
T ss_pred             hcc
Confidence            986

>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=95.56  E-value=0.039  Score=44.91  Aligned_cols=69  Identities=16%  Similarity=0.069  Sum_probs=45.4

Q ss_pred             ccceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEE-EcccCcc--cccccccccEEEEEecCHHHHHHHHHhcC
Q psy5142         117 LIAQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNII-MRNYQDK--LANQKKFKGSIFVTFDNKENAEKFLNENK  190 (410)
Q Consensus       117 ~~~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~-l~~~~~~--~~~~~~~kG~afVeF~~~e~A~~Al~~~~  190 (410)
                      ...+.|.|=|||.. ....|.+.|++|    |.|.+.. +.+...+  ..+...-.....|+|+++.+|.+||....
T Consensus         4 ~~~~wVtVFGfp~~-~~~~Vl~~F~~~----G~Ile~~~~~~~~~~~~~~~~~~~~NWi~I~Y~~~~~A~rAL~~NG   75 (100)
T PF05172_consen    4 DSETWVTVFGFPPS-ASNQVLRHFSSF----GTILEHFEVLRSSSGINPYPIPSGGNWIHITYDNPLSAQRALQKNG   75 (100)
T ss_dssp             GGCCEEEEE---GG-GHHHHHHHHHCC----S-EECEEGGG----------E-CCTTEEEEEESSHHHHHHHHTTTT
T ss_pred             cCCeEEEEEccCHH-HHHHHHHHHHhc----ceEEEeecccccccccccccCCCCCCEEEEECCCHHHHHHHHHhCC
Confidence            34677999999988 568899999999    9998875 2222110  00011346789999999999999999865

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.

>COG5175 MOT2 Transcriptional repressor [Transcription]

Probab=95.28  E-value=0.036  Score=53.74  Aligned_cols=68  Identities=21%  Similarity=0.431  Sum_probs=51.7

Q ss_pred             ccceeeEeecCCCCCCHHHH------HHHHhhccCCCCceEEEEEcccCccccccccccc--EEEEEecCHHHHHHHHHh
Q psy5142         117 LIAQSLYVKYIPVDATLDDI------KDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKG--SIFVTFDNKENAEKFLNE  188 (410)
Q Consensus       117 ~~~rtv~V~~lp~~~t~~~L------~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG--~afVeF~~~e~A~~Al~~  188 (410)
                      ++..-|||-+||..+..+++      .+||.+|    |.|..|.+-+......   .-.+  -+||+|.+.|+|..+|..
T Consensus       112 vQKNLvYVigi~pkva~Ee~~~vLk~~eyFGQy----GkI~KIvvNkkt~s~n---st~~h~gvYITy~~kedAarcIa~  184 (480)
T COG5175         112 VQKNLVYVIGIPPKVADEEVAPVLKRHEYFGQY----GKIKKIVVNKKTSSLN---STASHAGVYITYSTKEDAARCIAE  184 (480)
T ss_pred             eecceeEEecCCCCCCcccccccccchhhhhhc----cceeEEEecccccccc---cccccceEEEEecchHHHHHHHHH
Confidence            45677999999998776663      4899999    9999998865432210   1122  259999999999999999


Q ss_pred             cCC
Q psy5142         189 NKD  191 (410)
Q Consensus       189 ~~g  191 (410)
                      .+|
T Consensus       185 vDg  187 (480)
T COG5175         185 VDG  187 (480)
T ss_pred             hcc
Confidence            986

>KOG4209|consensus

Probab=95.19  E-value=0.027  Score=52.99  Aligned_cols=73  Identities=14%  Similarity=0.130  Sum_probs=60.7

Q ss_pred             CCCeEEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCC------CceEEEEeCChhHHHHHHHHhcCCCeEEcCeE
Q psy5142         273 PTGALLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVG------EPTAFVRYKKENNAEAVLKALGSKEIVIKDVK  346 (410)
Q Consensus       273 ~~g~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g------~~~afV~F~~~e~A~~Al~~l~~~~~~i~g~~  346 (410)
                      .....++|.|+...++.+.+..+|+.||    .|..|+++.+      +++|||.|.+.+.++.|+. |  ++..|.|..
T Consensus        99 ~d~~sv~v~nvd~~~t~~~~e~hf~~Cg----~i~~~ti~~d~~~~~~k~~~yvef~~~~~~~~ay~-l--~gs~i~~~~  171 (231)
T KOG4209|consen   99 VDAPSVWVGNVDFLVTLTKIELHFESCG----GINRVTVPKDKFRGHPKGFAYVEFSSYELVEEAYK-L--DGSEIPGPA  171 (231)
T ss_pred             cCCceEEEeccccccccchhhheeeccC----CccceeeeccccCCCcceeEEEecccHhhhHHHhh-c--CCccccccc
Confidence            3445799999999999999999999999    8876666543      3479999999999999999 7  577888888


Q ss_pred             EEEEec
Q psy5142         347 VSIEVV  352 (410)
Q Consensus       347 v~v~~l  352 (410)
                      +.+...
T Consensus       172 i~vt~~  177 (231)
T KOG4209|consen  172 IEVTLK  177 (231)
T ss_pred             ceeeee
Confidence            888764

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

Probab=95.18  E-value=0.12  Score=44.76  Aligned_cols=57  Identities=19%  Similarity=0.357  Sum_probs=44.8

Q ss_pred             HHHHHHHHhcCCCCCCeeEEEeeCCCceEEEEeCChhHHHHHHHHhcCCCeEEcCeEEEEEecCch
Q psy5142         290 EDIREVLEKVQTDDQEIVFIEFNVGEPTAFVRYKKENNAEAVLKALGSKEIVIKDVKVSIEVVTGE  355 (410)
Q Consensus       290 edLk~~F~~~G~~~~~V~~V~~~~g~~~afV~F~~~e~A~~Al~~l~~~~~~i~g~~v~v~~l~g~  355 (410)
                      .+|-+.|..||    +|.-|++..  +.-+|.|.+-++|-+|+..   ++++++|+.|+|++.+.+
T Consensus        51 ~~ll~~~~~~G----evvLvRfv~--~~mwVTF~dg~sALaals~---dg~~v~g~~l~i~LKtpd  107 (146)
T PF08952_consen   51 DELLQKFAQYG----EVVLVRFVG--DTMWVTFRDGQSALAALSL---DGIQVNGRTLKIRLKTPD  107 (146)
T ss_dssp             HHHHHHHHCCS-----ECEEEEET--TCEEEEESSCHHHHHHHHG---CCSEETTEEEEEEE----
T ss_pred             HHHHHHHHhCC----ceEEEEEeC--CeEEEEECccHHHHHHHcc---CCcEECCEEEEEEeCCcc
Confidence            36777888899    898888887  4689999999988888876   589999999999998755

; PDB: 1UFW_A 2DNR_A.

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

Probab=95.18  E-value=0.14  Score=41.45  Aligned_cols=59  Identities=19%  Similarity=0.261  Sum_probs=47.8

Q ss_pred             eEEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCC------CceEEEEeCChhHHHHHHHHhc
Q psy5142         276 ALLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVG------EPTAFVRYKKENNAEAVLKALG  336 (410)
Q Consensus       276 ~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g------~~~afV~F~~~e~A~~Al~~l~  336 (410)
                      ++|-|+|||-..|.++|.+++.....  -...++.++.+      .++|||-|.+++.|....+.++
T Consensus         2 TTvMirNIPn~~t~~~L~~~l~~~~~--g~yDF~YLPiDf~~~~N~GYAFVNf~~~~~~~~F~~~f~   66 (97)
T PF04059_consen    2 TTVMIRNIPNKYTQEMLIQILDEHFK--GKYDFFYLPIDFKNKCNLGYAFVNFTSPQAAIRFYKAFN   66 (97)
T ss_pred             eeEEEecCCCCCCHHHHHHHHHHhcc--CcceEEEeeeeccCCCceEEEEEEcCCHHHHHHHHHHHc
Confidence            57889999999999999999987421  15666666543      4579999999999999999994

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

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

Probab=95.07  E-value=0.061  Score=41.99  Aligned_cols=56  Identities=16%  Similarity=0.354  Sum_probs=40.7

Q ss_pred             CCeEEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCCCceEEEEeCChhHHHHHHHHhc
Q psy5142         274 TGALLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVGEPTAFVRYKKENNAEAVLKALG  336 (410)
Q Consensus       274 ~g~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g~~~afV~F~~~e~A~~Al~~l~  336 (410)
                      +..+.+|. .|......||.++|+.||  .+.|.+|    ++++|||.....+.|..|+..+.
T Consensus         8 RdHVFhlt-FPkeWK~~DI~qlFspfG--~I~VsWi----~dTSAfV~l~~r~~~~~v~~~~~   63 (87)
T PF08675_consen    8 RDHVFHLT-FPKEWKTSDIYQLFSPFG--QIYVSWI----NDTSAFVALHNRDQAKVVMNTLK   63 (87)
T ss_dssp             GCCEEEEE---TT--HHHHHHHCCCCC--CEEEEEE----CTTEEEEEECCCHHHHHHHHHHT
T ss_pred             cceEEEEe-CchHhhhhhHHHHhccCC--cEEEEEE----cCCcEEEEeecHHHHHHHHHHhc
Confidence            34455565 799999999999999999  2233444    45889999999999999999883

; 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.

>KOG0129|consensus

Probab=95.06  E-value=0.05  Score=55.67  Aligned_cols=64  Identities=16%  Similarity=0.128  Sum_probs=55.9

Q ss_pred             cceeeEeecCCCCCCHHHHHHHHh-hccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhc
Q psy5142         118 IAQSLYVKYIPVDATLDDIKDFFK-KNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNEN  189 (410)
Q Consensus       118 ~~rtv~V~~lp~~~t~~~L~~~F~-~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~  189 (410)
                      ..|||||++||.-+|.++|..+|. -|    |-|..|-|=.|+.=+    -++|.+=|+|.+..+-.+||..-
T Consensus       369 prrTVFVGgvprpl~A~eLA~imd~ly----GgV~yaGIDtD~k~K----YPkGaGRVtFsnqqsYi~AIsar  433 (520)
T KOG0129|consen  369 PRRTVFVGGLPRPLTAEELAMIMEDLF----GGVLYVGIDTDPKLK----YPKGAGRVTFSNQQAYIKAISAR  433 (520)
T ss_pred             ccceEEecCCCCcchHHHHHHHHHHhc----CceEEEEeccCcccC----CCCCcceeeecccHHHHHHHhhh
Confidence            368999999999999999999999 67    999999987664322    68999999999999999999763

>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=95.02  E-value=0.12  Score=42.05  Aligned_cols=66  Identities=8%  Similarity=0.083  Sum_probs=46.7

Q ss_pred             eEEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEE-------------eeCCCceEEEEeCChhHHHHHHHHhcCCCeEE
Q psy5142         276 ALLKISDIKEPVSREDIREVLEKVQTDDQEIVFIE-------------FNVGEPTAFVRYKKENNAEAVLKALGSKEIVI  342 (410)
Q Consensus       276 ~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~-------------~~~g~~~afV~F~~~e~A~~Al~~l~~~~~~i  342 (410)
                      +-|.|.|.|+. .-..+-..|++||    +|....             .+.+..--.|+|+++.+|.+||..   +|..+
T Consensus         7 ~wVtVFGfp~~-~~~~Vl~~F~~~G----~Ile~~~~~~~~~~~~~~~~~~~~NWi~I~Y~~~~~A~rAL~~---NG~i~   78 (100)
T PF05172_consen    7 TWVTVFGFPPS-ASNQVLRHFSSFG----TILEHFEVLRSSSGINPYPIPSGGNWIHITYDNPLSAQRALQK---NGTIF   78 (100)
T ss_dssp             CEEEEE---GG-GHHHHHHHHHCCS-----EECEEGGG----------E-CCTTEEEEEESSHHHHHHHHTT---TTEEE
T ss_pred             eEEEEEccCHH-HHHHHHHHHHhcc----eEEEeecccccccccccccCCCCCCEEEEECCCHHHHHHHHHh---CCeEE
Confidence            35778888887 4567888999999    885543             445556689999999999999876   58889


Q ss_pred             cCeEEEE
Q psy5142         343 KDVKVSI  349 (410)
Q Consensus       343 ~g~~v~v  349 (410)
                      +|..+-.
T Consensus        79 ~g~~mvG   85 (100)
T PF05172_consen   79 SGSLMVG   85 (100)
T ss_dssp             TTCEEEE
T ss_pred             cCcEEEE
Confidence            8876643

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.

>KOG3152|consensus

Probab=94.48  E-value=0.027  Score=52.79  Aligned_cols=70  Identities=16%  Similarity=0.227  Sum_probs=54.5

Q ss_pred             ceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcc--------cccccccccEEEEEecCHHHHHHHHHhcC
Q psy5142         119 AQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDK--------LANQKKFKGSIFVTFDNKENAEKFLNENK  190 (410)
Q Consensus       119 ~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~--------~~~~~~~kG~afVeF~~~e~A~~Al~~~~  190 (410)
                      .-.||++++|+.+...-|+++|+.|    |.|-.|.|......        ++.-...-.-++|||.+.-.|..+...+|
T Consensus        74 ~GVvylS~IPp~m~~~rlReil~~y----GeVGRvylqpE~~s~~~~r~~~~~n~~~~y~EGWvEF~~KrvAK~iAe~Ln  149 (278)
T KOG3152|consen   74 TGVVYLSNIPPYMDPVRLREILSQY----GEVGRVYLQPEDDSKRAARKRKGGNYKKLYSEGWVEFISKRVAKRIAELLN  149 (278)
T ss_pred             ceEEEeccCCCccCHHHHHHHHHhc----cccceEEecchhhHHHHHHhhcCCCccccchhHHHHHHHHHHHHHHHHHhC
Confidence            3579999999999999999999999    99999998655433        10000111227899999999999999999


Q ss_pred             CC
Q psy5142         191 DK  192 (410)
Q Consensus       191 g~  192 (410)
                      ++
T Consensus       150 n~  151 (278)
T KOG3152|consen  150 NT  151 (278)
T ss_pred             CC
Confidence            73

>KOG0115|consensus

Probab=93.54  E-value=0.1  Score=49.04  Aligned_cols=78  Identities=12%  Similarity=0.123  Sum_probs=59.8

Q ss_pred             CCeEEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeC-CCceEEEEeCChhHHHHHHHHhcCCC--eEEcCeEEEEE
Q psy5142         274 TGALLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNV-GEPTAFVRYKKENNAEAVLKALGSKE--IVIKDVKVSIE  350 (410)
Q Consensus       274 ~g~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~-g~~~afV~F~~~e~A~~Al~~l~~~~--~~i~g~~v~v~  350 (410)
                      ....|+|.||+.-++.+.|.+.|+.||..+-.|.+||+.. ....++|.|...-.|.+|+.....++  .+..+.++.|.
T Consensus        30 ~~a~l~V~nl~~~~sndll~~~f~~fg~~e~av~~vD~r~k~t~eg~v~~~~k~~a~~a~rr~~~~g~~~~~~~~p~~Ve  109 (275)
T KOG0115|consen   30 MHAELYVVNLMQGASNDLLEQAFRRFGPIERAVAKVDDRGKPTREGIVEFAKKPNARKAARRCREGGFGGTTGGRPVGVE  109 (275)
T ss_pred             ccceEEEEecchhhhhHHHHHhhhhcCccchheeeecccccccccchhhhhcchhHHHHHHHhccCccccCCCCCccCCC
Confidence            3378999999999999999999999995445667777653 33469999999999999999885444  34556665554


Q ss_pred             e
Q psy5142         351 V  351 (410)
Q Consensus       351 ~  351 (410)
                      .
T Consensus       110 P  110 (275)
T KOG0115|consen  110 P  110 (275)
T ss_pred             h
Confidence            3

>KOG1855|consensus

Probab=93.49  E-value=0.054  Score=54.21  Aligned_cols=59  Identities=17%  Similarity=0.210  Sum_probs=50.2

Q ss_pred             CCeEEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCC-------------------CceEEEEeCChhHHHHHHHH
Q psy5142         274 TGALLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVG-------------------EPTAFVRYKKENNAEAVLKA  334 (410)
Q Consensus       274 ~g~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g-------------------~~~afV~F~~~e~A~~Al~~  334 (410)
                      +..+|.+.|||.+-+-+.|.++|+.+|    .|+.|.+-.-                   ...|+|+|...+.|.+|.+.
T Consensus       230 ~srtivaenLP~Dh~~enl~kiFg~~G----~IksIRIckPgaip~d~r~~~~~~~~~~tk~~AlvEye~~~~A~KA~e~  305 (484)
T KOG1855|consen  230 PSRTIVAENLPLDHSYENLSKIFGTVG----SIKSIRICKPGAIPEDVRGFPKKYFELQTKECALVEYEEVEAARKAREL  305 (484)
T ss_pred             ccceEEEecCCcchHHHHHHHHhhccc----ceeeeeecCCCCCCcccccCCccchhhhhhhhhhhhhhhhHHHHHHHHh
Confidence            456788999999999999999999999    9988877532                   11389999999999999999


Q ss_pred             hc
Q psy5142         335 LG  336 (410)
Q Consensus       335 l~  336 (410)
                      ++
T Consensus       306 ~~  307 (484)
T KOG1855|consen  306 LN  307 (484)
T ss_pred             hc
Confidence            83

>KOG4676|consensus

Probab=93.15  E-value=0.16  Score=50.38  Aligned_cols=71  Identities=6%  Similarity=0.238  Sum_probs=52.2

Q ss_pred             EEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCC---------CceEEEEeCChhHHHHHHHHhcCCCeEEcCeEE
Q psy5142         277 LLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVG---------EPTAFVRYKKENNAEAVLKALGSKEIVIKDVKV  347 (410)
Q Consensus       277 ~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g---------~~~afV~F~~~e~A~~Al~~l~~~~~~i~g~~v  347 (410)
                      +|.|.||.+.++.+++..+|.-+|    .|..+.+.+.         ..+|||.|.+...+..|-...  +-+.|+--.|
T Consensus         9 vIqvanispsat~dqm~tlFg~lG----kI~elrlyp~~~d~~~pv~sRtcyVkf~d~~sv~vaQhLt--ntvfvdrali   82 (479)
T KOG4676|consen    9 VIQVANISPSATKDQMQTLFGNLG----KIPELRLYPNVDDSKIPVISRTCYVKFLDSQSVTVAQHLT--NTVFVDRALI   82 (479)
T ss_pred             eeeecccCchhhHHHHHHHHhhcc----ccccccccCCCCCccCcceeeeEEEeccCCcceeHHhhhc--cceeeeeeEE
Confidence            899999999999999999999999    7877665542         125999999999888876554  3344443333


Q ss_pred             EEEecC
Q psy5142         348 SIEVVT  353 (410)
Q Consensus       348 ~v~~l~  353 (410)
                      .+=.+.
T Consensus        83 v~p~~~   88 (479)
T KOG4676|consen   83 VRPYGD   88 (479)
T ss_pred             EEecCC
Confidence            333333

>KOG0128|consensus

Probab=93.08  E-value=0.048  Score=58.79  Aligned_cols=63  Identities=17%  Similarity=0.254  Sum_probs=58.3

Q ss_pred             ceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcC
Q psy5142         119 AQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENK  190 (410)
Q Consensus       119 ~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~  190 (410)
                      ...|+|+|.|+..|.++++.+++.+    |.+.+++++....+     +++|-|||.|.++.+|.+++....
T Consensus       736 K~~v~i~g~pf~gt~e~~k~l~~~~----gn~~~~~~vt~r~g-----kpkg~a~v~y~~ea~~s~~~~s~d  798 (881)
T KOG0128|consen  736 KISVAISGPPFQGTKEELKSLASKT----GNVTSLRLVTVRAG-----KPKGKARVDYNTEADASRKVASVD  798 (881)
T ss_pred             hhhhheeCCCCCCchHHHHhhcccc----CCccccchhhhhcc-----ccccceeccCCCcchhhhhcccch
Confidence            5679999999999999999999999    99999998888777     899999999999999999987766

>PF15023 DUF4523: Protein of unknown function (DUF4523)

Probab=93.07  E-value=0.2  Score=43.12  Aligned_cols=60  Identities=13%  Similarity=0.163  Sum_probs=47.6

Q ss_pred             hccceeeEeecCCCCC----CHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcC
Q psy5142         116 DLIAQSLYVKYIPVDA----TLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENK  190 (410)
Q Consensus       116 ~~~~rtv~V~~lp~~~----t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~  190 (410)
                      +..-.||.|+-|...+    +...|...++.|    |+|.+|.+.           .+-.|.|.|.+..+|-+|+..++
T Consensus        83 epPMsTIVVRWlkknm~~~edl~sV~~~Ls~f----GpI~SVT~c-----------GrqsavVvF~d~~SAC~Av~Af~  146 (166)
T PF15023_consen   83 EPPMSTIVVRWLKKNMQPTEDLKSVIQRLSVF----GPIQSVTLC-----------GRQSAVVVFKDITSACKAVSAFQ  146 (166)
T ss_pred             CCCceeEEeehhhhcCChHHHHHHHHHHHHhc----CCcceeeec-----------CCceEEEEehhhHHHHHHHHhhc
Confidence            4556799998877663    334455667889    999999873           36679999999999999999987

>PF09421 FRQ: Frequency clock protein; InterPro: IPR018554 The frequency clock protein, is the central component of the frq-based circadian negative feedback loop, regulates various aspects of the circadian clock in Neurospora crassa []

Probab=92.76  E-value=0.13  Score=56.72  Aligned_cols=49  Identities=27%  Similarity=0.493  Sum_probs=45.7

Q ss_pred             CCeEehHHHHhhHHHHhccCcHHHHHHHHhhcCCceEEEecCccceecCC
Q psy5142          53 DGWVELTTMLKFARLAKMTTEAKVIVDALKKSTSKLIEVNEDGTKIRRNP  102 (410)
Q Consensus        53 ~g~v~l~~l~~F~r~k~l~~d~~~i~~Al~~~~S~~levsed~~~vrR~~  102 (410)
                      +|||.|-+||..-.|--|..+++-|..||.+ .|..++|+.||.+||=+.
T Consensus       476 eGWVYLNLL~NmAQLHiiNVTPdFVRsAV~E-~StKfQLSpDGrKIRWRG  524 (989)
T PF09421_consen  476 EGWVYLNLLCNMAQLHIINVTPDFVRSAVSE-KSTKFQLSPDGRKIRWRG  524 (989)
T ss_pred             ccceehHHHHHHHHHHhhccCHHHHHHHHHh-cccceeeCCCCCeeeecC
Confidence            6999999999999999999999999999998 689999999999998653

This protein has been shown to interact with itself via a coiled-coil [].

>KOG2591|consensus

Probab=92.66  E-value=0.13  Score=53.00  Aligned_cols=77  Identities=10%  Similarity=0.243  Sum_probs=61.3

Q ss_pred             CCCCeEEEEeCCCCCCCHHHHHHHHHh--cCCCCCCeeEEEeeCCCceEEEEeCChhHHHHHHHHhcCCCeEEcCeEEEE
Q psy5142         272 LPTGALLKISDIKEPVSREDIREVLEK--VQTDDQEIVFIEFNVGEPTAFVRYKKENNAEAVLKALGSKEIVIKDVKVSI  349 (410)
Q Consensus       272 ~~~g~~l~v~nL~~~~t~edLk~~F~~--~G~~~~~V~~V~~~~g~~~afV~F~~~e~A~~Al~~l~~~~~~i~g~~v~v  349 (410)
                      ..+-||+.++-||+.+-.|++|.+|+-  +.    .+..+.|... ..=||.|.+..+|+.|.+.|...-.++.|+.|..
T Consensus       172 ~~kRcIvilREIpettp~e~Vk~lf~~encP----k~iscefa~N-~nWyITfesd~DAQqAykylreevk~fqgKpImA  246 (684)
T KOG2591|consen  172 NHKRCIVILREIPETTPIEVVKALFKGENCP----KVISCEFAHN-DNWYITFESDTDAQQAYKYLREEVKTFQGKPIMA  246 (684)
T ss_pred             CcceeEEEEeecCCCChHHHHHHHhccCCCC----Cceeeeeeec-CceEEEeecchhHHHHHHHHHHHHHhhcCcchhh
Confidence            345699999999999999999999985  55    5555555442 3469999999999999999965566778888877


Q ss_pred             EecC
Q psy5142         350 EVVT  353 (410)
Q Consensus       350 ~~l~  353 (410)
                      +|..
T Consensus       247 RIKa  250 (684)
T KOG2591|consen  247 RIKA  250 (684)
T ss_pred             hhhh
Confidence            7643

>KOG4849|consensus

Probab=92.24  E-value=0.42  Score=46.79  Aligned_cols=77  Identities=9%  Similarity=0.093  Sum_probs=56.1

Q ss_pred             CCeEEEEeCCCCCCCHHHHHHHHHhcCCC-CCCeeEEEeeC---CCceEEEEeCChhHHHHHHHHhcCCCeEEcCeEEEE
Q psy5142         274 TGALLKISDIKEPVSREDIREVLEKVQTD-DQEIVFIEFNV---GEPTAFVRYKKENNAEAVLKALGSKEIVIKDVKVSI  349 (410)
Q Consensus       274 ~g~~l~v~nL~~~~t~edLk~~F~~~G~~-~~~V~~V~~~~---g~~~afV~F~~~e~A~~Al~~l~~~~~~i~g~~v~v  349 (410)
                      +...+||.||-|-+|++||-+.+...|.. .++++|..--.   .+++|.|...+..+.++.++.|  -..+|.|+..+|
T Consensus        79 rk~~~YvGNL~W~TTD~DL~~A~~S~G~~~~~dmKFFENR~NGQSKG~AL~~~~SdAa~Kq~MeiL--P~k~iHGQ~P~V  156 (498)
T KOG4849|consen   79 RKYCCYVGNLLWYTTDADLLKALQSTGLAQFADMKFFENRTNGQSKGYALLVLNSDAAVKQTMEIL--PTKTIHGQSPTV  156 (498)
T ss_pred             ceEEEEecceeEEeccHHHHHHHHhhhHHHHhhhhhhhcccCCcccceEEEEecchHHHHHHHHhc--ccceecCCCCee
Confidence            34678999999999999999999988822 13444433222   2446889999988888888888  567888887766


Q ss_pred             Eec
Q psy5142         350 EVV  352 (410)
Q Consensus       350 ~~l  352 (410)
                      .-.
T Consensus       157 ~~~  159 (498)
T KOG4849|consen  157 LSY  159 (498)
T ss_pred             ecc
Confidence            544

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

Probab=92.09  E-value=0.95  Score=33.45  Aligned_cols=58  Identities=22%  Similarity=0.290  Sum_probs=43.7

Q ss_pred             ceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhc
Q psy5142         119 AQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNEN  189 (410)
Q Consensus       119 ~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~  189 (410)
                      .-.|+|.|+. +++.++|+.||..|+... ....|..+-+           .+|-|.|.+.+.|.+||..+
T Consensus         5 peavhirGvd-~lsT~dI~~y~~~y~~~~-~~~~IEWIdD-----------tScNvvf~d~~~A~~AL~~L   62 (62)
T PF10309_consen    5 PEAVHIRGVD-ELSTDDIKAYFSEYFDEE-GPFRIEWIDD-----------TSCNVVFKDEETAARALVAL   62 (62)
T ss_pred             eceEEEEcCC-CCCHHHHHHHHHHhcccC-CCceEEEecC-----------CcEEEEECCHHHHHHHHHcC
Confidence            4579999985 478899999999985432 3456665543           24789999999999999753

>KOG3293|consensus

Probab=91.53  E-value=0.55  Score=38.89  Aligned_cols=15  Identities=13%  Similarity=0.206  Sum_probs=8.0

Q ss_pred             CeEEcCeEEEEEecC
Q psy5142         339 EIVIKDVKVSIEVVT  353 (410)
Q Consensus       339 ~~~i~g~~v~v~~l~  353 (410)
                      ..-|.|..|++-.+.
T Consensus        58 EcYirGttIkylri~   72 (134)
T KOG3293|consen   58 ECYIRGTTIKYLRIP   72 (134)
T ss_pred             eeEEecceeEEEecc
Confidence            345556666555444

>KOG2416|consensus

Probab=91.04  E-value=0.13  Score=53.57  Aligned_cols=64  Identities=16%  Similarity=0.275  Sum_probs=54.8

Q ss_pred             cceeeEeecCCCCCCHHHHHHHHh-hccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCCccc
Q psy5142         118 IAQSLYVKYIPVDATLDDIKDFFK-KNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLKF  196 (410)
Q Consensus       118 ~~rtv~V~~lp~~~t~~~L~~~F~-~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~~~  196 (410)
                      ....|||.||-.-+|.-.|++++. .+    |.|+...|=          +-|..|||.|.+.++|......++|  +.|
T Consensus       443 ~SnvlhI~nLvRPFTlgQLkelL~rtg----g~Vee~WmD----------kIKShCyV~yss~eEA~atr~Alhn--V~W  506 (718)
T KOG2416|consen  443 PSNVLHIDNLVRPFTLGQLKELLGRTG----GNVEEFWMD----------KIKSHCYVSYSSVEEAAATREALHN--VQW  506 (718)
T ss_pred             ccceEeeecccccchHHHHHHHHhhcc----CchHHHHHH----------HhhcceeEecccHHHHHHHHHHHhc--ccc
Confidence            457899999999999999999998 56    888877543          4567799999999999999999987  788


Q ss_pred             c
Q psy5142         197 N  197 (410)
Q Consensus       197 ~  197 (410)
                      +
T Consensus       507 P  507 (718)
T KOG2416|consen  507 P  507 (718)
T ss_pred             C
Confidence            4

>KOG4849|consensus

Probab=90.60  E-value=0.24  Score=48.39  Aligned_cols=66  Identities=9%  Similarity=0.058  Sum_probs=52.7

Q ss_pred             ccceeeEeecCCCCCCHHHHHHHHhhccCCCC--ceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcC
Q psy5142         117 LIAQSLYVKYIPVDATLDDIKDFFKKNTSEDV--KITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENK  190 (410)
Q Consensus       117 ~~~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G--~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~  190 (410)
                      -....+||+||-|-+|.+||.+.....    |  .+..+.+-.+...+    .+||||.|...+...+++.++.+.
T Consensus        78 Grk~~~YvGNL~W~TTD~DL~~A~~S~----G~~~~~dmKFFENR~NG----QSKG~AL~~~~SdAa~Kq~MeiLP  145 (498)
T KOG4849|consen   78 GRKYCCYVGNLLWYTTDADLLKALQST----GLAQFADMKFFENRTNG----QSKGYALLVLNSDAAVKQTMEILP  145 (498)
T ss_pred             CceEEEEecceeEEeccHHHHHHHHhh----hHHHHhhhhhhhcccCC----cccceEEEEecchHHHHHHHHhcc
Confidence            446789999999999999999888876    6  34444444444444    899999999999999999998887

>KOG2202|consensus

Probab=90.46  E-value=0.14  Score=48.22  Aligned_cols=49  Identities=20%  Similarity=0.381  Sum_probs=40.2

Q ss_pred             HHHHHHHh-hccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCC
Q psy5142         134 DDIKDFFK-KNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKD  191 (410)
Q Consensus       134 ~~L~~~F~-~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g  191 (410)
                      ++|...|+ +|    |+|+++.+..+..-     ...|-+||.|..+|+|++|++.+++
T Consensus        83 Ed~f~E~~~ky----gEiee~~Vc~Nl~~-----hl~GNVYV~f~~Ee~ae~a~~~lnn  132 (260)
T KOG2202|consen   83 EDVFTELEDKY----GEIEELNVCDNLGD-----HLVGNVYVKFRSEEDAEAALEDLNN  132 (260)
T ss_pred             HHHHHHHHHHh----hhhhhhhhhcccch-----hhhhhhhhhcccHHHHHHHHHHHcC
Confidence            45555555 89    99999987766544     5789999999999999999999995

>PF05918 API5: Apoptosis inhibitory protein 5 (API5); InterPro: IPR008383 This family consists of apoptosis inhibitory protein 5 (API5) sequences from several organisms

Probab=90.12  E-value=0.088  Score=55.43  Aligned_cols=7  Identities=57%  Similarity=0.914  Sum_probs=2.6

Q ss_pred             hHHhhhc
Q psy5142          44 FLQGEIK   50 (410)
Q Consensus        44 fl~~~~~   50 (410)
                      |+..+++
T Consensus       178 ~i~~~ik  184 (556)
T PF05918_consen  178 FIVDEIK  184 (556)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            3333333

Apoptosis or programmed cell death is a physiological form of cell death that occurs in embryonic development and organ formation. It is characterised by biochemical and morphological changes such as DNA fragmentation and cell volume shrinkage. API5 is an anti apoptosis gene located in Homo sapiens chromosome 11, whose expression prevents the programmed cell death that occurs upon the deprivation of growth factors [,].; PDB: 3U0R_A 3V6A_A.

>KOG2416|consensus

Probab=89.17  E-value=0.48  Score=49.47  Aligned_cols=93  Identities=15%  Similarity=0.244  Sum_probs=65.5

Q ss_pred             CCCeEEEEeCCCCCCCHHHHHHHHHhcCCCCCCe--eEEEeeCCCceEEEEeCChhHHHHHHHHhcCCCeEE---cCeEE
Q psy5142         273 PTGALLKISDIKEPVSREDIREVLEKVQTDDQEI--VFIEFNVGEPTAFVRYKKENNAEAVLKALGSKEIVI---KDVKV  347 (410)
Q Consensus       273 ~~g~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V--~~V~~~~g~~~afV~F~~~e~A~~Al~~l~~~~~~i---~g~~v  347 (410)
                      ....+|+|.||-.-.|.-+|++++..-|+   .|  .|+|-.+  +-|||.|.+.+.|.+.+.+|  +++.+   |++.|
T Consensus       442 ~~SnvlhI~nLvRPFTlgQLkelL~rtgg---~Vee~WmDkIK--ShCyV~yss~eEA~atr~Al--hnV~WP~sNPK~L  514 (718)
T KOG2416|consen  442 EPSNVLHIDNLVRPFTLGQLKELLGRTGG---NVEEFWMDKIK--SHCYVSYSSVEEAAATREAL--HNVQWPPSNPKHL  514 (718)
T ss_pred             CccceEeeecccccchHHHHHHHHhhccC---chHHHHHHHhh--cceeEecccHHHHHHHHHHH--hccccCCCCCcee
Confidence            34579999999888899999999997551   33  2555444  56999999999999999999  55654   45667


Q ss_pred             EEEecCchHHHHHHHHhHHHHHHHHH
Q psy5142         348 SIEVVTGEEEQTVLDRMKIDIFKRRQ  373 (410)
Q Consensus       348 ~v~~l~g~eE~~yw~k~~~~~~~~~~  373 (410)
                      .+...+ ..+..|...-.++......
T Consensus       515 ~adf~~-~deld~hr~~led~~ae~~  539 (718)
T KOG2416|consen  515 IADFVR-ADELDKHRNGLEDLEAELP  539 (718)
T ss_pred             Eeeecc-hhHHHHHhccchhcccccc
Confidence            777665 4455555554555444433

>KOG2314|consensus

Probab=89.13  E-value=1.5  Score=45.70  Aligned_cols=73  Identities=15%  Similarity=0.263  Sum_probs=55.0

Q ss_pred             CeEEEEeCCCCCCC------HHHHHHHHHhcCCCCCCeeEEEeeCCC-----ceEEEEeCChhHHHHHHHHhcCCCeEEc
Q psy5142         275 GALLKISDIKEPVS------REDIREVLEKVQTDDQEIVFIEFNVGE-----PTAFVRYKKENNAEAVLKALGSKEIVIK  343 (410)
Q Consensus       275 g~~l~v~nL~~~~t------~edLk~~F~~~G~~~~~V~~V~~~~g~-----~~afV~F~~~e~A~~Al~~l~~~~~~i~  343 (410)
                      ..+|.|.|+|---.      +.-|..+|+++|    .|..+.|+...     +..|++|.+..+|+.|++.++  |..++
T Consensus        58 D~vVvv~g~PvV~~~rl~klk~vl~kvfsk~g----k~vn~~~P~~e~ggtkG~lf~E~~~~~~A~~aVK~l~--G~~ld  131 (698)
T KOG2314|consen   58 DSVVVVDGAPVVGPARLEKLKKVLTKVFSKAG----KIVNMYYPIDEEGGTKGYLFVEYASMRDAKKAVKSLN--GKRLD  131 (698)
T ss_pred             ceEEEECCCcccChhHHHHHHHHHHHHHHhhc----cccceeeccCccCCeeeEEEEEecChhhHHHHHHhcc--cceec
Confidence            35788999875322      355778899999    89888888432     347899999999999999994  44444


Q ss_pred             -CeEEEEEecC
Q psy5142         344 -DVKVSIEVVT  353 (410)
Q Consensus       344 -g~~v~v~~l~  353 (410)
                       ++...+..+.
T Consensus       132 knHtf~v~~f~  142 (698)
T KOG2314|consen  132 KNHTFFVRLFK  142 (698)
T ss_pred             ccceEEeehhh
Confidence             6788888765

>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=89.12  E-value=2.6  Score=34.94  Aligned_cols=63  Identities=17%  Similarity=0.145  Sum_probs=47.1

Q ss_pred             eeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCC
Q psy5142         121 SLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDK  192 (410)
Q Consensus       121 tv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~  192 (410)
                      .+.+-..|+-++.++|..+.+.+.   ..|..++|+++..      ..+=.+.+.|.+.++|..+...+||+
T Consensus        15 ~~~l~vp~~~~~~d~l~~f~~~~~---~~i~~~riird~~------pnrymVLikF~~~~~Ad~Fy~~fNGk   77 (110)
T PF07576_consen   15 LCCLAVPPYMTPSDFLLFFGAPFR---EDIEHIRIIRDGT------PNRYMVLIKFRDQESADEFYEEFNGK   77 (110)
T ss_pred             EEEEEeCcccccHHHHHHhhhccc---ccEEEEEEeeCCC------CceEEEEEEECCHHHHHHHHHHhCCC
Confidence            344444455667777776666662   5788889988654      34667999999999999999999984

These proteins share a region of sequence similarity at their N terminus. They also have IPR001607 from INTERPRO at the C terminus.

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

Probab=88.65  E-value=1.7  Score=34.07  Aligned_cols=54  Identities=22%  Similarity=0.290  Sum_probs=39.7

Q ss_pred             eeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcC
Q psy5142         121 SLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENK  190 (410)
Q Consensus       121 tv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~  190 (410)
                      -||--.||.+.-..||.++|++|    |.|. |..+           .-.+|||.....+.|..|+..+.
T Consensus        10 HVFhltFPkeWK~~DI~qlFspf----G~I~-VsWi-----------~dTSAfV~l~~r~~~~~v~~~~~   63 (87)
T PF08675_consen   10 HVFHLTFPKEWKTSDIYQLFSPF----GQIY-VSWI-----------NDTSAFVALHNRDQAKVVMNTLK   63 (87)
T ss_dssp             CEEEEE--TT--HHHHHHHCCCC----CCEE-EEEE-----------CTTEEEEEECCCHHHHHHHHHHT
T ss_pred             eEEEEeCchHhhhhhHHHHhccC----CcEE-EEEE-----------cCCcEEEEeecHHHHHHHHHHhc
Confidence            34544499999999999999999    9875 4333           23469999999999999998876

; 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.

>KOG0115|consensus

Probab=88.44  E-value=0.45  Score=44.79  Aligned_cols=62  Identities=23%  Similarity=0.218  Sum_probs=56.1

Q ss_pred             eeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcC
Q psy5142         120 QSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENK  190 (410)
Q Consensus       120 rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~  190 (410)
                      ..|||.||+.-+..|.+..-|+.|    |+|....+.-+...     +..+-.+|+|...-.|.+|+....
T Consensus        32 a~l~V~nl~~~~sndll~~~f~~f----g~~e~av~~vD~r~-----k~t~eg~v~~~~k~~a~~a~rr~~   93 (275)
T KOG0115|consen   32 AELYVVNLMQGASNDLLEQAFRRF----GPIERAVAKVDDRG-----KPTREGIVEFAKKPNARKAARRCR   93 (275)
T ss_pred             ceEEEEecchhhhhHHHHHhhhhc----Cccchheeeecccc-----cccccchhhhhcchhHHHHHHHhc
Confidence            789999999999999999999999    99998887777666     678889999999999999998874

>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=88.44  E-value=0.57  Score=42.21  Aligned_cols=70  Identities=11%  Similarity=0.104  Sum_probs=43.9

Q ss_pred             ccceeeEeecCCCCCCHHHHHHHHhh-ccCCCCce---EEEE--EcccCcccccccccccEEEEEecCHHHHHHHHHhcC
Q psy5142         117 LIAQSLYVKYIPVDATLDDIKDFFKK-NTSEDVKI---TNII--MRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENK  190 (410)
Q Consensus       117 ~~~rtv~V~~lp~~~t~~~L~~~F~~-~~~~~G~I---~~v~--l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~  190 (410)
                      .....|.|+.||+..|++++.+.+++ +    +.-   ..+.  ........    ..-.-|||.|.+.+++..+...++
T Consensus         5 ~~~~KvVIR~LPP~LteeeF~~~i~~~l----~~~~~w~y~~g~~~~~~~~~----~~~SRaYi~F~~~~~~~~F~~~~~   76 (176)
T PF03467_consen    5 KEGTKVVIRRLPPNLTEEEFWEQISPWL----PDEWDWYYFQGKYGKKSFKP----PTYSRAYINFKNPEDLLEFRDRFD   76 (176)
T ss_dssp             ----EEEEEEE-TTS-HHHHCCCCSS------SSE---EEEEEEES-SSSTT----S--EEEEEEESSCHHHHHHHHHCT
T ss_pred             ccCceEEEeCCCCCCCHHHHHHHhhhhc----ccccceEEEecCCCCccCCC----CcceEEEEEeCCHHHHHHHHHhcC
Confidence            34568999999999999999987766 4    444   3333  11111110    123459999999999999999998


Q ss_pred             CCCccc
Q psy5142         191 DKNLKF  196 (410)
Q Consensus       191 g~~~~~  196 (410)
                      |  ..|
T Consensus        77 g--~~F   80 (176)
T PF03467_consen   77 G--HVF   80 (176)
T ss_dssp             T--EEE
T ss_pred             C--cEE
Confidence            7  455

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.

>KOG0804|consensus

Probab=88.28  E-value=1.2  Score=45.21  Aligned_cols=66  Identities=18%  Similarity=0.259  Sum_probs=58.0

Q ss_pred             cceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCC
Q psy5142         118 IAQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDK  192 (410)
Q Consensus       118 ~~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~  192 (410)
                      ..++|.|-.+|.-+|.-||..|...++   -.|.+|++.|+..      .++=.+.|.|.+.++|..+.+.+||+
T Consensus        73 ~~~mLcilaVP~~mt~~Dll~F~~~~~---~~I~~irivRd~~------pnrymvLIkFr~q~da~~Fy~efNGk  138 (493)
T KOG0804|consen   73 SSTMLCILAVPAYMTSHDLLRFCASFI---KQISDIRIVRDGM------PNRYMVLIKFRDQADADTFYEEFNGK  138 (493)
T ss_pred             CCcEEEEEeccccccHHHHHHHHHHHh---hhhheeEEeecCC------CceEEEEEEeccchhHHHHHHHcCCC
Confidence            378999999999999999999998874   7899999999544      35667999999999999999999984

>KOG2202|consensus

Probab=87.81  E-value=0.35  Score=45.55  Aligned_cols=57  Identities=26%  Similarity=0.331  Sum_probs=43.2

Q ss_pred             HHHHHHHH-hcCCCCCCeeEEEeeCCC-----ceEEEEeCChhHHHHHHHHhcCCCeEEcCeEEEEEec
Q psy5142         290 EDIREVLE-KVQTDDQEIVFIEFNVGE-----PTAFVRYKKENNAEAVLKALGSKEIVIKDVKVSIEVV  352 (410)
Q Consensus       290 edLk~~F~-~~G~~~~~V~~V~~~~g~-----~~afV~F~~~e~A~~Al~~l~~~~~~i~g~~v~v~~l  352 (410)
                      |++-..|. +||    +|..+.+-...     +-.||.|...++|++|+..|  ++-.++|++|...+.
T Consensus        83 Ed~f~E~~~kyg----Eiee~~Vc~Nl~~hl~GNVYV~f~~Ee~ae~a~~~l--nnRw~~G~pi~ae~~  145 (260)
T KOG2202|consen   83 EDVFTELEDKYG----EIEELNVCDNLGDHLVGNVYVKFRSEEDAEAALEDL--NNRWYNGRPIHAELS  145 (260)
T ss_pred             HHHHHHHHHHhh----hhhhhhhhcccchhhhhhhhhhcccHHHHHHHHHHH--cCccccCCcceeeec
Confidence            55555566 789    88776444322     23899999999999999999  678999998876654

>KOG2068|consensus

Probab=87.28  E-value=0.35  Score=47.20  Aligned_cols=70  Identities=17%  Similarity=0.388  Sum_probs=52.8

Q ss_pred             ccceeeEeecCCCCCCHHHHH---HHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCC
Q psy5142         117 LIAQSLYVKYIPVDATLDDIK---DFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKD  191 (410)
Q Consensus       117 ~~~rtv~V~~lp~~~t~~~L~---~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g  191 (410)
                      +..+-+||-+||.....+.+.   ++|.+|    |.|..|.+.++..... ...+.-.+||+|...|+|..||..++|
T Consensus        75 Vqknlvyvvgl~~~~ade~~l~~~eyfgqy----gki~ki~~~~~~S~~s-~~~~~~s~yITy~~~eda~rci~~v~g  147 (327)
T KOG2068|consen   75 VQKNLVYVVGLPLDLADESVLERTEYFGQY----GKINKIVKNKDPSSSS-SSGGTCSVYITYEEEEDADRCIDDVDG  147 (327)
T ss_pred             hhhhhhhhhCCCccccchhhhhCccccccc----ccceEEeecCCccccc-CCCCCCcccccccchHhhhhHHHHhhh
Confidence            455678999999775554443   789999    9999999988663100 002344599999999999999999986

>PF15023 DUF4523: Protein of unknown function (DUF4523)

Probab=87.00  E-value=2.6  Score=36.47  Aligned_cols=60  Identities=20%  Similarity=0.275  Sum_probs=46.1

Q ss_pred             CCCCeEEEEeCCCCCC-CHHHHHHHH---HhcCCCCCCeeEEEeeCCCceEEEEeCChhHHHHHHHHhc
Q psy5142         272 LPTGALLKISDIKEPV-SREDIREVL---EKVQTDDQEIVFIEFNVGEPTAFVRYKKENNAEAVLKALG  336 (410)
Q Consensus       272 ~~~g~~l~v~nL~~~~-t~edLk~~F---~~~G~~~~~V~~V~~~~g~~~afV~F~~~e~A~~Al~~l~  336 (410)
                      .++-.+|.|+-|...+ ..+||+.+.   +.||    .|..|. .-|..+|.|.|.+..+|=+|+.+++
T Consensus        83 epPMsTIVVRWlkknm~~~edl~sV~~~Ls~fG----pI~SVT-~cGrqsavVvF~d~~SAC~Av~Af~  146 (166)
T PF15023_consen   83 EPPMSTIVVRWLKKNMQPTEDLKSVIQRLSVFG----PIQSVT-LCGRQSAVVVFKDITSACKAVSAFQ  146 (166)
T ss_pred             CCCceeEEeehhhhcCChHHHHHHHHHHHHhcC----Ccceee-ecCCceEEEEehhhHHHHHHHHhhc
Confidence            3555567677666555 567777764   5689    898874 4688999999999999999999994

>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=86.88  E-value=0.77  Score=41.37  Aligned_cols=58  Identities=12%  Similarity=0.304  Sum_probs=40.1

Q ss_pred             CeEEEEeCCCCCCCHHHHHHHHHh-cCCCCCCe---eEEEeeCCC--------ceEEEEeCChhHHHHHHHHhc
Q psy5142         275 GALLKISDIKEPVSREDIREVLEK-VQTDDQEI---VFIEFNVGE--------PTAFVRYKKENNAEAVLKALG  336 (410)
Q Consensus       275 g~~l~v~nL~~~~t~edLk~~F~~-~G~~~~~V---~~V~~~~g~--------~~afV~F~~~e~A~~Al~~l~  336 (410)
                      ++-|.|+.||+..|++++.+.++. ++    +-   .|+....+.        +.|||.|.+.+++......++
T Consensus         7 ~~KvVIR~LPP~LteeeF~~~i~~~l~----~~~~w~y~~g~~~~~~~~~~~~SRaYi~F~~~~~~~~F~~~~~   76 (176)
T PF03467_consen    7 GTKVVIRRLPPNLTEEEFWEQISPWLP----DEWDWYYFQGKYGKKSFKPPTYSRAYINFKNPEDLLEFRDRFD   76 (176)
T ss_dssp             --EEEEEEE-TTS-HHHHCCCCSS--S----SE---EEEEEEES-SSSTTS--EEEEEEESSCHHHHHHHHHCT
T ss_pred             CceEEEeCCCCCCCHHHHHHHhhhhcc----cccceEEEecCCCCccCCCCcceEEEEEeCCHHHHHHHHHhcC
Confidence            456889999999999999997776 66    33   344322221        249999999999999999983

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.

>PF05918 API5: Apoptosis inhibitory protein 5 (API5); InterPro: IPR008383 This family consists of apoptosis inhibitory protein 5 (API5) sequences from several organisms

Probab=84.76  E-value=0.29  Score=51.67  Aligned_cols=8  Identities=38%  Similarity=0.576  Sum_probs=3.2

Q ss_pred             HHHHHHHH
Q psy5142          24 NQIIEQIE   31 (410)
Q Consensus        24 ~~i~~QlE   31 (410)
                      ..|..||+
T Consensus       133 ~~lf~~i~  140 (556)
T PF05918_consen  133 TGLFSQIE  140 (556)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHH
Confidence            33344443

Apoptosis or programmed cell death is a physiological form of cell death that occurs in embryonic development and organ formation. It is characterised by biochemical and morphological changes such as DNA fragmentation and cell volume shrinkage. API5 is an anti apoptosis gene located in Homo sapiens chromosome 11, whose expression prevents the programmed cell death that occurs upon the deprivation of growth factors [,].; PDB: 3U0R_A 3V6A_A.

>KOG1996|consensus

Probab=83.91  E-value=2.9  Score=40.20  Aligned_cols=58  Identities=16%  Similarity=0.106  Sum_probs=44.8

Q ss_pred             HHHHHHHHHhcCCCCCCeeEEEeeCCCc-------eEEEEeCChhHHHHHHHHhcCCCeEEcCeEEEEEec
Q psy5142         289 REDIREVLEKVQTDDQEIVFIEFNVGEP-------TAFVRYKKENNAEAVLKALGSKEIVIKDVKVSIEVV  352 (410)
Q Consensus       289 ~edLk~~F~~~G~~~~~V~~V~~~~g~~-------~afV~F~~~e~A~~Al~~l~~~~~~i~g~~v~v~~l  352 (410)
                      ++.+++.+.+||    .|..|-+....+       .-||+|...++|-+|+-.|  +|.-++|+.|..-.-
T Consensus       300 ede~keEceKyg----~V~~viifeip~~p~deavRiFveF~r~e~aiKA~Vdl--nGRyFGGr~v~A~Fy  364 (378)
T KOG1996|consen  300 EDETKEECEKYG----KVGNVIIFEIPSQPEDEAVRIFVEFERVESAIKAVVDL--NGRYFGGRVVSACFY  364 (378)
T ss_pred             HHHHHHHHHhhc----ceeeEEEEecCCCccchhheeeeeeccHHHHHHHHHhc--CCceecceeeeheec
Confidence            456788899999    776664432211       2699999999999999999  788999998876543

>PF01885 PTS_2-RNA: RNA 2'-phosphotransferase, Tpt1 / KptA family; InterPro: IPR002745 The final step of tRNA splicing in Saccharomyces cerevisiae (Baker's yeast) requires 2'-phosphotransferase (Tpt1) to transfer the 2'-phosphate from ligated tRNA to NAD, producing mature tRNA and ADP ribose-1' '-2' '-cyclic phosphate

Probab=82.67  E-value=2.7  Score=38.22  Aligned_cols=55  Identities=24%  Similarity=0.496  Sum_probs=36.1

Q ss_pred             CCeEehHHHHhhHHHHhccCcHHHHHHHHhhcCCceEEEe---cCccceecCCCCCCC
Q psy5142          53 DGWVELTTMLKFARLAKMTTEAKVIVDALKKSTSKLIEVN---EDGTKIRRNPEKELP  107 (410)
Q Consensus        53 ~g~v~l~~l~~F~r~k~l~~d~~~i~~Al~~~~S~~levs---ed~~~vrR~~~~p~p  107 (410)
                      +|||+|+.|+...+++....+.+.|.+.+...+-.-.++.   .++..||=.....+|
T Consensus        30 ~G~v~v~dLL~~~~~~~~~~t~~~i~~vV~~~~K~Rfel~~~~~~~~~IRA~qGHSi~   87 (186)
T PF01885_consen   30 DGWVSVDDLLRALRFKGLWVTEEDIREVVETDDKQRFELRYEDPGGWRIRANQGHSIP   87 (186)
T ss_dssp             T--EEHHHHHHHHHHT-TT--HHHHHHHHHH-SS--EEEE-----TTEEEESS--SS-
T ss_pred             CCCEeHHHHHHHHHHcCCCCCHHHHHHHHhhCCCCCeeEEcccccCceEEECCCCCCc
Confidence            5999999999999998777778889888887666678888   778899887655555

Yeast and Mus musculus (Mouse) Tpt1 protein and bacterial KptA protein can catalyze the conversion of the generated intermediate to both product and the original substrate, these enzymes likely use the same reaction mechanism. Step 1 of this reaction is strikingly similar to the ADP-ribosylation of proteins catalyzed by a number of bacterial toxins. KptA, a functional Tpt1 protein homologue from Escherichia coli is strikingly similar to yeast Tpt1 in its kinetic parameters, although E. coli is not known to have a 2'-phosphorylated RNA substrate [,].; GO: 0016772 transferase activity, transferring phosphorus-containing groups, 0006388 tRNA splicing, via endonucleolytic cleavage and ligation; PDB: 1WFX_A.

>KOG3973|consensus

Probab=82.11  E-value=0.9  Score=44.52  Aligned_cols=18  Identities=11%  Similarity=0.029  Sum_probs=8.6

Q ss_pred             ceeeEeecCCCCCCHHHH
Q psy5142         119 AQSLYVKYIPVDATLDDI  136 (410)
Q Consensus       119 ~rtv~V~~lp~~~t~~~L  136 (410)
                      .++|-..-.|.++++-.|
T Consensus       149 ~~~L~~~k~p~Nin~~~l  166 (465)
T KOG3973|consen  149 LRTLNFPKQPGNINEWKL  166 (465)
T ss_pred             HHHcCCCCCCCCchHHHH
Confidence            344444444555555433

>KOG4285|consensus

Probab=80.04  E-value=6.7  Score=37.99  Aligned_cols=71  Identities=11%  Similarity=0.125  Sum_probs=50.2

Q ss_pred             CeEEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCCCceEEEEeCChhHHHHHHHHhcCCCeEEcCeEE-EEEecC
Q psy5142         275 GALLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVGEPTAFVRYKKENNAEAVLKALGSKEIVIKDVKV-SIEVVT  353 (410)
Q Consensus       275 g~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g~~~afV~F~~~e~A~~Al~~l~~~~~~i~g~~v-~v~~l~  353 (410)
                      ..-|.|.|.|+.-. .-|-.+|.+||    .|..+........=+|||.+..+|++||..-   +..|+|..+ -|.-..
T Consensus       197 D~WVTVfGFppg~~-s~vL~~F~~cG----~Vvkhv~~~ngNwMhirYssr~~A~KALskn---g~ii~g~vmiGVkpCt  268 (350)
T KOG4285|consen  197 DTWVTVFGFPPGQV-SIVLNLFSRCG----EVVKHVTPSNGNWMHIRYSSRTHAQKALSKN---GTIIDGDVMIGVKPCT  268 (350)
T ss_pred             cceEEEeccCccch-hHHHHHHHhhC----eeeeeecCCCCceEEEEecchhHHHHhhhhc---CeeeccceEEeeeecC
Confidence            34567788776543 45778899999    8865544443445799999999999999874   677777543 555434

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	410
2vod_A	193	Crystal Structure Of N-Terminal Domains Of Human La		1e-38
1zh5_A	195	Structural Basis For Recognition Of Uuuoh 3'-Termin		3e-36
1yty_A	194	Structural Basis For Recognition Of Uuuoh 3'-Termin		7e-36
1s7a_A	103	Nmr Structure Of The La Motif Of Human La Protein L		2e-24
1s29_A	92	La Autoantigen N-Terminal Domain Length = 92		1e-10
1s79_A	103	Solution Structure Of The Central Rrm Of Human La P		4e-07
2cqk_A	101	Solution Structure Of The La Domain Of C-Mpl Bindin		8e-04

>pdb|2VOD|A Chain A, Crystal Structure Of N-Terminal Domains Of Human La Protein Complexed With Rna Oligomer Auauuuu Length = 193

Iteration: 1
 Score =  157 bits (396), Expect = 1e-38,   Method: Compositional matrix adjust.
 Identities = 84/176 (47%), Positives = 119/176 (67%), Gaps = 9/176 (5%)
Query: 11  GNSGAEAEVSKLENQIIEQIEYYFSDINLARDKFLQGEIKKDDGWVELTTMLKFARLAKM 70
           G++G   +++ LE +I  QIEYYF D NL RDKFL+ +IK D+GWV L  M+KF RL ++
Sbjct: 1   GSNGDNEKMAALEAKICHQIEYYFGDFNLPRDKFLKEQIKLDEGWVPLEIMIKFNRLNRL 60
Query: 71  TTEAKVIVDALKKSTSKLIEVNEDGTKIRRNPEKELPTFDIDFVKDLIAQSLYVKYIPVD 130
           TT+  VIV+AL KS ++L+E++ED TKIRR+P K LP    ++  D+  +S+Y+K  P D
Sbjct: 61  TTDFNVIVEALSKSKAELMEISEDKTKIRRSPSKPLPEVTDEYKNDVKNRSVYIKGFPTD 120
Query: 131 ATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFL 186
           ATLDDIK++ +       ++ NI MR         K FKGSIFV FD+ E+A+KF+
Sbjct: 121 ATLDDIKEWLEDKG----QVLNIQMRR-----TLHKAFKGSIFVVFDSIESAKKFV 167

>pdb|1ZH5|A Chain A, Structural Basis For Recognition Of Uuuoh 3'-Terminii Of Nascent Rna Pol Iii Transcripts By La Autoantigen Length = 195

Iteration: 1
 Score =  149 bits (376), Expect = 3e-36,   Method: Compositional matrix adjust.
 Identities = 84/181 (46%), Positives = 115/181 (63%), Gaps = 12/181 (6%)
Query: 6   SSATNGNSGAEAEVSKLENQIIEQIEYYFSDINLARDKFLQGEIKKDDGWVELTTMLKFA 65
           S A NG++   A    LE +I  QIEYYF D NL RDKFL+ +IK D+GWV L   +KF 
Sbjct: 1   SXAENGDNEKXA---ALEAKICHQIEYYFGDFNLPRDKFLKEQIKLDEGWVPLEIXIKFN 57
Query: 66  RLAKMTTEAKVIVDALKKSTSKLIEVNEDGTKIRRNPEKELPTFDIDFVKDLIAQSLYVK 125
           RL ++TT+  VIV+AL KS ++L E++ED TKIRR+P K LP    ++  D+  +S+Y+K
Sbjct: 58  RLNRLTTDFNVIVEALSKSKAELXEISEDKTKIRRSPSKPLPEVTDEYKNDVKNRSVYIK 117
Query: 126 YIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKF 185
             P DATLDDIK++ +             + N Q +    K FKGSIFV FD+ E+A+KF
Sbjct: 118 GFPTDATLDDIKEWLEDKGQ---------VLNIQXRRTLHKAFKGSIFVVFDSIESAKKF 168
Query: 186 L 186
           +
Sbjct: 169 V 169

>pdb|1YTY|A Chain A, Structural Basis For Recognition Of Uuuoh 3'-Terminii Of Nascent Rna Pol Iii Transcripts By La Autoantigen Length = 194

Iteration: 1
 Score =  147 bits (372), Expect = 7e-36,   Method: Compositional matrix adjust.
 Identities = 83/179 (46%), Positives = 114/179 (63%), Gaps = 12/179 (6%)
Query: 8   ATNGNSGAEAEVSKLENQIIEQIEYYFSDINLARDKFLQGEIKKDDGWVELTTMLKFARL 67
           A NG++   A    LE +I  QIEYYF D NL RDKFL+ +IK D+GWV L   +KF RL
Sbjct: 2   AENGDNEKXA---ALEAKICHQIEYYFGDFNLPRDKFLKEQIKLDEGWVPLEIXIKFNRL 58
Query: 68  AKMTTEAKVIVDALKKSTSKLIEVNEDGTKIRRNPEKELPTFDIDFVKDLIAQSLYVKYI 127
            ++TT+  VIV+AL KS ++L E++ED TKIRR+P K LP    ++  D+  +S+Y+K  
Sbjct: 59  NRLTTDFNVIVEALSKSKAELXEISEDKTKIRRSPSKPLPEVTDEYKNDVKNRSVYIKGF 118
Query: 128 PVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFL 186
           P DATLDDIK++ +             + N Q +    K FKGSIFV FD+ E+A+KF+
Sbjct: 119 PTDATLDDIKEWLEDKGQ---------VLNIQXRRTLHKAFKGSIFVVFDSIESAKKFV 168

>pdb|1S7A|A Chain A, Nmr Structure Of The La Motif Of Human La Protein Length = 103

Iteration: 1
 Score =  110 bits (274), Expect = 2e-24,   Method: Compositional matrix adjust.
 Identities = 52/97 (53%), Positives = 71/97 (73%)
Query: 11  GNSGAEAEVSKLENQIIEQIEYYFSDINLARDKFLQGEIKKDDGWVELTTMLKFARLAKM 70
             +G   +++ LE +I  QIEYYF D NL RDKFL+ +IK D+GWV L  M+KF RL ++
Sbjct: 2   AENGDNEKMAALEAKICHQIEYYFGDFNLPRDKFLKEQIKLDEGWVPLEIMIKFNRLNRL 61
Query: 71  TTEAKVIVDALKKSTSKLIEVNEDGTKIRRNPEKELP 107
           TT+  VIV+AL KS ++L+E++ED TKIRR+P K LP
Sbjct: 62  TTDFNVIVEALSKSKAELMEISEDKTKIRRSPSKPLP 98

>pdb|1S29|A Chain A, La Autoantigen N-Terminal Domain Length = 92

Iteration: 1
 Score = 63.9 bits (154), Expect = 1e-10,   Method: Compositional matrix adjust.
 Identities = 32/73 (43%), Positives = 54/73 (73%), Gaps = 3/73 (4%)
Query: 29  QIEYYFSDINLARDKFLQGEIKKD-DGWVELTTMLKFARLAKMTTEAKVIVDALKKSTSK 87
           Q+E+YFSD+N+ RD FL+G+  ++ +G+V L T+L F R+  +TT+ K +V+A++ S  K
Sbjct: 17  QVEFYFSDVNVQRDIFLKGKXAENAEGFVSLETLLTFKRVNSVTTDVKEVVEAIRPS-EK 75
Query: 88  LIEVNEDGTKIRR 100
           L+ ++EDG  +RR
Sbjct: 76  LV-LSEDGLXVRR 87

>pdb|1S79|A Chain A, Solution Structure Of The Central Rrm Of Human La Protein Length = 103

Iteration: 1
 Score = 52.4 bits (124), Expect = 4e-07,   Method: Compositional matrix adjust.
 Identities = 31/71 (43%), Positives = 44/71 (61%), Gaps = 9/71 (12%)
Query: 116 DLIAQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVT 175
           D+  +S+Y+K  P DATLDDIK++ +       ++ NI MR         K FKGSIFV 
Sbjct: 8   DVKNRSVYIKGFPTDATLDDIKEWLEDKG----QVLNIQMRR-----TLHKAFKGSIFVV 58
Query: 176 FDNKENAEKFL 186
           FD+ E+A+KF+
Sbjct: 59  FDSIESAKKFV 69

>pdb|2CQK|A Chain A, Solution Structure Of The La Domain Of C-Mpl Binding Protein Length = 101

Iteration: 1
 Score = 41.6 bits (96), Expect = 8e-04,   Method: Compositional matrix adjust.
 Identities = 21/71 (29%), Positives = 45/71 (63%), Gaps = 3/71 (4%)
Query: 29 QIEYYFSDINLARDKFLQGEIKKDDGWVELTTMLKFARLAKMTTEAKVIVDALKKSTSKL 88
          Q+E+ FS  NL++D +L  ++  D  ++ + T+     + K+TT+  +I++ L+  +S +
Sbjct: 21 QLEFCFSRENLSKDLYLISQMDSDQ-FIPIWTVANMEEIKKLTTDPDLILEVLR--SSPM 77
Query: 89 IEVNEDGTKIR 99
          ++V+E G K+R
Sbjct: 78 VQVDEKGEKVR 88

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	410
2voo_A	193	Lupus LA protein; RNA-binding protein, RNA recogni	9e-34
1s29_A	92	LA protein; winged helix-turn-helix, autoantigen,	3e-26
2cqk_A	101	C-MPL binding protein; LA domain, structural genom	4e-25
1owx_A	121	Lupus LA protein, SS-B, LA; RRM, transcription; NM	5e-12
1s79_A	103	Lupus LA protein; RRM, alpha/beta, RNA binding pro	6e-11
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	3e-08
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	9e-08
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	1e-05
1wez_A	102	HnRNP H', FTP-3, heterogeneous nuclear ribonucleop	2e-06
2hgn_A	139	Heterogeneous nuclear ribonucleoprotein F; RNA rec	2e-06
2cqp_A	98	RNA-binding protein 12; RNA recognition motif, RRM	7e-06
2dgw_A	91	Probable RNA-binding protein 19; RRM domain, struc	9e-06
2hgm_A	126	HNRPF protein, heterogeneous nuclear ribonucleopro	9e-06
2dnn_A	109	RNA-binding protein 12; RRM domain, RBD, structura	9e-06
2ek1_A	95	RNA-binding protein 12; RNA recognition motif, dim	1e-05
2cpy_A	114	RNA-binding protein 12; RRM domain, structural gen	1e-05
2dha_A	123	FLJ20171 protein; RRM domain, structural genomics,	1e-05
1wg1_A	88	KIAA1579 protein, homolog EXC-7; RBD, structural g	3e-05
1wg5_A	104	Heterogeneous nuclear ribonucleoprotein H; structu	6e-05
2hgl_A	136	HNRPF protein, heterogeneous nuclear ribonucleopro	2e-04
1wel_A	124	RNA-binding protein 12; structural genomics, NPPSF	2e-04
2db1_A	118	Heterogeneous nuclear ribonucleoprotein F; RRM dom	2e-04
2cpe_A	113	RNA-binding protein EWS; RNA recognition motif, RR	2e-04
2la6_A	99	RNA-binding protein FUS; structural genomics, nort	3e-04
1wi8_A	104	EIF-4B, eukaryotic translation initiation factor 4	4e-04
2lcw_A	116	RNA-binding protein FUS; RRM, nucleic acid binding	4e-04
3nmr_A	175	Cugbp ELAV-like family member 1; RRM, PRE-mRNA spl	6e-04
2j76_E	100	EIF-4B, EIF4B, eukaryotic translation initiation f	7e-04

>2voo_A Lupus LA protein; RNA-binding protein, RNA recognition motif, systemic lupus erythematosus, phosphoprotein, RNA maturation; 1.8A {Homo sapiens} SCOP: a.4.5.46 d.58.7.1 PDB: 2von_A 2vod_A 2vop_A 1zh5_A 1yty_A 1s7a_A Length = 193

 Score =  123 bits (310), Expect = 9e-34
 Identities = 91/231 (39%), Positives = 132/231 (57%), Gaps = 38/231 (16%)

Query: 11  GNSGAEAEVSKLENQIIEQIEYYFSDINLARDKFLQGEIKKDDGWVELTTMLKFARLAKM 70
           G++G   +++ LE +I  QIEYYF D NL RDKFL+ +IK D+GWV L  M+KF RL ++
Sbjct: 1   GSNGDNEKMAALEAKICHQIEYYFGDFNLPRDKFLKEQIKLDEGWVPLEIMIKFNRLNRL 60

Query: 71  TTEAKVIVDALKKSTSKLIEVNEDGTKIRRNPEKELPTFDIDFVKDLIAQSLYVKYIPVD 130
           TT+  VIV+AL KS ++L+E++ED TKIRR+P K LP    ++  D+  +S+Y+K  P D
Sbjct: 61  TTDFNVIVEALSKSKAELMEISEDKTKIRRSPSKPLPEVTDEYKNDVKNRSVYIKGFPTD 120

Query: 131 ATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENK 190
           ATLDDIK++ +       ++ NI MR    K      FKGSIFV FD+ E+A+KF+    
Sbjct: 121 ATLDDIKEWLEDKG----QVLNIQMRRTLHK-----AFKGSIFVVFDSIESAKKFVETP- 170

Query: 191 DKNLKFNENCEHKNAEKFLNENKDKNLKFNENCEHSLLIKWQQEYHEEKKQ 241
                                      K+ E     LLI ++ +Y  +K +
Sbjct: 171 -------------------------GQKYKET---DLLILFKDDYFAKKNE 193

>1s29_A LA protein; winged helix-turn-helix, autoantigen, RNA-binding, RNA binding protein; 1.60A {Trypanosoma brucei} SCOP: a.4.5.46 Length = 92

 Score =  100 bits (250), Expect = 3e-26
 Identities = 33/89 (37%), Positives = 61/89 (68%), Gaps = 5/89 (5%)

Query: 20  SKLENQIIEQIEYYFSDINLARDKFLQGEIKKD-DGWVELTTMLKFARLAKMTTEAKVIV 78
           S+ + ++ +Q+E+YFSD+N+ RD FL+G++ ++ +G+V L T+L F R+  +TT+ K +V
Sbjct: 8   SENKQKLQKQVEFYFSDVNVQRDIFLKGKMAENAEGFVSLETLLTFKRVNSVTTDVKEVV 67

Query: 79  DALKKSTSKLIEVNEDGTKIRRNPEKELP 107
           +A++ S    + ++EDG  +RR     LP
Sbjct: 68  EAIRPSE--KLVLSEDGLMVRRR--DPLP 92

>2cqk_A C-MPL binding protein; LA domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: a.4.5.46 Length = 101

 Score = 97.6 bits (243), Expect = 4e-25
 Identities = 23/98 (23%), Positives = 54/98 (55%), Gaps = 3/98 (3%)

Query: 10  NGNSGAEAEVSKLENQIIEQIEYYFSDINLARDKFLQGEIKKDDGWVELTTMLKFARLAK 69
           +  S        L+  + +Q+E+ FS  NL++D +L  ++   D ++ + T+     + K
Sbjct: 2   SSGSSGAVSTEDLKECLKKQLEFCFSRENLSKDLYLISQMDS-DQFIPIWTVANMEEIKK 60

Query: 70  MTTEAKVIVDALKKSTSKLIEVNEDGTKIRRNPEKELP 107
           +TT+  +I++ L+ S   +++V+E G K+R + ++ + 
Sbjct: 61  LTTDPDLILEVLRSSP--MVQVDEKGEKVRPSHKRCIS 96

>1owx_A Lupus LA protein, SS-B, LA; RRM, transcription; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 121

 Score = 61.5 bits (149), Expect = 5e-12
 Identities = 29/124 (23%), Positives = 55/124 (44%), Gaps = 6/124 (4%)

Query: 259 EGNTEGSKQVVLELPTGALLKIS-DIKEPVSREDIREVLEKVQTDDQEIVFIEFNVGEPT 317
            G+        LE   G LLK S D+ +   RED+  +         EI +I+F  G   
Sbjct: 2   RGSHHHHHHGSLEEKIGCLLKFSGDLDDQTCREDLHILFSNHG----EIKWIDFVRGAKE 57

Query: 318 AFVRYKKENN-AEAVLKALGSKEIVIKDVKVSIEVVTGEEEQTVLDRMKIDIFKRRQKLM 376
             + +K++   A    K   +  + +++ +V+ EV+ GE E+  L ++  D  +   K  
Sbjct: 58  GIILFKEKAKEALGKAKDANNGNLQLRNKEVTWEVLEGEVEKEALKKIIEDQQESLNKWK 117

Query: 377 NEKK 380
           ++ +
Sbjct: 118 SKGR 121

>1s79_A Lupus LA protein; RRM, alpha/beta, RNA binding protein, translation; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 103

 Score = 58.2 bits (141), Expect = 6e-11
 Identities = 39/137 (28%), Positives = 61/137 (44%), Gaps = 38/137 (27%)

Query: 113 FVKDLIAQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSI 172
              D+  +S+Y+K  P DATLDDIK++ +       ++ NI MR    K      FKGSI
Sbjct: 5   LKNDVKNRSVYIKGFPTDATLDDIKEWLEDKG----QVLNIQMRRTLHK-----AFKGSI 55

Query: 173 FVTFDNKENAEKFLNENKDKNLKFNENCEHKNAEKFLNENKDKNLKFNENCEHSLLIKWQ 232
           FV FD+ E+A+KF+        K+                           E  LLI ++
Sbjct: 56  FVVFDSIESAKKFVETP---GQKYK--------------------------ETDLLILFK 86

Query: 233 QEYHEEKKQEVRSKRDK 249
            +Y  +K +E +  + +
Sbjct: 87  DDYFAKKNEERKQNKVE 103

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

 Score = 54.9 bits (131), Expect = 3e-08
 Identities = 51/425 (12%), Positives = 124/425 (29%), Gaps = 114/425 (26%)

Query: 15  AEAEVSKL--ENQIIEQIEYYFSDINLAR-----DKFLQGEIKKDDGWVELTTMLKFARL 67
           ++ E+  +      +      F    L++      KF++  ++ +  ++        + +
Sbjct: 47  SKEEIDHIIMSKDAVSGTLRLF-WTLLSKQEEMVQKFVEEVLRINYKFL-------MSPI 98

Query: 68  AKMTTEAKVIVDALKKSTSKLIEVNEDGTKI---RRNPEKELPTFDIDFVKDLIAQSLYV 124
                +  ++     +   +L   N+   K    R  P  +L        +  + +    
Sbjct: 99  KTEQRQPSMMTRMYIEQRDRLYNDNQVFAKYNVSRLQPYLKL--------RQALLELRPA 150

Query: 125 KYIPVDATLDDIKDFFK----KNTSEDVKITNIIMRNYQDKLANQKKFKGSIF-VTFDNK 179
           K +     +D +    K     +     K+              Q K    IF +   N 
Sbjct: 151 KNV----LIDGVLGSGKTWVALDVCLSYKV--------------QCKMDFKIFWLNLKNC 192

Query: 180 ENAEKFLNENKDKNL------KFNENCEH-KNAEKFLNENKD--KNLKFNENCEHSLLIK 230
            + E  L     + L       +    +H  N +  ++  +   + L  ++  E+ LL+ 
Sbjct: 193 NSPETVL--EMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVL 250

Query: 231 ---WQQEYHEEKKQEVRSK-----RDKS-----------KKSTEGDGEGNTEG-SKQVVL 270
                 +        +  K     R K              S +      T    K ++L
Sbjct: 251 LNVQNAK--AWNAFNLSCKILLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLL 308

Query: 271 --------ELP----TGALLKISDIKEPVSREDIR-EVLEKVQTDDQEIVFIEFNVGEPT 317
                   +LP    T    ++S I E +       +  + V  D    + IE       
Sbjct: 309 KYLDCRPQDLPREVLTTNPRRLSIIAESIRDGLATWDNWKHVNCDKLTTI-IE------- 360

Query: 318 AFVRYKKENNAEAVLKALGSKEIVIKDVKVSIEV-------VTGEEEQTVLDRM-KIDIF 369
           + +   +      +   L    +      +   +       V   +   V++++ K  + 
Sbjct: 361 SSLNVLEPAEYRKMFDRLS---VFPPSAHIPTILLSLIWFDVIKSDVMVVVNKLHKYSLV 417

Query: 370 KRRQK 374
           +++ K
Sbjct: 418 EKQPK 422

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

 Score = 53.3 bits (127), Expect = 9e-08
 Identities = 44/324 (13%), Positives = 94/324 (29%), Gaps = 95/324 (29%)

Query: 106 LPTFDIDFVKDLIAQSLYVKYIPVDATLDDIKDFFKKNTSED-VKITNIIMRNYQDKLAN 164
           L  F+  FV +        K +      D  K    K   +  +   + +    +     
Sbjct: 22  LSVFEDAFVDN-----FDCKDVQ-----DMPKSILSKEEIDHIIMSKDAVSGTLR----- 66

Query: 165 QKKFKGSIFVTFDNKEN--AEKFLNENKDKNLKFNENCEHKNAEKFLNENKDKNLK---- 218
                  +F T  +K+    +KF+ E    N KF              E +  ++     
Sbjct: 67  -------LFWTLLSKQEEMVQKFVEEVLRINYKF-------LMSPIKTEQRQPSMMTRMY 112

Query: 219 -------FNENCEHSLLIKWQQEYH---EEKKQEVRSK----RDKSKKSTEGDGEGNTEG 264
                  +N+N    +  K    Y+    +   ++R      R       +G       G
Sbjct: 113 IEQRDRLYNDN---QVFAK----YNVSRLQPYLKLRQALLELRPAKNVLIDGVL-----G 160

Query: 265 S-KQV-VLE----------LPTGAL-LKISDIKEPVSREDIREVLEKV----------QT 301
           S K    L+          +      L + +   P   E + E+L+K+          ++
Sbjct: 161 SGKTWVALDVCLSYKVQCKMDFKIFWLNLKNCNSP---ETVLEMLQKLLYQIDPNWTSRS 217

Query: 302 DDQEIVFIEFNVGEP--TAFVRYKKENNAEAVLKALGSKEIVIK-DVKVSIEVVTGEEEQ 358
           D    + +  +  +      ++ K   N   VL  + + +     ++   I + T    +
Sbjct: 218 DHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQNAKAWNAFNLSCKILLTT--RFK 275

Query: 359 TVLDRMKIDIFKRRQKLMNEKKSG 382
            V D   +         ++     
Sbjct: 276 QVTDF--LSAATTTHISLDHHSMT 297

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

 Score = 46.8 bits (110), Expect = 1e-05
 Identities = 38/267 (14%), Positives = 76/267 (28%), Gaps = 81/267 (30%)

Query: 28  EQIEYYFSDINLARDKFLQGEIKK------DDGWVELTTMLKFARLAK--MTTEAKVIVD 79
             I+     I     + L+ +  +       +          F    K  +TT  K + D
Sbjct: 221 SNIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQ-NAKAWNAFNLSCKILLTTRFKQVTD 279

Query: 80  ALKKSTSKLIEVNEDGTKIRRNPEKELPTFDIDFVKDLIAQSLYVKY--IPVDATL---- 133
            L  +T+  I +           +    T   D VK L+ + L  +   +P +       
Sbjct: 280 FLSAATTTHISL-----------DHHSMTLTPDEVKSLLLKYLDCRPQDLPREVLTTNPR 328

Query: 134 ----------DDIK--DFFKKNTSEDVKITNIIMR--NYQDKLANQKKFKG-SIFVTFDN 178
                     D +   D +K    +  K+T II    N  +    +K F   S+F     
Sbjct: 329 RLSIIAESIRDGLATWDNWKHVNCD--KLTTIIESSLNVLEPAEYRKMFDRLSVF----- 381

Query: 179 KENAEKFLNENKDKNLKFN------ENCEHKNAEKFLNENKDKNLKFNENCEHSLLIKWQ 232
                         ++          +    +    +N+              SL+ K  
Sbjct: 382 ----------PPSAHIPTILLSLIWFDVIKSDVMVVVNKLHKY----------SLVEKQP 421

Query: 233 QEY-------HEEKKQEVRSKRDKSKK 252
           +E        + E K ++ ++    + 
Sbjct: 422 KESTISIPSIYLELKVKLENEYALHRS 448

>1wez_A HnRNP H', FTP-3, heterogeneous nuclear ribonucleoprotein H'; structural genomics, RRM domain, riken structural genomics/proteomics initiative, RSGI; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 102

 Score = 45.1 bits (107), Expect = 2e-06
 Identities = 14/71 (19%), Positives = 29/71 (40%), Gaps = 10/71 (14%)

Query: 122 LYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKEN 181
           ++++ +P  AT +DI +FF       +    + +    D      +  G   V F   E+
Sbjct: 18  VHMRGLPYRATENDIYNFFS-----PLNPMRVHIEIGPD-----GRVTGEADVEFATHED 67

Query: 182 AEKFLNENKDK 192
           A   + ++K  
Sbjct: 68  AVAAMAKDKAN 78

>2hgn_A Heterogeneous nuclear ribonucleoprotein F; RNA recognition motif, G-tract, G-quadruplex, alternative splicing, RNA binding protein; NMR {Homo sapiens} PDB: 2kg1_A Length = 139

 Score = 46.0 bits (109), Expect = 2e-06
 Identities = 17/118 (14%), Positives = 39/118 (33%), Gaps = 15/118 (12%)

Query: 80  ALKK----STSKLIEVNEDGTKIRRNPEKELPTFDIDFVKDLIAQ-SLYVKYIPVDATLD 134
                    +S L+        +    +    + D +F         ++++ +P  AT +
Sbjct: 2   GSSHHHHHHSSGLVPRGSHMASMTGGQQMGRGSGDSEFTVQSTTGHCVHMRGLPYKATEN 61

Query: 135 DIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDK 192
           DI +FF       +    + +    D      +  G   V F   E A   +++++  
Sbjct: 62  DIYNFFS-----PLNPVRVHIEIGPD-----GRVTGEADVEFATHEEAVAAMSKDRAN 109

>2cqp_A RNA-binding protein 12; RNA recognition motif, RRM, RNA binding domain, RBD, RNP, structural genomics, NPPSFA; NMR {Mus musculus} SCOP: d.58.7.1 Length = 98

 Score = 43.4 bits (103), Expect = 7e-06
 Identities = 14/74 (18%), Positives = 31/74 (41%), Gaps = 8/74 (10%)

Query: 122 LYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKEN 181
           + V+ +P   ++D+I DFF         I   +   Y +    +    G   V F++++ 
Sbjct: 18  IKVQNMPFTVSIDEILDFFYGYQ----VIPGSVCLKYNE----KGMPTGEAMVAFESRDE 69

Query: 182 AEKFLNENKDKNLK 195
           A   + +  D+ + 
Sbjct: 70  ATAAVIDLNDRPIG 83

>2dgw_A Probable RNA-binding protein 19; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Length = 91

 Score = 43.1 bits (102), Expect = 9e-06
 Identities = 15/72 (20%), Positives = 31/72 (43%), Gaps = 10/72 (13%)

Query: 121 SLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKE 180
           ++ ++  P + T  ++ +F        ++    I+RN            G IFV F N+E
Sbjct: 12  TVKLRGAPFNVTEKNVMEFLAPLKPVAIR----IVRNA------HGNKTGYIFVDFSNEE 61

Query: 181 NAEKFLNENKDK 192
             ++ L  N++ 
Sbjct: 62  EVKQALKCNREY 73

>2hgm_A HNRPF protein, heterogeneous nuclear ribonucleoprotein F; RNA recognition motif, G-tract, G-quadruplex, alternative splicing, RNA binding protein; NMR {Homo sapiens} PDB: 2kg0_A Length = 126

 Score = 43.7 bits (103), Expect = 9e-06
 Identities = 17/71 (23%), Positives = 33/71 (46%), Gaps = 8/71 (11%)

Query: 122 LYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKEN 181
           + ++ +P   T ++I  FF      ++    I +    +      K  G  FV F ++E 
Sbjct: 45  VRLRGLPFGCTKEEIVQFFSGL---EIVPNGITLPVDPE-----GKITGEAFVQFASQEL 96

Query: 182 AEKFLNENKDK 192
           AEK L ++K++
Sbjct: 97  AEKALGKHKER 107

>2dnn_A RNA-binding protein 12; RRM domain, RBD, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Length = 109

 Score = 43.6 bits (103), Expect = 9e-06
 Identities = 12/71 (16%), Positives = 29/71 (40%), Gaps = 10/71 (14%)

Query: 122 LYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKEN 181
           + V  +P  A  +D++DFF       +++  + +           +  G+  V F + ++
Sbjct: 19  VSVHGMPFSAMENDVRDFFH-----GLRVDAVHLLKDHV-----GRNNGNGLVKFLSPQD 68

Query: 182 AEKFLNENKDK 192
             + L  N+  
Sbjct: 69  TFEALKRNRML 79

>2ek1_A RNA-binding protein 12; RNA recognition motif, dimer, structural genomics, NPPSFA, national project on protein structural and functional analyses; 2.00A {Homo sapiens} PDB: 2ek6_A Length = 95

 Score = 43.1 bits (102), Expect = 1e-05
 Identities = 14/73 (19%), Positives = 31/73 (42%), Gaps = 8/73 (10%)

Query: 122 LYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKEN 181
           + V+ +P   ++D+I DFF         I   +   Y +    +    G   V F++++ 
Sbjct: 18  IKVQNMPFTVSIDEILDFFYGYQ----VIPGSVCLKYNE----KGMPTGEAMVAFESRDE 69

Query: 182 AEKFLNENKDKNL 194
           A   + +  D+ +
Sbjct: 70  ATAAVIDLNDRPI 82

>2cpy_A RNA-binding protein 12; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 114

 Score = 43.2 bits (102), Expect = 1e-05
 Identities = 13/72 (18%), Positives = 29/72 (40%), Gaps = 8/72 (11%)

Query: 121 SLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKE 180
             ++  IP   T  D+  F +    ++  +   ++ +      N  +  G   V F N++
Sbjct: 17  CAHITNIPFSITKMDVLQFLEGIPVDENAVH--VLVD------NNGQGLGQALVQFKNED 68

Query: 181 NAEKFLNENKDK 192
           +A K    ++ K
Sbjct: 69  DARKSERLHRKK 80

>2dha_A FLJ20171 protein; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Length = 123

 Score = 43.3 bits (102), Expect = 1e-05
 Identities = 17/71 (23%), Positives = 32/71 (45%), Gaps = 5/71 (7%)

Query: 122 LYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKEN 181
           + ++ +P  AT +++  FF ++         I+   Y D      +  G  FV F  +E 
Sbjct: 26  VRMRGLPFTATAEEVVAFFGQHCPITGGKEGILFVTYPD-----GRPTGDAFVLFACEEY 80

Query: 182 AEKFLNENKDK 192
           A+  L ++KD 
Sbjct: 81  AQNALRKHKDL 91

>1wg1_A KIAA1579 protein, homolog EXC-7; RBD, structural genomics, riken structural genomics/proteomics initiative, RSGI, RNA binding protein; NMR {Homo sapiens} SCOP: d.58.7.1 PDB: 1wi6_A Length = 88

 Score = 41.6 bits (98), Expect = 3e-05
 Identities = 15/74 (20%), Positives = 26/74 (35%), Gaps = 15/74 (20%)

Query: 122 LYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKEN 181
           + VK +P D+   ++ D  K                Y  K     + K + FVT  N E 
Sbjct: 8   ILVKNLPQDSNCQEVHDLLKD---------------YDLKYCYVDRNKRTAFVTLLNGEQ 52

Query: 182 AEKFLNENKDKNLK 195
           A+  +      + +
Sbjct: 53  AQNAIQMFHQYSFR 66

>1wg5_A Heterogeneous nuclear ribonucleoprotein H; structural genomics, RRM domain, riken structural genomics/proteomics initiative, RSGI; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 104

 Score = 40.9 bits (96), Expect = 6e-05
 Identities = 15/71 (21%), Positives = 33/71 (46%), Gaps = 8/71 (11%)

Query: 122 LYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKEN 181
           + ++ +P   + ++I  FF         +   +  ++      Q +  G  FV F ++E 
Sbjct: 18  VRLRGLPFGCSKEEIVQFFSGLEIVPNGM--TLPVDF------QGRSTGEAFVQFASQEI 69

Query: 182 AEKFLNENKDK 192
           AEK L ++K++
Sbjct: 70  AEKALKKHKER 80

>2hgl_A HNRPF protein, heterogeneous nuclear ribonucleoprotein F; RNA recognition motif, G-tract, G-quadruplex, alternative, splicing, RNA binding protein; NMR {Homo sapiens} PDB: 2kfy_A Length = 136

 Score = 40.4 bits (94), Expect = 2e-04
 Identities = 9/71 (12%), Positives = 31/71 (43%), Gaps = 6/71 (8%)

Query: 122 LYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKEN 181
           + ++ +P   +++D+++F    T  D       +         + +  G  FV   ++++
Sbjct: 47  VKLRGLPWSCSVEDVQNFLSDCTIHDGAAGVHFIYT------REGRQSGEAFVELGSEDD 100

Query: 182 AEKFLNENKDK 192
            +  L ++++ 
Sbjct: 101 VKMALKKDRES 111

>1wel_A RNA-binding protein 12; structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 124

 Score = 40.2 bits (94), Expect = 2e-04
 Identities = 19/71 (26%), Positives = 29/71 (40%), Gaps = 8/71 (11%)

Query: 122 LYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKEN 181
           +Y+K +P +A    + DFFKK    +  I   I            K  G  FV F N+ +
Sbjct: 28  VYLKGLPFEAENKHVIDFFKKLDIVEDSIY--IAYGPNG------KATGEGFVEFRNEAD 79

Query: 182 AEKFLNENKDK 192
            +  L  +K  
Sbjct: 80  YKAALCRHKQY 90

>2db1_A Heterogeneous nuclear ribonucleoprotein F; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Mus musculus} Length = 118

 Score = 39.9 bits (93), Expect = 2e-04
 Identities = 9/71 (12%), Positives = 32/71 (45%), Gaps = 6/71 (8%)

Query: 122 LYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKEN 181
           + ++ +P   +++D+++F    T  D       +         + +  G  FV  +++++
Sbjct: 20  VKLRGLPWSCSIEDVQNFLSDCTIHDGVAGVHFIYT------REGRQSGEAFVELESEDD 73

Query: 182 AEKFLNENKDK 192
            +  L ++++ 
Sbjct: 74  VKLALKKDRES 84

>2cpe_A RNA-binding protein EWS; RNA recognition motif, RRM, RNP, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 113

 Score = 39.7 bits (93), Expect = 2e-04
 Identities = 18/66 (27%), Positives = 33/66 (50%), Gaps = 4/66 (6%)

Query: 121 SLYVKYIPVDATLDDIKDFFKK--NTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDN 178
           ++YV+ +    TLDD+ DFFK+      + +    ++  Y DK     K KG   V++++
Sbjct: 17  AIYVQGLNDSVTLDDLADFFKQCGVVKMNKRTGQPMIHIYLDK--ETGKPKGDATVSYED 74

Query: 179 KENAEK 184
              A+ 
Sbjct: 75  PPTAKA 80

>2la6_A RNA-binding protein FUS; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative, RNA recognition; NMR {Homo sapiens} Length = 99

 Score = 38.8 bits (91), Expect = 3e-04
 Identities = 15/66 (22%), Positives = 34/66 (51%), Gaps = 4/66 (6%)

Query: 121 SLYVKYIPVDATLDDIKDFFKK--NTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDN 178
           +++V+ +  + T++ + D+FK+      + K    ++  Y D+     K KG   V+FD+
Sbjct: 15  TIFVQGLGENVTIESVADYFKQIGIIKTNKKTGQPMINLYTDR--ETGKLKGEATVSFDD 72

Query: 179 KENAEK 184
             +A+ 
Sbjct: 73  PPSAKA 78

>1wi8_A EIF-4B, eukaryotic translation initiation factor 4B; RNA recognition motif, RRM, RNA binding domain, RBD, RNP, structural genomics; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 104

 Score = 38.8 bits (91), Expect = 4e-04
 Identities = 14/70 (20%), Positives = 33/70 (47%), Gaps = 10/70 (14%)

Query: 121 SLYVKYIPVDATLDDIKDFFKKNTSEDVKITNI-IMRNYQDKLANQKKFKGSIFVTFDNK 179
           + ++  +P D T + IK+FF       + I+ + + R   +     ++ KG  +  F++ 
Sbjct: 17  TAFLGNLPYDVTEESIKEFF-----RGLNISAVRLPREPSN----PERLKGFGYAEFEDL 67

Query: 180 ENAEKFLNEN 189
           ++    L+ N
Sbjct: 68  DSLLSALSLN 77

>2lcw_A RNA-binding protein FUS; RRM, nucleic acid binding protein; NMR {Homo sapiens} Length = 116

 Score = 38.9 bits (91), Expect = 4e-04
 Identities = 15/66 (22%), Positives = 34/66 (51%), Gaps = 4/66 (6%)

Query: 121 SLYVKYIPVDATLDDIKDFFKK--NTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDN 178
           +++V+ +  + T++ + D+FK+      + K    ++  Y D+     K KG   V+FD+
Sbjct: 9   TIFVQGLGENVTIESVADYFKQIGIIKTNKKTGQPMINLYTDRETG--KLKGEATVSFDD 66

Query: 179 KENAEK 184
             +A+ 
Sbjct: 67  PPSAKA 72

>3nmr_A Cugbp ELAV-like family member 1; RRM, PRE-mRNA splicing, RNA binding protein-RNA complex; 1.85A {Homo sapiens} PDB: 3nna_A 3nnc_A 2dhs_A 3nnh_A Length = 175

 Score = 39.5 bits (93), Expect = 6e-04
 Identities = 15/64 (23%), Positives = 31/64 (48%), Gaps = 8/64 (12%)

Query: 122 LYVKYIPVDATLDDIKDFFKKNTSEDVKITNI-IMRNYQDKLANQKKFKGSIFVTFDNKE 180
           ++V  +P   +  D+++ F     +   +  I ++R   D+  N  + KG  FVTF  ++
Sbjct: 6   MFVGQVPRTWSEKDLRELF----EQYGAVYEINVLR---DRSQNPPQSKGCCFVTFYTRK 58

Query: 181 NAEK 184
            A +
Sbjct: 59  AALE 62

>2j76_E EIF-4B, EIF4B, eukaryotic translation initiation factor 4B; protein biosynthesis, RNA recognition motif, RNA binding domain, RRM, RBD, RNP; NMR {Homo sapiens} Length = 100

 Score = 38.0 bits (89), Expect = 7e-04
 Identities = 14/70 (20%), Positives = 33/70 (47%), Gaps = 10/70 (14%)

Query: 121 SLYVKYIPVDATLDDIKDFFKKNTSEDVKITNI-IMRNYQDKLANQKKFKGSIFVTFDNK 179
           + ++  +P D T + IK+FF       + I+ + + R   +     ++ KG  +  F++ 
Sbjct: 21  TAFLGNLPYDVTEESIKEFF-----RGLNISAVRLPREPSN----PERLKGFGYAEFEDL 71

Query: 180 ENAEKFLNEN 189
           ++    L+ N
Sbjct: 72  DSLLSALSLN 81

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	410
2voo_A	193	Lupus LA protein; RNA-binding protein, RNA recogni	100.0
2cqk_A	101	C-MPL binding protein; LA domain, structural genom	99.96
1s29_A	92	LA protein; winged helix-turn-helix, autoantigen,	99.96
4f02_A	213	Polyadenylate-binding protein 1; mRNA, eukaryotic	99.94
3md3_A	166	Nuclear and cytoplasmic polyadenylated RNA-bindin	99.94
1l3k_A	196	Heterogeneous nuclear ribonucleoprotein A1; nuclea	99.93
1b7f_A	168	Protein (SXL-lethal protein), RNA (5'-R(P*GP*UP*UP	99.93
1fxl_A	167	Paraneoplastic encephalomyelitis antigen HUD; prot	99.93
2qfj_A	216	FBP-interacting repressor; protein-DNA complex; HE	99.93
3nmr_A	175	Cugbp ELAV-like family member 1; RRM, PRE-mRNA spl	99.93
2cjk_A	167	Nuclear polyadenylated RNA-binding protein 4; HRP1	99.92
2g4b_A	172	Splicing factor U2AF 65 kDa subunit; protein-RNA c	99.91
1owx_A	121	Lupus LA protein, SS-B, LA; RRM, transcription; NM	99.91
3smz_A	284	Protein raver-1, ribonucleoprotein PTB-binding 1;	99.91
3pgw_A	282	U1-A; protein-RNA complex, U1 snRNA, SM fold, SM c	99.9
2yh0_A	198	Splicing factor U2AF 65 kDa subunit; PRE-mRNA spli	99.9
3tyt_A	205	Heterogeneous nuclear ribonucleoprotein L; ferredo	99.9
1fje_B	175	Nucleolin RBD12, protein C23; RNP, RRM, RNA bindin	99.9
2adc_A	229	Polypyrimidine tract-binding protein 1; RBD, RRM,	99.89
1qm9_A	198	Polypyrimidine tract-binding protein; ribonucleopr	99.88
3sde_A	261	Paraspeckle component 1; RRM, anti parallel right	99.88
2ghp_A	292	U4/U6 snRNA-associated splicing factor PRP24; RNA	99.88
3smz_A	284	Protein raver-1, ribonucleoprotein PTB-binding 1;	99.88
2ghp_A	292	U4/U6 snRNA-associated splicing factor PRP24; RNA	99.87
1s79_A	103	Lupus LA protein; RRM, alpha/beta, RNA binding pro	99.72
4f25_A	115	Polyadenylate-binding protein 1; RRM fold, transla	99.66
4fxv_A	99	ELAV-like protein 1; RNA recognition motif, putati	99.61
3pgw_S	437	U1-70K; protein-RNA complex, U1 snRNA, SM fold, SM	99.6
2kn4_A	158	Immunoglobulin G-binding protein G, splicing FACT	99.58
3s8s_A	110	Histone-lysine N-methyltransferase SETD1A; chromat	99.55
2lxi_A	91	RNA-binding protein 10; NMR {Homo sapiens}	99.55
2i2y_A	150	Fusion protein consists of immunoglobin G- binding	99.54
3mdf_A	85	Peptidyl-prolyl CIS-trans isomerase E; RRM domain,	99.53
3bs9_A	87	Nucleolysin TIA-1 isoform P40; RNA recognition mot	99.53
2lkz_A	95	RNA-binding protein 5; RRM; NMR {Homo sapiens}	99.53
3p5t_L	90	Cleavage and polyadenylation specificity factor S;	99.52
3ucg_A	89	Polyadenylate-binding protein 2; ferredoxin-like,	99.52
1whw_A	99	Hypothetical protein riken cDNA 1200009A02; RNA re	99.51
3lqv_A	115	PRE-mRNA branch site protein P14; cysless mutant,	99.51
2dnz_A	95	Probable RNA-binding protein 23; RNA recognition m	99.51
3md1_A	83	Nuclear and cytoplasmic polyadenylated RNA-bindin	99.51
3s7r_A	87	Heterogeneous nuclear ribonucleoprotein A/B; ferre	99.51
2ywk_A	95	Putative RNA-binding protein 11; RRM-domain, struc	99.5
1p27_B	106	RNA-binding protein 8A; nuclear protein, mRNA spli	99.5
2dgs_A	99	DAZ-associated protein 1; RRM domain, structural g	99.5
1x5s_A	102	Cold-inducible RNA-binding protein; structure geno	99.5
2cqc_A	95	Arginine/serine-rich splicing factor 10; RNA recog	99.49
1x5u_A	105	Splicing factor 3B subunit 4 (spliceosome associat	99.49
2x1f_A	96	MRNA 3'-END-processing protein RNA15; transcriptio	99.49
2e5h_A	94	Zinc finger CCHC-type and RNA-binding motif- conta	99.49
2dgo_A	115	Cytotoxic granule-associated RNA binding protein 1	99.49
1sjq_A	105	Polypyrimidine tract-binding protein 1; babbab mot	99.49
3ex7_B	126	RNA-binding protein 8A; protein-RNA complex, mRNA	99.49
2cq0_A	103	Eukaryotic translation initiation factor 3 subunit	99.49
4a8x_A	88	RNA-binding protein with serine-rich domain 1; tra	99.49
2rs2_A	109	Musashi-1, RNA-binding protein musashi homolog 1;	99.49
2do4_A	100	Squamous cell carcinoma antigen recognized by T- c	99.49
3r27_A	100	HnRNP L, heterogeneous nuclear ribonucleoprotein L	99.49
1sjq_A	105	Polypyrimidine tract-binding protein 1; babbab mot	99.49
2la6_A	99	RNA-binding protein FUS; structural genomics, nort	99.48
2cph_A	107	RNA binding motif protein 19; RNA recognition moti	99.48
2dnm_A	103	SRP46 splicing factor; RRM domain, RBD, structural	99.48
2cpf_A	98	RNA binding motif protein 19; RNA recognition moti	99.48
1uaw_A	77	Mouse-musashi-1; RNP-type structure, RNA binding p	99.48
2cq4_A	114	RNA binding motif protein 23; RRM domain, structur	99.48
2krb_A	81	Eukaryotic translation initiation factor 3 subunit	99.48
1x4e_A	85	RNA binding motif, single-stranded interacting pro	99.48
1x5t_A	96	Splicing factor 3B subunit 4; structure genomics,	99.48
1p1t_A	104	Cleavage stimulation factor, 64 kDa subunit; RNA r	99.48
2mss_A	75	Protein (musashi1); RNA-binding domain, RNA bindin	99.48
2dgu_A	103	Heterogeneous nuclear ribonucleoprotein Q; RRM dom	99.48
1oo0_B	110	CG8781-PA, drosophila Y14; RNA recognition motif,	99.48
2jrs_A	108	RNA-binding protein 39; RNA binding motif of RBM39	99.48
1x4h_A	111	RNA-binding protein 28; structural genomics, RRM d	99.48
2div_A	99	TRNA selenocysteine associated protein; structural	99.48
2jwn_A	124	Embryonic polyadenylate-binding protein 2-B; epabp	99.47
3ns6_A	100	Eukaryotic translation initiation factor 3 subuni;	99.47
2cpz_A	115	CUG triplet repeat RNA-binding protein 1; RRM doma	99.47
2khc_A	118	Testis-specific RNP-type RNA binding protein; RRM,	99.47
2cqb_A	102	Peptidyl-prolyl CIS-trans isomerase E; RNA recogni	99.47
2dhg_A	104	TRNA selenocysteine associated protein (SECP43); R	99.47
2cqd_A	116	RNA-binding region containing protein 1; RNA recog	99.46
3n9u_C	156	Cleavage and polyadenylation specificity factor S;	99.46
3r27_A	100	HnRNP L, heterogeneous nuclear ribonucleoprotein L	99.46
2dh8_A	105	DAZ-associated protein 1; RRM domain, structural g	99.46
2fy1_A	116	RNA-binding motif protein, Y chromosome, family 1	99.46
1h2v_Z	156	20 kDa nuclear CAP binding protein; CAP-binding-co	99.46
2d9p_A	103	Polyadenylate-binding protein 3; RRM domain, struc	99.46
3ex7_B	126	RNA-binding protein 8A; protein-RNA complex, mRNA	99.45
2wbr_A	89	GW182, gawky, LD47780P; DNA-binding protein, RRM,	99.45
1iqt_A	75	AUF1, heterogeneous nuclear ribonucleoprotein D0;	99.45
2kxn_B	129	Transformer-2 protein homolog beta; SR protein, RR	99.45
3ulh_A	107	THO complex subunit 4; nuclear protein, RNA bindin	99.45
2cpe_A	113	RNA-binding protein EWS; RNA recognition motif, RR	99.45
2dnh_A	105	Bruno-like 5, RNA binding protein; RRM domain, RBD	99.44
2dng_A	103	Eukaryotic translation initiation factor 4H; RRM d	99.44
2cqi_A	103	Nucleolysin TIAR; RNA recognition motif, RRM, RNA	99.44
1x4c_A	108	Splicing factor, arginine/serine-rich 1; structura	99.44
2cq1_A	101	PTB-like protein L; RRM domain, structural genomic	99.44
1wi8_A	104	EIF-4B, eukaryotic translation initiation factor 4	99.44
2ki2_A	90	SS-DNA binding protein 12RNP2; HP0827, RRM, SS-DNA	99.44
2dgv_A	92	HnRNP M, heterogeneous nuclear ribonucleoprotein M	99.44
1x4d_A	102	Matrin 3; structural genomics, RRM domain, NPPSFA,	99.44
2cq3_A	103	RNA-binding protein 9; RRM domain, structural geno	99.44
1wg5_A	104	Heterogeneous nuclear ribonucleoprotein H; structu	99.44
2do0_A	114	HnRNP M, heterogeneous nuclear ribonucleoprotein M	99.43
1wex_A	104	Hypothetical protein (riken cDNA 2810036L13); stru	99.43
1x4d_A	102	Matrin 3; structural genomics, RRM domain, NPPSFA,	99.43
4fxv_A	99	ELAV-like protein 1; RNA recognition motif, putati	99.43
2dis_A	109	Unnamed protein product; structural genomics, RRM	99.43
1wex_A	104	Hypothetical protein (riken cDNA 2810036L13); stru	99.43
2ek1_A	95	RNA-binding protein 12; RNA recognition motif, dim	99.43
1u6f_A	139	Tcubp1, RNA-binding protein UBP1; trypanosome, mRN	99.42
2cqg_A	103	TDP-43, TAR DNA-binding protein-43; RNA recognitio	99.42
2cpy_A	114	RNA-binding protein 12; RRM domain, structural gen	99.42
1h2v_Z	156	20 kDa nuclear CAP binding protein; CAP-binding-co	99.42
2err_A	109	Ataxin-2-binding protein 1; protein-RNA complex, R	99.42
2j76_E	100	EIF-4B, EIF4B, eukaryotic translation initiation f	99.42
1whx_A	111	Hypothetical protein riken cDNA 1200009A02; RNA re	99.42
2dgp_A	106	Bruno-like 4, RNA binding protein; RRM domain, str	99.42
2ku7_A	140	MLL1 PHD3-CYP33 RRM chimeric protein; transcriptio	99.42
2ad9_A	119	Polypyrimidine tract-binding protein 1; RBD, RRM,	99.42
1x4b_A	116	Heterogeneous nuclear ribonucleoproteins A2/B1; st	99.41
2cqp_A	98	RNA-binding protein 12; RNA recognition motif, RRM	99.41
2cq1_A	101	PTB-like protein L; RRM domain, structural genomic	99.41
1x4a_A	109	Splicing factor, arginine/serine-rich 1 (splicing	99.41
2db1_A	118	Heterogeneous nuclear ribonucleoprotein F; RRM dom	99.41
3beg_B	115	Splicing factor, arginine/serine-rich 1; kinase, S	99.41
2ad9_A	119	Polypyrimidine tract-binding protein 1; RBD, RRM,	99.4
2dgx_A	96	KIAA0430 protein; RRM domain, structural genomics,	99.4
1wez_A	102	HnRNP H', FTP-3, heterogeneous nuclear ribonucleop	99.4
1u6f_A	139	Tcubp1, RNA-binding protein UBP1; trypanosome, mRN	99.4
2wbr_A	89	GW182, gawky, LD47780P; DNA-binding protein, RRM,	99.4
1x4f_A	112	Matrin 3; structural genomics, RRM domain, NPPSFA,	99.39
2hgl_A	136	HNRPF protein, heterogeneous nuclear ribonucleopro	99.39
2m2b_A	131	RNA-binding protein 10; T-cell, JCSG, MPP, PSI-bio	99.39
2nlw_A	105	Eukaryotic translation initiation factor 3 subunit	99.39
2lmi_A	107	GRSF-1, G-rich sequence factor 1; G-rich RNA seque	99.39
2ytc_A	85	PRE-mRNA-splicing factor RBM22; RRM domain, RBD, s	99.39
2lea_A	135	Serine/arginine-rich splicing factor 2; SR protein	99.39
2cpi_A	111	CCR4-NOT transcription complex subunit 4; RNA reco	99.39
2kn4_A	158	Immunoglobulin G-binding protein G, splicing FACT	99.39
1rk8_A	165	CG8781-PA, CG8781-PA protein; mRNA processing, RRM	99.38
2kt5_A	124	RNA and export factor-binding protein 2; chaperone	99.38
2dnn_A	109	RNA-binding protein 12; RRM domain, RBD, structura	99.38
3md3_A	166	Nuclear and cytoplasmic polyadenylated RNA-bindin	99.38
2dgx_A	96	KIAA0430 protein; RRM domain, structural genomics,	99.37
1x4f_A	112	Matrin 3; structural genomics, RRM domain, NPPSFA,	99.37
2hgm_A	126	HNRPF protein, heterogeneous nuclear ribonucleopro	99.37
2dha_A	123	FLJ20171 protein; RRM domain, structural genomics,	99.37
2fy1_A	116	RNA-binding motif protein, Y chromosome, family 1	99.37
2dgw_A	91	Probable RNA-binding protein 19; RRM domain, struc	99.37
3q2s_C	229	Cleavage and polyadenylation specificity factor S;	99.37
1fj7_A	101	Nucleolin RBD1, protein C23; RNP, RRM, RNA binding	99.36
2la4_A	101	Nuclear and cytoplasmic polyadenylated RNA-bindin	99.36
2jvr_A	111	Nucleolar protein 3; RNA recognition motif, nucleu	99.36
1x4a_A	109	Splicing factor, arginine/serine-rich 1 (splicing	99.36
2xs2_A	102	Deleted in azoospermia-like; RNA binding protein-R	99.36
1x4g_A	109	Nucleolysin TIAR; structural genomics, RRM domain,	99.35
2dgt_A	92	RNA-binding protein 30; RRM domain, structural gen	99.35
3s8s_A	110	Histone-lysine N-methyltransferase SETD1A; chromat	99.35
1why_A	97	Hypothetical protein riken cDNA 1810017N16; RNA re	99.35
2dnq_A	90	RNA-binding protein 4B; RRM domain,RBD, structural	99.35
1x5o_A	114	RNA binding motif, single-stranded interacting pro	99.35
2fc9_A	101	NCL protein; structure genomics, RRM_1 domain, str	99.35
2cpj_A	99	Non-POU domain-containing octamer-binding protein;	99.34
1wel_A	124	RNA-binding protein 12; structural genomics, NPPSF	99.34
2hgn_A	139	Heterogeneous nuclear ribonucleoprotein F; RNA rec	99.34
2a3j_A	127	U1 small nuclear ribonucleoprotein A; computationa	99.34
1why_A	97	Hypothetical protein riken cDNA 1810017N16; RNA re	99.34
2dnp_A	90	RNA-binding protein 14; RRM domain, RBD, structura	99.33
1x4g_A	109	Nucleolysin TIAR; structural genomics, RRM domain,	99.33
2dnz_A	95	Probable RNA-binding protein 23; RNA recognition m	99.33
3mdf_A	85	Peptidyl-prolyl CIS-trans isomerase E; RRM domain,	99.33
2cqi_A	103	Nucleolysin TIAR; RNA recognition motif, RRM, RNA	99.33
2cpj_A	99	Non-POU domain-containing octamer-binding protein;	99.33
1nu4_A	97	U1A RNA binding domain; RNA recognition motif, U1	99.32
3bs9_A	87	Nucleolysin TIA-1 isoform P40; RNA recognition mot	99.32
2cpx_A	115	Hypothetical protein FLJ11016; RRM domain, structu	99.32
2i2y_A	150	Fusion protein consists of immunoglobin G- binding	99.32
2cq3_A	103	RNA-binding protein 9; RRM domain, structural geno	99.32
1whw_A	99	Hypothetical protein riken cDNA 1200009A02; RNA re	99.32
2lcw_A	116	RNA-binding protein FUS; RRM, nucleic acid binding	99.0
2hvz_A	101	Splicing factor, arginine/serine-rich 7; RRM, RNA	99.32
3ulh_A	107	THO complex subunit 4; nuclear protein, RNA bindin	99.32
2dnp_A	90	RNA-binding protein 14; RRM domain, RBD, structura	99.32
4f25_A	115	Polyadenylate-binding protein 1; RRM fold, transla	99.31
1x5t_A	96	Splicing factor 3B subunit 4; structure genomics,	99.31
2g4b_A	172	Splicing factor U2AF 65 kDa subunit; protein-RNA c	99.31
1l3k_A	196	Heterogeneous nuclear ribonucleoprotein A1; nuclea	99.31
3md1_A	83	Nuclear and cytoplasmic polyadenylated RNA-bindin	99.31
2ytc_A	85	PRE-mRNA-splicing factor RBM22; RRM domain, RBD, s	99.31
2kvi_A	96	Nuclear polyadenylated RNA-binding protein 3; RNA-	99.31
1whx_A	111	Hypothetical protein riken cDNA 1200009A02; RNA re	99.31
2e5j_A	97	Methenyltetrahydrofolate synthetase domain contain	99.31
3nmr_A	175	Cugbp ELAV-like family member 1; RRM, PRE-mRNA spl	99.31
2dgt_A	92	RNA-binding protein 30; RRM domain, structural gen	99.31
2x1f_A	96	MRNA 3'-END-processing protein RNA15; transcriptio	99.31
2xnq_A	97	Nuclear polyadenylated RNA-binding protein 3; tran	99.31
2cqc_A	95	Arginine/serine-rich splicing factor 10; RNA recog	99.31
2cpd_A	99	Apobec-1 stimulating protein; RNA recognition moti	99.31
4a8x_A	88	RNA-binding protein with serine-rich domain 1; tra	99.3
2f3j_A	177	RNA and export factor binding protein 2; RRM domai	99.3
1rk8_A	165	CG8781-PA, CG8781-PA protein; mRNA processing, RRM	99.3
2ywk_A	95	Putative RNA-binding protein 11; RRM-domain, struc	99.3
2dnl_A	114	Cytoplasmic polyadenylation element binding protei	99.3
2dgu_A	103	Heterogeneous nuclear ribonucleoprotein Q; RRM dom	99.3
2e5h_A	94	Zinc finger CCHC-type and RNA-binding motif- conta	99.29
2fc8_A	102	NCL protein; structure genomics, RRM_1 domain, str	99.29
2do4_A	100	Squamous cell carcinoma antigen recognized by T- c	99.29
1fxl_A	167	Paraneoplastic encephalomyelitis antigen HUD; prot	99.29
2jvr_A	111	Nucleolar protein 3; RNA recognition motif, nucleu	99.29
2dnq_A	90	RNA-binding protein 4B; RRM domain,RBD, structural	99.29
1b7f_A	168	Protein (SXL-lethal protein), RNA (5'-R(P*GP*UP*UP	99.29
2cqd_A	116	RNA-binding region containing protein 1; RNA recog	99.29
2la4_A	101	Nuclear and cytoplasmic polyadenylated RNA-bindin	99.29
2qfj_A	216	FBP-interacting repressor; protein-DNA complex; HE	99.29
1fjc_A	96	Nucleolin RBD2, protein C23; RNP, RRM, RNA binding	99.29
2dgo_A	115	Cytotoxic granule-associated RNA binding protein 1	99.28
2hzc_A	87	Splicing factor U2AF 65 kDa subunit; RNA splicing,	99.28
2jvo_A	108	Nucleolar protein 3; nucleus, phosphorylation, rib	99.28
2hvz_A	101	Splicing factor, arginine/serine-rich 7; RRM, RNA	99.28
2xnq_A	97	Nuclear polyadenylated RNA-binding protein 3; tran	99.27
2dnm_A	103	SRP46 splicing factor; RRM domain, RBD, structural	99.27
1oo0_B	110	CG8781-PA, drosophila Y14; RNA recognition motif,	99.27
2kvi_A	96	Nuclear polyadenylated RNA-binding protein 3; RNA-	99.27
2err_A	109	Ataxin-2-binding protein 1; protein-RNA complex, R	99.27
2cqb_A	102	Peptidyl-prolyl CIS-trans isomerase E; RNA recogni	99.26
3d2w_A	89	TAR DNA-binding protein 43; DP-43 proteinopathy, T	99.26
2dgv_A	92	HnRNP M, heterogeneous nuclear ribonucleoprotein M	99.26
2cpf_A	98	RNA binding motif protein 19; RNA recognition moti	99.26
2cpz_A	115	CUG triplet repeat RNA-binding protein 1; RRM doma	99.26
1x4h_A	111	RNA-binding protein 28; structural genomics, RRM d	99.26
1p27_B	106	RNA-binding protein 8A; nuclear protein, mRNA spli	99.26
2e5g_A	94	U6 snRNA-specific terminal uridylyltransferase 1;	99.26
3beg_B	115	Splicing factor, arginine/serine-rich 1; kinase, S	99.26
1x5u_A	105	Splicing factor 3B subunit 4 (spliceosome associat	99.26
2dis_A	109	Unnamed protein product; structural genomics, RRM	99.26
3q2s_C	229	Cleavage and polyadenylation specificity factor S;	99.25
2dnh_A	105	Bruno-like 5, RNA binding protein; RRM domain, RBD	99.25
2d9p_A	103	Polyadenylate-binding protein 3; RRM domain, struc	99.25
2lkz_A	95	RNA-binding protein 5; RRM; NMR {Homo sapiens}	99.25
1x4c_A	108	Splicing factor, arginine/serine-rich 1; structura	99.25
4f02_A	213	Polyadenylate-binding protein 1; mRNA, eukaryotic	99.25
1nu4_A	97	U1A RNA binding domain; RNA recognition motif, U1	99.24
2cq0_A	103	Eukaryotic translation initiation factor 3 subunit	99.24
1wf1_A	110	RNA-binding protein RALY; structural genomics, RRM	99.24
2la6_A	99	RNA-binding protein FUS; structural genomics, nort	99.24
1wf1_A	110	RNA-binding protein RALY; structural genomics, RRM	99.24
2cph_A	107	RNA binding motif protein 19; RNA recognition moti	99.24
2jvo_A	108	Nucleolar protein 3; nucleus, phosphorylation, rib	99.24
2cpd_A	99	Apobec-1 stimulating protein; RNA recognition moti	99.24
2e44_A	96	Insulin-like growth factor 2 mRNA binding protein	99.24
2e44_A	96	Insulin-like growth factor 2 mRNA binding protein	99.23
2do0_A	114	HnRNP M, heterogeneous nuclear ribonucleoprotein M	99.23
2nlw_A	105	Eukaryotic translation initiation factor 3 subunit	99.23
2cq2_A	114	Hypothetical protein LOC91801; RRM domain, structu	99.23
2khc_A	118	Testis-specific RNP-type RNA binding protein; RRM,	99.23
1x5p_A	97	Negative elongation factor E; structure genomics,	99.23
1x5s_A	102	Cold-inducible RNA-binding protein; structure geno	99.23
2cjk_A	167	Nuclear polyadenylated RNA-binding protein 4; HRP1	99.23
2dgs_A	99	DAZ-associated protein 1; RRM domain, structural g	99.23
3ucg_A	89	Polyadenylate-binding protein 2; ferredoxin-like,	99.22
2kt5_A	124	RNA and export factor-binding protein 2; chaperone	99.22
2cpi_A	111	CCR4-NOT transcription complex subunit 4; RNA reco	99.22
1wf0_A	88	TDP-43, TAR DNA-binding protein-43; structural gen	99.22
2lxi_A	91	RNA-binding protein 10; NMR {Homo sapiens}	99.22
1x5p_A	97	Negative elongation factor E; structure genomics,	99.22
3s7r_A	87	Heterogeneous nuclear ribonucleoprotein A/B; ferre	99.22
2cq2_A	114	Hypothetical protein LOC91801; RRM domain, structu	99.21
2cqh_A	93	IGF-II mRNA-binding protein 2 isoform A; RNA recog	99.21
1wi8_A	104	EIF-4B, eukaryotic translation initiation factor 4	99.21
3pgw_S	437	U1-70K; protein-RNA complex, U1 snRNA, SM fold, SM	99.21
2cpe_A	113	RNA-binding protein EWS; RNA recognition motif, RR	99.21
3egn_A	143	RNA-binding protein 40; RNA recognition motif (RRM	99.21
2jrs_A	108	RNA-binding protein 39; RNA binding motif of RBM39	99.21
1wg1_A	88	KIAA1579 protein, homolog EXC-7; RBD, structural g	99.21
2dgp_A	106	Bruno-like 4, RNA binding protein; RRM domain, str	99.21
2div_A	99	TRNA selenocysteine associated protein; structural	99.21
2e5j_A	97	Methenyltetrahydrofolate synthetase domain contain	99.2
1s79_A	103	Lupus LA protein; RRM, alpha/beta, RNA binding pro	99.2
2lea_A	135	Serine/arginine-rich splicing factor 2; SR protein	99.2
1p1t_A	104	Cleavage stimulation factor, 64 kDa subunit; RNA r	99.2
2ku7_A	140	MLL1 PHD3-CYP33 RRM chimeric protein; transcriptio	99.2
3ns6_A	100	Eukaryotic translation initiation factor 3 subuni;	99.2
2j8a_A	136	Histone-lysine N-methyltransferase, H3 lysine-4 sp	99.19
2db1_A	118	Heterogeneous nuclear ribonucleoprotein F; RRM dom	99.19
3lqv_A	115	PRE-mRNA branch site protein P14; cysless mutant,	99.19
2a3j_A	127	U1 small nuclear ribonucleoprotein A; computationa	99.19
2cqp_A	98	RNA-binding protein 12; RNA recognition motif, RRM	99.19
2cq4_A	114	RNA binding motif protein 23; RRM domain, structur	99.18
2krb_A	81	Eukaryotic translation initiation factor 3 subunit	99.18
2dhg_A	104	TRNA selenocysteine associated protein (SECP43); R	99.18
3d2w_A	89	TAR DNA-binding protein 43; DP-43 proteinopathy, T	99.18
2yh0_A	198	Splicing factor U2AF 65 kDa subunit; PRE-mRNA spli	99.17
2cqh_A	93	IGF-II mRNA-binding protein 2 isoform A; RNA recog	99.17
1uaw_A	77	Mouse-musashi-1; RNP-type structure, RNA binding p	99.17
2fc8_A	102	NCL protein; structure genomics, RRM_1 domain, str	99.17
2hgl_A	136	HNRPF protein, heterogeneous nuclear ribonucleopro	99.17
1sjr_A	164	Polypyrimidine tract-binding protein 1; extended b	99.17
2ek1_A	95	RNA-binding protein 12; RNA recognition motif, dim	99.17
2cpy_A	114	RNA-binding protein 12; RRM domain, structural gen	99.17
2kxn_B	129	Transformer-2 protein homolog beta; SR protein, RR	99.16
2dng_A	103	Eukaryotic translation initiation factor 4H; RRM d	99.16
2rs2_A	109	Musashi-1, RNA-binding protein musashi homolog 1;	99.15
2mss_A	75	Protein (musashi1); RNA-binding domain, RNA bindin	99.15
2cqg_A	103	TDP-43, TAR DNA-binding protein-43; RNA recognitio	99.15
1x4e_A	85	RNA binding motif, single-stranded interacting pro	99.14
1fje_B	175	Nucleolin RBD12, protein C23; RNP, RRM, RNA bindin	99.14
2hzc_A	87	Splicing factor U2AF 65 kDa subunit; RNA splicing,	99.14
2lcw_A	116	RNA-binding protein FUS; RRM, nucleic acid binding	98.75
2cpx_A	115	Hypothetical protein FLJ11016; RRM domain, structu	99.14
1wez_A	102	HnRNP H', FTP-3, heterogeneous nuclear ribonucleop	99.13
2fc9_A	101	NCL protein; structure genomics, RRM_1 domain, str	99.13
2pe8_A	105	Splicing factor 45; RRM, protein binding; 2.00A {H	99.13
3zzy_A	130	Polypyrimidine tract-binding protein 1; protein bi	99.13
3n9u_C	156	Cleavage and polyadenylation specificity factor S;	99.13
2dgw_A	91	Probable RNA-binding protein 19; RRM domain, struc	99.13
2dh8_A	105	DAZ-associated protein 1; RRM domain, structural g	99.12
1x4b_A	116	Heterogeneous nuclear ribonucleoproteins A2/B1; st	99.11
1wg1_A	88	KIAA1579 protein, homolog EXC-7; RBD, structural g	99.11
2lmi_A	107	GRSF-1, G-rich sequence factor 1; G-rich RNA seque	99.11
2bz2_A	121	Negative elongation factor E; NELF E, RNA recognit	99.11
2jwn_A	124	Embryonic polyadenylate-binding protein 2-B; epabp	99.11
3tyt_A	205	Heterogeneous nuclear ribonucleoprotein L; ferredo	99.1
2ki2_A	90	SS-DNA binding protein 12RNP2; HP0827, RRM, SS-DNA	99.1
1fjc_A	96	Nucleolin RBD2, protein C23; RNP, RRM, RNA binding	99.1
2diu_A	96	KIAA0430 protein; structural genomics, RRM domain,	99.1
2e5i_A	124	Heterogeneous nuclear ribonucleoprotein L-like; RR	99.09
1wel_A	124	RNA-binding protein 12; structural genomics, NPPSF	99.09
2f3j_A	177	RNA and export factor binding protein 2; RRM domai	99.09
2dnn_A	109	RNA-binding protein 12; RRM domain, RBD, structura	99.08
2e5i_A	124	Heterogeneous nuclear ribonucleoprotein L-like; RR	99.08
1iqt_A	75	AUF1, heterogeneous nuclear ribonucleoprotein D0;	99.08
2e5g_A	94	U6 snRNA-specific terminal uridylyltransferase 1;	99.07
2m2b_A	131	RNA-binding protein 10; T-cell, JCSG, MPP, PSI-bio	99.06
1wg5_A	104	Heterogeneous nuclear ribonucleoprotein H; structu	99.06
1x5o_A	114	RNA binding motif, single-stranded interacting pro	99.05
2diu_A	96	KIAA0430 protein; structural genomics, RRM domain,	99.05
2hgn_A	139	Heterogeneous nuclear ribonucleoprotein F; RNA rec	99.05
2bz2_A	121	Negative elongation factor E; NELF E, RNA recognit	99.05
3p5t_L	90	Cleavage and polyadenylation specificity factor S;	99.04
3egn_A	143	RNA-binding protein 40; RNA recognition motif (RRM	99.04
2dha_A	123	FLJ20171 protein; RRM domain, structural genomics,	99.03
2j76_E	100	EIF-4B, EIF4B, eukaryotic translation initiation f	99.02
1fj7_A	101	Nucleolin RBD1, protein C23; RNP, RRM, RNA binding	99.01
2xs2_A	102	Deleted in azoospermia-like; RNA binding protein-R	99.01
1sjr_A	164	Polypyrimidine tract-binding protein 1; extended b	99.0
1wf0_A	88	TDP-43, TAR DNA-binding protein-43; structural gen	98.99
2hgm_A	126	HNRPF protein, heterogeneous nuclear ribonucleopro	98.98
3u1l_A	240	PRE-mRNA-splicing factor CWC2; CSMP, zinc finger;	98.98
1jmt_A	104	Splicing factor U2AF 35 kDa subunit; RRM, RNA spli	98.98
3zzy_A	130	Polypyrimidine tract-binding protein 1; protein bi	98.98
3sde_A	261	Paraspeckle component 1; RRM, anti parallel right	98.98
2adc_A	229	Polypyrimidine tract-binding protein 1; RBD, RRM,	98.97
3pgw_A	282	U1-A; protein-RNA complex, U1 snRNA, SM fold, SM c	98.96
3u1l_A	240	PRE-mRNA-splicing factor CWC2; CSMP, zinc finger;	98.94
3v4m_A	105	Splicing factor U2AF 65 kDa subunit; canonical RNA	98.94
2dit_A	112	HIV TAT specific factor 1 variant; structural geno	98.93
2pe8_A	105	Splicing factor 45; RRM, protein binding; 2.00A {H	98.91
2dnl_A	114	Cytoplasmic polyadenylation element binding protei	98.91
2d9o_A	100	DNAJ (HSP40) homolog, subfamily C, member 17; RRM	98.9
1qm9_A	198	Polypyrimidine tract-binding protein; ribonucleopr	98.89
3tht_A	345	Alkylated DNA repair protein ALKB homolog 8; struc	98.87
2voo_A	193	Lupus LA protein; RNA-binding protein, RNA recogni	98.86
3ue2_A	118	Poly(U)-binding-splicing factor PUF60; RNA recogni	98.85
2dit_A	112	HIV TAT specific factor 1 variant; structural geno	98.81
2j8a_A	136	Histone-lysine N-methyltransferase, H3 lysine-4 sp	98.79
3v4m_A	105	Splicing factor U2AF 65 kDa subunit; canonical RNA	98.79
1owx_A	121	Lupus LA protein, SS-B, LA; RRM, transcription; NM	98.76
3tht_A	345	Alkylated DNA repair protein ALKB homolog 8; struc	98.69
2dnr_A	91	Synaptojanin-1; RRM domain, RBD, structural genomi	98.66
3ue2_A	118	Poly(U)-binding-splicing factor PUF60; RNA recogni	98.62
1jmt_A	104	Splicing factor U2AF 35 kDa subunit; RRM, RNA spli	98.6
3s6e_A	114	RNA-binding protein 39; ferredoxin-like, structura	98.58
2d9o_A	100	DNAJ (HSP40) homolog, subfamily C, member 17; RRM	98.53
3s6e_A	114	RNA-binding protein 39; ferredoxin-like, structura	98.53
1ufw_A	95	Synaptojanin 2; RNP domain, structural genomics, r	98.47
2l9w_A	117	U4/U6 snRNA-associated-splicing factor PRP24; RRM,	98.2
3dxb_A	222	Thioredoxin N-terminally fused to PUF60(UHM); spli	98.03
2dnr_A	91	Synaptojanin-1; RRM domain, RBD, structural genomi	97.94
1ufw_A	95	Synaptojanin 2; RNP domain, structural genomics, r	97.77
2dhx_A	104	Poly (ADP-ribose) polymerase family, member 10 var	97.69
3dxb_A	222	Thioredoxin N-terminally fused to PUF60(UHM); spli	97.65
4eyt_A	129	Telomerase associated protein P65; RNA, LA protein	97.57
1whv_A	100	Poly(A)-specific ribonuclease; RNA recognition mot	97.55
2l9w_A	117	U4/U6 snRNA-associated-splicing factor PRP24; RRM,	97.4
3ctr_A	101	Poly(A)-specific ribonuclease PARN; protein-RNA-co	97.22
2dhx_A	104	Poly (ADP-ribose) polymerase family, member 10 var	97.16
1uw4_A	91	UPF3X; nonsense mediated mRNA decay protein, RNA-b	96.59
1wey_A	104	Calcipressin 1; structural genomics, RRM domain, r	96.06
1whv_A	100	Poly(A)-specific ribonuclease; RNA recognition mot	96.01
3ctr_A	101	Poly(A)-specific ribonuclease PARN; protein-RNA-co	95.88
3pq1_A	464	Poly(A) RNA polymerase; nucleotidyl transferase, R	95.79
1uw4_A	91	UPF3X; nonsense mediated mRNA decay protein, RNA-b	95.66
1wwh_A	119	Nucleoporin 35, nucleoporin; structural genomics,	95.64
1wwh_A	119	Nucleoporin 35, nucleoporin; structural genomics,	95.19
2l08_A	97	Regulator of nonsense transcripts 3A; NESG, nonsen	95.0
2lsl_A	137	Telomerase associated protein P65; LA protein, LAR	92.55
2l08_A	97	Regulator of nonsense transcripts 3A; NESG, nonsen	92.84
1wey_A	104	Calcipressin 1; structural genomics, RRM domain, r	92.51
3p3d_A	132	Nucleoporin 53; structural genomics, PSI-2, protei	90.39
3htx_A	950	HEN1; HEN1, small RNA methyltransferase, protein-R	85.94
3pq1_A	464	Poly(A) RNA polymerase; nucleotidyl transferase, R	84.76
3p3d_A	132	Nucleoporin 53; structural genomics, PSI-2, protei	82.89

>2voo_A Lupus LA protein; RNA-binding protein, RNA recognition motif, systemic lupus erythematosus, phosphoprotein, RNA maturation; 1.8A {Homo sapiens} SCOP: a.4.5.46 d.58.7.1 PDB: 2von_A 2vod_A 2vop_A 1zh5_A 1yty_A 1s7a_A

Probab=100.00  E-value=2.4e-45  Score=335.07  Aligned_cols=192  Identities=47%  Similarity=0.807  Sum_probs=167.3

Q ss_pred             CCCCCccchhHHHHHHHHHHHHHhCCCCCCCChhHHhhhccCCCeEehHHHHhhHHHHhccCcHHHHHHHHhhcCCceEE
Q psy5142          11 GNSGAEAEVSKLENQIIEQIEYYFSDINLARDKFLQGEIKKDDGWVELTTMLKFARLAKMTTEAKVIVDALKKSTSKLIE   90 (410)
Q Consensus        11 ~~~~~~~~~~~~~~~i~~QlEfYfsd~Nl~~D~fl~~~~~~~~g~v~l~~l~~F~r~k~l~~d~~~i~~Al~~~~S~~le   90 (410)
                      |.+|...+++++..+|++||||||||+||++|+||+++|..++|||||++|++|+||+.|+.|.+.|+.||+.|....|+
T Consensus         1 ~~~~~~~~~~~~~~~i~~q~e~yfs~~nl~~D~fl~~~~~~~~g~V~l~~i~sF~r~k~l~~d~~~I~~Al~~S~~~~le   80 (193)
T 2voo_A            1 GSNGDNEKMAALEAKICHQIEYYFGDFNLPRDKFLKEQIKLDEGWVPLEIMIKFNRLNRLTTDFNVIVEALSKSKAELME   80 (193)
T ss_dssp             --------CHHHHHHHHHHHHHHTSTTTGGGCHHHHHHHHHTTTCEEHHHHTTSHHHHHHCCCHHHHHHHHHTCSSCCEE
T ss_pred             CCCCCcCCcHHHHHHHHHHhheecchhhcccCHHHHHHhcccCCcEEeHHHhhhhHHHHhcCCHHHHHHHHhhcccceEE
Confidence            45666788999999999999999999999999999999997689999999999999999999999999999944339999


Q ss_pred             EecCccceecCCCCCCCCCchhhhhhccceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCccccccccccc
Q psy5142          91 VNEDGTKIRRNPEKELPTFDIDFVKDLIAQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKG  170 (410)
Q Consensus        91 vsed~~~vrR~~~~p~p~~~~~~~~~~~~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG  170 (410)
                      |++++.+|||.+..|+|+.+++.+.+...++|||+|||+++|+++|+++|++|    |.|.+|+|+++..+     .++|
T Consensus        81 v~ed~~~vrR~~~~p~p~~~~~~~~~~~~~~l~V~nLp~~~t~~~L~~~F~~~----G~v~~v~i~~~~~~-----~~kG  151 (193)
T 2voo_A           81 ISEDKTKIRRSPSKPLPEVTDEYKNDVKNRSVYIKGFPTDATLDDIKEWLEDK----GQVLNIQMRRTLHK-----AFKG  151 (193)
T ss_dssp             ECTTSSEEEECTTSCCCCCCHHHHHHHHHTEEEEECCCTTCCHHHHHHHHTTS----CCEEEEEEEECTTC-----CEEE
T ss_pred             EecccceEEecccCCCcccchhhhhccccCEEEecCCCCcCCHHHHHHHHhcC----CCEEEEEEEECCCC-----Cccc
Confidence            99999999999878899887777778889999999999999999999999999    99999999998765     8999


Q ss_pred             EEEEEecCHHHHHHHHHhcCCCCccccccccchhhhhhhhcccccccccCcccccchhhhchHHHHHHHH
Q psy5142         171 SIFVTFDNKENAEKFLNENKDKNLKFNENCEHKNAEKFLNENKDKNLKFNENCEHSLLIKWQQEYHEEKK  240 (410)
Q Consensus       171 ~afVeF~~~e~A~~Al~~~~g~~~~~~~~~~~~~~~k~~~~~~~~~~~~~g~~~~~L~v~~k~~~~~~k~  240 (410)
                      ||||+|.+.++|++|++..+   ..+                       .|   +.|.|.|+.+|.++|+
T Consensus       152 ~aFVeF~~~e~A~~A~~~~~---~~~-----------------------~G---r~l~V~~~~~y~~~K~  192 (193)
T 2voo_A          152 SIFVVFDSIESAKKFVETPG---QKY-----------------------KE---TDLLILFKDDYFAKKN  192 (193)
T ss_dssp             EEEEEESSHHHHHHHHHCTT---CEE-----------------------TT---EECEEEETTTC-----
T ss_pred             EEEEEECCHHHHHHHHHhCC---CeE-----------------------CC---EEEEEEEhHHHHHHhc
Confidence            99999999999999998876   567                       88   9999999999987653

>2cqk_A C-MPL binding protein; LA domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: a.4.5.46

Probab=99.96  E-value=7.5e-31  Score=210.86  Aligned_cols=95  Identities=24%  Similarity=0.512  Sum_probs=86.8

Q ss_pred             CCCCCccchhHHHHHHHHHHHHHhCCCCCCCChhHHhhhccCCCeEehHHHHhhHHHHhccCcHHHHHHHHhhcCCceEE
Q psy5142          11 GNSGAEAEVSKLENQIIEQIEYYFSDINLARDKFLQGEIKKDDGWVELTTMLKFARLAKMTTEAKVIVDALKKSTSKLIE   90 (410)
Q Consensus        11 ~~~~~~~~~~~~~~~i~~QlEfYfsd~Nl~~D~fl~~~~~~~~g~v~l~~l~~F~r~k~l~~d~~~i~~Al~~~~S~~le   90 (410)
                      |-+..+...+++.++|++||||||||+||++|+||+++|.. +|||||++|++|+|||+|+.|++.|++||+  .|..|+
T Consensus         3 ~~~~~~~~~~~l~~~I~~QvEyYFSd~NL~~D~fL~~~md~-~G~Vpl~~iasF~r~k~lt~d~~~i~~al~--~S~~le   79 (101)
T 2cqk_A            3 SGSSGAVSTEDLKECLKKQLEFCFSRENLSKDLYLISQMDS-DQFIPIWTVANMEEIKKLTTDPDLILEVLR--SSPMVQ   79 (101)
T ss_dssp             SSSCCSCCHHHHHHHHHHHHHHHTSHHHHHHCHHHHHHSCT-TSCEEHHHHHHCHHHHHHCCCHHHHHHHHH--HSSSEE
T ss_pred             CCCCCCCCHHHHHHHHHHHHHhhcchhhhccCHHHHHhhhc-CCCEEhHHHhCChHHHHHcCCHHHHHHHHH--hCCcEE
Confidence            34445567899999999999999999999999999999964 599999999999999999999999999999  788999


Q ss_pred             EecCccceecCCCCCCCC
Q psy5142          91 VNEDGTKIRRNPEKELPT  108 (410)
Q Consensus        91 vsed~~~vrR~~~~p~p~  108 (410)
                      |++|+++|||+.+.|+|+
T Consensus        80 vsedg~kVRr~~~~~i~~   97 (101)
T 2cqk_A           80 VDEKGEKVRPSHKRCISG   97 (101)
T ss_dssp             ECSSSSEEEECCSCCCCS
T ss_pred             EcCCCCeeeeCCCCCcCC
Confidence            999999999998777775

>1s29_A LA protein; winged helix-turn-helix, autoantigen, RNA-binding, RNA binding protein; 1.60A {Trypanosoma brucei} SCOP: a.4.5.46

Probab=99.96  E-value=1.2e-30  Score=206.98  Aligned_cols=85  Identities=39%  Similarity=0.764  Sum_probs=80.2

Q ss_pred             hhHHHHHHHHHHHHHhCCCCCCCChhHHhhhccC-CCeEehHHHHhhHHHHhccCcHHHHHHHHhhcCCceEEEecCccc
Q psy5142          19 VSKLENQIIEQIEYYFSDINLARDKFLQGEIKKD-DGWVELTTMLKFARLAKMTTEAKVIVDALKKSTSKLIEVNEDGTK   97 (410)
Q Consensus        19 ~~~~~~~i~~QlEfYfsd~Nl~~D~fl~~~~~~~-~g~v~l~~l~~F~r~k~l~~d~~~i~~Al~~~~S~~levsed~~~   97 (410)
                      .+++..+|++||||||||+||++|+||+++|.++ +|||||++|++|+|||+|++|.+.|++||+  .|..|+|++||++
T Consensus         7 ~~~~~~~I~~QvEyYFSd~NL~~D~fL~~~m~~~~~G~Vpl~~i~sF~r~k~lt~d~~~i~~al~--~S~~lev~edg~~   84 (92)
T 1s29_A            7 SSENKQKLQKQVEFYFSDVNVQRDIFLKGKMAENAEGFVSLETLLTFKRVNSVTTDVKEVVEAIR--PSEKLVLSEDGLM   84 (92)
T ss_dssp             CHHHHHHHHHHHHHHTSHHHHTTCHHHHHHHTTSTTCCEEHHHHTTSHHHHTTCSCHHHHHHHHT--TCSSEEECTTSSE
T ss_pred             CHHHHHHHHHHHHhhcchhhhccCHHHHHHhccCCCCCEEhHHHhCChhHHHHcCCHHHHHHHHh--hCCeEEEeCCCCE
Confidence            4788999999999999999999999999999874 799999999999999999999999999999  8899999999999


Q ss_pred             eecCCCCCCC
Q psy5142          98 IRRNPEKELP  107 (410)
Q Consensus        98 vrR~~~~p~p  107 (410)
                      |||+  .|+|
T Consensus        85 VRR~--~PlP   92 (92)
T 1s29_A           85 VRRR--DPLP   92 (92)
T ss_dssp             EEES--SCCC
T ss_pred             EeCC--CCCC
Confidence            9999  4666

>4f02_A Polyadenylate-binding protein 1; mRNA, eukaryotic initiation factors PAIP1 and PAIP2, translation-RNA complex; 2.00A {Homo sapiens} PDB: 1cvj_A*

Probab=99.94  E-value=2.4e-26  Score=211.90  Aligned_cols=167  Identities=18%  Similarity=0.242  Sum_probs=138.3

Q ss_pred             cceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCCcccc
Q psy5142         118 IAQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLKFN  197 (410)
Q Consensus       118 ~~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~~~~  197 (410)
                      ..+||||+|||+++|+++|+++|++|    |+|.+|+|+++..++    .++|||||+|.+.++|++|++.+++  ..+ 
T Consensus        14 p~~tlfVgnLp~~~te~~L~~~F~~~----G~I~~v~i~~d~~tg----~~~G~afV~F~~~~~A~~Ai~~~~~--~~~-   82 (213)
T 4f02_A           14 PMASLYVGDLHPDVTEAMLYEKFSPA----GPILSIRVCRDMITR----RSLGYAYVNFQQPADAERALDTMNF--DVI-   82 (213)
T ss_dssp             -CCEEEEESCCTTCCHHHHHHHHGGG----SCEEEEEEEECTTTC----CEEEEEEEEESSHHHHHHHHHHHTT--CEE-
T ss_pred             CCcEEEEeCCCCCCCHHHHHHHHHhh----CCEEEEEEecccCCC----CccccccceeCCHHHHHHHHHHhhh--hhc-
Confidence            45899999999999999999999999    999999999988765    8999999999999999999999885  334 


Q ss_pred             ccccchhhhhhhhcccccccccCcccccchhhhchHHHHHHHHHHHHhhhhccccCccCCCCCCCCCCcccccCCCCCeE
Q psy5142         198 ENCEHKNAEKFLNENKDKNLKFNENCEHSLLIKWQQEYHEEKKQEVRSKRDKSKKSTEGDGEGNTEGSKQVVLELPTGAL  277 (410)
Q Consensus       198 ~~~~~~~~~k~~~~~~~~~~~~~g~~~~~L~v~~k~~~~~~k~~e~~~~~~k~k~~~e~~~~~~~~~~~~~~~~~~~g~~  277 (410)
                                            .|   +.|.+.+......                                ........
T Consensus        83 ----------------------~g---~~i~~~~~~~~~~--------------------------------~~~~~~~~  105 (213)
T 4f02_A           83 ----------------------KG---KPVRIMWSQRDPS--------------------------------LRKSGVGN  105 (213)
T ss_dssp             ----------------------TT---EECEEEECCCCTH--------------------------------HHHHCTTE
T ss_pred             ----------------------CC---ccccccccccccc--------------------------------cccccccc
Confidence                                  55   6666554211000                                00112347


Q ss_pred             EEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCCC----ceEEEEeCChhHHHHHHHHhcCCCeEEcCeEEEEEecC
Q psy5142         278 LKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVGE----PTAFVRYKKENNAEAVLKALGSKEIVIKDVKVSIEVVT  353 (410)
Q Consensus       278 l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g~----~~afV~F~~~e~A~~Al~~l~~~~~~i~g~~v~v~~l~  353 (410)
                      |+|.|||+.+++++|+++|++||    .|..|.+..+.    ++|||+|.+.++|++|++.|  ++..|+|+.|.|....
T Consensus       106 l~v~nl~~~~t~~~l~~~F~~~G----~i~~~~i~~d~~~~~g~~fV~f~~~~~a~~Ai~~l--ng~~~~g~~i~V~~a~  179 (213)
T 4f02_A          106 IFIKNLDKSIDNKALYDTFSAFG----NILSCKVVCDENGSKGYGFVHFETQEAAERAIEKM--NGMLLNDRKVFVGRFK  179 (213)
T ss_dssp             EEEESCCTTCCHHHHHHHHGGGS----CEEEEEEEEETTEEEEEEEEEESSHHHHHHHHHHH--TTCEETTEECEEEECC
T ss_pred             ceECCcccccHHHHHHHHHhhcC----CeEEEEeeccCCCCceEEEEEeCCHHHHHHHHHHh--CCCEECCEEEEEEEcC
Confidence            99999999999999999999999    99999887543    46999999999999999999  6799999999999987


Q ss_pred             chHHH
Q psy5142         354 GEEEQ  358 (410)
Q Consensus       354 g~eE~  358 (410)
                      ...++
T Consensus       180 ~~~~~  184 (213)
T 4f02_A          180 SRKER  184 (213)
T ss_dssp             CHHHH
T ss_pred             CCccc
Confidence            65443

>3md3_A Nuclear and cytoplasmic polyadenylated RNA-bindin PUB1; RRM, RNP, RBD, poly(U) binding, tandem, acetylation, cytopla nucleus; 2.70A {Saccharomyces cerevisiae}

Probab=99.94  E-value=4.4e-26  Score=199.81  Aligned_cols=159  Identities=16%  Similarity=0.234  Sum_probs=135.8

Q ss_pred             eeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCCcccccc
Q psy5142         120 QSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLKFNEN  199 (410)
Q Consensus       120 rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~~~~~~  199 (410)
                      |||||+|||.++|+++|+++|++|    |.|.+|.++++..+     .++|+|||+|.+.++|.+|+..++|  ..+   
T Consensus         1 R~l~V~nlp~~~t~~~l~~~f~~~----G~i~~v~i~~~~~~-----~~~g~afV~f~~~~~a~~A~~~l~~--~~~---   66 (166)
T 3md3_A            1 RVLYVGNLDKAITEDILKQYFQVG----GPIANIKIMIDKNN-----KNVNYAFVEYHQSHDANIALQTLNG--KQI---   66 (166)
T ss_dssp             CEEEEEEEETTCCHHHHHHHHGGG----SCEEEEEEECCCC------CCEEEEEEEESSHHHHHHHHHHHTT--CEE---
T ss_pred             CEEEECCCCCcCCHHHHHHHHHhc----CCeEEEEEEECCCC-----CCCCEEEEEeCCHHHHHHHHHHcCC--Ccc---
Confidence            699999999999999999999999    99999999988776     7899999999999999999988886  455   


Q ss_pred             ccchhhhhhhhcccccccccCcccccchhhhchHHHHHHHHHHHHhhhhccccCccCCCCCCCCCCcccccCCCCCeEEE
Q psy5142         200 CEHKNAEKFLNENKDKNLKFNENCEHSLLIKWQQEYHEEKKQEVRSKRDKSKKSTEGDGEGNTEGSKQVVLELPTGALLK  279 (410)
Q Consensus       200 ~~~~~~~k~~~~~~~~~~~~~g~~~~~L~v~~k~~~~~~k~~e~~~~~~k~k~~~e~~~~~~~~~~~~~~~~~~~g~~l~  279 (410)
                                          .|   +.|.+.+...                                .......+.+.|+
T Consensus        67 --------------------~g---~~i~v~~~~~--------------------------------~~~~~~~~~~~l~   91 (166)
T 3md3_A           67 --------------------EN---NIVKINWAFQ--------------------------------SQQSSSDDTFNLF   91 (166)
T ss_dssp             --------------------TT---EECEEEECCC--------------------------------CCCCCCTTCEEEE
T ss_pred             --------------------CC---CeeEEEEcCC--------------------------------CCCCCCCCCceEE
Confidence                                56   7777764210                                0112345678999


Q ss_pred             EeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCC------CceEEEEeCChhHHHHHHHHhcCCCeEEcCeEEEEEecC
Q psy5142         280 ISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVG------EPTAFVRYKKENNAEAVLKALGSKEIVIKDVKVSIEVVT  353 (410)
Q Consensus       280 v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g------~~~afV~F~~~e~A~~Al~~l~~~~~~i~g~~v~v~~l~  353 (410)
                      |.|||..+++++|+++|++||    .|..|.+..+      .+.|||+|.+.++|.+|+..|  ++..++|+.|.|....
T Consensus        92 v~nl~~~~t~~~l~~~f~~~G----~i~~~~i~~~~~~~~~~g~afV~f~~~~~A~~A~~~l--~g~~~~g~~i~v~~a~  165 (166)
T 3md3_A           92 VGDLNVNVDDETLRNAFKDFP----SYLSGHVMWDMQTGSSRGYGFVSFTSQDDAQNAMDSM--QGQDLNGRPLRINWAA  165 (166)
T ss_dssp             EESCCTTCCHHHHHHHHTTST----TEEEEEEEECTTTCCEEEEEEEEESCHHHHHHHHHHH--TTCEETTEECEEEESC
T ss_pred             ECCCCCCCCHHHHHHHHhccC----CeeEEEEEecCCCCCcceEEEEEeCCHHHHHHHHHHh--CCCccCCcEEEEEecC
Confidence            999999999999999999999    9999988754      236999999999999999999  6789999999998754

>1l3k_A Heterogeneous nuclear ribonucleoprotein A1; nuclear protein hnRNP A1, RNA-recognition motif, RNA- binding, UP1, RNA binding protein; 1.10A {Homo sapiens} SCOP: d.58.7.1 d.58.7.1 PDB: 1u1k_A* 1u1l_A* 1u1m_A* 1u1n_A* 1u1o_A 1u1p_A* 1u1q_A 1u1r_A* 1pgz_A* 1ha1_A 1po6_A* 2up1_A* 1up1_A

Probab=99.93  E-value=8.1e-26  Score=204.16  Aligned_cols=166  Identities=16%  Similarity=0.219  Sum_probs=134.7

Q ss_pred             ccceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCCccc
Q psy5142         117 LIAQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLKF  196 (410)
Q Consensus       117 ~~~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~~~  196 (410)
                      ...++|||+|||+++|+++|+++|++|    |.|.+|.|+++..++    .++|||||+|.+.++|.+|++..+   ..+
T Consensus        11 ~~~~~l~V~nLp~~~te~~l~~~F~~~----G~i~~v~i~~~~~~g----~~~g~afV~f~~~~~A~~A~~~~~---~~~   79 (196)
T 1l3k_A           11 EQLRKLFIGGLSFETTDESLRSHFEQW----GTLTDCVVMRDPNTK----RSRGFGFVTYATVEEVDAAMNARP---HKV   79 (196)
T ss_dssp             GGGGEEEEESCCTTCCHHHHHHHHGGG----SCEEEEEEEECTTTC----CEEEEEEEEESSHHHHHHHHHTCS---CEE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhC----CCEEEEEEEEcCCCC----CccceEEEEeCCHHHHHHHHhcCC---CEE
Confidence            457899999999999999999999999    999999999987765    789999999999999999998843   556


Q ss_pred             cccccchhhhhhhhcccccccccCcccccchhhhchHHHHHHHHHHHHhhhhccccCccCCCCCCCCCCcccccCCCCCe
Q psy5142         197 NENCEHKNAEKFLNENKDKNLKFNENCEHSLLIKWQQEYHEEKKQEVRSKRDKSKKSTEGDGEGNTEGSKQVVLELPTGA  276 (410)
Q Consensus       197 ~~~~~~~~~~k~~~~~~~~~~~~~g~~~~~L~v~~k~~~~~~k~~e~~~~~~k~k~~~e~~~~~~~~~~~~~~~~~~~g~  276 (410)
                                             .|   +.|.+.+......                            ..........+
T Consensus        80 -----------------------~g---~~l~v~~~~~~~~----------------------------~~~~~~~~~~~  105 (196)
T 1l3k_A           80 -----------------------DG---RVVEPKRAVSRED----------------------------SQRPGAHLTVK  105 (196)
T ss_dssp             -----------------------TT---EECEEEECCC---------------------------------------CCS
T ss_pred             -----------------------CC---EEeeeecccCccc----------------------------ccccccCCCcc
Confidence                                   66   7777765211100                            00011223457


Q ss_pred             EEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCCC------ceEEEEeCChhHHHHHHHHhcCCCeEEcCeEEEEE
Q psy5142         277 LLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVGE------PTAFVRYKKENNAEAVLKALGSKEIVIKDVKVSIE  350 (410)
Q Consensus       277 ~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g~------~~afV~F~~~e~A~~Al~~l~~~~~~i~g~~v~v~  350 (410)
                      .|+|.|||+.+++++|+++|++||    .|..|.+..+.      ++|||+|.+.++|.+|+..   ++..++|+.|.|.
T Consensus       106 ~l~V~nLp~~~t~~~l~~~F~~~G----~i~~v~i~~~~~~g~~~g~afV~F~~~~~A~~A~~~---~~~~~~G~~i~v~  178 (196)
T 1l3k_A          106 KIFVGGIKEDTEEHHLRDYFEQYG----KIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKIVIQ---KYHTVNGHNCEVR  178 (196)
T ss_dssp             EEEEECCTTTCCHHHHHHHHTTTS----CEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHC---SCCEETTEECEEE
T ss_pred             eEEEeCCCCCCCHHHHHHHHhcCC----CeEEEEEeecCCCCCccceEEEEECCHHHHHHHHHh---CCcEECCEEEEEE
Confidence            899999999999999999999999    99999988653      3699999999999999976   3689999999999


Q ss_pred             ecCc
Q psy5142         351 VVTG  354 (410)
Q Consensus       351 ~l~g  354 (410)
                      .+..
T Consensus       179 ~a~~  182 (196)
T 1l3k_A          179 KALS  182 (196)
T ss_dssp             ECC-
T ss_pred             ecCC
Confidence            8763

>1b7f_A Protein (SXL-lethal protein), RNA (5'-R(P*GP*UP*UP*GP*UP*UP*UP*UP*UP*UP*UP*U)-3; splicing regulation, RNP domain, RNA complex; 2.60A {Drosophila melanogaster} SCOP: d.58.7.1 d.58.7.1 PDB: 3sxl_A* 1sxl_A 2sxl_A

Probab=99.93  E-value=1.8e-25  Score=196.69  Aligned_cols=157  Identities=18%  Similarity=0.291  Sum_probs=134.4

Q ss_pred             ceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCCccccc
Q psy5142         119 AQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLKFNE  198 (410)
Q Consensus       119 ~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~~~~~  198 (410)
                      .++|||+|||.++|+++|+++|++|    |.|.+|.++++..++    .++|+|||+|.+.++|++|++.++|  ..+  
T Consensus         3 ~~~l~v~nlp~~~~~~~l~~~f~~~----G~i~~v~i~~~~~~~----~~~g~afV~f~~~~~A~~a~~~l~~--~~~--   70 (168)
T 1b7f_A            3 NTNLIVNYLPQDMTDRELYALFRAI----GPINTCRIMRDYKTG----YSYGYAFVDFTSEMDSQRAIKVLNG--ITV--   70 (168)
T ss_dssp             CSEEEEECCCTTCCHHHHHHHHHTT----SCEEEEECCEETTTT----EECSEEEEEESSHHHHHHHHHHHTT--CEE--
T ss_pred             ccEEEEeCCCCCCCHHHHHHHHHhc----CCeeEEEEEEeCCCC----ccceEEEEEECCHHHHHHHHHhcCC--CEe--
Confidence            5899999999999999999999999    999999999887664    7899999999999999999998886  455  


Q ss_pred             cccchhhhhhhhcccccccccCcccccchhhhchHHHHHHHHHHHHhhhhccccCccCCCCCCCCCCcccccCCCCCeEE
Q psy5142         199 NCEHKNAEKFLNENKDKNLKFNENCEHSLLIKWQQEYHEEKKQEVRSKRDKSKKSTEGDGEGNTEGSKQVVLELPTGALL  278 (410)
Q Consensus       199 ~~~~~~~~k~~~~~~~~~~~~~g~~~~~L~v~~k~~~~~~k~~e~~~~~~k~k~~~e~~~~~~~~~~~~~~~~~~~g~~l  278 (410)
                                           .|   +.|.+.+..                                  ......+.+.|
T Consensus        71 ---------------------~g---~~l~v~~~~----------------------------------~~~~~~~~~~l   92 (168)
T 1b7f_A           71 ---------------------RN---KRLKVSYAR----------------------------------PGGESIKDTNL   92 (168)
T ss_dssp             ---------------------TT---EECEEEECC----------------------------------CCSSTTTTCEE
T ss_pred             ---------------------CC---cEEEEEecC----------------------------------CCcccCCCCCE
Confidence                                 66   777776421                                  01122456789


Q ss_pred             EEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCCC------ceEEEEeCChhHHHHHHHHhcCCCeEEcC--eEEEEE
Q psy5142         279 KISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVGE------PTAFVRYKKENNAEAVLKALGSKEIVIKD--VKVSIE  350 (410)
Q Consensus       279 ~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g~------~~afV~F~~~e~A~~Al~~l~~~~~~i~g--~~v~v~  350 (410)
                      +|.|||..+++++|+++|++||    .|..|.+.++.      +.|||+|.+.++|.+|+..|  ++..++|  +.|+|.
T Consensus        93 ~v~nl~~~~t~~~l~~~f~~~G----~i~~~~i~~~~~~~~~~g~afV~f~~~~~A~~A~~~l--~g~~~~g~~~~l~V~  166 (168)
T 1b7f_A           93 YVTNLPRTITDDQLDTIFGKYG----SIVQKNILRDKLTGRPRGVAFVRYNKREEAQEAISAL--NNVIPEGGSQPLSVR  166 (168)
T ss_dssp             EEESCCTTCCHHHHHHHHTSSS----CEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHH--TTCCCTTCSSCCEEE
T ss_pred             EEeCCCCCCCHHHHHHhhhcCC----cEEEEEEEEcCCCCCcceEEEEEECCHHHHHHHHHHh--cCCEecCCCeEEEEE
Confidence            9999999999999999999999    99999988754      46999999999999999999  5677876  888887


Q ss_pred             e
Q psy5142         351 V  351 (410)
Q Consensus       351 ~  351 (410)
                      .
T Consensus       167 ~  167 (168)
T 1b7f_A          167 L  167 (168)
T ss_dssp             E
T ss_pred             e
Confidence            5

>1fxl_A Paraneoplastic encephalomyelitis antigen HUD; protein-RNA complex, AU-rich element, transcription/RNA complex; 1.80A {Homo sapiens} SCOP: d.58.7.1 d.58.7.1 PDB: 1g2e_A 1fnx_H 1d8z_A 1d9a_A 3hi9_A

Probab=99.93  E-value=2.8e-25  Score=194.87  Aligned_cols=156  Identities=17%  Similarity=0.312  Sum_probs=132.0

Q ss_pred             ceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCCccccc
Q psy5142         119 AQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLKFNE  198 (410)
Q Consensus       119 ~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~~~~~  198 (410)
                      .++|||+|||.++|+++|+++|++|    |.|.+|.++++..++    .++|+|||+|.++++|.+|++.++|  ..+  
T Consensus         2 ~~~l~v~nlp~~~~~~~l~~~f~~~----G~i~~v~~~~~~~~~----~~~g~afV~f~~~~~A~~a~~~l~~--~~~--   69 (167)
T 1fxl_A            2 KTNLIVNYLPQNMTQEEFRSLFGSI----GEIESCKLVRDKITG----QSLGYGFVNYIDPKDAEKAINTLNG--LRL--   69 (167)
T ss_dssp             CSEEEEESCCTTCCHHHHHHHHHTT----SCEEEEEEEECTTTC----CEEEEEEEEESSHHHHHHHHHHHTT--CEE--
T ss_pred             cceEEEcCCCCCCCHHHHHHHHHhc----CCeEEEEEEeCCCCC----cceeEEEEEECCHHHHHHHHHHcCC--Ccc--
Confidence            5899999999999999999999999    999999999987554    7899999999999999999998886  455  


Q ss_pred             cccchhhhhhhhcccccccccCcccccchhhhchHHHHHHHHHHHHhhhhccccCccCCCCCCCCCCcccccCCCCCeEE
Q psy5142         199 NCEHKNAEKFLNENKDKNLKFNENCEHSLLIKWQQEYHEEKKQEVRSKRDKSKKSTEGDGEGNTEGSKQVVLELPTGALL  278 (410)
Q Consensus       199 ~~~~~~~~k~~~~~~~~~~~~~g~~~~~L~v~~k~~~~~~k~~e~~~~~~k~k~~~e~~~~~~~~~~~~~~~~~~~g~~l  278 (410)
                                           .|   +.|.+.+...                                  .......+.|
T Consensus        70 ---------------------~g---~~l~v~~~~~----------------------------------~~~~~~~~~l   91 (167)
T 1fxl_A           70 ---------------------QT---KTIKVSYARP----------------------------------SSASIRDANL   91 (167)
T ss_dssp             ---------------------TT---EECEEEECCC----------------------------------CCGGGTTCEE
T ss_pred             ---------------------CC---ceEEEEecCC----------------------------------CcccCCCCcE
Confidence                                 66   7777764210                                  0112345689


Q ss_pred             EEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCCC------ceEEEEeCChhHHHHHHHHhcCCCeEEcCeE--EEEE
Q psy5142         279 KISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVGE------PTAFVRYKKENNAEAVLKALGSKEIVIKDVK--VSIE  350 (410)
Q Consensus       279 ~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g~------~~afV~F~~~e~A~~Al~~l~~~~~~i~g~~--v~v~  350 (410)
                      +|.|||..+++++|+++|++||    .|..|.+..+.      +.|||+|.+.++|.+|+..|  ++..++|+.  |.|.
T Consensus        92 ~v~nl~~~~t~~~l~~~f~~~G----~i~~~~i~~~~~~g~~~g~afV~f~~~~~A~~A~~~l--~g~~~~g~~~~i~v~  165 (167)
T 1fxl_A           92 YVSGLPKTMTQKELEQLFSQYG----RIITSRILVDQVTGVSRGVGFIRFDKRIEAEEAIKGL--NGQKPSGATEPITVK  165 (167)
T ss_dssp             EEESCCTTCCHHHHHHHHGGGS----CEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHH--TTCCCTTCSSCCEEE
T ss_pred             EECCCCCcCCHHHHHHHHHhcC----CEeEEEEEecCCCCCccceEEEEeCCHHHHHHHHHHh--cCCccCCCccceEEE
Confidence            9999999999999999999999    99999887653      46999999999999999999  667888865  5554

>2qfj_A FBP-interacting repressor; protein-DNA complex; HET: DNA; 2.10A {Homo sapiens} PDB: 3uwt_A 2kxf_A 2kxh_A

Probab=99.93  E-value=3.9e-25  Score=202.67  Aligned_cols=173  Identities=16%  Similarity=0.209  Sum_probs=136.6

Q ss_pred             hccceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCCcc
Q psy5142         116 DLIAQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLK  195 (410)
Q Consensus       116 ~~~~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~~  195 (410)
                      ....++|||+|||.++|+++|+++|++|    |.|.+|.|+++..++    .++|||||+|.+.++|.+|++.+++  ..
T Consensus        25 ~~~~~~l~V~nLp~~~t~~~l~~~f~~~----G~i~~v~i~~~~~~g----~~~g~afV~f~~~~~A~~A~~~l~~--~~   94 (216)
T 2qfj_A           25 LAIMSRVYVGSIYYELGEDTIRQAFAPF----GPIKSIDMSWDSVTM----KHKGFAFVEYEVPEAAQLALEQMNS--VM   94 (216)
T ss_dssp             HHHHTEEEEECCCTTCCHHHHHHHHGGG----SCEEEEEECCC-CC-----CCCSEEEEEESSHHHHHHHHHHHSS--CC
T ss_pred             cCcCCEEEEECCCCCCCHHHHHHHHHhC----CCEEEEEEeecCCCC----ccCceEEEEeCCHHHHHHHHHHccC--Ce
Confidence            3557899999999999999999999999    999999999887654    7899999999999999999998886  44


Q ss_pred             ccccccchhhhhhhhcccccccccCcccccchhhhchHHHHHHHHHHHHhhhhccccCccCCCCCCCCCCcccccCCCCC
Q psy5142         196 FNENCEHKNAEKFLNENKDKNLKFNENCEHSLLIKWQQEYHEEKKQEVRSKRDKSKKSTEGDGEGNTEGSKQVVLELPTG  275 (410)
Q Consensus       196 ~~~~~~~~~~~k~~~~~~~~~~~~~g~~~~~L~v~~k~~~~~~k~~e~~~~~~k~k~~~e~~~~~~~~~~~~~~~~~~~g  275 (410)
                      +                       .|   +.|.|.+...+.........                       ........
T Consensus        95 ~-----------------------~g---~~l~v~~~~~~~~~~~~~~~-----------------------~~~~~~~~  125 (216)
T 2qfj_A           95 L-----------------------GG---RNIKVGRPSNIGQAQPIIDQ-----------------------LAEEARAF  125 (216)
T ss_dssp             C-----------------------C----CCCEEECCSCCGGGHHHHHH-----------------------HHHHHTTS
T ss_pred             e-----------------------CC---eeEEEecCCCccccchhhhh-----------------------hhcccCCC
Confidence            5                       55   66666432111000000000                       00012345


Q ss_pred             eEEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCC------CceEEEEeCChhHHHHHHHHhcCCCeEEcCeEEEE
Q psy5142         276 ALLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVG------EPTAFVRYKKENNAEAVLKALGSKEIVIKDVKVSI  349 (410)
Q Consensus       276 ~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g------~~~afV~F~~~e~A~~Al~~l~~~~~~i~g~~v~v  349 (410)
                      ++|+|.|||.++++++|+++|++||    .|..|.+..+      .++|||+|.+.++|.+|+..|  ++..|+|+.|.|
T Consensus       126 ~~l~v~nlp~~~t~~~l~~~f~~~G----~v~~v~i~~~~~~g~~~g~afV~F~~~~~A~~A~~~l--~g~~~~g~~i~V  199 (216)
T 2qfj_A          126 NRIYVASVHQDLSDDDIKSVFEAFG----KIKSATLARDPTTGKHKGYGFIEYEKAQSSQDAVSSM--NLFDLGGQYLRV  199 (216)
T ss_dssp             CEEEEECCCTTCCHHHHHHHHTTSS----CEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHH--TTCBCSSSBCEE
T ss_pred             cEEEEeCCCCcCCHHHHHHHHhccC----CeeEEEEEecCCCCCcCceEEEEecCHHHHHHHHHHc--cCCEeCCcEEEE
Confidence            6899999999999999999999999    9999999865      346999999999999999999  678899999999


Q ss_pred             EecC
Q psy5142         350 EVVT  353 (410)
Q Consensus       350 ~~l~  353 (410)
                      ....
T Consensus       200 ~~a~  203 (216)
T 2qfj_A          200 GKAV  203 (216)
T ss_dssp             EECS
T ss_pred             EEec
Confidence            8765

>3nmr_A Cugbp ELAV-like family member 1; RRM, PRE-mRNA splicing, RNA binding protein-RNA complex; 1.85A {Homo sapiens} PDB: 3nna_A 3nnc_A 2dhs_A 3nnh_A

Probab=99.93  E-value=1.3e-24  Score=192.30  Aligned_cols=165  Identities=19%  Similarity=0.233  Sum_probs=129.0

Q ss_pred             cceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCCcccc
Q psy5142         118 IAQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLKFN  197 (410)
Q Consensus       118 ~~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~~~~  197 (410)
                      +.++|||+|||+++|+++|+++|++|    |.|.+|+|+++..++  ...++|||||+|.+.++|++|++.+++  ..+ 
T Consensus         2 ~~~~l~V~nLp~~~te~~l~~~F~~~----G~i~~v~i~~~~~~~--~~~~~g~afV~f~~~~~A~~A~~~l~~--~~~-   72 (175)
T 3nmr_A            2 DAIKMFVGQVPRTWSEKDLRELFEQY----GAVYEINVLRDRSQN--PPQSKGCCFVTFYTRKAALEAQNALHN--MKV-   72 (175)
T ss_dssp             CCEEEEEESCCTTCCHHHHHHHHHTT----SCEEEEEEEEECSSS--SCEEEEEEEEEESSHHHHHHHHHHHTT--TCC-
T ss_pred             CceEEEEeCCCCCCCHHHHHHHHHhC----CCEEEEEEEecCCCC--CCCcceEEEEEECCHHHHHHHHHHhcC--cEE-
Confidence            46899999999999999999999999    999999999887652  014799999999999999999999886  333 


Q ss_pred             ccccchhhhhhhhcccccccccCcccccchhhhchHHHHHHHHHHHHhhhhccccCccCCCCCCCCCCcccccCCCCCeE
Q psy5142         198 ENCEHKNAEKFLNENKDKNLKFNENCEHSLLIKWQQEYHEEKKQEVRSKRDKSKKSTEGDGEGNTEGSKQVVLELPTGAL  277 (410)
Q Consensus       198 ~~~~~~~~~k~~~~~~~~~~~~~g~~~~~L~v~~k~~~~~~k~~e~~~~~~k~k~~~e~~~~~~~~~~~~~~~~~~~g~~  277 (410)
                                            .+...+.+.+.+..                                 .........+.
T Consensus        73 ----------------------~~~~~~~~~~~~~~---------------------------------~~~~~~~~~~~   97 (175)
T 3nmr_A           73 ----------------------LPGMHHPIQMKPAD---------------------------------SEKNNAVEDRK   97 (175)
T ss_dssp             ----------------------CTTCSSCCEEEECG---------------------------------GGCCSCGGGSE
T ss_pred             ----------------------ccCCccceEEcccc---------------------------------ccccccCCCCe
Confidence                                  11011333333210                                 00111234568


Q ss_pred             EEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCC-----CceEEEEeCChhHHHHHHHHhcCCCeEEc---CeEEEE
Q psy5142         278 LKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVG-----EPTAFVRYKKENNAEAVLKALGSKEIVIK---DVKVSI  349 (410)
Q Consensus       278 l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g-----~~~afV~F~~~e~A~~Al~~l~~~~~~i~---g~~v~v  349 (410)
                      |+|.|||+.+++++|+++|++||    .|..|.+.++     .++|||+|.+.++|.+|+..|+  +..+.   ++.|.|
T Consensus        98 l~v~nl~~~~t~~~l~~~F~~~G----~i~~v~~~~~~~g~~~g~afV~f~~~~~A~~A~~~l~--g~~~~~g~~~~l~V  171 (175)
T 3nmr_A           98 LFIGMISKKCTENDIRVMFSSFG----QIEECRILRGPDGLSRGCAFVTFTTRAMAQTAIKAMH--QAQTMEGCSSPMVV  171 (175)
T ss_dssp             EEEESCCTTCCHHHHHHHHGGGS----CEEEEEEEECTTSCEEEEEEEEESSHHHHHHHHHHHT--TSCCCTTCSSCCEE
T ss_pred             EEEcCCCCcCCHHHHHHHHHhCC----CEEEEEEEECCCCCEEEEEEEEECCHHHHHHHHHHhc--CCcccCCCCCCeEE
Confidence            99999999999999999999999    9999998875     3369999999999999999994  44343   488888


Q ss_pred             Eec
Q psy5142         350 EVV  352 (410)
Q Consensus       350 ~~l  352 (410)
                      ..+
T Consensus       172 ~~a  174 (175)
T 3nmr_A          172 KFA  174 (175)
T ss_dssp             EEC
T ss_pred             Eec
Confidence            764

>2cjk_A Nuclear polyadenylated RNA-binding protein 4; HRP1, RNA-binding, RNA processing, mRNA processing, nonsense-mediated mRNA decay, cleavage; NMR {Saccharomyces cerevisiae} PDB: 2km8_C

Probab=99.92  E-value=3.4e-25  Score=194.93  Aligned_cols=158  Identities=16%  Similarity=0.241  Sum_probs=132.7

Q ss_pred             cceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCCcccc
Q psy5142         118 IAQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLKFN  197 (410)
Q Consensus       118 ~~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~~~~  197 (410)
                      +.++|||+|||+++|+++|+++|++|    |.|.+|.|+++..++    .++|||||+|.+.++|++|+...    ..+ 
T Consensus         2 ~~~~l~v~nLp~~~t~~~l~~~F~~~----G~i~~v~i~~~~~~g----~~~g~afV~f~~~~~a~~A~~~~----~~~-   68 (167)
T 2cjk_A            2 ESCKMFIGGLNWDTTEDNLREYFGKY----GTVTDLKIMKDPATG----RSRGFGFLSFEKPSSVDEVVKTQ----HIL-   68 (167)
T ss_dssp             GGGEEEECSCCTTCCHHHHHHHHTTT----CCEEEEECCCCTTTS----SCCSCEEEEESSTHHHHHHHHSC----CEE-
T ss_pred             CCcEEEEeCCCCCCCHHHHHHHHHhC----CCEEEEEEEECCCCC----CccceEEEEEccHHHHHHHHhcc----ccc-
Confidence            36899999999999999999999999    999999999987665    89999999999999999999863    245 


Q ss_pred             ccccchhhhhhhhcccccccccCcccccchhhhchHHHHHHHHHHHHhhhhccccCccCCCCCCCCCCcccccCCCCCeE
Q psy5142         198 ENCEHKNAEKFLNENKDKNLKFNENCEHSLLIKWQQEYHEEKKQEVRSKRDKSKKSTEGDGEGNTEGSKQVVLELPTGAL  277 (410)
Q Consensus       198 ~~~~~~~~~k~~~~~~~~~~~~~g~~~~~L~v~~k~~~~~~k~~e~~~~~~k~k~~~e~~~~~~~~~~~~~~~~~~~g~~  277 (410)
                                            .|   +.|.+.+.....                                  ...+...
T Consensus        69 ----------------------~g---~~i~v~~~~~~~----------------------------------~~~~~~~   89 (167)
T 2cjk_A           69 ----------------------DG---KVIDPKRAIPRD----------------------------------EQDKTGK   89 (167)
T ss_dssp             ----------------------TT---EECCCEECCCHH----------------------------------HHHHCEE
T ss_pred             ----------------------CC---eEcccccccchh----------------------------------hccCCCe
Confidence                                  55   666655421100                                  0122458


Q ss_pred             EEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCCC------ceEEEEeCChhHHHHHHHHhcCCCeEEcCeEEEEEe
Q psy5142         278 LKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVGE------PTAFVRYKKENNAEAVLKALGSKEIVIKDVKVSIEV  351 (410)
Q Consensus       278 l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g~------~~afV~F~~~e~A~~Al~~l~~~~~~i~g~~v~v~~  351 (410)
                      |+|.|||+.+++++|+++|++||    .|..|.+..+.      ++|||+|.+.++|.+|++ +  ++..++|+.|.|..
T Consensus        90 l~V~nlp~~~t~~~l~~~F~~~G----~i~~~~i~~~~~~g~~~g~afV~f~~~~~a~~A~~-~--~~~~~~g~~i~V~~  162 (167)
T 2cjk_A           90 IFVGGIGPDVRPKEFEEFFSQWG----TIIDAQLMLDKDTGQSRGFGFVTYDSADAVDRVCQ-N--KFIDFKDRKIEIKR  162 (167)
T ss_dssp             EEEEEECTTCCHHHHHHHHHTTS----CCSEEECCCSSSSSTTSEEEEEEESSHHHHHHHHH-C--SEECSSSSCEEEEE
T ss_pred             EEECCCCCCCCHHHHHHHHHhCc----cEEEEEEEEcCCCCccceEEEEEECCHHHHHHHHh-C--CCEEeCCeEEEEee
Confidence            99999999999999999999999    99999987653      479999999999999998 6  68999999999998


Q ss_pred             cCc
Q psy5142         352 VTG  354 (410)
Q Consensus       352 l~g  354 (410)
                      ...
T Consensus       163 a~p  165 (167)
T 2cjk_A          163 AEP  165 (167)
T ss_dssp             CCC
T ss_pred             cCC
Confidence            754

>2g4b_A Splicing factor U2AF 65 kDa subunit; protein-RNA complex, RNA splicing factor, RNA recognition motif, RNA binding protein/RNA complex; 2.50A {Homo sapiens} PDB: 2u2f_A

Probab=99.91  E-value=1e-23  Score=186.33  Aligned_cols=152  Identities=20%  Similarity=0.340  Sum_probs=126.3

Q ss_pred             cceeeEeecCCCCCCHHHHHHHHhhccCCCC-----------ceEEEEEcccCcccccccccccEEEEEecCHHHHHHHH
Q psy5142         118 IAQSLYVKYIPVDATLDDIKDFFKKNTSEDV-----------KITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFL  186 (410)
Q Consensus       118 ~~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G-----------~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al  186 (410)
                      +.++|||+|||+++|+++|+++|++|    |           .|.++.+.          ..+|+|||+|.++++|.+|+
T Consensus         3 ~~~~l~V~nLp~~~t~~~l~~~F~~~----g~~~g~~~~~~~~v~~~~~~----------~~~g~afV~f~~~~~A~~A~   68 (172)
T 2g4b_A            3 SARRLYVGNIPFGITEEAMMDFFNAQ----MRLGGLTQAPGNPVLAVQIN----------QDKNFAFLEFRSVDETTQAM   68 (172)
T ss_dssp             GGGEEEEESCCTTCCHHHHHHHHHHH----HHHTTCCSSSSCSEEEEEEE----------TTTTEEEEEESSHHHHHHHG
T ss_pred             cccEEEEcCCCcccCHHHHHHHHHHH----hhhcccccCCCCceeeeEec----------CCCCEEEEEeCCHHHHHHHH
Confidence            46899999999999999999999999    7           45555543          56899999999999999999


Q ss_pred             HhcCCCCccccccccchhhhhhhhcccccccccCcccccchhhhchHHHHHHHHHHHHhhhhccccCccCCCCCCCCCCc
Q psy5142         187 NENKDKNLKFNENCEHKNAEKFLNENKDKNLKFNENCEHSLLIKWQQEYHEEKKQEVRSKRDKSKKSTEGDGEGNTEGSK  266 (410)
Q Consensus       187 ~~~~g~~~~~~~~~~~~~~~k~~~~~~~~~~~~~g~~~~~L~v~~k~~~~~~k~~e~~~~~~k~k~~~e~~~~~~~~~~~  266 (410)
                       .++|  ..+                       .|   +.|.+.+...                                
T Consensus        69 -~~~~--~~~-----------------------~g---~~i~v~~~~~--------------------------------   87 (172)
T 2g4b_A           69 -AFDG--IIF-----------------------QG---QSLKIRRPHD--------------------------------   87 (172)
T ss_dssp             -GGTT--CEE-----------------------TT---EECEEECCSS--------------------------------
T ss_pred             -HhCC--cEe-----------------------cC---ceeeecCCcc--------------------------------
Confidence             6775  455                       66   7777764211                                


Q ss_pred             ccccCCCCCeEEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCCC------ceEEEEeCChhHHHHHHHHhcCCCe
Q psy5142         267 QVVLELPTGALLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVGE------PTAFVRYKKENNAEAVLKALGSKEI  340 (410)
Q Consensus       267 ~~~~~~~~g~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g~------~~afV~F~~~e~A~~Al~~l~~~~~  340 (410)
                        .......+.|+|.|||..+++++|+++|++||    .|..|.+.++.      +.|||+|.+.++|.+|+..|  ++.
T Consensus        88 --~~~~~~~~~l~v~nlp~~~t~~~l~~~f~~~G----~v~~v~i~~~~~~g~~~g~afV~f~~~~~A~~A~~~l--~g~  159 (172)
T 2g4b_A           88 --YQPLPGAHKLFIGGLPNYLNDDQVKELLTSFG----PLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAIAGL--NGM  159 (172)
T ss_dssp             --CCCCTTTTCEEEECCCTTCCHHHHHHHHHTTS----CEEEEEEEECTTTCSEEEEEEEEESSTTHHHHHHHHH--TTC
T ss_pred             --cCCCCCCCEEEEEcCCCcCCHHHHHHHHHhcC----CceEEEEEecCCCCCcceEEEEEeCCHHHHHHHHHHc--CCC
Confidence              01123356899999999999999999999999    99999988763      46999999999999999999  679


Q ss_pred             EEcCeEEEEEec
Q psy5142         341 VIKDVKVSIEVV  352 (410)
Q Consensus       341 ~i~g~~v~v~~l  352 (410)
                      .++|+.|.|..+
T Consensus       160 ~~~g~~l~V~~A  171 (172)
T 2g4b_A          160 QLGDKKLLVQRA  171 (172)
T ss_dssp             EETTEECEEEEC
T ss_pred             EECCeEEEEEeC
Confidence            999999999865

>1owx_A Lupus LA protein, SS-B, LA; RRM, transcription; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.91  E-value=2.2e-24  Score=180.19  Aligned_cols=104  Identities=26%  Similarity=0.372  Sum_probs=99.8

Q ss_pred             ccCCCCCeEEEEeCCCCC-CCHHHHHHHHHhcCCCCCCeeEEEeeCCCceEEEEeCC-hhHHHHHHHHhcCCCeEEcCeE
Q psy5142         269 VLELPTGALLKISDIKEP-VSREDIREVLEKVQTDDQEIVFIEFNVGEPTAFVRYKK-ENNAEAVLKALGSKEIVIKDVK  346 (410)
Q Consensus       269 ~~~~~~g~~l~v~nL~~~-~t~edLk~~F~~~G~~~~~V~~V~~~~g~~~afV~F~~-~e~A~~Al~~l~~~~~~i~g~~  346 (410)
                      +..+++||+|+|.||+++ +++++|+++|++||    +|.||++.+|..+|||+|.+ +.+|..|+..+++++++|+|..
T Consensus        12 ~~~~~~G~il~v~~l~~~~~sredLke~F~~~G----~V~~Vd~~~g~~tgfVrf~~~~~~A~~av~~ln~~~~~i~g~~   87 (121)
T 1owx_A           12 SLEEKIGCLLKFSGDLDDQTCREDLHILFSNHG----EIKWIDFVRGAKEGIILFKEKAKEALGKAKDANNGNLQLRNKE   87 (121)
T ss_dssp             CCSCCCCCEEEEEESCCSSCCHHHHHHHTCSSC----CEEEEECCTTCSEEEEEESSCHHHHHHHHHHTTTSCBCTTSSS
T ss_pred             cccccCCeEEEEecCCCCcCCHHHHHHHHHhcC----CEEEEEEecCCCEEEEEECCChHHHHHHHHHhhcCCcEEeCcE
Confidence            457899999999999999 99999999999999    99999999999999999999 7899999999999999999999


Q ss_pred             EEEEecCchHHHHHHHHhHHHHHHHHHhhhh
Q psy5142         347 VSIEVVTGEEEQTVLDRMKIDIFKRRQKLMN  377 (410)
Q Consensus       347 v~v~~l~g~eE~~yw~k~~~~~~~~~~~~~~  377 (410)
                      +++++|+|++|+.||+||.+++++++++ ++
T Consensus        88 ~~~evL~GeeE~~yw~Ki~ed~~~k~~k-~~  117 (121)
T 1owx_A           88 VTWEVLEGEVEKEALKKIIEDQQESLNK-WK  117 (121)
T ss_dssp             EEEEECCHHHHHHHHHHHHHHHHHHHCC-CC
T ss_pred             EEEEECCCHHHHHHHHHHHHHHHHHHhC-cc
Confidence            9999999999999999999999999988 55

>3smz_A Protein raver-1, ribonucleoprotein PTB-binding 1; RNA binding, RNA recognition motif, vincu alpha-actinin, nucleus, RNA binding protein; 1.99A {Homo sapiens} PDB: 3vf0_B* 3h2u_B 3h2v_E

Probab=99.91  E-value=2.8e-23  Score=198.96  Aligned_cols=167  Identities=13%  Similarity=0.203  Sum_probs=141.9

Q ss_pred             ceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCCccccc
Q psy5142         119 AQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLKFNE  198 (410)
Q Consensus       119 ~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~~~~~  198 (410)
                      .++|||+|||+++|+++|+++|++|    |.|..|.++++..++    .++|+|||+|.+.++|.+|+..++|  ..+  
T Consensus        95 ~~~l~v~nlp~~~t~~~l~~~f~~~----G~i~~~~i~~~~~~g----~~~g~afV~f~~~~~a~~A~~~l~~--~~~--  162 (284)
T 3smz_A           95 DALLCVANLPPSLTQQQFEELVRPF----GSLERCFLVYSERTG----QSKGYGFAEYMKKDSAARAKSDLLG--KPL--  162 (284)
T ss_dssp             SCEEEEESCCTTCCHHHHHHHHGGG----SCEEEEEEEECTTTC----CEEEEEEEEESSHHHHHHHHHHHTT--CEE--
T ss_pred             CCEEEEcCCCCcCCHHHHHHHHHhc----CCeeEEEEEeeCCCC----ccceEEEEEECCHHHHHHHHHHhCC--CEe--
Confidence            4799999999999999999999999    999999999887665    7899999999999999999998886  455  


Q ss_pred             cccchhhhhhhhcccccccccCcccccchhhhchHHHHHHHHHHHHhhhhccccCccCCCCCCCCCCcccccCCCCCeEE
Q psy5142         199 NCEHKNAEKFLNENKDKNLKFNENCEHSLLIKWQQEYHEEKKQEVRSKRDKSKKSTEGDGEGNTEGSKQVVLELPTGALL  278 (410)
Q Consensus       199 ~~~~~~~~k~~~~~~~~~~~~~g~~~~~L~v~~k~~~~~~k~~e~~~~~~k~k~~~e~~~~~~~~~~~~~~~~~~~g~~l  278 (410)
                                           .|   +.|.|.+...-                               .........++|
T Consensus       163 ---------------------~g---~~i~v~~a~~~-------------------------------~~~~~~~~~~~l  187 (284)
T 3smz_A          163 ---------------------GP---RTLYVHWTDAG-------------------------------QLTPALLHSRCL  187 (284)
T ss_dssp             ---------------------TT---EECEEEECCGG-------------------------------GCCTTTTSCSEE
T ss_pred             ---------------------CC---cEEEEEECCCC-------------------------------CCCcccCCccEE
Confidence                                 66   78877653110                               011123456789


Q ss_pred             EEeCCCCCC-CHHHHHHHHHhcCCCCCCeeEEEeeCC-----CceEEEEeCChhHHHHHHHHhcCCCeEEcCeEEEEEec
Q psy5142         279 KISDIKEPV-SREDIREVLEKVQTDDQEIVFIEFNVG-----EPTAFVRYKKENNAEAVLKALGSKEIVIKDVKVSIEVV  352 (410)
Q Consensus       279 ~v~nL~~~~-t~edLk~~F~~~G~~~~~V~~V~~~~g-----~~~afV~F~~~e~A~~Al~~l~~~~~~i~g~~v~v~~l  352 (410)
                      +|.|||+.+ ++++|+++|++||    .|..|.+.++     .+.|||+|.+.++|.+|+..|  ++..++|+.|.|...
T Consensus       188 ~v~nlp~~~~~~~~l~~~f~~~G----~i~~v~i~~~~~g~~~g~afV~f~~~~~A~~A~~~l--~g~~~~g~~l~v~~a  261 (284)
T 3smz_A          188 CVDRLPPGFNDVDALCRALSAVH----SPTFCQLACGQDGQLKGFAVLEYETAEMAEEAQQQA--DGLSLGGSHLRVSFC  261 (284)
T ss_dssp             EEECCCTTCCCHHHHHHHTCSSS----CCSEEEEEECSSCCEEEEEEEECSSHHHHHHHHHHH--TTCEETTEECEEEEC
T ss_pred             EEecCCcccCCHHHHHHHhhCCC----CeEEEEEEECCCCCcccEEEEEeCCHHHHHHHHHHh--CCCccCCeEEEEEEe
Confidence            999999995 9999999999999    9999988765     456999999999999999999  678999999999998


Q ss_pred             CchHHH
Q psy5142         353 TGEEEQ  358 (410)
Q Consensus       353 ~g~eE~  358 (410)
                      ...++.
T Consensus       262 ~~~~~~  267 (284)
T 3smz_A          262 APGPPG  267 (284)
T ss_dssp             CSSSCH
T ss_pred             cCCCcc
Confidence            876653

>3pgw_A U1-A; protein-RNA complex, U1 snRNA, SM fold, SM core, RRM, splici SNRNPS, splicing factors; HET: DNA; 4.40A {Homo sapiens} PDB: 1fht_A 2u1a_A 2aym_A 2b0g_A

Probab=99.90  E-value=2.1e-23  Score=199.65  Aligned_cols=191  Identities=19%  Similarity=0.334  Sum_probs=134.5

Q ss_pred             ccceeeEeecCCCCCCHHHHH----HHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCC
Q psy5142         117 LIAQSLYVKYIPVDATLDDIK----DFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDK  192 (410)
Q Consensus       117 ~~~rtv~V~~lp~~~t~~~L~----~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~  192 (410)
                      ...++|||+|||+++|+++|+    ++|++|    |.|.+|+|.+  .+     .++|||||+|.+.++|.+|++.++| 
T Consensus         7 ~~~~~l~V~nlp~~~~~~~l~~~L~~~F~~~----G~i~~v~~~~--~~-----~~~g~afV~f~~~~~a~~A~~~l~g-   74 (282)
T 3pgw_A            7 RPNHTIYINNLNEKIKKDELKKSLYAIFSQF----GQILDILVSR--SL-----KMRGQAFVIFKEVSSATNALRSMQG-   74 (282)
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHHHHhcc----CCeEEEEEcC--CC-----CcceEEEEEECCHHHHHHHHHHhcC-
Confidence            457899999999999999977    899999    9999999986  22     6899999999999999999999886 


Q ss_pred             CccccccccchhhhhhhhcccccccccCcccccchhhhchHHHHH-----------HHH-HHHHhhh--hccccCccCCC
Q psy5142         193 NLKFNENCEHKNAEKFLNENKDKNLKFNENCEHSLLIKWQQEYHE-----------EKK-QEVRSKR--DKSKKSTEGDG  258 (410)
Q Consensus       193 ~~~~~~~~~~~~~~k~~~~~~~~~~~~~g~~~~~L~v~~k~~~~~-----------~k~-~e~~~~~--~k~k~~~e~~~  258 (410)
                       ..+                       .|   +.|.|.+......           ... .+.....  +..........
T Consensus        75 -~~~-----------------------~g---~~l~v~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  127 (282)
T 3pgw_A           75 -FPF-----------------------YD---KPMRIQYAKTDSDIIAKMKGTFVERDRKREKRKPKSQETPATKKAVQG  127 (282)
T ss_pred             -Cee-----------------------CC---cEEEEEEeccCcchhhhhcCCcccchhhhhhhhccccchhhhhhhccC
Confidence             445                       33   4444443211000           000 0000000  00000000000


Q ss_pred             CCCC-------CC-------------------------------------C-------------------cccccCCCCC
Q psy5142         259 EGNT-------EG-------------------------------------S-------------------KQVVLELPTG  275 (410)
Q Consensus       259 ~~~~-------~~-------------------------------------~-------------------~~~~~~~~~g  275 (410)
                      ....       ..                                     .                   .......++.
T Consensus       128 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  207 (282)
T 3pgw_A          128 GGATPVVGAVQGPVPGMPPMTQAPRIMHHMPGQPPYMPPPGMIPPPGLAPGQIPPGAMPPQQLMPGQMPPAQPLSENPPN  207 (282)
T ss_pred             cCCcccCCCCCCCCCCCCcccccccccccCCCCCCCCCCCCCCCCCCCCccccCcccCcccccCccccCccCCccCCCCC
Confidence            0000       00                                     0                   0001123456


Q ss_pred             eEEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCCC-ceEEEEeCChhHHHHHHHHhcCCCeEEc-CeEEEEEec
Q psy5142         276 ALLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVGE-PTAFVRYKKENNAEAVLKALGSKEIVIK-DVKVSIEVV  352 (410)
Q Consensus       276 ~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g~-~~afV~F~~~e~A~~Al~~l~~~~~~i~-g~~v~v~~l  352 (410)
                      ++|+|.|||..+++++|+++|++||    .|..|.+.++. ++|||+|.+.++|.+|+..|  ++..++ |+.|.|...
T Consensus       208 ~~l~v~nl~~~~~~~~l~~~F~~~G----~i~~v~~~~~~~g~afV~f~~~~~A~~A~~~l--~g~~~~~g~~l~v~~a  280 (282)
T 3pgw_A          208 HILFLTNLPEETNELMLSMLFNQFP----GFKEVRLVPGRHDIAFVEFDNEVQAGAARDAL--QGFKITQNNAMKISFA  280 (282)
T ss_pred             CEEEEeCCCCcCCHHHHHHHHHhcC----CeEEEEEecCCCcEEEEEeCCHHHHHHHHHHc--CCcEeCCCCEEEEEEe
Confidence            8999999999999999999999999    99999999877 78999999999999999999  678888 999999864

>2yh0_A Splicing factor U2AF 65 kDa subunit; PRE-mRNA splicing, transcription, RNA binding protein, mRNA processing; NMR {Homo sapiens} PDB: 2yh1_A

Probab=99.90  E-value=3.3e-23  Score=187.24  Aligned_cols=174  Identities=17%  Similarity=0.288  Sum_probs=129.3

Q ss_pred             cceeeEeecCCCCCCHHHHHHHHhhccCCCCceE-----------EEEEcccCcccccccccccEEEEEecCHHHHHHHH
Q psy5142         118 IAQSLYVKYIPVDATLDDIKDFFKKNTSEDVKIT-----------NIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFL  186 (410)
Q Consensus       118 ~~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~-----------~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al  186 (410)
                      ..|+|||+|||+++|+++|+++|++|    |.|.           ++.+.          ..+|||||+|.+.++|++|+
T Consensus         3 ~~~~l~V~nLp~~~te~~l~~~F~~~----g~i~g~~~~~~~~v~~~~~~----------~~~g~afV~F~~~~~A~~Al   68 (198)
T 2yh0_A            3 MARRLYVGNIPFGITEEAMMDFFNAQ----MRLGGLTQAPGNPVLAVQIN----------QDKNFAFLEFRSVDETTQAM   68 (198)
T ss_dssp             -CCEEEEESCCTTCCHHHHHHHHHHH----HHHHTCCSSSSCSEEEEEEE----------TTTTEEEEEESCSHHHHHHG
T ss_pred             ceeEEEEcCCCCCCCHHHHHHHHHHH----HhhcccccCCCCceEEeEec----------CCCCEEEEEeCCHHHHHHHH
Confidence            36899999999999999999999999    8444           33332          57999999999999999999


Q ss_pred             HhcCCCCccccccccchhhhhhhhcccccccccCcccccchhhhchHHHHHHHHHHHHhhhhccccCccCCCCCCCCCCc
Q psy5142         187 NENKDKNLKFNENCEHKNAEKFLNENKDKNLKFNENCEHSLLIKWQQEYHEEKKQEVRSKRDKSKKSTEGDGEGNTEGSK  266 (410)
Q Consensus       187 ~~~~g~~~~~~~~~~~~~~~k~~~~~~~~~~~~~g~~~~~L~v~~k~~~~~~k~~e~~~~~~k~k~~~e~~~~~~~~~~~  266 (410)
                       .++|  ..+                       .|   +.|.|.+...+..            .......  ........
T Consensus        69 -~l~g--~~~-----------------------~g---~~i~v~~~~~~~~------------~~~~~~~--~~~~~~~~  105 (198)
T 2yh0_A           69 -AFDG--IIF-----------------------QG---QSLKIRRPHDYQP------------LPGMSEN--PSVYVPGV  105 (198)
T ss_dssp             -GGTT--EEE-----------------------TT---EEEEEECCCCCCC------------CCCSSSC--SSCCCTTS
T ss_pred             -HhcC--CEE-----------------------cC---ceEEEeCCCCCCC------------CCCCcCC--CcCCCCCC
Confidence             6775  455                       66   7777764221100            0000000  00000000


Q ss_pred             ccccCCCCCeEEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCC------CceEEEEeCChhHHHHHHHHhcCCCe
Q psy5142         267 QVVLELPTGALLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVG------EPTAFVRYKKENNAEAVLKALGSKEI  340 (410)
Q Consensus       267 ~~~~~~~~g~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g------~~~afV~F~~~e~A~~Al~~l~~~~~  340 (410)
                      .......+.+.|+|.|||+.+++++|+++|++||    .|..|.+..+      .++|||+|.+.++|.+|+..|  ++.
T Consensus       106 ~~~~~~~~~~~l~v~nl~~~~~~~~l~~~f~~~G----~v~~~~~~~~~~~~~~~g~afV~f~~~~~a~~A~~~l--~g~  179 (198)
T 2yh0_A          106 VSTVVPDSAHKLFIGGLPNYLNDDQVKELLTSFG----PLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAIAGL--NGM  179 (198)
T ss_dssp             SCCCSSCCCCEEEEECCCTTCCHHHHHHHHHTBS----CEEEEEEEECTTTCSEEEEEEEEESSSSHHHHHHHHH--TTC
T ss_pred             ccCCCCCCCCEEEEeCCCCCCCHHHHHHHHHHcC----CccEEEEeecCCCCCcceEEEEEECCHHHHHHHHHHc--CCC
Confidence            1112235678999999999999999999999999    9999998865      346999999999999999999  678


Q ss_pred             EEcCeEEEEEecCc
Q psy5142         341 VIKDVKVSIEVVTG  354 (410)
Q Consensus       341 ~i~g~~v~v~~l~g  354 (410)
                      .++|+.|.|.....
T Consensus       180 ~~~g~~l~v~~a~~  193 (198)
T 2yh0_A          180 QLGDKKLLVQRASV  193 (198)
T ss_dssp             EETTEECEEEESCC
T ss_pred             EECCEEEEEEECCC
Confidence            99999999997653

>3tyt_A Heterogeneous nuclear ribonucleoprotein L; ferredoxin-like, structural genomics, joint center for struc genomics, JCSG; 1.60A {Mus musculus} PDB: 3s01_A 3to8_A

Probab=99.90  E-value=4.5e-23  Score=189.33  Aligned_cols=177  Identities=10%  Similarity=0.066  Sum_probs=124.5

Q ss_pred             cceeeEeecCC-CCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCCccc
Q psy5142         118 IAQSLYVKYIP-VDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLKF  196 (410)
Q Consensus       118 ~~rtv~V~~lp-~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~~~  196 (410)
                      ..++|||+||| +++|+++|+++|++|    |.|.+|+|+++         .+|||||+|.+.++|++|++.++|  ..+
T Consensus         3 ~~~~l~V~nL~~~~~~~~~L~~~F~~~----G~v~~v~i~~~---------~~g~afV~f~~~~~A~~Ai~~lng--~~~   67 (205)
T 3tyt_A            3 DSPVLMVYGLDQSKMNCDRVFNVFCLY----GNVEKVKFMKS---------KPGAAMVEMADGYAVDRAITHLNN--NFM   67 (205)
T ss_dssp             CCSEEEEECCCTTTCCHHHHHHHHTTT----SCEEEEEECTT---------STTCEEEEESSHHHHHHHHHHHTT--CEE
T ss_pred             CCCEEEEeCCCcccCCHHHHHHHHHhc----CCeEEEEEecC---------CCCEEEEEECCHHHHHHHHHHhCC--CEE
Confidence            35799999999 899999999999999    99999999752         479999999999999999999997  455


Q ss_pred             cccccchhhhhhhhcccccccccCcccccchhhhchHHHHHHHHHHHHhhhhccccC---ccCCCCCCCCCC----cccc
Q psy5142         197 NENCEHKNAEKFLNENKDKNLKFNENCEHSLLIKWQQEYHEEKKQEVRSKRDKSKKS---TEGDGEGNTEGS----KQVV  269 (410)
Q Consensus       197 ~~~~~~~~~~k~~~~~~~~~~~~~g~~~~~L~v~~k~~~~~~k~~e~~~~~~k~k~~---~e~~~~~~~~~~----~~~~  269 (410)
                                             .|   +.|.|.+...-...   ... ........   +.-.........    ....
T Consensus        68 -----------------------~g---~~l~v~~s~~~~~~---p~~-~~~~~~~~~~~~~~~~~~~~r~~~~~~~~~~  117 (205)
T 3tyt_A           68 -----------------------FG---QKMNVCVSKQPAIM---PGQ-SYGLEDGSCSYKDFSESRNNRFSTPEQAAKN  117 (205)
T ss_dssp             -----------------------TT---EECEEEECSCSCCC---CCS-CCBCTTSCBSEEECTTCTTCSCSSHHHHTTS
T ss_pred             -----------------------CC---ceEEEEEccCCccC---CCc-ccccccCCccccccCCCccccccCccccccc
Confidence                                   55   66666542100000   000 00000000   000000000000    0000


Q ss_pred             cCCCCCeEEEEeCCCCCCCHHHHHHHHHhcCCCCCCe--eEEEeeCCC----ceEEEEeCChhHHHHHHHHhcCCCeEEc
Q psy5142         270 LELPTGALLKISDIKEPVSREDIREVLEKVQTDDQEI--VFIEFNVGE----PTAFVRYKKENNAEAVLKALGSKEIVIK  343 (410)
Q Consensus       270 ~~~~~g~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V--~~V~~~~g~----~~afV~F~~~e~A~~Al~~l~~~~~~i~  343 (410)
                      ...++..+|+|.|||+++++++|+++|++||    .|  ..|.+.++.    +.|||+|.+.++|.+||..|  ++..|+
T Consensus       118 ~~~~p~~~l~v~NLp~~~t~~~L~~~F~~~G----~v~~~~v~~~~~~~~~~g~gfV~f~~~~~A~~Ai~~l--ng~~~~  191 (205)
T 3tyt_A          118 RIQHPSNVLHFFNAPLEVTEENFFEICDELG----VKRPTSVKVFSGKSERSSSGLLEWDSKSDALETLGFL--NHYQMK  191 (205)
T ss_dssp             CCCCCCSEEEEEEECTTCCHHHHHHHHHHHT----CCCCSEEEECSCCSSSSEEEEEECSSHHHHHHHHHHH--TTCEEC
T ss_pred             ccCCCcceEEEeCCCCCCCHHHHHHHHHhcC----CcceEEEEEEcCCCCCceEEEEEeCCHHHHHHHHHHh--CCCCcc
Confidence            1235678999999999999999999999999    87  788877642    57999999999999999999  677887


Q ss_pred             Ce
Q psy5142         344 DV  345 (410)
Q Consensus       344 g~  345 (410)
                      |.
T Consensus       192 g~  193 (205)
T 3tyt_A          192 NP  193 (205)
T ss_dssp             CS
T ss_pred             CC
Confidence            75

>1fje_B Nucleolin RBD12, protein C23; RNP, RRM, RNA binding domain, RNA-protein complex, nucleolus, structural protein/RNA complex; NMR {Mesocricetus auratus} SCOP: d.58.7.1 d.58.7.1 PDB: 1rkj_A 2krr_A

Probab=99.90  E-value=8.8e-24  Score=187.66  Aligned_cols=161  Identities=16%  Similarity=0.210  Sum_probs=129.7

Q ss_pred             ccceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCCccc
Q psy5142         117 LIAQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLKF  196 (410)
Q Consensus       117 ~~~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~~~  196 (410)
                      ...++|||+|||.++|+++|+++|++|    |.|..+.+. +..++    .++|||||+|.++++|++|++ ++|  ..+
T Consensus        11 ~~~~~l~V~nLp~~~t~~~l~~~f~~~----g~~~~~~~~-~~~~~----~~~g~afV~f~~~~~a~~A~~-l~g--~~~   78 (175)
T 1fje_B           11 TTPFNLFIGNLNPNKSVAELKVAISEL----FAKNDLAVV-DVRTG----TNRKFGYVDFESAEDLEKALE-LTG--LKV   78 (175)
T ss_dssp             SSSEEEEEECCCTTSCHHHHHHHHHHH----HHHHTCCCC-EEEEE----TTTTEEEEEESSHHHHHHHHH-GGG--EEE
T ss_pred             CCCcEEEEeCCCCCCCHHHHHHHHHHh----CCcceEEEE-ECCCC----ccccEEEEEECCHHHHHHHHh-cCC--CEe
Confidence            457999999999999999999999999    988773333 33333    789999999999999999995 665  455


Q ss_pred             cccccchhhhhhhhcccccccccCcccccchhhhchHHHHHHHHHHHHhhhhccccCccCCCCCCCCCCcccccCCCCCe
Q psy5142         197 NENCEHKNAEKFLNENKDKNLKFNENCEHSLLIKWQQEYHEEKKQEVRSKRDKSKKSTEGDGEGNTEGSKQVVLELPTGA  276 (410)
Q Consensus       197 ~~~~~~~~~~k~~~~~~~~~~~~~g~~~~~L~v~~k~~~~~~k~~e~~~~~~k~k~~~e~~~~~~~~~~~~~~~~~~~g~  276 (410)
                                             .|   +.|.|.+...                                .........+
T Consensus        79 -----------------------~g---~~l~v~~~~~--------------------------------~~~~~~~~~~  100 (175)
T 1fje_B           79 -----------------------FG---NEIKLEKPKG--------------------------------RDSKKVRAAR  100 (175)
T ss_dssp             -----------------------TT---EEEEEECCCC--------------------------------SSCSTTGGGG
T ss_pred             -----------------------CC---eEEEEecCCC--------------------------------ccccccccCC
Confidence                                   66   7777764210                                0011223567


Q ss_pred             EEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeC--CCceEEEEeCChhHHHHHHHHhcCCCeEEcCeEEEEEecCc
Q psy5142         277 LLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNV--GEPTAFVRYKKENNAEAVLKALGSKEIVIKDVKVSIEVVTG  354 (410)
Q Consensus       277 ~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~--g~~~afV~F~~~e~A~~Al~~l~~~~~~i~g~~v~v~~l~g  354 (410)
                      .|+|.|||..+++++|+++|++||    .|..+ ...  ..++|||+|.+.++|.+|+..|  ++..++|+.|.|.....
T Consensus       101 ~l~v~nlp~~~t~~~l~~~F~~~g----~v~~~-~~~~~~~g~afV~f~~~~~A~~A~~~l--~g~~~~g~~i~v~~a~~  173 (175)
T 1fje_B          101 TLLAKNLSFNITEDELKEVFEDAL----EIRLV-SQDGKSKGIAYIEFKSEADAEKNLEEK--QGAEIDGRSVSLYYTGE  173 (175)
T ss_dssp             EEEEESCCSSCCHHHHHHHCTTCS----EEEEE-CSSSSCCSEEEEECSSHHHHHHHHHHH--TEEEETTEEEEEEECSS
T ss_pred             EEEEeCCCCCCCHHHHHHHHHhcC----eEEEe-cCCCCCceEEEEEECCHHHHHHHHHHh--CCCEECCeEEEEEecCC
Confidence            999999999999999999999999    99887 332  3457999999999999999999  67999999999987653

>2adc_A Polypyrimidine tract-binding protein 1; RBD, RRM, protein-RNA complex, RNA binding protein/RNA complex; NMR {Homo sapiens} SCOP: d.58.7.1 d.58.7.1 PDB: 2evz_A

Probab=99.89  E-value=5.3e-22  Score=184.80  Aligned_cols=191  Identities=15%  Similarity=0.147  Sum_probs=134.2

Q ss_pred             ccceeeEeecCCC-CCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCCcc
Q psy5142         117 LIAQSLYVKYIPV-DATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLK  195 (410)
Q Consensus       117 ~~~rtv~V~~lp~-~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~~  195 (410)
                      ...++|||+|||+ ++|+++|+++|++|    |.|.+|+|+++         .+|||||+|.+.++|++|++.++|  ..
T Consensus        32 ~~~~~l~V~nLp~~~~te~~L~~~F~~~----G~i~~v~i~~~---------~~g~afV~F~~~~~A~~Ai~~l~g--~~   96 (229)
T 2adc_A           32 AGNSVLLVSNLNPERVTPQSLFILFGVY----GDVQRVKILFN---------KKENALVQMADGNQAQLAMSHLNG--HK   96 (229)
T ss_dssp             CCCSEEEEESCCTTTCCHHHHHHHHHHH----TCEEEEEECCT---------TSCCEEEEESCHHHHHHHHHHHTT--CB
T ss_pred             CCCCEEEEeCCCcccCCHHHHHHHHHhC----CCeEEEEEEEC---------CCCEEEEEECCHHHHHHHHHHhCC--Ce
Confidence            4578999999999 99999999999999    99999999863         278999999999999999998886  45


Q ss_pred             ccccccchhhhhhhhcccccccccCcccccchhhhchHHHHHHHHHHHHhhhhcccc-CccCCCCCCCCCCcccccCCCC
Q psy5142         196 FNENCEHKNAEKFLNENKDKNLKFNENCEHSLLIKWQQEYHEEKKQEVRSKRDKSKK-STEGDGEGNTEGSKQVVLELPT  274 (410)
Q Consensus       196 ~~~~~~~~~~~k~~~~~~~~~~~~~g~~~~~L~v~~k~~~~~~k~~e~~~~~~k~k~-~~e~~~~~~~~~~~~~~~~~~~  274 (410)
                      +                       .|   +.|.|.+...................+. ....................++
T Consensus        97 ~-----------------------~g---~~l~v~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  150 (229)
T 2adc_A           97 L-----------------------HG---KPIRITLSKHQNVQLPREGQEDQGLTKDYGNSPLHRFKKPGSKNFQNIFPP  150 (229)
T ss_dssp             C-----------------------SS---SBCEEECCSCCCCCCCCSSSSTTTTEEECTTCSSCCCCSTTSGGGTTCCCS
T ss_pred             E-----------------------CC---eEEEEEEecCccccCccccccccccccccccCcccccCCccccccccCCCC
Confidence            5                       45   5666554210000000000000000000 0000000000000111123456


Q ss_pred             CeEEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEe-eCCCceEEEEeCChhHHHHHHHHhcCCCeEEc-CeEEEEEec
Q psy5142         275 GALLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEF-NVGEPTAFVRYKKENNAEAVLKALGSKEIVIK-DVKVSIEVV  352 (410)
Q Consensus       275 g~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~-~~g~~~afV~F~~~e~A~~Al~~l~~~~~~i~-g~~v~v~~l  352 (410)
                      .++|+|.|||+.+++++|+++|++||   ..|..|.+ ..+.++|||+|.+.++|.+|+..|  ++..++ |+.|.|...
T Consensus       151 ~~~l~V~nlp~~~t~~~l~~~f~~~G---~~i~~v~i~~~~~g~afV~f~~~~~A~~Ai~~l--~g~~~~~g~~l~v~~a  225 (229)
T 2adc_A          151 SATLHLSNIPPSVSEEDLKVLFSSNG---GVVKGFKFFQKDRKMALIQMGSVEEAVQALIDL--HNHDLGENHHLRVSFS  225 (229)
T ss_dssp             CSEEEEECCCTTCCHHHHHHHHHTTS---CCEEEEEECSSSTTCEEEEESSHHHHHHHHHHH--TTCBSSSSCBCEEEEC
T ss_pred             CCEEEEeCCCccCCHHHHHHHHHHcC---CCeeEEEEEECCCcEEEEEECCHHHHHHHHHHH--CCCccCCCCeEEEEEe
Confidence            78999999999999999999999999   35888888 447789999999999999999999  678888 999999875


Q ss_pred             C
Q psy5142         353 T  353 (410)
Q Consensus       353 ~  353 (410)
                      .
T Consensus       226 ~  226 (229)
T 2adc_A          226 K  226 (229)
T ss_dssp             S
T ss_pred             c
Confidence            4

>1qm9_A Polypyrimidine tract-binding protein; ribonucleoprotein, RNP, RNA, spicing, translation; NMR {Homo sapiens} SCOP: d.58.7.1 d.58.7.1

Probab=99.88  E-value=2.4e-22  Score=182.17  Aligned_cols=184  Identities=15%  Similarity=0.168  Sum_probs=132.3

Q ss_pred             cceeeEeecCCC-CCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCCccc
Q psy5142         118 IAQSLYVKYIPV-DATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLKF  196 (410)
Q Consensus       118 ~~rtv~V~~lp~-~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~~~  196 (410)
                      ..++|||+|||+ ++|+++|+++|++|    |.|.+|.|+++         .+|||||+|.+.++|++|+..++|  ..+
T Consensus         2 ~~~~l~v~nlp~~~~~~~~l~~~F~~~----G~i~~v~i~~~---------~~g~afV~f~~~~~a~~A~~~l~~--~~~   66 (198)
T 1qm9_A            2 GNSVLLVSNLNPERVTPQSLFILFGVY----GDVQRVKILFN---------KKENALVQMADGNQAQLAMSHLNG--HKL   66 (198)
T ss_dssp             CCCEEEEECCCSSSCCHHHHHHHHHTT----CCCSEEECSTT---------CSSCCEEECTTTHHHHHHHHHHTT--CCC
T ss_pred             CCcEEEEeCCCcccCCHHHHHHHHHhc----CCEEEEEEEeC---------CCCEEEEEECCHHHHHHHHHHhCC--Cee
Confidence            468999999999 99999999999999    99999999863         278999999999999999998886  455


Q ss_pred             cccccchhhhhhhhcccccccccCcccccchhhhchHHHHHHHHHHHHhhhhccc-c--CccCCCC---C-CCCCCcccc
Q psy5142         197 NENCEHKNAEKFLNENKDKNLKFNENCEHSLLIKWQQEYHEEKKQEVRSKRDKSK-K--STEGDGE---G-NTEGSKQVV  269 (410)
Q Consensus       197 ~~~~~~~~~~k~~~~~~~~~~~~~g~~~~~L~v~~k~~~~~~k~~e~~~~~~k~k-~--~~e~~~~---~-~~~~~~~~~  269 (410)
                                             .|   +.|.|.+......      ...+.... .  ...-...   . .........
T Consensus        67 -----------------------~g---~~l~v~~a~~~~~------~~~~~~~~~~~~~~~~~~~~~~r~~~~~~~~~~  114 (198)
T 1qm9_A           67 -----------------------HG---KPIRITLSKHQNV------QLPREGQEDQGLTKDYGNSPLHRFKKPGSKNFQ  114 (198)
T ss_dssp             -----------------------SS---CCCEEEECCCCSC------CCSSSSSSSSSCEEESSCCCTTSSSSCCCCCCS
T ss_pred             -----------------------cC---eEEEEEEecCCCc------CCCCcCCccccccccccCCchhhccCccccccc
Confidence                                   55   6666654210000      00000000 0  0000000   0 000000111


Q ss_pred             cCCCCCeEEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeC-CCceEEEEeCChhHHHHHHHHhcCCCeEEc-CeEE
Q psy5142         270 LELPTGALLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNV-GEPTAFVRYKKENNAEAVLKALGSKEIVIK-DVKV  347 (410)
Q Consensus       270 ~~~~~g~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~-g~~~afV~F~~~e~A~~Al~~l~~~~~~i~-g~~v  347 (410)
                      ...++.++|+|.|||..+++++|+++|++||   ..|..|.+.+ +.+.|||+|.+.++|.+|+..|  ++..++ |+.|
T Consensus       115 ~~~~~~~~l~v~nl~~~~~~~~l~~~f~~~G---~~v~~v~i~~~~~g~afV~f~~~~~A~~A~~~l--~g~~~~~g~~l  189 (198)
T 1qm9_A          115 NIFPPSATLHLSNIPPSVSEEDLKVLFSSNG---GVVKGFKFFQKDRKMALIQMGSVEEAVQALIDL--HNHDLGENHHL  189 (198)
T ss_dssp             CCCCCCCEEEECCCCTTCCHHHHHHHHHHTT---SCCCEEEESSTTSSCEEEECSSHHHHHHHHHHH--TSSCCSSCCSC
T ss_pred             cCCCCccEEEEeCCCCCCCHHHHHHHHHHcC---CCceEEEEEeCCCcEEEEEeCCHHHHHHHHHHh--cCCccCCCCeE
Confidence            2246688999999999999999999999998   3578888844 6788999999999999999999  567888 9999


Q ss_pred             EEEecC
Q psy5142         348 SIEVVT  353 (410)
Q Consensus       348 ~v~~l~  353 (410)
                      .|....
T Consensus       190 ~v~~a~  195 (198)
T 1qm9_A          190 RVSFSK  195 (198)
T ss_dssp             CEEEEC
T ss_pred             EEEeec
Confidence            888654

>3sde_A Paraspeckle component 1; RRM, anti parallel right handed coiled-coil, NOPS, DBHS, RNA protein, RNA binding; 1.90A {Homo sapiens} PDB: 3sde_B

Probab=99.88  E-value=3.1e-22  Score=190.11  Aligned_cols=153  Identities=19%  Similarity=0.287  Sum_probs=130.2

Q ss_pred             ccceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCCccc
Q psy5142         117 LIAQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLKF  196 (410)
Q Consensus       117 ~~~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~~~  196 (410)
                      ...++|||+|||+++|+++|+++|++|    |.|.+|.|.          +.+|||||+|.+.++|.+|+..++|  ..+
T Consensus        20 ~~~~~l~V~nLp~~~te~~l~~~F~~~----G~i~~v~i~----------~~kg~afV~f~~~~~A~~A~~~l~g--~~i   83 (261)
T 3sde_A           20 TQRCRLFVGNLPTDITEEDFKRLFERY----GEPSEVFIN----------RDRGFGFIRLESRTLAEIAKAELDG--TIL   83 (261)
T ss_dssp             CGGGEEEEESCCTTCCHHHHHHHTGGG----CCCSEEEEE----------TTTTEEEEECSSHHHHHHHHHHHTT--CEE
T ss_pred             CCCCEEEEECCCCCCCHHHHHHHHHhc----CCEEEEEEe----------CCCcEEEEEECCHHHHHHHHHHcCC--cEE
Confidence            457899999999999999999999999    999999985          4589999999999999999998886  445


Q ss_pred             cccccchhhhhhhhcccccccccCcccccchhhhchHHHHHHHHHHHHhhhhccccCccCCCCCCCCCCcccccCCCCCe
Q psy5142         197 NENCEHKNAEKFLNENKDKNLKFNENCEHSLLIKWQQEYHEEKKQEVRSKRDKSKKSTEGDGEGNTEGSKQVVLELPTGA  276 (410)
Q Consensus       197 ~~~~~~~~~~k~~~~~~~~~~~~~g~~~~~L~v~~k~~~~~~k~~e~~~~~~k~k~~~e~~~~~~~~~~~~~~~~~~~g~  276 (410)
                                             .|   +.|.|.+.                                        .+++
T Consensus        84 -----------------------~g---~~l~v~~a----------------------------------------~~~~   97 (261)
T 3sde_A           84 -----------------------KS---RPLRIRFA----------------------------------------THGA   97 (261)
T ss_dssp             -----------------------TT---EECEEEEC----------------------------------------CCSS
T ss_pred             -----------------------CC---ceeEeeec----------------------------------------ccCC
Confidence                                   66   77777641                                        2356


Q ss_pred             EEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCC-----CceEEEEeCChhHHHHHHHHhcCCCeEE--cCeEEEE
Q psy5142         277 LLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVG-----EPTAFVRYKKENNAEAVLKALGSKEIVI--KDVKVSI  349 (410)
Q Consensus       277 ~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g-----~~~afV~F~~~e~A~~Al~~l~~~~~~i--~g~~v~v  349 (410)
                      .|+|.|||+.+++++|+++|++||    .|..|.+..+     .++|||+|.+.++|.+|+..|+++.+.+  .++.|.|
T Consensus        98 ~l~v~nl~~~~t~~~l~~~F~~~G----~i~~v~i~~~~~g~~~g~afV~f~~~~~A~~A~~~l~~~~~~~~~~~r~i~v  173 (261)
T 3sde_A           98 ALTVKNLSPVVSNELLEQAFSQFG----PVEKAVVVVDDRGRATGKGFVEFAAKPPARKALERCGDGAFLLTTTPRPVIV  173 (261)
T ss_dssp             EEEEESCCTTCCHHHHHHHHGGGS----CEEEEEEEEETTSCEEEEEEEEESSHHHHHHHHHHHHHSCEESSSSCCBCEE
T ss_pred             cccccCCCCCCCHHHHHHHHHhcC----CeEEEEeeeCCCCCcCcEEEEEeCCHHHHHHHHHHhcCCeEEecCCCceEEE
Confidence            899999999999999999999999    9999988754     3469999999999999999996443332  2788999


Q ss_pred             EecCch
Q psy5142         350 EVVTGE  355 (410)
Q Consensus       350 ~~l~g~  355 (410)
                      ..+...
T Consensus       174 ~~~~~~  179 (261)
T 3sde_A          174 EPMEQF  179 (261)
T ss_dssp             EECCCE
T ss_pred             eecccc
Confidence            887654

>2ghp_A U4/U6 snRNA-associated splicing factor PRP24; RNA chaperone, RNA binding domain, RNA recognition motif, SP factor, snRNP, spliceosome; 2.70A {Saccharomyces cerevisiae} SCOP: d.58.7.1 d.58.7.1 d.58.7.1 PDB: 2go9_A 2kh9_A

Probab=99.88  E-value=3.2e-22  Score=192.38  Aligned_cols=165  Identities=17%  Similarity=0.278  Sum_probs=131.5

Q ss_pred             cceeeEeecCCCCCCHHHHHHHHhhccCCCC-ceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCCccc
Q psy5142         118 IAQSLYVKYIPVDATLDDIKDFFKKNTSEDV-KITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLKF  196 (410)
Q Consensus       118 ~~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G-~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~~~  196 (410)
                      ..++|||+|||+++|+++|+++|++|    | .|..|.|+++..+     .++|||||+|.+.++|.+|+..++|  ..+
T Consensus       116 ~~~~l~v~nlp~~~t~~~l~~~f~~~----G~~i~~v~i~~~~~~-----~~~g~afV~f~~~~~a~~A~~~l~g--~~~  184 (292)
T 2ghp_A          116 TECTLWMTNFPPSYTQRNIRDLLQDI----NVVALSIRLPSLRFN-----TSRRFAYIDVTSKEDARYCVEKLNG--LKI  184 (292)
T ss_dssp             CSCEEEEECCCTTCCHHHHHHHHHHT----TCCCCEEECC------------CCEEEEECSSHHHHHHHHHHHTT--CEE
T ss_pred             CCCEEEEECCCCCCCHHHHHHHHHHh----CCCeEEEEEEeCCCC-----CcceEEEEEECCHHHHHHHHHHhCC--CEe
Confidence            36899999999999999999999999    9 9999999988775     7899999999999999999998886  455


Q ss_pred             cccccchhhhhhhhcccccccccCcccccchhhhchHHHHHHHHHHHHhhhhccccCccCCCCCCCCCCcccccCCCCCe
Q psy5142         197 NENCEHKNAEKFLNENKDKNLKFNENCEHSLLIKWQQEYHEEKKQEVRSKRDKSKKSTEGDGEGNTEGSKQVVLELPTGA  276 (410)
Q Consensus       197 ~~~~~~~~~~k~~~~~~~~~~~~~g~~~~~L~v~~k~~~~~~k~~e~~~~~~k~k~~~e~~~~~~~~~~~~~~~~~~~g~  276 (410)
                                             .|   +.|.|.+......                .           ..........+
T Consensus       185 -----------------------~g---~~l~v~~a~~~~~----------------~-----------~~~~~~~~~~~  211 (292)
T 2ghp_A          185 -----------------------EG---YTLVTKVSNPLEK----------------S-----------KRTDSATLEGR  211 (292)
T ss_dssp             -----------------------TT---EECEEEECCCC------------------------------------CCTTT
T ss_pred             -----------------------CC---cEEEEEECCCCcc----------------c-----------ccccccCCCCc
Confidence                                   66   7777765211000                0           00011245667


Q ss_pred             EEEEeCCCCC-CCHHHHHHHHHhcCCCCCCeeEEEeeCCC-------ceEEEEeCChhHHHHHHHHhcCCCeEEcCeEEE
Q psy5142         277 LLKISDIKEP-VSREDIREVLEKVQTDDQEIVFIEFNVGE-------PTAFVRYKKENNAEAVLKALGSKEIVIKDVKVS  348 (410)
Q Consensus       277 ~l~v~nL~~~-~t~edLk~~F~~~G~~~~~V~~V~~~~g~-------~~afV~F~~~e~A~~Al~~l~~~~~~i~g~~v~  348 (410)
                      .|+|.|||+. +++++|+++|++||    .|..|.+.++.       ++|||+|.+.++|.+|+ .|  ++..++|+.|.
T Consensus       212 ~l~v~nlp~~~~t~~~l~~~F~~~G----~v~~v~i~~~~~~tg~~~g~afV~F~~~~~A~~A~-~l--~g~~~~g~~i~  284 (292)
T 2ghp_A          212 EIMIRNLSTELLDENLLRESFEGFG----SIEKINIPAGQKEHSFNNCCAFMVFENKDSAERAL-QM--NRSLLGNREIS  284 (292)
T ss_dssp             EEEEEEECTTTCCHHHHHHHHGGGS----CEEEEECCSCCC---CCCEEEEEEESSHHHHHHHG-GG--TTEEETTEEEE
T ss_pred             eEEEECCCcccCCHHHHHHHHhccC----CeeEEEEEecCCcCCCCceEEEEEeCCHHHHHHHH-Hh--cCCEECCcEEE
Confidence            9999999999 99999999999999    99999997643       36999999999999999 99  67999999999


Q ss_pred             EEecC
Q psy5142         349 IEVVT  353 (410)
Q Consensus       349 v~~l~  353 (410)
                      |....
T Consensus       285 V~~a~  289 (292)
T 2ghp_A          285 VSLAD  289 (292)
T ss_dssp             EEECC
T ss_pred             EEEec
Confidence            99875

>3smz_A Protein raver-1, ribonucleoprotein PTB-binding 1; RNA binding, RNA recognition motif, vincu alpha-actinin, nucleus, RNA binding protein; 1.99A {Homo sapiens} PDB: 3vf0_B* 3h2u_B 3h2v_E

Probab=99.88  E-value=1.9e-21  Score=186.25  Aligned_cols=150  Identities=19%  Similarity=0.298  Sum_probs=130.7

Q ss_pred             hccceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCCcc
Q psy5142         116 DLIAQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLK  195 (410)
Q Consensus       116 ~~~~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~~  195 (410)
                      ....++|||+|||.++|+++|+++|+.|    | |.+|.+     .     .++|+|||+|.+.++|.+|+..++|  ..
T Consensus        19 ~~~~~~l~V~nLp~~~te~~l~~~F~~~----G-i~~~~~-----~-----~~~g~afV~f~~~~~A~~A~~~l~~--~~   81 (284)
T 3smz_A           19 FRNRRKILIRGLPGDVTNQEVHDLLSDY----E-LKYCFV-----D-----KYKGTAFVTLLNGEQAEAAINAFHQ--SR   81 (284)
T ss_dssp             HHCCCEEEEECCCTTCCHHHHHHHTTTS----C-EEEEEE-----E-----TTTTEEEEEESSHHHHHHHHHHHTT--CE
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHHc----C-CEEEEE-----e-----cCCCEEEEEeCCHHHHHHHHHHcCC--Ce
Confidence            3567899999999999999999999999    9 999988     2     6799999999999999999999886  44


Q ss_pred             ccccccchhhhhhhhcccccccccCcccccchhhhchHHHHHHHHHHHHhhhhccccCccCCCCCCCCCCcccccCCCCC
Q psy5142         196 FNENCEHKNAEKFLNENKDKNLKFNENCEHSLLIKWQQEYHEEKKQEVRSKRDKSKKSTEGDGEGNTEGSKQVVLELPTG  275 (410)
Q Consensus       196 ~~~~~~~~~~~k~~~~~~~~~~~~~g~~~~~L~v~~k~~~~~~k~~e~~~~~~k~k~~~e~~~~~~~~~~~~~~~~~~~g  275 (410)
                      +                       .|   +.|.+.+                                        .+.+
T Consensus        82 ~-----------------------~g---~~i~v~~----------------------------------------~~~~   95 (284)
T 3smz_A           82 L-----------------------RE---RELSVQL----------------------------------------QPTD   95 (284)
T ss_dssp             E-----------------------TT---EECEEEE----------------------------------------CCCS
T ss_pred             e-----------------------CC---eEEEEEe----------------------------------------cCCC
Confidence            5                       66   7777754                                        1345


Q ss_pred             eEEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCCC------ceEEEEeCChhHHHHHHHHhcCCCeEEcCeEEEE
Q psy5142         276 ALLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVGE------PTAFVRYKKENNAEAVLKALGSKEIVIKDVKVSI  349 (410)
Q Consensus       276 ~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g~------~~afV~F~~~e~A~~Al~~l~~~~~~i~g~~v~v  349 (410)
                      +.|+|.|||+.+++++|+++|++||    .|..|.+..+.      ++|||+|.+.++|.+|+..+  ++..++|+.|.|
T Consensus        96 ~~l~v~nlp~~~t~~~l~~~f~~~G----~i~~~~i~~~~~~g~~~g~afV~f~~~~~a~~A~~~l--~~~~~~g~~i~v  169 (284)
T 3smz_A           96 ALLCVANLPPSLTQQQFEELVRPFG----SLERCFLVYSERTGQSKGYGFAEYMKKDSAARAKSDL--LGKPLGPRTLYV  169 (284)
T ss_dssp             CEEEEESCCTTCCHHHHHHHHGGGS----CEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHH--TTCEETTEECEE
T ss_pred             CEEEEcCCCCcCCHHHHHHHHHhcC----CeeEEEEEeeCCCCccceEEEEEECCHHHHHHHHHHh--CCCEeCCcEEEE
Confidence            6899999999999999999999999    99998887542      36999999999999999999  678999999999


Q ss_pred             EecCc
Q psy5142         350 EVVTG  354 (410)
Q Consensus       350 ~~l~g  354 (410)
                      .....
T Consensus       170 ~~a~~  174 (284)
T 3smz_A          170 HWTDA  174 (284)
T ss_dssp             EECCG
T ss_pred             EECCC
Confidence            87753

>2ghp_A U4/U6 snRNA-associated splicing factor PRP24; RNA chaperone, RNA binding domain, RNA recognition motif, SP factor, snRNP, spliceosome; 2.70A {Saccharomyces cerevisiae} SCOP: d.58.7.1 d.58.7.1 d.58.7.1 PDB: 2go9_A 2kh9_A

Probab=99.87  E-value=2.5e-21  Score=186.14  Aligned_cols=154  Identities=13%  Similarity=0.213  Sum_probs=128.9

Q ss_pred             hccceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCCcc
Q psy5142         116 DLIAQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLK  195 (410)
Q Consensus       116 ~~~~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~~  195 (410)
                      +...++|||+|||+++|+++|+++|++|    |.|.+|.|+++..+      .+|+|||+|.+.++|++|++ ++|  ..
T Consensus        38 ~~~~~~l~V~nLp~~~t~~~l~~~F~~~----G~i~~v~i~~~~~~------~~g~afV~f~~~~~A~~A~~-~~~--~~  104 (292)
T 2ghp_A           38 NRELTTVLVKNLPKSYNQNKVYKYFKHC----GPIIHVDVADSLKK------NFRFARIEFARYDGALAAIT-KTH--KV  104 (292)
T ss_dssp             ----CEEEEEEECTTCCHHHHHHHHGGG----SCEEEEEEEECTTS------SSEEEEEEESSHHHHHHHHT-TTT--CE
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhc----CCeEEEEEEECCCC------CcEEEEEEECCHHHHHHHHH-hCC--cE
Confidence            4668999999999999999999999999    99999999987654      48999999999999999996 564  45


Q ss_pred             ccccccchhhhhhhhcccccccccCcccccchhhhchHHHHHHHHHHHHhhhhccccCccCCCCCCCCCCcccccCCCCC
Q psy5142         196 FNENCEHKNAEKFLNENKDKNLKFNENCEHSLLIKWQQEYHEEKKQEVRSKRDKSKKSTEGDGEGNTEGSKQVVLELPTG  275 (410)
Q Consensus       196 ~~~~~~~~~~~k~~~~~~~~~~~~~g~~~~~L~v~~k~~~~~~k~~e~~~~~~k~k~~~e~~~~~~~~~~~~~~~~~~~g  275 (410)
                      +                       .|   +.|.+.+                                         ...
T Consensus       105 ~-----------------------~g---~~i~v~~-----------------------------------------~~~  117 (292)
T 2ghp_A          105 V-----------------------GQ---NEIIVSH-----------------------------------------LTE  117 (292)
T ss_dssp             E-----------------------TT---EECEEEE-----------------------------------------CCS
T ss_pred             e-----------------------CC---cEEEEEE-----------------------------------------CCC
Confidence            5                       66   7776653                                         235


Q ss_pred             eEEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeC-----CCceEEEEeCChhHHHHHHHHhcCCCeEEcCeEEEEE
Q psy5142         276 ALLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNV-----GEPTAFVRYKKENNAEAVLKALGSKEIVIKDVKVSIE  350 (410)
Q Consensus       276 ~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~-----g~~~afV~F~~~e~A~~Al~~l~~~~~~i~g~~v~v~  350 (410)
                      +.|+|.|||+.+++++|+++|++||   ..|..|.+..     ..++|||+|.+.++|.+|+..|  ++..++|+.|.|.
T Consensus       118 ~~l~v~nlp~~~t~~~l~~~f~~~G---~~i~~v~i~~~~~~~~~g~afV~f~~~~~a~~A~~~l--~g~~~~g~~l~v~  192 (292)
T 2ghp_A          118 CTLWMTNFPPSYTQRNIRDLLQDIN---VVALSIRLPSLRFNTSRRFAYIDVTSKEDARYCVEKL--NGLKIEGYTLVTK  192 (292)
T ss_dssp             CEEEEECCCTTCCHHHHHHHHHHTT---CCCCEEECC-------CCEEEEECSSHHHHHHHHHHH--TTCEETTEECEEE
T ss_pred             CEEEEECCCCCCCHHHHHHHHHHhC---CCeEEEEEEeCCCCCcceEEEEEECCHHHHHHHHHHh--CCCEeCCcEEEEE
Confidence            6899999999999999999999998   3567777654     3467999999999999999999  6789999999998


Q ss_pred             ecCc
Q psy5142         351 VVTG  354 (410)
Q Consensus       351 ~l~g  354 (410)
                      ....
T Consensus       193 ~a~~  196 (292)
T 2ghp_A          193 VSNP  196 (292)
T ss_dssp             ECCC
T ss_pred             ECCC
Confidence            7653

>1s79_A Lupus LA protein; RRM, alpha/beta, RNA binding protein, translation; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.72  E-value=8.4e-18  Score=137.26  Aligned_cols=89  Identities=43%  Similarity=0.728  Sum_probs=79.6

Q ss_pred             hhccceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCCc
Q psy5142         115 KDLIAQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNL  194 (410)
Q Consensus       115 ~~~~~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~  194 (410)
                      .+...++|||+|||+++|+++|+++|++|    |+|.+|+|+++..+     .++|||||+|.+.++|++|+. +++  .
T Consensus         7 ~~~~~~~lfV~~Lp~~~te~~L~~~F~~~----G~v~~v~i~~d~~g-----~~rG~aFV~F~~~e~a~~Ai~-~~~--~   74 (103)
T 1s79_A            7 NDVKNRSVYIKGFPTDATLDDIKEWLEDK----GQVLNIQMRRTLHK-----AFKGSIFVVFDSIESAKKFVE-TPG--Q   74 (103)
T ss_dssp             SCSGGGCEEEECCCTTCCHHHHHHHHHTS----SCEEEEEEECCCTT-----SCCCEEEEEESSHHHHHHHHT-SSC--C
T ss_pred             ccCCCCEEEEECCCCCCCHHHHHHHHhhc----CCEEEEEEEECCCC-----CCccEEEEEECCHHHHHHHHH-cCC--C
Confidence            34667999999999999999999999999    99999999998874     899999999999999999999 564  5


Q ss_pred             cccccccchhhhhhhhcccccccccCcccccchhhhchHHHHHHHHH
Q psy5142         195 KFNENCEHKNAEKFLNENKDKNLKFNENCEHSLLIKWQQEYHEEKKQ  241 (410)
Q Consensus       195 ~~~~~~~~~~~~k~~~~~~~~~~~~~g~~~~~L~v~~k~~~~~~k~~  241 (410)
                      .+                       .|   +.|.|.++.+|...+..
T Consensus        75 ~~-----------------------~g---r~l~V~~~~~~~~~k~~   95 (103)
T 1s79_A           75 KY-----------------------KE---TDLLILFKDDYFAKKNE   95 (103)
T ss_dssp             CC-----------------------TT---TTCEEEEHHHHHHHHHC
T ss_pred             EE-----------------------CC---EEEEEEEchHHHHHHHH
Confidence            66                       78   99999999999876543

>4f25_A Polyadenylate-binding protein 1; RRM fold, translation initiation, RNA-binding, EIF4G-binding translation; 1.90A {Homo sapiens} PDB: 4f26_A 2k8g_A

Probab=99.66  E-value=1.6e-16  Score=131.96  Aligned_cols=66  Identities=18%  Similarity=0.264  Sum_probs=60.2

Q ss_pred             ceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCCccc
Q psy5142         119 AQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLKF  196 (410)
Q Consensus       119 ~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~~~  196 (410)
                      ..+|||+|||+++|+++|+++|++|    |.|.+|+|+++..      .++|||||+|.+.++|++|++.++|  ..+
T Consensus         5 ~~~lfV~nLp~~~te~~L~~~F~~~----G~v~~v~i~~d~~------~~kg~afV~f~~~~~A~~Ai~~l~~--~~~   70 (115)
T 4f25_A            5 SGNIFIKNLDKSIDNKALYDTFSAF----GNILSCKVVCDEN------GSKGYGFVHFETQEAAERAIEKMNG--MLL   70 (115)
T ss_dssp             CCEEEEESCCTTCCHHHHHHHHGGG----SCEEEEEEEEETT------EEEEEEEEEESCHHHHHHHHHHHTT--CEE
T ss_pred             CCEEEECCCCCCCCHHHHHHHHhcc----CCEEEEEEeecCC------CCCceEEEEECCHHHHHHHHHHcCC--CEE
Confidence            4689999999999999999999999    9999999998754      4699999999999999999999886  455

>4fxv_A ELAV-like protein 1; RNA recognition motif, putative RNA-binding domain, transcri structural genomics, joint center for structural genomics; 1.90A {Homo sapiens}

Probab=99.61  E-value=1.1e-15  Score=123.56  Aligned_cols=70  Identities=20%  Similarity=0.337  Sum_probs=64.4

Q ss_pred             ccceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCCccc
Q psy5142         117 LIAQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLKF  196 (410)
Q Consensus       117 ~~~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~~~  196 (410)
                      .+.++|||+|||+++|+++|+++|++|    |.|.+|+|++++.++    .++|||||+|.+.++|++|++.++|  ..+
T Consensus        17 ~~gt~lfV~nLp~~~te~~L~~~F~~~----G~I~~v~i~~d~~tg----~~kG~afV~f~~~~~A~~Ai~~lng--~~~   86 (99)
T 4fxv_A           17 FQGTNLIVNYLPQNMTQDELRSLFSSI----GEVESAKLIRDKVAG----HSLGYGFVNYVTAKDAERAINTLNG--LRL   86 (99)
T ss_dssp             CCCSEEEEESCCTTCCHHHHHHHHHTT----SCEEEEEEEECSSSC----CEEEEEEEEESSHHHHHHHHHHHTT--CEE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhc----CCEEEeEeeecCCCC----cccccEEEEECCHHHHHHHHHHhCC--CEE
Confidence            446789999999999999999999999    999999999988775    8999999999999999999999986  556

>3pgw_S U1-70K; protein-RNA complex, U1 snRNA, SM fold, SM core, RRM, splici SNRNPS, splicing factors; HET: DNA; 4.40A {Homo sapiens} PDB: 3cw1_K 2l5i_A 2l5j_A*

Probab=99.60  E-value=3.2e-15  Score=151.98  Aligned_cols=77  Identities=18%  Similarity=0.237  Sum_probs=69.5

Q ss_pred             CCCeEEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCC------CceEEEEeCChhHHHHHHHHhcCCCeEEcCeE
Q psy5142         273 PTGALLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVG------EPTAFVRYKKENNAEAVLKALGSKEIVIKDVK  346 (410)
Q Consensus       273 ~~g~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g------~~~afV~F~~~e~A~~Al~~l~~~~~~i~g~~  346 (410)
                      .+.++|||.|||+.||+++|+++|++||    .|..|.++.+      .++|||.|.+.++|.+||..|  ++..|+|+.
T Consensus       100 ~~~~~lfV~nL~~~~te~~L~~~F~~~G----~I~~v~i~~d~~tg~~kG~aFV~F~~~e~A~~Ai~~l--ng~~i~gr~  173 (437)
T 3pgw_S          100 DAFKTLFVARVNYDTTESKLRREFEVYG----PIKRIHMVYSKRSGKPRGYAFIEYEHERDMHSAYKHA--DGKKIDGRR  173 (437)
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHHcC----CeeEEEeeccCCCCCccceEEEeeccHHHHHHHHHHc--CCCEECCEE
Confidence            4567999999999999999999999999    9999988754      457999999999999999999  678999999


Q ss_pred             EEEEecCch
Q psy5142         347 VSIEVVTGE  355 (410)
Q Consensus       347 v~v~~l~g~  355 (410)
                      |.|.+..+.
T Consensus       174 i~V~~a~~~  182 (437)
T 3pgw_S          174 VLVDVERGR  182 (437)
T ss_pred             EEEEEeCCC
Confidence            999988754

>2kn4_A Immunoglobulin G-binding protein G, splicing FACT arginine/serine-rich 2, S35, splicing factor SC35,; RRM domain, cell WALL; NMR {Streptococcus SP}

Probab=99.58  E-value=2.5e-14  Score=124.99  Aligned_cols=76  Identities=20%  Similarity=0.330  Sum_probs=68.6

Q ss_pred             CCCCeEEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCCC------ceEEEEeCChhHHHHHHHHhcCCCeEEcCe
Q psy5142         272 LPTGALLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVGE------PTAFVRYKKENNAEAVLKALGSKEIVIKDV  345 (410)
Q Consensus       272 ~~~g~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g~------~~afV~F~~~e~A~~Al~~l~~~~~~i~g~  345 (410)
                      ....+.|||.|||+.+++++|+++|++||    .|..|.+..+.      ++|||+|.+.++|++|+..|  ++..++|+
T Consensus        67 ~~~~~~l~v~nl~~~~~~~~l~~~F~~~G----~v~~~~i~~~~~~g~~~g~afV~f~~~~~a~~A~~~l--~g~~~~g~  140 (158)
T 2kn4_A           67 VEGMTSLKVDNLTYRTSPDTLRRVFEKYG----RVGDVYIPRDRYTKESRGFAFVRFHDKRDAEDAMDAM--DGAVLDGR  140 (158)
T ss_dssp             CCBCCEEEEESCCTTCCHHHHHHHHHHHS----CEEEEECCCCSSCTTSCCEEEEEESBHHHHHHHHHHS--TTEESSSS
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhcC----CeEEEEEeecCCCCccceEEEEEECCHHHHHHHHHHh--CCCEECCe
Confidence            35568999999999999999999999999    99999987652      47999999999999999999  67999999


Q ss_pred             EEEEEecC
Q psy5142         346 KVSIEVVT  353 (410)
Q Consensus       346 ~v~v~~l~  353 (410)
                      .|.|....
T Consensus       141 ~l~v~~a~  148 (158)
T 2kn4_A          141 ELRVQMAR  148 (158)
T ss_dssp             EEEEEEEC
T ss_pred             EEEEEECC
Confidence            99999865

>3s8s_A Histone-lysine N-methyltransferase SETD1A; chromatin modification, transcription regulation, structural genomics, structural genomics consortium; 1.30A {Homo sapiens}

Probab=99.55  E-value=7.7e-15  Score=121.02  Aligned_cols=69  Identities=12%  Similarity=0.056  Sum_probs=64.1

Q ss_pred             cceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCCccc
Q psy5142         118 IAQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLKF  196 (410)
Q Consensus       118 ~~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~~~  196 (410)
                      ..++|||+|||+++|+++|+++|++|    |.|.+|.|+++..++    +++|||||+|.+.++|++|++.++|  ..+
T Consensus         5 p~~~lfV~nL~~~~te~~L~~~F~~~----G~i~~v~i~~d~~tg----~~rG~aFV~f~~~~~A~~Ai~~lng--~~~   73 (110)
T 3s8s_A            5 PLKEVTFARLNDNVRETFLKDMCRKY----GEVEEVEILLHPRTR----KHLGLARVLFTSTRGAKETVKNLHL--TSV   73 (110)
T ss_dssp             CCCEEEEESCCTTCCHHHHHHHHTTT----SCEEEEEEEECTTTC----CEEEEEEEEESSHHHHHHHHHHHTT--CEE
T ss_pred             CCcEEEEECCCCCCCHHHHHHHHHhc----CCeeEEEEEECCCCC----ceeeEEEEEECCHHHHHHHHHHhCC--CEE
Confidence            35899999999999999999999999    999999999998875    8999999999999999999999996  455

>2lxi_A RNA-binding protein 10; NMR {Homo sapiens}

Probab=99.55  E-value=2.2e-15  Score=119.87  Aligned_cols=63  Identities=19%  Similarity=0.389  Sum_probs=59.3

Q ss_pred             eeeEeecCCCCCCHHHHHHHHhhccCCCC-ceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcC
Q psy5142         120 QSLYVKYIPVDATLDDIKDFFKKNTSEDV-KITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENK  190 (410)
Q Consensus       120 rtv~V~~lp~~~t~~~L~~~F~~~~~~~G-~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~  190 (410)
                      ++|||+|||+++|+++|+++|++|    | .|.+|+|++++.++    .++|||||+|.+.++|++|++.+.
T Consensus         2 ~~i~v~nLp~~~te~~l~~~F~~~----G~~v~~v~i~~d~~t~----~~rg~aFV~F~~~~~A~~Ai~~~~   65 (91)
T 2lxi_A            2 NIVMLRMLPQAATEDDIRGQLQSH----GVQAREVRLMRNKSSG----QSRGFAFVEFSHLQDATRWMEANQ   65 (91)
T ss_dssp             CEEEEETCCSSCCHHHHHHHHHHH----TCCCSBCCSSSCSSSC----CCSSEEEEECSSHHHHHHHHHTTT
T ss_pred             CEEEEeCCCCCCCHHHHHHHHHHh----CCEeEEEEEEecCCCC----CcCceEEEEecCHHHHHHHHHhcC
Confidence            689999999999999999999999    9 89999999998876    899999999999999999998764

>2i2y_A Fusion protein consists of immunoglobin G- binding protein G and splicing factor,...; protein-RNA complex RRM alpha-beta sandwich BETA1-alpha1- BETA2-BETA3-alpha2-BETA4; NMR {Streptococcus SP} PDB: 2i38_A

Probab=99.54  E-value=2.5e-14  Score=124.10  Aligned_cols=78  Identities=12%  Similarity=0.237  Sum_probs=70.8

Q ss_pred             CCCCCeEEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCC-CceEEEEeCChhHHHHHHHHhcCCCeEEcCeEEEE
Q psy5142         271 ELPTGALLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVG-EPTAFVRYKKENNAEAVLKALGSKEIVIKDVKVSI  349 (410)
Q Consensus       271 ~~~~g~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g-~~~afV~F~~~e~A~~Al~~l~~~~~~i~g~~v~v  349 (410)
                      ...+.+.|||.|||+.+++++|+++|++||    .|..|.+.++ .++|||+|.+.++|.+|+..|  ++..++|+.|.|
T Consensus        69 ~~~~~~~l~V~nl~~~~t~~~l~~~F~~~G----~i~~v~i~~~~~g~afV~f~~~~~a~~A~~~l--~g~~~~g~~l~v  142 (150)
T 2i2y_A           69 SCPLDCKVYVGNLGNNGNKTELERAFGYYG----PLRSVWVARNPPGFAFVEFEDPRDAADAVREL--DGRTLCGCRVRV  142 (150)
T ss_dssp             SSTTSCEEEEESCCSCCSCHHHHHHHHHHS----CEEEEEECSSSCSEEEEEESSHHHHHHHHHHH--SSSCSSSSCCEE
T ss_pred             CCCCCCEEEEeCCCCCCCHHHHHHHHHhhC----CEEEEEEeeCCCcEEEEEECCHHHHHHHHHHc--CCCEECCeEEEE
Confidence            345678999999999999999999999999    9999999887 789999999999999999999  678899999999


Q ss_pred             EecCc
Q psy5142         350 EVVTG  354 (410)
Q Consensus       350 ~~l~g  354 (410)
                      ....+
T Consensus       143 ~~a~~  147 (150)
T 2i2y_A          143 ELSNG  147 (150)
T ss_dssp             EECCC
T ss_pred             EEcCC
Confidence            88653

>3mdf_A Peptidyl-prolyl CIS-trans isomerase E; RRM domain, PHD finger, CYP33, MLL, RNA binding protein, ISO mRNA processing, mRNA splicing, nucleus; 1.85A {Homo sapiens} SCOP: d.58.7.1 PDB: 2kyx_A 3lpy_A*

Probab=99.53  E-value=1.6e-14  Score=112.64  Aligned_cols=70  Identities=20%  Similarity=0.236  Sum_probs=63.7

Q ss_pred             ccceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCCccc
Q psy5142         117 LIAQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLKF  196 (410)
Q Consensus       117 ~~~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~~~  196 (410)
                      ...++|||+|||+++|+++|+++|++|    |.|..|.|+++..++    .++|+|||+|.+.++|++|++.++|  ..+
T Consensus         5 ~~~~~l~V~nl~~~~~~~~l~~~f~~~----G~i~~v~i~~~~~~~----~~~g~afV~f~~~~~a~~A~~~l~g--~~~   74 (85)
T 3mdf_A            5 TTKRVLYVGGLAEEVDDKVLHAAFIPF----GDITDIQIPLDYETE----KHRGFAFVEFELAEDAAAAIDNMNE--SEL   74 (85)
T ss_dssp             CCSSEEEEECCCTTCCHHHHHHHHGGG----SCEEEEECCEETTTT----EECSEEEEEESSHHHHHHHHHHHTT--CEE
T ss_pred             CCCCEEEEECCCCCCCHHHHHHHHhcc----CCEEEEEEEECCCCC----ccccEEEEEECCHHHHHHHHHHhCC--CEE
Confidence            346899999999999999999999999    999999999886665    7899999999999999999998886  455

>3bs9_A Nucleolysin TIA-1 isoform P40; RNA recognition motif, RRM, RNA binding domain, RBD, RNA splicing, apoptosis, phosphoprotein, RNA-binding; 1.95A {Homo sapiens}

Probab=99.53  E-value=2.3e-14  Score=112.26  Aligned_cols=69  Identities=22%  Similarity=0.153  Sum_probs=62.9

Q ss_pred             cceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCCccc
Q psy5142         118 IAQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLKF  196 (410)
Q Consensus       118 ~~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~~~  196 (410)
                      ..++|||+|||.++|+++|+++|++|    |.|.+|.|+++..++    .++|||||+|.+.++|++|++.++|  ..+
T Consensus         5 ~~~~l~v~nlp~~~t~~~l~~~F~~~----G~i~~v~i~~~~~~~----~~~g~afV~f~~~~~A~~A~~~l~g--~~~   73 (87)
T 3bs9_A            5 SHFHVFVGDLSPEITTAAIAAAFAPF----GRISDARVVKDMATG----KSKGYGFVSFFNKWDAENAIQQMGG--QWL   73 (87)
T ss_dssp             -CEEEEEESCCTTCCHHHHHHHHGGG----SCEEEEEEEECTTTC----CEEEEEEEEESSHHHHHHHHHHHTT--CEE
T ss_pred             CceEEEEeCCCCCCCHHHHHHHHHhc----CCEeEEEEEecCCCC----ccceEEEEEECCHHHHHHHHHHcCC--CEE
Confidence            46899999999999999999999999    999999999987665    7899999999999999999999886  455

>2lkz_A RNA-binding protein 5; RRM; NMR {Homo sapiens}

Probab=99.53  E-value=4.3e-15  Score=119.30  Aligned_cols=67  Identities=15%  Similarity=0.236  Sum_probs=61.8

Q ss_pred             ccceeeEeecCCCCCCHHHHHHHHhhccCCCCc--eEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCC
Q psy5142         117 LIAQSLYVKYIPVDATLDDIKDFFKKNTSEDVK--ITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKD  191 (410)
Q Consensus       117 ~~~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~--I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g  191 (410)
                      ..-.||||+|||+++|+++|+++|++|    |.  |.+|++++++.++    .++|||||+|.+.++|++|++.++|
T Consensus         7 ~~m~tlfV~nL~~~~tee~L~~~F~~~----G~i~v~~v~i~~d~~tg----~srG~aFV~f~~~~~A~~Ai~~lng   75 (95)
T 2lkz_A            7 HHMDTIILRNIAPHTVVDSIMTALSPY----ASLAVNNIRLIKDKQTQ----QNRGFAFVQLSSAMDASQLLQILQS   75 (95)
T ss_dssp             CCCCEEEEESCCTTCCHHHHHHHSTTT----CCCCGGGEECCCCSSSS----SCSSEEEEECSSSHHHHHHHHHHHS
T ss_pred             CccCEEEEeCCCCcCCHHHHHHHHHhh----CCccEEEEEEEecCCCC----CCceEeEEEECCHHHHHHHHHHhcC
Confidence            446799999999999999999999999    94  6799999998876    8999999999999999999999886

>3p5t_L Cleavage and polyadenylation specificity factor S; RRM domain, poly(A) site recognition, RNA, nuclear, RNA BIND protein; 2.70A {Homo sapiens} PDB: 3p6y_C

Probab=99.52  E-value=1.1e-14  Score=115.31  Aligned_cols=67  Identities=15%  Similarity=0.164  Sum_probs=59.9

Q ss_pred             eeeEeecCCCCCCHHHHHHHHhhccCCCC--ceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCCccc
Q psy5142         120 QSLYVKYIPVDATLDDIKDFFKKNTSEDV--KITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLKF  196 (410)
Q Consensus       120 rtv~V~~lp~~~t~~~L~~~F~~~~~~~G--~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~~~  196 (410)
                      .+|||+|||+++|+++|+++|++|    |  .|.+|+|++++.++    .++|||||+|.+.++|++|++.++|  ..+
T Consensus         2 ~~l~V~nL~~~~t~~~l~~~F~~~----G~~~v~~v~i~~~~~~g----~~kG~afV~f~~~~~a~~Ai~~l~g--~~~   70 (90)
T 3p5t_L            2 IALYIGNLTWWTTDEDLTEAVHSL----GVNDILEIKFFENRANG----QSKGFALVGVGSEASSKKLMDLLPK--REL   70 (90)
T ss_dssp             --CEEESCCTTCCHHHHHHHHHTT----TCCCCCCEEEEECTTTC----CEEEEEEECC-CHHHHHHHHHHGGG--SCS
T ss_pred             eEEEEeCCCCCCCHHHHHHHHHHh----CCCceEEEEEEecCCCC----ccCcEEEEEECCHHHHHHHHHHcCC--Cee
Confidence            589999999999999999999999    9  99999999988765    8999999999999999999999986  456

>3ucg_A Polyadenylate-binding protein 2; ferredoxin-like, structural genomics, joint center for struc genomics, JCSG, protein structure initiative; HET: PGE; 1.95A {Homo sapiens} PDB: 3b4d_A 3b4m_A

Probab=99.52  E-value=2e-14  Score=113.06  Aligned_cols=70  Identities=20%  Similarity=0.283  Sum_probs=63.4

Q ss_pred             hccceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCCcc
Q psy5142         116 DLIAQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLK  195 (410)
Q Consensus       116 ~~~~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~~  195 (410)
                      +.+.++|||+|||+++|+++|+++|++|    |.|.+|.++++..++    .++|||||+|.+.++|++|+ .++|  ..
T Consensus         3 ~~~~~~l~V~nlp~~~t~~~l~~~F~~~----G~i~~v~i~~~~~~~----~~~g~afV~f~~~~~a~~a~-~~~g--~~   71 (89)
T 3ucg_A            3 EADARSIYVGNVDYGATAEELEAHFHGC----GSVNRVTILCDKFSG----HPKGFAYIEFSDKESVRTSL-ALDE--SL   71 (89)
T ss_dssp             HHHHTEEEEESCCTTCCHHHHHHHHGGG----CCEEEEEEEESCSSS----SCCEEEEEEESSTHHHHHHG-GGTT--CE
T ss_pred             CCcCCEEEEeCCCCCCCHHHHHHHHHhC----CCEEEEEEEecCCCC----CcceEEEEEECCHHHHHHHH-hcCC--CE
Confidence            3567999999999999999999999999    999999999987665    88999999999999999999 7775  45


Q ss_pred             c
Q psy5142         196 F  196 (410)
Q Consensus       196 ~  196 (410)
                      +
T Consensus        72 ~   72 (89)
T 3ucg_A           72 F   72 (89)
T ss_dssp             E
T ss_pred             E
Confidence            6

>1whw_A Hypothetical protein riken cDNA 1200009A02; RNA recognition motif, RRM, RNA binding domain, RBD, RNP, structural genomics; NMR {Mus musculus} SCOP: d.58.7.1

Probab=99.51  E-value=3.1e-14  Score=114.40  Aligned_cols=70  Identities=23%  Similarity=0.230  Sum_probs=64.0

Q ss_pred             ccceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCCccc
Q psy5142         117 LIAQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLKF  196 (410)
Q Consensus       117 ~~~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~~~  196 (410)
                      ...++|||+|||+++|+++|+++|++|    |.|..|.|+++..++    .++|||||+|.+.++|++|++.++|  ..+
T Consensus         6 ~~~~~l~V~nlp~~~t~~~l~~~F~~~----G~i~~v~i~~~~~~~----~~~g~afV~f~~~~~a~~A~~~l~g--~~~   75 (99)
T 1whw_A            6 SGSGRLFVRNLSYTSSEEDLEKLFSAY----GPLSELHYPIDSLTK----KPKGFAFVTFMFPEHAVKAYAEVDG--QVF   75 (99)
T ss_dssp             CSCEEEEEECCCTTCCHHHHHHHHHTT----SCEEEEECCCCTTTC----CCCSEEEEEESSHHHHHHHHHHTTT--EES
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhc----CCEeEEEEEecCCCC----CcCeEEEEEECCHHHHHHHHHHhCC--CEE
Confidence            457899999999999999999999999    999999999988654    8899999999999999999999886  455

>3lqv_A PRE-mRNA branch site protein P14; cysless mutant, PRE-mRNA splicing, adenine, mRNA processing, nucleus, phosphoprotein, RNA-binding; HET: ADE; 2.38A {Homo sapiens} SCOP: d.58.7.1 PDB: 2f9d_A 2f9j_A 2fho_B

Probab=99.51  E-value=2.2e-14  Score=118.68  Aligned_cols=101  Identities=17%  Similarity=0.344  Sum_probs=83.8

Q ss_pred             ceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCCccccc
Q psy5142         119 AQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLKFNE  198 (410)
Q Consensus       119 ~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~~~~~  198 (410)
                      .++|||+|||+++|+++|+++|++|    |.|.+|.|+++.       ..+|||||+|.+.++|.+|+..++|  ..+  
T Consensus         8 ~~~l~V~nlp~~~t~~~l~~~F~~~----G~v~~v~i~~~~-------~~~g~afV~f~~~~~A~~A~~~l~g--~~~--   72 (115)
T 3lqv_A            8 NRILYIRNLPYKITAEEMYDIFGKY----GPIRQIRVGNTP-------ETRGTAYVVYEDIFDAKNAVDHLSG--FNV--   72 (115)
T ss_dssp             CSEEEEESCCTTCCHHHHHHHHHTT----SCEEEEEEECST-------TTTTCEEEEESSHHHHHHHHHHHTT--CBS--
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHhc----CCeEEEEEeeCC-------CCCcEEEEEECCHHHHHHHHHHcCC--CEE--
Confidence            5899999999999999999999999    999999998643       4599999999999999999999886  456  


Q ss_pred             cccchhhhhhhhcccccccccCcccccchhhhchHHHHHHHHHHHHhhhhccccCccCCCCCCCCCCcccccCCCCCeEE
Q psy5142         199 NCEHKNAEKFLNENKDKNLKFNENCEHSLLIKWQQEYHEEKKQEVRSKRDKSKKSTEGDGEGNTEGSKQVVLELPTGALL  278 (410)
Q Consensus       199 ~~~~~~~~k~~~~~~~~~~~~~g~~~~~L~v~~k~~~~~~k~~e~~~~~~k~k~~~e~~~~~~~~~~~~~~~~~~~g~~l  278 (410)
                                           .|   +.|.|.+...-..                                         
T Consensus        73 ---------------------~g---~~l~v~~a~~~~~-----------------------------------------   87 (115)
T 3lqv_A           73 ---------------------SN---RYLVVLYYNANRA-----------------------------------------   87 (115)
T ss_dssp             ---------------------SS---CBCEEEECCHHHH-----------------------------------------
T ss_pred             ---------------------CC---eEEEEEEecCChh-----------------------------------------
Confidence                                 67   8888876321100                                         


Q ss_pred             EEeCCCCCCCHHHHHHHHHhcC
Q psy5142         279 KISDIKEPVSREDIREVLEKVQ  300 (410)
Q Consensus       279 ~v~nL~~~~t~edLk~~F~~~G  300 (410)
                       ..+++...++++|.++|++||
T Consensus        88 -~~~~~~~~~~~~l~~~~~~~g  108 (115)
T 3lqv_A           88 -FQKMDTKKKEEQLKLLKEKYG  108 (115)
T ss_dssp             -TTTSCHHHHHHHHHHHHHHHC
T ss_pred             -hhhhhHhHhHHHHHHHHHHhC
Confidence             024666778999999999999

>2dnz_A Probable RNA-binding protein 23; RNA recognition motif, RRM, RNA binding domain, RBD, RNP, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=99.51  E-value=4.6e-14  Score=112.47  Aligned_cols=69  Identities=28%  Similarity=0.388  Sum_probs=63.6

Q ss_pred             cceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCCccc
Q psy5142         118 IAQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLKF  196 (410)
Q Consensus       118 ~~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~~~  196 (410)
                      ..++|||+|||.++|+++|+++|++|    |.|..|.|+++..++    .++|||||+|.+.++|++|++.++|  ..+
T Consensus         4 ~~~~l~v~nlp~~~t~~~l~~~f~~~----G~v~~v~i~~~~~~~----~~~g~afV~f~~~~~a~~A~~~l~g--~~~   72 (95)
T 2dnz_A            4 GSSGLYVGSLHFNITEDMLRGIFEPF----GKIDNIVLMKDSDTG----RSKGYGFITFSDSECARRALEQLNG--FEL   72 (95)
T ss_dssp             CCCEEEEESCCTTCCHHHHHHHHTTT----SCEEEEEEECCSSSC----CCCSEEEEEESCHHHHHHHHHHHTT--CCS
T ss_pred             CCcEEEEeCCCCCCCHHHHHHHHHhc----CCEeEEEEeecCCCC----ceeeEEEEEECCHHHHHHHHHHhCC--Cee
Confidence            35899999999999999999999999    999999999987765    8899999999999999999998886  455

>3md1_A Nuclear and cytoplasmic polyadenylated RNA-bindin PUB1; RRM, RBD, RNP, poly(U) binding, nucleus, RNA-binding, binding protein; 1.60A {Saccharomyces cerevisiae} SCOP: d.58.7.0

Probab=99.51  E-value=4e-14  Score=109.83  Aligned_cols=67  Identities=15%  Similarity=0.202  Sum_probs=62.0

Q ss_pred             eeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCCccc
Q psy5142         120 QSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLKF  196 (410)
Q Consensus       120 rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~~~  196 (410)
                      .+|||+|||.++|+++|+++|++|    |.|.+|.++++..++    .++|||||+|.+.++|++|+..++|  ..+
T Consensus         2 ~~l~V~nlp~~~t~~~l~~~f~~~----G~i~~~~i~~~~~~~----~~~g~afV~f~~~~~a~~a~~~l~g--~~~   68 (83)
T 3md1_A            2 FNLFVGDLNVNVDDETLRNAFKDF----PSYLSGHVMWDMQTG----SSRGYGFVSFTSQDDAQNAMDSMQG--QDL   68 (83)
T ss_dssp             EEEEEECCCTTCCHHHHHHHHTTS----TTEEEEEEEECTTTC----CEEEEEEEEESCHHHHHHHHHHHTT--CEE
T ss_pred             eEEEEeCCCCCCCHHHHHHHHHhc----CCeeEEEEEEcCCCC----CccceEEEEECCHHHHHHHHHHhcC--Cee
Confidence            689999999999999999999999    999999999887665    8899999999999999999999886  455

>3s7r_A Heterogeneous nuclear ribonucleoprotein A/B; ferredoxin-like, structural genomics, joint center for struc genomics, JCSG; 2.15A {Homo sapiens} PDB: 1hd0_A 1hd1_A

Probab=99.51  E-value=2.4e-14  Score=112.28  Aligned_cols=66  Identities=21%  Similarity=0.364  Sum_probs=61.0

Q ss_pred             ccceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcC
Q psy5142         117 LIAQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENK  190 (410)
Q Consensus       117 ~~~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~  190 (410)
                      ...++|||+|||+++|+++|+++|++|    |.|.+|.|+++..++    .++|||||+|.+.++|++|++..+
T Consensus         9 ~~~~~l~V~nlp~~~t~~~l~~~F~~~----G~i~~v~i~~~~~~g----~~~g~afV~f~~~~~a~~A~~~~~   74 (87)
T 3s7r_A            9 EDAGKMFVGGLSWDTSKKDLKDYFTKF----GEVVDCTIKMDPNTG----RSRGFGFILFKDAASVEKVLDQKE   74 (87)
T ss_dssp             SCTTEEEEECCCTTCCHHHHHHHHTTT----SCEEEEEEEECTTTC----CEEEEEEEEESSTHHHHHHHHSSC
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhC----CCEEEEEEeecCCCC----ccccEEEEEECCHHHHHHHHHhCC
Confidence            457899999999999999999999999    999999999987765    889999999999999999997744

>2ywk_A Putative RNA-binding protein 11; RRM-domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; 1.54A {Homo sapiens}

Probab=99.50  E-value=4e-14  Score=112.78  Aligned_cols=69  Identities=13%  Similarity=0.204  Sum_probs=63.3

Q ss_pred             ccceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCCccc
Q psy5142         117 LIAQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLKF  196 (410)
Q Consensus       117 ~~~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~~~  196 (410)
                      ...++|||+|||+++|+++|+++|++|    |.|.+|.|+++..+     .++|||||+|.+.++|++|++.+++  ..+
T Consensus        14 ~~~~~l~v~nlp~~~~~~~l~~~F~~~----G~i~~v~i~~~~~g-----~~~g~afV~f~~~~~a~~A~~~l~g--~~~   82 (95)
T 2ywk_A           14 EADRTVFVGNLEARVREEILYELFLQA----GPLTKVTICKDREG-----KPKSFGFVCFKHPESVSYAIALLNG--IRL   82 (95)
T ss_dssp             TGGGEEEEECCCTTCCHHHHHHHHGGG----SCEEEEEEEECTTS-----CEEEEEEEEESSTHHHHHHHHHHTT--CEE
T ss_pred             CCCCEEEEECCCCCCCHHHHHHHHHhc----CCEEEEEEEECCCC-----CCceEEEEEECCHHHHHHHHHHhCC--CEE
Confidence            456899999999999999999999999    99999999998764     8899999999999999999998886  455

>1p27_B RNA-binding protein 8A; nuclear protein, mRNA splicing; 2.00A {Homo sapiens} SCOP: d.58.7.1

Probab=99.50  E-value=6.1e-14  Score=114.12  Aligned_cols=70  Identities=21%  Similarity=0.259  Sum_probs=64.3

Q ss_pred             ccceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCCccc
Q psy5142         117 LIAQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLKF  196 (410)
Q Consensus       117 ~~~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~~~  196 (410)
                      ...++|||+|||.++|+++|+++|++|    |.|.+|.|+++..++    .++|||||+|.+.++|++|+..++|  ..+
T Consensus        21 ~~~~~l~V~nlp~~~t~~~l~~~f~~~----G~i~~v~i~~~~~~~----~~~g~afV~f~~~~~a~~A~~~l~g--~~~   90 (106)
T 1p27_B           21 VEGWILFVTGVHEEATEEDIHDKFAEY----GEIKNIHLNLDRRTG----YLKGYTLVEYETYKEAQAAMEGLNG--QDL   90 (106)
T ss_dssp             TTBEEEEEECCCTTCCHHHHHHHHGGG----SCEEEEEEEECTTTS----SEEEEEEEEESCHHHHHHHHHHHTT--CBS
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHhcc----CCeEEEEEEecCCCC----ceeeEEEEEECCHHHHHHHHHHhcC--CEE
Confidence            457899999999999999999999999    999999999987765    8899999999999999999999886  455

>2dgs_A DAZ-associated protein 1; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.50  E-value=5.4e-14  Score=113.06  Aligned_cols=69  Identities=20%  Similarity=0.380  Sum_probs=62.7

Q ss_pred             ccceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCCccc
Q psy5142         117 LIAQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLKF  196 (410)
Q Consensus       117 ~~~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~~~  196 (410)
                      ...++|||+|||.++|+++|+++|++|    |.|..|.|+++..++    .++|||||+|.+.++|++|++ +++  ..+
T Consensus         8 ~~~~~l~V~nlp~~~t~~~l~~~F~~~----G~i~~v~i~~~~~~~----~~~g~afV~f~~~~~a~~A~~-~~~--~~~   76 (99)
T 2dgs_A            8 SKSNKIFVGGIPHNCGETELREYFKKF----GVVTEVVMIYDAEKQ----RPRGFGFITFEDEQSVDQAVN-MHF--HDI   76 (99)
T ss_dssp             SSCCEEEEESCCSSCCHHHHHHHHSSS----SCEEEEEECCCTTTC----SCCSEEEEEESSHHHHHHHHH-HCC--CBS
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhc----CCeEEEEEEeCCCCC----CCCceEEEEECCHHHHHHHHH-hCC--CEE
Confidence            456899999999999999999999999    999999999987765    789999999999999999999 675  456

>1x5s_A Cold-inducible RNA-binding protein; structure genomics, RRM domain, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.50  E-value=4e-14  Score=114.38  Aligned_cols=70  Identities=19%  Similarity=0.304  Sum_probs=63.9

Q ss_pred             ccceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCCccc
Q psy5142         117 LIAQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLKF  196 (410)
Q Consensus       117 ~~~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~~~  196 (410)
                      ...++|||+|||+++|+++|+++|++|    |.|..|.|+++..++    .++|||||+|.+.++|++|++.+++  ..+
T Consensus        10 ~~~~~l~v~nLp~~~t~~~l~~~f~~~----G~i~~v~i~~~~~~~----~~~g~afV~f~~~~~A~~A~~~l~g--~~~   79 (102)
T 1x5s_A           10 SDEGKLFVGGLSFDTNEQSLEQVFSKY----GQISEVVVVKDRETQ----RSRGFGFVTFENIDDAKDAMMAMNG--KSV   79 (102)
T ss_dssp             CCCSEEEEESCCTTCCHHHHHHHHHHH----SCCCEEEECCCSSSC----SCCSEEEEECSSHHHHHHHHHHHTT--CCT
T ss_pred             CCCCEEEEECCCCCCCHHHHHHHHHhc----CCeEEEEEEeCCCCC----CcccEEEEEECCHHHHHHHHHHhCC--CEE
Confidence            346899999999999999999999999    999999999987765    7899999999999999999999886  455

>2cqc_A Arginine/serine-rich splicing factor 10; RNA recognition motif, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.49  E-value=4.3e-14  Score=112.50  Aligned_cols=70  Identities=20%  Similarity=0.250  Sum_probs=64.0

Q ss_pred             ccceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCCccc
Q psy5142         117 LIAQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLKF  196 (410)
Q Consensus       117 ~~~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~~~  196 (410)
                      ...++|||+|||+++|+++|+++|++|    |.|..|.|+++..++    .++|||||+|.+.++|++|+..++|  ..+
T Consensus        13 ~~~~~l~v~nlp~~~t~~~l~~~f~~~----G~v~~v~i~~~~~~~----~~~g~afV~f~~~~~A~~A~~~l~g--~~~   82 (95)
T 2cqc_A           13 DPNCCLGVFGLSLYTTERDLREVFSKY----GPIADVSIVYDQQSR----RSRGFAFVYFENVDDAKEAKERANG--MEL   82 (95)
T ss_dssp             CGGGCEEEESCCSSCCHHHHHHHHHTT----SCEEEEEEEECSSSS----SEEEEEEEEESSHHHHHHHHHHHTT--EEE
T ss_pred             CCCCEEEEECCCCCCCHHHHHHHHHhc----CCeeEEEEEEcCCCC----CcccEEEEEECCHHHHHHHHHHhCC--CEE
Confidence            346899999999999999999999999    999999999987765    7899999999999999999999886  455

>1x5u_A Splicing factor 3B subunit 4 (spliceosome associated protein 49) (SAP 49) (SF3B50)...; structure genomics,RRM domain,splicing factor 3B; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.49  E-value=5.5e-14  Score=114.19  Aligned_cols=70  Identities=17%  Similarity=0.164  Sum_probs=64.2

Q ss_pred             ccceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCCccc
Q psy5142         117 LIAQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLKF  196 (410)
Q Consensus       117 ~~~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~~~  196 (410)
                      ...++|||+|||+++|+++|+++|++|    |.|..|.|+++..++    .++|||||+|.+.++|++|++.+++  ..+
T Consensus        13 ~~~~~l~V~nlp~~~t~~~l~~~F~~~----G~i~~v~i~~~~~~~----~~~g~afV~f~~~~~a~~A~~~l~g--~~~   82 (105)
T 1x5u_A           13 NQDATVYVGGLDEKVSEPLLWELFLQA----GPVVNTHMPKDRVTG----QHQGYGFVEFLSEEDADYAIKIMDM--IKL   82 (105)
T ss_dssp             CTTTEEEEECCCTTCCHHHHHHHHHTT----SCEEEEECCBCSSSC----SBCSCEEEEESSHHHHHHHHHHSSS--CBC
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhc----CCeEEEEEEecCCCC----cCCcEEEEEECCHHHHHHHHHHhCC--CeE
Confidence            456899999999999999999999999    999999999987665    8999999999999999999999886  455

>2x1f_A MRNA 3'-END-processing protein RNA15; transcription-RNA complex, mRNA processing; 1.60A {Saccharomyces cerevisiae} PDB: 2x1b_A 2x1a_A 2km8_B

Probab=99.49  E-value=5.4e-14  Score=112.50  Aligned_cols=68  Identities=21%  Similarity=0.308  Sum_probs=62.9

Q ss_pred             ceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCCccc
Q psy5142         119 AQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLKF  196 (410)
Q Consensus       119 ~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~~~  196 (410)
                      .++|||+|||.++|+++|+++|++|    |.|.+|.|+++..++    .++|||||+|.+.++|++|++.++|  ..+
T Consensus         2 ~~~l~V~nLp~~~t~~~l~~~F~~~----G~i~~v~i~~~~~~g----~~~g~afV~f~~~~~A~~Ai~~l~g--~~~   69 (96)
T 2x1f_A            2 SRVVYLGSIPYDQTEEQILDLCSNV----GPVINLKMMFDPQTG----RSKGYAFIEFRDLESSASAVRNLNG--YQL   69 (96)
T ss_dssp             CSEEEEESCCTTCCHHHHHHHHHTT----SCEEEEECCBCTTTC----CBCSEEEEEESSHHHHHHHHHHHTT--CEE
T ss_pred             CcEEEEECCCCCCCHHHHHHHHHhc----CCEEEEEEEeCCCCC----ccceEEEEEECCHHHHHHHHHHhCC--CeE
Confidence            4799999999999999999999999    999999999987765    7899999999999999999999886  455

>2e5h_A Zinc finger CCHC-type and RNA-binding motif- containing protein 1; RRM domain, RBD, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=99.49  E-value=3.9e-14  Score=112.67  Aligned_cols=70  Identities=23%  Similarity=0.375  Sum_probs=64.0

Q ss_pred             ccceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCCccc
Q psy5142         117 LIAQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLKF  196 (410)
Q Consensus       117 ~~~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~~~  196 (410)
                      ...++|||+|||+++|+++|+++|++|    |.|..|.|+++..++    .++|||||+|.+.++|++|++.+++  ..+
T Consensus        14 ~~~~~l~V~nlp~~~t~~~l~~~f~~~----G~v~~v~i~~~~~~~----~~~g~afV~f~~~~~A~~A~~~l~g--~~~   83 (94)
T 2e5h_A           14 PSKSTVYVSNLPFSLTNNDLYRIFSKY----GKVVKVTIMKDKDTR----KSKGVAFILFLDKDSAQNCTRAINN--KQL   83 (94)
T ss_dssp             CCTTSEEEESCCTTSCHHHHHHHTTTT----SCEEEEEECCCSSSC----CCTTCEEEEESCHHHHHHHHHHTTT--EEE
T ss_pred             CCCCEEEEECCCCCCCHHHHHHHHHhc----CCeEEEEEEeCCCCC----CcccEEEEEECCHHHHHHHHHHcCC--Cee
Confidence            346899999999999999999999999    999999999988765    7899999999999999999999886  455

>2dgo_A Cytotoxic granule-associated RNA binding protein 1; RRM domain, structural genomics, NPPSFA; NMR {Mus musculus} PDB: 2rne_A 2dh7_A

Probab=99.49  E-value=5.8e-14  Score=116.06  Aligned_cols=70  Identities=24%  Similarity=0.191  Sum_probs=64.2

Q ss_pred             ccceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCCccc
Q psy5142         117 LIAQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLKF  196 (410)
Q Consensus       117 ~~~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~~~  196 (410)
                      ...++|||+|||+++|+++|+++|++|    |.|..|.|+++..++    .++|||||+|.+.++|++|++.++|  ..+
T Consensus        13 ~~~~~l~V~nlp~~~t~~~l~~~F~~~----G~i~~v~i~~~~~~~----~~~g~afV~f~~~~~a~~A~~~l~g--~~~   82 (115)
T 2dgo_A           13 SNHFHVFVGDLSPEITTEDIKAAFAPF----GRISDARVVKDMATG----KSKGYGFVSFFNKWDAENAIQQMGG--QWL   82 (115)
T ss_dssp             TTCEEEEEESCCTTCCHHHHHHHHGGG----SCEEEEEEEECTTTC----CEEEEEEEEESSHHHHHHHHHHTTT--CEE
T ss_pred             CCCcEEEEeCCCCCCCHHHHHHHHHhc----CCeEEEEEEEcCCCC----CcceEEEEEECCHHHHHHHHHHhCC--CEE
Confidence            457999999999999999999999999    999999999987665    7899999999999999999999886  455

>1sjq_A Polypyrimidine tract-binding protein 1; babbab motif, RNA binding protein; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.49  E-value=6.6e-14  Score=114.19  Aligned_cols=78  Identities=13%  Similarity=0.181  Sum_probs=72.1

Q ss_pred             CCCCeEEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCCCceEEEEeCChhHHHHHHHHhcCCCeEEcCeEEEEEe
Q psy5142         272 LPTGALLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVGEPTAFVRYKKENNAEAVLKALGSKEIVIKDVKVSIEV  351 (410)
Q Consensus       272 ~~~g~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g~~~afV~F~~~e~A~~Al~~l~~~~~~i~g~~v~v~~  351 (410)
                      .++.++|||.|||+++++++|+++|++||    .|..|.+.+++++|||+|.+.++|++|++.+++++..++|+.|.|..
T Consensus        13 ~~~~~~LfV~nLp~~vte~dL~~lF~~fG----~V~~v~i~~~kGfaFVeF~~~~~A~~Ai~~l~~~~~~l~Gr~l~V~~   88 (105)
T 1sjq_A           13 GVPSRVIHIRKLPIDVTEGEVISLGLPFG----KVTNLLMLKGKNQAFIEMNTEEAANTMVNYYTSVTPVLRGQPIYIQF   88 (105)
T ss_dssp             CCCCCEEEECSCCTTSCHHHHHHHHHHHC----CEEEEEEETTTTEEEEEESSHHHHHHHHHHHTTSCCEETTEECCBCC
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhcC----CEEEEEEEcCCCEEEEEECCHHHHHHHHHHhccCCceECCEEEEEEE
Confidence            35678999999999999999999999999    99999999999999999999999999999997667899999999987


Q ss_pred             cC
Q psy5142         352 VT  353 (410)
Q Consensus       352 l~  353 (410)
                      ..
T Consensus        89 A~   90 (105)
T 1sjq_A           89 SN   90 (105)
T ss_dssp             CS
T ss_pred             cC
Confidence            65

>3ex7_B RNA-binding protein 8A; protein-RNA complex, mRNA processing, mRNA splicing, mRNA transport, nonsense-mediated mRNA decay, nucleus; HET: ADP; 2.30A {Homo sapiens} PDB: 2j0q_D*

Probab=99.49  E-value=8.3e-14  Score=117.03  Aligned_cols=78  Identities=21%  Similarity=0.313  Sum_probs=70.2

Q ss_pred             cCCCCCeEEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCC------CceEEEEeCChhHHHHHHHHhcCCCeEEc
Q psy5142         270 LELPTGALLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVG------EPTAFVRYKKENNAEAVLKALGSKEIVIK  343 (410)
Q Consensus       270 ~~~~~g~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g------~~~afV~F~~~e~A~~Al~~l~~~~~~i~  343 (410)
                      .....+++|||.|||+.+++++|+++|++||    .|..|.+..+      .++|||+|.+.++|++|++.|  ++..|+
T Consensus        17 ~~~~~~~~l~V~nlp~~~t~~~l~~~F~~~G----~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~A~~~l--~g~~~~   90 (126)
T 3ex7_B           17 QRSVEGWILFVTGVHEEATEEDIHDKFAEYG----EIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGL--NGQDLM   90 (126)
T ss_dssp             CCCSSSEEEEEESCCTTCCHHHHHHHHHTTS----CEEEEECCBCTTTSSBCSCEEEEESSHHHHHHHHHHH--TTCBSS
T ss_pred             CCCCCCCEEEEeCCCCCCCHHHHHHHHHhcC----CeEEEEEEecCCCCccceEEEEEECCHHHHHHHHHHh--CCCeeC
Confidence            3456689999999999999999999999999    9999998765      457999999999999999999  678899


Q ss_pred             CeEEEEEecC
Q psy5142         344 DVKVSIEVVT  353 (410)
Q Consensus       344 g~~v~v~~l~  353 (410)
                      |+.|.|....
T Consensus        91 g~~l~v~~a~  100 (126)
T 3ex7_B           91 GQPISVDWCF  100 (126)
T ss_dssp             SSBCEEEESE
T ss_pred             CeEEEEEEec
Confidence            9999999764

>2cq0_A Eukaryotic translation initiation factor 3 subunit 4; RRM domain, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.49  E-value=3.4e-14  Score=115.15  Aligned_cols=70  Identities=17%  Similarity=0.307  Sum_probs=64.2

Q ss_pred             ccceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCCccc
Q psy5142         117 LIAQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLKF  196 (410)
Q Consensus       117 ~~~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~~~  196 (410)
                      ...++|||+|||+++|+++|+++|++|    |.|..|.|+++..++    .++|||||+|.+.++|++|+..++|  ..+
T Consensus        13 ~~~~~l~V~nlp~~~t~~~l~~~f~~~----G~i~~v~i~~~~~~~----~~~g~afV~f~~~~~A~~A~~~l~g--~~~   82 (103)
T 2cq0_A           13 DDNATIRVTNLSEDTRETDLQELFRPF----GSISRIYLAKDKTTG----QSKGFAFISFHRREDAARAIAGVSG--FGY   82 (103)
T ss_dssp             SSSEEEEEESCCTTCCHHHHHTTSTTT----CCEEEEEEEECSSSC----SEEEEEEEEESSHHHHHHHHHHTTT--CEE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhC----CCeEEEEEeecCCCC----ceeeEEEEEECCHHHHHHHHHHcCC--Cee
Confidence            457999999999999999999999999    999999999987665    7899999999999999999999886  455

>4a8x_A RNA-binding protein with serine-rich domain 1; transcription, splicing, RNA processing, nonsense mediated D NMD, HDAC, histone deacetylation; 1.90A {Homo sapiens}

Probab=99.49  E-value=5e-14  Score=110.41  Aligned_cols=70  Identities=24%  Similarity=0.245  Sum_probs=62.9

Q ss_pred             cceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCCccc
Q psy5142         118 IAQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLKF  196 (410)
Q Consensus       118 ~~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~~~  196 (410)
                      ..++|||+|||.++|+++|+++|++|    |.|.+|.|+++..++.   .++|+|||+|.+.++|++|++.++|  ..+
T Consensus         3 ~~~~l~V~nlp~~~t~~~l~~~F~~~----G~i~~~~i~~~~~~~~---~~~g~afV~f~~~~~a~~A~~~l~g--~~~   72 (88)
T 4a8x_A            3 KPTKVHIGRLTRNVTKDHIMEIFSTY----GKIKMIDMPVERMHPH---LSKGYAYVEFENPDEAEKALKHMDG--GQI   72 (88)
T ss_dssp             CCCEEEEECCCTTCCHHHHHHHHHTT----SCEEEEECCEETTEEE---EECSEEEEEESSHHHHHHHHHHHTT--CEE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhC----CCEEEEEEEeCCCCCC---CCCcEEEEEEecHHHHHHHHHHcCC--CeE
Confidence            46899999999999999999999999    9999999998876531   3899999999999999999999886  455

>2rs2_A Musashi-1, RNA-binding protein musashi homolog 1; protein-RNA complex, RRM, RBD, RNA binding protein- complex; NMR {Mus musculus}

Probab=99.49  E-value=3.8e-14  Score=116.45  Aligned_cols=71  Identities=13%  Similarity=0.267  Sum_probs=61.6

Q ss_pred             hhccceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCCc
Q psy5142         115 KDLIAQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNL  194 (410)
Q Consensus       115 ~~~~~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~  194 (410)
                      .....++|||+|||.++|+++|+++|++|    |.|.+|+|+++..++    .++|||||+|.+.++|.+|++.++   .
T Consensus        21 ~~~~~~~lfV~nLp~~~te~~L~~~F~~~----G~i~~v~i~~~~~tg----~~kg~afV~f~~~~~A~~Ai~~~~---~   89 (109)
T 2rs2_A           21 MGSSGCKMFIGGLSWQTTQEGLREYFGQF----GEVKECLVMRDPLTK----RSRGFGFVTFMDQAGVDKVLAQSR---H   89 (109)
T ss_dssp             -----CCEEEESCCTTCCHHHHHHHHTTT----SCEEEEEECCCTTTC----CCTTCEEEEESSHHHHHHHHHSSC---E
T ss_pred             cCCCCCEEEEeCCCCCCCHHHHHHHHHcc----CCeEEEEEEECCCCC----CcCcEEEEEECCHHHHHHHHHHCC---C
Confidence            34667999999999999999999999999    999999999988765    899999999999999999999875   5


Q ss_pred             cc
Q psy5142         195 KF  196 (410)
Q Consensus       195 ~~  196 (410)
                      .+
T Consensus        90 ~l   91 (109)
T 2rs2_A           90 EL   91 (109)
T ss_dssp             EE
T ss_pred             cC
Confidence            56

>2do4_A Squamous cell carcinoma antigen recognized by T- cells 3; RRM domaim, RDB, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=99.49  E-value=5.2e-14  Score=113.37  Aligned_cols=69  Identities=16%  Similarity=0.362  Sum_probs=63.2

Q ss_pred             ccceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCCccc
Q psy5142         117 LIAQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLKF  196 (410)
Q Consensus       117 ~~~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~~~  196 (410)
                      ...++|||+|||.++|+++|+++|++|    |.|..|+|+++..+     .++|||||+|.+.++|++|++.++|  ..+
T Consensus        15 ~~~~~l~v~nlp~~~t~~~l~~~F~~~----G~i~~v~i~~~~~g-----~~~g~afV~f~~~~~a~~A~~~l~g--~~~   83 (100)
T 2do4_A           15 LEKHKLFISGLPFSCTKEELEEICKAH----GTVKDLRLVTNRAG-----KPKGLAYVEYENESQASQAVMKMDG--MTI   83 (100)
T ss_dssp             CCCSCEEEESCCTTCCHHHHHHHHTTT----SCEEEEEEEECTTS-----CEEEEEEEEESSHHHHHHHHHHHTT--EES
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhC----CCeEEEEEEECCCC-----CEEeEEEEEECCHHHHHHHHHHhCC--CEE
Confidence            557899999999999999999999999    99999999998844     7899999999999999999999886  455

>3r27_A HnRNP L, heterogeneous nuclear ribonucleoprotein L; RBD fold, protein binding, nucleus; 2.04A {Homo sapiens}

Probab=99.49  E-value=1.6e-13  Score=110.83  Aligned_cols=80  Identities=16%  Similarity=0.249  Sum_probs=73.6

Q ss_pred             CCCCCeEEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCCCceEEEEeCChhHHHHHHHHhcCCCeEEcCeEEEEE
Q psy5142         271 ELPTGALLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVGEPTAFVRYKKENNAEAVLKALGSKEIVIKDVKVSIE  350 (410)
Q Consensus       271 ~~~~g~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g~~~afV~F~~~e~A~~Al~~l~~~~~~i~g~~v~v~  350 (410)
                      ..+++.+|+|.|||+++|+++|+++|++||    .|..|.+.+.++.|||+|.+.++|.+|+..+++..+.++|+.|.|.
T Consensus        17 ~~~ps~~l~V~NLp~~~te~~L~~lF~~fG----~V~~v~i~~~kg~AFVef~~~~~A~~Av~~ln~~~~~i~Gr~i~V~   92 (100)
T 3r27_A           17 KTPASPVVHIRGLIDGVVEADLVEALQEFG----PISYVVVMPKKRQALVEFEDVLGACNAVNYAADNQIYIAGHPAFVN   92 (100)
T ss_dssp             CCCCCSEEEEESCCTTCCHHHHHHHHGGGS----CEEEEEEETTTTEEEEEESSHHHHHHHHHHHHHSCEEETTEEEEEE
T ss_pred             cCCCCcEEEEeCCCCCCCHHHHHHHHhccC----CEEEEEEEcCCCEEEEEECCHHHHHHHHHHhcCCCceeCCcEEEEE
Confidence            346778999999999999999999999999    9999999999999999999999999999999766778999999998


Q ss_pred             ecCc
Q psy5142         351 VVTG  354 (410)
Q Consensus       351 ~l~g  354 (410)
                      ....
T Consensus        93 ~S~~   96 (100)
T 3r27_A           93 YSTS   96 (100)
T ss_dssp             ECSC
T ss_pred             eccc
Confidence            7653

>1sjq_A Polypyrimidine tract-binding protein 1; babbab motif, RNA binding protein; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.49  E-value=5.7e-14  Score=114.56  Aligned_cols=66  Identities=18%  Similarity=0.288  Sum_probs=57.6

Q ss_pred             ccceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCCccc
Q psy5142         117 LIAQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLKF  196 (410)
Q Consensus       117 ~~~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~~~  196 (410)
                      ...++|||+|||+++|+++|+++|++|    |.|.+|+|++          .+|||||+|.+.++|.+|++.+++....+
T Consensus        14 ~~~~~LfV~nLp~~vte~dL~~lF~~f----G~V~~v~i~~----------~kGfaFVeF~~~~~A~~Ai~~l~~~~~~l   79 (105)
T 1sjq_A           14 VPSRVIHIRKLPIDVTEGEVISLGLPF----GKVTNLLMLK----------GKNQAFIEMNTEEAANTMVNYYTSVTPVL   79 (105)
T ss_dssp             CCCCEEEECSCCTTSCHHHHHHHHHHH----CCEEEEEEET----------TTTEEEEEESSHHHHHHHHHHHTTSCCEE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhc----CCEEEEEEEc----------CCCEEEEEECCHHHHHHHHHHhccCCceE
Confidence            346899999999999999999999999    9999999974          37999999999999999999776322345

>2la6_A RNA-binding protein FUS; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative, RNA recognition; NMR {Homo sapiens}

Probab=99.48  E-value=9.8e-14  Score=111.63  Aligned_cols=70  Identities=21%  Similarity=0.341  Sum_probs=63.9

Q ss_pred             ccceeeEeecCCCCCCHHHHHHHHhhccCCCCceEE--------EEEcccCcccccccccccEEEEEecCHHHHHHHHHh
Q psy5142         117 LIAQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITN--------IIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNE  188 (410)
Q Consensus       117 ~~~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~--------v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~  188 (410)
                      ...++|||+|||.++|+++|+++|++|    |.|..        |+|++++.++    .++|||||+|.+.++|++|++.
T Consensus        11 ~~~~~l~V~nLp~~~t~~~l~~~F~~~----G~i~~~~~~~~~~v~i~~~~~~g----~~~G~afV~f~~~~~a~~Ai~~   82 (99)
T 2la6_A           11 SDNNTIFVQGLGENVTIESVADYFKQI----GIIKTNKKTGQPMINLYTDRETG----KLKGEATVSFDDPPSAKAAIDW   82 (99)
T ss_dssp             CCCSEEEEECCCSSCCHHHHHHHHTTT----SCBCEETTTTEESEEEEECTTTC----SEEEEEEEEBSSHHHHHHHHHH
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHHh----CCEeeccccccccEEEEecCCCC----CeeeEEEEEECCHHHHHHHHHH
Confidence            456899999999999999999999999    99999        9999987765    8899999999999999999999


Q ss_pred             cCCCCccc
Q psy5142         189 NKDKNLKF  196 (410)
Q Consensus       189 ~~g~~~~~  196 (410)
                      ++|  ..+
T Consensus        83 l~g--~~~   88 (99)
T 2la6_A           83 FDG--KEF   88 (99)
T ss_dssp             HTT--CBS
T ss_pred             hCC--CEe
Confidence            886  455

>2cph_A RNA binding motif protein 19; RNA recognition motif, RRM, RNP, structural genomics, NPPSFA; NMR {Mus musculus} SCOP: d.58.7.1

Probab=99.48  E-value=7.6e-14  Score=113.68  Aligned_cols=70  Identities=20%  Similarity=0.329  Sum_probs=63.4

Q ss_pred             ccceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEccc-CcccccccccccEEEEEecCHHHHHHHHHhc-CCCCc
Q psy5142         117 LIAQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNY-QDKLANQKKFKGSIFVTFDNKENAEKFLNEN-KDKNL  194 (410)
Q Consensus       117 ~~~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~-~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~-~g~~~  194 (410)
                      ...++|||+|||+++|+++|+++|++|    |.|..|+|+++ ..++    .++|||||+|.+.++|++|+..+ ++  .
T Consensus        13 ~~~~~l~V~nlp~~~t~~~l~~~F~~~----G~i~~v~i~~~~~~~~----~~~g~afV~f~~~~~a~~A~~~l~~~--~   82 (107)
T 2cph_A           13 QTTSKILVRNIPFQANQREIRELFSTF----GELKTVRLPKKMTGTG----AHRGFGFVDFITKQDAKKAFNALCHS--T   82 (107)
T ss_dssp             SCCCCEEEESCCTTCCHHHHHHHHHTT----SCEEEEECCCCCSSSC----SSCSEEEEEESSHHHHHHHHHHHHTC--C
T ss_pred             CCCCEEEEeCCCCcCCHHHHHHHHHcc----CCeEEEEEecCCCCCC----CcCceEEEEECCHHHHHHHHHHhccC--C
Confidence            557999999999999999999999999    99999999988 5554    78999999999999999999998 75  4


Q ss_pred             cc
Q psy5142         195 KF  196 (410)
Q Consensus       195 ~~  196 (410)
                      .+
T Consensus        83 ~~   84 (107)
T 2cph_A           83 HL   84 (107)
T ss_dssp             BS
T ss_pred             eE
Confidence            55

>2dnm_A SRP46 splicing factor; RRM domain, RBD, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.48  E-value=4.3e-14  Score=114.52  Aligned_cols=70  Identities=14%  Similarity=0.222  Sum_probs=64.1

Q ss_pred             ccceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCCccc
Q psy5142         117 LIAQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLKF  196 (410)
Q Consensus       117 ~~~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~~~  196 (410)
                      ...++|||+|||+++|+++|+++|++|    |.|..|.|+++..++    .++|||||+|.+.++|++|++.++|  ..+
T Consensus        11 ~~~~~l~V~nLp~~~t~~~l~~~f~~~----G~i~~v~i~~~~~~~----~~~g~afV~f~~~~~A~~A~~~l~g--~~~   80 (103)
T 2dnm_A           11 DGMITLKVDNLTYRTSPDSLRRVFEKY----GRVGDVYIPREPHTK----APRGFAFVRFHDRRDAQDAEAAMDG--AEL   80 (103)
T ss_dssp             SCCCEEEEESCCTTCCHHHHHHHHTTT----SCEEEEECCBCSSSC----SBCSCEEEEESSSSHHHHHHHHHSS--CCB
T ss_pred             CCCeEEEEeCCCCCCCHHHHHHHHHhc----CCEEEEEEEeCCCCC----CCCeEEEEEECCHHHHHHHHHHcCC--CEE
Confidence            346899999999999999999999999    999999999988765    7899999999999999999999886  456

>2cpf_A RNA binding motif protein 19; RNA recognition motif, RRM, RNP, structural genomics, NPPSFA; NMR {Mus musculus} SCOP: d.58.7.1

Probab=99.48  E-value=5.8e-14  Score=112.61  Aligned_cols=69  Identities=22%  Similarity=0.288  Sum_probs=62.5

Q ss_pred             cceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCc---ccccccccccEEEEEecCHHHHHHHHHhcCCCCc
Q psy5142         118 IAQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQD---KLANQKKFKGSIFVTFDNKENAEKFLNENKDKNL  194 (410)
Q Consensus       118 ~~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~---~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~  194 (410)
                      ..++|||+|||+++|+++|+++|++|    |.|..|.|+++..   ++    .++|||||+|.+.++|++|++.++|  .
T Consensus         4 ~~~~l~V~nLp~~~t~~~l~~~F~~~----G~i~~v~i~~~~~~~gt~----~~~g~afV~f~~~~~a~~A~~~l~g--~   73 (98)
T 2cpf_A            4 GSSGLFIKNLNFSTTEETLKGVFSKV----GAIKSCTISKKKNKAGVL----LSMGFGFVEYKKPEQAQKALKQLQG--H   73 (98)
T ss_dssp             CCCCEEEESCCTTCCHHHHHHHHHTT----SCEEEEEEEEEECTTCCE----EEEEEEEEEESSHHHHHHHHHHSTT--C
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhc----CCeEEEEEEecCCCCCCc----CcccEEEEEECCHHHHHHHHHHhCC--C
Confidence            46899999999999999999999999    9999999998765   43    6899999999999999999999886  4


Q ss_pred             cc
Q psy5142         195 KF  196 (410)
Q Consensus       195 ~~  196 (410)
                      .+
T Consensus        74 ~~   75 (98)
T 2cpf_A           74 TV   75 (98)
T ss_dssp             EE
T ss_pred             ee
Confidence            55

>1uaw_A Mouse-musashi-1; RNP-type structure, RNA binding protein; NMR {Mus musculus} SCOP: d.58.7.1

Probab=99.48  E-value=2.3e-14  Score=109.59  Aligned_cols=66  Identities=14%  Similarity=0.311  Sum_probs=61.1

Q ss_pred             eeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCCccc
Q psy5142         120 QSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLKF  196 (410)
Q Consensus       120 rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~~~  196 (410)
                      ++|||+|||+++|+++|+++|++|    |.|.+|.+++++.++    .++|+|||+|.+.++|++|++.++   ..+
T Consensus         1 ~~l~v~nlp~~~t~~~l~~~F~~~----G~v~~v~i~~~~~~~----~~~g~afV~f~~~~~a~~a~~~~~---~~~   66 (77)
T 1uaw_A            1 CKMFIGGLSWQTTQEGLREYFGQF----GEVKECLVMRDPLTK----RSRGFGFVTFMDQAGVDKVLAQSR---HEL   66 (77)
T ss_dssp             CCEEEESCCSSCCSHHHHHHHTTT----SCCCCEEEECCCCSS----SCSSEEEECCCCTTHHHHHHHTTT---CCC
T ss_pred             CEEEEeCCCCCCCHHHHHHHHHhc----CCEEEEEEecCCCCC----CcCceEEEEEcCHHHHHHHHHhCC---Ccc
Confidence            589999999999999999999999    999999999987765    899999999999999999999887   455

>2cq4_A RNA binding motif protein 23; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.48  E-value=7.2e-14  Score=115.38  Aligned_cols=71  Identities=14%  Similarity=0.260  Sum_probs=64.4

Q ss_pred             hhccceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCCc
Q psy5142         115 KDLIAQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNL  194 (410)
Q Consensus       115 ~~~~~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~  194 (410)
                      .+...++|||+|||+++|+++|+++|++|    |.|..|.|+++..++    .++|||||+|.+.++|++|+ .++|  .
T Consensus        21 ~~~~~~~l~V~nlp~~~t~~~l~~~F~~~----G~i~~v~i~~~~~~g----~~~g~afV~f~~~~~a~~A~-~l~g--~   89 (114)
T 2cq4_A           21 EERDARTVFCMQLAARIRPRDLEDFFSAV----GKVRDVRIISDRNSR----RSKGIAYVEFCEIQSVPLAI-GLTG--Q   89 (114)
T ss_dssp             THHHHTEEEEESCCTTCCHHHHHHHHTTT----SCEEEEEECCSCCSS----SCCCCEEEEESCGGGHHHHH-HHTT--E
T ss_pred             ccCCCCEEEEeCCCCCCCHHHHHHHHHhC----CCEeEEEEEecCCCC----ccCcEEEEEeCcHHHHHHHH-HcCC--C
Confidence            34678999999999999999999999999    999999999988765    78999999999999999999 7775  5


Q ss_pred             cc
Q psy5142         195 KF  196 (410)
Q Consensus       195 ~~  196 (410)
                      .+
T Consensus        90 ~~   91 (114)
T 2cq4_A           90 RL   91 (114)
T ss_dssp             EE
T ss_pred             Ee
Confidence            56

>2krb_A Eukaryotic translation initiation factor 3 subunit B; EIF3, eukaryotic initiation factor, EIF3B, EIF3J; NMR {Homo sapiens}

Probab=99.48  E-value=7.3e-14  Score=108.19  Aligned_cols=65  Identities=25%  Similarity=0.314  Sum_probs=58.5

Q ss_pred             eeeEeecCCCCC------CHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCC
Q psy5142         120 QSLYVKYIPVDA------TLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKN  193 (410)
Q Consensus       120 rtv~V~~lp~~~------t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~  193 (410)
                      ++|||+|||..+      |+++|+++|++|    |.|.+|.|++  .++    .++|||||+|.+.++|++|+..++|  
T Consensus         2 ~~l~V~nLp~~~~~~~~~t~~~l~~~F~~~----G~i~~v~i~~--~~g----~~~g~afV~f~~~~~A~~Ai~~lng--   69 (81)
T 2krb_A            2 SVIVVDNVPQVGPDRLEKLKNVIHKIFSKF----GKITNDFYPE--EDG----KTKGYIFLEYASPAHAVDAVKNADG--   69 (81)
T ss_dssp             CEEEEESCCCCCTTTHHHHHHHHHHHHHTT----CCEEEEECCC--BTT----BCCCEEEEEESSHHHHHHHHTTSSS--
T ss_pred             CEEEEeCCCCCcHHHHHHHHHHHHHHHhhc----CCeEEEEecC--CCC----cEeEEEEEEECCHHHHHHHHHHhcC--
Confidence            799999999999      789999999999    9999999983  333    7899999999999999999999987  


Q ss_pred             ccc
Q psy5142         194 LKF  196 (410)
Q Consensus       194 ~~~  196 (410)
                      ..+
T Consensus        70 ~~~   72 (81)
T 2krb_A           70 YKL   72 (81)
T ss_dssp             CCC
T ss_pred             ccc
Confidence            455

>1x4e_A RNA binding motif, single-stranded interacting protein 2; structural genomics, RRM domain, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.48  E-value=3.5e-14  Score=110.83  Aligned_cols=66  Identities=24%  Similarity=0.233  Sum_probs=61.8

Q ss_pred             cceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCC
Q psy5142         118 IAQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKD  191 (410)
Q Consensus       118 ~~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g  191 (410)
                      ..++|||+|||+++|+++|+++|++|    |.|..|.|++++.++    .++|||||+|.+.++|++|++.++|
T Consensus         4 ~~~~l~v~nlp~~~t~~~l~~~f~~~----G~i~~~~i~~~~~~~----~~~g~afV~f~~~~~a~~A~~~l~g   69 (85)
T 1x4e_A            4 GSSGLYIRGLQPGTTDQDLVKLCQPY----GKIVSTKAILDKTTN----KCKGYGFVDFDSPSAAQKAVTALKA   69 (85)
T ss_dssp             CCCEEEEESCCTTCCHHHHHTTSTTT----SCEEEEEEECCSSSC----SCCSEEEEEESCHHHHHHHHHHHHH
T ss_pred             CCcEEEEeCCCCCCCHHHHHHHHHhc----CCeEEEEEEecCCCC----CcCcEEEEEECCHHHHHHHHHHhcC
Confidence            36899999999999999999999999    999999999987765    8899999999999999999998886

>1x5t_A Splicing factor 3B subunit 4; structure genomics, RRM domain, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.48  E-value=4e-14  Score=113.02  Aligned_cols=69  Identities=12%  Similarity=0.132  Sum_probs=63.1

Q ss_pred             cceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEE-EEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCCccc
Q psy5142         118 IAQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNI-IMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLKF  196 (410)
Q Consensus       118 ~~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v-~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~~~  196 (410)
                      ..++|||+|||+++|+++|+++|++|    |.|..| +|+++..++    .++|||||+|.+.++|++|++.++|  ..+
T Consensus         4 ~~~~l~V~nLp~~~t~~~l~~~F~~~----G~i~~~~~i~~~~~~g----~~~g~afV~f~~~~~A~~A~~~l~g--~~~   73 (96)
T 1x5t_A            4 GSSGIFIGNLDPEIDEKLLYDTFSAF----GVILQTPKIMRDPDTG----NSKGYAFINFASFDASDAAIEAMNG--QYL   73 (96)
T ss_dssp             CCCEEEEECCCTTCCHHHHHHHHHTT----SCBSSCCEECCCTTTC----SCCSEEEEEBSSHHHHHHHHHTTTT--CEE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhc----CCeeEEEEEEEcCCCC----CcCeEEEEEECCHHHHHHHHHHcCC--CEE
Confidence            46899999999999999999999999    999999 999886665    7899999999999999999998886  455

>1p1t_A Cleavage stimulation factor, 64 kDa subunit; RNA recognition motif, C-terminal helix, N-terminal helix, RNA binding protein; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.48  E-value=4.8e-14  Score=114.29  Aligned_cols=70  Identities=23%  Similarity=0.320  Sum_probs=64.2

Q ss_pred             ccceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCCccc
Q psy5142         117 LIAQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLKF  196 (410)
Q Consensus       117 ~~~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~~~  196 (410)
                      ...++|||+|||.++|+++|+++|++|    |.|..|.|+++..++    .++|||||+|.+.++|++|++.++|  ..+
T Consensus         6 ~~~~~l~V~nlp~~~~~~~l~~~f~~~----G~i~~~~i~~~~~~g----~~~g~afV~f~~~~~a~~A~~~l~g--~~~   75 (104)
T 1p1t_A            6 RSLRSVFVGNIPYEATEEQLKDIFSEV----GPVVSFRLVYDRETG----KPKGYGFCEYQDQETALSAMRNLNG--REF   75 (104)
T ss_dssp             HHHSCEEEESCCTTSCHHHHHHHHHTT----SCCSEEEEEEETTTT----EEEEEEEEECSCHHHHHHHHHHSSS--BSC
T ss_pred             CCccEEEEeCCCCcCCHHHHHHHHHhc----CCeeEEEEEeCCCCC----ccceEEEEEECCHHHHHHHHHHhCC--Cee
Confidence            457999999999999999999999999    999999999887665    7899999999999999999999886  455

>2mss_A Protein (musashi1); RNA-binding domain, RNA binding protein; NMR {Mus musculus} SCOP: d.58.7.1 PDB: 2mst_A

Probab=99.48  E-value=4.9e-14  Score=107.32  Aligned_cols=65  Identities=22%  Similarity=0.389  Sum_probs=59.2

Q ss_pred             eeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCCccc
Q psy5142         121 SLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLKF  196 (410)
Q Consensus       121 tv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~~~  196 (410)
                      +|||+|||+++|+++|+++|++|    |.|.+|.|++++.++    .++|||||+|.+.++|++|++ +++  ..+
T Consensus         1 ~l~v~nlp~~~t~~~l~~~F~~~----G~i~~v~i~~~~~~~----~~~g~afV~f~~~~~a~~a~~-~~~--~~~   65 (75)
T 2mss_A            1 KIFVGGLSVNTTVEDVKHYFEQF----GKVDDAMLMFDKTTN----RHRGFGFVTFESEDIVEKVCE-IHF--HEI   65 (75)
T ss_dssp             CEEEECCCSSCCHHHHHHHHHTT----SCCSEECCCBCSSST----TSCBEEEEECSCHHHHHHHHS-SSC--CCS
T ss_pred             CEEEecCCCCCCHHHHHHHHHhc----CCEEEEEEEecCCCC----CcCcEEEEEECCHHHHHHHHH-CCC--CEE
Confidence            58999999999999999999999    999999999987665    899999999999999999998 564  455

>2dgu_A Heterogeneous nuclear ribonucleoprotein Q; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} PDB: 2dk2_A

Probab=99.48  E-value=6.1e-13  Score=107.78  Aligned_cols=74  Identities=9%  Similarity=0.223  Sum_probs=68.4

Q ss_pred             CCCCeEEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCCCceEEEEeCChhHHHHHHHHhcCCCeEEcCeEEEEEe
Q psy5142         272 LPTGALLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVGEPTAFVRYKKENNAEAVLKALGSKEIVIKDVKVSIEV  351 (410)
Q Consensus       272 ~~~g~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g~~~afV~F~~~e~A~~Al~~l~~~~~~i~g~~v~v~~  351 (410)
                      ..+.+.|||.|||+++++++|+++|++||    .|..|.+.+  ++|||+|.+.++|++|+..|  ++..++|+.|.|..
T Consensus         8 ~~~~~~l~V~nl~~~~t~~~l~~~F~~~G----~i~~v~~~~--~~afV~f~~~~~a~~A~~~l--~g~~~~g~~l~v~~   79 (103)
T 2dgu_A            8 MAKVKVLFVRNLANTVTEEILEKAFSQFG----KLERVKKLK--DYAFIHFDERDGAVKAMEEM--NGKDLEGENIEIVF   79 (103)
T ss_dssp             CCCCCCEEEECCCTTCCHHHHHHHHHHHS----CEEEEEECS--SCEEEEESSHHHHHHHHHHH--TTEEETTEEEEEEE
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhcC----CEEEEEEEC--CEEEEEeCCHHHHHHHHHHH--CCCccCCCEEEEEE
Confidence            45567999999999999999999999999    999999986  49999999999999999999  67899999999998


Q ss_pred             cC
Q psy5142         352 VT  353 (410)
Q Consensus       352 l~  353 (410)
                      ..
T Consensus        80 a~   81 (103)
T 2dgu_A           80 AK   81 (103)
T ss_dssp             CC
T ss_pred             cC
Confidence            75

>1oo0_B CG8781-PA, drosophila Y14; RNA recognition motif, splicing, protein complex, EXON junct complex, signaling protein; 1.85A {Drosophila melanogaster} SCOP: d.58.7.1 PDB: 2hyi_B* 2j0s_D* 2xb2_D*

Probab=99.48  E-value=8.9e-14  Score=113.99  Aligned_cols=70  Identities=20%  Similarity=0.184  Sum_probs=64.2

Q ss_pred             ccceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCCccc
Q psy5142         117 LIAQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLKF  196 (410)
Q Consensus       117 ~~~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~~~  196 (410)
                      ...++|||+|||.++|+++|+++|++|    |.|.+|.|+++..++    .++|||||+|.+.++|++|+..++|  ..+
T Consensus        24 ~~~~~l~V~nlp~~~t~~~l~~~F~~~----G~i~~v~i~~~~~~~----~~~g~afV~f~~~~~A~~Ai~~l~g--~~~   93 (110)
T 1oo0_B           24 VEGWILFVTSIHEEAQEDEIQEKFCDY----GEIKNIHLNLDRRTG----FSKGYALVEYETHKQALAAKEALNG--AEI   93 (110)
T ss_dssp             TTBEEEEEESCCTTCCHHHHHHHHGGG----SCEEEEECCBCTTTS----SBCSEEEEEESSHHHHHHHHHHHTT--CEE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhc----CCEEEEEEEecCCCC----CcceEEEEEECCHHHHHHHHHHcCC--CEE
Confidence            457999999999999999999999999    999999999887665    8899999999999999999998886  455

>2jrs_A RNA-binding protein 39; RNA binding motif of RBM39_human (caper), RRM2 domain, solution structure, structural genomics, PSI-2; NMR {Homo sapiens}

Probab=99.48  E-value=9.1e-14  Score=114.03  Aligned_cols=70  Identities=24%  Similarity=0.306  Sum_probs=64.3

Q ss_pred             ccceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCCccc
Q psy5142         117 LIAQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLKF  196 (410)
Q Consensus       117 ~~~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~~~  196 (410)
                      ...++|||+|||.++|+++|+++|++|    |.|..|.|+++..++    .++|||||+|.+.++|++|++.++|  ..+
T Consensus        24 ~~~~~l~V~nLp~~~te~~l~~~F~~~----G~i~~v~i~~~~~~g----~~~g~afV~F~~~~~A~~Ai~~l~g--~~i   93 (108)
T 2jrs_A           24 AGPMRLYVGSLHFNITEDMLRGIFEPF----GRIESIQLMMDSETG----RSKGYGFITFSDSECAKKALEQLNG--FEL   93 (108)
T ss_dssp             SSCEEEEEECCCSSCCHHHHHHHHTTT----SCEEEEEEEEETTTT----EEEEEEEEEESCHHHHHHHHHHHTT--CCS
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhc----CCeEEEEEEEcCCCC----ccceEEEEEECCHHHHHHHHHHcCC--CEE
Confidence            457999999999999999999999999    999999999887665    7899999999999999999999886  455

>1x4h_A RNA-binding protein 28; structural genomics, RRM domain, NPPSFA, national project on protein structural and functional analyses; NMR {Mus musculus} SCOP: d.58.7.1

Probab=99.48  E-value=7.2e-14  Score=114.57  Aligned_cols=66  Identities=15%  Similarity=0.278  Sum_probs=61.9

Q ss_pred             ccceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcC
Q psy5142         117 LIAQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENK  190 (410)
Q Consensus       117 ~~~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~  190 (410)
                      ...++|||+|||+++|+++|+++|++|    |.|.+|+|+++..++    .++|||||+|.+.++|.+|++.++
T Consensus        13 ~~~~~l~V~nLp~~~t~~~l~~~F~~~----G~i~~v~i~~~~~~g----~~~g~afV~f~~~~~A~~A~~~~~   78 (111)
T 1x4h_A           13 TEGKTVFIRNLSFDSEEEALGEVLQQF----GDLKYVRVVLHPDTE----HSKGCAFAQFMTQEAAQKCLAAAS   78 (111)
T ss_dssp             CCCCCEEEESCCTTCCHHHHHHHHHTT----SCEEEEECCBCSSSC----CBCSEEEEEESSHHHHHHHHHHHC
T ss_pred             CCCCEEEEECCCCCCCHHHHHHHHHhc----CCeEEEEEEecCCCC----CCccEEEEEECCHHHHHHHHHHhc
Confidence            456899999999999999999999999    999999999988765    789999999999999999999987

>2div_A TRNA selenocysteine associated protein; structural genomics, RRM domain, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.48  E-value=6.3e-14  Score=112.59  Aligned_cols=69  Identities=19%  Similarity=0.143  Sum_probs=63.6

Q ss_pred             cceeeEeecCCCCCCHHHHHHHHhhccCCCCceE-EEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCCccc
Q psy5142         118 IAQSLYVKYIPVDATLDDIKDFFKKNTSEDVKIT-NIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLKF  196 (410)
Q Consensus       118 ~~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~-~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~~~  196 (410)
                      ..++|||+|||+++|+++|+++|++|    |.|. +|.|++++.++    .++|||||+|.+.++|++|++.++|  ..+
T Consensus         8 ~~~~l~V~nLp~~~t~~~l~~~F~~~----G~i~~~v~i~~~~~~g----~~~g~afV~f~~~~~a~~A~~~l~g--~~~   77 (99)
T 2div_A            8 MAASLWMGDLEPYMDENFISRAFATM----GETVMSVKIIRNRLTG----IPAGYCFVEFADLATAEKCLHKING--KPL   77 (99)
T ss_dssp             SSSEEEECSCCTTCCHHHHHHHHHHT----TCCCCEEEEEECSSSC----CEEEEEEEECSCHHHHHHHHHTTTT--SEE
T ss_pred             CccEEEEeCCCCCCCHHHHHHHHHHh----CCcceEEEEeecCCCC----CcCCEEEEEeCCHHHHHHHHHHHcC--Ccc
Confidence            46899999999999999999999999    9999 99999988665    7899999999999999999999886  455

>2jwn_A Embryonic polyadenylate-binding protein 2-B; epabp2, poly(A) binding, structural genomics, protein structure initiative, PSI-2; NMR {Xenopus laevis}

Probab=99.47  E-value=8.8e-14  Score=116.54  Aligned_cols=73  Identities=18%  Similarity=0.257  Sum_probs=65.2

Q ss_pred             hhhhccceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCC
Q psy5142         113 FVKDLIAQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDK  192 (410)
Q Consensus       113 ~~~~~~~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~  192 (410)
                      ...+...++|||+|||+++|+++|+++|++|    |.|.+|.|+++..++    .++|||||+|.+.++|.+|+ .++| 
T Consensus        30 ~~~~~~~~~l~V~nlp~~~t~~~l~~~F~~~----G~i~~v~i~~~~~~~----~~~g~afV~f~~~~~a~~A~-~l~g-   99 (124)
T 2jwn_A           30 EKKEIDKRSVYVGNVDYGSTAQDLEAHFSSC----GSINRITILCDKFSG----HPKGYAYIEFAERNSVDAAV-AMDE-   99 (124)
T ss_dssp             HHHHHHHTEEEEEEECTTCCHHHHHHHHHTT----SCEEEEEEEEECTTS----SCEEEEEEEESSHHHHHHHH-TTTT-
T ss_pred             ccccCCCCEEEEeCCCCCCCHHHHHHHHHhc----CCEEEEEEEecCCCC----CcccEEEEEECCHHHHHHHH-hcCC-
Confidence            3456678999999999999999999999999    999999999987665    78999999999999999999 6775 


Q ss_pred             Cccc
Q psy5142         193 NLKF  196 (410)
Q Consensus       193 ~~~~  196 (410)
                       ..+
T Consensus       100 -~~~  102 (124)
T 2jwn_A          100 -TVF  102 (124)
T ss_dssp             -CEE
T ss_pred             -CeE
Confidence             456

>3ns6_A Eukaryotic translation initiation factor 3 subuni; 1.25A {Saccharomyces cerevisiae} PDB: 3ns5_A

Probab=99.47  E-value=6.5e-14  Score=113.22  Aligned_cols=66  Identities=23%  Similarity=0.271  Sum_probs=62.4

Q ss_pred             cceeeEeecCCC------CCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCC
Q psy5142         118 IAQSLYVKYIPV------DATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKD  191 (410)
Q Consensus       118 ~~rtv~V~~lp~------~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g  191 (410)
                      ..++|||+|||+      ++++++|+++|++|    |.|.+|+|+++..++    .++|||||+|.+.++|++|++.++|
T Consensus         5 ~~~~vfV~nLp~v~~~~~~~~~~~L~~~F~~~----G~i~~v~i~~d~~tg----~~kG~afV~f~~~~~A~~Ai~~lng   76 (100)
T 3ns6_A            5 SDQYIVVNGAPVIPSAKVPVLKKALTSLFSKA----GKVVNMEFPIDEATG----KTKGFLFVECGSMNDAKKIIKSFHG   76 (100)
T ss_dssp             GGGEEEEESCCCCBGGGHHHHHHHHHHHHHTT----SCEEEEECCEETTTT----EECSEEEEEESSHHHHHHHHHHHTT
T ss_pred             cCcEEEEeCCCcCChHHHHHHHHHHHHHHHhc----CCEeEEEEEEcCCCC----ccceEEEEEECCHHHHHHHHHHhCC
Confidence            468999999999      99999999999999    999999999998865    8999999999999999999999986

>2cpz_A CUG triplet repeat RNA-binding protein 1; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: d.58.7.1 PDB: 2rq4_A 2rqc_A

Probab=99.47  E-value=6e-14  Score=116.05  Aligned_cols=70  Identities=14%  Similarity=0.150  Sum_probs=64.1

Q ss_pred             ccceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCCccc
Q psy5142         117 LIAQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLKF  196 (410)
Q Consensus       117 ~~~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~~~  196 (410)
                      ...++|||+|||+++|+++|+++|++|    |.|..|.|+++..++    .++|||||+|.+.++|++|++.+++  ..+
T Consensus        23 ~~~~~l~V~nLp~~~t~~~l~~~F~~~----G~i~~v~i~~~~~~g----~~~g~afV~f~~~~~a~~A~~~l~g--~~~   92 (115)
T 2cpz_A           23 PEGANLFIYHLPQEFGDQDLLQMFMPF----GNVVSAKVFIDKQTN----LSKCFGFVSYDNPVSAQAAIQSMNG--FQI   92 (115)
T ss_dssp             STTCCEEEESCCSSCCHHHHHHHHGGG----SCCSEEEEEECSSSC----SEEEEEEEECSSHHHHHHHHHHHTT--CEE
T ss_pred             CCCcEEEEeCCCCCCCHHHHHHHHHhc----CCeEEEEEEECCCCC----CcCccEEEEECCHHHHHHHHHHcCC--CEE
Confidence            456899999999999999999999999    999999999988665    8899999999999999999999886  456

>2khc_A Testis-specific RNP-type RNA binding protein; RRM, RNA recognition motif, bruno; NMR {Drosophila melanogaster}

Probab=99.47  E-value=6.3e-14  Score=116.39  Aligned_cols=71  Identities=17%  Similarity=0.157  Sum_probs=64.9

Q ss_pred             hccceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCCcc
Q psy5142         116 DLIAQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLK  195 (410)
Q Consensus       116 ~~~~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~~  195 (410)
                      ....++|||+|||+++|+++|+++|++|    |.|.+|.|+++..++    .++|||||+|.+.++|++|++.++|  ..
T Consensus        37 ~~~~~~l~V~nlp~~~t~~~l~~~F~~~----G~i~~~~i~~~~~~g----~~~g~afV~f~~~~~A~~A~~~l~g--~~  106 (118)
T 2khc_A           37 GPEGCNLFIYHLPQEFTDTDLASTFLPF----GNVISAKVFIDKQTS----LSKCFGFVSFDNPDSAQVAIKAMNG--FQ  106 (118)
T ss_dssp             CCCSEEEEEECSCTTCCHHHHHHHTTTS----CEEEEEEECCCSSSS----CCCCEEEEEEESSHHHHHHHHHCCC--CE
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhc----CCEEEEEEEeCCCCC----CcCcEEEEEECCHHHHHHHHHHcCC--CE
Confidence            3567999999999999999999999999    999999999987765    8899999999999999999999986  45


Q ss_pred             c
Q psy5142         196 F  196 (410)
Q Consensus       196 ~  196 (410)
                      +
T Consensus       107 ~  107 (118)
T 2khc_A          107 V  107 (118)
T ss_dssp             E
T ss_pred             E
Confidence            5

>2cqb_A Peptidyl-prolyl CIS-trans isomerase E; RNA recognition motif, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.47  E-value=3.9e-14  Score=114.49  Aligned_cols=70  Identities=20%  Similarity=0.236  Sum_probs=63.9

Q ss_pred             ccceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCCccc
Q psy5142         117 LIAQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLKF  196 (410)
Q Consensus       117 ~~~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~~~  196 (410)
                      ...++|||+|||+++|+++|+++|++|    |.|..|.|+++..++    .++|||||+|.+.++|++|++.+++  ..+
T Consensus        10 ~~~~~l~V~nLp~~~t~~~l~~~f~~~----G~i~~v~i~~~~~~~----~~~g~afV~f~~~~~A~~A~~~l~g--~~~   79 (102)
T 2cqb_A           10 TTKRVLYVGGLAEEVDDKVLHAAFIPF----GDITDIQIPLDYETE----KHRGFAFVEFELAEDAAAAIDNMNE--SEL   79 (102)
T ss_dssp             CCCSCEEEESCCSSCCHHHHHHHHTTT----SCCCCEECCCCSSSC----CCSSEEEECCSSHHHHHHHHHHHTT--EEE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHhhcc----CCEEEEEEEecCCCC----CcceEEEEEECCHHHHHHHHHHhCC--CEE
Confidence            346899999999999999999999999    999999999987765    7899999999999999999998886  455

>2dhg_A TRNA selenocysteine associated protein (SECP43); RRM domain, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=99.47  E-value=1.4e-13  Score=111.64  Aligned_cols=65  Identities=23%  Similarity=0.172  Sum_probs=61.0

Q ss_pred             cceeeEeecCCCCCCHHHHHHHHhh-ccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCC
Q psy5142         118 IAQSLYVKYIPVDATLDDIKDFFKK-NTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKD  191 (410)
Q Consensus       118 ~~rtv~V~~lp~~~t~~~L~~~F~~-~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g  191 (410)
                      ..++|||+|||+++|+++|+++|++ |    |.|.+|.|+++. ++    .++|||||+|.+.++|.+|++.+++
T Consensus         8 ~~~~l~V~nLp~~~t~~~l~~~F~~~~----G~v~~v~i~~~~-~g----~~~g~afV~f~~~~~a~~A~~~l~g   73 (104)
T 2dhg_A            8 PEYSLFVGDLTPDVDDGMLYEFFVKVY----PSCRGGKVVLDQ-TG----VSKGYGFVKFTDELEQKRALTECQG   73 (104)
T ss_dssp             CCCCEEEECCCTTCCHHHHHHHHHHHC----TTEEEEEEEECT-TC----CEEEEEEEEESCHHHHHHHHHHTTT
T ss_pred             CCcEEEEeCCCCCCCHHHHHHHHHHhC----CCeEEEEEEECC-CC----CccceEEEEECCHHHHHHHHHHccC
Confidence            4689999999999999999999999 9    999999999988 43    7999999999999999999999886

>2cqd_A RNA-binding region containing protein 1; RNA recognition motif, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.46  E-value=9.4e-14  Score=115.05  Aligned_cols=68  Identities=19%  Similarity=0.295  Sum_probs=63.1

Q ss_pred             hccceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCC
Q psy5142         116 DLIAQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKD  191 (410)
Q Consensus       116 ~~~~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g  191 (410)
                      +...++|||+|||+++|+++|+++|++|    |.|..|+|+++..++    .++|||||+|.+.++|++|++.+++
T Consensus        14 ~~~~~~l~V~nlp~~~t~~~l~~~F~~~----G~i~~v~i~~~~~~~----~~~g~afV~f~~~~~a~~Ai~~~~~   81 (116)
T 2cqd_A           14 DTTFTKIFVGGLPYHTTDASLRKYFEGF----GDIEEAVVITDRQTG----KSRGYGFVTMADRAAAERACKDPNP   81 (116)
T ss_dssp             SCSSSEEEEECCCSSCCHHHHHHHHHTT----SCEEEEEESCCSSSC----CCCSEEEEEESSHHHHHHHHTCSSC
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhC----CCeeEEEEEEcCCCC----ccceEEEEEECCHHHHHHHHHhCCC
Confidence            3567999999999999999999999999    999999999987765    8999999999999999999999883

>3n9u_C Cleavage and polyadenylation specificity factor S; protein-protein complex, coexpression, heterotetramer, mRNA maturation, mRNA cleavage; 1.92A {Homo sapiens}

Probab=99.46  E-value=1.5e-13  Score=120.42  Aligned_cols=69  Identities=12%  Similarity=0.082  Sum_probs=63.1

Q ss_pred             cceeeEeecCCCCCCHHHHHHHHhhccCCCC--ceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCCcc
Q psy5142         118 IAQSLYVKYIPVDATLDDIKDFFKKNTSEDV--KITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLK  195 (410)
Q Consensus       118 ~~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G--~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~~  195 (410)
                      ..++|||+|||+++|+++|+++|++|    |  .|..|+|+++..++    .++|||||+|.+.++|++||+.++|  ..
T Consensus        54 ~~~~lfVgnLp~~~te~~L~~~F~~~----G~i~v~~v~i~~d~~tg----~skGfaFV~f~~~~~A~~Ai~~lng--~~  123 (156)
T 3n9u_C           54 RRAAVYVGSFSWWTTDQQLIQVIRSI----GVYDVVELKFAENRANG----QSKGYAEVVVASENSVHKLLELLPG--KV  123 (156)
T ss_dssp             --CEEEEECCCTTCCHHHHHHHHHHT----TCCCEEEEEEEECTTTC----CEEEEEEEEESCHHHHHHHHHHSTT--CE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHHH----CCccEEEEEEEecCCCC----ccceEEEEEECCHHHHHHHHHHcCC--CE
Confidence            46899999999999999999999999    9  99999999998776    8999999999999999999999986  45


Q ss_pred             c
Q psy5142         196 F  196 (410)
Q Consensus       196 ~  196 (410)
                      +
T Consensus       124 ~  124 (156)
T 3n9u_C          124 L  124 (156)
T ss_dssp             E
T ss_pred             E
Confidence            6

>3r27_A HnRNP L, heterogeneous nuclear ribonucleoprotein L; RBD fold, protein binding, nucleus; 2.04A {Homo sapiens}

Probab=99.46  E-value=7.8e-14  Score=112.70  Aligned_cols=66  Identities=12%  Similarity=0.129  Sum_probs=58.3

Q ss_pred             ccceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCCccc
Q psy5142         117 LIAQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLKF  196 (410)
Q Consensus       117 ~~~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~~~  196 (410)
                      ...++|||+|||.++|+++|+++|++|    |.|.+|.|++          .+|+|||+|++.++|.+|++.+++..+.+
T Consensus        19 ~ps~~l~V~NLp~~~te~~L~~lF~~f----G~V~~v~i~~----------~kg~AFVef~~~~~A~~Av~~ln~~~~~i   84 (100)
T 3r27_A           19 PASPVVHIRGLIDGVVEADLVEALQEF----GPISYVVVMP----------KKRQALVEFEDVLGACNAVNYAADNQIYI   84 (100)
T ss_dssp             CCCSEEEEESCCTTCCHHHHHHHHGGG----SCEEEEEEET----------TTTEEEEEESSHHHHHHHHHHHHHSCEEE
T ss_pred             CCCcEEEEeCCCCCCCHHHHHHHHhcc----CCEEEEEEEc----------CCCEEEEEECCHHHHHHHHHHhcCCCcee
Confidence            346899999999999999999999999    9999999873          48999999999999999999988533334

>2dh8_A DAZ-associated protein 1; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.46  E-value=6.9e-14  Score=113.70  Aligned_cols=69  Identities=13%  Similarity=0.239  Sum_probs=63.2

Q ss_pred             ccceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCCccc
Q psy5142         117 LIAQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLKF  196 (410)
Q Consensus       117 ~~~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~~~  196 (410)
                      ...++|||+|||+++|+++|+++|++|    |.|..|.|+++..++    .++|||||+|.+.++|++|+.. ++  ..+
T Consensus        14 ~~~~~l~V~nlp~~~t~~~l~~~F~~~----G~v~~v~i~~~~~~g----~~~g~afV~f~~~~~a~~a~~~-~~--~~~   82 (105)
T 2dh8_A           14 DEIGKLFVGGLDWSTTQETLRSYFSQY----GEVVDCVIMKDKTTN----QSRGFGFVKFKDPNCVGTVLAS-RP--HTL   82 (105)
T ss_dssp             SSSSEECCBSCCTTCCHHHHHHHHHTT----SCEEEEEEEECSSSC----CEEEEEEEEESSTTHHHHHHHH-CS--EEE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhc----CCeEEEEEeeCCCCC----CcceEEEEEECCHHHHHHHHHh-CC--CeE
Confidence            457899999999999999999999999    999999999987665    7899999999999999999999 75  556

>2fy1_A RNA-binding motif protein, Y chromosome, family 1 member A1; RNA binding protein, structure, protein-RNA complex, RNA stem-loop, structural protein/RNA complex; NMR {Homo sapiens}

Probab=99.46  E-value=1.3e-13  Score=114.57  Aligned_cols=69  Identities=17%  Similarity=0.292  Sum_probs=63.1

Q ss_pred             ccceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCCccc
Q psy5142         117 LIAQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLKF  196 (410)
Q Consensus       117 ~~~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~~~  196 (410)
                      ...++|||+|||.++|+++|+++|++|    |.|.+|.|+++..+     .++|||||+|.+.++|++|++.++|  ..+
T Consensus         5 ~~~~~l~V~nLp~~~t~~~l~~~F~~~----G~i~~v~i~~~~~g-----~~~g~afV~F~~~~~A~~Ai~~l~g--~~~   73 (116)
T 2fy1_A            5 DHPGKLFIGGLNRETNEKMLKAVFGKH----GPISEVLLIKDRTS-----KSRGFAFITFENPADAKNAAKDMNG--KSL   73 (116)
T ss_dssp             CSCCEEEEECCTTTCCHHHHHHHHHTS----SCCSEEEEECSTTT-----TCCCEEEEECSSHHHHHHHHHHCSS--CBC
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhc----CCEEEEEEEECCCC-----CcccEEEEEECCHHHHHHHHHHhCC--CEE
Confidence            346899999999999999999999999    99999999998843     8999999999999999999999986  455

>1h2v_Z 20 kDa nuclear CAP binding protein; CAP-binding-complex, RNP domain, MIF4G domain, RNA maturation, RNA export, nuclear protein, RNA-binding; 2.0A {Homo sapiens} SCOP: d.58.7.1 PDB: 1h2u_X* 1h2t_Z 1n52_B* 1n54_B 3fex_B 3fey_B 1h6k_X

Probab=99.46  E-value=8.9e-14  Score=121.39  Aligned_cols=77  Identities=19%  Similarity=0.294  Sum_probs=69.7

Q ss_pred             CCCCeEEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCCC------ceEEEEeCChhHHHHHHHHhcCCCeEEcCe
Q psy5142         272 LPTGALLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVGE------PTAFVRYKKENNAEAVLKALGSKEIVIKDV  345 (410)
Q Consensus       272 ~~~g~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g~------~~afV~F~~~e~A~~Al~~l~~~~~~i~g~  345 (410)
                      ..+.++|||.|||..+++++|+++|++||    .|..|.+....      ++|||+|.+.++|++||..|  ++..|+|+
T Consensus        36 ~~~~~~l~V~nlp~~~t~~~l~~~F~~~G----~i~~v~i~~~~~~~~~~g~afV~f~~~~~A~~Ai~~l--~g~~~~g~  109 (156)
T 1h2v_Z           36 LKKSCTLYVGNLSFYTTEEQIYELFSKSG----DIKKIIMGLDKMKKTACGFCFVEYYSRADAENAMRYI--NGTRLDDR  109 (156)
T ss_dssp             TTTCCEEEEESCCTTCCHHHHHHHHGGGS----CEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHT--TTSEETTE
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhcC----CeEEEEEEecCCCCccceEEEEEECCHHHHHHHHHHh--CCCEECCe
Confidence            45678999999999999999999999999    99999997643      36999999999999999999  67899999


Q ss_pred             EEEEEecCc
Q psy5142         346 KVSIEVVTG  354 (410)
Q Consensus       346 ~v~v~~l~g  354 (410)
                      .|.|....+
T Consensus       110 ~l~V~~a~~  118 (156)
T 1h2v_Z          110 IIRTDWDAG  118 (156)
T ss_dssp             ECEEEEESC
T ss_pred             EEEEEECCC
Confidence            999999875

>2d9p_A Polyadenylate-binding protein 3; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.46  E-value=1.1e-13  Score=112.08  Aligned_cols=68  Identities=24%  Similarity=0.208  Sum_probs=62.2

Q ss_pred             ccceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCCccc
Q psy5142         117 LIAQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLKF  196 (410)
Q Consensus       117 ~~~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~~~  196 (410)
                      ...++|||+|||+++|+++|+++|++|    |.|..|.|+++ .+     .++|||||+|.+.++|++|++.++|  ..+
T Consensus        13 ~~~~~l~V~nlp~~~t~~~l~~~F~~~----G~i~~v~i~~~-~g-----~~~g~afV~f~~~~~A~~A~~~l~g--~~~   80 (103)
T 2d9p_A           13 YQVVNLYVKNLDDGIDDERLRKAFSPF----GTITSAKVMME-GG-----RSKGFGFVCFSSPEEATKAVTEMNG--RIV   80 (103)
T ss_dssp             SSCCCEEEECCCTTCCHHHHHHTTTTT----SCEEEEEEEEC-SS-----SEEEEEEEEESSHHHHHHHHHHHTT--CBS
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhc----CCEEEEEEEcC-CC-----CcCEEEEEEECCHHHHHHHHHHhCC--CEe
Confidence            457899999999999999999999999    99999999987 33     7899999999999999999999886  455

>3ex7_B RNA-binding protein 8A; protein-RNA complex, mRNA processing, mRNA splicing, mRNA transport, nonsense-mediated mRNA decay, nucleus; HET: ADP; 2.30A {Homo sapiens} PDB: 2j0q_D*

Probab=99.45  E-value=1.5e-13  Score=115.38  Aligned_cols=70  Identities=21%  Similarity=0.259  Sum_probs=64.1

Q ss_pred             ccceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCCccc
Q psy5142         117 LIAQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLKF  196 (410)
Q Consensus       117 ~~~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~~~  196 (410)
                      ...++|||+|||+++|+++|+++|++|    |.|..|.|+++..++    .++|||||+|.+.++|++|++.++|  ..+
T Consensus        20 ~~~~~l~V~nlp~~~t~~~l~~~F~~~----G~i~~v~i~~~~~~~----~~~g~afV~f~~~~~a~~A~~~l~g--~~~   89 (126)
T 3ex7_B           20 VEGWILFVTGVHEEATEEDIHDKFAEY----GEIKNIHLNLDRRTG----YLKGYTLVEYETYKEAQAAMEGLNG--QDL   89 (126)
T ss_dssp             SSSEEEEEESCCTTCCHHHHHHHHHTT----SCEEEEECCBCTTTS----SBCSCEEEEESSHHHHHHHHHHHTT--CBS
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhc----CCeEEEEEEecCCCC----ccceEEEEEECCHHHHHHHHHHhCC--Cee
Confidence            457899999999999999999999999    999999999887665    7899999999999999999999886  455

>2wbr_A GW182, gawky, LD47780P; DNA-binding protein, RRM, RBD, TNRC6A, mirnas, P-bodies, argonaute, mRNA decay; NMR {Drosophila melanogaster}

Probab=99.45  E-value=6.3e-13  Score=104.22  Aligned_cols=74  Identities=14%  Similarity=0.232  Sum_probs=69.7

Q ss_pred             CeEEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCCCceEEEEeCChhHHHHHHHHhcCCCeEEcCeEEEEEecCc
Q psy5142         275 GALLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVGEPTAFVRYKKENNAEAVLKALGSKEIVIKDVKVSIEVVTG  354 (410)
Q Consensus       275 g~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g~~~afV~F~~~e~A~~Al~~l~~~~~~i~g~~v~v~~l~g  354 (410)
                      ..-|+|.||++.+|+++|+++|.+||    +|..+.+...+++|||+|.++++|++|++.|  ++..+.|+.|.|..++.
T Consensus         7 ~~wL~VgNL~~~~te~~L~~lF~q~G----~V~~~~l~~~kGfaFVey~~~~eA~~Ai~~L--n~~~l~gr~I~V~~A~e   80 (89)
T 2wbr_A            7 SSWLLLKNLTAQIDGPTLRTLCMQHG----PLVSFHPYLNQGIALCKYTTREEANKAQMAL--NNCVLANTTIFAESPSE   80 (89)
T ss_dssp             CCEEEEECCCTTCCCHHHHHHHHHHS----CEEEEEEETTTTEEEEEESSHHHHHHHHHHH--TTEEETTEEEEEECCCH
T ss_pred             cceEEEeCCCccCCHHHHHHHHHhhC----CEEEEEEcCCCcEEEEEECCHHHHHHHHHHh--cCCEECCcEEEEEECCH
Confidence            34688999999999999999999999    9999999999999999999999999999999  68999999999999963

>1iqt_A AUF1, heterogeneous nuclear ribonucleoprotein D0; RNA-binding protein, hnRNP, telomere, DNA-binding protein, RNA binding protein; NMR {Homo sapiens} SCOP: d.58.7.1 PDB: 1wtb_A 1x0f_A

Probab=99.45  E-value=5.2e-14  Score=107.09  Aligned_cols=65  Identities=18%  Similarity=0.342  Sum_probs=59.3

Q ss_pred             eeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCCccc
Q psy5142         121 SLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLKF  196 (410)
Q Consensus       121 tv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~~~  196 (410)
                      ||||+|||+++|+++|+++|++|    |.|.+|.|+++..++    .++|||||+|.+.++|++|++..+   ..+
T Consensus         1 ~l~v~nLp~~~t~~~l~~~F~~~----G~i~~v~i~~~~~~~----~~~g~afV~f~~~~~a~~Ai~~~~---~~~   65 (75)
T 1iqt_A            1 KIFVGGLSPDTPEEKIREYFGGF----GEVESIELPMDNKTN----KRRGFCFITFKEEEPVKKIMEKKY---HNV   65 (75)
T ss_dssp             CEEESCCCSSCCHHHHHHHHHHH----SCCSEECCCCSCCCS----SSCCCEEEECSSSHHHHHHHTTSS---CCB
T ss_pred             CEEEeCCCCCCCHHHHHHHHHhc----CCeEEEEEEecCCCC----CcCCEEEEEECCHHHHHHHHHhCC---CeE
Confidence            69999999999999999999999    999999999887765    789999999999999999999733   455

>2kxn_B Transformer-2 protein homolog beta; SR protein, RRM, splicing factor, RNA protein complex, SMN, binding protein-RNA complex; NMR {Homo sapiens} PDB: 2rra_A 2rrb_A

Probab=99.45  E-value=1.6e-13  Score=116.26  Aligned_cols=70  Identities=20%  Similarity=0.250  Sum_probs=64.2

Q ss_pred             ccceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCCccc
Q psy5142         117 LIAQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLKF  196 (410)
Q Consensus       117 ~~~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~~~  196 (410)
                      ...++|||+|||+++|+++|+++|++|    |.|..|.|+++..++    .++|||||+|.+.++|++|++.++|  ..+
T Consensus        44 ~~~~~l~V~nLp~~~te~~L~~~F~~~----G~I~~v~i~~d~~tg----~~~G~afV~F~~~~~A~~Ai~~lng--~~i  113 (129)
T 2kxn_B           44 DPNCCLGVFGLSLYTTERDLREVFSKY----GPIADVSIVYDQQSR----RSRGFAFVYFENVDDAKEAKERANG--MEL  113 (129)
T ss_dssp             CCSSCBCEETCTTSCCHHHHHHHHTTT----SCEEEEEEECCSSSS----CCCCEEEEEESCHHHHHHHHHHHTT--CCS
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhc----CCeEEEEEEecCCCC----ccceEEEEEECCHHHHHHHHHHhCC--CEE
Confidence            346899999999999999999999999    999999999987765    7899999999999999999999886  455

>3ulh_A THO complex subunit 4; nuclear protein, RNA binding, structural genomi center for structural genomics, JCSG, protein structure INI PSI-biology; 2.54A {Homo sapiens} PDB: 1no8_A

Probab=99.45  E-value=1.9e-13  Score=111.40  Aligned_cols=68  Identities=16%  Similarity=0.245  Sum_probs=62.5

Q ss_pred             cceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCCccc
Q psy5142         118 IAQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLKF  196 (410)
Q Consensus       118 ~~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~~~  196 (410)
                      ..++|||+|||+.+|+++|+++|++|    |.|.+|.|+++..+     .++|||||+|.+.++|++|++.++|  ..+
T Consensus        28 ~~~~l~V~nlp~~~t~~~l~~~F~~~----G~i~~v~i~~~~~g-----~~~g~afV~f~~~~~a~~A~~~l~g--~~~   95 (107)
T 3ulh_A           28 TGGKLLVSNLDFGVSDADIQELFAEF----GTLKKAAVHYDRSG-----RSLGTADVHFERKADALKAMKQYNG--VPL   95 (107)
T ss_dssp             CSEEEEEESCCTTCCHHHHHHHHHTT----SCEEEEEEEECTTS-----CEEEEEEEEESSHHHHHHHHHHHTT--CEE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhc----CCeEEEEEEECCCC-----CcceEEEEEECCHHHHHHHHHHhCC--CEe
Confidence            46899999999999999999999999    99999999988844     7899999999999999999999886  455

>2cpe_A RNA-binding protein EWS; RNA recognition motif, RRM, RNP, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.45  E-value=1.1e-13  Score=114.13  Aligned_cols=71  Identities=25%  Similarity=0.314  Sum_probs=64.2

Q ss_pred             hccceeeEeecCCCCCCHHHHHHHHhhccCCCCceE--------EEEEcccCcccccccccccEEEEEecCHHHHHHHHH
Q psy5142         116 DLIAQSLYVKYIPVDATLDDIKDFFKKNTSEDVKIT--------NIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLN  187 (410)
Q Consensus       116 ~~~~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~--------~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~  187 (410)
                      +...++|||+|||+++|+++|+++|++|    |.|.        .|+|+++..++    .++|||||+|.+.++|++|++
T Consensus        12 ~~~~~~l~V~nLp~~~t~~~l~~~F~~~----G~i~~~~~~~~~~v~i~~~~~~g----~~~g~afV~f~~~~~A~~Ai~   83 (113)
T 2cpe_A           12 DSDNSAIYVQGLNDSVTLDDLADFFKQC----GVVKMNKRTGQPMIHIYLDKETG----KPKGDATVSYEDPPTAKAAVE   83 (113)
T ss_dssp             CCCCCEEEEECCCTTCCHHHHHHHHTTT----SCBCBCSSSCCBSEECCBCTTTC----SBCSEEEEEBSSHHHHHHHHH
T ss_pred             CCCCCEEEEcCCCCCCCHHHHHHHHHhc----CCEeEccccCccCEEEEEeCCCC----CeeeEEEEEECCHHHHHHHHH
Confidence            3567999999999999999999999999    9999        69999886665    889999999999999999999


Q ss_pred             hcCCCCccc
Q psy5142         188 ENKDKNLKF  196 (410)
Q Consensus       188 ~~~g~~~~~  196 (410)
                      .++|  ..+
T Consensus        84 ~l~g--~~~   90 (113)
T 2cpe_A           84 WFDG--KDF   90 (113)
T ss_dssp             HHTT--CEE
T ss_pred             HcCC--Ccc
Confidence            9886  456

>2dnh_A Bruno-like 5, RNA binding protein; RRM domain, RBD, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} PDB: 2dnk_A 2dno_A

Probab=99.44  E-value=2.5e-13  Score=110.30  Aligned_cols=66  Identities=18%  Similarity=0.241  Sum_probs=61.7

Q ss_pred             ccceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCC
Q psy5142         117 LIAQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKD  191 (410)
Q Consensus       117 ~~~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g  191 (410)
                      ...++|||+|||+++|+++|+++|++|    |.|..|.|+++..+     .++|||||+|.+.++|++|++.++|
T Consensus        13 ~~~~~l~v~nLp~~~t~~~l~~~F~~~----G~i~~v~i~~~~~g-----~~~g~afV~f~~~~~A~~Ai~~l~g   78 (105)
T 2dnh_A           13 GRDRKLFVGMLNKQQSEEDVLRLFQPF----GVIDECTVLRGPDG-----SSKGCAFVKFSSHTEAQAAIHALHG   78 (105)
T ss_dssp             CCCCEEEEESCCTTCCHHHHHHHHTTT----SCEEEEEEEECSSS-----CEEEEEEEEESSHHHHHHHHHHHSS
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhc----CCeEEEEEEECCCC-----CcCcEEEEEeCCHHHHHHHHHHHcC
Confidence            457899999999999999999999999    99999999998754     8899999999999999999999886

>2dng_A Eukaryotic translation initiation factor 4H; RRM domain, RBD, structural genomics, NPPSFA; NMR {Mus musculus}

Probab=99.44  E-value=1.5e-13  Score=111.27  Aligned_cols=67  Identities=25%  Similarity=0.395  Sum_probs=61.3

Q ss_pred             cceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCCccc
Q psy5142         118 IAQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLKF  196 (410)
Q Consensus       118 ~~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~~~  196 (410)
                      ..++|||+|||+++|+++|+++|++|    | |..|+|+++..++    .++|||||+|.+.++|++|+ .+++  ..+
T Consensus        14 ~~~~l~V~nLp~~~t~~~l~~~F~~~----g-i~~v~i~~~~~~g----~~~g~afV~f~~~~~a~~A~-~l~g--~~~   80 (103)
T 2dng_A           14 PPYTAYVGNLPFNTVQGDIDAIFKDL----S-IRSVRLVRDKDTD----KFKGFCYVEFDEVDSLKEAL-TYDG--ALL   80 (103)
T ss_dssp             SCEEEEEESCCTTCCHHHHHHHTTTS----C-EEEEEEEECSSSC----SEEEEEEEEESSHHHHHHHG-GGTT--CEE
T ss_pred             CCeEEEEeCCCCCCCHHHHHHHHHhC----C-ceEEEEeecCCCC----ccceEEEEEECCHHHHHHHH-hhCC--CeE
Confidence            46899999999999999999999999    9 9999999988765    88999999999999999999 7775  556

>2cqi_A Nucleolysin TIAR; RNA recognition motif, RRM, RNA binding domain, RBD, RNP, ST genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.44  E-value=1.7e-13  Score=110.92  Aligned_cols=68  Identities=21%  Similarity=0.141  Sum_probs=61.5

Q ss_pred             ccceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCCccc
Q psy5142         117 LIAQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLKF  196 (410)
Q Consensus       117 ~~~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~~~  196 (410)
                      ...++|||+|||+++|+++|+++|++|    |.|..|.|+++..      ..+|||||+|.+.++|++|+..+++  ..+
T Consensus        13 ~~~~~l~V~nlp~~~t~~~l~~~F~~~----G~i~~v~i~~~~~------~~~g~afV~f~~~~~a~~A~~~l~g--~~~   80 (103)
T 2cqi_A           13 GQPRTLYVGNLSRDVTEVLILQLFSQI----GPCKSCKMITEHT------SNDPYCFVEFYEHRDAAAALAAMNG--RKI   80 (103)
T ss_dssp             CCCCEEEEESCCTTCCHHHHHHHHHHH----SCEEEEEEECCCC------SSCCEEEEEESSHHHHHHHHHHHTT--EEE
T ss_pred             CCCCEEEEeCCCccCCHHHHHHHHHhc----CCEeEEEEEecCC------CCCCEEEEEECCHHHHHHHHHHhCC--CCc
Confidence            457999999999999999999999999    9999999998754      3589999999999999999998886  455

>1x4c_A Splicing factor, arginine/serine-rich 1; structural genomics, RRM domain, NPPSFA, national project on protein structural and functional analyses; NMR {Mus musculus} SCOP: d.58.7.1

Probab=99.44  E-value=1.4e-12  Score=106.64  Aligned_cols=75  Identities=9%  Similarity=0.244  Sum_probs=69.7

Q ss_pred             CCCCeEEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCCCceEEEEeCChhHHHHHHHHhcCCCeEEcC-----eE
Q psy5142         272 LPTGALLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVGEPTAFVRYKKENNAEAVLKALGSKEIVIKD-----VK  346 (410)
Q Consensus       272 ~~~g~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g~~~afV~F~~~e~A~~Al~~l~~~~~~i~g-----~~  346 (410)
                      ....+.|||.|||+++++++|+++|++||    .|..|.+..+ ++|||+|.+.++|++||+.|  ++..++|     +.
T Consensus        12 ~~~~~~l~V~nLp~~~t~~~l~~~F~~~G----~i~~~~i~~~-g~afV~f~~~~~a~~Ai~~l--~g~~~~g~~~~~~~   84 (108)
T 1x4c_A           12 RRSENRVVVSGLPPSGSWQDLKDHMREAG----DVCYADVYRD-GTGVVEFVRKEDMTYAVRKL--DNTKFRSHEGETAY   84 (108)
T ss_dssp             CSCCCEEEEESCCSSCCHHHHHHHHGGGS----CEEEEEEETT-TEEEEEESSHHHHHHHHHHS--SSEEEECTTSCEEE
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhcC----CEeEEEEecC-CEEEEEECCHHHHHHHHHHH--CcCCccCCcCcceE
Confidence            35578999999999999999999999999    9999999987 89999999999999999999  6899999     99


Q ss_pred             EEEEecC
Q psy5142         347 VSIEVVT  353 (410)
Q Consensus       347 v~v~~l~  353 (410)
                      |.|....
T Consensus        85 i~V~~a~   91 (108)
T 1x4c_A           85 IRVKVDG   91 (108)
T ss_dssp             EEEEESS
T ss_pred             EEEEeCC
Confidence            9999875

>2cq1_A PTB-like protein L; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.44  E-value=3.4e-13  Score=109.40  Aligned_cols=79  Identities=13%  Similarity=0.178  Sum_probs=73.0

Q ss_pred             CCCCCeEEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCCCceEEEEeCChhHHHHHHHHhcCCCeEEcCeEEEEE
Q psy5142         271 ELPTGALLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVGEPTAFVRYKKENNAEAVLKALGSKEIVIKDVKVSIE  350 (410)
Q Consensus       271 ~~~~g~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g~~~afV~F~~~e~A~~Al~~l~~~~~~i~g~~v~v~  350 (410)
                      ..++.++|||.|||+++++++|+++|++||    .|..|.+.+++++|||+|.+.++|++|++.++.++..++|+.|.|.
T Consensus        11 ~~~p~~~l~V~nLp~~~te~~L~~~F~~fG----~v~~v~i~~~kg~aFVef~~~~~A~~Ai~~l~~~~~~~~Gr~l~V~   86 (101)
T 2cq1_A           11 DGAPSRVLHIRKLPGEVTETEVIALGLPFG----KVTNILMLKGKNQAFLELATEEAAITMVNYYSAVTPHLRNQPIYIQ   86 (101)
T ss_dssp             CSSCCSEEEEESCCTTCCHHHHHHTTTTTS----CEEEEEEETTTTEEEEEESSHHHHHHHHHHHHHSCCEETTEECEEE
T ss_pred             cCCCCCEEEEeCCCCCCCHHHHHHHHHhcC----CEEEEEEECCCCEEEEEECCHHHHHHHHHHhccCCceECCcEEEEE
Confidence            346678999999999999999999999999    9999999999999999999999999999998666789999999999


Q ss_pred             ecC
Q psy5142         351 VVT  353 (410)
Q Consensus       351 ~l~  353 (410)
                      ...
T Consensus        87 ~a~   89 (101)
T 2cq1_A           87 YSN   89 (101)
T ss_dssp             ECS
T ss_pred             EcC
Confidence            875

>1wi8_A EIF-4B, eukaryotic translation initiation factor 4B; RNA recognition motif, RRM, RNA binding domain, RBD, RNP, structural genomics; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.44  E-value=1.5e-13  Score=111.54  Aligned_cols=67  Identities=18%  Similarity=0.326  Sum_probs=60.9

Q ss_pred             cceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcc-cccccccccEEEEEecCHHHHHHHHHhcCCCCccc
Q psy5142         118 IAQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDK-LANQKKFKGSIFVTFDNKENAEKFLNENKDKNLKF  196 (410)
Q Consensus       118 ~~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~-~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~~~  196 (410)
                      ..++|||+|||+++|+++|+++|++|    | |..|.|+++..+ +    .++|||||+|.+.++|++|+ .+++  ..+
T Consensus        14 ~~~~l~V~nlp~~~t~~~l~~~F~~~----G-i~~v~i~~~~~~~g----~~~g~afV~f~~~~~a~~A~-~l~g--~~~   81 (104)
T 1wi8_A           14 PPYTAFLGNLPYDVTEESIKEFFRGL----N-ISAVRLPREPSNPE----RLKGFGYAEFEDLDSLLSAL-SLNE--ESL   81 (104)
T ss_dssp             SCEEEEEESCCSSCCHHHHHHHTTTS----C-EEEEECCBCSSCTT----SBCSCEEEEESSHHHHHHHH-GGGT--CEE
T ss_pred             CCCEEEEeCCCCcCCHHHHHHHHHHC----C-ceEEEEecCCCCCC----CcCeEEEEEECCHHHHHHHH-hcCC--CEe
Confidence            46899999999999999999999999    9 999999998775 4    88999999999999999999 7775  455

>2ki2_A SS-DNA binding protein 12RNP2; HP0827, RRM, SS-DNA binding proteins, RNA binding protein/SS-DNA binding protein complex; NMR {Helicobacter pylori}

Probab=99.44  E-value=7.5e-14  Score=110.14  Aligned_cols=66  Identities=21%  Similarity=0.340  Sum_probs=61.4

Q ss_pred             eeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCCccc
Q psy5142         120 QSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLKF  196 (410)
Q Consensus       120 rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~~~  196 (410)
                      ++|||+|||.++|+++|+++|++|    |.|.+|.|+++..++    .++|||||+|.+.+ |.+|+..++|  ..+
T Consensus         2 ~~l~V~nLp~~~t~~~l~~~F~~~----G~i~~v~i~~~~~~~----~~~g~afV~f~~~~-a~~a~~~l~g--~~~   67 (90)
T 2ki2_A            2 RNIYVGNLVYSATSEQVKELFSQF----GKVFNVKLIYDRETK----KPKGFGFVEMQEES-VSEAIAKLDN--TDF   67 (90)
T ss_dssp             EEEEEEEECTTSSHHHHTTTHHHH----TCCSEEEECCCSSSC----CCCEEEEEEECTTH-HHHHHHTSCS--SCC
T ss_pred             cEEEECCCCCCCCHHHHHHHHHhc----CCEEEEEEEEcCCCC----CcceEEEEEECCHH-HHHHHHHhCC--CEE
Confidence            789999999999999999999999    999999999988765    88999999999999 9999999986  455

>2dgv_A HnRNP M, heterogeneous nuclear ribonucleoprotein M; RRM domain, structural genomics, NPPSFA; NMR {Homo sapiens} PDB: 2dh9_A

Probab=99.44  E-value=2.8e-13  Score=107.17  Aligned_cols=67  Identities=25%  Similarity=0.278  Sum_probs=60.6

Q ss_pred             cceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCCccc
Q psy5142         118 IAQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLKF  196 (410)
Q Consensus       118 ~~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~~~  196 (410)
                      ..++|||+|||.++|+++|+++|++|    |.|..|.|+++  ++    .++|||||+|.+.++|++|++.+++  ..+
T Consensus         7 ~~~~l~V~nlp~~~t~~~l~~~f~~~----G~v~~~~i~~~--~g----~~~g~afV~f~~~~~a~~a~~~l~g--~~~   73 (92)
T 2dgv_A            7 GACQIFVRNLPFDFTWKMLKDKFNEC----GHVLYADIKME--NG----KSKGCGVVKFESPEVAERACRMMNG--MKL   73 (92)
T ss_dssp             SCCEEEECSCCTTCCHHHHHHHHHTT----SCEEEEEEEES--SS----CEEEEEEEEESSHHHHHHHHHHHTT--CCB
T ss_pred             CCcEEEEeCCCCCCCHHHHHHHHHhc----CCEEEEEEEcc--CC----CcceEEEEEECCHHHHHHHHHHhCC--CEE
Confidence            46899999999999999999999999    99999999873  32    7899999999999999999999886  455

>1x4d_A Matrin 3; structural genomics, RRM domain, NPPSFA, national project on protein structural and functional analyses; NMR {Mus musculus} SCOP: d.58.7.1

Probab=99.44  E-value=2.9e-13  Score=109.97  Aligned_cols=78  Identities=14%  Similarity=0.151  Sum_probs=72.2

Q ss_pred             CCCCeEEEEeCCCC-CCCHHHHHHHHHhcCCCCCCeeEEEeeCCCceEEEEeCChhHHHHHHHHhcCCCeEEcCeEEEEE
Q psy5142         272 LPTGALLKISDIKE-PVSREDIREVLEKVQTDDQEIVFIEFNVGEPTAFVRYKKENNAEAVLKALGSKEIVIKDVKVSIE  350 (410)
Q Consensus       272 ~~~g~~l~v~nL~~-~~t~edLk~~F~~~G~~~~~V~~V~~~~g~~~afV~F~~~e~A~~Al~~l~~~~~~i~g~~v~v~  350 (410)
                      ..+.++|||.|||+ ++++++|+++|++||    .|..|.+.++.++|||+|.+.++|.+|++.|++.+..++|+.|.|.
T Consensus        12 ~~p~~~l~V~nLp~~~~te~dL~~lF~~fG----~V~~v~i~~~kg~aFVef~~~~~A~~Ai~~l~~~~~~~~Gr~l~V~   87 (102)
T 1x4d_A           12 VETRRVVHIMDFQRGKNLRYQLLQLVEPFG----VISNHLILNKINEAFIEMATTEDAQAAVDYYTTTPALVFGKPVRVH   87 (102)
T ss_dssp             CCCCCEEEEESCCCSSSHHHHHHTTTGGGS----CEEEEEECSSSSCEEEEESSHHHHHHHHHHHHHSCCEETTEECEEE
T ss_pred             CCCCCEEEEeCCCCCcCCHHHHHHHHHhcC----CEEEEEEEcCCCEEEEEECCHHHHHHHHHHHcCCCceECCcEEEEE
Confidence            35678999999999 999999999999999    9999999998899999999999999999999766788999999999


Q ss_pred             ecC
Q psy5142         351 VVT  353 (410)
Q Consensus       351 ~l~  353 (410)
                      ...
T Consensus        88 ~a~   90 (102)
T 1x4d_A           88 LSQ   90 (102)
T ss_dssp             EEC
T ss_pred             ECC
Confidence            875

>2cq3_A RNA-binding protein 9; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.44  E-value=2.6e-13  Score=109.88  Aligned_cols=68  Identities=24%  Similarity=0.265  Sum_probs=61.6

Q ss_pred             ccceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCCccc
Q psy5142         117 LIAQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLKF  196 (410)
Q Consensus       117 ~~~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~~~  196 (410)
                      ...++|||+|||+++|+++|+++|++|    |.|..|.|+++..      .++|||||+|.+.++|++|+..+++  ..+
T Consensus        13 ~~~~~l~V~nlp~~~t~~~l~~~f~~~----G~v~~v~i~~~~~------~~~g~afV~f~~~~~a~~A~~~l~g--~~~   80 (103)
T 2cq3_A           13 STPKRLHVSNIPFRFRDPDLRQMFGQF----GKILDVEIIFNER------GSKGFGFVTFENSADADRAREKLHG--TVV   80 (103)
T ss_dssp             CCCCEEEEESCCTTCCHHHHHHHGGGT----SCEEEEEEECCTT------TTCCEEEEEESCHHHHHHHHHHHTT--CEE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhc----CCeEEEEEEecCC------CCcEEEEEEECCHHHHHHHHHHhCC--CEE
Confidence            457999999999999999999999999    9999999988754      4799999999999999999999886  455

>1wg5_A Heterogeneous nuclear ribonucleoprotein H; structural genomics, RRM domain, riken structural genomics/proteomics initiative, RSGI; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.44  E-value=2.1e-13  Score=110.96  Aligned_cols=68  Identities=21%  Similarity=0.304  Sum_probs=60.5

Q ss_pred             ccceeeEeecCCCCCCHHHHHHHHhhccCCCCceEE-EEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCCcc
Q psy5142         117 LIAQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITN-IIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLK  195 (410)
Q Consensus       117 ~~~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~-v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~~  195 (410)
                      ...++|||+|||+++|+++|+++|++|    |.|.. |+|+++..+     +++|||||+|.++++|++||.. ++  ..
T Consensus        13 ~~~~~l~V~nLp~~~te~~l~~~F~~~----G~v~~~v~i~~~~~g-----~~~G~afV~F~~~~~a~~A~~~-~~--~~   80 (104)
T 1wg5_A           13 ANDGFVRLRGLPFGCSKEEIVQFFSGL----EIVPNGMTLPVDFQG-----RSTGEAFVQFASQEIAEKALKK-HK--ER   80 (104)
T ss_dssp             SCCCEEEEESCCTTCCHHHHHHHTTTC----CEEEEEEECCBCSSS-----CBCSEEEEEESSHHHHHHHHTT-TT--CC
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhc----CCcceeEEEEECCCC-----CcceEEEEEECCHHHHHHHHHh-Cc--ch
Confidence            346899999999999999999999999    99998 999888444     8999999999999999999998 64  44


Q ss_pred             c
Q psy5142         196 F  196 (410)
Q Consensus       196 ~  196 (410)
                      +
T Consensus        81 ~   81 (104)
T 1wg5_A           81 I   81 (104)
T ss_dssp             S
T ss_pred             h
Confidence            5

>2do0_A HnRNP M, heterogeneous nuclear ribonucleoprotein M; RNA recognition motif, RRM, RNA binding domain, RBD, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=99.43  E-value=2.2e-13  Score=112.25  Aligned_cols=69  Identities=14%  Similarity=0.180  Sum_probs=63.0

Q ss_pred             ccceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCCccc
Q psy5142         117 LIAQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLKF  196 (410)
Q Consensus       117 ~~~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~~~  196 (410)
                      ...++|||+|||+++|+++|+++|++|    |.|.+|.|+++..+     .++|||||+|.+.++|++|++.+++  ..+
T Consensus        13 ~~~~~l~V~nlp~~~~~~~l~~~f~~~----G~i~~~~i~~~~~g-----~~~g~afV~f~~~~~a~~A~~~l~g--~~~   81 (114)
T 2do0_A           13 RLGSTVFVANLDYKVGWKKLKEVFSMA----GVVVRADILEDKDG-----KSRGIGTVTFEQSIEAVQAISMFNG--QLL   81 (114)
T ss_dssp             CCCSCEEEESCCTTCCHHHHHHHHTTT----SCEEEEEEEECTTC-----SEEEEEEEEESSHHHHHHHHHHHTT--CEE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhc----CCeEEEEEEECCCC-----CeeeEEEEEECCHHHHHHHHHHhCC--CEe
Confidence            346899999999999999999999999    99999999988764     8899999999999999999998886  455

>1wex_A Hypothetical protein (riken cDNA 2810036L13); structural genomics, RRM domain, riken structural genomics/proteomics initiative, RSGI; NMR {Mus musculus} SCOP: d.58.7.1

Probab=99.43  E-value=2.1e-13  Score=111.20  Aligned_cols=65  Identities=18%  Similarity=0.253  Sum_probs=57.2

Q ss_pred             cceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCCccc
Q psy5142         118 IAQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLKF  196 (410)
Q Consensus       118 ~~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~~~  196 (410)
                      ..++|||+|||+++|+++|+++|++|    |.|.+|.|++          .+|||||+|.+.++|.+|++.+++....+
T Consensus        14 p~~~l~V~nLp~~~te~~L~~~F~~f----G~V~~v~i~~----------~kg~aFVef~~~~~A~~Ai~~l~~~~~~i   78 (104)
T 1wex_A           14 VSPVVHVRGLCESVVEADLVEALEKF----GTICYVMMMP----------FKRQALVEFENIDSAKECVTFAADVPVYI   78 (104)
T ss_dssp             CCSEEEEESCCSSCCHHHHHHHHTTT----SCEEEEEEET----------TTTEEEEEESSHHHHHHHHHHHHHSCCBS
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhC----CCEEEEEEEC----------CCCEEEEEECCHHHHHHHHHHhccCCceE
Confidence            35899999999999999999999999    9999999874          37999999999999999999876433345

>1x4d_A Matrin 3; structural genomics, RRM domain, NPPSFA, national project on protein structural and functional analyses; NMR {Mus musculus} SCOP: d.58.7.1

Probab=99.43  E-value=7.7e-14  Score=113.39  Aligned_cols=65  Identities=9%  Similarity=0.059  Sum_probs=57.2

Q ss_pred             cceeeEeecCCC-CCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCCccc
Q psy5142         118 IAQSLYVKYIPV-DATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLKF  196 (410)
Q Consensus       118 ~~rtv~V~~lp~-~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~~~  196 (410)
                      ..++|||+|||+ ++|+++|+++|++|    |.|.+|.|++          .+|||||+|++.++|.+|++.+++....+
T Consensus        14 p~~~l~V~nLp~~~~te~dL~~lF~~f----G~V~~v~i~~----------~kg~aFVef~~~~~A~~Ai~~l~~~~~~~   79 (102)
T 1x4d_A           14 TRRVVHIMDFQRGKNLRYQLLQLVEPF----GVISNHLILN----------KINEAFIEMATTEDAQAAVDYYTTTPALV   79 (102)
T ss_dssp             CCCEEEEESCCCSSSHHHHHHTTTGGG----SCEEEEEECS----------SSSCEEEEESSHHHHHHHHHHHHHSCCEE
T ss_pred             CCCEEEEeCCCCCcCCHHHHHHHHHhc----CCEEEEEEEc----------CCCEEEEEECCHHHHHHHHHHHcCCCceE
Confidence            358999999999 99999999999999    9999999974          36899999999999999999887532345

>4fxv_A ELAV-like protein 1; RNA recognition motif, putative RNA-binding domain, transcri structural genomics, joint center for structural genomics; 1.90A {Homo sapiens}

Probab=99.43  E-value=7.9e-13  Score=106.74  Aligned_cols=76  Identities=13%  Similarity=0.314  Sum_probs=68.5

Q ss_pred             CCCCeEEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCCC------ceEEEEeCChhHHHHHHHHhcCCCeEEcCe
Q psy5142         272 LPTGALLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVGE------PTAFVRYKKENNAEAVLKALGSKEIVIKDV  345 (410)
Q Consensus       272 ~~~g~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g~------~~afV~F~~~e~A~~Al~~l~~~~~~i~g~  345 (410)
                      +..|+.|||.|||+++|+++|+++|++||    .|..|.+.++.      ++|||+|.++++|++|++.|  ++..++|+
T Consensus        16 ~~~gt~lfV~nLp~~~te~~L~~~F~~~G----~I~~v~i~~d~~tg~~kG~afV~f~~~~~A~~Ai~~l--ng~~~~gr   89 (99)
T 4fxv_A           16 YFQGTNLIVNYLPQNMTQDELRSLFSSIG----EVESAKLIRDKVAGHSLGYGFVNYVTAKDAERAINTL--NGLRLQSK   89 (99)
T ss_dssp             CCCCSEEEEESCCTTCCHHHHHHHHHTTS----CEEEEEEEECSSSCCEEEEEEEEESSHHHHHHHHHHH--TTCEETTE
T ss_pred             cCCCCEEEEeCCCCCCCHHHHHHHHHhcC----CEEEeEeeecCCCCcccccEEEEECCHHHHHHHHHHh--CCCEECCE
Confidence            55688999999999999999999999999    99999987643      26999999999999999999  67999999


Q ss_pred             EEEEEecC
Q psy5142         346 KVSIEVVT  353 (410)
Q Consensus       346 ~v~v~~l~  353 (410)
                      .|.|....
T Consensus        90 ~l~V~~Ak   97 (99)
T 4fxv_A           90 TIKVSYAR   97 (99)
T ss_dssp             ECEEEECC
T ss_pred             EEEEEEee
Confidence            99998764

>2dis_A Unnamed protein product; structural genomics, RRM domain, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.43  E-value=2.6e-13  Score=110.95  Aligned_cols=66  Identities=20%  Similarity=0.255  Sum_probs=60.2

Q ss_pred             ccceeeEeecCCCCCCHHHHHHHHhhccCCCCc-eEEEEEc-ccCcccccccccccEEEEEecCHHHHHHHHHhcC
Q psy5142         117 LIAQSLYVKYIPVDATLDDIKDFFKKNTSEDVK-ITNIIMR-NYQDKLANQKKFKGSIFVTFDNKENAEKFLNENK  190 (410)
Q Consensus       117 ~~~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~-I~~v~l~-~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~  190 (410)
                      ...++|||+|||+++|+++|+++|++|    |. |.+|.|+ ++..++    .++|||||+|.+.++|.+|+..++
T Consensus         6 ~~~~~l~V~nLp~~~t~~~l~~~f~~~----G~~v~~v~i~~~~~~~g----~~~g~afV~f~~~~~A~~A~~~l~   73 (109)
T 2dis_A            6 SGNCRLFIGGIPKMKKREEILEEIAKV----TEGVLDVIVYASAADKM----KNRGFAFVEYESHRAAAMARRKLM   73 (109)
T ss_dssp             CCSEEEEEECCCTTSCHHHHHHHHHHH----STTEEEEECCSSSCTTT----TTCCEEEEEESSHHHHHHHHTTTT
T ss_pred             cCCCEEEEeCCCCcCCHHHHHHHHHHh----cCCceEEEEEccCCCCC----CcCcEEEEEecCHHHHHHHHHHhh
Confidence            346899999999999999999999999    98 9999998 666654    789999999999999999999885

>1wex_A Hypothetical protein (riken cDNA 2810036L13); structural genomics, RRM domain, riken structural genomics/proteomics initiative, RSGI; NMR {Mus musculus} SCOP: d.58.7.1

Probab=99.43  E-value=4.7e-13  Score=109.15  Aligned_cols=79  Identities=16%  Similarity=0.262  Sum_probs=72.6

Q ss_pred             CCCCCeEEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCCCceEEEEeCChhHHHHHHHHhcCCCeEEcCeEEEEE
Q psy5142         271 ELPTGALLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVGEPTAFVRYKKENNAEAVLKALGSKEIVIKDVKVSIE  350 (410)
Q Consensus       271 ~~~~g~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g~~~afV~F~~~e~A~~Al~~l~~~~~~i~g~~v~v~  350 (410)
                      ..++..+|||.|||+++++++|+++|++||    .|..|.+.+++++|||+|.+.++|.+|++.|+..++.++|+.|.|.
T Consensus        11 ~~~p~~~l~V~nLp~~~te~~L~~~F~~fG----~V~~v~i~~~kg~aFVef~~~~~A~~Ai~~l~~~~~~i~Gr~l~V~   86 (104)
T 1wex_A           11 KVSVSPVVHVRGLCESVVEADLVEALEKFG----TICYVMMMPFKRQALVEFENIDSAKECVTFAADVPVYIAGQQAFFN   86 (104)
T ss_dssp             CCCCCSEEEEESCCSSCCHHHHHHHHTTTS----CEEEEEEETTTTEEEEEESSHHHHHHHHHHHHHSCCBSSSSBCEEE
T ss_pred             cCCCCCEEEEeCCCCCCCHHHHHHHHHhCC----CEEEEEEECCCCEEEEEECCHHHHHHHHHHhccCCceECCEEEEEE
Confidence            346678999999999999999999999999    9999999999999999999999999999999766778999999999


Q ss_pred             ecC
Q psy5142         351 VVT  353 (410)
Q Consensus       351 ~l~  353 (410)
                      ...
T Consensus        87 ~a~   89 (104)
T 1wex_A           87 YST   89 (104)
T ss_dssp             ECS
T ss_pred             Ecc
Confidence            865

>2ek1_A RNA-binding protein 12; RNA recognition motif, dimer, structural genomics, NPPSFA, national project on protein structural and functional analyses; 2.00A {Homo sapiens} PDB: 2ek6_A

Probab=99.43  E-value=8.2e-14  Score=110.99  Aligned_cols=69  Identities=22%  Similarity=0.353  Sum_probs=61.8

Q ss_pred             cceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCCccc
Q psy5142         118 IAQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLKF  196 (410)
Q Consensus       118 ~~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~~~  196 (410)
                      ..++|||+|||+++|+++|+++|++|    |.|..+.++.+..++    .++|||||+|.+.++|++|++.+++  ..+
T Consensus        14 ~~~~l~V~nlp~~~t~~~l~~~F~~~----G~i~~~~~~~~~~~g----~~~g~afV~f~~~~~a~~Ai~~l~g--~~~   82 (95)
T 2ek1_A           14 GPTVIKVQNMPFTVSIDEILDFFYGY----QVIPGSVCLKYNEKG----MPTGEAMVAFESRDEATAAVIDLND--RPI   82 (95)
T ss_dssp             -CEEEEEECCCTTCCHHHHHHHTTTS----CBCTTCCEEEECTTS----CEEEEEEEEESSHHHHHHHHHHHTT--CEE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhc----CCccceEEEEeCCCC----CEeeEEEEEECCHHHHHHHHHHhCC--CeE
Confidence            35899999999999999999999999    999988888776665    7899999999999999999998886  455

>1u6f_A Tcubp1, RNA-binding protein UBP1; trypanosome, mRNA-binding protein, GU-rich RNA, structure; NMR {Trypanosoma cruzi} SCOP: d.58.7.1

Probab=99.42  E-value=2.3e-13  Score=116.27  Aligned_cols=71  Identities=17%  Similarity=0.319  Sum_probs=64.8

Q ss_pred             hccceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCCcc
Q psy5142         116 DLIAQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLK  195 (410)
Q Consensus       116 ~~~~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~~  195 (410)
                      ....++|||+|||.++|+++|+++|+.|    |.|.+|.|+++..++    .++|||||+|.+.++|.+|++.++|  ..
T Consensus        39 ~~~~~~l~V~nLp~~~~~~~l~~~F~~~----G~i~~v~i~~~~~~~----~~~g~afV~f~~~~~a~~A~~~l~g--~~  108 (139)
T 1u6f_A           39 PDVLRNLMVNYIPTTVDEVQLRQLFERY----GPIESVKIVCDRETR----QSRGYGFVKFQSGSSAQQAIAGLNG--FN  108 (139)
T ss_dssp             TTTTSEEEEESCSTTCCHHHHHHHHHHH----SCEEEEEEEEETTTT----EEEEEEEEEESSHHHHHHHHHHTTT--EE
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhc----CCeEEEEEEEcCCCC----CcceEEEEEECCHHHHHHHHHHhCC--CE
Confidence            3567999999999999999999999999    999999999987765    7899999999999999999999886  45


Q ss_pred             c
Q psy5142         196 F  196 (410)
Q Consensus       196 ~  196 (410)
                      +
T Consensus       109 ~  109 (139)
T 1u6f_A          109 I  109 (139)
T ss_dssp             C
T ss_pred             E
Confidence            5

>2cqg_A TDP-43, TAR DNA-binding protein-43; RNA recognition motif, RRM, RNA binding domain, RBD, RNP, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.42  E-value=2.5e-13  Score=110.00  Aligned_cols=64  Identities=22%  Similarity=0.277  Sum_probs=59.8

Q ss_pred             ccceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHh
Q psy5142         117 LIAQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNE  188 (410)
Q Consensus       117 ~~~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~  188 (410)
                      ...++|||+|||+++|+++|+++|++|    |.|..|.|+++..++    .++|||||+|.+.++|++|+..
T Consensus        13 ~~~~~l~v~nlp~~~t~~~l~~~F~~~----G~i~~v~i~~~~~~g----~~~g~afV~f~~~~~a~~A~~~   76 (103)
T 2cqg_A           13 QKTSDLIVLGLPWKTTEQDLKEYFSTF----GEVLMVQVKKDLKTG----HSKGFGFVRFTEYETQVKVMSQ   76 (103)
T ss_dssp             CCCCCEEEESCCSSCCHHHHHHHHGGG----SCEEEEEEEECSSSC----SEEEEEEEEESSHHHHHHHHHS
T ss_pred             CCCCEEEEEcCCCcCCHHHHHHHHHhc----CCeEEEEEEecCCCC----CccceEEEEECCHHHHHHHHHc
Confidence            456899999999999999999999999    999999999987765    8999999999999999999985

>2cpy_A RNA-binding protein 12; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.42  E-value=9.5e-14  Score=114.93  Aligned_cols=68  Identities=18%  Similarity=0.148  Sum_probs=61.6

Q ss_pred             ccceeeEeecCCCCCCHHHHHHHHhhccCCCCce-EEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCCcc
Q psy5142         117 LIAQSLYVKYIPVDATLDDIKDFFKKNTSEDVKI-TNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLK  195 (410)
Q Consensus       117 ~~~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I-~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~~  195 (410)
                      ...++|||+|||+++|+++|+++|++|    |.| ..|+|+++..+     .++|||||+|.+.++|++||+. ++  ..
T Consensus        13 ~~~~~l~V~nLp~~~t~~~l~~~F~~~----g~v~~~v~i~~d~~g-----~~~G~afV~F~~~~~a~~Al~~-~~--~~   80 (114)
T 2cpy_A           13 SAKVCAHITNIPFSITKMDVLQFLEGI----PVDENAVHVLVDNNG-----QGLGQALVQFKNEDDARKSERL-HR--KK   80 (114)
T ss_dssp             SCCCEEEEESCCTTSCHHHHHHHTTTS----CCCSTTEEECCCTTS-----SCSSCEEEECSSHHHHHHHGGG-CS--EE
T ss_pred             CCccEEEEeCcCCcCCHHHHHHHHHhC----CCcCCeEEEEECCCC-----CcceEEEEEECCHHHHHHHHHh-CC--Cc
Confidence            456899999999999999999999999    999 89999998843     8999999999999999999998 64  45


Q ss_pred             c
Q psy5142         196 F  196 (410)
Q Consensus       196 ~  196 (410)
                      +
T Consensus        81 ~   81 (114)
T 2cpy_A           81 L   81 (114)
T ss_dssp             E
T ss_pred             c
Confidence            5

>1h2v_Z 20 kDa nuclear CAP binding protein; CAP-binding-complex, RNP domain, MIF4G domain, RNA maturation, RNA export, nuclear protein, RNA-binding; 2.0A {Homo sapiens} SCOP: d.58.7.1 PDB: 1h2u_X* 1h2t_Z 1n52_B* 1n54_B 3fex_B 3fey_B 1h6k_X

Probab=99.42  E-value=3.5e-13  Score=117.56  Aligned_cols=70  Identities=24%  Similarity=0.290  Sum_probs=64.4

Q ss_pred             ccceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCCccc
Q psy5142         117 LIAQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLKF  196 (410)
Q Consensus       117 ~~~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~~~  196 (410)
                      ...++|||+|||+++|+++|+++|++|    |.|..|.|+++..++    .++|||||+|.+.++|++||+.+++  ..+
T Consensus        37 ~~~~~l~V~nlp~~~t~~~l~~~F~~~----G~i~~v~i~~~~~~~----~~~g~afV~f~~~~~A~~Ai~~l~g--~~~  106 (156)
T 1h2v_Z           37 KKSCTLYVGNLSFYTTEEQIYELFSKS----GDIKKIIMGLDKMKK----TACGFCFVEYYSRADAENAMRYING--TRL  106 (156)
T ss_dssp             TTCCEEEEESCCTTCCHHHHHHHHGGG----SCEEEEEEEECTTTC----CEEEEEEEEESSHHHHHHHHHHTTT--SEE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhc----CCeEEEEEEecCCCC----ccceEEEEEECCHHHHHHHHHHhCC--CEE
Confidence            457899999999999999999999999    999999999988765    7899999999999999999999886  455

>2err_A Ataxin-2-binding protein 1; protein-RNA complex, RNA binding protein; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.42  E-value=1.5e-13  Score=112.76  Aligned_cols=70  Identities=23%  Similarity=0.257  Sum_probs=62.9

Q ss_pred             hhccceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCCc
Q psy5142         115 KDLIAQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNL  194 (410)
Q Consensus       115 ~~~~~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~  194 (410)
                      .....++|||+|||.++|+++|+++|++|    |.|.+|.|+++..      .++|||||+|.+.++|++|++.++|  .
T Consensus        25 ~~~~~~~l~V~nLp~~~te~~l~~~F~~~----G~i~~v~i~~~~~------~~kg~afV~f~~~~~A~~Ai~~l~g--~   92 (109)
T 2err_A           25 NKSQPKRLHVSNIPFRFRDPDLRQMFGQF----GKILDVEIIFNER------GSKGFGFVTFENSADADRAREKLHG--T   92 (109)
T ss_dssp             CTTCCCEEEEESCCTTCCHHHHHHHGGGT----CCCSCEEECCBTT------BCTTEEEEECCCSHHHHHHHHHHTT--C
T ss_pred             CCCCCCEEEEECCCCcCCHHHHHHHHHhc----CCEEEEEEEECCC------CCceEEEEEECCHHHHHHHHHHcCC--C
Confidence            34678999999999999999999999999    9999999988743      5799999999999999999999886  4


Q ss_pred             cc
Q psy5142         195 KF  196 (410)
Q Consensus       195 ~~  196 (410)
                      .+
T Consensus        93 ~~   94 (109)
T 2err_A           93 VV   94 (109)
T ss_dssp             EE
T ss_pred             EE
Confidence            55

>2j76_E EIF-4B, EIF4B, eukaryotic translation initiation factor 4B; protein biosynthesis, RNA recognition motif, RNA binding domain, RRM, RBD, RNP; NMR {Homo sapiens}

Probab=99.42  E-value=1.4e-13  Score=111.12  Aligned_cols=69  Identities=17%  Similarity=0.310  Sum_probs=59.6

Q ss_pred             hccceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccC-cccccccccccEEEEEecCHHHHHHHHHhcCCCCc
Q psy5142         116 DLIAQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQ-DKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNL  194 (410)
Q Consensus       116 ~~~~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~-~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~  194 (410)
                      ....++|||+|||+++|+++|+++|++|    | |.+|+|+++. .++    .++|||||+|.+.++|.+|+ .++|  .
T Consensus        16 ~~~~~~l~V~nLp~~~t~~~l~~~F~~~----G-i~~v~i~~~~~~~g----~~~g~afV~f~~~~~a~~Ai-~l~g--~   83 (100)
T 2j76_E           16 KSPPYTAFLGNLPYDVTEESIKEFFRGL----N-ISAVRLPREPSNPE----RLKGFGYAEFEDLDSLLSAL-SLNE--E   83 (100)
T ss_dssp             ----CEEEESCCSSCCSSSHHHHHSCSS----C-EEEEECSCCTTTTC----CCCSCEEEEECCHHHHHHHH-HTTT--C
T ss_pred             CCCCcEEEEeCCCCCCCHHHHHHHHHhc----C-CeEEEEEecCCcCC----ccCeEEEEEECCHHHHHHHH-hcCC--C
Confidence            3567999999999999999999999999    9 9999999887 344    89999999999999999999 7775  4


Q ss_pred             cc
Q psy5142         195 KF  196 (410)
Q Consensus       195 ~~  196 (410)
                      .+
T Consensus        84 ~~   85 (100)
T 2j76_E           84 SL   85 (100)
T ss_dssp             CB
T ss_pred             EE
Confidence            56

>1whx_A Hypothetical protein riken cDNA 1200009A02; RNA recognition motif, RRM, RNA binding domain, RBD, RNP, structural genomics; NMR {Mus musculus} SCOP: d.58.7.1

Probab=99.42  E-value=3.3e-13  Score=111.26  Aligned_cols=65  Identities=15%  Similarity=0.181  Sum_probs=58.8

Q ss_pred             hccceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCCcc
Q psy5142         116 DLIAQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLK  195 (410)
Q Consensus       116 ~~~~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~~  195 (410)
                      +...++|||+|||+++|+++|+++|++|    |.|..|.|+          ..+|||||+|.+.++|++|+..++|  ..
T Consensus         7 ~~~~~~l~V~nLp~~~te~~L~~~F~~~----G~i~~v~i~----------~~~g~afV~f~~~~~A~~Ai~~l~g--~~   70 (111)
T 1whx_A            7 GRSKTVILAKNLPAGTLAAEIQETFSRF----GSLGRVLLP----------EGGITAIVEFLEPLEARKAFRHLAY--SK   70 (111)
T ss_dssp             SEEEEEEEEESCCTTCCHHHHHHHHHTT----SCEEEEECC----------SSSSCEEEEESCHHHHHHHHHHHTT--CB
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhc----CCEEEEEEe----------CCCCEEEEEeCCHHHHHHHHHHhCC--CE
Confidence            3557899999999999999999999999    999999987          3578999999999999999999986  45


Q ss_pred             c
Q psy5142         196 F  196 (410)
Q Consensus       196 ~  196 (410)
                      +
T Consensus        71 ~   71 (111)
T 1whx_A           71 F   71 (111)
T ss_dssp             S
T ss_pred             E
Confidence            5

>2dgp_A Bruno-like 4, RNA binding protein; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} PDB: 2dgq_A

Probab=99.42  E-value=3.3e-13  Score=109.74  Aligned_cols=67  Identities=24%  Similarity=0.276  Sum_probs=62.9

Q ss_pred             ccceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCC
Q psy5142         117 LIAQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKD  191 (410)
Q Consensus       117 ~~~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g  191 (410)
                      ...++|||+|||.++|+++|+++|++|    |.|..|+|+++..++    .++|||||+|.+.++|.+|++.+++
T Consensus        11 ~~~~~l~V~nlp~~~t~~~l~~~F~~~----G~i~~v~i~~~~~~g----~~~g~afV~f~~~~~A~~A~~~l~g   77 (106)
T 2dgp_A           11 HDAIKLFIGQIPRNLDEKDLKPLFEEF----GKIYELTVLKDRFTG----MHKGCAFLTYCERESALKAQSALHE   77 (106)
T ss_dssp             TTCEEEEEESCCTTCCHHHHHHHHHHH----SCCCEEECCCCSSSC----SCCSEEEEEESSHHHHHHHHHHHTT
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhc----CCeeEEEEEecCCCC----CcceEEEEEECCHHHHHHHHHHhcC
Confidence            457999999999999999999999999    999999999988765    8899999999999999999999886

>2ku7_A MLL1 PHD3-CYP33 RRM chimeric protein; transcriptional regulation, RRM domain, transcr; NMR {Homo sapiens}

Probab=99.42  E-value=3.2e-13  Score=115.18  Aligned_cols=70  Identities=20%  Similarity=0.236  Sum_probs=64.3

Q ss_pred             ccceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCCccc
Q psy5142         117 LIAQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLKF  196 (410)
Q Consensus       117 ~~~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~~~  196 (410)
                      ...++|||+|||.++|+++|+++|++|    |.|..|+|+++..++    .++|||||+|.+.++|++|++.++|  ..+
T Consensus        61 ~~~~~l~v~nlp~~~~~~~l~~~f~~~----G~i~~v~i~~~~~~~----~~~g~afV~f~~~~~a~~A~~~l~g--~~~  130 (140)
T 2ku7_A           61 TTKRVLYVGGLAEEVDDKVLHAAFIPF----GDITDIQIPLDYETE----KHRGFAFVEFELAEDAAAAIDNMNE--SEL  130 (140)
T ss_dssp             SSCCEEEEECCCTTCCHHHHHHHHGGG----SCEEEEECCCCTTTC----CCCSEEEEEESCHHHHHHHHHHSTE--EEE
T ss_pred             CCCcEEEEEeCCCCCCHHHHHHHHHhc----CCEEEEEEeecCCCC----CcCcEEEEEECCHHHHHHHHHHhCC--CEE
Confidence            457999999999999999999999999    999999999987665    8899999999999999999999886  455

>2ad9_A Polypyrimidine tract-binding protein 1; RBD, RRM, protein-RNA complex, RNA binding protein/RNA complex; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.42  E-value=1.9e-13  Score=114.03  Aligned_cols=60  Identities=20%  Similarity=0.324  Sum_probs=55.2

Q ss_pred             cceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCC
Q psy5142         118 IAQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKD  191 (410)
Q Consensus       118 ~~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g  191 (410)
                      ..++|||+|||+++|+++|+++|++|    |.|.+|+|++          .+|||||+|.+.++|.+|++.+++
T Consensus        30 ps~~LfVgNLp~~vte~dL~~lF~~f----G~V~~v~i~~----------~kG~AFVeF~~~e~A~~Ai~~l~~   89 (119)
T 2ad9_A           30 PSRVIHIRKLPIDVTEGEVISLGLPF----GKVTNLLMLK----------GKNQAFIEMNTEEAANTMVNYYTS   89 (119)
T ss_dssp             CCSEEEEESCCTTCCHHHHHHHHTTT----SCCCEEEEEG----------GGTEEEEECSCHHHHHHHHHHHHH
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhc----CCEEEEEEeC----------CCCEEEEEECCHHHHHHHHHHhcc
Confidence            35899999999999999999999999    9999999974          379999999999999999998763

>1x4b_A Heterogeneous nuclear ribonucleoproteins A2/B1; structure genomics, RRM domain, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.41  E-value=1.8e-13  Score=113.28  Aligned_cols=70  Identities=13%  Similarity=0.285  Sum_probs=63.5

Q ss_pred             hccceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCCcc
Q psy5142         116 DLIAQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLK  195 (410)
Q Consensus       116 ~~~~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~~  195 (410)
                      ....++|||+|||+++|+++|+++|++|    |.|..|.|+++..++    .++|||||+|.+.++|++|+.. ++  ..
T Consensus        24 ~~~~~~l~V~nLp~~~te~~l~~~F~~~----G~i~~v~i~~~~~~g----~~~g~afV~f~~~~~a~~Ai~~-~~--~~   92 (116)
T 1x4b_A           24 KEQFRKLFIGGLSFETTEESLRNYYEQW----GKLTDCVVMRDPASK----RSRGFGFVTFSSMAEVDAAMAA-RP--HS   92 (116)
T ss_dssp             HHHHTEEEEECCTTCCCHHHHHHHHTSS----CCCSEEEEECCTTTS----SCCSEEEEECSSHHHHHHHHTS-CS--EE
T ss_pred             cCCCCEEEEeCCCCCCCHHHHHHHHHhc----CCEEEEEEEECCCCC----CcCceEEEEeCCHHHHHHHHHh-CC--cE
Confidence            3567999999999999999999999999    999999999987765    7899999999999999999998 64  45


Q ss_pred             c
Q psy5142         196 F  196 (410)
Q Consensus       196 ~  196 (410)
                      +
T Consensus        93 ~   93 (116)
T 1x4b_A           93 I   93 (116)
T ss_dssp             E
T ss_pred             E
Confidence            6

>2cqp_A RNA-binding protein 12; RNA recognition motif, RRM, RNA binding domain, RBD, RNP, structural genomics, NPPSFA; NMR {Mus musculus} SCOP: d.58.7.1

Probab=99.41  E-value=1.1e-13  Score=110.90  Aligned_cols=70  Identities=21%  Similarity=0.333  Sum_probs=62.4

Q ss_pred             ccceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCCccc
Q psy5142         117 LIAQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLKF  196 (410)
Q Consensus       117 ~~~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~~~  196 (410)
                      ...++|||+|||+++|+++|+++|++|    |.|..+.++++..++    .++|||||+|.+.++|++|++.++|  ..+
T Consensus        13 ~~~~~l~v~nLp~~~t~~~l~~~F~~~----G~v~~~~~~~~~~~g----~~~g~afV~f~~~~~a~~Ai~~l~g--~~~   82 (98)
T 2cqp_A           13 PGPTIIKVQNMPFTVSIDEILDFFYGY----QVIPGSVCLKYNEKG----MPTGEAMVAFESRDEATAAVIDLND--RPI   82 (98)
T ss_dssp             CSSEEEEEESCCTTCCHHHHHHHTTTS----CCCTTTCEEEECSSS----CEEEEEEEEESCHHHHHHHHHHTTT--CEE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHHc----CCccceEEEEECCCC----CeeeEEEEEECCHHHHHHHHHHhCC--Cee
Confidence            346899999999999999999999999    999988877776665    7899999999999999999999986  455

>2cq1_A PTB-like protein L; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.41  E-value=2.2e-13  Score=110.52  Aligned_cols=65  Identities=20%  Similarity=0.220  Sum_probs=56.6

Q ss_pred             cceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCCccc
Q psy5142         118 IAQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLKF  196 (410)
Q Consensus       118 ~~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~~~  196 (410)
                      ..++|||+|||+++|+++|+++|++|    |.|.+|.|++          .+|||||+|.+.++|.+|++.+++....+
T Consensus        14 p~~~l~V~nLp~~~te~~L~~~F~~f----G~v~~v~i~~----------~kg~aFVef~~~~~A~~Ai~~l~~~~~~~   78 (101)
T 2cq1_A           14 PSRVLHIRKLPGEVTETEVIALGLPF----GKVTNILMLK----------GKNQAFLELATEEAAITMVNYYSAVTPHL   78 (101)
T ss_dssp             CCSEEEEESCCTTCCHHHHHHTTTTT----SCEEEEEEET----------TTTEEEEEESSHHHHHHHHHHHHHSCCEE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhc----CCEEEEEEEC----------CCCEEEEEECCHHHHHHHHHHhccCCceE
Confidence            45899999999999999999999999    9999999874          38999999999999999999765322345

>1x4a_A Splicing factor, arginine/serine-rich 1 (splicing factor 2, alternate splicing factor)...; structure genomics, SURP domain, splicing factor SF2; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.41  E-value=4.2e-13  Score=109.84  Aligned_cols=67  Identities=25%  Similarity=0.348  Sum_probs=60.0

Q ss_pred             ccceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCCccc
Q psy5142         117 LIAQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLKF  196 (410)
Q Consensus       117 ~~~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~~~  196 (410)
                      ...++|||+|||+++|+++|+++|++|    |.|..|.|+.+.       .++|||||+|.+.++|++|++.+++  ..+
T Consensus        20 ~~~~~l~V~nLp~~~t~~~l~~~F~~~----G~v~~~~i~~~~-------~~~g~afV~f~~~~~A~~A~~~l~g--~~~   86 (109)
T 1x4a_A           20 NNDCRIYVGNLPPDIRTKDIEDVFYKY----GAIRDIDLKNRR-------GGPPFAFVEFEDPRDAEDAVYGRDG--YDY   86 (109)
T ss_dssp             CCSSEEEEESCCTTCCHHHHHHHHGGG----SCEEEEEECCSS-------SSSCCEEEEESCHHHHHHHHHHHTT--CEE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhc----CCeEEEEEEECC-------CCCcEEEEEECCHHHHHHHHHHcCC--CEE
Confidence            457899999999999999999999999    999999996532       5799999999999999999999886  455

>2db1_A Heterogeneous nuclear ribonucleoprotein F; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Mus musculus}

Probab=99.41  E-value=1.4e-13  Score=114.76  Aligned_cols=68  Identities=10%  Similarity=0.284  Sum_probs=61.7

Q ss_pred             ccceeeEeecCCCCCCHHHHHHHHhhccCCCCc---eEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCC
Q psy5142         117 LIAQSLYVKYIPVDATLDDIKDFFKKNTSEDVK---ITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKN  193 (410)
Q Consensus       117 ~~~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~---I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~  193 (410)
                      ...++|||+|||+++|+++|+++|+.|    |.   |..|+|+++..+     +++|||||+|.+.++|++||+ +++  
T Consensus        15 ~~~~~l~V~nLp~~~te~~l~~~F~~~----G~~~~v~~v~i~~~~~g-----~~~G~afV~F~~~~~a~~Al~-~~g--   82 (118)
T 2db1_A           15 GEGYVVKLRGLPWSCSIEDVQNFLSDC----TIHDGVAGVHFIYTREG-----RQSGEAFVELESEDDVKLALK-KDR--   82 (118)
T ss_dssp             CCCCEEEEESCCTTCCHHHHHHHTTTS----CBTTGGGGEEEEECSSS-----CEEEEEEEEBSSHHHHHHHGG-GTT--
T ss_pred             CCCcEEEEeCCCCCCCHHHHHHHHHHc----CCccCceeEEEEECCCC-----CCCeEEEEEECCHHHHHHHHh-cCC--
Confidence            356899999999999999999999999    99   899999988774     899999999999999999999 675  


Q ss_pred             ccc
Q psy5142         194 LKF  196 (410)
Q Consensus       194 ~~~  196 (410)
                      ..+
T Consensus        83 ~~~   85 (118)
T 2db1_A           83 ESM   85 (118)
T ss_dssp             EEE
T ss_pred             CeE
Confidence            455

>3beg_B Splicing factor, arginine/serine-rich 1; kinase, SR protein kinase, SR protein, PRE-mRNA splicing, at binding, chromosome partition; HET: SEP ANP; 2.90A {Homo sapiens} SCOP: d.58.7.1 PDB: 2o3d_A 1wg4_A

Probab=99.41  E-value=5.1e-13  Score=110.76  Aligned_cols=74  Identities=9%  Similarity=0.263  Sum_probs=64.7

Q ss_pred             CCCeEEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCCCceEEEEeCChhHHHHHHHHhcCCCeEEcCeE-----E
Q psy5142         273 PTGALLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVGEPTAFVRYKKENNAEAVLKALGSKEIVIKDVK-----V  347 (410)
Q Consensus       273 ~~g~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g~~~afV~F~~~e~A~~Al~~l~~~~~~i~g~~-----v  347 (410)
                      ...+.|||.|||+++++++|+++|++||    .|..|.+..+ ++|||+|.+.++|++||+.|  ++..|+|+.     |
T Consensus        14 r~~~~l~V~nLp~~~t~~~l~~~F~~~G----~v~~~~i~~~-g~afV~f~~~~~a~~Ai~~l--~g~~~~gr~~~~~~i   86 (115)
T 3beg_B           14 RSENRVVVSGLPPSGSWQDLKDHMREAG----DVCYADVYRD-GTGVVEFVRKEDMTYAVRKL--DNTKFRSHEGETAYI   86 (115)
T ss_dssp             ---CCEEEEECCSSCCTTHHHHHHGGGS----CEEEEEECTT-SEEEEEESSHHHHHHHHHHH--TTCBCCCTTSCCCBC
T ss_pred             CCCcEEEEeCCCCCCCHHHHHHHHHhcC----CeEEEEEecC-CEEEEEECCHHHHHHHHHHh--CCCEECCcEeeeEEE
Confidence            3468899999999999999999999999    9999999887 89999999999999999999  678899987     6


Q ss_pred             EEEecC
Q psy5142         348 SIEVVT  353 (410)
Q Consensus       348 ~v~~l~  353 (410)
                      ++....
T Consensus        87 ~v~~~~   92 (115)
T 3beg_B           87 RVKVDG   92 (115)
T ss_dssp             EEEECC
T ss_pred             EeccCC
Confidence            666543

>2ad9_A Polypyrimidine tract-binding protein 1; RBD, RRM, protein-RNA complex, RNA binding protein/RNA complex; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.40  E-value=2.9e-13  Score=112.97  Aligned_cols=79  Identities=13%  Similarity=0.179  Sum_probs=72.2

Q ss_pred             CCCCCeEEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCCCceEEEEeCChhHHHHHHHHhcCCCeEEcCeEEEEE
Q psy5142         271 ELPTGALLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVGEPTAFVRYKKENNAEAVLKALGSKEIVIKDVKVSIE  350 (410)
Q Consensus       271 ~~~~g~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g~~~afV~F~~~e~A~~Al~~l~~~~~~i~g~~v~v~  350 (410)
                      ..++.++|||.|||+++++++|+++|++||    .|..|.+.+++++|||+|.+.++|.+|++.++..+..++|+.|.|.
T Consensus        27 ~~~ps~~LfVgNLp~~vte~dL~~lF~~fG----~V~~v~i~~~kG~AFVeF~~~e~A~~Ai~~l~~~~~~l~Gr~l~V~  102 (119)
T 2ad9_A           27 AGVPSRVIHIRKLPIDVTEGEVISLGLPFG----KVTNLLMLKGKNQAFIEMNTEEAANTMVNYYTSVTPVLRGQPIYIQ  102 (119)
T ss_dssp             CSSCCSEEEEESCCTTCCHHHHHHHHTTTS----CCCEEEEEGGGTEEEEECSCHHHHHHHHHHHHHHCCCBTTBCCEEE
T ss_pred             cCCCCCEEEEeCCCCCCCHHHHHHHHHhcC----CEEEEEEeCCCCEEEEEECCHHHHHHHHHHhccCCceECCeEEEEE
Confidence            345678999999999999999999999999    9999999998899999999999999999999644678999999999


Q ss_pred             ecC
Q psy5142         351 VVT  353 (410)
Q Consensus       351 ~l~  353 (410)
                      ...
T Consensus       103 ~a~  105 (119)
T 2ad9_A          103 FSN  105 (119)
T ss_dssp             ECS
T ss_pred             Ecc
Confidence            875

>2dgx_A KIAA0430 protein; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.40  E-value=4e-13  Score=107.56  Aligned_cols=66  Identities=15%  Similarity=0.196  Sum_probs=59.8

Q ss_pred             cceeeEeecCCCCCCHHHHH----HHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCC
Q psy5142         118 IAQSLYVKYIPVDATLDDIK----DFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKN  193 (410)
Q Consensus       118 ~~rtv~V~~lp~~~t~~~L~----~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~  193 (410)
                      ..++|||+|||+++|+++|+    ++|++|    |.|.+|+|+++..+       +|||||+|.+.++|++|++.++|  
T Consensus         8 ~~~~l~V~nL~~~~~~~~l~~~l~~~F~~~----G~v~~v~i~~~~~~-------rg~afV~f~~~~~A~~Ai~~l~g--   74 (96)
T 2dgx_A            8 NGADVQVSNIDYRLSRKELQQLLQEAFARH----GKVKSVELSPHTDY-------QLKAVVQMENLQDAIGAVNSLHR--   74 (96)
T ss_dssp             SCEEEEEESCCTTSCHHHHHHHHHHHHHHH----SCEEEEEECSCCST-------TCCEEEEESSHHHHHHHHHHHTT--
T ss_pred             CCCEEEEECCCCCCCHHHHHHHHHHhcccc----CcEEEEEEEeCCCC-------CeEEEEEECCHHHHHHHHHHhCC--
Confidence            35899999999999999999    999999    99999999987643       88999999999999999999986  


Q ss_pred             ccc
Q psy5142         194 LKF  196 (410)
Q Consensus       194 ~~~  196 (410)
                      ..+
T Consensus        75 ~~~   77 (96)
T 2dgx_A           75 YKI   77 (96)
T ss_dssp             EEE
T ss_pred             CEE
Confidence            456

>1wez_A HnRNP H', FTP-3, heterogeneous nuclear ribonucleoprotein H'; structural genomics, RRM domain, riken structural genomics/proteomics initiative, RSGI; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.40  E-value=1.8e-13  Score=111.19  Aligned_cols=67  Identities=19%  Similarity=0.274  Sum_probs=58.7

Q ss_pred             ccceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCCccc
Q psy5142         117 LIAQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLKF  196 (410)
Q Consensus       117 ~~~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~~~  196 (410)
                      ...++|||+|||+++|+++|+++|++|    |. ..|+|+++..+     +++|||||+|.+.++|++||+. ++  ..+
T Consensus        13 ~~~~~l~V~nLp~~~te~~l~~~F~~~----G~-~~v~i~~d~~g-----~~~G~afV~F~~~~~a~~Al~~-~~--~~~   79 (102)
T 1wez_A           13 TTGHCVHMRGLPYRATENDIYNFFSPL----NP-MRVHIEIGPDG-----RVTGEADVEFATHEDAVAAMAK-DK--ANM   79 (102)
T ss_dssp             SSSCEEEEESCCTTCCHHHHHHSSCSC----CC-SEEEEEESSSS-----CEEEEEEEECSSSHHHHHHHTT-SS--CCS
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHHc----Cc-eEEEEEECCCC-----CEeeEEEEEECCHHHHHHHHHh-CC--CeE
Confidence            346899999999999999999999999    95 49999998744     8999999999999999999964 64  445

>1u6f_A Tcubp1, RNA-binding protein UBP1; trypanosome, mRNA-binding protein, GU-rich RNA, structure; NMR {Trypanosoma cruzi} SCOP: d.58.7.1

Probab=99.40  E-value=2.4e-12  Score=109.84  Aligned_cols=76  Identities=14%  Similarity=0.261  Sum_probs=68.3

Q ss_pred             CCCCeEEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCC------CceEEEEeCChhHHHHHHHHhcCCCeEEcCe
Q psy5142         272 LPTGALLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVG------EPTAFVRYKKENNAEAVLKALGSKEIVIKDV  345 (410)
Q Consensus       272 ~~~g~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g------~~~afV~F~~~e~A~~Al~~l~~~~~~i~g~  345 (410)
                      ....+.|||.|||.++++++|+++|++||    .|..|.+..+      .++|||+|.+.++|.+|+..|  ++..++|+
T Consensus        39 ~~~~~~l~V~nLp~~~~~~~l~~~F~~~G----~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~A~~~l--~g~~~~g~  112 (139)
T 1u6f_A           39 PDVLRNLMVNYIPTTVDEVQLRQLFERYG----PIESVKIVCDRETRQSRGYGFVKFQSGSSAQQAIAGL--NGFNILNK  112 (139)
T ss_dssp             TTTTSEEEEESCSTTCCHHHHHHHHHHHS----CEEEEEEEEETTTTEEEEEEEEEESSHHHHHHHHHHT--TTEECSSC
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhcC----CeEEEEEEEcCCCCCcceEEEEEECCHHHHHHHHHHh--CCCEECCe
Confidence            45568999999999999999999999999    9999988754      246999999999999999999  68999999


Q ss_pred             EEEEEecC
Q psy5142         346 KVSIEVVT  353 (410)
Q Consensus       346 ~v~v~~l~  353 (410)
                      .|.|....
T Consensus       113 ~l~v~~a~  120 (139)
T 1u6f_A          113 RLKVALAA  120 (139)
T ss_dssp             EEEEEESS
T ss_pred             EEEEEECC
Confidence            99999865

>2wbr_A GW182, gawky, LD47780P; DNA-binding protein, RRM, RBD, TNRC6A, mirnas, P-bodies, argonaute, mRNA decay; NMR {Drosophila melanogaster}

Probab=99.40  E-value=4.3e-13  Score=105.15  Aligned_cols=63  Identities=10%  Similarity=0.086  Sum_probs=58.0

Q ss_pred             cceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCCccc
Q psy5142         118 IAQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLKF  196 (410)
Q Consensus       118 ~~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~~~  196 (410)
                      ....|||+||++.+|+++|+++|.+|    |+|.++++.          .++|||||+|.++++|.+|++.+|+  .++
T Consensus         6 ~~~wL~VgNL~~~~te~~L~~lF~q~----G~V~~~~l~----------~~kGfaFVey~~~~eA~~Ai~~Ln~--~~l   68 (89)
T 2wbr_A            6 GSSWLLLKNLTAQIDGPTLRTLCMQH----GPLVSFHPY----------LNQGIALCKYTTREEANKAQMALNN--CVL   68 (89)
T ss_dssp             CCCEEEEECCCTTCCCHHHHHHHHHH----SCEEEEEEE----------TTTTEEEEEESSHHHHHHHHHHHTT--EEE
T ss_pred             ccceEEEeCCCccCCHHHHHHHHHhh----CCEEEEEEc----------CCCcEEEEEECCHHHHHHHHHHhcC--CEE
Confidence            45689999999999999999999999    999999985          4699999999999999999999996  556

>1x4f_A Matrin 3; structural genomics, RRM domain, NPPSFA, national project on protein structural and functional analyses; NMR {Mus musculus} SCOP: d.58.7.1

Probab=99.39  E-value=1.7e-13  Score=113.10  Aligned_cols=65  Identities=18%  Similarity=0.337  Sum_probs=57.1

Q ss_pred             cceeeEeecCCCC-CCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCCccc
Q psy5142         118 IAQSLYVKYIPVD-ATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLKF  196 (410)
Q Consensus       118 ~~rtv~V~~lp~~-~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~~~  196 (410)
                      ..++|||+|||++ +|+++|+++|++|    |.|.+|+|.          +.+|||||+|.+.++|.+|++.+++....+
T Consensus        24 p~~~l~V~NLp~~~~te~~L~~lF~~f----G~V~~v~i~----------~~kg~aFVef~~~~~A~~Ai~~l~~~~~~l   89 (112)
T 1x4f_A           24 LGRVIHLSNLPHSGYSDSAVLKLAEPY----GKIKNYILM----------RMKSQAFIEMETREDAMAMVDHCLKKALWF   89 (112)
T ss_dssp             CCCEEEEESCCCSSCCSHHHHTTTTTT----SCCSEEEEE----------TTTTEEEEECSSHHHHHHHHHHHHHSCCCS
T ss_pred             CCCEEEEeCCCCccCCHHHHHHHHHhc----CCEEEEEEe----------cCCCEEEEEECCHHHHHHHHHHhccCCceE
Confidence            3689999999998 9999999999999    999999996          358999999999999999999876422345

>2hgl_A HNRPF protein, heterogeneous nuclear ribonucleoprotein F; RNA recognition motif, G-tract, G-quadruplex, alternative, splicing, RNA binding protein; NMR {Homo sapiens} PDB: 2kfy_A

Probab=99.39  E-value=2e-13  Score=116.85  Aligned_cols=67  Identities=10%  Similarity=0.272  Sum_probs=61.3

Q ss_pred             cceeeEeecCCCCCCHHHHHHHHhhccCCCCc---eEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCCc
Q psy5142         118 IAQSLYVKYIPVDATLDDIKDFFKKNTSEDVK---ITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNL  194 (410)
Q Consensus       118 ~~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~---I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~  194 (410)
                      ..++|||+|||+++|+++|+++|++|    |.   |..|+|+++..+     +++|||||+|.+.++|++|++ +++  .
T Consensus        43 ~~~~lfVgnLp~~~te~dL~~~F~~~----G~v~~v~~v~i~~d~~g-----~srG~aFV~F~~~e~a~~Al~-~~g--~  110 (136)
T 2hgl_A           43 EGFVVKLRGLPWSCSVEDVQNFLSDC----TIHDGAAGVHFIYTREG-----RQSGEAFVELGSEDDVKMALK-KDR--E  110 (136)
T ss_dssp             TTCEEEEESCCTTCCHHHHHHHTTTC----CCSSSSTTEEEEECSSS-----CEEEEEEEECSSHHHHHHHHT-TTE--E
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHHh----CCcCceeEEEEEECCCC-----CCCeEEEEEECCHHHHHHHHh-cCC--C
Confidence            46899999999999999999999999    99   899999998874     899999999999999999999 775  4


Q ss_pred             cc
Q psy5142         195 KF  196 (410)
Q Consensus       195 ~~  196 (410)
                      .+
T Consensus       111 ~l  112 (136)
T 2hgl_A          111 SM  112 (136)
T ss_dssp             ES
T ss_pred             EE
Confidence            45

>2m2b_A RNA-binding protein 10; T-cell, JCSG, MPP, PSI-biology; NMR {Homo sapiens}

Probab=99.39  E-value=1.8e-13  Score=116.02  Aligned_cols=66  Identities=11%  Similarity=0.183  Sum_probs=61.6

Q ss_pred             ccceeeEeecCCCCCCHHHHHHHHhhccCCCCceEE--EEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCC
Q psy5142         117 LIAQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITN--IIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKD  191 (410)
Q Consensus       117 ~~~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~--v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g  191 (410)
                      ...++|||+|||+++|+++|+++|++|    |.|..  |+|++++.++    .++|||||+|.+. +|.+|+..++|
T Consensus        21 ~~~~~lfV~nL~~~~te~~L~~~F~~~----G~v~~~~v~i~~d~~tg----~~rG~aFV~f~~~-~a~~Ai~~l~g   88 (131)
T 2m2b_A           21 NANDTIILRNLNPHSTMDSILGALAPY----AVLSSSNVRVIKDKQTQ----LNRGFAFIQLSTI-EAAQLLQILQA   88 (131)
T ss_dssp             CCCCEEEECSCCTTCCSHHHHHHHGGG----CCCCTTTEECCBCSSSS----SBCSCEEEECCHH-HHHHHHHHHTT
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHHh----CCcceeeEEEEEcCCCC----CcceEEEEEECCH-HHHHHHHHhcC
Confidence            557899999999999999999999999    99977  9999998765    8999999999999 99999999996

>2nlw_A Eukaryotic translation initiation factor 3 subunit 9; eukaryotic initiation factor 3 complex, RNA recognition motif; NMR {Homo sapiens}

Probab=99.39  E-value=3.5e-13  Score=109.79  Aligned_cols=68  Identities=25%  Similarity=0.297  Sum_probs=60.4

Q ss_pred             ccceeeEeecCCCCC------CHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcC
Q psy5142         117 LIAQSLYVKYIPVDA------TLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENK  190 (410)
Q Consensus       117 ~~~rtv~V~~lp~~~------t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~  190 (410)
                      ...++|||+|||+.+      |+++|+++|++|    |.|.+|.|++  .++    .++|||||+|.+.++|++|+..++
T Consensus        13 ~~~~~l~V~nLp~~~~~~~~~t~~~l~~~F~~~----G~v~~v~i~~--~~g----~~~G~afV~f~~~~~A~~Ai~~l~   82 (105)
T 2nlw_A           13 GIDSVIVVDNVPQVGPDRLEKLKNVIHKIFSKF----GKITNDFYPE--EDG----KTKGYIFLEYASPAHAVDAVKNAD   82 (105)
T ss_dssp             SCCSEEEEESCCCCCTTTTTHHHHHHHHHHGGG----SCEEEEECCC--BTT----BSCCEEEEEECSSSHHHHHHHHCS
T ss_pred             CCCCEEEEeCCCcchhhhhHHHHHHHHHHHhcC----CCEEEEEeeC--CCC----CeeeEEEEEECCHHHHHHHHHHhC
Confidence            346899999999999      789999999999    9999999983  333    789999999999999999999999


Q ss_pred             CCCccc
Q psy5142         191 DKNLKF  196 (410)
Q Consensus       191 g~~~~~  196 (410)
                      |  ..+
T Consensus        83 g--~~~   86 (105)
T 2nlw_A           83 G--YKL   86 (105)
T ss_dssp             S--EEC
T ss_pred             C--ccc
Confidence            6  456

>2lmi_A GRSF-1, G-rich sequence factor 1; G-rich RNA sequence binding factor, RNA binding domain, STRU genomics, joint center for structural genomics, JCSG; NMR {Homo sapiens}

Probab=99.39  E-value=2.3e-13  Score=111.31  Aligned_cols=68  Identities=16%  Similarity=0.271  Sum_probs=61.4

Q ss_pred             ccceeeEeecCCCCCCHHHHHHHHhhccCCCCc---eEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCC
Q psy5142         117 LIAQSLYVKYIPVDATLDDIKDFFKKNTSEDVK---ITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKN  193 (410)
Q Consensus       117 ~~~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~---I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~  193 (410)
                      ...++|||+|||+++|+++|+++|+.|    |.   |..|+|+++..+     +++|||||+|.+.++|++||. +++  
T Consensus         9 ~~~~~l~V~nLp~~~te~~l~~~F~~~----g~~~~v~~v~i~~~~~g-----~~~G~afV~F~~~~~a~~Al~-~~~--   76 (107)
T 2lmi_A            9 DDVFLIRAQGLPWSCTMEDVLNFFSDC----RIRNGENGIHFLLNRDG-----KRRGDALIEMESEQDVQKALE-KHR--   76 (107)
T ss_dssp             SSCCEEEEECCCSSCCSHHHHHHTTTS----CBTTTTTTEECCCCTTS-----TTCSEEEEEBSSHHHHHHHHT-TTT--
T ss_pred             CCccEEEEeCCCCCCCHHHHHHHHHhc----CCcCCcceEEEEECCCC-----CEeeEEEEEECCHHHHHHHHH-hCc--
Confidence            456899999999999999999999999    88   999999988874     899999999999999999999 664  


Q ss_pred             ccc
Q psy5142         194 LKF  196 (410)
Q Consensus       194 ~~~  196 (410)
                      ..+
T Consensus        77 ~~~   79 (107)
T 2lmi_A           77 MYM   79 (107)
T ss_dssp             CCS
T ss_pred             cee
Confidence            445

>2ytc_A PRE-mRNA-splicing factor RBM22; RRM domain, RBD, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.39  E-value=7.4e-13  Score=103.14  Aligned_cols=64  Identities=20%  Similarity=0.272  Sum_probs=57.6

Q ss_pred             ccceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhc-CCCCcc
Q psy5142         117 LIAQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNEN-KDKNLK  195 (410)
Q Consensus       117 ~~~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~-~g~~~~  195 (410)
                      ...++|||+|||.++|+++|+++|++|    |.|.+|.+++          .+|||||+|.+.++|.+|++.+ ++  ..
T Consensus        10 ~~~~~l~V~~l~~~~t~~~l~~~f~~~----G~i~~~~~~~----------~kg~afV~f~~~~~A~~a~~~l~~~--~~   73 (85)
T 2ytc_A           10 KTITTLYVGGLGDTITETDLRNHFYQF----GEIRTITVVQ----------RQQCAFIQFATRQAAEVAAEKSFNK--LI   73 (85)
T ss_dssp             SSCCCEEEECCTTTSCHHHHHHHHHTT----SCEEEEEEEG----------GGTEEEEEESSHHHHHHHHHTTTTT--CE
T ss_pred             CCccEEEEcCCCCCCCHHHHHHHHHhC----CCEeEEEEEC----------CCCEEEEEECCHHHHHHHHHHhcCC--ee
Confidence            456899999999999999999999999    9999999974          4799999999999999999987 64  44


Q ss_pred             c
Q psy5142         196 F  196 (410)
Q Consensus       196 ~  196 (410)
                      +
T Consensus        74 ~   74 (85)
T 2ytc_A           74 V   74 (85)
T ss_dssp             E
T ss_pred             E
Confidence            5

>2lea_A Serine/arginine-rich splicing factor 2; SR protein, RNA binding protein; NMR {Homo sapiens} PDB: 2leb_A 2lec_A

Probab=99.39  E-value=2.9e-13  Score=115.60  Aligned_cols=70  Identities=19%  Similarity=0.278  Sum_probs=64.1

Q ss_pred             ccceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCCccc
Q psy5142         117 LIAQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLKF  196 (410)
Q Consensus       117 ~~~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~~~  196 (410)
                      ...++|||+|||+++|+++|+++|++|    |.|..|.|+++..++    .++|||||+|.+.++|++|+..++|  ..+
T Consensus        45 ~~~~~l~V~nLp~~~te~~L~~~F~~~----G~i~~v~i~~~~~~g----~~~G~afV~F~~~~~A~~Ai~~l~g--~~i  114 (135)
T 2lea_A           45 EGMTSLKVDNLTYRTSPDTLRRVFEKY----GRVGDVYIPRDRYTK----ESRGFAFVRFHDKRDAEDAMDAMDG--AVL  114 (135)
T ss_dssp             GGCCCEEEECCCSSCHHHHHHHHHGGG----SCCSEEECCCCSSSS----SCCSCCEEECSCHHHHHHHHTTTTT--CCS
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhc----CCEEEEEEEecCCCC----ccceEEEEEECCHHHHHHHHHHcCC--CEE
Confidence            457899999999999999999999999    999999999887665    8999999999999999999999886  445

>2cpi_A CCR4-NOT transcription complex subunit 4; RNA recognition motif, RRM, RNP, structural genomics, NPPSFA; NMR {Mus musculus} SCOP: d.58.7.1

Probab=99.39  E-value=2.5e-13  Score=111.86  Aligned_cols=73  Identities=15%  Similarity=0.221  Sum_probs=63.0

Q ss_pred             ccceeeEeecCCCCCCHHHHH---HHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCC
Q psy5142         117 LIAQSLYVKYIPVDATLDDIK---DFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKN  193 (410)
Q Consensus       117 ~~~rtv~V~~lp~~~t~~~L~---~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~  193 (410)
                      ...++|||+|||+++|+++|+   ++|++|    |.|..|.|+++..++ ....++|||||+|.+.++|++|++.++|  
T Consensus        13 ~~~~~l~V~nLp~~~~~~~l~~~~~~F~~~----G~i~~v~i~~~~~~~-~~~~~~G~afV~f~~~~~A~~Ai~~lng--   85 (111)
T 2cpi_A           13 VQKNLVFVVGLSQRLADPEVLKRPEYFGKF----GKIHKVVINNSTSYA-GSQGPSASAYVTYIRSEDALRAIQCVNN--   85 (111)
T ss_dssp             CCSSCEEEEEECTTTCCHHHHHSTTTTTTT----SCEEEEEEECCSSCC-SSSCCCEEEEEEESSHHHHHHHHHHHTT--
T ss_pred             cCCCEEEEECCCCCCCHHHHHHHHHHhhcc----CCEEEEEEecCCCcC-ccCCCCeEEEEEECcHHHHHHHHHHhCC--
Confidence            457899999999999999999   999999    999999998876532 1125679999999999999999999886  


Q ss_pred             ccc
Q psy5142         194 LKF  196 (410)
Q Consensus       194 ~~~  196 (410)
                      ..+
T Consensus        86 ~~~   88 (111)
T 2cpi_A           86 VVV   88 (111)
T ss_dssp             EEE
T ss_pred             CEE
Confidence            455

>2kn4_A Immunoglobulin G-binding protein G, splicing FACT arginine/serine-rich 2, S35, splicing factor SC35,; RRM domain, cell WALL; NMR {Streptococcus SP}

Probab=99.39  E-value=5.8e-13  Score=116.19  Aligned_cols=70  Identities=19%  Similarity=0.278  Sum_probs=64.4

Q ss_pred             ccceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCCccc
Q psy5142         117 LIAQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLKF  196 (410)
Q Consensus       117 ~~~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~~~  196 (410)
                      ...++|||+|||+++|+++|+++|++|    |.|..|+|+++..++    .++|||||+|.+.++|.+|+..++|  ..+
T Consensus        68 ~~~~~l~v~nl~~~~~~~~l~~~F~~~----G~v~~~~i~~~~~~g----~~~g~afV~f~~~~~a~~A~~~l~g--~~~  137 (158)
T 2kn4_A           68 EGMTSLKVDNLTYRTSPDTLRRVFEKY----GRVGDVYIPRDRYTK----ESRGFAFVRFHDKRDAEDAMDAMDG--AVL  137 (158)
T ss_dssp             CBCCEEEEESCCTTCCHHHHHHHHHHH----SCEEEEECCCCSSCT----TSCCEEEEEESBHHHHHHHHHHSTT--EES
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhc----CCeEEEEEeecCCCC----ccceEEEEEECCHHHHHHHHHHhCC--CEE
Confidence            457899999999999999999999999    999999999987665    8999999999999999999999886  455

>1rk8_A CG8781-PA, CG8781-PA protein; mRNA processing, RRM, RBD, NMD, oskar mRNA localization, translation; 1.90A {Drosophila melanogaster} SCOP: d.58.7.1 PDB: 1hl6_A 2x1g_A

Probab=99.38  E-value=7.3e-13  Score=116.80  Aligned_cols=70  Identities=20%  Similarity=0.184  Sum_probs=63.7

Q ss_pred             ccceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCCccc
Q psy5142         117 LIAQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLKF  196 (410)
Q Consensus       117 ~~~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~~~  196 (410)
                      ...++|||+|||+.+|+++|+.+|++|    |.|..|.|+++..++    .++|||||+|.+.++|++||..++|  ..+
T Consensus        70 ~~~~~l~V~nLp~~~t~~~L~~~F~~~----G~i~~v~i~~~~~~g----~~~g~afV~f~~~~~A~~Ai~~l~g--~~~  139 (165)
T 1rk8_A           70 VEGWILFVTSIHEEAQEDEIQEKFCDY----GEIKNIHLNLDRRTG----FSKGYALVEYETHKQALAAKEALNG--AEI  139 (165)
T ss_dssp             C-CEEEEEESCCTTCCHHHHHHHHGGG----SCEEEEEEEECTTTS----SEEEEEEEEESSHHHHHHHHHHHTT--CEE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHhhcC----CCEEEEEEEecCCCC----cEeeEEEEEECCHHHHHHHHHHhCC--CEE
Confidence            456899999999999999999999999    999999999987665    7899999999999999999999886  455

>2kt5_A RNA and export factor-binding protein 2; chaperone, mRNA processing, mRNA splicing, transport, nucleus, RNA-binding, spliceosome, transport; NMR {Mus musculus}

Probab=99.38  E-value=7e-13  Score=111.11  Aligned_cols=69  Identities=16%  Similarity=0.219  Sum_probs=62.8

Q ss_pred             ccceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCCccc
Q psy5142         117 LIAQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLKF  196 (410)
Q Consensus       117 ~~~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~~~  196 (410)
                      ...++|||+|||.++|+++|+++|++|    |.|.+|.|+++. ++    .++|||||+|.+.++|.+|++.++|  ..+
T Consensus        33 ~~~~~l~V~nlp~~~t~~~l~~~F~~~----G~v~~v~i~~~~-~g----~~~g~afV~f~~~~~A~~Ai~~l~g--~~~  101 (124)
T 2kt5_A           33 ETGAKLLVSNLDFGVSDADIQELFAEF----GTLKKAAVDYDR-SG----RSLGTADVHFERRADALKAMKQYKG--VPL  101 (124)
T ss_dssp             SSCEEEEEESCCSSCCHHHHHHHHHTT----SCCSEEEEECCS-SS----SCCSEEEEEESSHHHHHHHHHHHTT--EES
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhc----CCeeEEEEEECC-CC----CEeeEEEEEECCHHHHHHHHHHcCC--CEE
Confidence            346899999999999999999999999    999999999988 43    7999999999999999999998886  455

>2dnn_A RNA-binding protein 12; RRM domain, RBD, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.38  E-value=6.2e-13  Score=109.38  Aligned_cols=66  Identities=17%  Similarity=0.263  Sum_probs=58.5

Q ss_pred             cceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCCccc
Q psy5142         118 IAQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLKF  196 (410)
Q Consensus       118 ~~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~~~  196 (410)
                      ..++|||+|||+++|+++|+++|++|     .|.+|+|+++..+     +++|||||+|.++++|++||. +++  ..+
T Consensus        15 ~~~~v~V~nLp~~~te~dl~~~F~~~-----~v~~v~i~~d~~g-----~~~G~afV~F~~~~~a~~Al~-~~~--~~~   80 (109)
T 2dnn_A           15 DDLYVSVHGMPFSAMENDVRDFFHGL-----RVDAVHLLKDHVG-----RNNGNGLVKFLSPQDTFEALK-RNR--MLM   80 (109)
T ss_dssp             HHHEEEEECCCSSCCHHHHHHHTTTS-----CCCEEEECCCTTC-----CCCSEEEEECSSHHHHHHHHH-TTT--EEE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHhccC-----CeeEEEEEECCCC-----CCCeEEEEEECCHHHHHHHHh-cCC--CeE
Confidence            35799999999999999999999999     5889999988774     899999999999999999994 564  445

>3md3_A Nuclear and cytoplasmic polyadenylated RNA-bindin PUB1; RRM, RNP, RBD, poly(U) binding, tandem, acetylation, cytopla nucleus; 2.70A {Saccharomyces cerevisiae}

Probab=99.38  E-value=1.9e-12  Score=112.53  Aligned_cols=105  Identities=13%  Similarity=0.116  Sum_probs=78.7

Q ss_pred             cHHHHHHHHhhcCCceEEEecCccceecCCCCCCCCCchhhhhhccceeeEeecCCCCCCHHHHHHHHhhccCCCCceEE
Q psy5142          73 EAKVIVDALKKSTSKLIEVNEDGTKIRRNPEKELPTFDIDFVKDLIAQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITN  152 (410)
Q Consensus        73 d~~~i~~Al~~~~S~~levsed~~~vrR~~~~p~p~~~~~~~~~~~~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~  152 (410)
                      +.+.+..|+..  .+...+......|......+.+       .....++|||+|||.++|.++|+++|++|    |.|.+
T Consensus        50 ~~~~a~~A~~~--l~~~~~~g~~i~v~~~~~~~~~-------~~~~~~~l~v~nl~~~~t~~~l~~~f~~~----G~i~~  116 (166)
T 3md3_A           50 QSHDANIALQT--LNGKQIENNIVKINWAFQSQQS-------SSDDTFNLFVGDLNVNVDDETLRNAFKDF----PSYLS  116 (166)
T ss_dssp             SHHHHHHHHHH--HTTCEETTEECEEEECCCCCCC-------CCTTCEEEEEESCCTTCCHHHHHHHHTTS----TTEEE
T ss_pred             CHHHHHHHHHH--cCCCccCCCeeEEEEcCCCCCC-------CCCCCceEEECCCCCCCCHHHHHHHHhcc----CCeeE
Confidence            45666667652  2233444444444443211111       12457899999999999999999999999    99999


Q ss_pred             EEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCCccc
Q psy5142         153 IIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLKF  196 (410)
Q Consensus       153 v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~~~  196 (410)
                      |.++++..++    .++|+|||+|.+.++|.+|+..++|  ..+
T Consensus       117 ~~i~~~~~~~----~~~g~afV~f~~~~~A~~A~~~l~g--~~~  154 (166)
T 3md3_A          117 GHVMWDMQTG----SSRGYGFVSFTSQDDAQNAMDSMQG--QDL  154 (166)
T ss_dssp             EEEEECTTTC----CEEEEEEEEESCHHHHHHHHHHHTT--CEE
T ss_pred             EEEEecCCCC----CcceEEEEEeCCHHHHHHHHHHhCC--Ccc
Confidence            9999887665    7899999999999999999999886  455

>2dgx_A KIAA0430 protein; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.37  E-value=5.2e-12  Score=101.01  Aligned_cols=77  Identities=19%  Similarity=0.310  Sum_probs=70.4

Q ss_pred             CCCCCeEEEEeCCCCCCCHHHHH----HHHHhcCCCCCCeeEEEeeCC---CceEEEEeCChhHHHHHHHHhcCCCeEEc
Q psy5142         271 ELPTGALLKISDIKEPVSREDIR----EVLEKVQTDDQEIVFIEFNVG---EPTAFVRYKKENNAEAVLKALGSKEIVIK  343 (410)
Q Consensus       271 ~~~~g~~l~v~nL~~~~t~edLk----~~F~~~G~~~~~V~~V~~~~g---~~~afV~F~~~e~A~~Al~~l~~~~~~i~  343 (410)
                      ....++.|||.|||+.+++++|+    ++|++||    .|..|.+..+   .++|||+|.+.++|++|++.|  ++..++
T Consensus         5 ~~~~~~~l~V~nL~~~~~~~~l~~~l~~~F~~~G----~v~~v~i~~~~~~rg~afV~f~~~~~A~~Ai~~l--~g~~~~   78 (96)
T 2dgx_A            5 SSGNGADVQVSNIDYRLSRKELQQLLQEAFARHG----KVKSVELSPHTDYQLKAVVQMENLQDAIGAVNSL--HRYKIG   78 (96)
T ss_dssp             CCSSCEEEEEESCCTTSCHHHHHHHHHHHHHHHS----CEEEEEECSCCSTTCCEEEEESSHHHHHHHHHHH--TTEEET
T ss_pred             CCCCCCEEEEECCCCCCCHHHHHHHHHHhccccC----cEEEEEEEeCCCCCeEEEEEECCHHHHHHHHHHh--CCCEEC
Confidence            35677899999999999999999    9999999    9999999865   567999999999999999999  789999


Q ss_pred             CeEEEEEecC
Q psy5142         344 DVKVSIEVVT  353 (410)
Q Consensus       344 g~~v~v~~l~  353 (410)
                      |+.|.|....
T Consensus        79 gr~l~V~~a~   88 (96)
T 2dgx_A           79 SKKILVSLAT   88 (96)
T ss_dssp             TEEEEEEECC
T ss_pred             CeEEEEEEcC
Confidence            9999999865

>1x4f_A Matrin 3; structural genomics, RRM domain, NPPSFA, national project on protein structural and functional analyses; NMR {Mus musculus} SCOP: d.58.7.1

Probab=99.37  E-value=4.8e-13  Score=110.43  Aligned_cols=78  Identities=14%  Similarity=0.190  Sum_probs=72.3

Q ss_pred             CCCCeEEEEeCCCCC-CCHHHHHHHHHhcCCCCCCeeEEEeeCCCceEEEEeCChhHHHHHHHHhcCCCeEEcCeEEEEE
Q psy5142         272 LPTGALLKISDIKEP-VSREDIREVLEKVQTDDQEIVFIEFNVGEPTAFVRYKKENNAEAVLKALGSKEIVIKDVKVSIE  350 (410)
Q Consensus       272 ~~~g~~l~v~nL~~~-~t~edLk~~F~~~G~~~~~V~~V~~~~g~~~afV~F~~~e~A~~Al~~l~~~~~~i~g~~v~v~  350 (410)
                      .++.++|||.|||++ +++++|+++|++||    .|..|.+.+.+++|||+|.+.++|++|++.|+.++..++|+.|.|.
T Consensus        22 ~~p~~~l~V~NLp~~~~te~~L~~lF~~fG----~V~~v~i~~~kg~aFVef~~~~~A~~Ai~~l~~~~~~l~Gr~l~V~   97 (112)
T 1x4f_A           22 QELGRVIHLSNLPHSGYSDSAVLKLAEPYG----KIKNYILMRMKSQAFIEMETREDAMAMVDHCLKKALWFQGRCVKVD   97 (112)
T ss_dssp             SCCCCEEEEESCCCSSCCSHHHHTTTTTTS----CCSEEEEETTTTEEEEECSSHHHHHHHHHHHHHSCCCSSSSCCEEE
T ss_pred             CCCCCEEEEeCCCCccCCHHHHHHHHHhcC----CEEEEEEecCCCEEEEEECCHHHHHHHHHHhccCCceECCEEEEEE
Confidence            456889999999998 99999999999999    9999999999999999999999999999999766788999999998


Q ss_pred             ecC
Q psy5142         351 VVT  353 (410)
Q Consensus       351 ~l~  353 (410)
                      ...
T Consensus        98 ~a~  100 (112)
T 1x4f_A           98 LSE  100 (112)
T ss_dssp             EEC
T ss_pred             ECc
Confidence            865

>2hgm_A HNRPF protein, heterogeneous nuclear ribonucleoprotein F; RNA recognition motif, G-tract, G-quadruplex, alternative splicing, RNA binding protein; NMR {Homo sapiens} PDB: 2kg0_A

Probab=99.37  E-value=6.8e-13  Score=111.96  Aligned_cols=64  Identities=27%  Similarity=0.378  Sum_probs=57.4

Q ss_pred             cceeeEeecCCCCCCHHHHHHHHhhccCCCCceE-EEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcC
Q psy5142         118 IAQSLYVKYIPVDATLDDIKDFFKKNTSEDVKIT-NIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENK  190 (410)
Q Consensus       118 ~~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~-~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~  190 (410)
                      ..++|||+|||+++|+++|+++|++|    +.+. +|+|+++..+     +++|||||+|.++++|++||+..+
T Consensus        41 ~~~~lfVgnLp~~~te~dL~~~F~~~----~i~~~~v~i~~d~~G-----rsrGfaFV~F~~~e~A~~Al~~~~  105 (126)
T 2hgm_A           41 NDGFVRLRGLPFGCTKEEIVQFFSGL----EIVPNGITLPVDPEG-----KITGEAFVQFASQELAEKALGKHK  105 (126)
T ss_dssp             SCCEEEEECCCTTCCHHHHHHHTTTS----CEEEEEEECCCCSSS-----SSCSEEEEEESSTTHHHHHHTTTT
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHhcC----CceeeEEEEEECCCC-----CCceEEEEEECCHHHHHHHHHHCC
Confidence            46899999999999999999999999    6443 8999998874     899999999999999999998744

>2dha_A FLJ20171 protein; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.37  E-value=3.9e-13  Score=113.03  Aligned_cols=68  Identities=24%  Similarity=0.379  Sum_probs=59.8

Q ss_pred             ccceeeEeecCCCCCCHHHHHHHHhhccCCCCce----EEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCC
Q psy5142         117 LIAQSLYVKYIPVDATLDDIKDFFKKNTSEDVKI----TNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDK  192 (410)
Q Consensus       117 ~~~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I----~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~  192 (410)
                      ...++|||+|||+++|+++|++||++|    |.|    ..|+|+++..+     +++|||||+|.+.++|++||+. ++ 
T Consensus        21 ~~~~~v~V~nLp~~~te~dl~~~F~~~----g~v~g~v~~v~i~~d~~g-----r~~G~aFV~F~~~~~A~~Al~~-~~-   89 (123)
T 2dha_A           21 ENQVIVRMRGLPFTATAEEVVAFFGQH----CPITGGKEGILFVTYPDG-----RPTGDAFVLFACEEYAQNALRK-HK-   89 (123)
T ss_dssp             CSCCEEEECSCCTTCCHHHHHHHHHTT----SCCTTGGGGEEEEECTTS-----CEEEEEEECCSSHHHHHHHHTT-TT-
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhh----CCccCCcceEEEEECCCC-----CEeeEEEEEECCHHHHHHHHHh-CC-
Confidence            456899999999999999999999999    875    68999988644     8999999999999999999997 53 


Q ss_pred             Cccc
Q psy5142         193 NLKF  196 (410)
Q Consensus       193 ~~~~  196 (410)
                       ..+
T Consensus        90 -~~l   92 (123)
T 2dha_A           90 -DLL   92 (123)
T ss_dssp             -EES
T ss_pred             -Cee
Confidence             445

>2fy1_A RNA-binding motif protein, Y chromosome, family 1 member A1; RNA binding protein, structure, protein-RNA complex, RNA stem-loop, structural protein/RNA complex; NMR {Homo sapiens}

Probab=99.37  E-value=4.8e-12  Score=105.05  Aligned_cols=75  Identities=13%  Similarity=0.193  Sum_probs=68.3

Q ss_pred             CCCeEEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCCC-----ceEEEEeCChhHHHHHHHHhcCCCeEEcCeEE
Q psy5142         273 PTGALLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVGE-----PTAFVRYKKENNAEAVLKALGSKEIVIKDVKV  347 (410)
Q Consensus       273 ~~g~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g~-----~~afV~F~~~e~A~~Al~~l~~~~~~i~g~~v  347 (410)
                      ...+.|||.|||.++++++|+++|++||    .|..|.+..+.     ++|||+|.+.++|++|++.|  ++..++|+.|
T Consensus         5 ~~~~~l~V~nLp~~~t~~~l~~~F~~~G----~i~~v~i~~~~~g~~~g~afV~F~~~~~A~~Ai~~l--~g~~~~g~~l   78 (116)
T 2fy1_A            5 DHPGKLFIGGLNRETNEKMLKAVFGKHG----PISEVLLIKDRTSKSRGFAFITFENPADAKNAAKDM--NGKSLHGKAI   78 (116)
T ss_dssp             CSCCEEEEECCTTTCCHHHHHHHHHTSS----CCSEEEEECSTTTTCCCEEEEECSSHHHHHHHHHHC--SSCBCSSSBC
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcC----CEEEEEEEECCCCCcccEEEEEECCHHHHHHHHHHh--CCCEECCEEE
Confidence            4457899999999999999999999999    99999998754     68999999999999999999  6788999999


Q ss_pred             EEEecC
Q psy5142         348 SIEVVT  353 (410)
Q Consensus       348 ~v~~l~  353 (410)
                      .|....
T Consensus        79 ~V~~a~   84 (116)
T 2fy1_A           79 KVEQAK   84 (116)
T ss_dssp             EEEECC
T ss_pred             EEEECC
Confidence            999875

>2dgw_A Probable RNA-binding protein 19; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.37  E-value=8.3e-13  Score=104.37  Aligned_cols=67  Identities=19%  Similarity=0.287  Sum_probs=59.6

Q ss_pred             ccceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCCccc
Q psy5142         117 LIAQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLKF  196 (410)
Q Consensus       117 ~~~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~~~  196 (410)
                      ...++|||+|||+++|+++|+++|++|     .|..|+|+++..+     .++|+|||+|.+.++|++|+. +++  ..+
T Consensus         8 ~~~~~l~v~nLp~~~t~~~l~~~F~~~-----~i~~v~i~~~~~g-----~~~g~afV~f~~~~~a~~A~~-~~g--~~~   74 (91)
T 2dgw_A            8 TTCHTVKLRGAPFNVTEKNVMEFLAPL-----KPVAIRIVRNAHG-----NKTGYIFVDFSNEEEVKQALK-CNR--EYM   74 (91)
T ss_dssp             CCCCEEEEECCCSSCCHHHHHHHHTTS-----CCSEEEEEECTTS-----CEEEEEEEECSSHHHHHHHHH-SCS--EEE
T ss_pred             CCccEEEEECCCCCCCHHHHHHHHhhC-----CceEEEEEECCCC-----CCceEEEEEECCHHHHHHHHH-hCC--cee
Confidence            356899999999999999999999999     5889999988444     789999999999999999999 885  455

>3q2s_C Cleavage and polyadenylation specificity factor S; CFIM, CFIM25, CFIM68, CPSF5, CPSF6, CPSF, 3' END processing, processing, cleavage factor; 2.90A {Homo sapiens} PDB: 3q2t_C

Probab=99.37  E-value=6.6e-13  Score=123.55  Aligned_cols=69  Identities=14%  Similarity=0.146  Sum_probs=62.7

Q ss_pred             cceeeEeecCCCCCCHHHHHHHHhhccCCCC--ceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCCcc
Q psy5142         118 IAQSLYVKYIPVDATLDDIKDFFKKNTSEDV--KITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLK  195 (410)
Q Consensus       118 ~~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G--~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~~  195 (410)
                      ..++|||+|||+++|+++|+++|++|    |  .|..|+|+++..++    +++|||||+|.+.++|++||+.+++  ..
T Consensus        67 ~~~~lfVgnL~~~~te~~L~~~F~~~----G~~~v~~v~i~~d~~tg----~skGfaFV~f~~~~~a~~Ai~~lng--~~  136 (229)
T 3q2s_C           67 KRIALYIGNLTWWTTDEDLTEAVHSL----GVNDILEIKFFENRANG----QSKGFALVGVGSEASSKKLMDLLPK--RE  136 (229)
T ss_dssp             --CEEEEESCCTTCCHHHHHHHHHTT----TCCCEEEEEEEECTTTC----CEEEEEEEEESCTTHHHHHHTTSTT--SC
T ss_pred             CccEEEEeCCCCCCCHHHHHHHHHHH----CCcceEEEEEEecCCCC----ccceEEEEEECCHHHHHHHHHHcCC--Ce
Confidence            56899999999999999999999999    9  99999999998765    8999999999999999999999886  45


Q ss_pred             c
Q psy5142         196 F  196 (410)
Q Consensus       196 ~  196 (410)
                      +
T Consensus       137 ~  137 (229)
T 3q2s_C          137 L  137 (229)
T ss_dssp             B
T ss_pred             E
Confidence            5

>1fj7_A Nucleolin RBD1, protein C23; RNP, RRM, RNA binding domain, nucleolus, structural protein; NMR {Mesocricetus auratus} SCOP: d.58.7.1

Probab=99.36  E-value=4e-13  Score=108.34  Aligned_cols=68  Identities=15%  Similarity=0.158  Sum_probs=59.3

Q ss_pred             ccceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCCccc
Q psy5142         117 LIAQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLKF  196 (410)
Q Consensus       117 ~~~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~~~  196 (410)
                      ...++|||+|||+++|+++|+++|++|    |.|.. .++.+..++    .++|||||+|.+.++|++|++ ++|  ..+
T Consensus        15 ~~~~~l~V~nLp~~~t~~~l~~~F~~~----G~v~~-~~~~~~~~g----~~~g~afV~f~~~~~a~~A~~-l~g--~~~   82 (101)
T 1fj7_A           15 TTPFNLFIGNLNPNKSVAELKVAISEL----FAKND-LAVVDVRTG----TNRKFGYVDFESAEDLEKALE-LTG--LKV   82 (101)
T ss_dssp             SCSEEEEEECCCTTSCHHHHHHHHHHH----HHHHT-CCCCEEEEE----TTTTEEEEEESSHHHHHHHHH-GGG--CCB
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHHh----CCcce-EEEecCCCC----CcCcEEEEEECCHHHHHHHHh-cCC--cEE
Confidence            457899999999999999999999999    99988 555555554    789999999999999999999 775  455

>2la4_A Nuclear and cytoplasmic polyadenylated RNA-bindin PUB1; RRM, RNA recognition, stress granules, nucleus, RNA-binding, transcription; NMR {Saccharomyces cerevisiae}

Probab=99.36  E-value=1e-12  Score=105.86  Aligned_cols=63  Identities=24%  Similarity=0.307  Sum_probs=57.7

Q ss_pred             cceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCCccc
Q psy5142         118 IAQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLKF  196 (410)
Q Consensus       118 ~~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~~~  196 (410)
                      ..++|||+|||.++|+++|+++|++|    |.|.+|+|.          .++|||||+|.+.++|.+|+..++|  ..+
T Consensus        26 ~~~~l~V~nlp~~~~~~~l~~~f~~~----G~i~~~~~~----------~~~g~afV~f~~~~~A~~Ai~~l~g--~~~   88 (101)
T 2la4_A           26 RVTTAYIGNIPHFATEADLIPLFQNF----GFILDFKHY----------PEKGCCFIKYDTHEQAAVCIVALAN--FPF   88 (101)
T ss_dssp             SCCEEEEESCCTTCCHHHHHHHHHTT----SCCSEEEEE----------TTTTEEEEECSSHHHHHHHHHHHTT--CEE
T ss_pred             CCCEEEEcCCCcccCHHHHHHHHHhC----CCEEEEEEe----------cCCCEEEEEECCHHHHHHHHHHhCC--CeE
Confidence            36899999999999999999999999    999999987          3589999999999999999999886  456

>2jvr_A Nucleolar protein 3; RNA recognition motif, nucleus, phosphorylation, ribonucleoprotein, ribosome biogenesis, RNA-binding; NMR {Saccharomyces cerevisiae} PDB: 2osr_A

Probab=99.36  E-value=7.9e-13  Score=109.10  Aligned_cols=65  Identities=20%  Similarity=0.317  Sum_probs=58.2

Q ss_pred             cceeeEeecCCCCCCHHHHHHHHhhccCCCC-ceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCCccc
Q psy5142         118 IAQSLYVKYIPVDATLDDIKDFFKKNTSEDV-KITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLKF  196 (410)
Q Consensus       118 ~~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G-~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~~~  196 (410)
                      ..++|||+|||+++|+++|+++|++|    | .|..|.+...        .++|||||+|.+.++|++|++.++|  ..+
T Consensus        27 ~~~~l~VgnLp~~~te~dL~~~F~~~----G~~v~~v~i~~~--------~~rGfaFV~F~~~e~A~~Ai~~lng--~~l   92 (111)
T 2jvr_A           27 KRYRITMKNLPEGCSWQDLKDLAREN----SLETTFSSVNTR--------DFDGTGALEFPSEEILVEALERLNN--IEF   92 (111)
T ss_dssp             CCEEEEEECSSCCCCHHHHHHHHHHH----TCCCSEEECSSC--------SSSCCEEEEESSHHHHHHHHHHTTT--EEE
T ss_pred             CCCEEEEECCCCCCCHHHHHHHHHHh----CCeeEEEEEEcC--------CCCCEEEEEECCHHHHHHHHHHcCC--CEE
Confidence            35899999999999999999999999    9 9999988532        4689999999999999999999986  456

>1x4a_A Splicing factor, arginine/serine-rich 1 (splicing factor 2, alternate splicing factor)...; structure genomics, SURP domain, splicing factor SF2; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.36  E-value=6.5e-12  Score=102.66  Aligned_cols=77  Identities=17%  Similarity=0.261  Sum_probs=68.8

Q ss_pred             CCCCCeEEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCCC---ceEEEEeCChhHHHHHHHHhcCCCeEEcCeEE
Q psy5142         271 ELPTGALLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVGE---PTAFVRYKKENNAEAVLKALGSKEIVIKDVKV  347 (410)
Q Consensus       271 ~~~~g~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g~---~~afV~F~~~e~A~~Al~~l~~~~~~i~g~~v  347 (410)
                      .....+.|||.|||+++++++|+++|++||    .|..|.+....   .+|||+|.+.++|++|++.|  ++..++|+.|
T Consensus        18 ~~~~~~~l~V~nLp~~~t~~~l~~~F~~~G----~v~~~~i~~~~~~~g~afV~f~~~~~A~~A~~~l--~g~~~~g~~l   91 (109)
T 1x4a_A           18 AGNNDCRIYVGNLPPDIRTKDIEDVFYKYG----AIRDIDLKNRRGGPPFAFVEFEDPRDAEDAVYGR--DGYDYDGYRL   91 (109)
T ss_dssp             CCCCSSEEEEESCCTTCCHHHHHHHHGGGS----CEEEEEECCSSSSSCCEEEEESCHHHHHHHHHHH--TTCEETTEEC
T ss_pred             CCCCCCEEEEeCCCCCCCHHHHHHHHHhcC----CeEEEEEEECCCCCcEEEEEECCHHHHHHHHHHc--CCCEECCeEE
Confidence            345668999999999999999999999999    99999987653   48999999999999999999  6789999999


Q ss_pred             EEEecC
Q psy5142         348 SIEVVT  353 (410)
Q Consensus       348 ~v~~l~  353 (410)
                      .|....
T Consensus        92 ~V~~a~   97 (109)
T 1x4a_A           92 RVEFPR   97 (109)
T ss_dssp             EEECCC
T ss_pred             EEEEcc
Confidence            998754

>2xs2_A Deleted in azoospermia-like; RNA binding protein-RNA complex; 1.35A {Mus musculus} PDB: 2xs7_A 2xs5_A 2xsf_A

Probab=99.36  E-value=4.9e-13  Score=107.99  Aligned_cols=62  Identities=21%  Similarity=0.356  Sum_probs=58.5

Q ss_pred             ccceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHH
Q psy5142         117 LIAQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLN  187 (410)
Q Consensus       117 ~~~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~  187 (410)
                      ...++|||+|||+++|+++|+++|++|    |.|.+|+|+++. ++    .++|||||+|.+.++|++|+.
T Consensus         7 ~~~~~l~V~nLp~~~t~~~l~~~F~~~----G~i~~v~i~~~~-~g----~~~g~afV~f~~~~~a~~Ai~   68 (102)
T 2xs2_A            7 IMPNTVFVGGIDVRMDETEIRSFFARY----GSVKEVKIITDR-TG----VSKGYGFVSFYNDVDVQKIVE   68 (102)
T ss_dssp             EEEEEEEEECCCTTCCHHHHHHHHGGG----SCEEEEEEEECT-TS----CEEEEEEEEESSCCCHHHHTT
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhC----CCeEEEEEEECC-CC----CccceEEEEECCHHHHHHHHh
Confidence            567999999999999999999999999    999999999988 43    899999999999999999999

>1x4g_A Nucleolysin TIAR; structural genomics, RRM domain, TIA-1 related protein, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.35  E-value=1.4e-12  Score=106.81  Aligned_cols=66  Identities=20%  Similarity=0.161  Sum_probs=59.4

Q ss_pred             hhccceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCCc
Q psy5142         115 KDLIAQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNL  194 (410)
Q Consensus       115 ~~~~~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~  194 (410)
                      .....++|||+|||.++|+++|+++|++|    |.|..|.|++          .+|||||+|.+.++|.+|+..++|  .
T Consensus        21 ~~~~~~~l~V~nl~~~~t~~~l~~~F~~~----G~i~~v~i~~----------~~g~afV~f~~~~~a~~A~~~l~g--~   84 (109)
T 1x4g_A           21 SSPKNCTVYCGGIASGLTDQLMRQTFSPF----GQIMEIRVFP----------EKGYSFVRFSTHESAAHAIVSVNG--T   84 (109)
T ss_dssp             SCSSCCEEEEECCSSCCCHHHHHHHHHHH----SCEEEEEEET----------TTTEEEEEESSHHHHHHHHHHHTT--C
T ss_pred             CCCCCcEEEEeCCCCCCCHHHHHHHHHhc----CCeEEEEEeC----------CCCEEEEEECCHHHHHHHHHHcCC--C
Confidence            34567899999999999999999999999    9999999974          379999999999999999999886  4


Q ss_pred             cc
Q psy5142         195 KF  196 (410)
Q Consensus       195 ~~  196 (410)
                      .+
T Consensus        85 ~~   86 (109)
T 1x4g_A           85 TI   86 (109)
T ss_dssp             EE
T ss_pred             EE
Confidence            56

>2dgt_A RNA-binding protein 30; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.35  E-value=7.5e-12  Score=99.10  Aligned_cols=74  Identities=14%  Similarity=0.302  Sum_probs=68.6

Q ss_pred             CCCCeEEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCCCceEEEEeCChhHHHHHHHHhcCCCeEEcCeEEEEEe
Q psy5142         272 LPTGALLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVGEPTAFVRYKKENNAEAVLKALGSKEIVIKDVKVSIEV  351 (410)
Q Consensus       272 ~~~g~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g~~~afV~F~~~e~A~~Al~~l~~~~~~i~g~~v~v~~  351 (410)
                      ....+.|||.|||+.+++++|+++|++||    .|..|.+.++  +|||+|.+.++|++|+..|  ++..++|+.|.|..
T Consensus         7 ~~~~~~l~V~nLp~~~t~~~l~~~F~~~G----~v~~v~~~~~--~afV~f~~~~~a~~A~~~l--~g~~~~g~~l~V~~   78 (92)
T 2dgt_A            7 GKASTKLHVGNISPTCTNQELRAKFEEYG----PVIECDIVKD--YAFVHMERAEDAVEAIRGL--DNTEFQGKRMHVQL   78 (92)
T ss_dssp             CCSSEEEEEESCCSSCCHHHHHHHHHTTS----CCCEEEECSS--EEEEEESCHHHHHHHHHHH--TTEEETTEEEEEEE
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhcC----CeEEEEEECC--EEEEEECCHHHHHHHHHHh--CCCeeCCcEEEEEE
Confidence            45678999999999999999999999999    9999999875  9999999999999999999  78999999999998


Q ss_pred             cC
Q psy5142         352 VT  353 (410)
Q Consensus       352 l~  353 (410)
                      ..
T Consensus        79 a~   80 (92)
T 2dgt_A           79 ST   80 (92)
T ss_dssp             SS
T ss_pred             cc
Confidence            64

>3s8s_A Histone-lysine N-methyltransferase SETD1A; chromatin modification, transcription regulation, structural genomics, structural genomics consortium; 1.30A {Homo sapiens}

Probab=99.35  E-value=5e-12  Score=104.04  Aligned_cols=78  Identities=12%  Similarity=0.107  Sum_probs=69.3

Q ss_pred             CCCeEEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCCC------ceEEEEeCChhHHHHHHHHhcCCCeEEcCeE
Q psy5142         273 PTGALLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVGE------PTAFVRYKKENNAEAVLKALGSKEIVIKDVK  346 (410)
Q Consensus       273 ~~g~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g~------~~afV~F~~~e~A~~Al~~l~~~~~~i~g~~  346 (410)
                      ++...|||.|||+.+++++|+++|++||    .|..|.+..+.      ++|||.|.+.++|++|++.|  ++..++|+.
T Consensus         4 ~p~~~lfV~nL~~~~te~~L~~~F~~~G----~i~~v~i~~d~~tg~~rG~aFV~f~~~~~A~~Ai~~l--ng~~~~gr~   77 (110)
T 3s8s_A            4 IPLKEVTFARLNDNVRETFLKDMCRKYG----EVEEVEILLHPRTRKHLGLARVLFTSTRGAKETVKNL--HLTSVMGNI   77 (110)
T ss_dssp             SCCCEEEEESCCTTCCHHHHHHHHTTTS----CEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHH--TTCEETTEE
T ss_pred             CCCcEEEEECCCCCCCHHHHHHHHHhcC----CeeEEEEEECCCCCceeeEEEEEECCHHHHHHHHHHh--CCCEECCeE
Confidence            4567899999999999999999999999    99999987543      36999999999999999999  789999999


Q ss_pred             EEEEecCchH
Q psy5142         347 VSIEVVTGEE  356 (410)
Q Consensus       347 v~v~~l~g~e  356 (410)
                      |.|.+....+
T Consensus        78 i~V~~a~~~~   87 (110)
T 3s8s_A           78 IHAQLDIKGQ   87 (110)
T ss_dssp             CEEEECSTTH
T ss_pred             EEEEECCCCc
Confidence            9999876443

>1why_A Hypothetical protein riken cDNA 1810017N16; RNA recognition motif, RRM, RNA binding domain, RBD, RNP, structural genomics; NMR {Mus musculus} SCOP: d.58.7.1

Probab=99.35  E-value=1.7e-12  Score=103.83  Aligned_cols=63  Identities=11%  Similarity=0.158  Sum_probs=57.1

Q ss_pred             cceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCCccc
Q psy5142         118 IAQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLKF  196 (410)
Q Consensus       118 ~~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~~~  196 (410)
                      ..++|||+|||.++|+++|+++|++|    |.|.+|.|.+          .+|||||+|.+.++|++|++.+++  ..+
T Consensus        16 ~~~~l~V~nlp~~~t~~~l~~~F~~~----G~v~~v~~~~----------~~g~afV~f~~~~~A~~A~~~l~g--~~~   78 (97)
T 1why_A           16 PTTRLWVGGLGPNTSLAALAREFDRF----GSIRTIDHVK----------GDSFAYIQYESLDAAQAACAKMRG--FPL   78 (97)
T ss_dssp             CCSCEEEECCCSSCCHHHHHHHHHTT----SCEEEEEECS----------SSCCEEEEESSHHHHHHHHHHHTT--CBC
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhc----CCeeEEEEeC----------CCCEEEEEECCHHHHHHHHHHHCC--CEe
Confidence            45899999999999999999999999    9999999873          278999999999999999999886  445

>2dnq_A RNA-binding protein 4B; RRM domain,RBD, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.35  E-value=2.4e-12  Score=101.55  Aligned_cols=62  Identities=23%  Similarity=0.327  Sum_probs=56.5

Q ss_pred             ccceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCCccc
Q psy5142         117 LIAQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLKF  196 (410)
Q Consensus       117 ~~~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~~~  196 (410)
                      ...++|||+|||.++|+++|+++|++|    |.|..|.|+            +|||||+|.+.++|++|++.+++  ..+
T Consensus         6 ~~~~~l~V~nlp~~~t~~~l~~~F~~~----G~i~~v~~~------------~g~afV~f~~~~~A~~A~~~l~g--~~~   67 (90)
T 2dnq_A            6 SGMVKLFIGNLPREATEQEIRSLFEQY----GKVLECDII------------KNYGFVHIEDKTAAEDAIRNLHH--YKL   67 (90)
T ss_dssp             SCCEEEEEESCCSSCCHHHHHHHHHTS----SCEEEEEEE------------TTEEEEEESSHHHHHHHHHHHTT--CBC
T ss_pred             CCCeEEEEeCCCCCCCHHHHHHHHHhC----CCEEEEEEE------------CCEEEEEECCHHHHHHHHHHhcC--Ccc
Confidence            346899999999999999999999999    999999885            67999999999999999999886  455

>1x5o_A RNA binding motif, single-stranded interacting protein 1; structure genomics, RRM domain, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.35  E-value=1.7e-12  Score=107.04  Aligned_cols=66  Identities=12%  Similarity=0.238  Sum_probs=61.8

Q ss_pred             ccceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCC
Q psy5142         117 LIAQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKD  191 (410)
Q Consensus       117 ~~~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g  191 (410)
                      ...++|||+|||+++|+++|+++|++|    |.|..|.|+++. ++    .++|||||+|.+.++|++|++.++|
T Consensus        23 ~~~~~l~V~nlp~~~t~~~l~~~F~~~----G~i~~~~i~~~~-~g----~~~g~afV~f~~~~~a~~A~~~l~g   88 (114)
T 1x5o_A           23 QDPTNLYISNLPLSMDEQELENMLKPF----GQVISTRILRDS-SG----TSRGVGFARMESTEKCEAVIGHFNG   88 (114)
T ss_dssp             CCTTEEEEESCCTTCCHHHHHHTTTTT----SCEEEEEEEECS-SS----CEEEEEEEEESCHHHHHHHHHHHBT
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhc----CCEEEEEEEECC-CC----CcceEEEEEECCHHHHHHHHHHhCC
Confidence            457899999999999999999999999    999999999988 43    7899999999999999999999987

>2fc9_A NCL protein; structure genomics, RRM_1 domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.35  E-value=1e-12  Score=105.90  Aligned_cols=66  Identities=24%  Similarity=0.335  Sum_probs=57.6

Q ss_pred             ccceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCCccc
Q psy5142         117 LIAQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLKF  196 (410)
Q Consensus       117 ~~~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~~~  196 (410)
                      ...++|||+|||+++|+++|+++|++|    |.|   +++++..+     .++|||||+|.+.++|++|+..+++  ..+
T Consensus        13 ~~~~~l~V~nLp~~~t~~~l~~~F~~~----g~v---~~~~~~~g-----~~~g~afV~f~~~~~A~~A~~~l~g--~~~   78 (101)
T 2fc9_A           13 GESKTLVLSNLSYSATEETLQEVFEKA----TFI---KVPQNQNG-----KSKGYAFIEFASFEDAKEALNSCNK--REI   78 (101)
T ss_dssp             CCCSEEEEESCCTTCCHHHHHHHCSSC----SEE---ECCBCSSS-----CBCSEEEEECSSHHHHHHHHHHTSS--EEE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhC----CEE---EEEECCCC-----CEeeEEEEEECCHHHHHHHHHHhCC--CEe
Confidence            457999999999999999999999999    987   56665443     7899999999999999999999886  455

>2cpj_A Non-POU domain-containing octamer-binding protein; RNA recognition motif, RRM, RNP, structural genomics, NPPSFA; NMR {Mus musculus} SCOP: d.58.7.1

Probab=99.34  E-value=1e-12  Score=105.54  Aligned_cols=64  Identities=22%  Similarity=0.345  Sum_probs=58.1

Q ss_pred             ccceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCCccc
Q psy5142         117 LIAQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLKF  196 (410)
Q Consensus       117 ~~~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~~~  196 (410)
                      ...++|||+|||+++|+++|+++|++|    |.|..|.|++          .+|||||+|.+.++|++|++.++|  ..+
T Consensus        13 ~~~~~l~V~nlp~~~t~~~l~~~F~~~----G~i~~v~~~~----------~kg~afV~f~~~~~a~~a~~~l~g--~~~   76 (99)
T 2cpj_A           13 TQRSRLFVGNLPPDITEEEMRKLFEKY----GKAGEVFIHK----------DKGFGFIRLETRTLAEIAKVELDN--MPL   76 (99)
T ss_dssp             CCTTEEEEESCCTTCCHHHHHHHTSTT----CCCSEEEEET----------TTTEEEEECSSSHHHHHHHHHHTT--CCB
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHhhc----CCeEEEEEec----------CCCEEEEEECCHHHHHHHHHHhCC--CEe
Confidence            456899999999999999999999999    9999999873          479999999999999999999886  445

>1wel_A RNA-binding protein 12; structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.34  E-value=3.2e-13  Score=113.39  Aligned_cols=69  Identities=26%  Similarity=0.334  Sum_probs=58.5

Q ss_pred             ccceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCCccc
Q psy5142         117 LIAQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLKF  196 (410)
Q Consensus       117 ~~~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~~~  196 (410)
                      ...++|||+|||+++|+++|+++|++|    |.|..+.++.+..++    .++|||||+|.+.++|++||+ +++  ..+
T Consensus        23 ~~~~~l~V~nLp~~~te~~l~~~F~~~----G~v~~~~~~~~~~~g----~~~G~afV~F~~~~~a~~Al~-~~g--~~~   91 (124)
T 1wel_A           23 EAGFCVYLKGLPFEAENKHVIDFFKKL----DIVEDSIYIAYGPNG----KATGEGFVEFRNEADYKAALC-RHK--QYM   91 (124)
T ss_dssp             CCCCEEEEECCCTTCCHHHHHHHSCSS----CBCTTTCEEEECTTS----SEEEEEEEEBSSSHHHHHHHT-SCS--BCS
T ss_pred             CCCcEEEEeCCCCCCCHHHHHHHHHhc----CCccceEEEEECCCC----CCCeEEEEEECCHHHHHHHHH-hCC--CeE
Confidence            346899999999999999999999999    999885444444443    789999999999999999999 775  455

>2hgn_A Heterogeneous nuclear ribonucleoprotein F; RNA recognition motif, G-tract, G-quadruplex, alternative splicing, RNA binding protein; NMR {Homo sapiens} PDB: 2kg1_A

Probab=99.34  E-value=5.5e-13  Score=114.49  Aligned_cols=67  Identities=19%  Similarity=0.261  Sum_probs=59.2

Q ss_pred             ccceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCCccc
Q psy5142         117 LIAQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLKF  196 (410)
Q Consensus       117 ~~~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~~~  196 (410)
                      ...++|||+|||+++|+++|+++|++|    | |.+|+|+++..+     +++|||||+|.+.++|++|| .+++  ..+
T Consensus        44 ~~~~~lfV~nLp~~~te~dL~~~F~~~----G-i~~v~i~~d~~g-----~srGfaFV~F~~~e~A~~Al-~~~g--~~l  110 (139)
T 2hgn_A           44 TTGHCVHMRGLPYKATENDIYNFFSPL----N-PVRVHIEIGPDG-----RVTGEADVEFATHEEAVAAM-SKDR--ANM  110 (139)
T ss_dssp             -CCCCEECCSCCTTCCHHHHHHHHCSC----C-CSEEECCCSSSS-----CSSCCCEEECSHHHHHHHHT-TCCS--CSS
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhc----C-CeEEEEEECCCC-----CCceEEEEEeCCHHHHHHHH-hhCC--CEE
Confidence            456899999999999999999999999    9 779999998774     89999999999999999999 5564  445

>2a3j_A U1 small nuclear ribonucleoprotein A; computationally designed protein, RRM, U1A, RNA binding protein; NMR {Homo sapiens}

Probab=99.34  E-value=2.1e-12  Score=109.10  Aligned_cols=66  Identities=15%  Similarity=0.319  Sum_probs=58.1

Q ss_pred             cceeeEeecCCCCCCHHHHH----HHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCC
Q psy5142         118 IAQSLYVKYIPVDATLDDIK----DFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKN  193 (410)
Q Consensus       118 ~~rtv~V~~lp~~~t~~~L~----~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~  193 (410)
                      ..++|||+|||+.+++++|+    ++|++|    |.|.+|.+.+.  +     .++|||||+|.+.++|.+|+..++|  
T Consensus        28 p~~~LfV~nL~~~~~e~~L~~~L~~~F~~~----G~I~~v~i~~~--~-----~~rG~aFV~F~~~~~A~~Ai~~lng--   94 (127)
T 2a3j_A           28 PSQVVLITNINPEVPKEKLQALLYALASSQ----GDILDIVVDLS--D-----DNSGKAYIVFATQESAQAFVEAFQG--   94 (127)
T ss_dssp             CCSEEEEESCCTTSCHHHHHHHHHHHHHHH----SCEEEEEECCC--C-----SSCCCEEEEESSHHHHHHHHHHSTT--
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHHHhccC----CCeEEEEeccC--C-----CcCCEEEEEECCHHHHHHHHHHHCC--
Confidence            46899999999999999876    799999    99999988642  2     6799999999999999999999997  


Q ss_pred             ccc
Q psy5142         194 LKF  196 (410)
Q Consensus       194 ~~~  196 (410)
                      ..+
T Consensus        95 ~~l   97 (127)
T 2a3j_A           95 YPF   97 (127)
T ss_dssp             CCC
T ss_pred             CEe
Confidence            455

>1why_A Hypothetical protein riken cDNA 1810017N16; RNA recognition motif, RRM, RNA binding domain, RBD, RNP, structural genomics; NMR {Mus musculus} SCOP: d.58.7.1

Probab=99.34  E-value=3.2e-12  Score=102.25  Aligned_cols=76  Identities=13%  Similarity=0.265  Sum_probs=70.0

Q ss_pred             CCCCeEEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCCCceEEEEeCChhHHHHHHHHhcCCCeEEc--CeEEEE
Q psy5142         272 LPTGALLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVGEPTAFVRYKKENNAEAVLKALGSKEIVIK--DVKVSI  349 (410)
Q Consensus       272 ~~~g~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g~~~afV~F~~~e~A~~Al~~l~~~~~~i~--g~~v~v  349 (410)
                      .++.+.|+|.|||+.+++++|+++|++||    .|..|++.++.++|||+|.+.++|++|++.|  ++..++  |+.|.|
T Consensus        14 ~~~~~~l~V~nlp~~~t~~~l~~~F~~~G----~v~~v~~~~~~g~afV~f~~~~~A~~A~~~l--~g~~~~~~g~~l~V   87 (97)
T 1why_A           14 ANPTTRLWVGGLGPNTSLAALAREFDRFG----SIRTIDHVKGDSFAYIQYESLDAAQAACAKM--RGFPLGGPDRRLRV   87 (97)
T ss_dssp             CCCCSCEEEECCCSSCCHHHHHHHHHTTS----CEEEEEECSSSCCEEEEESSHHHHHHHHHHH--TTCBCSSSSCBCEE
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhcC----CeeEEEEeCCCCEEEEEECCHHHHHHHHHHH--CCCEeCCCCcEEEE
Confidence            34567899999999999999999999999    9999999998889999999999999999999  677888  999999


Q ss_pred             EecC
Q psy5142         350 EVVT  353 (410)
Q Consensus       350 ~~l~  353 (410)
                      ....
T Consensus        88 ~~a~   91 (97)
T 1why_A           88 DFAK   91 (97)
T ss_dssp             EECC
T ss_pred             EECC
Confidence            8765

>2dnp_A RNA-binding protein 14; RRM domain, RBD, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.33  E-value=7e-12  Score=98.84  Aligned_cols=73  Identities=18%  Similarity=0.334  Sum_probs=67.8

Q ss_pred             CCCeEEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCCCceEEEEeCChhHHHHHHHHhcCCCeEEcCeEEEEEec
Q psy5142         273 PTGALLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVGEPTAFVRYKKENNAEAVLKALGSKEIVIKDVKVSIEVV  352 (410)
Q Consensus       273 ~~g~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g~~~afV~F~~~e~A~~Al~~l~~~~~~i~g~~v~v~~l  352 (410)
                      .+.+.|||.|||+.+++++|+++|++||    .|..|.+.++  +|||+|.+.++|++|+..|  ++..++|+.|.|...
T Consensus         7 ~~~~~l~V~nlp~~~t~~~l~~~F~~~G----~v~~~~~~~~--~afV~f~~~~~a~~A~~~l--~g~~~~g~~l~v~~a   78 (90)
T 2dnp_A            7 GNTWKIFVGNVSAACTSQELRSLFERRG----RVIECDVVKD--YAFVHMEKEADAKAAIAQL--NGKEVKGKRINVELS   78 (90)
T ss_dssp             CCSCCEEEESCCTTCCHHHHHHHHHHHS----CEEEEEECSS--CEEEEESCHHHHHHHHHHH--TTCEETTEECEEEES
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHcCC----CEEEEEEECC--EEEEEECCHHHHHHHHHHh--CCCEECCcEEEEEEC
Confidence            4567899999999999999999999999    9999999875  9999999999999999999  678999999999986


Q ss_pred             C
Q psy5142         353 T  353 (410)
Q Consensus       353 ~  353 (410)
                      .
T Consensus        79 ~   79 (90)
T 2dnp_A           79 T   79 (90)
T ss_dssp             C
T ss_pred             C
Confidence            4

>1x4g_A Nucleolysin TIAR; structural genomics, RRM domain, TIA-1 related protein, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.33  E-value=6.4e-12  Score=102.76  Aligned_cols=76  Identities=14%  Similarity=0.182  Sum_probs=71.0

Q ss_pred             CCCCeEEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCCCceEEEEeCChhHHHHHHHHhcCCCeEEcCeEEEEEe
Q psy5142         272 LPTGALLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVGEPTAFVRYKKENNAEAVLKALGSKEIVIKDVKVSIEV  351 (410)
Q Consensus       272 ~~~g~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g~~~afV~F~~~e~A~~Al~~l~~~~~~i~g~~v~v~~  351 (410)
                      .+..+.|||.|||..+++++|+++|++||    .|..|.+..+.++|||.|.+.++|++|+..|  ++..++|+.|.|..
T Consensus        22 ~~~~~~l~V~nl~~~~t~~~l~~~F~~~G----~i~~v~i~~~~g~afV~f~~~~~a~~A~~~l--~g~~~~g~~l~v~~   95 (109)
T 1x4g_A           22 SPKNCTVYCGGIASGLTDQLMRQTFSPFG----QIMEIRVFPEKGYSFVRFSTHESAAHAIVSV--NGTTIEGHVVKCYW   95 (109)
T ss_dssp             CSSCCEEEEECCSSCCCHHHHHHHHHHHS----CEEEEEEETTTTEEEEEESSHHHHHHHHHHH--TTCEETTEECEEEC
T ss_pred             CCCCcEEEEeCCCCCCCHHHHHHHHHhcC----CeEEEEEeCCCCEEEEEECCHHHHHHHHHHc--CCCEECCcEEEEEe
Confidence            45678999999999999999999999999    9999999999999999999999999999999  67899999999987


Q ss_pred             cC
Q psy5142         352 VT  353 (410)
Q Consensus       352 l~  353 (410)
                      ..
T Consensus        96 a~   97 (109)
T 1x4g_A           96 GK   97 (109)
T ss_dssp             CC
T ss_pred             cC
Confidence            64

>2dnz_A Probable RNA-binding protein 23; RNA recognition motif, RRM, RNA binding domain, RBD, RNP, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=99.33  E-value=6.9e-12  Score=99.69  Aligned_cols=75  Identities=15%  Similarity=0.220  Sum_probs=67.8

Q ss_pred             CCCeEEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCCC------ceEEEEeCChhHHHHHHHHhcCCCeEEcCeE
Q psy5142         273 PTGALLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVGE------PTAFVRYKKENNAEAVLKALGSKEIVIKDVK  346 (410)
Q Consensus       273 ~~g~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g~------~~afV~F~~~e~A~~Al~~l~~~~~~i~g~~  346 (410)
                      ++.+.|+|.|||..+++++|+++|++||    .|..|.+..+.      ++|||+|.+.++|++|+..|  ++..++|+.
T Consensus         3 ~~~~~l~v~nlp~~~t~~~l~~~f~~~G----~v~~v~i~~~~~~~~~~g~afV~f~~~~~a~~A~~~l--~g~~~~g~~   76 (95)
T 2dnz_A            3 SGSSGLYVGSLHFNITEDMLRGIFEPFG----KIDNIVLMKDSDTGRSKGYGFITFSDSECARRALEQL--NGFELAGRP   76 (95)
T ss_dssp             SCCCEEEEESCCTTCCHHHHHHHHTTTS----CEEEEEEECCSSSCCCCSEEEEEESCHHHHHHHHHHH--TTCCSSSSC
T ss_pred             CCCcEEEEeCCCCCCCHHHHHHHHHhcC----CEeEEEEeecCCCCceeeEEEEEECCHHHHHHHHHHh--CCCeeCCcE
Confidence            4567999999999999999999999999    99999998753      47999999999999999999  678999999


Q ss_pred             EEEEecC
Q psy5142         347 VSIEVVT  353 (410)
Q Consensus       347 v~v~~l~  353 (410)
                      |.|....
T Consensus        77 l~V~~a~   83 (95)
T 2dnz_A           77 MRVGHVT   83 (95)
T ss_dssp             CEEEESS
T ss_pred             EEEEEcc
Confidence            9999764

>3mdf_A Peptidyl-prolyl CIS-trans isomerase E; RRM domain, PHD finger, CYP33, MLL, RNA binding protein, ISO mRNA processing, mRNA splicing, nucleus; 1.85A {Homo sapiens} SCOP: d.58.7.1 PDB: 2kyx_A 3lpy_A*

Probab=99.33  E-value=6e-12  Score=97.84  Aligned_cols=74  Identities=16%  Similarity=0.280  Sum_probs=66.6

Q ss_pred             CCCeEEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCC------CceEEEEeCChhHHHHHHHHhcCCCeEEcCeE
Q psy5142         273 PTGALLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVG------EPTAFVRYKKENNAEAVLKALGSKEIVIKDVK  346 (410)
Q Consensus       273 ~~g~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g------~~~afV~F~~~e~A~~Al~~l~~~~~~i~g~~  346 (410)
                      ++.+.|+|.|||+++++++|+++|++||    .|..|.+..+      .++|||+|.+.++|++|++.|  ++..++|+.
T Consensus         5 ~~~~~l~V~nl~~~~~~~~l~~~f~~~G----~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~A~~~l--~g~~~~g~~   78 (85)
T 3mdf_A            5 TTKRVLYVGGLAEEVDDKVLHAAFIPFG----DITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDNM--NESELFGRT   78 (85)
T ss_dssp             CCSSEEEEECCCTTCCHHHHHHHHGGGS----CEEEEECCEETTTTEECSEEEEEESSHHHHHHHHHHH--TTCEETTEE
T ss_pred             CCCCEEEEECCCCCCCHHHHHHHHhccC----CEEEEEEEECCCCCccccEEEEEECCHHHHHHHHHHh--CCCEECCcE
Confidence            4567999999999999999999999999    9999988653      457999999999999999999  678999999


Q ss_pred             EEEEec
Q psy5142         347 VSIEVV  352 (410)
Q Consensus       347 v~v~~l  352 (410)
                      |.|+..
T Consensus        79 l~v~~a   84 (85)
T 3mdf_A           79 IRVNLA   84 (85)
T ss_dssp             CEEEEC
T ss_pred             EEEEEc
Confidence            999864

>2cqi_A Nucleolysin TIAR; RNA recognition motif, RRM, RNA binding domain, RBD, RNP, ST genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.33  E-value=1.8e-11  Score=98.86  Aligned_cols=76  Identities=17%  Similarity=0.217  Sum_probs=69.3

Q ss_pred             CCCCeEEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCC----CceEEEEeCChhHHHHHHHHhcCCCeEEcCeEE
Q psy5142         272 LPTGALLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVG----EPTAFVRYKKENNAEAVLKALGSKEIVIKDVKV  347 (410)
Q Consensus       272 ~~~g~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g----~~~afV~F~~~e~A~~Al~~l~~~~~~i~g~~v  347 (410)
                      ....+.|||.|||+.+++++|+++|++||    .|..|.+..+    .++|||+|.+.++|++|+..|  ++..++|+.|
T Consensus        12 ~~~~~~l~V~nlp~~~t~~~l~~~F~~~G----~i~~v~i~~~~~~~~g~afV~f~~~~~a~~A~~~l--~g~~~~g~~l   85 (103)
T 2cqi_A           12 DGQPRTLYVGNLSRDVTEVLILQLFSQIG----PCKSCKMITEHTSNDPYCFVEFYEHRDAAAALAAM--NGRKILGKEV   85 (103)
T ss_dssp             SCCCCEEEEESCCTTCCHHHHHHHHHHHS----CEEEEEEECCCCSSCCEEEEEESSHHHHHHHHHHH--TTEEETTEEE
T ss_pred             CCCCCEEEEeCCCccCCHHHHHHHHHhcC----CEeEEEEEecCCCCCCEEEEEECCHHHHHHHHHHh--CCCCcCCCeE
Confidence            45678999999999999999999999999    9999998873    458999999999999999999  6899999999


Q ss_pred             EEEecC
Q psy5142         348 SIEVVT  353 (410)
Q Consensus       348 ~v~~l~  353 (410)
                      .|....
T Consensus        86 ~V~~a~   91 (103)
T 2cqi_A           86 KVNWAT   91 (103)
T ss_dssp             EEEECC
T ss_pred             EEEECC
Confidence            999865

>2cpj_A Non-POU domain-containing octamer-binding protein; RNA recognition motif, RRM, RNP, structural genomics, NPPSFA; NMR {Mus musculus} SCOP: d.58.7.1

Probab=99.33  E-value=4.9e-12  Score=101.55  Aligned_cols=77  Identities=13%  Similarity=0.254  Sum_probs=71.4

Q ss_pred             CCCCCeEEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCCCceEEEEeCChhHHHHHHHHhcCCCeEEcCeEEEEE
Q psy5142         271 ELPTGALLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVGEPTAFVRYKKENNAEAVLKALGSKEIVIKDVKVSIE  350 (410)
Q Consensus       271 ~~~~g~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g~~~afV~F~~~e~A~~Al~~l~~~~~~i~g~~v~v~  350 (410)
                      ..++.+.|||.|||+.+++++|+++|++||    .|..|.+.+..++|||+|.+.++|++|++.|  ++..++|+.|.|.
T Consensus        11 ~~~~~~~l~V~nlp~~~t~~~l~~~F~~~G----~i~~v~~~~~kg~afV~f~~~~~a~~a~~~l--~g~~~~g~~l~v~   84 (99)
T 2cpj_A           11 TFTQRSRLFVGNLPPDITEEEMRKLFEKYG----KAGEVFIHKDKGFGFIRLETRTLAEIAKVEL--DNMPLRGKQLRVR   84 (99)
T ss_dssp             CCCCTTEEEEESCCTTCCHHHHHHHTSTTC----CCSEEEEETTTTEEEEECSSSHHHHHHHHHH--TTCCBTTBCCEEE
T ss_pred             cCCCCCEEEEeCCCCCCCHHHHHHHHhhcC----CeEEEEEecCCCEEEEEECCHHHHHHHHHHh--CCCEeCCceEEEE
Confidence            456678999999999999999999999999    9999999999999999999999999999999  6788999999999


Q ss_pred             ecC
Q psy5142         351 VVT  353 (410)
Q Consensus       351 ~l~  353 (410)
                      ...
T Consensus        85 ~a~   87 (99)
T 2cpj_A           85 FAC   87 (99)
T ss_dssp             ESS
T ss_pred             EcC
Confidence            864

>1nu4_A U1A RNA binding domain; RNA recognition motif, U1 small nuclear ribonucleoprotein, R binding domain, RNA binding protein; HET: MLA; 1.80A {Homo sapiens} SCOP: d.58.7.1 PDB: 1drz_A* 1urn_A 3hhn_B* 3egz_A* 1zzn_A* 1u6b_A* 3cun_A* 3cul_A* 3g8s_A* 3g8t_A* 3g96_A* 3g9c_A* 3irw_P* 3mum_P* 3mur_P* 3mut_P* 3muv_P* 3mxh_P* 3p49_B 3r1h_A* ...

Probab=99.32  E-value=1.7e-12  Score=103.68  Aligned_cols=67  Identities=22%  Similarity=0.444  Sum_probs=59.7

Q ss_pred             ccceeeEeecCCCCCCHHHHH----HHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCC
Q psy5142         117 LIAQSLYVKYIPVDATLDDIK----DFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDK  192 (410)
Q Consensus       117 ~~~rtv~V~~lp~~~t~~~L~----~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~  192 (410)
                      ...++|||+|||.++|+++|+    ++|++|    |.|..|.|++   ++    .++|||||+|.+.++|.+|+..++| 
T Consensus         6 ~~~~~l~V~nLp~~~~~~~l~~~l~~~f~~~----G~i~~v~i~~---~~----~~~g~afV~f~~~~~A~~A~~~l~g-   73 (97)
T 1nu4_A            6 RPNHTIYINNLNEKIKKDELKKSLHAIFSRF----GQILDILVSR---SL----KMRGQAFVIFKEVSSATNALRSMQG-   73 (97)
T ss_dssp             CCCSEEEEESCCTTSCHHHHHHHHHHHHGGG----SCEEEEECCH---HH----HHTTCEEEEESSHHHHHHHHHHHTT-
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHHHHHhC----CCEEEEEEEc---CC----CcCcEEEEEeCCHHHHHHHHHHhCC-
Confidence            346899999999999999999    999999    9999999874   22    6799999999999999999999886 


Q ss_pred             Cccc
Q psy5142         193 NLKF  196 (410)
Q Consensus       193 ~~~~  196 (410)
                       ..+
T Consensus        74 -~~~   76 (97)
T 1nu4_A           74 -FPF   76 (97)
T ss_dssp             -CEE
T ss_pred             -CEE
Confidence             455

>3bs9_A Nucleolysin TIA-1 isoform P40; RNA recognition motif, RRM, RNA binding domain, RBD, RNA splicing, apoptosis, phosphoprotein, RNA-binding; 1.95A {Homo sapiens}

Probab=99.32  E-value=7.5e-12  Score=97.69  Aligned_cols=75  Identities=11%  Similarity=0.110  Sum_probs=66.8

Q ss_pred             CCCeEEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCCC------ceEEEEeCChhHHHHHHHHhcCCCeEEcCeE
Q psy5142         273 PTGALLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVGE------PTAFVRYKKENNAEAVLKALGSKEIVIKDVK  346 (410)
Q Consensus       273 ~~g~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g~------~~afV~F~~~e~A~~Al~~l~~~~~~i~g~~  346 (410)
                      ++.+.|+|.|||..+++++|+++|++||    .|..|.+..+.      ++|||+|.+.++|++|+..|  ++..++|+.
T Consensus         4 ~~~~~l~v~nlp~~~t~~~l~~~F~~~G----~i~~v~i~~~~~~~~~~g~afV~f~~~~~A~~A~~~l--~g~~~~g~~   77 (87)
T 3bs9_A            4 GSHFHVFVGDLSPEITTAAIAAAFAPFG----RISDARVVKDMATGKSKGYGFVSFFNKWDAENAIQQM--GGQWLGGRQ   77 (87)
T ss_dssp             --CEEEEEESCCTTCCHHHHHHHHGGGS----CEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHH--TTCEETTEE
T ss_pred             CCceEEEEeCCCCCCCHHHHHHHHHhcC----CEeEEEEEecCCCCccceEEEEEECCHHHHHHHHHHc--CCCEECCeE
Confidence            4568999999999999999999999999    99999987653      46999999999999999999  678999999


Q ss_pred             EEEEecC
Q psy5142         347 VSIEVVT  353 (410)
Q Consensus       347 v~v~~l~  353 (410)
                      |.|....
T Consensus        78 l~v~~a~   84 (87)
T 3bs9_A           78 IRTNWAT   84 (87)
T ss_dssp             CEEEEEC
T ss_pred             EEEEecC
Confidence            9998765

>2cpx_A Hypothetical protein FLJ11016; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.32  E-value=1e-12  Score=108.37  Aligned_cols=70  Identities=23%  Similarity=0.251  Sum_probs=56.8

Q ss_pred             ccceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCCccc
Q psy5142         117 LIAQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLKF  196 (410)
Q Consensus       117 ~~~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~~~  196 (410)
                      ...++|||+|||+++|+++|+++|++|    |.|..|.+.....++    .++|||||+|.+.++|++|+..++|  ..+
T Consensus        23 ~~~~~l~V~nLp~~~t~~~l~~~f~~~----G~v~~~~~~~~~~~g----~~~g~afV~f~~~~~a~~Ai~~l~g--~~~   92 (115)
T 2cpx_A           23 EPNKVLYLKNLSPRVTERDLVSLFARF----QEKKGPPIQFRMMTG----RMRGQAFITFPNKEIAWQALHLVNG--YKL   92 (115)
T ss_dssp             SCCSEEEEECCCTTCCHHHHHHHTHHH----HHSSSSCCEEEEECS----SSCSEEEEECSSHHHHHHHHHHSTT--CBC
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHHh----CCccceEEEEEcCCC----ccceEEEEEECCHHHHHHHHHHhCC--CEe
Confidence            346899999999999999999999999    999433222221133    7899999999999999999999886  455

>2i2y_A Fusion protein consists of immunoglobin G- binding protein G and splicing factor,...; protein-RNA complex RRM alpha-beta sandwich BETA1-alpha1- BETA2-BETA3-alpha2-BETA4; NMR {Streptococcus SP} PDB: 2i38_A

Probab=99.32  E-value=4.3e-12  Score=109.85  Aligned_cols=66  Identities=14%  Similarity=0.200  Sum_probs=59.7

Q ss_pred             hccceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCCcc
Q psy5142         116 DLIAQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLK  195 (410)
Q Consensus       116 ~~~~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~~  195 (410)
                      ....++|||+|||+++|+++|+++|++|    |.|.+|+|+++         ++|||||+|.+.++|.+|+..++|  ..
T Consensus        70 ~~~~~~l~V~nl~~~~t~~~l~~~F~~~----G~i~~v~i~~~---------~~g~afV~f~~~~~a~~A~~~l~g--~~  134 (150)
T 2i2y_A           70 CPLDCKVYVGNLGNNGNKTELERAFGYY----GPLRSVWVARN---------PPGFAFVEFEDPRDAADAVRELDG--RT  134 (150)
T ss_dssp             STTSCEEEEESCCSCCSCHHHHHHHHHH----SCEEEEEECSS---------SCSEEEEEESSHHHHHHHHHHHSS--SC
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhh----CCEEEEEEeeC---------CCcEEEEEECCHHHHHHHHHHcCC--CE
Confidence            3567999999999999999999999999    99999999863         489999999999999999999886  44


Q ss_pred             c
Q psy5142         196 F  196 (410)
Q Consensus       196 ~  196 (410)
                      +
T Consensus       135 ~  135 (150)
T 2i2y_A          135 L  135 (150)
T ss_dssp             S
T ss_pred             E
Confidence            5

>2cq3_A RNA-binding protein 9; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.32  E-value=1.1e-11  Score=100.15  Aligned_cols=76  Identities=20%  Similarity=0.317  Sum_probs=69.5

Q ss_pred             CCCCeEEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCC----CceEEEEeCChhHHHHHHHHhcCCCeEEcCeEE
Q psy5142         272 LPTGALLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVG----EPTAFVRYKKENNAEAVLKALGSKEIVIKDVKV  347 (410)
Q Consensus       272 ~~~g~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g----~~~afV~F~~~e~A~~Al~~l~~~~~~i~g~~v  347 (410)
                      ..+.+.|||.|||+.+++++|+++|++||    .|..|.+..+    .++|||+|.+.++|++|+..|  ++..++|+.|
T Consensus        12 ~~~~~~l~V~nlp~~~t~~~l~~~f~~~G----~v~~v~i~~~~~~~~g~afV~f~~~~~a~~A~~~l--~g~~~~g~~l   85 (103)
T 2cq3_A           12 KSTPKRLHVSNIPFRFRDPDLRQMFGQFG----KILDVEIIFNERGSKGFGFVTFENSADADRAREKL--HGTVVEGRKI   85 (103)
T ss_dssp             SCCCCEEEEESCCTTCCHHHHHHHGGGTS----CEEEEEEECCTTTTCCEEEEEESCHHHHHHHHHHH--TTCEETTEEC
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhcC----CeEEEEEEecCCCCcEEEEEEECCHHHHHHHHHHh--CCCEECCEEE
Confidence            45668999999999999999999999999    9999999865    468999999999999999999  6789999999


Q ss_pred             EEEecC
Q psy5142         348 SIEVVT  353 (410)
Q Consensus       348 ~v~~l~  353 (410)
                      .|....
T Consensus        86 ~v~~a~   91 (103)
T 2cq3_A           86 EVNNAT   91 (103)
T ss_dssp             EEEECC
T ss_pred             EEEEcc
Confidence            999865

>1whw_A Hypothetical protein riken cDNA 1200009A02; RNA recognition motif, RRM, RNA binding domain, RBD, RNP, structural genomics; NMR {Mus musculus} SCOP: d.58.7.1

Probab=99.32  E-value=9.6e-12  Score=99.69  Aligned_cols=75  Identities=13%  Similarity=0.191  Sum_probs=68.7

Q ss_pred             CCCeEEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCCC------ceEEEEeCChhHHHHHHHHhcCCCeEEcCeE
Q psy5142         273 PTGALLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVGE------PTAFVRYKKENNAEAVLKALGSKEIVIKDVK  346 (410)
Q Consensus       273 ~~g~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g~------~~afV~F~~~e~A~~Al~~l~~~~~~i~g~~  346 (410)
                      .+.+.|+|.|||+.+++++|+++|++||    .|..|.+..+.      ++|||+|.+.++|++|+..|  ++..++|+.
T Consensus         6 ~~~~~l~V~nlp~~~t~~~l~~~F~~~G----~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~A~~~l--~g~~~~g~~   79 (99)
T 1whw_A            6 SGSGRLFVRNLSYTSSEEDLEKLFSAYG----PLSELHYPIDSLTKKPKGFAFVTFMFPEHAVKAYAEV--DGQVFQGRM   79 (99)
T ss_dssp             CSCEEEEEECCCTTCCHHHHHHHHHTTS----CEEEEECCCCTTTCCCCSEEEEEESSHHHHHHHHHHT--TTEESSSCE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcC----CEeEEEEEecCCCCCcCeEEEEEECCHHHHHHHHHHh--CCCEECCcE
Confidence            4568999999999999999999999999    99999997654      57999999999999999999  679999999


Q ss_pred             EEEEecC
Q psy5142         347 VSIEVVT  353 (410)
Q Consensus       347 v~v~~l~  353 (410)
                      |.|....
T Consensus        80 l~V~~a~   86 (99)
T 1whw_A           80 LHVLPST   86 (99)
T ss_dssp             EEEEECC
T ss_pred             EEEEEcC
Confidence            9999865

>2lcw_A RNA-binding protein FUS; RRM, nucleic acid binding protein; NMR {Homo sapiens}

Probab=99.00  E-value=1.4e-13  Score=114.02  Aligned_cols=70  Identities=21%  Similarity=0.341  Sum_probs=63.5

Q ss_pred             ccceeeEeecCCCCCCHHHHHHHHhhccCCCCceEE--------EEEcccCcccccccccccEEEEEecCHHHHHHHHHh
Q psy5142         117 LIAQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITN--------IIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNE  188 (410)
Q Consensus       117 ~~~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~--------v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~  188 (410)
                      ...++|||+|||+++|+++|+++|++|    |.|..        |.|+++..++    .++|||||+|.+.++|++|++.
T Consensus         5 ~~~~~l~V~nLp~~~t~~~l~~~F~~~----G~i~~~~~~~~~~v~i~~~~~~g----~~~g~afV~f~~~~~A~~Ai~~   76 (116)
T 2lcw_A            5 SDNNTIFVQGLGENVTIESVADYFKQI----GIIKTNKKTGQPMINLYTDRETG----KLKGEATVSFDDPPSAKAAIDW   76 (116)
Confidence            457899999999999999999999999    99999        8898887665    7899999999999999999998


Q ss_pred             cCCCCccc
Q psy5142         189 NKDKNLKF  196 (410)
Q Consensus       189 ~~g~~~~~  196 (410)
                      ++|  ..+
T Consensus        77 l~g--~~~   82 (116)
T 2lcw_A           77 FDG--KEF   82 (116)
Confidence            886  455

>2hvz_A Splicing factor, arginine/serine-rich 7; RRM, RNA binding protein; NMR {Homo sapiens}

Probab=99.32  E-value=1.8e-12  Score=104.53  Aligned_cols=62  Identities=16%  Similarity=0.229  Sum_probs=56.7

Q ss_pred             eeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCCccc
Q psy5142         120 QSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLKF  196 (410)
Q Consensus       120 rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~~~  196 (410)
                      ++|||+|||+++|+++|+++|++|    |.|..|.|+++         ++|||||+|.+.++|++|++.++|  ..+
T Consensus         1 ~~l~V~nLp~~~t~~~l~~~F~~~----G~i~~v~i~~~---------~~g~afV~f~~~~~a~~A~~~l~g--~~~   62 (101)
T 2hvz_A            1 MKVYVGNLGTGAGKGELERAFSYY----GPLRTVWIARN---------PPGFAFVEFEDPRDAEDAVRGLDG--KVI   62 (101)
T ss_dssp             CEEEEECCCSSCSHHHHHHHHHHH----CCCSEEEEESS---------SSSEEEEECSSHHHHHHHHHHHHH--SCS
T ss_pred             CEEEEeCCCCCCCHHHHHHHHHhc----CCeEEEEEeeC---------CCCEEEEEECCHHHHHHHHHHHCC--CeE
Confidence            489999999999999999999999    99999999864         489999999999999999998885  455

>3ulh_A THO complex subunit 4; nuclear protein, RNA binding, structural genomi center for structural genomics, JCSG, protein structure INI PSI-biology; 2.54A {Homo sapiens} PDB: 1no8_A

Probab=99.32  E-value=9.5e-12  Score=101.19  Aligned_cols=77  Identities=22%  Similarity=0.308  Sum_probs=69.3

Q ss_pred             CCCCCeEEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCC-----CceEEEEeCChhHHHHHHHHhcCCCeEEcCe
Q psy5142         271 ELPTGALLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVG-----EPTAFVRYKKENNAEAVLKALGSKEIVIKDV  345 (410)
Q Consensus       271 ~~~~g~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g-----~~~afV~F~~~e~A~~Al~~l~~~~~~i~g~  345 (410)
                      ...+++.|+|.|||+.+++++|+++|++||    .|..|.+..+     .++|||+|.+.++|++|+..|  ++..++|+
T Consensus        25 ~~~~~~~l~V~nlp~~~t~~~l~~~F~~~G----~i~~v~i~~~~~g~~~g~afV~f~~~~~a~~A~~~l--~g~~~~g~   98 (107)
T 3ulh_A           25 GVETGGKLLVSNLDFGVSDADIQELFAEFG----TLKKAAVHYDRSGRSLGTADVHFERKADALKAMKQY--NGVPLDGR   98 (107)
T ss_dssp             CCCCSEEEEEESCCTTCCHHHHHHHHHTTS----CEEEEEEEECTTSCEEEEEEEEESSHHHHHHHHHHH--TTCEETTE
T ss_pred             CCCCCCEEEEeCCCCCCCHHHHHHHHHhcC----CeEEEEEEECCCCCcceEEEEEECCHHHHHHHHHHh--CCCEeCCc
Confidence            346788999999999999999999999999    9999988854     346999999999999999999  67899999


Q ss_pred             EEEEEecC
Q psy5142         346 KVSIEVVT  353 (410)
Q Consensus       346 ~v~v~~l~  353 (410)
                      .|.|.++.
T Consensus        99 ~l~V~~a~  106 (107)
T 3ulh_A           99 PMNIQLVT  106 (107)
T ss_dssp             ECEEEEEC
T ss_pred             EEEEEEeC
Confidence            99998865

>2dnp_A RNA-binding protein 14; RRM domain, RBD, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.32  E-value=2.8e-12  Score=101.19  Aligned_cols=62  Identities=11%  Similarity=0.246  Sum_probs=56.3

Q ss_pred             ccceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCCccc
Q psy5142         117 LIAQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLKF  196 (410)
Q Consensus       117 ~~~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~~~  196 (410)
                      ...++|||+|||+++|+++|+++|++|    |.|..|.|+            ++||||+|.+.++|++|++.++|  ..+
T Consensus         7 ~~~~~l~V~nlp~~~t~~~l~~~F~~~----G~v~~~~~~------------~~~afV~f~~~~~a~~A~~~l~g--~~~   68 (90)
T 2dnp_A            7 GNTWKIFVGNVSAACTSQELRSLFERR----GRVIECDVV------------KDYAFVHMEKEADAKAAIAQLNG--KEV   68 (90)
T ss_dssp             CCSCCEEEESCCTTCCHHHHHHHHHHH----SCEEEEEEC------------SSCEEEEESCHHHHHHHHHHHTT--CEE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHcC----CCEEEEEEE------------CCEEEEEECCHHHHHHHHHHhCC--CEE
Confidence            456899999999999999999999999    999999986            45899999999999999999886  455

>4f25_A Polyadenylate-binding protein 1; RRM fold, translation initiation, RNA-binding, EIF4G-binding translation; 1.90A {Homo sapiens} PDB: 4f26_A 2k8g_A

Probab=99.31  E-value=4e-12  Score=105.29  Aligned_cols=73  Identities=14%  Similarity=0.308  Sum_probs=66.2

Q ss_pred             eEEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCCC----ceEEEEeCChhHHHHHHHHhcCCCeEEcCeEEEEEe
Q psy5142         276 ALLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVGE----PTAFVRYKKENNAEAVLKALGSKEIVIKDVKVSIEV  351 (410)
Q Consensus       276 ~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g~----~~afV~F~~~e~A~~Al~~l~~~~~~i~g~~v~v~~  351 (410)
                      ..|||.|||+++++++|+++|++||    .|..|.+..+.    ++|||+|.+.++|++||+.|  ++..++|+.|.|..
T Consensus         6 ~~lfV~nLp~~~te~~L~~~F~~~G----~v~~v~i~~d~~~~kg~afV~f~~~~~A~~Ai~~l--~~~~~~g~~i~V~~   79 (115)
T 4f25_A            6 GNIFIKNLDKSIDNKALYDTFSAFG----NILSCKVVCDENGSKGYGFVHFETQEAAERAIEKM--NGMLLNDRKVFVGR   79 (115)
T ss_dssp             CEEEEESCCTTCCHHHHHHHHGGGS----CEEEEEEEEETTEEEEEEEEEESCHHHHHHHHHHH--TTCEETTEECEEEE
T ss_pred             CEEEECCCCCCCCHHHHHHHHhccC----CEEEEEEeecCCCCCceEEEEECCHHHHHHHHHHc--CCCEECCEEEEEEE
Confidence            4799999999999999999999999    99999887643    46999999999999999999  67899999999988


Q ss_pred             cCc
Q psy5142         352 VTG  354 (410)
Q Consensus       352 l~g  354 (410)
                      ...
T Consensus        80 a~~   82 (115)
T 4f25_A           80 FKS   82 (115)
T ss_dssp             SSC
T ss_pred             CCC
Confidence            754

>1x5t_A Splicing factor 3B subunit 4; structure genomics, RRM domain, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.31  E-value=6.3e-12  Score=100.09  Aligned_cols=75  Identities=8%  Similarity=0.178  Sum_probs=66.9

Q ss_pred             CCCeEEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEE-EeeCC------CceEEEEeCChhHHHHHHHHhcCCCeEEcCe
Q psy5142         273 PTGALLKISDIKEPVSREDIREVLEKVQTDDQEIVFI-EFNVG------EPTAFVRYKKENNAEAVLKALGSKEIVIKDV  345 (410)
Q Consensus       273 ~~g~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V-~~~~g------~~~afV~F~~~e~A~~Al~~l~~~~~~i~g~  345 (410)
                      .+++.|+|.|||+.+++++|+++|++||    .|..| .+..+      .++|||+|.+.++|++|+..|  ++..++|+
T Consensus         3 ~~~~~l~V~nLp~~~t~~~l~~~F~~~G----~i~~~~~i~~~~~~g~~~g~afV~f~~~~~A~~A~~~l--~g~~~~g~   76 (96)
T 1x5t_A            3 SGSSGIFIGNLDPEIDEKLLYDTFSAFG----VILQTPKIMRDPDTGNSKGYAFINFASFDASDAAIEAM--NGQYLCNR   76 (96)
T ss_dssp             SCCCEEEEECCCTTCCHHHHHHHHHTTS----CBSSCCEECCCTTTCSCCSEEEEEBSSHHHHHHHHHTT--TTCEETTE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcC----CeeEEEEEEEcCCCCCcCeEEEEEECCHHHHHHHHHHc--CCCEECCE
Confidence            3567999999999999999999999999    88877 77664      457999999999999999999  67889999


Q ss_pred             EEEEEecC
Q psy5142         346 KVSIEVVT  353 (410)
Q Consensus       346 ~v~v~~l~  353 (410)
                      .|.|....
T Consensus        77 ~l~v~~a~   84 (96)
T 1x5t_A           77 PITVSYAF   84 (96)
T ss_dssp             ECEEEESC
T ss_pred             EEEEEEec
Confidence            99999864

>2g4b_A Splicing factor U2AF 65 kDa subunit; protein-RNA complex, RNA splicing factor, RNA recognition motif, RNA binding protein/RNA complex; 2.50A {Homo sapiens} PDB: 2u2f_A

Probab=99.31  E-value=5.3e-12  Score=110.73  Aligned_cols=102  Identities=14%  Similarity=0.131  Sum_probs=78.2

Q ss_pred             cHHHHHHHHhhcCCceEEEecCccceecCCCCCCCCCchhhhhhccceeeEeecCCCCCCHHHHHHHHhhccCCCCceEE
Q psy5142          73 EAKVIVDALKKSTSKLIEVNEDGTKIRRNPEKELPTFDIDFVKDLIAQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITN  152 (410)
Q Consensus        73 d~~~i~~Al~~~~S~~levsed~~~vrR~~~~p~p~~~~~~~~~~~~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~  152 (410)
                      +.+.+..||. .  +...+..-...|++......         ....++|||+|||.++|+++|+++|++|    |.|..
T Consensus        60 ~~~~A~~A~~-~--~~~~~~g~~i~v~~~~~~~~---------~~~~~~l~v~nlp~~~t~~~l~~~f~~~----G~v~~  123 (172)
T 2g4b_A           60 SVDETTQAMA-F--DGIIFQGQSLKIRRPHDYQP---------LPGAHKLFIGGLPNYLNDDQVKELLTSF----GPLKA  123 (172)
T ss_dssp             SHHHHHHHGG-G--TTCEETTEECEEECCSSCCC---------CTTTTCEEEECCCTTCCHHHHHHHHHTT----SCEEE
T ss_pred             CHHHHHHHHH-h--CCcEecCceeeecCCcccCC---------CCCCCEEEEEcCCCcCCHHHHHHHHHhc----CCceE
Confidence            4677777773 2  23445444444554321111         1336899999999999999999999999    99999


Q ss_pred             EEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCCccc
Q psy5142         153 IIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLKF  196 (410)
Q Consensus       153 v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~~~  196 (410)
                      |.++++..++    .++|+|||+|.+.++|.+|++.++|  ..+
T Consensus       124 v~i~~~~~~g----~~~g~afV~f~~~~~A~~A~~~l~g--~~~  161 (172)
T 2g4b_A          124 FNLVKDSATG----LSKGYAFCEYVDINVTDQAIAGLNG--MQL  161 (172)
T ss_dssp             EEEEECTTTC----SEEEEEEEEESSTTHHHHHHHHHTT--CEE
T ss_pred             EEEEecCCCC----CcceEEEEEeCCHHHHHHHHHHcCC--CEE
Confidence            9999987554    7899999999999999999999886  455

>1l3k_A Heterogeneous nuclear ribonucleoprotein A1; nuclear protein hnRNP A1, RNA-recognition motif, RNA- binding, UP1, RNA binding protein; 1.10A {Homo sapiens} SCOP: d.58.7.1 d.58.7.1 PDB: 1u1k_A* 1u1l_A* 1u1m_A* 1u1n_A* 1u1o_A 1u1p_A* 1u1q_A 1u1r_A* 1pgz_A* 1ha1_A 1po6_A* 2up1_A* 1up1_A

Probab=99.31  E-value=7e-12  Score=112.34  Aligned_cols=107  Identities=21%  Similarity=0.261  Sum_probs=76.8

Q ss_pred             cHHHHHHHHhhcCCceEEEecCccceecCCCCCCCCCchhhhhhccceeeEeecCCCCCCHHHHHHHHhhccCCCCceEE
Q psy5142          73 EAKVIVDALKKSTSKLIEVNEDGTKIRRNPEKELPTFDIDFVKDLIAQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITN  152 (410)
Q Consensus        73 d~~~i~~Al~~~~S~~levsed~~~vrR~~~~p~p~~~~~~~~~~~~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~  152 (410)
                      +.+.+..||..   ....+..-...|.+....+.+..   .......++|||+|||+++|+++|+++|++|    |.|..
T Consensus        64 ~~~~A~~A~~~---~~~~~~g~~l~v~~~~~~~~~~~---~~~~~~~~~l~V~nLp~~~t~~~l~~~F~~~----G~i~~  133 (196)
T 1l3k_A           64 TVEEVDAAMNA---RPHKVDGRVVEPKRAVSREDSQR---PGAHLTVKKIFVGGIKEDTEEHHLRDYFEQY----GKIEV  133 (196)
T ss_dssp             SHHHHHHHHHT---CSCEETTEECEEEECCC--------------CCSEEEEECCTTTCCHHHHHHHHTTT----SCEEE
T ss_pred             CHHHHHHHHhc---CCCEECCEEeeeecccCcccccc---cccCCCcceEEEeCCCCCCCHHHHHHHHhcC----CCeEE
Confidence            46778888873   33445444444544421111110   1122456899999999999999999999999    99999


Q ss_pred             EEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCCccc
Q psy5142         153 IIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLKF  196 (410)
Q Consensus       153 v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~~~  196 (410)
                      |.++++..++    .++|||||+|.+.++|.+|+.. ++  ..+
T Consensus       134 v~i~~~~~~g----~~~g~afV~F~~~~~A~~A~~~-~~--~~~  170 (196)
T 1l3k_A          134 IEIMTDRGSG----KKRGFAFVTFDDHDSVDKIVIQ-KY--HTV  170 (196)
T ss_dssp             EEEEECTTTC----CEEEEEEEEESSHHHHHHHHHC-SC--CEE
T ss_pred             EEEeecCCCC----CccceEEEEECCHHHHHHHHHh-CC--cEE
Confidence            9999987665    7899999999999999999987 43  556

>3md1_A Nuclear and cytoplasmic polyadenylated RNA-bindin PUB1; RRM, RBD, RNP, poly(U) binding, nucleus, RNA-binding, binding protein; 1.60A {Saccharomyces cerevisiae} SCOP: d.58.7.0

Probab=99.31  E-value=6.8e-12  Score=97.04  Aligned_cols=73  Identities=12%  Similarity=0.203  Sum_probs=66.3

Q ss_pred             eEEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCC------CceEEEEeCChhHHHHHHHHhcCCCeEEcCeEEEE
Q psy5142         276 ALLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVG------EPTAFVRYKKENNAEAVLKALGSKEIVIKDVKVSI  349 (410)
Q Consensus       276 ~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g------~~~afV~F~~~e~A~~Al~~l~~~~~~i~g~~v~v  349 (410)
                      +.|+|.|||+.+++++|+++|++||    .|..|.+..+      .++|||.|.+.++|++|+..|  ++..++|+.|.|
T Consensus         2 ~~l~V~nlp~~~t~~~l~~~f~~~G----~i~~~~i~~~~~~~~~~g~afV~f~~~~~a~~a~~~l--~g~~~~g~~l~v   75 (83)
T 3md1_A            2 FNLFVGDLNVNVDDETLRNAFKDFP----SYLSGHVMWDMQTGSSRGYGFVSFTSQDDAQNAMDSM--QGQDLNGRPLRI   75 (83)
T ss_dssp             EEEEEECCCTTCCHHHHHHHHTTST----TEEEEEEEECTTTCCEEEEEEEEESCHHHHHHHHHHH--TTCEETTEECEE
T ss_pred             eEEEEeCCCCCCCHHHHHHHHHhcC----CeeEEEEEEcCCCCCccceEEEEECCHHHHHHHHHHh--cCCeeCCcEEEE
Confidence            5799999999999999999999999    9999988865      346999999999999999999  678999999999


Q ss_pred             EecCc
Q psy5142         350 EVVTG  354 (410)
Q Consensus       350 ~~l~g  354 (410)
                      .....
T Consensus        76 ~~a~~   80 (83)
T 3md1_A           76 NWAAK   80 (83)
T ss_dssp             EECCC
T ss_pred             EecCc
Confidence            98764

>2ytc_A PRE-mRNA-splicing factor RBM22; RRM domain, RBD, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.31  E-value=8.3e-12  Score=97.10  Aligned_cols=76  Identities=14%  Similarity=0.239  Sum_probs=68.8

Q ss_pred             CCCCeEEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCCCceEEEEeCChhHHHHHHHHhcCCCeEEcCeEEEEEe
Q psy5142         272 LPTGALLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVGEPTAFVRYKKENNAEAVLKALGSKEIVIKDVKVSIEV  351 (410)
Q Consensus       272 ~~~g~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g~~~afV~F~~~e~A~~Al~~l~~~~~~i~g~~v~v~~  351 (410)
                      .++.+.|+|.|||..+++++|+++|++||    .|..|.+.+..++|||+|.+.++|++|+..|. ++..++|+.|.|+.
T Consensus         9 ~~~~~~l~V~~l~~~~t~~~l~~~f~~~G----~i~~~~~~~~kg~afV~f~~~~~A~~a~~~l~-~~~~~~g~~l~v~~   83 (85)
T 2ytc_A            9 DKTITTLYVGGLGDTITETDLRNHFYQFG----EIRTITVVQRQQCAFIQFATRQAAEVAAEKSF-NKLIVNGRRLNVKW   83 (85)
T ss_dssp             CSSCCCEEEECCTTTSCHHHHHHHHHTTS----CEEEEEEEGGGTEEEEEESSHHHHHHHHHTTT-TTCEETTEECCEEE
T ss_pred             CCCccEEEEcCCCCCCCHHHHHHHHHhCC----CEeEEEEECCCCEEEEEECCHHHHHHHHHHhc-CCeeECCCEEEEEe
Confidence            35567999999999999999999999999    99999999988999999999999999999873 46889999998875


Q ss_pred             c
Q psy5142         352 V  352 (410)
Q Consensus       352 l  352 (410)
                      .
T Consensus        84 a   84 (85)
T 2ytc_A           84 G   84 (85)
T ss_dssp             C
T ss_pred             c
Confidence            4

>2kvi_A Nuclear polyadenylated RNA-binding protein 3; RNA-binding motif, RRM, transcription termination, NUC phosphoprotein; NMR {Saccharomyces cerevisiae}

Probab=99.31  E-value=4.2e-12  Score=101.51  Aligned_cols=62  Identities=16%  Similarity=0.294  Sum_probs=56.0

Q ss_pred             ccceeeEeecCCC-CCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCCcc
Q psy5142         117 LIAQSLYVKYIPV-DATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLK  195 (410)
Q Consensus       117 ~~~rtv~V~~lp~-~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~~  195 (410)
                      ...++|||+|||+ ++|+++|+++|++|    |.|..|.|+            +|||||+|.+.++|++|++.++|  ..
T Consensus         8 ~~~~~l~V~nlp~~~~t~~~l~~~F~~~----G~v~~v~i~------------~g~afV~f~~~~~A~~A~~~l~g--~~   69 (96)
T 2kvi_A            8 PPKSRLFIGNLPLKNVSKEDLFRIFSPY----GHIMQINIK------------NAFGFIQFDNPQSVRDAIECESQ--EM   69 (96)
T ss_dssp             -CCEEEEEESSTTSCCCHHHHHHHHTTT----CCCCEEEEE------------TTEEEEEESCHHHHHHHHHHHTC--SS
T ss_pred             CCCCEEEEeCCCcccCCHHHHHHHHHhc----CCEEEEEEe------------CCEEEEEECCHHHHHHHHHHcCC--Ce
Confidence            4578999999998 99999999999999    999999873            68999999999999999999886  44


Q ss_pred             c
Q psy5142         196 F  196 (410)
Q Consensus       196 ~  196 (410)
                      +
T Consensus        70 ~   70 (96)
T 2kvi_A           70 N   70 (96)
T ss_dssp             C
T ss_pred             e
Confidence            5

>1whx_A Hypothetical protein riken cDNA 1200009A02; RNA recognition motif, RRM, RNA binding domain, RBD, RNP, structural genomics; NMR {Mus musculus} SCOP: d.58.7.1

Probab=99.31  E-value=4.8e-12  Score=104.17  Aligned_cols=74  Identities=14%  Similarity=0.190  Sum_probs=69.0

Q ss_pred             CCeEEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCCCceEEEEeCChhHHHHHHHHhcCCCeEEcCeEEEEEecC
Q psy5142         274 TGALLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVGEPTAFVRYKKENNAEAVLKALGSKEIVIKDVKVSIEVVT  353 (410)
Q Consensus       274 ~g~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g~~~afV~F~~~e~A~~Al~~l~~~~~~i~g~~v~v~~l~  353 (410)
                      .+++|+|.|||+++++++|+++|++||    .|..|.+.+..++|||+|.+.++|++|+..|  ++..++|+.|.|....
T Consensus         9 ~~~~l~V~nLp~~~te~~L~~~F~~~G----~i~~v~i~~~~g~afV~f~~~~~A~~Ai~~l--~g~~~~g~~l~V~~a~   82 (111)
T 1whx_A            9 SKTVILAKNLPAGTLAAEIQETFSRFG----SLGRVLLPEGGITAIVEFLEPLEARKAFRHL--AYSKFHHVPLYLEWAP   82 (111)
T ss_dssp             EEEEEEEESCCTTCCHHHHHHHHHTTS----CEEEEECCSSSSCEEEEESCHHHHHHHHHHH--TTCBSSSSBCEEEEEE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhcC----CEEEEEEeCCCCEEEEEeCCHHHHHHHHHHh--CCCEECCeEEEEEECC
Confidence            467999999999999999999999999    9999999988899999999999999999999  6788999999998764

>2e5j_A Methenyltetrahydrofolate synthetase domain containing; RRM domain, RBD, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=99.31  E-value=2.4e-12  Score=103.03  Aligned_cols=65  Identities=17%  Similarity=0.314  Sum_probs=56.7

Q ss_pred             ccceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCCccc
Q psy5142         117 LIAQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLKF  196 (410)
Q Consensus       117 ~~~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~~~  196 (410)
                      ...++|||+|||+++|+++|+++|++|    |.|. +.++..        .++|||||+|.+.++|++|++.++|  ..+
T Consensus        17 ~~~~~l~V~nL~~~~t~~~l~~~F~~~----G~v~-~~~~~~--------~~~g~afV~f~~~~~a~~A~~~l~g--~~~   81 (97)
T 2e5j_A           17 PLAADVYVGNLPRDARVSDLKRALREL----GSVP-LRLTWQ--------GPRRRAFLHYPDSAAAQQAVSCLQG--LRL   81 (97)
T ss_dssp             CCCCEEEEECCCTTCCHHHHHHHHHHT----TCCC-SEEEEE--------TTTTEEEEECSSHHHHHHHHHHHTT--CCS
T ss_pred             CCCCEEEEeCCCCcCcHHHHHHHHHhc----CCEE-EEEEcC--------CCCcEEEEEECCHHHHHHHHHHhCC--CEE
Confidence            446899999999999999999999999    9996 555532        6799999999999999999999886  455

>3nmr_A Cugbp ELAV-like family member 1; RRM, PRE-mRNA splicing, RNA binding protein-RNA complex; 1.85A {Homo sapiens} PDB: 3nna_A 3nnc_A 2dhs_A 3nnh_A

Probab=99.31  E-value=7.8e-12  Score=109.69  Aligned_cols=66  Identities=21%  Similarity=0.305  Sum_probs=62.0

Q ss_pred             ccceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCC
Q psy5142         117 LIAQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKD  191 (410)
Q Consensus       117 ~~~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g  191 (410)
                      ...++|||+|||.++|+++|+++|++|    |.|.+|+++++..+     .++|+|||+|.+.++|.+|++.++|
T Consensus        93 ~~~~~l~v~nl~~~~t~~~l~~~F~~~----G~i~~v~~~~~~~g-----~~~g~afV~f~~~~~A~~A~~~l~g  158 (175)
T 3nmr_A           93 VEDRKLFIGMISKKCTENDIRVMFSSF----GQIEECRILRGPDG-----LSRGCAFVTFTTRAMAQTAIKAMHQ  158 (175)
T ss_dssp             GGGSEEEEESCCTTCCHHHHHHHHGGG----SCEEEEEEEECTTS-----CEEEEEEEEESSHHHHHHHHHHHTT
T ss_pred             CCCCeEEEcCCCCcCCHHHHHHHHHhC----CCEEEEEEEECCCC-----CEEEEEEEEECCHHHHHHHHHHhcC
Confidence            467899999999999999999999999    99999999988765     7899999999999999999999996

>2dgt_A RNA-binding protein 30; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.31  E-value=3.4e-12  Score=101.05  Aligned_cols=62  Identities=18%  Similarity=0.223  Sum_probs=56.2

Q ss_pred             ccceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCCccc
Q psy5142         117 LIAQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLKF  196 (410)
Q Consensus       117 ~~~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~~~  196 (410)
                      ...++|||+|||+++|+++|+++|++|    |.|..|.|+            ++||||+|.+.++|++|+..+++  ..+
T Consensus         8 ~~~~~l~V~nLp~~~t~~~l~~~F~~~----G~v~~v~~~------------~~~afV~f~~~~~a~~A~~~l~g--~~~   69 (92)
T 2dgt_A            8 KASTKLHVGNISPTCTNQELRAKFEEY----GPVIECDIV------------KDYAFVHMERAEDAVEAIRGLDN--TEF   69 (92)
T ss_dssp             CSSEEEEEESCCSSCCHHHHHHHHHTT----SCCCEEEEC------------SSEEEEEESCHHHHHHHHHHHTT--EEE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhc----CCeEEEEEE------------CCEEEEEECCHHHHHHHHHHhCC--Cee
Confidence            456899999999999999999999999    999999886            45999999999999999999886  455

>2x1f_A MRNA 3'-END-processing protein RNA15; transcription-RNA complex, mRNA processing; 1.60A {Saccharomyces cerevisiae} PDB: 2x1b_A 2x1a_A 2km8_B

Probab=99.31  E-value=1.2e-11  Score=98.76  Aligned_cols=77  Identities=9%  Similarity=0.207  Sum_probs=69.4

Q ss_pred             CeEEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCC------CceEEEEeCChhHHHHHHHHhcCCCeEEcCeEEE
Q psy5142         275 GALLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVG------EPTAFVRYKKENNAEAVLKALGSKEIVIKDVKVS  348 (410)
Q Consensus       275 g~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g------~~~afV~F~~~e~A~~Al~~l~~~~~~i~g~~v~  348 (410)
                      .+.|+|.|||..+++++|+++|++||    .|..|.+..+      .++|||+|.+.++|++|++.|  ++..++|+.|.
T Consensus         2 ~~~l~V~nLp~~~t~~~l~~~F~~~G----~i~~v~i~~~~~~g~~~g~afV~f~~~~~A~~Ai~~l--~g~~~~g~~l~   75 (96)
T 2x1f_A            2 SRVVYLGSIPYDQTEEQILDLCSNVG----PVINLKMMFDPQTGRSKGYAFIEFRDLESSASAVRNL--NGYQLGSRFLK   75 (96)
T ss_dssp             CSEEEEESCCTTCCHHHHHHHHHTTS----CEEEEECCBCTTTCCBCSEEEEEESSHHHHHHHHHHH--TTCEETTEECE
T ss_pred             CcEEEEECCCCCCCHHHHHHHHHhcC----CEEEEEEEeCCCCCccceEEEEEECCHHHHHHHHHHh--CCCeECCeEEE
Confidence            46899999999999999999999999    9999998765      457999999999999999999  67999999999


Q ss_pred             EEecCchHH
Q psy5142         349 IEVVTGEEE  357 (410)
Q Consensus       349 v~~l~g~eE  357 (410)
                      |........
T Consensus        76 V~~a~~~~~   84 (96)
T 2x1f_A           76 CGYSSNSDI   84 (96)
T ss_dssp             EEECSCSSG
T ss_pred             EEEcCCCCC
Confidence            998876543

>2xnq_A Nuclear polyadenylated RNA-binding protein 3; transcription termination, RNA processi recognition, RRM; HET: CAF; 1.30A {Saccharomyces cerevisiae} PDB: 2xnr_A 2l41_A

Probab=99.31  E-value=4.8e-12  Score=101.55  Aligned_cols=63  Identities=16%  Similarity=0.339  Sum_probs=57.1

Q ss_pred             hccceeeEeecCCC-CCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCCc
Q psy5142         116 DLIAQSLYVKYIPV-DATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNL  194 (410)
Q Consensus       116 ~~~~rtv~V~~lp~-~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~  194 (410)
                      ....++|||+|||+ ++|+++|+++|++|    |.|..|.|.            +|||||+|.+.++|.+|+..++|  .
T Consensus        19 ~~~~~~l~V~nLp~~~~t~~~L~~~F~~~----G~v~~v~i~------------~g~afV~f~~~~~A~~Ai~~l~g--~   80 (97)
T 2xnq_A           19 SHMKSRLFIGNLPLKNVSKEDLFRIFSPY----GHIMQINIK------------NAFGFIQFDNPQSVRDAIEXESQ--E   80 (97)
T ss_dssp             CCTTCEEEEESCCSSCCCHHHHHHHHGGG----SCEEEEEEC------------SSEEEEEESSHHHHHHHHHHHTT--S
T ss_pred             CCCCCEEEEeCCCcccCCHHHHHHHHHhc----CCEEEEEEe------------CCEEEEEECCHHHHHHHHHHcCC--C
Confidence            35679999999998 99999999999999    999999873            78999999999999999999886  4


Q ss_pred             cc
Q psy5142         195 KF  196 (410)
Q Consensus       195 ~~  196 (410)
                      .+
T Consensus        81 ~~   82 (97)
T 2xnq_A           81 MN   82 (97)
T ss_dssp             EE
T ss_pred             EE
Confidence            45

>2cqc_A Arginine/serine-rich splicing factor 10; RNA recognition motif, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.31  E-value=1.9e-11  Score=97.06  Aligned_cols=77  Identities=14%  Similarity=0.216  Sum_probs=68.6

Q ss_pred             CCCCCeEEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCCC------ceEEEEeCChhHHHHHHHHhcCCCeEEcC
Q psy5142         271 ELPTGALLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVGE------PTAFVRYKKENNAEAVLKALGSKEIVIKD  344 (410)
Q Consensus       271 ~~~~g~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g~------~~afV~F~~~e~A~~Al~~l~~~~~~i~g  344 (410)
                      ..++.++|+|.|||+.+++++|+++|++||    .|..|.+..+.      ++|||+|.+.++|++|+..|  ++..++|
T Consensus        11 ~~~~~~~l~v~nlp~~~t~~~l~~~f~~~G----~v~~v~i~~~~~~~~~~g~afV~f~~~~~A~~A~~~l--~g~~~~g   84 (95)
T 2cqc_A           11 NPDPNCCLGVFGLSLYTTERDLREVFSKYG----PIADVSIVYDQQSRRSRGFAFVYFENVDDAKEAKERA--NGMELDG   84 (95)
T ss_dssp             SCCGGGCEEEESCCSSCCHHHHHHHHHTTS----CEEEEEEEECSSSSSEEEEEEEEESSHHHHHHHHHHH--TTEEETT
T ss_pred             CCCCCCEEEEECCCCCCCHHHHHHHHHhcC----CeeEEEEEEcCCCCCcccEEEEEECCHHHHHHHHHHh--CCCEECC
Confidence            346678999999999999999999999999    99999987542      36999999999999999999  6899999


Q ss_pred             eEEEEEecC
Q psy5142         345 VKVSIEVVT  353 (410)
Q Consensus       345 ~~v~v~~l~  353 (410)
                      +.|.|....
T Consensus        85 ~~l~v~~a~   93 (95)
T 2cqc_A           85 RRIRVSGPS   93 (95)
T ss_dssp             EEEEEECCS
T ss_pred             EEEEEEecC
Confidence            999998754

>2cpd_A Apobec-1 stimulating protein; RNA recognition motif, RRM, RNP, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.31  E-value=2.5e-11  Score=97.34  Aligned_cols=75  Identities=16%  Similarity=0.274  Sum_probs=68.1

Q ss_pred             CCCCCeEEEEeCCCCCCCHHHHHHHHHhc--CCCCCCeeEEEeeCCCceEEEEeCChhHHHHHHHHhcCCCeEEcCeEEE
Q psy5142         271 ELPTGALLKISDIKEPVSREDIREVLEKV--QTDDQEIVFIEFNVGEPTAFVRYKKENNAEAVLKALGSKEIVIKDVKVS  348 (410)
Q Consensus       271 ~~~~g~~l~v~nL~~~~t~edLk~~F~~~--G~~~~~V~~V~~~~g~~~afV~F~~~e~A~~Al~~l~~~~~~i~g~~v~  348 (410)
                      ...+.++|||.|||+.+++++|+++|++|  |    .|..|.+.+  ++|||+|.+.++|++|+..|  ++..++|+.|.
T Consensus        11 ~~~~~~~l~V~nLp~~~t~~~l~~~F~~~g~g----~v~~~~~~~--g~afV~f~~~~~A~~A~~~l--~g~~~~g~~l~   82 (99)
T 2cpd_A           11 TMSSVKILYVRNLMLSTSEEMIEKEFNNIKPG----AVERVKKIR--DYAFVHFSNREDAVEAMKAL--NGKVLDGSPIE   82 (99)
T ss_dssp             CSSCCCEEEEESCCTTCCHHHHHHHHHTTSTT----CEEEEEECS--SEEEEEESSHHHHHHHHHHH--SSEEETTEEEE
T ss_pred             ccCCcCEEEEeCCCCCCCHHHHHHHHHhcCCc----ceEEEEEeC--CeEEEEeCCHHHHHHHHHHh--CCCEeCCcEEE
Confidence            35667899999999999999999999999  8    899988876  59999999999999999999  78999999999


Q ss_pred             EEecC
Q psy5142         349 IEVVT  353 (410)
Q Consensus       349 v~~l~  353 (410)
                      |....
T Consensus        83 v~~a~   87 (99)
T 2cpd_A           83 VTLAK   87 (99)
T ss_dssp             EECCC
T ss_pred             EEECC
Confidence            98754

>4a8x_A RNA-binding protein with serine-rich domain 1; transcription, splicing, RNA processing, nonsense mediated D NMD, HDAC, histone deacetylation; 1.90A {Homo sapiens}

Probab=99.30  E-value=1e-11  Score=97.01  Aligned_cols=74  Identities=20%  Similarity=0.360  Sum_probs=66.7

Q ss_pred             CCeEEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeC-------CCceEEEEeCChhHHHHHHHHhcCCCeEEcCeE
Q psy5142         274 TGALLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNV-------GEPTAFVRYKKENNAEAVLKALGSKEIVIKDVK  346 (410)
Q Consensus       274 ~g~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~-------g~~~afV~F~~~e~A~~Al~~l~~~~~~i~g~~  346 (410)
                      ..+.|+|.|||.++++++|+++|++||    .|..|.+..       ..++|||+|.+.++|++|+..|  ++..++|+.
T Consensus         3 ~~~~l~V~nlp~~~t~~~l~~~F~~~G----~i~~~~i~~~~~~~~~~~g~afV~f~~~~~a~~A~~~l--~g~~~~g~~   76 (88)
T 4a8x_A            3 KPTKVHIGRLTRNVTKDHIMEIFSTYG----KIKMIDMPVERMHPHLSKGYAYVEFENPDEAEKALKHM--DGGQIDGQE   76 (88)
T ss_dssp             CCCEEEEECCCTTCCHHHHHHHHHTTS----CEEEEECCEETTEEEEECSEEEEEESSHHHHHHHHHHH--TTCEETTEE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhCC----CEEEEEEEeCCCCCCCCCcEEEEEEecHHHHHHHHHHc--CCCeECCeE
Confidence            356899999999999999999999999    999998864       3457999999999999999999  689999999


Q ss_pred             EEEEecC
Q psy5142         347 VSIEVVT  353 (410)
Q Consensus       347 v~v~~l~  353 (410)
                      |.|....
T Consensus        77 l~v~~a~   83 (88)
T 4a8x_A           77 ITATAVL   83 (88)
T ss_dssp             CEEEEEC
T ss_pred             EEEEECC
Confidence            9999765

>2f3j_A RNA and export factor binding protein 2; RRM domain, RBD domain., transport protein; NMR {Mus musculus}

Probab=99.30  E-value=3.9e-12  Score=113.66  Aligned_cols=68  Identities=16%  Similarity=0.254  Sum_probs=62.4

Q ss_pred             cceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCCccc
Q psy5142         118 IAQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLKF  196 (410)
Q Consensus       118 ~~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~~~  196 (410)
                      ..++|||+|||+++|+++|+++|++|    |.|..|.|+.+..+     .++|||||+|.+.++|++|++.++|  ..+
T Consensus        87 ~~~~l~V~nLp~~~te~~L~~~F~~~----G~I~~v~i~~d~~g-----~~kG~afV~F~~~~~A~~Ai~~lng--~~l  154 (177)
T 2f3j_A           87 TGAKLLVSNLDFGVSDADIQELFAEF----GTLKKAAVDYDRSG-----RSLGTADVHFERRADALKAMKQYKG--VPL  154 (177)
T ss_dssp             TCEEEEEECCCSCCCHHHHHHHHHHT----SCCSEEEECCCTTS-----SCSCCEEEEESCHHHHHHHHHHSTT--CBC
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhc----CCeEEEEEEECCCC-----CEeeEEEEEeCCHHHHHHHHHHhCC--CEE
Confidence            35899999999999999999999999    99999999988843     7899999999999999999999986  455

>1rk8_A CG8781-PA, CG8781-PA protein; mRNA processing, RRM, RBD, NMD, oskar mRNA localization, translation; 1.90A {Drosophila melanogaster} SCOP: d.58.7.1 PDB: 1hl6_A 2x1g_A

Probab=99.30  E-value=9e-12  Score=109.74  Aligned_cols=78  Identities=23%  Similarity=0.289  Sum_probs=69.5

Q ss_pred             cCCCCCeEEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCC------CceEEEEeCChhHHHHHHHHhcCCCeEEc
Q psy5142         270 LELPTGALLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVG------EPTAFVRYKKENNAEAVLKALGSKEIVIK  343 (410)
Q Consensus       270 ~~~~~g~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g------~~~afV~F~~~e~A~~Al~~l~~~~~~i~  343 (410)
                      ....++++|||.|||+.+++++|+++|++||    .|..|.+...      .++|||.|.+.++|++||..|  ++..|+
T Consensus        67 ~~~~~~~~l~V~nLp~~~t~~~L~~~F~~~G----~i~~v~i~~~~~~g~~~g~afV~f~~~~~A~~Ai~~l--~g~~~~  140 (165)
T 1rk8_A           67 QRSVEGWILFVTSIHEEAQEDEIQEKFCDYG----EIKNIHLNLDRRTGFSKGYALVEYETHKQALAAKEAL--NGAEIM  140 (165)
T ss_dssp             CCCC-CEEEEEESCCTTCCHHHHHHHHGGGS----CEEEEEEEECTTTSSEEEEEEEEESSHHHHHHHHHHH--TTCEET
T ss_pred             CCCCCCCEEEEeCCCCCCCHHHHHHHhhcCC----CEEEEEEEecCCCCcEeeEEEEEECCHHHHHHHHHHh--CCCEEC
Confidence            3456688999999999999999999999999    9999999865      357999999999999999999  678999


Q ss_pred             CeEEEEEecC
Q psy5142         344 DVKVSIEVVT  353 (410)
Q Consensus       344 g~~v~v~~l~  353 (410)
                      |+.|.|....
T Consensus       141 g~~l~V~~a~  150 (165)
T 1rk8_A          141 GQTIQVDWCF  150 (165)
T ss_dssp             TEECEEEESE
T ss_pred             CEEEEEEEec
Confidence            9999998865

>2ywk_A Putative RNA-binding protein 11; RRM-domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; 1.54A {Homo sapiens}

Probab=99.30  E-value=1e-11  Score=98.67  Aligned_cols=76  Identities=11%  Similarity=0.163  Sum_probs=68.1

Q ss_pred             CCCCeEEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCCC-----ceEEEEeCChhHHHHHHHHhcCCCeEEcCeE
Q psy5142         272 LPTGALLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVGE-----PTAFVRYKKENNAEAVLKALGSKEIVIKDVK  346 (410)
Q Consensus       272 ~~~g~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g~-----~~afV~F~~~e~A~~Al~~l~~~~~~i~g~~  346 (410)
                      .++.+.|+|.|||+.+++++|+++|++||    .|..|.+..+.     ++|||+|.++++|++|+..|  ++..++|+.
T Consensus        13 ~~~~~~l~v~nlp~~~~~~~l~~~F~~~G----~i~~v~i~~~~~g~~~g~afV~f~~~~~a~~A~~~l--~g~~~~g~~   86 (95)
T 2ywk_A           13 EEADRTVFVGNLEARVREEILYELFLQAG----PLTKVTICKDREGKPKSFGFVCFKHPESVSYAIALL--NGIRLYGRP   86 (95)
T ss_dssp             TTGGGEEEEECCCTTCCHHHHHHHHGGGS----CEEEEEEEECTTSCEEEEEEEEESSTHHHHHHHHHH--TTCEETTEE
T ss_pred             CCCCCEEEEECCCCCCCHHHHHHHHHhcC----CEEEEEEEECCCCCCceEEEEEECCHHHHHHHHHHh--CCCEECCCE
Confidence            45668999999999999999999999999    99999988653     47999999999999999999  678999999


Q ss_pred             EEEEecC
Q psy5142         347 VSIEVVT  353 (410)
Q Consensus       347 v~v~~l~  353 (410)
                      |.|....
T Consensus        87 l~V~~a~   93 (95)
T 2ywk_A           87 INVSGPS   93 (95)
T ss_dssp             CEEECCC
T ss_pred             EEEEEcC
Confidence            9998753

>2dnl_A Cytoplasmic polyadenylation element binding protein 3; RRM domain, RBD, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=99.30  E-value=2.6e-12  Score=106.18  Aligned_cols=64  Identities=16%  Similarity=0.296  Sum_probs=58.2

Q ss_pred             cceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcc---cccccccccEEEEEecCHHHHHHHHHhcC
Q psy5142         118 IAQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDK---LANQKKFKGSIFVTFDNKENAEKFLNENK  190 (410)
Q Consensus       118 ~~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~---~~~~~~~kG~afVeF~~~e~A~~Al~~~~  190 (410)
                      ..++|||+|||+++|+++|+++|++|    |.|. +.++.+..+   +    .++|||||+|.+.++|++|++.++
T Consensus         7 ~~~~lfVgnLp~~~te~~L~~~F~~~----G~i~-~~~~~~~~~~~~g----~~~G~aFV~f~~~~~a~~Ai~~~~   73 (114)
T 2dnl_A            7 GSRKVFVGGLPPDIDEDEITASFRRF----GPLV-VDWPHKAESKSYF----PPKGYAFLLFQEESSVQALIDACL   73 (114)
T ss_dssp             CCCCEEEECCCTTCCHHHHHHHTTTT----CCCC-EECTTSSSSCCCS----CTTSEEEECCSSHHHHHHHHHHSE
T ss_pred             CCCEEEEcCCCCCCCHHHHHHHHHhc----CCEE-EEEeecCCCCCCC----CcccEEEEEECCHHHHHHHHHhhh
Confidence            46899999999999999999999999    9999 888877654   3    789999999999999999999883

>2dgu_A Heterogeneous nuclear ribonucleoprotein Q; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} PDB: 2dk2_A

Probab=99.30  E-value=3.5e-12  Score=103.24  Aligned_cols=61  Identities=20%  Similarity=0.310  Sum_probs=55.6

Q ss_pred             cceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCCccc
Q psy5142         118 IAQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLKF  196 (410)
Q Consensus       118 ~~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~~~  196 (410)
                      ..++|||+|||+++|+++|+++|++|    |.|..|.|+            +|||||+|.+.++|++|++.+++  ..+
T Consensus        10 ~~~~l~V~nl~~~~t~~~l~~~F~~~----G~i~~v~~~------------~~~afV~f~~~~~a~~A~~~l~g--~~~   70 (103)
T 2dgu_A           10 KVKVLFVRNLANTVTEEILEKAFSQF----GKLERVKKL------------KDYAFIHFDERDGAVKAMEEMNG--KDL   70 (103)
T ss_dssp             CCCCEEEECCCTTCCHHHHHHHHHHH----SCEEEEEEC------------SSCEEEEESSHHHHHHHHHHHTT--EEE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhc----CCEEEEEEE------------CCEEEEEeCCHHHHHHHHHHHCC--Ccc
Confidence            46899999999999999999999999    999999875            56999999999999999999886  455

>2e5h_A Zinc finger CCHC-type and RNA-binding motif- containing protein 1; RRM domain, RBD, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=99.29  E-value=1.8e-11  Score=97.06  Aligned_cols=76  Identities=12%  Similarity=0.261  Sum_probs=68.2

Q ss_pred             CCCCCeEEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCC------CceEEEEeCChhHHHHHHHHhcCCCeEEcC
Q psy5142         271 ELPTGALLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVG------EPTAFVRYKKENNAEAVLKALGSKEIVIKD  344 (410)
Q Consensus       271 ~~~~g~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g------~~~afV~F~~~e~A~~Al~~l~~~~~~i~g  344 (410)
                      ..++.+.|+|.|||..+++++|+++|++||    .|..|.+..+      .++|||+|.+.++|++|++.|  ++..++|
T Consensus        12 ~~~~~~~l~V~nlp~~~t~~~l~~~f~~~G----~v~~v~i~~~~~~~~~~g~afV~f~~~~~A~~A~~~l--~g~~~~g   85 (94)
T 2e5h_A           12 LAPSKSTVYVSNLPFSLTNNDLYRIFSKYG----KVVKVTIMKDKDTRKSKGVAFILFLDKDSAQNCTRAI--NNKQLFG   85 (94)
T ss_dssp             CCCCTTSEEEESCCTTSCHHHHHHHTTTTS----CEEEEEECCCSSSCCCTTCEEEEESCHHHHHHHHHHT--TTEEETT
T ss_pred             CCCCCCEEEEECCCCCCCHHHHHHHHHhcC----CeEEEEEEeCCCCCCcccEEEEEECCHHHHHHHHHHc--CCCeeCC
Confidence            345678999999999999999999999999    9999999764      247999999999999999999  6899999


Q ss_pred             eEEEEEec
Q psy5142         345 VKVSIEVV  352 (410)
Q Consensus       345 ~~v~v~~l  352 (410)
                      +.|.|...
T Consensus        86 ~~l~v~~a   93 (94)
T 2e5h_A           86 RVIKASIA   93 (94)
T ss_dssp             EEEEEEEC
T ss_pred             cEEEEEec
Confidence            99999864

>2fc8_A NCL protein; structure genomics, RRM_1 domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.29  E-value=2.9e-12  Score=103.33  Aligned_cols=67  Identities=24%  Similarity=0.316  Sum_probs=57.3

Q ss_pred             ccceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCCccc
Q psy5142         117 LIAQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLKF  196 (410)
Q Consensus       117 ~~~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~~~  196 (410)
                      ...++|||+|||+++|+++|+++|+.|    +.   |.++++..++    .++|||||+|.+.++|++|++.+++  ..+
T Consensus        13 ~~~~~l~V~nLp~~~t~~~l~~~F~~~----~~---~~~~~~~~~~----~~~g~afV~f~~~~~A~~A~~~l~g--~~~   79 (102)
T 2fc8_A           13 QPSKTLFVKGLSEDTTEETLKESFDGS----VR---ARIVTDRETG----SSKGFGFVDFNSEEDAKAAKEAMED--GEI   79 (102)
T ss_dssp             CCCSSEEEECCCTTCCHHHHHHTSTTC----SE---EEEEECSSSC----SEEEEEEEECSSHHHHHHHHHHHTT--CEE
T ss_pred             CCCCEEEEeCCCCccCHHHHHHHhcCC----eE---EEEEecCCCC----CcCcEEEEEECCHHHHHHHHHHhCC--CeE
Confidence            457999999999999999999999998    74   5555665554    7899999999999999999999886  455

>2do4_A Squamous cell carcinoma antigen recognized by T- cells 3; RRM domaim, RDB, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=99.29  E-value=1.5e-11  Score=98.76  Aligned_cols=76  Identities=16%  Similarity=0.264  Sum_probs=68.8

Q ss_pred             CCCCeEEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCCC-----ceEEEEeCChhHHHHHHHHhcCCCeEEcCeE
Q psy5142         272 LPTGALLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVGE-----PTAFVRYKKENNAEAVLKALGSKEIVIKDVK  346 (410)
Q Consensus       272 ~~~g~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g~-----~~afV~F~~~e~A~~Al~~l~~~~~~i~g~~  346 (410)
                      ..+.+.|+|.|||..+++++|+++|++||    .|..|.+..+.     ++|||+|.+.++|++|+..|  ++..++|+.
T Consensus        14 ~~~~~~l~v~nlp~~~t~~~l~~~F~~~G----~i~~v~i~~~~~g~~~g~afV~f~~~~~a~~A~~~l--~g~~~~g~~   87 (100)
T 2do4_A           14 SLEKHKLFISGLPFSCTKEELEEICKAHG----TVKDLRLVTNRAGKPKGLAYVEYENESQASQAVMKM--DGMTIKENI   87 (100)
T ss_dssp             CCCCSCEEEESCCTTCCHHHHHHHHTTTS----CEEEEEEEECTTSCEEEEEEEEESSHHHHHHHHHHH--TTEESSSCE
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhCC----CeEEEEEEECCCCCEEeEEEEEECCHHHHHHHHHHh--CCCEECCEE
Confidence            35567899999999999999999999999    99999988754     57999999999999999999  679999999


Q ss_pred             EEEEecC
Q psy5142         347 VSIEVVT  353 (410)
Q Consensus       347 v~v~~l~  353 (410)
                      |.|....
T Consensus        88 l~v~~a~   94 (100)
T 2do4_A           88 IKVAISN   94 (100)
T ss_dssp             EEEEECC
T ss_pred             EEEEECC
Confidence            9999875

>1fxl_A Paraneoplastic encephalomyelitis antigen HUD; protein-RNA complex, AU-rich element, transcription/RNA complex; 1.80A {Homo sapiens} SCOP: d.58.7.1 d.58.7.1 PDB: 1g2e_A 1fnx_H 1d8z_A 1d9a_A 3hi9_A

Probab=99.29  E-value=1.2e-11  Score=107.50  Aligned_cols=100  Identities=17%  Similarity=0.213  Sum_probs=76.6

Q ss_pred             cHHHHHHHHhhcCCceEEEecCccceecCCCCCCCCCchhhhhhccceeeEeecCCCCCCHHHHHHHHhhccCCCCceEE
Q psy5142          73 EAKVIVDALKKSTSKLIEVNEDGTKIRRNPEKELPTFDIDFVKDLIAQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITN  152 (410)
Q Consensus        73 d~~~i~~Al~~~~S~~levsed~~~vrR~~~~p~p~~~~~~~~~~~~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~  152 (410)
                      +.+....||..  -+...+......|....  |.+       .....++|||+|||.++|+++|+++|++|    |.|..
T Consensus        53 ~~~~A~~a~~~--l~~~~~~g~~l~v~~~~--~~~-------~~~~~~~l~v~nl~~~~t~~~l~~~f~~~----G~i~~  117 (167)
T 1fxl_A           53 DPKDAEKAINT--LNGLRLQTKTIKVSYAR--PSS-------ASIRDANLYVSGLPKTMTQKELEQLFSQY----GRIIT  117 (167)
T ss_dssp             SHHHHHHHHHH--HTTCEETTEECEEEECC--CCC-------GGGTTCEEEEESCCTTCCHHHHHHHHGGG----SCEEE
T ss_pred             CHHHHHHHHHH--cCCCccCCceEEEEecC--CCc-------ccCCCCcEEECCCCCcCCHHHHHHHHHhc----CCEeE
Confidence            45666667663  12344444334444432  211       12456899999999999999999999999    99999


Q ss_pred             EEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCC
Q psy5142         153 IIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKD  191 (410)
Q Consensus       153 v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g  191 (410)
                      |+++++..++    .++|+|||+|.+.++|.+|++.++|
T Consensus       118 ~~i~~~~~~g----~~~g~afV~f~~~~~A~~A~~~l~g  152 (167)
T 1fxl_A          118 SRILVDQVTG----VSRGVGFIRFDKRIEAEEAIKGLNG  152 (167)
T ss_dssp             EEEEECTTTC----CEEEEEEEEESSHHHHHHHHHHHTT
T ss_pred             EEEEecCCCC----CccceEEEEeCCHHHHHHHHHHhcC
Confidence            9999887654    7899999999999999999999986

>2jvr_A Nucleolar protein 3; RNA recognition motif, nucleus, phosphorylation, ribonucleoprotein, ribosome biogenesis, RNA-binding; NMR {Saccharomyces cerevisiae} PDB: 2osr_A

Probab=99.29  E-value=1.6e-11  Score=101.19  Aligned_cols=77  Identities=16%  Similarity=0.242  Sum_probs=68.0

Q ss_pred             CCCeEEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeC--CCceEEEEeCChhHHHHHHHHhcCCCeEEcCeEEEEE
Q psy5142         273 PTGALLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNV--GEPTAFVRYKKENNAEAVLKALGSKEIVIKDVKVSIE  350 (410)
Q Consensus       273 ~~g~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~--g~~~afV~F~~~e~A~~Al~~l~~~~~~i~g~~v~v~  350 (410)
                      +.++.|+|.|||+++++++|+++|++||   ..|.+|.+..  ..++|||+|.+.++|++||+.|  ++..++|+.|.|.
T Consensus        26 ~~~~~l~VgnLp~~~te~dL~~~F~~~G---~~v~~v~i~~~~~rGfaFV~F~~~e~A~~Ai~~l--ng~~l~Gr~i~V~  100 (111)
T 2jvr_A           26 AKRYRITMKNLPEGCSWQDLKDLARENS---LETTFSSVNTRDFDGTGALEFPSEEILVEALERL--NNIEFRGSVITVE  100 (111)
T ss_dssp             CCCEEEEEECSSCCCCHHHHHHHHHHHT---CCCSEEECSSCSSSCCEEEEESSHHHHHHHHHHT--TTEEETTEEEEEE
T ss_pred             CCCCEEEEECCCCCCCHHHHHHHHHHhC---CeeEEEEEEcCCCCCEEEEEECCHHHHHHHHHHc--CCCEECCeEEEEE
Confidence            4578999999999999999999999999   2478888753  4568999999999999999999  7899999999999


Q ss_pred             ecCc
Q psy5142         351 VVTG  354 (410)
Q Consensus       351 ~l~g  354 (410)
                      ...+
T Consensus       101 ~a~~  104 (111)
T 2jvr_A          101 RDDN  104 (111)
T ss_dssp             ESCC
T ss_pred             ECCC
Confidence            8763

>2dnq_A RNA-binding protein 4B; RRM domain,RBD, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.29  E-value=1.6e-11  Score=96.78  Aligned_cols=73  Identities=16%  Similarity=0.312  Sum_probs=67.4

Q ss_pred             CCCeEEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCCCceEEEEeCChhHHHHHHHHhcCCCeEEcCeEEEEEec
Q psy5142         273 PTGALLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVGEPTAFVRYKKENNAEAVLKALGSKEIVIKDVKVSIEVV  352 (410)
Q Consensus       273 ~~g~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g~~~afV~F~~~e~A~~Al~~l~~~~~~i~g~~v~v~~l  352 (410)
                      ++.+.|||.|||+++++++|+++|++||    .|..|.+.+  ++|||+|.+.++|++|+..|  ++..++|+.|.|...
T Consensus         6 ~~~~~l~V~nlp~~~t~~~l~~~F~~~G----~i~~v~~~~--g~afV~f~~~~~A~~A~~~l--~g~~~~g~~l~v~~a   77 (90)
T 2dnq_A            6 SGMVKLFIGNLPREATEQEIRSLFEQYG----KVLECDIIK--NYGFVHIEDKTAAEDAIRNL--HHYKLHGVNINVEAS   77 (90)
T ss_dssp             SCCEEEEEESCCSSCCHHHHHHHHHTSS----CEEEEEEET--TEEEEEESSHHHHHHHHHHH--TTCBCSSCBCEEECS
T ss_pred             CCCeEEEEeCCCCCCCHHHHHHHHHhCC----CEEEEEEEC--CEEEEEECCHHHHHHHHHHh--cCCccCCcEEEEEEC
Confidence            4568999999999999999999999999    999999984  79999999999999999999  678899999999875


Q ss_pred             C
Q psy5142         353 T  353 (410)
Q Consensus       353 ~  353 (410)
                      .
T Consensus        78 ~   78 (90)
T 2dnq_A           78 K   78 (90)
T ss_dssp             S
T ss_pred             C
Confidence            4

>1b7f_A Protein (SXL-lethal protein), RNA (5'-R(P*GP*UP*UP*GP*UP*UP*UP*UP*UP*UP*UP*U)-3; splicing regulation, RNP domain, RNA complex; 2.60A {Drosophila melanogaster} SCOP: d.58.7.1 d.58.7.1 PDB: 3sxl_A* 1sxl_A 2sxl_A

Probab=99.29  E-value=1.3e-11  Score=107.56  Aligned_cols=100  Identities=19%  Similarity=0.213  Sum_probs=76.2

Q ss_pred             cHHHHHHHHhhcCCceEEEecCccceecCCCCCCCCCchhhhhhccceeeEeecCCCCCCHHHHHHHHhhccCCCCceEE
Q psy5142          73 EAKVIVDALKKSTSKLIEVNEDGTKIRRNPEKELPTFDIDFVKDLIAQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITN  152 (410)
Q Consensus        73 d~~~i~~Al~~~~S~~levsed~~~vrR~~~~p~p~~~~~~~~~~~~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~  152 (410)
                      +.+....|+..  .+...+......|....  |.+       .....++|||+|||.++|+++|+++|++|    |.|..
T Consensus        54 ~~~~A~~a~~~--l~~~~~~g~~l~v~~~~--~~~-------~~~~~~~l~v~nl~~~~t~~~l~~~f~~~----G~i~~  118 (168)
T 1b7f_A           54 SEMDSQRAIKV--LNGITVRNKRLKVSYAR--PGG-------ESIKDTNLYVTNLPRTITDDQLDTIFGKY----GSIVQ  118 (168)
T ss_dssp             SHHHHHHHHHH--HTTCEETTEECEEEECC--CCS-------STTTTCEEEEESCCTTCCHHHHHHHHTSS----SCEEE
T ss_pred             CHHHHHHHHHh--cCCCEeCCcEEEEEecC--CCc-------ccCCCCCEEEeCCCCCCCHHHHHHhhhcC----CcEEE
Confidence            45666666652  22344443333444432  211       12456899999999999999999999999    99999


Q ss_pred             EEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCC
Q psy5142         153 IIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKD  191 (410)
Q Consensus       153 v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g  191 (410)
                      |.++++..++    .++|+|||+|.+.++|.+|+..++|
T Consensus       119 ~~i~~~~~~~----~~~g~afV~f~~~~~A~~A~~~l~g  153 (168)
T 1b7f_A          119 KNILRDKLTG----RPRGVAFVRYNKREEAQEAISALNN  153 (168)
T ss_dssp             EEEEECTTTC----CEEEEEEEEESSHHHHHHHHHHHTT
T ss_pred             EEEEEcCCCC----CcceEEEEEECCHHHHHHHHHHhcC
Confidence            9999987554    7899999999999999999999986

>2cqd_A RNA-binding region containing protein 1; RNA recognition motif, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.29  E-value=3.4e-11  Score=99.47  Aligned_cols=76  Identities=14%  Similarity=0.130  Sum_probs=67.7

Q ss_pred             CCCCCeEEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCCC------ceEEEEeCChhHHHHHHHHhcCCCeEEcC
Q psy5142         271 ELPTGALLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVGE------PTAFVRYKKENNAEAVLKALGSKEIVIKD  344 (410)
Q Consensus       271 ~~~~g~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g~------~~afV~F~~~e~A~~Al~~l~~~~~~i~g  344 (410)
                      .....+.|||.|||+.+++++|+++|++||    .|..|.+..+.      ++|||+|.+.++|++|+..+  ++ .++|
T Consensus        13 ~~~~~~~l~V~nlp~~~t~~~l~~~F~~~G----~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~Ai~~~--~~-~~~g   85 (116)
T 2cqd_A           13 KDTTFTKIFVGGLPYHTTDASLRKYFEGFG----DIEEAVVITDRQTGKSRGYGFVTMADRAAAERACKDP--NP-IIDG   85 (116)
T ss_dssp             CSCSSSEEEEECCCSSCCHHHHHHHHHTTS----CEEEEEESCCSSSCCCCSEEEEEESSHHHHHHHHTCS--SC-EETT
T ss_pred             CCCCCCEEEEeCCCCCCCHHHHHHHHHhCC----CeeEEEEEEcCCCCccceEEEEEECCHHHHHHHHHhC--CC-cCCC
Confidence            345678999999999999999999999999    99999998753      47999999999999999999  45 7999


Q ss_pred             eEEEEEecC
Q psy5142         345 VKVSIEVVT  353 (410)
Q Consensus       345 ~~v~v~~l~  353 (410)
                      +.|.|....
T Consensus        86 ~~l~V~~a~   94 (116)
T 2cqd_A           86 RKANVNLAY   94 (116)
T ss_dssp             EECEEEEST
T ss_pred             EEEEEEEcc
Confidence            999999864

>2la4_A Nuclear and cytoplasmic polyadenylated RNA-bindin PUB1; RRM, RNA recognition, stress granules, nucleus, RNA-binding, transcription; NMR {Saccharomyces cerevisiae}

Probab=99.29  E-value=7.8e-12  Score=100.67  Aligned_cols=75  Identities=13%  Similarity=0.191  Sum_probs=69.2

Q ss_pred             CCCeEEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCCCceEEEEeCChhHHHHHHHHhcCCCeEEcCeEEEEEec
Q psy5142         273 PTGALLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVGEPTAFVRYKKENNAEAVLKALGSKEIVIKDVKVSIEVV  352 (410)
Q Consensus       273 ~~g~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g~~~afV~F~~~e~A~~Al~~l~~~~~~i~g~~v~v~~l  352 (410)
                      +.++.|||.|||..+++++|+++|++||    .|..|.+.+..++|||+|.+.++|.+|+..|  ++..++|+.|.|...
T Consensus        25 ~~~~~l~V~nlp~~~~~~~l~~~f~~~G----~i~~~~~~~~~g~afV~f~~~~~A~~Ai~~l--~g~~~~g~~l~V~~a   98 (101)
T 2la4_A           25 PRVTTAYIGNIPHFATEADLIPLFQNFG----FILDFKHYPEKGCCFIKYDTHEQAAVCIVAL--ANFPFQGRNLRTGWG   98 (101)
T ss_dssp             SSCCEEEEESCCTTCCHHHHHHHHHTTS----CCSEEEEETTTTEEEEECSSHHHHHHHHHHH--TTCEETTEECCCCBC
T ss_pred             CCCCEEEEcCCCcccCHHHHHHHHHhCC----CEEEEEEecCCCEEEEEECCHHHHHHHHHHh--CCCeECCeEEEEEec
Confidence            4568999999999999999999999999    9999999988999999999999999999999  688999999988764


Q ss_pred             C
Q psy5142         353 T  353 (410)
Q Consensus       353 ~  353 (410)
                      .
T Consensus        99 ~   99 (101)
T 2la4_A           99 K   99 (101)
T ss_dssp             C
T ss_pred             c
Confidence            3

>2qfj_A FBP-interacting repressor; protein-DNA complex; HET: DNA; 2.10A {Homo sapiens} PDB: 3uwt_A 2kxf_A 2kxh_A

Probab=99.29  E-value=5.1e-12  Score=114.98  Aligned_cols=70  Identities=20%  Similarity=0.284  Sum_probs=64.1

Q ss_pred             ccceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCCccc
Q psy5142         117 LIAQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLKF  196 (410)
Q Consensus       117 ~~~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~~~  196 (410)
                      ...++|||+|||.++|+++|+++|++|    |.|..|+|+++..++    .++|+|||+|.+.++|.+|+..++|  ..+
T Consensus       123 ~~~~~l~v~nlp~~~t~~~l~~~f~~~----G~v~~v~i~~~~~~g----~~~g~afV~F~~~~~A~~A~~~l~g--~~~  192 (216)
T 2qfj_A          123 RAFNRIYVASVHQDLSDDDIKSVFEAF----GKIKSATLARDPTTG----KHKGYGFIEYEKAQSSQDAVSSMNL--FDL  192 (216)
T ss_dssp             TTSCEEEEECCCTTCCHHHHHHHHTTS----SCEEEEEEEECTTTC----CEEEEEEEEESSHHHHHHHHHHHTT--CBC
T ss_pred             CCCcEEEEeCCCCcCCHHHHHHHHhcc----CCeeEEEEEecCCCC----CcCceEEEEecCHHHHHHHHHHccC--CEe
Confidence            456899999999999999999999999    999999999987665    7899999999999999999999986  456

>1fjc_A Nucleolin RBD2, protein C23; RNP, RRM, RNA binding domain, nucleolus, structural protein; NMR {Mesocricetus auratus} SCOP: d.58.7.1

Probab=99.29  E-value=2.3e-12  Score=102.78  Aligned_cols=66  Identities=26%  Similarity=0.415  Sum_probs=57.1

Q ss_pred             hccceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCCcc
Q psy5142         116 DLIAQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLK  195 (410)
Q Consensus       116 ~~~~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~~  195 (410)
                      +...++|||+|||+++|+++|+++|++|    |.|..+    . .++    .++|||||+|.+.++|.+|+..++|  ..
T Consensus        13 ~~~~~~l~V~nL~~~~t~~~l~~~F~~~----g~v~~~----~-~~~----~~~g~afV~f~~~~~a~~A~~~l~g--~~   77 (96)
T 1fjc_A           13 VRAARTLLAKNLSFNITEDELKEVFEDA----LEIRLV----S-QDG----KSKGIAYIEFKSEADAEKNLEEKQG--AE   77 (96)
T ss_dssp             TTGGGEEEEESCCSSCCHHHHHHHHCSE----EEECCE----E-ETT----EEEEEEEEEESSHHHHHHHHHHTTE--EE
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHhhC----CcEEEe----C-CCC----CcceEEEEEECCHHHHHHHHHHhCC--CE
Confidence            3567999999999999999999999999    998766    1 222    6899999999999999999999886  45


Q ss_pred             c
Q psy5142         196 F  196 (410)
Q Consensus       196 ~  196 (410)
                      +
T Consensus        78 ~   78 (96)
T 1fjc_A           78 I   78 (96)
T ss_dssp             E
T ss_pred             E
Confidence            5

>2dgo_A Cytotoxic granule-associated RNA binding protein 1; RRM domain, structural genomics, NPPSFA; NMR {Mus musculus} PDB: 2rne_A 2dh7_A

Probab=99.28  E-value=2.6e-11  Score=100.00  Aligned_cols=77  Identities=13%  Similarity=0.169  Sum_probs=69.5

Q ss_pred             CCCCCeEEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCCC------ceEEEEeCChhHHHHHHHHhcCCCeEEcC
Q psy5142         271 ELPTGALLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVGE------PTAFVRYKKENNAEAVLKALGSKEIVIKD  344 (410)
Q Consensus       271 ~~~~g~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g~------~~afV~F~~~e~A~~Al~~l~~~~~~i~g  344 (410)
                      .....+.|||.|||..+++++|+++|++||    .|..|.+..+.      ++|||+|.+.++|++|+..|  ++..++|
T Consensus        11 ~~~~~~~l~V~nlp~~~t~~~l~~~F~~~G----~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~A~~~l--~g~~~~g   84 (115)
T 2dgo_A           11 DTSNHFHVFVGDLSPEITTEDIKAAFAPFG----RISDARVVKDMATGKSKGYGFVSFFNKWDAENAIQQM--GGQWLGG   84 (115)
T ss_dssp             CSTTCEEEEEESCCTTCCHHHHHHHHGGGS----CEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHT--TTCEETT
T ss_pred             CCCCCcEEEEeCCCCCCCHHHHHHHHHhcC----CeEEEEEEEcCCCCCcceEEEEEECCHHHHHHHHHHh--CCCEECC
Confidence            345678999999999999999999999999    99999998653      47999999999999999999  6789999


Q ss_pred             eEEEEEecC
Q psy5142         345 VKVSIEVVT  353 (410)
Q Consensus       345 ~~v~v~~l~  353 (410)
                      +.|.|....
T Consensus        85 ~~l~V~~a~   93 (115)
T 2dgo_A           85 RQIRTNWAT   93 (115)
T ss_dssp             EECEEEESS
T ss_pred             EEEEEEEcc
Confidence            999999865

>2hzc_A Splicing factor U2AF 65 kDa subunit; RNA splicing, RRM, RNA recognition, alternative conformation binding protein; HET: P6G; 1.47A {Homo sapiens} PDB: 1u2f_A

Probab=99.28  E-value=6.4e-12  Score=98.11  Aligned_cols=67  Identities=21%  Similarity=0.322  Sum_probs=55.8

Q ss_pred             ccceeeEeecCCCCCCHHHHHHHHhhccCCCC-------ceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhc
Q psy5142         117 LIAQSLYVKYIPVDATLDDIKDFFKKNTSEDV-------KITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNEN  189 (410)
Q Consensus       117 ~~~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G-------~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~  189 (410)
                      ...++|||+|||+++|+++|+++|++|....|       .|.++.+.+          .+|||||+|.+.++|++|+ .+
T Consensus         4 ~~~~~l~V~nLp~~~t~~~l~~~F~~~~~~~g~~~~~~~~v~~~~~~~----------~kg~afV~f~~~~~a~~A~-~l   72 (87)
T 2hzc_A            4 GSARRLYVGNIPFGITEEAMMDFFNAQMRLGGLTQAPGNPVLAVQINQ----------DKNFAFLEFRSVDETTQAM-AF   72 (87)
T ss_dssp             GGGGEEEEESCCTTCCHHHHHHHHHHHHHHTTCCSSSSCSEEEEEECS----------SSSEEEEEESSHHHHHHHG-GG
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHHHhhhcccccCCCCcceEEEecC----------CCcEEEEEcCCHHHHHHHH-hc
Confidence            35789999999999999999999999810002       799988863          4899999999999999999 88


Q ss_pred             CCCCccc
Q psy5142         190 KDKNLKF  196 (410)
Q Consensus       190 ~g~~~~~  196 (410)
                      +|  ..+
T Consensus        73 ~g--~~~   77 (87)
T 2hzc_A           73 DG--IIF   77 (87)
T ss_dssp             TT--CEE
T ss_pred             CC--CEE
Confidence            86  455

>2jvo_A Nucleolar protein 3; nucleus, phosphorylation, ribonucleoprotein, ribosome biogenesis, RNA-binding, rRNA processing; NMR {Saccharomyces cerevisiae} PDB: 2osq_A

Probab=99.28  E-value=5e-12  Score=103.58  Aligned_cols=64  Identities=23%  Similarity=0.440  Sum_probs=57.9

Q ss_pred             hhccceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCCc
Q psy5142         115 KDLIAQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNL  194 (410)
Q Consensus       115 ~~~~~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~  194 (410)
                      .+...++|||+|||.++|+++|+++|++|    |.|..|.|.            +|||||+|.+.++|++|+..++|  .
T Consensus        27 ~~~~~~~l~V~nLp~~~t~~~L~~~F~~~----G~i~~v~i~------------kg~afV~f~~~~~A~~Ai~~l~g--~   88 (108)
T 2jvo_A           27 GELSNTRLFVRPFPLDVQESELNEIFGPF----GPMKEVKIL------------NGFAFVEFEEAESAAKAIEEVHG--K   88 (108)
T ss_dssp             -CCSCSEEEECSSCTTCCHHHHHHHHTTT----SCCCEEEEE------------TTEEEEECSSHHHHHHHHHHHTT--C
T ss_pred             CCCCCCEEEEECCCCCCCHHHHHHHHHhc----CCEEEEEEE------------CCEEEEEECCHHHHHHHHHHcCC--C
Confidence            34678999999999999999999999999    999999885            68999999999999999999886  4


Q ss_pred             cc
Q psy5142         195 KF  196 (410)
Q Consensus       195 ~~  196 (410)
                      .+
T Consensus        89 ~~   90 (108)
T 2jvo_A           89 SF   90 (108)
T ss_dssp             EE
T ss_pred             EE
Confidence            55

>2hvz_A Splicing factor, arginine/serine-rich 7; RRM, RNA binding protein; NMR {Homo sapiens}

Probab=99.28  E-value=1.5e-11  Score=99.00  Aligned_cols=72  Identities=15%  Similarity=0.257  Sum_probs=66.7

Q ss_pred             eEEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCC-CceEEEEeCChhHHHHHHHHhcCCCeEEcCeEEEEEecC
Q psy5142         276 ALLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVG-EPTAFVRYKKENNAEAVLKALGSKEIVIKDVKVSIEVVT  353 (410)
Q Consensus       276 ~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g-~~~afV~F~~~e~A~~Al~~l~~~~~~i~g~~v~v~~l~  353 (410)
                      +.|+|.|||+++++++|+++|++||    .|..|.+..+ .++|||+|.+.++|++|+..|  ++..++|+.|.|....
T Consensus         1 ~~l~V~nLp~~~t~~~l~~~F~~~G----~i~~v~i~~~~~g~afV~f~~~~~a~~A~~~l--~g~~~~g~~l~V~~a~   73 (101)
T 2hvz_A            1 MKVYVGNLGTGAGKGELERAFSYYG----PLRTVWIARNPPGFAFVEFEDPRDAEDAVRGL--DGKVICGSRVRVELST   73 (101)
T ss_dssp             CEEEEECCCSSCSHHHHHHHHHHHC----CCSEEEEESSSSSEEEEECSSHHHHHHHHHHH--HHSCSSSCCCEEEESS
T ss_pred             CEEEEeCCCCCCCHHHHHHHHHhcC----CeEEEEEeeCCCCEEEEEECCHHHHHHHHHHH--CCCeECCcEEEEEEcc
Confidence            4799999999999999999999999    9999999886 789999999999999999999  5678999999999865

>2xnq_A Nuclear polyadenylated RNA-binding protein 3; transcription termination, RNA processi recognition, RRM; HET: CAF; 1.30A {Saccharomyces cerevisiae} PDB: 2xnr_A 2l41_A

Probab=99.27  E-value=2.6e-11  Score=97.25  Aligned_cols=77  Identities=16%  Similarity=0.229  Sum_probs=68.7

Q ss_pred             cCCCCCeEEEEeCCCC-CCCHHHHHHHHHhcCCCCCCeeEEEeeCCCceEEEEeCChhHHHHHHHHhcCCCeEEcCeEEE
Q psy5142         270 LELPTGALLKISDIKE-PVSREDIREVLEKVQTDDQEIVFIEFNVGEPTAFVRYKKENNAEAVLKALGSKEIVIKDVKVS  348 (410)
Q Consensus       270 ~~~~~g~~l~v~nL~~-~~t~edLk~~F~~~G~~~~~V~~V~~~~g~~~afV~F~~~e~A~~Al~~l~~~~~~i~g~~v~  348 (410)
                      ...++.+.|||.|||+ .+++++|+++|++||    .|..|.+.  .++|||+|.+.++|++|+..|  ++..++|+.|.
T Consensus        17 ~~~~~~~~l~V~nLp~~~~t~~~L~~~F~~~G----~v~~v~i~--~g~afV~f~~~~~A~~Ai~~l--~g~~~~g~~l~   88 (97)
T 2xnq_A           17 RGSHMKSRLFIGNLPLKNVSKEDLFRIFSPYG----HIMQINIK--NAFGFIQFDNPQSVRDAIEXE--SQEMNFGKKLI   88 (97)
T ss_dssp             --CCTTCEEEEESCCSSCCCHHHHHHHHGGGS----CEEEEEEC--SSEEEEEESSHHHHHHHHHHH--TTSEETTEECE
T ss_pred             CCCCCCCEEEEeCCCcccCCHHHHHHHHHhcC----CEEEEEEe--CCEEEEEECCHHHHHHHHHHc--CCCEECCEEEE
Confidence            3456788999999998 999999999999999    99999986  479999999999999999999  67899999999


Q ss_pred             EEecCc
Q psy5142         349 IEVVTG  354 (410)
Q Consensus       349 v~~l~g  354 (410)
                      |....+
T Consensus        89 V~~a~~   94 (97)
T 2xnq_A           89 LEVSSS   94 (97)
T ss_dssp             EEECCC
T ss_pred             EEecCC
Confidence            988653

>2dnm_A SRP46 splicing factor; RRM domain, RBD, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.27  E-value=1.4e-11  Score=99.51  Aligned_cols=77  Identities=18%  Similarity=0.277  Sum_probs=69.0

Q ss_pred             CCCCCeEEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCC------CceEEEEeCChhHHHHHHHHhcCCCeEEcC
Q psy5142         271 ELPTGALLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVG------EPTAFVRYKKENNAEAVLKALGSKEIVIKD  344 (410)
Q Consensus       271 ~~~~g~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g------~~~afV~F~~~e~A~~Al~~l~~~~~~i~g  344 (410)
                      ...+.+.|||.|||..+++++|+++|++||    .|..|.+..+      .++|||+|.+.++|++|+..|  ++..++|
T Consensus         9 ~~~~~~~l~V~nLp~~~t~~~l~~~f~~~G----~i~~v~i~~~~~~~~~~g~afV~f~~~~~A~~A~~~l--~g~~~~g   82 (103)
T 2dnm_A            9 DVDGMITLKVDNLTYRTSPDSLRRVFEKYG----RVGDVYIPREPHTKAPRGFAFVRFHDRRDAQDAEAAM--DGAELDG   82 (103)
T ss_dssp             CCSCCCEEEEESCCTTCCHHHHHHHHTTTS----CEEEEECCBCSSSCSBCSCEEEEESSSSHHHHHHHHH--SSCCBTT
T ss_pred             CCCCCeEEEEeCCCCCCCHHHHHHHHHhcC----CEEEEEEEeCCCCCCCCeEEEEEECCHHHHHHHHHHc--CCCEECC
Confidence            345678999999999999999999999999    9999998764      347999999999999999999  6788999


Q ss_pred             eEEEEEecC
Q psy5142         345 VKVSIEVVT  353 (410)
Q Consensus       345 ~~v~v~~l~  353 (410)
                      +.|.|....
T Consensus        83 ~~l~V~~a~   91 (103)
T 2dnm_A           83 RELRVQVAR   91 (103)
T ss_dssp             BCCEEEECS
T ss_pred             cEEEEEECC
Confidence            999999864

>1oo0_B CG8781-PA, drosophila Y14; RNA recognition motif, splicing, protein complex, EXON junct complex, signaling protein; 1.85A {Drosophila melanogaster} SCOP: d.58.7.1 PDB: 2hyi_B* 2j0s_D* 2xb2_D*

Probab=99.27  E-value=2.7e-11  Score=99.01  Aligned_cols=78  Identities=23%  Similarity=0.289  Sum_probs=69.9

Q ss_pred             cCCCCCeEEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCC------CceEEEEeCChhHHHHHHHHhcCCCeEEc
Q psy5142         270 LELPTGALLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVG------EPTAFVRYKKENNAEAVLKALGSKEIVIK  343 (410)
Q Consensus       270 ~~~~~g~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g------~~~afV~F~~~e~A~~Al~~l~~~~~~i~  343 (410)
                      ....++++|+|.|||..+++++|+++|++||    .|..|.+..+      .++|||+|.+.++|++|+..|  ++..++
T Consensus        21 ~~~~~~~~l~V~nlp~~~t~~~l~~~F~~~G----~i~~v~i~~~~~~~~~~g~afV~f~~~~~A~~Ai~~l--~g~~~~   94 (110)
T 1oo0_B           21 QRSVEGWILFVTSIHEEAQEDEIQEKFCDYG----EIKNIHLNLDRRTGFSKGYALVEYETHKQALAAKEAL--NGAEIM   94 (110)
T ss_dssp             CCBTTBEEEEEESCCTTCCHHHHHHHHGGGS----CEEEEECCBCTTTSSBCSEEEEEESSHHHHHHHHHHH--TTCEET
T ss_pred             CCCCCCCEEEEeCCCCCCCHHHHHHHHHhcC----CEEEEEEEecCCCCCcceEEEEEECCHHHHHHHHHHc--CCCEEC
Confidence            3456778999999999999999999999999    9999999765      357999999999999999999  678999


Q ss_pred             CeEEEEEecC
Q psy5142         344 DVKVSIEVVT  353 (410)
Q Consensus       344 g~~v~v~~l~  353 (410)
                      |+.|.|....
T Consensus        95 g~~l~V~~a~  104 (110)
T 1oo0_B           95 GQTIQVDWCF  104 (110)
T ss_dssp             TEECEEEESE
T ss_pred             CcEEEEEEcc
Confidence            9999998764

>2kvi_A Nuclear polyadenylated RNA-binding protein 3; RNA-binding motif, RRM, transcription termination, NUC phosphoprotein; NMR {Saccharomyces cerevisiae}

Probab=99.27  E-value=6.6e-12  Score=100.34  Aligned_cols=74  Identities=18%  Similarity=0.305  Sum_probs=66.4

Q ss_pred             CCCCeEEEEeCCCC-CCCHHHHHHHHHhcCCCCCCeeEEEeeCCCceEEEEeCChhHHHHHHHHhcCCCeEEcCeEEEEE
Q psy5142         272 LPTGALLKISDIKE-PVSREDIREVLEKVQTDDQEIVFIEFNVGEPTAFVRYKKENNAEAVLKALGSKEIVIKDVKVSIE  350 (410)
Q Consensus       272 ~~~g~~l~v~nL~~-~~t~edLk~~F~~~G~~~~~V~~V~~~~g~~~afV~F~~~e~A~~Al~~l~~~~~~i~g~~v~v~  350 (410)
                      .++.+.|||.|||+ .+++++|+++|++||    .|..|.+.+  ++|||+|.+.++|++|+..|  ++..+.|+.|.|.
T Consensus         7 ~~~~~~l~V~nlp~~~~t~~~l~~~F~~~G----~v~~v~i~~--g~afV~f~~~~~A~~A~~~l--~g~~~~g~~l~V~   78 (96)
T 2kvi_A            7 IPPKSRLFIGNLPLKNVSKEDLFRIFSPYG----HIMQINIKN--AFGFIQFDNPQSVRDAIECE--SQEMNFGKKLILE   78 (96)
T ss_dssp             --CCEEEEEESSTTSCCCHHHHHHHHTTTC----CCCEEEEET--TEEEEEESCHHHHHHHHHHH--TCSSCBTTTBCEE
T ss_pred             CCCCCEEEEeCCCcccCCHHHHHHHHHhcC----CEEEEEEeC--CEEEEEECCHHHHHHHHHHc--CCCeeCCcEEEEE
Confidence            46788999999998 999999999999999    999999974  69999999999999999999  6788899999998


Q ss_pred             ecC
Q psy5142         351 VVT  353 (410)
Q Consensus       351 ~l~  353 (410)
                      ...
T Consensus        79 ~a~   81 (96)
T 2kvi_A           79 VSS   81 (96)
T ss_dssp             EEE
T ss_pred             EcC
Confidence            754

>2err_A Ataxin-2-binding protein 1; protein-RNA complex, RNA binding protein; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.27  E-value=1.5e-11  Score=100.81  Aligned_cols=77  Identities=18%  Similarity=0.305  Sum_probs=69.4

Q ss_pred             CCCCeEEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCC----CceEEEEeCChhHHHHHHHHhcCCCeEEcCeEE
Q psy5142         272 LPTGALLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVG----EPTAFVRYKKENNAEAVLKALGSKEIVIKDVKV  347 (410)
Q Consensus       272 ~~~g~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g----~~~afV~F~~~e~A~~Al~~l~~~~~~i~g~~v  347 (410)
                      ....+.|||.|||..+++++|+++|++||    .|..|.+..+    .++|||+|.+.++|++|+..|  ++..++|+.|
T Consensus        26 ~~~~~~l~V~nLp~~~te~~l~~~F~~~G----~i~~v~i~~~~~~~kg~afV~f~~~~~A~~Ai~~l--~g~~~~g~~l   99 (109)
T 2err_A           26 KSQPKRLHVSNIPFRFRDPDLRQMFGQFG----KILDVEIIFNERGSKGFGFVTFENSADADRAREKL--HGTVVEGRKI   99 (109)
T ss_dssp             TTCCCEEEEESCCTTCCHHHHHHHGGGTC----CCSCEEECCBTTBCTTEEEEECCCSHHHHHHHHHH--TTCEETTEEC
T ss_pred             CCCCCEEEEECCCCcCCHHHHHHHHHhcC----CEEEEEEEECCCCCceEEEEEECCHHHHHHHHHHc--CCCEECCEEE
Confidence            45678999999999999999999999999    9999988765    568999999999999999999  6789999999


Q ss_pred             EEEecCc
Q psy5142         348 SIEVVTG  354 (410)
Q Consensus       348 ~v~~l~g  354 (410)
                      .|.....
T Consensus       100 ~V~~a~~  106 (109)
T 2err_A          100 EVNNATA  106 (109)
T ss_dssp             EEEECCC
T ss_pred             EEEECCC
Confidence            9988653

>2cqb_A Peptidyl-prolyl CIS-trans isomerase E; RNA recognition motif, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.26  E-value=1.4e-11  Score=99.34  Aligned_cols=75  Identities=16%  Similarity=0.277  Sum_probs=68.1

Q ss_pred             CCCeEEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCC------CceEEEEeCChhHHHHHHHHhcCCCeEEcCeE
Q psy5142         273 PTGALLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVG------EPTAFVRYKKENNAEAVLKALGSKEIVIKDVK  346 (410)
Q Consensus       273 ~~g~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g------~~~afV~F~~~e~A~~Al~~l~~~~~~i~g~~  346 (410)
                      ++.+.|||.|||..+++++|+++|++||    .|..|.+..+      .++|||+|.+.++|++|++.|  ++..++|+.
T Consensus        10 ~~~~~l~V~nLp~~~t~~~l~~~f~~~G----~i~~v~i~~~~~~~~~~g~afV~f~~~~~A~~A~~~l--~g~~~~g~~   83 (102)
T 2cqb_A           10 TTKRVLYVGGLAEEVDDKVLHAAFIPFG----DITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDNM--NESELFGRT   83 (102)
T ss_dssp             CCCSCEEEESCCSSCCHHHHHHHHTTTS----CCCCEECCCCSSSCCCSSEEEECCSSHHHHHHHHHHH--TTEEETTEE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHhhccC----CEEEEEEEecCCCCCcceEEEEEECCHHHHHHHHHHh--CCCEECCcE
Confidence            4567999999999999999999999999    9999988654      457999999999999999999  689999999


Q ss_pred             EEEEecC
Q psy5142         347 VSIEVVT  353 (410)
Q Consensus       347 v~v~~l~  353 (410)
                      |.|....
T Consensus        84 l~V~~a~   90 (102)
T 2cqb_A           84 IRVNLAK   90 (102)
T ss_dssp             EEEEECC
T ss_pred             EEEEeCC
Confidence            9999865

>3d2w_A TAR DNA-binding protein 43; DP-43 proteinopathy, TDP-43 inclusions, RNA recognition MOTI U, ALS, RRM; HET: DNA; 1.65A {Mus musculus}

Probab=99.26  E-value=9.8e-12  Score=98.19  Aligned_cols=55  Identities=20%  Similarity=0.423  Sum_probs=49.8

Q ss_pred             ccceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHH
Q psy5142         117 LIAQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEK  184 (410)
Q Consensus       117 ~~~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~  184 (410)
                      ....+|||+|||+++|+++|+++|++|    |.|.+|+|++         .++|||||+|.+.++|++
T Consensus         9 ~~~~~l~V~~Lp~~~te~~L~~~F~~~----G~i~~v~i~~---------~srGfaFV~F~~~~~A~~   63 (89)
T 3d2w_A            9 HHGSKVFVGRCTEDMTAEELQQFFCQY----GEVVDVFIPK---------PFRAFAFVTFADDKVAQS   63 (89)
T ss_dssp             --CCEEEEESCCTTCCHHHHHHHHTTT----SCEEEEECCS---------SCCSEEEEEESCHHHHHH
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHhcc----CCEEEEEEee---------CCCCEEEEEECCHHHHHH
Confidence            456899999999999999999999999    9999999986         368999999999999984

>2dgv_A HnRNP M, heterogeneous nuclear ribonucleoprotein M; RRM domain, structural genomics, NPPSFA; NMR {Homo sapiens} PDB: 2dh9_A

Probab=99.26  E-value=1e-11  Score=98.09  Aligned_cols=76  Identities=4%  Similarity=0.225  Sum_probs=67.7

Q ss_pred             CCCCeEEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCC----CceEEEEeCChhHHHHHHHHhcCCCeEEcCeEE
Q psy5142         272 LPTGALLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVG----EPTAFVRYKKENNAEAVLKALGSKEIVIKDVKV  347 (410)
Q Consensus       272 ~~~g~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g----~~~afV~F~~~e~A~~Al~~l~~~~~~i~g~~v  347 (410)
                      .++.+.|+|.|||..+++++|+++|++||    .|..|.+...    .++|||+|.+.++|++|+..|  ++..++|+.|
T Consensus         5 ~~~~~~l~V~nlp~~~t~~~l~~~f~~~G----~v~~~~i~~~~g~~~g~afV~f~~~~~a~~a~~~l--~g~~~~g~~l   78 (92)
T 2dgv_A            5 SSGACQIFVRNLPFDFTWKMLKDKFNECG----HVLYADIKMENGKSKGCGVVKFESPEVAERACRMM--NGMKLSGREI   78 (92)
T ss_dssp             SSSCCEEEECSCCTTCCHHHHHHHHHTTS----CEEEEEEEESSSCEEEEEEEEESSHHHHHHHHHHH--TTCCBTTBCC
T ss_pred             CCCCcEEEEeCCCCCCCHHHHHHHHHhcC----CEEEEEEEccCCCcceEEEEEECCHHHHHHHHHHh--CCCEECCcEE
Confidence            35678999999999999999999999999    9999988763    246999999999999999999  6788999999


Q ss_pred             EEEecC
Q psy5142         348 SIEVVT  353 (410)
Q Consensus       348 ~v~~l~  353 (410)
                      .|+...
T Consensus        79 ~v~~a~   84 (92)
T 2dgv_A           79 DVRIDR   84 (92)
T ss_dssp             CCEECS
T ss_pred             EEEEcC
Confidence            998764

>2cpf_A RNA binding motif protein 19; RNA recognition motif, RRM, RNP, structural genomics, NPPSFA; NMR {Mus musculus} SCOP: d.58.7.1

Probab=99.26  E-value=1.5e-11  Score=98.43  Aligned_cols=75  Identities=23%  Similarity=0.307  Sum_probs=66.7

Q ss_pred             CCCeEEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCC---------CceEEEEeCChhHHHHHHHHhcCCCeEEc
Q psy5142         273 PTGALLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVG---------EPTAFVRYKKENNAEAVLKALGSKEIVIK  343 (410)
Q Consensus       273 ~~g~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g---------~~~afV~F~~~e~A~~Al~~l~~~~~~i~  343 (410)
                      ++.+.|||.|||+.+++++|+++|++||    .|..|.+..+         .++|||+|.+.++|++|+..|  ++..++
T Consensus         3 ~~~~~l~V~nLp~~~t~~~l~~~F~~~G----~i~~v~i~~~~~~~gt~~~~g~afV~f~~~~~a~~A~~~l--~g~~~~   76 (98)
T 2cpf_A            3 SGSSGLFIKNLNFSTTEETLKGVFSKVG----AIKSCTISKKKNKAGVLLSMGFGFVEYKKPEQAQKALKQL--QGHTVD   76 (98)
T ss_dssp             CCCCCEEEESCCTTCCHHHHHHHHHTTS----CEEEEEEEEEECTTCCEEEEEEEEEEESSHHHHHHHHHHS--TTCEET
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcC----CeEEEEEEecCCCCCCcCcccEEEEEECCHHHHHHHHHHh--CCCeeC
Confidence            3567899999999999999999999999    9999988742         247999999999999999999  678999


Q ss_pred             CeEEEEEecC
Q psy5142         344 DVKVSIEVVT  353 (410)
Q Consensus       344 g~~v~v~~l~  353 (410)
                      |+.|.|....
T Consensus        77 g~~l~V~~a~   86 (98)
T 2cpf_A           77 GHKLEVRISE   86 (98)
T ss_dssp             TEECEEECSS
T ss_pred             CeEEEEEEcc
Confidence            9999998764

>2cpz_A CUG triplet repeat RNA-binding protein 1; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: d.58.7.1 PDB: 2rq4_A 2rqc_A

Probab=99.26  E-value=2e-11  Score=100.74  Aligned_cols=77  Identities=18%  Similarity=0.301  Sum_probs=68.8

Q ss_pred             CCCCCeEEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCCC------ceEEEEeCChhHHHHHHHHhcCCCeEEcC
Q psy5142         271 ELPTGALLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVGE------PTAFVRYKKENNAEAVLKALGSKEIVIKD  344 (410)
Q Consensus       271 ~~~~g~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g~------~~afV~F~~~e~A~~Al~~l~~~~~~i~g  344 (410)
                      ..+..+.|||.|||.++++++|+++|++||    .|..|.+..+.      ++|||+|.+.++|++|+..|  ++..++|
T Consensus        21 ~~~~~~~l~V~nLp~~~t~~~l~~~F~~~G----~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~A~~~l--~g~~~~g   94 (115)
T 2cpz_A           21 EGPEGANLFIYHLPQEFGDQDLLQMFMPFG----NVVSAKVFIDKQTNLSKCFGFVSYDNPVSAQAAIQSM--NGFQIGM   94 (115)
T ss_dssp             CCSTTCCEEEESCCSSCCHHHHHHHHGGGS----CCSEEEEEECSSSCSEEEEEEEECSSHHHHHHHHHHH--TTCEETT
T ss_pred             CCCCCcEEEEeCCCCCCCHHHHHHHHHhcC----CeEEEEEEECCCCCCcCccEEEEECCHHHHHHHHHHc--CCCEECC
Confidence            345668999999999999999999999999    99999888654      36999999999999999999  6789999


Q ss_pred             eEEEEEecC
Q psy5142         345 VKVSIEVVT  353 (410)
Q Consensus       345 ~~v~v~~l~  353 (410)
                      +.|.|....
T Consensus        95 ~~l~V~~a~  103 (115)
T 2cpz_A           95 KRLKVQLKR  103 (115)
T ss_dssp             EECEEECCC
T ss_pred             EEEEEEEcC
Confidence            999999764

>1x4h_A RNA-binding protein 28; structural genomics, RRM domain, NPPSFA, national project on protein structural and functional analyses; NMR {Mus musculus} SCOP: d.58.7.1

Probab=99.26  E-value=3.4e-11  Score=98.43  Aligned_cols=79  Identities=14%  Similarity=0.330  Sum_probs=69.5

Q ss_pred             CCCCCeEEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCC------CceEEEEeCChhHHHHHHHHhcCC----Ce
Q psy5142         271 ELPTGALLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVG------EPTAFVRYKKENNAEAVLKALGSK----EI  340 (410)
Q Consensus       271 ~~~~g~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g------~~~afV~F~~~e~A~~Al~~l~~~----~~  340 (410)
                      ...+.+.|||.|||+.+++++|+++|++||    .|..|.+..+      .++|||+|.+.++|++|+..++.+    +.
T Consensus        11 ~~~~~~~l~V~nLp~~~t~~~l~~~F~~~G----~i~~v~i~~~~~~g~~~g~afV~f~~~~~A~~A~~~~~~~~~~~~~   86 (111)
T 1x4h_A           11 DVTEGKTVFIRNLSFDSEEEALGEVLQQFG----DLKYVRVVLHPDTEHSKGCAFAQFMTQEAAQKCLAAASLEAEGGGL   86 (111)
T ss_dssp             CCCCCCCEEEESCCTTCCHHHHHHHHHTTS----CEEEEECCBCSSSCCBCSEEEEEESSHHHHHHHHHHHCTTTTTCCE
T ss_pred             cCCCCCEEEEECCCCCCCHHHHHHHHHhcC----CeEEEEEEecCCCCCCccEEEEEECCHHHHHHHHHHhccccccCCc
Confidence            345678999999999999999999999999    9999998854      457999999999999999999422    89


Q ss_pred             EEcCeEEEEEecC
Q psy5142         341 VIKDVKVSIEVVT  353 (410)
Q Consensus       341 ~i~g~~v~v~~l~  353 (410)
                      .++|+.|.|....
T Consensus        87 ~~~g~~l~v~~a~   99 (111)
T 1x4h_A           87 KLDGRQLKVDLAV   99 (111)
T ss_dssp             ESSSCEEEEECCC
T ss_pred             EEcCEEEEEEECC
Confidence            9999999999765

>1p27_B RNA-binding protein 8A; nuclear protein, mRNA splicing; 2.00A {Homo sapiens} SCOP: d.58.7.1

Probab=99.26  E-value=2e-11  Score=99.11  Aligned_cols=77  Identities=21%  Similarity=0.324  Sum_probs=68.7

Q ss_pred             CCCCCeEEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCC------CceEEEEeCChhHHHHHHHHhcCCCeEEcC
Q psy5142         271 ELPTGALLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVG------EPTAFVRYKKENNAEAVLKALGSKEIVIKD  344 (410)
Q Consensus       271 ~~~~g~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g------~~~afV~F~~~e~A~~Al~~l~~~~~~i~g  344 (410)
                      ...+++.|+|.|||..+++++|+++|++||    .|..|.+..+      .++|||+|.+.++|++|+..|  ++..++|
T Consensus        19 ~~~~~~~l~V~nlp~~~t~~~l~~~f~~~G----~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~A~~~l--~g~~~~g   92 (106)
T 1p27_B           19 RSVEGWILFVTGVHEEATEEDIHDKFAEYG----EIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGL--NGQDLMG   92 (106)
T ss_dssp             CBTTBEEEEEECCCTTCCHHHHHHHHGGGS----CEEEEEEEECTTTSSEEEEEEEEESCHHHHHHHHHHH--TTCBSSS
T ss_pred             CCCCCCEEEEeCCCCCCCHHHHHHHHhccC----CeEEEEEEecCCCCceeeEEEEEECCHHHHHHHHHHh--cCCEECC
Confidence            456678999999999999999999999999    9999998754      246999999999999999999  6789999


Q ss_pred             eEEEEEecC
Q psy5142         345 VKVSIEVVT  353 (410)
Q Consensus       345 ~~v~v~~l~  353 (410)
                      +.|.|....
T Consensus        93 ~~l~V~~a~  101 (106)
T 1p27_B           93 QPISVDWCF  101 (106)
T ss_dssp             SBCEEEESE
T ss_pred             cEEEEEeec
Confidence            999998764

>2e5g_A U6 snRNA-specific terminal uridylyltransferase 1; RRM domain, RBD, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=99.26  E-value=1.1e-11  Score=98.51  Aligned_cols=63  Identities=14%  Similarity=0.178  Sum_probs=54.0

Q ss_pred             cceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCCccc
Q psy5142         118 IAQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLKF  196 (410)
Q Consensus       118 ~~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~~~  196 (410)
                      ..++|||+|||+++|+++|+++|++|    |.|.+|  +.+..++      + ||||+|.+.++|++|++ ++|  ..+
T Consensus         7 ~~~~l~V~nl~~~~t~~~l~~~F~~~----G~v~~v--~~~~~~g------~-~afV~f~~~~~a~~ai~-l~g--~~~   69 (94)
T 2e5g_A            7 GLRSVFVSGFPRGVDSAQLSEYFLAF----GPVASV--VMDKDKG------V-FAIVEMGDVGAREAVLS-QSQ--HSL   69 (94)
T ss_dssp             TCCEEEEECCCTTCCHHHHHHHGGGT----SCEEEE--EECSSSC------C-EEEEEESSHHHHHHHHT-CSC--CEE
T ss_pred             CCCEEEEECCCCCCCHHHHHHHHHhc----CCeEEE--EEcCCCC------c-EEEEEECCHHHHHHHHh-cCC--eEE
Confidence            45899999999999999999999999    999988  3333332      2 99999999999999999 886  556

>3beg_B Splicing factor, arginine/serine-rich 1; kinase, SR protein kinase, SR protein, PRE-mRNA splicing, at binding, chromosome partition; HET: SEP ANP; 2.90A {Homo sapiens} SCOP: d.58.7.1 PDB: 2o3d_A 1wg4_A

Probab=99.26  E-value=8.5e-12  Score=103.30  Aligned_cols=62  Identities=19%  Similarity=0.282  Sum_probs=55.4

Q ss_pred             cceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCCccc
Q psy5142         118 IAQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLKF  196 (410)
Q Consensus       118 ~~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~~~  196 (410)
                      ..++|||+|||+++|+++|+++|++|    |.|..|.|+.         .  |||||+|.+.++|++||+.++|  ..+
T Consensus        15 ~~~~l~V~nLp~~~t~~~l~~~F~~~----G~v~~~~i~~---------~--g~afV~f~~~~~a~~Ai~~l~g--~~~   76 (115)
T 3beg_B           15 SENRVVVSGLPPSGSWQDLKDHMREA----GDVCYADVYR---------D--GTGVVEFVRKEDMTYAVRKLDN--TKF   76 (115)
T ss_dssp             --CCEEEEECCSSCCTTHHHHHHGGG----SCEEEEEECT---------T--SEEEEEESSHHHHHHHHHHHTT--CBC
T ss_pred             CCcEEEEeCCCCCCCHHHHHHHHHhc----CCeEEEEEec---------C--CEEEEEECCHHHHHHHHHHhCC--CEE
Confidence            46899999999999999999999999    9999999864         2  8999999999999999999986  445

>1x5u_A Splicing factor 3B subunit 4 (spliceosome associated protein 49) (SAP 49) (SF3B50)...; structure genomics,RRM domain,splicing factor 3B; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.26  E-value=2.1e-11  Score=98.75  Aligned_cols=77  Identities=17%  Similarity=0.245  Sum_probs=69.1

Q ss_pred             CCCCCeEEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCCC------ceEEEEeCChhHHHHHHHHhcCCCeEEcC
Q psy5142         271 ELPTGALLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVGE------PTAFVRYKKENNAEAVLKALGSKEIVIKD  344 (410)
Q Consensus       271 ~~~~g~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g~------~~afV~F~~~e~A~~Al~~l~~~~~~i~g  344 (410)
                      ...+.+.|||.|||+.+++++|+++|++||    .|..|.+..+.      ++|||+|.+.++|++|+..|  ++..++|
T Consensus        11 ~~~~~~~l~V~nlp~~~t~~~l~~~F~~~G----~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~A~~~l--~g~~~~g   84 (105)
T 1x5u_A           11 ERNQDATVYVGGLDEKVSEPLLWELFLQAG----PVVNTHMPKDRVTGQHQGYGFVEFLSEEDADYAIKIM--DMIKLYG   84 (105)
T ss_dssp             CCCTTTEEEEECCCTTCCHHHHHHHHHTTS----CEEEEECCBCSSSCSBCSCEEEEESSHHHHHHHHHHS--SSCBCSS
T ss_pred             cCCCCCEEEEeCCCCCCCHHHHHHHHHhcC----CeEEEEEEecCCCCcCCcEEEEEECCHHHHHHHHHHh--CCCeECC
Confidence            345678999999999999999999999999    99999987653      37999999999999999999  6788999


Q ss_pred             eEEEEEecC
Q psy5142         345 VKVSIEVVT  353 (410)
Q Consensus       345 ~~v~v~~l~  353 (410)
                      +.|.|....
T Consensus        85 ~~l~v~~a~   93 (105)
T 1x5u_A           85 KPIRVNKAS   93 (105)
T ss_dssp             CBCEEEETT
T ss_pred             eEEEEEECC
Confidence            999999865

>2dis_A Unnamed protein product; structural genomics, RRM domain, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.26  E-value=1.2e-11  Score=100.93  Aligned_cols=79  Identities=23%  Similarity=0.262  Sum_probs=69.7

Q ss_pred             CCCeEEEEeCCCCCCCHHHHHHHHHhcCCCCCC-eeEEEee-------CCCceEEEEeCChhHHHHHHHHhcCCCeEEcC
Q psy5142         273 PTGALLKISDIKEPVSREDIREVLEKVQTDDQE-IVFIEFN-------VGEPTAFVRYKKENNAEAVLKALGSKEIVIKD  344 (410)
Q Consensus       273 ~~g~~l~v~nL~~~~t~edLk~~F~~~G~~~~~-V~~V~~~-------~g~~~afV~F~~~e~A~~Al~~l~~~~~~i~g  344 (410)
                      ...+.|||.|||+.+++++|+++|++||    . |..|.+.       ...++|||+|.+.++|++|+..|+++++.++|
T Consensus         6 ~~~~~l~V~nLp~~~t~~~l~~~f~~~G----~~v~~v~i~~~~~~~g~~~g~afV~f~~~~~A~~A~~~l~~g~~~~~g   81 (109)
T 2dis_A            6 SGNCRLFIGGIPKMKKREEILEEIAKVT----EGVLDVIVYASAADKMKNRGFAFVEYESHRAAAMARRKLMPGRIQLWG   81 (109)
T ss_dssp             CCSEEEEEECCCTTSCHHHHHHHHHHHS----TTEEEEECCSSSCTTTTTCCEEEEEESSHHHHHHHHTTTTTCCSCBTT
T ss_pred             cCCCEEEEeCCCCcCCHHHHHHHHHHhc----CCceEEEEEccCCCCCCcCcEEEEEecCHHHHHHHHHHhhCCCceecC
Confidence            4568999999999999999999999999    8 9999887       34568999999999999999999544689999


Q ss_pred             eEEEEEecCch
Q psy5142         345 VKVSIEVVTGE  355 (410)
Q Consensus       345 ~~v~v~~l~g~  355 (410)
                      +.|.|......
T Consensus        82 ~~l~V~~a~~~   92 (109)
T 2dis_A           82 HQIAVDWAEPE   92 (109)
T ss_dssp             BCCEEEESCSS
T ss_pred             CeEEEEEcCCC
Confidence            99999987643

>3q2s_C Cleavage and polyadenylation specificity factor S; CFIM, CFIM25, CFIM68, CPSF5, CPSF6, CPSF, 3' END processing, processing, cleavage factor; 2.90A {Homo sapiens} PDB: 3q2t_C

Probab=99.25  E-value=8.2e-12  Score=116.13  Aligned_cols=81  Identities=16%  Similarity=0.174  Sum_probs=68.2

Q ss_pred             CCeEEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCCC------ceEEEEeCChhHHHHHHHHhcCCCeEEcCeEE
Q psy5142         274 TGALLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVGE------PTAFVRYKKENNAEAVLKALGSKEIVIKDVKV  347 (410)
Q Consensus       274 ~g~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g~------~~afV~F~~~e~A~~Al~~l~~~~~~i~g~~v  347 (410)
                      ..+.|||.|||+.+++++|+++|++||.  ..|..|.+..+.      ++|||.|.+.++|++||+.|  ++..|+|+.|
T Consensus        67 ~~~~lfVgnL~~~~te~~L~~~F~~~G~--~~v~~v~i~~d~~tg~skGfaFV~f~~~~~a~~Ai~~l--ng~~~~Gr~l  142 (229)
T 3q2s_C           67 KRIALYIGNLTWWTTDEDLTEAVHSLGV--NDILEIKFFENRANGQSKGFALVGVGSEASSKKLMDLL--PKRELHGQNP  142 (229)
T ss_dssp             --CEEEEESCCTTCCHHHHHHHHHTTTC--CCEEEEEEEECTTTCCEEEEEEEEESCTTHHHHHHTTS--TTSCBTTBCC
T ss_pred             CccEEEEeCCCCCCCHHHHHHHHHHHCC--cceEEEEEEecCCCCccceEEEEEECCHHHHHHHHHHc--CCCeECCEEe
Confidence            4578999999999999999999999992  158888887653      36999999999999999999  6789999999


Q ss_pred             EEEecCchHHH
Q psy5142         348 SIEVVTGEEEQ  358 (410)
Q Consensus       348 ~v~~l~g~eE~  358 (410)
                      .|.+.......
T Consensus       143 ~V~~a~~~~~~  153 (229)
T 3q2s_C          143 VVTPVNKQFLS  153 (229)
T ss_dssp             EEEECCHHHHH
T ss_pred             EEEECCCCccc
Confidence            99998755444

>2dnh_A Bruno-like 5, RNA binding protein; RRM domain, RBD, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} PDB: 2dnk_A 2dno_A

Probab=99.25  E-value=1.2e-11  Score=100.13  Aligned_cols=75  Identities=17%  Similarity=0.216  Sum_probs=67.4

Q ss_pred             CCCeEEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCC-----CceEEEEeCChhHHHHHHHHhcCCCeEEcC---
Q psy5142         273 PTGALLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVG-----EPTAFVRYKKENNAEAVLKALGSKEIVIKD---  344 (410)
Q Consensus       273 ~~g~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g-----~~~afV~F~~~e~A~~Al~~l~~~~~~i~g---  344 (410)
                      +..+.|||.|||..+++++|+++|++||    .|..|.+..+     .++|||+|.+.++|++|+..|  ++..+.|   
T Consensus        13 ~~~~~l~v~nLp~~~t~~~l~~~F~~~G----~i~~v~i~~~~~g~~~g~afV~f~~~~~A~~Ai~~l--~g~~~~gg~~   86 (105)
T 2dnh_A           13 GRDRKLFVGMLNKQQSEEDVLRLFQPFG----VIDECTVLRGPDGSSKGCAFVKFSSHTEAQAAIHAL--HGSQTMPGAS   86 (105)
T ss_dssp             CCCCEEEEESCCTTCCHHHHHHHHTTTS----CEEEEEEEECSSSCEEEEEEEEESSHHHHHHHHHHH--SSCCCCTTCS
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcC----CeEEEEEEECCCCCcCcEEEEEeCCHHHHHHHHHHH--cCCccCCCCC
Confidence            5578999999999999999999999999    9999999876     357999999999999999999  5677777   


Q ss_pred             eEEEEEecC
Q psy5142         345 VKVSIEVVT  353 (410)
Q Consensus       345 ~~v~v~~l~  353 (410)
                      +.|.|....
T Consensus        87 ~~l~V~~a~   95 (105)
T 2dnh_A           87 SSLVVKFAD   95 (105)
T ss_dssp             SCCEEEESC
T ss_pred             ccEEEEECc
Confidence            999999876

>2d9p_A Polyadenylate-binding protein 3; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.25  E-value=1.1e-11  Score=100.10  Aligned_cols=76  Identities=9%  Similarity=0.186  Sum_probs=68.6

Q ss_pred             CCCCeEEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCC----CceEEEEeCChhHHHHHHHHhcCCCeEEcCeEE
Q psy5142         272 LPTGALLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVG----EPTAFVRYKKENNAEAVLKALGSKEIVIKDVKV  347 (410)
Q Consensus       272 ~~~g~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g----~~~afV~F~~~e~A~~Al~~l~~~~~~i~g~~v  347 (410)
                      ..+.+.|||.|||+.+++++|+++|++||    .|..|.+...    .++|||+|.+.++|++|+..|  ++..++|+.|
T Consensus        12 ~~~~~~l~V~nlp~~~t~~~l~~~F~~~G----~i~~v~i~~~~g~~~g~afV~f~~~~~A~~A~~~l--~g~~~~g~~l   85 (103)
T 2d9p_A           12 RYQVVNLYVKNLDDGIDDERLRKAFSPFG----TITSAKVMMEGGRSKGFGFVCFSSPEEATKAVTEM--NGRIVATKPL   85 (103)
T ss_dssp             CSSCCCEEEECCCTTCCHHHHHHTTTTTS----CEEEEEEEECSSSEEEEEEEEESSHHHHHHHHHHH--TTCBSSSSBC
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhcC----CEEEEEEEcCCCCcCEEEEEEECCHHHHHHHHHHh--CCCEeCCcEE
Confidence            45678999999999999999999999999    9999998854    457999999999999999999  6788999999


Q ss_pred             EEEecC
Q psy5142         348 SIEVVT  353 (410)
Q Consensus       348 ~v~~l~  353 (410)
                      .|....
T Consensus        86 ~V~~a~   91 (103)
T 2d9p_A           86 YVALAQ   91 (103)
T ss_dssp             EEEECS
T ss_pred             EEEEec
Confidence            999865

>2lkz_A RNA-binding protein 5; RRM; NMR {Homo sapiens}

Probab=99.25  E-value=1.6e-11  Score=98.29  Aligned_cols=76  Identities=16%  Similarity=0.202  Sum_probs=63.4

Q ss_pred             eEEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCC------CceEEEEeCChhHHHHHHHHhcCC--CeEEcCeEE
Q psy5142         276 ALLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVG------EPTAFVRYKKENNAEAVLKALGSK--EIVIKDVKV  347 (410)
Q Consensus       276 ~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g------~~~afV~F~~~e~A~~Al~~l~~~--~~~i~g~~v  347 (410)
                      .+|||.|||+.+|+++|+++|++||  ...|..|.+.++      +++|||+|.+.++|++|++.|++.  .+.|+|+.|
T Consensus        10 ~tlfV~nL~~~~tee~L~~~F~~~G--~i~v~~v~i~~d~~tg~srG~aFV~f~~~~~A~~Ai~~lng~~~~~~i~Gr~i   87 (95)
T 2lkz_A           10 DTIILRNIAPHTVVDSIMTALSPYA--SLAVNNIRLIKDKQTQQNRGFAFVQLSSAMDASQLLQILQSLHPPLKIDGKTI   87 (95)
T ss_dssp             CEEEEESCCTTCCHHHHHHHSTTTC--CCCGGGEECCCCSSSSSCSSEEEEECSSSHHHHHHHHHHHSSSSCEEETTEEE
T ss_pred             CEEEEeCCCCcCCHHHHHHHHHhhC--CccEEEEEEEecCCCCCCceEeEEEECCHHHHHHHHHHhcCCCCCceECCEEE
Confidence            4799999999999999999999999  123556777654      347999999999999999999643  368999999


Q ss_pred             EEEecC
Q psy5142         348 SIEVVT  353 (410)
Q Consensus       348 ~v~~l~  353 (410)
                      .|+...
T Consensus        88 ~V~~Ak   93 (95)
T 2lkz_A           88 GVDFAK   93 (95)
T ss_dssp             EEEECC
T ss_pred             EEEEcc
Confidence            998764

>1x4c_A Splicing factor, arginine/serine-rich 1; structural genomics, RRM domain, NPPSFA, national project on protein structural and functional analyses; NMR {Mus musculus} SCOP: d.58.7.1

Probab=99.25  E-value=1.9e-11  Score=99.91  Aligned_cols=59  Identities=17%  Similarity=0.228  Sum_probs=55.1

Q ss_pred             cceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCC
Q psy5142         118 IAQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKD  191 (410)
Q Consensus       118 ~~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g  191 (410)
                      ..++|||+|||+++|+++|+++|++|    |.|..|.|+++           |||||+|.+.++|++||+.+++
T Consensus        14 ~~~~l~V~nLp~~~t~~~l~~~F~~~----G~i~~~~i~~~-----------g~afV~f~~~~~a~~Ai~~l~g   72 (108)
T 1x4c_A           14 SENRVVVSGLPPSGSWQDLKDHMREA----GDVCYADVYRD-----------GTGVVEFVRKEDMTYAVRKLDN   72 (108)
T ss_dssp             CCCEEEEESCCSSCCHHHHHHHHGGG----SCEEEEEEETT-----------TEEEEEESSHHHHHHHHHHSSS
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhc----CCEeEEEEecC-----------CEEEEEECCHHHHHHHHHHHCc
Confidence            46899999999999999999999999    99999998752           8999999999999999999986

>4f02_A Polyadenylate-binding protein 1; mRNA, eukaryotic initiation factors PAIP1 and PAIP2, translation-RNA complex; 2.00A {Homo sapiens} PDB: 1cvj_A*

Probab=99.25  E-value=1.6e-11  Score=112.46  Aligned_cols=69  Identities=17%  Similarity=0.219  Sum_probs=62.0

Q ss_pred             hccceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCCcc
Q psy5142         116 DLIAQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLK  195 (410)
Q Consensus       116 ~~~~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~~  195 (410)
                      ....++|||+|||+++|+++|+++|++|    |.|..|+|+++..      .++|||||+|.+.++|.+|++.++|  ..
T Consensus       100 ~~~~~~l~v~nl~~~~t~~~l~~~F~~~----G~i~~~~i~~d~~------~~~g~~fV~f~~~~~a~~Ai~~lng--~~  167 (213)
T 4f02_A          100 KSGVGNIFIKNLDKSIDNKALYDTFSAF----GNILSCKVVCDEN------GSKGYGFVHFETQEAAERAIEKMNG--ML  167 (213)
T ss_dssp             HHCTTEEEEESCCTTCCHHHHHHHHGGG----SCEEEEEEEEETT------EEEEEEEEEESSHHHHHHHHHHHTT--CE
T ss_pred             ccccccceECCcccccHHHHHHHHHhhc----CCeEEEEeeccCC------CCceEEEEEeCCHHHHHHHHHHhCC--CE
Confidence            3456799999999999999999999999    9999999998754      4699999999999999999999986  45


Q ss_pred             c
Q psy5142         196 F  196 (410)
Q Consensus       196 ~  196 (410)
                      +
T Consensus       168 ~  168 (213)
T 4f02_A          168 L  168 (213)
T ss_dssp             E
T ss_pred             E
Confidence            6

>1nu4_A U1A RNA binding domain; RNA recognition motif, U1 small nuclear ribonucleoprotein, R binding domain, RNA binding protein; HET: MLA; 1.80A {Homo sapiens} SCOP: d.58.7.1 PDB: 1drz_A* 1urn_A 3hhn_B* 3egz_A* 1zzn_A* 1u6b_A* 3cun_A* 3cul_A* 3g8s_A* 3g8t_A* 3g96_A* 3g9c_A* 3irw_P* 3mum_P* 3mur_P* 3mut_P* 3muv_P* 3mxh_P* 3p49_B 3r1h_A* ...

Probab=99.24  E-value=2e-11  Score=97.29  Aligned_cols=80  Identities=15%  Similarity=0.325  Sum_probs=70.5

Q ss_pred             CCCCeEEEEeCCCCCCCHHHHH----HHHHhcCCCCCCeeEEEee---CCCceEEEEeCChhHHHHHHHHhcCCCeEEcC
Q psy5142         272 LPTGALLKISDIKEPVSREDIR----EVLEKVQTDDQEIVFIEFN---VGEPTAFVRYKKENNAEAVLKALGSKEIVIKD  344 (410)
Q Consensus       272 ~~~g~~l~v~nL~~~~t~edLk----~~F~~~G~~~~~V~~V~~~---~g~~~afV~F~~~e~A~~Al~~l~~~~~~i~g  344 (410)
                      .++.+.|+|.|||+.+++++|+    ++|++||    .|..|.+.   ...++|||+|.+.++|++|+..|  ++..++|
T Consensus         5 ~~~~~~l~V~nLp~~~~~~~l~~~l~~~f~~~G----~i~~v~i~~~~~~~g~afV~f~~~~~A~~A~~~l--~g~~~~g   78 (97)
T 1nu4_A            5 TRPNHTIYINNLNEKIKKDELKKSLHAIFSRFG----QILDILVSRSLKMRGQAFVIFKEVSSATNALRSM--QGFPFYD   78 (97)
T ss_dssp             -CCCSEEEEESCCTTSCHHHHHHHHHHHHGGGS----CEEEEECCHHHHHTTCEEEEESSHHHHHHHHHHH--TTCEETT
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHHHHHhCC----CEEEEEEEcCCCcCcEEEEEeCCHHHHHHHHHHh--CCCEECC
Confidence            4567899999999999999999    9999999    99999887   34578999999999999999999  6789999


Q ss_pred             eEEEEEecCchHH
Q psy5142         345 VKVSIEVVTGEEE  357 (410)
Q Consensus       345 ~~v~v~~l~g~eE  357 (410)
                      +.|.|.....+.+
T Consensus        79 ~~l~v~~a~~~~~   91 (97)
T 1nu4_A           79 KPMRIQYAKTDSD   91 (97)
T ss_dssp             EECEEEECSSCCT
T ss_pred             cEEEEEEccCCCc
Confidence            9999998875543

>2cq0_A Eukaryotic translation initiation factor 3 subunit 4; RRM domain, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.24  E-value=3.4e-11  Score=97.26  Aligned_cols=77  Identities=13%  Similarity=0.292  Sum_probs=69.2

Q ss_pred             CCCCCeEEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCCC------ceEEEEeCChhHHHHHHHHhcCCCeEEcC
Q psy5142         271 ELPTGALLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVGE------PTAFVRYKKENNAEAVLKALGSKEIVIKD  344 (410)
Q Consensus       271 ~~~~g~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g~------~~afV~F~~~e~A~~Al~~l~~~~~~i~g  344 (410)
                      ...+.+.|||.|||..+++++|+++|++||    .|..|.+..+.      ++|||+|.+.++|++|+..|  ++..++|
T Consensus        11 ~~~~~~~l~V~nlp~~~t~~~l~~~f~~~G----~i~~v~i~~~~~~~~~~g~afV~f~~~~~A~~A~~~l--~g~~~~g   84 (103)
T 2cq0_A           11 RADDNATIRVTNLSEDTRETDLQELFRPFG----SISRIYLAKDKTTGQSKGFAFISFHRREDAARAIAGV--SGFGYDH   84 (103)
T ss_dssp             CCSSSEEEEEESCCTTCCHHHHHTTSTTTC----CEEEEEEEECSSSCSEEEEEEEEESSHHHHHHHHHHT--TTCEETT
T ss_pred             CCCCCCEEEEeCCCCCCCHHHHHHHHHhCC----CeEEEEEeecCCCCceeeEEEEEECCHHHHHHHHHHc--CCCeeCC
Confidence            345678999999999999999999999999    99999998653      36999999999999999999  6789999


Q ss_pred             eEEEEEecC
Q psy5142         345 VKVSIEVVT  353 (410)
Q Consensus       345 ~~v~v~~l~  353 (410)
                      +.|.|....
T Consensus        85 ~~l~v~~a~   93 (103)
T 2cq0_A           85 LILNVEWAK   93 (103)
T ss_dssp             EECEEEESS
T ss_pred             cEEEEEECC
Confidence            999999864

>1wf1_A RNA-binding protein RALY; structural genomics, RRM domain, riken structural genomics/proteomics initiative, RSGI; NMR {Homo sapiens} SCOP: d.58.7.1 PDB: 1wf2_A

Probab=99.24  E-value=1.6e-11  Score=100.59  Aligned_cols=61  Identities=16%  Similarity=0.330  Sum_probs=55.8

Q ss_pred             cceeeEeecCCCC-CCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCCccc
Q psy5142         118 IAQSLYVKYIPVD-ATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLKF  196 (410)
Q Consensus       118 ~~rtv~V~~lp~~-~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~~~  196 (410)
                      ..++|||+|||++ +|+++|+++|++|    |.|..|.|            ++|||||+|.+.++|++|++.+++  ..+
T Consensus        26 ~~~~l~V~nl~~~~~t~~~l~~~F~~~----G~v~~v~i------------~~g~afV~f~~~~~A~~A~~~l~g--~~~   87 (110)
T 1wf1_A           26 INSRVFIGNLNTALVKKSDVETIFSKY----GRVAGCSV------------HKGYAFVQYSNERHARAAVLGENG--RVL   87 (110)
T ss_dssp             CSSEEEECSCCCSSCCHHHHHHHHGGG----SCCSEEEE------------ETTEEEEECSSSHHHHHHHHHHTT--CEE
T ss_pred             CCcEEEEeCCCcccCCHHHHHHHHHhC----CCeEEEEE------------eCCEEEEEECCHHHHHHHHHHcCC--CEE
Confidence            4589999999999 9999999999999    99999988            278999999999999999999886  455

>2la6_A RNA-binding protein FUS; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative, RNA recognition; NMR {Homo sapiens}

Probab=99.24  E-value=3.3e-11  Score=96.67  Aligned_cols=77  Identities=12%  Similarity=0.174  Sum_probs=67.8

Q ss_pred             cCCCCCeEEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeE--------EEeeCCC------ceEEEEeCChhHHHHHHHHh
Q psy5142         270 LELPTGALLKISDIKEPVSREDIREVLEKVQTDDQEIVF--------IEFNVGE------PTAFVRYKKENNAEAVLKAL  335 (410)
Q Consensus       270 ~~~~~g~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~--------V~~~~g~------~~afV~F~~~e~A~~Al~~l  335 (410)
                      ...++.+.|+|.|||.++++++|+++|++||    .|..        |.+..+.      ++|||+|.+.++|++|++.|
T Consensus         8 ~~~~~~~~l~V~nLp~~~t~~~l~~~F~~~G----~i~~~~~~~~~~v~i~~~~~~g~~~G~afV~f~~~~~a~~Ai~~l   83 (99)
T 2la6_A            8 HSHSDNNTIFVQGLGENVTIESVADYFKQIG----IIKTNKKTGQPMINLYTDRETGKLKGEATVSFDDPPSAKAAIDWF   83 (99)
T ss_dssp             CSCCCCSEEEEECCCSSCCHHHHHHHHTTTS----CBCEETTTTEESEEEEECTTTCSEEEEEEEEBSSHHHHHHHHHHH
T ss_pred             CCCCCCCEEEEeCCCCCCCHHHHHHHHHHhC----CEeeccccccccEEEEecCCCCCeeeEEEEEECCHHHHHHHHHHh
Confidence            4456678999999999999999999999999    8888        8887542      37999999999999999999


Q ss_pred             cCCCeEEcCeEEEEEec
Q psy5142         336 GSKEIVIKDVKVSIEVV  352 (410)
Q Consensus       336 ~~~~~~i~g~~v~v~~l  352 (410)
                        ++..++|+.|.|..+
T Consensus        84 --~g~~~~g~~l~V~~A   98 (99)
T 2la6_A           84 --DGKEFSGNPIKVSFA   98 (99)
T ss_dssp             --TTCBSSSSBCEEEEC
T ss_pred             --CCCEeCCcEEEEEec
Confidence              678899999999865

>1wf1_A RNA-binding protein RALY; structural genomics, RRM domain, riken structural genomics/proteomics initiative, RSGI; NMR {Homo sapiens} SCOP: d.58.7.1 PDB: 1wf2_A

Probab=99.24  E-value=4.5e-11  Score=97.81  Aligned_cols=74  Identities=18%  Similarity=0.290  Sum_probs=67.1

Q ss_pred             CCCCeEEEEeCCCCC-CCHHHHHHHHHhcCCCCCCeeEEEeeCCCceEEEEeCChhHHHHHHHHhcCCCeEEcCeEEEEE
Q psy5142         272 LPTGALLKISDIKEP-VSREDIREVLEKVQTDDQEIVFIEFNVGEPTAFVRYKKENNAEAVLKALGSKEIVIKDVKVSIE  350 (410)
Q Consensus       272 ~~~g~~l~v~nL~~~-~t~edLk~~F~~~G~~~~~V~~V~~~~g~~~afV~F~~~e~A~~Al~~l~~~~~~i~g~~v~v~  350 (410)
                      ....+.|||.|||+. +++++|+++|++||    .|..|.+.  .++|||+|.+.++|++|+..|  ++..++|+.|.|.
T Consensus        24 ~~~~~~l~V~nl~~~~~t~~~l~~~F~~~G----~v~~v~i~--~g~afV~f~~~~~A~~A~~~l--~g~~~~g~~l~V~   95 (110)
T 1wf1_A           24 KSINSRVFIGNLNTALVKKSDVETIFSKYG----RVAGCSVH--KGYAFVQYSNERHARAAVLGE--NGRVLAGQTLDIN   95 (110)
T ss_dssp             TTCSSEEEECSCCCSSCCHHHHHHHHGGGS----CCSEEEEE--TTEEEEECSSSHHHHHHHHHH--TTCEETTEECCEE
T ss_pred             CCCCcEEEEeCCCcccCCHHHHHHHHHhCC----CeEEEEEe--CCEEEEEECCHHHHHHHHHHc--CCCEECCeEEEEE
Confidence            345689999999999 99999999999999    99999884  478999999999999999999  6789999999999


Q ss_pred             ecC
Q psy5142         351 VVT  353 (410)
Q Consensus       351 ~l~  353 (410)
                      ...
T Consensus        96 ~a~   98 (110)
T 1wf1_A           96 MAG   98 (110)
T ss_dssp             ESC
T ss_pred             ECC
Confidence            864

>2cph_A RNA binding motif protein 19; RNA recognition motif, RRM, RNP, structural genomics, NPPSFA; NMR {Mus musculus} SCOP: d.58.7.1

Probab=99.24  E-value=3.7e-11  Score=97.54  Aligned_cols=78  Identities=15%  Similarity=0.254  Sum_probs=69.0

Q ss_pred             CCCCCeEEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCC-------CceEEEEeCChhHHHHHHHHhcCCCeEEc
Q psy5142         271 ELPTGALLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVG-------EPTAFVRYKKENNAEAVLKALGSKEIVIK  343 (410)
Q Consensus       271 ~~~~g~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g-------~~~afV~F~~~e~A~~Al~~l~~~~~~i~  343 (410)
                      .....+.|||.|||+.+++++|+++|++||    .|..|.+..+       .++|||+|.+.++|++|+..|+ ++..++
T Consensus        11 ~~~~~~~l~V~nlp~~~t~~~l~~~F~~~G----~i~~v~i~~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~-~~~~~~   85 (107)
T 2cph_A           11 KKQTTSKILVRNIPFQANQREIRELFSTFG----ELKTVRLPKKMTGTGAHRGFGFVDFITKQDAKKAFNALC-HSTHLY   85 (107)
T ss_dssp             CSSCCCCEEEESCCTTCCHHHHHHHHHTTS----CEEEEECCCCCSSSCSSCSEEEEEESSHHHHHHHHHHHH-TCCBSS
T ss_pred             cCCCCCEEEEeCCCCcCCHHHHHHHHHccC----CeEEEEEecCCCCCCCcCceEEEEECCHHHHHHHHHHhc-cCCeEC
Confidence            345678999999999999999999999999    9999999876       4679999999999999999993 257889


Q ss_pred             CeEEEEEecC
Q psy5142         344 DVKVSIEVVT  353 (410)
Q Consensus       344 g~~v~v~~l~  353 (410)
                      |+.|.|....
T Consensus        86 g~~l~v~~a~   95 (107)
T 2cph_A           86 GRRLVLEWAD   95 (107)
T ss_dssp             SCBCEEEECC
T ss_pred             CCEEEEEeCC
Confidence            9999999865

>2jvo_A Nucleolar protein 3; nucleus, phosphorylation, ribonucleoprotein, ribosome biogenesis, RNA-binding, rRNA processing; NMR {Saccharomyces cerevisiae} PDB: 2osq_A

Probab=99.24  E-value=2.6e-11  Score=99.24  Aligned_cols=75  Identities=9%  Similarity=0.143  Sum_probs=68.7

Q ss_pred             CCCCeEEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCCCceEEEEeCChhHHHHHHHHhcCCCeEEcCeEEEEEe
Q psy5142         272 LPTGALLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVGEPTAFVRYKKENNAEAVLKALGSKEIVIKDVKVSIEV  351 (410)
Q Consensus       272 ~~~g~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g~~~afV~F~~~e~A~~Al~~l~~~~~~i~g~~v~v~~  351 (410)
                      ....+.|||.|||.++++++|+++|++||    .|..|.+.  .++|||+|.+.++|++|+..|  ++..++|+.|.|..
T Consensus        28 ~~~~~~l~V~nLp~~~t~~~L~~~F~~~G----~i~~v~i~--kg~afV~f~~~~~A~~Ai~~l--~g~~~~g~~l~V~~   99 (108)
T 2jvo_A           28 ELSNTRLFVRPFPLDVQESELNEIFGPFG----PMKEVKIL--NGFAFVEFEEAESAAKAIEEV--HGKSFANQPLEVVY   99 (108)
T ss_dssp             CCSCSEEEECSSCTTCCHHHHHHHHTTTS----CCCEEEEE--TTEEEEECSSHHHHHHHHHHH--TTCEETTEECEEES
T ss_pred             CCCCCEEEEECCCCCCCHHHHHHHHHhcC----CEEEEEEE--CCEEEEEECCHHHHHHHHHHc--CCCEECCeEEEEEE
Confidence            35668999999999999999999999999    99999988  689999999999999999999  67899999999988


Q ss_pred             cCc
Q psy5142         352 VTG  354 (410)
Q Consensus       352 l~g  354 (410)
                      ...
T Consensus       100 a~~  102 (108)
T 2jvo_A          100 SKL  102 (108)
T ss_dssp             CSC
T ss_pred             ecC
Confidence            653

>2cpd_A Apobec-1 stimulating protein; RNA recognition motif, RRM, RNP, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.24  E-value=1.7e-11  Score=98.34  Aligned_cols=64  Identities=17%  Similarity=0.270  Sum_probs=54.2

Q ss_pred             ccceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCCccc
Q psy5142         117 LIAQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLKF  196 (410)
Q Consensus       117 ~~~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~~~  196 (410)
                      ...++|||+|||+++|+++|+++|++|  ..|.|..|.+            .+|||||+|.+.++|++|+..++|  ..+
T Consensus        13 ~~~~~l~V~nLp~~~t~~~l~~~F~~~--g~g~v~~~~~------------~~g~afV~f~~~~~A~~A~~~l~g--~~~   76 (99)
T 2cpd_A           13 SSVKILYVRNLMLSTSEEMIEKEFNNI--KPGAVERVKK------------IRDYAFVHFSNREDAVEAMKALNG--KVL   76 (99)
T ss_dssp             SCCCEEEEESCCTTCCHHHHHHHHHTT--STTCEEEEEE------------CSSEEEEEESSHHHHHHHHHHHSS--EEE
T ss_pred             CCcCEEEEeCCCCCCCHHHHHHHHHhc--CCcceEEEEE------------eCCeEEEEeCCHHHHHHHHHHhCC--CEe
Confidence            457899999999999999999999999  1135777654            478999999999999999998886  455

>2e44_A Insulin-like growth factor 2 mRNA binding protein 3; RRM domain, RBD, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=99.24  E-value=2.8e-11  Score=96.37  Aligned_cols=78  Identities=18%  Similarity=0.239  Sum_probs=68.4

Q ss_pred             CCCCeEEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEE-eeCCCce--EEEEeCChhHHHHHHHHhcCCCeEEcCeEEE
Q psy5142         272 LPTGALLKISDIKEPVSREDIREVLEKVQTDDQEIVFIE-FNVGEPT--AFVRYKKENNAEAVLKALGSKEIVIKDVKVS  348 (410)
Q Consensus       272 ~~~g~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~-~~~g~~~--afV~F~~~e~A~~Al~~l~~~~~~i~g~~v~  348 (410)
                      ....+.|||.|||+.+++++|+++|++||    .|..|+ +..+...  |||+|.+.++|++|+..|  ++..++|+.|.
T Consensus        12 ~~~~~~l~V~nlp~~~t~~~l~~~F~~~G----~v~~~~~i~~~~~~~~afV~f~~~~~a~~Ai~~l--~g~~~~g~~l~   85 (96)
T 2e44_A           12 RQRIRKLQIRNIPPHLQWEVLDSLLVQYG----VVESCEQVNTDSETAVVNVTYSSKDQARQALDKL--NGFQLENFTLK   85 (96)
T ss_dssp             CCSCCCEEEEEECSSSCHHHHHHHHHHHS----CEEEEEEECCSSSSEEEEEEESSHHHHHHHHHHH--TTCBCSSCBCE
T ss_pred             CCCCCEEEEEcCCCCCCHHHHHHHHHhcC----CeEEEEEeecCCCCCEEEEEECCHHHHHHHHHHh--CCCEECCcEEE
Confidence            34568999999999999999999999999    999994 6665443  999999999999999999  67899999999


Q ss_pred             EEecCch
Q psy5142         349 IEVVTGE  355 (410)
Q Consensus       349 v~~l~g~  355 (410)
                      |.....+
T Consensus        86 V~~a~~~   92 (96)
T 2e44_A           86 VAYIPDE   92 (96)
T ss_dssp             EEECCCC
T ss_pred             EEEcCcc
Confidence            9987644

>2e44_A Insulin-like growth factor 2 mRNA binding protein 3; RRM domain, RBD, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=99.23  E-value=1.5e-11  Score=97.94  Aligned_cols=65  Identities=12%  Similarity=0.250  Sum_probs=57.2

Q ss_pred             cceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEE-EcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCCccc
Q psy5142         118 IAQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNII-MRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLKF  196 (410)
Q Consensus       118 ~~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~-l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~~~  196 (410)
                      ..++|||+|||+++|+++|+++|++|    |.|..|+ |+++..+        |.|||+|.+.++|++|+..++|  ..+
T Consensus        14 ~~~~l~V~nlp~~~t~~~l~~~F~~~----G~v~~~~~i~~~~~~--------~~afV~f~~~~~a~~Ai~~l~g--~~~   79 (96)
T 2e44_A           14 RIRKLQIRNIPPHLQWEVLDSLLVQY----GVVESCEQVNTDSET--------AVVNVTYSSKDQARQALDKLNG--FQL   79 (96)
T ss_dssp             SCCCEEEEEECSSSCHHHHHHHHHHH----SCEEEEEEECCSSSS--------EEEEEEESSHHHHHHHHHHHTT--CBC
T ss_pred             CCCEEEEEcCCCCCCHHHHHHHHHhc----CCeEEEEEeecCCCC--------CEEEEEECCHHHHHHHHHHhCC--CEE
Confidence            46899999999999999999999999    9999994 8776554        2399999999999999999886  455

>2do0_A HnRNP M, heterogeneous nuclear ribonucleoprotein M; RNA recognition motif, RRM, RNA binding domain, RBD, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=99.23  E-value=2.6e-11  Score=99.68  Aligned_cols=76  Identities=11%  Similarity=0.163  Sum_probs=68.4

Q ss_pred             CCCCeEEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCC-----CceEEEEeCChhHHHHHHHHhcCCCeEEcCeE
Q psy5142         272 LPTGALLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVG-----EPTAFVRYKKENNAEAVLKALGSKEIVIKDVK  346 (410)
Q Consensus       272 ~~~g~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g-----~~~afV~F~~~e~A~~Al~~l~~~~~~i~g~~  346 (410)
                      ..+.+.|||.|||+.+++++|+++|++||    .|..|.+..+     .++|||+|.+.++|++|+..|  ++..++|+.
T Consensus        12 ~~~~~~l~V~nlp~~~~~~~l~~~f~~~G----~i~~~~i~~~~~g~~~g~afV~f~~~~~a~~A~~~l--~g~~~~g~~   85 (114)
T 2do0_A           12 GRLGSTVFVANLDYKVGWKKLKEVFSMAG----VVVRADILEDKDGKSRGIGTVTFEQSIEAVQAISMF--NGQLLFDRP   85 (114)
T ss_dssp             CCCCSCEEEESCCTTCCHHHHHHHHTTTS----CEEEEEEEECTTCSEEEEEEEEESSHHHHHHHHHHH--TTCEETTEE
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhcC----CeEEEEEEECCCCCeeeEEEEEECCHHHHHHHHHHh--CCCEeCCCE
Confidence            35578999999999999999999999999    9999988865     347999999999999999999  678999999


Q ss_pred             EEEEecC
Q psy5142         347 VSIEVVT  353 (410)
Q Consensus       347 v~v~~l~  353 (410)
                      |.|.+..
T Consensus        86 l~v~~a~   92 (114)
T 2do0_A           86 MHVKMDE   92 (114)
T ss_dssp             CEEEECS
T ss_pred             EEEEEcc
Confidence            9999864

>2nlw_A Eukaryotic translation initiation factor 3 subunit 9; eukaryotic initiation factor 3 complex, RNA recognition motif; NMR {Homo sapiens}

Probab=99.23  E-value=4e-11  Score=97.45  Aligned_cols=76  Identities=11%  Similarity=0.179  Sum_probs=67.5

Q ss_pred             CCCeEEEEeCCCCCC------CHHHHHHHHHhcCCCCCCeeEEEeeC----CCceEEEEeCChhHHHHHHHHhcCCCeEE
Q psy5142         273 PTGALLKISDIKEPV------SREDIREVLEKVQTDDQEIVFIEFNV----GEPTAFVRYKKENNAEAVLKALGSKEIVI  342 (410)
Q Consensus       273 ~~g~~l~v~nL~~~~------t~edLk~~F~~~G~~~~~V~~V~~~~----g~~~afV~F~~~e~A~~Al~~l~~~~~~i  342 (410)
                      ...+.|||.|||+.+      ++++|+++|++||    .|..|.+.+    ..++|||+|.+.++|++|+..|  ++..+
T Consensus        13 ~~~~~l~V~nLp~~~~~~~~~t~~~l~~~F~~~G----~v~~v~i~~~~g~~~G~afV~f~~~~~A~~Ai~~l--~g~~~   86 (105)
T 2nlw_A           13 GIDSVIVVDNVPQVGPDRLEKLKNVIHKIFSKFG----KITNDFYPEEDGKTKGYIFLEYASPAHAVDAVKNA--DGYKL   86 (105)
T ss_dssp             SCCSEEEEESCCCCCTTTTTHHHHHHHHHHGGGS----CEEEEECCCBTTBSCCEEEEEECSSSHHHHHHHHC--SSEEC
T ss_pred             CCCCEEEEeCCCcchhhhhHHHHHHHHHHHhcCC----CEEEEEeeCCCCCeeeEEEEEECCHHHHHHHHHHh--CCccc
Confidence            346799999999999      7899999999999    999998873    2467999999999999999999  78999


Q ss_pred             cCe-EEEEEecCc
Q psy5142         343 KDV-KVSIEVVTG  354 (410)
Q Consensus       343 ~g~-~v~v~~l~g  354 (410)
                      +|+ .|.|..+..
T Consensus        87 ~g~~~l~V~~a~~   99 (105)
T 2nlw_A           87 DKQHTFRVNLFTD   99 (105)
T ss_dssp             STTCEEEEECSCC
T ss_pred             CCCceEEEEEcch
Confidence            998 999998763

>2cq2_A Hypothetical protein LOC91801; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.23  E-value=2.9e-11  Score=99.92  Aligned_cols=75  Identities=19%  Similarity=0.308  Sum_probs=65.8

Q ss_pred             CCCeEEEE--eCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCCCceEEEEeCChhHHHHHHHHhcCCCeEE-----cCe
Q psy5142         273 PTGALLKI--SDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVGEPTAFVRYKKENNAEAVLKALGSKEIVI-----KDV  345 (410)
Q Consensus       273 ~~g~~l~v--~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g~~~afV~F~~~e~A~~Al~~l~~~~~~i-----~g~  345 (410)
                      .+...|||  .||++++++++|+++|++||    .|..|.+.+++++|||+|.+.++|++|++.|  ++..+     .|.
T Consensus        23 ~pt~~L~V~Ng~L~~~~te~~L~~~F~~fG----~v~~v~i~~~rgfaFV~f~~~~~A~~Ai~~l--nG~~~~~~lg~g~   96 (114)
T 2cq2_A           23 YATQSLVVANGGLGNGVSRNQLLPVLEKCG----LVDALLMPPNKPYSFARYRTTEESKRAYVTL--NGKEVVDDLGQKI   96 (114)
T ss_dssp             SCCSEEEEETCTGGGTCCHHHHHHHHHHHS----CEEEEECCTTCSCEEEEESSHHHHHHHHHHT--TTCEEECTTSCEE
T ss_pred             CCCCEEEEECCCCCCCCCHHHHHHHHHhcC----CeEEEEEeCCCCEEEEEECCHHHHHHHHHHh--CCCEEccccCCCc
Confidence            44568999  56999999999999999999    9999999999999999999999999999999  55666     577


Q ss_pred             EEEEEecC
Q psy5142         346 KVSIEVVT  353 (410)
Q Consensus       346 ~v~v~~l~  353 (410)
                      .|.|..+.
T Consensus        97 ~l~v~~a~  104 (114)
T 2cq2_A           97 TLYLNFVE  104 (114)
T ss_dssp             ECEEEEES
T ss_pred             EEEEEecc
Confidence            78777654

>2khc_A Testis-specific RNP-type RNA binding protein; RRM, RNA recognition motif, bruno; NMR {Drosophila melanogaster}

Probab=99.23  E-value=2.7e-11  Score=100.37  Aligned_cols=76  Identities=14%  Similarity=0.303  Sum_probs=68.3

Q ss_pred             CCCCCeEEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCC------CceEEEEeCChhHHHHHHHHhcCCCeEEcC
Q psy5142         271 ELPTGALLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVG------EPTAFVRYKKENNAEAVLKALGSKEIVIKD  344 (410)
Q Consensus       271 ~~~~g~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g------~~~afV~F~~~e~A~~Al~~l~~~~~~i~g  344 (410)
                      ..+..+.|||.|||+++++++|+++|++||    .|..|.+..+      .++|||+|.+.++|++|++.|  ++..++|
T Consensus        36 ~~~~~~~l~V~nlp~~~t~~~l~~~F~~~G----~i~~~~i~~~~~~g~~~g~afV~f~~~~~A~~A~~~l--~g~~~~g  109 (118)
T 2khc_A           36 EGPEGCNLFIYHLPQEFTDTDLASTFLPFG----NVISAKVFIDKQTSLSKCFGFVSFDNPDSAQVAIKAM--NGFQVGT  109 (118)
T ss_dssp             CCCCSEEEEEECSCTTCCHHHHHHHTTTSC----EEEEEEECCCSSSSCCCCEEEEEEESSHHHHHHHHHC--CCCEETT
T ss_pred             CCCCCCEEEEeCCCCCCCHHHHHHHHHhcC----CEEEEEEEeCCCCCCcCcEEEEEECCHHHHHHHHHHc--CCCEECC
Confidence            346679999999999999999999999999    9999998765      357999999999999999999  6789999


Q ss_pred             eEEEEEec
Q psy5142         345 VKVSIEVV  352 (410)
Q Consensus       345 ~~v~v~~l  352 (410)
                      +.|+|+..
T Consensus       110 ~~l~V~~a  117 (118)
T 2khc_A          110 KRLKVQLK  117 (118)
T ss_dssp             EECCEEEC
T ss_pred             EEEEEEec
Confidence            99998764

>1x5p_A Negative elongation factor E; structure genomics, RRM domain, PARP14, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.23  E-value=1e-10  Score=93.42  Aligned_cols=74  Identities=16%  Similarity=0.293  Sum_probs=68.0

Q ss_pred             CCCCeEEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCCCceEEEEeCChhHHHHHHHHhcCCCeEEcCeEEEEEe
Q psy5142         272 LPTGALLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVGEPTAFVRYKKENNAEAVLKALGSKEIVIKDVKVSIEV  351 (410)
Q Consensus       272 ~~~g~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g~~~afV~F~~~e~A~~Al~~l~~~~~~i~g~~v~v~~  351 (410)
                      ..+.+.|||.||  ++++++|+++|++||    .|..|.+....++|||+|.+.++|++|+..|  ++..++|+.|.|..
T Consensus        12 ~~~~~~l~V~n~--~~t~~~l~~~F~~~G----~i~~v~i~~~~g~afV~f~~~~~a~~Ai~~l--~g~~~~g~~l~v~~   83 (97)
T 1x5p_A           12 PRKGNTLYVYGE--DMTPTLLRGAFSPFG----NIIDLSMDPPRNCAFVTYEKMESADQAVAEL--NGTQVESVQLKVNI   83 (97)
T ss_dssp             CCCCSEEEEECS--SCCHHHHHHHHTTTS----CEEEEEEETTTTEEEEEESSHHHHHHHHHHT--TTEEETTEEEEEEC
T ss_pred             CCCCCEEEEcCC--CCCHHHHHHHHhhCC----CEEEEEecCCCCEEEEEECCHHHHHHHHHHh--CCCeECCeEEEEEE
Confidence            456789999996  899999999999999    9999999888899999999999999999999  67899999999987


Q ss_pred             cC
Q psy5142         352 VT  353 (410)
Q Consensus       352 l~  353 (410)
                      ..
T Consensus        84 a~   85 (97)
T 1x5p_A           84 AR   85 (97)
T ss_dssp             CS
T ss_pred             CC
Confidence            54

>1x5s_A Cold-inducible RNA-binding protein; structure genomics, RRM domain, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.23  E-value=3e-11  Score=97.34  Aligned_cols=76  Identities=11%  Similarity=0.200  Sum_probs=68.0

Q ss_pred             CCCCeEEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCC------CceEEEEeCChhHHHHHHHHhcCCCeEEcCe
Q psy5142         272 LPTGALLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVG------EPTAFVRYKKENNAEAVLKALGSKEIVIKDV  345 (410)
Q Consensus       272 ~~~g~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g------~~~afV~F~~~e~A~~Al~~l~~~~~~i~g~  345 (410)
                      .++.+.|||.|||+++++++|+++|++||    .|..|.+..+      .++|||+|.+.++|++|++.|  ++..++|+
T Consensus         9 ~~~~~~l~v~nLp~~~t~~~l~~~f~~~G----~i~~v~i~~~~~~~~~~g~afV~f~~~~~A~~A~~~l--~g~~~~g~   82 (102)
T 1x5s_A            9 ASDEGKLFVGGLSFDTNEQSLEQVFSKYG----QISEVVVVKDRETQRSRGFGFVTFENIDDAKDAMMAM--NGKSVDGR   82 (102)
T ss_dssp             CCCCSEEEEESCCTTCCHHHHHHHHHHHS----CCCEEEECCCSSSCSCCSEEEEECSSHHHHHHHHHHH--TTCCTTSC
T ss_pred             CCCCCEEEEECCCCCCCHHHHHHHHHhcC----CeEEEEEEeCCCCCCcccEEEEEECCHHHHHHHHHHh--CCCEECCe
Confidence            35567999999999999999999999999    9999998764      347999999999999999999  67889999


Q ss_pred             EEEEEecC
Q psy5142         346 KVSIEVVT  353 (410)
Q Consensus       346 ~v~v~~l~  353 (410)
                      .|.|....
T Consensus        83 ~l~v~~a~   90 (102)
T 1x5s_A           83 QIRVDQAG   90 (102)
T ss_dssp             CCEEEEEE
T ss_pred             EEEEEECC
Confidence            99998764

>2cjk_A Nuclear polyadenylated RNA-binding protein 4; HRP1, RNA-binding, RNA processing, mRNA processing, nonsense-mediated mRNA decay, cleavage; NMR {Saccharomyces cerevisiae} PDB: 2km8_C

Probab=99.23  E-value=1.1e-11  Score=108.03  Aligned_cols=69  Identities=22%  Similarity=0.309  Sum_probs=62.2

Q ss_pred             ccceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCCccc
Q psy5142         117 LIAQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLKF  196 (410)
Q Consensus       117 ~~~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~~~  196 (410)
                      ...++|||+|||.++|+++|+++|++|    |.|.+|.++++..++    .++|+|||+|.+.++|.+|++ +++  ..+
T Consensus        85 ~~~~~l~V~nlp~~~t~~~l~~~F~~~----G~i~~~~i~~~~~~g----~~~g~afV~f~~~~~a~~A~~-~~~--~~~  153 (167)
T 2cjk_A           85 DKTGKIFVGGIGPDVRPKEFEEFFSQW----GTIIDAQLMLDKDTG----QSRGFGFVTYDSADAVDRVCQ-NKF--IDF  153 (167)
T ss_dssp             HHCEEEEEEEECTTCCHHHHHHHHHTT----SCCSEEECCCSSSSS----TTSEEEEEEESSHHHHHHHHH-CSE--ECS
T ss_pred             cCCCeEEECCCCCCCCHHHHHHHHHhC----ccEEEEEEEEcCCCC----ccceEEEEEECCHHHHHHHHh-CCC--EEe
Confidence            457899999999999999999999999    999999999987665    899999999999999999998 564  455

>2dgs_A DAZ-associated protein 1; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.23  E-value=4e-11  Score=96.08  Aligned_cols=75  Identities=12%  Similarity=0.198  Sum_probs=67.1

Q ss_pred             CCCCeEEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCC------CceEEEEeCChhHHHHHHHHhcCCCeEEcCe
Q psy5142         272 LPTGALLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVG------EPTAFVRYKKENNAEAVLKALGSKEIVIKDV  345 (410)
Q Consensus       272 ~~~g~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g------~~~afV~F~~~e~A~~Al~~l~~~~~~i~g~  345 (410)
                      ..+.+.|||.|||..+++++|+++|++||    .|..|.+..+      .++|||+|.+.++|++|++ +  ++..++|+
T Consensus         7 ~~~~~~l~V~nlp~~~t~~~l~~~F~~~G----~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~A~~-~--~~~~~~g~   79 (99)
T 2dgs_A            7 GSKSNKIFVGGIPHNCGETELREYFKKFG----VVTEVVMIYDAEKQRPRGFGFITFEDEQSVDQAVN-M--HFHDIMGK   79 (99)
T ss_dssp             CSSCCEEEEESCCSSCCHHHHHHHHSSSS----CEEEEEECCCTTTCSCCSEEEEEESSHHHHHHHHH-H--CCCBSSSC
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhcC----CeEEEEEEeCCCCCCCCceEEEEECCHHHHHHHHH-h--CCCEECCe
Confidence            35568999999999999999999999999    9999998764      3579999999999999998 8  67899999


Q ss_pred             EEEEEecC
Q psy5142         346 KVSIEVVT  353 (410)
Q Consensus       346 ~v~v~~l~  353 (410)
                      .|.|....
T Consensus        80 ~l~V~~a~   87 (99)
T 2dgs_A           80 KVEVKRAE   87 (99)
T ss_dssp             BCEEEECC
T ss_pred             EEEEEECC
Confidence            99999865

>3ucg_A Polyadenylate-binding protein 2; ferredoxin-like, structural genomics, joint center for struc genomics, JCSG, protein structure initiative; HET: PGE; 1.95A {Homo sapiens} PDB: 3b4d_A 3b4m_A

Probab=99.22  E-value=3.8e-11  Score=94.04  Aligned_cols=72  Identities=8%  Similarity=0.216  Sum_probs=64.7

Q ss_pred             CeEEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCC------CceEEEEeCChhHHHHHHHHhcCCCeEEcCeEEE
Q psy5142         275 GALLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVG------EPTAFVRYKKENNAEAVLKALGSKEIVIKDVKVS  348 (410)
Q Consensus       275 g~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g------~~~afV~F~~~e~A~~Al~~l~~~~~~i~g~~v~  348 (410)
                      .+.|+|.|||+.+++++|+++|++||    .|..|.+..+      .++|||+|.+.++|++|+ .+  ++..++|+.|.
T Consensus         6 ~~~l~V~nlp~~~t~~~l~~~F~~~G----~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~a~-~~--~g~~~~g~~l~   78 (89)
T 3ucg_A            6 ARSIYVGNVDYGATAEELEAHFHGCG----SVNRVTILCDKFSGHPKGFAYIEFSDKESVRTSL-AL--DESLFRGRQIK   78 (89)
T ss_dssp             HTEEEEESCCTTCCHHHHHHHHGGGC----CEEEEEEEESCSSSSCCEEEEEEESSTHHHHHHG-GG--TTCEETTEECE
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHhCC----CEEEEEEEecCCCCCcceEEEEEECCHHHHHHHH-hc--CCCEECCcEEE
Confidence            35899999999999999999999999    9999988765      347999999999999999 88  67899999999


Q ss_pred             EEecC
Q psy5142         349 IEVVT  353 (410)
Q Consensus       349 v~~l~  353 (410)
                      |....
T Consensus        79 V~~a~   83 (89)
T 3ucg_A           79 VIPKR   83 (89)
T ss_dssp             EEETT
T ss_pred             EEEcc
Confidence            98754

>2kt5_A RNA and export factor-binding protein 2; chaperone, mRNA processing, mRNA splicing, transport, nucleus, RNA-binding, spliceosome, transport; NMR {Mus musculus}

Probab=99.22  E-value=7.8e-11  Score=98.52  Aligned_cols=78  Identities=23%  Similarity=0.315  Sum_probs=70.3

Q ss_pred             CCCCCeEEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCC-----CceEEEEeCChhHHHHHHHHhcCCCeEEcCe
Q psy5142         271 ELPTGALLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVG-----EPTAFVRYKKENNAEAVLKALGSKEIVIKDV  345 (410)
Q Consensus       271 ~~~~g~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g-----~~~afV~F~~~e~A~~Al~~l~~~~~~i~g~  345 (410)
                      ...+++.|+|.|||..+++++|+++|++||    .|..|.+..+     .++|||+|.+.++|++|+..|  ++..++|+
T Consensus        31 ~~~~~~~l~V~nlp~~~t~~~l~~~F~~~G----~v~~v~i~~~~~g~~~g~afV~f~~~~~A~~Ai~~l--~g~~~~g~  104 (124)
T 2kt5_A           31 GVETGAKLLVSNLDFGVSDADIQELFAEFG----TLKKAAVDYDRSGRSLGTADVHFERRADALKAMKQY--KGVPLDGR  104 (124)
T ss_dssp             CCSSCEEEEEESCCSSCCHHHHHHHHHTTS----CCSEEEEECCSSSSCCSEEEEEESSHHHHHHHHHHH--TTEESSSC
T ss_pred             CCCCCCEEEEeCCCCCCCHHHHHHHHHhcC----CeeEEEEEECCCCCEeeEEEEEECCHHHHHHHHHHc--CCCEECCc
Confidence            456779999999999999999999999999    9999998764     458999999999999999999  67899999


Q ss_pred             EEEEEecCc
Q psy5142         346 KVSIEVVTG  354 (410)
Q Consensus       346 ~v~v~~l~g  354 (410)
                      .|.|.....
T Consensus       105 ~l~V~~a~~  113 (124)
T 2kt5_A          105 PMDIQLVAS  113 (124)
T ss_dssp             EEEEEEECC
T ss_pred             EEEEEEeCC
Confidence            999998753

>2cpi_A CCR4-NOT transcription complex subunit 4; RNA recognition motif, RRM, RNP, structural genomics, NPPSFA; NMR {Mus musculus} SCOP: d.58.7.1

Probab=99.22  E-value=3.1e-11  Score=99.15  Aligned_cols=76  Identities=14%  Similarity=0.286  Sum_probs=68.7

Q ss_pred             CCCCeEEEEeCCCCCCCHHHHH---HHHHhcCCCCCCeeEEEeeCCC---------ceEEEEeCChhHHHHHHHHhcCCC
Q psy5142         272 LPTGALLKISDIKEPVSREDIR---EVLEKVQTDDQEIVFIEFNVGE---------PTAFVRYKKENNAEAVLKALGSKE  339 (410)
Q Consensus       272 ~~~g~~l~v~nL~~~~t~edLk---~~F~~~G~~~~~V~~V~~~~g~---------~~afV~F~~~e~A~~Al~~l~~~~  339 (410)
                      ....+.|||.|||+++++++|+   ++|++||    .|..|.+.++.         ++|||+|.+.++|++|++.|  ++
T Consensus        12 ~~~~~~l~V~nLp~~~~~~~l~~~~~~F~~~G----~i~~v~i~~~~~~~~~~~~~G~afV~f~~~~~A~~Ai~~l--ng   85 (111)
T 2cpi_A           12 VVQKNLVFVVGLSQRLADPEVLKRPEYFGKFG----KIHKVVINNSTSYAGSQGPSASAYVTYIRSEDALRAIQCV--NN   85 (111)
T ss_dssp             CCCSSCEEEEEECTTTCCHHHHHSTTTTTTTS----CEEEEEEECCSSCCSSSCCCEEEEEEESSHHHHHHHHHHH--TT
T ss_pred             ccCCCEEEEECCCCCCCHHHHHHHHHHhhccC----CEEEEEEecCCCcCccCCCCeEEEEEECcHHHHHHHHHHh--CC
Confidence            4456789999999999999999   9999999    99999998654         38999999999999999999  78


Q ss_pred             eEEcCeEEEEEecC
Q psy5142         340 IVIKDVKVSIEVVT  353 (410)
Q Consensus       340 ~~i~g~~v~v~~l~  353 (410)
                      ..++|+.|.|....
T Consensus        86 ~~~~gr~l~V~~a~   99 (111)
T 2cpi_A           86 VVVDGRTLKASLGT   99 (111)
T ss_dssp             EEETTEEEEEESCC
T ss_pred             CEECCEEEEEEecc
Confidence            99999999999865

>1wf0_A TDP-43, TAR DNA-binding protein-43; structural genomics, RRM domain, riken structural genomics/proteomics initiative RSGI, RNA binding protein; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.22  E-value=4.1e-12  Score=99.77  Aligned_cols=56  Identities=21%  Similarity=0.442  Sum_probs=51.0

Q ss_pred             cceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHH
Q psy5142         118 IAQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFL  186 (410)
Q Consensus       118 ~~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al  186 (410)
                      ..++|||+|||+++|+++|+++|++|    |.|.+|+|++         .++|||||+|.+.++|++|+
T Consensus         4 ~~~~l~V~nLp~~~te~~l~~~F~~~----G~i~~v~i~~---------~~~g~afV~f~~~~~a~~~~   59 (88)
T 1wf0_A            4 GSSGVFVGRCTGDMTEDELREFFSQY----GDVMDVFIPK---------PFRAFAFVTFADDQIAQSLC   59 (88)
T ss_dssp             CCCEEEEESCCSSSCHHHHHHHSTTT----SCCCEEECCS---------SCCSCCEEECSCHHHHHHTT
T ss_pred             CCcEEEEeCCCCCCCHHHHHHHHHHc----CCeeEEEEec---------CCCCEEEEEECCHHHHHHHh
Confidence            46899999999999999999999999    9999999975         36899999999999998653

>2lxi_A RNA-binding protein 10; NMR {Homo sapiens}

Probab=99.22  E-value=1.8e-11  Score=97.05  Aligned_cols=75  Identities=17%  Similarity=0.213  Sum_probs=63.3

Q ss_pred             eEEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCC------CceEEEEeCChhHHHHHHHHhcCCCeEEcCeEEEE
Q psy5142         276 ALLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVG------EPTAFVRYKKENNAEAVLKALGSKEIVIKDVKVSI  349 (410)
Q Consensus       276 ~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g------~~~afV~F~~~e~A~~Al~~l~~~~~~i~g~~v~v  349 (410)
                      .+|+|.|||+++|+++|+++|++||   ..|..|.++++      .++|||+|.+.++|++|++.++ +++.++|+.|.|
T Consensus         2 ~~i~v~nLp~~~te~~l~~~F~~~G---~~v~~v~i~~d~~t~~~rg~aFV~F~~~~~A~~Ai~~~~-~~~~~~gr~i~V   77 (91)
T 2lxi_A            2 NIVMLRMLPQAATEDDIRGQLQSHG---VQAREVRLMRNKSSGQSRGFAFVEFSHLQDATRWMEANQ-HSLNILGQKVSM   77 (91)
T ss_dssp             CEEEEETCCSSCCHHHHHHHHHHHT---CCCSBCCSSSCSSSCCCSSEEEEECSSHHHHHHHHHTTT-TEEEETTEEEEE
T ss_pred             CEEEEeCCCCCCCHHHHHHHHHHhC---CEeEEEEEEecCCCCCcCceEEEEecCHHHHHHHHHhcC-CCeEECCEEEEE
Confidence            3799999999999999999999999   23677776643      3579999999999999999873 568899999999


Q ss_pred             EecCc
Q psy5142         350 EVVTG  354 (410)
Q Consensus       350 ~~l~g  354 (410)
                      .....
T Consensus        78 ~~a~~   82 (91)
T 2lxi_A           78 HYSDP   82 (91)
T ss_dssp             ECCCS
T ss_pred             EEcCC
Confidence            87653

>1x5p_A Negative elongation factor E; structure genomics, RRM domain, PARP14, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.22  E-value=2.2e-11  Score=97.36  Aligned_cols=62  Identities=23%  Similarity=0.270  Sum_probs=55.6

Q ss_pred             ccceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCCccc
Q psy5142         117 LIAQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLKF  196 (410)
Q Consensus       117 ~~~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~~~  196 (410)
                      ...++|||+||  ++|+++|+++|++|    |.|.+|.|.          .++|||||+|.+.++|++|+..++|  ..+
T Consensus        13 ~~~~~l~V~n~--~~t~~~l~~~F~~~----G~i~~v~i~----------~~~g~afV~f~~~~~a~~Ai~~l~g--~~~   74 (97)
T 1x5p_A           13 RKGNTLYVYGE--DMTPTLLRGAFSPF----GNIIDLSMD----------PPRNCAFVTYEKMESADQAVAELNG--TQV   74 (97)
T ss_dssp             CCCSEEEEECS--SCCHHHHHHHHTTT----SCEEEEEEE----------TTTTEEEEEESSHHHHHHHHHHTTT--EEE
T ss_pred             CCCCEEEEcCC--CCCHHHHHHHHhhC----CCEEEEEec----------CCCCEEEEEECCHHHHHHHHHHhCC--CeE
Confidence            34689999996  89999999999999    999999984          5789999999999999999999886  455

>3s7r_A Heterogeneous nuclear ribonucleoprotein A/B; ferredoxin-like, structural genomics, joint center for struc genomics, JCSG; 2.15A {Homo sapiens} PDB: 1hd0_A 1hd1_A

Probab=99.22  E-value=6.7e-11  Score=92.37  Aligned_cols=72  Identities=15%  Similarity=0.240  Sum_probs=63.3

Q ss_pred             CCCeEEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCCC------ceEEEEeCChhHHHHHHHHhcCCCeEEcCeE
Q psy5142         273 PTGALLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVGE------PTAFVRYKKENNAEAVLKALGSKEIVIKDVK  346 (410)
Q Consensus       273 ~~g~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g~------~~afV~F~~~e~A~~Al~~l~~~~~~i~g~~  346 (410)
                      .+.+.|||.|||+.+++++|+++|++||    .|..|.+..+.      ++|||+|.+.++|++|++.+   +..++|+.
T Consensus         9 ~~~~~l~V~nlp~~~t~~~l~~~F~~~G----~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~A~~~~---~~~~~g~~   81 (87)
T 3s7r_A            9 EDAGKMFVGGLSWDTSKKDLKDYFTKFG----EVVDCTIKMDPNTGRSRGFGFILFKDAASVEKVLDQK---EHRLDGRV   81 (87)
T ss_dssp             SCTTEEEEECCCTTCCHHHHHHHHTTTS----CEEEEEEEECTTTCCEEEEEEEEESSTHHHHHHHHSS---CEEETTEE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhCC----CEEEEEEeecCCCCccccEEEEEECCHHHHHHHHHhC---CCEECCEE
Confidence            4567999999999999999999999999    99999987653      36999999999999999653   56899999


Q ss_pred             EEEEe
Q psy5142         347 VSIEV  351 (410)
Q Consensus       347 v~v~~  351 (410)
                      |.|+.
T Consensus        82 i~v~~   86 (87)
T 3s7r_A           82 IDPKK   86 (87)
T ss_dssp             EEEEE
T ss_pred             EEEEe
Confidence            99875

>2cq2_A Hypothetical protein LOC91801; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.21  E-value=1.5e-11  Score=101.62  Aligned_cols=61  Identities=16%  Similarity=0.170  Sum_probs=55.5

Q ss_pred             cceeeEe--ecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCC
Q psy5142         118 IAQSLYV--KYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDK  192 (410)
Q Consensus       118 ~~rtv~V--~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~  192 (410)
                      ..++|||  +|||+++|+++|+++|++|    |.|.+|.|+.          .+|||||+|.+.++|++|++.++|+
T Consensus        24 pt~~L~V~Ng~L~~~~te~~L~~~F~~f----G~v~~v~i~~----------~rgfaFV~f~~~~~A~~Ai~~lnG~   86 (114)
T 2cq2_A           24 ATQSLVVANGGLGNGVSRNQLLPVLEKC----GLVDALLMPP----------NKPYSFARYRTTEESKRAYVTLNGK   86 (114)
T ss_dssp             CCSEEEEETCTGGGTCCHHHHHHHHHHH----SCEEEEECCT----------TCSCEEEEESSHHHHHHHHHHTTTC
T ss_pred             CCCEEEEECCCCCCCCCHHHHHHHHHhc----CCeEEEEEeC----------CCCEEEEEECCHHHHHHHHHHhCCC
Confidence            3578999  6699999999999999999    9999999863          3799999999999999999999973

>2cqh_A IGF-II mRNA-binding protein 2 isoform A; RNA recognition motif, RRM, RNA binding domain, RBD, RNP, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.21  E-value=8e-12  Score=99.06  Aligned_cols=59  Identities=17%  Similarity=0.308  Sum_probs=53.0

Q ss_pred             cceeeEeecCCCCCCHHHHHHHHhhccCCCCc-eEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCC
Q psy5142         118 IAQSLYVKYIPVDATLDDIKDFFKKNTSEDVK-ITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKD  191 (410)
Q Consensus       118 ~~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~-I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g  191 (410)
                      ..++|||+|||+++|+++|+++|++|    |. |..+.+           ..+|||||+|.+.++|++|++.++|
T Consensus         7 ~~~~l~V~nLp~~~t~~~l~~~F~~~----G~vv~~~~~-----------~~~g~afV~f~~~~~A~~A~~~l~g   66 (93)
T 2cqh_A            7 GMNKLYIGNLSPAVTADDLRQLFGDR----KLPLAGQVL-----------LKSGYAFVDYPDQNWAIRAIETLSG   66 (93)
T ss_dssp             CCCCEEEECCCTTCCHHHHHHHHHHT----TCCCSSCEE-----------EETTEEEECCSCHHHHHHHHHHHTT
T ss_pred             CCcEEEEeCCCCCCCHHHHHHHHHHc----CCceEEEEE-----------cCCCEEEEEECCHHHHHHHHHHccC
Confidence            46899999999999999999999999    99 666655           2489999999999999999999885

>1wi8_A EIF-4B, eukaryotic translation initiation factor 4B; RNA recognition motif, RRM, RNA binding domain, RBD, RNP, structural genomics; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.21  E-value=7.2e-11  Score=95.55  Aligned_cols=75  Identities=12%  Similarity=0.239  Sum_probs=65.5

Q ss_pred             CCCCCeEEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCC-------CceEEEEeCChhHHHHHHHHhcCCCeEEc
Q psy5142         271 ELPTGALLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVG-------EPTAFVRYKKENNAEAVLKALGSKEIVIK  343 (410)
Q Consensus       271 ~~~~g~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g-------~~~afV~F~~~e~A~~Al~~l~~~~~~i~  343 (410)
                      ...+.+.|||.|||+++++++|+++|++||     |..|.+..+       .++|||+|.+.++|++|+ .|  ++..++
T Consensus        11 ~~~~~~~l~V~nlp~~~t~~~l~~~F~~~G-----i~~v~i~~~~~~~g~~~g~afV~f~~~~~a~~A~-~l--~g~~~~   82 (104)
T 1wi8_A           11 PKSPPYTAFLGNLPYDVTEESIKEFFRGLN-----ISAVRLPREPSNPERLKGFGYAEFEDLDSLLSAL-SL--NEESLG   82 (104)
T ss_dssp             CSSSCEEEEEESCCSSCCHHHHHHHTTTSC-----EEEEECCBCSSCTTSBCSCEEEEESSHHHHHHHH-GG--GTCEET
T ss_pred             CCCCCCEEEEeCCCCcCCHHHHHHHHHHCC-----ceEEEEecCCCCCCCcCeEEEEEECCHHHHHHHH-hc--CCCEeC
Confidence            345668999999999999999999999998     777887654       347999999999999999 88  678999


Q ss_pred             CeEEEEEecC
Q psy5142         344 DVKVSIEVVT  353 (410)
Q Consensus       344 g~~v~v~~l~  353 (410)
                      |+.|.|....
T Consensus        83 g~~l~V~~a~   92 (104)
T 1wi8_A           83 NKRIRVDVAD   92 (104)
T ss_dssp             TEECEEEECC
T ss_pred             CcEEEEEEcc
Confidence            9999999865

>3pgw_S U1-70K; protein-RNA complex, U1 snRNA, SM fold, SM core, RRM, splici SNRNPS, splicing factors; HET: DNA; 4.40A {Homo sapiens} PDB: 3cw1_K 2l5i_A 2l5j_A*

Probab=99.21  E-value=1.4e-11  Score=125.06  Aligned_cols=70  Identities=17%  Similarity=0.229  Sum_probs=63.8

Q ss_pred             ccceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCCccc
Q psy5142         117 LIAQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLKF  196 (410)
Q Consensus       117 ~~~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~~~  196 (410)
                      ...++|||+|||+.+|+++|..+|++|    |.|..|.|+.+..++    .++|||||+|.+.++|.+||..++|  ..|
T Consensus       100 ~~~~~lfV~nL~~~~te~~L~~~F~~~----G~I~~v~i~~d~~tg----~~kG~aFV~F~~~e~A~~Ai~~lng--~~i  169 (437)
T 3pgw_S          100 DAFKTLFVARVNYDTTESKLRREFEVY----GPIKRIHMVYSKRSG----KPRGYAFIEYEHERDMHSAYKHADG--KKI  169 (437)
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHHc----CCeeEEEeeccCCCC----CccceEEEeeccHHHHHHHHHHcCC--CEE
Confidence            345899999999999999999999999    999999999887665    7899999999999999999999986  455

>2cpe_A RNA-binding protein EWS; RNA recognition motif, RRM, RNP, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.21  E-value=4.5e-11  Score=98.21  Aligned_cols=76  Identities=12%  Similarity=0.260  Sum_probs=67.3

Q ss_pred             CCCCeEEEEeCCCCCCCHHHHHHHHHhcCCCCCCee--------EEEeeCC------CceEEEEeCChhHHHHHHHHhcC
Q psy5142         272 LPTGALLKISDIKEPVSREDIREVLEKVQTDDQEIV--------FIEFNVG------EPTAFVRYKKENNAEAVLKALGS  337 (410)
Q Consensus       272 ~~~g~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~--------~V~~~~g------~~~afV~F~~~e~A~~Al~~l~~  337 (410)
                      ....+.|||.|||..+++++|+++|++||    .|.        .|.+..+      .++|||+|.+.++|++|+..|  
T Consensus        12 ~~~~~~l~V~nLp~~~t~~~l~~~F~~~G----~i~~~~~~~~~~v~i~~~~~~g~~~g~afV~f~~~~~A~~Ai~~l--   85 (113)
T 2cpe_A           12 DSDNSAIYVQGLNDSVTLDDLADFFKQCG----VVKMNKRTGQPMIHIYLDKETGKPKGDATVSYEDPPTAKAAVEWF--   85 (113)
T ss_dssp             CCCCCEEEEECCCTTCCHHHHHHHHTTTS----CBCBCSSSCCBSEECCBCTTTCSBCSEEEEEBSSHHHHHHHHHHH--
T ss_pred             CCCCCEEEEcCCCCCCCHHHHHHHHHhcC----CEeEccccCccCEEEEEeCCCCCeeeEEEEEECCHHHHHHHHHHc--
Confidence            45678999999999999999999999999    887        5777654      347999999999999999999  


Q ss_pred             CCeEEcCeEEEEEecC
Q psy5142         338 KEIVIKDVKVSIEVVT  353 (410)
Q Consensus       338 ~~~~i~g~~v~v~~l~  353 (410)
                      ++..++|+.|.|....
T Consensus        86 ~g~~~~g~~l~V~~a~  101 (113)
T 2cpe_A           86 DGKDFQGSKLKVSLAR  101 (113)
T ss_dssp             TTCEETTEECEEECSS
T ss_pred             CCCccCCCEEEEEECC
Confidence            6789999999998764

>3egn_A RNA-binding protein 40; RNA recognition motif (RRM), RNP motif, U11/U12-65K protein, DI-snRNP, U1A protein, U2B protein; 2.50A {Homo sapiens}

Probab=99.21  E-value=3.8e-12  Score=109.33  Aligned_cols=66  Identities=23%  Similarity=0.349  Sum_probs=56.6

Q ss_pred             cceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEE--------EEcccCcccccccccccEEEEEecCHHHHHHHHHhc
Q psy5142         118 IAQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNI--------IMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNEN  189 (410)
Q Consensus       118 ~~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v--------~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~  189 (410)
                      ..++|||+|||+++|+++|+++|++|    |.|..+        ++.   .++    .++|||||+|.+.++|.+|+..+
T Consensus        44 ~~~~l~V~nLp~~~te~~L~~~F~~~----G~i~~~~~~~~~di~~~---~~g----~~~g~afV~f~~~~~A~~Ai~~l  112 (143)
T 3egn_A           44 PNCRIYVKNLAKHVQEKDLKYIFGRY----VDFSSETQRIMFDIRLM---KEG----RMKGQAFIGLPNEKAAAKALKEA  112 (143)
T ss_dssp             CCSEEEEEEECTTCCHHHHHHHHGGG----CCTTCHHHHHHCEEEEE---EET----TTEEEEEEECSSHHHHHHHHHHH
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHHh----CCcccccccceeeEEec---cCC----CcccEEEEEeCCHHHHHHHHHHh
Confidence            46899999999999999999999999    998764        332   222    78999999999999999999999


Q ss_pred             CCCCccc
Q psy5142         190 KDKNLKF  196 (410)
Q Consensus       190 ~g~~~~~  196 (410)
                      +|  ..+
T Consensus       113 ng--~~~  117 (143)
T 3egn_A          113 NG--YVL  117 (143)
T ss_dssp             TT--BEE
T ss_pred             CC--CEe
Confidence            86  455

>2jrs_A RNA-binding protein 39; RNA binding motif of RBM39_human (caper), RRM2 domain, solution structure, structural genomics, PSI-2; NMR {Homo sapiens}

Probab=99.21  E-value=3.1e-11  Score=98.77  Aligned_cols=77  Identities=14%  Similarity=0.236  Sum_probs=68.7

Q ss_pred             CCCCeEEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCC------CceEEEEeCChhHHHHHHHHhcCCCeEEcCe
Q psy5142         272 LPTGALLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVG------EPTAFVRYKKENNAEAVLKALGSKEIVIKDV  345 (410)
Q Consensus       272 ~~~g~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g------~~~afV~F~~~e~A~~Al~~l~~~~~~i~g~  345 (410)
                      .++.+.|+|.|||..+++++|+++|++||    .|..|.+...      .++|||+|.+.++|++|++.|  ++..++|+
T Consensus        23 ~~~~~~l~V~nLp~~~te~~l~~~F~~~G----~i~~v~i~~~~~~g~~~g~afV~F~~~~~A~~Ai~~l--~g~~i~g~   96 (108)
T 2jrs_A           23 SAGPMRLYVGSLHFNITEDMLRGIFEPFG----RIESIQLMMDSETGRSKGYGFITFSDSECAKKALEQL--NGFELAGR   96 (108)
T ss_dssp             CSSCEEEEEECCCSSCCHHHHHHHHTTTS----CEEEEEEEEETTTTEEEEEEEEEESCHHHHHHHHHHH--TTCCSSSS
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhcC----CeEEEEEEEcCCCCccceEEEEEECCHHHHHHHHHHc--CCCEECCE
Confidence            45678999999999999999999999999    9999988754      247999999999999999999  67899999


Q ss_pred             EEEEEecCc
Q psy5142         346 KVSIEVVTG  354 (410)
Q Consensus       346 ~v~v~~l~g  354 (410)
                      .|.|+....
T Consensus        97 ~l~V~~a~~  105 (108)
T 2jrs_A           97 PMKVGHVTE  105 (108)
T ss_dssp             CCEEECSCS
T ss_pred             EEEEEEccc
Confidence            999998754

>1wg1_A KIAA1579 protein, homolog EXC-7; RBD, structural genomics, riken structural genomics/proteomics initiative, RSGI, RNA binding protein; NMR {Homo sapiens} SCOP: d.58.7.1 PDB: 1wi6_A

Probab=99.21  E-value=1e-11  Score=97.58  Aligned_cols=62  Identities=23%  Similarity=0.371  Sum_probs=55.0

Q ss_pred             cceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCCccc
Q psy5142         118 IAQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLKF  196 (410)
Q Consensus       118 ~~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~~~  196 (410)
                      ..++|||+|||+++|+++|+++|++|     .|.+|+|.          .++|||||+|.+.++|++|++.++|  ..+
T Consensus         4 ~~~~l~V~nLp~~~t~~~l~~~F~~~-----~v~~~~i~----------~~~g~afV~f~~~~~a~~Ai~~l~g--~~~   65 (88)
T 1wg1_A            4 GSSGILVKNLPQDSNCQEVHDLLKDY-----DLKYCYVD----------RNKRTAFVTLLNGEQAQNAIQMFHQ--YSF   65 (88)
T ss_dssp             CCCCEEEESCCSSCCHHHHHHHTCSS-----CCCCEEEE----------GGGTEEEECCSCHHHHHHHHHHHTT--EEE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHhhC-----CeEEEEEe----------CCCcEEEEEECCHHHHHHHHHHhCC--CeE
Confidence            46899999999999999999999999     57788773          4689999999999999999999986  455

>2dgp_A Bruno-like 4, RNA binding protein; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} PDB: 2dgq_A

Probab=99.21  E-value=6.3e-11  Score=96.07  Aligned_cols=76  Identities=17%  Similarity=0.212  Sum_probs=67.0

Q ss_pred             CCCCeEEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCC------CceEEEEeCChhHHHHHHHHhcCCCeEE---
Q psy5142         272 LPTGALLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVG------EPTAFVRYKKENNAEAVLKALGSKEIVI---  342 (410)
Q Consensus       272 ~~~g~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g------~~~afV~F~~~e~A~~Al~~l~~~~~~i---  342 (410)
                      ..+.+.|||.|||..+++++|+++|++||    .|..|.+..+      .++|||+|.+.++|++|+..|  ++..+   
T Consensus        10 ~~~~~~l~V~nlp~~~t~~~l~~~F~~~G----~i~~v~i~~~~~~g~~~g~afV~f~~~~~A~~A~~~l--~g~~~~~~   83 (106)
T 2dgp_A           10 DHDAIKLFIGQIPRNLDEKDLKPLFEEFG----KIYELTVLKDRFTGMHKGCAFLTYCERESALKAQSAL--HEQKTLPG   83 (106)
T ss_dssp             CTTCEEEEEESCCTTCCHHHHHHHHHHHS----CCCEEECCCCSSSCSCCSEEEEEESSHHHHHHHHHHH--TTTCCCTT
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhcC----CeeEEEEEecCCCCCcceEEEEEECCHHHHHHHHHHh--cCCcccCC
Confidence            45678999999999999999999999999    9999998764      357999999999999999999  55565   


Q ss_pred             cCeEEEEEecC
Q psy5142         343 KDVKVSIEVVT  353 (410)
Q Consensus       343 ~g~~v~v~~l~  353 (410)
                      .|+.|.|....
T Consensus        84 ~g~~l~v~~a~   94 (106)
T 2dgp_A           84 MNRPIQVKPAD   94 (106)
T ss_dssp             CSSCCEEEECC
T ss_pred             CCceEEEEECC
Confidence            78999998765

>2div_A TRNA selenocysteine associated protein; structural genomics, RRM domain, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.21  E-value=4.1e-11  Score=95.98  Aligned_cols=75  Identities=16%  Similarity=0.201  Sum_probs=66.1

Q ss_pred             CCCeEEEEeCCCCCCCHHHHHHHHHhcCCCCCCee-EEEeeCCC------ceEEEEeCChhHHHHHHHHhcCCCeEEcCe
Q psy5142         273 PTGALLKISDIKEPVSREDIREVLEKVQTDDQEIV-FIEFNVGE------PTAFVRYKKENNAEAVLKALGSKEIVIKDV  345 (410)
Q Consensus       273 ~~g~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~-~V~~~~g~------~~afV~F~~~e~A~~Al~~l~~~~~~i~g~  345 (410)
                      ...+.|||.|||+.+++++|+++|++||    .|. .|.+.++.      ++|||+|.+.++|++|+..|  ++..++|+
T Consensus         7 ~~~~~l~V~nLp~~~t~~~l~~~F~~~G----~i~~~v~i~~~~~~g~~~g~afV~f~~~~~a~~A~~~l--~g~~~~g~   80 (99)
T 2div_A            7 GMAASLWMGDLEPYMDENFISRAFATMG----ETVMSVKIIRNRLTGIPAGYCFVEFADLATAEKCLHKI--NGKPLPGA   80 (99)
T ss_dssp             SSSSEEEECSCCTTCCHHHHHHHHHHTT----CCCCEEEEEECSSSCCEEEEEEEECSCHHHHHHHHHTT--TTSEESSC
T ss_pred             CCccEEEEeCCCCCCCHHHHHHHHHHhC----CcceEEEEeecCCCCCcCCEEEEEeCCHHHHHHHHHHH--cCCccCCC
Confidence            4567999999999999999999999999    998 88887654      46999999999999999999  67899999


Q ss_pred             E----EEEEecC
Q psy5142         346 K----VSIEVVT  353 (410)
Q Consensus       346 ~----v~v~~l~  353 (410)
                      .    |.|....
T Consensus        81 ~~~~~l~v~~a~   92 (99)
T 2div_A           81 TPAKRFKLNYAT   92 (99)
T ss_dssp             SSCEECCEEETT
T ss_pred             CcceeEEEeecC
Confidence            8    7777653

>2e5j_A Methenyltetrahydrofolate synthetase domain containing; RRM domain, RBD, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=99.20  E-value=8.2e-11  Score=94.03  Aligned_cols=76  Identities=12%  Similarity=0.280  Sum_probs=65.6

Q ss_pred             CCCCeEEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEee--CCCceEEEEeCChhHHHHHHHHhcCCCeEEcCeEEEE
Q psy5142         272 LPTGALLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFN--VGEPTAFVRYKKENNAEAVLKALGSKEIVIKDVKVSI  349 (410)
Q Consensus       272 ~~~g~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~--~g~~~afV~F~~~e~A~~Al~~l~~~~~~i~g~~v~v  349 (410)
                      .+..+.|||.|||+.+++++|+++|++||    .|. +.+.  ...++|||.|.+.++|++|+..|  ++..++|+.|.|
T Consensus        16 ~~~~~~l~V~nL~~~~t~~~l~~~F~~~G----~v~-~~~~~~~~~g~afV~f~~~~~a~~A~~~l--~g~~~~g~~l~V   88 (97)
T 2e5j_A           16 APLAADVYVGNLPRDARVSDLKRALRELG----SVP-LRLTWQGPRRRAFLHYPDSAAAQQAVSCL--QGLRLGTDTLRV   88 (97)
T ss_dssp             SCCCCEEEEECCCTTCCHHHHHHHHHHTT----CCC-SEEEEETTTTEEEEECSSHHHHHHHHHHH--TTCCSSSSCCEE
T ss_pred             CCCCCEEEEeCCCCcCcHHHHHHHHHhcC----CEE-EEEEcCCCCcEEEEEECCHHHHHHHHHHh--CCCEECCcEEEE
Confidence            44568999999999999999999999999    664 3444  44678999999999999999999  678899999999


Q ss_pred             EecCc
Q psy5142         350 EVVTG  354 (410)
Q Consensus       350 ~~l~g  354 (410)
                      .....
T Consensus        89 ~~a~~   93 (97)
T 2e5j_A           89 ALARQ   93 (97)
T ss_dssp             EECCC
T ss_pred             EEcCC
Confidence            98754

>1s79_A Lupus LA protein; RRM, alpha/beta, RNA binding protein, translation; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.20  E-value=2.3e-11  Score=98.87  Aligned_cols=72  Identities=17%  Similarity=0.223  Sum_probs=64.8

Q ss_pred             CCeEEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCC-----CceEEEEeCChhHHHHHHHHhcCCCeEEcCeEEE
Q psy5142         274 TGALLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVG-----EPTAFVRYKKENNAEAVLKALGSKEIVIKDVKVS  348 (410)
Q Consensus       274 ~g~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g-----~~~afV~F~~~e~A~~Al~~l~~~~~~i~g~~v~  348 (410)
                      ....|||.|||+++|+++|+++|++||    .|..|.++.+     .++|||.|.++++|++|+. +  ++..++|+.|.
T Consensus        10 ~~~~lfV~~Lp~~~te~~L~~~F~~~G----~v~~v~i~~d~~g~~rG~aFV~F~~~e~a~~Ai~-~--~~~~~~gr~l~   82 (103)
T 1s79_A           10 KNRSVYIKGFPTDATLDDIKEWLEDKG----QVLNIQMRRTLHKAFKGSIFVVFDSIESAKKFVE-T--PGQKYKETDLL   82 (103)
T ss_dssp             GGGCEEEECCCTTCCHHHHHHHHHTSS----CEEEEEEECCCTTSCCCEEEEEESSHHHHHHHHT-S--SCCCCTTTTCE
T ss_pred             CCCEEEEECCCCCCCHHHHHHHHhhcC----CEEEEEEEECCCCCCccEEEEEECCHHHHHHHHH-c--CCCEECCEEEE
Confidence            456899999999999999999999999    9999999864     4579999999999999999 6  67899999999


Q ss_pred             EEec
Q psy5142         349 IEVV  352 (410)
Q Consensus       349 v~~l  352 (410)
                      |...
T Consensus        83 V~~~   86 (103)
T 1s79_A           83 ILFK   86 (103)
T ss_dssp             EEEH
T ss_pred             EEEc
Confidence            9864

>2lea_A Serine/arginine-rich splicing factor 2; SR protein, RNA binding protein; NMR {Homo sapiens} PDB: 2leb_A 2lec_A

Probab=99.20  E-value=1e-11  Score=105.87  Aligned_cols=76  Identities=20%  Similarity=0.330  Sum_probs=67.7

Q ss_pred             CCCCeEEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCCC------ceEEEEeCChhHHHHHHHHhcCCCeEEcCe
Q psy5142         272 LPTGALLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVGE------PTAFVRYKKENNAEAVLKALGSKEIVIKDV  345 (410)
Q Consensus       272 ~~~g~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g~------~~afV~F~~~e~A~~Al~~l~~~~~~i~g~  345 (410)
                      ....+.|+|.|||+.+++++|+++|++||    .|..|.+..+.      ++|||+|.+.++|++|+..|  ++..++|+
T Consensus        44 ~~~~~~l~V~nLp~~~te~~L~~~F~~~G----~i~~v~i~~~~~~g~~~G~afV~F~~~~~A~~Ai~~l--~g~~i~g~  117 (135)
T 2lea_A           44 VEGMTSLKVDNLTYRTSPDTLRRVFEKYG----RVGDVYIPRDRYTKESRGFAFVRFHDKRDAEDAMDAM--DGAVLDGR  117 (135)
T ss_dssp             GGGCCCEEEECCCSSCHHHHHHHHHGGGS----CCSEEECCCCSSSSSCCSCCEEECSCHHHHHHHHTTT--TTCCSSSS
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhcC----CEEEEEEEecCCCCccceEEEEEECCHHHHHHHHHHc--CCCEECCE
Confidence            34567899999999999999999999999    99999987643      37999999999999999999  67889999


Q ss_pred             EEEEEecC
Q psy5142         346 KVSIEVVT  353 (410)
Q Consensus       346 ~v~v~~l~  353 (410)
                      .|.|....
T Consensus       118 ~l~V~~a~  125 (135)
T 2lea_A          118 ELRVQMAR  125 (135)
T ss_dssp             CCEEEECC
T ss_pred             EEEEEECC
Confidence            99999765

>1p1t_A Cleavage stimulation factor, 64 kDa subunit; RNA recognition motif, C-terminal helix, N-terminal helix, RNA binding protein; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.20  E-value=3e-11  Score=97.55  Aligned_cols=78  Identities=12%  Similarity=0.261  Sum_probs=68.8

Q ss_pred             CeEEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCC------CceEEEEeCChhHHHHHHHHhcCCCeEEcCeEEE
Q psy5142         275 GALLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVG------EPTAFVRYKKENNAEAVLKALGSKEIVIKDVKVS  348 (410)
Q Consensus       275 g~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g------~~~afV~F~~~e~A~~Al~~l~~~~~~i~g~~v~  348 (410)
                      .+.|||.|||..+++++|+++|++||    .|..|.+..+      .++|||+|.+.++|++|++.|  ++..++|+.|.
T Consensus         8 ~~~l~V~nlp~~~~~~~l~~~f~~~G----~i~~~~i~~~~~~g~~~g~afV~f~~~~~a~~A~~~l--~g~~~~g~~l~   81 (104)
T 1p1t_A            8 LRSVFVGNIPYEATEEQLKDIFSEVG----PVVSFRLVYDRETGKPKGYGFCEYQDQETALSAMRNL--NGREFSGRALR   81 (104)
T ss_dssp             HSCEEEESCCTTSCHHHHHHHHHTTS----CCSEEEEEEETTTTEEEEEEEEECSCHHHHHHHHHHS--SSBSCSSSCBE
T ss_pred             ccEEEEeCCCCcCCHHHHHHHHHhcC----CeeEEEEEeCCCCCccceEEEEEECCHHHHHHHHHHh--CCCeeCCcEEE
Confidence            46899999999999999999999999    9999888754      357999999999999999999  67889999999


Q ss_pred             EEecCchHHH
Q psy5142         349 IEVVTGEEEQ  358 (410)
Q Consensus       349 v~~l~g~eE~  358 (410)
                      |.........
T Consensus        82 v~~a~~~~~~   91 (104)
T 1p1t_A           82 VDNAASEKNK   91 (104)
T ss_dssp             EEETTCTTHH
T ss_pred             EEeCCCccch
Confidence            9988755443

>2ku7_A MLL1 PHD3-CYP33 RRM chimeric protein; transcriptional regulation, RRM domain, transcr; NMR {Homo sapiens}

Probab=99.20  E-value=1.2e-10  Score=99.14  Aligned_cols=75  Identities=16%  Similarity=0.271  Sum_probs=67.7

Q ss_pred             CCCCCeEEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCC------CceEEEEeCChhHHHHHHHHhcCCCeEEcC
Q psy5142         271 ELPTGALLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVG------EPTAFVRYKKENNAEAVLKALGSKEIVIKD  344 (410)
Q Consensus       271 ~~~~g~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g------~~~afV~F~~~e~A~~Al~~l~~~~~~i~g  344 (410)
                      ..++...|||.|||..+++++|+++|++||    .|..|.+..+      .++|||+|.+.++|++|++.|  ++..++|
T Consensus        59 ~~~~~~~l~v~nlp~~~~~~~l~~~f~~~G----~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~A~~~l--~g~~~~g  132 (140)
T 2ku7_A           59 SATTKRVLYVGGLAEEVDDKVLHAAFIPFG----DITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDNM--NESELFG  132 (140)
T ss_dssp             SCSSCCEEEEECCCTTCCHHHHHHHHGGGS----CEEEEECCCCTTTCCCCSEEEEEESCHHHHHHHHHHS--TEEEETT
T ss_pred             CCCCCcEEEEEeCCCCCCHHHHHHHHHhcC----CEEEEEEeecCCCCCcCcEEEEEECCHHHHHHHHHHh--CCCEECC
Confidence            345678999999999999999999999999    9999998764      457999999999999999999  6899999


Q ss_pred             eEEEEEe
Q psy5142         345 VKVSIEV  351 (410)
Q Consensus       345 ~~v~v~~  351 (410)
                      +.|.|+.
T Consensus       133 ~~l~v~~  139 (140)
T 2ku7_A          133 RTIRVNL  139 (140)
T ss_dssp             EEEEEEC
T ss_pred             EEEEEEe
Confidence            9999875

>3ns6_A Eukaryotic translation initiation factor 3 subuni; 1.25A {Saccharomyces cerevisiae} PDB: 3ns5_A

Probab=99.20  E-value=1.6e-11  Score=99.06  Aligned_cols=73  Identities=15%  Similarity=0.297  Sum_probs=66.3

Q ss_pred             CeEEEEeCCCC------CCCHHHHHHHHHhcCCCCCCeeEEEeeCC------CceEEEEeCChhHHHHHHHHhcCCCeEE
Q psy5142         275 GALLKISDIKE------PVSREDIREVLEKVQTDDQEIVFIEFNVG------EPTAFVRYKKENNAEAVLKALGSKEIVI  342 (410)
Q Consensus       275 g~~l~v~nL~~------~~t~edLk~~F~~~G~~~~~V~~V~~~~g------~~~afV~F~~~e~A~~Al~~l~~~~~~i  342 (410)
                      +++|||.|||.      ++++++|+++|++||    .|..|.++.+      .++|||.|.++++|++|++.|  ++..+
T Consensus         6 ~~~vfV~nLp~v~~~~~~~~~~~L~~~F~~~G----~i~~v~i~~d~~tg~~kG~afV~f~~~~~A~~Ai~~l--ng~~~   79 (100)
T 3ns6_A            6 DQYIVVNGAPVIPSAKVPVLKKALTSLFSKAG----KVVNMEFPIDEATGKTKGFLFVECGSMNDAKKIIKSF--HGKRL   79 (100)
T ss_dssp             GGEEEEESCCCCBGGGHHHHHHHHHHHHHTTS----CEEEEECCEETTTTEECSEEEEEESSHHHHHHHHHHH--TTCBS
T ss_pred             CcEEEEeCCCcCChHHHHHHHHHHHHHHHhcC----CEeEEEEEEcCCCCccceEEEEEECCHHHHHHHHHHh--CCccc
Confidence            57899999999      999999999999999    9999988754      357999999999999999999  67899


Q ss_pred             cC-eEEEEEecC
Q psy5142         343 KD-VKVSIEVVT  353 (410)
Q Consensus       343 ~g-~~v~v~~l~  353 (410)
                      +| +.|.|..+.
T Consensus        80 ~g~r~l~V~~a~   91 (100)
T 3ns6_A           80 DLKHRLFLYTMK   91 (100)
T ss_dssp             SSSCBCEEEESH
T ss_pred             CCCeEEEEEECc
Confidence            99 999999875

>2j8a_A Histone-lysine N-methyltransferase, H3 lysine-4 specific; histone methyltransferase, RRM fold, telomere, nuclear protein; 3.0A {Saccharomyces cerevisiae}

Probab=99.19  E-value=1.3e-11  Score=103.31  Aligned_cols=67  Identities=15%  Similarity=0.095  Sum_probs=58.1

Q ss_pred             eeeEeecC----CCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecC----HHH----HHHHHH
Q psy5142         120 QSLYVKYI----PVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDN----KEN----AEKFLN  187 (410)
Q Consensus       120 rtv~V~~l----p~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~----~e~----A~~Al~  187 (410)
                      ..|||+||    |+.+|+++|+++|++|    |+|.++.++.|+.++    .++|||||+|.+    +++    |.+|+.
T Consensus         3 ~kI~VgnL~~~~~~~tte~~Lk~~Fs~f----GeV~~~~li~Dp~Tg----~slGfgfVef~d~~g~~d~a~kAA~kAi~   74 (136)
T 2j8a_A            3 CEIVVYPAQDSTTTNIQDISIKNYFKKY----GEISHFEAFNDPNSA----LPLHVYLIKYASSDGKINDAAKAAFSAVR   74 (136)
T ss_dssp             CEEEEEESSSSCCCCCCHHHHHHHHHTT----SCCSEEEEEECTTTC----CEEEEEEEECC------CCHHHHHHHHHH
T ss_pred             cEEEEeCCCCCCCCCCCHHHHHHHHHhc----CCeEEEEEEecCCCC----ceeeEEEEEECCCCCCcchHHHHHHHHHH
Confidence            58999999    9999999999999999    999999999999997    999999999996    433    788888


Q ss_pred             --hcCCCCccc
Q psy5142         188 --ENKDKNLKF  196 (410)
Q Consensus       188 --~~~g~~~~~  196 (410)
                        .++|  ..+
T Consensus        75 ~~~lng--~~I   83 (136)
T 2j8a_A           75 KHESSG--CFI   83 (136)
T ss_dssp             HTTTTC--EEE
T ss_pred             HhhhcC--Cee
Confidence              5564  445

>2db1_A Heterogeneous nuclear ribonucleoprotein F; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Mus musculus}

Probab=99.19  E-value=4.3e-11  Score=99.56  Aligned_cols=76  Identities=17%  Similarity=0.199  Sum_probs=65.9

Q ss_pred             CCCCeEEEEeCCCCCCCHHHHHHHHHhcCCCCCC---eeEEEeeCC-----CceEEEEeCChhHHHHHHHHhcCCCeEEc
Q psy5142         272 LPTGALLKISDIKEPVSREDIREVLEKVQTDDQE---IVFIEFNVG-----EPTAFVRYKKENNAEAVLKALGSKEIVIK  343 (410)
Q Consensus       272 ~~~g~~l~v~nL~~~~t~edLk~~F~~~G~~~~~---V~~V~~~~g-----~~~afV~F~~~e~A~~Al~~l~~~~~~i~  343 (410)
                      ....++|||.|||+++++++|+++|++||    .   |..|.+..+     .++|||+|.+.++|++||+ +  ++..|+
T Consensus        14 ~~~~~~l~V~nLp~~~te~~l~~~F~~~G----~~~~v~~v~i~~~~~g~~~G~afV~F~~~~~a~~Al~-~--~g~~~~   86 (118)
T 2db1_A           14 GGEGYVVKLRGLPWSCSIEDVQNFLSDCT----IHDGVAGVHFIYTREGRQSGEAFVELESEDDVKLALK-K--DRESMG   86 (118)
T ss_dssp             BCCCCEEEEESCCTTCCHHHHHHHTTTSC----BTTGGGGEEEEECSSSCEEEEEEEEBSSHHHHHHHGG-G--TTEEET
T ss_pred             CCCCcEEEEeCCCCCCCHHHHHHHHHHcC----CccCceeEEEEECCCCCCCeEEEEEECCHHHHHHHHh-c--CCCeEC
Confidence            34578999999999999999999999999    6   677777643     2469999999999999999 8  679999


Q ss_pred             CeEEEEEecCc
Q psy5142         344 DVKVSIEVVTG  354 (410)
Q Consensus       344 g~~v~v~~l~g  354 (410)
                      |+.|.|.....
T Consensus        87 gr~i~V~~a~~   97 (118)
T 2db1_A           87 HRYIEVFKSHR   97 (118)
T ss_dssp             TEEEEEEEECH
T ss_pred             CeEEEEEECCH
Confidence            99999998863

>3lqv_A PRE-mRNA branch site protein P14; cysless mutant, PRE-mRNA splicing, adenine, mRNA processing, nucleus, phosphoprotein, RNA-binding; HET: ADE; 2.38A {Homo sapiens} SCOP: d.58.7.1 PDB: 2f9d_A 2f9j_A 2fho_B

Probab=99.19  E-value=7.7e-11  Score=97.09  Aligned_cols=78  Identities=15%  Similarity=0.233  Sum_probs=69.8

Q ss_pred             CCCeEEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCC---CceEEEEeCChhHHHHHHHHhcCCCeEEcCeEEEE
Q psy5142         273 PTGALLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVG---EPTAFVRYKKENNAEAVLKALGSKEIVIKDVKVSI  349 (410)
Q Consensus       273 ~~g~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g---~~~afV~F~~~e~A~~Al~~l~~~~~~i~g~~v~v  349 (410)
                      +++++|+|.|||+.+++++|+++|++||    .|..|.+..+   .++|||.|.+.++|.+|+..|  ++..++|+.|.|
T Consensus         6 ~~~~~l~V~nlp~~~t~~~l~~~F~~~G----~v~~v~i~~~~~~~g~afV~f~~~~~A~~A~~~l--~g~~~~g~~l~v   79 (115)
T 3lqv_A            6 EVNRILYIRNLPYKITAEEMYDIFGKYG----PIRQIRVGNTPETRGTAYVVYEDIFDAKNAVDHL--SGFNVSNRYLVV   79 (115)
T ss_dssp             TCCSEEEEESCCTTCCHHHHHHHHHTTS----CEEEEEEECSTTTTTCEEEEESSHHHHHHHHHHH--TTCBSSSCBCEE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcC----CeEEEEEeeCCCCCcEEEEEECCHHHHHHHHHHc--CCCEECCeEEEE
Confidence            4567999999999999999999999999    9999998753   357999999999999999999  678899999999


Q ss_pred             EecCchH
Q psy5142         350 EVVTGEE  356 (410)
Q Consensus       350 ~~l~g~e  356 (410)
                      .......
T Consensus        80 ~~a~~~~   86 (115)
T 3lqv_A           80 LYYNANR   86 (115)
T ss_dssp             EECCHHH
T ss_pred             EEecCCh
Confidence            9987543

>2a3j_A U1 small nuclear ribonucleoprotein A; computationally designed protein, RRM, U1A, RNA binding protein; NMR {Homo sapiens}

Probab=99.19  E-value=6.9e-11  Score=99.77  Aligned_cols=80  Identities=14%  Similarity=0.282  Sum_probs=69.2

Q ss_pred             CCCCCeEEEEeCCCCCCCHHHHH----HHHHhcCCCCCCeeEEEeeC---CCceEEEEeCChhHHHHHHHHhcCCCeEEc
Q psy5142         271 ELPTGALLKISDIKEPVSREDIR----EVLEKVQTDDQEIVFIEFNV---GEPTAFVRYKKENNAEAVLKALGSKEIVIK  343 (410)
Q Consensus       271 ~~~~g~~l~v~nL~~~~t~edLk----~~F~~~G~~~~~V~~V~~~~---g~~~afV~F~~~e~A~~Al~~l~~~~~~i~  343 (410)
                      ..+++++|||.|||+.+++++|+    ++|++||    .|..|.+..   ..++|||.|.+.++|..|+..|  ++..+.
T Consensus        25 ~~~p~~~LfV~nL~~~~~e~~L~~~L~~~F~~~G----~I~~v~i~~~~~~rG~aFV~F~~~~~A~~Ai~~l--ng~~l~   98 (127)
T 2a3j_A           25 HTEPSQVVLITNINPEVPKEKLQALLYALASSQG----DILDIVVDLSDDNSGKAYIVFATQESAQAFVEAF--QGYPFQ   98 (127)
T ss_dssp             CCSCCSEEEEESCCTTSCHHHHHHHHHHHHHHHS----CEEEEEECCCCSSCCCEEEEESSHHHHHHHHHHS--TTCCCT
T ss_pred             CCCCCCEEEEeCCCCCCCHHHHHHHHHHHhccCC----CeEEEEeccCCCcCCEEEEEECCHHHHHHHHHHH--CCCEeC
Confidence            34567899999999999999876    6999999    998888754   3468999999999999999999  678899


Q ss_pred             CeEEEEEecCchH
Q psy5142         344 DVKVSIEVVTGEE  356 (410)
Q Consensus       344 g~~v~v~~l~g~e  356 (410)
                      |+.|.|.......
T Consensus        99 gr~l~V~~a~~~~  111 (127)
T 2a3j_A           99 GNPLVITFSETPQ  111 (127)
T ss_dssp             TSCCEEEECCCCC
T ss_pred             CCEEEEEEccCcc
Confidence            9999999887543

>2cqp_A RNA-binding protein 12; RNA recognition motif, RRM, RNA binding domain, RBD, RNP, structural genomics, NPPSFA; NMR {Mus musculus} SCOP: d.58.7.1

Probab=99.19  E-value=1.8e-11  Score=97.83  Aligned_cols=77  Identities=22%  Similarity=0.258  Sum_probs=64.4

Q ss_pred             CCCCeEEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeC----C--CceEEEEeCChhHHHHHHHHhcCCCeEEcCe
Q psy5142         272 LPTGALLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNV----G--EPTAFVRYKKENNAEAVLKALGSKEIVIKDV  345 (410)
Q Consensus       272 ~~~g~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~----g--~~~afV~F~~~e~A~~Al~~l~~~~~~i~g~  345 (410)
                      .+..++|+|.|||+.+++++|+++|++||    .|..+.+..    +  .++|||+|.+.++|++|++.|  ++..++|+
T Consensus        12 ~~~~~~l~v~nLp~~~t~~~l~~~F~~~G----~v~~~~~~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l--~g~~~~g~   85 (98)
T 2cqp_A           12 KPGPTIIKVQNMPFTVSIDEILDFFYGYQ----VIPGSVCLKYNEKGMPTGEAMVAFESRDEATAAVIDL--NDRPIGSR   85 (98)
T ss_dssp             CCSSEEEEEESCCTTCCHHHHHHHTTTSC----CCTTTCEEEECSSSCEEEEEEEEESCHHHHHHHHHHT--TTCEETTE
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHHcC----CccceEEEEECCCCCeeeEEEEEECCHHHHHHHHHHh--CCCeeCCe
Confidence            45568999999999999999999999999    664333322    2  346999999999999999999  67899999


Q ss_pred             EEEEEecCc
Q psy5142         346 KVSIEVVTG  354 (410)
Q Consensus       346 ~v~v~~l~g  354 (410)
                      .|.|.+..+
T Consensus        86 ~l~V~~a~~   94 (98)
T 2cqp_A           86 KVKLVLGSG   94 (98)
T ss_dssp             ECEEEESSC
T ss_pred             EEEEEEcCC
Confidence            999998653

>2cq4_A RNA binding motif protein 23; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.18  E-value=9.5e-11  Score=96.46  Aligned_cols=73  Identities=8%  Similarity=0.165  Sum_probs=65.6

Q ss_pred             CCeEEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCC------CceEEEEeCChhHHHHHHHHhcCCCeEEcCeEE
Q psy5142         274 TGALLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVG------EPTAFVRYKKENNAEAVLKALGSKEIVIKDVKV  347 (410)
Q Consensus       274 ~g~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g------~~~afV~F~~~e~A~~Al~~l~~~~~~i~g~~v  347 (410)
                      ..+.|||.|||..+++++|+++|++||    .|..|.+..+      .++|||+|.+.++|++|+ .|  ++..++|+.|
T Consensus        24 ~~~~l~V~nlp~~~t~~~l~~~F~~~G----~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~A~-~l--~g~~~~g~~l   96 (114)
T 2cq4_A           24 DARTVFCMQLAARIRPRDLEDFFSAVG----KVRDVRIISDRNSRRSKGIAYVEFCEIQSVPLAI-GL--TGQRLLGVPI   96 (114)
T ss_dssp             HHTEEEEESCCTTCCHHHHHHHHTTTS----CEEEEEECCSCCSSSCCCCEEEEESCGGGHHHHH-HH--TTEEETTEEE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhCC----CEeEEEEEecCCCCccCcEEEEEeCcHHHHHHHH-Hc--CCCEeCCeEE
Confidence            347999999999999999999999999    9999998753      347999999999999999 88  6899999999


Q ss_pred             EEEecC
Q psy5142         348 SIEVVT  353 (410)
Q Consensus       348 ~v~~l~  353 (410)
                      .|....
T Consensus        97 ~V~~a~  102 (114)
T 2cq4_A           97 IVQASQ  102 (114)
T ss_dssp             EEEEHH
T ss_pred             EEEecC
Confidence            999753

>2krb_A Eukaryotic translation initiation factor 3 subunit B; EIF3, eukaryotic initiation factor, EIF3B, EIF3J; NMR {Homo sapiens}

Probab=99.18  E-value=1.7e-11  Score=94.70  Aligned_cols=68  Identities=10%  Similarity=0.185  Sum_probs=60.2

Q ss_pred             eEEEEeCCCCCC------CHHHHHHHHHhcCCCCCCeeEEEeeCC----CceEEEEeCChhHHHHHHHHhcCCCeEEcCe
Q psy5142         276 ALLKISDIKEPV------SREDIREVLEKVQTDDQEIVFIEFNVG----EPTAFVRYKKENNAEAVLKALGSKEIVIKDV  345 (410)
Q Consensus       276 ~~l~v~nL~~~~------t~edLk~~F~~~G~~~~~V~~V~~~~g----~~~afV~F~~~e~A~~Al~~l~~~~~~i~g~  345 (410)
                      ++|+|.|||..+      ++++|+++|++||    .|..|.+.+.    .++|||+|.++++|++|+..|  ++..++|+
T Consensus         2 ~~l~V~nLp~~~~~~~~~t~~~l~~~F~~~G----~i~~v~i~~~~g~~~g~afV~f~~~~~A~~Ai~~l--ng~~~~g~   75 (81)
T 2krb_A            2 SVIVVDNVPQVGPDRLEKLKNVIHKIFSKFG----KITNDFYPEEDGKTKGYIFLEYASPAHAVDAVKNA--DGYKLDKQ   75 (81)
T ss_dssp             CEEEEESCCCCCTTTHHHHHHHHHHHHHTTC----CEEEEECCCBTTBCCCEEEEEESSHHHHHHHHTTS--SSCCCSSS
T ss_pred             CEEEEeCCCCCcHHHHHHHHHHHHHHHhhcC----CeEEEEecCCCCcEeEEEEEEECCHHHHHHHHHHh--cCcccCCc
Confidence            589999999999      6799999999999    9999988742    467999999999999999999  67888988


Q ss_pred             -EEEE
Q psy5142         346 -KVSI  349 (410)
Q Consensus       346 -~v~v  349 (410)
                       .|+|
T Consensus        76 ~~l~V   80 (81)
T 2krb_A           76 HTFRV   80 (81)
T ss_dssp             SCCCC
T ss_pred             eeEEe
Confidence             7755

>2dhg_A TRNA selenocysteine associated protein (SECP43); RRM domain, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=99.18  E-value=3.3e-11  Score=97.42  Aligned_cols=76  Identities=16%  Similarity=0.137  Sum_probs=67.1

Q ss_pred             CCCCeEEEEeCCCCCCCHHHHHHHHHh-cCCCCCCeeEEEeeCC-----CceEEEEeCChhHHHHHHHHhcCCCeE-EcC
Q psy5142         272 LPTGALLKISDIKEPVSREDIREVLEK-VQTDDQEIVFIEFNVG-----EPTAFVRYKKENNAEAVLKALGSKEIV-IKD  344 (410)
Q Consensus       272 ~~~g~~l~v~nL~~~~t~edLk~~F~~-~G~~~~~V~~V~~~~g-----~~~afV~F~~~e~A~~Al~~l~~~~~~-i~g  344 (410)
                      ..+.+.|||.|||+++++++|+++|++ ||    .|..|.+..+     .++|||+|.+.++|++|+..|  ++.. ++|
T Consensus         6 ~~~~~~l~V~nLp~~~t~~~l~~~F~~~~G----~v~~v~i~~~~~g~~~g~afV~f~~~~~a~~A~~~l--~g~~~~~g   79 (104)
T 2dhg_A            6 SGPEYSLFVGDLTPDVDDGMLYEFFVKVYP----SCRGGKVVLDQTGVSKGYGFVKFTDELEQKRALTEC--QGAVGLGS   79 (104)
T ss_dssp             SSCCCCEEEECCCTTCCHHHHHHHHHHHCT----TEEEEEEEECTTCCEEEEEEEEESCHHHHHHHHHHT--TTCCSSSS
T ss_pred             CCCCcEEEEeCCCCCCCHHHHHHHHHHhCC----CeEEEEEEECCCCCccceEEEEECCHHHHHHHHHHc--cCCcccCC
Confidence            355678999999999999999999999 99    9999998765     346999999999999999999  6677 999


Q ss_pred             eEEEEEecC
Q psy5142         345 VKVSIEVVT  353 (410)
Q Consensus       345 ~~v~v~~l~  353 (410)
                      +.|.|....
T Consensus        80 ~~l~v~~a~   88 (104)
T 2dhg_A           80 KPVRLSVAI   88 (104)
T ss_dssp             SCCCCCBCC
T ss_pred             EeEEEEEcc
Confidence            999888754

>3d2w_A TAR DNA-binding protein 43; DP-43 proteinopathy, TDP-43 inclusions, RNA recognition MOTI U, ALS, RRM; HET: DNA; 1.65A {Mus musculus}

Probab=99.18  E-value=1.2e-10  Score=91.81  Aligned_cols=77  Identities=18%  Similarity=0.311  Sum_probs=62.6

Q ss_pred             CCCCeEEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCC-CceEEEEeCChhHHHHHHHHhcCCCeEEcCeEEEEE
Q psy5142         272 LPTGALLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVG-EPTAFVRYKKENNAEAVLKALGSKEIVIKDVKVSIE  350 (410)
Q Consensus       272 ~~~g~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g-~~~afV~F~~~e~A~~Al~~l~~~~~~i~g~~v~v~  350 (410)
                      .++.++|||.|||+++++++|+++|++||    .|..|.++.. +++|||+|.++++|++    +++..+.++|+.|.|.
T Consensus         8 ~~~~~~l~V~~Lp~~~te~~L~~~F~~~G----~i~~v~i~~~srGfaFV~F~~~~~A~~----~~~~~~~~~g~~v~v~   79 (89)
T 3d2w_A            8 HHHGSKVFVGRCTEDMTAEELQQFFCQYG----EVVDVFIPKPFRAFAFVTFADDKVAQS----LCGEDLIIKGISVHIS   79 (89)
T ss_dssp             ---CCEEEEESCCTTCCHHHHHHHHTTTS----CEEEEECCSSCCSEEEEEESCHHHHHH----HTTCEEEETTEEEEEE
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHhccC----CEEEEEEeeCCCCEEEEEECCHHHHHH----HcCCCcccCCEEEEEE
Confidence            45678999999999999999999999999    9999999864 6789999999998873    4445677889999999


Q ss_pred             ecCchH
Q psy5142         351 VVTGEE  356 (410)
Q Consensus       351 ~l~g~e  356 (410)
                      ......
T Consensus        80 ~a~~k~   85 (89)
T 3d2w_A           80 NAEPKH   85 (89)
T ss_dssp             ECC---
T ss_pred             EcCCCC
Confidence            876543

>2yh0_A Splicing factor U2AF 65 kDa subunit; PRE-mRNA splicing, transcription, RNA binding protein, mRNA processing; NMR {Homo sapiens} PDB: 2yh1_A

Probab=99.17  E-value=2.8e-11  Score=108.51  Aligned_cols=70  Identities=11%  Similarity=0.151  Sum_probs=63.9

Q ss_pred             ccceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCCccc
Q psy5142         117 LIAQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLKF  196 (410)
Q Consensus       117 ~~~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~~~  196 (410)
                      ...++|||+|||.++|+++|+++|++|    |.|..|+++++..++    .++|+|||+|.+.++|.+|++.++|  ..+
T Consensus       112 ~~~~~l~v~nl~~~~~~~~l~~~f~~~----G~v~~~~~~~~~~~~----~~~g~afV~f~~~~~a~~A~~~l~g--~~~  181 (198)
T 2yh0_A          112 DSAHKLFIGGLPNYLNDDQVKELLTSF----GPLKAFNLVKDSATG----LSKGYAFCEYVDINVTDQAIAGLNG--MQL  181 (198)
T ss_dssp             CCCCEEEEECCCTTCCHHHHHHHHHTB----SCEEEEEEEECTTTC----SEEEEEEEEESSSSHHHHHHHHHTT--CEE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHHc----CCccEEEEeecCCCC----CcceEEEEEECCHHHHHHHHHHcCC--CEE
Confidence            456899999999999999999999999    999999999987554    7899999999999999999999886  455

>2cqh_A IGF-II mRNA-binding protein 2 isoform A; RNA recognition motif, RRM, RNA binding domain, RBD, RNP, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.17  E-value=3.6e-11  Score=95.24  Aligned_cols=74  Identities=16%  Similarity=0.248  Sum_probs=63.9

Q ss_pred             CCCeEEEEeCCCCCCCHHHHHHHHHhcCCCCCC-eeEEEeeCCCceEEEEeCChhHHHHHHHHhcCCC-eEEcCeEEEEE
Q psy5142         273 PTGALLKISDIKEPVSREDIREVLEKVQTDDQE-IVFIEFNVGEPTAFVRYKKENNAEAVLKALGSKE-IVIKDVKVSIE  350 (410)
Q Consensus       273 ~~g~~l~v~nL~~~~t~edLk~~F~~~G~~~~~-V~~V~~~~g~~~afV~F~~~e~A~~Al~~l~~~~-~~i~g~~v~v~  350 (410)
                      ...+.|||.|||+++++++|+++|++||    . |..+.+ ...++|||+|.+.++|++|+..|  ++ ..++|+.|.|.
T Consensus         6 ~~~~~l~V~nLp~~~t~~~l~~~F~~~G----~vv~~~~~-~~~g~afV~f~~~~~A~~A~~~l--~g~~~~~g~~l~v~   78 (93)
T 2cqh_A            6 SGMNKLYIGNLSPAVTADDLRQLFGDRK----LPLAGQVL-LKSGYAFVDYPDQNWAIRAIETL--SGKVELHGKIMEVD   78 (93)
T ss_dssp             CCCCCEEEECCCTTCCHHHHHHHHHHTT----CCCSSCEE-EETTEEEECCSCHHHHHHHHHHH--TTTCEETTEECEEE
T ss_pred             CCCcEEEEeCCCCCCCHHHHHHHHHHcC----CceEEEEE-cCCCEEEEEECCHHHHHHHHHHc--cCCeeECCEEEEEE
Confidence            3457899999999999999999999999    6 444444 34679999999999999999999  66 89999999998


Q ss_pred             ecC
Q psy5142         351 VVT  353 (410)
Q Consensus       351 ~l~  353 (410)
                      ...
T Consensus        79 ~a~   81 (93)
T 2cqh_A           79 YSV   81 (93)
T ss_dssp             ECC
T ss_pred             Ecc
Confidence            764

>1uaw_A Mouse-musashi-1; RNP-type structure, RNA binding protein; NMR {Mus musculus} SCOP: d.58.7.1

Probab=99.17  E-value=2.5e-11  Score=92.45  Aligned_cols=70  Identities=14%  Similarity=0.185  Sum_probs=62.6

Q ss_pred             eEEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCCC------ceEEEEeCChhHHHHHHHHhcCCCeEEcCeEEEE
Q psy5142         276 ALLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVGE------PTAFVRYKKENNAEAVLKALGSKEIVIKDVKVSI  349 (410)
Q Consensus       276 ~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g~------~~afV~F~~~e~A~~Al~~l~~~~~~i~g~~v~v  349 (410)
                      +.|+|.|||+++++++|+++|++||    .|..|.+.++.      +.|||+|.++++|++|+..+  + ..++|+.|.|
T Consensus         1 ~~l~v~nlp~~~t~~~l~~~F~~~G----~v~~v~i~~~~~~~~~~g~afV~f~~~~~a~~a~~~~--~-~~~~g~~l~v   73 (77)
T 1uaw_A            1 CKMFIGGLSWQTTQEGLREYFGQFG----EVKECLVMRDPLTKRSRGFGFVTFMDQAGVDKVLAQS--R-HELDSKTIDP   73 (77)
T ss_dssp             CCEEEESCCSSCCSHHHHHHHTTTS----CCCCEEEECCCCSSSCSSEEEECCCCTTHHHHHHHTT--T-CCCSSCCCEE
T ss_pred             CEEEEeCCCCCCCHHHHHHHHHhcC----CEEEEEEecCCCCCCcCceEEEEEcCHHHHHHHHHhC--C-CccCCEEEEE
Confidence            3689999999999999999999999    99988887653      47999999999999999998  5 8899999988


Q ss_pred             Eec
Q psy5142         350 EVV  352 (410)
Q Consensus       350 ~~l  352 (410)
                      +.+
T Consensus        74 ~~a   76 (77)
T 1uaw_A           74 KVA   76 (77)
T ss_dssp             EEC
T ss_pred             Eec
Confidence            764

>2fc8_A NCL protein; structure genomics, RRM_1 domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.17  E-value=7.5e-11  Score=94.93  Aligned_cols=77  Identities=18%  Similarity=0.294  Sum_probs=64.5

Q ss_pred             CCCCCeEEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEee-CC--CceEEEEeCChhHHHHHHHHhcCCCeEEcCeEE
Q psy5142         271 ELPTGALLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFN-VG--EPTAFVRYKKENNAEAVLKALGSKEIVIKDVKV  347 (410)
Q Consensus       271 ~~~~g~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~-~g--~~~afV~F~~~e~A~~Al~~l~~~~~~i~g~~v  347 (410)
                      ...+.+.|||.|||+.+++++|+++|+.|+    .|..+... .+  .++|||+|.+.++|++|+..|  ++..|+|+.|
T Consensus        11 ~~~~~~~l~V~nLp~~~t~~~l~~~F~~~~----~~~~~~~~~~~~~~g~afV~f~~~~~A~~A~~~l--~g~~~~g~~l   84 (102)
T 2fc8_A           11 RSQPSKTLFVKGLSEDTTEETLKESFDGSV----RARIVTDRETGSSKGFGFVDFNSEEDAKAAKEAM--EDGEIDGNKV   84 (102)
T ss_dssp             SSCCCSSEEEECCCTTCCHHHHHHTSTTCS----EEEEEECSSSCSEEEEEEEECSSHHHHHHHHHHH--TTCEETTEEC
T ss_pred             CCCCCCEEEEeCCCCccCHHHHHHHhcCCe----EEEEEecCCCCCcCcEEEEEECCHHHHHHHHHHh--CCCeECCeEE
Confidence            345668899999999999999999999887    66655432 22  247999999999999999999  6789999999


Q ss_pred             EEEecC
Q psy5142         348 SIEVVT  353 (410)
Q Consensus       348 ~v~~l~  353 (410)
                      .|....
T Consensus        85 ~V~~a~   90 (102)
T 2fc8_A           85 TLDWAK   90 (102)
T ss_dssp             EEEECC
T ss_pred             EEEEec
Confidence            999864

>2hgl_A HNRPF protein, heterogeneous nuclear ribonucleoprotein F; RNA recognition motif, G-tract, G-quadruplex, alternative, splicing, RNA binding protein; NMR {Homo sapiens} PDB: 2kfy_A

Probab=99.17  E-value=3.9e-11  Score=102.52  Aligned_cols=78  Identities=18%  Similarity=0.186  Sum_probs=66.7

Q ss_pred             CCCCeEEEEeCCCCCCCHHHHHHHHHhcCCCCCC---eeEEEeeCC-----CceEEEEeCChhHHHHHHHHhcCCCeEEc
Q psy5142         272 LPTGALLKISDIKEPVSREDIREVLEKVQTDDQE---IVFIEFNVG-----EPTAFVRYKKENNAEAVLKALGSKEIVIK  343 (410)
Q Consensus       272 ~~~g~~l~v~nL~~~~t~edLk~~F~~~G~~~~~---V~~V~~~~g-----~~~afV~F~~~e~A~~Al~~l~~~~~~i~  343 (410)
                      ...+++|||.|||+++|+++|+++|++||    .   |..|.+..+     .++|||+|.+.++|++||+ +  ++..++
T Consensus        41 ~~~~~~lfVgnLp~~~te~dL~~~F~~~G----~v~~v~~v~i~~d~~g~srG~aFV~F~~~e~a~~Al~-~--~g~~l~  113 (136)
T 2hgl_A           41 GGEGFVVKLRGLPWSCSVEDVQNFLSDCT----IHDGAAGVHFIYTREGRQSGEAFVELGSEDDVKMALK-K--DRESMG  113 (136)
T ss_dssp             CCTTCEEEEESCCTTCCHHHHHHHTTTCC----CSSSSTTEEEEECSSSCEEEEEEEECSSHHHHHHHHT-T--TEEESS
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHHhC----CcCceeEEEEEECCCCCCCeEEEEEECCHHHHHHHHh-c--CCCEEC
Confidence            35578999999999999999999999999    6   666666643     2479999999999999999 8  679999


Q ss_pred             CeEEEEEecCchH
Q psy5142         344 DVKVSIEVVTGEE  356 (410)
Q Consensus       344 g~~v~v~~l~g~e  356 (410)
                      |+.|.|.....++
T Consensus       114 gr~i~V~~a~~~e  126 (136)
T 2hgl_A          114 HRYIEVFKSHRTE  126 (136)
T ss_dssp             SSEEEEEECCHHH
T ss_pred             CEEEEEEECChHH
Confidence            9999999887443

>1sjr_A Polypyrimidine tract-binding protein 1; extended babbab motif, RNA binding protein; NMR {Homo sapiens} SCOP: d.58.7.1 PDB: 2adb_A

Probab=99.17  E-value=6.3e-11  Score=103.94  Aligned_cols=61  Identities=15%  Similarity=0.119  Sum_probs=55.8

Q ss_pred             ceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCC
Q psy5142         119 AQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKD  191 (410)
Q Consensus       119 ~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g  191 (410)
                      -.+|||+|||+.+|+++|+++|++|    |.|.+|.|...        ..+|||||+|.+.++|++|++.++|
T Consensus        46 vl~l~VgNL~~~vted~L~~~Fs~f----G~V~~V~i~~k--------~~rgfAFVeF~d~~~A~~Ai~~LnG  106 (164)
T 1sjr_A           46 VLRIIVENLFYPVTLDVLHQIFSKF----GTVLKIITFTK--------NNQFQALLQYADPVSAQHAKLSLDG  106 (164)
T ss_dssp             EEEEEECSCCSCCCHHHHHHHHHHH----SCEEEEEEEES--------SSCEEEEEEESCHHHHHHHHHHSTT
T ss_pred             eEEEEEeCcCCCCCHHHHHHHHHhc----CCEEEEEEEeC--------CCCCEEEEEECCHHHHHHHHHHhCC
Confidence            4689999999999999999999999    99999998531        4578999999999999999999997

>2ek1_A RNA-binding protein 12; RNA recognition motif, dimer, structural genomics, NPPSFA, national project on protein structural and functional analyses; 2.00A {Homo sapiens} PDB: 2ek6_A

Probab=99.17  E-value=2.5e-11  Score=96.41  Aligned_cols=75  Identities=21%  Similarity=0.234  Sum_probs=62.3

Q ss_pred             CCCeEEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeC----C--CceEEEEeCChhHHHHHHHHhcCCCeEEcCeE
Q psy5142         273 PTGALLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNV----G--EPTAFVRYKKENNAEAVLKALGSKEIVIKDVK  346 (410)
Q Consensus       273 ~~g~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~----g--~~~afV~F~~~e~A~~Al~~l~~~~~~i~g~~  346 (410)
                      ++.+.|+|.|||+++++++|+++|++||    .|..+.+..    +  .++|||+|.++++|++|++.|  ++..++|+.
T Consensus        13 ~~~~~l~V~nlp~~~t~~~l~~~F~~~G----~i~~~~~~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l--~g~~~~gr~   86 (95)
T 2ek1_A           13 PGPTVIKVQNMPFTVSIDEILDFFYGYQ----VIPGSVCLKYNEKGMPTGEAMVAFESRDEATAAVIDL--NDRPIGSRK   86 (95)
T ss_dssp             --CEEEEEECCCTTCCHHHHHHHTTTSC----BCTTCCEEEECTTSCEEEEEEEEESSHHHHHHHHHHH--TTCEETTEE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcC----CccceEEEEeCCCCCEeeEEEEEECCHHHHHHHHHHh--CCCeECCcE
Confidence            4458999999999999999999999999    665444432    1  246999999999999999999  678999999


Q ss_pred             EEEEecC
Q psy5142         347 VSIEVVT  353 (410)
Q Consensus       347 v~v~~l~  353 (410)
                      |.|....
T Consensus        87 l~v~~a~   93 (95)
T 2ek1_A           87 VKLSGPS   93 (95)
T ss_dssp             CEEECCC
T ss_pred             EEEEecc
Confidence            9998654

>2cpy_A RNA-binding protein 12; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.17  E-value=1.3e-10  Score=95.88  Aligned_cols=76  Identities=20%  Similarity=0.234  Sum_probs=65.2

Q ss_pred             CCCeEEEEeCCCCCCCHHHHHHHHHhcCCCCCCe-eEEEeeCC-----CceEEEEeCChhHHHHHHHHhcCCCeEEcCeE
Q psy5142         273 PTGALLKISDIKEPVSREDIREVLEKVQTDDQEI-VFIEFNVG-----EPTAFVRYKKENNAEAVLKALGSKEIVIKDVK  346 (410)
Q Consensus       273 ~~g~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V-~~V~~~~g-----~~~afV~F~~~e~A~~Al~~l~~~~~~i~g~~  346 (410)
                      ...++|||.|||+++++++|+++|++||    .| ..|.+..+     .++|||+|.+.++|++||..   ++..|+|+.
T Consensus        13 ~~~~~l~V~nLp~~~t~~~l~~~F~~~g----~v~~~v~i~~d~~g~~~G~afV~F~~~~~a~~Al~~---~~~~~~gr~   85 (114)
T 2cpy_A           13 SAKVCAHITNIPFSITKMDVLQFLEGIP----VDENAVHVLVDNNGQGLGQALVQFKNEDDARKSERL---HRKKLNGRE   85 (114)
T ss_dssp             SCCCEEEEESCCTTSCHHHHHHHTTTSC----CCSTTEEECCCTTSSCSSCEEEECSSHHHHHHHGGG---CSEEETTEE
T ss_pred             CCccEEEEeCcCCcCCHHHHHHHHHhCC----CcCCeEEEEECCCCCcceEEEEEECCHHHHHHHHHh---CCCccCCeE
Confidence            3457899999999999999999999999    77 66777642     45799999999999999876   569999999


Q ss_pred             EEEEecCch
Q psy5142         347 VSIEVVTGE  355 (410)
Q Consensus       347 v~v~~l~g~  355 (410)
                      |.|.....+
T Consensus        86 i~v~~a~~~   94 (114)
T 2cpy_A           86 AFVHVVTLE   94 (114)
T ss_dssp             EEEEEECHH
T ss_pred             EEEEECCHH
Confidence            999998743

>2kxn_B Transformer-2 protein homolog beta; SR protein, RRM, splicing factor, RNA protein complex, SMN, binding protein-RNA complex; NMR {Homo sapiens} PDB: 2rra_A 2rrb_A

Probab=99.16  E-value=4.2e-11  Score=101.31  Aligned_cols=76  Identities=14%  Similarity=0.229  Sum_probs=68.1

Q ss_pred             CCCCeEEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCC------CceEEEEeCChhHHHHHHHHhcCCCeEEcCe
Q psy5142         272 LPTGALLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVG------EPTAFVRYKKENNAEAVLKALGSKEIVIKDV  345 (410)
Q Consensus       272 ~~~g~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g------~~~afV~F~~~e~A~~Al~~l~~~~~~i~g~  345 (410)
                      .++.++|+|.|||+++++++|+++|++||    .|..|.+..+      .++|||+|.+.++|++|+..|  ++..|+|+
T Consensus        43 ~~~~~~l~V~nLp~~~te~~L~~~F~~~G----~I~~v~i~~d~~tg~~~G~afV~F~~~~~A~~Ai~~l--ng~~i~g~  116 (129)
T 2kxn_B           43 PDPNCCLGVFGLSLYTTERDLREVFSKYG----PIADVSIVYDQQSRRSRGFAFVYFENVDDAKEAKERA--NGMELDGR  116 (129)
T ss_dssp             CCCSSCBCEETCTTSCCHHHHHHHHTTTS----CEEEEEEECCSSSSCCCCEEEEEESCHHHHHHHHHHH--TTCCSSSS
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhcC----CeEEEEEEecCCCCccceEEEEEECCHHHHHHHHHHh--CCCEECCE
Confidence            45678999999999999999999999999    9999999754      357999999999999999999  67889999


Q ss_pred             EEEEEecC
Q psy5142         346 KVSIEVVT  353 (410)
Q Consensus       346 ~v~v~~l~  353 (410)
                      .|.|....
T Consensus       117 ~l~V~~a~  124 (129)
T 2kxn_B          117 RIRVDFSI  124 (129)
T ss_dssp             CCEESCCS
T ss_pred             EEEEEEec
Confidence            99998765

>2dng_A Eukaryotic translation initiation factor 4H; RRM domain, RBD, structural genomics, NPPSFA; NMR {Mus musculus}

Probab=99.16  E-value=1.9e-10  Score=92.87  Aligned_cols=75  Identities=8%  Similarity=0.203  Sum_probs=65.6

Q ss_pred             CCCCCeEEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCCC------ceEEEEeCChhHHHHHHHHhcCCCeEEcC
Q psy5142         271 ELPTGALLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVGE------PTAFVRYKKENNAEAVLKALGSKEIVIKD  344 (410)
Q Consensus       271 ~~~~g~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g~------~~afV~F~~~e~A~~Al~~l~~~~~~i~g  344 (410)
                      ...+.+.|||.|||+.+++++|+++|++||     |..|.+..+.      ++|||+|.+.++|++|+ .|  ++..++|
T Consensus        11 ~~~~~~~l~V~nLp~~~t~~~l~~~F~~~g-----i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~A~-~l--~g~~~~g   82 (103)
T 2dng_A           11 PTEPPYTAYVGNLPFNTVQGDIDAIFKDLS-----IRSVRLVRDKDTDKFKGFCYVEFDEVDSLKEAL-TY--DGALLGD   82 (103)
T ss_dssp             CSSSCEEEEEESCCTTCCHHHHHHHTTTSC-----EEEEEEEECSSSCSEEEEEEEEESSHHHHHHHG-GG--TTCEETT
T ss_pred             CCCCCeEEEEeCCCCCCCHHHHHHHHHhCC-----ceEEEEeecCCCCccceEEEEEECCHHHHHHHH-hh--CCCeECC
Confidence            345678999999999999999999999998     7778777543      37999999999999999 88  6799999


Q ss_pred             eEEEEEecC
Q psy5142         345 VKVSIEVVT  353 (410)
Q Consensus       345 ~~v~v~~l~  353 (410)
                      +.|.|....
T Consensus        83 ~~l~V~~a~   91 (103)
T 2dng_A           83 RSLRVDIAE   91 (103)
T ss_dssp             EECEEEECC
T ss_pred             eEEEEEEec
Confidence            999999864

>2rs2_A Musashi-1, RNA-binding protein musashi homolog 1; protein-RNA complex, RRM, RBD, RNA binding protein- complex; NMR {Mus musculus}

Probab=99.15  E-value=1.2e-10  Score=95.28  Aligned_cols=75  Identities=15%  Similarity=0.198  Sum_probs=65.4

Q ss_pred             CCCeEEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCC------CceEEEEeCChhHHHHHHHHhcCCCeEEcCeE
Q psy5142         273 PTGALLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVG------EPTAFVRYKKENNAEAVLKALGSKEIVIKDVK  346 (410)
Q Consensus       273 ~~g~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g------~~~afV~F~~~e~A~~Al~~l~~~~~~i~g~~  346 (410)
                      ..++.|||.|||..+++++|+++|++||    .|..|.+..+      .++|||+|.+.++|++|+..+  + ..++|+.
T Consensus        23 ~~~~~lfV~nLp~~~te~~L~~~F~~~G----~i~~v~i~~~~~tg~~kg~afV~f~~~~~A~~Ai~~~--~-~~l~g~~   95 (109)
T 2rs2_A           23 SSGCKMFIGGLSWQTTQEGLREYFGQFG----EVKECLVMRDPLTKRSRGFGFVTFMDQAGVDKVLAQS--R-HELDSKT   95 (109)
T ss_dssp             ---CCEEEESCCTTCCHHHHHHHHTTTS----CEEEEEECCCTTTCCCTTCEEEEESSHHHHHHHHHSS--C-EEETTEE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHccC----CeEEEEEEECCCCCCcCcEEEEEECCHHHHHHHHHHC--C-CcCCCEE
Confidence            4567899999999999999999999999    9999998765      347999999999999999987  3 9999999


Q ss_pred             EEEEecCc
Q psy5142         347 VSIEVVTG  354 (410)
Q Consensus       347 v~v~~l~g  354 (410)
                      |.|.....
T Consensus        96 l~V~~a~~  103 (109)
T 2rs2_A           96 IDPKVAFP  103 (109)
T ss_dssp             EEEEECCC
T ss_pred             EEEEEccC
Confidence            99998753

>2mss_A Protein (musashi1); RNA-binding domain, RNA binding protein; NMR {Mus musculus} SCOP: d.58.7.1 PDB: 2mst_A

Probab=99.15  E-value=4.1e-11  Score=90.87  Aligned_cols=67  Identities=15%  Similarity=0.209  Sum_probs=60.2

Q ss_pred             EEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCCC------ceEEEEeCChhHHHHHHHHhcCCCeEEcCeEEEEEe
Q psy5142         278 LKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVGE------PTAFVRYKKENNAEAVLKALGSKEIVIKDVKVSIEV  351 (410)
Q Consensus       278 l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g~------~~afV~F~~~e~A~~Al~~l~~~~~~i~g~~v~v~~  351 (410)
                      |+|.|||+++++++|+++|++||    .|..|.+..+.      ++|||+|.+.++|++|++ +  ++..++|+.|.|..
T Consensus         2 l~v~nlp~~~t~~~l~~~F~~~G----~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~a~~-~--~~~~~~g~~l~v~~   74 (75)
T 2mss_A            2 IFVGGLSVNTTVEDVKHYFEQFG----KVDDAMLMFDKTTNRHRGFGFVTFESEDIVEKVCE-I--HFHEINNKMVECKK   74 (75)
T ss_dssp             EEEECCCSSCCHHHHHHHHHTTS----CCSEECCCBCSSSTTSCBEEEEECSCHHHHHHHHS-S--SCCCSSSCCCEEEC
T ss_pred             EEEecCCCCCCHHHHHHHHHhcC----CEEEEEEEecCCCCCcCcEEEEEECCHHHHHHHHH-C--CCCEECCEEEEEEe
Confidence            78999999999999999999999    99999887653      479999999999999998 7  67889999998864

>2cqg_A TDP-43, TAR DNA-binding protein-43; RNA recognition motif, RRM, RNA binding domain, RBD, RNP, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.15  E-value=2.1e-10  Score=92.52  Aligned_cols=74  Identities=12%  Similarity=0.216  Sum_probs=65.4

Q ss_pred             CCCCeEEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCCC------ceEEEEeCChhHHHHHHHHhcCCCeEEcCe
Q psy5142         272 LPTGALLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVGE------PTAFVRYKKENNAEAVLKALGSKEIVIKDV  345 (410)
Q Consensus       272 ~~~g~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g~------~~afV~F~~~e~A~~Al~~l~~~~~~i~g~  345 (410)
                      ..+.+.|||.|||+.+++++|+++|++||    .|..|.+..+.      ++|||+|.+.++|++|+..    +..++|+
T Consensus        12 ~~~~~~l~v~nlp~~~t~~~l~~~F~~~G----~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~A~~~----~~~~~g~   83 (103)
T 2cqg_A           12 VQKTSDLIVLGLPWKTTEQDLKEYFSTFG----EVLMVQVKKDLKTGHSKGFGFVRFTEYETQVKVMSQ----RHMIDGR   83 (103)
T ss_dssp             CCCCCCEEEESCCSSCCHHHHHHHHGGGS----CEEEEEEEECSSSCSEEEEEEEEESSHHHHHHHHHS----CEEETTE
T ss_pred             cCCCCEEEEEcCCCcCCHHHHHHHHHhcC----CeEEEEEEecCCCCCccceEEEEECCHHHHHHHHHc----CCeeCCe
Confidence            45567899999999999999999999999    99999987653      3699999999999999983    4799999


Q ss_pred             EEEEEecC
Q psy5142         346 KVSIEVVT  353 (410)
Q Consensus       346 ~v~v~~l~  353 (410)
                      .|.|.+..
T Consensus        84 ~l~v~~a~   91 (103)
T 2cqg_A           84 WCDCKLPN   91 (103)
T ss_dssp             EEEEECCC
T ss_pred             EEEEEecC
Confidence            99999865

>1x4e_A RNA binding motif, single-stranded interacting protein 2; structural genomics, RRM domain, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.14  E-value=1.9e-11  Score=95.16  Aligned_cols=72  Identities=15%  Similarity=0.190  Sum_probs=62.5

Q ss_pred             CCCeEEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCC------CceEEEEeCChhHHHHHHHHhcCCCeEEcCeE
Q psy5142         273 PTGALLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVG------EPTAFVRYKKENNAEAVLKALGSKEIVIKDVK  346 (410)
Q Consensus       273 ~~g~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g------~~~afV~F~~~e~A~~Al~~l~~~~~~i~g~~  346 (410)
                      .+++.|+|.|||+.+++++|+++|++||    .|..|.+..+      .++|||.|.+.++|++|+..|  ++..++|+.
T Consensus         3 ~~~~~l~v~nlp~~~t~~~l~~~f~~~G----~i~~~~i~~~~~~~~~~g~afV~f~~~~~a~~A~~~l--~g~~~~g~~   76 (85)
T 1x4e_A            3 SGSSGLYIRGLQPGTTDQDLVKLCQPYG----KIVSTKAILDKTTNKCKGYGFVDFDSPSAAQKAVTAL--KASGVQAQM   76 (85)
T ss_dssp             CCCCEEEEESCCTTCCHHHHHTTSTTTS----CEEEEEEECCSSSCSCCSEEEEEESCHHHHHHHHHHH--HHHTCCEES
T ss_pred             CCCcEEEEeCCCCCCCHHHHHHHHHhcC----CeEEEEEEecCCCCCcCcEEEEEECCHHHHHHHHHHh--cCCeEeeEE
Confidence            4567999999999999999999999999    9999998865      347999999999999999999  567777776


Q ss_pred             EEEE
Q psy5142         347 VSIE  350 (410)
Q Consensus       347 v~v~  350 (410)
                      ++++
T Consensus        77 ~~~~   80 (85)
T 1x4e_A           77 AKQS   80 (85)
T ss_dssp             CCSS
T ss_pred             Eeec
Confidence            6543

>1fje_B Nucleolin RBD12, protein C23; RNP, RRM, RNA binding domain, RNA-protein complex, nucleolus, structural protein/RNA complex; NMR {Mesocricetus auratus} SCOP: d.58.7.1 d.58.7.1 PDB: 1rkj_A 2krr_A

Probab=99.14  E-value=1.6e-10  Score=101.67  Aligned_cols=99  Identities=25%  Similarity=0.358  Sum_probs=72.1

Q ss_pred             cHHHHHHHHhhcCCceEEEecCccceecCCCCCCCCCchhhhhhccceeeEeecCCCCCCHHHHHHHHhhccCCCCceEE
Q psy5142          73 EAKVIVDALKKSTSKLIEVNEDGTKIRRNPEKELPTFDIDFVKDLIAQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITN  152 (410)
Q Consensus        73 d~~~i~~Al~~~~S~~levsed~~~vrR~~~~p~p~~~~~~~~~~~~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~  152 (410)
                      +.+.+..||.   .+...+..-...|.+..  +.+.     ......++|||+|||.++|+++|+++|++|    |.|..
T Consensus        63 ~~~~a~~A~~---l~g~~~~g~~l~v~~~~--~~~~-----~~~~~~~~l~v~nlp~~~t~~~l~~~F~~~----g~v~~  128 (175)
T 1fje_B           63 SAEDLEKALE---LTGLKVFGNEIKLEKPK--GRDS-----KKVRAARTLLAKNLSFNITEDELKEVFEDA----LEIRL  128 (175)
T ss_dssp             SHHHHHHHHH---GGGEEETTEEEEEECCC--CSSC-----STTGGGGEEEEESCCSSCCHHHHHHHCTTC----SEEEE
T ss_pred             CHHHHHHHHh---cCCCEeCCeEEEEecCC--Cccc-----cccccCCEEEEeCCCCCCCHHHHHHHHHhc----CeEEE
Confidence            3566666774   23445554444455442  1111     123567899999999999999999999999    99877


Q ss_pred             EEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCCccc
Q psy5142         153 IIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLKF  196 (410)
Q Consensus       153 v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~~~  196 (410)
                      +    ...+     .++|+|||+|.+.++|.+|+..++|  ..+
T Consensus       129 ~----~~~~-----~~~g~afV~f~~~~~A~~A~~~l~g--~~~  161 (175)
T 1fje_B          129 V----SQDG-----KSKGIAYIEFKSEADAEKNLEEKQG--AEI  161 (175)
T ss_dssp             E----CSSS-----SCCSEEEEECSSHHHHHHHHHHHTE--EEE
T ss_pred             e----cCCC-----CCceEEEEEECCHHHHHHHHHHhCC--CEE
Confidence            6    2223     7899999999999999999999886  455

>2hzc_A Splicing factor U2AF 65 kDa subunit; RNA splicing, RRM, RNA recognition, alternative conformation binding protein; HET: P6G; 1.47A {Homo sapiens} PDB: 1u2f_A

Probab=99.14  E-value=1.7e-10  Score=89.87  Aligned_cols=74  Identities=12%  Similarity=0.304  Sum_probs=65.1

Q ss_pred             CCeEEEEeCCCCCCCHHHHHHHHHhc----CCC---CCCeeEEEeeCCCceEEEEeCChhHHHHHHHHhcCCCeEEcCeE
Q psy5142         274 TGALLKISDIKEPVSREDIREVLEKV----QTD---DQEIVFIEFNVGEPTAFVRYKKENNAEAVLKALGSKEIVIKDVK  346 (410)
Q Consensus       274 ~g~~l~v~nL~~~~t~edLk~~F~~~----G~~---~~~V~~V~~~~g~~~afV~F~~~e~A~~Al~~l~~~~~~i~g~~  346 (410)
                      +.+.|||.|||+++++++|+++|++|    |..   ...|..|.+.++.++|||+|.+.++|++|+ .|  ++..++|+.
T Consensus         5 ~~~~l~V~nLp~~~t~~~l~~~F~~~~~~~g~~~~~~~~v~~~~~~~~kg~afV~f~~~~~a~~A~-~l--~g~~~~g~~   81 (87)
T 2hzc_A            5 SARRLYVGNIPFGITEEAMMDFFNAQMRLGGLTQAPGNPVLAVQINQDKNFAFLEFRSVDETTQAM-AF--DGIIFQGQS   81 (87)
T ss_dssp             GGGEEEEESCCTTCCHHHHHHHHHHHHHHTTCCSSSSCSEEEEEECSSSSEEEEEESSHHHHHHHG-GG--TTCEETTEE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHHHhhhcccccCCCCcceEEEecCCCcEEEEEcCCHHHHHHHH-hc--CCCEECCeE
Confidence            35689999999999999999999999    611   126888999988899999999999999999 88  678999999


Q ss_pred             EEEE
Q psy5142         347 VSIE  350 (410)
Q Consensus       347 v~v~  350 (410)
                      |.|+
T Consensus        82 l~V~   85 (87)
T 2hzc_A           82 LKIR   85 (87)
T ss_dssp             CEEE
T ss_pred             EEEe
Confidence            9886

>2lcw_A RNA-binding protein FUS; RRM, nucleic acid binding protein; NMR {Homo sapiens}

Probab=98.75  E-value=4.4e-12  Score=104.93  Aligned_cols=75  Identities=13%  Similarity=0.209  Sum_probs=64.7

Q ss_pred             CCCeEEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeE--------EEeeCC------CceEEEEeCChhHHHHHHHHhcCC
Q psy5142         273 PTGALLKISDIKEPVSREDIREVLEKVQTDDQEIVF--------IEFNVG------EPTAFVRYKKENNAEAVLKALGSK  338 (410)
Q Consensus       273 ~~g~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~--------V~~~~g------~~~afV~F~~~e~A~~Al~~l~~~  338 (410)
                      .+.+.|||.|||.++++++|+++|++||    .|..        |.+..+      .++|||+|.+.++|++|+..|  +
T Consensus         5 ~~~~~l~V~nLp~~~t~~~l~~~F~~~G----~i~~~~~~~~~~v~i~~~~~~g~~~g~afV~f~~~~~A~~Ai~~l--~   78 (116)
T 2lcw_A            5 SDNNTIFVQGLGENVTIESVADYFKQIG----IIKTNKKTGQPMINLYTDRETGKLKGEATVSFDDPPSAKAAIDWF--D   78 (116)
Confidence            4567899999999999999999999999    8877        666654      347999999999999999999  6


Q ss_pred             CeEEcCeEEEEEecC
Q psy5142         339 EIVIKDVKVSIEVVT  353 (410)
Q Consensus       339 ~~~i~g~~v~v~~l~  353 (410)
                      +..++|+.|.|....
T Consensus        79 g~~~~g~~l~V~~a~   93 (116)
T 2lcw_A           79 GKEFSGNPIKVSFAT   93 (116)
Confidence            788999999887643

>2cpx_A Hypothetical protein FLJ11016; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.14  E-value=1.1e-10  Score=95.95  Aligned_cols=76  Identities=16%  Similarity=0.240  Sum_probs=66.4

Q ss_pred             CCCCeEEEEeCCCCCCCHHHHHHHHHhcCCCCCCe----eEEEeeCCC--ceEEEEeCChhHHHHHHHHhcCCCeEEcCe
Q psy5142         272 LPTGALLKISDIKEPVSREDIREVLEKVQTDDQEI----VFIEFNVGE--PTAFVRYKKENNAEAVLKALGSKEIVIKDV  345 (410)
Q Consensus       272 ~~~g~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V----~~V~~~~g~--~~afV~F~~~e~A~~Al~~l~~~~~~i~g~  345 (410)
                      .++.+.|||.|||+.+++++|+++|++||    .|    ..+++..+.  ++|||+|.+.++|++|+..|  ++..++|+
T Consensus        22 ~~~~~~l~V~nLp~~~t~~~l~~~f~~~G----~v~~~~~~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l--~g~~~~g~   95 (115)
T 2cpx_A           22 GEPNKVLYLKNLSPRVTERDLVSLFARFQ----EKKGPPIQFRMMTGRMRGQAFITFPNKEIAWQALHLV--NGYKLYGK   95 (115)
T ss_dssp             CSCCSEEEEECCCTTCCHHHHHHHTHHHH----HSSSSCCEEEEECSSSCSEEEEECSSHHHHHHHHHHS--TTCBCSSC
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHHhC----CccceEEEEEcCCCccceEEEEEECCHHHHHHHHHHh--CCCEeCCc
Confidence            35678999999999999999999999999    66    566666554  68999999999999999999  67889999


Q ss_pred             EEEEEecC
Q psy5142         346 KVSIEVVT  353 (410)
Q Consensus       346 ~v~v~~l~  353 (410)
                      .|.|....
T Consensus        96 ~l~v~~a~  103 (115)
T 2cpx_A           96 ILVIEFGK  103 (115)
T ss_dssp             BCEEEECC
T ss_pred             EEEEEEcc
Confidence            99999865

>1wez_A HnRNP H', FTP-3, heterogeneous nuclear ribonucleoprotein H'; structural genomics, RRM domain, riken structural genomics/proteomics initiative, RSGI; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.13  E-value=8e-11  Score=95.38  Aligned_cols=74  Identities=14%  Similarity=0.230  Sum_probs=62.0

Q ss_pred             CCCCeEEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCCC-----ceEEEEeCChhHHHHHHHHhcCCCeEEcCeE
Q psy5142         272 LPTGALLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVGE-----PTAFVRYKKENNAEAVLKALGSKEIVIKDVK  346 (410)
Q Consensus       272 ~~~g~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g~-----~~afV~F~~~e~A~~Al~~l~~~~~~i~g~~  346 (410)
                      ....++|||.|||+++++++|+++|++||    .+ .|.+..+.     ++|||+|.++++|++||+ +  ++..|+|+.
T Consensus        12 ~~~~~~l~V~nLp~~~te~~l~~~F~~~G----~~-~v~i~~d~~g~~~G~afV~F~~~~~a~~Al~-~--~~~~~~gr~   83 (102)
T 1wez_A           12 STTGHCVHMRGLPYRATENDIYNFFSPLN----PM-RVHIEIGPDGRVTGEADVEFATHEDAVAAMA-K--DKANMQHRY   83 (102)
T ss_dssp             CSSSCEEEEESCCTTCCHHHHHHSSCSCC----CS-EEEEEESSSSCEEEEEEEECSSSHHHHHHHT-T--SSCCSSSSC
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHHcC----ce-EEEEEECCCCCEeeEEEEEECCHHHHHHHHH-h--CCCeECCcE
Confidence            34567999999999999999999999999    55 66666432     369999999999999994 6  568899999


Q ss_pred             EEEEecC
Q psy5142         347 VSIEVVT  353 (410)
Q Consensus       347 v~v~~l~  353 (410)
                      |.|....
T Consensus        84 i~V~~~~   90 (102)
T 1wez_A           84 VELFLNS   90 (102)
T ss_dssp             CEEEEEC
T ss_pred             EEEEECC
Confidence            9998754

>2fc9_A NCL protein; structure genomics, RRM_1 domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.13  E-value=1.9e-10  Score=92.44  Aligned_cols=76  Identities=20%  Similarity=0.274  Sum_probs=64.5

Q ss_pred             CCCCeEEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCC--CceEEEEeCChhHHHHHHHHhcCCCeEEcCeEEEE
Q psy5142         272 LPTGALLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVG--EPTAFVRYKKENNAEAVLKALGSKEIVIKDVKVSI  349 (410)
Q Consensus       272 ~~~g~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g--~~~afV~F~~~e~A~~Al~~l~~~~~~i~g~~v~v  349 (410)
                      ..+.+.|||.|||+.+++++|+++|++||    .|..+....+  .++|||+|.+.++|++|+..|  ++..++|+.|.|
T Consensus        12 ~~~~~~l~V~nLp~~~t~~~l~~~F~~~g----~v~~~~~~~g~~~g~afV~f~~~~~A~~A~~~l--~g~~~~g~~l~v   85 (101)
T 2fc9_A           12 SGESKTLVLSNLSYSATEETLQEVFEKAT----FIKVPQNQNGKSKGYAFIEFASFEDAKEALNSC--NKREIEGRAIRL   85 (101)
T ss_dssp             SCCCSEEEEESCCTTCCHHHHHHHCSSCS----EEECCBCSSSCBCSEEEEECSSHHHHHHHHHHT--SSEEETTEEEEE
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhCC----EEEEEECCCCCEeeEEEEEECCHHHHHHHHHHh--CCCEeCCeEEEE
Confidence            35578999999999999999999999999    8743322222  457999999999999999999  689999999999


Q ss_pred             EecC
Q psy5142         350 EVVT  353 (410)
Q Consensus       350 ~~l~  353 (410)
                      ....
T Consensus        86 ~~a~   89 (101)
T 2fc9_A           86 ELQG   89 (101)
T ss_dssp             EECS
T ss_pred             EEcC
Confidence            9864

>2pe8_A Splicing factor 45; RRM, protein binding; 2.00A {Homo sapiens} PDB: 2peh_A

Probab=99.13  E-value=1.2e-10  Score=94.85  Aligned_cols=69  Identities=14%  Similarity=0.118  Sum_probs=58.8

Q ss_pred             cceeeEeecCCC-----CCCHHHHHHHHhhccCCCCceEEEEEcccCcc-cccccccccEEEEEecCHHHHHHHHHhcCC
Q psy5142         118 IAQSLYVKYIPV-----DATLDDIKDFFKKNTSEDVKITNIIMRNYQDK-LANQKKFKGSIFVTFDNKENAEKFLNENKD  191 (410)
Q Consensus       118 ~~rtv~V~~lp~-----~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~-~~~~~~~kG~afVeF~~~e~A~~Al~~~~g  191 (410)
                      ..++|+|.|+..     +.++++|++.|++|    |.|.+|.|++++.+ +    .++|+|||+|.+.++|.+|+..++|
T Consensus         7 ~s~~l~l~Nm~~~~~l~dd~~~dl~~~f~~~----G~V~~v~i~~~~~~~~----~~~G~~FV~f~~~~~A~~Ai~~lnG   78 (105)
T 2pe8_A            7 PTKVVLLRNMVGAGEVDEDLEVETKEECEKY----GKVGKCVIFEIPGAPD----DEAVRIFLEFERVESAIKAVVDLNG   78 (105)
T ss_dssp             CCSEEEEESSSCSCCC---CHHHHHHHGGGG----SCEEEEEEEECSSCCT----TTSEEEEEEESSHHHHHHHHHHHTT
T ss_pred             CCCEEEEEcCCChHHhhHHHHHHHHHHHHhc----CCEEEEEEecCCCCCC----CCcEEEEEEECCHHHHHHHHHHHCC
Confidence            468999999963     24789999999999    99999999987643 2    6899999999999999999999997


Q ss_pred             CCccc
Q psy5142         192 KNLKF  196 (410)
Q Consensus       192 ~~~~~  196 (410)
                        ..|
T Consensus        79 --~~~   81 (105)
T 2pe8_A           79 --RYF   81 (105)
T ss_dssp             --CEE
T ss_pred             --CEE
Confidence              456

>3zzy_A Polypyrimidine tract-binding protein 1; protein binding, peptide binding, RNA recognition motif; 1.40A {Homo sapiens} PDB: 3zzz_A

Probab=99.13  E-value=1.1e-10  Score=98.55  Aligned_cols=60  Identities=17%  Similarity=0.149  Sum_probs=55.1

Q ss_pred             ceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccE-EEEEecCHHHHHHHHHhcCC
Q psy5142         119 AQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGS-IFVTFDNKENAEKFLNENKD  191 (410)
Q Consensus       119 ~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~-afVeF~~~e~A~~Al~~~~g  191 (410)
                      -..|||+|||+.+|+++|+++|++|    |.|.+|.|.+         +.+|| |||+|.+.++|++|++.++|
T Consensus        28 VL~I~V~NL~~~vte~~L~~lFs~y----G~V~~V~i~~---------~~~gfqAFVef~~~~~A~~Ai~~LnG   88 (130)
T 3zzy_A           28 VLRIIVENLFYPVTLDVLHQIFSKF----GTVLKIITFT---------KNNQFQALLQYADPVSAQHAKLSLDG   88 (130)
T ss_dssp             EEEEEEESCCSCCCHHHHHHHHTTS----SCEEEEEEEE---------ETTEEEEEEEESCHHHHHHHHHHHTT
T ss_pred             eEEEEECCCCCCCCHHHHHHHHhCc----CCEEEEEEEc---------CCCCcEEEEEECCHHHHHHHHHHcCC
Confidence            3679999999999999999999999    9999999874         34677 99999999999999999997

>3n9u_C Cleavage and polyadenylation specificity factor S; protein-protein complex, coexpression, heterotetramer, mRNA maturation, mRNA cleavage; 1.92A {Homo sapiens}

Probab=99.13  E-value=3.2e-10  Score=99.11  Aligned_cols=79  Identities=18%  Similarity=0.209  Sum_probs=67.0

Q ss_pred             CCeEEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCC------CceEEEEeCChhHHHHHHHHhcCCCeEEcCeEE
Q psy5142         274 TGALLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVG------EPTAFVRYKKENNAEAVLKALGSKEIVIKDVKV  347 (410)
Q Consensus       274 ~g~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g------~~~afV~F~~~e~A~~Al~~l~~~~~~i~g~~v  347 (410)
                      ..+.|||.|||+++++++|+++|++||  .+.|..|.+..+      .++|||.|.+.++|++||..|  ++..|+|+.|
T Consensus        54 ~~~~lfVgnLp~~~te~~L~~~F~~~G--~i~v~~v~i~~d~~tg~skGfaFV~f~~~~~A~~Ai~~l--ng~~~~Gr~l  129 (156)
T 3n9u_C           54 RRAAVYVGSFSWWTTDQQLIQVIRSIG--VYDVVELKFAENRANGQSKGYAEVVVASENSVHKLLELL--PGKVLNGEKV  129 (156)
T ss_dssp             --CEEEEECCCTTCCHHHHHHHHHHTT--CCCEEEEEEEECTTTCCEEEEEEEEESCHHHHHHHHHHS--TTCEETTEEC
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHHHC--CccEEEEEEEecCCCCccceEEEEEECCHHHHHHHHHHc--CCCEECCeEe
Confidence            457999999999999999999999999  125777877654      236999999999999999999  6789999999


Q ss_pred             EEEecCchH
Q psy5142         348 SIEVVTGEE  356 (410)
Q Consensus       348 ~v~~l~g~e  356 (410)
                      .|.......
T Consensus       130 ~V~~a~~~~  138 (156)
T 3n9u_C          130 DVRPATRQN  138 (156)
T ss_dssp             EEEECCHHH
T ss_pred             EEEEcCCCc
Confidence            999887543

>2dgw_A Probable RNA-binding protein 19; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.13  E-value=2.7e-10  Score=89.75  Aligned_cols=74  Identities=16%  Similarity=0.175  Sum_probs=63.6

Q ss_pred             CCCeEEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCC-----CceEEEEeCChhHHHHHHHHhcCCCeEEcCeEE
Q psy5142         273 PTGALLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVG-----EPTAFVRYKKENNAEAVLKALGSKEIVIKDVKV  347 (410)
Q Consensus       273 ~~g~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g-----~~~afV~F~~~e~A~~Al~~l~~~~~~i~g~~v  347 (410)
                      ...+.|+|.|||+++++++|+++|++|+     |..|.+..+     .++|||+|.+.++|++|+. +  ++..++|+.|
T Consensus         8 ~~~~~l~v~nLp~~~t~~~l~~~F~~~~-----i~~v~i~~~~~g~~~g~afV~f~~~~~a~~A~~-~--~g~~~~gr~i   79 (91)
T 2dgw_A            8 TTCHTVKLRGAPFNVTEKNVMEFLAPLK-----PVAIRIVRNAHGNKTGYIFVDFSNEEEVKQALK-C--NREYMGGRYI   79 (91)
T ss_dssp             CCCCEEEEECCCSSCCHHHHHHHHTTSC-----CSEEEEEECTTSCEEEEEEEECSSHHHHHHHHH-S--CSEEETTEEE
T ss_pred             CCccEEEEECCCCCCCHHHHHHHHhhCC-----ceEEEEEECCCCCCceEEEEEECCHHHHHHHHH-h--CCceeCCcEE
Confidence            4567999999999999999999999995     556666654     2369999999999999999 8  7899999999


Q ss_pred             EEEecCc
Q psy5142         348 SIEVVTG  354 (410)
Q Consensus       348 ~v~~l~g  354 (410)
                      .|.....
T Consensus        80 ~v~~a~~   86 (91)
T 2dgw_A           80 EVFREKS   86 (91)
T ss_dssp             EEEEESS
T ss_pred             EEEECCc
Confidence            9988753

>2dh8_A DAZ-associated protein 1; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.12  E-value=1.4e-10  Score=93.84  Aligned_cols=76  Identities=16%  Similarity=0.194  Sum_probs=67.1

Q ss_pred             CCCCCeEEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCCC------ceEEEEeCChhHHHHHHHHhcCCCeEEcC
Q psy5142         271 ELPTGALLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVGE------PTAFVRYKKENNAEAVLKALGSKEIVIKD  344 (410)
Q Consensus       271 ~~~~g~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g~------~~afV~F~~~e~A~~Al~~l~~~~~~i~g  344 (410)
                      ..+..+.|||.|||+.+++++|+++|++||    .|..|.+..+.      ++|||+|.+.++|++|+..   ++..++|
T Consensus        12 ~~~~~~~l~V~nlp~~~t~~~l~~~F~~~G----~v~~v~i~~~~~~g~~~g~afV~f~~~~~a~~a~~~---~~~~~~g   84 (105)
T 2dh8_A           12 GADEIGKLFVGGLDWSTTQETLRSYFSQYG----EVVDCVIMKDKTTNQSRGFGFVKFKDPNCVGTVLAS---RPHTLDG   84 (105)
T ss_dssp             CSSSSSEECCBSCCTTCCHHHHHHHHHTTS----CEEEEEEEECSSSCCEEEEEEEEESSTTHHHHHHHH---CSEEETT
T ss_pred             CCCCCCEEEEeCCCCCCCHHHHHHHHHhcC----CeEEEEEeeCCCCCCcceEEEEEECCHHHHHHHHHh---CCCeECC
Confidence            345678999999999999999999999999    99999988753      3699999999999999998   4689999


Q ss_pred             eEEEEEecC
Q psy5142         345 VKVSIEVVT  353 (410)
Q Consensus       345 ~~v~v~~l~  353 (410)
                      +.|.|....
T Consensus        85 ~~l~V~~a~   93 (105)
T 2dh8_A           85 RNIDPKPCT   93 (105)
T ss_dssp             EEEBCCCSC
T ss_pred             EEEEEEEcc
Confidence            999998754

>1x4b_A Heterogeneous nuclear ribonucleoproteins A2/B1; structure genomics, RRM domain, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.11  E-value=2.8e-10  Score=93.94  Aligned_cols=73  Identities=15%  Similarity=0.115  Sum_probs=65.2

Q ss_pred             CCeEEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCC------CceEEEEeCChhHHHHHHHHhcCCCeEEcCeEE
Q psy5142         274 TGALLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVG------EPTAFVRYKKENNAEAVLKALGSKEIVIKDVKV  347 (410)
Q Consensus       274 ~g~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g------~~~afV~F~~~e~A~~Al~~l~~~~~~i~g~~v  347 (410)
                      ..+.|||.|||+.+++++|+++|++||    .|..|.+..+      .++|||+|.+.++|++||..   ++..++|+.|
T Consensus        26 ~~~~l~V~nLp~~~te~~l~~~F~~~G----~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~---~~~~~~g~~l   98 (116)
T 1x4b_A           26 QFRKLFIGGLSFETTEESLRNYYEQWG----KLTDCVVMRDPASKRSRGFGFVTFSSMAEVDAAMAA---RPHSIDGRVV   98 (116)
T ss_dssp             HHTEEEEECCTTCCCHHHHHHHHTSSC----CCSEEEEECCTTTSSCCSEEEEECSSHHHHHHHHTS---CSEEETTEEE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhcC----CEEEEEEEECCCCCCcCceEEEEeCCHHHHHHHHHh---CCcEECCEEE
Confidence            357999999999999999999999999    9999998875      34799999999999999986   4789999999


Q ss_pred             EEEecC
Q psy5142         348 SIEVVT  353 (410)
Q Consensus       348 ~v~~l~  353 (410)
                      .|....
T Consensus        99 ~V~~a~  104 (116)
T 1x4b_A           99 EPKRAV  104 (116)
T ss_dssp             EEECCS
T ss_pred             EEEECC
Confidence            998754

>1wg1_A KIAA1579 protein, homolog EXC-7; RBD, structural genomics, riken structural genomics/proteomics initiative, RSGI, RNA binding protein; NMR {Homo sapiens} SCOP: d.58.7.1 PDB: 1wi6_A

Probab=99.11  E-value=1.3e-10  Score=91.24  Aligned_cols=73  Identities=8%  Similarity=0.262  Sum_probs=64.0

Q ss_pred             CCeEEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCCCceEEEEeCChhHHHHHHHHhcCCCeEEcCeEEEEEecC
Q psy5142         274 TGALLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVGEPTAFVRYKKENNAEAVLKALGSKEIVIKDVKVSIEVVT  353 (410)
Q Consensus       274 ~g~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g~~~afV~F~~~e~A~~Al~~l~~~~~~i~g~~v~v~~l~  353 (410)
                      ..+.|+|.|||+++++++|+++|++|.     |..|.+....++|||+|.++++|++|+..|  ++..++|+.|.|....
T Consensus         4 ~~~~l~V~nLp~~~t~~~l~~~F~~~~-----v~~~~i~~~~g~afV~f~~~~~a~~Ai~~l--~g~~~~g~~l~V~~a~   76 (88)
T 1wg1_A            4 GSSGILVKNLPQDSNCQEVHDLLKDYD-----LKYCYVDRNKRTAFVTLLNGEQAQNAIQMF--HQYSFRGKDLIVQLQP   76 (88)
T ss_dssp             CCCCEEEESCCSSCCHHHHHHHTCSSC-----CCCEEEEGGGTEEEECCSCHHHHHHHHHHH--TTEEETTEEEEEEECC
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHhhCC-----eEEEEEeCCCcEEEEEECCHHHHHHHHHHh--CCCeECCcEEEEEEcC
Confidence            346899999999999999999999994     555555566789999999999999999999  7899999999998764

>2lmi_A GRSF-1, G-rich sequence factor 1; G-rich RNA sequence binding factor, RNA binding domain, STRU genomics, joint center for structural genomics, JCSG; NMR {Homo sapiens}

Probab=99.11  E-value=6.2e-11  Score=96.67  Aligned_cols=76  Identities=12%  Similarity=0.179  Sum_probs=65.8

Q ss_pred             CCCCeEEEEeCCCCCCCHHHHHHHHHhcCCCCCC---eeEEEeeCC-----CceEEEEeCChhHHHHHHHHhcCCCeEEc
Q psy5142         272 LPTGALLKISDIKEPVSREDIREVLEKVQTDDQE---IVFIEFNVG-----EPTAFVRYKKENNAEAVLKALGSKEIVIK  343 (410)
Q Consensus       272 ~~~g~~l~v~nL~~~~t~edLk~~F~~~G~~~~~---V~~V~~~~g-----~~~afV~F~~~e~A~~Al~~l~~~~~~i~  343 (410)
                      ...+++|||.|||+++++++|+++|+.||    .   |..|.+..+     .++|||+|.+.++|++||. +  ++..++
T Consensus         8 ~~~~~~l~V~nLp~~~te~~l~~~F~~~g----~~~~v~~v~i~~~~~g~~~G~afV~F~~~~~a~~Al~-~--~~~~~~   80 (107)
T 2lmi_A            8 VDDVFLIRAQGLPWSCTMEDVLNFFSDCR----IRNGENGIHFLLNRDGKRRGDALIEMESEQDVQKALE-K--HRMYMG   80 (107)
T ss_dssp             CSSCCEEEEECCCSSCCSHHHHHHTTTSC----BTTTTTTEECCCCTTSTTCSEEEEEBSSHHHHHHHHT-T--TTCCSS
T ss_pred             CCCccEEEEeCCCCCCCHHHHHHHHHhcC----CcCCcceEEEEECCCCCEeeEEEEEECCHHHHHHHHH-h--CcceeC
Confidence            35678999999999999999999999998    6   777777653     3479999999999999999 7  568899


Q ss_pred             CeEEEEEecCc
Q psy5142         344 DVKVSIEVVTG  354 (410)
Q Consensus       344 g~~v~v~~l~g  354 (410)
                      |+.|.|.....
T Consensus        81 gr~i~V~~a~~   91 (107)
T 2lmi_A           81 QRYVEVYEINN   91 (107)
T ss_dssp             SSCCCCEECCH
T ss_pred             CeEEEEEECCH
Confidence            99999998764

>2jwn_A Embryonic polyadenylate-binding protein 2-B; epabp2, poly(A) binding, structural genomics, protein structure initiative, PSI-2; NMR {Xenopus laevis}

Probab=99.11  E-value=1.3e-10  Score=97.10  Aligned_cols=72  Identities=13%  Similarity=0.238  Sum_probs=64.5

Q ss_pred             CeEEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCC------CceEEEEeCChhHHHHHHHHhcCCCeEEcCeEEE
Q psy5142         275 GALLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVG------EPTAFVRYKKENNAEAVLKALGSKEIVIKDVKVS  348 (410)
Q Consensus       275 g~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g------~~~afV~F~~~e~A~~Al~~l~~~~~~i~g~~v~  348 (410)
                      .+.|||.|||.++++++|+++|++||    .|..|.+..+      .++|||+|.+.++|++|+ .|  ++..++|+.|.
T Consensus        36 ~~~l~V~nlp~~~t~~~l~~~F~~~G----~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~A~-~l--~g~~~~g~~l~  108 (124)
T 2jwn_A           36 KRSVYVGNVDYGSTAQDLEAHFSSCG----SINRITILCDKFSGHPKGYAYIEFAERNSVDAAV-AM--DETVFRGRTIK  108 (124)
T ss_dssp             HTEEEEEEECTTCCHHHHHHHHHTTS----CEEEEEEEEECTTSSCEEEEEEEESSHHHHHHHH-TT--TTCEETTEECE
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHhcC----CEEEEEEEecCCCCCcccEEEEEECCHHHHHHHH-hc--CCCeECCeEEE
Confidence            46899999999999999999999999    9999988754      347999999999999999 78  67899999999


Q ss_pred             EEecC
Q psy5142         349 IEVVT  353 (410)
Q Consensus       349 v~~l~  353 (410)
                      |....
T Consensus       109 V~~a~  113 (124)
T 2jwn_A          109 VLPKR  113 (124)
T ss_dssp             EEESS
T ss_pred             EEECC
Confidence            98754

>3tyt_A Heterogeneous nuclear ribonucleoprotein L; ferredoxin-like, structural genomics, joint center for struc genomics, JCSG; 1.60A {Mus musculus} PDB: 3s01_A 3to8_A

Probab=99.10  E-value=2.8e-10  Score=103.92  Aligned_cols=75  Identities=11%  Similarity=0.158  Sum_probs=68.7

Q ss_pred             CCCeEEEEeCCC-CCCCHHHHHHHHHhcCCCCCCeeEEEeeCC-CceEEEEeCChhHHHHHHHHhcCCCeEEcCeEEEEE
Q psy5142         273 PTGALLKISDIK-EPVSREDIREVLEKVQTDDQEIVFIEFNVG-EPTAFVRYKKENNAEAVLKALGSKEIVIKDVKVSIE  350 (410)
Q Consensus       273 ~~g~~l~v~nL~-~~~t~edLk~~F~~~G~~~~~V~~V~~~~g-~~~afV~F~~~e~A~~Al~~l~~~~~~i~g~~v~v~  350 (410)
                      +++++|+|.||| +.+++++|+++|++||    .|..|.+.++ .++|||+|.++++|++|++.|  ++..+.|+.|.|.
T Consensus         2 ~~~~~l~V~nL~~~~~~~~~L~~~F~~~G----~v~~v~i~~~~~g~afV~f~~~~~A~~Ai~~l--ng~~~~g~~l~v~   75 (205)
T 3tyt_A            2 ADSPVLMVYGLDQSKMNCDRVFNVFCLYG----NVEKVKFMKSKPGAAMVEMADGYAVDRAITHL--NNNFMFGQKMNVC   75 (205)
T ss_dssp             CCCSEEEEECCCTTTCCHHHHHHHHTTTS----CEEEEEECTTSTTCEEEEESSHHHHHHHHHHH--TTCEETTEECEEE
T ss_pred             CCCCEEEEeCCCcccCCHHHHHHHHHhcC----CeEEEEEecCCCCEEEEEECCHHHHHHHHHHh--CCCEECCceEEEE
Confidence            457899999999 8999999999999999    9999999875 478999999999999999999  6799999999999


Q ss_pred             ecC
Q psy5142         351 VVT  353 (410)
Q Consensus       351 ~l~  353 (410)
                      ...
T Consensus        76 ~s~   78 (205)
T 3tyt_A           76 VSK   78 (205)
T ss_dssp             ECS
T ss_pred             Ecc
Confidence            764

>2ki2_A SS-DNA binding protein 12RNP2; HP0827, RRM, SS-DNA binding proteins, RNA binding protein/SS-DNA binding protein complex; NMR {Helicobacter pylori}

Probab=99.10  E-value=4.8e-11  Score=93.80  Aligned_cols=73  Identities=8%  Similarity=0.218  Sum_probs=63.7

Q ss_pred             eEEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCC------CceEEEEeCChhHHHHHHHHhcCCCeEEcCeEEEE
Q psy5142         276 ALLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVG------EPTAFVRYKKENNAEAVLKALGSKEIVIKDVKVSI  349 (410)
Q Consensus       276 ~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g------~~~afV~F~~~e~A~~Al~~l~~~~~~i~g~~v~v  349 (410)
                      +.|+|.|||.++++++|+++|++||    .|..|.+..+      .++|||+|.+.+ |.+|+..|  ++..++|+.|.|
T Consensus         2 ~~l~V~nLp~~~t~~~l~~~F~~~G----~i~~v~i~~~~~~~~~~g~afV~f~~~~-a~~a~~~l--~g~~~~g~~l~V   74 (90)
T 2ki2_A            2 RNIYVGNLVYSATSEQVKELFSQFG----KVFNVKLIYDRETKKPKGFGFVEMQEES-VSEAIAKL--DNTDFMGRTIRV   74 (90)
T ss_dssp             EEEEEEEECTTSSHHHHTTTHHHHT----CCSEEEECCCSSSCCCCEEEEEEECTTH-HHHHHHTS--CSSCCSSSSCSE
T ss_pred             cEEEECCCCCCCCHHHHHHHHHhcC----CEEEEEEEEcCCCCCcceEEEEEECCHH-HHHHHHHh--CCCEECCeEEEE
Confidence            4799999999999999999999999    9999988754      347999999999 99999999  678899999999


Q ss_pred             EecCch
Q psy5142         350 EVVTGE  355 (410)
Q Consensus       350 ~~l~g~  355 (410)
                      ......
T Consensus        75 ~~a~~~   80 (90)
T 2ki2_A           75 TEANPK   80 (90)
T ss_dssp             EEC---
T ss_pred             EEcCCC
Confidence            987643

>1fjc_A Nucleolin RBD2, protein C23; RNP, RRM, RNA binding domain, nucleolus, structural protein; NMR {Mesocricetus auratus} SCOP: d.58.7.1

Probab=99.10  E-value=2.5e-10  Score=90.77  Aligned_cols=75  Identities=21%  Similarity=0.339  Sum_probs=65.5

Q ss_pred             CCCCeEEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCC--CceEEEEeCChhHHHHHHHHhcCCCeEEcCeEEEE
Q psy5142         272 LPTGALLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVG--EPTAFVRYKKENNAEAVLKALGSKEIVIKDVKVSI  349 (410)
Q Consensus       272 ~~~g~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g--~~~afV~F~~~e~A~~Al~~l~~~~~~i~g~~v~v  349 (410)
                      ..+.+.|||.|||..+++++|+++|++||    .|..+ ...+  .++|||+|.+.++|++|+..|  ++..++|+.|.|
T Consensus        13 ~~~~~~l~V~nL~~~~t~~~l~~~F~~~g----~v~~~-~~~~~~~g~afV~f~~~~~a~~A~~~l--~g~~~~g~~l~v   85 (96)
T 1fjc_A           13 VRAARTLLAKNLSFNITEDELKEVFEDAL----EIRLV-SQDGKSKGIAYIEFKSEADAEKNLEEK--QGAEIDGRSVSL   85 (96)
T ss_dssp             TTGGGEEEEESCCSSCCHHHHHHHHCSEE----EECCE-EETTEEEEEEEEEESSHHHHHHHHHHT--TEEEETTEEEEE
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHhhCC----cEEEe-CCCCCcceEEEEEECCHHHHHHHHHHh--CCCEECCeEEEE
Confidence            34568999999999999999999999999    88777 3333  347999999999999999999  679999999999


Q ss_pred             EecC
Q psy5142         350 EVVT  353 (410)
Q Consensus       350 ~~l~  353 (410)
                      ....
T Consensus        86 ~~a~   89 (96)
T 1fjc_A           86 YYTG   89 (96)
T ss_dssp             EECS
T ss_pred             EEcC
Confidence            8764

>2diu_A KIAA0430 protein; structural genomics, RRM domain, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.10  E-value=1.5e-10  Score=91.72  Aligned_cols=54  Identities=20%  Similarity=0.306  Sum_probs=48.9

Q ss_pred             eeeEeecCCCCCCHHH----HHHHHhhccCCCC-ceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCC
Q psy5142         120 QSLYVKYIPVDATLDD----IKDFFKKNTSEDV-KITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKD  191 (410)
Q Consensus       120 rtv~V~~lp~~~t~~~----L~~~F~~~~~~~G-~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g  191 (410)
                      .+|||+|||+.++.++    |+++|++|    | +|.+|       +     .  |+|||+|.+.++|++|++.++|
T Consensus        10 T~lYV~NL~~~~~~~~lk~~L~~lF~~y----GG~Vl~V-------t-----g--G~AfV~F~~~esA~~A~~~l~G   68 (96)
T 2diu_A           10 TLLYVYNLPANKDGKSVSNRLRRLSDNC----GGKVLSI-------T-----G--CSAILRFINQDSAERAQKRMEN   68 (96)
T ss_dssp             EEEEEESCCTTSCHHHHHHHHHHHHHTT----TCCEEEC-------C-----T--TCEEEEESSHHHHHHHHHHHTT
T ss_pred             eEEEEeCCCCcCCHHHHHHHHHHHHHHc----CCeeEEE-------e-----c--CEEEEEECCHHHHHHHHHHhcC
Confidence            4599999999999988    55899999    9 99988       2     2  9999999999999999999997

>2e5i_A Heterogeneous nuclear ribonucleoprotein L-like; RRM domain, RBD, structural genomics, NPPSFA; NMR {Mus musculus}

Probab=99.09  E-value=3.5e-10  Score=94.93  Aligned_cols=72  Identities=21%  Similarity=0.180  Sum_probs=62.2

Q ss_pred             eEEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCCCce-EEEEeCChhHHHHHHHHhcCCCeEEcC--eEEEEEec
Q psy5142         276 ALLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVGEPT-AFVRYKKENNAEAVLKALGSKEIVIKD--VKVSIEVV  352 (410)
Q Consensus       276 ~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g~~~-afV~F~~~e~A~~Al~~l~~~~~~i~g--~~v~v~~l  352 (410)
                      +.|+|.||++.+++++|+++|++||    .|..|.+....+. |||+|.+.++|..|++.|  +|..|.|  +.|.|...
T Consensus        26 l~l~V~NL~~~vt~~~L~~~Fs~yG----~V~~v~i~~~~Gf~aFVef~~~~~A~~A~~~L--nG~~i~g~~~~l~V~~A   99 (124)
T 2e5i_A           26 LLLSIQNPLYPITVDVLYTVCNPVG----KVQRIVIFKRNGIQAMVEFESVLCAQKAKAAL--NGADIYAGCCTLKIEYA   99 (124)
T ss_dssp             EEEEEESCCSCCCHHHHHHHHTTTS----CEEEEEEEESSSEEEEEEESSHHHHHHHHHHH--TTCCCBTTBSEEEEECC
T ss_pred             EEEEEcCcCCCCCHHHHHHHHHhcC----CEEEEEEEeCCCCEEEEEECCHHHHHHHHHHh--CCCEecCCCeEEEEEEe
Confidence            3467899999999999999999999    9998887665575 999999999999999999  6777876  57888765


Q ss_pred             C
Q psy5142         353 T  353 (410)
Q Consensus       353 ~  353 (410)
                      .
T Consensus       100 k  100 (124)
T 2e5i_A          100 R  100 (124)
T ss_dssp             S
T ss_pred             c
Confidence            4

>1wel_A RNA-binding protein 12; structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.09  E-value=1e-10  Score=97.99  Aligned_cols=78  Identities=13%  Similarity=0.204  Sum_probs=64.3

Q ss_pred             CCCCeEEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeE-EEe---eCC--CceEEEEeCChhHHHHHHHHhcCCCeEEcCe
Q psy5142         272 LPTGALLKISDIKEPVSREDIREVLEKVQTDDQEIVF-IEF---NVG--EPTAFVRYKKENNAEAVLKALGSKEIVIKDV  345 (410)
Q Consensus       272 ~~~g~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~-V~~---~~g--~~~afV~F~~~e~A~~Al~~l~~~~~~i~g~  345 (410)
                      ....+.|||.|||+++++++|+++|++||    .|.. +.+   ..+  .++|||+|.+.++|++||. +  ++..|+|+
T Consensus        22 ~~~~~~l~V~nLp~~~te~~l~~~F~~~G----~v~~~~~~~~~~~g~~~G~afV~F~~~~~a~~Al~-~--~g~~~~gr   94 (124)
T 1wel_A           22 HEAGFCVYLKGLPFEAENKHVIDFFKKLD----IVEDSIYIAYGPNGKATGEGFVEFRNEADYKAALC-R--HKQYMGNR   94 (124)
T ss_dssp             CCCCCEEEEECCCTTCCHHHHHHHSCSSC----BCTTTCEEEECTTSSEEEEEEEEBSSSHHHHHHHT-S--CSBCSTTS
T ss_pred             CCCCcEEEEeCCCCCCCHHHHHHHHHhcC----CccceEEEEECCCCCCCeEEEEEECCHHHHHHHHH-h--CCCeECCc
Confidence            34568999999999999999999999999    6543 122   222  3469999999999999999 8  67999999


Q ss_pred             EEEEEecCchH
Q psy5142         346 KVSIEVVTGEE  356 (410)
Q Consensus       346 ~v~v~~l~g~e  356 (410)
                      .|.|.....++
T Consensus        95 ~i~V~~a~~~~  105 (124)
T 1wel_A           95 FIQVHPITKKG  105 (124)
T ss_dssp             CBEEEEECHHH
T ss_pred             EEEEEECCHHH
Confidence            99999987543

>2f3j_A RNA and export factor binding protein 2; RRM domain, RBD domain., transport protein; NMR {Mus musculus}

Probab=99.09  E-value=3.5e-10  Score=100.87  Aligned_cols=79  Identities=23%  Similarity=0.318  Sum_probs=70.4

Q ss_pred             CCCCCeEEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCC-----CceEEEEeCChhHHHHHHHHhcCCCeEEcCe
Q psy5142         271 ELPTGALLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVG-----EPTAFVRYKKENNAEAVLKALGSKEIVIKDV  345 (410)
Q Consensus       271 ~~~~g~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g-----~~~afV~F~~~e~A~~Al~~l~~~~~~i~g~  345 (410)
                      ...+++.|||.|||+.+++++|+++|++||    .|..|.+..+     .++|||.|.+.++|++|+..|  ++..++|+
T Consensus        84 ~~~~~~~l~V~nLp~~~te~~L~~~F~~~G----~I~~v~i~~d~~g~~kG~afV~F~~~~~A~~Ai~~l--ng~~l~Gr  157 (177)
T 2f3j_A           84 GVETGAKLLVSNLDFGVSDADIQELFAEFG----TLKKAAVDYDRSGRSLGTADVHFERRADALKAMKQY--KGVPLDGR  157 (177)
T ss_dssp             SCTTCEEEEEECCCSCCCHHHHHHHHHHTS----CCSEEEECCCTTSSCSCCEEEEESCHHHHHHHHHHS--TTCBCSSS
T ss_pred             CCCCCCEEEEeCCCCCCCHHHHHHHHHhcC----CeEEEEEEECCCCCEeeEEEEEeCCHHHHHHHHHHh--CCCEECCE
Confidence            346689999999999999999999999999    9999998764     357999999999999999999  67899999


Q ss_pred             EEEEEecCch
Q psy5142         346 KVSIEVVTGE  355 (410)
Q Consensus       346 ~v~v~~l~g~  355 (410)
                      .|.|.++...
T Consensus       158 ~l~V~~a~~~  167 (177)
T 2f3j_A          158 PMDIQLVASQ  167 (177)
T ss_dssp             BCEEEEESSG
T ss_pred             EEEEEEecCC
Confidence            9999987644

>2dnn_A RNA-binding protein 12; RRM domain, RBD, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.08  E-value=4e-10  Score=92.50  Aligned_cols=72  Identities=8%  Similarity=0.203  Sum_probs=62.5

Q ss_pred             CCeEEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCC-----CceEEEEeCChhHHHHHHHHhcCCCeEEcCeEEE
Q psy5142         274 TGALLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVG-----EPTAFVRYKKENNAEAVLKALGSKEIVIKDVKVS  348 (410)
Q Consensus       274 ~g~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g-----~~~afV~F~~~e~A~~Al~~l~~~~~~i~g~~v~  348 (410)
                      ..+.|+|.|||+++++++|+++|++|+     |..|.+..+     .++|||+|.++++|++|| .+  ++..|+|+.|.
T Consensus        15 ~~~~v~V~nLp~~~te~dl~~~F~~~~-----v~~v~i~~d~~g~~~G~afV~F~~~~~a~~Al-~~--~~~~~~gr~i~   86 (109)
T 2dnn_A           15 DDLYVSVHGMPFSAMENDVRDFFHGLR-----VDAVHLLKDHVGRNNGNGLVKFLSPQDTFEAL-KR--NRMLMIQRYVE   86 (109)
T ss_dssp             HHHEEEEECCCSSCCHHHHHHHTTTSC-----CCEEEECCCTTCCCCSEEEEECSSHHHHHHHH-HT--TTEEETTEEEE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHhccCC-----eeEEEEEECCCCCCCeEEEEEECCHHHHHHHH-hc--CCCeECCeEEE
Confidence            357999999999999999999999996     566777643     457999999999999999 57  67899999999


Q ss_pred             EEecC
Q psy5142         349 IEVVT  353 (410)
Q Consensus       349 v~~l~  353 (410)
                      |....
T Consensus        87 V~~a~   91 (109)
T 2dnn_A           87 VSPAT   91 (109)
T ss_dssp             EEECC
T ss_pred             EEECC
Confidence            98876

>2e5i_A Heterogeneous nuclear ribonucleoprotein L-like; RRM domain, RBD, structural genomics, NPPSFA; NMR {Mus musculus}

Probab=99.08  E-value=2.9e-10  Score=95.47  Aligned_cols=58  Identities=17%  Similarity=0.151  Sum_probs=52.8

Q ss_pred             eeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccE-EEEEecCHHHHHHHHHhcCC
Q psy5142         120 QSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGS-IFVTFDNKENAEKFLNENKD  191 (410)
Q Consensus       120 rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~-afVeF~~~e~A~~Al~~~~g  191 (410)
                      ..|||+|||+.+|+++|+++|++|    |.|.+|+|..         + .|| |||+|.+.++|..|++.++|
T Consensus        26 l~l~V~NL~~~vt~~~L~~~Fs~y----G~V~~v~i~~---------~-~Gf~aFVef~~~~~A~~A~~~LnG   84 (124)
T 2e5i_A           26 LLLSIQNPLYPITVDVLYTVCNPV----GKVQRIVIFK---------R-NGIQAMVEFESVLCAQKAKAALNG   84 (124)
T ss_dssp             EEEEEESCCSCCCHHHHHHHHTTT----SCEEEEEEEE---------S-SSEEEEEEESSHHHHHHHHHHHTT
T ss_pred             EEEEEcCcCCCCCHHHHHHHHHhc----CCEEEEEEEe---------C-CCCEEEEEECCHHHHHHHHHHhCC
Confidence            457899999999999999999999    9999999853         2 376 99999999999999999997

>1iqt_A AUF1, heterogeneous nuclear ribonucleoprotein D0; RNA-binding protein, hnRNP, telomere, DNA-binding protein, RNA binding protein; NMR {Homo sapiens} SCOP: d.58.7.1 PDB: 1wtb_A 1x0f_A

Probab=99.08  E-value=9.6e-11  Score=88.73  Aligned_cols=68  Identities=21%  Similarity=0.311  Sum_probs=59.8

Q ss_pred             EEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCC------CceEEEEeCChhHHHHHHHHhcCCCeEEcCeEEEEE
Q psy5142         277 LLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVG------EPTAFVRYKKENNAEAVLKALGSKEIVIKDVKVSIE  350 (410)
Q Consensus       277 ~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g------~~~afV~F~~~e~A~~Al~~l~~~~~~i~g~~v~v~  350 (410)
                      .|+|.|||+++++++|+++|++||    .|..|.+..+      .++|||.|.++++|++|++.   ++..++|+.|.|+
T Consensus         1 ~l~v~nLp~~~t~~~l~~~F~~~G----~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~Ai~~---~~~~~~g~~l~v~   73 (75)
T 1iqt_A            1 KIFVGGLSPDTPEEKIREYFGGFG----EVESIELPMDNKTNKRRGFCFITFKEEEPVKKIMEK---KYHNVGLSKCEIK   73 (75)
T ss_dssp             CEEESCCCSSCCHHHHHHHHHHHS----CCSEECCCCSCCCSSSCCCEEEECSSSHHHHHHHTT---SSCCBTTBCCCEE
T ss_pred             CEEEeCCCCCCCHHHHHHHHHhcC----CeEEEEEEecCCCCCcCCEEEEEECCHHHHHHHHHh---CCCeECCEEEEEE
Confidence            379999999999999999999999    9999988754      34799999999999999985   4678999998887


Q ss_pred             e
Q psy5142         351 V  351 (410)
Q Consensus       351 ~  351 (410)
                      .
T Consensus        74 ~   74 (75)
T 1iqt_A           74 V   74 (75)
T ss_dssp             E
T ss_pred             E
Confidence            5

>2e5g_A U6 snRNA-specific terminal uridylyltransferase 1; RRM domain, RBD, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=99.07  E-value=2.9e-10  Score=90.24  Aligned_cols=71  Identities=13%  Similarity=0.108  Sum_probs=61.0

Q ss_pred             CeEEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCCCc-eEEEEeCChhHHHHHHHHhcCCCeEEcCeEEEEEec
Q psy5142         275 GALLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVGEP-TAFVRYKKENNAEAVLKALGSKEIVIKDVKVSIEVV  352 (410)
Q Consensus       275 g~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g~~-~afV~F~~~e~A~~Al~~l~~~~~~i~g~~v~v~~l  352 (410)
                      ...|||.|||+++++++|+++|++||    .|..|-+.+..+ +|||+|.+.++|++|+. |  ++..++|+.|.|...
T Consensus         8 ~~~l~V~nl~~~~t~~~l~~~F~~~G----~v~~v~~~~~~g~~afV~f~~~~~a~~ai~-l--~g~~~~g~~l~V~~a   79 (94)
T 2e5g_A            8 LRSVFVSGFPRGVDSAQLSEYFLAFG----PVASVVMDKDKGVFAIVEMGDVGAREAVLS-Q--SQHSLGGHRLRVRPR   79 (94)
T ss_dssp             CCEEEEECCCTTCCHHHHHHHGGGTS----CEEEEEECSSSCCEEEEEESSHHHHHHHHT-C--SCCEETTEECCCBCS
T ss_pred             CCEEEEECCCCCCCHHHHHHHHHhcC----CeEEEEEcCCCCcEEEEEECCHHHHHHHHh-c--CCeEECCEEEEEEEC
Confidence            35899999999999999999999999    998883332211 89999999999999999 8  679999999988754

>2m2b_A RNA-binding protein 10; T-cell, JCSG, MPP, PSI-biology; NMR {Homo sapiens}

Probab=99.06  E-value=2.3e-10  Score=96.73  Aligned_cols=75  Identities=12%  Similarity=0.204  Sum_probs=65.4

Q ss_pred             CCCCeEEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeE--EEeeCCC------ceEEEEeCChhHHHHHHHHhcCCCe---
Q psy5142         272 LPTGALLKISDIKEPVSREDIREVLEKVQTDDQEIVF--IEFNVGE------PTAFVRYKKENNAEAVLKALGSKEI---  340 (410)
Q Consensus       272 ~~~g~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~--V~~~~g~------~~afV~F~~~e~A~~Al~~l~~~~~---  340 (410)
                      ......|||.|||+++++++|+++|++||    .|..  |.++.+.      ++|||+|.+. +|.+|+..|  ++.   
T Consensus        20 ~~~~~~lfV~nL~~~~te~~L~~~F~~~G----~v~~~~v~i~~d~~tg~~rG~aFV~f~~~-~a~~Ai~~l--~g~~~~   92 (131)
T 2m2b_A           20 ENANDTIILRNLNPHSTMDSILGALAPYA----VLSSSNVRVIKDKQTQLNRGFAFIQLSTI-EAAQLLQIL--QALHPP   92 (131)
T ss_dssp             SCCCCEEEECSCCTTCCSHHHHHHHGGGC----CCCTTTEECCBCSSSSSBCSCEEEECCHH-HHHHHHHHH--TTCCCS
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHHhC----CcceeeEEEEEcCCCCCcceEEEEEECCH-HHHHHHHHh--cCCCCC
Confidence            35567999999999999999999999999    8866  7776543      5799999999 999999999  566   


Q ss_pred             -EEcCeEEEEEecC
Q psy5142         341 -VIKDVKVSIEVVT  353 (410)
Q Consensus       341 -~i~g~~v~v~~l~  353 (410)
                       .++|+.|.|....
T Consensus        93 ~~~~gr~l~V~~a~  106 (131)
T 2m2b_A           93 LTIDGKTINVEFAK  106 (131)
T ss_dssp             CCGGGCCCCCEECC
T ss_pred             ccCCCEEEEEEECC
Confidence             8999999998865

>1wg5_A Heterogeneous nuclear ribonucleoprotein H; structural genomics, RRM domain, riken structural genomics/proteomics initiative, RSGI; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.06  E-value=2.8e-10  Score=92.23  Aligned_cols=75  Identities=17%  Similarity=0.251  Sum_probs=64.4

Q ss_pred             CCCCeEEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeE-EEeeCC-----CceEEEEeCChhHHHHHHHHhcCCCeEEcCe
Q psy5142         272 LPTGALLKISDIKEPVSREDIREVLEKVQTDDQEIVF-IEFNVG-----EPTAFVRYKKENNAEAVLKALGSKEIVIKDV  345 (410)
Q Consensus       272 ~~~g~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~-V~~~~g-----~~~afV~F~~~e~A~~Al~~l~~~~~~i~g~  345 (410)
                      ....+.|||.|||+++++++|+++|++||    .|.. |.+..+     .++|||+|.++++|++||..   ++..++|+
T Consensus        12 ~~~~~~l~V~nLp~~~te~~l~~~F~~~G----~v~~~v~i~~~~~g~~~G~afV~F~~~~~a~~A~~~---~~~~~~gr   84 (104)
T 1wg5_A           12 TANDGFVRLRGLPFGCSKEEIVQFFSGLE----IVPNGMTLPVDFQGRSTGEAFVQFASQEIAEKALKK---HKERIGHR   84 (104)
T ss_dssp             CSCCCEEEEESCCTTCCHHHHHHHTTTCC----EEEEEEECCBCSSSCBCSEEEEEESSHHHHHHHHTT---TTCCSSSS
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhcC----CcceeEEEEECCCCCcceEEEEEECCHHHHHHHHHh---CcchhCCc
Confidence            45678999999999999999999999999    8876 777643     35799999999999999986   36789999


Q ss_pred             EEEEEecC
Q psy5142         346 KVSIEVVT  353 (410)
Q Consensus       346 ~v~v~~l~  353 (410)
                      .|.|....
T Consensus        85 ~i~v~~~~   92 (104)
T 1wg5_A           85 YIEIFKSS   92 (104)
T ss_dssp             CCEEEEEC
T ss_pred             EEEEEECC
Confidence            99998765

>1x5o_A RNA binding motif, single-stranded interacting protein 1; structure genomics, RRM domain, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.05  E-value=3.3e-10  Score=93.13  Aligned_cols=76  Identities=13%  Similarity=0.193  Sum_probs=64.8

Q ss_pred             CCCCeEEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCCC-----ceEEEEeCChhHHHHHHHHhcCCCeEE----
Q psy5142         272 LPTGALLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVGE-----PTAFVRYKKENNAEAVLKALGSKEIVI----  342 (410)
Q Consensus       272 ~~~g~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g~-----~~afV~F~~~e~A~~Al~~l~~~~~~i----  342 (410)
                      ....+.|||.|||..+++++|+++|++||    .|..|.+..+.     ++|||+|.+.++|++|+..|  ++..+    
T Consensus        22 ~~~~~~l~V~nlp~~~t~~~l~~~F~~~G----~i~~~~i~~~~~g~~~g~afV~f~~~~~a~~A~~~l--~g~~~~~~~   95 (114)
T 1x5o_A           22 EQDPTNLYISNLPLSMDEQELENMLKPFG----QVISTRILRDSSGTSRGVGFARMESTEKCEAVIGHF--NGKFIKTPP   95 (114)
T ss_dssp             CCCTTEEEEESCCTTCCHHHHHHTTTTTS----CEEEEEEEECSSSCEEEEEEEEESCHHHHHHHHHHH--BTCCCCCCT
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhcC----CEEEEEEEECCCCCcceEEEEEECCHHHHHHHHHHh--CCCEEcCCc
Confidence            34567999999999999999999999999    99999988652     46999999999999999999  45666    


Q ss_pred             ----cCeEEEEEecC
Q psy5142         343 ----KDVKVSIEVVT  353 (410)
Q Consensus       343 ----~g~~v~v~~l~  353 (410)
                          .++.|.|....
T Consensus        96 ~~~~~~~~l~v~~a~  110 (114)
T 1x5o_A           96 GVSAPTEPLLCKFSG  110 (114)
T ss_dssp             TSCCCSSCBEEEECC
T ss_pred             cccCCCCceeEEccC
Confidence                56778887654

>2diu_A KIAA0430 protein; structural genomics, RRM domain, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.05  E-value=4.8e-10  Score=88.73  Aligned_cols=70  Identities=14%  Similarity=0.291  Sum_probs=60.6

Q ss_pred             CCeEEEEeCCCCCCCHHH----HHHHHHhc-CCCCCCeeEEEeeCCCceEEEEeCChhHHHHHHHHhcCCCeEEcCeEEE
Q psy5142         274 TGALLKISDIKEPVSRED----IREVLEKV-QTDDQEIVFIEFNVGEPTAFVRYKKENNAEAVLKALGSKEIVIKDVKVS  348 (410)
Q Consensus       274 ~g~~l~v~nL~~~~t~ed----Lk~~F~~~-G~~~~~V~~V~~~~g~~~afV~F~~~e~A~~Al~~l~~~~~~i~g~~v~  348 (410)
                      ..++|||.|||+.++.++    |+++|++| |    .|..|   .+ +.|||+|.+.++|.+|++.|  ++..+.|++|+
T Consensus         8 ~~T~lYV~NL~~~~~~~~lk~~L~~lF~~yGG----~Vl~V---tg-G~AfV~F~~~esA~~A~~~l--~G~~l~gr~i~   77 (96)
T 2diu_A            8 CHTLLYVYNLPANKDGKSVSNRLRRLSDNCGG----KVLSI---TG-CSAILRFINQDSAERAQKRM--ENEDVFGNRII   77 (96)
T ss_dssp             SSEEEEEESCCTTSCHHHHHHHHHHHHHTTTC----CEEEC---CT-TCEEEEESSHHHHHHHHHHH--TTCCSSSSCCE
T ss_pred             cceEEEEeCCCCcCCHHHHHHHHHHHHHHcCC----eeEEE---ec-CEEEEEECCHHHHHHHHHHh--cCCccCCceEE
Confidence            445699999999999888    55899999 7    77666   33 88999999999999999999  68899999999


Q ss_pred             EEecC
Q psy5142         349 IEVVT  353 (410)
Q Consensus       349 v~~l~  353 (410)
                      |....
T Consensus        78 v~~A~   82 (96)
T 2diu_A           78 VSFTP   82 (96)
T ss_dssp             EESSC
T ss_pred             EEecC
Confidence            98765

>2hgn_A Heterogeneous nuclear ribonucleoprotein F; RNA recognition motif, G-tract, G-quadruplex, alternative splicing, RNA binding protein; NMR {Homo sapiens} PDB: 2kg1_A

Probab=99.05  E-value=4.9e-11  Score=102.23  Aligned_cols=73  Identities=12%  Similarity=0.245  Sum_probs=61.5

Q ss_pred             CCCeEEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCC-----CceEEEEeCChhHHHHHHHHhcCCCeEEcCeEE
Q psy5142         273 PTGALLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVG-----EPTAFVRYKKENNAEAVLKALGSKEIVIKDVKV  347 (410)
Q Consensus       273 ~~g~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g-----~~~afV~F~~~e~A~~Al~~l~~~~~~i~g~~v  347 (410)
                      ...++|||.|||+++++++|+++|++||    .+ .|.+..+     .++|||+|.++++|++|| .+  ++..|+|+.|
T Consensus        44 ~~~~~lfV~nLp~~~te~dL~~~F~~~G----i~-~v~i~~d~~g~srGfaFV~F~~~e~A~~Al-~~--~g~~l~gR~i  115 (139)
T 2hgn_A           44 TTGHCVHMRGLPYKATENDIYNFFSPLN----PV-RVHIEIGPDGRVTGEADVEFATHEEAVAAM-SK--DRANMQHRYI  115 (139)
T ss_dssp             -CCCCEECCSCCTTCCHHHHHHHHCSCC----CS-EEECCCSSSSCSSCCCEEECSHHHHHHHHT-TC--CSCSSSSCCC
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcC----Ce-EEEEEECCCCCCceEEEEEeCCHHHHHHHH-hh--CCCEECCEEE
Confidence            4467899999999999999999999999    43 6777643     347999999999999999 66  5788999999


Q ss_pred             EEEecC
Q psy5142         348 SIEVVT  353 (410)
Q Consensus       348 ~v~~l~  353 (410)
                      .|....
T Consensus       116 ~V~~a~  121 (139)
T 2hgn_A          116 ELFLNS  121 (139)
T ss_dssp             CCEECC
T ss_pred             EEEECC
Confidence            888765

>3p5t_L Cleavage and polyadenylation specificity factor S; RRM domain, poly(A) site recognition, RNA, nuclear, RNA BIND protein; 2.70A {Homo sapiens} PDB: 3p6y_C

Probab=99.04  E-value=1.6e-10  Score=91.03  Aligned_cols=74  Identities=16%  Similarity=0.205  Sum_probs=59.7

Q ss_pred             eEEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCC------CceEEEEeCChhHHHHHHHHhcCCCeEEcCeEEEE
Q psy5142         276 ALLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVG------EPTAFVRYKKENNAEAVLKALGSKEIVIKDVKVSI  349 (410)
Q Consensus       276 ~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g------~~~afV~F~~~e~A~~Al~~l~~~~~~i~g~~v~v  349 (410)
                      ..|||.|||+++++++|+++|++||.  ..|..|.+..+      .++|||.|.+.++|++|++.|  ++..++|+.|.|
T Consensus         2 ~~l~V~nL~~~~t~~~l~~~F~~~G~--~~v~~v~i~~~~~~g~~kG~afV~f~~~~~a~~Ai~~l--~g~~~~gr~i~V   77 (90)
T 3p5t_L            2 IALYIGNLTWWTTDEDLTEAVHSLGV--NDILEIKFFENRANGQSKGFALVGVGSEASSKKLMDLL--PKRELHGQNPVV   77 (90)
T ss_dssp             --CEEESCCTTCCHHHHHHHHHTTTC--CCCCCEEEEECTTTCCEEEEEEECC-CHHHHHHHHHHG--GGSCSSSCCCEE
T ss_pred             eEEEEeCCCCCCCHHHHHHHHHHhCC--CceEEEEEEecCCCCccCcEEEEEECCHHHHHHHHHHc--CCCeeCCEEEEE
Confidence            46899999999999999999999992  14666666543      236999999999999999999  678899999999


Q ss_pred             EecC
Q psy5142         350 EVVT  353 (410)
Q Consensus       350 ~~l~  353 (410)
                      ....
T Consensus        78 ~~~~   81 (90)
T 3p5t_L           78 TPSN   81 (90)
T ss_dssp             CCC-
T ss_pred             EECC
Confidence            8765

>3egn_A RNA-binding protein 40; RNA recognition motif (RRM), RNP motif, U11/U12-65K protein, DI-snRNP, U1A protein, U2B protein; 2.50A {Homo sapiens}

Probab=99.04  E-value=2.7e-10  Score=97.64  Aligned_cols=77  Identities=13%  Similarity=0.207  Sum_probs=65.0

Q ss_pred             CCCCeEEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeE--------EEee---CCCceEEEEeCChhHHHHHHHHhcCCCe
Q psy5142         272 LPTGALLKISDIKEPVSREDIREVLEKVQTDDQEIVF--------IEFN---VGEPTAFVRYKKENNAEAVLKALGSKEI  340 (410)
Q Consensus       272 ~~~g~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~--------V~~~---~g~~~afV~F~~~e~A~~Al~~l~~~~~  340 (410)
                      ..+.+.|||.|||+.+++++|+++|++||    .|..        |.+.   ...++|||.|.+.++|.+|+..|  ++.
T Consensus        42 ~~~~~~l~V~nLp~~~te~~L~~~F~~~G----~i~~~~~~~~~di~~~~~g~~~g~afV~f~~~~~A~~Ai~~l--ng~  115 (143)
T 3egn_A           42 GEPNCRIYVKNLAKHVQEKDLKYIFGRYV----DFSSETQRIMFDIRLMKEGRMKGQAFIGLPNEKAAAKALKEA--NGY  115 (143)
T ss_dssp             CSCCSEEEEEEECTTCCHHHHHHHHGGGC----CTTCHHHHHHCEEEEEEETTTEEEEEEECSSHHHHHHHHHHH--TTB
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHHhC----CcccccccceeeEEeccCCCcccEEEEEeCCHHHHHHHHHHh--CCC
Confidence            35668999999999999999999999999    6644        2222   23457999999999999999999  789


Q ss_pred             EEcCeEEEEEecCc
Q psy5142         341 VIKDVKVSIEVVTG  354 (410)
Q Consensus       341 ~i~g~~v~v~~l~g  354 (410)
                      .++|+.|.|.....
T Consensus       116 ~~~g~~l~V~~a~~  129 (143)
T 3egn_A          116 VLFGKPMVVQFARS  129 (143)
T ss_dssp             EETTEECEEEECCC
T ss_pred             EeCCcEEEEEECCC
Confidence            99999999998753

>2dha_A FLJ20171 protein; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.03  E-value=4.1e-10  Score=94.43  Aligned_cols=76  Identities=14%  Similarity=0.163  Sum_probs=62.9

Q ss_pred             CCCeEEEEeCCCCCCCHHHHHHHHHhcCCCCCCe----eEEEeeCC-----CceEEEEeCChhHHHHHHHHhcCCCeEEc
Q psy5142         273 PTGALLKISDIKEPVSREDIREVLEKVQTDDQEI----VFIEFNVG-----EPTAFVRYKKENNAEAVLKALGSKEIVIK  343 (410)
Q Consensus       273 ~~g~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V----~~V~~~~g-----~~~afV~F~~~e~A~~Al~~l~~~~~~i~  343 (410)
                      ...++|||.|||+++++++|+++|++||    .|    ..|.+..+     .++|||+|.+.++|++||..   ++..++
T Consensus        21 ~~~~~v~V~nLp~~~te~dl~~~F~~~g----~v~g~v~~v~i~~d~~gr~~G~aFV~F~~~~~A~~Al~~---~~~~l~   93 (123)
T 2dha_A           21 ENQVIVRMRGLPFTATAEEVVAFFGQHC----PITGGKEGILFVTYPDGRPTGDAFVLFACEEYAQNALRK---HKDLLG   93 (123)
T ss_dssp             CSCCEEEECSCCTTCCHHHHHHHHHTTS----CCTTGGGGEEEEECTTSCEEEEEEECCSSHHHHHHHHTT---TTEESS
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhhC----CccCCcceEEEEECCCCCEeeEEEEEECCHHHHHHHHHh---CCCeeC
Confidence            4567999999999999999999999999    53    45655532     24699999999999999985   468899


Q ss_pred             CeEEEEEecCch
Q psy5142         344 DVKVSIEVVTGE  355 (410)
Q Consensus       344 g~~v~v~~l~g~  355 (410)
                      |+.|.|...+.+
T Consensus        94 gR~i~V~~a~~~  105 (123)
T 2dha_A           94 KRYIELFRSTAA  105 (123)
T ss_dssp             SCEECCEEECHH
T ss_pred             CeEEEEEECCHH
Confidence            999999887643

>2j76_E EIF-4B, EIF4B, eukaryotic translation initiation factor 4B; protein biosynthesis, RNA recognition motif, RNA binding domain, RRM, RBD, RNP; NMR {Homo sapiens}

Probab=99.02  E-value=1.8e-10  Score=92.66  Aligned_cols=76  Identities=12%  Similarity=0.222  Sum_probs=63.2

Q ss_pred             CCCCCeEEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCCC-------ceEEEEeCChhHHHHHHHHhcCCCeEEc
Q psy5142         271 ELPTGALLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVGE-------PTAFVRYKKENNAEAVLKALGSKEIVIK  343 (410)
Q Consensus       271 ~~~~g~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g~-------~~afV~F~~~e~A~~Al~~l~~~~~~i~  343 (410)
                      .....+.|||.|||.++++++|+++|++||     |..|.+..+.       ++|||+|.+.++|++|+ .|  ++..++
T Consensus        15 ~~~~~~~l~V~nLp~~~t~~~l~~~F~~~G-----i~~v~i~~~~~~~g~~~g~afV~f~~~~~a~~Ai-~l--~g~~~~   86 (100)
T 2j76_E           15 PKSPPYTAFLGNLPYDVTEESIKEFFRGLN-----ISAVRLPREPSNPERLKGFGYAEFEDLDSLLSAL-SL--NEESLG   86 (100)
T ss_dssp             -----CEEEESCCSSCCSSSHHHHHSCSSC-----EEEEECSCCTTTTCCCCSCEEEEECCHHHHHHHH-HT--TTCCBT
T ss_pred             CCCCCcEEEEeCCCCCCCHHHHHHHHHhcC-----CeEEEEEecCCcCCccCeEEEEEECCHHHHHHHH-hc--CCCEEC
Confidence            456678999999999999999999999998     7788887543       47999999999999999 88  678899


Q ss_pred             CeEEEEEecCc
Q psy5142         344 DVKVSIEVVTG  354 (410)
Q Consensus       344 g~~v~v~~l~g  354 (410)
                      |+.|.|.....
T Consensus        87 g~~l~V~~a~~   97 (100)
T 2j76_E           87 NRRIRVDVADQ   97 (100)
T ss_dssp             TBCCCCEECCC
T ss_pred             CeEEEEEeccC
Confidence            99999887653

>1fj7_A Nucleolin RBD1, protein C23; RNP, RRM, RNA binding domain, nucleolus, structural protein; NMR {Mesocricetus auratus} SCOP: d.58.7.1

Probab=99.01  E-value=2.7e-10  Score=91.51  Aligned_cols=74  Identities=12%  Similarity=0.179  Sum_probs=62.4

Q ss_pred             CCCeEEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeE-----EEeeCCCceEEEEeCChhHHHHHHHHhcCCCeEEcCeEE
Q psy5142         273 PTGALLKISDIKEPVSREDIREVLEKVQTDDQEIVF-----IEFNVGEPTAFVRYKKENNAEAVLKALGSKEIVIKDVKV  347 (410)
Q Consensus       273 ~~g~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~-----V~~~~g~~~afV~F~~~e~A~~Al~~l~~~~~~i~g~~v  347 (410)
                      ...+.|||.|||+++++++|+++|++||    .|..     .......++|||+|.+.++|++|++ |  ++..++|+.|
T Consensus        15 ~~~~~l~V~nLp~~~t~~~l~~~F~~~G----~v~~~~~~~~~~g~~~g~afV~f~~~~~a~~A~~-l--~g~~~~g~~l   87 (101)
T 1fj7_A           15 TTPFNLFIGNLNPNKSVAELKVAISELF----AKNDLAVVDVRTGTNRKFGYVDFESAEDLEKALE-L--TGLKVFGNEI   87 (101)
T ss_dssp             SCSEEEEEECCCTTSCHHHHHHHHHHHH----HHHTCCCCEEEEETTTTEEEEEESSHHHHHHHHH-G--GGCCBTTBCC
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHHhC----CcceEEEecCCCCCcCcEEEEEECCHHHHHHHHh-c--CCcEECCcEE
Confidence            4578999999999999999999999999    5533     1223345789999999999999998 8  6788999999


Q ss_pred             EEEecC
Q psy5142         348 SIEVVT  353 (410)
Q Consensus       348 ~v~~l~  353 (410)
                      .|....
T Consensus        88 ~V~~a~   93 (101)
T 1fj7_A           88 KLEKPK   93 (101)
T ss_dssp             EEECCS
T ss_pred             EEEEcC
Confidence            998765

>2xs2_A Deleted in azoospermia-like; RNA binding protein-RNA complex; 1.35A {Mus musculus} PDB: 2xs7_A 2xs5_A 2xsf_A

Probab=99.01  E-value=4.7e-10  Score=90.27  Aligned_cols=72  Identities=10%  Similarity=0.219  Sum_probs=63.1

Q ss_pred             CCeEEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCCC-----ceEEEEeCChhHHHHHHHHhcCCCeEEcCeEEE
Q psy5142         274 TGALLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVGE-----PTAFVRYKKENNAEAVLKALGSKEIVIKDVKVS  348 (410)
Q Consensus       274 ~g~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g~-----~~afV~F~~~e~A~~Al~~l~~~~~~i~g~~v~  348 (410)
                      ..+.|||.|||+++++++|+++|++||    .|..|.+..+.     ++|||.|.+.++|++|+.    ++..++|+.|.
T Consensus         8 ~~~~l~V~nLp~~~t~~~l~~~F~~~G----~i~~v~i~~~~~g~~~g~afV~f~~~~~a~~Ai~----~~~~~~g~~l~   79 (102)
T 2xs2_A            8 MPNTVFVGGIDVRMDETEIRSFFARYG----SVKEVKIITDRTGVSKGYGFVSFYNDVDVQKIVE----SQINFHGKKLK   79 (102)
T ss_dssp             EEEEEEEECCCTTCCHHHHHHHHGGGS----CEEEEEEEECTTSCEEEEEEEEESSCCCHHHHTT----CCCEETTEECE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhCC----CeEEEEEEECCCCCccceEEEEECCHHHHHHHHh----CCCeECCEEEE
Confidence            457999999999999999999999999    99999988643     569999999999999998    46889999988


Q ss_pred             EEecC
Q psy5142         349 IEVVT  353 (410)
Q Consensus       349 v~~l~  353 (410)
                      |....
T Consensus        80 v~~a~   84 (102)
T 2xs2_A           80 LGPAI   84 (102)
T ss_dssp             EEEEE
T ss_pred             EEECC
Confidence            76553

>1sjr_A Polypyrimidine tract-binding protein 1; extended babbab motif, RNA binding protein; NMR {Homo sapiens} SCOP: d.58.7.1 PDB: 2adb_A

Probab=99.00  E-value=1.2e-09  Score=95.83  Aligned_cols=73  Identities=14%  Similarity=0.179  Sum_probs=63.6

Q ss_pred             CeEEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCC--CceEEEEeCChhHHHHHHHHhcCCCeEEcC--eEEEEE
Q psy5142         275 GALLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVG--EPTAFVRYKKENNAEAVLKALGSKEIVIKD--VKVSIE  350 (410)
Q Consensus       275 g~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g--~~~afV~F~~~e~A~~Al~~l~~~~~~i~g--~~v~v~  350 (410)
                      -+.|+|.||++.+++++|+++|++||    .|..|.+...  ..+|||+|.+.++|++|++.|  ++..|.|  +.|+|.
T Consensus        46 vl~l~VgNL~~~vted~L~~~Fs~fG----~V~~V~i~~k~~rgfAFVeF~d~~~A~~Ai~~L--nG~~i~g~g~~L~V~  119 (164)
T 1sjr_A           46 VLRIIVENLFYPVTLDVLHQIFSKFG----TVLKIITFTKNNQFQALLQYADPVSAQHAKLSL--DGQNIYNACCTLRID  119 (164)
T ss_dssp             EEEEEECSCCSCCCHHHHHHHHHHHS----CEEEEEEEESSSCEEEEEEESCHHHHHHHHHHS--TTBCSSSSCSCEEEE
T ss_pred             eEEEEEeCcCCCCCHHHHHHHHHhcC----CEEEEEEEeCCCCCEEEEEECCHHHHHHHHHHh--CCCEecCCCcEEEEE
Confidence            35688999999999999999999999    9999988644  347999999999999999999  6777854  899998


Q ss_pred             ecC
Q psy5142         351 VVT  353 (410)
Q Consensus       351 ~l~  353 (410)
                      ...
T Consensus       120 ~Ak  122 (164)
T 1sjr_A          120 FSK  122 (164)
T ss_dssp             ECS
T ss_pred             Eec
Confidence            765

>1wf0_A TDP-43, TAR DNA-binding protein-43; structural genomics, RRM domain, riken structural genomics/proteomics initiative RSGI, RNA binding protein; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=98.99  E-value=4.8e-10  Score=87.75  Aligned_cols=72  Identities=14%  Similarity=0.296  Sum_probs=61.6

Q ss_pred             CCeEEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCC-CceEEEEeCChhHHHHHHHHhcCCCeEEcCeEEEEEec
Q psy5142         274 TGALLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVG-EPTAFVRYKKENNAEAVLKALGSKEIVIKDVKVSIEVV  352 (410)
Q Consensus       274 ~g~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g-~~~afV~F~~~e~A~~Al~~l~~~~~~i~g~~v~v~~l  352 (410)
                      +.+.|||.|||+++++++|+++|++||    .|..|.+... .++|||.|.+.++|++|    +...+.++|..|.|...
T Consensus         4 ~~~~l~V~nLp~~~te~~l~~~F~~~G----~i~~v~i~~~~~g~afV~f~~~~~a~~~----~~~~~~~~g~~l~v~~a   75 (88)
T 1wf0_A            4 GSSGVFVGRCTGDMTEDELREFFSQYG----DVMDVFIPKPFRAFAFVTFADDQIAQSL----CGEDLIIKGISVHISNA   75 (88)
T ss_dssp             CCCEEEEESCCSSSCHHHHHHHSTTTS----CCCEEECCSSCCSCCEEECSCHHHHHHT----TTCEEEETTEEEEEECC
T ss_pred             CCcEEEEeCCCCCCCHHHHHHHHHHcC----CeeEEEEecCCCCEEEEEECCHHHHHHH----hcCCceeCCEEEEEEec
Confidence            457899999999999999999999999    9999998764 67899999999998754    33467889999998865


Q ss_pred             C
Q psy5142         353 T  353 (410)
Q Consensus       353 ~  353 (410)
                      .
T Consensus        76 ~   76 (88)
T 1wf0_A           76 E   76 (88)
T ss_dssp             C
T ss_pred             C
Confidence            4

>2hgm_A HNRPF protein, heterogeneous nuclear ribonucleoprotein F; RNA recognition motif, G-tract, G-quadruplex, alternative splicing, RNA binding protein; NMR {Homo sapiens} PDB: 2kg0_A

Probab=98.98  E-value=5.9e-10  Score=93.83  Aligned_cols=77  Identities=16%  Similarity=0.213  Sum_probs=63.7

Q ss_pred             CCCCeEEEEeCCCCCCCHHHHHHHHHhcCCCCCCee-EEEeeCC-----CceEEEEeCChhHHHHHHHHhcCCCeEEcCe
Q psy5142         272 LPTGALLKISDIKEPVSREDIREVLEKVQTDDQEIV-FIEFNVG-----EPTAFVRYKKENNAEAVLKALGSKEIVIKDV  345 (410)
Q Consensus       272 ~~~g~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~-~V~~~~g-----~~~afV~F~~~e~A~~Al~~l~~~~~~i~g~  345 (410)
                      ....++|||.|||+++++++|+++|++|+    -+. .|.+..+     .++|||+|.++++|++||+..   +..|+|+
T Consensus        39 ~~~~~~lfVgnLp~~~te~dL~~~F~~~~----i~~~~v~i~~d~~GrsrGfaFV~F~~~e~A~~Al~~~---~~~l~gR  111 (126)
T 2hgm_A           39 SANDGFVRLRGLPFGCTKEEIVQFFSGLE----IVPNGITLPVDPEGKITGEAFVQFASQELAEKALGKH---KERIGHR  111 (126)
T ss_dssp             SSSCCEEEEECCCTTCCHHHHHHHTTTSC----EEEEEEECCCCSSSSSCSEEEEEESSTTHHHHHHTTT---TCCBTTB
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHhcCC----ceeeEEEEEECCCCCCceEEEEEECCHHHHHHHHHHC---CCEECCE
Confidence            34567899999999999999999999998    332 6777643     457999999999999999853   4889999


Q ss_pred             EEEEEecCch
Q psy5142         346 KVSIEVVTGE  355 (410)
Q Consensus       346 ~v~v~~l~g~  355 (410)
                      .|.|.....+
T Consensus       112 ~I~V~~a~~~  121 (126)
T 2hgm_A          112 YIEVFKSSQE  121 (126)
T ss_dssp             CCCCEEECHH
T ss_pred             EEEEEECCHH
Confidence            9999887633

>3u1l_A PRE-mRNA-splicing factor CWC2; CSMP, zinc finger; 1.64A {Saccharomyces cerevisiae} PDB: 3u1m_A 3tp2_A

Probab=98.98  E-value=5.5e-10  Score=104.08  Aligned_cols=62  Identities=24%  Similarity=0.186  Sum_probs=57.2

Q ss_pred             ccceeeEeecCCCCC---------CHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHH
Q psy5142         117 LIAQSLYVKYIPVDA---------TLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLN  187 (410)
Q Consensus       117 ~~~rtv~V~~lp~~~---------t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~  187 (410)
                      ...+||||+|||.++         |+++|+++|++|    |+|.+|+|+          ..+|||||+|.+.++|+.|++
T Consensus       132 ~~~rtLfVgnL~~~~~~~~~~~~~tEe~L~~~F~~f----G~I~~v~v~----------~~kG~AFV~F~~~~~Ae~A~~  197 (240)
T 3u1l_A          132 KKNKTLYVGGIDGALNSKHLKPAQIESRIRFVFSRL----GDIDRIRYV----------ESKNCGFVKFKYQANAEFAKE  197 (240)
T ss_dssp             CCCCEEEEECTTGGGTTCCCCHHHHHHHHHHHHHTT----SCEEEEEEE----------GGGTEEEEEESSHHHHHHHHH
T ss_pred             cCCceeecCCCChhhhcccccccCcHHHHHHHHHcc----CCEEEEEEE----------CCCCEEEEEeCCHHHHHHHHH
Confidence            567999999999998         799999999999    999999997          358999999999999999999


Q ss_pred             hcCCC
Q psy5142         188 ENKDK  192 (410)
Q Consensus       188 ~~~g~  192 (410)
                      .++|.
T Consensus       198 am~g~  202 (240)
T 3u1l_A          198 AMSNQ  202 (240)
T ss_dssp             HHTTC
T ss_pred             HhCCC
Confidence            99973

>1jmt_A Splicing factor U2AF 35 kDa subunit; RRM, RNA splicing, proline, PPII helix, peptide recognition, RNA binding protein; 2.20A {Homo sapiens} SCOP: d.58.7.3

Probab=98.98  E-value=1.6e-10  Score=93.99  Aligned_cols=62  Identities=15%  Similarity=0.292  Sum_probs=52.2

Q ss_pred             eecCCCCCCHHHHHHHH------------hhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCC
Q psy5142         124 VKYIPVDATLDDIKDFF------------KKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKD  191 (410)
Q Consensus       124 V~~lp~~~t~~~L~~~F------------~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g  191 (410)
                      +.|||+.+|.++|+++|            ++|    |.|.+|.|+++..+     .++|||||+|.++++|++|+..++|
T Consensus        20 ~~~l~~~~~~~~l~~~f~~~~edl~~~f~~~~----G~V~~v~i~~~~~~-----~~~G~~fV~f~~~~~A~~A~~~lng   90 (104)
T 1jmt_A           20 ADGLRSAVSDVEMQEHYDEFFEEVFTEMEEKY----GEVEEMNVCDNLGD-----HLVGNVYVKFRREEDAEKAVIDLNN   90 (104)
T ss_dssp             -CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHT----CCEEEEEECCSSSS-----SSEEEEEEEESCHHHHHHHHHHHTT
T ss_pred             cCCcccccCHHHHHHHHHHHHHHHHHHhhccC----CceEEEEEEeCCCC-----CccEEEEEEECCHHHHHHHHHHHCC
Confidence            56677777777776666            999    99999999987664     7899999999999999999999997


Q ss_pred             CCccc
Q psy5142         192 KNLKF  196 (410)
Q Consensus       192 ~~~~~  196 (410)
                        ..|
T Consensus        91 --~~~   93 (104)
T 1jmt_A           91 --RWF   93 (104)
T ss_dssp             --CEE
T ss_pred             --CEE
Confidence              455

>3zzy_A Polypyrimidine tract-binding protein 1; protein binding, peptide binding, RNA recognition motif; 1.40A {Homo sapiens} PDB: 3zzz_A

Probab=98.98  E-value=2.4e-09  Score=90.43  Aligned_cols=73  Identities=14%  Similarity=0.182  Sum_probs=62.6

Q ss_pred             CeEEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCC-Cce-EEEEeCChhHHHHHHHHhcCCCeEEcC--eEEEEE
Q psy5142         275 GALLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVG-EPT-AFVRYKKENNAEAVLKALGSKEIVIKD--VKVSIE  350 (410)
Q Consensus       275 g~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g-~~~-afV~F~~~e~A~~Al~~l~~~~~~i~g--~~v~v~  350 (410)
                      -..|+|.||++.+|+++|+++|++||    .|..|.+... .+. |||+|.+.++|++|++.|  +|..|.|  +.|+|.
T Consensus        28 VL~I~V~NL~~~vte~~L~~lFs~yG----~V~~V~i~~~~~gfqAFVef~~~~~A~~Ai~~L--nG~~i~g~~~~LrI~  101 (130)
T 3zzy_A           28 VLRIIVENLFYPVTLDVLHQIFSKFG----TVLKIITFTKNNQFQALLQYADPVSAQHAKLSL--DGQNIYNACCTLRID  101 (130)
T ss_dssp             EEEEEEESCCSCCCHHHHHHHHTTSS----CEEEEEEEEETTEEEEEEEESCHHHHHHHHHHH--TTCEEETTEEEEEEE
T ss_pred             eEEEEECCCCCCCCHHHHHHHHhCcC----CEEEEEEEcCCCCcEEEEEECCHHHHHHHHHHc--CCCeecCCCcEEEEE
Confidence            35677999999999999999999999    9999877643 345 999999999999999999  6788877  778887


Q ss_pred             ecC
Q psy5142         351 VVT  353 (410)
Q Consensus       351 ~l~  353 (410)
                      ...
T Consensus       102 ~ak  104 (130)
T 3zzy_A          102 FSK  104 (130)
T ss_dssp             ECS
T ss_pred             ecC
Confidence            653

>3sde_A Paraspeckle component 1; RRM, anti parallel right handed coiled-coil, NOPS, DBHS, RNA protein, RNA binding; 1.90A {Homo sapiens} PDB: 3sde_B

Probab=98.98  E-value=1.7e-09  Score=102.07  Aligned_cols=76  Identities=17%  Similarity=0.260  Sum_probs=69.7

Q ss_pred             CCCCCeEEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCCCceEEEEeCChhHHHHHHHHhcCCCeEEcCeEEEEE
Q psy5142         271 ELPTGALLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVGEPTAFVRYKKENNAEAVLKALGSKEIVIKDVKVSIE  350 (410)
Q Consensus       271 ~~~~g~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g~~~afV~F~~~e~A~~Al~~l~~~~~~i~g~~v~v~  350 (410)
                      .....+.|||.|||+++|+++|+++|++||    .|..|.+.+..++|||.|.+.++|.+|+..+  ++..++|+.|.|.
T Consensus        18 ~~~~~~~l~V~nLp~~~te~~l~~~F~~~G----~i~~v~i~~~kg~afV~f~~~~~A~~A~~~l--~g~~i~g~~l~v~   91 (261)
T 3sde_A           18 TYTQRCRLFVGNLPTDITEEDFKRLFERYG----EPSEVFINRDRGFGFIRLESRTLAEIAKAEL--DGTILKSRPLRIR   91 (261)
T ss_dssp             SSCGGGEEEEESCCTTCCHHHHHHHTGGGC----CCSEEEEETTTTEEEEECSSHHHHHHHHHHH--TTCEETTEECEEE
T ss_pred             CCCCCCEEEEECCCCCCCHHHHHHHHHhcC----CEEEEEEeCCCcEEEEEECCHHHHHHHHHHc--CCcEECCceeEee
Confidence            456678999999999999999999999999    9999999999999999999999999999999  6788999988887


Q ss_pred             ec
Q psy5142         351 VV  352 (410)
Q Consensus       351 ~l  352 (410)
                      ..
T Consensus        92 ~a   93 (261)
T 3sde_A           92 FA   93 (261)
T ss_dssp             EC
T ss_pred             ec
Confidence            54

>2adc_A Polypyrimidine tract-binding protein 1; RBD, RRM, protein-RNA complex, RNA binding protein/RNA complex; NMR {Homo sapiens} SCOP: d.58.7.1 d.58.7.1 PDB: 2evz_A

Probab=98.97  E-value=1.8e-09  Score=99.85  Aligned_cols=79  Identities=13%  Similarity=0.191  Sum_probs=71.0

Q ss_pred             ccCCCCCeEEEEeCCCC-CCCHHHHHHHHHhcCCCCCCeeEEEeeCCC-ceEEEEeCChhHHHHHHHHhcCCCeEEcCeE
Q psy5142         269 VLELPTGALLKISDIKE-PVSREDIREVLEKVQTDDQEIVFIEFNVGE-PTAFVRYKKENNAEAVLKALGSKEIVIKDVK  346 (410)
Q Consensus       269 ~~~~~~g~~l~v~nL~~-~~t~edLk~~F~~~G~~~~~V~~V~~~~g~-~~afV~F~~~e~A~~Al~~l~~~~~~i~g~~  346 (410)
                      ....+++++|||.|||+ ++++++|+++|++||    .|..|.+..+. ++|||+|.+.++|++|++.|  ++..++|+.
T Consensus        28 ~~~~~~~~~l~V~nLp~~~~te~~L~~~F~~~G----~i~~v~i~~~~~g~afV~F~~~~~A~~Ai~~l--~g~~~~g~~  101 (229)
T 2adc_A           28 GLAGAGNSVLLVSNLNPERVTPQSLFILFGVYG----DVQRVKILFNKKENALVQMADGNQAQLAMSHL--NGHKLHGKP  101 (229)
T ss_dssp             GGGCCCCSEEEEESCCTTTCCHHHHHHHHHHHT----CEEEEEECCTTSCCEEEEESCHHHHHHHHHHH--TTCBCSSSB
T ss_pred             CCCCCCCCEEEEeCCCcccCCHHHHHHHHHhCC----CeEEEEEEECCCCEEEEEECCHHHHHHHHHHh--CCCeECCeE
Confidence            34456788999999999 999999999999999    99999998764 78999999999999999999  678899999


Q ss_pred             EEEEecC
Q psy5142         347 VSIEVVT  353 (410)
Q Consensus       347 v~v~~l~  353 (410)
                      |.|....
T Consensus       102 l~v~~a~  108 (229)
T 2adc_A          102 IRITLSK  108 (229)
T ss_dssp             CEEECCS
T ss_pred             EEEEEec
Confidence            9998765

>3pgw_A U1-A; protein-RNA complex, U1 snRNA, SM fold, SM core, RRM, splici SNRNPS, splicing factors; HET: DNA; 4.40A {Homo sapiens} PDB: 1fht_A 2u1a_A 2aym_A 2b0g_A

Probab=98.96  E-value=9.7e-10  Score=104.43  Aligned_cols=65  Identities=15%  Similarity=0.194  Sum_probs=58.3

Q ss_pred             ccceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCCccc
Q psy5142         117 LIAQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLKF  196 (410)
Q Consensus       117 ~~~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~~~  196 (410)
                      ...++|||+|||.++|+++|+++|++|    |.|.+|+|.+         ..+|+|||+|.+.++|.+|+..++|  ..+
T Consensus       205 ~~~~~l~v~nl~~~~~~~~l~~~F~~~----G~i~~v~~~~---------~~~g~afV~f~~~~~A~~A~~~l~g--~~~  269 (282)
T 3pgw_A          205 PPNHILFLTNLPEETNELMLSMLFNQF----PGFKEVRLVP---------GRHDIAFVEFDNEVQAGAARDALQG--FKI  269 (282)
T ss_pred             CCCCEEEEeCCCCcCCHHHHHHHHHhc----CCeEEEEEec---------CCCcEEEEEeCCHHHHHHHHHHcCC--cEe
Confidence            356899999999999999999999999    9999999984         2368999999999999999999996  445

>3u1l_A PRE-mRNA-splicing factor CWC2; CSMP, zinc finger; 1.64A {Saccharomyces cerevisiae} PDB: 3u1m_A 3tp2_A

Probab=98.94  E-value=1.3e-09  Score=101.69  Aligned_cols=78  Identities=18%  Similarity=0.281  Sum_probs=69.1

Q ss_pred             CCCCeEEEEeCCCCCC---------CHHHHHHHHHhcCCCCCCeeEEEeeCCCceEEEEeCChhHHHHHHHHhcCCCeEE
Q psy5142         272 LPTGALLKISDIKEPV---------SREDIREVLEKVQTDDQEIVFIEFNVGEPTAFVRYKKENNAEAVLKALGSKEIVI  342 (410)
Q Consensus       272 ~~~g~~l~v~nL~~~~---------t~edLk~~F~~~G~~~~~V~~V~~~~g~~~afV~F~~~e~A~~Al~~l~~~~~~i  342 (410)
                      .....+|||.||+..+         ++++|+++|++||    .|..|.+....++|||+|.+.++|+.|+++|+  +..|
T Consensus       131 ~~~~rtLfVgnL~~~~~~~~~~~~~tEe~L~~~F~~fG----~I~~v~v~~~kG~AFV~F~~~~~Ae~A~~am~--g~~l  204 (240)
T 3u1l_A          131 RKKNKTLYVGGIDGALNSKHLKPAQIESRIRFVFSRLG----DIDRIRYVESKNCGFVKFKYQANAEFAKEAMS--NQTL  204 (240)
T ss_dssp             CCCCCEEEEECTTGGGTTCCCCHHHHHHHHHHHHHTTS----CEEEEEEEGGGTEEEEEESSHHHHHHHHHHHT--TCCC
T ss_pred             ccCCceeecCCCChhhhcccccccCcHHHHHHHHHccC----CEEEEEEECCCCEEEEEeCCHHHHHHHHHHhC--CCEE
Confidence            4567899999999998         7999999999999    99999999999999999999999999999995  4555


Q ss_pred             ------------cCeEEEEEecCch
Q psy5142         343 ------------KDVKVSIEVVTGE  355 (410)
Q Consensus       343 ------------~g~~v~v~~l~g~  355 (410)
                                  .|+.|.|+.+..+
T Consensus       205 ~~~~~~e~~~~~~gr~L~V~wA~~~  229 (240)
T 3u1l_A          205 LLPSDKEWDDRREGTGLLVKWANED  229 (240)
T ss_dssp             CCTTSTTGGGGGGSCCCEEEECC--
T ss_pred             eccccccccccCCCCEEEEEEccCC
Confidence                        8999999987643

>3v4m_A Splicing factor U2AF 65 kDa subunit; canonical RNA binding protein, RNA splicing, structural GENO joint center for structural genomics, JCSG; HET: MSE; 1.80A {Mus musculus} PDB: 1o0p_A 1opi_A

Probab=98.94  E-value=1.1e-09  Score=89.17  Aligned_cols=70  Identities=21%  Similarity=0.289  Sum_probs=56.9

Q ss_pred             ceeeEeecC--CCCC--------CHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHh
Q psy5142         119 AQSLYVKYI--PVDA--------TLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNE  188 (410)
Q Consensus       119 ~rtv~V~~l--p~~~--------t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~  188 (410)
                      .+.|.+.|+  |.+.        +.++|++.|++|    |.|.+|.|+++..+.  ...++|+|||+|.++++|.+|+..
T Consensus         5 s~vl~L~Nm~~~~~l~~d~~~~~~~~dl~~~f~k~----G~V~~v~i~~~~~~~--~~~~~G~~fV~f~~~~~A~~Ai~~   78 (105)
T 3v4m_A            5 TEVLCLMNMVLPEELLDDEEYEEIVEDVRDECSKY----GLVKSIEIPRPVDGV--EVPGCGKIFVEFTSVFDCQKAMQG   78 (105)
T ss_dssp             CSEEEEESSCCGGGSSSHHHHHHHHHHHHHHHHTT----SCEEEEECCCCBTTB--CCTTTTEEEEEESSHHHHHHHHHH
T ss_pred             CeEEEEECCCCHHHccChHHHHHHHHHHHHHHHcc----CCEEEEEEeccCCCC--CcCCcEEEEEEECCHHHHHHHHHH
Confidence            567888887  3333        347999999999    999999999887541  015799999999999999999999


Q ss_pred             cCCCCccc
Q psy5142         189 NKDKNLKF  196 (410)
Q Consensus       189 ~~g~~~~~  196 (410)
                      ++|  ..|
T Consensus        79 lnG--~~f   84 (105)
T 3v4m_A           79 LTG--RKF   84 (105)
T ss_dssp             HTT--CEE
T ss_pred             hCC--CEe
Confidence            997  456

>2dit_A HIV TAT specific factor 1 variant; structural genomics, RRM_1 domain, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=98.93  E-value=2e-09  Score=88.35  Aligned_cols=65  Identities=15%  Similarity=0.165  Sum_probs=54.0

Q ss_pred             cceeeEeecCCCCC-----------CHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHH
Q psy5142         118 IAQSLYVKYIPVDA-----------TLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFL  186 (410)
Q Consensus       118 ~~rtv~V~~lp~~~-----------t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al  186 (410)
                      ..++|+|.||....           ++++|+++|++|    |.|..|.|+ +  .     .++|||||+|.+.++|++|+
T Consensus        14 ~s~~l~l~Nl~~~~~~~~~~~~~~~~e~~l~~~f~~~----G~v~~v~i~-~--~-----~~~G~afV~f~~~~~A~~Ai   81 (112)
T 2dit_A           14 HERVVIIKNMFHPMDFEDDPLVLNEIREDLRVECSKF----GQIRKLLLF-D--R-----HPDGVASVSFRDPEEADYCI   81 (112)
T ss_dssp             SCCEEEEESSCCTTHHHHCSHHHHHHHHHHHHHGGGT----SCCSEEEEE-T--T-----CTTCEEEEECSCHHHHHHHH
T ss_pred             CceEEEEEcCCCHHHhccCHHHHHHHHHHHHHHHHcc----CCEeEEEEe-c--C-----CCCEEEEEEECCHHHHHHHH
Confidence            36899999994433           258999999999    999999773 2  2     46999999999999999999


Q ss_pred             HhcCCCCccc
Q psy5142         187 NENKDKNLKF  196 (410)
Q Consensus       187 ~~~~g~~~~~  196 (410)
                      ..++|  ..+
T Consensus        82 ~~lng--~~~   89 (112)
T 2dit_A           82 QTLDG--RWF   89 (112)
T ss_dssp             HHSTT--CEE
T ss_pred             HHcCC--CEE
Confidence            99996  455

>2pe8_A Splicing factor 45; RRM, protein binding; 2.00A {Homo sapiens} PDB: 2peh_A

Probab=98.91  E-value=6e-09  Score=84.80  Aligned_cols=75  Identities=9%  Similarity=0.008  Sum_probs=63.4

Q ss_pred             CCCeEEEEeCCCC-----CCCHHHHHHHHHhcCCCCCCeeEEEeeCC-------CceEEEEeCChhHHHHHHHHhcCCCe
Q psy5142         273 PTGALLKISDIKE-----PVSREDIREVLEKVQTDDQEIVFIEFNVG-------EPTAFVRYKKENNAEAVLKALGSKEI  340 (410)
Q Consensus       273 ~~g~~l~v~nL~~-----~~t~edLk~~F~~~G~~~~~V~~V~~~~g-------~~~afV~F~~~e~A~~Al~~l~~~~~  340 (410)
                      .+..+|+|.|+..     +.++++|++.|++||    .|..|.+...       .+.|||+|.++++|.+|+..|  ++.
T Consensus         6 ~~s~~l~l~Nm~~~~~l~dd~~~dl~~~f~~~G----~V~~v~i~~~~~~~~~~~G~~FV~f~~~~~A~~Ai~~l--nG~   79 (105)
T 2pe8_A            6 CPTKVVLLRNMVGAGEVDEDLEVETKEECEKYG----KVGKCVIFEIPGAPDDEAVRIFLEFERVESAIKAVVDL--NGR   79 (105)
T ss_dssp             SCCSEEEEESSSCSCCC---CHHHHHHHGGGGS----CEEEEEEEECSSCCTTTSEEEEEEESSHHHHHHHHHHH--TTC
T ss_pred             CCCCEEEEEcCCChHHhhHHHHHHHHHHHHhcC----CEEEEEEecCCCCCCCCcEEEEEEECCHHHHHHHHHHH--CCC
Confidence            3456899999742     237899999999999    9999988753       357999999999999999999  788


Q ss_pred             EEcCeEEEEEecC
Q psy5142         341 VIKDVKVSIEVVT  353 (410)
Q Consensus       341 ~i~g~~v~v~~l~  353 (410)
                      .++|+.|.+....
T Consensus        80 ~~~Gr~i~v~~a~   92 (105)
T 2pe8_A           80 YFGGRVVKACFYN   92 (105)
T ss_dssp             EETTEECEEEECC
T ss_pred             EECCcEEEEEEcC
Confidence            9999999999986

>2dnl_A Cytoplasmic polyadenylation element binding protein 3; RRM domain, RBD, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.91  E-value=2.9e-09  Score=87.70  Aligned_cols=68  Identities=10%  Similarity=0.228  Sum_probs=56.1

Q ss_pred             CCeEEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCC---------CceEEEEeCChhHHHHHHHHhcCCCeEEcC
Q psy5142         274 TGALLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVG---------EPTAFVRYKKENNAEAVLKALGSKEIVIKD  344 (410)
Q Consensus       274 ~g~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g---------~~~afV~F~~~e~A~~Al~~l~~~~~~i~g  344 (410)
                      ..+.|||.|||+++++++|+++|++||    .|. +.+...         .++|||+|.++++|++|++.|    ..++|
T Consensus         7 ~~~~lfVgnLp~~~te~~L~~~F~~~G----~i~-~~~~~~~~~~~~g~~~G~aFV~f~~~~~a~~Ai~~~----~~~~G   77 (114)
T 2dnl_A            7 GSRKVFVGGLPPDIDEDEITASFRRFG----PLV-VDWPHKAESKSYFPPKGYAFLLFQEESSVQALIDAC----LEEDG   77 (114)
T ss_dssp             CCCCEEEECCCTTCCHHHHHHHTTTTC----CCC-EECTTSSSSCCCSCTTSEEEECCSSHHHHHHHHHHS----EEETT
T ss_pred             CCCEEEEcCCCCCCCHHHHHHHHHhcC----CEE-EEEeecCCCCCCCCcccEEEEEECCHHHHHHHHHhh----hhcCC
Confidence            457899999999999999999999999    888 666532         457999999999999999998    23566


Q ss_pred             eEEEEE
Q psy5142         345 VKVSIE  350 (410)
Q Consensus       345 ~~v~v~  350 (410)
                      +.+.+.
T Consensus        78 ~~~~~~   83 (114)
T 2dnl_A           78 KLYLCV   83 (114)
T ss_dssp             EEEEEE
T ss_pred             cEEEec
Confidence            655543

>2d9o_A DNAJ (HSP40) homolog, subfamily C, member 17; RRM domain, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.90  E-value=4.7e-09  Score=84.65  Aligned_cols=49  Identities=18%  Similarity=0.253  Sum_probs=44.9

Q ss_pred             CCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcC
Q psy5142         129 VDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENK  190 (410)
Q Consensus       129 ~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~  190 (410)
                      .++|+++|+++|++|    |.|.+|.|++         .++|||||+|.+.++|++|++..+
T Consensus        27 ~~~te~~L~~~F~~~----G~V~~v~i~~---------~~rGfaFVeF~~~~~A~~Ai~~~~   75 (100)
T 2d9o_A           27 GGYSKDVLLRLLQKY----GEVLNLVLSS---------KKPGTAVVEFATVKAAELAVQNEV   75 (100)
T ss_dssp             CSCCHHHHHHHHHTT----SCEEEEEEES---------SSSSEEEEEESCHHHHHHHHHTCC
T ss_pred             CCCCHHHHHHHHHhc----CCEEEEEEcc---------CCCCEEEEEECCHHHHHHHHHhcC
Confidence            468999999999999    9999999982         679999999999999999999855

>1qm9_A Polypyrimidine tract-binding protein; ribonucleoprotein, RNP, RNA, spicing, translation; NMR {Homo sapiens} SCOP: d.58.7.1 d.58.7.1

Probab=98.89  E-value=2.6e-09  Score=95.90  Aligned_cols=74  Identities=12%  Similarity=0.218  Sum_probs=67.6

Q ss_pred             CeEEEEeCCCC-CCCHHHHHHHHHhcCCCCCCeeEEEeeCCC-ceEEEEeCChhHHHHHHHHhcCCCeEEcCeEEEEEec
Q psy5142         275 GALLKISDIKE-PVSREDIREVLEKVQTDDQEIVFIEFNVGE-PTAFVRYKKENNAEAVLKALGSKEIVIKDVKVSIEVV  352 (410)
Q Consensus       275 g~~l~v~nL~~-~~t~edLk~~F~~~G~~~~~V~~V~~~~g~-~~afV~F~~~e~A~~Al~~l~~~~~~i~g~~v~v~~l  352 (410)
                      +++|+|.|||+ .+++++|+++|++||    .|..|.+..+. ++|||+|.+.++|++|+..|  ++..++|+.|.|...
T Consensus         3 ~~~l~v~nlp~~~~~~~~l~~~F~~~G----~i~~v~i~~~~~g~afV~f~~~~~a~~A~~~l--~~~~~~g~~l~v~~a   76 (198)
T 1qm9_A            3 NSVLLVSNLNPERVTPQSLFILFGVYG----DVQRVKILFNKKENALVQMADGNQAQLAMSHL--NGHKLHGKPIRITLS   76 (198)
T ss_dssp             CCEEEEECCCSSSCCHHHHHHHHHTTC----CCSEEECSTTCSSCCEEECTTTHHHHHHHHHH--TTCCCSSCCCEEEEC
T ss_pred             CcEEEEeCCCcccCCHHHHHHHHHhcC----CEEEEEEEeCCCCEEEEEECCHHHHHHHHHHh--CCCeecCeEEEEEEe
Confidence            47899999999 999999999999999    99999998764 68999999999999999999  678899999999877


Q ss_pred             Cc
Q psy5142         353 TG  354 (410)
Q Consensus       353 ~g  354 (410)
                      ..
T Consensus        77 ~~   78 (198)
T 1qm9_A           77 KH   78 (198)
T ss_dssp             CC
T ss_pred             cC
Confidence            53

>3tht_A Alkylated DNA repair protein ALKB homolog 8; structural genomics, PSI-biology, northeast structural genom consortium, NESG; HET: AKG; 3.01A {Homo sapiens} PDB: 3thp_A*

Probab=98.87  E-value=2.8e-09  Score=104.48  Aligned_cols=62  Identities=16%  Similarity=0.185  Sum_probs=55.9

Q ss_pred             ccceeeEeec--CCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCC
Q psy5142         117 LIAQSLYVKY--IPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDK  192 (410)
Q Consensus       117 ~~~rtv~V~~--lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~  192 (410)
                      ...++|||+|  |++.+|+++|+++|++|    |.|.+|.|++          .||||||+|.+.++|++|++.++|+
T Consensus        16 ~ps~~l~VgN~gl~~~~te~~L~~~F~~~----G~V~~v~~~~----------~kgfaFV~f~~~~~A~~Ai~~lnG~   79 (345)
T 3tht_A           16 YATQSLVVANGGLGNGVSRNQLLPVLEKC----GLVDALLMPP----------NKPYSFARYRTTEESKRAYVTLNGK   79 (345)
T ss_dssp             SCCSEEEEETCSGGGTCCHHHHHHHHHTT----SCEEEEECCT----------TCSEEEEEESSHHHHHHHHHHTTTC
T ss_pred             CCCCEEEEEcCCCCCCCCHHHHHHHHHhc----CCeEEEEEeC----------CCCEEEEEECCHHHHHHHHHHhCCC
Confidence            3457999999  57899999999999999    9999998863          4799999999999999999999984

>2voo_A Lupus LA protein; RNA-binding protein, RNA recognition motif, systemic lupus erythematosus, phosphoprotein, RNA maturation; 1.8A {Homo sapiens} SCOP: a.4.5.46 d.58.7.1 PDB: 2von_A 2vod_A 2vop_A 1zh5_A 1yty_A 1s7a_A

Probab=98.86  E-value=3.8e-09  Score=95.45  Aligned_cols=72  Identities=17%  Similarity=0.223  Sum_probs=63.8

Q ss_pred             CeEEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCC-----CceEEEEeCChhHHHHHHHHhcCCCeEEcCeEEEE
Q psy5142         275 GALLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVG-----EPTAFVRYKKENNAEAVLKALGSKEIVIKDVKVSI  349 (410)
Q Consensus       275 g~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g-----~~~afV~F~~~e~A~~Al~~l~~~~~~i~g~~v~v  349 (410)
                      .++|||.|||++++.++|+++|++||    .|..|.+.+.     .++|||+|.+.++|++|+..+   +..++|+.|.|
T Consensus       109 ~~~l~V~nLp~~~t~~~L~~~F~~~G----~v~~v~i~~~~~~~~kG~aFVeF~~~e~A~~A~~~~---~~~~~Gr~l~V  181 (193)
T 2voo_A          109 NRSVYIKGFPTDATLDDIKEWLEDKG----QVLNIQMRRTLHKAFKGSIFVVFDSIESAKKFVETP---GQKYKETDLLI  181 (193)
T ss_dssp             HTEEEEECCCTTCCHHHHHHHHTTSC----CEEEEEEEECTTCCEEEEEEEEESSHHHHHHHHHCT---TCEETTEECEE
T ss_pred             cCEEEecCCCCcCCHHHHHHHHhcCC----CEEEEEEEECCCCCcccEEEEEECCHHHHHHHHHhC---CCeECCEEEEE
Confidence            46899999999999999999999999    9999988853     346999999999999999876   35899999999


Q ss_pred             EecC
Q psy5142         350 EVVT  353 (410)
Q Consensus       350 ~~l~  353 (410)
                      ....
T Consensus       182 ~~~~  185 (193)
T 2voo_A          182 LFKD  185 (193)
T ss_dssp             EETT
T ss_pred             EEhH
Confidence            8764

>3ue2_A Poly(U)-binding-splicing factor PUF60; RNA recognition motif, RRM, RNA binding domain, ST genomics, joint center for structural genomics, JCSG; HET: MSE; 1.23A {Homo sapiens} SCOP: d.58.7.0 PDB: 3us5_A 2dny_A

Probab=98.85  E-value=3.9e-09  Score=87.77  Aligned_cols=73  Identities=12%  Similarity=0.146  Sum_probs=57.7

Q ss_pred             cceeeEeecCC--C---CCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCC
Q psy5142         118 IAQSLYVKYIP--V---DATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDK  192 (410)
Q Consensus       118 ~~rtv~V~~lp--~---~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~  192 (410)
                      ..++|++.|+-  .   +-.+++|++.|++|    |.|.+|.|+++..+......++|++||+|.+.++|.+|+..++| 
T Consensus        19 ps~vl~L~Nm~~~~el~ddleedl~eef~k~----G~V~~v~I~~~~~~~~~~~~~~G~~FV~F~~~e~A~~Ai~~LnG-   93 (118)
T 3ue2_A           19 ESTVMVLRNMVDPKDIDDDLEGEVTEECGKF----GAVNRVIIYQEKQGEEEDAEIIVKIFVEFSIASETHKAIQALNG-   93 (118)
T ss_dssp             SCCEEEEESCSCGGGCCTTHHHHHHHHHTTT----SCEEEEEEEEEEESSSTTCEEEEEEEEEESSHHHHHHHHHHHTT-
T ss_pred             CCCEEEEECCCCHHHHHHHHHHHHHHHHhcc----CCEeEEEEeecCCCcccCCcceEEEEEEECCHHHHHHHHHHHCC-
Confidence            46788888883  2   23468999999999    99999999987642100115789999999999999999999997 


Q ss_pred             Cccc
Q psy5142         193 NLKF  196 (410)
Q Consensus       193 ~~~~  196 (410)
                       ..|
T Consensus        94 -r~f   96 (118)
T 3ue2_A           94 -RWF   96 (118)
T ss_dssp             -CEE
T ss_pred             -CEE
Confidence             456

>2dit_A HIV TAT specific factor 1 variant; structural genomics, RRM_1 domain, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=98.81  E-value=2.7e-08  Score=81.51  Aligned_cols=76  Identities=17%  Similarity=0.248  Sum_probs=63.2

Q ss_pred             CCCeEEEEeCCCCCCC-----------HHHHHHHHHhcCCCCCCeeEEEeeC--CCceEEEEeCChhHHHHHHHHhcCCC
Q psy5142         273 PTGALLKISDIKEPVS-----------REDIREVLEKVQTDDQEIVFIEFNV--GEPTAFVRYKKENNAEAVLKALGSKE  339 (410)
Q Consensus       273 ~~g~~l~v~nL~~~~t-----------~edLk~~F~~~G~~~~~V~~V~~~~--g~~~afV~F~~~e~A~~Al~~l~~~~  339 (410)
                      .+..+|+|.||.....           +++|+++|++||    .|..|.+..  ..++|||+|.+.++|++|+..|  ++
T Consensus        13 ~~s~~l~l~Nl~~~~~~~~~~~~~~~~e~~l~~~f~~~G----~v~~v~i~~~~~~G~afV~f~~~~~A~~Ai~~l--ng   86 (112)
T 2dit_A           13 RHERVVIIKNMFHPMDFEDDPLVLNEIREDLRVECSKFG----QIRKLLLFDRHPDGVASVSFRDPEEADYCIQTL--DG   86 (112)
T ss_dssp             CSCCEEEEESSCCTTHHHHCSHHHHHHHHHHHHHGGGTS----CCSEEEEETTCTTCEEEEECSCHHHHHHHHHHS--TT
T ss_pred             CCceEEEEEcCCCHHHhccCHHHHHHHHHHHHHHHHccC----CEeEEEEecCCCCEEEEEEECCHHHHHHHHHHc--CC
Confidence            4567899999843322           589999999999    998886653  2468999999999999999999  67


Q ss_pred             eEEcCeEEEEEecCc
Q psy5142         340 IVIKDVKVSIEVVTG  354 (410)
Q Consensus       340 ~~i~g~~v~v~~l~g  354 (410)
                      ..++|+.|.|....+
T Consensus        87 ~~~~gr~l~v~~a~~  101 (112)
T 2dit_A           87 RWFGGRQITAQAWDG  101 (112)
T ss_dssp             CEETTEECEEEECCS
T ss_pred             CEECCcEEEEEEeCC
Confidence            899999999998763

>2j8a_A Histone-lysine N-methyltransferase, H3 lysine-4 specific; histone methyltransferase, RRM fold, telomere, nuclear protein; 3.0A {Saccharomyces cerevisiae}

Probab=98.79  E-value=4.9e-08  Score=81.66  Aligned_cols=73  Identities=15%  Similarity=0.165  Sum_probs=59.4

Q ss_pred             eEEEEeCC----CCCCCHHHHHHHHHhcCCCCCCeeEEEeeCCCc------eEEEEeCC----hhH----HHHHHHHhcC
Q psy5142         276 ALLKISDI----KEPVSREDIREVLEKVQTDDQEIVFIEFNVGEP------TAFVRYKK----ENN----AEAVLKALGS  337 (410)
Q Consensus       276 ~~l~v~nL----~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g~~------~afV~F~~----~e~----A~~Al~~l~~  337 (410)
                      +.|+|.||    |+.+++++|+++|++||    +|..+.+..+..      +|||+|.+    ++.    |.+|+.....
T Consensus         3 ~kI~VgnL~~~~~~~tte~~Lk~~Fs~fG----eV~~~~li~Dp~Tg~slGfgfVef~d~~g~~d~a~kAA~kAi~~~~l   78 (136)
T 2j8a_A            3 CEIVVYPAQDSTTTNIQDISIKNYFKKYG----EISHFEAFNDPNSALPLHVYLIKYASSDGKINDAAKAAFSAVRKHES   78 (136)
T ss_dssp             CEEEEEESSSSCCCCCCHHHHHHHHHTTS----CCSEEEEEECTTTCCEEEEEEEECC------CCHHHHHHHHHHHTTT
T ss_pred             cEEEEeCCCCCCCCCCCHHHHHHHHHhcC----CeEEEEEEecCCCCceeeEEEEEECCCCCCcchHHHHHHHHHHHhhh
Confidence            47899999    99999999999999999    999998886543      59999996    433    6777773223


Q ss_pred             CCeEEcCeEEEEEec
Q psy5142         338 KEIVIKDVKVSIEVV  352 (410)
Q Consensus       338 ~~~~i~g~~v~v~~l  352 (410)
                      ++..|+|+.|.|.+=
T Consensus        79 ng~~I~Gr~irV~ln   93 (136)
T 2j8a_A           79 SGCFIMGFKFEVILN   93 (136)
T ss_dssp             TCEEETTEEEEEEEC
T ss_pred             cCCeecCcEEEEEEC
Confidence            789999999999964

>3v4m_A Splicing factor U2AF 65 kDa subunit; canonical RNA binding protein, RNA splicing, structural GENO joint center for structural genomics, JCSG; HET: MSE; 1.80A {Mus musculus} PDB: 1o0p_A 1opi_A

Probab=98.79  E-value=2.1e-08  Score=81.55  Aligned_cols=74  Identities=16%  Similarity=0.181  Sum_probs=62.3

Q ss_pred             CCeEEEEeCC--CCCCC--------HHHHHHHHHhcCCCCCCeeEEEeeCC--------CceEEEEeCChhHHHHHHHHh
Q psy5142         274 TGALLKISDI--KEPVS--------REDIREVLEKVQTDDQEIVFIEFNVG--------EPTAFVRYKKENNAEAVLKAL  335 (410)
Q Consensus       274 ~g~~l~v~nL--~~~~t--------~edLk~~F~~~G~~~~~V~~V~~~~g--------~~~afV~F~~~e~A~~Al~~l  335 (410)
                      +-.+|.+.|+  |.+..        .++|++.|++||    .|..|.+++.        .+.|||+|.++++|.+|+..|
T Consensus         4 ps~vl~L~Nm~~~~~l~~d~~~~~~~~dl~~~f~k~G----~V~~v~i~~~~~~~~~~~~G~~fV~f~~~~~A~~Ai~~l   79 (105)
T 3v4m_A            4 PTEVLCLMNMVLPEELLDDEEYEEIVEDVRDECSKYG----LVKSIEIPRPVDGVEVPGCGKIFVEFTSVFDCQKAMQGL   79 (105)
T ss_dssp             CCSEEEEESSCCGGGSSSHHHHHHHHHHHHHHHHTTS----CEEEEECCCCBTTBCCTTTTEEEEEESSHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCHHHccChHHHHHHHHHHHHHHHccC----CEEEEEEeccCCCCCcCCcEEEEEEECCHHHHHHHHHHh
Confidence            3457889995  43443        379999999999    9999998753        467999999999999999999


Q ss_pred             cCCCeEEcCeEEEEEecC
Q psy5142         336 GSKEIVIKDVKVSIEVVT  353 (410)
Q Consensus       336 ~~~~~~i~g~~v~v~~l~  353 (410)
                        ++..++|+.|.+....
T Consensus        80 --nG~~f~GR~i~v~~~~   95 (105)
T 3v4m_A           80 --TGRKFANRVVVTKYCD   95 (105)
T ss_dssp             --TTCEETTEECEEEEEC
T ss_pred             --CCCEeCCCEEEEEEeC
Confidence              7899999999999876

>1owx_A Lupus LA protein, SS-B, LA; RRM, transcription; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=98.76  E-value=4.5e-08  Score=81.37  Aligned_cols=65  Identities=17%  Similarity=0.123  Sum_probs=55.7

Q ss_pred             cceeeEeecCCCC-CCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecC-HHHHHHHHHhcCCCCcc
Q psy5142         118 IAQSLYVKYIPVD-ATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDN-KENAEKFLNENKDKNLK  195 (410)
Q Consensus       118 ~~rtv~V~~lp~~-~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~-~e~A~~Al~~~~g~~~~  195 (410)
                      .-+.|||+|||.+ ++.++|+++|++|    |.|.+|.+.++..          .|||+|.+ +++|..|+..++.....
T Consensus        17 ~G~il~v~~l~~~~~sredLke~F~~~----G~V~~Vd~~~g~~----------tgfVrf~~~~~~A~~av~~ln~~~~~   82 (121)
T 1owx_A           17 IGCLLKFSGDLDDQTCREDLHILFSNH----GEIKWIDFVRGAK----------EGIILFKEKAKEALGKAKDANNGNLQ   82 (121)
T ss_dssp             CCCEEEEEESCCSSCCHHHHHHHTCSS----CCEEEEECCTTCS----------EEEEEESSCHHHHHHHHHHTTTSCBC
T ss_pred             CCeEEEEecCCCCcCCHHHHHHHHHhc----CCEEEEEEecCCC----------EEEEEECCChHHHHHHHHHhhcCCcE
Confidence            4678999999999 9999999999999    9999999987543          49999999 89999999988632344


Q ss_pred             c
Q psy5142         196 F  196 (410)
Q Consensus       196 ~  196 (410)
                      +
T Consensus        83 i   83 (121)
T 1owx_A           83 L   83 (121)
T ss_dssp             T
T ss_pred             E
Confidence            4

>3tht_A Alkylated DNA repair protein ALKB homolog 8; structural genomics, PSI-biology, northeast structural genom consortium, NESG; HET: AKG; 3.01A {Homo sapiens} PDB: 3thp_A*

Probab=98.69  E-value=3.8e-08  Score=96.37  Aligned_cols=63  Identities=22%  Similarity=0.331  Sum_probs=57.3

Q ss_pred             CCCCeEEEEeC--CCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCCCceEEEEeCChhHHHHHHHHhcCC
Q psy5142         272 LPTGALLKISD--IKEPVSREDIREVLEKVQTDDQEIVFIEFNVGEPTAFVRYKKENNAEAVLKALGSK  338 (410)
Q Consensus       272 ~~~g~~l~v~n--L~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g~~~afV~F~~~e~A~~Al~~l~~~  338 (410)
                      ..+..+|||.|  |+..+|+++|+++|++||    +|..|.+.+++++|||+|.+.++|++|++.||+.
T Consensus        15 ~~ps~~l~VgN~gl~~~~te~~L~~~F~~~G----~V~~v~~~~~kgfaFV~f~~~~~A~~Ai~~lnG~   79 (345)
T 3tht_A           15 SYATQSLVVANGGLGNGVSRNQLLPVLEKCG----LVDALLMPPNKPYSFARYRTTEESKRAYVTLNGK   79 (345)
T ss_dssp             SSCCSEEEEETCSGGGTCCHHHHHHHHHTTS----CEEEEECCTTCSEEEEEESSHHHHHHHHHHTTTC
T ss_pred             CCCCCEEEEEcCCCCCCCCHHHHHHHHHhcC----CeEEEEEeCCCCEEEEEECCHHHHHHHHHHhCCC
Confidence            45567899998  678999999999999999    9999999999999999999999999999999543

>2dnr_A Synaptojanin-1; RRM domain, RBD, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=98.66  E-value=8.5e-08  Score=75.17  Aligned_cols=75  Identities=15%  Similarity=0.244  Sum_probs=61.3

Q ss_pred             CCCCeEEEEeCCCC----CCCH----HHHHHHHHhcCCCCCCeeEEEeeCCCceEEEEeCChhHHHHHHHHhcCCCeEEc
Q psy5142         272 LPTGALLKISDIKE----PVSR----EDIREVLEKVQTDDQEIVFIEFNVGEPTAFVRYKKENNAEAVLKALGSKEIVIK  343 (410)
Q Consensus       272 ~~~g~~l~v~nL~~----~~t~----edLk~~F~~~G~~~~~V~~V~~~~g~~~afV~F~~~e~A~~Al~~l~~~~~~i~  343 (410)
                      .|++.+|.|.-++.    ..-.    .+|.+.|++||    +|..|++..+.  +||.|.+.++|.+|+. |  ++..++
T Consensus         4 GPpd~tv~V~~~~~~~~~~~fd~~l~~~L~~~F~~~G----~Vi~vr~~~d~--~fVtF~d~~sAlaAi~-m--nG~~v~   74 (91)
T 2dnr_A            4 GSSGGTVLVSIKSSLPENNFFDDALIDELLQQFASFG----EVILIRFVEDK--MWVTFLEGSSALNVLS-L--NGKELL   74 (91)
T ss_dssp             CCSSCEEEEEEECSSTTTCSCCHHHHHHHHHHHHTTC----CEEEEEECSSS--EEEEESSHHHHHHGGG-G--TTCEET
T ss_pred             CCCCCeEEEEeccCccccccCCHHHHHHHHHHHHhCC----CeEEEEEecCC--EEEEECChHHHHHHHh-c--CCeEeC
Confidence            36666666665541    2223    78999999999    99999998855  9999999999999998 8  789999


Q ss_pred             CeEEEEEecCch
Q psy5142         344 DVKVSIEVVTGE  355 (410)
Q Consensus       344 g~~v~v~~l~g~  355 (410)
                      |+.|+|++.+.+
T Consensus        75 Gr~LkV~lkt~d   86 (91)
T 2dnr_A           75 NRTITIALKSPS   86 (91)
T ss_dssp             TEEEEEEECCCS
T ss_pred             CeEEEEEeCCCC
Confidence            999999998753

>3ue2_A Poly(U)-binding-splicing factor PUF60; RNA recognition motif, RRM, RNA binding domain, ST genomics, joint center for structural genomics, JCSG; HET: MSE; 1.23A {Homo sapiens} SCOP: d.58.7.0 PDB: 3us5_A 2dny_A

Probab=98.62  E-value=8.2e-08  Score=79.72  Aligned_cols=75  Identities=13%  Similarity=0.195  Sum_probs=62.6

Q ss_pred             CCeEEEEeCC--CCCC---CHHHHHHHHHhcCCCCCCeeEEEeeCCC----------ceEEEEeCChhHHHHHHHHhcCC
Q psy5142         274 TGALLKISDI--KEPV---SREDIREVLEKVQTDDQEIVFIEFNVGE----------PTAFVRYKKENNAEAVLKALGSK  338 (410)
Q Consensus       274 ~g~~l~v~nL--~~~~---t~edLk~~F~~~G~~~~~V~~V~~~~g~----------~~afV~F~~~e~A~~Al~~l~~~  338 (410)
                      +..+|.+.|+  |.++   -++||++.|++||    .|..|.+++..          +.|||+|.++++|.+|+..|  +
T Consensus        19 ps~vl~L~Nm~~~~el~ddleedl~eef~k~G----~V~~v~I~~~~~~~~~~~~~~G~~FV~F~~~e~A~~Ai~~L--n   92 (118)
T 3ue2_A           19 ESTVMVLRNMVDPKDIDDDLEGEVTEECGKFG----AVNRVIIYQEKQGEEEDAEIIVKIFVEFSIASETHKAIQAL--N   92 (118)
T ss_dssp             SCCEEEEESCSCGGGCCTTHHHHHHHHHTTTS----CEEEEEEEEEEESSSTTCEEEEEEEEEESSHHHHHHHHHHH--T
T ss_pred             CCCEEEEECCCCHHHHHHHHHHHHHHHHhccC----CEeEEEEeecCCCcccCCcceEEEEEEECCHHHHHHHHHHH--C
Confidence            4568889995  3222   3699999999999    99988877532          46999999999999999999  7


Q ss_pred             CeEEcCeEEEEEecCc
Q psy5142         339 EIVIKDVKVSIEVVTG  354 (410)
Q Consensus       339 ~~~i~g~~v~v~~l~g  354 (410)
                      +..++|+.|.+.....
T Consensus        93 Gr~f~GR~i~v~~~~~  108 (118)
T 3ue2_A           93 GRWFAGRKVVAEVYDQ  108 (118)
T ss_dssp             TCEETTEECEEEEECH
T ss_pred             CCEECCcEEEEEEcCh
Confidence            8899999999999873

>1jmt_A Splicing factor U2AF 35 kDa subunit; RRM, RNA splicing, proline, PPII helix, peptide recognition, RNA binding protein; 2.20A {Homo sapiens} SCOP: d.58.7.3

Probab=98.60  E-value=2e-08  Score=81.52  Aligned_cols=66  Identities=18%  Similarity=0.309  Sum_probs=54.8

Q ss_pred             EeCCCCCCCHHHHHHHH------------HhcCCCCCCeeEEEeeCC-----CceEEEEeCChhHHHHHHHHhcCCCeEE
Q psy5142         280 ISDIKEPVSREDIREVL------------EKVQTDDQEIVFIEFNVG-----EPTAFVRYKKENNAEAVLKALGSKEIVI  342 (410)
Q Consensus       280 v~nL~~~~t~edLk~~F------------~~~G~~~~~V~~V~~~~g-----~~~afV~F~~~e~A~~Al~~l~~~~~~i  342 (410)
                      +.|||..+++++|++.|            ++||    .|..|.+.++     .+.|||.|.++++|++|+..|  ++..+
T Consensus        20 ~~~l~~~~~~~~l~~~f~~~~edl~~~f~~~~G----~V~~v~i~~~~~~~~~G~~fV~f~~~~~A~~A~~~l--ng~~~   93 (104)
T 1jmt_A           20 ADGLRSAVSDVEMQEHYDEFFEEVFTEMEEKYG----EVEEMNVCDNLGDHLVGNVYVKFRREEDAEKAVIDL--NNRWF   93 (104)
T ss_dssp             -CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTC----CEEEEEECCSSSSSSEEEEEEEESCHHHHHHHHHHH--TTCEE
T ss_pred             cCCcccccCHHHHHHHHHHHHHHHHHHhhccCC----ceEEEEEEeCCCCCccEEEEEEECCHHHHHHHHHHH--CCCEE
Confidence            34566677777776666            9999    9999999865     357999999999999999999  67899


Q ss_pred             cCeEEEEEe
Q psy5142         343 KDVKVSIEV  351 (410)
Q Consensus       343 ~g~~v~v~~  351 (410)
                      +|+.|.|..
T Consensus        94 ~Gr~i~v~~  102 (104)
T 1jmt_A           94 NGQPIHAEL  102 (104)
T ss_dssp             TTEECCEEE
T ss_pred             CCEEEEEEE
Confidence            999998875

>3s6e_A RNA-binding protein 39; ferredoxin-like, structural genomics, joint center for struc genomics, JCSG, protein structure initiative, PSI-biology; HET: MSE CIT; 0.95A {Mus musculus} PDB: 2lq5_A

Probab=98.58  E-value=8.6e-08  Score=79.09  Aligned_cols=64  Identities=16%  Similarity=0.169  Sum_probs=51.9

Q ss_pred             ceeeEeecCCC--C--------CCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHh
Q psy5142         119 AQSLYVKYIPV--D--------ATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNE  188 (410)
Q Consensus       119 ~rtv~V~~lp~--~--------~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~  188 (410)
                      .+.|.+.|+=.  +        -..++|++.|++|    |.|.+|.|.++        ..+|++||+|.+.++|.+|+..
T Consensus         7 s~vv~L~Nm~~~~e~~d~~~~~el~edl~~~f~kf----G~V~~v~i~~~--------~~~G~~fV~f~~~e~A~~Ai~~   74 (114)
T 3s6e_A            7 TQCFQLSNMFNPQTEEEVGWDTEIKDDVIEECNKH----GGVIHIYVDKN--------SAQGNVYVKCPSIAAAIAAVNA   74 (114)
T ss_dssp             CSEEEEESSCCTTTCCSTTHHHHHHHHHHHHHTTT----TCCSEEEECTT--------CTTCCEEEECSSHHHHHHHHHH
T ss_pred             CcEEEEECCCChHHccChhHHHHHHHHHHHHHhcc----CCEEEEEEecC--------CCcEEEEEEECCHHHHHHHHHH
Confidence            46788887732  2        1246889999999    99999999764        2489999999999999999999


Q ss_pred             cCCCCccc
Q psy5142         189 NKDKNLKF  196 (410)
Q Consensus       189 ~~g~~~~~  196 (410)
                      ++|  ..|
T Consensus        75 lnG--~~f   80 (114)
T 3s6e_A           75 LHG--RWF   80 (114)
T ss_dssp             HTT--CEE
T ss_pred             hCC--CEE
Confidence            997  456

>2d9o_A DNAJ (HSP40) homolog, subfamily C, member 17; RRM domain, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.53  E-value=3e-07  Score=74.02  Aligned_cols=61  Identities=18%  Similarity=0.210  Sum_probs=52.3

Q ss_pred             CCCCHHHHHHHHHhcCCCCCCeeEEEee-CCCceEEEEeCChhHHHHHHHHhcCCCeEEcCeEEEEEecC
Q psy5142         285 EPVSREDIREVLEKVQTDDQEIVFIEFN-VGEPTAFVRYKKENNAEAVLKALGSKEIVIKDVKVSIEVVT  353 (410)
Q Consensus       285 ~~~t~edLk~~F~~~G~~~~~V~~V~~~-~g~~~afV~F~~~e~A~~Al~~l~~~~~~i~g~~v~v~~l~  353 (410)
                      ..+++++|+++|++||    .|..|.+. ...++|||+|.+.++|+.|+..+  .+  +.|+.|.|..+.
T Consensus        27 ~~~te~~L~~~F~~~G----~V~~v~i~~~~rGfaFVeF~~~~~A~~Ai~~~--~~--~~g~~l~V~~a~   88 (100)
T 2d9o_A           27 GGYSKDVLLRLLQKYG----EVLNLVLSSKKPGTAVVEFATVKAAELAVQNE--VG--LVDNPLKISWLE   88 (100)
T ss_dssp             CSCCHHHHHHHHHTTS----CEEEEEEESSSSSEEEEEESCHHHHHHHHHTC--CB--CSSSBCEEECSS
T ss_pred             CCCCHHHHHHHHHhcC----CEEEEEEccCCCCEEEEEECCHHHHHHHHHhc--CC--CCCCeEEEEEcc
Confidence            5689999999999999    99999987 34578999999999999999986  33  568888888754

>3s6e_A RNA-binding protein 39; ferredoxin-like, structural genomics, joint center for struc genomics, JCSG, protein structure initiative, PSI-biology; HET: MSE CIT; 0.95A {Mus musculus} PDB: 2lq5_A

Probab=98.53  E-value=2.1e-07  Score=76.69  Aligned_cols=73  Identities=15%  Similarity=0.207  Sum_probs=60.7

Q ss_pred             CeEEEEeCC--CCCC--------CHHHHHHHHHhcCCCCCCeeEEEeeCC--CceEEEEeCChhHHHHHHHHhcCCCeEE
Q psy5142         275 GALLKISDI--KEPV--------SREDIREVLEKVQTDDQEIVFIEFNVG--EPTAFVRYKKENNAEAVLKALGSKEIVI  342 (410)
Q Consensus       275 g~~l~v~nL--~~~~--------t~edLk~~F~~~G~~~~~V~~V~~~~g--~~~afV~F~~~e~A~~Al~~l~~~~~~i  342 (410)
                      ..+|.+.|+  +.+.        -++||++.|++||    .|..|.+.+.  .+.|||+|.+.++|.+|+..|  +|..+
T Consensus         7 s~vv~L~Nm~~~~e~~d~~~~~el~edl~~~f~kfG----~V~~v~i~~~~~~G~~fV~f~~~e~A~~Ai~~l--nG~~f   80 (114)
T 3s6e_A            7 TQCFQLSNMFNPQTEEEVGWDTEIKDDVIEECNKHG----GVIHIYVDKNSAQGNVYVKCPSIAAAIAAVNAL--HGRWF   80 (114)
T ss_dssp             CSEEEEESSCCTTTCCSTTHHHHHHHHHHHHHTTTT----CCSEEEECTTCTTCCEEEECSSHHHHHHHHHHH--TTCEE
T ss_pred             CcEEEEECCCChHHccChhHHHHHHHHHHHHHhccC----CEEEEEEecCCCcEEEEEEECCHHHHHHHHHHh--CCCEE
Confidence            346778883  2221        2478999999999    9999988765  478999999999999999999  78899


Q ss_pred             cCeEEEEEecC
Q psy5142         343 KDVKVSIEVVT  353 (410)
Q Consensus       343 ~g~~v~v~~l~  353 (410)
                      +|+.|.+....
T Consensus        81 ~GR~i~v~~~~   91 (114)
T 3s6e_A           81 AGKMITAAYVP   91 (114)
T ss_dssp             TTEECEEEEEC
T ss_pred             CCEEEEEEEEc
Confidence            99999999986

>1ufw_A Synaptojanin 2; RNP domain, structural genomics, riken structural genomics/proteomics initiative, RSGI, RNA binding protein; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=98.47  E-value=5.5e-07  Score=70.91  Aligned_cols=75  Identities=19%  Similarity=0.273  Sum_probs=62.8

Q ss_pred             cCCCCCeEEEEeCCCCC-----CCH----HHHHHHHHhcCCCCCCeeEEEeeCCCceEEEEeCChhHHHHHHHHhcCCCe
Q psy5142         270 LELPTGALLKISDIKEP-----VSR----EDIREVLEKVQTDDQEIVFIEFNVGEPTAFVRYKKENNAEAVLKALGSKEI  340 (410)
Q Consensus       270 ~~~~~g~~l~v~nL~~~-----~t~----edLk~~F~~~G~~~~~V~~V~~~~g~~~afV~F~~~e~A~~Al~~l~~~~~  340 (410)
                      ...|++.+|.|.-+++.     .-.    .+|.+.|.+||    +|..|++..+.  +||.|.+.++|.+||. |  ++.
T Consensus        10 ~~GPpD~Tv~V~~~~~~~~~~~~fd~~l~~~L~~~F~~~G----~Vilvr~v~d~--~fVtF~d~~sAl~AI~-l--dG~   80 (95)
T 1ufw_A           10 FQGPLDATVVVNLQSPTLEEKNEFPEDLRTELMQTLGSYG----TIVLVRINQGQ--MLVTFADSHSALSVLD-V--DGM   80 (95)
T ss_dssp             CCCCTTCEEEEEESSCCHHHHHSCCHHHHHHHHHHHHHHS----CCSEEEEETTE--EEEECSCSHHHHHHHH-G--GGS
T ss_pred             ecCCCCCeEEEEecCCcccccccCCHHHHHHHHHHHHHCC----CEEEEEEecCc--EEEEEcChHHHHHHHh-c--CCe
Confidence            34678888888877643     222    67999999999    99999998855  9999999999999998 8  789


Q ss_pred             EEcCeEEEEEecC
Q psy5142         341 VIKDVKVSIEVVT  353 (410)
Q Consensus       341 ~i~g~~v~v~~l~  353 (410)
                      .++|+.|+|++.+
T Consensus        81 ~v~Gr~L~V~~k~   93 (95)
T 1ufw_A           81 KVKGRAVKISGPS   93 (95)
T ss_dssp             EETTEEEEEECCC
T ss_pred             eeCCeEEEEeccC
Confidence            9999999998764

>2l9w_A U4/U6 snRNA-associated-splicing factor PRP24; RRM, U6 snRNP, RNA binding protein; NMR {Saccharomyces cerevisiae}

Probab=98.20  E-value=9.8e-06  Score=65.19  Aligned_cols=72  Identities=15%  Similarity=0.158  Sum_probs=66.5

Q ss_pred             CeEEEEeCCCCCCCHHHHHHHHHhc-----CCCCCCeeEEEeeCCCceEEEEeCChhHHHHHHHHhcCCCeEEcCeEEEE
Q psy5142         275 GALLKISDIKEPVSREDIREVLEKV-----QTDDQEIVFIEFNVGEPTAFVRYKKENNAEAVLKALGSKEIVIKDVKVSI  349 (410)
Q Consensus       275 g~~l~v~nL~~~~t~edLk~~F~~~-----G~~~~~V~~V~~~~g~~~afV~F~~~e~A~~Al~~l~~~~~~i~g~~v~v  349 (410)
                      ..+|-+.|||+.+++..|+.+..++     |    .+..|.+.++.+.|+|.|.+...|.+|.-+|  +|.+++|+.|.+
T Consensus        21 ~rtiaL~~ipDtvndarIr~lve~~~~i~~g----~i~KI~L~pDH~GAivef~d~~~AgKasLaL--~G~ef~gr~Lr~   94 (117)
T 2l9w_A           21 ETLICLFPLSDKVSPSLICQFLQEEIHINEK----DIRKILLVSDFNGAIIIFRDSKFAAKMLMIL--NGSQFQGKVIRS   94 (117)
T ss_dssp             TSCEEEECCCTTCCHHHHHHHHHHHTCCCTT----TCSEEEEETTTTEEEEECSCHHHHHHHHHHH--SSEEETTEEEEE
T ss_pred             CcEEEEecCCCCCCHHHHHHHHhhhhccCcc----ceeEEEEecCCCceEEEEccchhhHHHHhhc--CCeeecCeEEEe
Confidence            3478899999999999999999999     8    9999999999999999999999999999999  789999999988


Q ss_pred             Eec
Q psy5142         350 EVV  352 (410)
Q Consensus       350 ~~l  352 (410)
                      --+
T Consensus        95 gTv   97 (117)
T 2l9w_A           95 GTI   97 (117)
T ss_dssp             ECH
T ss_pred             cCH
Confidence            654

>3dxb_A Thioredoxin N-terminally fused to PUF60(UHM); splicing, FBP interacting repressor, RRM, electron TRAN redox-active center, transport; 2.20A {Escherichia coli O157}

Probab=98.03  E-value=6.1e-06  Score=75.48  Aligned_cols=60  Identities=13%  Similarity=0.145  Sum_probs=49.8

Q ss_pred             CCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCCccc
Q psy5142         131 ATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLKF  196 (410)
Q Consensus       131 ~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~~~  196 (410)
                      -..++|.+.|++|    |.|.+|.++++..+......++|++||+|.+.++|.+|+..++|  ..|
T Consensus       141 e~~~dl~~e~~~~----G~v~~~~v~~~~~~~~~~~~~~G~~fv~f~~~~~a~~a~~~l~g--r~~  200 (222)
T 3dxb_A          141 DLEGEVTEECGKF----GAVNRVIIYQEKQGEEEDAEIIVKIFVEFSIASETHKAIQALNG--RWF  200 (222)
T ss_dssp             THHHHHHHHHTTT----SCEEEEEEEEEECCSSTTCCEEEEEEEEESSHHHHHHHHHHHTT--CBS
T ss_pred             HHHHHHHHHHHcc----CCeEEEEEecCCCCcccCcCceeEEEEEECCHHHHHHHHHHhcC--ceE
Confidence            4568999999999    99999999876544222236899999999999999999999997  456

>2dnr_A Synaptojanin-1; RRM domain, RBD, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=97.94  E-value=9.1e-06  Score=63.61  Aligned_cols=59  Identities=15%  Similarity=0.187  Sum_probs=46.9

Q ss_pred             ceeeEeecCCC----C-CC---HHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcC
Q psy5142         119 AQSLYVKYIPV----D-AT---LDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENK  190 (410)
Q Consensus       119 ~rtv~V~~lp~----~-~t---~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~  190 (410)
                      .-||+|.-.|.    + .+   ..+|.+.|++|    |+|..|++..+            .+||+|.+.++|.+|++ ++
T Consensus         7 d~tv~V~~~~~~~~~~~fd~~l~~~L~~~F~~~----G~Vi~vr~~~d------------~~fVtF~d~~sAlaAi~-mn   69 (91)
T 2dnr_A            7 GGTVLVSIKSSLPENNFFDDALIDELLQQFASF----GEVILIRFVED------------KMWVTFLEGSSALNVLS-LN   69 (91)
T ss_dssp             SCEEEEEEECSSTTTCSCCHHHHHHHHHHHHTT----CCEEEEEECSS------------SEEEEESSHHHHHHGGG-GT
T ss_pred             CCeEEEEeccCccccccCCHHHHHHHHHHHHhC----CCeEEEEEecC------------CEEEEECChHHHHHHHh-cC
Confidence            45788877662    2 23   37799999999    99999998753            28999999999999999 77


Q ss_pred             CCCccc
Q psy5142         191 DKNLKF  196 (410)
Q Consensus       191 g~~~~~  196 (410)
                      |  ..+
T Consensus        70 G--~~v   73 (91)
T 2dnr_A           70 G--KEL   73 (91)
T ss_dssp             T--CEE
T ss_pred             C--eEe
Confidence            6  455

>1ufw_A Synaptojanin 2; RNP domain, structural genomics, riken structural genomics/proteomics initiative, RSGI, RNA binding protein; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=97.77  E-value=2.9e-05  Score=61.10  Aligned_cols=59  Identities=14%  Similarity=0.171  Sum_probs=47.8

Q ss_pred             ceeeEeecCCCC------CC---HHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhc
Q psy5142         119 AQSLYVKYIPVD------AT---LDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNEN  189 (410)
Q Consensus       119 ~rtv~V~~lp~~------~t---~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~  189 (410)
                      .-||+|.-++.+      .+   ..+|.+.|++|    |+|..|++..+            -+||+|.+.++|.+|++ +
T Consensus        15 D~Tv~V~~~~~~~~~~~~fd~~l~~~L~~~F~~~----G~Vilvr~v~d------------~~fVtF~d~~sAl~AI~-l   77 (95)
T 1ufw_A           15 DATVVVNLQSPTLEEKNEFPEDLRTELMQTLGSY----GTIVLVRINQG------------QMLVTFADSHSALSVLD-V   77 (95)
T ss_dssp             TCEEEEEESSCCHHHHHSCCHHHHHHHHHHHHHH----SCCSEEEEETT------------EEEEECSCSHHHHHHHH-G
T ss_pred             CCeEEEEecCCcccccccCCHHHHHHHHHHHHHC----CCEEEEEEecC------------cEEEEEcChHHHHHHHh-c
Confidence            468999888643      23   36789999999    99999998753            19999999999999999 7


Q ss_pred             CCCCccc
Q psy5142         190 KDKNLKF  196 (410)
Q Consensus       190 ~g~~~~~  196 (410)
                      +|  ..+
T Consensus        78 dG--~~v   82 (95)
T 1ufw_A           78 DG--MKV   82 (95)
T ss_dssp             GG--SEE
T ss_pred             CC--eee
Confidence            76  555

>2dhx_A Poly (ADP-ribose) polymerase family, member 10 variant; RRM domain, RNA- binding, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=97.69  E-value=0.00019  Score=57.22  Aligned_cols=61  Identities=15%  Similarity=0.147  Sum_probs=51.0

Q ss_pred             cceeeEeecCCCCCCHHHHHHHHhh-ccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcC
Q psy5142         118 IAQSLYVKYIPVDATLDDIKDFFKK-NTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENK  190 (410)
Q Consensus       118 ~~rtv~V~~lp~~~t~~~L~~~F~~-~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~  190 (410)
                      -.++|.|.|||.++..+.|.-+|++ --+..|+|.+|...            .+.|+|+|.+.+.|++.|+...
T Consensus         7 ~~~~I~V~~lPp~~~~e~L~LYFEn~rrsGGG~V~~v~~~------------~~~AvItF~d~~va~rVL~k~~   68 (104)
T 2dhx_A            7 GGVAVEVRGLPPAVPDELLTLYFENRRRSGGGPVLSWQRL------------GCGGVLTFREPADAERVLAQAD   68 (104)
T ss_dssp             CCCEEEEESCCTTSCHHHHHHHHHCTTTTCCCCEEEEEEE------------TTEEEEEESSHHHHHHHHTCSC
T ss_pred             CccEEEEECCCCCCChhHheEEEeCCCcCCCceeeEEEEc------------CCcEEEEEcChHHHHHHhcCCc
Confidence            3579999999999999999999987 33456899998753            2569999999999999998844

>3dxb_A Thioredoxin N-terminally fused to PUF60(UHM); splicing, FBP interacting repressor, RRM, electron TRAN redox-active center, transport; 2.20A {Escherichia coli O157}

Probab=97.65  E-value=5.7e-05  Score=68.94  Aligned_cols=60  Identities=17%  Similarity=0.129  Sum_probs=52.9

Q ss_pred             CHHHHHHHHHhcCCCCCCeeEEEeeC----------CCceEEEEeCChhHHHHHHHHhcCCCeEEcCeEEEEEecC
Q psy5142         288 SREDIREVLEKVQTDDQEIVFIEFNV----------GEPTAFVRYKKENNAEAVLKALGSKEIVIKDVKVSIEVVT  353 (410)
Q Consensus       288 t~edLk~~F~~~G~~~~~V~~V~~~~----------g~~~afV~F~~~e~A~~Al~~l~~~~~~i~g~~v~v~~l~  353 (410)
                      .+++|++.|++||    .|..|.+.+          +.+.+||+|.+.++|.+|+..|  +|..++|+.|.+....
T Consensus       142 ~~~dl~~e~~~~G----~v~~~~v~~~~~~~~~~~~~~G~~fv~f~~~~~a~~a~~~l--~gr~~~gr~i~~~~~~  211 (222)
T 3dxb_A          142 LEGEVTEECGKFG----AVNRVIIYQEKQGEEEDAEIIVKIFVEFSIASETHKAIQAL--NGRWFAGRKVVAEVYD  211 (222)
T ss_dssp             HHHHHHHHHTTTS----CEEEEEEEEEECCSSTTCCEEEEEEEEESSHHHHHHHHHHH--TTCBSSSSBCEEEECC
T ss_pred             HHHHHHHHHHccC----CeEEEEEecCCCCcccCcCceeEEEEEECCHHHHHHHHHHh--cCceECCeEEEEEEcC
Confidence            5689999999999    999988862          2346999999999999999999  7789999999999876

>4eyt_A Telomerase associated protein P65; RNA, LA protein, LARP7, RRM, XRRM, RNA binding protein; 2.50A {Tetrahymena thermophila} PDB: 4erd_A

Probab=97.57  E-value=0.0011  Score=51.17  Aligned_cols=88  Identities=15%  Similarity=0.331  Sum_probs=70.3

Q ss_pred             CCCCeEEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCCCceEEEEeCChhHHHHHHHHh---cCCC--eEEcCeE
Q psy5142         272 LPTGALLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVGEPTAFVRYKKENNAEAVLKAL---GSKE--IVIKDVK  346 (410)
Q Consensus       272 ~~~g~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g~~~afV~F~~~e~A~~Al~~l---~~~~--~~i~g~~  346 (410)
                      ...+|+++|-|+|..+-..++--....+|    ---|+|+..  +.|.|+|.+.+...-|+..+   +++.  ++|.|..
T Consensus         9 ikqnclikiinipqgtlkaevvlavrhlg----yefycdyid--gqamirfqnsdeqrlaiqkllnhnnnklqieirgqi   82 (129)
T 4eyt_A            9 IKQNCLIKIINIPQGTLKAEVVLAVRHLG----YEFYCDYID--GQAMIRFQNSDEQRLAIQKLLNHNNNKLQIEIRGQI   82 (129)
T ss_dssp             -CCSCEEEEECCCTTCCHHHHHHHHHTTC----CCEEEEECS--SCEEEEESSHHHHHHHHHHHEETTTTEEEEEETTEE
T ss_pred             hhhCcEEEEEecCCCceeeeeEEeehhcC----eeEeeeeec--CeeEEEecCChHHHHHHHHHHhcCCCEEEEEEccee
Confidence            34579999999999998888887888888    556788876  45999999999999999988   3333  4667887


Q ss_pred             EE-EEecCchHHHHHHHHhH
Q psy5142         347 VS-IEVVTGEEEQTVLDRMK  365 (410)
Q Consensus       347 v~-v~~l~g~eE~~yw~k~~  365 (410)
                      .. ++.+..+||+.||.-|.
T Consensus        83 cdvistipedeeknywnyik  102 (129)
T 4eyt_A           83 CDVISTIPEDEEKNYWNYIK  102 (129)
T ss_dssp             EEEECCCCHHHHHHHHHHHH
T ss_pred             eeeeecCCchhhhchhhhee
Confidence            74 45667899999998775

>1whv_A Poly(A)-specific ribonuclease; RNA recognition motif, RRM, RNA binding domain, RBD, RNP, PARN, structural genomics; NMR {Mus musculus} SCOP: d.58.7.1 PDB: 2rok_A*

Probab=97.55  E-value=0.0003  Score=55.36  Aligned_cols=58  Identities=12%  Similarity=0.307  Sum_probs=50.9

Q ss_pred             CCCCCeEEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCCCceEEEEeCChhHHHHHHHHh
Q psy5142         271 ELPTGALLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVGEPTAFVRYKKENNAEAVLKAL  335 (410)
Q Consensus       271 ~~~~g~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g~~~afV~F~~~e~A~~Al~~l  335 (410)
                      ......+++| +.|..+...||.++|+.||  ++.|.||+    ++.|||.|.+++.|..|+..+
T Consensus        12 ~p~r~HVf~l-~FP~ewKt~DI~~lFs~fg--gv~I~Wid----DTsAlvvf~~~~~a~~al~~i   69 (100)
T 1whv_A           12 QPKRDHVLHV-TFPKEWKTSDLYQLFSAFG--NIQISWID----DTSAFVSLSQPEQVQIAVNTS   69 (100)
T ss_dssp             CCCCCSEEEE-ECCTTCCHHHHHHHHTTTC--SCCCEEEE----TTEEEEECSCHHHHHHHHHHH
T ss_pred             CCCCCeEEEE-eCChhhhhHHHHHHhhccC--CEEEEEEc----CCeEEEEecCHHHHHHHHHhc
Confidence            3445568888 9999999999999999998  56889987    588999999999999999987

>2l9w_A U4/U6 snRNA-associated-splicing factor PRP24; RRM, U6 snRNP, RNA binding protein; NMR {Saccharomyces cerevisiae}

Probab=97.40  E-value=0.00068  Score=54.53  Aligned_cols=67  Identities=13%  Similarity=0.203  Sum_probs=57.6

Q ss_pred             cceeeEeecCCCCCCHHHHHHHHhhccC-CCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCCccc
Q psy5142         118 IAQSLYVKYIPVDATLDDIKDFFKKNTS-EDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLKF  196 (410)
Q Consensus       118 ~~rtv~V~~lp~~~t~~~L~~~F~~~~~-~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~~~  196 (410)
                      ..|||-+-|||-+++...|++|.++++. ..|.|..|.++.+..+          |+|+|.+...|-+|.-.++|  ..|
T Consensus        20 ~~rtiaL~~ipDtvndarIr~lve~~~~i~~g~i~KI~L~pDH~G----------Aivef~d~~~AgKasLaL~G--~ef   87 (117)
T 2l9w_A           20 LETLICLFPLSDKVSPSLICQFLQEEIHINEKDIRKILLVSDFNG----------AIIIFRDSKFAAKMLMILNG--SQF   87 (117)
T ss_dssp             TTSCEEEECCCTTCCHHHHHHHHHHHTCCCTTTCSEEEEETTTTE----------EEEECSCHHHHHHHHHHHSS--EEE
T ss_pred             CCcEEEEecCCCCCCHHHHHHHHhhhhccCccceeEEEEecCCCc----------eEEEEccchhhHHHHhhcCC--eee
Confidence            4799999999999999999999998844 5688999988765443          99999999999999988886  677

>3ctr_A Poly(A)-specific ribonuclease PARN; protein-RNA-complex, M7G-CAP, M7GTP, RNA recognition motif, RRM, cytoplasm, exonuclease, hydrolase, magnesium; HET: MGP; 2.10A {Homo sapiens}

Probab=97.22  E-value=0.00028  Score=55.76  Aligned_cols=56  Identities=13%  Similarity=0.326  Sum_probs=48.5

Q ss_pred             CCeEEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCCCceEEEEeCChhHHHHHHHHhc
Q psy5142         274 TGALLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVGEPTAFVRYKKENNAEAVLKALG  336 (410)
Q Consensus       274 ~g~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g~~~afV~F~~~e~A~~Al~~l~  336 (410)
                      ...+++| +.|..+...||.++|+.||  ++.|.||+    ++.|||.|.+++.|..|+..+.
T Consensus         5 R~HV~~l-~FP~ewKt~Di~~lFs~fg--gv~I~Wid----DTsAlvvf~~~~~a~~al~~i~   60 (101)
T 3ctr_A            5 SDHVLHV-TFPKEWKTSDLYQLFSAFG--NIQISWID----DTSAFVSLSQPEQVKIAVNTSK   60 (101)
T ss_dssp             EEEEEEE-ECCTTCCHHHHHHHTTTSE--EEEEEEEE----TTEEEEEEEEECHHHHHHHHHT
T ss_pred             CCeEEEE-eCChhhhhHHHHHHHhccC--CEEEEEEc----CCeEEEEecCHHHHHHHHHhcc
Confidence            4457777 9999999999999999998  45677776    5889999999999999999883

>2dhx_A Poly (ADP-ribose) polymerase family, member 10 variant; RRM domain, RNA- binding, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=97.16  E-value=0.0013  Score=52.30  Aligned_cols=71  Identities=13%  Similarity=0.177  Sum_probs=59.5

Q ss_pred             CCeEEEEeCCCCCCCHHHHHHHHHhc---CCCCCCeeEEEeeCCCceEEEEeCChhHHHHHHHHhcCCCeEEcCeEEEEE
Q psy5142         274 TGALLKISDIKEPVSREDIREVLEKV---QTDDQEIVFIEFNVGEPTAFVRYKKENNAEAVLKALGSKEIVIKDVKVSIE  350 (410)
Q Consensus       274 ~g~~l~v~nL~~~~t~edLk~~F~~~---G~~~~~V~~V~~~~g~~~afV~F~~~e~A~~Al~~l~~~~~~i~g~~v~v~  350 (410)
                      -+..|.|.|||+.++++.|.-+|+.-   |  +-+|..|++..  ..|+|.|.++..|+..|+.-   .+.+++..|.|.
T Consensus         7 ~~~~I~V~~lPp~~~~e~L~LYFEn~rrsG--GG~V~~v~~~~--~~AvItF~d~~va~rVL~k~---~H~L~~~~LsV~   79 (104)
T 2dhx_A            7 GGVAVEVRGLPPAVPDELLTLYFENRRRSG--GGPVLSWQRLG--CGGVLTFREPADAERVLAQA---DHELHGAQLSLR   79 (104)
T ss_dssp             CCCEEEEESCCTTSCHHHHHHHHHCTTTTC--CCCEEEEEEET--TEEEEEESSHHHHHHHHTCS---CCBSSSSBCEEE
T ss_pred             CccEEEEECCCCCCChhHheEEEeCCCcCC--CceeeEEEEcC--CcEEEEEcChHHHHHHhcCC---cceecCeEEEEE
Confidence            35689999999999999999999972   3  24899998877  88999999999999888762   578888888886


Q ss_pred             e
Q psy5142         351 V  351 (410)
Q Consensus       351 ~  351 (410)
                      .
T Consensus        80 P   80 (104)
T 2dhx_A           80 P   80 (104)
T ss_dssp             E
T ss_pred             c
Confidence            4

>1uw4_A UPF3X; nonsense mediated mRNA decay protein, RNA-binding protein, N domain, MIF4G domain; 1.95A {Homo sapiens} SCOP: d.58.7.4

Probab=96.59  E-value=0.0067  Score=47.42  Aligned_cols=56  Identities=16%  Similarity=0.360  Sum_probs=50.3

Q ss_pred             EEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCCCc--------eEEEEeCChhHHHHHHHHhc
Q psy5142         277 LLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVGEP--------TAFVRYKKENNAEAVLKALG  336 (410)
Q Consensus       277 ~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g~~--------~afV~F~~~e~A~~Al~~l~  336 (410)
                      -|.|+.||+..|++++.+.++.+.    .+.+..+.+|+.        .|||.|.+.+++....+.++
T Consensus         3 KvVIRrLPP~LteeeF~~~l~~~~----~~d~~~fv~G~~s~~~~~~SRaYi~f~~~e~v~~f~~~~~   66 (91)
T 1uw4_A            3 KVVIRRLPPTLTKEQLQEHLQPMP----EHDYFEFFSNDTSLYPHMYARAYINFKNQEDIILFRDRFD   66 (91)
T ss_dssp             EEEEEEECTTCCHHHHHHHHCSCC----CEEEEEEEESCCSSTTCCCEEEEEEESSSHHHHHHHHHHT
T ss_pred             EEEEeCCCCCCCHHHHHHHhcCcc----cceEEEEeCCccCCCCCcceEEEEEeCCHHHHHHHHHHhC
Confidence            477999999999999999999998    899999988763        39999999999999999994

>1wey_A Calcipressin 1; structural genomics, RRM domain, riken structural genomics/proteomics initiative, RSGI, RNA binding protein; NMR {Mus musculus} SCOP: d.58.7.1

Probab=96.06  E-value=0.019  Score=45.83  Aligned_cols=72  Identities=8%  Similarity=0.059  Sum_probs=59.0

Q ss_pred             eEEEEeCCCCCC-C----HHHHHHHHHhcCCCCCCeeEEEeeCCCceEEEEeCChhHHHHHHHHhcCCCeEEcCeEEEEE
Q psy5142         276 ALLKISDIKEPV-S----REDIREVLEKVQTDDQEIVFIEFNVGEPTAFVRYKKENNAEAVLKALGSKEIVIKDVKVSIE  350 (410)
Q Consensus       276 ~~l~v~nL~~~~-t----~edLk~~F~~~G~~~~~V~~V~~~~g~~~afV~F~~~e~A~~Al~~l~~~~~~i~g~~v~v~  350 (410)
                      ..|.|.||+.++ .    .+.++++|..|+    ++....+.+.=...-|.|.++++|.+|-..|  ++..++|..+++=
T Consensus         6 ntLiitnl~~~vF~~~~lk~~~e~Lf~~~~----~~~tF~~lkSFRRirv~F~~~~~A~~AR~~L--h~~~f~g~~~r~Y   79 (104)
T 1wey_A            6 SGLIACVANDDVFSESETRAKFESLFRTYD----KDTTFQYFKSFKRVRINFSNPLSAADARLRL--HKTEFLGKEMKLY   79 (104)
T ss_dssp             CEEEEECCCGGGGSTTTHHHHHHHHHHTTC----SSCEEEEETTTTEEEEECSSTTHHHHHHHTS--TTSEETTEECEEE
T ss_pred             ceEEEecCCHHHcCCHHHHHHHHHHHHhhC----cCcceeecCcceEEEEEeCChHHHHHHHHHh--ccceecCceeEEE
Confidence            368899998866 3    367788999999    7766677776667899999999999999999  7899999988776


Q ss_pred             ecC
Q psy5142         351 VVT  353 (410)
Q Consensus       351 ~l~  353 (410)
                      ..+
T Consensus        80 Fgq   82 (104)
T 1wey_A           80 FAQ   82 (104)
T ss_dssp             CCC
T ss_pred             ecC
Confidence            543

>1whv_A Poly(A)-specific ribonuclease; RNA recognition motif, RRM, RNA binding domain, RBD, RNP, PARN, structural genomics; NMR {Mus musculus} SCOP: d.58.7.1 PDB: 2rok_A*

Probab=96.01  E-value=0.0069  Score=47.64  Aligned_cols=53  Identities=23%  Similarity=0.286  Sum_probs=42.3

Q ss_pred             eeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhc
Q psy5142         120 QSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNEN  189 (410)
Q Consensus       120 rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~  189 (410)
                      .-+++ +||.+....||..+|++|    |.|. |+.+  .         -..|||.|.+++.|..|+..+
T Consensus        17 HVf~l-~FP~ewKt~DI~~lFs~f----ggv~-I~Wi--d---------DTsAlvvf~~~~~a~~al~~i   69 (100)
T 1whv_A           17 HVLHV-TFPKEWKTSDLYQLFSAF----GNIQ-ISWI--D---------DTSAFVSLSQPEQVQIAVNTS   69 (100)
T ss_dssp             SEEEE-ECCTTCCHHHHHHHHTTT----CSCC-CEEE--E---------TTEEEEECSCHHHHHHHHHHH
T ss_pred             eEEEE-eCChhhhhHHHHHHhhcc----CCEE-EEEE--c---------CCeEEEEecCHHHHHHHHHhc
Confidence            34555 999999999999999999    8442 3332  2         346999999999999999976

>3ctr_A Poly(A)-specific ribonuclease PARN; protein-RNA-complex, M7G-CAP, M7GTP, RNA recognition motif, RRM, cytoplasm, exonuclease, hydrolase, magnesium; HET: MGP; 2.10A {Homo sapiens}

Probab=95.88  E-value=0.0079  Score=47.44  Aligned_cols=54  Identities=20%  Similarity=0.261  Sum_probs=42.4

Q ss_pred             eeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcC
Q psy5142         121 SLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENK  190 (410)
Q Consensus       121 tv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~  190 (410)
                      -||+-+||.+....||..+|++|    |.   |.|.-..+         ..|||.|.+++.|..|+..+.
T Consensus         7 HV~~l~FP~ewKt~Di~~lFs~f----gg---v~I~WidD---------TsAlvvf~~~~~a~~al~~i~   60 (101)
T 3ctr_A            7 HVLHVTFPKEWKTSDLYQLFSAF----GN---IQISWIDD---------TSAFVSLSQPEQVKIAVNTSK   60 (101)
T ss_dssp             EEEEEECCTTCCHHHHHHHTTTS----EE---EEEEEEET---------TEEEEEEEEECHHHHHHHHHT
T ss_pred             eEEEEeCChhhhhHHHHHHHhcc----CC---EEEEEEcC---------CeEEEEecCHHHHHHHHHhcc
Confidence            34444999999999999999999    93   33332223         369999999999999999763

>3pq1_A Poly(A) RNA polymerase; nucleotidyl transferase, RNP-type RNA binding domain, poly(A polymerase, mitochondria, transferase; 3.10A {Homo sapiens}

Probab=95.79  E-value=0.0041  Score=62.90  Aligned_cols=62  Identities=15%  Similarity=0.198  Sum_probs=47.9

Q ss_pred             hhhhccceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHh
Q psy5142         113 FVKDLIAQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNE  188 (410)
Q Consensus       113 ~~~~~~~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~  188 (410)
                      .|.+...|+|+|. +|..+++.+|.++|++|    |+|.++.|-+         ...-||.|||.+.+++..++..
T Consensus        47 ~r~~qa~rsv~v~-~~~~~~~~~l~~y~~~~----g~i~~~~~~~---------~~g~~~~vef~~~~~~~~~~~~  108 (464)
T 3pq1_A           47 ERREQAQRTVLIH-CPEKISENKFLKYLSQF----GPINNHFFYE---------SFGLYAVVEFCQKESIGSLQNG  108 (464)
T ss_dssp             HHHHHHHTEEEEE-ECCC---CHHHHHHGGG----SCCCCEEEEC---------SSSEEEEEECC---CCHHHHSS
T ss_pred             HHHHHhcceEEEE-cCCCCCHHHHHHHHHhc----CCcceEEEEc---------cCCeEEEEEeCCHHHHHHHHhc
Confidence            4667888999998 79999999999999999    9999999864         2346999999999999988755

>1uw4_A UPF3X; nonsense mediated mRNA decay protein, RNA-binding protein, N domain, MIF4G domain; 1.95A {Homo sapiens} SCOP: d.58.7.4

Probab=95.66  E-value=0.033  Score=43.45  Aligned_cols=69  Identities=12%  Similarity=0.240  Sum_probs=53.1

Q ss_pred             eeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCCccc
Q psy5142         120 QSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLKF  196 (410)
Q Consensus       120 rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~~~  196 (410)
                      ..|.|+.||+..|++++.+.++.+    ..+..........+.++  ..-.-|||.|.+.+++....+..+|  ..|
T Consensus         2 ~KvVIRrLPP~LteeeF~~~l~~~----~~~d~~~fv~G~~s~~~--~~~SRaYi~f~~~e~v~~f~~~~~g--~~F   70 (91)
T 1uw4_A            2 SKVVIRRLPPTLTKEQLQEHLQPM----PEHDYFEFFSNDTSLYP--HMYARAYINFKNQEDIILFRDRFDG--YVF   70 (91)
T ss_dssp             CEEEEEEECTTCCHHHHHHHHCSC----CCEEEEEEEESCCSSTT--CCCEEEEEEESSSHHHHHHHHHHTT--CEE
T ss_pred             cEEEEeCCCCCCCHHHHHHHhcCc----ccceEEEEeCCccCCCC--CcceEEEEEeCCHHHHHHHHHHhCC--cEE
Confidence            468999999999999999999998    77766655443322110  2235599999999999999999997  455

>1wwh_A Nucleoporin 35, nucleoporin; structural genomics, MPPN, riken structural genomics/proteomics initiative, RSGI, protein transport; 2.70A {Mus musculus} SCOP: d.58.7.1

Probab=95.64  E-value=0.033  Score=45.56  Aligned_cols=59  Identities=19%  Similarity=0.136  Sum_probs=50.6

Q ss_pred             ccceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcC
Q psy5142         117 LIAQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENK  190 (410)
Q Consensus       117 ~~~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~  190 (410)
                      ...+-|.|-+||... .+.|...|++|    |.|.....+          ....+..|.|.+..+|++||....
T Consensus        22 ~~~~wVtVFGFp~~~-~~~VL~~F~~~----G~Iv~~~~~----------~~~NWihI~Y~s~~~A~rAL~kNG   80 (119)
T 1wwh_A           22 LDDTWVTVFGFPQAS-ASYILLQFAQY----GNILKHVMS----------NTGNWMHIRYQSKLQARKALSKDG   80 (119)
T ss_dssp             GGGGEEEEECCCGGG-HHHHHHHHHTT----SCEEEEEEC----------SSSSEEEEEESSHHHHHHHHTTTT
T ss_pred             CCCCEEEEECCCHHH-HHHHHHHHHhh----CcEEEeccC----------CCCCeEEEEeCCHHHHHHHHHhCC
Confidence            457889999999885 68899999999    999988862          336789999999999999999854

>1wwh_A Nucleoporin 35, nucleoporin; structural genomics, MPPN, riken structural genomics/proteomics initiative, RSGI, protein transport; 2.70A {Mus musculus} SCOP: d.58.7.1

Probab=95.19  E-value=0.058  Score=44.09  Aligned_cols=71  Identities=8%  Similarity=0.116  Sum_probs=57.2

Q ss_pred             CeEEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCCCceEEEEeCChhHHHHHHHHhcCCCeEEcC-eEEEEEecC
Q psy5142         275 GALLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVGEPTAFVRYKKENNAEAVLKALGSKEIVIKD-VKVSIEVVT  353 (410)
Q Consensus       275 g~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g~~~afV~F~~~e~A~~Al~~l~~~~~~i~g-~~v~v~~l~  353 (410)
                      .+-|.|.|.|+.. -..+-..|++||    +|....+..+..--+|+|.++.+|++||..   ++..++| ..|-|..+.
T Consensus        24 ~~wVtVFGFp~~~-~~~VL~~F~~~G----~Iv~~~~~~~~NWihI~Y~s~~~A~rAL~k---NG~ii~g~~mIGV~p~~   95 (119)
T 1wwh_A           24 DTWVTVFGFPQAS-ASYILLQFAQYG----NILKHVMSNTGNWMHIRYQSKLQARKALSK---DGRIFGESIMIGVKPCI   95 (119)
T ss_dssp             GGEEEEECCCGGG-HHHHHHHHHTTS----CEEEEEECSSSSEEEEEESSHHHHHHHHTT---TTCEETTTEECEEEECC
T ss_pred             CCEEEEECCCHHH-HHHHHHHHHhhC----cEEEeccCCCCCeEEEEeCCHHHHHHHHHh---CCeEecCCEEEEEEECC
Confidence            4577788988875 567888999999    998888766777899999999999999977   5777875 556777655

>2l08_A Regulator of nonsense transcripts 3A; NESG, nonsense regulator, structural genomics, PSI-2, protei structure initiative; NMR {Homo sapiens}

Probab=95.00  E-value=0.022  Score=44.90  Aligned_cols=56  Identities=13%  Similarity=0.332  Sum_probs=47.2

Q ss_pred             EEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCCCc--------eEEEEeCChhHHHHHHHHhc
Q psy5142         277 LLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVGEP--------TAFVRYKKENNAEAVLKALG  336 (410)
Q Consensus       277 ~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g~~--------~afV~F~~~e~A~~Al~~l~  336 (410)
                      -|.|+.||+..|++++.+.++.+-    ++.|..+.+|+.        .|||.|.+.++.....+.++
T Consensus        11 KvVIRrLPP~Ltee~F~~~l~~~~----~~d~~~fv~G~~s~~~~~~SRAYI~F~~~edv~~F~~~f~   74 (97)
T 2l08_A           11 MVVIRRLPPGLTKEQLEEQLRPLP----AHDYFEFFAADLSLYPHLYSRAYINFRNPDDILLFRDRFD   74 (97)
T ss_dssp             CEEEECCCSCSCHHHHTTTTSCCS----SEEECCCCCCCSSSCCSCCCCCEEEESCHHHHHHHHHHST
T ss_pred             eEEEeCCCCCCCHHHHHHHhCCcC----ccceEEEeCCccCCCCCcceEEEEEeCCHHHHHHHHHHcC
Confidence            467999999999999888888776    777877777653        39999999999999999983

>2lsl_A Telomerase associated protein P65; LA protein, LARP7, RRM, RNA BI protein; NMR {Tetrahymena thermophila}

Probab=92.55  E-value=0.014  Score=45.41  Aligned_cols=92  Identities=16%  Similarity=0.339  Sum_probs=59.1

Q ss_pred             cCCCCCeEEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeC-----------------------CCceEEEEeCChh
Q psy5142         270 LELPTGALLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNV-----------------------GEPTAFVRYKKEN  326 (410)
Q Consensus       270 ~~~~~g~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~-----------------------g~~~afV~F~~~e  326 (410)
                      .....+|+++|-|+|..+-..++--....+|    ---|+++..                       ..+.|.|+|.+.+
T Consensus        13 veikqnclikiinipqgtlkaevvlavrhlg----yefycdyidensnqinsnliqqdqhpqlndllkegqamirfqnsd   88 (137)
T 2lsl_A           13 VEIKQNCLIKIINIPQGTLKAEVVLAVRHLG----YEFYCDYIDENSNQINSNLIQQDQHPQLNDLLKEGQAMIRFQNSD   88 (137)
Confidence            3455678999999998776555444444444    111222211                       1234899999988


Q ss_pred             HHHHHHHHh---cCCC--eEEcCeEE-EEEecCchHHHHHHHHhH
Q psy5142         327 NAEAVLKAL---GSKE--IVIKDVKV-SIEVVTGEEEQTVLDRMK  365 (410)
Q Consensus       327 ~A~~Al~~l---~~~~--~~i~g~~v-~v~~l~g~eE~~yw~k~~  365 (410)
                      ...-|+..+   +++.  ++|.|... .++....+||+.||.-|+
T Consensus        89 eqrlaiqkllnhnnnklqieirgqicdvistipedeeknywnyik  133 (137)
T 2lsl_A           89 EQRLAIQKLLNHNNNKLQIEIRGQICDVISTIPEDEEKNYWNYIK  133 (137)
Confidence            888888887   3333  45667766 345667799999998764

>2l08_A Regulator of nonsense transcripts 3A; NESG, nonsense regulator, structural genomics, PSI-2, protei structure initiative; NMR {Homo sapiens}

Probab=92.84  E-value=0.13  Score=40.48  Aligned_cols=70  Identities=10%  Similarity=0.175  Sum_probs=47.2

Q ss_pred             ceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCCccc
Q psy5142         119 AQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLKF  196 (410)
Q Consensus       119 ~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~~~  196 (410)
                      .-.|.|+.||+..|++++.+.++++    =.+..........+..  ...-.-|||.|.+.+++..+.+..+|  ..|
T Consensus         9 ~~KvVIRrLPP~Ltee~F~~~l~~~----~~~d~~~fv~G~~s~~--~~~~SRAYI~F~~~edv~~F~~~f~g--~~F   78 (97)
T 2l08_A            9 SHMVVIRRLPPGLTKEQLEEQLRPL----PAHDYFEFFAADLSLY--PHLYSRAYINFRNPDDILLFRDRFDG--YIF   78 (97)
T ss_dssp             CCCEEEECCCSCSCHHHHTTTTSCC----SSEEECCCCCCCSSSC--CSCCCCCEEEESCHHHHHHHHHHSTT--EEE
T ss_pred             ceeEEEeCCCCCCCHHHHHHHhCCc----CccceEEEeCCccCCC--CCcceEEEEEeCCHHHHHHHHHHcCC--cEE
Confidence            3578999999999999988877766    3332222111111100  01224599999999999999999997  455

>1wey_A Calcipressin 1; structural genomics, RRM domain, riken structural genomics/proteomics initiative, RSGI, RNA binding protein; NMR {Mus musculus} SCOP: d.58.7.1

Probab=92.51  E-value=0.21  Score=39.67  Aligned_cols=62  Identities=18%  Similarity=0.185  Sum_probs=48.1

Q ss_pred             ceeeEeecCCCCC-C---H-HHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCC
Q psy5142         119 AQSLYVKYIPVDA-T---L-DDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKN  193 (410)
Q Consensus       119 ~rtv~V~~lp~~~-t---~-~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~  193 (410)
                      ..||+|.|||.++ +   . +.++++|..|    +++......+         .++ =+-|.|.++++|.+|-..+++  
T Consensus         5 pntLiitnl~~~vF~~~~lk~~~e~Lf~~~----~~~~tF~~lk---------SFR-Rirv~F~~~~~A~~AR~~Lh~--   68 (104)
T 1wey_A            5 SSGLIACVANDDVFSESETRAKFESLFRTY----DKDTTFQYFK---------SFK-RVRINFSNPLSAADARLRLHK--   68 (104)
T ss_dssp             CCEEEEECCCGGGGSTTTHHHHHHHHHHTT----CSSCEEEEET---------TTT-EEEEECSSTTHHHHHHHTSTT--
T ss_pred             CceEEEecCCHHHcCCHHHHHHHHHHHHhh----CcCcceeecC---------cce-EEEEEeCChHHHHHHHHHhcc--
Confidence            4689999998763 2   2 6779999999    8887776654         233 378999999999999999985  


Q ss_pred             ccc
Q psy5142         194 LKF  196 (410)
Q Consensus       194 ~~~  196 (410)
                      ..|
T Consensus        69 ~~f   71 (104)
T 1wey_A           69 TEF   71 (104)
T ss_dssp             SEE
T ss_pred             cee
Confidence            445

>3p3d_A Nucleoporin 53; structural genomics, PSI-2, protein structure initiative, NE structural genomix research consortium, nysgxrc; 2.35A {Pichia guilliermondii}

Probab=90.39  E-value=0.17  Score=42.01  Aligned_cols=67  Identities=16%  Similarity=0.116  Sum_probs=45.2

Q ss_pred             ceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEE-EEcccCc---------ccccccccccEEEEEecCHHHHHHHHHh
Q psy5142         119 AQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNI-IMRNYQD---------KLANQKKFKGSIFVTFDNKENAEKFLNE  188 (410)
Q Consensus       119 ~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v-~l~~~~~---------~~~~~~~~kG~afVeF~~~e~A~~Al~~  188 (410)
                      ...|.|=|+|.+.+ ..|.+.|++|    |.|..- .+.+...         +..+......+..|+|+++.+|.+||..
T Consensus         7 e~~VtVFGFp~~~~-~~VI~~Fs~~----G~IlE~~~~~~~~~~~~~~~~~~k~yP~f~g~NWikItYds~~~A~rAL~~   81 (132)
T 3p3d_A            7 ELAILVFGYPETMA-NQVIAYFQEF----GTILEDFEVLRKPQAMTVGLQDRQFVPIFSGNSWTKITYDNPASAVDALLE   81 (132)
T ss_dssp             -CEEEEECCCGGGH-HHHHHHHGGG----SCBCSCCGGGCCC-----------CCCCCEETTEEEEEBSSHHHHHHHHTT
T ss_pred             ceEEEEEecCHHHH-HHHHHHHHhh----ceEeeeccccccccccccccccccccCccCCCcEEEEEcCCHHHHHHHHHh
Confidence            45788889987654 6788899999    999762 2222110         1000011356889999999999999988


Q ss_pred             cC
Q psy5142         189 NK  190 (410)
Q Consensus       189 ~~  190 (410)
                      ..
T Consensus        82 NG   83 (132)
T 3p3d_A           82 NG   83 (132)
T ss_dssp             TT
T ss_pred             CC
Confidence            65

>3htx_A HEN1; HEN1, small RNA methyltransferase, protein-RNA complex; HET: SAH; 3.10A {Arabidopsis thaliana}

Probab=85.94  E-value=1  Score=48.76  Aligned_cols=82  Identities=22%  Similarity=0.362  Sum_probs=60.8

Q ss_pred             chhHHHHHHHHHHHHHhCCCCCCCChhHHhhhc----cC-C--CeEehHHHHhh-HHHHhccC--------c----HHHH
Q psy5142          18 EVSKLENQIIEQIEYYFSDINLARDKFLQGEIK----KD-D--GWVELTTMLKF-ARLAKMTT--------E----AKVI   77 (410)
Q Consensus        18 ~~~~~~~~i~~QlEfYfsd~Nl~~D~fl~~~~~----~~-~--g~v~l~~l~~F-~r~k~l~~--------d----~~~i   77 (410)
                      ...+....|+.+|.|.|||+=|.-..=|..++.    .+ +  |.||.++|+++ .|+..+..        |    ...|
T Consensus       103 ~~~~~~~~~~~~~~~~f~~e~~~~~~pl~~h~~~~~~r~~~~~~~~p~~~~~~~d~k~~~~ck~~~~~~e~~p~~~~~~~  182 (950)
T 3htx_A          103 TVDEARDEIVGRIKYIFSDEFLSAEHPLGAHLRAALRRDGERCGSVPVSVIATVDAKINSRCKIINPSVESDPFLAISYV  182 (950)
T ss_dssp             CHHHHHHHHHHHHHHHTSTGGGGCSSTHHHHHHHHHTSCGGGTTEECHHHHHHTCHHHHHHHHHHCTHHHHCTHHHHHHH
T ss_pred             chhhHHHHHHHHHHHHhhhhhhhccCchHHHHHHHHhhcCccccccchhhheehhhhhhhhhhhcCcccccChHHHHHHH
Confidence            457889999999999999998888876666555    33 3  99999999998 66655432        2    3567


Q ss_pred             HHHHhhcCCceEEEecCccceecCC
Q psy5142          78 VDALKKSTSKLIEVNEDGTKIRRNP  102 (410)
Q Consensus        78 ~~Al~~~~S~~levsed~~~vrR~~  102 (410)
                      ..|..+  +..+.++..+ -|+|..
T Consensus       183 ~~a~~~--~~~~~~~~~~-~~~~~~  204 (950)
T 3htx_A          183 MKAAAK--LADYIVASPH-GLRRKN  204 (950)
T ss_dssp             HHHHHH--CCSSEEEETT-EEEESS
T ss_pred             HHHhhc--CCCcEEeCCc-ccccCC
Confidence            777774  4344477777 999984

>3pq1_A Poly(A) RNA polymerase; nucleotidyl transferase, RNP-type RNA binding domain, poly(A polymerase, mitochondria, transferase; 3.10A {Homo sapiens}

Probab=84.76  E-value=0.67  Score=46.70  Aligned_cols=53  Identities=15%  Similarity=0.110  Sum_probs=38.3

Q ss_pred             EEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCCCc-eEEEEeCChhHHHHHHHH
Q psy5142         277 LLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVGEP-TAFVRYKKENNAEAVLKA  334 (410)
Q Consensus       277 ~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g~~-~afV~F~~~e~A~~Al~~  334 (410)
                      .|+|. .|..++..+|.++|++||    .|..+-+-...+ +|.|+|.+.+++.+++..
T Consensus        55 sv~v~-~~~~~~~~~l~~y~~~~g----~i~~~~~~~~~g~~~~vef~~~~~~~~~~~~  108 (464)
T 3pq1_A           55 TVLIH-CPEKISENKFLKYLSQFG----PINNHFFYESFGLYAVVEFCQKESIGSLQNG  108 (464)
T ss_dssp             EEEEE-ECCC---CHHHHHHGGGS----CCCCEEEECSSSEEEEEECC---CCHHHHSS
T ss_pred             eEEEE-cCCCCCHHHHHHHHHhcC----CcceEEEEccCCeEEEEEeCCHHHHHHHHhc
Confidence            57776 588999999999999999    998877666544 699999999988877644

>3p3d_A Nucleoporin 53; structural genomics, PSI-2, protein structure initiative, NE structural genomix research consortium, nysgxrc; 2.35A {Pichia guilliermondii}

Probab=82.89  E-value=1.8  Score=35.86  Aligned_cols=69  Identities=14%  Similarity=0.187  Sum_probs=49.5

Q ss_pred             EEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeE-EEe-----------------e--CCCceEEEEeCChhHHHHHHHHhc
Q psy5142         277 LLKISDIKEPVSREDIREVLEKVQTDDQEIVF-IEF-----------------N--VGEPTAFVRYKKENNAEAVLKALG  336 (410)
Q Consensus       277 ~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~-V~~-----------------~--~g~~~afV~F~~~e~A~~Al~~l~  336 (410)
                      -|.|.|.|+..+. .+-+.|++||    .|.. +..                 +  .|..--.|+|+++.+|.+||..  
T Consensus         9 ~VtVFGFp~~~~~-~VI~~Fs~~G----~IlE~~~~~~~~~~~~~~~~~~k~yP~f~g~NWikItYds~~~A~rAL~~--   81 (132)
T 3p3d_A            9 AILVFGYPETMAN-QVIAYFQEFG----TILEDFEVLRKPQAMTVGLQDRQFVPIFSGNSWTKITYDNPASAVDALLE--   81 (132)
T ss_dssp             EEEEECCCGGGHH-HHHHHHGGGS----CBCSCCGGGCCC-----------CCCCCEETTEEEEEBSSHHHHHHHHTT--
T ss_pred             EEEEEecCHHHHH-HHHHHHHhhc----eEeeeccccccccccccccccccccCccCCCcEEEEEcCCHHHHHHHHHh--
Confidence            4667888877655 4667899999    5533 111                 1  1233468999999999999876  


Q ss_pred             CCCeEEcCeEEEEEecC
Q psy5142         337 SKEIVIKDVKVSIEVVT  353 (410)
Q Consensus       337 ~~~~~i~g~~v~v~~l~  353 (410)
                       +|..++|.-|-|....
T Consensus        82 -NG~ii~G~mIGV~Py~   97 (132)
T 3p3d_A           82 -NGAVFNGVLLGVIPYT   97 (132)
T ss_dssp             -TTCEETTEECEEEECC
T ss_pred             -CCeEeCcEEEEEEECC
Confidence             5788999977888776

---

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	410
d1zh5a1	99	a.4.5.46 (A:5-103) Lupus La autoantigen N-terminal	3e-30
d1s29a_	92	a.4.5.46 (A:) Lupus La autoantigen N-terminal doma	6e-25
d2cqka1	88	a.4.5.46 (A:43-130) La-related protein 4 LARP4 {Hu	1e-24
d1uawa_	77	d.58.7.1 (A:) Musashi-1 {Mouse (Mus musculus) [Tax	4e-04
d1cvja1	80	d.58.7.1 (A:11-90) Poly(A)-binding protein {Human	7e-04
d1x5ta1	83	d.58.7.1 (A:8-90) Splicing factor 3B subunit 4 {Hu	0.004
d1b7fa2	85	d.58.7.1 (A:205-289) Sex-lethal protein {Drosophil	0.004

>d1zh5a1 a.4.5.46 (A:5-103) Lupus La autoantigen N-terminal domain {Human (Homo sapiens) [TaxId: 9606]} Length = 99

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: La domain
domain: Lupus La autoantigen N-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

 Score =  110 bits (276), Expect = 3e-30
 Identities = 52/94 (55%), Positives = 70/94 (74%)

Query: 14  GAEAEVSKLENQIIEQIEYYFSDINLARDKFLQGEIKKDDGWVELTTMLKFARLAKMTTE 73
           G   +++ LE +I  QIEYYF D NL RDKFL+ +IK D+GWV L  M+KF RL ++TT+
Sbjct: 1   GDNEKMAALEAKICHQIEYYFGDFNLPRDKFLKEQIKLDEGWVPLEIMIKFNRLNRLTTD 60

Query: 74  AKVIVDALKKSTSKLIEVNEDGTKIRRNPEKELP 107
             VIV+AL KS ++L+E++ED TKIRR+P K LP
Sbjct: 61  FNVIVEALSKSKAELMEISEDKTKIRRSPSKPLP 94

>d1s29a_ a.4.5.46 (A:) Lupus La autoantigen N-terminal domain {Trypanosoma brucei [TaxId: 5691]} Length = 92

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: La domain
domain: Lupus La autoantigen N-terminal domain
species: Trypanosoma brucei [TaxId: 5691]

 Score = 95.6 bits (238), Expect = 6e-25
 Identities = 31/82 (37%), Positives = 60/82 (73%), Gaps = 3/82 (3%)

Query: 20  SKLENQIIEQIEYYFSDINLARDKFLQGEIKKD-DGWVELTTMLKFARLAKMTTEAKVIV 78
           S+ + ++ +Q+E+YFSD+N+ RD FL+G++ ++ +G+V L T+L F R+  +TT+ K +V
Sbjct: 8   SENKQKLQKQVEFYFSDVNVQRDIFLKGKMAENAEGFVSLETLLTFKRVNSVTTDVKEVV 67

Query: 79  DALKKSTSKLIEVNEDGTKIRR 100
           +A++   S+ + ++EDG  +RR
Sbjct: 68  EAIR--PSEKLVLSEDGLMVRR 87

>d2cqka1 a.4.5.46 (A:43-130) La-related protein 4 LARP4 {Human (Homo sapiens) [TaxId: 9606]} Length = 88

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: La domain
domain: La-related protein 4 LARP4
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 94.7 bits (236), Expect = 1e-24
 Identities = 22/83 (26%), Positives = 49/83 (59%), Gaps = 3/83 (3%)

Query: 22  LENQIIEQIEYYFSDINLARDKFLQGEIKKDDGWVELTTMLKFARLAKMTTEAKVIVDAL 81
           L+  + +Q+E+ FS  NL++D +L       D ++ + T+     + K+TT+  +I++ L
Sbjct: 7   LKECLKKQLEFCFSRENLSKDLYLI-SQMDSDQFIPIWTVANMEEIKKLTTDPDLILEVL 65

Query: 82  KKSTSKLIEVNEDGTKIRRNPEK 104
           +   S +++V+E G K+R + ++
Sbjct: 66  RS--SPMVQVDEKGEKVRPSHKR 86

>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 = 36.5 bits (84), Expect = 4e-04
 Identities = 10/69 (14%), Positives = 30/69 (43%), Gaps = 8/69 (11%)

Query: 122 LYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKEN 181
           +++  +    T + ++++F +           +      +    K+ +G  FVTF ++  
Sbjct: 3   MFIGGLSWQTTQEGLREYFGQFGE--------VKECLVMRDPLTKRSRGFGFVTFMDQAG 54

Query: 182 AEKFLNENK 190
            +K L +++
Sbjct: 55  VDKVLAQSR 63

>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 = 36.1 bits (83), Expect = 7e-04
 Identities = 15/75 (20%), Positives = 27/75 (36%), Gaps = 8/75 (10%)

Query: 121 SLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKE 180
           SLYV  +  D T   + + F             I+     +    ++  G  +V F    
Sbjct: 2   SLYVGDLHPDVTEAMLYEKFSPAGP--------ILSIRVCRDMITRRSLGYAYVNFQQPA 53

Query: 181 NAEKFLNENKDKNLK 195
           +AE+ L+      +K
Sbjct: 54  DAERALDTMNFDVIK 68

>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 = 34.0 bits (77), Expect = 0.004
 Identities = 8/74 (10%), Positives = 24/74 (32%), Gaps = 7/74 (9%)

Query: 122 LYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKEN 181
           +++  +  +     + D F            I+      +  +    KG  F+ F + + 
Sbjct: 1   IFIGNLDPEIDEKLLYDTFS-------AFGVILQTPKIMRDPDTGNSKGYAFINFASFDA 53

Query: 182 AEKFLNENKDKNLK 195
           ++  +     + L 
Sbjct: 54  SDAAIEAMNGQYLC 67

>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 = 33.8 bits (77), Expect = 0.004
 Identities = 15/68 (22%), Positives = 30/68 (44%), Gaps = 8/68 (11%)

Query: 121 SLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKE 180
           +LYV  +P   T D +   F K  S        I++    +     + +G  FV ++ +E
Sbjct: 8   NLYVTNLPRTITDDQLDTIFGKYGS--------IVQKNILRDKLTGRPRGVAFVRYNKRE 59

Query: 181 NAEKFLNE 188
            A++ ++ 
Sbjct: 60  EAQEAISA 67

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	410
d1zh5a1	99	Lupus La autoantigen N-terminal domain {Human (Hom	99.97
d1s29a_	92	Lupus La autoantigen N-terminal domain {Trypanosom	99.97
d2cqka1	88	La-related protein 4 LARP4 {Human (Homo sapiens) [	99.95
d1u1qa_	183	Nuclear ribonucleoprotein A1 (RNP A1, UP1) {Human	99.91
d1owxa_	113	Lupus LA protein {Human (Homo sapiens) [TaxId: 960	99.79
d1zh5a2	85	Lupus LA protein {Human (Homo sapiens) [TaxId: 960	99.71
d1b7fa1	82	Sex-lethal protein {Drosophila melanogaster [TaxId	99.61
d1h2vz_	93	CBP20, 20KDa nuclear cap-binding protein {Human (H	99.61
d1x5ua1	93	Splicing factor 3B subunit 4 {Human (Homo sapiens)	99.61
d1b7fa2	85	Sex-lethal protein {Drosophila melanogaster [TaxId	99.61
d1cvja1	80	Poly(A)-binding protein {Human (Homo sapiens) [Tax	99.6
d1rk8a_	88	RNA-binding protein 8 {Fruit fly (Drosophila melan	99.6
d1l3ka1	84	Nuclear ribonucleoprotein A1 (RNP A1, UP1) {Human	99.6
d2cq4a1	101	RNA binding protein 23 {Human (Homo sapiens) [TaxI	99.6
d1p1ta_	104	Cleavage stimulation factor, 64 kda subunit {Human	99.59
d1fxla1	82	Hu antigen D (Hud) {Human (Homo sapiens) [TaxId: 9	99.59
d1fxla2	85	Hu antigen D (Hud) {Human (Homo sapiens) [TaxId: 9	99.59
d2cqba1	89	Peptidyl-prolyl cis-trans isomerase E, N-terminal	99.59
d2cqca1	83	Arginine/serine-rich splicing factor 10 {Human (Ho	99.59
d2cqda1	103	RNA-binding region containing protein 1 {Human (Ho	99.57
d1x5sa1	90	Cold-inducible RNA-binding protein {Human (Homo sa	99.57
d1hd0a_	75	Heterogeneous nuclear ribonucleoprotein d0 {Human	99.56
d2cqga1	90	TAR DNA-binding protein 43, TDP-43 {Human (Homo sa	99.56
d1whwa_	99	Probable RNA-binding protein 19, Rbm19 {Mouse (Mus	99.56
d1no8a_	78	Nuclear factor Aly {Mouse (Mus musculus) [TaxId: 1	99.56
d2cq0a1	90	Eukaryotic translation initiation factor 3 subunit	99.56
d1uawa_	77	Musashi-1 {Mouse (Mus musculus) [TaxId: 10090]}	99.55
d1x0fa1	75	Nuclear ribonucleoprotein D0 (AUF1) {Human (Homo s	99.55
d2cpha1	94	Probable RNA-binding protein 19, Rbm19 {Mouse (Mus	99.55
d2cqia1	90	Nucleolysin TIAR {Human (Homo sapiens) [TaxId: 960	99.55
d2ghpa1	81	U4/U6 snRNA-associated-splicing factor PRP24 {Bake	99.55
d2u2fa_	85	Splicing factor U2AF 65 KDa subunit {Human (Homo s	99.54
d1x4ba1	103	Heterogeneous nuclear ribonucleoproteins A2/B1 {Hu	99.54
d2cpza1	102	CUG triplet repeat RNA-binding protein 1 {Human (H	99.53
d2cpfa1	85	Probable RNA-binding protein 19, Rbm19 {Mouse (Mus	99.53
d1l3ka2	79	Nuclear ribonucleoprotein A1 (RNP A1, UP1) {Human	99.52
d1u6fa1	139	RNA-binding protein UBP1 {Trypanosoma cruzi [TaxId	99.52
d1x5oa1	101	RNA-binding motif, single-stranded-interacting pro	99.52
d2f9da1	114	Pre-mRNA branch site protein p14 {Human (Homo sapi	99.51
d1x5ta1	83	Splicing factor 3B subunit 4 {Human (Homo sapiens)	99.51
d1x4ha1	98	RNA-binding protein 28 {Mouse (Mus musculus) [TaxI	99.51
d2cq3a1	93	RNA-binding protein 9 {Human (Homo sapiens) [TaxId	99.51
d2ghpa3	86	U4/U6 snRNA-associated-splicing factor PRP24 {Bake	99.49
d1whxa_	111	Probable RNA-binding protein 19, Rbm19 {Mouse (Mus	99.49
d1x4ea1	72	RNA-binding motif, single-stranded-interacting pro	99.49
d2ghpa2	75	U4/U6 snRNA-associated-splicing factor PRP24 {Bake	99.49
d1cvja2	89	Poly(A)-binding protein {Human (Homo sapiens) [Tax	99.49
d2msta_	75	Neural RNA-binding protein Musashi-1 {Mouse (Mus m	99.48
d2cpia1	89	E3 ubiquitin protein ligase CNOT4 {Mouse (Mus musc	99.48
d2disa1	96	Hypothetical protein FLJ20273 {Human (Homo sapiens	99.46
d2cpea1	101	RNA-binding protein EWS {Human (Homo sapiens) [Tax	99.45
d1x4aa1	95	Splicing factor, arginine/serine-rich 1, SFRS1 {Hu	99.45
d1x4ga1	96	Nucleolysin TIAR {Human (Homo sapiens) [TaxId: 960	99.44
d1fjeb1	91	Nucleolin {Golden hamster (Mesocricetus auratus) [	99.44
d1x4ga1	96	Nucleolysin TIAR {Human (Homo sapiens) [TaxId: 960	99.43
d2cpja1	86	Non-POU domain-containing octamer-binding protein,	99.42
d2cq1a1	88	Polypyrimidine tract-binding protein 2, PTBP2 {Hum	99.41
d2cpja1	86	Non-POU domain-containing octamer-binding protein,	99.41
d2cpxa1	102	RNA-binding protein 41, RBM41 {Human (Homo sapiens	99.41
d2cqpa1	86	RNA-binding protein 12 {Mouse (Mus musculus) [TaxI	99.41
d1no8a_	78	Nuclear factor Aly {Mouse (Mus musculus) [TaxId: 1	99.4
d2b0ga1	83	Splicesomal U1A protein {Drosophila melanogaster [	99.4
d1weza_	102	Heterogeneous nuclear ribonucleoprotein H' {Human	99.4
d1h2vz_	93	CBP20, 20KDa nuclear cap-binding protein {Human (H	99.4
d2cqca1	83	Arginine/serine-rich splicing factor 10 {Human (Ho	99.4
d3begb1	87	Splicing factor, arginine/serine-rich 1, SFRS1 {Hu	99.39
d1wg5a_	104	Heterogeneous nuclear ribonucleoprotein H' {Human	99.39
d1whxa_	111	Probable RNA-binding protein 19, Rbm19 {Mouse (Mus	99.39
d2adca1	109	Polypyrimidine tract-binding protein {Human (Homo	99.38
d1wg4a_	98	Splicing factor, arginine/serine-rich 9 (SFRS9) {M	99.38
d2cq1a1	88	Polypyrimidine tract-binding protein 2, PTBP2 {Hum	99.38
d1b7fa1	82	Sex-lethal protein {Drosophila melanogaster [TaxId	99.38
d1wi8a_	104	Eukaryotic translation initiation factor 4B {Human	99.38
d1rk8a_	88	RNA-binding protein 8 {Fruit fly (Drosophila melan	99.38
d2cpza1	102	CUG triplet repeat RNA-binding protein 1 {Human (H	99.37
d2cpda1	86	APOBEC1 stimulating protein {Human (Homo sapiens)	99.37
d1fjca_	96	Nucleolin {Golden hamster (Mesocricetus auratus) [	99.36
d2cpda1	86	APOBEC1 stimulating protein {Human (Homo sapiens)	99.36
d1wi6a1	75	Ribonucleoprotein PTB-binding 1, Raver-1 {Mouse (M	99.36
d1wexa_	104	Heterogeneous nuclear ribonucleoprotein L-like {Mo	99.36
d2cqha1	80	IGF-II mRNA-binding protein 2 isoform A {Human (Ho	99.36
d1nu4a_	91	Splicesomal U1A protein {Human (Homo sapiens) [Tax	99.36
d2bz2a1	79	Negative elongation factor E, NELF-E {Human (Homo	99.35
d1cvja2	89	Poly(A)-binding protein {Human (Homo sapiens) [Tax	99.35
d2adca2	88	Polypyrimidine tract-binding protein {Human (Homo	99.35
d1x5ua1	93	Splicing factor 3B subunit 4 {Human (Homo sapiens)	99.35
d2cq3a1	93	RNA-binding protein 9 {Human (Homo sapiens) [TaxId	99.35
d1wexa_	104	Heterogeneous nuclear ribonucleoprotein L-like {Mo	99.34
d2cpya1	103	RNA-binding protein 12 {Human (Homo sapiens) [TaxI	99.34
d1whya_	97	Putative RNA-binding protein 15B, Rbm15b {Mouse (M	99.34
d2cqia1	90	Nucleolysin TIAR {Human (Homo sapiens) [TaxId: 960	99.34
d2adba1	108	Polypyrimidine tract-binding protein {Human (Homo	99.34
d2bz2a1	79	Negative elongation factor E, NELF-E {Human (Homo	99.33
d2f9da1	114	Pre-mRNA branch site protein p14 {Human (Homo sapi	99.33
d2b0ga1	83	Splicesomal U1A protein {Drosophila melanogaster [	99.33
d1wf0a_	88	TAR DNA-binding protein 43, TDP-43 {Human (Homo sa	99.33
d1x4aa1	95	Splicing factor, arginine/serine-rich 1, SFRS1 {Hu	99.33
d1fxla1	82	Hu antigen D (Hud) {Human (Homo sapiens) [TaxId: 9	99.33
d2ghpa2	75	U4/U6 snRNA-associated-splicing factor PRP24 {Bake	99.33
d1cvja1	80	Poly(A)-binding protein {Human (Homo sapiens) [Tax	99.33
d2cpfa1	85	Probable RNA-binding protein 19, Rbm19 {Mouse (Mus	99.33
d1wg1a_	88	Probable RNA-binding protein KIAA1579 {Human (Homo	99.32
d2ghpa1	81	U4/U6 snRNA-associated-splicing factor PRP24 {Bake	99.32
d1u6fa1	139	RNA-binding protein UBP1 {Trypanosoma cruzi [TaxId	99.32
d1x4da1	89	Matrin 3 {Mouse (Mus musculus) [TaxId: 10090]}	99.31
d1wi6a1	75	Ribonucleoprotein PTB-binding 1, Raver-1 {Mouse (M	99.31
d2cq0a1	90	Eukaryotic translation initiation factor 3 subunit	99.31
d1whwa_	99	Probable RNA-binding protein 19, Rbm19 {Mouse (Mus	99.31
d1x4fa1	99	Matrin 3 {Mouse (Mus musculus) [TaxId: 10090]}	99.31
d1fxla2	85	Hu antigen D (Hud) {Human (Homo sapiens) [TaxId: 9	99.31
d1whya_	97	Putative RNA-binding protein 15B, Rbm15b {Mouse (M	99.3
d2cqha1	80	IGF-II mRNA-binding protein 2 isoform A {Human (Ho	99.3
d1x4fa1	99	Matrin 3 {Mouse (Mus musculus) [TaxId: 10090]}	99.3
d1u2fa_	90	Splicing factor U2AF 65 KDa subunit {Human (Homo s	99.29
d2cqba1	89	Peptidyl-prolyl cis-trans isomerase E, N-terminal	99.29
d1wg1a_	88	Probable RNA-binding protein KIAA1579 {Human (Homo	99.29
d3begb1	87	Splicing factor, arginine/serine-rich 1, SFRS1 {Hu	99.29
d1wf2a_	98	Heterogeneous nuclear ribonucleoproteins C1/C2 {Hu	99.29
d1wg4a_	98	Splicing factor, arginine/serine-rich 9 (SFRS9) {M	99.29
d2cpha1	94	Probable RNA-binding protein 19, Rbm19 {Mouse (Mus	99.29
d1uawa_	77	Musashi-1 {Mouse (Mus musculus) [TaxId: 10090]}	99.28
d2disa1	96	Hypothetical protein FLJ20273 {Human (Homo sapiens	99.28
d1b7fa2	85	Sex-lethal protein {Drosophila melanogaster [TaxId	99.28
d1x4da1	89	Matrin 3 {Mouse (Mus musculus) [TaxId: 10090]}	99.27
d1wela1	112	RNA-binding protein 12 {Human (Homo sapiens) [TaxI	99.27
d1x4ha1	98	RNA-binding protein 28 {Mouse (Mus musculus) [TaxI	99.27
d2cqga1	90	TAR DNA-binding protein 43, TDP-43 {Human (Homo sa	99.26
d2cq4a1	101	RNA binding protein 23 {Human (Homo sapiens) [TaxI	99.26
d1wf2a_	98	Heterogeneous nuclear ribonucleoproteins C1/C2 {Hu	99.25
d2adca2	88	Polypyrimidine tract-binding protein {Human (Homo	99.25
d2cpia1	89	E3 ubiquitin protein ligase CNOT4 {Mouse (Mus musc	99.25
d1p1ta_	104	Cleavage stimulation factor, 64 kda subunit {Human	99.25
d2u2fa_	85	Splicing factor U2AF 65 KDa subunit {Human (Homo s	99.25
d2adca1	109	Polypyrimidine tract-binding protein {Human (Homo	99.24
d1fjca_	96	Nucleolin {Golden hamster (Mesocricetus auratus) [	99.24
d1x0fa1	75	Nuclear ribonucleoprotein D0 (AUF1) {Human (Homo s	99.24
d1u1qa_	183	Nuclear ribonucleoprotein A1 (RNP A1, UP1) {Human	99.24
d1nu4a_	91	Splicesomal U1A protein {Human (Homo sapiens) [Tax	99.24
d2ghpa3	86	U4/U6 snRNA-associated-splicing factor PRP24 {Bake	99.24
d2msta_	75	Neural RNA-binding protein Musashi-1 {Mouse (Mus m	99.23
d1hd0a_	75	Heterogeneous nuclear ribonucleoprotein d0 {Human	99.23
d2cqpa1	86	RNA-binding protein 12 {Mouse (Mus musculus) [TaxI	99.22
d1fjeb1	91	Nucleolin {Golden hamster (Mesocricetus auratus) [	99.22
d1l3ka1	84	Nuclear ribonucleoprotein A1 (RNP A1, UP1) {Human	99.21
d2cqda1	103	RNA-binding region containing protein 1 {Human (Ho	99.2
d1x5sa1	90	Cold-inducible RNA-binding protein {Human (Homo sa	99.2
d1x5ta1	83	Splicing factor 3B subunit 4 {Human (Homo sapiens)	99.2
d1x4ba1	103	Heterogeneous nuclear ribonucleoproteins A2/B1 {Hu	99.19
d1l3ka2	79	Nuclear ribonucleoprotein A1 (RNP A1, UP1) {Human	99.19
d2cpea1	101	RNA-binding protein EWS {Human (Homo sapiens) [Tax	99.17
d1zh5a2	85	Lupus LA protein {Human (Homo sapiens) [TaxId: 960	99.16
d2cpxa1	102	RNA-binding protein 41, RBM41 {Human (Homo sapiens	99.15
d1owxa_	113	Lupus LA protein {Human (Homo sapiens) [TaxId: 960	99.15
d1x4ea1	72	RNA-binding motif, single-stranded-interacting pro	99.13
d1wf0a_	88	TAR DNA-binding protein 43, TDP-43 {Human (Homo sa	99.13
d2cpya1	103	RNA-binding protein 12 {Human (Homo sapiens) [TaxI	99.13
d1x5oa1	101	RNA-binding motif, single-stranded-interacting pro	99.12
d2adba1	108	Polypyrimidine tract-binding protein {Human (Homo	99.1
d1weya_	104	Calcipressin-1 {Mouse (Mus musculus) [TaxId: 10090	99.1
d2cq2a1	101	Alkylation repair AlkB homolog 8, ALKBH8 {Human (H	99.09
d1wi8a_	104	Eukaryotic translation initiation factor 4B {Human	99.09
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	99.08
d2cq2a1	101	Alkylation repair AlkB homolog 8, ALKBH8 {Human (H	99.07
d1wg5a_	104	Heterogeneous nuclear ribonucleoprotein H' {Human	99.06
d1wela1	112	RNA-binding protein 12 {Human (Homo sapiens) [TaxI	99.05
d1weza_	102	Heterogeneous nuclear ribonucleoprotein H' {Human	99.03
d1wwha1	81	Nucleoporin 35 {Mouse (Mus musculus) [TaxId: 10090	99.02
d1weya_	104	Calcipressin-1 {Mouse (Mus musculus) [TaxId: 10090	99.0
d1wwha1	81	Nucleoporin 35 {Mouse (Mus musculus) [TaxId: 10090	98.94
d1u2fa_	90	Splicing factor U2AF 65 KDa subunit {Human (Homo s	98.86
d2dita1	99	HIV Tat-specific factor 1 {Human (Homo sapiens) [T	98.83
d2dita1	99	HIV Tat-specific factor 1 {Human (Homo sapiens) [T	98.75
d1o0pa_	104	Splicing factor U2AF 65 KDa subunit {Human (Homo s	98.69
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	98.64
d1o0pa_	104	Splicing factor U2AF 65 KDa subunit {Human (Homo s	98.55
d1uw4a_	91	RNA processing protein UPF3x, RRM domain {Human (H	96.51
d2dgxa1	73	Limkain-b1, LKAP {Human (Homo sapiens) [TaxId: 960	96.34
d1ufwa_	95	Synaptojanin 2 {Human (Homo sapiens) [TaxId: 9606]	95.93
d1uw4a_	91	RNA processing protein UPF3x, RRM domain {Human (H	95.6
d1whva_	100	Poly(A)-specific ribonuclease PARN {Mouse (Mus mus	94.25
d1whva_	100	Poly(A)-specific ribonuclease PARN {Mouse (Mus mus	89.55
d1ufwa_	95	Synaptojanin 2 {Human (Homo sapiens) [TaxId: 9606]	85.57
d2dgxa1	73	Limkain-b1, LKAP {Human (Homo sapiens) [TaxId: 960	80.32

>d1zh5a1 a.4.5.46 (A:5-103) Lupus La autoantigen N-terminal domain {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: La domain
domain: Lupus La autoantigen N-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.97  E-value=2.3e-32  Score=217.66  Aligned_cols=96  Identities=53%  Similarity=0.892  Sum_probs=88.9

Q ss_pred             CccchhHHHHHHHHHHHHHhCCCCCCCChhHHhhhccCCCeEehHHHHhhHHHHhccCcHHHHHHHHhhcCCceEEEecC
Q psy5142          15 AEAEVSKLENQIIEQIEYYFSDINLARDKFLQGEIKKDDGWVELTTMLKFARLAKMTTEAKVIVDALKKSTSKLIEVNED   94 (410)
Q Consensus        15 ~~~~~~~~~~~i~~QlEfYfsd~Nl~~D~fl~~~~~~~~g~v~l~~l~~F~r~k~l~~d~~~i~~Al~~~~S~~levsed   94 (410)
                      +..+++++.++|++||||||||+||++|+||+++|..++|||||++|++|+|||+|+.|++.|++||+.|.+..|+|++|
T Consensus         2 ~n~~~~~l~~~I~~QvEfYFSd~NL~~D~fL~~~m~~~eG~Vpl~~i~~F~r~k~l~~~~~~i~~Al~~S~~~~lev~~d   81 (99)
T d1zh5a1           2 DNEKMAALEAKICHQIEYYFGDFNLPRDKFLKEQIKLDEGWVPLEIMIKFNRLNRLTTDFNVIVEALSKSKAELMEISED   81 (99)
T ss_dssp             HHHHHHHHHHHHHHHHHHHTSTTTGGGCHHHHHHHTTTTTCEEHHHHTTSHHHHHHCCCHHHHHHHHHTCSSCCEEECTT
T ss_pred             CchHHHHHHHHHHHHHHHhcCHhhhccCHHHHHHHhcCCCcccHHHHhcchHHHHHcCCHHHHHHHHHhCCCCeEEEcCC
Confidence            34568999999999999999999999999999999987899999999999999999999999999999666668999999


Q ss_pred             ccceecCCCCCCCCCc
Q psy5142          95 GTKIRRNPEKELPTFD  110 (410)
Q Consensus        95 ~~~vrR~~~~p~p~~~  110 (410)
                      +++|||++..|+|+.+
T Consensus        82 ~~~vRR~~~~plpe~~   97 (99)
T d1zh5a1          82 KTKIRRSPSKPLPEVT   97 (99)
T ss_dssp             SSEEEECTTSCCCCCC
T ss_pred             CceeCCCCCCCCCCcc
Confidence            9999999878999764

>d1s29a_ a.4.5.46 (A:) Lupus La autoantigen N-terminal domain {Trypanosoma brucei [TaxId: 5691]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: La domain
domain: Lupus La autoantigen N-terminal domain
species: Trypanosoma brucei [TaxId: 5691]

Probab=99.97  E-value=3.5e-31  Score=207.54  Aligned_cols=85  Identities=39%  Similarity=0.764  Sum_probs=80.2

Q ss_pred             hhHHHHHHHHHHHHHhCCCCCCCChhHHhhhccC-CCeEehHHHHhhHHHHhccCcHHHHHHHHhhcCCceEEEecCccc
Q psy5142          19 VSKLENQIIEQIEYYFSDINLARDKFLQGEIKKD-DGWVELTTMLKFARLAKMTTEAKVIVDALKKSTSKLIEVNEDGTK   97 (410)
Q Consensus        19 ~~~~~~~i~~QlEfYfsd~Nl~~D~fl~~~~~~~-~g~v~l~~l~~F~r~k~l~~d~~~i~~Al~~~~S~~levsed~~~   97 (410)
                      .++..++|++||||||||+||++|+||+++|.++ +|||||++|++|+|||+|++|.+.|++||+  .|..|+|++|+++
T Consensus         7 ~~e~~~~I~~QvEfYFSd~NL~~D~fL~~~m~~~~~G~V~i~~i~~F~rmk~lt~d~~~i~~Al~--~S~~lev~ed~~~   84 (92)
T d1s29a_           7 SSENKQKLQKQVEFYFSDVNVQRDIFLKGKMAENAEGFVSLETLLTFKRVNSVTTDVKEVVEAIR--PSEKLVLSEDGLM   84 (92)
T ss_dssp             CHHHHHHHHHHHHHHTSHHHHTTCHHHHHHHTTSTTCCEEHHHHTTSHHHHTTCSCHHHHHHHHT--TCSSEEECTTSSE
T ss_pred             CHHHHHHHHHHHHHHccHhhhccCHHHHHHHhccCCCcEEhHHHhcCcCHHHhcCCHHHHHHHHh--hCCeEEEeCCCCE
Confidence            3568899999999999999999999999999886 799999999999999999999999999999  8999999999999


Q ss_pred             eecCCCCCCC
Q psy5142          98 IRRNPEKELP  107 (410)
Q Consensus        98 vrR~~~~p~p  107 (410)
                      |||+  .|+|
T Consensus        85 VRRk--~plP   92 (92)
T d1s29a_          85 VRRR--DPLP   92 (92)
T ss_dssp             EEES--SCCC
T ss_pred             EeeC--CCCC
Confidence            9999  5776

>d2cqka1 a.4.5.46 (A:43-130) La-related protein 4 LARP4 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: La domain
domain: La-related protein 4 LARP4
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.95  E-value=1.8e-29  Score=196.36  Aligned_cols=83  Identities=27%  Similarity=0.563  Sum_probs=78.5

Q ss_pred             chhHHHHHHHHHHHHHhCCCCCCCChhHHhhhccCCCeEehHHHHhhHHHHhccCcHHHHHHHHhhcCCceEEEecCccc
Q psy5142          18 EVSKLENQIIEQIEYYFSDINLARDKFLQGEIKKDDGWVELTTMLKFARLAKMTTEAKVIVDALKKSTSKLIEVNEDGTK   97 (410)
Q Consensus        18 ~~~~~~~~i~~QlEfYfsd~Nl~~D~fl~~~~~~~~g~v~l~~l~~F~r~k~l~~d~~~i~~Al~~~~S~~levsed~~~   97 (410)
                      ..+++.++|++||||||||+||++|+||+++|+. +|||||++|++|+|||+|++|++.|++||+  .|..|+|++|+.+
T Consensus         3 ~~~~l~~~i~~QvEfYFSd~NL~~D~fL~~~m~~-~G~V~l~~i~~F~r~k~lt~d~~~i~~Al~--~S~~lev~~d~~~   79 (88)
T d2cqka1           3 STEDLKECLKKQLEFCFSRENLSKDLYLISQMDS-DQFIPIWTVANMEEIKKLTTDPDLILEVLR--SSPMVQVDEKGEK   79 (88)
T ss_dssp             CHHHHHHHHHHHHHHHTSHHHHHHCHHHHHHSCT-TSCEEHHHHHHCHHHHHHCCCHHHHHHHHH--HSSSEEECSSSSE
T ss_pred             ChHHHHHHHHHHHHhhCCHhhhCcCHHHHHhhcC-CCCEEhHHHhcChHHHHHcCCHHHHHHHHh--cCCeEEEeCCCCE
Confidence            4678999999999999999999999999999975 599999999999999999999999999999  7899999999999


Q ss_pred             eecCCC
Q psy5142          98 IRRNPE  103 (410)
Q Consensus        98 vrR~~~  103 (410)
                      |||+..
T Consensus        80 VRr~~~   85 (88)
T d2cqka1          80 VRPSHK   85 (88)
T ss_dssp             EEECCS
T ss_pred             eccCCC
Confidence            999853

>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=99.91  E-value=8.7e-24  Score=187.64  Aligned_cols=168  Identities=17%  Similarity=0.245  Sum_probs=131.6

Q ss_pred             ceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCCccccc
Q psy5142         119 AQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLKFNE  198 (410)
Q Consensus       119 ~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~~~~~  198 (410)
                      .|||||+|||+++|+++|+++|++|    |.|.++.++++..++    .++|+|||+|.+.++|.+|+...+   ..+  
T Consensus         6 ~r~lfV~nLp~~~te~~L~~~F~~~----G~v~~~~~~~~~~~~----~~~g~afv~f~~~~~a~~a~~~~~---~~~--   72 (183)
T d1u1qa_           6 LRKLFIGGLSFETTDESLRSHFEQW----GTLTDCVVMRDPNTK----RSRGFGFVTYATVEEVDAAMNARP---HKV--   72 (183)
T ss_dssp             HHEEEEESCCTTCCHHHHHHHHGGG----SCEEEEEEEECTTTC----CEEEEEEEEESSHHHHHHHHHTCS---CEE--
T ss_pred             CCEEEEECCCCCCCHHHHHHHHHHc----CCEEEEEeeecccCC----CccCceecccCCHHHHHHHHHhcC---Ccc--
Confidence            4899999999999999999999999    999999999887765    789999999999999999999876   333  


Q ss_pred             cccchhhhhhhhcccccccccCcccccchhhhchHHHHHHHHHHHHhhhhccccCccCCCCCCCCCCcccccCCCCCeEE
Q psy5142         199 NCEHKNAEKFLNENKDKNLKFNENCEHSLLIKWQQEYHEEKKQEVRSKRDKSKKSTEGDGEGNTEGSKQVVLELPTGALL  278 (410)
Q Consensus       199 ~~~~~~~~k~~~~~~~~~~~~~g~~~~~L~v~~k~~~~~~k~~e~~~~~~k~k~~~e~~~~~~~~~~~~~~~~~~~g~~l  278 (410)
                                           .+   +.+.+.+...                .   .         .............|
T Consensus        73 ---------------------~~---~~~~~~~~~~----------------~---~---------~~~~~~~~~~~~~i  100 (183)
T d1u1qa_          73 ---------------------DG---RVVEPKRAVS----------------R---E---------DSQRPGAHLTVKKI  100 (183)
T ss_dssp             ---------------------TT---EECEEEECCC----------------T---T---------GGGSTTTTCCCSEE
T ss_pred             ---------------------cc---cchhhhhhhh----------------c---c---------ccccccccccccee
Confidence                                 22   2222211000                0   0         00011123344689


Q ss_pred             EEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCCC------ceEEEEeCChhHHHHHHHHhcCCCeEEcCeEEEEEec
Q psy5142         279 KISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVGE------PTAFVRYKKENNAEAVLKALGSKEIVIKDVKVSIEVV  352 (410)
Q Consensus       279 ~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g~------~~afV~F~~~e~A~~Al~~l~~~~~~i~g~~v~v~~l  352 (410)
                      +|.|||+.+++++|+++|+.||    .|..|.+..+.      +.|||.|.+.++|.+|++ +  ++..++|+.|.|..+
T Consensus       101 ~V~~lp~~~te~~L~~~f~~~G----~v~~~~i~~~~~~~~~~g~~fV~f~~~e~A~~Al~-~--~~~~~~G~~i~V~~A  173 (183)
T d1u1qa_         101 FVGGIKEDTEEHHLRDYFEQYG----KIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKIVI-Q--KYHTVNGHNCEVRKA  173 (183)
T ss_dssp             EEECCCTTCCHHHHHHHHGGGS----CEEEEEEEECTTTCCEEEEEEEEESCHHHHHHHHT-S--SCEEETTEEEEEEEC
T ss_pred             EEccCCCcCCHHHHhhhhccCC----ceeeeeeecccccCccceeEEEEECCHHHHHHHHH-h--CCCeECCEEEEEEec
Confidence            9999999999999999999999    99999887543      259999999999999997 4  357899999999987


Q ss_pred             CchHHH
Q psy5142         353 TGEEEQ  358 (410)
Q Consensus       353 ~g~eE~  358 (410)
                      ...+|.
T Consensus       174 ~~k~e~  179 (183)
T d1u1qa_         174 LSKQEM  179 (183)
T ss_dssp             CCHHHH
T ss_pred             CCcccc
Confidence            765554

>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=99.79  E-value=2e-19  Score=147.44  Aligned_cols=102  Identities=25%  Similarity=0.384  Sum_probs=93.8

Q ss_pred             CCCCCeEE-EEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCCCceEEEEeCCh-hHHHHHHHHhcCCCeEEcCeEEE
Q psy5142         271 ELPTGALL-KISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVGEPTAFVRYKKE-NNAEAVLKALGSKEIVIKDVKVS  348 (410)
Q Consensus       271 ~~~~g~~l-~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g~~~afV~F~~~-e~A~~Al~~l~~~~~~i~g~~v~  348 (410)
                      ..+.||+| ||.|||+.+|+++|+++|++||    +|.+|++.++.++|||+|.++ ++|.+|+..+++..+.+.+..|.
T Consensus         6 ~~~~g~~~~fvgnL~~~~tee~Lk~~F~~fG----~V~~v~i~~~kg~gfV~F~~~~~~A~~a~~~~~~~~l~~~~~~v~   81 (113)
T d1owxa_           6 EEKIGCLLKFSGDLDDQTCREDLHILFSNHG----EIKWIDFVRGAKEGIILFKEKAKEALGKAKDANNGNLQLRNKEVT   81 (113)
T ss_dssp             SCCCCCEEEEEESCCSSCCHHHHHHHTCSSC----CEEEEECCTTCSEEEEEESSCHHHHHHHHHHTTTSCBCTTSSSEE
T ss_pred             CCCCCCeEEEECCCCCCCCHHHHHHHHHhcC----ChheEEEecCCceEEEEecCcHHHHHHHHHHhcCCceecCceEEE
Confidence            46788888 5568999999999999999999    999999999999999999996 68999999998888888999999


Q ss_pred             EEecCchHHHHHHHHhHHHHHHHHHhhhh
Q psy5142         349 IEVVTGEEEQTVLDRMKIDIFKRRQKLMN  377 (410)
Q Consensus       349 v~~l~g~eE~~yw~k~~~~~~~~~~~~~~  377 (410)
                      +.++.|++|+.||.++..+++.+.++ ++
T Consensus        82 ~~~~~~~~e~~~~~k~~~~~q~~~~k-~~  109 (113)
T d1owxa_          82 WEVLEGEVEKEALKKIIEDQQESLNK-WK  109 (113)
T ss_dssp             EEECCHHHHHHHHHHHHHHHHHHHCC-CC
T ss_pred             EeeccchhhHHHHHHHHHHHHHHHhh-hc
Confidence            99999999999999999999988888 55

>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=99.71  E-value=3.2e-18  Score=132.90  Aligned_cols=83  Identities=45%  Similarity=0.751  Sum_probs=74.4

Q ss_pred             hhccceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCCc
Q psy5142         115 KDLIAQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNL  194 (410)
Q Consensus       115 ~~~~~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~  194 (410)
                      .+...|||||+|||.++|+++|+++|+.|    |+|.+|+|+++..+     .++|||||+|.++++|++||+. ++  .
T Consensus         2 ~~~~~rtvfV~nlp~~~te~~l~~~F~~~----G~v~~v~l~~~~~~-----~~kG~afV~f~~~e~a~~al~~-~~--~   69 (85)
T d1zh5a2           2 NDVKNRSVYIKGFPTDATLDDIKEWLEDK----GQVLNIQMRRTLHK-----AFKGSIFVVFDSIESAKKFVET-PG--Q   69 (85)
T ss_dssp             HHHHTTEEEEECCCTTCCHHHHHHHHTTS----CCEEEEEEEECTTC-----CEEEEEEEEESCHHHHHHHHTC-CC--C
T ss_pred             CCCCcCEEEEECCCCCCCHHHHHHHHHHh----cccccceeeeeccC-----CcceEEEEEEcCHHHHHHHHHH-CC--C
Confidence            35678999999999999999999999999    99999999987755     7899999999999999999975 43  6


Q ss_pred             cccccccchhhhhhhhcccccccccCcccccchhhhchHHH
Q psy5142         195 KFNENCEHKNAEKFLNENKDKNLKFNENCEHSLLIKWQQEY  235 (410)
Q Consensus       195 ~~~~~~~~~~~~k~~~~~~~~~~~~~g~~~~~L~v~~k~~~  235 (410)
                      .|                       .|   +.|.|.|+.+|
T Consensus        70 ~~-----------------------~g---~~l~v~~~~dy   84 (85)
T d1zh5a2          70 KY-----------------------KE---TDLLILFKDDY   84 (85)
T ss_dssp             EE-----------------------TT---EECEEEEGGGC
T ss_pred             EE-----------------------CC---EEEEEEEcCCC
Confidence            67                       78   99999998776

>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=99.61  E-value=4.3e-16  Score=119.61  Aligned_cols=68  Identities=18%  Similarity=0.254  Sum_probs=62.9

Q ss_pred             ceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCCccc
Q psy5142         119 AQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLKF  196 (410)
Q Consensus       119 ~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~~~  196 (410)
                      .++|||+|||.++|+++|+++|++|    |.|.+|+|++++.++    .++|||||+|.+.++|++|++.++|  ..+
T Consensus         2 ~t~l~V~nLp~~~t~~~l~~~F~~~----G~v~~~~i~~~~~~g----~~~g~afV~f~~~~~A~~ai~~lng--~~~   69 (82)
T d1b7fa1           2 NTNLIVNYLPQDMTDRELYALFRAI----GPINTCRIMRDYKTG----YSYGYAFVDFTSEMDSQRAIKVLNG--ITV   69 (82)
T ss_dssp             CSEEEEECCCTTCCHHHHHHHHHTT----SCEEEEECCEETTTT----EECSEEEEEESSHHHHHHHHHHHTT--CEE
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHHh----CCcceeeeeeecccC----CccccceEEECCHHHHHHHHHHhCC--CEE
Confidence            4689999999999999999999999    999999999987765    8999999999999999999999986  556

>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=99.61  E-value=6.9e-16  Score=121.54  Aligned_cols=69  Identities=25%  Similarity=0.304  Sum_probs=64.0

Q ss_pred             cceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCCccc
Q psy5142         118 IAQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLKF  196 (410)
Q Consensus       118 ~~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~~~  196 (410)
                      ..+||||+|||+++|+++|+++|++|    |+|.+|.|++++.++    .++|||||+|.+.++|..|++.++|  ..+
T Consensus         6 ~s~tlfV~nlp~~~te~~l~~~F~~~----G~i~~v~i~~~~~~~----~~kg~afV~f~~~~~A~~Ai~~l~g--~~~   74 (93)
T d1h2vz_           6 KSCTLYVGNLSFYTTEEQIYELFSKS----GDIKKIIMGLDKMKK----TACGFCFVEYYSRADAENAMRYING--TRL   74 (93)
T ss_dssp             TCCEEEEESCCTTCCHHHHHHHHGGG----SCEEEEEEEECTTTC----CEEEEEEEEESSHHHHHHHHHHTTT--SEE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHHH----CCcceeccccccccc----cccceEEEEECCHHHHHHHHHHhCC--CEE
Confidence            46899999999999999999999999    999999999988775    8999999999999999999999886  456

>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=99.61  E-value=9.3e-16  Score=120.79  Aligned_cols=69  Identities=17%  Similarity=0.181  Sum_probs=63.9

Q ss_pred             cceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCCccc
Q psy5142         118 IAQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLKF  196 (410)
Q Consensus       118 ~~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~~~  196 (410)
                      ..+||||+|||.++|+++|+++|++|    |.|.+|+|+++..++    .++|||||+|.+.++|++|++.++|  ..+
T Consensus         8 ~~~tlfV~nLp~~~t~~~l~~~F~~~----G~v~~v~~~~d~~tg----~~kg~afV~f~~~~~A~~Ai~~l~g--~~~   76 (93)
T d1x5ua1           8 QDATVYVGGLDEKVSEPLLWELFLQA----GPVVNTHMPKDRVTG----QHQGYGFVEFLSEEDADYAIKIMDM--IKL   76 (93)
T ss_dssp             TTTEEEEECCCTTCCHHHHHHHHHTT----SCEEEEECCBCSSSC----SBCSCEEEEESSHHHHHHHHHHSSS--CBC
T ss_pred             CCCEEEEeCCCCcCCHHHHHHHHHHh----CCccccceeeccccc----ccccceEEEECCHHHHHHHHHHcCC--CEE
Confidence            35799999999999999999999999    999999999988776    8999999999999999999999986  556

>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=99.61  E-value=8.6e-16  Score=118.87  Aligned_cols=67  Identities=21%  Similarity=0.325  Sum_probs=62.8

Q ss_pred             ccceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCC
Q psy5142         117 LIAQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKD  191 (410)
Q Consensus       117 ~~~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g  191 (410)
                      .+.++|||+|||+++|+++|+++|++|    |.|.+|+|++++.++    .++|||||+|.+.++|.+|++.++|
T Consensus         4 ~~~t~lfV~nlp~~~te~~l~~~F~~~----G~i~~~~~~~d~~~g----~~~g~afV~f~~~~~A~~Ai~~l~g   70 (85)
T d1b7fa2           4 IKDTNLYVTNLPRTITDDQLDTIFGKY----GSIVQKNILRDKLTG----RPRGVAFVRYNKREEAQEAISALNN   70 (85)
T ss_dssp             TTTCEEEEESCCTTCCHHHHHHHHTSS----SCEEEEEEEECTTTC----CEEEEEEEEESSHHHHHHHHHHHTT
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhh----CCEeeeeeecccccc----cCceeEEEEECCHHHHHHHHHHHCC
Confidence            456789999999999999999999999    999999999987765    8999999999999999999999986

>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=99.60  E-value=7.1e-16  Score=117.97  Aligned_cols=66  Identities=23%  Similarity=0.179  Sum_probs=61.8

Q ss_pred             eeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCCccc
Q psy5142         121 SLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLKF  196 (410)
Q Consensus       121 tv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~~~  196 (410)
                      +|||+|||+++|+++|+++|++|    |+|.+|+|++++.++    +++|||||+|.++++|..|++.++|  ..+
T Consensus         2 slfV~nL~~~~te~~l~~~F~~~----G~i~~v~i~~d~~tg----~~~g~aFV~f~~~~~a~~ai~~l~g--~~~   67 (80)
T d1cvja1           2 SLYVGDLHPDVTEAMLYEKFSPA----GPILSIRVCRDMITR----RSLGYAYVNFQQPADAERALDTMNF--DVI   67 (80)
T ss_dssp             EEEEESCCTTCCHHHHHHHHGGG----SCEEEEEEEECTTTC----CEEEEEEEEESSHHHHHHHHTTSTT--CEE
T ss_pred             EEEEeCCCCcCCHHHHHHHHHHh----CCEeEEEEEeccccc----CCCCceEEEECCHHHHHHHHHHcCC--CEE
Confidence            69999999999999999999999    999999999988876    8999999999999999999999986  445

>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=99.60  E-value=8.3e-16  Score=119.78  Aligned_cols=70  Identities=20%  Similarity=0.184  Sum_probs=63.9

Q ss_pred             ccceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCCccc
Q psy5142         117 LIAQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLKF  196 (410)
Q Consensus       117 ~~~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~~~  196 (410)
                      .+.++|||+|||.++|+++|+++|++|    |.|.+|+|++++.++    .++|||||+|.+.++|++|+..++|  ..+
T Consensus         5 ~~~~~l~V~nL~~~~t~~~l~~~F~~~----G~i~~v~i~~d~~tg----~~~g~afV~f~~~~~A~~A~~~lng--~~l   74 (88)
T d1rk8a_           5 VEGWILFVTSIHEEAQEDEIQEKFCDY----GEIKNIHLNLDRRTG----FSKGYALVEYETHKQALAAKEALNG--AEI   74 (88)
T ss_dssp             C-CEEEEEESCCTTCCHHHHHHHHGGG----SCEEEEEEEECTTTS----SEEEEEEEEESSHHHHHHHHHHHTT--CEE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHHc----CCccccccccccccc----ccccceeEEECCHHHHHHHHHHcCC--CEE
Confidence            457899999999999999999999999    999999999987765    8999999999999999999999886  456

>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=99.60  E-value=9e-16  Score=118.56  Aligned_cols=68  Identities=16%  Similarity=0.297  Sum_probs=62.2

Q ss_pred             cceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCCccc
Q psy5142         118 IAQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLKF  196 (410)
Q Consensus       118 ~~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~~~  196 (410)
                      ..++|||+|||+++|+++|+++|++|    |.|..|.|+++..++    .++|||||+|.++++|++|++..+   ..+
T Consensus         5 ~~~~lfV~nlp~~~te~~l~~~F~~~----G~i~~v~i~~d~~tg----~~kG~afV~f~~~~~a~~ai~~~~---~~i   72 (84)
T d1l3ka1           5 QLRKLFIGGLSFETTDESLRSHFEQW----GTLTDCVVMRDPNTK----RSRGFGFVTYATVEEVDAAMNARP---HKV   72 (84)
T ss_dssp             GGGEEEEESCCTTCCHHHHHHHHGGG----SCEEEEEEEECTTTC----CEEEEEEEEESSHHHHHHHHHTCS---CEE
T ss_pred             CCcEEEEECCCCCCCHHHHHHHHHhh----ccccceeecccccCC----CcccEEEEEEcCHHHHHHHHHhCC---CEE
Confidence            35899999999999999999999999    999999999998876    899999999999999999998644   455

>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=99.60  E-value=9.9e-16  Score=122.52  Aligned_cols=70  Identities=14%  Similarity=0.263  Sum_probs=63.7

Q ss_pred             hccceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCCcc
Q psy5142         116 DLIAQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLK  195 (410)
Q Consensus       116 ~~~~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~~  195 (410)
                      +.+.+||||+|||+++|+++|+++|++|    |+|.+|+|+++..++    .++|||||+|.+.++|++|++ ++|  ..
T Consensus        15 ~~~~~tifV~nL~~~~te~~l~~~F~~~----G~V~~v~i~~d~~tg----~~kG~afV~F~~~e~a~~A~~-l~g--~~   83 (101)
T d2cq4a1          15 ERDARTVFCMQLAARIRPRDLEDFFSAV----GKVRDVRIISDRNSR----RSKGIAYVEFCEIQSVPLAIG-LTG--QR   83 (101)
T ss_dssp             HHHHTEEEEESCCTTCCHHHHHHHHTTT----SCEEEEEECCSCCSS----SCCCCEEEEESCGGGHHHHHH-HTT--EE
T ss_pred             ccCCCEEEEECCCCCCCHHHHHHHHcCC----CeEEEEEeeecCCCc----cccceEEEEECCHHHHHHHHH-HCC--CE
Confidence            3556899999999999999999999999    999999999998775    899999999999999999996 675  55


Q ss_pred             c
Q psy5142         196 F  196 (410)
Q Consensus       196 ~  196 (410)
                      |
T Consensus        84 ~   84 (101)
T d2cq4a1          84 L   84 (101)
T ss_dssp             E
T ss_pred             E
Confidence            6

>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=99.59  E-value=6e-16  Score=124.38  Aligned_cols=70  Identities=23%  Similarity=0.320  Sum_probs=64.6

Q ss_pred             ccceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCCccc
Q psy5142         117 LIAQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLKF  196 (410)
Q Consensus       117 ~~~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~~~  196 (410)
                      ...|||||+|||+++|+++|+++|++|    |+|.+|+|+++..++    .++|||||+|.+.++|++|++.++|  ..+
T Consensus         6 ~~~rtl~V~nLp~~~te~~l~~~f~~~----G~i~~v~i~~~~~tg----~~~g~afV~f~~~~~a~~ai~~l~~--~~~   75 (104)
T d1p1ta_           6 RSLRSVFVGNIPYEATEEQLKDIFSEV----GPVVSFRLVYDRETG----KPKGYGFCEYQDQETALSAMRNLNG--REF   75 (104)
T ss_dssp             HHHSCEEEESCCTTSCHHHHHHHHHTT----SCCSEEEEEEETTTT----EEEEEEEEECSCHHHHHHHHHHSSS--BSC
T ss_pred             CCCCEEEEECCCCcCCHHHHHHhhhcc----cccccccccccccee----ccCCceEEEECCHHHHHHHHHHcCC--CEE
Confidence            457899999999999999999999999    999999999988765    8999999999999999999999886  556

>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=99.59  E-value=1.2e-15  Score=117.13  Aligned_cols=68  Identities=22%  Similarity=0.330  Sum_probs=62.4

Q ss_pred             ceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCCccc
Q psy5142         119 AQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLKF  196 (410)
Q Consensus       119 ~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~~~  196 (410)
                      .++|||+|||.++|+++|+++|++|    |.|.+|+|+++...+    .++|||||+|.++++|++|++.++|  ..+
T Consensus         2 ~t~l~V~nLp~~~te~~l~~~f~~~----G~v~~v~i~~~~~~~----~~~g~afv~f~~~~~a~~a~~~l~g--~~~   69 (82)
T d1fxla1           2 KTNLIVNYLPQNMTQEEFRSLFGSI----GEIESCKLVRDKITG----QSLGYGFVNYIDPKDAEKAINTLNG--LRL   69 (82)
T ss_dssp             CSEEEEESCCTTCCHHHHHHHHHTT----SCEEEEEEEECTTTC----CEEEEEEEEESSHHHHHHHHHHHTT--CEE
T ss_pred             CCEEEEECCCCCCCHHHHHHHHHHh----CCcccccceeeccCC----CceeeEEEEECCHHHHHHHHHHhCC--CEE
Confidence            3579999999999999999999999    999999999887665    8999999999999999999999886  556

>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=99.59  E-value=1.7e-15  Score=117.17  Aligned_cols=67  Identities=21%  Similarity=0.282  Sum_probs=62.6

Q ss_pred             ccceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCC
Q psy5142         117 LIAQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKD  191 (410)
Q Consensus       117 ~~~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g  191 (410)
                      ...++|||+|||+++|+++|+++|++|    |+|.+|+|++++.++    .++|||||+|.++++|.+|++.++|
T Consensus         4 ~k~~~lfV~nLp~~~te~~L~~~F~~~----G~v~~v~i~~d~~~g----~~kg~afV~f~~~~~a~~Ai~~lng   70 (85)
T d1fxla2           4 IRDANLYVSGLPKTMTQKELEQLFSQY----GRIITSRILVDQVTG----VSRGVGFIRFDKRIEAEEAIKGLNG   70 (85)
T ss_dssp             GTTCEEEEESCCTTCCHHHHHHHHGGG----SCEEEEEEEECTTTC----CEEEEEEEEESSHHHHHHHHHHHTT
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHHh----CCccccccccccccc----cCCCeeEEEEcCHHHHHHHHHHhCC
Confidence            456889999999999999999999999    999999999987765    7999999999999999999999986

>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=99.59  E-value=4.3e-16  Score=121.68  Aligned_cols=69  Identities=20%  Similarity=0.246  Sum_probs=63.9

Q ss_pred             cceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCCccc
Q psy5142         118 IAQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLKF  196 (410)
Q Consensus       118 ~~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~~~  196 (410)
                      ..+||||+|||+++|+++|+++|++|    |+|.+|.|++++.++    .++|||||+|.+.++|++|+..++|  ..+
T Consensus         4 ~~~tlfV~nLp~~~te~~l~~~F~~~----G~i~~v~i~~d~~~~----~~kg~afV~f~~~~~A~~ai~~l~~--~~i   72 (89)
T d2cqba1           4 TKRVLYVGGLAEEVDDKVLHAAFIPF----GDITDIQIPLDYETE----KHRGFAFVEFELAEDAAAAIDNMNE--SEL   72 (89)
T ss_dssp             CCSCEEEESCCSSCCHHHHHHHHTTT----SCCCCEECCCCSSSC----CCSSEEEECCSSHHHHHHHHHHHTT--EEE
T ss_pred             CCcEEEEeCCCCcCCHHHHHHHHhhC----CeEEecccccccccc----cccceeEEEECCHHHHHHHHHHcCC--CEE
Confidence            46899999999999999999999999    999999999988775    8999999999999999999999886  455

>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=99.59  E-value=1.1e-15  Score=117.67  Aligned_cols=68  Identities=21%  Similarity=0.289  Sum_probs=63.0

Q ss_pred             ceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCCccc
Q psy5142         119 AQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLKF  196 (410)
Q Consensus       119 ~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~~~  196 (410)
                      .+||||+|||+++|+++|+++|++|    |.|.+|.|+++..++    .++|||||+|.+.++|++|+..++|  ..+
T Consensus         9 ~~~l~V~nL~~~~te~~l~~~F~~~----G~i~~v~i~~~~~~~----~~~g~afV~f~~~~~A~~Ai~~l~g--~~~   76 (83)
T d2cqca1           9 NCCLGVFGLSLYTTERDLREVFSKY----GPIADVSIVYDQQSR----RSRGFAFVYFENVDDAKEAKERANG--MEL   76 (83)
T ss_dssp             GGCEEEESCCSSCCHHHHHHHHHTT----SCEEEEEEEECSSSS----SEEEEEEEEESSHHHHHHHHHHHTT--EEE
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHHh----CCCcccccccccccc----ccccceEEEECCHHHHHHHHHHcCC--CEE
Confidence            5799999999999999999999999    999999999988765    8999999999999999999999886  455

>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=99.57  E-value=1.7e-15  Score=121.52  Aligned_cols=66  Identities=18%  Similarity=0.284  Sum_probs=61.9

Q ss_pred             ccceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcC
Q psy5142         117 LIAQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENK  190 (410)
Q Consensus       117 ~~~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~  190 (410)
                      ...++|||+|||+++|+++|+++|++|    |+|.+|+|+++..++    .++|||||+|.+.++|++|++.++
T Consensus         8 ~~~~~lfV~nLp~~~te~~l~~~F~~~----G~i~~v~i~~d~~tg----~~kg~afV~f~~~~~A~~Ai~~~~   73 (103)
T d2cqda1           8 TTFTKIFVGGLPYHTTDASLRKYFEGF----GDIEEAVVITDRQTG----KSRGYGFVTMADRAAAERACKDPN   73 (103)
T ss_dssp             CSSSEEEEECCCSSCCHHHHHHHHHTT----SCEEEEEESCCSSSC----CCCSEEEEEESSHHHHHHHHTCSS
T ss_pred             CCCcEEEEeCCCCcCcHHHHHHHHhhc----ccccceecccccccc----ccCCeEEEEECCHHHHHHHHHHCC
Confidence            456789999999999999999999999    999999999998876    899999999999999999999887

>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=99.57  E-value=2.5e-15  Score=117.39  Aligned_cols=69  Identities=19%  Similarity=0.319  Sum_probs=63.4

Q ss_pred             cceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCCccc
Q psy5142         118 IAQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLKF  196 (410)
Q Consensus       118 ~~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~~~  196 (410)
                      +.++|||+|||+++|+++|+++|++|    |.|..|.++++..++    .++|||||+|.+.++|++|+..++|  ..+
T Consensus         4 ~~~kifV~nLp~~~t~~~l~~~F~~~----G~i~~~~~~~~~~~~----~~~g~afV~f~~~~~a~~Ai~~l~~--~~~   72 (90)
T d1x5sa1           4 DEGKLFVGGLSFDTNEQSLEQVFSKY----GQISEVVVVKDRETQ----RSRGFGFVTFENIDDAKDAMMAMNG--KSV   72 (90)
T ss_dssp             CCSEEEEESCCTTCCHHHHHHHHHHH----SCCCEEEECCCSSSC----SCCSEEEEECSSHHHHHHHHHHHTT--CCT
T ss_pred             CCCEEEEECCCCcCCHHHHHHhhhcc----ccccceeeccccccc----cccceEEEEECCHHHHHHHHHHcCC--CEE
Confidence            46889999999999999999999999    999999998887765    8999999999999999999999886  456

>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=99.56  E-value=3.4e-15  Score=112.71  Aligned_cols=65  Identities=22%  Similarity=0.388  Sum_probs=59.4

Q ss_pred             eeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCCccc
Q psy5142         121 SLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLKF  196 (410)
Q Consensus       121 tv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~~~  196 (410)
                      .|||+|||+++|+++|+++|++|    |+|.+|.|++++.++    +++|||||+|.++++|++|++..+   ..+
T Consensus         1 klfV~nl~~~~te~~l~~~F~~~----G~i~~~~i~~d~~t~----~~kg~afV~f~~~~~a~~Al~~~~---~~l   65 (75)
T d1hd0a_           1 KMFIGGLSWDTTKKDLKDYFSKF----GEVVDCTLKLDPITG----RSRGFGFVLFKESESVDKVMDQKE---HKL   65 (75)
T ss_dssp             CEEEECCCTTCCHHHHHHHHHTT----SCEEEEECCCBTTTT----BCCSEEEEEESSHHHHHHHHHTCC---CCB
T ss_pred             CEEEeCCCCcCCHHHHHHHHHhh----ccccccccccCCCCC----CcCceEEEEECCHHHHHHHHhcCC---CEE
Confidence            38999999999999999999999    999999999988876    899999999999999999998643   455

>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=99.56  E-value=2e-15  Score=118.08  Aligned_cols=64  Identities=22%  Similarity=0.287  Sum_probs=59.8

Q ss_pred             cceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhc
Q psy5142         118 IAQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNEN  189 (410)
Q Consensus       118 ~~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~  189 (410)
                      ..++|||+|||+++|+++|+++|++|    |+|.+|+|++++.++    .++|||||+|.++++|++||+..
T Consensus         7 ~~~~lfV~nLp~~~te~~l~~~F~~~----G~i~~v~i~~d~~tg----~srG~aFV~f~~~~~a~~al~~~   70 (90)
T d2cqga1           7 KTSDLIVLGLPWKTTEQDLKEYFSTF----GEVLMVQVKKDLKTG----HSKGFGFVRFTEYETQVKVMSQR   70 (90)
T ss_dssp             CCCCEEEESCCSSCCHHHHHHHHGGG----SCEEEEEEEECSSSC----SEEEEEEEEESSHHHHHHHHHSC
T ss_pred             CCCeEEEECCCCCCCHHHHHHHHHhh----cccceeeeccCCCCc----ccCCEEEEEECCHHHHHHHHhcC
Confidence            35789999999999999999999999    999999999998776    89999999999999999999854

>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=99.56  E-value=3.2e-15  Score=118.98  Aligned_cols=69  Identities=23%  Similarity=0.244  Sum_probs=63.6

Q ss_pred             cceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCCccc
Q psy5142         118 IAQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLKF  196 (410)
Q Consensus       118 ~~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~~~  196 (410)
                      ..++|||+|||+++|+++|+++|++|    |.|.+|+|+++..++    .++|||||+|.+.++|++|++.+++  ..+
T Consensus         7 ~~~~lfV~nL~~~~t~~~l~~~F~~~----g~v~~v~i~~d~~tg----~~~g~afV~f~~~~~a~~A~~~l~g--~~~   75 (99)
T d1whwa_           7 GSGRLFVRNLSYTSSEEDLEKLFSAY----GPLSELHYPIDSLTK----KPKGFAFVTFMFPEHAVKAYAEVDG--QVF   75 (99)
T ss_dssp             SCEEEEEECCCTTCCHHHHHHHHHTT----SCEEEEECCCCTTTC----CCCSEEEEEESSHHHHHHHHHHTTT--EES
T ss_pred             CCCEEEEECCCCcCCHHHHHHHHHhc----CCceeeeeccccccc----ccCcceEEEECCHHHHHHHHHHcCC--CEE
Confidence            45789999999999999999999999    999999999988775    8999999999999999999999986  456

>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=99.56  E-value=3.6e-15  Score=113.43  Aligned_cols=65  Identities=17%  Similarity=0.262  Sum_probs=60.4

Q ss_pred             eeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCCccc
Q psy5142         121 SLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLKF  196 (410)
Q Consensus       121 tv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~~~  196 (410)
                      .|||+|||+++|+++|+++|++|    |+|.+|+|+++..+     .++|||||+|.+.++|++|++.++|  ..+
T Consensus         2 rl~V~nLp~~~~~~~l~~~F~~~----G~v~~~~i~~~~~g-----~~~g~afV~f~~~~~A~~Ai~~l~g--~~l   66 (78)
T d1no8a_           2 KLLVSNLDFGVSDADIQELFAEF----GTLKKAAVHYDRSG-----RSLGTADVHFERKADALKAMKQYNG--VPL   66 (78)
T ss_dssp             EEEEESCCTTCCHHHHHHHHHHH----SCEEEEEESCSSCC-----CSCCEEEEEESCHHHHHHHHHHHTT--CEE
T ss_pred             EEEEECCCCCCCHHHHHHHHHHh----CCCeEEEEEEeecc-----ccceeEEEEECCHHHHHHHHHHhCC--CEE
Confidence            49999999999999999999999    99999999988765     7899999999999999999999886  455

>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=99.56  E-value=2.1e-15  Score=117.93  Aligned_cols=69  Identities=17%  Similarity=0.330  Sum_probs=63.8

Q ss_pred             cceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCCccc
Q psy5142         118 IAQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLKF  196 (410)
Q Consensus       118 ~~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~~~  196 (410)
                      +.+||||+|||.++|+++|+++|++|    |.|.+|+|+++..++    .++|||||+|.+.++|++|++.++|  ..+
T Consensus         7 ~~~~i~V~nLp~~~t~~~l~~~f~~~----G~v~~v~i~~d~~t~----~~rg~afV~f~~~~~A~~Ai~~l~g--~~~   75 (90)
T d2cq0a1           7 DNATIRVTNLSEDTRETDLQELFRPF----GSISRIYLAKDKTTG----QSKGFAFISFHRREDAARAIAGVSG--FGY   75 (90)
T ss_dssp             SSEEEEEESCCTTCCHHHHHTTSTTT----CCEEEEEEEECSSSC----SEEEEEEEEESSHHHHHHHHHHTTT--CEE
T ss_pred             CCCEEEEECCCCCCCHHHHHHHHHHh----ccccccccccccccc----ccccceeEEECCHHHHHHHHHHhCC--CEE
Confidence            45799999999999999999999999    999999999988765    8999999999999999999999986  456

>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=99.55  E-value=1.1e-15  Score=116.01  Aligned_cols=66  Identities=14%  Similarity=0.291  Sum_probs=60.5

Q ss_pred             eeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCCccc
Q psy5142         120 QSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLKF  196 (410)
Q Consensus       120 rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~~~  196 (410)
                      +.|||+|||+++|+++|+++|++|    |.|.+|.|++++.++    .++|||||+|.++++|++|++. ++  ..+
T Consensus         1 cklfV~nLp~~~te~~l~~~F~~~----G~i~~v~i~~d~~tg----~~kG~aFV~f~~~~~a~~al~~-~~--~~i   66 (77)
T d1uawa_           1 CKMFIGGLSWQTTQEGLREYFGQF----GEVKECLVMRDPLTK----RSRGFGFVTFMDQAGVDKVLAQ-SR--HEL   66 (77)
T ss_dssp             CCEEEESCCSSCCSHHHHHHHTTT----SCCCCEEEECCCCSS----SCSSEEEECCCCTTHHHHHHHT-TT--CCC
T ss_pred             CEEEEeCCCCcCCHHHHHHHHHHh----CCcceeeeecccCCC----CccceEEEEECCHHHHHHHHHc-CC--CEE
Confidence            579999999999999999999999    999999999998876    8999999999999999999985 53  455

>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=99.55  E-value=2.1e-15  Score=113.94  Aligned_cols=62  Identities=19%  Similarity=0.364  Sum_probs=58.1

Q ss_pred             eeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcC
Q psy5142         121 SLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENK  190 (410)
Q Consensus       121 tv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~  190 (410)
                      .|||+|||+++|+++|+++|++|    |+|.+|+|++++.++    .++|||||+|.+.++|++||+..+
T Consensus         1 klfVgnLp~~~te~~l~~~F~~~----G~I~~v~i~~d~~t~----~~rG~~FV~f~~~~~a~~al~~~~   62 (75)
T d1x0fa1           1 KIFVGGLSPDTPEEKIREYFGGF----GEVESIELPMDNKTN----KRRGFCFITFKEEEPVKKIMEKKY   62 (75)
T ss_dssp             EEEEESCCSSCCHHHHHHHHHHH----SCEEEEECCCCTTTC----CTTCCEEEEESSSHHHHHHTTCSS
T ss_pred             CEEEcCCCCCCCHHHHHHHHHHh----CCccccccccccccc----ccccEEEEEECCHHHHHHHHhhCC
Confidence            48999999999999999999999    999999999998776    899999999999999999998754

>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=99.55  E-value=4.9e-15  Score=116.77  Aligned_cols=70  Identities=20%  Similarity=0.324  Sum_probs=61.7

Q ss_pred             ccceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCc-ccccccccccEEEEEecCHHHHHHHHHhc-CCCCc
Q psy5142         117 LIAQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQD-KLANQKKFKGSIFVTFDNKENAEKFLNEN-KDKNL  194 (410)
Q Consensus       117 ~~~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~-~~~~~~~~kG~afVeF~~~e~A~~Al~~~-~g~~~  194 (410)
                      ...++|||+|||+++|+++|+++|++|    |.|.+|+|+++.. ++    .++|||||+|.+.++|.+|++.+ +|  .
T Consensus         6 ~~~~~l~V~nLp~~~~e~~l~~~F~~~----G~i~~v~i~~~~~~~g----~~rg~afV~f~~~~~A~~Ai~~l~~~--~   75 (94)
T d2cpha1           6 QTTSKILVRNIPFQANQREIRELFSTF----GELKTVRLPKKMTGTG----AHRGFGFVDFITKQDAKKAFNALCHS--T   75 (94)
T ss_dssp             SCCCCEEEESCCTTCCHHHHHHHHHTT----SCEEEEECCCCCSSSC----SSCSEEEEEESSHHHHHHHHHHHHTC--C
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHHh----CCceEEEEEeccccCC----CcccEEEEEECCHHHHHHHHHHccCC--c
Confidence            346789999999999999999999999    9999999988754 44    78999999999999999999987 64  3


Q ss_pred             cc
Q psy5142         195 KF  196 (410)
Q Consensus       195 ~~  196 (410)
                      .+
T Consensus        76 ~~   77 (94)
T d2cpha1          76 HL   77 (94)
T ss_dssp             BS
T ss_pred             EE
Confidence            45

>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=99.55  E-value=4.3e-15  Score=116.12  Aligned_cols=68  Identities=21%  Similarity=0.141  Sum_probs=61.7

Q ss_pred             ccceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCCccc
Q psy5142         117 LIAQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLKF  196 (410)
Q Consensus       117 ~~~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~~~  196 (410)
                      ...+||||+|||.++|+++|+++|++|    |+|.+|.|+++..+      .+|||||+|.+.++|..|+..++|  ..+
T Consensus         6 ~~~~tl~V~nLp~~~te~~l~~~F~~~----G~i~~v~i~~d~~~------~~~~afV~f~~~~~A~~A~~~l~~--~~~   73 (90)
T d2cqia1           6 GQPRTLYVGNLSRDVTEVLILQLFSQI----GPCKSCKMITEHTS------NDPYCFVEFYEHRDAAAALAAMNG--RKI   73 (90)
T ss_dssp             CCCCEEEEESCCTTCCHHHHHHHHHHH----SCEEEEEEECCCCS------SCCEEEEEESSHHHHHHHHHHHTT--EEE
T ss_pred             CCCCEEEEECCCCCCCHHHHHHHHHhc----CCceeeeeecccCc------cceeeEEEECCHHHHHHHHHHcCC--CEE
Confidence            457899999999999999999999999    99999999987664      489999999999999999999886  455

>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=99.55  E-value=2.9e-15  Score=114.66  Aligned_cols=68  Identities=16%  Similarity=0.186  Sum_probs=56.3

Q ss_pred             ceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCCccc
Q psy5142         119 AQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLKF  196 (410)
Q Consensus       119 ~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~~~  196 (410)
                      ++||||+|||+++|+++|+++|++|    |.|..+.+.++...+    .++|||||+|.+.++|++|++.++|  ..+
T Consensus         1 d~tl~v~nLp~~~t~~~l~~~f~~~----G~v~~~~~~~~~~~~----~~~g~afV~f~~~e~A~~Ai~~l~g--~~~   68 (81)
T d2ghpa1           1 ECTLWMTNFPPSYTQRNIRDLLQDI----NVVALSIRLPSLRFN----TSRRFAYIDVTSKEDARYCVEKLNG--LKI   68 (81)
T ss_dssp             SCEEEEECCCTTCCHHHHHHHHHHT----TCCCCEEECC-----------CCEEEEECSSHHHHHHHHHHHTT--CEE
T ss_pred             CcEEEEECCCCcCCHHHHHHHHHHh----CcEEeeeeecccccc----cccceeEEEECCHHHHHHHHHHhCC--CEE
Confidence            3799999999999999999999999    999888776665554    7899999999999999999999986  456

>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=99.54  E-value=4.1e-15  Score=115.01  Aligned_cols=67  Identities=10%  Similarity=0.174  Sum_probs=62.3

Q ss_pred             eeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCCccc
Q psy5142         120 QSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLKF  196 (410)
Q Consensus       120 rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~~~  196 (410)
                      ..|||+|||+++|+++|+++|++|    |+|.+|+|++++.++    .++|||||+|.++++|..|++.++|  ..+
T Consensus         2 ~rlfV~nlp~~~te~~l~~~F~~~----G~v~~v~i~~d~~tg----~~rg~aFV~f~~~~~A~~a~~~l~~--~~l   68 (85)
T d2u2fa_           2 HKLFIGGLPNYLNDDQVKELLTSF----GPLKAFNLVKDSATG----LSKGYAFCEYVDINVTDQAIAGLNG--MQL   68 (85)
T ss_dssp             CCEEEETCCSSCCSHHHHHHHTSS----SCEEEEEEECCCSSS----CCCCEEEEEESSSHHHHHHHHTSSS--CCC
T ss_pred             CEEEEECCCCCCCHHHHHHHHHhc----CccceEEeecccccc----ccceeEEEEECCHHHHHHHHHHhCC--CEE
Confidence            369999999999999999999999    999999999998876    8999999999999999999999986  456

>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=99.54  E-value=2.9e-15  Score=120.19  Aligned_cols=69  Identities=13%  Similarity=0.276  Sum_probs=62.1

Q ss_pred             ccceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCCccc
Q psy5142         117 LIAQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLKF  196 (410)
Q Consensus       117 ~~~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~~~  196 (410)
                      ...++|||+|||+++|+++|+++|++|    |.|..|.|+++..++    .++|||||+|.+.++|++|++..+   ..+
T Consensus        18 ~~~~~lfVgnLp~~~te~~L~~~F~~~----G~i~~~~i~~d~~~~----~~kg~aFV~f~~~~~a~~al~~~~---~~l   86 (103)
T d1x4ba1          18 EQFRKLFIGGLSFETTEESLRNYYEQW----GKLTDCVVMRDPASK----RSRGFGFVTFSSMAEVDAAMAARP---HSI   86 (103)
T ss_dssp             HHHTEEEEECCTTCCCHHHHHHHHTSS----CCCSEEEEECCTTTS----SCCSEEEEECSSHHHHHHHHTSCS---EEE
T ss_pred             CCCCEEEEeCCCCcCCHHHHHHHHHhh----CcccceeecccccCC----CccCeEEEEECCHHHHHHHHHhCC---CeE
Confidence            345899999999999999999999999    999999999988775    799999999999999999998643   456

>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=99.53  E-value=5.9e-15  Score=118.13  Aligned_cols=68  Identities=15%  Similarity=0.179  Sum_probs=63.1

Q ss_pred             ceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCCccc
Q psy5142         119 AQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLKF  196 (410)
Q Consensus       119 ~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~~~  196 (410)
                      .++|||+|||+++|+++|+++|++|    |.|.++.++.+..++    .++|||||+|.+.++|+.|++.++|  ..+
T Consensus        18 ~~~l~V~nLp~~~te~~l~~~F~~~----G~i~~~~~~~~~~~g----~~kG~afV~f~~~~~A~~Ai~~lng--~~~   85 (102)
T d2cpza1          18 GANLFIYHLPQEFGDQDLLQMFMPF----GNVVSAKVFIDKQTN----LSKCFGFVSYDNPVSAQAAIQSMNG--FQI   85 (102)
T ss_dssp             TCCEEEESCCSSCCHHHHHHHHGGG----SCCSEEEEEECSSSC----SEEEEEEEECSSHHHHHHHHHHHTT--CEE
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHhh----ccccccceeeecccC----CCccceEEEeCCHHHHHHHHHHhCC--CEE
Confidence            4789999999999999999999999    999999999887776    8999999999999999999999886  556

>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=99.53  E-value=7.3e-15  Score=113.41  Aligned_cols=68  Identities=22%  Similarity=0.289  Sum_probs=59.6

Q ss_pred             eEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCCccc
Q psy5142         122 LYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLKF  196 (410)
Q Consensus       122 v~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~~~  196 (410)
                      |||+|||+++|+++|+++|++|    |.|.+|.|+++..++ ....++|||||+|.+.++|++|++.++|  ..+
T Consensus         1 LfV~nLp~~~t~~~l~~~F~~~----G~v~~v~i~~~~~~~-~~~~~kG~afV~f~~~~~A~~A~~~~~~--~~~   68 (85)
T d2cpfa1           1 LFIKNLNFSTTEETLKGVFSKV----GAIKSCTISKKKNKA-GVLLSMGFGFVEYKKPEQAQKALKQLQG--HTV   68 (85)
T ss_dssp             EEEESCCTTCCHHHHHHHHHTT----SCEEEEEEEEEECTT-CCEEEEEEEEEEESSHHHHHHHHHHSTT--CEE
T ss_pred             CEEcCCCCCCCHHHHHHHHHHh----CCccccceecccccc-cccccceEEEEEECCHHHHHHHHHHhCC--CEE
Confidence            7999999999999999999999    999999999876552 1124799999999999999999999986  456

>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=99.52  E-value=1.1e-14  Score=110.84  Aligned_cols=67  Identities=25%  Similarity=0.389  Sum_probs=60.8

Q ss_pred             ceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCCccc
Q psy5142         119 AQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLKF  196 (410)
Q Consensus       119 ~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~~~  196 (410)
                      .|+|||+|||+++|+++|+++|++|    |.|..+.++.++.++    .++|+|||+|.++++|++|++. +|  ..+
T Consensus         2 ~r~lfV~nLp~~~te~~l~~~F~~~----G~i~~~~~~~~~~~~----~~~g~afV~f~~~e~~~~al~~-~~--~~l   68 (79)
T d1l3ka2           2 VKKIFVGGIKEDTEEHHLRDYFEQY----GKIEVIEIMTDRGSG----KKRGFAFVTFDDHDSVDKIVIQ-KY--HTV   68 (79)
T ss_dssp             CSEEEEECCTTTCCHHHHHHHHTTT----SCEEEEEEEECTTTC----CEEEEEEEEESSHHHHHHHHHC-SC--CEE
T ss_pred             CCEEEECCCCCcCCHHHHHHHHHHh----ccccccccccCCCCc----ccccEEEEEEcCHHHHHHHHHh-CC--CEE
Confidence            4799999999999999999999999    999999999888775    7899999999999999999975 54  456

>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=99.52  E-value=7.2e-15  Score=124.12  Aligned_cols=70  Identities=17%  Similarity=0.327  Sum_probs=64.2

Q ss_pred             ccceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCCccc
Q psy5142         117 LIAQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLKF  196 (410)
Q Consensus       117 ~~~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~~~  196 (410)
                      ...++|||+|||+++|+++|+++|++|    |.|.+|.|+++..++    .++|||||+|.+.++|..|++.++|  ..+
T Consensus        40 ~~~~~l~V~nLp~~~te~~l~~~F~~~----G~i~~v~i~~d~~t~----~~rg~afV~f~~~~~A~~Ai~~lng--~~~  109 (139)
T d1u6fa1          40 DVLRNLMVNYIPTTVDEVQLRQLFERY----GPIESVKIVCDRETR----QSRGYGFVKFQSGSSAQQAIAGLNG--FNI  109 (139)
T ss_dssp             TTTSEEEEESCSTTCCHHHHHHHHHHH----SCEEEEEEEEETTTT----EEEEEEEEEESSHHHHHHHHHHTTT--EEC
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhh----ccccccccccccccc----cccceeeEEECCHHHHHHHHHHhCC--CEE
Confidence            345789999999999999999999999    999999999988775    8999999999999999999999886  556

>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=99.52  E-value=1e-14  Score=116.41  Aligned_cols=69  Identities=12%  Similarity=0.224  Sum_probs=62.8

Q ss_pred             ccceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCCccc
Q psy5142         117 LIAQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLKF  196 (410)
Q Consensus       117 ~~~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~~~  196 (410)
                      .+.++|||+|||+++|+++|+++|++|    |.|..+++..+..+     .++|||||+|.+.++|++|++.+||  ..+
T Consensus        16 ~~~~~lfV~nLp~~~te~~L~~~F~~~----G~i~~~~~~~~~~~-----~~~g~afV~f~~~~~A~~Ai~~lng--~~i   84 (101)
T d1x5oa1          16 QDPTNLYISNLPLSMDEQELENMLKPF----GQVISTRILRDSSG-----TSRGVGFARMESTEKCEAVIGHFNG--KFI   84 (101)
T ss_dssp             CCTTEEEEESCCTTCCHHHHHHTTTTT----SCEEEEEEEECSSS-----CEEEEEEEEESCHHHHHHHHHHHBT--CCC
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHhhc----ccccceeeeccccc-----ccccceeEEeCCHHHHHHHHHHhCC--CEE
Confidence            456899999999999999999999999    99999999887655     7899999999999999999999997  445

>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=99.51  E-value=1.4e-14  Score=118.00  Aligned_cols=65  Identities=20%  Similarity=0.394  Sum_probs=59.3

Q ss_pred             ceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCCccc
Q psy5142         119 AQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLKF  196 (410)
Q Consensus       119 ~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~~~  196 (410)
                      .|||||+|||.++|+++|+++|++|    |.|.+|+++.+.       .++|||||+|.+.++|..|++.++|  ..+
T Consensus         7 ~r~l~V~nLp~~~te~~l~~~F~~~----G~v~~i~~~~~~-------~~kG~afV~f~~~~~A~~Ai~~l~g--~~~   71 (114)
T d2f9da1           7 NRILYIRNLPYKITAEEMYDIFGKY----GPIRQIRVGNTP-------ETRGTAYVVYEDIFDAKNACDHLSG--FNV   71 (114)
T ss_dssp             CSEEEEESCCTTCCHHHHHHHHHTT----SCEEEEEEECST-------TTTTEEEEEESSHHHHHHHHHHHTT--CEE
T ss_pred             CCEEEEECCCCCCCHHHHHHHHhhc----CCeEeecccccC-------CcCCeEEEEECCHHHHHHHHHHhCC--CEE
Confidence            5899999999999999999999999    999999997643       5689999999999999999999986  456

>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=99.51  E-value=7.9e-15  Score=112.72  Aligned_cols=65  Identities=12%  Similarity=0.154  Sum_probs=58.7

Q ss_pred             eEeecCCCCCCHHHHHHHHhhccCCCCceEEE-EEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCCccc
Q psy5142         122 LYVKYIPVDATLDDIKDFFKKNTSEDVKITNI-IMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLKF  196 (410)
Q Consensus       122 v~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v-~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~~~  196 (410)
                      |||+|||+++|+++|+++|++|    |.|..+ +++++..++    +++|||||+|.+.++|++|++.++|  ..+
T Consensus         1 lfV~nLp~~~te~~l~~~F~~~----G~i~~~~~i~~~~~~g----~~~g~afV~f~~~~~a~~Ai~~~~g--~~~   66 (83)
T d1x5ta1           1 IFIGNLDPEIDEKLLYDTFSAF----GVILQTPKIMRDPDTG----NSKGYAFINFASFDASDAAIEAMNG--QYL   66 (83)
T ss_dssp             EEEECCCTTCCHHHHHHHHHTT----SCBSSCCEECCCTTTC----SCCSEEEEEBSSHHHHHHHHHTTTT--CEE
T ss_pred             CEEcCCCCcCcHHHHHHHHHHh----CceeeeEEEEeecccc----ccCceEEEEECCHHHHHHHHHhCCC--cEE
Confidence            7999999999999999999999    999664 788887765    8999999999999999999999986  456

>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=99.51  E-value=2.1e-14  Score=113.69  Aligned_cols=66  Identities=15%  Similarity=0.264  Sum_probs=61.4

Q ss_pred             cceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCC
Q psy5142         118 IAQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKD  191 (410)
Q Consensus       118 ~~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g  191 (410)
                      +.+||||+|||+++|+++|+++|++|    |.|.++.++.+..++    .++|||||+|.+.++|.+|++.+++
T Consensus         7 ~~~tlfV~nLp~~~te~~l~~~f~~~----G~v~~~~~~~~~~~~----~~~g~afV~F~~~~~a~~ai~~l~~   72 (98)
T d1x4ha1           7 EGKTVFIRNLSFDSEEEALGEVLQQF----GDLKYVRVVLHPDTE----HSKGCAFAQFMTQEAAQKCLAAASL   72 (98)
T ss_dssp             CCCCEEEESCCTTCCHHHHHHHHHTT----SCEEEEECCBCSSSC----CBCSEEEEEESSHHHHHHHHHHHCT
T ss_pred             CCCEEEEcCCCCcCCHHHHHHHHhcc----ccceeeeeccccccc----cccceEEEEEcCHHHHHHHHHHccc
Confidence            46899999999999999999999999    999999999887765    7899999999999999999998873

>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=99.51  E-value=1.9e-14  Score=113.06  Aligned_cols=68  Identities=24%  Similarity=0.265  Sum_probs=61.6

Q ss_pred             ccceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCCccc
Q psy5142         117 LIAQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLKF  196 (410)
Q Consensus       117 ~~~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~~~  196 (410)
                      ...++|||+|||+++|+++|+++|++|    |+|.+|.+.++..      .++|||||+|.+.++|.+|++.++|  ..+
T Consensus         9 ~~~~~l~v~nLp~~~t~~~L~~~F~~~----G~v~~v~~~~~~~------~~kg~afV~f~~~~~a~~Ai~~l~~--~~~   76 (93)
T d2cq3a1           9 STPKRLHVSNIPFRFRDPDLRQMFGQF----GKILDVEIIFNER------GSKGFGFVTFENSADADRAREKLHG--TVV   76 (93)
T ss_dssp             CCCCEEEEESCCTTCCHHHHHHHGGGT----SCEEEEEEECCTT------TTCCEEEEEESCHHHHHHHHHHHTT--CEE
T ss_pred             CCCCEEEEECCCCCCCHHHHHHHHhhc----ceeeecccccccc------CCcceeEEEECCHHHHHHHHHHcCC--CEE
Confidence            457899999999999999999999999    9999999988764      3699999999999999999999886  456

>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=99.49  E-value=1.1e-14  Score=112.71  Aligned_cols=69  Identities=17%  Similarity=0.245  Sum_probs=57.5

Q ss_pred             ccceeeEeecCCCCCC-HHHHHHHHhhccCCCCceEEEEEcccC-cccccccccccEEEEEecCHHHHHHHHHhcCCCCc
Q psy5142         117 LIAQSLYVKYIPVDAT-LDDIKDFFKKNTSEDVKITNIIMRNYQ-DKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNL  194 (410)
Q Consensus       117 ~~~rtv~V~~lp~~~t-~~~L~~~F~~~~~~~G~I~~v~l~~~~-~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~  194 (410)
                      .+.++|||+|||+++| +++|+++|++|    |.|.+|+|++.. .++    .++|||||+|.+.++|++|++ ++|  .
T Consensus         2 ~e~~~l~V~nLp~~~t~ed~l~~~F~~~----G~i~~v~i~~~~~~~~----~~kg~afV~f~~~~~a~~Al~-~n~--~   70 (86)
T d2ghpa3           2 LEGREIMIRNLSTELLDENLLRESFEGF----GSIEKINIPAGQKEHS----FNNCCAFMVFENKDSAERALQ-MNR--S   70 (86)
T ss_dssp             CTTTEEEEEEECTTTCCHHHHHHHHGGG----SCEEEEECCSCCC-------CCCEEEEEEESSHHHHHHHGG-GTT--E
T ss_pred             CCCCEEEEECCCCCcccHHHHHHHHHhh----hhccceeeecccCCcc----ccceeeeEEECCHHHHHHHHh-cCC--C
Confidence            3578999999999976 56699999999    999999987653 343    789999999999999999996 675  5


Q ss_pred             cc
Q psy5142         195 KF  196 (410)
Q Consensus       195 ~~  196 (410)
                      .+
T Consensus        71 ~~   72 (86)
T d2ghpa3          71 LL   72 (86)
T ss_dssp             EE
T ss_pred             EE
Confidence            56

>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=99.49  E-value=2.2e-14  Score=116.11  Aligned_cols=64  Identities=16%  Similarity=0.183  Sum_probs=58.5

Q ss_pred             ccceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCCccc
Q psy5142         117 LIAQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLKF  196 (410)
Q Consensus       117 ~~~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~~~  196 (410)
                      ...+||||+|||+++|+++|+++|++|    |+|..|.|+          ..+|||||+|.+.++|++|++.++|  ..|
T Consensus         8 r~~~~l~V~nLp~~~t~~~L~~~F~~f----G~I~~v~l~----------~~kg~afV~f~~~~~A~~A~~~lng--~~~   71 (111)
T d1whxa_           8 RSKTVILAKNLPAGTLAAEIQETFSRF----GSLGRVLLP----------EGGITAIVEFLEPLEARKAFRHLAY--SKF   71 (111)
T ss_dssp             EEEEEEEEESCCTTCCHHHHHHHHHTT----SCEEEEECC----------SSSSCEEEEESCHHHHHHHHHHHTT--CBS
T ss_pred             CCCCEEEEECCCCCCCHHHHHhhhhcc----CCccEEEee----------ccCceEEEEEcCHHHHHHHHHHHcC--Ccc
Confidence            456899999999999999999999999    999999985          4579999999999999999999997  566

>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=99.49  E-value=1.2e-14  Score=108.63  Aligned_cols=62  Identities=26%  Similarity=0.263  Sum_probs=59.0

Q ss_pred             eEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCC
Q psy5142         122 LYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKD  191 (410)
Q Consensus       122 v~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g  191 (410)
                      |||+|||.++|+++|+++|++|    |.|..+++.++..++    .++|+|||+|.+.++|++|++.++|
T Consensus         1 lyV~nLp~~~te~~l~~~F~~~----G~v~~~~~~~~~~~~----~~~g~afV~f~~~~~A~~Ai~~lng   62 (72)
T d1x4ea1           1 LYIRGLQPGTTDQDLVKLCQPY----GKIVSTKAILDKTTN----KCKGYGFVDFDSPSAAQKAVTALKA   62 (72)
T ss_dssp             EEEESCCTTCCHHHHHTTSTTT----SCEEEEEEECCSSSC----SCCSEEEEEESCHHHHHHHHHHHHH
T ss_pred             CEEeCCCCcCCHHHHHHHHhhh----ccccccccccccccc----cccceeEEEECCHHHHHHHHHHhCC
Confidence            7999999999999999999999    999999999888775    8999999999999999999999986

>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=99.49  E-value=2.7e-14  Score=107.67  Aligned_cols=64  Identities=14%  Similarity=0.164  Sum_probs=56.9

Q ss_pred             eeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCCccc
Q psy5142         120 QSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLKF  196 (410)
Q Consensus       120 rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~~~  196 (410)
                      .||||+|||+++|+++|+++|++|    |.|..|+|+++..+      .+++|||+|.++++|++|+.. ++  ..+
T Consensus         1 Ttv~V~nlp~~~t~~~l~~~F~~~----G~I~~v~~~~~~~~------~~~~afV~F~~~~~a~~Al~~-~~--~~i   64 (75)
T d2ghpa2           1 TTVLVKNLPKSYNQNKVYKYFKHC----GPIIHVDVADSLKK------NFRFARIEFARYDGALAAITK-TH--KVV   64 (75)
T ss_dssp             CEEEEEEECTTCCHHHHHHHHGGG----SCEEEEEEEECTTS------SSEEEEEEESSHHHHHHHHTT-TT--CEE
T ss_pred             CEEEEECCCCCCCHHHHHHHHhcC----CceEEEEEEeeccc------cceEEEEEEcchHHhHHHHHh-cC--cEE
Confidence            489999999999999999999999    99999999987765      367999999999999999975 54  455

>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=99.49  E-value=1.6e-14  Score=112.63  Aligned_cols=66  Identities=18%  Similarity=0.259  Sum_probs=59.9

Q ss_pred             ceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCCccc
Q psy5142         119 AQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLKF  196 (410)
Q Consensus       119 ~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~~~  196 (410)
                      ..+|||+|||+++|+++|+++|++|    |.|.+++|+++..      .++|||||+|.+.++|++|++.++|  ..+
T Consensus         8 ~~~l~V~nLp~~~t~~~l~~~F~~~----G~v~~~~i~~~~~------~~kg~afV~f~~~~~A~~Ai~~l~g--~~~   73 (89)
T d1cvja2           8 VGNIFIKNLDKSIDNKALYDTFSAF----GNILSCKVVCDEN------GSKGYGFVHFETQEAAERAIEKMNG--MLL   73 (89)
T ss_dssp             TTEEEEESCCSSCCHHHHHHHHHTT----SCEEEEEECCBTT------BCCSCEEEEESCHHHHHHHTTSSSE--EEE
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHhc----CCceEEEEEeecC------CCcceeEEEECCHHHHHHHHHHcCC--CEE
Confidence            4689999999999999999999999    9999999988754      4689999999999999999999886  455

>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=99.48  E-value=2.6e-14  Score=107.47  Aligned_cols=65  Identities=22%  Similarity=0.389  Sum_probs=59.1

Q ss_pred             eeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCCccc
Q psy5142         121 SLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLKF  196 (410)
Q Consensus       121 tv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~~~  196 (410)
                      .|||+|||+++|+++|+++|++|    |.|..+.++.+..++    .++|+|||+|.+.++|++|++ ++|  ..+
T Consensus         1 rlfV~nLp~~~te~~l~~~F~~~----G~i~~~~~~~~~~~~----~~~~~afV~F~~~~~a~~al~-~~~--~~l   65 (75)
T d2msta_           1 KIFVGGLSVNTTVEDVKHYFEQF----GKVDDAMLMFDKTTN----RHRGFGFVTFESEDIVEKVCE-IHF--HEI   65 (75)
T ss_dssp             CEEEECCCSSCCHHHHHHHHHTT----SCCSEECCBCCTTCT----TSCCEEEEECSCHHHHHHHHH-CSS--CCB
T ss_pred             CEEEeCCCCCCCHHHHHHHHHHh----CCcceeeeeeecccc----ccCceeEEEECCHHHHHHHHh-cCC--CEE
Confidence            48999999999999999999999    999999998888765    789999999999999999997 665  456

>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=99.48  E-value=1.1e-14  Score=113.58  Aligned_cols=73  Identities=15%  Similarity=0.228  Sum_probs=62.3

Q ss_pred             ccceeeEeecCCCCCCHHHH---HHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCC
Q psy5142         117 LIAQSLYVKYIPVDATLDDI---KDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKN  193 (410)
Q Consensus       117 ~~~rtv~V~~lp~~~t~~~L---~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~  193 (410)
                      .+.++|||+|||+++|+++|   .++|++|    |+|.+|.|++++.++. ...++|||||+|.++++|.+|++.++|  
T Consensus         6 iq~n~vyV~nLp~~~t~~~l~~~~e~F~~~----G~I~~v~i~~~~~~~~-~~~~~g~aFV~f~~~~~A~~Ai~~lng--   78 (89)
T d2cpia1           6 VQKNLVFVVGLSQRLADPEVLKRPEYFGKF----GKIHKVVINNSTSYAG-SQGPSASAYVTYIRSEDALRAIQCVNN--   78 (89)
T ss_dssp             CCSSCEEEEEECTTTCCHHHHHSTTTTTTT----SCEEEEEEECCSSCCS-SSCCCEEEEEEESSHHHHHHHHHHHTT--
T ss_pred             EecCEEEEECCCCccCHHHHHHHHHHhccc----CCceEEEEeeccCcCC-CCCcceEEEEecccchhHHHHHHHhCC--
Confidence            44678999999999999999   6789999    9999999998876531 124679999999999999999999996  


Q ss_pred             ccc
Q psy5142         194 LKF  196 (410)
Q Consensus       194 ~~~  196 (410)
                      ..+
T Consensus        79 ~~~   81 (89)
T d2cpia1          79 VVV   81 (89)
T ss_dssp             EEE
T ss_pred             CEE
Confidence            455

>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=99.46  E-value=6.3e-14  Score=110.64  Aligned_cols=69  Identities=17%  Similarity=0.272  Sum_probs=60.0

Q ss_pred             eeeEeecCCCCCCHHHHHHHHhhccCCCCc-eEEEEEcccCc-ccccccccccEEEEEecCHHHHHHHHHhcCCCCccc
Q psy5142         120 QSLYVKYIPVDATLDDIKDFFKKNTSEDVK-ITNIIMRNYQD-KLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLKF  196 (410)
Q Consensus       120 rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~-I~~v~l~~~~~-~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~~~  196 (410)
                      +.|||+|||.++|+++|+++|++|    |+ |.+|.|+++.. ++    .++|||||+|.+.++|..|++.+++....+
T Consensus         2 ~rLyV~nLp~~~te~~l~~~f~~~----g~~i~~v~~~~~~~~~~----~~rg~aFV~F~~~~~A~~Ai~~l~~~~~~~   72 (96)
T d2disa1           2 CRLFIGGIPKMKKREEILEEIAKV----TEGVLDVIVYASAADKM----KNRGFAFVEYESHRAAAMARRKLMPGRIQL   72 (96)
T ss_dssp             EEEEEECCCTTSCHHHHHHHHHHH----STTEEEEECCSSSCTTT----TTCCEEEEEESSHHHHHHHHTTTTTCCSCB
T ss_pred             CEEEEcCCCCcCCHHHHHHHHHHh----CCcceEEEEeeeccccc----cCCCeEEEEEcCHHHHHHHHHHHcCCCeEE
Confidence            689999999999999999999999    96 99999988754 33    789999999999999999999886433333

>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=99.45  E-value=4.6e-14  Score=112.33  Aligned_cols=70  Identities=24%  Similarity=0.296  Sum_probs=60.5

Q ss_pred             ccceeeEeecCCCCCCHHHHHHHHhhccCCCCceE--------EEEEcccCcccccccccccEEEEEecCHHHHHHHHHh
Q psy5142         117 LIAQSLYVKYIPVDATLDDIKDFFKKNTSEDVKIT--------NIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNE  188 (410)
Q Consensus       117 ~~~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~--------~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~  188 (410)
                      .+.++|||+|||+++|+++|+++|++|    |.|.        .+.++++..++    .++|||||+|.+.++|.+|++.
T Consensus         6 ~~~~~i~V~nLp~~~te~~l~~~F~~~----G~i~~~~~~~~~~~~~~~d~~~~----~~~g~afV~f~~~~~a~~Ai~~   77 (101)
T d2cpea1           6 SDNSAIYVQGLNDSVTLDDLADFFKQC----GVVKMNKRTGQPMIHIYLDKETG----KPKGDATVSYEDPPTAKAAVEW   77 (101)
T ss_dssp             CCCCEEEEECCCTTCCHHHHHHHHTTT----SCBCBCSSSCCBSEECCBCTTTC----SBCSEEEEEBSSHHHHHHHHHH
T ss_pred             CCCCEEEEECCCCcCCHHHHHHHHHHC----ceEEEeeecccceeEEeeccccc----cccceeeEEecCHHHHHHHHHH
Confidence            457899999999999999999999999    9884        45555655554    7899999999999999999999


Q ss_pred             cCCCCccc
Q psy5142         189 NKDKNLKF  196 (410)
Q Consensus       189 ~~g~~~~~  196 (410)
                      ++|  ..|
T Consensus        78 l~g--~~~   83 (101)
T d2cpea1          78 FDG--KDF   83 (101)
T ss_dssp             HTT--CEE
T ss_pred             hCC--CEE
Confidence            986  556

>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=99.45  E-value=8.9e-14  Score=109.58  Aligned_cols=65  Identities=26%  Similarity=0.388  Sum_probs=58.5

Q ss_pred             ceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCCccc
Q psy5142         119 AQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLKF  196 (410)
Q Consensus       119 ~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~~~  196 (410)
                      .++|||+|||+++|+++|+++|++|    |.|..|.+.+..       ..+|||||+|.+.++|+.|++.++|  ..+
T Consensus        14 ~~~l~V~nLp~~~t~~~l~~~F~~~----G~v~~~~~~~~~-------~~~g~afV~f~~~e~a~~Ai~~l~g--~~~   78 (95)
T d1x4aa1          14 DCRIYVGNLPPDIRTKDIEDVFYKY----GAIRDIDLKNRR-------GGPPFAFVEFEDPRDAEDAVYGRDG--YDY   78 (95)
T ss_dssp             SSEEEEESCCTTCCHHHHHHHHGGG----SCEEEEEECCSS-------SSSCCEEEEESCHHHHHHHHHHHTT--CEE
T ss_pred             CCEEEEECCCCCCCHHHHHHHHhcC----CceEEEEecccc-------cccceEEEEECCHHHHHHHHHHhCC--CEE
Confidence            5789999999999999999999999    999999986543       4689999999999999999999886  456

>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=99.44  E-value=3e-13  Score=106.77  Aligned_cols=75  Identities=15%  Similarity=0.193  Sum_probs=69.9

Q ss_pred             CCCeEEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCCCceEEEEeCChhHHHHHHHHhcCCCeEEcCeEEEEEec
Q psy5142         273 PTGALLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVGEPTAFVRYKKENNAEAVLKALGSKEIVIKDVKVSIEVV  352 (410)
Q Consensus       273 ~~g~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g~~~afV~F~~~e~A~~Al~~l~~~~~~i~g~~v~v~~l  352 (410)
                      +..++|+|.|||..+++++|+++|++||    .|..|.+.+++++|||.|.+.++|++|+..|  ++..|+|+.|+|...
T Consensus        16 ~~~~~l~v~nL~~~~te~~L~~~F~~fG----~i~~v~i~~~kg~afV~f~~~~~A~~Ai~~l--~~~~i~g~~l~v~~a   89 (96)
T d1x4ga1          16 PKNCTVYCGGIASGLTDQLMRQTFSPFG----QIMEIRVFPEKGYSFVRFSTHESAAHAIVSV--NGTTIEGHVVKCYWG   89 (96)
T ss_dssp             SSCCEEEEECCSSCCCHHHHHHHHHHHS----CEEEEEEETTTTEEEEEESSHHHHHHHHHHH--TTCEETTEECEEECC
T ss_pred             CCCCEEEEcCCCCCCCHHHHHHHHHHhC----CceEEEEEecceEEEEEECCHHHHHHHHHHh--CCCEECCEEEEEEEc
Confidence            4567999999999999999999999999    9999999999999999999999999999999  678999999999864


Q ss_pred             C
Q psy5142         353 T  353 (410)
Q Consensus       353 ~  353 (410)
                      .
T Consensus        90 k   90 (96)
T d1x4ga1          90 K   90 (96)
T ss_dssp             C
T ss_pred             C
Confidence            3

>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=99.44  E-value=1.3e-14  Score=113.71  Aligned_cols=68  Identities=15%  Similarity=0.227  Sum_probs=59.7

Q ss_pred             ccceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCCccc
Q psy5142         117 LIAQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLKF  196 (410)
Q Consensus       117 ~~~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~~~  196 (410)
                      ...++|||+|||+++|+++|+++|++|    |.|.++.|..+..+     +++|||||+|.+.++|++||+ ++|  ..+
T Consensus        11 ~~~~~ifV~nL~~~~te~~l~~~F~~~----G~i~~~~v~~~~~g-----~~kg~afv~F~~~e~a~~Al~-~~g--~~~   78 (91)
T d1fjeb1          11 TTPFNLFIGNLNPNKSVAELKVAISEL----FAKNDLAVVDVRTG-----TNRKFGYVDFESAEDLEKALE-LTG--LKV   78 (91)
T ss_dssp             SSSEEEEEECCCTTSCHHHHHHHHHHH----HHHHTCCCCEEEEE-----TTTTEEEEEESSHHHHHHHHH-GGG--EEE
T ss_pred             CCCcEEEEeCccCcchHHHHHHHHhcC----CcEEEeeeeecCCC-----CccEEeEEeeCCHHHHHHHHh-cCC--cEE
Confidence            446899999999999999999999999    99999988765444     899999999999999999997 665  456

>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=99.43  E-value=1.3e-13  Score=108.84  Aligned_cols=64  Identities=20%  Similarity=0.163  Sum_probs=57.8

Q ss_pred             ccceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCCccc
Q psy5142         117 LIAQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLKF  196 (410)
Q Consensus       117 ~~~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~~~  196 (410)
                      ...++|||+|||.++|+++|+++|++|    |.|.+|+|.+          .+|||||+|.+.++|.+|+..++|  ..+
T Consensus        16 ~~~~~l~v~nL~~~~te~~L~~~F~~f----G~i~~v~i~~----------~kg~afV~f~~~~~A~~Ai~~l~~--~~i   79 (96)
T d1x4ga1          16 PKNCTVYCGGIASGLTDQLMRQTFSPF----GQIMEIRVFP----------EKGYSFVRFSTHESAAHAIVSVNG--TTI   79 (96)
T ss_dssp             SSCCEEEEECCSSCCCHHHHHHHHHHH----SCEEEEEEET----------TTTEEEEEESSHHHHHHHHHHHTT--CEE
T ss_pred             CCCCEEEEcCCCCCCCHHHHHHHHHHh----CCceEEEEEe----------cceEEEEEECCHHHHHHHHHHhCC--CEE
Confidence            345789999999999999999999999    9999999974          378999999999999999999886  455

>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=99.42  E-value=8.1e-14  Score=107.83  Aligned_cols=63  Identities=22%  Similarity=0.357  Sum_probs=57.3

Q ss_pred             cceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCCccc
Q psy5142         118 IAQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLKF  196 (410)
Q Consensus       118 ~~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~~~  196 (410)
                      ..++|||+|||.++|+++|+++|++|    |.|.+|.|.+          .+|||||+|.+.++|++|+..++|  ..+
T Consensus         7 ~~~~l~V~nLp~~~~~~~l~~~F~~~----G~i~~i~~~~----------~k~~afV~f~~~~~A~~A~~~l~g--~~i   69 (86)
T d2cpja1           7 QRSRLFVGNLPPDITEEEMRKLFEKY----GKAGEVFIHK----------DKGFGFIRLETRTLAEIAKVELDN--MPL   69 (86)
T ss_dssp             CTTEEEEESCCTTCCHHHHHHHTSTT----CCCSEEEEET----------TTTEEEEECSSSHHHHHHHHHHTT--CCB
T ss_pred             CCCEEEEECCCCCCCHHHHHHHHHHh----CCceEeeeec----------ccceEEEEECCHHHHHHHHHHhCC--CEE
Confidence            35679999999999999999999999    9999999873          478999999999999999999986  556

>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=99.41  E-value=3.2e-13  Score=104.71  Aligned_cols=78  Identities=13%  Similarity=0.169  Sum_probs=72.7

Q ss_pred             CCCCeEEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCCCceEEEEeCChhHHHHHHHHhcCCCeEEcCeEEEEEe
Q psy5142         272 LPTGALLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVGEPTAFVRYKKENNAEAVLKALGSKEIVIKDVKVSIEV  351 (410)
Q Consensus       272 ~~~g~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g~~~afV~F~~~e~A~~Al~~l~~~~~~i~g~~v~v~~  351 (410)
                      .++..+|+|.|||+++++++|+++|++||    .|..|.+.+..++|||+|.+.++|+.|++.++.++..++|+.|.|..
T Consensus         5 ~~Ps~~l~V~nLp~~~t~~~L~~~f~~~G----~i~~v~~~~~~~~afV~f~~~e~A~~a~~~~~~~~~~~~g~~l~v~~   80 (88)
T d2cq1a1           5 GAPSRVLHIRKLPGEVTETEVIALGLPFG----KVTNILMLKGKNQAFLELATEEAAITMVNYYSAVTPHLRNQPIYIQY   80 (88)
T ss_dssp             SSCCSEEEEESCCTTCCHHHHHHTTTTTS----CEEEEEEETTTTEEEEEESSHHHHHHHHHHHHHSCCEETTEECEEEE
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHhccc----ccccccccccceEEEEEeCCHHHHHHHHHHHccCCCccCCCEEEEEE
Confidence            46778999999999999999999999999    99999999999999999999999999999887678999999999987


Q ss_pred             cC
Q psy5142         352 VT  353 (410)
Q Consensus       352 l~  353 (410)
                      ..
T Consensus        81 sk   82 (88)
T d2cq1a1          81 SN   82 (88)
T ss_dssp             CS
T ss_pred             CC
Confidence            54

>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=99.41  E-value=2.5e-13  Score=105.03  Aligned_cols=75  Identities=13%  Similarity=0.252  Sum_probs=69.9

Q ss_pred             CCCeEEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCCCceEEEEeCChhHHHHHHHHhcCCCeEEcCeEEEEEec
Q psy5142         273 PTGALLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVGEPTAFVRYKKENNAEAVLKALGSKEIVIKDVKVSIEVV  352 (410)
Q Consensus       273 ~~g~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g~~~afV~F~~~e~A~~Al~~l~~~~~~i~g~~v~v~~l  352 (410)
                      ...+.|+|.|||.++++++|+++|++||    .|..|.+.+++++|||+|.+.++|++|+..|  ++..++|+.|+|+..
T Consensus         6 ~~~~~l~V~nLp~~~~~~~l~~~F~~~G----~i~~i~~~~~k~~afV~f~~~~~A~~A~~~l--~g~~i~g~~l~V~~A   79 (86)
T d2cpja1           6 TQRSRLFVGNLPPDITEEEMRKLFEKYG----KAGEVFIHKDKGFGFIRLETRTLAEIAKVEL--DNMPLRGKQLRVRFA   79 (86)
T ss_dssp             CCTTEEEEESCCTTCCHHHHHHHTSTTC----CCSEEEEETTTTEEEEECSSSHHHHHHHHHH--TTCCBTTBCCEEEES
T ss_pred             cCCCEEEEECCCCCCCHHHHHHHHHHhC----CceEeeeecccceEEEEECCHHHHHHHHHHh--CCCEECCEEEEEEEC
Confidence            3456899999999999999999999999    9999999999999999999999999999999  678999999999976


Q ss_pred             C
Q psy5142         353 T  353 (410)
Q Consensus       353 ~  353 (410)
                      .
T Consensus        80 ~   80 (86)
T d2cpja1          80 C   80 (86)
T ss_dssp             S
T ss_pred             C
Confidence            4

>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=99.41  E-value=3.8e-14  Score=113.02  Aligned_cols=69  Identities=23%  Similarity=0.268  Sum_probs=62.6

Q ss_pred             cceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCCccc
Q psy5142         118 IAQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLKF  196 (410)
Q Consensus       118 ~~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~~~  196 (410)
                      ..+||||+|||.++|+++|+++|++|    |.|..+.+..+..++    .++|||||+|.+.++|.+|++.++|  ..+
T Consensus        17 ps~tl~V~nLp~~~t~~~l~~~f~~~----G~v~~~~~~~~~~~g----~~~g~~fV~f~~~~~A~~Ai~~l~g--~~~   85 (102)
T d2cpxa1          17 PNKVLYLKNLSPRVTERDLVSLFARF----QEKKGPPIQFRMMTG----RMRGQAFITFPNKEIAWQALHLVNG--YKL   85 (102)
T ss_dssp             CCSEEEEECCCTTCCHHHHHHHTHHH----HHSSSSCCEEEEECS----SSCSEEEEECSSHHHHHHHHHHSTT--CBC
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHhhc----cceeeEEeecccccc----cccccceEEeccHHHHHHHHHHhCC--CEE
Confidence            45899999999999999999999999    999999888776654    7899999999999999999999986  556

>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=99.41  E-value=1.1e-13  Score=106.99  Aligned_cols=64  Identities=20%  Similarity=0.392  Sum_probs=56.6

Q ss_pred             ceeeEeecCCCCCCHHHHHHHHhhccCCCCceEE-EEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCC
Q psy5142         119 AQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITN-IIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKD  191 (410)
Q Consensus       119 ~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~-v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g  191 (410)
                      ..+|||+|||+++|+++|+++|+.|    |.|.. +.+..+..+     .++|+|||+|.++++|++|+..+++
T Consensus         9 ~~~l~v~nLp~~~~~~di~~~F~~~----~~~~~~~~~~~~~~g-----~~~G~afV~f~~~e~a~~Ai~~l~~   73 (86)
T d2cqpa1           9 PTIIKVQNMPFTVSIDEILDFFYGY----QVIPGSVCLKYNEKG-----MPTGEAMVAFESRDEATAAVIDLND   73 (86)
T ss_dssp             SEEEEEESCCTTCCHHHHHHHTTTS----CCCTTTCEEEECSSS-----CEEEEEEEEESCHHHHHHHHHHTTT
T ss_pred             CCEEEEECCCCCCCHHHHHHHHhhc----ccceeEEEEEeCCCC-----CcceEEEEEEcCcHHHHHHHHHcCC
Confidence            4679999999999999999999999    98865 456555544     8999999999999999999999986

>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=99.40  E-value=6.7e-13  Score=100.52  Aligned_cols=71  Identities=21%  Similarity=0.302  Sum_probs=64.9

Q ss_pred             EEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCCC-----ceEEEEeCChhHHHHHHHHhcCCCeEEcCeEEEEEe
Q psy5142         277 LLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVGE-----PTAFVRYKKENNAEAVLKALGSKEIVIKDVKVSIEV  351 (410)
Q Consensus       277 ~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g~-----~~afV~F~~~e~A~~Al~~l~~~~~~i~g~~v~v~~  351 (410)
                      .|+|.|||+++++++|+++|++||    .|..|++..+.     ++|||+|.++++|+.|++.|  ++..++|+.|.|++
T Consensus         2 rl~V~nLp~~~~~~~l~~~F~~~G----~v~~~~i~~~~~g~~~g~afV~f~~~~~A~~Ai~~l--~g~~l~g~~l~V~~   75 (78)
T d1no8a_           2 KLLVSNLDFGVSDADIQELFAEFG----TLKKAAVHYDRSGRSLGTADVHFERKADALKAMKQY--NGVPLDGRPMNIQL   75 (78)
T ss_dssp             EEEEESCCTTCCHHHHHHHHHHHS----CEEEEEESCSSCCCSCCEEEEEESCHHHHHHHHHHH--TTCEETTEECEEEE
T ss_pred             EEEEECCCCCCCHHHHHHHHHHhC----CCeEEEEEEeeccccceeEEEEECCHHHHHHHHHHh--CCCEECCEEEEEEE
Confidence            489999999999999999999999    99999987643     37999999999999999999  67899999999998


Q ss_pred             cC
Q psy5142         352 VT  353 (410)
Q Consensus       352 l~  353 (410)
                      ++
T Consensus        76 a~   77 (78)
T d1no8a_          76 VT   77 (78)
T ss_dssp             EC
T ss_pred             ee
Confidence            75

>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=99.40  E-value=2.8e-13  Score=103.89  Aligned_cols=61  Identities=11%  Similarity=0.156  Sum_probs=56.2

Q ss_pred             cceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCC
Q psy5142         118 IAQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKD  191 (410)
Q Consensus       118 ~~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g  191 (410)
                      ..+||||+|||.++|+++|.++|++|    |.|..|++.+         ..+|||||+|.+.++|..|+..++|
T Consensus         7 P~~tl~V~nLp~~~t~~~l~~~f~~~----G~i~~v~~~~---------~~~g~afV~f~~~~~A~~A~~~l~g   67 (83)
T d2b0ga1           7 PNQILFLTNLPEETNEMMLSMLFNQF----PGFKEVRLVP---------NRHDIAFVEFTTELQSNAAKEALQG   67 (83)
T ss_dssp             CCSEEEEESCCTTCCHHHHHHHHTTS----TTEEEEEECT---------TTCSCEEEEESSHHHHHHHHHHHTT
T ss_pred             CCCEEEEECCCCCCCHHHHHhhhccC----ccEEEeeeec---------ccceeEEEecCCHHHHHHHHHHhCC
Confidence            35799999999999999999999999    9999999875         3478999999999999999999986

>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=99.40  E-value=8.6e-14  Score=111.16  Aligned_cols=67  Identities=19%  Similarity=0.262  Sum_probs=57.8

Q ss_pred             ccceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCCccc
Q psy5142         117 LIAQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLKF  196 (410)
Q Consensus       117 ~~~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~~~  196 (410)
                      ....+|||+|||+++|+++|+++|+.|    | |..|+++++..+     .++|||||+|.++++|++|++ +++  ..+
T Consensus        13 ~~~~~v~v~nLp~~~te~dl~~~F~~~----~-~~~v~~~~~~~g-----~~~G~afVeF~~~~~a~~Al~-~~~--~~i   79 (102)
T d1weza_          13 TTGHCVHMRGLPYRATENDIYNFFSPL----N-PMRVHIEIGPDG-----RVTGEADVEFATHEDAVAAMA-KDK--ANM   79 (102)
T ss_dssp             SSSCEEEEESCCTTCCHHHHHHSSCSC----C-CSEEEEEESSSS-----CEEEEEEEECSSSHHHHHHHT-TSS--CCS
T ss_pred             CCCCEEEEeCCCCcCCHHHHHHHHhcc----C-cceeeeEEecCC-----cceEEEEEEECCHHHHHHHHH-cCC--CEE
Confidence            345799999999999999999999999    8 457888877766     789999999999999999997 464  455

>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=99.40  E-value=6.2e-13  Score=104.25  Aligned_cols=77  Identities=19%  Similarity=0.291  Sum_probs=68.6

Q ss_pred             CCCCeEEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCCCc------eEEEEeCChhHHHHHHHHhcCCCeEEcCe
Q psy5142         272 LPTGALLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVGEP------TAFVRYKKENNAEAVLKALGSKEIVIKDV  345 (410)
Q Consensus       272 ~~~g~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g~~------~afV~F~~~e~A~~Al~~l~~~~~~i~g~  345 (410)
                      ....|+|||.|||+.+|+++|+++|++||    .|..|.++++..      +|||+|.+.++|+.|++.|  ++..++|+
T Consensus         4 ~~~s~tlfV~nlp~~~te~~l~~~F~~~G----~i~~v~i~~~~~~~~~kg~afV~f~~~~~A~~Ai~~l--~g~~~~gr   77 (93)
T d1h2vz_           4 LKKSCTLYVGNLSFYTTEEQIYELFSKSG----DIKKIIMGLDKMKKTACGFCFVEYYSRADAENAMRYI--NGTRLDDR   77 (93)
T ss_dssp             TTTCCEEEEESCCTTCCHHHHHHHHGGGS----CEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHT--TTSEETTE
T ss_pred             cCCCCEEEEeCCCCCCCHHHHHHHHHHHC----CcceeccccccccccccceEEEEECCHHHHHHHHHHh--CCCEECCE
Confidence            35678999999999999999999999999    999999876432      6999999999999999999  67899999


Q ss_pred             EEEEEecCc
Q psy5142         346 KVSIEVVTG  354 (410)
Q Consensus       346 ~v~v~~l~g  354 (410)
                      .|.|....|
T Consensus        78 ~i~V~~a~~   86 (93)
T d1h2vz_          78 IIRTDWDAG   86 (93)
T ss_dssp             ECEEEEESC
T ss_pred             EEEEEEcCC
Confidence            999987654

>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=99.40  E-value=8.3e-13  Score=101.13  Aligned_cols=71  Identities=15%  Similarity=0.257  Sum_probs=63.7

Q ss_pred             CCCeEEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCCC------ceEEEEeCChhHHHHHHHHhcCCCeEEcCeE
Q psy5142         273 PTGALLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVGE------PTAFVRYKKENNAEAVLKALGSKEIVIKDVK  346 (410)
Q Consensus       273 ~~g~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g~------~~afV~F~~~e~A~~Al~~l~~~~~~i~g~~  346 (410)
                      ++.++|+|.|||+.+|+++|+++|++||    .|..|.+..+.      ++|||+|.+.++|++|+..|  ++..++|+.
T Consensus         7 ~~~~~l~V~nL~~~~te~~l~~~F~~~G----~i~~v~i~~~~~~~~~~g~afV~f~~~~~A~~Ai~~l--~g~~~~gr~   80 (83)
T d2cqca1           7 DPNCCLGVFGLSLYTTERDLREVFSKYG----PIADVSIVYDQQSRRSRGFAFVYFENVDDAKEAKERA--NGMELDGRR   80 (83)
T ss_dssp             CGGGCEEEESCCSSCCHHHHHHHHHTTS----CEEEEEEEECSSSSSEEEEEEEEESSHHHHHHHHHHH--TTEEETTEE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHHhC----CCccccccccccccccccceEEEECCHHHHHHHHHHc--CCCEECCEE
Confidence            4567899999999999999999999999    99999887543      26999999999999999999  789999999


Q ss_pred             EEE
Q psy5142         347 VSI  349 (410)
Q Consensus       347 v~v  349 (410)
                      |+|
T Consensus        81 i~V   83 (83)
T d2cqca1          81 IRV   83 (83)
T ss_dssp             EEE
T ss_pred             eEC
Confidence            876

>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=99.39  E-value=2.6e-13  Score=105.08  Aligned_cols=59  Identities=20%  Similarity=0.303  Sum_probs=54.2

Q ss_pred             eeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCCccc
Q psy5142         121 SLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLKF  196 (410)
Q Consensus       121 tv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~~~  196 (410)
                      .|||+|||+++|+++|+++|++|    |.|.+|.+.+           .|||||+|.+.++|++||+.++|  ..|
T Consensus         2 rvfV~nlp~~~~~~~l~~~F~~~----G~v~~~~i~~-----------~g~afV~f~~~~~a~~Ai~~l~g--~~~   60 (87)
T d3begb1           2 RVVVSGLPPSGSWQDLKDHMREA----GDVCYADVYR-----------DGTGVVEFVRKEDMTYAVRKLDN--TKF   60 (87)
T ss_dssp             CEEEEECCSSCCTTHHHHHHGGG----SCEEEEEECT-----------TSEEEEEESSHHHHHHHHHHHTT--CBC
T ss_pred             eEEEECCCCcCCHHHHHHHHhhh----cccccccccc-----------cceeeEEeCCHHHHHHHHHHhCC--CEE
Confidence            69999999999999999999999    9999998853           58999999999999999999986  456

>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=99.39  E-value=3.2e-13  Score=108.12  Aligned_cols=68  Identities=21%  Similarity=0.262  Sum_probs=56.9

Q ss_pred             cceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCCccc
Q psy5142         118 IAQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLKF  196 (410)
Q Consensus       118 ~~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~~~  196 (410)
                      ...+|||+|||+++|+++|++||+.|    |.|..+.++....++    .++|+|||+|.++++|++|++ +++  ..+
T Consensus        14 ~~~~v~v~nLP~~~te~dI~~~F~~~----g~v~~~v~~~~~~~~----~~kG~afV~F~~~e~a~~a~~-~~~--~~i   81 (104)
T d1wg5a_          14 NDGFVRLRGLPFGCSKEEIVQFFSGL----EIVPNGMTLPVDFQG----RSTGEAFVQFASQEIAEKALK-KHK--ERI   81 (104)
T ss_dssp             CCCEEEEESCCTTCCHHHHHHHTTTC----CEEEEEEECCBCSSS----CBCSEEEEEESSHHHHHHHHT-TTT--CCS
T ss_pred             CCcEEEEeCCCCCCCHHHHHHHHHhc----CCceEEEEEEeCCCC----CcceEEEEEeCCHHHHHHHHh-hCC--CEE
Confidence            45689999999999999999999999    998875555544443    899999999999999999997 453  455

>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=99.39  E-value=4e-13  Score=108.55  Aligned_cols=74  Identities=14%  Similarity=0.190  Sum_probs=68.9

Q ss_pred             CCeEEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCCCceEEEEeCChhHHHHHHHHhcCCCeEEcCeEEEEEecC
Q psy5142         274 TGALLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVGEPTAFVRYKKENNAEAVLKALGSKEIVIKDVKVSIEVVT  353 (410)
Q Consensus       274 ~g~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g~~~afV~F~~~e~A~~Al~~l~~~~~~i~g~~v~v~~l~  353 (410)
                      .+++|+|.|||+.+++++|+++|++||    .|..|.+.+..++|||.|.+.++|.+|++.|  ++..+.|+.|.|+...
T Consensus         9 ~~~~l~V~nLp~~~t~~~L~~~F~~fG----~I~~v~l~~~kg~afV~f~~~~~A~~A~~~l--ng~~~~gr~l~v~~a~   82 (111)
T d1whxa_           9 SKTVILAKNLPAGTLAAEIQETFSRFG----SLGRVLLPEGGITAIVEFLEPLEARKAFRHL--AYSKFHHVPLYLEWAP   82 (111)
T ss_dssp             EEEEEEEESCCTTCCHHHHHHHHHTTS----CEEEEECCSSSSCEEEEESCHHHHHHHHHHH--TTCBSSSSBCEEEEEE
T ss_pred             CCCEEEEECCCCCCCHHHHHhhhhccC----CccEEEeeccCceEEEEEcCHHHHHHHHHHH--cCCccCCCeEEEEECC
Confidence            457999999999999999999999999    9999999998899999999999999999999  6789999999988653

>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=99.38  E-value=3.5e-13  Score=108.55  Aligned_cols=63  Identities=13%  Similarity=0.097  Sum_probs=56.1

Q ss_pred             ceeeEeecCCC-CCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCCccc
Q psy5142         119 AQSLYVKYIPV-DATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLKF  196 (410)
Q Consensus       119 ~rtv~V~~lp~-~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~~~  196 (410)
                      .++|||+|||+ .+|+++|+++|+.|    |.|..|.|.++         .+|+|||+|.+.++|.+|++.++|  ..+
T Consensus         2 ~~~l~V~nL~p~~~te~~L~~~F~~f----G~I~~v~i~~~---------~kg~afV~f~~~~~A~~ai~~lng--~~l   65 (109)
T d2adca1           2 NSVLLVSNLNPERVTPQSLFILFGVY----GDVQRVKILFN---------KKENALVQMADGNQAQLAMSHLNG--HKL   65 (109)
T ss_dssp             CSEEEEESCCTTTCCHHHHHHHHHHH----TCEEEEEECCT---------TSCCEEEEESCHHHHHHHHHHHTT--CBC
T ss_pred             CCEEEEeCCCcccCCHHHHHHHHhhc----cccceEEEEec---------ccceEEEEECCHHHHHHHHHHhCC--CEE
Confidence            47999999965 59999999999999    99999999763         378999999999999999999986  455

>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=99.38  E-value=3.2e-13  Score=107.03  Aligned_cols=62  Identities=23%  Similarity=0.289  Sum_probs=56.7

Q ss_pred             cceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCCccc
Q psy5142         118 IAQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLKF  196 (410)
Q Consensus       118 ~~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~~~  196 (410)
                      ..++|||+|||+++|+++|+++|++|    |.|.++.|.           .+|||||+|.+.++|++||+.++|  ..|
T Consensus        14 ~~~~i~V~Nlp~~~~~~~L~~~F~~~----G~v~~~~i~-----------~~g~afV~f~~~~~a~~Ai~~lng--~~~   75 (98)
T d1wg4a_          14 SDFRVLVSGLPPSGSWQDLKDHMREA----GDVCYADVQ-----------KDGMGMVEYLRKEDMEYALRKLDD--TKF   75 (98)
T ss_dssp             CSCEEEEECCCSSCCHHHHHHHHTTS----SCEEEEEEE-----------TTTEEEEEESSHHHHHHHHHHHSS--EEE
T ss_pred             CCCEEEEECCCCCCCHHHHHHHHHhh----ccccccccc-----------ccceEEEEECCHHHHHHHHHHhCC--CEe
Confidence            46789999999999999999999999    999999884           368999999999999999999986  556

>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=99.38  E-value=2.2e-13  Score=105.65  Aligned_cols=66  Identities=21%  Similarity=0.222  Sum_probs=57.3

Q ss_pred             ccceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCCccc
Q psy5142         117 LIAQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLKF  196 (410)
Q Consensus       117 ~~~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~~~  196 (410)
                      ...++|||+|||.++|+++|+++|++|    |.|.+|.+.          ..+|+|||+|.+.++|++|++.+++....+
T Consensus         6 ~Ps~~l~V~nLp~~~t~~~L~~~f~~~----G~i~~v~~~----------~~~~~afV~f~~~e~A~~a~~~~~~~~~~~   71 (88)
T d2cq1a1           6 APSRVLHIRKLPGEVTETEVIALGLPF----GKVTNILML----------KGKNQAFLELATEEAAITMVNYYSAVTPHL   71 (88)
T ss_dssp             SCCSEEEEESCCTTCCHHHHHHTTTTT----SCEEEEEEE----------TTTTEEEEEESSHHHHHHHHHHHHHSCCEE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHhcc----ccccccccc----------ccceEEEEEeCCHHHHHHHHHHHccCCCcc
Confidence            346899999999999999999999999    999999886          347899999999999999998765333455

>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=99.38  E-value=7.2e-13  Score=101.19  Aligned_cols=73  Identities=12%  Similarity=0.262  Sum_probs=65.4

Q ss_pred             CeEEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCC------CceEEEEeCChhHHHHHHHHhcCCCeEEcCeEEE
Q psy5142         275 GALLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVG------EPTAFVRYKKENNAEAVLKALGSKEIVIKDVKVS  348 (410)
Q Consensus       275 g~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g------~~~afV~F~~~e~A~~Al~~l~~~~~~i~g~~v~  348 (410)
                      ++.|||.|||+++++++|+++|++||    .|..|.+.++      .++|||+|.++++|++|++.|  ++..++|+.|.
T Consensus         2 ~t~l~V~nLp~~~t~~~l~~~F~~~G----~v~~~~i~~~~~~g~~~g~afV~f~~~~~A~~ai~~l--ng~~~~g~~l~   75 (82)
T d1b7fa1           2 NTNLIVNYLPQDMTDRELYALFRAIG----PINTCRIMRDYKTGYSYGYAFVDFTSEMDSQRAIKVL--NGITVRNKRLK   75 (82)
T ss_dssp             CSEEEEECCCTTCCHHHHHHHHHTTS----CEEEEECCEETTTTEECSEEEEEESSHHHHHHHHHHH--TTCEETTEECE
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHHhC----CcceeeeeeecccCCccccceEEECCHHHHHHHHHHh--CCCEECCEEEE
Confidence            56899999999999999999999999    9999987643      236999999999999999999  67899999999


Q ss_pred             EEecC
Q psy5142         349 IEVVT  353 (410)
Q Consensus       349 v~~l~  353 (410)
                      |+...
T Consensus        76 v~~a~   80 (82)
T d1b7fa1          76 VSYAR   80 (82)
T ss_dssp             EEECC
T ss_pred             EEEcC
Confidence            98764

>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=99.38  E-value=3.3e-13  Score=107.91  Aligned_cols=66  Identities=18%  Similarity=0.340  Sum_probs=56.2

Q ss_pred             ceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCc-ccccccccccEEEEEecCHHHHHHHHHhcCCCCccc
Q psy5142         119 AQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQD-KLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLKF  196 (410)
Q Consensus       119 ~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~-~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~~~  196 (410)
                      .+||||+|||+++|+++|+++|+.|    | |..++++.+.. ++    .++|||||+|.+.++|++|++ +++  ..+
T Consensus        15 ~~~v~V~nLp~~~te~~l~~~f~~~----g-~~~~~~~~~~~~~g----~~~g~afV~f~~~e~a~~~~~-~~~--~~~   81 (104)
T d1wi8a_          15 PYTAFLGNLPYDVTEESIKEFFRGL----N-ISAVRLPREPSNPE----RLKGFGYAEFEDLDSLLSALS-LNE--ESL   81 (104)
T ss_dssp             CEEEEEESCCSSCCHHHHHHHTTTS----C-EEEEECCBCSSCTT----SBCSCEEEEESSHHHHHHHHG-GGT--CEE
T ss_pred             CCEEEEeCCCCcCCHHHHHHHHHHh----c-cccceeeeeeccCC----CcceeeeEEECCHHHHHHHHH-cCC--CEE
Confidence            5899999999999999999999999    9 77787776653 33    789999999999999998886 554  556

>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=99.38  E-value=1.7e-12  Score=100.60  Aligned_cols=74  Identities=24%  Similarity=0.326  Sum_probs=65.9

Q ss_pred             CCCeEEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCCC------ceEEEEeCChhHHHHHHHHhcCCCeEEcCeE
Q psy5142         273 PTGALLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVGE------PTAFVRYKKENNAEAVLKALGSKEIVIKDVK  346 (410)
Q Consensus       273 ~~g~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g~------~~afV~F~~~e~A~~Al~~l~~~~~~i~g~~  346 (410)
                      ..+++|||.|||..+++++|+++|++||    .|..|.+..+.      ++|||+|.+.++|+.|+..|  ++..++|+.
T Consensus         5 ~~~~~l~V~nL~~~~t~~~l~~~F~~~G----~i~~v~i~~d~~tg~~~g~afV~f~~~~~A~~A~~~l--ng~~l~g~~   78 (88)
T d1rk8a_           5 VEGWILFVTSIHEEAQEDEIQEKFCDYG----EIKNIHLNLDRRTGFSKGYALVEYETHKQALAAKEAL--NGAEIMGQT   78 (88)
T ss_dssp             C-CEEEEEESCCTTCCHHHHHHHHGGGS----CEEEEEEEECTTTSSEEEEEEEEESSHHHHHHHHHHH--TTCEETTEE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHHcC----CcccccccccccccccccceeEEECCHHHHHHHHHHc--CCCEECCEE
Confidence            4678999999999999999999999999    99999887643      25999999999999999999  678999999


Q ss_pred             EEEEec
Q psy5142         347 VSIEVV  352 (410)
Q Consensus       347 v~v~~l  352 (410)
                      |.|+..
T Consensus        79 l~V~~a   84 (88)
T d1rk8a_          79 IQVDWC   84 (88)
T ss_dssp             CEEEES
T ss_pred             EEEEEe
Confidence            998864

>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=99.37  E-value=8.6e-13  Score=105.23  Aligned_cols=80  Identities=18%  Similarity=0.300  Sum_probs=69.6

Q ss_pred             CCCCCeEEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCCC------ceEEEEeCChhHHHHHHHHhcCCCeEEcC
Q psy5142         271 ELPTGALLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVGE------PTAFVRYKKENNAEAVLKALGSKEIVIKD  344 (410)
Q Consensus       271 ~~~~g~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g~------~~afV~F~~~e~A~~Al~~l~~~~~~i~g  344 (410)
                      ..++++.|||.|||+++++++|+++|++||    .|..|.+....      ++|||+|.++++|+.||..|  ++..++|
T Consensus        14 ~~p~~~~l~V~nLp~~~te~~l~~~F~~~G----~i~~~~~~~~~~~g~~kG~afV~f~~~~~A~~Ai~~l--ng~~~~g   87 (102)
T d2cpza1          14 EGPEGANLFIYHLPQEFGDQDLLQMFMPFG----NVVSAKVFIDKQTNLSKCFGFVSYDNPVSAQAAIQSM--NGFQIGM   87 (102)
T ss_dssp             CCSTTCCEEEESCCSSCCHHHHHHHHGGGS----CCSEEEEEECSSSCSEEEEEEEECSSHHHHHHHHHHH--TTCEETT
T ss_pred             CCCCCCEEEEeCCCCCCCHHHHHHHHHhhc----cccccceeeecccCCCccceEEEeCCHHHHHHHHHHh--CCCEECC
Confidence            346788999999999999999999999999    88888776432      36999999999999999999  6899999


Q ss_pred             eEEEEEecCchH
Q psy5142         345 VKVSIEVVTGEE  356 (410)
Q Consensus       345 ~~v~v~~l~g~e  356 (410)
                      +.|.|+......
T Consensus        88 ~~i~V~~a~~k~   99 (102)
T d2cpza1          88 KRLKVQLKRSKN   99 (102)
T ss_dssp             EECEEECCCCSC
T ss_pred             EEEEEEEeCCCC
Confidence            999999876543

>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=99.37  E-value=3.6e-13  Score=103.92  Aligned_cols=62  Identities=19%  Similarity=0.269  Sum_probs=56.1

Q ss_pred             ceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCCccc
Q psy5142         119 AQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLKF  196 (410)
Q Consensus       119 ~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~~~  196 (410)
                      .++|||+|||+++|+++|+++|++|    |.|..+.+.          .++|||||+|.+.++|..|+..++|  ..+
T Consensus         8 ~k~l~V~nLp~~~te~~l~~~F~~~----g~i~~~~~~----------~~rg~afV~f~~~~~A~~Ai~~l~~--~~i   69 (86)
T d2cpda1           8 VKILYVRNLMLSTSEEMIEKEFNNI----KPGAVERVK----------KIRDYAFVHFSNREDAVEAMKALNG--KVL   69 (86)
T ss_dssp             CCEEEEESCCTTCCHHHHHHHHHTT----STTCEEEEE----------ECSSEEEEEESSHHHHHHHHHHHSS--EEE
T ss_pred             CCEEEEcCCCCCCCHHHHHHhhccc----ceeeeEEEc----------cccEEEEEEeCCHHHHHHHHHHcCC--CEE
Confidence            4799999999999999999999999    999877763          5789999999999999999999986  556

>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=99.36  E-value=2.5e-13  Score=107.11  Aligned_cols=65  Identities=28%  Similarity=0.465  Sum_probs=56.9

Q ss_pred             ccceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCCccc
Q psy5142         117 LIAQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLKF  196 (410)
Q Consensus       117 ~~~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~~~  196 (410)
                      ...++|||+|||+++|+++|+++|++|    |.|..+..    .+     .++|||||+|.+.++|++|++.++|  ..+
T Consensus        14 ~~~~~l~V~nL~~~~te~~l~~~F~~~----g~v~~~~~----~~-----~~~~~afV~f~~~~~A~~A~~~l~~--~~~   78 (96)
T d1fjca_          14 RAARTLLAKNLSFNITEDELKEVFEDA----LEIRLVSQ----DG-----KSKGIAYIEFKSEADAEKNLEEKQG--AEI   78 (96)
T ss_dssp             TGGGEEEEESCCSSCCHHHHHHHHCSE----EEECCEEE----TT-----EEEEEEEEEESSHHHHHHHHHHTTE--EEE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhc----ccceeeee----cC-----ccccEEEEEeCCHHHHHHHHHHcCC--CEE
Confidence            457899999999999999999999999    99876643    12     6799999999999999999999986  556

>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=99.36  E-value=2.4e-12  Score=99.22  Aligned_cols=75  Identities=16%  Similarity=0.246  Sum_probs=68.2

Q ss_pred             CCCeEEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCCCceEEEEeCChhHHHHHHHHhcCCCeEEcCeEEEEEec
Q psy5142         273 PTGALLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVGEPTAFVRYKKENNAEAVLKALGSKEIVIKDVKVSIEVV  352 (410)
Q Consensus       273 ~~g~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g~~~afV~F~~~e~A~~Al~~l~~~~~~i~g~~v~v~~l  352 (410)
                      .+..+|||.|||+.+++++|+++|++||    .|..+.+....++|||.|.+.++|..|+..|  ++..|+|+.|.|+..
T Consensus         6 ~~~k~l~V~nLp~~~te~~l~~~F~~~g----~i~~~~~~~~rg~afV~f~~~~~A~~Ai~~l--~~~~i~g~~i~V~~a   79 (86)
T d2cpda1           6 SSVKILYVRNLMLSTSEEMIEKEFNNIK----PGAVERVKKIRDYAFVHFSNREDAVEAMKAL--NGKVLDGSPIEVTLA   79 (86)
T ss_dssp             SCCCEEEEESCCTTCCHHHHHHHHHTTS----TTCEEEEEECSSEEEEEESSHHHHHHHHHHH--SSEEETTEEEEEECC
T ss_pred             cCCCEEEEcCCCCCCCHHHHHHhhcccc----eeeeEEEccccEEEEEEeCCHHHHHHHHHHc--CCCEECCEEEEEEec
Confidence            3446899999999999999999999999    8877888888889999999999999999999  689999999999875


Q ss_pred             C
Q psy5142         353 T  353 (410)
Q Consensus       353 ~  353 (410)
                      .
T Consensus        80 k   80 (86)
T d2cpda1          80 K   80 (86)
T ss_dssp             C
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=99.36  E-value=1.4e-12  Score=97.98  Aligned_cols=71  Identities=15%  Similarity=0.339  Sum_probs=65.6

Q ss_pred             EEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCCCceEEEEeCChhHHHHHHHHhcCCCeEEcCeEEEEEecCch
Q psy5142         278 LKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVGEPTAFVRYKKENNAEAVLKALGSKEIVIKDVKVSIEVVTGE  355 (410)
Q Consensus       278 l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g~~~afV~F~~~e~A~~Al~~l~~~~~~i~g~~v~v~~l~g~  355 (410)
                      |+|.|||+++++++|+++|++||     +..+.+.+..++|||.|.+.++|++|+..|  ++..++|++|.|++...+
T Consensus         1 i~V~nLp~~~t~~~l~~~F~~~g-----~~~~~~~~~~g~afv~f~~~~~A~~Ai~~l--n~~~~~g~~l~V~~a~~d   71 (75)
T d1wi6a1           1 ILIRGLPGDVTNQEVHDLLSDYE-----LKYCFVDKYKGTAFVTLLNGEQAEAAINTF--HQSRLRERELSVQLQPTD   71 (75)
T ss_dssp             EEEECCCTTCCHHHHHHHTTTSC-----EEEEEEETTTTEEEEEESSHHHHHHHHHHH--TTEESSSCEEEEEECCST
T ss_pred             CEEeCCCCcCCHHHHHHHHhccc-----ccceeecccceeEEEEECCHHHHHHHHHHh--CCccCCCCEEEEEEeCCC
Confidence            78999999999999999999999     667778888899999999999999999999  689999999999987654

>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=99.36  E-value=1.4e-12  Score=104.36  Aligned_cols=79  Identities=16%  Similarity=0.262  Sum_probs=72.7

Q ss_pred             CCCCCeEEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCCCceEEEEeCChhHHHHHHHHhcCCCeEEcCeEEEEE
Q psy5142         271 ELPTGALLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVGEPTAFVRYKKENNAEAVLKALGSKEIVIKDVKVSIE  350 (410)
Q Consensus       271 ~~~~g~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g~~~afV~F~~~e~A~~Al~~l~~~~~~i~g~~v~v~  350 (410)
                      ..++..+|+|.|||+.+++++|.++|++||    .|..|.+.+.++.|||+|.+.++|+.|+..++..++.++|+.|.|.
T Consensus        11 ~~~ps~~l~v~nlp~~~te~~l~~~F~~fG----~I~~~~~~~~k~~AfV~f~~~e~A~~ai~~~~~~~~~~~g~~l~v~   86 (104)
T d1wexa_          11 KVSVSPVVHVRGLCESVVEADLVEALEKFG----TICYVMMMPFKRQALVEFENIDSAKECVTFAADVPVYIAGQQAFFN   86 (104)
T ss_dssp             CCCCCSEEEEESCCSSCCHHHHHHHHTTTS----CEEEEEEETTTTEEEEEESSHHHHHHHHHHHHHSCCBSSSSBCEEE
T ss_pred             cCCCCCEEEEeCCCCCCCHHHHHHhhhhcc----cceEEEEEecceeEEEEeCCHHHHHHHHHHHcCCCcEEeeEEEEEE
Confidence            345677999999999999999999999999    9999999999999999999999999999999767889999999998


Q ss_pred             ecC
Q psy5142         351 VVT  353 (410)
Q Consensus       351 ~l~  353 (410)
                      ...
T Consensus        87 ~s~   89 (104)
T d1wexa_          87 YST   89 (104)
T ss_dssp             ECS
T ss_pred             EcC
Confidence            754

>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=99.36  E-value=1.5e-13  Score=104.72  Aligned_cols=62  Identities=18%  Similarity=0.263  Sum_probs=54.0

Q ss_pred             eeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCCccc
Q psy5142         120 QSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLKF  196 (410)
Q Consensus       120 rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~~~  196 (410)
                      .+|||+|||.++|+++|+++|++|    |.|.++.+.          ..+|||||+|.+.++|++|++.++|. ..+
T Consensus         2 n~l~V~nLp~~~te~~L~~~F~~~----G~i~~~~~~----------~~rg~aFV~f~~~~~A~~Ai~~lng~-~~~   63 (80)
T d2cqha1           2 NKLYIGNLSPAVTADDLRQLFGDR----KLPLAGQVL----------LKSGYAFVDYPDQNWAIRAIETLSGK-VEL   63 (80)
T ss_dssp             CCEEEECCCTTCCHHHHHHHHHHT----TCCCSSCEE----------EETTEEEECCSCHHHHHHHHHHHTTT-CEE
T ss_pred             CEEEEECCCCCCCHHHHHHHHHHh----CcEEEeEEe----------cccceEEEEECCHHHHHHHHHHhCCC-eEE
Confidence            479999999999999999999999    998765553          46899999999999999999999862 345

>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=99.36  E-value=3.5e-13  Score=105.19  Aligned_cols=65  Identities=22%  Similarity=0.441  Sum_probs=56.8

Q ss_pred             ceeeEeecCCCCCCHHHHH----HHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCCc
Q psy5142         119 AQSLYVKYIPVDATLDDIK----DFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNL  194 (410)
Q Consensus       119 ~rtv~V~~lp~~~t~~~L~----~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~  194 (410)
                      .+||||+|||+++|+++|+    .+|++|    |+|.+|.+.+.  +     .++|||||+|.+.++|.+|++.++|  .
T Consensus         3 ~~tl~V~nLp~~~t~~dl~~~l~~~f~~~----G~i~~i~~~~~--~-----~~~g~afV~F~~~~~A~~A~~~~~~--~   69 (91)
T d1nu4a_           3 NHTIYINNLNEKIKKDELKKSLHAIFSRF----GQILDILVSRS--L-----KMRGQAFVIFKEVSSATNALRSMQG--F   69 (91)
T ss_dssp             CSEEEEESCCTTSCHHHHHHHHHHHHGGG----SCEEEEECCHH--H-----HHTTCEEEEESSHHHHHHHHHHHTT--C
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHHHhccc----ccccceEEeee--c-----cCCCceEEEECCHHHHHHHHHHhCC--C
Confidence            4899999999999999986    468999    99999988652  2     6799999999999999999999986  4


Q ss_pred             cc
Q psy5142         195 KF  196 (410)
Q Consensus       195 ~~  196 (410)
                      .+
T Consensus        70 ~~   71 (91)
T d1nu4a_          70 PF   71 (91)
T ss_dssp             EE
T ss_pred             EE
Confidence            56

>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=99.35  E-value=5e-13  Score=101.49  Aligned_cols=61  Identities=21%  Similarity=0.257  Sum_probs=54.9

Q ss_pred             cceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCCccc
Q psy5142         118 IAQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLKF  196 (410)
Q Consensus       118 ~~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~~~  196 (410)
                      ..+||||+|||  +|+++|+++|++|    |.|.+|.+.          ..+|||||+|.+.++|.+|+..++|  ..+
T Consensus         4 ~~~ti~V~~~~--~te~~L~~~F~~~----G~I~~v~~~----------~~~~~afV~f~~~~~A~~Ai~~lng--~~~   64 (79)
T d2bz2a1           4 KGNTLYVYGED--MTPTLLRGAFSPF----GNIIDLSMD----------PPRNCAFVTYEKMESADQAVAELNG--TQV   64 (79)
T ss_dssp             CCCEEEEECSS--CCHHHHHHHHSTT----CCCSCEEEE----------TTTTEEEEECSSHHHHHHHHHHHTT--CBC
T ss_pred             CCCEEEEECCC--CCHHHHHHHHhcc----Cccceeeec----------cCCCEEEEEEcccHHHHHHHHHhCC--CEE
Confidence            45899999996  8999999999999    999999986          3578999999999999999999986  556

>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=99.35  E-value=7.2e-13  Score=102.96  Aligned_cols=74  Identities=12%  Similarity=0.298  Sum_probs=67.0

Q ss_pred             EEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCC----CceEEEEeCChhHHHHHHHHhcCCCeEEcCeEEEEEec
Q psy5142         277 LLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVG----EPTAFVRYKKENNAEAVLKALGSKEIVIKDVKVSIEVV  352 (410)
Q Consensus       277 ~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g----~~~afV~F~~~e~A~~Al~~l~~~~~~i~g~~v~v~~l  352 (410)
                      .|||.|||+++++++|+++|++||    .|..+.+..+    .++|||.|.+.++|++|++.|  ++..++|+.|.|...
T Consensus        10 ~l~V~nLp~~~t~~~l~~~F~~~G----~v~~~~i~~~~~~~kg~afV~f~~~~~A~~Ai~~l--~g~~~~g~~i~V~~a   83 (89)
T d1cvja2          10 NIFIKNLDKSIDNKALYDTFSAFG----NILSCKVVCDENGSKGYGFVHFETQEAAERAIEKM--NGMLLNDRKVFVGRF   83 (89)
T ss_dssp             EEEEESCCSSCCHHHHHHHHHTTS----CEEEEEECCBTTBCCSCEEEEESCHHHHHHHTTSS--SEEEETTEEEEEEEC
T ss_pred             EEEEeCCCCCCCHHHHHHHHHhcC----CceEEEEEeecCCCcceeEEEECCHHHHHHHHHHc--CCCEECCEEEEEEEC
Confidence            699999999999999999999999    9999988764    357999999999999999999  789999999999987


Q ss_pred             CchH
Q psy5142         353 TGEE  356 (410)
Q Consensus       353 ~g~e  356 (410)
                      ...+
T Consensus        84 ~~~~   87 (89)
T d1cvja2          84 KSRK   87 (89)
T ss_dssp             CCTT
T ss_pred             CCCC
Confidence            6543

>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=99.35  E-value=9.9e-13  Score=101.85  Aligned_cols=61  Identities=18%  Similarity=0.198  Sum_probs=55.0

Q ss_pred             ceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCC
Q psy5142         119 AQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKD  191 (410)
Q Consensus       119 ~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g  191 (410)
                      .+||||+|||.++|+++|+++|++|    |.|..+.+...        ..+|+|||+|.+.++|.+|+..++|
T Consensus        10 s~tL~V~NLp~~~te~~l~~~F~~~----G~v~~~~~~~~--------~~~~~afV~f~~~~~A~~A~~~l~~   70 (88)
T d2adca2          10 SATLHLSNIPPSVSEEDLKVLFSSN----GGVVKGFKFFQ--------KDRKMALIQMGSVEEAVQALIDLHN   70 (88)
T ss_dssp             CSEEEEECCCTTCCHHHHHHHHHTT----SCCEEEEEECS--------SSTTCEEEEESSHHHHHHHHHHHTT
T ss_pred             CCEEEEECCCCCCCHHHHHHHhhcc----CCEEEEEEeee--------cccceeEEEECCHHHHHHHHHhccC
Confidence            4799999999999999999999999    99988876542        4578999999999999999999986

>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=99.35  E-value=1.5e-12  Score=102.03  Aligned_cols=77  Identities=16%  Similarity=0.248  Sum_probs=68.2

Q ss_pred             CCCeEEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCC------CceEEEEeCChhHHHHHHHHhcCCCeEEcCeE
Q psy5142         273 PTGALLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVG------EPTAFVRYKKENNAEAVLKALGSKEIVIKDVK  346 (410)
Q Consensus       273 ~~g~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g------~~~afV~F~~~e~A~~Al~~l~~~~~~i~g~~  346 (410)
                      +..++|||.|||..+++++|+++|++||    .|..|.+..+      .++|||.|.+.++|++|++.|  ++..++|+.
T Consensus         7 ~~~~tlfV~nLp~~~t~~~l~~~F~~~G----~v~~v~~~~d~~tg~~kg~afV~f~~~~~A~~Ai~~l--~g~~~~g~~   80 (93)
T d1x5ua1           7 NQDATVYVGGLDEKVSEPLLWELFLQAG----PVVNTHMPKDRVTGQHQGYGFVEFLSEEDADYAIKIM--DMIKLYGKP   80 (93)
T ss_dssp             CTTTEEEEECCCTTCCHHHHHHHHHTTS----CEEEEECCBCSSSCSBCSCEEEEESSHHHHHHHHHHS--SSCBCSSCB
T ss_pred             CCCCEEEEeCCCCcCCHHHHHHHHHHhC----CccccceeecccccccccceEEEECCHHHHHHHHHHc--CCCEECCEE
Confidence            4457899999999999999999999999    9999988653      236999999999999999999  678999999


Q ss_pred             EEEEecCch
Q psy5142         347 VSIEVVTGE  355 (410)
Q Consensus       347 v~v~~l~g~  355 (410)
                      |+|+.+...
T Consensus        81 l~V~~A~~~   89 (93)
T d1x5ua1          81 IRVNKASAH   89 (93)
T ss_dssp             CEEEETTTT
T ss_pred             EEEEEcCCC
Confidence            999987643

>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=99.35  E-value=3.8e-12  Score=99.62  Aligned_cols=76  Identities=20%  Similarity=0.329  Sum_probs=67.6

Q ss_pred             CCCeEEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCC----CceEEEEeCChhHHHHHHHHhcCCCeEEcCeEEE
Q psy5142         273 PTGALLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVG----EPTAFVRYKKENNAEAVLKALGSKEIVIKDVKVS  348 (410)
Q Consensus       273 ~~g~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g----~~~afV~F~~~e~A~~Al~~l~~~~~~i~g~~v~  348 (410)
                      .....|||.|||+.+++++|+++|++||    .|..|.+..+    .++|||.|.++++|.+|+..|  ++..++|+.|.
T Consensus         9 ~~~~~l~v~nLp~~~t~~~L~~~F~~~G----~v~~v~~~~~~~~~kg~afV~f~~~~~a~~Ai~~l--~~~~~~g~~l~   82 (93)
T d2cq3a1           9 STPKRLHVSNIPFRFRDPDLRQMFGQFG----KILDVEIIFNERGSKGFGFVTFENSADADRAREKL--HGTVVEGRKIE   82 (93)
T ss_dssp             CCCCEEEEESCCTTCCHHHHHHHGGGTS----CEEEEEEECCTTTTCCEEEEEESCHHHHHHHHHHH--TTCEETTEECE
T ss_pred             CCCCEEEEECCCCCCCHHHHHHHHhhcc----eeeeccccccccCCcceeEEEECCHHHHHHHHHHc--CCCEECCEEEE
Confidence            3345799999999999999999999999    9999998865    346999999999999999999  67899999999


Q ss_pred             EEecCc
Q psy5142         349 IEVVTG  354 (410)
Q Consensus       349 v~~l~g  354 (410)
                      |+.+..
T Consensus        83 V~~A~~   88 (93)
T d2cq3a1          83 VNNATA   88 (93)
T ss_dssp             EEECCS
T ss_pred             EEecCc
Confidence            998753

>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=99.34  E-value=8.2e-13  Score=105.71  Aligned_cols=65  Identities=18%  Similarity=0.255  Sum_probs=56.8

Q ss_pred             cceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCCccc
Q psy5142         118 IAQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLKF  196 (410)
Q Consensus       118 ~~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~~~  196 (410)
                      ..++|||+|||.++|+++|.++|++|    |.|..|.|.          +.+|+|||+|.+.++|+.|+..+++..+.+
T Consensus        14 ps~~l~v~nlp~~~te~~l~~~F~~f----G~I~~~~~~----------~~k~~AfV~f~~~e~A~~ai~~~~~~~~~~   78 (104)
T d1wexa_          14 VSPVVHVRGLCESVVEADLVEALEKF----GTICYVMMM----------PFKRQALVEFENIDSAKECVTFAADVPVYI   78 (104)
T ss_dssp             CCSEEEEESCCSSCCHHHHHHHHTTT----SCEEEEEEE----------TTTTEEEEEESSHHHHHHHHHHHHHSCCBS
T ss_pred             CCCEEEEeCCCCCCCHHHHHHhhhhc----ccceEEEEE----------ecceeEEEEeCCHHHHHHHHHHHcCCCcEE
Confidence            46899999999999999999999999    999999986          357899999999999999998875322444

>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=99.34  E-value=2.1e-13  Score=108.90  Aligned_cols=67  Identities=19%  Similarity=0.177  Sum_probs=56.9

Q ss_pred             cceeeEeecCCCCCCHHHHHHHHhhccCCCCceEE-EEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCCccc
Q psy5142         118 IAQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITN-IIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLKF  196 (410)
Q Consensus       118 ~~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~-v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~~~  196 (410)
                      ...+|||+|||+++|+++|++||+.|    |.|.. +.++.+..+     .++|+|||+|.++++|++||+ +++  ..+
T Consensus         7 ~~~~v~v~nLp~~~t~~~l~~~F~~~----g~i~~~~~~~~~~~g-----~~~G~afV~F~s~~~a~~Al~-~n~--~~i   74 (103)
T d2cpya1           7 AKVCAHITNIPFSITKMDVLQFLEGI----PVDENAVHVLVDNNG-----QGLGQALVQFKNEDDARKSER-LHR--KKL   74 (103)
T ss_dssp             CCCEEEEESCCTTSCHHHHHHHTTTS----CCCSTTEEECCCTTS-----SCSSCEEEECSSHHHHHHHGG-GCS--EEE
T ss_pred             CceEEEEeCCCCCCCHHHHhhhhccc----ceEEEEEEEEeCCCC-----CcCccEEEEECCHHHHHHHHh-cCC--CeE
Confidence            35789999999999999999999999    98876 555555544     899999999999999999997 564  456

>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=99.34  E-value=1.1e-12  Score=103.62  Aligned_cols=59  Identities=12%  Similarity=0.164  Sum_probs=55.1

Q ss_pred             ceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCC
Q psy5142         119 AQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKD  191 (410)
Q Consensus       119 ~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g  191 (410)
                      .+||||+|||.++|+++|+++|++|    |.|..|++.+          .+++|||+|.+.++|++|++.+++
T Consensus        17 s~tl~V~nLp~~~t~~~l~~~f~~~----G~i~~~~~~~----------~~~~afV~f~~~~~A~~A~~~l~~   75 (97)
T d1whya_          17 TTRLWVGGLGPNTSLAALAREFDRF----GSIRTIDHVK----------GDSFAYIQYESLDAAQAACAKMRG   75 (97)
T ss_dssp             CSCEEEECCCSSCCHHHHHHHHHTT----SCEEEEEECS----------SSCCEEEEESSHHHHHHHHHHHTT
T ss_pred             CCEEEEcCCCCCCCHHHHHHHHHhh----cccceEeeec----------cccEEEeccCCHHHHHHHHHHhCC
Confidence            5899999999999999999999999    9999999863          478999999999999999999986

>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=99.34  E-value=5.5e-12  Score=98.01  Aligned_cols=75  Identities=17%  Similarity=0.240  Sum_probs=67.3

Q ss_pred             CCeEEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCC----CceEEEEeCChhHHHHHHHHhcCCCeEEcCeEEEE
Q psy5142         274 TGALLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVG----EPTAFVRYKKENNAEAVLKALGSKEIVIKDVKVSI  349 (410)
Q Consensus       274 ~g~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g----~~~afV~F~~~e~A~~Al~~l~~~~~~i~g~~v~v  349 (410)
                      ...+|||.|||..+++++|+++|++||    .|..|.+...    .++|||.|.+.++|..|+..+  ++..+.|+.|+|
T Consensus         7 ~~~tl~V~nLp~~~te~~l~~~F~~~G----~i~~v~i~~d~~~~~~~afV~f~~~~~A~~A~~~l--~~~~~~g~~i~v   80 (90)
T d2cqia1           7 QPRTLYVGNLSRDVTEVLILQLFSQIG----PCKSCKMITEHTSNDPYCFVEFYEHRDAAAALAAM--NGRKILGKEVKV   80 (90)
T ss_dssp             CCCEEEEESCCTTCCHHHHHHHHHHHS----CEEEEEEECCCCSSCCEEEEEESSHHHHHHHHHHH--TTEEETTEEEEE
T ss_pred             CCCEEEEECCCCCCCHHHHHHHHHhcC----CceeeeeecccCccceeeEEEECCHHHHHHHHHHc--CCCEECCEEEEE
Confidence            345899999999999999999999999    9999988754    447999999999999999999  789999999999


Q ss_pred             EecCc
Q psy5142         350 EVVTG  354 (410)
Q Consensus       350 ~~l~g  354 (410)
                      .....
T Consensus        81 ~~a~~   85 (90)
T d2cqia1          81 NWATT   85 (90)
T ss_dssp             EECCC
T ss_pred             EEcCC
Confidence            98753

>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=99.34  E-value=6.6e-13  Score=106.99  Aligned_cols=62  Identities=15%  Similarity=0.125  Sum_probs=56.7

Q ss_pred             ceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCC
Q psy5142         119 AQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDK  192 (410)
Q Consensus       119 ~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~  192 (410)
                      ..+|||+|||+++|+++|+++|++|    |.|..|.|.+.        +.+|+|||+|.+.++|+.|+..++|.
T Consensus         7 ~~~v~V~NL~~~vte~~L~~~F~~~----G~i~~~~i~~~--------~~~g~aFV~f~~~e~A~~Ai~~ln~~   68 (108)
T d2adba1           7 VLRIIVENLFYPVTLDVLHQIFSKF----GTVLKIITFTK--------NNQFQALLQYADPVSAQHAKLSLDGQ   68 (108)
T ss_dssp             EEEEESCSCCSTTHHHHHHHHHTTT----SCEEEEEEEEE--------TTEEEEEEEESCHHHHHHHHHHHHSC
T ss_pred             eEEEEEeCcCCCCCHHHHHHHHccC----CcEEEEEEEee--------CCCCeEEEEECCHHHHHHHHHHHCCC
Confidence            4789999999999999999999999    99999998754        35799999999999999999999863

>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=99.33  E-value=1.3e-12  Score=99.14  Aligned_cols=72  Identities=17%  Similarity=0.321  Sum_probs=66.9

Q ss_pred             CCeEEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCCCceEEEEeCChhHHHHHHHHhcCCCeEEcCeEEEEEecC
Q psy5142         274 TGALLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVGEPTAFVRYKKENNAEAVLKALGSKEIVIKDVKVSIEVVT  353 (410)
Q Consensus       274 ~g~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g~~~afV~F~~~e~A~~Al~~l~~~~~~i~g~~v~v~~l~  353 (410)
                      .+++|||.|++  +|+++|+++|++||    .|..|++.+..++|||.|.+.++|..|+..|  ++..++|+.|+|+...
T Consensus         4 ~~~ti~V~~~~--~te~~L~~~F~~~G----~I~~v~~~~~~~~afV~f~~~~~A~~Ai~~l--ng~~~~g~~l~V~~a~   75 (79)
T d2bz2a1           4 KGNTLYVYGED--MTPTLLRGAFSPFG----NIIDLSMDPPRNCAFVTYEKMESADQAVAEL--NGTQVESVQLKVNIAR   75 (79)
T ss_dssp             CCCEEEEECSS--CCHHHHHHHHSTTC----CCSCEEEETTTTEEEEECSSHHHHHHHHHHH--TTCBCSSCBCEEEECC
T ss_pred             CCCEEEEECCC--CCHHHHHHHHhccC----ccceeeeccCCCEEEEEEcccHHHHHHHHHh--CCCEECCEEEEEEEec
Confidence            46789999986  89999999999999    9999999999999999999999999999999  6789999999998764

>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=99.33  E-value=4e-12  Score=103.16  Aligned_cols=76  Identities=16%  Similarity=0.206  Sum_probs=68.5

Q ss_pred             CCCeEEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCC---CceEEEEeCChhHHHHHHHHhcCCCeEEcCeEEEE
Q psy5142         273 PTGALLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVG---EPTAFVRYKKENNAEAVLKALGSKEIVIKDVKVSI  349 (410)
Q Consensus       273 ~~g~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g---~~~afV~F~~~e~A~~Al~~l~~~~~~i~g~~v~v  349 (410)
                      +.+++|||.|||..+++++|+++|++||    .|..|.+...   .++|||.|.+.++|..|++.|  ++..|+|+.|.|
T Consensus         5 ~~~r~l~V~nLp~~~te~~l~~~F~~~G----~v~~i~~~~~~~~kG~afV~f~~~~~A~~Ai~~l--~g~~~~gr~l~V   78 (114)
T d2f9da1           5 EVNRILYIRNLPYKITAEEMYDIFGKYG----PIRQIRVGNTPETRGTAYVVYEDIFDAKNACDHL--SGFNVCNRYLVV   78 (114)
T ss_dssp             TCCSEEEEESCCTTCCHHHHHHHHHTTS----CEEEEEEECSTTTTTEEEEEESSHHHHHHHHHHH--TTCEETTEECEE
T ss_pred             CCCCEEEEECCCCCCCHHHHHHHHhhcC----CeEeecccccCCcCCeEEEEECCHHHHHHHHHHh--CCCEECCEEEEE
Confidence            3467999999999999999999999999    9999998754   457999999999999999999  778999999999


Q ss_pred             EecCc
Q psy5142         350 EVVTG  354 (410)
Q Consensus       350 ~~l~g  354 (410)
                      .....
T Consensus        79 ~~a~~   83 (114)
T d2f9da1          79 LYYNA   83 (114)
T ss_dssp             EECCH
T ss_pred             EEcCC
Confidence            98754

>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=99.33  E-value=2.4e-12  Score=98.61  Aligned_cols=75  Identities=16%  Similarity=0.254  Sum_probs=65.8

Q ss_pred             CCCCeEEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCCC-ceEEEEeCChhHHHHHHHHhcCCCeEE-cCeEEEE
Q psy5142         272 LPTGALLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVGE-PTAFVRYKKENNAEAVLKALGSKEIVI-KDVKVSI  349 (410)
Q Consensus       272 ~~~g~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g~-~~afV~F~~~e~A~~Al~~l~~~~~~i-~g~~v~v  349 (410)
                      .|++++|+|.|||..+++++|+++|++||    .|..|.+.++. +.|||+|.+.++|..|+..|  ++..+ +|+.|.|
T Consensus         5 ~pP~~tl~V~nLp~~~t~~~l~~~f~~~G----~i~~v~~~~~~~g~afV~f~~~~~A~~A~~~l--~g~~~~~~~~i~v   78 (83)
T d2b0ga1           5 QPPNQILFLTNLPEETNEMMLSMLFNQFP----GFKEVRLVPNRHDIAFVEFTTELQSNAAKEAL--QGFKITPTHAMKI   78 (83)
T ss_dssp             CSCCSEEEEESCCTTCCHHHHHHHHTTST----TEEEEEECTTTCSCEEEEESSHHHHHHHHHHH--TTCBSSTTCBCEE
T ss_pred             CCCCCEEEEECCCCCCCHHHHHhhhccCc----cEEEeeeecccceeEEEecCCHHHHHHHHHHh--CCcEeCCCcEEEE
Confidence            46678999999999999999999999999    99999998765 58999999999999999999  55666 5688888


Q ss_pred             Eec
Q psy5142         350 EVV  352 (410)
Q Consensus       350 ~~l  352 (410)
                      ...
T Consensus        79 ~~a   81 (83)
T d2b0ga1          79 TFA   81 (83)
T ss_dssp             EEC
T ss_pred             EEe
Confidence            754

>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=99.33  E-value=2.2e-13  Score=105.79  Aligned_cols=57  Identities=21%  Similarity=0.437  Sum_probs=52.4

Q ss_pred             cceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHH
Q psy5142         118 IAQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLN  187 (410)
Q Consensus       118 ~~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~  187 (410)
                      ..++|||+|||+++|+++|+++|++|    |.|.+|+++.         .++|||||+|.+.++|++|+.
T Consensus         4 ~s~~lfV~nLp~~~te~~L~~~F~~~----G~v~~v~~~~---------~~~gfafV~f~~~~~a~~a~~   60 (88)
T d1wf0a_           4 GSSGVFVGRCTGDMTEDELREFFSQY----GDVMDVFIPK---------PFRAFAFVTFADDQIAQSLCG   60 (88)
T ss_dssp             CCCEEEEESCCSSSCHHHHHHHSTTT----SCCCEEECCS---------SCCSCCEEECSCHHHHHHTTT
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHHc----CCceEEEEee---------ccCceEEEEECCHHHHHHHHh
Confidence            46899999999999999999999999    9999998753         568999999999999999986

>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=99.33  E-value=3.8e-12  Score=100.00  Aligned_cols=77  Identities=17%  Similarity=0.257  Sum_probs=68.2

Q ss_pred             CCCCCeEEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCC---CceEEEEeCChhHHHHHHHHhcCCCeEEcCeEE
Q psy5142         271 ELPTGALLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVG---EPTAFVRYKKENNAEAVLKALGSKEIVIKDVKV  347 (410)
Q Consensus       271 ~~~~g~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g---~~~afV~F~~~e~A~~Al~~l~~~~~~i~g~~v  347 (410)
                      ....+|.|||.|||+++++++|+++|++||    .|..+.+...   ..+|||.|.+.++|+.||+.|  ++..++|+.|
T Consensus        10 ~~~~~~~l~V~nLp~~~t~~~l~~~F~~~G----~v~~~~~~~~~~~~g~afV~f~~~e~a~~Ai~~l--~g~~~~g~~l   83 (95)
T d1x4aa1          10 AGNNDCRIYVGNLPPDIRTKDIEDVFYKYG----AIRDIDLKNRRGGPPFAFVEFEDPRDAEDAVYGR--DGYDYDGYRL   83 (95)
T ss_dssp             CCCCSSEEEEESCCTTCCHHHHHHHHGGGS----CEEEEEECCSSSSSCCEEEEESCHHHHHHHHHHH--TTCEETTEEC
T ss_pred             CCCCCCEEEEECCCCCCCHHHHHHHHhcCC----ceEEEEecccccccceEEEEECCHHHHHHHHHHh--CCCEECCEEE
Confidence            346678999999999999999999999999    9998887643   456999999999999999999  6789999999


Q ss_pred             EEEecC
Q psy5142         348 SIEVVT  353 (410)
Q Consensus       348 ~v~~l~  353 (410)
                      +|+...
T Consensus        84 ~V~~a~   89 (95)
T d1x4aa1          84 RVEFPR   89 (95)
T ss_dssp             EEECCC
T ss_pred             EEEecc
Confidence            998753

>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=99.33  E-value=3.6e-12  Score=97.15  Aligned_cols=72  Identities=15%  Similarity=0.311  Sum_probs=64.5

Q ss_pred             eEEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCCC------ceEEEEeCChhHHHHHHHHhcCCCeEEcCeEEEE
Q psy5142         276 ALLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVGE------PTAFVRYKKENNAEAVLKALGSKEIVIKDVKVSI  349 (410)
Q Consensus       276 ~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g~------~~afV~F~~~e~A~~Al~~l~~~~~~i~g~~v~v  349 (410)
                      +.|||.|||.++++++|+++|++||    .|..|++.++.      ++|||.|.++++|++|++.|  ++..++|+.|.|
T Consensus         3 t~l~V~nLp~~~te~~l~~~f~~~G----~v~~v~i~~~~~~~~~~g~afv~f~~~~~a~~a~~~l--~g~~~~g~~l~v   76 (82)
T d1fxla1           3 TNLIVNYLPQNMTQEEFRSLFGSIG----EIESCKLVRDKITGQSLGYGFVNYIDPKDAEKAINTL--NGLRLQTKTIKV   76 (82)
T ss_dssp             SEEEEESCCTTCCHHHHHHHHHTTS----CEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHH--TTCEETTEECEE
T ss_pred             CEEEEECCCCCCCHHHHHHHHHHhC----CcccccceeeccCCCceeeEEEEECCHHHHHHHHHHh--CCCEECCEEEEE
Confidence            4799999999999999999999999    99999887532      25999999999999999999  678999999999


Q ss_pred             EecC
Q psy5142         350 EVVT  353 (410)
Q Consensus       350 ~~l~  353 (410)
                      ....
T Consensus        77 ~~Ak   80 (82)
T d1fxla1          77 SYAR   80 (82)
T ss_dssp             EECC
T ss_pred             EEee
Confidence            8754

>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=99.33  E-value=2.4e-12  Score=96.72  Aligned_cols=71  Identities=8%  Similarity=0.202  Sum_probs=62.8

Q ss_pred             eEEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCCCc----eEEEEeCChhHHHHHHHHhcCCCeEEcCeEEEEEe
Q psy5142         276 ALLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVGEP----TAFVRYKKENNAEAVLKALGSKEIVIKDVKVSIEV  351 (410)
Q Consensus       276 ~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g~~----~afV~F~~~e~A~~Al~~l~~~~~~i~g~~v~v~~  351 (410)
                      ++|+|.|||+.+++++|+++|++||    .|..|.+..+..    .|||+|.++++|++|+. +  ++..|+|+.|.|+.
T Consensus         1 Ttv~V~nlp~~~t~~~l~~~F~~~G----~I~~v~~~~~~~~~~~~afV~F~~~~~a~~Al~-~--~~~~i~g~~i~V~~   73 (75)
T d2ghpa2           1 TTVLVKNLPKSYNQNKVYKYFKHCG----PIIHVDVADSLKKNFRFARIEFARYDGALAAIT-K--THKVVGQNEIIVSH   73 (75)
T ss_dssp             CEEEEEEECTTCCHHHHHHHHGGGS----CEEEEEEEECTTSSSEEEEEEESSHHHHHHHHT-T--TTCEETTEECEEEE
T ss_pred             CEEEEECCCCCCCHHHHHHHHhcCC----ceEEEEEEeeccccceEEEEEEcchHHhHHHHH-h--cCcEECCEEEEEEE
Confidence            3789999999999999999999999    999999876543    69999999999999985 6  46789999999987


Q ss_pred             cC
Q psy5142         352 VT  353 (410)
Q Consensus       352 l~  353 (410)
                      ++
T Consensus        74 ~T   75 (75)
T d2ghpa2          74 LT   75 (75)
T ss_dssp             CC
T ss_pred             CC
Confidence            64

>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=99.33  E-value=2.2e-12  Score=98.09  Aligned_cols=71  Identities=23%  Similarity=0.242  Sum_probs=64.6

Q ss_pred             EEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCCC------ceEEEEeCChhHHHHHHHHhcCCCeEEcCeEEEEE
Q psy5142         277 LLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVGE------PTAFVRYKKENNAEAVLKALGSKEIVIKDVKVSIE  350 (410)
Q Consensus       277 ~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g~------~~afV~F~~~e~A~~Al~~l~~~~~~i~g~~v~v~  350 (410)
                      .|||.|||+.+|+++|+++|++||    +|..|.+.++.      ++|||.|.++++|..|++.|  ++..++|+.|+|.
T Consensus         2 slfV~nL~~~~te~~l~~~F~~~G----~i~~v~i~~d~~tg~~~g~aFV~f~~~~~a~~ai~~l--~g~~~~gr~i~v~   75 (80)
T d1cvja1           2 SLYVGDLHPDVTEAMLYEKFSPAG----PILSIRVCRDMITRRSLGYAYVNFQQPADAERALDTM--NFDVIKGKPVRIM   75 (80)
T ss_dssp             EEEEESCCTTCCHHHHHHHHGGGS----CEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHTTS--TTCEETTEECEEE
T ss_pred             EEEEeCCCCcCCHHHHHHHHHHhC----CEeEEEEEecccccCCCCceEEEECCHHHHHHHHHHc--CCCEECCEEEEEE
Confidence            699999999999999999999999    99999988642      36999999999999999999  6789999999998


Q ss_pred             ecC
Q psy5142         351 VVT  353 (410)
Q Consensus       351 ~l~  353 (410)
                      ...
T Consensus        76 ~a~   78 (80)
T d1cvja1          76 WSQ   78 (80)
T ss_dssp             ECC
T ss_pred             EeC
Confidence            764

>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=99.33  E-value=1.9e-12  Score=99.56  Aligned_cols=70  Identities=24%  Similarity=0.346  Sum_probs=62.5

Q ss_pred             EEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCC---------CceEEEEeCChhHHHHHHHHhcCCCeEEcCeEEE
Q psy5142         278 LKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVG---------EPTAFVRYKKENNAEAVLKALGSKEIVIKDVKVS  348 (410)
Q Consensus       278 l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g---------~~~afV~F~~~e~A~~Al~~l~~~~~~i~g~~v~  348 (410)
                      |||.|||+++|+++|+++|++||    .|..|.+.+.         .++|||+|.++++|++|++.|  ++..++|+.|.
T Consensus         1 LfV~nLp~~~t~~~l~~~F~~~G----~v~~v~i~~~~~~~~~~~~kG~afV~f~~~~~A~~A~~~~--~~~~~~g~~i~   74 (85)
T d2cpfa1           1 LFIKNLNFSTTEETLKGVFSKVG----AIKSCTISKKKNKAGVLLSMGFGFVEYKKPEQAQKALKQL--QGHTVDGHKLE   74 (85)
T ss_dssp             EEEESCCTTCCHHHHHHHHHTTS----CEEEEEEEEEECTTCCEEEEEEEEEEESSHHHHHHHHHHS--TTCEETTEECE
T ss_pred             CEEcCCCCCCCHHHHHHHHHHhC----CccccceecccccccccccceEEEEEECCHHHHHHHHHHh--CCCEECCEEEE
Confidence            79999999999999999999999    9998887642         235999999999999999999  67899999999


Q ss_pred             EEecC
Q psy5142         349 IEVVT  353 (410)
Q Consensus       349 v~~l~  353 (410)
                      |....
T Consensus        75 V~~a~   79 (85)
T d2cpfa1          75 VRISE   79 (85)
T ss_dssp             EECSS
T ss_pred             EEECC
Confidence            98753

>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=99.32  E-value=4.7e-13  Score=103.86  Aligned_cols=61  Identities=23%  Similarity=0.383  Sum_probs=52.2

Q ss_pred             ceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCCccc
Q psy5142         119 AQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLKF  196 (410)
Q Consensus       119 ~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~~~  196 (410)
                      .++|||+|||+++|+++|+++|++|    | +..+.+.          ..+|||||+|.+.++|++|++.+++  ..+
T Consensus         5 s~~i~V~nLp~~~t~~~l~~lF~~~----G-~~~~~~~----------~~kg~afV~f~~~~~A~~Ai~~ln~--~~~   65 (88)
T d1wg1a_           5 SSGILVKNLPQDSNCQEVHDLLKDY----D-LKYCYVD----------RNKRTAFVTLLNGEQAQNAIQMFHQ--YSF   65 (88)
T ss_dssp             CCCEEEESCCSSCCHHHHHHHTCSS----C-CCCEEEE----------GGGTEEEECCSCHHHHHHHHHHHTT--EEE
T ss_pred             CCEEEEeCCCCccChHHHHHHHHhc----C-ceeeeee----------ccCCceEEEECCHHHHHHHHHHhCC--CEE
Confidence            5799999999999999999999999    9 3223321          5789999999999999999999996  556

>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=99.32  E-value=2.6e-12  Score=97.75  Aligned_cols=73  Identities=12%  Similarity=0.240  Sum_probs=63.0

Q ss_pred             CeEEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeC------CCceEEEEeCChhHHHHHHHHhcCCCeEEcCeEEE
Q psy5142         275 GALLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNV------GEPTAFVRYKKENNAEAVLKALGSKEIVIKDVKVS  348 (410)
Q Consensus       275 g~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~------g~~~afV~F~~~e~A~~Al~~l~~~~~~i~g~~v~  348 (410)
                      .|+|+|.|||+++|+++|+++|++||    .|..+.+..      ..++|||.|.+.++|++|++.|  ++..++|+.|.
T Consensus         1 d~tl~v~nLp~~~t~~~l~~~f~~~G----~v~~~~~~~~~~~~~~~g~afV~f~~~e~A~~Ai~~l--~g~~~~g~~i~   74 (81)
T d2ghpa1           1 ECTLWMTNFPPSYTQRNIRDLLQDIN----VVALSIRLPSLRFNTSRRFAYIDVTSKEDARYCVEKL--NGLKIEGYTLV   74 (81)
T ss_dssp             SCEEEEECCCTTCCHHHHHHHHHHTT----CCCCEEECC-------CCEEEEECSSHHHHHHHHHHH--TTCEETTEECE
T ss_pred             CcEEEEECCCCcCCHHHHHHHHHHhC----cEEeeeeecccccccccceeEEEECCHHHHHHHHHHh--CCCEECCEEEE
Confidence            37899999999999999999999999    776554432      2346999999999999999999  67899999999


Q ss_pred             EEecC
Q psy5142         349 IEVVT  353 (410)
Q Consensus       349 v~~l~  353 (410)
                      |++..
T Consensus        75 V~~a~   79 (81)
T d2ghpa1          75 TKVSN   79 (81)
T ss_dssp             EEECC
T ss_pred             EEEcc
Confidence            98764

>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=99.32  E-value=9.1e-12  Score=104.64  Aligned_cols=74  Identities=15%  Similarity=0.282  Sum_probs=66.3

Q ss_pred             CCeEEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCCC------ceEEEEeCChhHHHHHHHHhcCCCeEEcCeEE
Q psy5142         274 TGALLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVGE------PTAFVRYKKENNAEAVLKALGSKEIVIKDVKV  347 (410)
Q Consensus       274 ~g~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g~------~~afV~F~~~e~A~~Al~~l~~~~~~i~g~~v  347 (410)
                      ..+.|||.|||+++++++|+++|++||    .|..|.+.++.      ++|||+|.+.++|..||+.|  ++..|+|+.|
T Consensus        41 ~~~~l~V~nLp~~~te~~l~~~F~~~G----~i~~v~i~~d~~t~~~rg~afV~f~~~~~A~~Ai~~l--ng~~~~gr~l  114 (139)
T d1u6fa1          41 VLRNLMVNYIPTTVDEVQLRQLFERYG----PIESVKIVCDRETRQSRGYGFVKFQSGSSAQQAIAGL--NGFNILNKRL  114 (139)
T ss_dssp             TTSEEEEESCSTTCCHHHHHHHHHHHS----CEEEEEEEEETTTTEEEEEEEEEESSHHHHHHHHHHT--TTEECSSCEE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhhc----cccccccccccccccccceeeEEECCHHHHHHHHHHh--CCCEECCEEE
Confidence            345899999999999999999999999    99999887532      36999999999999999999  7899999999


Q ss_pred             EEEecC
Q psy5142         348 SIEVVT  353 (410)
Q Consensus       348 ~v~~l~  353 (410)
                      .|....
T Consensus       115 ~V~~a~  120 (139)
T d1u6fa1         115 KVALAA  120 (139)
T ss_dssp             EEEESS
T ss_pred             EEEEcC
Confidence            999864

>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=99.31  E-value=1.6e-12  Score=101.06  Aligned_cols=77  Identities=14%  Similarity=0.141  Sum_probs=70.6

Q ss_pred             CCCeEEEEeCCCCC-CCHHHHHHHHHhcCCCCCCeeEEEeeCCCceEEEEeCChhHHHHHHHHhcCCCeEEcCeEEEEEe
Q psy5142         273 PTGALLKISDIKEP-VSREDIREVLEKVQTDDQEIVFIEFNVGEPTAFVRYKKENNAEAVLKALGSKEIVIKDVKVSIEV  351 (410)
Q Consensus       273 ~~g~~l~v~nL~~~-~t~edLk~~F~~~G~~~~~V~~V~~~~g~~~afV~F~~~e~A~~Al~~l~~~~~~i~g~~v~v~~  351 (410)
                      .+..+|+|.|||.. +|+++|.++|++||    .|..|.+.++...|||.|.+.++|..|++.++.+++.++|++|.|..
T Consensus         6 ~~sr~v~v~nl~~~~~t~~eL~~lF~~fG----~I~~i~i~~~k~~afV~f~~~~~A~~A~~~l~~~~~~~~gr~l~V~~   81 (89)
T d1x4da1           6 ETRRVVHIMDFQRGKNLRYQLLQLVEPFG----VISNHLILNKINEAFIEMATTEDAQAAVDYYTTTPALVFGKPVRVHL   81 (89)
T ss_dssp             CCCCEEEEESCCCSSSHHHHHHTTTGGGS----CEEEEEECSSSSCEEEEESSHHHHHHHHHHHHHSCCEETTEECEEEE
T ss_pred             CCCcEEEEECCCCCcCCHHHHHHHHHhhC----CeEEEEeeccceEEEEEEcchhhHHHHHHHHhhCCCccCCceEEEEE
Confidence            34458999999986 78999999999999    99999999999999999999999999999987788999999999998


Q ss_pred             cC
Q psy5142         352 VT  353 (410)
Q Consensus       352 l~  353 (410)
                      ..
T Consensus        82 s~   83 (89)
T d1x4da1          82 SQ   83 (89)
T ss_dssp             EC
T ss_pred             CC
Confidence            65

>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=99.31  E-value=1.8e-12  Score=97.43  Aligned_cols=58  Identities=26%  Similarity=0.458  Sum_probs=50.9

Q ss_pred             eEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCCccc
Q psy5142         122 LYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLKF  196 (410)
Q Consensus       122 v~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~~~  196 (410)
                      |||+|||+++|+++|+++|++|    | +..+.+.          ..+|+|||+|.+.++|++|+..++|  ..+
T Consensus         1 i~V~nLp~~~t~~~l~~~F~~~----g-~~~~~~~----------~~~g~afv~f~~~~~A~~Ai~~ln~--~~~   58 (75)
T d1wi6a1           1 ILIRGLPGDVTNQEVHDLLSDY----E-LKYCFVD----------KYKGTAFVTLLNGEQAEAAINTFHQ--SRL   58 (75)
T ss_dssp             EEEECCCTTCCHHHHHHHTTTS----C-EEEEEEE----------TTTTEEEEEESSHHHHHHHHHHHTT--EES
T ss_pred             CEEeCCCCcCCHHHHHHHHhcc----c-ccceeec----------ccceeEEEEECCHHHHHHHHHHhCC--ccC
Confidence            7999999999999999999999    9 5444432          5799999999999999999999996  556

>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=99.31  E-value=3.6e-12  Score=99.11  Aligned_cols=76  Identities=13%  Similarity=0.299  Sum_probs=67.4

Q ss_pred             CCCeEEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCCCc------eEEEEeCChhHHHHHHHHhcCCCeEEcCeE
Q psy5142         273 PTGALLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVGEP------TAFVRYKKENNAEAVLKALGSKEIVIKDVK  346 (410)
Q Consensus       273 ~~g~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g~~------~afV~F~~~e~A~~Al~~l~~~~~~i~g~~  346 (410)
                      ...++|+|.|||..+++++|+++|++||    .|..|.+..+..      +|||.|.+.++|++|++.|  ++..++|+.
T Consensus         6 ~~~~~i~V~nLp~~~t~~~l~~~f~~~G----~v~~v~i~~d~~t~~~rg~afV~f~~~~~A~~Ai~~l--~g~~~~g~~   79 (90)
T d2cq0a1           6 DDNATIRVTNLSEDTRETDLQELFRPFG----SISRIYLAKDKTTGQSKGFAFISFHRREDAARAIAGV--SGFGYDHLI   79 (90)
T ss_dssp             SSSEEEEEESCCTTCCHHHHHTTSTTTC----CEEEEEEEECSSSCSEEEEEEEEESSHHHHHHHHHHT--TTCEETTEE
T ss_pred             CCCCEEEEECCCCCCCHHHHHHHHHHhc----ccccccccccccccccccceeEEECCHHHHHHHHHHh--CCCEECCEE
Confidence            3457899999999999999999999999    999998876432      5999999999999999999  679999999


Q ss_pred             EEEEecCc
Q psy5142         347 VSIEVVTG  354 (410)
Q Consensus       347 v~v~~l~g  354 (410)
                      |.|+....
T Consensus        80 i~v~~akp   87 (90)
T d2cq0a1          80 LNVEWAKP   87 (90)
T ss_dssp             CEEEESSC
T ss_pred             EEEEeeeC
Confidence            99987653

>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=99.31  E-value=4.8e-12  Score=100.14  Aligned_cols=73  Identities=14%  Similarity=0.199  Sum_probs=66.2

Q ss_pred             CeEEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCCC------ceEEEEeCChhHHHHHHHHhcCCCeEEcCeEEE
Q psy5142         275 GALLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVGE------PTAFVRYKKENNAEAVLKALGSKEIVIKDVKVS  348 (410)
Q Consensus       275 g~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g~------~~afV~F~~~e~A~~Al~~l~~~~~~i~g~~v~  348 (410)
                      .+.|||.|||+.+++++|+++|++||    .|..|.++.+.      ++|||.|.+.++|+.|++.|  ++..++|+.|+
T Consensus         8 ~~~lfV~nL~~~~t~~~l~~~F~~~g----~v~~v~i~~d~~tg~~~g~afV~f~~~~~a~~A~~~l--~g~~~~gr~i~   81 (99)
T d1whwa_           8 SGRLFVRNLSYTSSEEDLEKLFSAYG----PLSELHYPIDSLTKKPKGFAFVTFMFPEHAVKAYAEV--DGQVFQGRMLH   81 (99)
T ss_dssp             CEEEEEECCCTTCCHHHHHHHHHTTS----CEEEEECCCCTTTCCCCSEEEEEESSHHHHHHHHHHT--TTEESSSCEEE
T ss_pred             CCEEEEECCCCcCCHHHHHHHHHhcC----CceeeeecccccccccCcceEEEECCHHHHHHHHHHc--CCCEECCEEEE
Confidence            46799999999999999999999999    99999987542      37999999999999999999  67999999999


Q ss_pred             EEecC
Q psy5142         349 IEVVT  353 (410)
Q Consensus       349 v~~l~  353 (410)
                      |....
T Consensus        82 V~~a~   86 (99)
T d1whwa_          82 VLPST   86 (99)
T ss_dssp             EEECC
T ss_pred             EEECC
Confidence            99765

>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=99.31  E-value=1.4e-12  Score=103.50  Aligned_cols=78  Identities=14%  Similarity=0.190  Sum_probs=70.8

Q ss_pred             CCCCeEEEEeCCCCC-CCHHHHHHHHHhcCCCCCCeeEEEeeCCCceEEEEeCChhHHHHHHHHhcCCCeEEcCeEEEEE
Q psy5142         272 LPTGALLKISDIKEP-VSREDIREVLEKVQTDDQEIVFIEFNVGEPTAFVRYKKENNAEAVLKALGSKEIVIKDVKVSIE  350 (410)
Q Consensus       272 ~~~g~~l~v~nL~~~-~t~edLk~~F~~~G~~~~~V~~V~~~~g~~~afV~F~~~e~A~~Al~~l~~~~~~i~g~~v~v~  350 (410)
                      ...+++|+|.|||.+ +|+++|.++|++||    .|..|.+.++.+.|||.|.+.++|..|++.++.+++.++|+.|.|.
T Consensus        15 ~~~~~~l~v~nLp~~~~te~~l~~~F~~fG----~V~~v~~~~~k~~afV~f~~~~~A~~Ai~~~~~~~~~~~gr~l~V~   90 (99)
T d1x4fa1          15 QELGRVIHLSNLPHSGYSDSAVLKLAEPYG----KIKNYILMRMKSQAFIEMETREDAMAMVDHCLKKALWFQGRCVKVD   90 (99)
T ss_dssp             SCCCCEEEEESCCCSSCCSHHHHTTTTTTS----CCSEEEEETTTTEEEEECSSHHHHHHHHHHHHHSCCCSSSSCCEEE
T ss_pred             CCCCCEEEEeCCcCCccCHHHHHhhhcccc----ceeEEEEeecCCcEEEEecchHHHHHHHHHHhcCCceECCEEEEEE
Confidence            456789999999975 89999999999999    9999999999999999999999999999976557899999999998


Q ss_pred             ecC
Q psy5142         351 VVT  353 (410)
Q Consensus       351 ~l~  353 (410)
                      ...
T Consensus        91 ~s~   93 (99)
T d1x4fa1          91 LSE   93 (99)
T ss_dssp             EEC
T ss_pred             EcC
Confidence            765

>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=99.31  E-value=4e-12  Score=97.78  Aligned_cols=73  Identities=16%  Similarity=0.328  Sum_probs=62.1

Q ss_pred             CCCeEEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCCC------ceEEEEeCChhHHHHHHHHhcCCCeEEcCe-
Q psy5142         273 PTGALLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVGE------PTAFVRYKKENNAEAVLKALGSKEIVIKDV-  345 (410)
Q Consensus       273 ~~g~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g~------~~afV~F~~~e~A~~Al~~l~~~~~~i~g~-  345 (410)
                      .+++.|||.|||+.+++++|+++|++||    .|..|++.++.      ++|||+|.++++|++|++.|  ++..+.|+ 
T Consensus         4 ~k~~~lfV~nLp~~~te~~L~~~F~~~G----~v~~v~i~~d~~~g~~kg~afV~f~~~~~a~~Ai~~l--ng~~~~G~~   77 (85)
T d1fxla2           4 IRDANLYVSGLPKTMTQKELEQLFSQYG----RIITSRILVDQVTGVSRGVGFIRFDKRIEAEEAIKGL--NGQKPSGAT   77 (85)
T ss_dssp             GTTCEEEEESCCTTCCHHHHHHHHGGGS----CEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHH--TTCCCTTCS
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHHhC----CccccccccccccccCCCeeEEEEcCHHHHHHHHHHh--CCCEeCCCC
Confidence            3567899999999999999999999999    99999987542      25999999999999999999  56778774 


Q ss_pred             -EEEEEe
Q psy5142         346 -KVSIEV  351 (410)
Q Consensus       346 -~v~v~~  351 (410)
                       +|.|..
T Consensus        78 ~~i~V~~   84 (85)
T d1fxla2          78 EPITVKF   84 (85)
T ss_dssp             SCCEEEE
T ss_pred             EEEEEEe
Confidence             466653

>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=99.30  E-value=3.1e-12  Score=100.94  Aligned_cols=75  Identities=12%  Similarity=0.254  Sum_probs=66.6

Q ss_pred             CCCeEEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCCCceEEEEeCChhHHHHHHHHhcCCCeEEcC--eEEEEE
Q psy5142         273 PTGALLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVGEPTAFVRYKKENNAEAVLKALGSKEIVIKD--VKVSIE  350 (410)
Q Consensus       273 ~~g~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g~~~afV~F~~~e~A~~Al~~l~~~~~~i~g--~~v~v~  350 (410)
                      ++-++|+|.|||+++++++|+++|++||    .|..|++.++..+|||+|.+.++|+.|++.|  ++..|+|  +.|.|+
T Consensus        15 ~Ps~tl~V~nLp~~~t~~~l~~~f~~~G----~i~~~~~~~~~~~afV~f~~~~~A~~A~~~l--~~~~i~g~~~~l~v~   88 (97)
T d1whya_          15 NPTTRLWVGGLGPNTSLAALAREFDRFG----SIRTIDHVKGDSFAYIQYESLDAAQAACAKM--RGFPLGGPDRRLRVD   88 (97)
T ss_dssp             CCCSCEEEECCCSSCCHHHHHHHHHTTS----CEEEEEECSSSCCEEEEESSHHHHHHHHHHH--TTCBCSSSSCBCEEE
T ss_pred             CCCCEEEEcCCCCCCCHHHHHHHHHhhc----ccceEeeeccccEEEeccCCHHHHHHHHHHh--CCCEeCCCceEEEEE
Confidence            4457899999999999999999999999    9999999999999999999999999999999  4566665  577887


Q ss_pred             ecC
Q psy5142         351 VVT  353 (410)
Q Consensus       351 ~l~  353 (410)
                      ...
T Consensus        89 ~ak   91 (97)
T d1whya_          89 FAK   91 (97)
T ss_dssp             ECC
T ss_pred             eCC
Confidence            654

>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=99.30  E-value=8.4e-13  Score=100.49  Aligned_cols=73  Identities=16%  Similarity=0.257  Sum_probs=64.0

Q ss_pred             EEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCCCceEEEEeCChhHHHHHHHHhcCCCeEEcCeEEEEEecCc
Q psy5142         277 LLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVGEPTAFVRYKKENNAEAVLKALGSKEIVIKDVKVSIEVVTG  354 (410)
Q Consensus       277 ~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g~~~afV~F~~~e~A~~Al~~l~~~~~~i~g~~v~v~~l~g  354 (410)
                      .|||.|||+++++++|+++|++||    .|..+.+....++|||.|.++++|+.|++.|+ +.+.++|+.|.|+....
T Consensus         3 ~l~V~nLp~~~te~~L~~~F~~~G----~i~~~~~~~~rg~aFV~f~~~~~A~~Ai~~ln-g~~~~~G~~i~V~~a~~   75 (80)
T d2cqha1           3 KLYIGNLSPAVTADDLRQLFGDRK----LPLAGQVLLKSGYAFVDYPDQNWAIRAIETLS-GKVELHGKIMEVDYSVS   75 (80)
T ss_dssp             CEEEECCCTTCCHHHHHHHHHHTT----CCCSSCEEEETTEEEECCSCHHHHHHHHHHHT-TTCEETTEECEEEECCC
T ss_pred             EEEEECCCCCCCHHHHHHHHHHhC----cEEEeEEecccceEEEEECCHHHHHHHHHHhC-CCeEECCEEEEEEEcCC
Confidence            499999999999999999999999    77666666667899999999999999999994 23689999999998764

>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=99.30  E-value=1.2e-12  Score=103.86  Aligned_cols=66  Identities=18%  Similarity=0.318  Sum_probs=55.7

Q ss_pred             ccceeeEeecCCCC-CCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCCcc
Q psy5142         117 LIAQSLYVKYIPVD-ATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLK  195 (410)
Q Consensus       117 ~~~rtv~V~~lp~~-~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~~  195 (410)
                      ...++|||+|||.+ +|+++|.++|++|    |.|.+|.|.          ..+|+|||+|.+.++|..|++.++...+.
T Consensus        16 ~~~~~l~v~nLp~~~~te~~l~~~F~~f----G~V~~v~~~----------~~k~~afV~f~~~~~A~~Ai~~~~~~~~~   81 (99)
T d1x4fa1          16 ELGRVIHLSNLPHSGYSDSAVLKLAEPY----GKIKNYILM----------RMKSQAFIEMETREDAMAMVDHCLKKALW   81 (99)
T ss_dssp             CCCCEEEEESCCCSSCCSHHHHTTTTTT----SCCSEEEEE----------TTTTEEEEECSSHHHHHHHHHHHHHSCCC
T ss_pred             CCCCEEEEeCCcCCccCHHHHHhhhccc----cceeEEEEe----------ecCCcEEEEecchHHHHHHHHHHhcCCce
Confidence            45689999999986 8999999999999    999999986          34789999999999999999843321255


Q ss_pred             c
Q psy5142         196 F  196 (410)
Q Consensus       196 ~  196 (410)
                      +
T Consensus        82 ~   82 (99)
T d1x4fa1          82 F   82 (99)
T ss_dssp             S
T ss_pred             E
Confidence            6

>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=99.29  E-value=6.1e-14  Score=109.34  Aligned_cols=71  Identities=21%  Similarity=0.363  Sum_probs=56.3

Q ss_pred             ceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCccc-ccccccccEEEEEecCHHHHHHHHHhcCCCCccc
Q psy5142         119 AQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKL-ANQKKFKGSIFVTFDNKENAEKFLNENKDKNLKF  196 (410)
Q Consensus       119 ~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~-~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~~~  196 (410)
                      +|+|||+|||+++|+++|+++|++|    |.|..+.+....... .....++|||||+|.++++|++|++ ++|  ..+
T Consensus         1 aRrlyVgNLp~~~te~~l~~~F~~~----g~~~~~~~~~~~~~~~~~~~~~kg~afV~f~~~e~a~~a~~-l~g--~~~   72 (90)
T d1u2fa_           1 ARRLYVGNIPFGITEEAMMDFFNAQ----MRLGGLTQAPGNPVLAVQINQDKNFAFLEFRSVDETTQAMA-FDG--IIF   72 (90)
T ss_dssp             CCEEEECSCCTTCCTTHHHHHHHHH----HTTTTSCCSSSCSEEECCEETTTTEEEEEESSCTTTTTGGG-GSS--CCS
T ss_pred             CCEEEEcCCCCccchHHHHHHHHhh----CcEEEEEEeccceeeecccCCCceEEEEEeCCHHHHHHHHh-hCC--cEE
Confidence            4899999999999999999999999    988877664322100 0012689999999999999999996 775  566

>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=99.29  E-value=3.6e-12  Score=98.88  Aligned_cols=74  Identities=15%  Similarity=0.262  Sum_probs=66.0

Q ss_pred             CeEEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCC------CceEEEEeCChhHHHHHHHHhcCCCeEEcCeEEE
Q psy5142         275 GALLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVG------EPTAFVRYKKENNAEAVLKALGSKEIVIKDVKVS  348 (410)
Q Consensus       275 g~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g------~~~afV~F~~~e~A~~Al~~l~~~~~~i~g~~v~  348 (410)
                      ..+|||.|||+++++++|+++|++||    .|..|.+..+      .++|||.|.++++|++|+..+  ++..++|+.|.
T Consensus         5 ~~tlfV~nLp~~~te~~l~~~F~~~G----~i~~v~i~~d~~~~~~kg~afV~f~~~~~A~~ai~~l--~~~~i~g~~l~   78 (89)
T d2cqba1           5 KRVLYVGGLAEEVDDKVLHAAFIPFG----DITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDNM--NESELFGRTIR   78 (89)
T ss_dssp             CSCEEEESCCSSCCHHHHHHHHTTTS----CCCCEECCCCSSSCCCSSEEEECCSSHHHHHHHHHHH--TTEEETTEEEE
T ss_pred             CcEEEEeCCCCcCCHHHHHHHHhhCC----eEEecccccccccccccceeEEEECCHHHHHHHHHHc--CCCEECCEEEE
Confidence            45899999999999999999999999    8988888753      236999999999999999999  68999999999


Q ss_pred             EEecCc
Q psy5142         349 IEVVTG  354 (410)
Q Consensus       349 v~~l~g  354 (410)
                      |.....
T Consensus        79 v~~a~p   84 (89)
T d2cqba1          79 VNLAKP   84 (89)
T ss_dssp             EEECCC
T ss_pred             EEEeCC
Confidence            988653

>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=99.29  E-value=2e-12  Score=100.21  Aligned_cols=71  Identities=8%  Similarity=0.273  Sum_probs=63.4

Q ss_pred             eEEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCCCceEEEEeCChhHHHHHHHHhcCCCeEEcCeEEEEEecC
Q psy5142         276 ALLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVGEPTAFVRYKKENNAEAVLKALGSKEIVIKDVKVSIEVVT  353 (410)
Q Consensus       276 ~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g~~~afV~F~~~e~A~~Al~~l~~~~~~i~g~~v~v~~l~  353 (410)
                      ..|+|.|||+++++++|+++|++||     +..+.+.+.+++|||+|.++++|++|+..|  ++..++|+.|.|++..
T Consensus         6 ~~i~V~nLp~~~t~~~l~~lF~~~G-----~~~~~~~~~kg~afV~f~~~~~A~~Ai~~l--n~~~~~G~~l~V~~a~   76 (88)
T d1wg1a_           6 SGILVKNLPQDSNCQEVHDLLKDYD-----LKYCYVDRNKRTAFVTLLNGEQAQNAIQMF--HQYSFRGKDLIVQLQP   76 (88)
T ss_dssp             CCEEEESCCSSCCHHHHHHHTCSSC-----CCCEEEEGGGTEEEECCSCHHHHHHHHHHH--TTEEETTEEEEEEECC
T ss_pred             CEEEEeCCCCccChHHHHHHHHhcC-----ceeeeeeccCCceEEEECCHHHHHHHHHHh--CCCEECCEEEEEEEcC
Confidence            4699999999999999999999999     334556666789999999999999999999  7899999999999864

>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=99.29  E-value=1.1e-12  Score=101.50  Aligned_cols=69  Identities=9%  Similarity=0.244  Sum_probs=62.9

Q ss_pred             EEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCCCceEEEEeCChhHHHHHHHHhcCCCeEEcCeEEEEEec
Q psy5142         277 LLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVGEPTAFVRYKKENNAEAVLKALGSKEIVIKDVKVSIEVV  352 (410)
Q Consensus       277 ~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g~~~afV~F~~~e~A~~Al~~l~~~~~~i~g~~v~v~~l  352 (410)
                      .|||.|||+++++++|+++|++||    .|..|++.++ ++|||.|.+.++|++||..|  ++..++|+.+.+..+
T Consensus         2 rvfV~nlp~~~~~~~l~~~F~~~G----~v~~~~i~~~-g~afV~f~~~~~a~~Ai~~l--~g~~~~g~~i~v~~~   70 (87)
T d3begb1           2 RVVVSGLPPSGSWQDLKDHMREAG----DVCYADVYRD-GTGVVEFVRKEDMTYAVRKL--DNTKFRSHEGETAYI   70 (87)
T ss_dssp             CEEEEECCSSCCTTHHHHHHGGGS----CEEEEEECTT-SEEEEEESSHHHHHHHHHHH--TTCBCCCTTSCCCBC
T ss_pred             eEEEECCCCcCCHHHHHHHHhhhc----cccccccccc-ceeeEEeCCHHHHHHHHHHh--CCCEECCcEeEEeEE
Confidence            489999999999999999999999    9999998764 79999999999999999999  678899998877654

>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=99.29  E-value=1.4e-12  Score=103.27  Aligned_cols=61  Identities=20%  Similarity=0.324  Sum_probs=54.2

Q ss_pred             cceeeEeecCC-CCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCCccc
Q psy5142         118 IAQSLYVKYIP-VDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLKF  196 (410)
Q Consensus       118 ~~rtv~V~~lp-~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~~~  196 (410)
                      ..++|||+||| ..+++++|+++|++|    |.|.+|.|.            +|||||+|.+.++|++|+..++|  ..+
T Consensus        14 ~~~~lfV~nL~~~~~~~~~L~~~F~~~----G~i~~~~i~------------rg~aFV~f~~~~~A~~Ai~~lng--~~~   75 (98)
T d1wf2a_          14 MNSRVFIGNLNTLVVKKSDVEAIFSKY----GKIVGCSVH------------KGFAFVQYVNERNARAAVAGEDG--RMI   75 (98)
T ss_dssp             CCCCEEEEEECTTTCCHHHHHHSSTTS----SCEEEEEEE------------TEEEEEEESSHHHHHHHHHTTTT--CEE
T ss_pred             CCcEEEEeCCCcccCCHHHHHHHHhhc----CCEEEEEEe------------CCeEEEEECCHHHHHHHHHHcCC--CEE
Confidence            34689999997 578899999999999    999999872            78999999999999999999996  456

>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=99.29  E-value=6.2e-12  Score=99.43  Aligned_cols=75  Identities=11%  Similarity=0.265  Sum_probs=68.1

Q ss_pred             CCCCeEEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCCCceEEEEeCChhHHHHHHHHhcCCCeEEcCeEEEEEe
Q psy5142         272 LPTGALLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVGEPTAFVRYKKENNAEAVLKALGSKEIVIKDVKVSIEV  351 (410)
Q Consensus       272 ~~~g~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g~~~afV~F~~~e~A~~Al~~l~~~~~~i~g~~v~v~~  351 (410)
                      ......|+|.|||+.+++++|+++|++||    .|.+|++.+ +++|||.|.+.++|++||+.|  ++..++|+.|.+..
T Consensus        12 ~~~~~~i~V~Nlp~~~~~~~L~~~F~~~G----~v~~~~i~~-~g~afV~f~~~~~a~~Ai~~l--ng~~~~g~~i~v~~   84 (98)
T d1wg4a_          12 RRSDFRVLVSGLPPSGSWQDLKDHMREAG----DVCYADVQK-DGMGMVEYLRKEDMEYALRKL--DDTKFRSHEGETSY   84 (98)
T ss_dssp             CSCSCEEEEECCCSSCCHHHHHHHHTTSS----CEEEEEEET-TTEEEEEESSHHHHHHHHHHH--SSEEEECTTSCEEE
T ss_pred             CCCCCEEEEECCCCCCCHHHHHHHHHhhc----ccccccccc-cceEEEEECCHHHHHHHHHHh--CCCEeCCeEEEEEE
Confidence            34567899999999999999999999999    999999886 479999999999999999999  78999999998887


Q ss_pred             cC
Q psy5142         352 VT  353 (410)
Q Consensus       352 l~  353 (410)
                      +.
T Consensus        85 ~~   86 (98)
T d1wg4a_          85 IR   86 (98)
T ss_dssp             EE
T ss_pred             Ee
Confidence            54

>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=99.29  E-value=3.7e-12  Score=99.87  Aligned_cols=78  Identities=17%  Similarity=0.268  Sum_probs=67.2

Q ss_pred             CCeEEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCC-------CceEEEEeCChhHHHHHHHHhcCCCeEEcCeE
Q psy5142         274 TGALLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVG-------EPTAFVRYKKENNAEAVLKALGSKEIVIKDVK  346 (410)
Q Consensus       274 ~g~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g-------~~~afV~F~~~e~A~~Al~~l~~~~~~i~g~~  346 (410)
                      ....|||.|||+++++++|+++|++||    .|..|.+++.       .++|||.|.+.++|.+|+..|. ++..++|+.
T Consensus         7 ~~~~l~V~nLp~~~~e~~l~~~F~~~G----~i~~v~i~~~~~~~g~~rg~afV~f~~~~~A~~Ai~~l~-~~~~~~Gr~   81 (94)
T d2cpha1           7 TTSKILVRNIPFQANQREIRELFSTFG----ELKTVRLPKKMTGTGAHRGFGFVDFITKQDAKKAFNALC-HSTHLYGRR   81 (94)
T ss_dssp             CCCCEEEESCCTTCCHHHHHHHHHTTS----CEEEEECCCCCSSSCSSCSEEEEEESSHHHHHHHHHHHH-TCCBSSSCB
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHHhC----CceEEEEEeccccCCCcccEEEEEECCHHHHHHHHHHcc-CCcEECCEE
Confidence            345799999999999999999999999    9999988643       2469999999999999999984 357899999


Q ss_pred             EEEEecCchH
Q psy5142         347 VSIEVVTGEE  356 (410)
Q Consensus       347 v~v~~l~g~e  356 (410)
                      |.|+.+..++
T Consensus        82 l~V~~A~~~~   91 (94)
T d2cpha1          82 LVLEWADSEV   91 (94)
T ss_dssp             CEEEECCCCC
T ss_pred             EEEEEcCCCC
Confidence            9999887543

>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=99.28  E-value=1.7e-12  Score=98.13  Aligned_cols=70  Identities=14%  Similarity=0.178  Sum_probs=61.7

Q ss_pred             eEEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCCC------ceEEEEeCChhHHHHHHHHhcCCCeEEcCeEEEE
Q psy5142         276 ALLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVGE------PTAFVRYKKENNAEAVLKALGSKEIVIKDVKVSI  349 (410)
Q Consensus       276 ~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g~------~~afV~F~~~e~A~~Al~~l~~~~~~i~g~~v~v  349 (410)
                      |.|||.|||+++++++|+++|++||    .|..|.++.+.      ++|||.|.++++|++|++ +  ++..++|+.|.|
T Consensus         1 cklfV~nLp~~~te~~l~~~F~~~G----~i~~v~i~~d~~tg~~kG~aFV~f~~~~~a~~al~-~--~~~~i~Gr~i~V   73 (77)
T d1uawa_           1 CKMFIGGLSWQTTQEGLREYFGQFG----EVKECLVMRDPLTKRSRGFGFVTFMDQAGVDKVLA-Q--SRHELDSKTIDP   73 (77)
T ss_dssp             CCEEEESCCSSCCSHHHHHHHTTTS----CCCCEEEECCCCSSSCSSEEEECCCCTTHHHHHHH-T--TTCCCSSCCCEE
T ss_pred             CEEEEeCCCCcCCHHHHHHHHHHhC----CcceeeeecccCCCCccceEEEEECCHHHHHHHHH-c--CCCEECCeEEEE
Confidence            6799999999999999999999999    89888887543      469999999999999997 5  567899999998


Q ss_pred             Eec
Q psy5142         350 EVV  352 (410)
Q Consensus       350 ~~l  352 (410)
                      +++
T Consensus        74 ~~A   76 (77)
T d1uawa_          74 KVA   76 (77)
T ss_dssp             EEC
T ss_pred             EEC
Confidence            864

>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=99.28  E-value=3.3e-12  Score=100.53  Aligned_cols=77  Identities=23%  Similarity=0.280  Sum_probs=67.9

Q ss_pred             CeEEEEeCCCCCCCHHHHHHHHHhcCCCCCC-eeEEEeeCC-------CceEEEEeCChhHHHHHHHHhcCCCeEEcCeE
Q psy5142         275 GALLKISDIKEPVSREDIREVLEKVQTDDQE-IVFIEFNVG-------EPTAFVRYKKENNAEAVLKALGSKEIVIKDVK  346 (410)
Q Consensus       275 g~~l~v~nL~~~~t~edLk~~F~~~G~~~~~-V~~V~~~~g-------~~~afV~F~~~e~A~~Al~~l~~~~~~i~g~~  346 (410)
                      +|.|||.|||.++++++|+++|++||    + |..|.+.++       .++|||+|.+.++|..|++.|+.+++.++|+.
T Consensus         1 n~rLyV~nLp~~~te~~l~~~f~~~g----~~i~~v~~~~~~~~~~~~rg~aFV~F~~~~~A~~Ai~~l~~~~~~~~g~~   76 (96)
T d2disa1           1 NCRLFIGGIPKMKKREEILEEIAKVT----EGVLDVIVYASAADKMKNRGFAFVEYESHRAAAMARRKLMPGRIQLWGHQ   76 (96)
T ss_dssp             SEEEEEECCCTTSCHHHHHHHHHHHS----TTEEEEECCSSSCTTTTTCCEEEEEESSHHHHHHHHTTTTTCCSCBTTBC
T ss_pred             CCEEEEcCCCCcCCHHHHHHHHHHhC----CcceEEEEeeeccccccCCCeEEEEEcCHHHHHHHHHHHcCCCeEECCEE
Confidence            58999999999999999999999999    6 788888643       24799999999999999999987788899999


Q ss_pred             EEEEecCch
Q psy5142         347 VSIEVVTGE  355 (410)
Q Consensus       347 v~v~~l~g~  355 (410)
                      |.|..+...
T Consensus        77 i~V~~A~p~   85 (96)
T d2disa1          77 IAVDWAEPE   85 (96)
T ss_dssp             CEEEESCSS
T ss_pred             EEEEEcCCC
Confidence            999987643

>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=99.28  E-value=6.7e-12  Score=96.42  Aligned_cols=73  Identities=19%  Similarity=0.369  Sum_probs=62.3

Q ss_pred             CCCeEEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCCC------ceEEEEeCChhHHHHHHHHhcCCCeEEcC--
Q psy5142         273 PTGALLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVGE------PTAFVRYKKENNAEAVLKALGSKEIVIKD--  344 (410)
Q Consensus       273 ~~g~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g~------~~afV~F~~~e~A~~Al~~l~~~~~~i~g--  344 (410)
                      .+++.|||.|||+++++++|+++|++||    .|..|.+.++.      ++|||.|.+.++|.+|++.|  ++..+.|  
T Consensus         4 ~~~t~lfV~nlp~~~te~~l~~~F~~~G----~i~~~~~~~d~~~g~~~g~afV~f~~~~~A~~Ai~~l--~g~~~~g~~   77 (85)
T d1b7fa2           4 IKDTNLYVTNLPRTITDDQLDTIFGKYG----SIVQKNILRDKLTGRPRGVAFVRYNKREEAQEAISAL--NNVIPEGGS   77 (85)
T ss_dssp             TTTCEEEEESCCTTCCHHHHHHHHTSSS----CEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHH--TTCCCTTCS
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhhC----CEeeeeeecccccccCceeEEEEECCHHHHHHHHHHH--CCCEeCCCC
Confidence            3456899999999999999999999999    99999887543      26999999999999999999  4566655  


Q ss_pred             eEEEEEe
Q psy5142         345 VKVSIEV  351 (410)
Q Consensus       345 ~~v~v~~  351 (410)
                      ++|.|+.
T Consensus        78 ~~l~V~~   84 (85)
T d1b7fa2          78 QPLSVRL   84 (85)
T ss_dssp             SCCEEEE
T ss_pred             eEEEEEE
Confidence            7788875

>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=99.27  E-value=1.4e-12  Score=101.42  Aligned_cols=65  Identities=9%  Similarity=0.057  Sum_probs=55.6

Q ss_pred             cceeeEeecCCCC-CCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCCccc
Q psy5142         118 IAQSLYVKYIPVD-ATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLKF  196 (410)
Q Consensus       118 ~~rtv~V~~lp~~-~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~~~  196 (410)
                      ..|+|||+|||.. +|.++|.++|++|    |.|.+|.|.+          .+++|||+|++.++|..|++.+++....+
T Consensus         7 ~sr~v~v~nl~~~~~t~~eL~~lF~~f----G~I~~i~i~~----------~k~~afV~f~~~~~A~~A~~~l~~~~~~~   72 (89)
T d1x4da1           7 TRRVVHIMDFQRGKNLRYQLLQLVEPF----GVISNHLILN----------KINEAFIEMATTEDAQAAVDYYTTTPALV   72 (89)
T ss_dssp             CCCEEEEESCCCSSSHHHHHHTTTGGG----SCEEEEEECS----------SSSCEEEEESSHHHHHHHHHHHHHSCCEE
T ss_pred             CCcEEEEECCCCCcCCHHHHHHHHHhh----CCeEEEEeec----------cceEEEEEEcchhhHHHHHHHHhhCCCcc
Confidence            4689999999986 8899999999999    9999999974          46789999999999999999764322445

>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=99.27  E-value=9.5e-13  Score=106.77  Aligned_cols=68  Identities=26%  Similarity=0.352  Sum_probs=56.2

Q ss_pred             cceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCCccc
Q psy5142         118 IAQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLKF  196 (410)
Q Consensus       118 ~~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~~~  196 (410)
                      ..++|||+|||+++|+++|++||+.|    |.|..+.++.+...+    .++|+|||+|.+.++|++|++ +++  ..+
T Consensus        17 ~~~~i~v~nLp~~~t~~di~~~F~~~----g~~~~~~~~~~~~~g----~~~G~afVeF~~~e~a~~al~-~~~--~~i   84 (112)
T d1wela1          17 AGFCVYLKGLPFEAENKHVIDFFKKL----DIVEDSIYIAYGPNG----KATGEGFVEFRNEADYKAALC-RHK--QYM   84 (112)
T ss_dssp             CCCEEEEECCCTTCCHHHHHHHSCSS----CBCTTTCEEEECTTS----SEEEEEEEEBSSSHHHHHHHT-SCS--BCS
T ss_pred             CCeEEEEecCCCcCcHHHHhhHHhhc----cccccceeeecCccc----ceeeEEEEEECCHHHHHHHHH-cCC--CcC
Confidence            35699999999999999999999999    988765444443333    789999999999999999997 564  455

>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=99.27  E-value=7.5e-12  Score=98.51  Aligned_cols=80  Identities=14%  Similarity=0.313  Sum_probs=68.7

Q ss_pred             CCCCeEEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCC------CceEEEEeCChhHHHHHHHHhc----CCCeE
Q psy5142         272 LPTGALLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVG------EPTAFVRYKKENNAEAVLKALG----SKEIV  341 (410)
Q Consensus       272 ~~~g~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g------~~~afV~F~~~e~A~~Al~~l~----~~~~~  341 (410)
                      ...+++|||.|||+.+++++|+++|++||    .|..+.+...      .++|||+|.+.++|.+|++.++    .++..
T Consensus         5 ~~~~~tlfV~nLp~~~te~~l~~~f~~~G----~v~~~~~~~~~~~~~~~g~afV~F~~~~~a~~ai~~l~~~~~~~g~~   80 (98)
T d1x4ha1           5 VTEGKTVFIRNLSFDSEEEALGEVLQQFG----DLKYVRVVLHPDTEHSKGCAFAQFMTQEAAQKCLAAASLEAEGGGLK   80 (98)
T ss_dssp             CCCCCCEEEESCCTTCCHHHHHHHHHTTS----CEEEEECCBCSSSCCBCSEEEEEESSHHHHHHHHHHHCTTTTTCCEE
T ss_pred             CCCCCEEEEcCCCCcCCHHHHHHHHhccc----cceeeeeccccccccccceEEEEEcCHHHHHHHHHHcccccccCCcE
Confidence            45577999999999999999999999999    8888877653      3479999999999999999985    24789


Q ss_pred             EcCeEEEEEecCch
Q psy5142         342 IKDVKVSIEVVTGE  355 (410)
Q Consensus       342 i~g~~v~v~~l~g~  355 (410)
                      ++|+.|.|......
T Consensus        81 ~~gr~l~v~~a~~k   94 (98)
T d1x4ha1          81 LDGRQLKVDLAVTR   94 (98)
T ss_dssp             SSSCEEEEECCCCC
T ss_pred             ECCEEEEEEECCCC
Confidence            99999999976543

>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=99.26  E-value=7.9e-12  Score=97.20  Aligned_cols=74  Identities=12%  Similarity=0.205  Sum_probs=64.3

Q ss_pred             CCeEEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCCC------ceEEEEeCChhHHHHHHHHhcCCCeEEcCeEE
Q psy5142         274 TGALLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVGE------PTAFVRYKKENNAEAVLKALGSKEIVIKDVKV  347 (410)
Q Consensus       274 ~g~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g~------~~afV~F~~~e~A~~Al~~l~~~~~~i~g~~v  347 (410)
                      ..+.|||.|||+++|+++|+++|++||    .|..|.++.+.      ++|||.|.++++|++||+.+    ..|+|+.|
T Consensus         7 ~~~~lfV~nLp~~~te~~l~~~F~~~G----~i~~v~i~~d~~tg~srG~aFV~f~~~~~a~~al~~~----~~l~Gr~i   78 (90)
T d2cqga1           7 KTSDLIVLGLPWKTTEQDLKEYFSTFG----EVLMVQVKKDLKTGHSKGFGFVRFTEYETQVKVMSQR----HMIDGRWC   78 (90)
T ss_dssp             CCCCEEEESCCSSCCHHHHHHHHGGGS----CEEEEEEEECSSSCSEEEEEEEEESSHHHHHHHHHSC----EEETTEEE
T ss_pred             CCCeEEEECCCCCCCHHHHHHHHHhhc----ccceeeeccCCCCcccCCEEEEEECCHHHHHHHHhcC----CccCCEEe
Confidence            446799999999999999999999999    99999988643      36999999999999999754    47999999


Q ss_pred             EEEecCch
Q psy5142         348 SIEVVTGE  355 (410)
Q Consensus       348 ~v~~l~g~  355 (410)
                      .|.+....
T Consensus        79 ~v~~a~~k   86 (90)
T d2cqga1          79 DCKLPNSK   86 (90)
T ss_dssp             EEECCCTT
T ss_pred             EEEeCCCC
Confidence            99987644

>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=99.26  E-value=1.1e-11  Score=98.40  Aligned_cols=71  Identities=8%  Similarity=0.156  Sum_probs=64.1

Q ss_pred             eEEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCCC------ceEEEEeCChhHHHHHHHHhcCCCeEEcCeEEEE
Q psy5142         276 ALLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVGE------PTAFVRYKKENNAEAVLKALGSKEIVIKDVKVSI  349 (410)
Q Consensus       276 ~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g~------~~afV~F~~~e~A~~Al~~l~~~~~~i~g~~v~v  349 (410)
                      ++|||.|||.++++++|+++|+.||    .|..|++.++.      ++|||.|.++++|++|+. |  ++..++|+.|.|
T Consensus        19 ~tifV~nL~~~~te~~l~~~F~~~G----~V~~v~i~~d~~tg~~kG~afV~F~~~e~a~~A~~-l--~g~~~~G~~l~V   91 (101)
T d2cq4a1          19 RTVFCMQLAARIRPRDLEDFFSAVG----KVRDVRIISDRNSRRSKGIAYVEFCEIQSVPLAIG-L--TGQRLLGVPIIV   91 (101)
T ss_dssp             TEEEEESCCTTCCHHHHHHHHTTTS----CEEEEEECCSCCSSSCCCCEEEEESCGGGHHHHHH-H--TTEEETTEEEEE
T ss_pred             CEEEEECCCCCCCHHHHHHHHcCCC----eEEEEEeeecCCCccccceEEEEECCHHHHHHHHH-H--CCCEECCEEEEE
Confidence            5899999999999999999999999    99999998643      369999999999999995 8  679999999999


Q ss_pred             EecC
Q psy5142         350 EVVT  353 (410)
Q Consensus       350 ~~l~  353 (410)
                      ....
T Consensus        92 ~~a~   95 (101)
T d2cq4a1          92 QASQ   95 (101)
T ss_dssp             EEHH
T ss_pred             EECC
Confidence            9764

>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=99.25  E-value=6.6e-12  Score=99.25  Aligned_cols=74  Identities=22%  Similarity=0.284  Sum_probs=65.8

Q ss_pred             CCCCeEEEEeCCC-CCCCHHHHHHHHHhcCCCCCCeeEEEeeCCCceEEEEeCChhHHHHHHHHhcCCCeEEcCeEEEEE
Q psy5142         272 LPTGALLKISDIK-EPVSREDIREVLEKVQTDDQEIVFIEFNVGEPTAFVRYKKENNAEAVLKALGSKEIVIKDVKVSIE  350 (410)
Q Consensus       272 ~~~g~~l~v~nL~-~~~t~edLk~~F~~~G~~~~~V~~V~~~~g~~~afV~F~~~e~A~~Al~~l~~~~~~i~g~~v~v~  350 (410)
                      ...++.|||.||| ..+++++|+++|++||    .|..|.+.+  ++|||.|.+.++|++||+.|  ++..++|+.|.|+
T Consensus        12 ~~~~~~lfV~nL~~~~~~~~~L~~~F~~~G----~i~~~~i~r--g~aFV~f~~~~~A~~Ai~~l--ng~~~~g~~l~V~   83 (98)
T d1wf2a_          12 RSMNSRVFIGNLNTLVVKKSDVEAIFSKYG----KIVGCSVHK--GFAFVQYVNERNARAAVAGE--DGRMIAGQVLDIN   83 (98)
T ss_dssp             SSCCCCEEEEEECTTTCCHHHHHHSSTTSS----CEEEEEEET--EEEEEEESSHHHHHHHHHTT--TTCEETTEECEEE
T ss_pred             CCCCcEEEEeCCCcccCCHHHHHHHHhhcC----CEEEEEEeC--CeEEEEECCHHHHHHHHHHc--CCCEECCEEEEEE
Confidence            3445679999996 5788999999999999    999999975  68999999999999999999  6789999999999


Q ss_pred             ecC
Q psy5142         351 VVT  353 (410)
Q Consensus       351 ~l~  353 (410)
                      +..
T Consensus        84 ~a~   86 (98)
T d1wf2a_          84 LAA   86 (98)
T ss_dssp             ETT
T ss_pred             ECC
Confidence            854

>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=99.25  E-value=1.3e-11  Score=95.43  Aligned_cols=76  Identities=18%  Similarity=0.226  Sum_probs=64.7

Q ss_pred             CCCCeEEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeC--CCceEEEEeCChhHHHHHHHHhcCCCeEE-cCeEEE
Q psy5142         272 LPTGALLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNV--GEPTAFVRYKKENNAEAVLKALGSKEIVI-KDVKVS  348 (410)
Q Consensus       272 ~~~g~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~--g~~~afV~F~~~e~A~~Al~~l~~~~~~i-~g~~v~  348 (410)
                      .|+..+|+|.|||+++++++|+++|++||    .|..+.+..  +.+.|||+|.+.++|.+|+..|  ++..+ +|+.|.
T Consensus         7 ~pPs~tL~V~NLp~~~te~~l~~~F~~~G----~v~~~~~~~~~~~~~afV~f~~~~~A~~A~~~l--~~~~i~~g~~l~   80 (88)
T d2adca2           7 FPPSATLHLSNIPPSVSEEDLKVLFSSNG----GVVKGFKFFQKDRKMALIQMGSVEEAVQALIDL--HNHDLGENHHLR   80 (88)
T ss_dssp             CCSCSEEEEECCCTTCCHHHHHHHHHTTS----CCEEEEEECSSSTTCEEEEESSHHHHHHHHHHH--TTCBSSSSCBCE
T ss_pred             CCCCCEEEEECCCCCCCHHHHHHHhhccC----CEEEEEEeeecccceeEEEECCHHHHHHHHHhc--cCCEecCCCEEE
Confidence            46678999999999999999999999999    887766554  4568999999999999999999  55666 589999


Q ss_pred             EEecC
Q psy5142         349 IEVVT  353 (410)
Q Consensus       349 v~~l~  353 (410)
                      |+...
T Consensus        81 v~~sk   85 (88)
T d2adca2          81 VSFSK   85 (88)
T ss_dssp             EEECS
T ss_pred             EEeCC
Confidence            88653

>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=99.25  E-value=5.1e-12  Score=98.08  Aligned_cols=70  Identities=14%  Similarity=0.312  Sum_probs=62.4

Q ss_pred             CeEEEEeCCCCCCCHHHH---HHHHHhcCCCCCCeeEEEeeCCC---------ceEEEEeCChhHHHHHHHHhcCCCeEE
Q psy5142         275 GALLKISDIKEPVSREDI---REVLEKVQTDDQEIVFIEFNVGE---------PTAFVRYKKENNAEAVLKALGSKEIVI  342 (410)
Q Consensus       275 g~~l~v~nL~~~~t~edL---k~~F~~~G~~~~~V~~V~~~~g~---------~~afV~F~~~e~A~~Al~~l~~~~~~i  342 (410)
                      ..+|||.|||+++++++|   +++|++||    .|..|.+.+..         ++|||.|.++++|.+|++.|  ++..+
T Consensus         8 ~n~vyV~nLp~~~t~~~l~~~~e~F~~~G----~I~~v~i~~~~~~~~~~~~~g~aFV~f~~~~~A~~Ai~~l--ng~~~   81 (89)
T d2cpia1           8 KNLVFVVGLSQRLADPEVLKRPEYFGKFG----KIHKVVINNSTSYAGSQGPSASAYVTYIRSEDALRAIQCV--NNVVV   81 (89)
T ss_dssp             SSCEEEEEECTTTCCHHHHHSTTTTTTTS----CEEEEEEECCSSCCSSSCCCEEEEEEESSHHHHHHHHHHH--TTEEE
T ss_pred             cCEEEEECCCCccCHHHHHHHHHHhcccC----CceEEEEeeccCcCCCCCcceEEEEecccchhHHHHHHHh--CCCEE
Confidence            346999999999999999   77899999    99999987542         35899999999999999999  78999


Q ss_pred             cCeEEEEE
Q psy5142         343 KDVKVSIE  350 (410)
Q Consensus       343 ~g~~v~v~  350 (410)
                      +|+.|+++
T Consensus        82 ~gr~lkvS   89 (89)
T d2cpia1          82 DGRTLKAS   89 (89)
T ss_dssp             TTEEEEEE
T ss_pred             CCEEEEEC
Confidence            99999875

>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=99.25  E-value=7.8e-12  Score=99.77  Aligned_cols=74  Identities=12%  Similarity=0.275  Sum_probs=66.0

Q ss_pred             eEEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCCC------ceEEEEeCChhHHHHHHHHhcCCCeEEcCeEEEE
Q psy5142         276 ALLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVGE------PTAFVRYKKENNAEAVLKALGSKEIVIKDVKVSI  349 (410)
Q Consensus       276 ~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g~------~~afV~F~~~e~A~~Al~~l~~~~~~i~g~~v~v  349 (410)
                      .+|||.|||+++++++|+++|++||    .|..|.+..+.      ++|||+|.+.++|++|++.|  ++..++|+.|.|
T Consensus         9 rtl~V~nLp~~~te~~l~~~f~~~G----~i~~v~i~~~~~tg~~~g~afV~f~~~~~a~~ai~~l--~~~~~~g~~i~V   82 (104)
T d1p1ta_           9 RSVFVGNIPYEATEEQLKDIFSEVG----PVVSFRLVYDRETGKPKGYGFCEYQDQETALSAMRNL--NGREFSGRALRV   82 (104)
T ss_dssp             SCEEEESCCTTSCHHHHHHHHHTTS----CCSEEEEEEETTTTEEEEEEEEECSCHHHHHHHHHHS--SSBSCSSSCBEE
T ss_pred             CEEEEECCCCcCCHHHHHHhhhccc----cccccccccccceeccCCceEEEECCHHHHHHHHHHc--CCCEECCEEEEE
Confidence            3699999999999999999999999    99999887543      26999999999999999999  678899999999


Q ss_pred             EecCch
Q psy5142         350 EVVTGE  355 (410)
Q Consensus       350 ~~l~g~  355 (410)
                      .....+
T Consensus        83 ~~a~~~   88 (104)
T d1p1ta_          83 DNAASE   88 (104)
T ss_dssp             EETTCT
T ss_pred             EECCCC
Confidence            987654

>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=99.25  E-value=5.6e-12  Score=96.96  Aligned_cols=71  Identities=15%  Similarity=0.273  Sum_probs=64.9

Q ss_pred             EEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCC------CceEEEEeCChhHHHHHHHHhcCCCeEEcCeEEEEE
Q psy5142         277 LLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVG------EPTAFVRYKKENNAEAVLKALGSKEIVIKDVKVSIE  350 (410)
Q Consensus       277 ~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g------~~~afV~F~~~e~A~~Al~~l~~~~~~i~g~~v~v~  350 (410)
                      .|||.|||+.+|+++|+++|++||    +|..|.+.++      .++|||.|.++++|..|++.|  ++..++|+.|.|.
T Consensus         3 rlfV~nlp~~~te~~l~~~F~~~G----~v~~v~i~~d~~tg~~rg~aFV~f~~~~~A~~a~~~l--~~~~l~g~~l~V~   76 (85)
T d2u2fa_           3 KLFIGGLPNYLNDDQVKELLTSFG----PLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAIAGL--NGMQLGDKKLLVQ   76 (85)
T ss_dssp             CEEEETCCSSCCSHHHHHHHTSSS----CEEEEEEECCCSSSCCCCEEEEEESSSHHHHHHHHTS--SSCCCSSSCCEEE
T ss_pred             EEEEECCCCCCCHHHHHHHHHhcC----ccceEEeeccccccccceeEEEEECCHHHHHHHHHHh--CCCEECCEEEEEE
Confidence            489999999999999999999999    9999998764      346999999999999999999  6799999999998


Q ss_pred             ecC
Q psy5142         351 VVT  353 (410)
Q Consensus       351 ~l~  353 (410)
                      .+.
T Consensus        77 ~A~   79 (85)
T d2u2fa_          77 RAS   79 (85)
T ss_dssp             ECC
T ss_pred             ECC
Confidence            875

>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=99.24  E-value=9.9e-12  Score=99.82  Aligned_cols=73  Identities=12%  Similarity=0.227  Sum_probs=65.6

Q ss_pred             CeEEEEeCCCC-CCCHHHHHHHHHhcCCCCCCeeEEEeeCCC-ceEEEEeCChhHHHHHHHHhcCCCeEEcCeEEEEEec
Q psy5142         275 GALLKISDIKE-PVSREDIREVLEKVQTDDQEIVFIEFNVGE-PTAFVRYKKENNAEAVLKALGSKEIVIKDVKVSIEVV  352 (410)
Q Consensus       275 g~~l~v~nL~~-~~t~edLk~~F~~~G~~~~~V~~V~~~~g~-~~afV~F~~~e~A~~Al~~l~~~~~~i~g~~v~v~~l  352 (410)
                      +++|+|.|||+ .+++++|+++|++||    .|..|.+.++. ++|||.|.+.++|.+|++.|  ++..+.|+.|.|...
T Consensus         2 ~~~l~V~nL~p~~~te~~L~~~F~~fG----~I~~v~i~~~~kg~afV~f~~~~~A~~ai~~l--ng~~l~g~~l~v~~s   75 (109)
T d2adca1           2 NSVLLVSNLNPERVTPQSLFILFGVYG----DVQRVKILFNKKENALVQMADGNQAQLAMSHL--NGHKLHGKPIRITLS   75 (109)
T ss_dssp             CSEEEEESCCTTTCCHHHHHHHHHHHT----CEEEEEECCTTSCCEEEEESCHHHHHHHHHHH--TTCBCSSSBCEEECC
T ss_pred             CCEEEEeCCCcccCCHHHHHHHHhhcc----ccceEEEEecccceEEEEECCHHHHHHHHHHh--CCCEECCEEEEEEEC
Confidence            46899999965 589999999999999    99999998764 57999999999999999999  678999999999975


Q ss_pred             C
Q psy5142         353 T  353 (410)
Q Consensus       353 ~  353 (410)
                      .
T Consensus        76 ~   76 (109)
T d2adca1          76 K   76 (109)
T ss_dssp             S
T ss_pred             C
Confidence            3

>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=99.24  E-value=6.7e-12  Score=98.72  Aligned_cols=76  Identities=20%  Similarity=0.321  Sum_probs=65.4

Q ss_pred             CCCCeEEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEee-CCCceEEEEeCChhHHHHHHHHhcCCCeEEcCeEEEEE
Q psy5142         272 LPTGALLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFN-VGEPTAFVRYKKENNAEAVLKALGSKEIVIKDVKVSIE  350 (410)
Q Consensus       272 ~~~g~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~-~g~~~afV~F~~~e~A~~Al~~l~~~~~~i~g~~v~v~  350 (410)
                      .....+|||.|||+++++++|+++|++||    .|..+... ...++|||+|.+.++|++|++.|  ++..++|+.|.|.
T Consensus        13 ~~~~~~l~V~nL~~~~te~~l~~~F~~~g----~v~~~~~~~~~~~~afV~f~~~~~A~~A~~~l--~~~~~~gr~i~V~   86 (96)
T d1fjca_          13 VRAARTLLAKNLSFNITEDELKEVFEDAL----EIRLVSQDGKSKGIAYIEFKSEADAEKNLEEK--QGAEIDGRSVSLY   86 (96)
T ss_dssp             TTGGGEEEEESCCSSCCHHHHHHHHCSEE----EECCEEETTEEEEEEEEEESSHHHHHHHHHHT--TEEEETTEEEEEE
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhcc----cceeeeecCccccEEEEEeCCHHHHHHHHHHc--CCCEECCEEEEEE
Confidence            34567999999999999999999999999    88766432 22457999999999999999999  7899999999999


Q ss_pred             ecC
Q psy5142         351 VVT  353 (410)
Q Consensus       351 ~l~  353 (410)
                      ...
T Consensus        87 ~a~   89 (96)
T d1fjca_          87 YTG   89 (96)
T ss_dssp             ECS
T ss_pred             EeC
Confidence            764

>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=99.24  E-value=4.1e-12  Score=95.43  Aligned_cols=68  Identities=21%  Similarity=0.324  Sum_probs=59.9

Q ss_pred             EEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCCC------ceEEEEeCChhHHHHHHHHhcCCCeEEcCeEEEEEe
Q psy5142         278 LKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVGE------PTAFVRYKKENNAEAVLKALGSKEIVIKDVKVSIEV  351 (410)
Q Consensus       278 l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g~------~~afV~F~~~e~A~~Al~~l~~~~~~i~g~~v~v~~  351 (410)
                      |||.|||+++|+++|+++|++||    .|..|.++.+.      ++|||+|.++++|++||+.   .+.+|+|+.|.|++
T Consensus         2 lfVgnLp~~~te~~l~~~F~~~G----~I~~v~i~~d~~t~~~rG~~FV~f~~~~~a~~al~~---~~~~i~g~~i~vk~   74 (75)
T d1x0fa1           2 IFVGGLSPDTPEEKIREYFGGFG----EVESIELPMDNKTNKRRGFCFITFKEEEPVKKIMEK---KYHNVGLSKCEIKV   74 (75)
T ss_dssp             EEEESCCSSCCHHHHHHHHHHHS----CEEEEECCCCTTTCCTTCCEEEEESSSHHHHHHTTC---SSCCBTTBCCEEEC
T ss_pred             EEEcCCCCCCCHHHHHHHHHHhC----CcccccccccccccccccEEEEEECCHHHHHHHHhh---CCCEECCEEeEEEE
Confidence            89999999999999999999999    99999987653      3699999999999999865   35689999998875


Q ss_pred             c
Q psy5142         352 V  352 (410)
Q Consensus       352 l  352 (410)
                      +
T Consensus        75 A   75 (75)
T d1x0fa1          75 A   75 (75)
T ss_dssp             C
T ss_pred             C
Confidence            3

>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=99.24  E-value=1.5e-11  Score=107.49  Aligned_cols=105  Identities=20%  Similarity=0.275  Sum_probs=75.7

Q ss_pred             CcHHHHHHHHhhcCCceEEEecCccceecCCCCCCCCCchhhhhhccceeeEeecCCCCCCHHHHHHHHhhccCCCCceE
Q psy5142          72 TEAKVIVDALKKSTSKLIEVNEDGTKIRRNPEKELPTFDIDFVKDLIAQSLYVKYIPVDATLDDIKDFFKKNTSEDVKIT  151 (410)
Q Consensus        72 ~d~~~i~~Al~~~~S~~levsed~~~vrR~~~~p~p~~~~~~~~~~~~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~  151 (410)
                      .+.+.+..|+...   ...+......+++....+  . ..........++|||+|||+.+|+++|+++|+.|    |.|.
T Consensus        56 ~~~~~a~~a~~~~---~~~~~~~~~~~~~~~~~~--~-~~~~~~~~~~~~i~V~~lp~~~te~~L~~~f~~~----G~v~  125 (183)
T d1u1qa_          56 ATVEEVDAAMNAR---PHKVDGRVVEPKRAVSRE--D-SQRPGAHLTVKKIFVGGIKEDTEEHHLRDYFEQY----GKIE  125 (183)
T ss_dssp             SSHHHHHHHHHTC---SCEETTEECEEEECCCTT--G-GGSTTTTCCCSEEEEECCCTTCCHHHHHHHHGGG----SCEE
T ss_pred             CCHHHHHHHHHhc---CCcccccchhhhhhhhcc--c-ccccccccccceeEEccCCCcCCHHHHhhhhccC----Ccee
Confidence            3567777777732   223333333344332111  0 0011234567899999999999999999999999    9999


Q ss_pred             EEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcC
Q psy5142         152 NIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENK  190 (410)
Q Consensus       152 ~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~  190 (410)
                      .|.++.+..++    .++|+|||+|.+.++|++|++..+
T Consensus       126 ~~~i~~~~~~~----~~~g~~fV~f~~~e~A~~Al~~~~  160 (183)
T d1u1qa_         126 VIEIMTDRGSG----KKRGFAFVTFDDHDSVDKIVIQKY  160 (183)
T ss_dssp             EEEEEECTTTC----CEEEEEEEEESCHHHHHHHHTSSC
T ss_pred             eeeeecccccC----ccceeEEEEECCHHHHHHHHHhCC
Confidence            99999887765    789999999999999999998533

>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=99.24  E-value=1e-11  Score=96.65  Aligned_cols=76  Identities=16%  Similarity=0.360  Sum_probs=66.6

Q ss_pred             CCeEEEEeCCCCCCCHHHHHH----HHHhcCCCCCCeeEEEeeCC---CceEEEEeCChhHHHHHHHHhcCCCeEEcCeE
Q psy5142         274 TGALLKISDIKEPVSREDIRE----VLEKVQTDDQEIVFIEFNVG---EPTAFVRYKKENNAEAVLKALGSKEIVIKDVK  346 (410)
Q Consensus       274 ~g~~l~v~nL~~~~t~edLk~----~F~~~G~~~~~V~~V~~~~g---~~~afV~F~~~e~A~~Al~~l~~~~~~i~g~~  346 (410)
                      |.++|||.|||+.+++++|++    +|++||    +|..|.+.+.   .++|||+|.+.++|..|++.+  ++..++|+.
T Consensus         2 P~~tl~V~nLp~~~t~~dl~~~l~~~f~~~G----~i~~i~~~~~~~~~g~afV~F~~~~~A~~A~~~~--~~~~~~g~~   75 (91)
T d1nu4a_           2 PNHTIYINNLNEKIKKDELKKSLHAIFSRFG----QILDILVSRSLKMRGQAFVIFKEVSSATNALRSM--QGFPFYDKP   75 (91)
T ss_dssp             CCSEEEEESCCTTSCHHHHHHHHHHHHGGGS----CEEEEECCHHHHHTTCEEEEESSHHHHHHHHHHH--TTCEETTEE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHHHhcccc----cccceEEeeeccCCCceEEEECCHHHHHHHHHHh--CCCEECCEE
Confidence            457899999999999999875    579999    9999988653   568999999999999999999  678999999


Q ss_pred             EEEEecCch
Q psy5142         347 VSIEVVTGE  355 (410)
Q Consensus       347 v~v~~l~g~  355 (410)
                      |.|.....+
T Consensus        76 l~v~~ak~~   84 (91)
T d1nu4a_          76 MRIQYAKTD   84 (91)
T ss_dssp             CEEEECSSC
T ss_pred             EEEEEeCCC
Confidence            999987644

>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=99.24  E-value=1.3e-11  Score=95.03  Aligned_cols=72  Identities=19%  Similarity=0.371  Sum_probs=62.2

Q ss_pred             CeEEEEeCCCCCCCH-HHHHHHHHhcCCCCCCeeEEEeeCC-------CceEEEEeCChhHHHHHHHHhcCCCeEEcCeE
Q psy5142         275 GALLKISDIKEPVSR-EDIREVLEKVQTDDQEIVFIEFNVG-------EPTAFVRYKKENNAEAVLKALGSKEIVIKDVK  346 (410)
Q Consensus       275 g~~l~v~nL~~~~t~-edLk~~F~~~G~~~~~V~~V~~~~g-------~~~afV~F~~~e~A~~Al~~l~~~~~~i~g~~  346 (410)
                      +..|||.|||+++++ ++|+++|++||    .|..|.+...       .++|||+|.+.++|++|++ |  ++..++|+.
T Consensus         4 ~~~l~V~nLp~~~t~ed~l~~~F~~~G----~i~~v~i~~~~~~~~~~kg~afV~f~~~~~a~~Al~-~--n~~~~~gr~   76 (86)
T d2ghpa3           4 GREIMIRNLSTELLDENLLRESFEGFG----SIEKINIPAGQKEHSFNNCCAFMVFENKDSAERALQ-M--NRSLLGNRE   76 (86)
T ss_dssp             TTEEEEEEECTTTCCHHHHHHHHGGGS----CEEEEECCSCCC---CCCEEEEEEESSHHHHHHHGG-G--TTEEETTEE
T ss_pred             CCEEEEECCCCCcccHHHHHHHHHhhh----hccceeeecccCCccccceeeeEEECCHHHHHHHHh-c--CCCEECCEE
Confidence            568999999999865 55999999999    9999988653       2369999999999999996 8  689999999


Q ss_pred             EEEEecC
Q psy5142         347 VSIEVVT  353 (410)
Q Consensus       347 v~v~~l~  353 (410)
                      |.|++..
T Consensus        77 l~V~~a~   83 (86)
T d2ghpa3          77 ISVSLAD   83 (86)
T ss_dssp             EEEEECC
T ss_pred             EEEEEcC
Confidence            9999865

>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=99.23  E-value=7.3e-12  Score=93.65  Aligned_cols=68  Identities=15%  Similarity=0.206  Sum_probs=59.6

Q ss_pred             EEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCCC------ceEEEEeCChhHHHHHHHHhcCCCeEEcCeEEEEEe
Q psy5142         278 LKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVGE------PTAFVRYKKENNAEAVLKALGSKEIVIKDVKVSIEV  351 (410)
Q Consensus       278 l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g~------~~afV~F~~~e~A~~Al~~l~~~~~~i~g~~v~v~~  351 (410)
                      |||.|||+++|+++|+++|++||    .|..+.+....      ++|||+|.+.++|++|++ +  ++..++|+.|+|+.
T Consensus         2 lfV~nLp~~~te~~l~~~F~~~G----~i~~~~~~~~~~~~~~~~~afV~F~~~~~a~~al~-~--~~~~l~gr~i~V~~   74 (75)
T d2msta_           2 IFVGGLSVNTTVEDVKHYFEQFG----KVDDAMLMFDKTTNRHRGFGFVTFESEDIVEKVCE-I--HFHEINNKMVECKK   74 (75)
T ss_dssp             EEEECCCSSCCHHHHHHHHHTTS----CCSEECCBCCTTCTTSCCEEEEECSCHHHHHHHHH-C--SSCCBTTBCCEEEE
T ss_pred             EEEeCCCCCCCHHHHHHHHHHhC----CcceeeeeeeccccccCceeEEEECCHHHHHHHHh-c--CCCEECCeEEEEEE
Confidence            89999999999999999999999    88888776533      359999999999999996 7  67899999999875


Q ss_pred             c
Q psy5142         352 V  352 (410)
Q Consensus       352 l  352 (410)
                      +
T Consensus        75 A   75 (75)
T d2msta_          75 A   75 (75)
T ss_dssp             C
T ss_pred             C
Confidence            3

>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=99.23  E-value=7.6e-12  Score=93.85  Aligned_cols=67  Identities=16%  Similarity=0.302  Sum_probs=59.1

Q ss_pred             EEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCC------CceEEEEeCChhHHHHHHHHhcCCCeEEcCeEEEEEe
Q psy5142         278 LKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVG------EPTAFVRYKKENNAEAVLKALGSKEIVIKDVKVSIEV  351 (410)
Q Consensus       278 l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g------~~~afV~F~~~e~A~~Al~~l~~~~~~i~g~~v~v~~  351 (410)
                      |||.|||+++++++|+++|++||    .|..|.+.++      .++|||.|.++++|++|++ +  ++..|+|+.|.|+.
T Consensus         2 lfV~nl~~~~te~~l~~~F~~~G----~i~~~~i~~d~~t~~~kg~afV~f~~~~~a~~Al~-~--~~~~l~Gr~i~V~r   74 (75)
T d1hd0a_           2 MFIGGLSWDTTKKDLKDYFSKFG----EVVDCTLKLDPITGRSRGFGFVLFKESESVDKVMD-Q--KEHKLNGKVIDPKR   74 (75)
T ss_dssp             EEEECCCTTCCHHHHHHHHHTTS----CEEEEECCCBTTTTBCCSEEEEEESSHHHHHHHHH-T--CCCCBTTBCCEECC
T ss_pred             EEEeCCCCcCCHHHHHHHHHhhc----cccccccccCCCCCCcCceEEEEECCHHHHHHHHh-c--CCCEECCCEEEeeE
Confidence            89999999999999999999999    9999998763      3469999999999999997 5  45678999988753

>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=99.22  E-value=2.5e-11  Score=93.29  Aligned_cols=77  Identities=19%  Similarity=0.261  Sum_probs=61.2

Q ss_pred             CCCeEEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCCC--ceEEEEeCChhHHHHHHHHhcCCCeEEcCeEEEEE
Q psy5142         273 PTGALLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVGE--PTAFVRYKKENNAEAVLKALGSKEIVIKDVKVSIE  350 (410)
Q Consensus       273 ~~g~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g~--~~afV~F~~~e~A~~Al~~l~~~~~~i~g~~v~v~  350 (410)
                      +..++|+|.|||.++++++|+++|+.||.....+...+-..+.  ++|||+|.++++|++|+..|  ++..++|+.|+|+
T Consensus         7 p~~~~l~v~nLp~~~~~~di~~~F~~~~~~~~~~~~~~~~~g~~~G~afV~f~~~e~a~~Ai~~l--~~~~l~gr~i~v~   84 (86)
T d2cqpa1           7 PGPTIIKVQNMPFTVSIDEILDFFYGYQVIPGSVCLKYNEKGMPTGEAMVAFESRDEATAAVIDL--NDRPIGSRKVKLV   84 (86)
T ss_dssp             CSSEEEEEESCCTTCCHHHHHHHTTTSCCCTTTCEEEECSSSCEEEEEEEEESCHHHHHHHHHHT--TTCEETTEECEEE
T ss_pred             CCCCEEEEECCCCCCCHHHHHHHHhhcccceeEEEEEeCCCCCcceEEEEEEcCcHHHHHHHHHc--CCCEECCEEEEEE
Confidence            5567899999999999999999999999211112222222332  36999999999999999999  7899999999998


Q ss_pred             e
Q psy5142         351 V  351 (410)
Q Consensus       351 ~  351 (410)
                      +
T Consensus        85 l   85 (86)
T d2cqpa1          85 L   85 (86)
T ss_dssp             E
T ss_pred             E
Confidence            6

>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=99.22  E-value=2.5e-11  Score=94.52  Aligned_cols=75  Identities=13%  Similarity=0.213  Sum_probs=63.0

Q ss_pred             CCCeEEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEe-----eCCCceEEEEeCChhHHHHHHHHhcCCCeEEcCeEE
Q psy5142         273 PTGALLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEF-----NVGEPTAFVRYKKENNAEAVLKALGSKEIVIKDVKV  347 (410)
Q Consensus       273 ~~g~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~-----~~g~~~afV~F~~~e~A~~Al~~l~~~~~~i~g~~v  347 (410)
                      .....|||.|||+++++++|+++|++||    .|..+++     .+..++|||+|.+.++|++||+ |  ++..++|+.|
T Consensus        11 ~~~~~ifV~nL~~~~te~~l~~~F~~~G----~i~~~~v~~~~~g~~kg~afv~F~~~e~a~~Al~-~--~g~~~~g~~i   83 (91)
T d1fjeb1          11 TTPFNLFIGNLNPNKSVAELKVAISELF----AKNDLAVVDVRTGTNRKFGYVDFESAEDLEKALE-L--TGLKVFGNEI   83 (91)
T ss_dssp             SSSEEEEEECCCTTSCHHHHHHHHHHHH----HHHTCCCCEEEEETTTTEEEEEESSHHHHHHHHH-G--GGEEETTEEE
T ss_pred             CCCcEEEEeCccCcchHHHHHHHHhcCC----cEEEeeeeecCCCCccEEeEEeeCCHHHHHHHHh-c--CCcEECCEEE
Confidence            4567899999999999999999999999    5443333     3455689999999999999996 8  6899999999


Q ss_pred             EEEecCc
Q psy5142         348 SIEVVTG  354 (410)
Q Consensus       348 ~v~~l~g  354 (410)
                      .|....+
T Consensus        84 ~V~~ak~   90 (91)
T d1fjeb1          84 KLEKPKG   90 (91)
T ss_dssp             EEECCCC
T ss_pred             EEEecCC
Confidence            9987653

>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=99.21  E-value=2.2e-11  Score=93.31  Aligned_cols=70  Identities=16%  Similarity=0.147  Sum_probs=61.4

Q ss_pred             eEEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCCC------ceEEEEeCChhHHHHHHHHhcCCCeEEcCeEEEE
Q psy5142         276 ALLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVGE------PTAFVRYKKENNAEAVLKALGSKEIVIKDVKVSI  349 (410)
Q Consensus       276 ~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g~------~~afV~F~~~e~A~~Al~~l~~~~~~i~g~~v~v  349 (410)
                      ..|||.|||+++++++|+++|++||    .|..|.+..+.      ++|||.|.++++|++|++.   ++..|+|+.|.|
T Consensus         7 ~~lfV~nlp~~~te~~l~~~F~~~G----~i~~v~i~~d~~tg~~kG~afV~f~~~~~a~~ai~~---~~~~i~Gr~i~V   79 (84)
T d1l3ka1           7 RKLFIGGLSFETTDESLRSHFEQWG----TLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMNA---RPHKVDGRVVEP   79 (84)
T ss_dssp             GEEEEESCCTTCCHHHHHHHHGGGS----CEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHT---CSCEETTEECEE
T ss_pred             cEEEEECCCCCCCHHHHHHHHHhhc----cccceeecccccCCCcccEEEEEEcCHHHHHHHHHh---CCCEECCEEEEE
Confidence            4799999999999999999999999    99999887543      3699999999999999974   357899999999


Q ss_pred             Eec
Q psy5142         350 EVV  352 (410)
Q Consensus       350 ~~l  352 (410)
                      +.+
T Consensus        80 ~~A   82 (84)
T d1l3ka1          80 KRA   82 (84)
T ss_dssp             EEC
T ss_pred             Eee
Confidence            764

>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=99.20  E-value=2.8e-11  Score=96.36  Aligned_cols=72  Identities=14%  Similarity=0.138  Sum_probs=63.9

Q ss_pred             CeEEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCC------CceEEEEeCChhHHHHHHHHhcCCCeEEcCeEEE
Q psy5142         275 GALLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVG------EPTAFVRYKKENNAEAVLKALGSKEIVIKDVKVS  348 (410)
Q Consensus       275 g~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g------~~~afV~F~~~e~A~~Al~~l~~~~~~i~g~~v~  348 (410)
                      .+.|||.|||+.+++++|+++|++||    .|..|.+..+      .++|||.|.+.++|++||+.+  ++ .++|+.|.
T Consensus        10 ~~~lfV~nLp~~~te~~l~~~F~~~G----~i~~v~i~~d~~tg~~kg~afV~f~~~~~A~~Ai~~~--~~-~l~Gr~l~   82 (103)
T d2cqda1          10 FTKIFVGGLPYHTTDASLRKYFEGFG----DIEEAVVITDRQTGKSRGYGFVTMADRAAAERACKDP--NP-IIDGRKAN   82 (103)
T ss_dssp             SSEEEEECCCSSCCHHHHHHHHHTTS----CEEEEEESCCSSSCCCCSEEEEEESSHHHHHHHHTCS--SC-EETTEECE
T ss_pred             CcEEEEeCCCCcCcHHHHHHHHhhcc----cccceeccccccccccCCeEEEEECCHHHHHHHHHHC--CC-cCCCEEEE
Confidence            35799999999999999999999999    9999998764      346999999999999999988  44 68999999


Q ss_pred             EEecC
Q psy5142         349 IEVVT  353 (410)
Q Consensus       349 v~~l~  353 (410)
                      |.+..
T Consensus        83 V~~a~   87 (103)
T d2cqda1          83 VNLAY   87 (103)
T ss_dssp             EEEST
T ss_pred             EEEcC
Confidence            98765

>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=99.20  E-value=1.7e-11  Score=95.06  Aligned_cols=72  Identities=11%  Similarity=0.218  Sum_probs=63.7

Q ss_pred             eEEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCC------CceEEEEeCChhHHHHHHHHhcCCCeEEcCeEEEE
Q psy5142         276 ALLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVG------EPTAFVRYKKENNAEAVLKALGSKEIVIKDVKVSI  349 (410)
Q Consensus       276 ~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g------~~~afV~F~~~e~A~~Al~~l~~~~~~i~g~~v~v  349 (410)
                      ..|||.|||+.+++++|+++|++||    .|..|.+...      .++|||.|.++++|+.|+..|  ++..++|+.|.|
T Consensus         6 ~kifV~nLp~~~t~~~l~~~F~~~G----~i~~~~~~~~~~~~~~~g~afV~f~~~~~a~~Ai~~l--~~~~~~g~~l~V   79 (90)
T d1x5sa1           6 GKLFVGGLSFDTNEQSLEQVFSKYG----QISEVVVVKDRETQRSRGFGFVTFENIDDAKDAMMAM--NGKSVDGRQIRV   79 (90)
T ss_dssp             SEEEEESCCTTCCHHHHHHHHHHHS----CCCEEEECCCSSSCSCCSEEEEECSSHHHHHHHHHHH--TTCCTTSCCCEE
T ss_pred             CEEEEECCCCcCCHHHHHHhhhccc----cccceeeccccccccccceEEEEECCHHHHHHHHHHc--CCCEECCEEEEE
Confidence            3699999999999999999999999    8988876643      236999999999999999999  678899999999


Q ss_pred             EecC
Q psy5142         350 EVVT  353 (410)
Q Consensus       350 ~~l~  353 (410)
                      +.+.
T Consensus        80 ~~a~   83 (90)
T d1x5sa1          80 DQAG   83 (90)
T ss_dssp             EEEE
T ss_pred             EEcC
Confidence            8764

>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=99.20  E-value=8.5e-12  Score=95.31  Aligned_cols=70  Identities=9%  Similarity=0.207  Sum_probs=60.0

Q ss_pred             EEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEE-EeeCC------CceEEEEeCChhHHHHHHHHhcCCCeEEcCeEEEEE
Q psy5142         278 LKISDIKEPVSREDIREVLEKVQTDDQEIVFI-EFNVG------EPTAFVRYKKENNAEAVLKALGSKEIVIKDVKVSIE  350 (410)
Q Consensus       278 l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V-~~~~g------~~~afV~F~~~e~A~~Al~~l~~~~~~i~g~~v~v~  350 (410)
                      |||.|||+++++++|+++|++||    .|..+ .+.++      .++|||.|.++++|++|++.|  ++..++|+.|.|.
T Consensus         1 lfV~nLp~~~te~~l~~~F~~~G----~i~~~~~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~~--~g~~~~gr~l~v~   74 (83)
T d1x5ta1           1 IFIGNLDPEIDEKLLYDTFSAFG----VILQTPKIMRDPDTGNSKGYAFINFASFDASDAAIEAM--NGQYLCNRPITVS   74 (83)
T ss_dssp             EEEECCCTTCCHHHHHHHHHTTS----CBSSCCEECCCTTTCSCCSEEEEEBSSHHHHHHHHHTT--TTCEETTEECEEE
T ss_pred             CEEcCCCCcCcHHHHHHHHHHhC----ceeeeEEEEeeccccccCceEEEEECCHHHHHHHHHhC--CCcEECCEEEEEE
Confidence            79999999999999999999999    66432 33322      357999999999999999999  6789999999999


Q ss_pred             ecC
Q psy5142         351 VVT  353 (410)
Q Consensus       351 ~l~  353 (410)
                      ...
T Consensus        75 ~a~   77 (83)
T d1x5ta1          75 YAF   77 (83)
T ss_dssp             ESC
T ss_pred             Eec
Confidence            865

>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=99.19  E-value=1.7e-11  Score=97.70  Aligned_cols=74  Identities=15%  Similarity=0.140  Sum_probs=64.6

Q ss_pred             eEEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCC------CceEEEEeCChhHHHHHHHHhcCCCeEEcCeEEEE
Q psy5142         276 ALLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVG------EPTAFVRYKKENNAEAVLKALGSKEIVIKDVKVSI  349 (410)
Q Consensus       276 ~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g------~~~afV~F~~~e~A~~Al~~l~~~~~~i~g~~v~v  349 (410)
                      ..|||.|||+++++++|+++|++||    .|..|.++.+      .++|||.|.+.++|++|++ +  ++..|+|+.|.|
T Consensus        21 ~~lfVgnLp~~~te~~L~~~F~~~G----~i~~~~i~~d~~~~~~kg~aFV~f~~~~~a~~al~-~--~~~~l~G~~i~V   93 (103)
T d1x4ba1          21 RKLFIGGLSFETTEESLRNYYEQWG----KLTDCVVMRDPASKRSRGFGFVTFSSMAEVDAAMA-A--RPHSIDGRVVEP   93 (103)
T ss_dssp             TEEEEECCTTCCCHHHHHHHHTSSC----CCSEEEEECCTTTSSCCSEEEEECSSHHHHHHHHT-S--CSEEETTEEEEE
T ss_pred             CEEEEeCCCCcCCHHHHHHHHHhhC----cccceeecccccCCCccCeEEEEECCHHHHHHHHH-h--CCCeECCEEEEE
Confidence            5799999999999999999999999    9999988753      3579999999999999986 4  567899999999


Q ss_pred             EecCchH
Q psy5142         350 EVVTGEE  356 (410)
Q Consensus       350 ~~l~g~e  356 (410)
                      +.+...+
T Consensus        94 ~~a~~ke  100 (103)
T d1x4ba1          94 KRAVARE  100 (103)
T ss_dssp             ECCSSCC
T ss_pred             EECcccC
Confidence            8776443

>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=99.19  E-value=3.6e-11  Score=90.80  Aligned_cols=70  Identities=17%  Similarity=0.295  Sum_probs=60.5

Q ss_pred             eEEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCCC------ceEEEEeCChhHHHHHHHHhcCCCeEEcCeEEEE
Q psy5142         276 ALLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVGE------PTAFVRYKKENNAEAVLKALGSKEIVIKDVKVSI  349 (410)
Q Consensus       276 ~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g~------~~afV~F~~~e~A~~Al~~l~~~~~~i~g~~v~v  349 (410)
                      ..|||.|||+++|+++|+++|++||    .|..+.+....      ++|||.|.++++|++|+. +  ++..|+|+.|.|
T Consensus         3 r~lfV~nLp~~~te~~l~~~F~~~G----~i~~~~~~~~~~~~~~~g~afV~f~~~e~~~~al~-~--~~~~l~Gr~i~V   75 (79)
T d1l3ka2           3 KKIFVGGIKEDTEEHHLRDYFEQYG----KIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKIVI-Q--KYHTVNGHNCEV   75 (79)
T ss_dssp             SEEEEECCTTTCCHHHHHHHHTTTS----CEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHH-C--SCCEETTEECEE
T ss_pred             CEEEECCCCCcCCHHHHHHHHHHhc----cccccccccCCCCcccccEEEEEEcCHHHHHHHHH-h--CCCEECCEEEEE
Confidence            3699999999999999999999999    99888877532      359999999999999985 6  578999999999


Q ss_pred             Eec
Q psy5142         350 EVV  352 (410)
Q Consensus       350 ~~l  352 (410)
                      +.+
T Consensus        76 ~~A   78 (79)
T d1l3ka2          76 RKA   78 (79)
T ss_dssp             EEC
T ss_pred             EEC
Confidence            753

>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=99.17  E-value=4.3e-11  Score=94.62  Aligned_cols=75  Identities=12%  Similarity=0.281  Sum_probs=63.0

Q ss_pred             CCCeEEEEeCCCCCCCHHHHHHHHHhcCCCCCCee--------EEEeeCC------CceEEEEeCChhHHHHHHHHhcCC
Q psy5142         273 PTGALLKISDIKEPVSREDIREVLEKVQTDDQEIV--------FIEFNVG------EPTAFVRYKKENNAEAVLKALGSK  338 (410)
Q Consensus       273 ~~g~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~--------~V~~~~g------~~~afV~F~~~e~A~~Al~~l~~~  338 (410)
                      +.++.|||.|||..+++++|+++|++||    .|.        .+.+..+      .++|||.|.++++|.+|++.|  +
T Consensus         6 ~~~~~i~V~nLp~~~te~~l~~~F~~~G----~i~~~~~~~~~~~~~~~d~~~~~~~g~afV~f~~~~~a~~Ai~~l--~   79 (101)
T d2cpea1           6 SDNSAIYVQGLNDSVTLDDLADFFKQCG----VVKMNKRTGQPMIHIYLDKETGKPKGDATVSYEDPPTAKAAVEWF--D   79 (101)
T ss_dssp             CCCCEEEEECCCTTCCHHHHHHHHTTTS----CBCBCSSSCCBSEECCBCTTTCSBCSEEEEEBSSHHHHHHHHHHH--T
T ss_pred             CCCCEEEEECCCCcCCHHHHHHHHHHCc----eEEEeeecccceeEEeeccccccccceeeEEecCHHHHHHHHHHh--C
Confidence            4567999999999999999999999999    552        2333332      346999999999999999999  6


Q ss_pred             CeEEcCeEEEEEecC
Q psy5142         339 EIVIKDVKVSIEVVT  353 (410)
Q Consensus       339 ~~~i~g~~v~v~~l~  353 (410)
                      +..++|+.|.|+...
T Consensus        80 g~~~~gr~i~V~~a~   94 (101)
T d2cpea1          80 GKDFQGSKLKVSLAR   94 (101)
T ss_dssp             TCEETTEECEEECSS
T ss_pred             CCEECCEEEEEEEcC
Confidence            789999999999764

>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=99.16  E-value=5.4e-11  Score=91.31  Aligned_cols=70  Identities=17%  Similarity=0.208  Sum_probs=62.1

Q ss_pred             eEEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCCC-----ceEEEEeCChhHHHHHHHHhcCCCeEEcCeEEEEE
Q psy5142         276 ALLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVGE-----PTAFVRYKKENNAEAVLKALGSKEIVIKDVKVSIE  350 (410)
Q Consensus       276 ~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g~-----~~afV~F~~~e~A~~Al~~l~~~~~~i~g~~v~v~  350 (410)
                      .+|||.|||.++|+++|+++|+.||    .|..|.+..+.     ++|||+|.++++|++||+ +  ++..++|+.|.|.
T Consensus         7 rtvfV~nlp~~~te~~l~~~F~~~G----~v~~v~l~~~~~~~~kG~afV~f~~~e~a~~al~-~--~~~~~~g~~l~v~   79 (85)
T d1zh5a2           7 RSVYIKGFPTDATLDDIKEWLEDKG----QVLNIQMRRTLHKAFKGSIFVVFDSIESAKKFVE-T--PGQKYKETDLLIL   79 (85)
T ss_dssp             TEEEEECCCTTCCHHHHHHHHTTSC----CEEEEEEEECTTCCEEEEEEEEESCHHHHHHHHT-C--CCCEETTEECEEE
T ss_pred             CEEEEECCCCCCCHHHHHHHHHHhc----ccccceeeeeccCCcceEEEEEEcCHHHHHHHHH-H--CCCEECCEEEEEE
Confidence            4799999999999999999999999    99999887543     369999999999999985 4  6799999999997


Q ss_pred             ec
Q psy5142         351 VV  352 (410)
Q Consensus       351 ~l  352 (410)
                      ..
T Consensus        80 ~~   81 (85)
T d1zh5a2          80 FK   81 (85)
T ss_dssp             EG
T ss_pred             Ec
Confidence            63

>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=99.15  E-value=8e-12  Score=99.21  Aligned_cols=78  Identities=14%  Similarity=0.181  Sum_probs=65.0

Q ss_pred             CCCeEEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEee----C--CCceEEEEeCChhHHHHHHHHhcCCCeEEcCeE
Q psy5142         273 PTGALLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFN----V--GEPTAFVRYKKENNAEAVLKALGSKEIVIKDVK  346 (410)
Q Consensus       273 ~~g~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~----~--g~~~afV~F~~~e~A~~Al~~l~~~~~~i~g~~  346 (410)
                      .+.++|||.|||.++++++|+++|++||    .|..+.+.    .  ..++|||.|.+.++|+.|++.|  ++..+.|+.
T Consensus        16 ~ps~tl~V~nLp~~~t~~~l~~~f~~~G----~v~~~~~~~~~~~g~~~g~~fV~f~~~~~A~~Ai~~l--~g~~~~g~~   89 (102)
T d2cpxa1          16 EPNKVLYLKNLSPRVTERDLVSLFARFQ----EKKGPPIQFRMMTGRMRGQAFITFPNKEIAWQALHLV--NGYKLYGKI   89 (102)
T ss_dssp             SCCSEEEEECCCTTCCHHHHHHHTHHHH----HSSSSCCEEEEECSSSCSEEEEECSSHHHHHHHHHHS--TTCBCSSCB
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHhhcc----ceeeEEeecccccccccccceEEeccHHHHHHHHHHh--CCCEECCEE
Confidence            4568999999999999999999999999    55443332    2  3457999999999999999999  678999999


Q ss_pred             EEEEecCchH
Q psy5142         347 VSIEVVTGEE  356 (410)
Q Consensus       347 v~v~~l~g~e  356 (410)
                      |.|+.....+
T Consensus        90 l~V~~ak~k~   99 (102)
T d2cpxa1          90 LVIEFGKNKK   99 (102)
T ss_dssp             CEEEECCCCS
T ss_pred             EEEEeCCCcc
Confidence            9999876543

>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=99.15  E-value=7.8e-11  Score=95.39  Aligned_cols=59  Identities=12%  Similarity=0.088  Sum_probs=53.4

Q ss_pred             ceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCH-HHHHHHHHhcCC
Q psy5142         119 AQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNK-ENAEKFLNENKD  191 (410)
Q Consensus       119 ~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~-e~A~~Al~~~~g  191 (410)
                      -.++||+|||.++|+++|+++|++|    |+|.+|.|++          .+|||||+|.++ ++|..|+..+++
T Consensus        11 ~~~~fvgnL~~~~tee~Lk~~F~~f----G~V~~v~i~~----------~kg~gfV~F~~~~~~A~~a~~~~~~   70 (113)
T d1owxa_          11 CLLKFSGDLDDQTCREDLHILFSNH----GEIKWIDFVR----------GAKEGIILFKEKAKEALGKAKDANN   70 (113)
T ss_dssp             CEEEEEESCCSSCCHHHHHHHTCSS----CCEEEEECCT----------TCSEEEEEESSCHHHHHHHHHHTTT
T ss_pred             CeEEEECCCCCCCCHHHHHHHHHhc----CChheEEEec----------CCceEEEEecCcHHHHHHHHHHhcC
Confidence            4678999999999999999999999    9999999973          489999999995 789999999886

>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=99.13  E-value=9.2e-12  Score=92.45  Aligned_cols=64  Identities=17%  Similarity=0.241  Sum_probs=56.1

Q ss_pred             EEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCC------CceEEEEeCChhHHHHHHHHhcCCCeEEcCeEE
Q psy5142         278 LKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVG------EPTAFVRYKKENNAEAVLKALGSKEIVIKDVKV  347 (410)
Q Consensus       278 l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g------~~~afV~F~~~e~A~~Al~~l~~~~~~i~g~~v  347 (410)
                      |||.|||+++++++|+++|++||    .|..+.+.+.      .+.|||+|.++++|++|++.|  ++..++|+.+
T Consensus         1 lyV~nLp~~~te~~l~~~F~~~G----~v~~~~~~~~~~~~~~~g~afV~f~~~~~A~~Ai~~l--ng~~~~Gr~~   70 (72)
T d1x4ea1           1 LYIRGLQPGTTDQDLVKLCQPYG----KIVSTKAILDKTTNKCKGYGFVDFDSPSAAQKAVTAL--KASGVQAQMA   70 (72)
T ss_dssp             EEEESCCTTCCHHHHHTTSTTTS----CEEEEEEECCSSSCSCCSEEEEEESCHHHHHHHHHHH--HHHTCCEESC
T ss_pred             CEEeCCCCcCCHHHHHHHHhhhc----cccccccccccccccccceeEEEECCHHHHHHHHHHh--CCCEECCEEC
Confidence            78999999999999999999999    9988887653      246999999999999999999  5677777654

>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=99.13  E-value=2.8e-11  Score=93.56  Aligned_cols=71  Identities=14%  Similarity=0.301  Sum_probs=62.3

Q ss_pred             CeEEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCC-CceEEEEeCChhHHHHHHHHhcCCCeEEcCeEEEEEecC
Q psy5142         275 GALLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVG-EPTAFVRYKKENNAEAVLKALGSKEIVIKDVKVSIEVVT  353 (410)
Q Consensus       275 g~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g-~~~afV~F~~~e~A~~Al~~l~~~~~~i~g~~v~v~~l~  353 (410)
                      .+.|||.|||+.+++++|+++|++||    .|..|.+... .++|||.|.+.++|++|+.    +++.|+|+.|.|....
T Consensus         5 s~~lfV~nLp~~~te~~L~~~F~~~G----~v~~v~~~~~~~gfafV~f~~~~~a~~a~~----~~~~i~g~~l~v~~a~   76 (88)
T d1wf0a_           5 SSGVFVGRCTGDMTEDELREFFSQYG----DVMDVFIPKPFRAFAFVTFADDQIAQSLCG----EDLIIKGISVHISNAE   76 (88)
T ss_dssp             CCEEEEESCCSSSCHHHHHHHSTTTS----CCCEEECCSSCCSCCEEECSCHHHHHHTTT----CEEEETTEEEEEECCC
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHHcC----CceEEEEeeccCceEEEEECCHHHHHHHHh----CCCEECCEEeEEEeCC
Confidence            46899999999999999999999999    9998887653 5679999999999999874    4689999999998754

>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=99.13  E-value=1.3e-10  Score=92.37  Aligned_cols=71  Identities=23%  Similarity=0.307  Sum_probs=59.7

Q ss_pred             eEEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeE-EEeeC-----CCceEEEEeCChhHHHHHHHHhcCCCeEEcCeEEEE
Q psy5142         276 ALLKISDIKEPVSREDIREVLEKVQTDDQEIVF-IEFNV-----GEPTAFVRYKKENNAEAVLKALGSKEIVIKDVKVSI  349 (410)
Q Consensus       276 ~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~-V~~~~-----g~~~afV~F~~~e~A~~Al~~l~~~~~~i~g~~v~v  349 (410)
                      ..|||.|||+++++++|+++|+.||    .|.. +.+..     ..++|||+|.++++|++||+ +  ++..|+|+.|.|
T Consensus         9 ~~v~v~nLp~~~t~~~l~~~F~~~g----~i~~~~~~~~~~~g~~~G~afV~F~s~~~a~~Al~-~--n~~~i~gr~i~V   81 (103)
T d2cpya1           9 VCAHITNIPFSITKMDVLQFLEGIP----VDENAVHVLVDNNGQGLGQALVQFKNEDDARKSER-L--HRKKLNGREAFV   81 (103)
T ss_dssp             CEEEEESCCTTSCHHHHHHHTTTSC----CCSTTEEECCCTTSSCSSCEEEECSSHHHHHHHGG-G--CSEEETTEEEEE
T ss_pred             eEEEEeCCCCCCCHHHHhhhhcccc----eEEEEEEEEeCCCCCcCccEEEEECCHHHHHHHHh-c--CCCeECCcEEEE
Confidence            4699999999999999999999999    5533 33322     23479999999999999996 7  689999999999


Q ss_pred             EecC
Q psy5142         350 EVVT  353 (410)
Q Consensus       350 ~~l~  353 (410)
                      ..+.
T Consensus        82 ~~~~   85 (103)
T d2cpya1          82 HVVT   85 (103)
T ss_dssp             EEEC
T ss_pred             EECC
Confidence            9876

>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=99.12  E-value=3.3e-11  Score=95.60  Aligned_cols=71  Identities=15%  Similarity=0.220  Sum_probs=60.9

Q ss_pred             CCeEEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCCC-----ceEEEEeCChhHHHHHHHHhcCCCeEEcCeEEE
Q psy5142         274 TGALLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVGE-----PTAFVRYKKENNAEAVLKALGSKEIVIKDVKVS  348 (410)
Q Consensus       274 ~g~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g~-----~~afV~F~~~e~A~~Al~~l~~~~~~i~g~~v~  348 (410)
                      ..+.|||.|||.++++++|+++|++||    .|..+.+....     ++|||+|.+.++|++|++.|  +|..|.|+++.
T Consensus        17 ~~~~lfV~nLp~~~te~~L~~~F~~~G----~i~~~~~~~~~~~~~~g~afV~f~~~~~A~~Ai~~l--ng~~i~gr~~~   90 (101)
T d1x5oa1          17 DPTNLYISNLPLSMDEQELENMLKPFG----QVISTRILRDSSGTSRGVGFARMESTEKCEAVIGHF--NGKFIKTPPGV   90 (101)
T ss_dssp             CTTEEEEESCCTTCCHHHHHHTTTTTS----CEEEEEEEECSSSCEEEEEEEEESCHHHHHHHHHHH--BTCCCCCCTTS
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHhhcc----cccceeeecccccccccceeEEeCCHHHHHHHHHHh--CCCEECCcCCc
Confidence            346899999999999999999999999    99888776542     36999999999999999999  67888887765


Q ss_pred             EE
Q psy5142         349 IE  350 (410)
Q Consensus       349 v~  350 (410)
                      +.
T Consensus        91 v~   92 (101)
T d1x5oa1          91 SA   92 (101)
T ss_dssp             CC
T ss_pred             cC
Confidence            53

>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=99.10  E-value=4.2e-11  Score=96.11  Aligned_cols=74  Identities=14%  Similarity=0.175  Sum_probs=62.0

Q ss_pred             CeEEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCC--CceEEEEeCChhHHHHHHHHhcCCCeEEcCeEEEEEec
Q psy5142         275 GALLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVG--EPTAFVRYKKENNAEAVLKALGSKEIVIKDVKVSIEVV  352 (410)
Q Consensus       275 g~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g--~~~afV~F~~~e~A~~Al~~l~~~~~~i~g~~v~v~~l  352 (410)
                      -..|+|.|||+.+|+++|+++|++||    .|..|.+...  .++|||+|.+.++|+.|+..|++..+..++..|.+...
T Consensus         7 ~~~v~V~NL~~~vte~~L~~~F~~~G----~i~~~~i~~~~~~g~aFV~f~~~e~A~~Ai~~ln~~~l~~~~~~l~v~~s   82 (108)
T d2adba1           7 VLRIIVENLFYPVTLDVLHQIFSKFG----TVLKIITFTKNNQFQALLQYADPVSAQHAKLSLDGQNIYNACCTLRIDFS   82 (108)
T ss_dssp             EEEEESCSCCSTTHHHHHHHHHTTTS----CEEEEEEEEETTEEEEEEEESCHHHHHHHHHHHHSCCSSTTCCCCEEEEC
T ss_pred             eEEEEEeCcCCCCCHHHHHHHHccCC----cEEEEEEEeeCCCCeEEEEECCHHHHHHHHHHHCCCEeccCCcEEEEEec
Confidence            35789999999999999999999999    9988888654  34799999999999999999965444446777777654

>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=99.10  E-value=6.4e-11  Score=94.45  Aligned_cols=74  Identities=8%  Similarity=0.054  Sum_probs=66.4

Q ss_pred             CCeEEEEeCCCCCC-C----HHHHHHHHHhcCCCCCCeeEEEeeCCCceEEEEeCChhHHHHHHHHhcCCCeEEcCeEEE
Q psy5142         274 TGALLKISDIKEPV-S----REDIREVLEKVQTDDQEIVFIEFNVGEPTAFVRYKKENNAEAVLKALGSKEIVIKDVKVS  348 (410)
Q Consensus       274 ~g~~l~v~nL~~~~-t----~edLk~~F~~~G~~~~~V~~V~~~~g~~~afV~F~~~e~A~~Al~~l~~~~~~i~g~~v~  348 (410)
                      ..+.|||.||++++ +    +++|+++|++||    .|..+.+.++...|||.|.+.++|.+|+..|  ++..++|+.|+
T Consensus         4 ~~~~L~v~nl~~~v~~~d~~k~~l~~lF~~~G----~i~~~~~~k~~~~afV~f~~~~~A~~Ai~~l--ng~~~~g~~l~   77 (104)
T d1weya_           4 GSSGLIACVANDDVFSESETRAKFESLFRTYD----KDTTFQYFKSFKRVRINFSNPLSAADARLRL--HKTEFLGKEMK   77 (104)
T ss_dssp             CCCEEEEECCCGGGGSTTTHHHHHHHHHHTTC----SSCEEEEETTTTEEEEECSSTTHHHHHHHTS--TTSEETTEECE
T ss_pred             CCceEEEEeCCchhcCcHHHHHHHHHHhcccc----cceEEEEecCCCEEEEEECCHHHHHHHHHHh--cccccCCCEeE
Confidence            45689999999886 3    367999999999    9999999999999999999999999999999  78999999999


Q ss_pred             EEecC
Q psy5142         349 IEVVT  353 (410)
Q Consensus       349 v~~l~  353 (410)
                      |....
T Consensus        78 v~~a~   82 (104)
T d1weya_          78 LYFAQ   82 (104)
T ss_dssp             EECCC
T ss_pred             Eeecc
Confidence            98764

>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=99.09  E-value=3e-11  Score=95.92  Aligned_cols=63  Identities=21%  Similarity=0.333  Sum_probs=56.0

Q ss_pred             CCeEEEEeC--CCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCCCceEEEEeCChhHHHHHHHHhcCCCeEE
Q psy5142         274 TGALLKISD--IKEPVSREDIREVLEKVQTDDQEIVFIEFNVGEPTAFVRYKKENNAEAVLKALGSKEIVI  342 (410)
Q Consensus       274 ~g~~l~v~n--L~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g~~~afV~F~~~e~A~~Al~~l~~~~~~i  342 (410)
                      +...|+|.|  ||.++|+++|+++|++||    .|..|.+.++.++|||+|.+.++|..|+..|  ++..|
T Consensus        17 pt~~l~V~ng~L~~~vte~~L~~~F~~~G----~i~~i~~~~~k~~aFV~f~~~e~A~~A~~~l--ng~~i   81 (101)
T d2cq2a1          17 ATQSLVVANGGLGNGVSRNQLLPVLEKCG----LVDALLMPPNKPYSFARYRTTEESKRAYVTL--NGKEV   81 (101)
T ss_dssp             CCSEEEEETCTGGGTCCHHHHHHHHHHHS----CEEEEECCTTCSCEEEEESSHHHHHHHHHHT--TTCEE
T ss_pred             CCceEEEECCCCCCCCCHHHHHHHHHhhC----cccEEeeccCccEEEEEECCHHHHHHHHHHh--CCCCC
Confidence            345677755  999999999999999999    9999999999999999999999999999999  45544

>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=99.09  E-value=2.1e-10  Score=91.15  Aligned_cols=73  Identities=11%  Similarity=0.222  Sum_probs=59.7

Q ss_pred             CCCeEEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeC-----C--CceEEEEeCChhHHHHHHHHhcCCCeEEcCe
Q psy5142         273 PTGALLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNV-----G--EPTAFVRYKKENNAEAVLKALGSKEIVIKDV  345 (410)
Q Consensus       273 ~~g~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~-----g--~~~afV~F~~~e~A~~Al~~l~~~~~~i~g~  345 (410)
                      .+.++|||.|||+++++++|+++|++||    . ..+.+..     +  .++|||+|.+.++|++|+. +  ++..|+|+
T Consensus        13 ~p~~~v~V~nLp~~~te~~l~~~f~~~g----~-~~~~~~~~~~~~g~~~g~afV~f~~~e~a~~~~~-~--~~~~~~gr   84 (104)
T d1wi8a_          13 SPPYTAFLGNLPYDVTEESIKEFFRGLN----I-SAVRLPREPSNPERLKGFGYAEFEDLDSLLSALS-L--NEESLGNK   84 (104)
T ss_dssp             SSCEEEEEESCCSSCCHHHHHHHTTTSC----E-EEEECCBCSSCTTSBCSCEEEEESSHHHHHHHHG-G--GTCEETTE
T ss_pred             CCCCEEEEeCCCCcCCHHHHHHHHHHhc----c-ccceeeeeeccCCCcceeeeEEECCHHHHHHHHH-c--CCCEECCE
Confidence            4568999999999999999999999999    3 3444432     1  2479999999999987774 7  57899999


Q ss_pred             EEEEEecC
Q psy5142         346 KVSIEVVT  353 (410)
Q Consensus       346 ~v~v~~l~  353 (410)
                      .|+|....
T Consensus        85 ~l~V~~a~   92 (104)
T d1wi8a_          85 RIRVDVAD   92 (104)
T ss_dssp             ECEEEECC
T ss_pred             EEEEEECC
Confidence            99999865

>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=99.08  E-value=1e-11  Score=99.27  Aligned_cols=66  Identities=14%  Similarity=0.186  Sum_probs=60.1

Q ss_pred             eeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCCccc
Q psy5142         120 QSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLKF  196 (410)
Q Consensus       120 rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~~~  196 (410)
                      ..++|.+++.++++++|+++|++|    |+|.+|+|+++..+     .++|+|||+|.+.++|.+|+..++|  ..|
T Consensus        28 ~~~~v~~~~~~~~ed~l~e~f~k~----G~I~~v~I~~~~~~-----~~~G~~fV~f~~~~~A~~Ai~~lng--~~~   93 (104)
T d1jmta_          28 SDVEMQEHYDEFFEEVFTEMEEKY----GEVEEMNVCDNLGD-----HLVGNVYVKFRREEDAEKAVIDLNN--RWF   93 (104)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHT----CCEEEEEECCSSSS-----SSEEEEEEEESCHHHHHHHHHHHTT--CEE
T ss_pred             chHHhhhhhhhhhHHHHHHHhccC----CCEEEEEeecCCCC-----CEeeEEEEEEechhHHHHHHHHHCC--CEE
Confidence            568899999999999999999999    99999999987655     8899999999999999999999997  455

>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=99.07  E-value=8.5e-11  Score=93.23  Aligned_cols=60  Identities=15%  Similarity=0.174  Sum_probs=54.1

Q ss_pred             cceeeEeec--CCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCC
Q psy5142         118 IAQSLYVKY--IPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKD  191 (410)
Q Consensus       118 ~~rtv~V~~--lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g  191 (410)
                      ..++|||.|  ||.++|+++|+++|++|    |.|..|++.+          .+|||||+|.+.++|.+|+..++|
T Consensus        17 pt~~l~V~ng~L~~~vte~~L~~~F~~~----G~i~~i~~~~----------~k~~aFV~f~~~e~A~~A~~~lng   78 (101)
T d2cq2a1          17 ATQSLVVANGGLGNGVSRNQLLPVLEKC----GLVDALLMPP----------NKPYSFARYRTTEESKRAYVTLNG   78 (101)
T ss_dssp             CCSEEEEETCTGGGTCCHHHHHHHHHHH----SCEEEEECCT----------TCSCEEEEESSHHHHHHHHHHTTT
T ss_pred             CCceEEEECCCCCCCCCHHHHHHHHHhh----CcccEEeecc----------CccEEEEEECCHHHHHHHHHHhCC
Confidence            346888855  99999999999999999    9999998873          478999999999999999999997

>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=99.06  E-value=1.8e-10  Score=91.66  Aligned_cols=74  Identities=18%  Similarity=0.253  Sum_probs=60.2

Q ss_pred             CCCeEEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeE-EEeeCC-----CceEEEEeCChhHHHHHHHHhcCCCeEEcCeE
Q psy5142         273 PTGALLKISDIKEPVSREDIREVLEKVQTDDQEIVF-IEFNVG-----EPTAFVRYKKENNAEAVLKALGSKEIVIKDVK  346 (410)
Q Consensus       273 ~~g~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~-V~~~~g-----~~~afV~F~~~e~A~~Al~~l~~~~~~i~g~~  346 (410)
                      ....+|||.|||+++|+++|+++|+.+|    .|.. |.+...     .++|||+|.++++|++|++ +  ++..|+|+.
T Consensus        13 ~~~~~v~v~nLP~~~te~dI~~~F~~~g----~v~~~v~~~~~~~~~~kG~afV~F~~~e~a~~a~~-~--~~~~i~gR~   85 (104)
T d1wg5a_          13 ANDGFVRLRGLPFGCSKEEIVQFFSGLE----IVPNGMTLPVDFQGRSTGEAFVQFASQEIAEKALK-K--HKERIGHRY   85 (104)
T ss_dssp             SCCCEEEEESCCTTCCHHHHHHHTTTCC----EEEEEEECCBCSSSCBCSEEEEEESSHHHHHHHHT-T--TTCCSSSSC
T ss_pred             CCCcEEEEeCCCCCCCHHHHHHHHHhcC----CceEEEEEEeCCCCCcceEEEEEeCCHHHHHHHHh-h--CCCEEcceE
Confidence            3445799999999999999999999999    6654 333322     2469999999999999996 6  567899999


Q ss_pred             EEEEecC
Q psy5142         347 VSIEVVT  353 (410)
Q Consensus       347 v~v~~l~  353 (410)
                      |.|....
T Consensus        86 i~V~~~~   92 (104)
T d1wg5a_          86 IEIFKSS   92 (104)
T ss_dssp             CEEEEEC
T ss_pred             EEEEECC
Confidence            9998876

>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=99.05  E-value=3e-10  Score=91.69  Aligned_cols=79  Identities=11%  Similarity=0.152  Sum_probs=62.7

Q ss_pred             CCCCeEEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeE----EEeeCCC--ceEEEEeCChhHHHHHHHHhcCCCeEEcCe
Q psy5142         272 LPTGALLKISDIKEPVSREDIREVLEKVQTDDQEIVF----IEFNVGE--PTAFVRYKKENNAEAVLKALGSKEIVIKDV  345 (410)
Q Consensus       272 ~~~g~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~----V~~~~g~--~~afV~F~~~e~A~~Al~~l~~~~~~i~g~  345 (410)
                      ...+++|+|.|||+++|+++|+++|+.||    .|..    ++-..|.  ++|||.|.+.++|++|+. +  ++..|+|+
T Consensus        15 ~~~~~~i~v~nLp~~~t~~di~~~F~~~g----~~~~~~~~~~~~~g~~~G~afVeF~~~e~a~~al~-~--~~~~i~gR   87 (112)
T d1wela1          15 HEAGFCVYLKGLPFEAENKHVIDFFKKLD----IVEDSIYIAYGPNGKATGEGFVEFRNEADYKAALC-R--HKQYMGNR   87 (112)
T ss_dssp             CCCCCEEEEECCCTTCCHHHHHHHSCSSC----BCTTTCEEEECTTSSEEEEEEEEBSSSHHHHHHHT-S--CSBCSTTS
T ss_pred             CCCCeEEEEecCCCcCcHHHHhhHHhhcc----ccccceeeecCcccceeeEEEEEECCHHHHHHHHH-c--CCCcCCCE
Confidence            34567899999999999999999999999    4422    2222232  369999999999999996 7  67899999


Q ss_pred             EEEEEecCchHH
Q psy5142         346 KVSIEVVTGEEE  357 (410)
Q Consensus       346 ~v~v~~l~g~eE  357 (410)
                      .|.|..+.-++.
T Consensus        88 ~i~V~~~~~~~~   99 (112)
T d1wela1          88 FIQVHPITKKGM   99 (112)
T ss_dssp             CBEEEEECHHHH
T ss_pred             EEEEEEcChHHH
Confidence            999998874443

>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=99.03  E-value=1.5e-10  Score=91.77  Aligned_cols=75  Identities=13%  Similarity=0.210  Sum_probs=60.4

Q ss_pred             CCCCCeEEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEee---CC--CceEEEEeCChhHHHHHHHHhcCCCeEEcCe
Q psy5142         271 ELPTGALLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFN---VG--EPTAFVRYKKENNAEAVLKALGSKEIVIKDV  345 (410)
Q Consensus       271 ~~~~g~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~---~g--~~~afV~F~~~e~A~~Al~~l~~~~~~i~g~  345 (410)
                      ..+.+.+|+|.|||+++|+++|+++|..||    .+ .|.+.   .+  .++|||.|.++++|++|++ +  ++..|+|+
T Consensus        11 ~~~~~~~v~v~nLp~~~te~dl~~~F~~~~----~~-~v~~~~~~~g~~~G~afVeF~~~~~a~~Al~-~--~~~~i~gR   82 (102)
T d1weza_          11 QSTTGHCVHMRGLPYRATENDIYNFFSPLN----PM-RVHIEIGPDGRVTGEADVEFATHEDAVAAMA-K--DKANMQHR   82 (102)
T ss_dssp             CCSSSCEEEEESCCTTCCHHHHHHSSCSCC----CS-EEEEEESSSSCEEEEEEEECSSSHHHHHHHT-T--SSCCSSSS
T ss_pred             cCCCCCEEEEeCCCCcCCHHHHHHHHhccC----cc-eeeeEEecCCcceEEEEEEECCHHHHHHHHH-c--CCCEECCE
Confidence            345667899999999999999999999998    33 23333   22  2369999999999999986 6  67899999


Q ss_pred             EEEEEecC
Q psy5142         346 KVSIEVVT  353 (410)
Q Consensus       346 ~v~v~~l~  353 (410)
                      .|.|.+..
T Consensus        83 ~I~V~~s~   90 (102)
T d1weza_          83 YVELFLNS   90 (102)
T ss_dssp             CCEEEEEC
T ss_pred             EEEEEEcC
Confidence            99998754

>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=99.02  E-value=2.1e-10  Score=87.15  Aligned_cols=62  Identities=19%  Similarity=0.135  Sum_probs=52.3

Q ss_pred             ccceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCCccc
Q psy5142         117 LIAQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLKF  196 (410)
Q Consensus       117 ~~~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~~~  196 (410)
                      ++.+.|+|.|||+++|. ++.++|++|    |+|.++++.          ..+|||||+|.++++|++||+ ++|  ..+
T Consensus         2 ~~~~wV~V~G~p~~~~~-~il~~F~~~----G~I~~~~~~----------~~~~~~fV~f~~~~~A~~Al~-~nG--~~~   63 (81)
T d1wwha1           2 LDDTWVTVFGFPQASAS-YILLQFAQY----GNILKHVMS----------NTGNWMHIRYQSKLQARKALS-KDG--RIF   63 (81)
T ss_dssp             GGGGEEEEECCCGGGHH-HHHHHHHTT----SCEEEEEEC----------SSSSEEEEEESSHHHHHHHHT-TTT--CEE
T ss_pred             CcccEEEEECCChHHHH-HHHHHHHhh----hhhheEEec----------CCCCEEEEEEcccHHHHHHHh-cCC--CeE
Confidence            35678999999999885 555689999    999999875          458999999999999999997 675  455

>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=99.00  E-value=6.3e-11  Score=94.50  Aligned_cols=63  Identities=16%  Similarity=0.074  Sum_probs=54.5

Q ss_pred             cceeeEeecCCCCC-C----HHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCC
Q psy5142         118 IAQSLYVKYIPVDA-T----LDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDK  192 (410)
Q Consensus       118 ~~rtv~V~~lp~~~-t----~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~  192 (410)
                      ...+|||+||+.++ +    .++|+++|++|    |.|.++.+.          +.+++|||+|.+.++|.+|+..++| 
T Consensus         4 ~~~~L~v~nl~~~v~~~d~~k~~l~~lF~~~----G~i~~~~~~----------k~~~~afV~f~~~~~A~~Ai~~lng-   68 (104)
T d1weya_           4 GSSGLIACVANDDVFSESETRAKFESLFRTY----DKDTTFQYF----------KSFKRVRINFSNPLSAADARLRLHK-   68 (104)
T ss_dssp             CCCEEEEECCCGGGGSTTTHHHHHHHHHHTT----CSSCEEEEE----------TTTTEEEEECSSTTHHHHHHHTSTT-
T ss_pred             CCceEEEEeCCchhcCcHHHHHHHHHHhccc----ccceEEEEe----------cCCCEEEEEECCHHHHHHHHHHhcc-
Confidence            35789999999874 3    36799999999    999999886          4588999999999999999999997 


Q ss_pred             Cccc
Q psy5142         193 NLKF  196 (410)
Q Consensus       193 ~~~~  196 (410)
                       ..+
T Consensus        69 -~~~   71 (104)
T d1weya_          69 -TEF   71 (104)
T ss_dssp             -SEE
T ss_pred             -ccc
Confidence             455

>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=98.94  E-value=1.2e-09  Score=82.75  Aligned_cols=71  Identities=7%  Similarity=0.083  Sum_probs=61.1

Q ss_pred             eEEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCCCceEEEEeCChhHHHHHHHHhcCCCeEEcCe-EEEEEecCc
Q psy5142         276 ALLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVGEPTAFVRYKKENNAEAVLKALGSKEIVIKDV-KVSIEVVTG  354 (410)
Q Consensus       276 ~~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g~~~afV~F~~~e~A~~Al~~l~~~~~~i~g~-~v~v~~l~g  354 (410)
                      +-|+|.|+|++++++.| .+|++||    +|..+.+.+..++|||+|.++++|++||+ +  ++..++|+ .|.|.....
T Consensus         5 ~wV~V~G~p~~~~~~il-~~F~~~G----~I~~~~~~~~~~~~fV~f~~~~~A~~Al~-~--nG~~~~g~~~vgV~~~~~   76 (81)
T d1wwha1           5 TWVTVFGFPQASASYIL-LQFAQYG----NILKHVMSNTGNWMHIRYQSKLQARKALS-K--DGRIFGESIMIGVKPCID   76 (81)
T ss_dssp             GEEEEECCCGGGHHHHH-HHHHTTS----CEEEEEECSSSSEEEEEESSHHHHHHHHT-T--TTCEETTTEECEEEECCC
T ss_pred             cEEEEECCChHHHHHHH-HHHHhhh----hhheEEecCCCCEEEEEEcccHHHHHHHh-c--CCCeECCcEEEEEEeCCC
Confidence            46899999999987666 5799999    99999999888999999999999999996 7  67899997 457877653

>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=98.86  E-value=3e-10  Score=87.86  Aligned_cols=72  Identities=11%  Similarity=0.260  Sum_probs=57.4

Q ss_pred             EEEEeCCCCCCCHHHHHHHHHhcCCC-CC------CeeEEEeeCCCceEEEEeCChhHHHHHHHHhcCCCeEEcCeEEEE
Q psy5142         277 LLKISDIKEPVSREDIREVLEKVQTD-DQ------EIVFIEFNVGEPTAFVRYKKENNAEAVLKALGSKEIVIKDVKVSI  349 (410)
Q Consensus       277 ~l~v~nL~~~~t~edLk~~F~~~G~~-~~------~V~~V~~~~g~~~afV~F~~~e~A~~Al~~l~~~~~~i~g~~v~v  349 (410)
                      .|||.|||.++++++|+++|++||.. ..      .+...+.....++|||+|.++++|++|+. |  ++..+.|+.|+|
T Consensus         3 rlyVgNLp~~~te~~l~~~F~~~g~~~~~~~~~~~~~~~~~~~~~kg~afV~f~~~e~a~~a~~-l--~g~~~~Gr~l~V   79 (90)
T d1u2fa_           3 RLYVGNIPFGITEEAMMDFFNAQMRLGGLTQAPGNPVLAVQINQDKNFAFLEFRSVDETTQAMA-F--DGIIFQGQSLKI   79 (90)
T ss_dssp             EEEECSCCTTCCTTHHHHHHHHHHTTTTSCCSSSCSEEECCEETTTTEEEEEESSCTTTTTGGG-G--SSCCSSSSCCCC
T ss_pred             EEEEcCCCCccchHHHHHHHHhhCcEEEEEEeccceeeecccCCCceEEEEEeCCHHHHHHHHh-h--CCcEECCEEEEE
Confidence            69999999999999999999999811 11      12223344556789999999999999985 8  688999999988


Q ss_pred             Ee
Q psy5142         350 EV  351 (410)
Q Consensus       350 ~~  351 (410)
                      +.
T Consensus        80 ~r   81 (90)
T d1u2fa_          80 RR   81 (90)
T ss_dssp             BC
T ss_pred             CC
Confidence            64

>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=98.83  E-value=1.4e-09  Score=85.62  Aligned_cols=66  Identities=18%  Similarity=0.248  Sum_probs=55.3

Q ss_pred             ccceeeEeecC--CCCC---------CHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHH
Q psy5142         117 LIAQSLYVKYI--PVDA---------TLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKF  185 (410)
Q Consensus       117 ~~~rtv~V~~l--p~~~---------t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~A  185 (410)
                      ...++|+|+|+  |.++         ..++|++.|++|    |.|..|.++.+        ..+|+|||+|.++++|.+|
T Consensus         6 ~~~r~v~l~nmf~~~~~~~~~~~~~~i~edv~~~~~~~----G~V~~v~~~~~--------~~~G~~fV~f~~~e~A~~A   73 (99)
T d2dita1           6 RHERVVIIKNMFHPMDFEDDPLVLNEIREDLRVECSKF----GQIRKLLLFDR--------HPDGVASVSFRDPEEADYC   73 (99)
T ss_dssp             CSCCEEEEESSCCTTHHHHCSHHHHHHHHHHHHHGGGT----SCCSEEEEETT--------CTTCEEEEECSCHHHHHHH
T ss_pred             CCccEEEEccCCCHHHhhcchHHHHHHHHHHHHHhcCc----ccEEEEeccCC--------CCccEEEEEECCHHHHHHH
Confidence            45799999998  6542         236899999999    99999988653        4579999999999999999


Q ss_pred             HHhcCCCCccc
Q psy5142         186 LNENKDKNLKF  196 (410)
Q Consensus       186 l~~~~g~~~~~  196 (410)
                      +..++|  ..|
T Consensus        74 ~~~lng--~~~   82 (99)
T d2dita1          74 IQTLDG--RWF   82 (99)
T ss_dssp             HHHSTT--CEE
T ss_pred             HHHhCC--cEE
Confidence            999997  456

>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=98.75  E-value=1.3e-08  Score=80.04  Aligned_cols=76  Identities=16%  Similarity=0.192  Sum_probs=64.3

Q ss_pred             CCeEEEEeCC--CCCC---------CHHHHHHHHHhcCCCCCCeeEEEeeCCC--ceEEEEeCChhHHHHHHHHhcCCCe
Q psy5142         274 TGALLKISDI--KEPV---------SREDIREVLEKVQTDDQEIVFIEFNVGE--PTAFVRYKKENNAEAVLKALGSKEI  340 (410)
Q Consensus       274 ~g~~l~v~nL--~~~~---------t~edLk~~F~~~G~~~~~V~~V~~~~g~--~~afV~F~~~e~A~~Al~~l~~~~~  340 (410)
                      ...+|+|.|+  |.++         -.++|++.|++||    .|..|.+..+.  +.|||+|.++++|.+|+..|  ++.
T Consensus         7 ~~r~v~l~nmf~~~~~~~~~~~~~~i~edv~~~~~~~G----~V~~v~~~~~~~~G~~fV~f~~~e~A~~A~~~l--ng~   80 (99)
T d2dita1           7 HERVVIIKNMFHPMDFEDDPLVLNEIREDLRVECSKFG----QIRKLLLFDRHPDGVASVSFRDPEEADYCIQTL--DGR   80 (99)
T ss_dssp             SCCEEEEESSCCTTHHHHCSHHHHHHHHHHHHHGGGTS----CCSEEEEETTCTTCEEEEECSCHHHHHHHHHHS--TTC
T ss_pred             CccEEEEccCCCHHHhhcchHHHHHHHHHHHHHhcCcc----cEEEEeccCCCCccEEEEEECCHHHHHHHHHHh--CCc
Confidence            3458999997  5543         2378999999999    99998887654  57999999999999999999  789


Q ss_pred             EEcCeEEEEEecCch
Q psy5142         341 VIKDVKVSIEVVTGE  355 (410)
Q Consensus       341 ~i~g~~v~v~~l~g~  355 (410)
                      .++|+.|.+....|.
T Consensus        81 ~~~gr~i~v~~~~g~   95 (99)
T d2dita1          81 WFGGRQITAQAWDGT   95 (99)
T ss_dssp             EETTEECEEEECCSC
T ss_pred             EECCEEEEEEEeCCc
Confidence            999999999988764

>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=98.69  E-value=7.1e-09  Score=82.21  Aligned_cols=70  Identities=21%  Similarity=0.289  Sum_probs=56.1

Q ss_pred             ceeeEeecC--CCCC--------CHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHh
Q psy5142         119 AQSLYVKYI--PVDA--------TLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNE  188 (410)
Q Consensus       119 ~rtv~V~~l--p~~~--------t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~  188 (410)
                      .++|.+.|+  |.+.        ..++|++.|++|    |.|.+|.|+++..+.  .....|++||+|.+.++|.+|+..
T Consensus         4 s~vl~l~N~~~~~~l~~~~~~~~i~edi~~e~~k~----G~v~~v~I~~~~~~~--~~~~~g~vfV~f~~~e~A~~A~~~   77 (104)
T d1o0pa_           4 TEVLCLMNMVLPEELLDDEEYEEIVEDVRDECSKY----GLVKSIEIPRPVDGV--EVPGCGKIFVEFTSVFDCQKAMQG   77 (104)
T ss_dssp             CSEEEEESSCCTTTTTSHHHHHHHHHHHHHHHTTT----SCEEEEECCCCTTSS--SCTTCCEEEEEESCHHHHHHHHHH
T ss_pred             CcEEEEeCCCCHHHcCCchhHHHHHHHHHHHhccc----CceEEEEEeecCCCC--ccCCceEEEEEECCHHHHHHHHHH
Confidence            467888888  5443        356799999999    999999998876541  013569999999999999999999


Q ss_pred             cCCCCccc
Q psy5142         189 NKDKNLKF  196 (410)
Q Consensus       189 ~~g~~~~~  196 (410)
                      ++|  ..|
T Consensus        78 l~G--r~f   83 (104)
T d1o0pa_          78 LTG--RKF   83 (104)
T ss_dssp             HSS--CCS
T ss_pred             HCC--CEE
Confidence            997  456

>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=98.64  E-value=3e-09  Score=84.47  Aligned_cols=68  Identities=16%  Similarity=0.249  Sum_probs=59.1

Q ss_pred             EEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCCC-----ceEEEEeCChhHHHHHHHHhcCCCeEEcCeEEEEEe
Q psy5142         278 LKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVGE-----PTAFVRYKKENNAEAVLKALGSKEIVIKDVKVSIEV  351 (410)
Q Consensus       278 l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g~-----~~afV~F~~~e~A~~Al~~l~~~~~~i~g~~v~v~~  351 (410)
                      ++|.+++..+++++|+++|++||    .|..|.+.+..     +.|||+|.+.++|.+|+..|  ++..++|+.|.++.
T Consensus        30 ~~v~~~~~~~~ed~l~e~f~k~G----~I~~v~I~~~~~~~~~G~~fV~f~~~~~A~~Ai~~l--ng~~~~gr~i~v~~  102 (104)
T d1jmta_          30 VEMQEHYDEFFEEVFTEMEEKYG----EVEEMNVCDNLGDHLVGNVYVKFRREEDAEKAVIDL--NNRWFNGQPIHAEL  102 (104)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHTC----CEEEEEECCSSSSSSEEEEEEEESCHHHHHHHHHHH--TTCEETTEECCEEE
T ss_pred             HHhhhhhhhhhHHHHHHHhccCC----CEEEEEeecCCCCCEeeEEEEEEechhHHHHHHHHH--CCCEECCEEEEEEE
Confidence            44566777888999999999999    99999987542     45999999999999999999  78999999998875

>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=98.55  E-value=3.4e-08  Score=78.13  Aligned_cols=74  Identities=16%  Similarity=0.183  Sum_probs=62.1

Q ss_pred             CCeEEEEeCC--CCCC--------CHHHHHHHHHhcCCCCCCeeEEEeeCC--------CceEEEEeCChhHHHHHHHHh
Q psy5142         274 TGALLKISDI--KEPV--------SREDIREVLEKVQTDDQEIVFIEFNVG--------EPTAFVRYKKENNAEAVLKAL  335 (410)
Q Consensus       274 ~g~~l~v~nL--~~~~--------t~edLk~~F~~~G~~~~~V~~V~~~~g--------~~~afV~F~~~e~A~~Al~~l  335 (410)
                      |-.+|.|.|+  |.++        ..+||++.|++||    .|..|.+++.        .+.+||+|.+.++|.+|+..|
T Consensus         3 Ps~vl~l~N~~~~~~l~~~~~~~~i~edi~~e~~k~G----~v~~v~I~~~~~~~~~~~~g~vfV~f~~~e~A~~A~~~l   78 (104)
T d1o0pa_           3 PTEVLCLMNMVLPEELLDDEEYEEIVEDVRDECSKYG----LVKSIEIPRPVDGVEVPGCGKIFVEFTSVFDCQKAMQGL   78 (104)
T ss_dssp             CCSEEEEESSCCTTTTTSHHHHHHHHHHHHHHHTTTS----CEEEEECCCCTTSSSCTTCCEEEEEESCHHHHHHHHHHH
T ss_pred             CCcEEEEeCCCCHHHcCCchhHHHHHHHHHHHhcccC----ceEEEEEeecCCCCccCCceEEEEEECCHHHHHHHHHHH
Confidence            4457889997  5443        2468999999999    9999988642        246999999999999999999


Q ss_pred             cCCCeEEcCeEEEEEecC
Q psy5142         336 GSKEIVIKDVKVSIEVVT  353 (410)
Q Consensus       336 ~~~~~~i~g~~v~v~~l~  353 (410)
                        +|..++|+.|.+....
T Consensus        79 --~Gr~f~gR~v~v~f~~   94 (104)
T d1o0pa_          79 --TGRKFANRVVVTKYCD   94 (104)
T ss_dssp             --SSCCSSSSCCEEEEEC
T ss_pred             --CCCEECCeEEEEEEcC
Confidence              7899999999999886

>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=96.51  E-value=0.0038  Score=46.87  Aligned_cols=56  Identities=16%  Similarity=0.360  Sum_probs=50.3

Q ss_pred             EEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCCCc--------eEEEEeCChhHHHHHHHHhc
Q psy5142         277 LLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVGEP--------TAFVRYKKENNAEAVLKALG  336 (410)
Q Consensus       277 ~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g~~--------~afV~F~~~e~A~~Al~~l~  336 (410)
                      -|.|+.||+..|++++.+.++..|    .+.|..+.+|+.        .|||.|.+.++.....+.++
T Consensus         3 KvVvRrLPP~Lte~~F~~~l~~~~----~~d~~~f~~Gk~s~~~~~~SRAYi~F~~~~~v~~F~~~f~   66 (91)
T d1uw4a_           3 KVVIRRLPPTLTKEQLQEHLQPMP----EHDYFEFFSNDTSLYPHMYARAYINFKNQEDIILFRDRFD   66 (91)
T ss_dssp             EEEEEEECTTCCHHHHHHHHCSCC----CEEEEEEEESCCSSTTCCCEEEEEEESSSHHHHHHHHHHT
T ss_pred             eEEEecCCCCCCHHHHHHHhCCcC----ceEEEEEeCCCcCCCCCcceEEEEEeCCHHHHHHHHHHcC
Confidence            477999999999999999999999    999999988764        39999999999999999994

>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=96.34  E-value=0.015  Score=41.01  Aligned_cols=60  Identities=17%  Similarity=0.283  Sum_probs=52.3

Q ss_pred             HHHHHHHHHhcCCCCCCeeEEEeeCC---CceEEEEeCChhHHHHHHHHhcCCCeEEcCeEEEEEecCc
Q psy5142         289 REDIREVLEKVQTDDQEIVFIEFNVG---EPTAFVRYKKENNAEAVLKALGSKEIVIKDVKVSIEVVTG  354 (410)
Q Consensus       289 ~edLk~~F~~~G~~~~~V~~V~~~~g---~~~afV~F~~~e~A~~Al~~l~~~~~~i~g~~v~v~~l~g  354 (410)
                      ++.|...|++++    .|..|.+.+-   .-.|-|...+..+|.-|+..+  +-..|+++.|.|++.+|
T Consensus        10 qq~L~~~f~~h~----~V~sv~l~~~~dg~~~A~V~v~~~q~A~~~v~~L--hR~KiG~KRI~Vs~~~~   72 (73)
T d2dgxa1          10 QQLLQEAFARHG----KVKSVELSPHTDYQLKAVVQMENLQDAIGAVNSL--HRYKIGSKKILVSLATG   72 (73)
T ss_dssp             HHHHHHHHHHHS----CEEEEEECSCCSTTCCEEEEESSHHHHHHHHHHH--TTEEETTEEEEEEECCC
T ss_pred             HHHHHHHHHhhe----eEEEEEEEeccCCcEEEEEEcCCHHHHHHHHHHH--HHHhcCCeEEEEEEecC
Confidence            455667899999    9999998753   335999999999999999999  78999999999999887

>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=95.93  E-value=0.018  Score=42.61  Aligned_cols=55  Identities=22%  Similarity=0.326  Sum_probs=47.2

Q ss_pred             HHHHHHHHHhcCCCCCCeeEEEeeCCCceEEEEeCChhHHHHHHHHhcCCCeEEcCeEEEEEec
Q psy5142         289 REDIREVLEKVQTDDQEIVFIEFNVGEPTAFVRYKKENNAEAVLKALGSKEIVIKDVKVSIEVV  352 (410)
Q Consensus       289 ~edLk~~F~~~G~~~~~V~~V~~~~g~~~afV~F~~~e~A~~Al~~l~~~~~~i~g~~v~v~~l  352 (410)
                      ..+|-+.|..||    +|.-|+|..  ..-+|.|.+-++|-+|+..   ++++++|+.|++...
T Consensus        38 ~~~Llq~l~~~G----eViLvRFv~--d~mwVTF~dG~SAL~al~l---~g~~v~G~~l~It~~   92 (95)
T d1ufwa_          38 RTELMQTLGSYG----TIVLVRINQ--GQMLVTFADSHSALSVLDV---DGMKVKGRAVKISGP   92 (95)
T ss_dssp             HHHHHHHHHHHS----CCSEEEEET--TEEEEECSCSHHHHHHHHG---GGSEETTEEEEEECC
T ss_pred             HHHHHHHHhhCC----eEEEEEEeC--CeEEEEECCcHHHHHHhcc---CCeEEcceEEEEecC
Confidence            356778899999    999999987  6799999999998888876   589999999999864

>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=95.60  E-value=0.017  Score=43.16  Aligned_cols=69  Identities=12%  Similarity=0.240  Sum_probs=54.5

Q ss_pred             eeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcCCCCccc
Q psy5142         120 QSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENKDKNLKF  196 (410)
Q Consensus       120 rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~g~~~~~  196 (410)
                      ..|.|+.||+..|++++.+.++..    |++........+.+..+  ..-.-|||.|.+.+++....+..+|  ..|
T Consensus         2 tKvVvRrLPP~Lte~~F~~~l~~~----~~~d~~~f~~Gk~s~~~--~~~SRAYi~F~~~~~v~~F~~~f~g--~~F   70 (91)
T d1uw4a_           2 SKVVIRRLPPTLTKEQLQEHLQPM----PEHDYFEFFSNDTSLYP--HMYARAYINFKNQEDIILFRDRFDG--YVF   70 (91)
T ss_dssp             CEEEEEEECTTCCHHHHHHHHCSC----CCEEEEEEEESCCSSTT--CCCEEEEEEESSSHHHHHHHHHHTT--CEE
T ss_pred             ceEEEecCCCCCCHHHHHHHhCCc----CceEEEEEeCCCcCCCC--CcceEEEEEeCCHHHHHHHHHHcCC--cEE
Confidence            368999999999999999999999    99888776654433110  1234599999999999999999987  455

>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=94.25  E-value=0.055  Score=40.58  Aligned_cols=53  Identities=11%  Similarity=0.239  Sum_probs=45.0

Q ss_pred             EEEEeCCCCCCCHHHHHHHHHhcCCCCCCeeEEEeeCCCceEEEEeCChhHHHHHHHHh
Q psy5142         277 LLKISDIKEPVSREDIREVLEKVQTDDQEIVFIEFNVGEPTAFVRYKKENNAEAVLKAL  335 (410)
Q Consensus       277 ~l~v~nL~~~~t~edLk~~F~~~G~~~~~V~~V~~~~g~~~afV~F~~~e~A~~Al~~l  335 (410)
                      -||....|.....-||.++|+.||  .+.|.+|    +++.|||-..+.++|+.++..+
T Consensus        17 HVf~~tFP~~Wk~~dI~~lFSpfG--~V~VswI----ddTSa~V~L~~~e~~~~v~~~~   69 (100)
T d1whva_          17 HVLHVTFPKEWKTSDLYQLFSAFG--NIQISWI----DDTSAFVSLSQPEQVQIAVNTS   69 (100)
T ss_dssp             SEEEEECCTTCCHHHHHHHHTTTC--SCCCEEE----ETTEEEEECSCHHHHHHHHHHH
T ss_pred             eeEEEeCCcccchhHHHHHhcCCC--ceEEEEe----cCceEEEEecCHHHHHHHHHHh
Confidence            466677899999999999999998  3466777    4578999999999999998877

>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=89.55  E-value=0.38  Score=35.82  Aligned_cols=56  Identities=18%  Similarity=0.210  Sum_probs=45.8

Q ss_pred             ceeeEeecCCCCCCHHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcC
Q psy5142         119 AQSLYVKYIPVDATLDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENK  190 (410)
Q Consensus       119 ~rtv~V~~lp~~~t~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~  190 (410)
                      ..-||.-.||......||.++|++|    |.|.---|  +          --.|||.....++|+.++....
T Consensus        15 RdHVf~~tFP~~Wk~~dI~~lFSpf----G~V~VswI--d----------dTSa~V~L~~~e~~~~v~~~~~   70 (100)
T d1whva_          15 RDHVLHVTFPKEWKTSDLYQLFSAF----GNIQISWI--D----------DTSAFVSLSQPEQVQIAVNTSK   70 (100)
T ss_dssp             CCSEEEEECCTTCCHHHHHHHHTTT----CSCCCEEE--E----------TTEEEEECSCHHHHHHHHHHHH
T ss_pred             cceeEEEeCCcccchhHHHHHhcCC----CceEEEEe--c----------CceEEEEecCHHHHHHHHHHhc
Confidence            4579999999999999999999999    98753222  1          2259999999999999887654

>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=85.57  E-value=0.45  Score=34.88  Aligned_cols=42  Identities=17%  Similarity=0.285  Sum_probs=35.8

Q ss_pred             HHHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcC
Q psy5142         133 LDDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENK  190 (410)
Q Consensus       133 ~~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~  190 (410)
                      .++|.+-|.+|    |+|.-||+.            .+...|+|.+-.+|-+|+....
T Consensus        38 ~~~Llq~l~~~----GeViLvRFv------------~d~mwVTF~dG~SAL~al~l~g   79 (95)
T d1ufwa_          38 RTELMQTLGSY----GTIVLVRIN------------QGQMLVTFADSHSALSVLDVDG   79 (95)
T ss_dssp             HHHHHHHHHHH----SCCSEEEEE------------TTEEEEECSCSHHHHHHHHGGG
T ss_pred             HHHHHHHHhhC----CeEEEEEEe------------CCeEEEEECCcHHHHHHhccCC
Confidence            57888999999    999988875            3458899999999999998755

>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=80.32  E-value=2.3  Score=29.45  Aligned_cols=46  Identities=15%  Similarity=0.257  Sum_probs=38.6

Q ss_pred             HHHHHHHhhccCCCCceEEEEEcccCcccccccccccEEEEEecCHHHHHHHHHhcC
Q psy5142         134 DDIKDFFKKNTSEDVKITNIIMRNYQDKLANQKKFKGSIFVTFDNKENAEKFLNENK  190 (410)
Q Consensus       134 ~~L~~~F~~~~~~~G~I~~v~l~~~~~~~~~~~~~kG~afVeF~~~e~A~~Al~~~~  190 (410)
                      +-|.+.|+++    |.|.+|.+....+       +.-.|-|...+..+|.-|+..++
T Consensus        11 q~L~~~f~~h----~~V~sv~l~~~~d-------g~~~A~V~v~~~q~A~~~v~~Lh   56 (73)
T d2dgxa1          11 QLLQEAFARH----GKVKSVELSPHTD-------YQLKAVVQMENLQDAIGAVNSLH   56 (73)
T ss_dssp             HHHHHHHHHH----SCEEEEEECSCCS-------TTCCEEEEESSHHHHHHHHHHHT
T ss_pred             HHHHHHHHhh----eeEEEEEEEeccC-------CcEEEEEEcCCHHHHHHHHHHHH
Confidence            4566889999    9999999876544       35569999999999999999998