Psyllid ID: psy3854

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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--
Protein Sequence
MTEDAGSSNESSPAEEPGKYVLKPKDNTENSKKYKKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDCRKRSKHYDFIWNFKYLPRFKWIHLNERLAYEKQAHRQKLRAEIAEAKREALYFSNNLDVADRIQKKNGKKKTNVPEQSSNKKNDGKGKQIVKKSNTKPVEDRKQFLTSLFS
Secondary Structure (PSIPRED)
cccccccccccccccccccccccccccccccccccccEEEEccccccccHHHHHHHHHccccccEEEEEcccccccccccccccccEEEEEccHHHHHHHHHHHcccccccccccccccccccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccccccccccccccccHHcccccccccccHHHHHHHccc
Secondary Structure Prediction (SSPRO)
cccccccccccccccccccccccccccHHHHHcccccEEEEEcccccccHHHHHHHHHHcccccEEEEcccHccccccccccEEEccEEEEccHHHHHHHHHHHcccccccccccccHHHHHHHHHcccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccccccccccccEEEcccccccHHHHHHHHHHHcc
Coil and Loop (DISEMBL)
mtedagssnesspaeepgkyvlkpkdntenskkykKGIIylskvpphmnvtQLTEFMSRFGEvgrvylmpkkrkpgekkpakqFTEGWIEFLKKKVAKQVAAQYNNtqidcrkrskhydfiwnfkylprfkwihLNERLAYEKQAHRQKLRAEIAEAKREALYFSNNLDVADRIQkkngkkktnvpeqssnkkndgkgkqivkksntkpvedrKQFLTSLFS
Flexible Loop (DISEMBL)
mtedagssnesspaeepgkyvlkpkdntenskkYKKGIiylskvpphmnvTQLTEFMSRFGEVGRVYlmpkkrkpgekkpakqFTEGWIEFLKKKVAKQVAAQynntqidcrkrskHYDFIWNFKYLPRFKWIHLNERLAYEKQAHRQKLRAEIAEAKREalyfsnnldvadriqkkngkkktnvpeqssnkkndgkgkqivkksntkpvedrkqfltslfs
Low Complexity Region (SEG)
MTEDAGSSNESSPAEEPGKYVLKPKDNTENSKKYKKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMpkkrkpgekkpakQFTEGWIEFLkkkvakqvaaqYNNTQIDCRKRSKHYDFIWNFKYLPRFKWIHLNERLAYEKQAHRQKLRAEIAEAKREALYFSNNLDVADRIQKKNGKKKTNVPEQSSNKKNDGKGKQIVKKSNTKPVEDRKQFLTSLFS
Disordered region (IsUnstruct)
**********************************KKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLM**************FTEGWIEFLKKKVAKQVAAQYNNTQIDCRKRSKHYDFIWNFKYLPRFKWIHLNERLAYEKQAHRQKLRAEIAEAKREALYFSNNLD*****************************************************
Disordered Region (DISOPRED)
**************************************IYLSKVPPHMNVTQLTEFMSRFGEVGRV*******************EGWIEFLKKKVAKQVAAQYNNTQIDCRKRSKHYDFIWNFKYLPRFKWIHLNER******************************************************************************LTSLFS
Disordered Region (DISEMBL)
*****************GKYVLKPKDNTENSKKYKKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKK**********QFTEGWIEFLKKKVAKQVAAQYNNTQIDCRKRSKHYDFIWNFKYLPRFKWIHLNERLAYEKQAHRQKLRAEIAEAKREALYFSNNLDVADRIQK************************IVKKSNTKPVEDRKQFLTSLFS
Disordered Region (DISPRO)
*************************DNT****KYKKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDCRKRSKHYDFIWNFKYLPRFKWIHLNERLAYEKQAHRQKLRAEIAEAKREALYFSNNLDVADRIQKKNGKKK****************KQIV********ED**QFLTSLFS
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Signal Peptide (SignalP NN Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Coiled Coils (COILS)
MTEDAGSSNESSPAEEPGKYVLKPKDNTENSKKYKKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDCRKRSKHYDFIWNFKYLPRFKWIHLNERLxxxxxxxxxxxxxxxxxxxxxxxxxxxxLDVADRIQKKNGKKKTNVPEQSSNKKNDGKGKQIVKKSNTKPVEDRKQFLTSLFS
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	222	2.2.26 [Sep-21-2011]
Q4KLM5	268	Activator of basal transc	yes	N/A	0.666	0.552	0.409	1e-28
Q5R9Y3	272	Activator of basal transc	yes	N/A	0.666	0.544	0.381	2e-28
Q9ULW3	272	Activator of basal transc	yes	N/A	0.666	0.544	0.381	3e-28
O74362	334	Pre-rRNA-processing prote	yes	N/A	0.725	0.482	0.385	5e-28
Q9QYL7	269	Activator of basal transc	yes	N/A	0.644	0.531	0.416	1e-27
Q148M8	275	Activator of basal transc	yes	N/A	0.666	0.538	0.374	2e-27
Q0UM32	326	Pre-rRNA-processing prote	N/A	N/A	0.801	0.546	0.362	6e-26
P0CL96	266	Pre-rRNA-processing prote	yes	N/A	0.824	0.687	0.326	6e-26
P0CL97	266	Pre-rRNA-processing prote	N/A	N/A	0.824	0.687	0.326	6e-26
Q2GZQ4	332	Pre-rRNA-processing prote	N/A	N/A	0.905	0.605	0.348	9e-26

>sp|Q4KLM5|ABT1_RAT Activator of basal transcription 1 OS=Rattus norvegicus GN=Abt1 PE=1 SV=1

 Score =  126 bits (316), Expect = 1e-28,   Method: Compositional matrix adjust.
 Identities = 66/161 (40%), Positives = 93/161 (57%), Gaps = 13/161 (8%)

Query: 32  KKYKKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLM---PKKRKPGEKKP-------- 80
           KK   GI+YL  VPP      +   +S +GEVGRV+     P  R+  +           
Sbjct: 42  KKVVPGIVYLGHVPPRFRPLHVRNLLSVYGEVGRVFFQAEDPFVRRKKKAAAAAGGKKGA 101

Query: 81  --AKQFTEGWIEFLKKKVAKQVAAQYNNTQIDCRKRSKHYDFIWNFKYLPRFKWIHLNER 138
             +K +TEGW+EF  K++AK+VAA  +NT +  RKRS     +WN KYL RF W HL+E 
Sbjct: 102 KYSKDYTEGWVEFRDKRIAKRVAASLHNTPMGARKRSPFRYDLWNLKYLHRFTWSHLSEH 161

Query: 139 LAYEKQAHRQKLRAEIAEAKREALYFSNNLDVADRIQKKNG 179
           LA+E+Q  RQ+LRAE+A+AKRE  ++  N++   R    +G
Sbjct: 162 LAFERQVRRQRLRAEVAQAKRETDFYLRNVEQGQRFLAADG 202

May be a novel TATA-binding protein (TBP) which can function as a basal transcription activator. Can act as a regulator of basal transcription for class II genes.
Rattus norvegicus (taxid: 10116)

>sp|Q5R9Y3|ABT1_PONAB Activator of basal transcription 1 OS=Pongo abelii GN=ABT1 PE=2 SV=1

 Score =  125 bits (314), Expect = 2e-28,   Method: Compositional matrix adjust.
 Identities = 61/160 (38%), Positives = 93/160 (58%), Gaps = 12/160 (7%)

Query: 32  KKYKKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKR------------KPGEKK 79
           K+   GI+YL  +PP      +   +S +GEVGRV+   + R               ++ 
Sbjct: 41  KRVVPGIVYLGHIPPRFRPLHVRNLLSAYGEVGRVFFQAEDRFVRRKKKAAAAAGGKKRS 100

Query: 80  PAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDCRKRSKHYDFIWNFKYLPRFKWIHLNERL 139
            +K +TEGW+EF  K++AK+VAA  +NT +  R+RS     +WN KYL RF W HL+E L
Sbjct: 101 YSKDYTEGWVEFRDKRIAKRVAASLHNTPMGARRRSPFRYDLWNLKYLHRFTWSHLSEHL 160

Query: 140 AYEKQAHRQKLRAEIAEAKREALYFSNNLDVADRIQKKNG 179
           A+E+Q  RQ+LRAE+A+AKRE  ++  +++   R    +G
Sbjct: 161 AFERQVRRQRLRAEVAQAKRETDFYLQSVERGQRFLAADG 200

Coud be a novel TATA-binding protein (TBP) which can function as a basal transcription activator. Can act as a regulator of basal transcription for class II genes.

Pongo abelii (taxid: 9601)

>sp|Q9ULW3|ABT1_HUMAN Activator of basal transcription 1 OS=Homo sapiens GN=ABT1 PE=1 SV=1

 Score =  125 bits (313), Expect = 3e-28,   Method: Compositional matrix adjust.
 Identities = 61/160 (38%), Positives = 92/160 (57%), Gaps = 12/160 (7%)

Query: 32  KKYKKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKR------------KPGEKK 79
           K+   GI+YL  +PP      +   +S +GEVGRV+   + R               ++ 
Sbjct: 41  KRVVPGIVYLGHIPPRFRPLHVRNLLSAYGEVGRVFFQAEDRFVRRKKKAAAAAGGKKRS 100

Query: 80  PAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDCRKRSKHYDFIWNFKYLPRFKWIHLNERL 139
             K +TEGW+EF  K++AK+VAA  +NT +  R+RS     +WN KYL RF W HL+E L
Sbjct: 101 YTKDYTEGWVEFRDKRIAKRVAASLHNTPMGARRRSPFRYDLWNLKYLHRFTWSHLSEHL 160

Query: 140 AYEKQAHRQKLRAEIAEAKREALYFSNNLDVADRIQKKNG 179
           A+E+Q  RQ+LRAE+A+AKRE  ++  +++   R    +G
Sbjct: 161 AFERQVRRQRLRAEVAQAKRETDFYLQSVERGQRFLAADG 200

Could be a novel TATA-binding protein (TBP) which can function as a basal transcription activator. Can act as a regulator of basal transcription for class II genes.

Homo sapiens (taxid: 9606)

>sp|O74362|ESF2_SCHPO Pre-rRNA-processing protein esf2 OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN=esf2 PE=1 SV=1

 Score =  124 bits (311), Expect = 5e-28,   Method: Compositional matrix adjust.
 Identities = 69/179 (38%), Positives = 107/179 (59%), Gaps = 18/179 (10%)

Query: 35  KKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKK--------RKPGEKKPAKQFTE 86
           + G+IYLS++PP+M   +L + +S++G++GRVYL P+         R  G K+    + E
Sbjct: 120 RSGVIYLSRIPPYMAPNKLRQILSQYGKIGRVYLTPESSAKRAQRLRNGGNKRVM--YEE 177

Query: 87  GWIEFLKKKVAKQVAAQYNNTQIDCRKRSKHYDFIWNFKYLPRFKWIHLNERLAYEKQAH 146
           GWIEF  K+VAK VA   N  QI  +K S ++D IWN KYLP+FKW HL E++A E  A 
Sbjct: 178 GWIEFESKRVAKSVAELLNTNQIGGKKSSWYHDDIWNMKYLPKFKWHHLTEQIAAENAAR 237

Query: 147 RQKLRAEIAEAKREALYFSNNLDVA---DRIQKKNGKKKT-NV----PEQSSNKKNDGK 197
             +L+ EI + +++   +  N++ A   + I+KK  ++ T NV    PE++ +   D K
Sbjct: 238 ESRLKVEIEQGRKQLKQYMRNVENAKMIEGIRKKRSERDTLNVSTEFPEETKDLSEDTK 296

Involved in the small subunit (SSU) processome assembly and function, and in the 18S rRNA synthesis. Required for the early cleavages at sites A0, A1 and A2.

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

>sp|Q9QYL7|ABT1_MOUSE Activator of basal transcription 1 OS=Mus musculus GN=Abt1 PE=2 SV=1

 Score =  122 bits (307), Expect = 1e-27,   Method: Compositional matrix adjust.
 Identities = 65/156 (41%), Positives = 90/156 (57%), Gaps = 13/156 (8%)

Query: 37  GIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPK----KRKPGEKKP---------AKQ 83
           GI+YL  VPP      +   +S +GEVGRV+   +    KRK               +K 
Sbjct: 48  GIVYLGHVPPRFRPLHVRNLLSAYGEVGRVFFQAEDHFVKRKKKAAAAAGGKKGAKYSKD 107

Query: 84  FTEGWIEFLKKKVAKQVAAQYNNTQIDCRKRSKHYDFIWNFKYLPRFKWIHLNERLAYEK 143
           +TEGW+EF  K+VAK+VAA  +NT +  RKRS     +WN KYL RF W HL+E LA+E+
Sbjct: 108 YTEGWVEFRDKRVAKRVAASLHNTPMGARKRSPFRYDLWNLKYLHRFTWSHLSEHLAFER 167

Query: 144 QAHRQKLRAEIAEAKREALYFSNNLDVADRIQKKNG 179
           Q  RQ+LRAE+A+AKRE  ++  N++        +G
Sbjct: 168 QVRRQRLRAEVAQAKRETDFYLRNVEQGQHFLAADG 203

Could be a novel TATA-binding protein (TBP) which can function as a basal transcription activator. Can act as a regulator of basal transcription for class II genes.

Mus musculus (taxid: 10090)

>sp|Q148M8|ABT1_BOVIN Activator of basal transcription 1 OS=Bos taurus GN=ABT1 PE=2 SV=1

 Score =  122 bits (305), Expect = 2e-27,   Method: Compositional matrix adjust.
 Identities = 61/163 (37%), Positives = 90/163 (55%), Gaps = 15/163 (9%)

Query: 32  KKYKKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPK---------------KRKPG 76
           K+   GI+YL  +PP      +   +S +GEVGRV+   +                    
Sbjct: 41  KRVVPGIVYLGHIPPRFRPLHVRNLLSAYGEVGRVFFQAEDGFVKRKKKAAAASAAGGKK 100

Query: 77  EKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDCRKRSKHYDFIWNFKYLPRFKWIHLN 136
             K +K +TEGW+EF  K+VAK+VA   +NT +  R+RS     +WN KYL RF W HL+
Sbjct: 101 RSKYSKDYTEGWVEFRDKRVAKRVAVSLHNTPMGSRRRSPFRYDLWNLKYLHRFTWSHLS 160

Query: 137 ERLAYEKQAHRQKLRAEIAEAKREALYFSNNLDVADRIQKKNG 179
           E LA+E+Q  RQ+LRAE+A+AKRE  ++  +++   R    +G
Sbjct: 161 EHLAFERQVRRQRLRAEVAQAKRETDFYLRSVERGQRFLAADG 203

Could be a novel TATA-binding protein (TBP) which can function as a basal transcription activator. Can act as a regulator of basal transcription for class II genes.

Bos taurus (taxid: 9913)

>sp|Q0UM32|ESF2_PHANO Pre-rRNA-processing protein ESF2 OS=Phaeosphaeria nodorum (strain SN15 / ATCC MYA-4574 / FGSC 10173) GN=ESF2 PE=3 SV=1

 Score =  117 bits (293), Expect = 6e-26,   Method: Compositional matrix adjust.
 Identities = 71/196 (36%), Positives = 106/196 (54%), Gaps = 18/196 (9%)

Query: 32  KKYKKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPK------KRKPGEKKPAKQFT 85
           KK K G+IYLS+VPP M  T L   ++ +G VG+++L P+      +R  G     K F 
Sbjct: 113 KKDKSGVIYLSRVPPFMKPTVLRSLLTPYGAVGKIFLTPEPAASRTQRLRGGGTRRKLFL 172

Query: 86  EGWIEFLKKKVAKQVAAQYNNTQIDCRKRSKHYDFIWNFKYLPRFKWIHLNERLAYEKQA 145
           +GW+EFL K+ AK VA   N   +  +KR + +D +WN KYL   KW HL E +  E   
Sbjct: 173 DGWVEFLHKRDAKFVADNLNAQTMGGKKRGRWHDEVWNIKYLSGIKWNHLVETIQNENAE 232

Query: 146 HRQKLRAEIAEAKREALYFSNNLDVADRIQKKNGKKKTNVPEQSSNKKNDGKG----KQI 201
              ++R EI+  K E   F  NL++   IQ    KKK     +  ++ +DG+G    +Q+
Sbjct: 233 RAARMRVEISRGKSENKAFLENLEMGKMIQGIEAKKK-----EKEDRGDDGEGMKAAEQV 287

Query: 202 VKKSNTKPVEDRKQFL 217
           V+K   KP   R++F+
Sbjct: 288 VEKKVKKP---RREFV 300

Involved in the small subunit (SSU) processome assembly and function, and in the 18S rRNA synthesis. Required for the early cleavages at sites A0, A1 and A2.

Phaeosphaeria nodorum (strain SN15 / ATCC MYA-4574 / FGSC 10173) (taxid: 321614)

>sp|P0CL96|ESF2_CRYNJ Pre-rRNA-processing protein ESF2 OS=Cryptococcus neoformans var. neoformans serotype D (strain JEC21 / ATCC MYA-565) GN=ESF2 PE=3 SV=1

 Score =  117 bits (293), Expect = 6e-26,   Method: Compositional matrix adjust.
 Identities = 66/202 (32%), Positives = 107/202 (52%), Gaps = 19/202 (9%)

Query: 37  GIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPG-----------EKKPAKQFT 85
           GI+++S+VPP M   ++   M R+G++G+VY   ++  PG           +K  +  FT
Sbjct: 66  GIVFISRVPPGMTPQKIRHLMGRWGDIGKVYAQ-RRDAPGGYNPNSANQKKQKHASANFT 124

Query: 86  EGWIEFLKKKVAKQVAAQYNNTQIDCRKRSKHYDFIWNFKYLPRFKWIHLNERLAYEKQA 145
           E W+EFL K VAK VA+  N   I  +K  +  D IW  +YL  FKW  L E++AYE+QA
Sbjct: 125 EAWVEFLDKSVAKTVASMLNAQVIGGKKGDRWRDDIWTMRYLSGFKWEMLGEQIAYERQA 184

Query: 146 HRQKLRAEIAEAKREALYFSNNLDVADRIQ------KKNGKKKTNVPEQSSNKKNDGKGK 199
           H+ +LR EI  AK E   +  N+++A  ++         G    + P Q ++ ++  K +
Sbjct: 185 HQARLRTEITRAKTEQNEYLKNVELARTLEKRKAKKAAAGGPSESAPNQDAHSRSY-KQR 243

Query: 200 QIVKKSNTKPVEDRKQFLTSLF 221
            +V+K  T   +     L ++F
Sbjct: 244 NVVEKPKTLEGQGMDGVLNNIF 265

Involved in the small subunit (SSU) processome assembly and function, and in the 18S rRNA synthesis. Required for the early cleavages at sites A0, A1 and A2.

Cryptococcus neoformans var. neoformans serotype D (strain JEC21 / ATCC MYA-565) (taxid: 214684)

>sp|P0CL97|ESF2_CRYNB Pre-rRNA-processing protein ESF2 OS=Cryptococcus neoformans var. neoformans serotype D (strain B-3501A) GN=ESF2 PE=3 SV=1

 Score =  117 bits (293), Expect = 6e-26,   Method: Compositional matrix adjust.
 Identities = 66/202 (32%), Positives = 107/202 (52%), Gaps = 19/202 (9%)

Query: 37  GIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPG-----------EKKPAKQFT 85
           GI+++S+VPP M   ++   M R+G++G+VY   ++  PG           +K  +  FT
Sbjct: 66  GIVFISRVPPGMTPQKIRHLMGRWGDIGKVYAQ-RRDAPGGYNPNSANQKKQKHASANFT 124

Query: 86  EGWIEFLKKKVAKQVAAQYNNTQIDCRKRSKHYDFIWNFKYLPRFKWIHLNERLAYEKQA 145
           E W+EFL K VAK VA+  N   I  +K  +  D IW  +YL  FKW  L E++AYE+QA
Sbjct: 125 EAWVEFLDKSVAKTVASMLNAQVIGGKKGDRWRDDIWTMRYLSGFKWEMLGEQIAYERQA 184

Query: 146 HRQKLRAEIAEAKREALYFSNNLDVADRIQ------KKNGKKKTNVPEQSSNKKNDGKGK 199
           H+ +LR EI  AK E   +  N+++A  ++         G    + P Q ++ ++  K +
Sbjct: 185 HQARLRTEITRAKTEQNEYLKNVELARTLEKRKAKKAAAGGPSESAPNQDAHSRSY-KQR 243

Query: 200 QIVKKSNTKPVEDRKQFLTSLF 221
            +V+K  T   +     L ++F
Sbjct: 244 NVVEKPKTLEGQGMDGVLNNIF 265

Involved in the small subunit (SSU) processome assembly and function, and in the 18S rRNA synthesis. Required for the early cleavages at sites A0, A1 and A2.

Cryptococcus neoformans var. neoformans serotype D (strain B-3501A) (taxid: 283643)

>sp|Q2GZQ4|ESF2_CHAGB Pre-rRNA-processing protein ESF2 OS=Chaetomium globosum (strain ATCC 6205 / CBS 148.51 / DSM 1962 / NBRC 6347 / NRRL 1970) GN=ESF2 PE=3 SV=2

 Score =  117 bits (292), Expect = 9e-26,   Method: Compositional matrix adjust.
 Identities = 79/227 (34%), Positives = 120/227 (52%), Gaps = 26/227 (11%)

Query: 13  PAEEPGKYVLKP--KDNTENSKKY--KKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYL 68
           PAE PG  V KP  K N   S+    K G++YLS++PP M   +L   +  +G++ R++L
Sbjct: 95  PAELPG--VSKPLAKKNLVASEAAIKKSGVVYLSRIPPFMKPAKLRSLLEPYGKINRIFL 152

Query: 69  MPKK--------RKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDCRKRSKHYDF 120
            P+         R  G KK  + FTEGW+EF+KKK AK+V    N   I  +K S ++D 
Sbjct: 153 TPEDPTEHTRRVRNGGNKK--RSFTEGWVEFVKKKDAKKVCDLLNAQTIGGKKSSWYHDD 210

Query: 121 IWNFKYLPRFKWIHLNERLAYEKQAHRQKLRAEIAEAKREALYFSNNLD---VADRIQKK 177
           +W  KYL  FKW HL E+++ E      ++RAE+A+  RE   F  N++   V + IQ K
Sbjct: 211 VWALKYLNGFKWHHLTEQISAENAERTSRIRAEVAKTTRENKEFVRNVERAKVINGIQSK 270

Query: 178 NG--KKKTNVPEQSSNKKNDGKGKQIVKKSNTKPVEDRKQFLTSLFS 222
               +KKT+  E+++     G G+ + K       + R+ F   L +
Sbjct: 271 AAAKRKKTDDSEEAA-----GSGEAVGKTEGESAQDKRRTFKQILLA 312

Involved in the small subunit (SSU) processome assembly and function, and in the 18S rRNA synthesis. Required for the early cleavages at sites A0, A1 and A2.

Chaetomium globosum (strain ATCC 6205 / CBS 148.51 / DSM 1962 / NBRC 6347 / NRRL 1970) (taxid: 306901)

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	222
340720285	219	PREDICTED: activator of basal transcript	0.864	0.876	0.485	5e-46
350417562	219	PREDICTED: activator of basal transcript	0.864	0.876	0.466	7e-44
112983154	202	CG10993-like protein [Bombyx mori] gi|95	0.603	0.663	0.613	8e-44
322784561	233	hypothetical protein SINV_08751 [Solenop	0.851	0.811	0.497	1e-43
332027977	230	Pre-rRNA-processing protein esf2 [Acromy	0.851	0.821	0.502	3e-43
193596697	201	PREDICTED: pre-rRNA-processing protein e	0.815	0.900	0.489	4e-43
357627667	185	hypothetical protein KGM_09862 [Danaus p	0.599	0.718	0.602	6e-43
383863195	340	PREDICTED: activator of basal transcript	0.873	0.570	0.454	1e-42
380019085	214	PREDICTED: activator of basal transcript	0.842	0.873	0.472	2e-42
328792956	214	PREDICTED: activator of basal transcript	0.842	0.873	0.462	2e-42

>gi|340720285|ref|XP_003398571.1| PREDICTED: activator of basal transcription 1-like [Bombus terrestris]

 Score =  190 bits (482), Expect = 5e-46,   Method: Compositional matrix adjust.
 Identities = 100/206 (48%), Positives = 135/206 (65%), Gaps = 14/206 (6%)

Query: 26  DNTENSKKYKKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKP----- 80
           DNT   KK K+GI+YLS +P +MN+T++ E  S +G+VGR+YL   + + G         
Sbjct: 17  DNTSKVKKKKRGIVYLSNIPKYMNITKIRELFSIYGKVGRIYLQLAENELGRDDKTKKRK 76

Query: 81  ---AKQFTEGWIEFLKKKVAKQVAAQYNNTQIDCRKRSKHYDFIWNFKYLPRFKWIHLNE 137
               + FTEGW+EF  K VAK VA   NNTQI  RKRSK YD IWN KYLPRFKWIHL+E
Sbjct: 77  KVGTRLFTEGWVEFESKAVAKYVATTLNNTQISSRKRSKFYDTIWNIKYLPRFKWIHLSE 136

Query: 138 RLAYEKQAHRQKLRAEIAEAKREALYFSNNLDVADRIQ--KKNGKKKTNVPEQSSNKKND 195
           RLAYE+  H+Q+L+AEIA+AKREA ++S+N+D + +++  +K+G   + VP +   +  D
Sbjct: 137 RLAYERAVHKQRLQAEIAQAKREANFYSHNIDRSRKLRQVQKDG-HSSFVPPEIKQRDTD 195

Query: 196 GKGKQIVKKSNTKPVEDRKQFLTSLF 221
               +I  K   +PV DR  FL SLF
Sbjct: 196 V---EIRSKKENEPVTDRTDFLKSLF 218

Source: Bombus terrestris

Species: Bombus terrestris

Genus: Bombus

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|350417562|ref|XP_003491483.1| PREDICTED: activator of basal transcription 1-like [Bombus impatiens]

 Score =  182 bits (463), Expect = 7e-44,   Method: Compositional matrix adjust.
 Identities = 96/206 (46%), Positives = 132/206 (64%), Gaps = 14/206 (6%)

Query: 26  DNTENSKKYKKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKP----- 80
           DN    K+ K+GI+YLS +P +MN+T++ E  S +G+V R+YL   + + G         
Sbjct: 17  DNISKVKRKKRGIVYLSNIPKYMNITKIRELFSIYGKVERIYLQLAENELGRDDKTKKRK 76

Query: 81  ---AKQFTEGWIEFLKKKVAKQVAAQYNNTQIDCRKRSKHYDFIWNFKYLPRFKWIHLNE 137
               + FTEGW+EF  K VAK VA   NNTQI  RKRSK YD IWN KYLPRFKWIHL+E
Sbjct: 77  KVGTRLFTEGWVEFESKTVAKYVATILNNTQISSRKRSKFYDAIWNIKYLPRFKWIHLSE 136

Query: 138 RLAYEKQAHRQKLRAEIAEAKREALYFSNNLDVADRIQ--KKNGKKKTNVPEQSSNKKND 195
           RLAYE+  H+Q+LR EIA+AKREA ++S+N+D + +++  +K+G   + +P +   +  D
Sbjct: 137 RLAYERAVHKQRLRTEIAQAKREANFYSHNIDRSRKLRQVQKDG-HSSFIPPEIKQRDTD 195

Query: 196 GKGKQIVKKSNTKPVEDRKQFLTSLF 221
               +I  K   +PV DR  FL SLF
Sbjct: 196 V---EIRSKKENEPVTDRTDFLKSLF 218

Source: Bombus impatiens

Species: Bombus impatiens

Genus: Bombus

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|112983154|ref|NP_001037600.1| CG10993-like protein [Bombyx mori] gi|95115194|gb|ABF55963.1| CG10993-like protein [Bombyx mori]

 Score =  182 bits (462), Expect = 8e-44,   Method: Compositional matrix adjust.
 Identities = 84/137 (61%), Positives = 111/137 (81%), Gaps = 3/137 (2%)

Query: 35  KKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKK--PAKQFTEGWIEFL 92
           K+GII+LS +PP+MNV ++ E  S+FGEVGR+YL P   KPGEK+     QF+EGW+EF 
Sbjct: 49  KRGIIFLSTIPPYMNVAKIREIFSQFGEVGRIYLQPTG-KPGEKRKRVPNQFSEGWVEFE 107

Query: 93  KKKVAKQVAAQYNNTQIDCRKRSKHYDFIWNFKYLPRFKWIHLNERLAYEKQAHRQKLRA 152
           KKK+AKQVA + NNT+I  RK+S++YD IWN KY+PRFKWIHL+ERLAYE+ A +Q+LRA
Sbjct: 108 KKKIAKQVAVKLNNTKIGTRKKSRYYDMIWNIKYIPRFKWIHLSERLAYERAAMKQRLRA 167

Query: 153 EIAEAKREALYFSNNLD 169
           EIA+AK+EA Y  +N++
Sbjct: 168 EIAQAKKEAHYLQSNVE 184

Source: Bombyx mori

Species: Bombyx mori

Genus: Bombyx

Family: Bombycidae

Order: Lepidoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|322784561|gb|EFZ11458.1| hypothetical protein SINV_08751 [Solenopsis invicta]

 Score =  181 bits (460), Expect = 1e-43,   Method: Compositional matrix adjust.
 Identities = 98/197 (49%), Positives = 129/197 (65%), Gaps = 8/197 (4%)

Query: 32  KKYKKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLM-------PKKRKPGEKKPAKQF 84
           KK+K+GIIYLS +P +MN+  + E  S +G+VGRVYL          K K   KK  K F
Sbjct: 37  KKFKRGIIYLSTIPKYMNIIMIREMFSAYGKVGRVYLQLADNEAQSAKNKKKSKKVIKHF 96

Query: 85  TEGWIEFLKKKVAKQVAAQYNNTQIDCRKRSKHYDFIWNFKYLPRFKWIHLNERLAYEKQ 144
           TEGW+EF  KKVAK VA   NNTQI  RK+S+ YD +WN KYLPRFKWIHLNERLAYE+ 
Sbjct: 97  TEGWVEFESKKVAKFVAETLNNTQISTRKKSRFYDVMWNIKYLPRFKWIHLNERLAYERA 156

Query: 145 AHRQKLRAEIAEAKREALYFSNNLDVADRIQKKNGKKKTNVPEQSSNKKNDGKGKQIVKK 204
            H+Q+L  EIA+AKRE  +FS N+D + ++ KK+ + +    E    K+ D   + + +K
Sbjct: 157 VHKQRLLTEIAQAKREVNFFSYNVDRSKKLHKKHKQGEETTFELPEVKQRDTDNEIMNRK 216

Query: 205 SNTKPVEDRKQFLTSLF 221
           + T   EDR +FL S+F
Sbjct: 217 TETHA-EDRTEFLKSIF 232

Source: Solenopsis invicta

Species: Solenopsis invicta

Genus: Solenopsis

Family: Formicidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|332027977|gb|EGI68028.1| Pre-rRNA-processing protein esf2 [Acromyrmex echinatior]

 Score =  181 bits (458), Expect = 3e-43,   Method: Compositional matrix adjust.
 Identities = 99/197 (50%), Positives = 131/197 (66%), Gaps = 8/197 (4%)

Query: 32  KKYKKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLM-------PKKRKPGEKKPAKQF 84
           K  K+GIIYLS +P +MN+T + E  S +G+VGRVYL          K K   KK  K F
Sbjct: 34  KNVKRGIIYLSTIPKYMNITMIREIFSAYGKVGRVYLQLVDNETQSVKHKKKTKKVIKHF 93

Query: 85  TEGWIEFLKKKVAKQVAAQYNNTQIDCRKRSKHYDFIWNFKYLPRFKWIHLNERLAYEKQ 144
           TEGWIEF  KKVAK VA   NNTQ+  RK+SK YD +WN KYLPRFKWIHL+ERLAYE+ 
Sbjct: 94  TEGWIEFESKKVAKFVAETLNNTQVSTRKKSKFYDVMWNIKYLPRFKWIHLSERLAYERA 153

Query: 145 AHRQKLRAEIAEAKREALYFSNNLDVADRIQKKNGKKKTNVPEQSSNKKNDGKGKQIVKK 204
            H+Q+L  EIA+AKRE  +FS N+D + ++++K+ + +    E    K+ D   +   +K
Sbjct: 154 VHKQRLLTEIAQAKREINFFSYNVDRSKKLRRKHEQGEETTFELPEVKQRDTDNEIRNRK 213

Query: 205 SNTKPVEDRKQFLTSLF 221
           +NT+ VEDR +FL S+F
Sbjct: 214 ANTQ-VEDRTEFLKSIF 229

Source: Acromyrmex echinatior

Species: Acromyrmex echinatior

Genus: Acromyrmex

Family: Formicidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|193596697|ref|XP_001948686.1| PREDICTED: pre-rRNA-processing protein esf2-like [Acyrthosiphon pisum]

 Score =  180 bits (456), Expect = 4e-43,   Method: Compositional matrix adjust.
 Identities = 92/188 (48%), Positives = 129/188 (68%), Gaps = 7/188 (3%)

Query: 35  KKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKK 94
           KKGI+YLS +P +MNVT+L E + ++GE+GRV+L P      +K+PAK FTEGWIEF +K
Sbjct: 18  KKGIVYLSSIPKYMNVTKLRELLGQYGEIGRVFLQPASNPNLKKRPAKHFTEGWIEFERK 77

Query: 95  KVAKQVAAQYNNTQIDCRKRSKHYDFIWNFKYLPRFKWIHLNERLAYEKQAHRQKLRAEI 154
           KVAK VA   N  +ID RK SK++D +WN KYLPRFKW+HLNERLAYEK   + +LRAE+
Sbjct: 78  KVAKMVAEILNGKRIDSRKSSKYFDSVWNLKYLPRFKWVHLNERLAYEKAVRKHRLRAEV 137

Query: 155 AEAKREALYFSNNLDVADRIQKKNGKKKTNVPEQSSNKKNDGKGKQIVKKSNTKP-VEDR 213
           ++ KREA +FS+N+    R +K    +++NV   + N +     ++ ++  N  P +E R
Sbjct: 138 SQVKREANHFSSNI---VRSEKNKLYQQSNV---NFNVQQRLPEEEFLQNKNCVPDMESR 191

Query: 214 KQFLTSLF 221
             FL+ LF
Sbjct: 192 TDFLSKLF 199

Source: Acyrthosiphon pisum

Species: Acyrthosiphon pisum

Genus: Acyrthosiphon

Family: Aphididae

Order: Hemiptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|357627667|gb|EHJ77287.1| hypothetical protein KGM_09862 [Danaus plexippus]

 Score =  179 bits (455), Expect = 6e-43,   Method: Compositional matrix adjust.
 Identities = 82/136 (60%), Positives = 107/136 (78%), Gaps = 3/136 (2%)

Query: 36  KGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKK--PAKQFTEGWIEFLK 93
           +GIIYLS +PP+MNV ++ E  S+FG+VGR+YL     KPGEK+      FTEGW+EF K
Sbjct: 35  RGIIYLSTIPPYMNVAKIREIFSQFGDVGRIYLQSSA-KPGEKRKRVPNLFTEGWVEFEK 93

Query: 94  KKVAKQVAAQYNNTQIDCRKRSKHYDFIWNFKYLPRFKWIHLNERLAYEKQAHRQKLRAE 153
           K++AK VAA  NNT+I  RKRS++YD IWN KY+PRFKWIHL+ERLAYE+ A +Q+LRAE
Sbjct: 94  KRIAKSVAANLNNTKIGTRKRSRYYDMIWNIKYIPRFKWIHLSERLAYERAAMKQRLRAE 153

Query: 154 IAEAKREALYFSNNLD 169
           I++AK+EA Y  NN++
Sbjct: 154 ISQAKKEANYLQNNIE 169

Source: Danaus plexippus

Species: Danaus plexippus

Genus: Danaus

Family: Nymphalidae

Order: Lepidoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|383863195|ref|XP_003707067.1| PREDICTED: activator of basal transcription 1-like [Megachile rotundata]

 Score =  179 bits (453), Expect = 1e-42,   Method: Compositional matrix adjust.
 Identities = 94/207 (45%), Positives = 129/207 (62%), Gaps = 13/207 (6%)

Query: 26  DNTENSKKYKKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPA---- 81
           +NT   K+ K+GI+YLS +P +M++ ++ E  S +GEVGR+YL   + +  +        
Sbjct: 16  ENTTEIKRQKRGIVYLSSIPEYMSIAKIRELFSVYGEVGRMYLQLAQNELDKNGKPKKQK 75

Query: 82  ----KQFTEGWIEFLKKKVAKQVAAQYNNTQIDCRKRSKHYDFIWNFKYLPRFKWIHLNE 137
               KQFTEGW+EF  K+VAK VAA  NNTQ+  +K+SK YD  WN KYLPRFKWIHL+E
Sbjct: 76  KIRNKQFTEGWVEFKSKRVAKYVAATLNNTQVSNKKKSKFYDVTWNIKYLPRFKWIHLSE 135

Query: 138 RLAYEKQAHRQKLRAEIAEAKREALYFSNNLDVADRIQKKN--GKKKTNVPEQSSNKKND 195
           RLAYEK   +Q+LR EIA+ KRE  +FS+N+D + ++QKK       T VP     +  D
Sbjct: 136 RLAYEKAVRKQRLRTEIAQVKREVNFFSHNVDRSIKLQKKQELSGSSTFVPPVIKQRDTD 195

Query: 196 GKGKQIVKKSNTKPVEDRKQFLTSLFS 222
               +I  K  ++   DR  FL SLF+
Sbjct: 196 A---EIRSKKESENTVDRTDFLKSLFT 219

Source: Megachile rotundata

Species: Megachile rotundata

Genus: Megachile

Family: Megachilidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|380019085|ref|XP_003693446.1| PREDICTED: activator of basal transcription 1-like [Apis florea]

 Score =  177 bits (450), Expect = 2e-42,   Method: Compositional matrix adjust.
 Identities = 95/201 (47%), Positives = 129/201 (64%), Gaps = 14/201 (6%)

Query: 31  SKKYKKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLM--------PKKRKPGEKKPAK 82
           +KK K+GI+YLS +P +MN+ ++ E  S +GEVGR+Y            K K  +K   K
Sbjct: 17  TKKRKRGIVYLSSIPKYMNIAKIRELFSIYGEVGRIYFQLAENVLEQDSKAKKRKKIHTK 76

Query: 83  QFTEGWIEFLKKKVAKQVAAQYNNTQIDCRKRSKHYDFIWNFKYLPRFKWIHLNERLAYE 142
            FTEGW+EF  KKVAK +A+  NNTQI  RKRSK YD IWN KYLPRFKWIHL+ERLAYE
Sbjct: 77  FFTEGWVEFESKKVAKYIASTLNNTQISTRKRSKFYDVIWNIKYLPRFKWIHLSERLAYE 136

Query: 143 KQAHRQKLRAEIAEAKREALYFSNNLDVADRIQ--KKNGKKKTNVPEQSSNKKNDGKGKQ 200
           +   +Q+L+ EIA+AKREA +FS+N+D + ++   ++NG   + +P     +  D    +
Sbjct: 137 QAVRKQRLQTEIAQAKREANFFSHNVDRSRKLHQVQQNG-NNSFIPPVIKQRDTDA---E 192

Query: 201 IVKKSNTKPVEDRKQFLTSLF 221
           I  +   + V DR  FL SLF
Sbjct: 193 IRSRKEIELVTDRTGFLKSLF 213

Source: Apis florea

Species: Apis florea

Genus: Apis

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|328792956|ref|XP_001120184.2| PREDICTED: activator of basal transcription 1-like [Apis mellifera]

 Score =  177 bits (450), Expect = 2e-42,   Method: Compositional matrix adjust.
 Identities = 93/201 (46%), Positives = 129/201 (64%), Gaps = 14/201 (6%)

Query: 31  SKKYKKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLM--------PKKRKPGEKKPAK 82
           +KK K+GI+YLS +P +MN+ ++ E  + +GEVGR+Y            K K  +K   K
Sbjct: 17  TKKQKRGIVYLSSIPKYMNIAKIRELFTIYGEVGRIYFQLAENGLEQDSKTKKRKKIHTK 76

Query: 83  QFTEGWIEFLKKKVAKQVAAQYNNTQIDCRKRSKHYDFIWNFKYLPRFKWIHLNERLAYE 142
            FTEGW+EF  KKVAK +A+  NNTQI  RKRSK YD IWN KYLPRFKWIHL+ERLAYE
Sbjct: 77  FFTEGWVEFESKKVAKYIASTLNNTQISTRKRSKFYDVIWNIKYLPRFKWIHLSERLAYE 136

Query: 143 KQAHRQKLRAEIAEAKREALYFSNNLDVADRIQ--KKNGKKKTNVPEQSSNKKNDGKGKQ 200
           +   +Q+L+ EIA+AKREA +FS+N+D + ++   ++NG   + +P     +  D    +
Sbjct: 137 QAVRKQRLQTEIAQAKREANFFSHNVDRSRKLHQVQQNG-NSSFIPPVIKQRDTDA---E 192

Query: 201 IVKKSNTKPVEDRKQFLTSLF 221
           I  +   + + DR  FL SLF
Sbjct: 193 IRSRKEIELITDRTSFLESLF 213

Source: Apis mellifera

Species: Apis mellifera

Genus: Apis

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	222
FB|FBgn0052708	239	CG32708 [Drosophila melanogast	0.860	0.799	0.384	3.6e-34
CGD|CAL0002361	320	orf19.3161 [Candida albicans (	0.887	0.615	0.296	3.5e-25
ZFIN|ZDB-GENE-050522-127	305	abt1 "activator of basal trans	0.819	0.596	0.314	4.6e-25
POMBASE|SPBC28E12.05	334	esf2 "U3 snoRNP-associated pro	0.972	0.646	0.308	1.6e-24
MGI|MGI:1353636	269	Abt1 "activator of basal trans	0.783	0.646	0.324	1.1e-23
RGD|1310785	268	Abt1 "activator of basal trans	0.671	0.555	0.359	3.8e-23
TAIR|locus:2102594	257	AT3G56510 [Arabidopsis thalian	0.846	0.731	0.304	7.8e-23
UNIPROTKB|Q9ULW3	272	ABT1 "Activator of basal trans	0.671	0.547	0.337	2.6e-22
DICTYBASE|DDB_G0293576	296	esf2 "U3 snoRNP-associated pro	0.864	0.648	0.292	9e-22
UNIPROTKB|Q148M8	275	ABT1 "Activator of basal trans	0.756	0.610	0.328	1.1e-21

FB|FBgn0052708 CG32708 [Drosophila melanogaster (taxid:7227)]

 Score = 371 (135.7 bits), Expect = 3.6e-34, P = 3.6e-34
 Identities = 78/203 (38%), Positives = 115/203 (56%)

Query:     3 EDAGSSNESSPAEEPGKYVLKPKDNTENS----KKYKKGIIYLSKVPPHMNVTQLTEFMS 58
             E   ++ E++P+++     L     T +S    KK K GIIY+S +P HMNVT+L E + 
Sbjct:    36 EGETANGEANPSDDDDDMDLANFKATSSSSAPAKKRKMGIIYISNIPKHMNVTRLREILG 95

Query:    59 RFGEVGRVYLMXXXXXXXXXXXXXQ------FTEGWIEFLXXXXXXXXXXXYNNTQIDCR 112
              +G +GRVYL              +      FTEGW+EF             NN QI  R
Sbjct:    96 EYGAIGRVYLQPEKLSSAKAKKNKRKRYNIHFTEGWVEFKSKRVAKQIVPLLNNKQISGR 155

Query:   113 KRSKHYDFIWNFKYLPRFKWIHLNERLAYEKQAHRQKLRAEIAEAKREALYFSNNLDVAD 172
             K S+ YD +W+ KYLPRFKW+HL ER+ YE+  H+Q+L  E+++A++E  +F NNLD ++
Sbjct:   156 KTSQFYDSLWSMKYLPRFKWVHLTERMNYEQAVHKQRLHTEVSQARKETTFFQNNLDKSE 215

Query:   173 RIQKKNGKKKTNVPEQSSNKKND 195
              I+K+  KK  N  E++   K+D
Sbjct:   216 FIRKQ-AKKAKNA-EKALAAKSD 236

GO:0003676 "nucleic acid binding" evidence=IEA

GO:0000166 "nucleotide binding" evidence=IEA

GO:0022008 "neurogenesis" evidence=IMP

CGD|CAL0002361 orf19.3161 [Candida albicans (taxid:5476)]

 Score = 258 (95.9 bits), Expect = 3.5e-25, Sum P(2) = 3.5e-25
 Identities = 64/216 (29%), Positives = 105/216 (48%)

Query:    22 LKPKDNTENSKKYKK-GIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYL------MXXXXX 74
             L  K+  +  K+ K+ G+ YLS+VPP+M   +L   +SRFGE+ R++L      +     
Sbjct:   108 LTSKELAKEQKRIKRTGVCYLSRVPPYMKPAKLRSVLSRFGEIDRLFLKPEDPSVYHKRV 167

Query:    75 XXXXXXXXQFTEGWIEFLXXXXXXXXXXXYNNTQIDCRKRSKHYDFIWNFKYLPRFKWIH 134
                      FTEGWIEF+            N  ++  +K S +YD I N KYLP FKW+ 
Sbjct:   168 KYGGNKKKNFTEGWIEFVNKSDAKLCAATLNGNKLGGKKTSYYYDDIINIKYLPGFKWLD 227

Query:   135 LNERLAYEKQAHRQKLRAEIAEAKREALYFSNNLDVADRIQKKNGKKKTNVPEQSSNKKN 194
             L +++A E +  + KL  EI++ ++    F +N++ +  I     K+KT       N + 
Sbjct:   228 LTQQIAKENEVRQAKLAMEISQQQKLNKSFVSNVEKSKMIANIQKKRKTT---DDDNIRR 284

Query:   195 DGKGKQIVK---------KSNTKPVEDRKQFLTSLF 221
             D K +++           KS +KP +     L+ +F
Sbjct:   285 DFKQRKVTTTRSDAKDDLKSKSKPTDKLNDILSKVF 320

GO:0030686 "90S preribosome" evidence=IEA

GO:0005730 "nucleolus" evidence=IEA

GO:0005737 "cytoplasm" evidence=IEA

GO:0000472 "endonucleolytic cleavage to generate mature 5'-end of SSU-rRNA from (SSU-rRNA, 5.8S rRNA, LSU-rRNA)" evidence=IEA

GO:0000447 "endonucleolytic cleavage in ITS1 to separate SSU-rRNA from 5.8S rRNA and LSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)" evidence=IEA

GO:0034462 "small-subunit processome assembly" evidence=IEA

GO:0000480 "endonucleolytic cleavage in 5'-ETS of tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)" evidence=IEA

GO:0003723 "RNA binding" evidence=IEA

GO:0001671 "ATPase activator activity" evidence=IEA

ZFIN|ZDB-GENE-050522-127 abt1 "activator of basal transcription 1" [Danio rerio (taxid:7955)]

 Score = 285 (105.4 bits), Expect = 4.6e-25, P = 4.6e-25
 Identities = 60/191 (31%), Positives = 103/191 (53%)

Query:    32 KKYKKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLM-----XXXXXXXXXXXXXQFTE 86
             KK   GI+YL  +PP M    +   +S +GE+GR++L                    FTE
Sbjct:    81 KKCVPGIVYLGHIPPRMRPKHMRNLLSAYGEIGRIFLQPEDRCVKRKKKKAGCKSSSFTE 140

Query:    87 GWIEFLXXXXXXXXXXXYNNTQIDCRKRSKHYDFIWNFKYLPRFKWIHLNERLAYEKQAH 146
             GW+EF             +NT +  RKRS+    +W+ KYL RF+W HL+ERLAYE+  +
Sbjct:   141 GWVEFRDKRVAKRVAASLHNTPMANRKRSRFSSDLWSIKYLHRFQWCHLSERLAYEQTVY 200

Query:   147 RQKLRAEIAEAKREALYFSNNLDVA---DRIQKKNGKKKTNVPEQSSNKKNDGKGKQI-V 202
              Q++R EI++AK+E  ++  +++ +   ++++KK  KK   V E++ + K     ++I +
Sbjct:   201 HQRMRTEISQAKKETNFYLASVEKSQSLEKLRKKRAKKGEVVEEKTWDYKQRPTEEEIHL 260

Query:   203 KKSNTKPVEDR 213
             K+  +K +  +
Sbjct:   261 KRFKSKGISKK 271

GO:0003676 "nucleic acid binding" evidence=IEA

GO:0000166 "nucleotide binding" evidence=IEA

GO:0008150 "biological_process" evidence=ND

GO:0005575 "cellular_component" evidence=ND

POMBASE|SPBC28E12.05 esf2 "U3 snoRNP-associated protein Esf2 (predicted)" [Schizosaccharomyces pombe (taxid:4896)]

 Score = 280 (103.6 bits), Expect = 1.6e-24, P = 1.6e-24
 Identities = 73/237 (30%), Positives = 115/237 (48%)

Query:     3 EDAGSSNESSPAEEPGKYVLKPKD-NTENSKKYKK-----GIIYLSKVPPHMNVTQLTEF 56
             ED    +E+   EE  K     K  + E  +K +K     G+IYLS++PP+M   +L + 
Sbjct:    82 EDFSGGSENELDEETTKNANSIKKISLEEVEKQRKAIKRSGVIYLSRIPPYMAPNKLRQI 141

Query:    57 MSRFGEVGRVYLMXXXXXXXXXXXXX------QFTEGWIEFLXXXXXXXXXXXYNNTQID 110
             +S++G++GRVYL                     + EGWIEF             N  QI 
Sbjct:   142 LSQYGKIGRVYLTPESSAKRAQRLRNGGNKRVMYEEGWIEFESKRVAKSVAELLNTNQIG 201

Query:   111 CRKRSKHYDFIWNFKYLPRFKWIHLNERLAYEKQAHRQKLRAEIAEAKREALYFSNNLDV 170
              +K S ++D IWN KYLP+FKW HL E++A E  A   +L+ EI + +++   +  N++ 
Sbjct:   202 GKKSSWYHDDIWNMKYLPKFKWHHLTEQIAAENAARESRLKVEIEQGRKQLKQYMRNVEN 261

Query:   171 A---DRIQKKNGKKKT-NV----PEQSSNKKNDGK-GKQIVKKSNTKPVEDRKQFLT 218
             A   + I+KK  ++ T NV    PE++ +   D K  KQ  +    K +   +   T
Sbjct:   262 AKMIEGIRKKRSERDTLNVSTEFPEETKDLSEDTKPSKQARRFFGQKSIVSNRNMPT 318

GO:0003723 "RNA binding" evidence=ISM

GO:0005634 "nucleus" evidence=IDA

GO:0005730 "nucleolus" evidence=ISO;IDA

GO:0006364 "rRNA processing" evidence=ISO

MGI|MGI:1353636 Abt1 "activator of basal transcription 1" [Mus musculus (taxid:10090)]

 Score = 272 (100.8 bits), Expect = 1.1e-23, P = 1.1e-23
 Identities = 62/191 (32%), Positives = 90/191 (47%)

Query:     3 EDAGSSNESSPAEEPGKYVLKPKDNTENSKKYKKGIIYLSKVPPHMNVTQLTEFMSRFGE 62
             E+  ++  +   EEP         +++  KK   GI+YL  VPP      +   +S +GE
Sbjct:    16 EEEANAEAAEDQEEPEDTACS--SSSKKKKKVVPGIVYLGHVPPRFRPLHVRNLLSAYGE 73

Query:    63 VGRVYLMX-------------XXXXXXXXXXXXQFTEGWIEFLXXXXXXXXXXXYNNTQI 109
             VGRV+                             +TEGW+EF             +NT +
Sbjct:    74 VGRVFFQAEDHFVKRKKKAAAAAGGKKGAKYSKDYTEGWVEFRDKRVAKRVAASLHNTPM 133

Query:   110 DCRKRSK-HYDFIWNFKYLPRFKWIHLNERLAYEKQAHRQKLRAEIAEAKREALYFSNNL 168
               RKRS   YD +WN KYL RF W HL+E LA+E+Q  RQ+LRAE+A+AKRE  ++  N+
Sbjct:   134 GARKRSPFRYD-LWNLKYLHRFTWSHLSEHLAFERQVRRQRLRAEVAQAKRETDFYLRNV 192

Query:   169 DVADRIQKKNG 179
             +        +G
Sbjct:   193 EQGQHFLAADG 203

GO:0000166 "nucleotide binding" evidence=IEA

GO:0003677 "DNA binding" evidence=IEA

GO:0003723 "RNA binding" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

GO:0005667 "transcription factor complex" evidence=IDA

GO:0006351 "transcription, DNA-dependent" evidence=IEA

GO:0006355 "regulation of transcription, DNA-dependent" evidence=IEA

GO:0006357 "regulation of transcription from RNA polymerase II promoter" evidence=IDA

GO:0006366 "transcription from RNA polymerase II promoter" evidence=IDA

GO:0021522 "spinal cord motor neuron differentiation" evidence=IGI

RGD|1310785 Abt1 "activator of basal transcription 1" [Rattus norvegicus (taxid:10116)]

 Score = 267 (99.0 bits), Expect = 3.8e-23, P = 3.8e-23
 Identities = 59/164 (35%), Positives = 81/164 (49%)

Query:    30 NSKKYKKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMX-------------XXXXXX 76
             + KK   GI+YL  VPP      +   +S +GEVGRV+                      
Sbjct:    40 SKKKVVPGIVYLGHVPPRFRPLHVRNLLSVYGEVGRVFFQAEDPFVRRKKKAAAAAGGKK 99

Query:    77 XXXXXXQFTEGWIEFLXXXXXXXXXXXYNNTQIDCRKRSK-HYDFIWNFKYLPRFKWIHL 135
                    +TEGW+EF             +NT +  RKRS   YD +WN KYL RF W HL
Sbjct:   100 GAKYSKDYTEGWVEFRDKRIAKRVAASLHNTPMGARKRSPFRYD-LWNLKYLHRFTWSHL 158

Query:   136 NERLAYEKQAHRQKLRAEIAEAKREALYFSNNLDVADRIQKKNG 179
             +E LA+E+Q  RQ+LRAE+A+AKRE  ++  N++   R    +G
Sbjct:   159 SEHLAFERQVRRQRLRAEVAQAKRETDFYLRNVEQGQRFLAADG 202

GO:0000166 "nucleotide binding" evidence=IEA

GO:0003677 "DNA binding" evidence=IEA

GO:0003723 "RNA binding" evidence=IEA

GO:0005667 "transcription factor complex" evidence=ISO

GO:0005730 "nucleolus" evidence=IEA

GO:0006351 "transcription, DNA-dependent" evidence=IEA

GO:0006355 "regulation of transcription, DNA-dependent" evidence=IEA

GO:0006357 "regulation of transcription from RNA polymerase II promoter" evidence=ISO

GO:0006366 "transcription from RNA polymerase II promoter" evidence=ISO

GO:0021522 "spinal cord motor neuron differentiation" evidence=ISO

TAIR|locus:2102594 AT3G56510 [Arabidopsis thaliana (taxid:3702)]

 Score = 264 (98.0 bits), Expect = 7.8e-23, P = 7.8e-23
 Identities = 60/197 (30%), Positives = 101/197 (51%)

Query:     3 EDAGSSNESSPAEEPGKYVLKPKDNTENSKKYKKGIIYLSKVPPHMNVTQLTEFMSRFGE 62
             +++  + +S  A+   K  LK K   E SK   +G+ YLS++PPHM+  +L   ++++GE
Sbjct:    17 KESKETMKSQKADRKKKK-LKEKLLKEASKADNRGVCYLSRIPPHMDHVRLRHILAQYGE 75

Query:    63 VGRVYLMXXXXXXXXXXXXX------QFTEGWIEFLXXXXXXXXXXXYNNTQIDCRKRSK 116
             +GR+YL                    +F+EGW+EF             N  QI  +K+S 
Sbjct:    76 LGRIYLAPEDSEAQVHRKRAGGFRGQRFSEGWVEFAKKSVAKRVADMLNGEQIGGKKKSS 135

Query:   117 HYDFIWNFKYLPRFKWIHLNERLAYEKQAHRQKLRAEIAEAKREALYFSNNLDVADRIQK 176
              Y  IWN KYL +FKW  L E +AY+     QKL   ++ AKRE  ++ + ++ +  + +
Sbjct:   136 VYYDIWNIKYLTKFKWDDLTEEIAYKSAIREQKLNMVLSAAKREKDFYLSKIEKSRAMTE 195

Query:   177 KNGK--KKTNVPEQSSN 191
              + +  KK  + E+S +
Sbjct:   196 IDARMEKKRKIQEESGS 212

GO:0003676 "nucleic acid binding" evidence=IEA

GO:0005634 "nucleus" evidence=ISM

GO:0008150 "biological_process" evidence=ND

GO:0017025 "TBP-class protein binding" evidence=ISS

UNIPROTKB|Q9ULW3 ABT1 "Activator of basal transcription 1" [Homo sapiens (taxid:9606)]

 Score = 259 (96.2 bits), Expect = 2.6e-22, P = 2.6e-22
 Identities = 55/163 (33%), Positives = 81/163 (49%)

Query:    30 NSKKYKKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMX------------XXXXXXX 77
             + K+   GI+YL  +PP      +   +S +GEVGRV+                      
Sbjct:    39 SKKRVVPGIVYLGHIPPRFRPLHVRNLLSAYGEVGRVFFQAEDRFVRRKKKAAAAAGGKK 98

Query:    78 XXXXXQFTEGWIEFLXXXXXXXXXXXYNNTQIDCRKRSK-HYDFIWNFKYLPRFKWIHLN 136
                   +TEGW+EF             +NT +  R+RS   YD +WN KYL RF W HL+
Sbjct:    99 RSYTKDYTEGWVEFRDKRIAKRVAASLHNTPMGARRRSPFRYD-LWNLKYLHRFTWSHLS 157

Query:   137 ERLAYEKQAHRQKLRAEIAEAKREALYFSNNLDVADRIQKKNG 179
             E LA+E+Q  RQ+LRAE+A+AKRE  ++  +++   R    +G
Sbjct:   158 EHLAFERQVRRQRLRAEVAQAKRETDFYLQSVERGQRFLAADG 200

GO:0000166 "nucleotide binding" evidence=IEA

GO:0003677 "DNA binding" evidence=IEA

GO:0003723 "RNA binding" evidence=IEA

GO:0005667 "transcription factor complex" evidence=IEA

GO:0006357 "regulation of transcription from RNA polymerase II promoter" evidence=IEA

GO:0006366 "transcription from RNA polymerase II promoter" evidence=IEA

GO:0021522 "spinal cord motor neuron differentiation" evidence=IEA

GO:0005730 "nucleolus" evidence=IEA

GO:0005515 "protein binding" evidence=IPI

GO:0003713 "transcription coactivator activity" evidence=TAS

GO:0005634 "nucleus" evidence=TAS

DICTYBASE|DDB_G0293576 esf2 "U3 snoRNP-associated protein Esf2" [Dictyostelium discoideum (taxid:44689)]

 Score = 254 (94.5 bits), Expect = 9.0e-22, P = 9.0e-22
 Identities = 60/205 (29%), Positives = 98/205 (47%)

Query:    22 LKPKDNTENSKKYK-----KGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMXXXXXXX 76
             +KP D  E  KK K     KGIIYLS +P  M   +L + ++++G+V R++L+       
Sbjct:    91 IKPMD-IEKMKKLKEQNENKGIIYLSTIPSRMKPAKLKQLLAKYGKVTRMHLVRANVERK 149

Query:    77 XXXXXXQFTEGWIEFLXXXXXXXXXXXYNNTQIDCRKRSKHYDFIWNFKYLPRFKWIHLN 136
                    F EGWIEF             NN  +  + R  H D +WN +YLP+FKW HL 
Sbjct:   150 NHRND-MFKEGWIEFEDKALARKIATILNNIPMGGKARDIHKDCLWNLRYLPKFKWHHLQ 208

Query:   137 ERLAYEKQAHRQKLRAEIAEAKREALYFSNNLDVADRIQKKNGKKKTNVPEQ------SS 190
             ++L  ++    +KLR EI + +++ L     ++++  + +K+  K   + E+        
Sbjct:   209 DKLVSQRMERDKKLRLEINQVRKQNLILLEQVELSKHVNQKHESKGKPIKEKVVRTFKQR 268

Query:   191 NKKNDGKGKQIVKKSNTKPVEDRKQ 215
             +   D     I  K   K V ++KQ
Sbjct:   269 SSHEDSLNSNISSKVLEKVVSNKKQ 293

GO:0003676 "nucleic acid binding" evidence=IEA

GO:0000166 "nucleotide binding" evidence=IEA

GO:0042254 "ribosome biogenesis" evidence=IEA

GO:0006364 "rRNA processing" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

GO:0003723 "RNA binding" evidence=IEA

GO:0005730 "nucleolus" evidence=IEA

UNIPROTKB|Q148M8 ABT1 "Activator of basal transcription 1" [Bos taurus (taxid:9913)]

 Score = 253 (94.1 bits), Expect = 1.1e-21, P = 1.1e-21
 Identities = 62/189 (32%), Positives = 91/189 (48%)

Query:     8 SNESSPAEEPGKYVLKPKDNTENSKK-YKKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRV 66
             S++   AEE  +   + +D    SKK    GI+YL  +PP      +   +S +GEVGRV
Sbjct:    19 SHQKLEAEEEQE---ESEDAAGGSKKRVVPGIVYLGHIPPRFRPLHVRNLLSAYGEVGRV 75

Query:    67 YLMX---------------XXXXXXXXXXXXQFTEGWIEFLXXXXXXXXXXXYNNTQIDC 111
             +                               +TEGW+EF             +NT +  
Sbjct:    76 FFQAEDGFVKRKKKAAAASAAGGKKRSKYSKDYTEGWVEFRDKRVAKRVAVSLHNTPMGS 135

Query:   112 RKRSK-HYDFIWNFKYLPRFKWIHLNERLAYEKQAHRQKLRAEIAEAKREALYFSNNLDV 170
             R+RS   YD +WN KYL RF W HL+E LA+E+Q  RQ+LRAE+A+AKRE  ++  +++ 
Sbjct:   136 RRRSPFRYD-LWNLKYLHRFTWSHLSEHLAFERQVRRQRLRAEVAQAKRETDFYLRSVER 194

Query:   171 ADRIQKKNG 179
               R    +G
Sbjct:   195 GQRFLAADG 203

GO:0005730 "nucleolus" evidence=IEA

GO:0021522 "spinal cord motor neuron differentiation" evidence=IEA

GO:0006366 "transcription from RNA polymerase II promoter" evidence=IEA

GO:0006357 "regulation of transcription from RNA polymerase II promoter" evidence=IEA

GO:0005667 "transcription factor complex" evidence=IEA

GO:0003723 "RNA binding" evidence=IEA

GO:0003677 "DNA binding" 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)
P0CL96	ESF2_CRYNJ	No assigned EC number	0.3267	0.8243	0.6879	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	222
cd12263	98	cd12263, RRM_ABT1_like, RNA recognition motif foun	1e-37
pfam14259	69	pfam14259, RRM_6, RNA recognition motif (a	9e-07
cd00590	72	cd00590, RRM_SF, RNA recognition motif (RRM) super	1e-05
cd12307	74	cd12307, RRM_NIFK_like, RNA recognition motif in n	8e-05
smart00360	73	smart00360, RRM, RNA recognition motif	9e-05
cd12552	77	cd12552, RRM_Nop15p, RNA recognition motif in yeas	2e-04
cd12389	77	cd12389, RRM2_RAVER, RNA recognition motif 2 in ri	0.003

>gnl|CDD|240709 cd12263, RRM_ABT1_like, RNA recognition motif found in activator of basal transcription 1 (ABT1) and similar proteins

 Score =  126 bits (318), Expect = 1e-37
 Identities = 51/98 (52%), Positives = 68/98 (69%), Gaps = 6/98 (6%)

Query: 37  GIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMP------KKRKPGEKKPAKQFTEGWIE 90
           GI+YLS++PP MN  +L + +S++GEVGR+YL P      K+RK       K+FTEGW+E
Sbjct: 1   GIVYLSRIPPRMNPAKLRQLLSQYGEVGRIYLQPEDPAKRKRRKKKGGNKKKKFTEGWVE 60

Query: 91  FLKKKVAKQVAAQYNNTQIDCRKRSKHYDFIWNFKYLP 128
           F  KKVAK+VA   NNT I  +KRS++ D +WN KYLP
Sbjct: 61  FEDKKVAKRVAESLNNTPIGGKKRSRYRDDLWNLKYLP 98

This subfamily corresponds to the RRM of novel nuclear proteins termed ABT1 and its homologous counterpart, pre-rRNA-processing protein ESF2 (eighteen S factor 2), from yeast. ABT1 associates with the TATA-binding protein (TBP) and enhances basal transcription activity of class II promoters. Meanwhile, ABT1 could be a transcription cofactor that can bind to DNA in a sequence-independent manner. The yeast ABT1 homolog, ESF2, is a component of 90S preribosomes and 5' ETS-based RNPs. It is previously identified as a putative partner of the TATA-element binding protein. However, it is primarily localized to the nucleolus and physically associates with pre-rRNA processing factors. ESF2 may play a role in ribosome biogenesis. It is required for normal pre-rRNA processing, as well as for SSU processome assembly and function. Both ABT1 and ESF2 contain an RNA recognition motif (RRM), also termed RBD (RNA binding domain) or RNP (ribonucleoprotein domain). . Length = 98

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

 Score = 44.8 bits (107), Expect = 9e-07
 Identities = 19/75 (25%), Positives = 33/75 (44%), Gaps = 8/75 (10%)

Query: 39  IYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAK 98
           +Y+  +PP +    L EF S +G+V  V L+  K +P            ++EF   + A+
Sbjct: 1   LYVRNLPPSVTEEDLREFFSPYGKVEGVRLVRNKDRP--------RGFAFVEFASPEDAE 52

Query: 99  QVAAQYNNTQIDCRK 113
               + N   +D R 
Sbjct: 53  AALKKLNGLVLDGRT 67

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

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

 Score = 41.9 bits (99), Expect = 1e-05
 Identities = 19/75 (25%), Positives = 34/75 (45%), Gaps = 7/75 (9%)

Query: 39  IYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAK 98
           +++  +PP      L E  S+FGE+  V ++  K         K F   ++EF   + A+
Sbjct: 1   LFVGNLPPDTTEEDLRELFSKFGEIESVRIVRDKDGKS-----KGF--AFVEFESPEDAE 53

Query: 99  QVAAQYNNTQIDCRK 113
           +     N  ++D RK
Sbjct: 54  KALEALNGKELDGRK 68

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|240753 cd12307, RRM_NIFK_like, RNA recognition motif in nucleolar protein interacting with the FHA domain of pKI-67 (NIFK) and similar proteins

 Score = 39.5 bits (93), Expect = 8e-05
 Identities = 21/69 (30%), Positives = 36/69 (52%), Gaps = 6/69 (8%)

Query: 38  IIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVA 97
           ++Y+  +P      +L ++ S+FG V R+ L  + +K G+ K        ++EF   +VA
Sbjct: 1   VVYIGHLPHGFYEPELRKYFSQFGTVTRLRL-SRSKKTGKSK-----GYAFVEFESPEVA 54

Query: 98  KQVAAQYNN 106
           K VA   NN
Sbjct: 55  KIVAETMNN 63

This subgroup corresponds to the RRM of NIFK and Nop15p. NIFK, also termed MKI67 FHA domain-interacting nucleolar phosphoprotein, or nucleolar phosphoprotein Nopp34, is a putative RNA-binding protein interacting with the forkhead associated (FHA) domain of pKi-67 antigen in a mitosis-specific and phosphorylation-dependent manner. It is nucleolar in interphase but associates with condensed mitotic chromosomes. This family also includes Saccharomyces cerevisiae YNL110C gene encoding ribosome biogenesis protein 15 (Nop15p), also termed nucleolar protein 15. Both, NIFK and Nop15p, contain an RNA recognition motif (RRM), also termed RBD (RNA binding domain) or RNP (ribonucleoprotein domain). . Length = 74

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

 Score = 39.1 bits (92), Expect = 9e-05
 Identities = 19/72 (26%), Positives = 36/72 (50%), Gaps = 6/72 (8%)

Query: 39  IYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAK 98
           +++  +PP     +L E  S+FG+V  V L+  K    E   +K F   ++EF  ++ A+
Sbjct: 2   LFVGNLPPDTTEEELRELFSKFGKVESVRLVRDK----ETGKSKGF--AFVEFESEEDAE 55

Query: 99  QVAAQYNNTQID 110
           +     N  ++D
Sbjct: 56  KALEALNGKELD 67

Length = 73

>gnl|CDD|240996 cd12552, RRM_Nop15p, RNA recognition motif in yeast ribosome biogenesis protein 15 (Nop15p) and similar proteins

 Score = 38.6 bits (90), Expect = 2e-04
 Identities = 22/81 (27%), Positives = 34/81 (41%), Gaps = 6/81 (7%)

Query: 38  IIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVA 97
           +IY+  +P      +L ++ S+FG V  V      R    KK       G+I+FL  +VA
Sbjct: 1   VIYIGHLPHGFLEKELKKYFSQFGTVKNV------RVARSKKTGNSKHYGFIQFLNPEVA 54

Query: 98  KQVAAQYNNTQIDCRKRSKHY 118
              A   NN  +  +    H 
Sbjct: 55  AIAAKSMNNYLLMGKVLQVHV 75

This subgroup corresponds to the RRM of Nop15p, also termed nucleolar protein 15, which is encoded by YNL110C from Saccharomyces cerevisiae, and localizes to the nucleoplasm and nucleolus. Nop15p has been identified as a component of a pre-60S particle. It interacts with RNA components of the early pre-60S particles. Furthermore, Nop15p binds directly to a pre-rRNA transcript in vitro and is required for pre-rRNA processing. It functions as a ribosome synthesis factor required for the 5' to 3' exonuclease digestion that generates the 5' end of the major, short form of the 5.8S rRNA as well as for processing of 27SB to 7S pre-rRNA. Nop15p also play a specific role in cell cycle progression. Nop15p contains an RNA recognition motif (RRM), also termed RBD (RNA binding domain) or RNP (ribonucleoprotein domain). . Length = 77

>gnl|CDD|240835 cd12389, RRM2_RAVER, RNA recognition motif 2 in ribonucleoprotein PTB-binding raver-1, raver-2 and similar proteins

 Score = 35.3 bits (82), Expect = 0.003
 Identities = 21/75 (28%), Positives = 33/75 (44%), Gaps = 6/75 (8%)

Query: 39  IYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAK 98
           + +  +P      Q  E +S FG V R +L+  +   GE K       G++E+  K  A 
Sbjct: 2   LCVGNLPLEFTDEQFRELVSPFGAVERCFLVYSE-STGESK-----GYGFVEYASKASAL 55

Query: 99  QVAAQYNNTQIDCRK 113
           +   Q +  QI  RK
Sbjct: 56  KAKNQLDGKQIGGRK 70

This subfamily corresponds to the RRM2 of raver-1 and raver-2. Raver-1 is a ubiquitously expressed heterogeneous nuclear ribonucleoprotein (hnRNP) that serves as a co-repressor of the nucleoplasmic splicing repressor polypyrimidine tract-binding protein (PTB)-directed splicing of select mRNAs. It shuttles between the cytoplasm and the nucleus and can accumulate in the perinucleolar compartment, a dynamic nuclear substructure that harbors PTB. Raver-1 also modulates focal adhesion assembly by binding to the cytoskeletal proteins, including alpha-actinin, vinculin, and metavinculin (an alternatively spliced isoform of vinculin) at adhesion complexes, particularly in differentiated muscle tissue. Raver-2 is a novel member of the heterogeneous nuclear ribonucleoprotein (hnRNP) family. It shows high sequence homology to raver-1. Raver-2 exerts a spatio-temporal expression pattern during embryogenesis and is mainly limited to differentiated neurons and glia cells. Although it displays nucleo-cytoplasmic shuttling in heterokaryons, raver2 localizes to the nucleus in glia cells and neurons. Raver-2 can interact with PTB and may participate in PTB-mediated RNA-processing. However, there is no evidence indicating that raver-2 can bind to cytoplasmic proteins. Both, raver-1 and raver-2, contain three N-terminal RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), two putative nuclear localization signals (NLS) at the N- and C-termini, a central leucine-rich region, and a C-terminal region harboring two [SG][IL]LGxxP motifs. They binds to RNA through the RRMs. In addition, the two [SG][IL]LGxxP motifs serve as the PTB-binding motifs in raver1. However, raver-2 interacts with PTB through the SLLGEPP motif only. . Length = 77

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	222
KOG3152|consensus	278		100.0
PF00076	70	RRM_1: RNA recognition motif. (a.k.a. RRM, RBD, or	99.74
PLN03134	144	glycine-rich RNA-binding protein 4; Provisional	99.71
TIGR01661	352	ELAV_HUD_SF ELAV/HuD family splicing factor. These	99.68
TIGR01661	352	ELAV_HUD_SF ELAV/HuD family splicing factor. These	99.67
PF14259	70	RRM_6: RNA recognition motif (a.k.a. RRM, RBD, or	99.64
TIGR01628	562	PABP-1234 polyadenylate binding protein, human typ	99.58
TIGR01628	562	PABP-1234 polyadenylate binding protein, human typ	99.57
TIGR01659	346	sex-lethal sex-lethal family splicing factor. This	99.57
KOG0125|consensus	376		99.56
smart00362	72	RRM_2 RNA recognition motif.	99.56
TIGR01645	612	half-pint poly-U binding splicing factor, half-pin	99.53
TIGR01645	612	half-pint poly-U binding splicing factor, half-pin	99.52
COG0724	306	RNA-binding proteins (RRM domain) [General functio	99.5
smart00360	71	RRM RNA recognition motif.	99.5
TIGR01642	509	U2AF_lg U2 snRNP auxilliary factor, large subunit,	99.5
TIGR01659	346	sex-lethal sex-lethal family splicing factor. This	99.49
TIGR01622	457	SF-CC1 splicing factor, CC1-like family. A homolog	99.47
PLN03120	260	nucleic acid binding protein; Provisional	99.47
KOG4208|consensus	214		99.47
KOG0122|consensus	270		99.46
TIGR01648	578	hnRNP-R-Q heterogeneous nuclear ribonucleoprotein	99.44
cd00590	74	RRM RRM (RNA recognition motif), also known as RBD	99.43
KOG0107|consensus	195		99.43
KOG0126|consensus	219		99.41
TIGR01622	457	SF-CC1 splicing factor, CC1-like family. A homolog	99.41
PLN03121	243	nucleic acid binding protein; Provisional	99.4
PLN03213	759	repressor of silencing 3; Provisional	99.4
KOG0148|consensus	321		99.38
TIGR01649	481	hnRNP-L_PTB hnRNP-L/PTB/hephaestus splicing factor	99.38
KOG0123|consensus	369		99.38
KOG0113|consensus	335		99.37
KOG0105|consensus	241		99.37
KOG0108|consensus	435		99.35
KOG0148|consensus	321		99.34
KOG0149|consensus	247		99.34
KOG4207|consensus	256		99.33
smart00361	70	RRM_1 RNA recognition motif.	99.32
KOG0117|consensus	506		99.25
TIGR01649	481	hnRNP-L_PTB hnRNP-L/PTB/hephaestus splicing factor	99.24
KOG0147|consensus	549		99.24
KOG0121|consensus	153		99.22
KOG0123|consensus	369		99.22
TIGR01648	578	hnRNP-R-Q heterogeneous nuclear ribonucleoprotein	99.21
KOG0124|consensus	544		99.21
KOG0114|consensus	124		99.21
KOG0145|consensus	360		99.2
PF13893	56	RRM_5: RNA recognition motif. (a.k.a. RRM, RBD, or	99.19
KOG0131|consensus	203		99.18
KOG0111|consensus	298		99.15
KOG0130|consensus	170		99.12
KOG0146|consensus	371		99.05
KOG0145|consensus	360		99.04
TIGR01642	509	U2AF_lg U2 snRNP auxilliary factor, large subunit,	98.99
KOG0144|consensus	510		98.95
KOG0144|consensus	510		98.93
KOG0131|consensus	203		98.93
KOG0127|consensus	678		98.9
KOG0127|consensus	678		98.89
KOG0124|consensus	544		98.88
KOG0117|consensus	506		98.88
KOG0106|consensus	216		98.82
KOG0415|consensus	479		98.81
KOG0109|consensus	346		98.78
KOG4661|consensus	940		98.75
KOG0151|consensus	877		98.71
KOG0110|consensus	725		98.68
KOG0533|consensus	243		98.67
KOG4206|consensus	221		98.67
KOG0110|consensus	725		98.62
KOG4205|consensus	311		98.58
KOG4660|consensus	549		98.55
KOG4209|consensus	231		98.51
KOG0116|consensus	419		98.47
KOG0226|consensus	290		98.46
KOG0109|consensus	346		98.43
KOG0132|consensus	894		98.43
KOG4212|consensus	608		98.43
KOG0153|consensus	377		98.39
PF04059	97	RRM_2: RNA recognition motif 2; InterPro: IPR00720	98.33
KOG0146|consensus	371		98.31
KOG4212|consensus	608		98.3
KOG1548|consensus	382		98.28
KOG4205|consensus	311		98.24
KOG0120|consensus	500		98.12
PF08777	105	RRM_3: RNA binding motif; InterPro: IPR014886 This	97.88
KOG4210|consensus	285		97.88
KOG4454|consensus	267		97.63
KOG2314|consensus	698		97.58
COG5175	480	MOT2 Transcriptional repressor [Transcription]	97.5
KOG1457|consensus	284		97.47
PF11608	90	Limkain-b1: Limkain b1; InterPro: IPR024582 This e	97.29
KOG1190|consensus	492		97.2
KOG0106|consensus	216		97.16
KOG0147|consensus	549		97.13
PF14605	53	Nup35_RRM_2: Nup53/35/40-type RNA recognition moti	97.09
KOG1457|consensus	284		97.02
KOG0115|consensus	275		96.96
PF08675	87	RNA_bind: RNA binding domain; InterPro: IPR014789	96.95
KOG1995|consensus	351		96.89
KOG1548|consensus	382		96.84
KOG1456|consensus	494		96.64
KOG4211|consensus	510		96.59
KOG4307|consensus	944		96.46
KOG4206|consensus	221		96.26
KOG4211|consensus	510		96.2
KOG1996|consensus	378		96.12
KOG1855|consensus	484		95.76
KOG2193|consensus	584		95.76
KOG0128|consensus	881		95.7
KOG0120|consensus	500		95.68
KOG1456|consensus	494		95.28
KOG0105|consensus	241		95.12
PF03467	176	Smg4_UPF3: Smg-4/UPF3 family; InterPro: IPR005120	95.02
KOG4676|consensus	479		94.85
PF05172	100	Nup35_RRM: Nup53/35/40-type RNA recognition motif;	94.82
PF08952	146	DUF1866: Domain of unknown function (DUF1866) ; In	94.82
KOG0129|consensus	520		94.56
KOG1190|consensus	492		94.16
KOG0128|consensus	881		93.92
KOG0112|consensus	975		93.78
KOG2202|consensus	260		93.73
KOG4849|consensus	498		93.15
KOG0112|consensus	975		92.6
KOG0129|consensus	520		92.36
KOG4307|consensus	944		91.29
KOG2891|consensus	445		91.2
KOG1365|consensus	508		91.11
KOG2068|consensus	327		90.86
PF04847	184	Calcipressin: Calcipressin; InterPro: IPR006931 Ca	90.02
PF10309	62	DUF2414: Protein of unknown function (DUF2414); In	89.49
KOG1365|consensus	508		89.34
KOG2416|consensus	718		89.16
KOG0804|consensus	493		87.84
PF03880	74	DbpA: DbpA RNA binding domain ; InterPro: IPR00558	86.22
KOG2253|consensus	668		85.43
PF07576	110	BRAP2: BRCA1-associated protein 2; InterPro: IPR01	83.29

>KOG3152|consensus

Probab=100.00  E-value=4.9e-49  Score=346.97  Aligned_cols=150  Identities=44%  Similarity=0.840  Sum_probs=139.3

Q ss_pred             ccCCccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCC------CCCCCCCCccEEEEEecchHHHHHHHHHhc
Q psy3854          32 KKYKKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKP------GEKKPAKQFTEGWIEFLKKKVAKQVAAQYN  105 (222)
Q Consensus        32 k~~~~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tg------ksKkk~~~~g~GfVEF~dk~~Ak~A~~~LN  105 (222)
                      ++.++|+||||||||+|++..||+||++||+|+||||+|++.+.      +.++++..|.+|||||.++++|+++|+.||
T Consensus        70 kkrk~GVvylS~IPp~m~~~rlReil~~yGeVGRvylqpE~~s~~~~r~~~~~n~~~~y~EGWvEF~~KrvAK~iAe~Ln  149 (278)
T KOG3152|consen   70 KKRKTGVVYLSNIPPYMDPVRLREILSQYGEVGRVYLQPEDDSKRAARKRKGGNYKKLYSEGWVEFISKRVAKRIAELLN  149 (278)
T ss_pred             hhccceEEEeccCCCccCHHHHHHHHHhccccceEEecchhhHHHHHHhhcCCCccccchhHHHHHHHHHHHHHHHHHhC
Confidence            34499999999999999999999999999999999999998761      112245679999999999999999999999


Q ss_pred             CCccCCcccccccccccccccCCCcccchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHchHHhHHHHHHhccc
Q psy3854         106 NTQIDCRKRSKHYDFIWNFKYLPRFKWIHLNERLAYEKQAHRQKLRAEIAEAKREALYFSNNLDVADRIQKKNGKK  181 (222)
Q Consensus       106 g~~i~Grk~~~~~~~lWnikyL~~fkW~~L~e~~a~ek~~R~~rLr~e~~qakke~n~ylknld~~~~~~k~~~~~  181 (222)
                      |++|||++.+.|++|||||||||+|+|.||+|++|||+++|++||..|++||++++.+|+.|||+++.+++++.+.
T Consensus       150 n~~Iggkk~S~~~~dlWNmKYLprFKW~hLTEqiayE~avrk~RL~~EvsQArk~~~ff~~~vE~~k~~~~i~~k~  225 (278)
T KOG3152|consen  150 NTPIGGKKKSPFRDDLWNMKYLPRFKWVHLTEQIAYENAVRKQRLNVEVSQARKEAAFFLRNVEQGKMFEKIDKKM  225 (278)
T ss_pred             CCccCCCCCCchHHhhhhhhhccCcchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHH
Confidence            9999999999999999999999999999999999999999999999999999999999999999999998887764

>PF00076 RRM_1: RNA recognition motif

Probab=99.74  E-value=4.2e-18  Score=118.26  Aligned_cols=69  Identities=25%  Similarity=0.523  Sum_probs=64.9

Q ss_pred             EEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCCccc
Q psy3854          39 IYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDCRKR  114 (222)
Q Consensus        39 VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~Grk~  114 (222)
                      |||+|||+++++++|+++|++||.|..+.++++ .+++++      ++|||+|.++++|+.|++.|||..++|+++
T Consensus         1 l~v~nlp~~~t~~~l~~~f~~~g~i~~~~~~~~-~~~~~~------~~a~V~F~~~~~a~~a~~~l~g~~~~~~~i   69 (70)
T PF00076_consen    1 LYVGNLPPDVTEEELRDFFSQFGKIESIKVMRN-SSGKSK------GYAFVEFESEEDAEKALEELNGKKINGRKI   69 (70)
T ss_dssp             EEEESETTTSSHHHHHHHHHTTSTEEEEEEEEE-TTSSEE------EEEEEEESSHHHHHHHHHHHTTEEETTEEE
T ss_pred             cEEcCCCCcCCHHHHHHHHHHhhhccccccccc-cccccc------ceEEEEEcCHHHHHHHHHHcCCCEECccCc
Confidence            799999999999999999999999999999997 446666      999999999999999999999999999975

(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 ....

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

Probab=99.71  E-value=5e-17  Score=133.03  Aligned_cols=79  Identities=11%  Similarity=0.254  Sum_probs=74.1

Q ss_pred             cccCCccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccC
Q psy3854          31 SKKYKKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQID  110 (222)
Q Consensus        31 ~k~~~~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~  110 (222)
                      .-....+.|||+|||+.+++++|+++|++||.|.+|.|+.|..+++++      |||||+|.+.++|+.|++.|||..|.
T Consensus        29 ~~~~~~~~lfVgnL~~~~te~~L~~~F~~~G~I~~v~i~~d~~tg~~k------GfaFV~F~~~e~A~~Al~~lng~~i~  102 (144)
T PLN03134         29 SLRLMSTKLFIGGLSWGTDDASLRDAFAHFGDVVDAKVIVDRETGRSR------GFGFVNFNDEGAATAAISEMDGKELN  102 (144)
T ss_pred             cccCCCCEEEEeCCCCCCCHHHHHHHHhcCCCeEEEEEEecCCCCCcc------eEEEEEECCHHHHHHHHHHcCCCEEC
Confidence            345567789999999999999999999999999999999999999998      99999999999999999999999999


Q ss_pred             Ccccc
Q psy3854         111 CRKRS  115 (222)
Q Consensus       111 Grk~~  115 (222)
                      |+++.
T Consensus       103 Gr~l~  107 (144)
T PLN03134        103 GRHIR  107 (144)
T ss_pred             CEEEE
Confidence            99873

>TIGR01661 ELAV_HUD_SF ELAV/HuD family splicing factor

Probab=99.68  E-value=1.1e-16  Score=143.67  Aligned_cols=75  Identities=13%  Similarity=0.297  Sum_probs=71.9

Q ss_pred             CccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCCccc
Q psy3854          35 KKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDCRKR  114 (222)
Q Consensus        35 ~~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~Grk~  114 (222)
                      .+.+|||+|||+.+++++|+++|++||+|.+|+|++|..+|+++      |||||+|.+.++|..|++.|||..|.|+++
T Consensus         2 ~~~~l~V~nLp~~~~e~~l~~~F~~~G~i~~v~i~~d~~~g~s~------g~afV~f~~~~~A~~Ai~~l~g~~l~g~~i   75 (352)
T TIGR01661         2 SKTNLIVNYLPQTMTQEEIRSLFTSIGEIESCKLVRDKVTGQSL------GYGFVNYVRPEDAEKAVNSLNGLRLQNKTI   75 (352)
T ss_pred             CCcEEEEeCCCCCCCHHHHHHHHHccCCEEEEEEEEcCCCCccc------eEEEEEECcHHHHHHHHhhcccEEECCeeE
Confidence            46799999999999999999999999999999999999999998      999999999999999999999999999988


Q ss_pred             c
Q psy3854         115 S  115 (222)
Q Consensus       115 ~  115 (222)
                      .
T Consensus        76 ~   76 (352)
T TIGR01661        76 K   76 (352)
T ss_pred             E
Confidence            4

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

>TIGR01661 ELAV_HUD_SF ELAV/HuD family splicing factor

Probab=99.67  E-value=1.2e-16  Score=143.53  Aligned_cols=72  Identities=18%  Similarity=0.254  Sum_probs=70.1

Q ss_pred             EEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCCcccc
Q psy3854          38 IIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDCRKRS  115 (222)
Q Consensus        38 ~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~Grk~~  115 (222)
                      +|||+|||+.+++++|+++|++||.|.+|.|+.|..+|++|      |||||+|.+.++|..|+..|||..|+||.+.
T Consensus       271 ~lfV~NL~~~~~e~~L~~~F~~fG~v~~v~i~~d~~t~~sk------G~aFV~F~~~~~A~~Ai~~lnG~~~~gr~i~  342 (352)
T TIGR01661       271 CIFVYNLSPDTDETVLWQLFGPFGAVQNVKIIRDLTTNQCK------GYGFVSMTNYDEAAMAILSLNGYTLGNRVLQ  342 (352)
T ss_pred             EEEEeCCCCCCCHHHHHHHHHhCCCeEEEEEeEcCCCCCcc------ceEEEEECCHHHHHHHHHHhCCCEECCeEEE
Confidence            69999999999999999999999999999999999899999      9999999999999999999999999999985

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

>PF14259 RRM_6: RNA recognition motif (a

Probab=99.64  E-value=6.5e-16  Score=108.94  Aligned_cols=69  Identities=33%  Similarity=0.559  Sum_probs=63.5

Q ss_pred             EEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCCccc
Q psy3854          39 IYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDCRKR  114 (222)
Q Consensus        39 VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~Grk~  114 (222)
                      |||+|||+.+++++|+++|+.||.|..|.+..+.. +.++      |+|||+|.+.++|+.|+..+||..|+|+++
T Consensus         1 v~i~nlp~~~~~~~l~~~f~~~g~v~~v~~~~~~~-~~~~------~~a~v~f~~~~~a~~al~~~~~~~~~g~~l   69 (70)
T PF14259_consen    1 VYISNLPPSTTEEDLRNFFSRFGPVEKVRLIKNKD-GQSR------GFAFVEFSSEEDAKRALELLNGKEIDGRKL   69 (70)
T ss_dssp             EEEESSTTT--HHHHHHHCTTSSBEEEEEEEESTT-SSEE------EEEEEEESSHHHHHHHHHHHTTEEETTEEE
T ss_pred             CEEeCCCCCCCHHHHHHHHHhcCCcceEEEEeeec-cccC------CEEEEEeCCHHHHHHHHHHCCCcEECCEEc
Confidence            79999999999999999999999999999999876 7766      999999999999999999999999999975

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 ....

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

Probab=99.58  E-value=4.2e-15  Score=142.79  Aligned_cols=96  Identities=18%  Similarity=0.267  Sum_probs=84.8

Q ss_pred             cCCccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCCc
Q psy3854          33 KYKKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDCR  112 (222)
Q Consensus        33 ~~~~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~Gr  112 (222)
                      .....+|||+|||+.+++++|+++|++||.|.+|.++.+ .+|+++      |||||+|.+.++|.+|+..|||..|+|+
T Consensus       282 ~~~~~~l~V~nl~~~~~~~~L~~~F~~~G~i~~~~i~~d-~~g~~~------g~gfV~f~~~~~A~~A~~~~~g~~~~gk  354 (562)
T TIGR01628       282 KAQGVNLYVKNLDDTVTDEKLRELFSECGEITSAKVMLD-EKGVSR------GFGFVCFSNPEEANRAVTEMHGRMLGGK  354 (562)
T ss_pred             ccCCCEEEEeCCCCccCHHHHHHHHHhcCCeEEEEEEEC-CCCCcC------CeEEEEeCCHHHHHHHHHHhcCCeeCCc
Confidence            445678999999999999999999999999999999998 568888      9999999999999999999999999999


Q ss_pred             ccccccccccccccCCCcccchhhHHHHHHHHHHHHHHHHHHHH
Q psy3854         113 KRSKHYDFIWNFKYLPRFKWIHLNERLAYEKQAHRQKLRAEIAE  156 (222)
Q Consensus       113 k~~~~~~~lWnikyL~~fkW~~L~e~~a~ek~~R~~rLr~e~~q  156 (222)
                      ++                     ...+|..+..|.+.+...+.|
T Consensus       355 ~l---------------------~V~~a~~k~~~~~~~~~~~~q  377 (562)
T TIGR01628       355 PL---------------------YVALAQRKEQRRAHLQDQFMQ  377 (562)
T ss_pred             ee---------------------EEEeccCcHHHHHHHHHHHHH
Confidence            86                     223567777888888877765

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

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

Probab=99.57  E-value=2e-15  Score=144.91  Aligned_cols=120  Identities=21%  Similarity=0.302  Sum_probs=101.2

Q ss_pred             ccCCccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccC-
Q psy3854          32 KKYKKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQID-  110 (222)
Q Consensus        32 k~~~~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~-  110 (222)
                      .....++|||+|||+.+++++|+++|++||+|.+|.++.+. +|+++      |||||+|.+.++|.+|++.|||..|. 
T Consensus       174 ~~~~~~~l~V~nl~~~~tee~L~~~F~~fG~i~~~~i~~~~-~g~~~------G~afV~F~~~e~A~~Av~~l~g~~i~~  246 (562)
T TIGR01628       174 PLKKFTNLYVKNLDPSVNEDKLRELFAKFGEITSAAVMKDG-SGRSR------GFAFVNFEKHEDAAKAVEEMNGKKIGL  246 (562)
T ss_pred             cccCCCeEEEeCCCCcCCHHHHHHHHHhcCCEEEEEEEECC-CCCcc------cEEEEEECCHHHHHHHHHHhCCcEecc
Confidence            34456789999999999999999999999999999999885 47777      99999999999999999999999999 


Q ss_pred             ---CcccccccccccccccCCCcccchhhHHHHHHHHHHHHHHHHHHHHHHHH-------HHHHHHchHHhHHHHHHhc
Q psy3854         111 ---CRKRSKHYDFIWNFKYLPRFKWIHLNERLAYEKQAHRQKLRAEIAEAKRE-------ALYFSNNLDVADRIQKKNG  179 (222)
Q Consensus       111 ---Grk~~~~~~~lWnikyL~~fkW~~L~e~~a~ek~~R~~rLr~e~~qakke-------~n~ylknld~~~~~~k~~~  179 (222)
                         |+.+                     ....++.+.+|.+.++..+.+.+.+       .++|+.||+.....+.+++
T Consensus       247 ~~~g~~l---------------------~v~~a~~k~er~~~~~~~~~~~~~~~~~~~~~~~l~V~nl~~~~~~~~L~~  304 (562)
T TIGR01628       247 AKEGKKL---------------------YVGRAQKRAEREAELRRKFEELQQERKMKAQGVNLYVKNLDDTVTDEKLRE  304 (562)
T ss_pred             cccceee---------------------EeecccChhhhHHHHHhhHHhhhhhhhcccCCCEEEEeCCCCccCHHHHHH
Confidence               6653                     2235566777777787777777665       3799999999988888775

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

>TIGR01659 sex-lethal sex-lethal family splicing factor

Probab=99.57  E-value=8e-15  Score=135.48  Aligned_cols=77  Identities=9%  Similarity=0.180  Sum_probs=72.6

Q ss_pred             cCCccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCCc
Q psy3854          33 KYKKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDCR  112 (222)
Q Consensus        33 ~~~~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~Gr  112 (222)
                      ....++|||++||+++++++|+++|+.||+|.+|.|+.|..+++++      |||||+|.+.++|+.|++.|||..|.++
T Consensus       104 ~~~~~~LfVgnLp~~~te~~L~~lF~~~G~V~~v~i~~d~~tg~sr------GyaFVeF~~~e~A~~Ai~~LnG~~l~gr  177 (346)
T TIGR01659       104 NNSGTNLIVNYLPQDMTDRELYALFRTIGPINTCRIMRDYKTGYSF------GYAFVDFGSEADSQRAIKNLNGITVRNK  177 (346)
T ss_pred             CCCCcEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEecCCCCccC------cEEEEEEccHHHHHHHHHHcCCCccCCc
Confidence            3456789999999999999999999999999999999999999988      9999999999999999999999999999


Q ss_pred             ccc
Q psy3854         113 KRS  115 (222)
Q Consensus       113 k~~  115 (222)
                      ++.
T Consensus       178 ~i~  180 (346)
T TIGR01659       178 RLK  180 (346)
T ss_pred             eee
Confidence            874

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).

>KOG0125|consensus

Probab=99.56  E-value=5.1e-15  Score=135.45  Aligned_cols=99  Identities=23%  Similarity=0.294  Sum_probs=80.5

Q ss_pred             ccccCCccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCcc
Q psy3854          30 NSKKYKKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQI  109 (222)
Q Consensus        30 ~~k~~~~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i  109 (222)
                      ...+..+..|||||||+.+++.||+.||.+||+|.+|.|+.+++.  ||      |||||.|++..||++|-+.|||+.|
T Consensus        90 s~s~~~pkRLhVSNIPFrFRdpDL~aMF~kfG~VldVEIIfNERG--SK------GFGFVTmen~~dadRARa~LHgt~V  161 (376)
T KOG0125|consen   90 SSSKDTPKRLHVSNIPFRFRDPDLRAMFEKFGKVLDVEIIFNERG--SK------GFGFVTMENPADADRARAELHGTVV  161 (376)
T ss_pred             CCCCCCCceeEeecCCccccCccHHHHHHhhCceeeEEEEeccCC--CC------ccceEEecChhhHHHHHHHhhccee
Confidence            346668889999999999999999999999999999999998763  55      9999999999999999999999999


Q ss_pred             CCccccc--ccccccc--cccCCC-cccchhh
Q psy3854         110 DCRKRSK--HYDFIWN--FKYLPR-FKWIHLN  136 (222)
Q Consensus       110 ~Grk~~~--~~~~lWn--ikyL~~-fkW~~L~  136 (222)
                      .||++-.  -..-+-|  .+-||. -.|..+.
T Consensus       162 EGRkIEVn~ATarV~n~K~~v~p~~~g~~~~~  193 (376)
T KOG0125|consen  162 EGRKIEVNNATARVHNKKKKVLPYPNGWKLLP  193 (376)
T ss_pred             eceEEEEeccchhhccCCcccCCCcccccccc
Confidence            9999831  0011112  244555 5587764

>smart00362 RRM_2 RNA recognition motif

Probab=99.56  E-value=1.9e-14  Score=97.59  Aligned_cols=69  Identities=22%  Similarity=0.423  Sum_probs=63.8

Q ss_pred             EEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCCccc
Q psy3854          38 IIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDCRKR  114 (222)
Q Consensus        38 ~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~Grk~  114 (222)
                      .|||++||+.+++++|+++|++||.|..+.+..+.  +.++      |+|||+|.+.++|..|+..|||..+.|+++
T Consensus         1 ~v~i~~l~~~~~~~~l~~~~~~~g~v~~~~~~~~~--~~~~------~~~~v~f~~~~~a~~a~~~~~~~~~~~~~i   69 (72)
T smart00362        1 TLFVGNLPPDVTEEDLKELFSKFGPIESVKIPKDT--GKSK------GFAFVEFESEEDAEKAIEALNGTKLGGRPL   69 (72)
T ss_pred             CEEEcCCCCcCCHHHHHHHHHhcCCEEEEEEecCC--CCCC------ceEEEEeCCHHHHHHHHHHhCCcEECCEEE
Confidence            48999999999999999999999999999998876  4555      999999999999999999999999999875

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

Probab=99.53  E-value=1.9e-14  Score=141.50  Aligned_cols=76  Identities=12%  Similarity=0.167  Sum_probs=72.5

Q ss_pred             CCccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCCcc
Q psy3854          34 YKKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDCRK  113 (222)
Q Consensus        34 ~~~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~Grk  113 (222)
                      ...++|||||||+.+++++|+++|++||+|.+|+|+.|..+|++|      |||||+|.+.++|..|+..|||..|+|++
T Consensus       105 ~~~~rLfVGnLp~~~tEe~Lr~lF~~fG~I~sV~I~~D~~Tgksk------GfAFVeF~s~e~A~~Ai~~lnG~~i~GR~  178 (612)
T TIGR01645       105 AIMCRVYVGSISFELREDTIRRAFDPFGPIKSINMSWDPATGKHK------GFAFVEYEVPEAAQLALEQMNGQMLGGRN  178 (612)
T ss_pred             cCCCEEEEcCCCCCCCHHHHHHHHHccCCEEEEEEeecCCCCCcC------CeEEEEeCcHHHHHHHHHhcCCeEEecce
Confidence            456789999999999999999999999999999999999999998      99999999999999999999999999998


Q ss_pred             cc
Q psy3854         114 RS  115 (222)
Q Consensus       114 ~~  115 (222)
                      +.
T Consensus       179 Ik  180 (612)
T TIGR01645       179 IK  180 (612)
T ss_pred             ee
Confidence            74

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.

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

Probab=99.52  E-value=3e-14  Score=140.07  Aligned_cols=75  Identities=23%  Similarity=0.339  Sum_probs=71.5

Q ss_pred             CccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCCccc
Q psy3854          35 KKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDCRKR  114 (222)
Q Consensus        35 ~~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~Grk~  114 (222)
                      ...+|||+|||+++++++|+++|+.||+|.+|+|+++..+|++|      |||||+|.+.++|..|+..|||..|+|+.+
T Consensus       203 ~~~rLfVgnLp~~vteedLk~lFs~FG~I~svrl~~D~~tgksK------GfGFVeFe~~e~A~kAI~amNg~elgGr~L  276 (612)
T TIGR01645       203 KFNRIYVASVHPDLSETDIKSVFEAFGEIVKCQLARAPTGRGHK------GYGFIEYNNLQSQSEAIASMNLFDLGGQYL  276 (612)
T ss_pred             ccceEEeecCCCCCCHHHHHHHHhhcCCeeEEEEEecCCCCCcC------CeEEEEECCHHHHHHHHHHhCCCeeCCeEE
Confidence            35689999999999999999999999999999999999888888      999999999999999999999999999988


Q ss_pred             c
Q psy3854         115 S  115 (222)
Q Consensus       115 ~  115 (222)
                      .
T Consensus       277 r  277 (612)
T TIGR01645       277 R  277 (612)
T ss_pred             E
Confidence            5

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.

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

Probab=99.50  E-value=6.6e-14  Score=114.79  Aligned_cols=74  Identities=19%  Similarity=0.416  Sum_probs=71.2

Q ss_pred             ccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCCcccc
Q psy3854          36 KGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDCRKRS  115 (222)
Q Consensus        36 ~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~Grk~~  115 (222)
                      ..+|||||||+.+++++|+++|.+||.|.+|.+..+..+|+++      |+|||+|.+.++|..|+..|||..+.|+++.
T Consensus       115 ~~~l~v~nL~~~~~~~~l~~~F~~~g~~~~~~~~~d~~~~~~~------g~~~v~f~~~~~~~~a~~~~~~~~~~~~~~~  188 (306)
T COG0724         115 NNTLFVGNLPYDVTEEDLRELFKKFGPVKRVRLVRDRETGKSR------GFAFVEFESEESAEKAIEELNGKELEGRPLR  188 (306)
T ss_pred             CceEEEeCCCCCCCHHHHHHHHHhcCceeEEEeeeccccCccC------ceEEEEecCHHHHHHHHHHcCCCeECCceeE
Confidence            5899999999999999999999999999999999998889988      9999999999999999999999999999973

>smart00360 RRM RNA recognition motif

Probab=99.50  E-value=8.9e-14  Score=93.70  Aligned_cols=68  Identities=25%  Similarity=0.453  Sum_probs=63.5

Q ss_pred             EcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCCccc
Q psy3854          41 LSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDCRKR  114 (222)
Q Consensus        41 IsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~Grk~  114 (222)
                      |++||+.+++++|+++|++||.|..|.+.++..+++++      |+|||+|.+.++|..|+..|||..++|+++
T Consensus         1 i~~l~~~~~~~~l~~~f~~~g~v~~~~i~~~~~~~~~~------~~a~v~f~~~~~a~~a~~~~~~~~~~~~~~   68 (71)
T smart00360        1 VGNLPPDVTEEELRELFSKFGKIESVRLVRDKDTGKSK------GFAFVEFESEEDAEKALEALNGKELDGRPL   68 (71)
T ss_pred             CCCCCcccCHHHHHHHHHhhCCEeEEEEEeCCCCCCCC------ceEEEEeCCHHHHHHHHHHcCCCeeCCcEE
Confidence            68999999999999999999999999999887767777      999999999999999999999999999875

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

Probab=99.50  E-value=6.4e-14  Score=132.01  Aligned_cols=75  Identities=20%  Similarity=0.296  Sum_probs=71.4

Q ss_pred             CccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCCccc
Q psy3854          35 KKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDCRKR  114 (222)
Q Consensus        35 ~~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~Grk~  114 (222)
                      ....|||+|||+.+++++|+++|+.||.|..|.|+.+..+|.++      |||||+|.+.++|..|+..|||..|+|+++
T Consensus       294 ~~~~l~v~nlp~~~~~~~l~~~f~~~G~i~~~~~~~~~~~g~~~------g~afv~f~~~~~a~~A~~~l~g~~~~~~~l  367 (509)
T TIGR01642       294 SKDRIYIGNLPLYLGEDQIKELLESFGDLKAFNLIKDIATGLSK------GYAFCEYKDPSVTDVAIAALNGKDTGDNKL  367 (509)
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEEecCCCCCcC------eEEEEEECCHHHHHHHHHHcCCCEECCeEE
Confidence            45789999999999999999999999999999999998889888      999999999999999999999999999987


Q ss_pred             c
Q psy3854         115 S  115 (222)
Q Consensus       115 ~  115 (222)
                      .
T Consensus       368 ~  368 (509)
T TIGR01642       368 H  368 (509)
T ss_pred             E
Confidence            4

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

>TIGR01659 sex-lethal sex-lethal family splicing factor

Probab=99.49  E-value=8e-14  Score=128.84  Aligned_cols=74  Identities=16%  Similarity=0.336  Sum_probs=69.2

Q ss_pred             CCccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCCcc
Q psy3854          34 YKKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDCRK  113 (222)
Q Consensus        34 ~~~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~Grk  113 (222)
                      ....+|||+|||+.+++++|+++|++||+|.+|.|++|..++++|      |+|||+|.+.++|..|++.|||+.+.|..
T Consensus       191 ~~~~~lfV~nLp~~vtee~L~~~F~~fG~V~~v~i~~d~~tg~~k------G~aFV~F~~~e~A~~Ai~~lng~~~~g~~  264 (346)
T TIGR01659       191 IKDTNLYVTNLPRTITDDQLDTIFGKYGQIVQKNILRDKLTGTPR------GVAFVRFNKREEAQEAISALNNVIPEGGS  264 (346)
T ss_pred             cccceeEEeCCCCcccHHHHHHHHHhcCCEEEEEEeecCCCCccc------eEEEEEECCHHHHHHHHHHhCCCccCCCc
Confidence            356789999999999999999999999999999999999899988      99999999999999999999999987753

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).

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

Probab=99.47  E-value=1.2e-13  Score=128.85  Aligned_cols=74  Identities=19%  Similarity=0.276  Sum_probs=71.0

Q ss_pred             ccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCCcccc
Q psy3854          36 KGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDCRKRS  115 (222)
Q Consensus        36 ~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~Grk~~  115 (222)
                      ..+|||+|||+.+++++|+++|++||.|.+|.|+.+..+|+++      |||||+|.+.++|..|+..|||..|.|+++.
T Consensus       186 ~~~l~v~nl~~~~te~~l~~~f~~~G~i~~v~~~~d~~~g~~~------g~afV~f~~~e~A~~A~~~l~g~~i~g~~i~  259 (457)
T TIGR01622       186 FLKLYVGNLHFNITEQELRQIFEPFGDIEDVQLHRDPETGRSK------GFGFIQFHDAEEAKEALEVMNGFELAGRPIK  259 (457)
T ss_pred             CCEEEEcCCCCCCCHHHHHHHHHhcCCeEEEEEEEcCCCCccc------eEEEEEECCHHHHHHHHHhcCCcEECCEEEE
Confidence            5789999999999999999999999999999999999888888      9999999999999999999999999999874

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.

>PLN03120 nucleic acid binding protein; Provisional

Probab=99.47  E-value=1.2e-13  Score=123.42  Aligned_cols=70  Identities=14%  Similarity=0.191  Sum_probs=64.1

Q ss_pred             ccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCCcccc
Q psy3854          36 KGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDCRKRS  115 (222)
Q Consensus        36 ~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~Grk~~  115 (222)
                      ...|||+|||+.+++++|+++|+.||+|.+|.|+.+..   ++      |||||+|.+.++|+.|+ .|||..|.|+.+.
T Consensus         4 ~rtVfVgNLs~~tTE~dLrefFS~~G~I~~V~I~~d~~---~~------GfAFVtF~d~eaAe~Al-lLnG~~l~gr~V~   73 (260)
T PLN03120          4 VRTVKVSNVSLKATERDIKEFFSFSGDIEYVEMQSENE---RS------QIAYVTFKDPQGAETAL-LLSGATIVDQSVT   73 (260)
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEeecCC---CC------CEEEEEeCcHHHHHHHH-HhcCCeeCCceEE
Confidence            45799999999999999999999999999999988754   23      89999999999999999 5999999999974

>KOG4208|consensus

Probab=99.47  E-value=7.9e-14  Score=120.71  Aligned_cols=77  Identities=26%  Similarity=0.407  Sum_probs=73.0

Q ss_pred             ccCCccEEEEcCCCCCCCHHHHHHHhhcC-cceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccC
Q psy3854          32 KKYKKGIIYLSKVPPHMNVTQLTEFMSRF-GEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQID  110 (222)
Q Consensus        32 k~~~~g~VYIsnLP~~m~e~~Lr~lFs~f-G~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~  110 (222)
                      .....|++||.+||..+.+..+...|.+| |.|.+++|.++..||.||      |||||||+++++|+-|+++|||+.|+
T Consensus        45 ~~~~~g~~~~~~~p~g~~e~~~~~~~~q~~g~v~r~rlsRnkrTGNSK------gYAFVEFEs~eVA~IaAETMNNYLl~  118 (214)
T KOG4208|consen   45 EQEIEGVVYVDHIPHGFFETEILNYFRQFGGTVTRFRLSRNKRTGNSK------GYAFVEFESEEVAKIAAETMNNYLLM  118 (214)
T ss_pred             ccCCccceeecccccchhHHHHhhhhhhcCCeeEEEEeecccccCCcC------ceEEEEeccHHHHHHHHHHhhhhhhh
Confidence            44578999999999999999999999999 899999999999999999      99999999999999999999999999


Q ss_pred             Cccc
Q psy3854         111 CRKR  114 (222)
Q Consensus       111 Grk~  114 (222)
                      |+-+
T Consensus       119 e~lL  122 (214)
T KOG4208|consen  119 EHLL  122 (214)
T ss_pred             hhee
Confidence            9876

>KOG0122|consensus

Probab=99.46  E-value=3e-13  Score=119.83  Aligned_cols=76  Identities=21%  Similarity=0.312  Sum_probs=69.7

Q ss_pred             ccCCccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCC
Q psy3854          32 KKYKKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDC  111 (222)
Q Consensus        32 k~~~~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~G  111 (222)
                      -......|-|.|||.+|++++|++||-+||.|.||||.+|..||.+|      |||||.|.+.++|.+|+..|||.-+..
T Consensus       185 ~R~D~~tvRvtNLsed~~E~dL~eLf~~fg~i~rvylardK~TG~~k------GFAFVtF~sRddA~rAI~~LnG~gyd~  258 (270)
T KOG0122|consen  185 ERDDEATVRVTNLSEDMREDDLEELFRPFGPITRVYLARDKETGLSK------GFAFVTFESRDDAARAIADLNGYGYDN  258 (270)
T ss_pred             cCCccceeEEecCccccChhHHHHHhhccCccceeEEEEccccCccc------ceEEEEEecHHHHHHHHHHccCcccce
Confidence            34467789999999999999999999999999999999999999999      999999999999999999999986654


Q ss_pred             cc
Q psy3854         112 RK  113 (222)
Q Consensus       112 rk  113 (222)
                      --
T Consensus       259 LI  260 (270)
T KOG0122|consen  259 LI  260 (270)
T ss_pred             EE
Confidence            43

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

Probab=99.44  E-value=6.3e-13  Score=130.19  Aligned_cols=75  Identities=19%  Similarity=0.269  Sum_probs=68.8

Q ss_pred             cCCccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccC-C
Q psy3854          33 KYKKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQID-C  111 (222)
Q Consensus        33 ~~~~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~-G  111 (222)
                      ....++|||+|||+++++++|+++|++||.|..|.|++| .+|++|      |||||+|.+.++|+.|++.|||..|. |
T Consensus        55 p~~~~~lFVgnLp~~~tEd~L~~~F~~~G~I~~vrl~~D-~sG~sR------GfaFV~F~~~e~A~~Ai~~lng~~i~~G  127 (578)
T TIGR01648        55 PGRGCEVFVGKIPRDLYEDELVPLFEKAGPIYELRLMMD-FSGQNR------GYAFVTFCGKEEAKEAVKLLNNYEIRPG  127 (578)
T ss_pred             CCCCCEEEeCCCCCCCCHHHHHHHHHhhCCEEEEEEEEC-CCCCcc------ceEEEEeCCHHHHHHHHHHcCCCeecCC
Confidence            345678999999999999999999999999999999999 779998      99999999999999999999999885 6


Q ss_pred             ccc
Q psy3854         112 RKR  114 (222)
Q Consensus       112 rk~  114 (222)
                      +.+
T Consensus       128 r~l  130 (578)
T TIGR01648       128 RLL  130 (578)
T ss_pred             ccc
Confidence            654

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.

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

Probab=99.43  E-value=7.8e-13  Score=89.97  Aligned_cols=70  Identities=23%  Similarity=0.455  Sum_probs=64.0

Q ss_pred             EEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCCccc
Q psy3854          38 IIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDCRKR  114 (222)
Q Consensus        38 ~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~Grk~  114 (222)
                      +|||++||+.+++++|+++|+.||.|.++.+..+..+ ..+      |+|||+|.+.++|..|+..|+|..+.|+++
T Consensus         1 ~i~i~~l~~~~~~~~i~~~~~~~g~i~~~~~~~~~~~-~~~------~~~~v~f~s~~~a~~a~~~~~~~~~~~~~~   70 (74)
T cd00590           1 TLFVGNLPPDVTEEDLRELFSKFGKVESVRIVRDKDT-KSK------GFAFVEFEDEEDAEKALEALNGKELGGRPL   70 (74)
T ss_pred             CEEEeCCCCccCHHHHHHHHHhcCCEEEEEEeeCCCC-Ccc------eEEEEEECCHHHHHHHHHHhCCCeECCeEE
Confidence            4899999999999999999999999999999987653 334      899999999999999999999999999875

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).

>KOG0107|consensus

Probab=99.43  E-value=1.9e-13  Score=116.24  Aligned_cols=70  Identities=13%  Similarity=0.248  Sum_probs=64.9

Q ss_pred             CCccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCCcc
Q psy3854          34 YKKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDCRK  113 (222)
Q Consensus        34 ~~~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~Grk  113 (222)
                      ...+.||||||+..++..+|..+|+.||+|-+|.|...+.           ||+||||+|+.+|..|+..|||+.|.|..
T Consensus         8 ~~~~kVYVGnL~~~a~k~eLE~~F~~yG~lrsvWvArnPP-----------GfAFVEFed~RDA~DAvr~LDG~~~cG~r   76 (195)
T KOG0107|consen    8 NGNTKVYVGNLGSRATKRELERAFSKYGPLRSVWVARNPP-----------GFAFVEFEDPRDAEDAVRYLDGKDICGSR   76 (195)
T ss_pred             CCCceEEeccCCCCcchHHHHHHHHhcCcceeEEEeecCC-----------CceEEeccCcccHHHHHhhcCCccccCce
Confidence            3467899999999999999999999999999999998765           89999999999999999999999998866


Q ss_pred             c
Q psy3854         114 R  114 (222)
Q Consensus       114 ~  114 (222)
                      +
T Consensus        77 ~   77 (195)
T KOG0107|consen   77 I   77 (195)
T ss_pred             E
Confidence            4

>KOG0126|consensus

Probab=99.41  E-value=1.7e-14  Score=123.51  Aligned_cols=75  Identities=16%  Similarity=0.282  Sum_probs=72.5

Q ss_pred             CccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCCccc
Q psy3854          35 KKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDCRKR  114 (222)
Q Consensus        35 ~~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~Grk~  114 (222)
                      ...-||||+||+.+|+.+|--.||+||+|..|.|++|..||+||      ||+|..|+|.+..-.|+..|||..|.||.+
T Consensus        34 dsA~Iyiggl~~~LtEgDil~VFSqyGe~vdinLiRDk~TGKSK------GFaFLcYEDQRSTILAVDN~NGiki~gRti  107 (219)
T KOG0126|consen   34 DSAYIYIGGLPYELTEGDILCVFSQYGEIVDINLIRDKKTGKSK------GFAFLCYEDQRSTILAVDNLNGIKILGRTI  107 (219)
T ss_pred             cceEEEECCCcccccCCcEEEEeeccCceEEEEEEecCCCCccc------ceEEEEecCccceEEEEeccCCceecceeE
Confidence            46779999999999999999999999999999999999999999      999999999999999999999999999998


Q ss_pred             c
Q psy3854         115 S  115 (222)
Q Consensus       115 ~  115 (222)
                      .
T Consensus       108 r  108 (219)
T KOG0126|consen  108 R  108 (219)
T ss_pred             E
Confidence            5

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

Probab=99.41  E-value=5.7e-13  Score=124.21  Aligned_cols=73  Identities=16%  Similarity=0.264  Sum_probs=68.8

Q ss_pred             CccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCCccc
Q psy3854          35 KKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDCRKR  114 (222)
Q Consensus        35 ~~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~Grk~  114 (222)
                      ...+|||+|||+.+++.+|+++|++||.|..|.|+.+..+|+++      |||||+|.+.++|.+|+. |||..+.|+.+
T Consensus        88 ~~~~l~V~nlp~~~~~~~l~~~F~~~G~v~~v~i~~d~~~~~sk------g~afVeF~~~e~A~~Al~-l~g~~~~g~~i  160 (457)
T TIGR01622        88 DDRTVFVLQLALKARERDLYEFFSKVGKVRDVQCIKDRNSRRSK------GVAYVEFYDVESVIKALA-LTGQMLLGRPI  160 (457)
T ss_pred             CCcEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEeecCCCCCcc------eEEEEEECCHHHHHHHHH-hCCCEECCeee
Confidence            35679999999999999999999999999999999999889888      999999999999999995 99999999876

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.

>PLN03121 nucleic acid binding protein; Provisional

Probab=99.40  E-value=6.8e-13  Score=117.52  Aligned_cols=70  Identities=10%  Similarity=0.190  Sum_probs=63.6

Q ss_pred             ccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCCcccc
Q psy3854          36 KGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDCRKRS  115 (222)
Q Consensus        36 ~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~Grk~~  115 (222)
                      ..+|||+||++.+++.+|+++|+.||+|.+|+|++|..+   +      ++|||+|.+++.|+.|+ .|||..|.++.+.
T Consensus         5 g~TV~V~NLS~~tTE~dLrefFS~~G~I~~V~I~~D~et---~------gfAfVtF~d~~aaetAl-lLnGa~l~d~~I~   74 (243)
T PLN03121          5 GYTAEVTNLSPKATEKDVYDFFSHCGAIEHVEIIRSGEY---A------CTAYVTFKDAYALETAV-LLSGATIVDQRVC   74 (243)
T ss_pred             ceEEEEecCCCCCCHHHHHHHHHhcCCeEEEEEecCCCc---c------eEEEEEECCHHHHHHHH-hcCCCeeCCceEE
Confidence            357999999999999999999999999999999988433   3      89999999999998888 8999999999874

>PLN03213 repressor of silencing 3; Provisional

Probab=99.40  E-value=6.5e-13  Score=127.25  Aligned_cols=71  Identities=14%  Similarity=0.193  Sum_probs=64.7

Q ss_pred             CccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecch--HHHHHHHHHhcCCccCCc
Q psy3854          35 KKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKK--KVAKQVAAQYNNTQIDCR  112 (222)
Q Consensus        35 ~~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk--~~Ak~A~~~LNg~~i~Gr  112 (222)
                      ....||||||++.+++++|+.+|+.||.|.+|.|++  .+|  |      |||||+|...  ..+.+|+..|||..+.|+
T Consensus         9 ~gMRIYVGNLSydVTEDDLravFSeFGsVkdVEIpR--ETG--R------GFAFVEMssdddaEeeKAISaLNGAEWKGR   78 (759)
T PLN03213          9 GGVRLHVGGLGESVGRDDLLKIFSPMGTVDAVEFVR--TKG--R------SFAYIDFSPSSTNSLTKLFSTYNGCVWKGG   78 (759)
T ss_pred             cceEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEec--ccC--C------ceEEEEecCCcHHHHHHHHHHhcCCeecCc
Confidence            346799999999999999999999999999999984  456  4      9999999987  789999999999999999


Q ss_pred             ccc
Q psy3854         113 KRS  115 (222)
Q Consensus       113 k~~  115 (222)
                      .+.
T Consensus        79 ~LK   81 (759)
T PLN03213         79 RLR   81 (759)
T ss_pred             eeE
Confidence            974

>KOG0148|consensus

Probab=99.38  E-value=5.2e-13  Score=119.99  Aligned_cols=72  Identities=21%  Similarity=0.367  Sum_probs=70.0

Q ss_pred             EEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCCcccc
Q psy3854          38 IIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDCRKRS  115 (222)
Q Consensus        38 ~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~Grk~~  115 (222)
                      -||||-|.+.++-++||+.|.+||+|..++|++|..|++||      |||||.|.++.+|+.||..|||+-||+|.++
T Consensus        64 hvfvgdls~eI~~e~lr~aF~pFGevS~akvirD~~T~KsK------GYgFVSf~~k~dAEnAI~~MnGqWlG~R~IR  135 (321)
T KOG0148|consen   64 HVFVGDLSPEIDNEKLREAFAPFGEVSDAKVIRDMNTGKSK------GYGFVSFPNKEDAENAIQQMNGQWLGRRTIR  135 (321)
T ss_pred             eEEehhcchhcchHHHHHHhccccccccceEeecccCCccc------ceeEEeccchHHHHHHHHHhCCeeeccceee
Confidence            48999999999999999999999999999999999999999      9999999999999999999999999999874

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

Probab=99.38  E-value=1.1e-12  Score=124.91  Aligned_cols=71  Identities=20%  Similarity=0.287  Sum_probs=65.3

Q ss_pred             CccEEEEcCCCC-CCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCCcc
Q psy3854          35 KKGIIYLSKVPP-HMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDCRK  113 (222)
Q Consensus        35 ~~g~VYIsnLP~-~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~Grk  113 (222)
                      ...+|||+|||+ .+++++|++||+.||.|.+|+|+++.     +      |+|||+|.+.++|..|+..|||..|.|++
T Consensus       274 ~~~~l~v~nL~~~~vt~~~L~~lF~~yG~V~~vki~~~~-----~------g~afV~f~~~~~A~~Ai~~lng~~l~g~~  342 (481)
T TIGR01649       274 PGSVLMVSGLHQEKVNCDRLFNLFCVYGNVERVKFMKNK-----K------ETALIEMADPYQAQLALTHLNGVKLFGKP  342 (481)
T ss_pred             CCCEEEEeCCCCCCCCHHHHHHHHHhcCCeEEEEEEeCC-----C------CEEEEEECCHHHHHHHHHHhCCCEECCce
Confidence            456899999998 69999999999999999999999863     3      89999999999999999999999999999


Q ss_pred             ccc
Q psy3854         114 RSK  116 (222)
Q Consensus       114 ~~~  116 (222)
                      +..
T Consensus       343 l~v  345 (481)
T TIGR01649       343 LRV  345 (481)
T ss_pred             EEE
Confidence            853

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).

>KOG0123|consensus

Probab=99.38  E-value=4.5e-13  Score=124.96  Aligned_cols=111  Identities=15%  Similarity=0.244  Sum_probs=96.3

Q ss_pred             CccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCCccc
Q psy3854          35 KKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDCRKR  114 (222)
Q Consensus        35 ~~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~Grk~  114 (222)
                      .+..|||.|||++++...|..+|+.||+|.+|+|+.+.. | +|      || ||+|++.+.|+.|++.|||..+.|+++
T Consensus        75 d~~~~~i~nl~~~~~~~~~~d~f~~~g~ilS~kv~~~~~-g-~k------g~-FV~f~~e~~a~~ai~~~ng~ll~~kki  145 (369)
T KOG0123|consen   75 DPSLVFIKNLDESIDNKSLYDTFSEFGNILSCKVATDEN-G-SK------GY-FVQFESEESAKKAIEKLNGMLLNGKKI  145 (369)
T ss_pred             CCceeeecCCCcccCcHHHHHHHHhhcCeeEEEEEEcCC-C-ce------ee-EEEeCCHHHHHHHHHHhcCcccCCCee
Confidence            444599999999999999999999999999999999987 4 66      89 999999999999999999999999996


Q ss_pred             ccccccccccccCCCcccchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHchHHhHHHHHHh
Q psy3854         115 SKHYDFIWNFKYLPRFKWIHLNERLAYEKQAHRQKLRAEIAEAKREALYFSNNLDVADRIQKKN  178 (222)
Q Consensus       115 ~~~~~~lWnikyL~~fkW~~L~e~~a~ek~~R~~rLr~e~~qakke~n~ylknld~~~~~~k~~  178 (222)
                        |++                   ++..+.+|.+.+..   .+++..+.|++|.........+.
T Consensus       146 --~vg-------------------~~~~~~er~~~~~~---~~~~~t~v~vk~~~~~~~~~~l~  185 (369)
T KOG0123|consen  146 --YVG-------------------LFERKEEREAPLGE---YKKRFTNVYVKNLEEDSTDEELK  185 (369)
T ss_pred             --EEe-------------------eccchhhhcccccc---hhhhhhhhheeccccccchHHHH
Confidence              554                   88888899888864   78899999999998554444443

>KOG0113|consensus

Probab=99.37  E-value=1.5e-12  Score=118.09  Aligned_cols=82  Identities=16%  Similarity=0.252  Sum_probs=75.9

Q ss_pred             CcccccCCccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCC
Q psy3854          28 TENSKKYKKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNT  107 (222)
Q Consensus        28 ~~~~k~~~~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~  107 (222)
                      ++...-....+|||+.|++++++++|+..|+.||+|.+|.|+.|..||+||      |||||||++..+.+.|....+|.
T Consensus        93 dp~a~gDPy~TLFv~RLnydT~EskLrreF~~YG~IkrirlV~d~vTgksk------GYAFIeye~erdm~~AYK~adG~  166 (335)
T KOG0113|consen   93 DPNAIGDPYKTLFVARLNYDTSESKLRREFEKYGPIKRIRLVRDKVTGKSK------GYAFIEYEHERDMKAAYKDADGI  166 (335)
T ss_pred             CCcccCCccceeeeeeccccccHHHHHHHHHhcCcceeEEEeeecccCCcc------ceEEEEeccHHHHHHHHHhccCc
Confidence            344455677899999999999999999999999999999999999999999      99999999999999999999999


Q ss_pred             ccCCcccc
Q psy3854         108 QIDCRKRS  115 (222)
Q Consensus       108 ~i~Grk~~  115 (222)
                      .|.|+.+-
T Consensus       167 ~Idgrri~  174 (335)
T KOG0113|consen  167 KIDGRRIL  174 (335)
T ss_pred             eecCcEEE
Confidence            99999873

>KOG0105|consensus

Probab=99.37  E-value=1.1e-12  Score=113.02  Aligned_cols=99  Identities=13%  Similarity=0.281  Sum_probs=79.8

Q ss_pred             CccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCCccc
Q psy3854          35 KKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDCRKR  114 (222)
Q Consensus        35 ~~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~Grk~  114 (222)
                      ..+.|||||||+++.+.+|..||.+||.|..|.|..-..         .-.|+||||+|+++|+.||-.-||..++|-.+
T Consensus         5 ~~~~iyvGNLP~diRekeieDlFyKyg~i~~ieLK~r~g---------~ppfafVeFEd~RDAeDAiygRdGYdydg~rL   75 (241)
T KOG0105|consen    5 NSRRIYVGNLPGDIREKEIEDLFYKYGRIREIELKNRPG---------PPPFAFVEFEDPRDAEDAIYGRDGYDYDGCRL   75 (241)
T ss_pred             ccceEEecCCCcchhhccHHHHHhhhcceEEEEeccCCC---------CCCeeEEEecCccchhhhhhcccccccCcceE
Confidence            467899999999999999999999999999999954321         11799999999999999999999988876544


Q ss_pred             c-----------------------------------cccccccccccCC-CcccchhhHHHHHH
Q psy3854         115 S-----------------------------------KHYDFIWNFKYLP-RFKWIHLNERLAYE  142 (222)
Q Consensus       115 ~-----------------------------------~~~~~lWnikyL~-~fkW~~L~e~~a~e  142 (222)
                      .                                   +..++..-|..|| .-+|++|.+++-.-
T Consensus        76 RVEfprggr~s~~~~G~y~gggrgGgg~gg~rgppsrrSe~RVvVsGLp~SgSWQDLKDHmRea  139 (241)
T KOG0105|consen   76 RVEFPRGGRSSSDRRGSYSGGGRGGGGGGGRRGPPSRRSEYRVVVSGLPPSGSWQDLKDHMREA  139 (241)
T ss_pred             EEEeccCCCcccccccccCCCCCCCCCCCcccCCcccccceeEEEecCCCCCchHHHHHHHHhh
Confidence            2                                   2334445566776 78899999997543

>KOG0108|consensus

Probab=99.35  E-value=1.6e-12  Score=123.67  Aligned_cols=73  Identities=21%  Similarity=0.303  Sum_probs=71.4

Q ss_pred             cEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCCcccc
Q psy3854          37 GIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDCRKRS  115 (222)
Q Consensus        37 g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~Grk~~  115 (222)
                      ..|||||||+.+++++|..+|+..|.|.+++++.|..+|+.|      |||||+|.+.++|..|++.|||..++|+++.
T Consensus        19 ~~v~vgnip~~~se~~l~~~~~~~g~v~s~~~v~D~~tG~~~------G~~f~~~~~~~~~~~a~~~lNg~~~~gr~l~   91 (435)
T KOG0108|consen   19 SSVFVGNIPYEGSEEQLLSIFSGVGPVLSFRLVYDRETGKPK------GFGFCEFTDEETAERAIRNLNGAEFNGRKLR   91 (435)
T ss_pred             cceEecCCCCcccHHHHHHHHhccCccceeeecccccCCCcC------ceeeEecCchhhHHHHHHhcCCcccCCceEE
Confidence            789999999999999999999999999999999999999999      9999999999999999999999999999973

>KOG0148|consensus

Probab=99.34  E-value=2.4e-12  Score=115.70  Aligned_cols=72  Identities=18%  Similarity=0.315  Sum_probs=66.8

Q ss_pred             cccCCccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccC
Q psy3854          31 SKKYKKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQID  110 (222)
Q Consensus        31 ~k~~~~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~  110 (222)
                      ......+.||+|+|+..++++.||+.|++||.|..|++-++.            ||+||.|++|+.|.+||..|||+.|+
T Consensus       159 Qssp~NtsVY~G~I~~~lte~~mr~~Fs~fG~I~EVRvFk~q------------GYaFVrF~tkEaAahAIv~mNntei~  226 (321)
T KOG0148|consen  159 QSSPDNTSVYVGNIASGLTEDLMRQTFSPFGPIQEVRVFKDQ------------GYAFVRFETKEAAAHAIVQMNNTEIG  226 (321)
T ss_pred             cCCCCCceEEeCCcCccccHHHHHHhcccCCcceEEEEeccc------------ceEEEEecchhhHHHHHHHhcCceeC
Confidence            355677899999999999999999999999999999998874            89999999999999999999999999


Q ss_pred             Cccc
Q psy3854         111 CRKR  114 (222)
Q Consensus       111 Grk~  114 (222)
                      |...
T Consensus       227 G~~V  230 (321)
T KOG0148|consen  227 GQLV  230 (321)
T ss_pred             ceEE
Confidence            9864

>KOG0149|consensus

Probab=99.34  E-value=1.6e-12  Score=114.56  Aligned_cols=72  Identities=21%  Similarity=0.333  Sum_probs=65.0

Q ss_pred             CccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCCcc
Q psy3854          35 KKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDCRK  113 (222)
Q Consensus        35 ~~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~Grk  113 (222)
                      ..+.||||+||+..+.+.||+.|++||+|....|+.|+.+||||      |||||.|.|.+.|.+|+...|= .|+||+
T Consensus        11 ~~TKifVggL~w~T~~~~l~~yFeqfGeI~eavvitd~~t~rsk------GyGfVTf~d~~aa~rAc~dp~p-iIdGR~   82 (247)
T KOG0149|consen   11 TFTKIFVGGLAWETHKETLRRYFEQFGEIVEAVVITDKNTGRSK------GYGFVTFRDAEAATRACKDPNP-IIDGRK   82 (247)
T ss_pred             eEEEEEEcCcccccchHHHHHHHHHhCceEEEEEEeccCCcccc------ceeeEEeecHHHHHHHhcCCCC-cccccc
Confidence            56789999999999999999999999999999999999999999      9999999999999999987663 234443

>KOG4207|consensus

Probab=99.33  E-value=2.1e-12  Score=112.57  Aligned_cols=76  Identities=14%  Similarity=0.277  Sum_probs=72.1

Q ss_pred             CCccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCCcc
Q psy3854          34 YKKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDCRK  113 (222)
Q Consensus        34 ~~~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~Grk  113 (222)
                      .....|-|-||-+.+++++|+.+|.+||.|+.|||..|..|+.++      |||||-|.++.+|+.|++.|+|..+.|+.
T Consensus        11 ~gm~SLkVdNLTyRTspd~LrrvFekYG~vgDVyIPrdr~Tr~sR------gFaFVrf~~k~daedA~damDG~~ldgRe   84 (256)
T KOG4207|consen   11 EGMTSLKVDNLTYRTSPDDLRRVFEKYGRVGDVYIPRDRYTRQSR------GFAFVRFHDKRDAEDALDAMDGAVLDGRE   84 (256)
T ss_pred             ccceeEEecceeccCCHHHHHHHHHHhCcccceeccccccccccc------ceeEEEeeecchHHHHHHhhcceeeccce
Confidence            356678999999999999999999999999999999999999998      99999999999999999999999999999


Q ss_pred             cc
Q psy3854         114 RS  115 (222)
Q Consensus       114 ~~  115 (222)
                      +.
T Consensus        85 lr   86 (256)
T KOG4207|consen   85 LR   86 (256)
T ss_pred             ee
Confidence            74

>smart00361 RRM_1 RNA recognition motif

Probab=99.32  E-value=4.2e-12  Score=91.20  Aligned_cols=59  Identities=20%  Similarity=0.296  Sum_probs=52.5

Q ss_pred             HHHHHHHhh----cCcceeEEE-EecCCCC--CCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCCccc
Q psy3854          50 VTQLTEFMS----RFGEVGRVY-LMPKKRK--PGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDCRKR  114 (222)
Q Consensus        50 e~~Lr~lFs----~fG~I~rv~-L~~d~~t--gksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~Grk~  114 (222)
                      +++|+++|+    +||.|++|. +..+..+  ++++      |+|||+|.+.++|..|+..|||..+.|+.+
T Consensus         2 ~~~l~~~~~~~~~~fG~v~~v~~v~~~~~~~~~~~r------G~~fV~f~~~~dA~~A~~~l~g~~~~gr~l   67 (70)
T smart00361        2 DEDFEREFSEEEEYFGEVGKINKIYIDNVGYENHKR------GNVYITFERSEDAARAIVDLNGRYFDGRTV   67 (70)
T ss_pred             chhHHHHHHHHHHhcCCeeEEEEEEeCCCCCCCCCc------EEEEEEECCHHHHHHHHHHhCCCEECCEEE
Confidence            578899999    999999996 6555555  7787      999999999999999999999999999986

>KOG0117|consensus

Probab=99.25  E-value=2e-11  Score=115.61  Aligned_cols=78  Identities=15%  Similarity=0.272  Sum_probs=71.6

Q ss_pred             ccCCccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccC-
Q psy3854          32 KKYKKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQID-  110 (222)
Q Consensus        32 k~~~~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~-  110 (222)
                      +....+-||||.||.++.+++|.-||++-|+|-.++||+|+.+|.+|      ||+||.|.+|++|+.||..||+++|. 
T Consensus        79 ~p~~G~EVfvGkIPrD~~EdeLvplfEkiG~I~elRLMmD~~sG~nR------GYAFVtf~~Ke~Aq~Aik~lnn~Eir~  152 (506)
T KOG0117|consen   79 PPPRGCEVFVGKIPRDVFEDELVPLFEKIGKIYELRLMMDPFSGDNR------GYAFVTFCTKEEAQEAIKELNNYEIRP  152 (506)
T ss_pred             CCCCCceEEecCCCccccchhhHHHHHhccceeeEEEeecccCCCCc------ceEEEEeecHHHHHHHHHHhhCccccC
Confidence            34556679999999999999999999999999999999999999999      99999999999999999999999996 


Q ss_pred             Ccccc
Q psy3854         111 CRKRS  115 (222)
Q Consensus       111 Grk~~  115 (222)
                      ||.+.
T Consensus       153 GK~ig  157 (506)
T KOG0117|consen  153 GKLLG  157 (506)
T ss_pred             CCEeE
Confidence            66654

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

Probab=99.24  E-value=1.9e-11  Score=116.51  Aligned_cols=67  Identities=16%  Similarity=0.196  Sum_probs=60.5

Q ss_pred             ccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCCc
Q psy3854          36 KGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDCR  112 (222)
Q Consensus        36 ~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~Gr  112 (222)
                      ...|||+|||+.+++++|+++|++||+|.+|.|+++..+          ++|||+|.+.++|.+|++.|||+.|.|.
T Consensus        96 ~~~v~v~nl~~~vt~~~L~~~F~~~G~V~~v~i~~~~~~----------~~afVef~~~~~A~~A~~~Lng~~i~~~  162 (481)
T TIGR01649        96 VLRVIVENPMYPITLDVLYQIFNPYGKVLRIVTFTKNNV----------FQALVEFESVNSAQHAKAALNGADIYNG  162 (481)
T ss_pred             eEEEEEcCCCCCCCHHHHHHHHhccCCEEEEEEEecCCc----------eEEEEEECCHHHHHHHHHHhcCCcccCC
Confidence            347999999999999999999999999999999875431          6899999999999999999999999654

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).

>KOG0147|consensus

Probab=99.24  E-value=5.9e-12  Score=121.16  Aligned_cols=71  Identities=21%  Similarity=0.346  Sum_probs=69.3

Q ss_pred             EEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCCcccc
Q psy3854          39 IYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDCRKRS  115 (222)
Q Consensus        39 VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~Grk~~  115 (222)
                      ||||||.+.|++++|+.+|.+||.|..|.|+.|..+|++|      |||||+|.++++|+.|.+.|||-+|.|+.+.
T Consensus       281 l~vgnLHfNite~~lr~ifepfg~Ie~v~l~~d~~tG~sk------gfGfi~f~~~~~ar~a~e~lngfelAGr~ik  351 (549)
T KOG0147|consen  281 LYVGNLHFNITEDMLRGIFEPFGKIENVQLTKDSETGRSK------GFGFITFVNKEDARKALEQLNGFELAGRLIK  351 (549)
T ss_pred             hhhcccccCchHHHHhhhccCcccceeeeecccccccccc------CcceEEEecHHHHHHHHHHhccceecCceEE
Confidence            8999999999999999999999999999999999999999      9999999999999999999999999999874

>KOG0121|consensus

Probab=99.22  E-value=2.1e-11  Score=99.67  Aligned_cols=78  Identities=17%  Similarity=0.246  Sum_probs=69.1

Q ss_pred             cccCCccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccC
Q psy3854          31 SKKYKKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQID  110 (222)
Q Consensus        31 ~k~~~~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~  110 (222)
                      .....+.+||||||.+.+++++|.+|||+.|+|.+|-+-.|..+.      ..-||.||||.+.++|..|+..|||+.+.
T Consensus        31 ~a~r~S~tvyVgNlSfyttEEqiyELFs~cG~irriiMGLdr~kk------tpCGFCFVeyy~~~dA~~AlryisgtrLd  104 (153)
T KOG0121|consen   31 EALRKSCTVYVGNLSFYTTEEQIYELFSKCGDIRRIIMGLDRFKK------TPCGFCFVEYYSRDDAEDALRYISGTRLD  104 (153)
T ss_pred             HHHhhcceEEEeeeeeeecHHHHHHHHHhccchheeEeccccCCc------CccceEEEEEecchhHHHHHHHhccCccc
Confidence            355578999999999999999999999999999999887765532      22399999999999999999999999999


Q ss_pred             Cccc
Q psy3854         111 CRKR  114 (222)
Q Consensus       111 Grk~  114 (222)
                      .+.+
T Consensus       105 dr~i  108 (153)
T KOG0121|consen  105 DRPI  108 (153)
T ss_pred             ccce
Confidence            9987

>KOG0123|consensus

Probab=99.22  E-value=1.1e-11  Score=115.74  Aligned_cols=122  Identities=16%  Similarity=0.187  Sum_probs=106.1

Q ss_pred             ccCCccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCC
Q psy3854          32 KKYKKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDC  111 (222)
Q Consensus        32 k~~~~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~G  111 (222)
                      .....++|||.+++.+.++..|..+|+.||.|.++.++++.. |+++      |||||+|.++++|+.|+..|||+.++|
T Consensus       163 ~~~~~t~v~vk~~~~~~~~~~l~~~f~~~g~i~s~~v~~~~~-g~~~------~~gfv~f~~~e~a~~av~~l~~~~~~~  235 (369)
T KOG0123|consen  163 YKKRFTNVYVKNLEEDSTDEELKDLFSAYGSITSVAVMRDSI-GKSK------GFGFVNFENPEDAKKAVETLNGKIFGD  235 (369)
T ss_pred             hhhhhhhhheeccccccchHHHHHhhcccCcceEEEEeecCC-CCCC------CccceeecChhHHHHHHHhccCCcCCc
Confidence            445788999999999999999999999999999999999876 5577      999999999999999999999999997


Q ss_pred             cccccccccccccccCCCcccchhhHHHHHHHHHHHHHHHHHHHHHHHHH-------HHHHHchHHhHHHHHHhccc
Q psy3854         112 RKRSKHYDFIWNFKYLPRFKWIHLNERLAYEKQAHRQKLRAEIAEAKREA-------LYFSNNLDVADRIQKKNGKK  181 (222)
Q Consensus       112 rk~~~~~~~lWnikyL~~fkW~~L~e~~a~ek~~R~~rLr~e~~qakke~-------n~ylknld~~~~~~k~~~~~  181 (222)
                      ..+  |                   ...++.+.+|...|+..+.+.....       ++|++|++.....+.+++.-
T Consensus       236 ~~~--~-------------------V~~aqkk~e~~~~l~~~~~~~~~~~~~~~~~~nl~vknld~~~~~e~L~~~f  291 (369)
T KOG0123|consen  236 KEL--Y-------------------VGRAQKKSEREAELKRKFEQEFAKRSVSLQGANLYVKNLDETLSDEKLRKIF  291 (369)
T ss_pred             cce--e-------------------ecccccchhhHHHHhhhhHhhhhhccccccccccccccCccccchhHHHHHH
Confidence            763  3                   3477888899999998776665444       99999999999999988743

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

Probab=99.21  E-value=3.3e-11  Score=118.24  Aligned_cols=67  Identities=18%  Similarity=0.313  Sum_probs=62.0

Q ss_pred             CccEEEEcCCCCCCCHHHHHHHhhcC--cceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCCc
Q psy3854          35 KKGIIYLSKVPPHMNVTQLTEFMSRF--GEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDCR  112 (222)
Q Consensus        35 ~~g~VYIsnLP~~m~e~~Lr~lFs~f--G~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~Gr  112 (222)
                      ...+|||+|||+.+++++|+++|++|  |+|.+|.++.              +||||+|.+.++|..|++.|||+.|+|+
T Consensus       232 ~~k~LfVgNL~~~~tee~L~~~F~~f~~G~I~rV~~~r--------------gfAFVeF~s~e~A~kAi~~lnG~~i~Gr  297 (578)
T TIGR01648       232 KVKILYVRNLMTTTTEEIIEKSFSEFKPGKVERVKKIR--------------DYAFVHFEDREDAVKAMDELNGKELEGS  297 (578)
T ss_pred             cccEEEEeCCCCCCCHHHHHHHHHhcCCCceEEEEeec--------------CeEEEEeCCHHHHHHHHHHhCCCEECCE
Confidence            45689999999999999999999999  9999997752              7999999999999999999999999999


Q ss_pred             ccc
Q psy3854         113 KRS  115 (222)
Q Consensus       113 k~~  115 (222)
                      .+.
T Consensus       298 ~I~  300 (578)
T TIGR01648       298 EIE  300 (578)
T ss_pred             EEE
Confidence            873

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.

>KOG0124|consensus

Probab=99.21  E-value=1e-11  Score=115.75  Aligned_cols=74  Identities=12%  Similarity=0.191  Sum_probs=71.4

Q ss_pred             ccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCCcccc
Q psy3854          36 KGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDCRKRS  115 (222)
Q Consensus        36 ~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~Grk~~  115 (222)
                      -+.||||.|.+.+.++.||..|.+||+|.+|.+.-|..|++.|      ||+||||+=++.|..|.+.|||..+|||.+.
T Consensus       113 McRvYVGSIsfEl~EDtiR~AF~PFGPIKSInMSWDp~T~kHK------gFAFVEYEvPEaAqLAlEqMNg~mlGGRNiK  186 (544)
T KOG0124|consen  113 MCRVYVGSISFELREDTIRRAFDPFGPIKSINMSWDPATGKHK------GFAFVEYEVPEAAQLALEQMNGQMLGGRNIK  186 (544)
T ss_pred             hHheeeeeeEEEechHHHHhhccCCCCcceeeccccccccccc------ceEEEEEeCcHHHHHHHHHhccccccCcccc
Confidence            5789999999999999999999999999999999999999988      9999999999999999999999999999874

>KOG0114|consensus

Probab=99.21  E-value=4.3e-11  Score=94.82  Aligned_cols=73  Identities=12%  Similarity=0.294  Sum_probs=66.8

Q ss_pred             CCccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCCcc
Q psy3854          34 YKKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDCRK  113 (222)
Q Consensus        34 ~~~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~Grk  113 (222)
                      ....+|||.|||+.+|.+++.+||++||.|..|+|-.+..|.         |-+||.|+|-.+|+.|++.|+|..+.++-
T Consensus        16 evnriLyirNLp~~ITseemydlFGkyg~IrQIRiG~~k~Tr---------GTAFVVYedi~dAk~A~dhlsg~n~~~ry   86 (124)
T KOG0114|consen   16 EVNRILYIRNLPFKITSEEMYDLFGKYGTIRQIRIGNTKETR---------GTAFVVYEDIFDAKKACDHLSGYNVDNRY   86 (124)
T ss_pred             hhheeEEEecCCccccHHHHHHHhhcccceEEEEecCccCcC---------ceEEEEehHhhhHHHHHHHhcccccCCce
Confidence            356789999999999999999999999999999998776652         89999999999999999999999999997


Q ss_pred             cc
Q psy3854         114 RS  115 (222)
Q Consensus       114 ~~  115 (222)
                      +.
T Consensus        87 l~   88 (124)
T KOG0114|consen   87 LV   88 (124)
T ss_pred             EE
Confidence            64

>KOG0145|consensus

Probab=99.20  E-value=2.4e-11  Score=109.27  Aligned_cols=77  Identities=16%  Similarity=0.289  Sum_probs=71.9

Q ss_pred             cCCccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCCc
Q psy3854          33 KYKKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDCR  112 (222)
Q Consensus        33 ~~~~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~Gr  112 (222)
                      -...++|.|..||-.||.++||.||+.-|+|.+|+|++|+.+|.|-      |||||.|.+++||.+|+..|||-.+-.+
T Consensus        38 ~~skTNLIvNYLPQ~MTqdE~rSLF~SiGeiEScKLvRDKitGqSL------GYGFVNYv~p~DAe~AintlNGLrLQ~K  111 (360)
T KOG0145|consen   38 DESKTNLIVNYLPQNMTQDELRSLFGSIGEIESCKLVRDKITGQSL------GYGFVNYVRPKDAEKAINTLNGLRLQNK  111 (360)
T ss_pred             CcccceeeeeecccccCHHHHHHHhhcccceeeeeeeecccccccc------ccceeeecChHHHHHHHhhhcceeeccc
Confidence            3456889999999999999999999999999999999999999887      9999999999999999999999999888


Q ss_pred             ccc
Q psy3854         113 KRS  115 (222)
Q Consensus       113 k~~  115 (222)
                      .+.
T Consensus       112 TIK  114 (360)
T KOG0145|consen  112 TIK  114 (360)
T ss_pred             eEE
Confidence            773

>PF13893 RRM_5: RNA recognition motif

Probab=99.19  E-value=5.8e-11  Score=81.15  Aligned_cols=52  Identities=29%  Similarity=0.472  Sum_probs=46.9

Q ss_pred             HHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCCcccc
Q psy3854          53 LTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDCRKRS  115 (222)
Q Consensus        53 Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~Grk~~  115 (222)
                      |+++|++||+|.+|.+.++.     +      +++||+|.+.++|..|+..|||..++|+++.
T Consensus         1 L~~~f~~fG~V~~i~~~~~~-----~------~~a~V~f~~~~~A~~a~~~l~~~~~~g~~l~   52 (56)
T PF13893_consen    1 LYKLFSKFGEVKKIKIFKKK-----R------GFAFVEFASVEDAQKAIEQLNGRQFNGRPLK   52 (56)
T ss_dssp             HHHHHTTTS-EEEEEEETTS-----T------TEEEEEESSHHHHHHHHHHHTTSEETTEEEE
T ss_pred             ChHHhCCcccEEEEEEEeCC-----C------CEEEEEECCHHHHHHHHHHhCCCEECCcEEE
Confidence            68999999999999998765     2      8999999999999999999999999999874

(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 ....

>KOG0131|consensus

Probab=99.18  E-value=2.5e-11  Score=103.92  Aligned_cols=76  Identities=14%  Similarity=0.204  Sum_probs=71.0

Q ss_pred             cCCccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCCc
Q psy3854          33 KYKKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDCR  112 (222)
Q Consensus        33 ~~~~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~Gr  112 (222)
                      .....+|||||||+.++++-|.+||-+-|+|.+|++..|..+...+      |||||||.+.++|..|+..||+..+.||
T Consensus         6 rnqd~tiyvgnld~kvs~~~l~EL~iqagpVv~i~iPkDrv~~~~q------GygF~Ef~~eedadYAikiln~VkLYgr   79 (203)
T KOG0131|consen    6 RNQDATLYVGNLDEKVSEELLYELFIQAGPVVNLHIPKDRVTQKHQ------GYGFAEFRTEEDADYAIKILNMVKLYGR   79 (203)
T ss_pred             cCCCceEEEecCCHHHHHHHHHHHHHhcCceeeeecchhhhccccc------ceeEEEEechhhhHHHHHHHHHHHhcCc
Confidence            4466789999999999999999999999999999999998877666      9999999999999999999999999999


Q ss_pred             cc
Q psy3854         113 KR  114 (222)
Q Consensus       113 k~  114 (222)
                      ++
T Consensus        80 pI   81 (203)
T KOG0131|consen   80 PI   81 (203)
T ss_pred             ee
Confidence            97

>KOG0111|consensus

Probab=99.15  E-value=1.6e-11  Score=108.26  Aligned_cols=75  Identities=15%  Similarity=0.254  Sum_probs=70.6

Q ss_pred             CccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCCccc
Q psy3854          35 KKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDCRKR  114 (222)
Q Consensus        35 ~~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~Grk~  114 (222)
                      ...+||||.|...+++.-|...|-+||.|..|.+..|-.+++.|      |||||||.-.++|..|+..||+.++.||.+
T Consensus         9 ~KrtlYVGGladeVtekvLhaAFIPFGDI~dIqiPlDyesqkHR------gFgFVefe~aEDAaaAiDNMnesEL~Grti   82 (298)
T KOG0111|consen    9 QKRTLYVGGLADEVTEKVLHAAFIPFGDIKDIQIPLDYESQKHR------GFGFVEFEEAEDAAAAIDNMNESELFGRTI   82 (298)
T ss_pred             cceeEEeccchHHHHHHHHHhccccccchhhcccccchhccccc------ceeEEEeeccchhHHHhhcCchhhhcceeE
Confidence            45689999999999999999999999999999999998888777      999999999999999999999999999987


Q ss_pred             c
Q psy3854         115 S  115 (222)
Q Consensus       115 ~  115 (222)
                      .
T Consensus        83 r   83 (298)
T KOG0111|consen   83 R   83 (298)
T ss_pred             E
Confidence            4

>KOG0130|consensus

Probab=99.12  E-value=8e-11  Score=97.18  Aligned_cols=78  Identities=17%  Similarity=0.227  Sum_probs=72.7

Q ss_pred             ccCCccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCC
Q psy3854          32 KKYKKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDC  111 (222)
Q Consensus        32 k~~~~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~G  111 (222)
                      +....=+|||.++.+..++++|...|+.||+|..|+|-.|..||-.|      ||+.|||+..+.|..|+..|||..+-|
T Consensus        68 rSVEGwIi~VtgvHeEatEedi~d~F~dyGeiKNihLNLDRRtGy~K------GYaLvEYet~keAq~A~~~~Ng~~ll~  141 (170)
T KOG0130|consen   68 RSVEGWIIFVTGVHEEATEEDIHDKFADYGEIKNIHLNLDRRTGYVK------GYALVEYETLKEAQAAIDALNGAELLG  141 (170)
T ss_pred             cceeeEEEEEeccCcchhHHHHHHHHhhcccccceeecccccccccc------ceeeeehHhHHHHHHHHHhccchhhhC
Confidence            33445579999999999999999999999999999999999999998      999999999999999999999999999


Q ss_pred             cccc
Q psy3854         112 RKRS  115 (222)
Q Consensus       112 rk~~  115 (222)
                      .+++
T Consensus       142 q~v~  145 (170)
T KOG0130|consen  142 QNVS  145 (170)
T ss_pred             Ccee
Confidence            9875

>KOG0146|consensus

Probab=99.05  E-value=2.5e-10  Score=103.05  Aligned_cols=75  Identities=15%  Similarity=0.267  Sum_probs=71.7

Q ss_pred             CCccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCCcc
Q psy3854          34 YKKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDCRK  113 (222)
Q Consensus        34 ~~~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~Grk  113 (222)
                      ...++|||=+||-.+.+.+|-++|-+||.|.+.++..|+.|..||      .||||.|.++..|..||..|||..||-++
T Consensus       283 PeGCNlFIYHLPQEFgDaEliQmF~PFGhivSaKVFvDRATNQSK------CFGFVSfDNp~SaQaAIqAMNGFQIGMKR  356 (371)
T KOG0146|consen  283 PEGCNLFIYHLPQEFGDAELIQMFLPFGHIVSAKVFVDRATNQSK------CFGFVSFDNPASAQAAIQAMNGFQIGMKR  356 (371)
T ss_pred             CCcceEEEEeCchhhccHHHHHHhccccceeeeeeeehhcccccc------ceeeEecCCchhHHHHHHHhcchhhhhhh
Confidence            356789999999999999999999999999999999999999999      99999999999999999999999999988


Q ss_pred             c
Q psy3854         114 R  114 (222)
Q Consensus       114 ~  114 (222)
                      +
T Consensus       357 L  357 (371)
T KOG0146|consen  357 L  357 (371)
T ss_pred             h
Confidence            6

>KOG0145|consensus

Probab=99.04  E-value=5.1e-10  Score=100.77  Aligned_cols=72  Identities=18%  Similarity=0.246  Sum_probs=68.8

Q ss_pred             EEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCCcccc
Q psy3854          38 IIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDCRKRS  115 (222)
Q Consensus        38 ~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~Grk~~  115 (222)
                      .|||=||.|+.++.-|-+||++||.|+.|++++|..+.+=|      |||||.+.+-++|..|+..|||+.+++|.+.
T Consensus       280 ciFvYNLspd~de~~LWQlFgpFGAv~nVKvirD~ttnkCK------GfgFVtMtNYdEAamAi~sLNGy~lg~rvLQ  351 (360)
T KOG0145|consen  280 CIFVYNLSPDADESILWQLFGPFGAVTNVKVIRDFTTNKCK------GFGFVTMTNYDEAAMAIASLNGYRLGDRVLQ  351 (360)
T ss_pred             EEEEEecCCCchHhHHHHHhCcccceeeEEEEecCCccccc------ceeEEEecchHHHHHHHHHhcCccccceEEE
Confidence            58999999999999999999999999999999999888777      9999999999999999999999999999874

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

Probab=98.99  E-value=8.1e-10  Score=104.29  Aligned_cols=68  Identities=16%  Similarity=0.257  Sum_probs=56.4

Q ss_pred             CccEEEEcCCCCCCCHHHHHHHhhcC------------cceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHH
Q psy3854          35 KKGIIYLSKVPPHMNVTQLTEFMSRF------------GEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAA  102 (222)
Q Consensus        35 ~~g~VYIsnLP~~m~e~~Lr~lFs~f------------G~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~  102 (222)
                      ....|||||||+.+++++|+++|++|            +.|..|.+.      +.+      |||||+|.+.++|..|+ 
T Consensus       174 ~~r~lyVgnLp~~~t~~~l~~~F~~~~~~~~~~~~~~~~~v~~~~~~------~~k------g~afVeF~~~e~A~~Al-  240 (509)
T TIGR01642       174 QARRLYVGGIPPEFVEEAVVDFFNDLMIATGYHKAEDGKHVSSVNIN------KEK------NFAFLEFRTVEEATFAM-  240 (509)
T ss_pred             cccEEEEeCCCCCCCHHHHHHHHHHHHHhcCCCCCCCCCceEEEEEC------CCC------CEEEEEeCCHHHHhhhh-
Confidence            45679999999999999999999986            344444442      334      89999999999999999 


Q ss_pred             HhcCCccCCcccc
Q psy3854         103 QYNNTQIDCRKRS  115 (222)
Q Consensus       103 ~LNg~~i~Grk~~  115 (222)
                      .|||..|.|+.+.
T Consensus       241 ~l~g~~~~g~~l~  253 (509)
T TIGR01642       241 ALDSIIYSNVFLK  253 (509)
T ss_pred             cCCCeEeeCceeE
Confidence            5999999998874

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

>KOG0144|consensus

Probab=98.95  E-value=5.2e-10  Score=105.86  Aligned_cols=72  Identities=15%  Similarity=0.338  Sum_probs=65.2

Q ss_pred             CccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCC-ccCCcc
Q psy3854          35 KKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNT-QIDCRK  113 (222)
Q Consensus        35 ~~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~-~i~Grk  113 (222)
                      ..-.||||-|+...++.++++||++||.|..|+|++|.. +.||      |+|||.|..++.|-.|++.|||+ .|.|-.
T Consensus       123 ~e~KLFvg~lsK~~te~evr~iFs~fG~Ied~~ilrd~~-~~sR------GcaFV~fstke~A~~Aika~ng~~tmeGcs  195 (510)
T KOG0144|consen  123 EERKLFVGMLSKQCTENEVREIFSRFGHIEDCYILRDPD-GLSR------GCAFVKFSTKEMAVAAIKALNGTQTMEGCS  195 (510)
T ss_pred             cchhhhhhhccccccHHHHHHHHHhhCccchhhheeccc-cccc------ceeEEEEehHHHHHHHHHhhccceeeccCC
Confidence            355689999999999999999999999999999999987 7788      99999999999999999999994 466644

>KOG0144|consensus

Probab=98.93  E-value=1.7e-09  Score=102.44  Aligned_cols=71  Identities=15%  Similarity=0.338  Sum_probs=65.3

Q ss_pred             cEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcC-CccCCcc
Q psy3854          37 GIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNN-TQIDCRK  113 (222)
Q Consensus        37 g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg-~~i~Grk  113 (222)
                      -.+|||-||..|+|.+||++|++||.|..|.|.+|+.++.|+      |+.||.|.+.++|..|+..|++ ..+.|-.
T Consensus        35 vKlfVgqIprt~sE~dlr~lFe~yg~V~einl~kDk~t~~s~------gcCFv~~~trk~a~~a~~Alhn~ktlpG~~  106 (510)
T KOG0144|consen   35 VKLFVGQIPRTASEKDLRELFEKYGNVYEINLIKDKSTGQSK------GCCFVKYYTRKEADEAINALHNQKTLPGMH  106 (510)
T ss_pred             hhheeccCCccccHHHHHHHHHHhCceeEEEeecccccCccc------ceEEEEeccHHHHHHHHHHhhcccccCCCC
Confidence            348999999999999999999999999999999999999999      9999999999999999999988 4455543

>KOG0131|consensus

Probab=98.93  E-value=1.2e-09  Score=93.60  Aligned_cols=79  Identities=14%  Similarity=0.185  Sum_probs=71.3

Q ss_pred             cCCccEEEEcCCCCCCCHHHHHHHhhcCcceeE-EEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCC
Q psy3854          33 KYKKGIIYLSKVPPHMNVTQLTEFMSRFGEVGR-VYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDC  111 (222)
Q Consensus        33 ~~~~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~r-v~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~G  111 (222)
                      -....++|||||.|.+++..|..+||.||.|.+ =.+++++.||.++      |||||.|.+-+.+.+|+..|||+.+..
T Consensus        93 l~vganlfvgNLd~~vDe~~L~dtFsafG~l~~~P~i~rd~~tg~~~------~~g~i~~~sfeasd~ai~s~ngq~l~n  166 (203)
T KOG0131|consen   93 LDVGANLFVGNLDPEVDEKLLYDTFSAFGVLISPPKIMRDPDTGNPK------GFGFINYASFEASDAAIGSMNGQYLCN  166 (203)
T ss_pred             ccccccccccccCcchhHHHHHHHHHhccccccCCcccccccCCCCC------CCeEEechhHHHHHHHHHHhccchhcC
Confidence            334578999999999999999999999999876 3678999999988      999999999999999999999999999


Q ss_pred             cccccc
Q psy3854         112 RKRSKH  117 (222)
Q Consensus       112 rk~~~~  117 (222)
                      ++++..
T Consensus       167 r~itv~  172 (203)
T KOG0131|consen  167 RPITVS  172 (203)
T ss_pred             CceEEE
Confidence            998643

>KOG0127|consensus

Probab=98.90  E-value=3.8e-09  Score=102.41  Aligned_cols=72  Identities=24%  Similarity=0.309  Sum_probs=65.5

Q ss_pred             ccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCCccc
Q psy3854          36 KGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDCRKR  114 (222)
Q Consensus        36 ~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~Grk~  114 (222)
                      .-.|.|.|||+.+.+.+|..+||+||.|..|.|.+... |+-.      |||||.|.++.+|..|++.|||..|+||++
T Consensus       117 k~rLIIRNLPf~~k~~dLk~vFs~~G~V~Ei~IP~k~d-gklc------GFaFV~fk~~~dA~~Al~~~N~~~i~gR~V  188 (678)
T KOG0127|consen  117 KWRLIIRNLPFKCKKPDLKNVFSNFGKVVEIVIPRKKD-GKLC------GFAFVQFKEKKDAEKALEFFNGNKIDGRPV  188 (678)
T ss_pred             cceEEeecCCcccCcHHHHHHHhhcceEEEEEcccCCC-CCcc------ceEEEEEeeHHHHHHHHHhccCceecCcee
Confidence            56799999999999999999999999999999975444 4433      999999999999999999999999999997

>KOG0127|consensus

Probab=98.89  E-value=2.6e-09  Score=103.53  Aligned_cols=73  Identities=18%  Similarity=0.351  Sum_probs=69.7

Q ss_pred             cEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCCcccc
Q psy3854          37 GIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDCRKRS  115 (222)
Q Consensus        37 g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~Grk~~  115 (222)
                      .+|||++||+..+.++|.++||.+|+|..++++.+..++.+|      |||||.|.=-+++++|+..++++.++|+.+.
T Consensus         6 ~TlfV~~lp~~~~~~qL~e~FS~vGPik~~~vVt~~gs~~~R------GfgfVtFam~ED~qrA~~e~~~~kf~Gr~l~   78 (678)
T KOG0127|consen    6 ATLFVSRLPFSSTGEQLEEFFSYVGPIKHAVVVTNKGSSEKR------GFGFVTFAMEEDVQRALAETEQSKFEGRILN   78 (678)
T ss_pred             ceEEEecCCCccchhHHHHhhhcccCcceeEEecCCCccccc------CccceeeehHhHHHHHHHHhhcCcccceecc
Confidence            789999999999999999999999999999999998888887      9999999999999999999999999998873

>KOG0124|consensus

Probab=98.88  E-value=2.7e-09  Score=99.71  Aligned_cols=76  Identities=22%  Similarity=0.326  Sum_probs=70.2

Q ss_pred             CCccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCCcc
Q psy3854          34 YKKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDCRK  113 (222)
Q Consensus        34 ~~~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~Grk  113 (222)
                      .....|||+.+.|++.+++|+..|+.||+|..|.|.++..++..|      ||||+||.+...-..|+..||-..+||.-
T Consensus       208 k~fnRiYVaSvHpDLSe~DiKSVFEAFG~I~~C~LAr~pt~~~Hk------GyGfiEy~n~qs~~eAiasMNlFDLGGQy  281 (544)
T KOG0124|consen  208 KKFNRIYVASVHPDLSETDIKSVFEAFGEIVKCQLARAPTGRGHK------GYGFIEYNNLQSQSEAIASMNLFDLGGQY  281 (544)
T ss_pred             HhhheEEeeecCCCccHHHHHHHHHhhcceeeEEeeccCCCCCcc------ceeeEEeccccchHHHhhhcchhhcccce
Confidence            367889999999999999999999999999999999998766666      99999999999999999999999999976


Q ss_pred             cc
Q psy3854         114 RS  115 (222)
Q Consensus       114 ~~  115 (222)
                      ++
T Consensus       282 LR  283 (544)
T KOG0124|consen  282 LR  283 (544)
T ss_pred             Ee
Confidence            63

>KOG0117|consensus

Probab=98.88  E-value=2.7e-09  Score=101.34  Aligned_cols=67  Identities=18%  Similarity=0.308  Sum_probs=62.3

Q ss_pred             CCccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCCcc
Q psy3854          34 YKKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDCRK  113 (222)
Q Consensus        34 ~~~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~Grk  113 (222)
                      .+-.+|||.|||..+|++.|+.+|++||.|.||...+              -||||-|.+.++|-+|++.|||+.|.|..
T Consensus       257 s~VKvLYVRNL~~~tTeE~lk~~F~~~G~veRVkk~r--------------DYaFVHf~eR~davkAm~~~ngkeldG~~  322 (506)
T KOG0117|consen  257 SKVKVLYVRNLMESTTEETLKKLFNEFGKVERVKKPR--------------DYAFVHFAEREDAVKAMKETNGKELDGSP  322 (506)
T ss_pred             hheeeeeeeccchhhhHHHHHHHHHhccceEEeeccc--------------ceeEEeecchHHHHHHHHHhcCceecCce
Confidence            3556899999999999999999999999999998764              59999999999999999999999999988


Q ss_pred             c
Q psy3854         114 R  114 (222)
Q Consensus       114 ~  114 (222)
                      +
T Consensus       323 i  323 (506)
T KOG0117|consen  323 I  323 (506)
T ss_pred             E
Confidence            6

>KOG0106|consensus

Probab=98.82  E-value=2.2e-09  Score=94.05  Aligned_cols=62  Identities=13%  Similarity=0.358  Sum_probs=58.7

Q ss_pred             EEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCCcc
Q psy3854          38 IIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDCRK  113 (222)
Q Consensus        38 ~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~Grk  113 (222)
                      .||||+||+...+.+|.++|..||.|..|-+..              |||||+|.|..+|..|+-.|||.+|+|-+
T Consensus         3 rv~vg~~~~~~~~~d~E~~f~~yg~~~d~~mk~--------------gf~fv~fed~rda~Dav~~l~~~~l~~e~   64 (216)
T KOG0106|consen    3 RVYIGRLPYRARERDVERFFKGYGKIPDADMKN--------------GFGFVEFEDPRDADDAVHDLDGKELCGER   64 (216)
T ss_pred             ceeecccCCccchhHHHHHHhhccccccceeec--------------ccceeccCchhhhhcccchhcCceeccee
Confidence            589999999999999999999999999998754              89999999999999999999999999876

>KOG0415|consensus

Probab=98.81  E-value=5.1e-09  Score=97.50  Aligned_cols=77  Identities=22%  Similarity=0.362  Sum_probs=72.1

Q ss_pred             cCCccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCCc
Q psy3854          33 KYKKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDCR  112 (222)
Q Consensus        33 ~~~~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~Gr  112 (222)
                      +....+|||..|.|-+++++|.-|||.||+|.+|.+++|..||-|=      .|+||||+++++.+.|.-.|++..|..+
T Consensus       236 ~PPeNVLFVCKLNPVTtDeDLeiIFSrFG~i~sceVIRD~ktgdsL------qyaFiEFen~escE~AyFKMdNvLIDDr  309 (479)
T KOG0415|consen  236 KPPENVLFVCKLNPVTTDEDLEIIFSRFGKIVSCEVIRDRKTGDSL------QYAFIEFENKESCEQAYFKMDNVLIDDR  309 (479)
T ss_pred             CCCcceEEEEecCCcccccchhhHHhhcccceeeeEEecccccchh------heeeeeecchhhHHHHHhhhcceeeccc
Confidence            3456789999999999999999999999999999999999999776      9999999999999999999999999999


Q ss_pred             ccc
Q psy3854         113 KRS  115 (222)
Q Consensus       113 k~~  115 (222)
                      ++.
T Consensus       310 RIH  312 (479)
T KOG0415|consen  310 RIH  312 (479)
T ss_pred             eEE
Confidence            883

>KOG0109|consensus

Probab=98.78  E-value=4.8e-09  Score=95.46  Aligned_cols=64  Identities=11%  Similarity=0.275  Sum_probs=60.3

Q ss_pred             cEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCCccc
Q psy3854          37 GIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDCRKR  114 (222)
Q Consensus        37 g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~Grk~  114 (222)
                      -.+||||||...++.+||.||.+||+|..|.|+.              .||||-.+++..|..|+.+|||..|.|..+
T Consensus         3 ~KLFIGNLp~~~~~~elr~lFe~ygkVlECDIvK--------------NYgFVHiEdktaaedairNLhgYtLhg~nI   66 (346)
T KOG0109|consen    3 VKLFIGNLPREATEQELRSLFEQYGKVLECDIVK--------------NYGFVHIEDKTAAEDAIRNLHGYTLHGVNI   66 (346)
T ss_pred             cchhccCCCcccchHHHHHHHHhhCceEeeeeec--------------ccceEEeecccccHHHHhhcccceecceEE
Confidence            3589999999999999999999999999999986              599999999999999999999999999776

>KOG4661|consensus

Probab=98.75  E-value=2.4e-08  Score=97.60  Aligned_cols=86  Identities=17%  Similarity=0.334  Sum_probs=71.7

Q ss_pred             CCCCCcccccCCccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHH
Q psy3854          24 PKDNTENSKKYKKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQ  103 (222)
Q Consensus        24 ~k~~~~~~k~~~~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~  103 (222)
                      |..+....+.....++||+.|...+...+|+.|||+||+|+-..|+.+..+...+      +||||.+.+..+|-+||+.
T Consensus       393 ~~~k~ekgrs~~gRNlWVSGLSstTRAtDLKnlFSKyGKVvGAKVVTNaRsPGaR------CYGfVTMSts~eAtkCI~h  466 (940)
T KOG4661|consen  393 TGAKSEKGRSTLGRNLWVSGLSSTTRATDLKNLFSKYGKVVGAKVVTNARSPGAR------CYGFVTMSTSAEATKCIEH  466 (940)
T ss_pred             ccccccccccccccceeeeccccchhhhHHHHHHHHhcceeceeeeecCCCCCcc------eeEEEEecchHHHHHHHHH
Confidence            3333334455566789999999999999999999999999999999887655445      9999999999999999999


Q ss_pred             hcCCccCCcccc
Q psy3854         104 YNNTQIDCRKRS  115 (222)
Q Consensus       104 LNg~~i~Grk~~  115 (222)
                      |+-+.+-|+-++
T Consensus       467 LHrTELHGrmIS  478 (940)
T KOG4661|consen  467 LHRTELHGRMIS  478 (940)
T ss_pred             hhhhhhcceeee
Confidence            998888777664

>KOG0151|consensus

Probab=98.71  E-value=2.9e-08  Score=98.66  Aligned_cols=79  Identities=14%  Similarity=0.293  Sum_probs=66.6

Q ss_pred             CCccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCCcc
Q psy3854          34 YKKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDCRK  113 (222)
Q Consensus        34 ~~~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~Grk  113 (222)
                      ..++++|||||+|.|++..|-..|+.||+|-+|++|--...-.++   +-...|||-|.+..+|.+|...|||..|.+..
T Consensus       172 P~TTNlyv~Nlnpsv~E~~ll~tfGrfgPlasvKimwpRtEeEk~---r~r~cgfvafmnR~D~era~k~lqg~iv~~~e  248 (877)
T KOG0151|consen  172 PQTTNLYVGNLNPSVDENFLLRTFGRFGPLASVKIMWPRTEEEKR---RERNCGFVAFMNRADAERALKELQGIIVMEYE  248 (877)
T ss_pred             CcccceeeecCCccccHHHHHHHhcccCcccceeeecccchhhhc---cccccceeeehhhhhHHHHHHHhcceeeeeee
Confidence            468899999999999999999999999999999998543211121   11278999999999999999999999999888


Q ss_pred             cc
Q psy3854         114 RS  115 (222)
Q Consensus       114 ~~  115 (222)
                      +.
T Consensus       249 ~K  250 (877)
T KOG0151|consen  249 MK  250 (877)
T ss_pred             ee
Confidence            64

>KOG0110|consensus

Probab=98.68  E-value=4.9e-08  Score=96.75  Aligned_cols=80  Identities=19%  Similarity=0.295  Sum_probs=66.5

Q ss_pred             ccCCccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCC
Q psy3854          32 KKYKKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDC  111 (222)
Q Consensus        32 k~~~~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~G  111 (222)
                      .....+.|||.||+++.+.++|..+|.++|.|.+|.|..-++ +..  +..+-|||||+|.++++|..|+..|||+.|.|
T Consensus       511 ~~~~~t~lfvkNlnf~Tt~e~l~~~F~k~G~VlS~~I~kkkd-~~~--k~lSmGfgFVEF~~~e~A~~a~k~lqgtvldG  587 (725)
T KOG0110|consen  511 DEETETKLFVKNLNFDTTLEDLEDLFSKQGTVLSIEISKKKD-PAN--KYLSMGFGFVEFAKPESAQAALKALQGTVLDG  587 (725)
T ss_pred             ccccchhhhhhcCCcccchhHHHHHHHhcCeEEEEEEecccc-ccc--cccccceeEEEecCHHHHHHHHHHhcCceecC
Confidence            334555599999999999999999999999999998865332 111  23344999999999999999999999999999


Q ss_pred             ccc
Q psy3854         112 RKR  114 (222)
Q Consensus       112 rk~  114 (222)
                      ..+
T Consensus       588 H~l  590 (725)
T KOG0110|consen  588 HKL  590 (725)
T ss_pred             ceE
Confidence            886

>KOG0533|consensus

Probab=98.67  E-value=5.4e-08  Score=86.69  Aligned_cols=73  Identities=21%  Similarity=0.326  Sum_probs=67.9

Q ss_pred             CccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCCccc
Q psy3854          35 KKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDCRKR  114 (222)
Q Consensus        35 ~~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~Grk~  114 (222)
                      .++.|||+|||+.+.+++|++||..||.+.++-|..+.. |+|.      |.|=|.|....+|.+|+..+||..+.|+.+
T Consensus        82 ~~~~v~v~NL~~~V~~~Dl~eLF~~~~~~~r~~vhy~~~-G~s~------Gta~v~~~r~~DA~~avk~~~gv~ldG~~m  154 (243)
T KOG0533|consen   82 RSTKVNVSNLPYGVIDADLKELFAEFGELKRVAVHYDRA-GRSL------GTADVSFNRRDDAERAVKKYNGVALDGRPM  154 (243)
T ss_pred             CcceeeeecCCcCcchHHHHHHHHHhccceEEeeccCCC-CCCC------ccceeeecchHhHHHHHHHhcCcccCCcee
Confidence            457799999999999999999999999999999998876 7766      999999999999999999999999999985

>KOG4206|consensus

Probab=98.67  E-value=5.7e-08  Score=85.26  Aligned_cols=72  Identities=13%  Similarity=0.308  Sum_probs=64.2

Q ss_pred             ccEEEEcCCCCCCCHHHHHH----HhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCC
Q psy3854          36 KGIIYLSKVPPHMNVTQLTE----FMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDC  111 (222)
Q Consensus        36 ~g~VYIsnLP~~m~e~~Lr~----lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~G  111 (222)
                      .++|||.||+..+.-++|+.    |||+||+|..|....   +.+.|      |-+||.|.+...|-.|...|||.++.|
T Consensus         9 n~TlYInnLnekI~~~elkrsL~~LFsqfG~ildI~a~k---t~KmR------GQA~VvFk~~~~As~A~r~l~gfpFyg   79 (221)
T KOG4206|consen    9 NGTLYINNLNEKIKKDELKRSLYLLFSQFGKILDISAFK---TPKMR------GQAFVVFKETEAASAALRALQGFPFYG   79 (221)
T ss_pred             CceEeehhccccccHHHHHHHHHHHHHhhCCeEEEEecC---CCCcc------CceEEEecChhHHHHHHHHhcCCcccC
Confidence            34999999999999999999    999999999997643   34555      999999999999999999999999999


Q ss_pred             ccccc
Q psy3854         112 RKRSK  116 (222)
Q Consensus       112 rk~~~  116 (222)
                      +..+.
T Consensus        80 K~mri   84 (221)
T KOG4206|consen   80 KPMRI   84 (221)
T ss_pred             chhhe
Confidence            99753

>KOG0110|consensus

Probab=98.62  E-value=3.3e-08  Score=97.95  Aligned_cols=74  Identities=20%  Similarity=0.308  Sum_probs=66.1

Q ss_pred             ccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCCcccc
Q psy3854          36 KGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDCRKRS  115 (222)
Q Consensus        36 ~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~Grk~~  115 (222)
                      .+.|.|.|||+..+-.+++.||+.||.|.+|.|......+.      ++|||||+|.++++|..|...|.++-+.||.+.
T Consensus       613 ~tKIlVRNipFeAt~rEVr~LF~aFGqlksvRlPKK~~k~a------~rGF~Fv~f~t~~ea~nA~~al~STHlyGRrLV  686 (725)
T KOG0110|consen  613 GTKILVRNIPFEATKREVRKLFTAFGQLKSVRLPKKIGKGA------HRGFGFVDFLTPREAKNAFDALGSTHLYGRRLV  686 (725)
T ss_pred             cceeeeeccchHHHHHHHHHHHhcccceeeeccchhhcchh------hccceeeeccCcHHHHHHHHhhcccceechhhh
Confidence            67899999999999999999999999999999966533333      349999999999999999999999999999974

>KOG4205|consensus

Probab=98.58  E-value=4.8e-08  Score=89.73  Aligned_cols=63  Identities=19%  Similarity=0.352  Sum_probs=58.2

Q ss_pred             CccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHH
Q psy3854          35 KKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQ  103 (222)
Q Consensus        35 ~~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~  103 (222)
                      ..+.||||.|++.++++.|++.|++||+|..|.+|+|..+++++      |||||+|.+......|+..
T Consensus         5 ~~~KlfiGgisw~ttee~Lr~yf~~~Gev~d~~vm~d~~t~rsr------gFgfv~f~~~~~v~~vl~~   67 (311)
T KOG4205|consen    5 ESGKLFIGGLSWETTEESLREYFSQFGEVTDCVVMRDPSTGRSR------GFGFVTFATPEGVDAVLNA   67 (311)
T ss_pred             CCcceeecCcCccccHHHHHHHhcccCceeeEEEeccCCCCCcc------cccceecCCCcchheeecc
Confidence            67889999999999999999999999999999999999999988      9999999988877766654

>KOG4660|consensus

Probab=98.55  E-value=6.4e-08  Score=93.80  Aligned_cols=77  Identities=18%  Similarity=0.361  Sum_probs=68.1

Q ss_pred             CcccccCCccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCC
Q psy3854          28 TENSKKYKKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNT  107 (222)
Q Consensus        28 ~~~~k~~~~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~  107 (222)
                      .|..+-...|.|+|-|||+.++.++|+++|+.||+|..|...+..+           |.-||+|.|-++|++|+..||+.
T Consensus        67 np~~~~~~~~~L~v~nl~~~Vsn~~L~~~f~~yGeir~ir~t~~~~-----------~~~~v~FyDvR~A~~Alk~l~~~  135 (549)
T KOG4660|consen   67 NPSEKDMNQGTLVVFNLPRSVSNDTLLRIFGAYGEIREIRETPNKR-----------GIVFVEFYDVRDAERALKALNRR  135 (549)
T ss_pred             CCCcccCccceEEEEecCCcCCHHHHHHHHHhhcchhhhhcccccC-----------ceEEEEEeehHhHHHHHHHHHHH
Confidence            3555677899999999999999999999999999999976655433           88999999999999999999999


Q ss_pred             ccCCcccc
Q psy3854         108 QIDCRKRS  115 (222)
Q Consensus       108 ~i~Grk~~  115 (222)
                      .|.|+.+.
T Consensus       136 ~~~~~~~k  143 (549)
T KOG4660|consen  136 EIAGKRIK  143 (549)
T ss_pred             Hhhhhhhc
Confidence            99998874

>KOG4209|consensus

Probab=98.51  E-value=1.4e-07  Score=83.34  Aligned_cols=78  Identities=14%  Similarity=0.213  Sum_probs=73.2

Q ss_pred             cccCCccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccC
Q psy3854          31 SKKYKKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQID  110 (222)
Q Consensus        31 ~k~~~~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~  110 (222)
                      .+......|||||+.+..+.+++...|+-+|.|.+|.+.+|..+|.+|      ||+||+|.+.+.+..++. |||..|.
T Consensus        96 ~~~~d~~sv~v~nvd~~~t~~~~e~hf~~Cg~i~~~ti~~d~~~~~~k------~~~yvef~~~~~~~~ay~-l~gs~i~  168 (231)
T KOG4209|consen   96 QKEVDAPSVWVGNVDFLVTLTKIELHFESCGGINRVTVPKDKFRGHPK------GFAYVEFSSYELVEEAYK-LDGSEIP  168 (231)
T ss_pred             hhccCCceEEEeccccccccchhhheeeccCCccceeeeccccCCCcc------eeEEEecccHhhhHHHhh-cCCcccc
Confidence            466678889999999999999999999999999999999999988888      999999999999999999 9999999


Q ss_pred             Ccccc
Q psy3854         111 CRKRS  115 (222)
Q Consensus       111 Grk~~  115 (222)
                      |+.+.
T Consensus       169 ~~~i~  173 (231)
T KOG4209|consen  169 GPAIE  173 (231)
T ss_pred             cccce
Confidence            98873

>KOG0116|consensus

Probab=98.47  E-value=2.2e-07  Score=88.50  Aligned_cols=72  Identities=18%  Similarity=0.282  Sum_probs=59.6

Q ss_pred             ccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCCccc
Q psy3854          36 KGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDCRKR  114 (222)
Q Consensus        36 ~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~Grk~  114 (222)
                      .+.|||.|||++.+++.|.+.|..||.|....|+.-...++..      .||||+|++...++.|+..= =..|+|+++
T Consensus       288 ~~~i~V~nlP~da~~~~l~~~Fk~FG~Ik~~~I~vr~~~~~~~------~fgFV~f~~~~~~~~~i~As-p~~ig~~kl  359 (419)
T KOG0116|consen  288 GLGIFVKNLPPDATPAELEEVFKQFGPIKEGGIQVRSPGGKNP------CFGFVEFENAAAVQNAIEAS-PLEIGGRKL  359 (419)
T ss_pred             ccceEeecCCCCCCHHHHHHHHhhcccccccceEEeccCCCcC------ceEEEEEeecchhhhhhhcC-ccccCCeeE
Confidence            3449999999999999999999999999999887654333333      89999999999999999764 556777776

>KOG0226|consensus

Probab=98.46  E-value=4.3e-07  Score=81.50  Aligned_cols=105  Identities=15%  Similarity=0.163  Sum_probs=84.5

Q ss_pred             ccCCCCCCCCCCCCCccccCCCC--------CCcc--cccCCccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCC
Q psy3854           4 DAGSSNESSPAEEPGKYVLKPKD--------NTEN--SKKYKKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKR   73 (222)
Q Consensus         4 ~~~~~~~~~~~~~~~~~~~k~k~--------~~~~--~k~~~~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~   73 (222)
                      ++++.+.....+..++++-+|.-        .+|.  .=...--.||-|-|.-.++++.|-..|.+|=.-....+++|..
T Consensus       148 k~s~a~~k~~~~~~~Kki~~~~VR~a~gtswedPsl~ew~~~DfRIfcgdlgNevnd~vl~raf~Kfpsf~~akviRdkR  227 (290)
T KOG0226|consen  148 KASDALLKAETEKEKKKIGKPPVRLAAGTSWEDPSLAEWDEDDFRIFCGDLGNEVNDDVLARAFKKFPSFQKAKVIRDKR  227 (290)
T ss_pred             chhhhhhhhccccccccccCcceeeccccccCCcccccCccccceeecccccccccHHHHHHHHHhccchhhcccccccc
Confidence            34555555666666666655521        1111  1223456789999999999999999999999999999999999


Q ss_pred             CCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCCccc
Q psy3854          74 KPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDCRKR  114 (222)
Q Consensus        74 tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~Grk~  114 (222)
                      ||+|+      |||||.|.|..++.+|..+|||.-+|.+.+
T Consensus       228 TgKSk------gygfVSf~~pad~~rAmrem~gkyVgsrpi  262 (290)
T KOG0226|consen  228 TGKSK------GYGFVSFRDPADYVRAMREMNGKYVGSRPI  262 (290)
T ss_pred             ccccc------cceeeeecCHHHHHHHHHhhcccccccchh
Confidence            99999      999999999999999999999999999986

>KOG0109|consensus

Probab=98.43  E-value=2.1e-07  Score=84.87  Aligned_cols=68  Identities=12%  Similarity=0.232  Sum_probs=63.7

Q ss_pred             cCCccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCCc
Q psy3854          33 KYKKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDCR  112 (222)
Q Consensus        33 ~~~~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~Gr  112 (222)
                      ..-++.|+||||.|..+..+||..|.+||+|..+.|+.              +||||-|.-.++|-.|+..|||+.+.|+
T Consensus        75 sk~stkl~vgNis~tctn~ElRa~fe~ygpviecdivk--------------dy~fvh~d~~eda~~air~l~~~~~~gk  140 (346)
T KOG0109|consen   75 SKASTKLHVGNISPTCTNQELRAKFEKYGPVIECDIVK--------------DYAFVHFDRAEDAVEAIRGLDNTEFQGK  140 (346)
T ss_pred             CCCccccccCCCCccccCHHHhhhhcccCCceeeeeec--------------ceeEEEEeeccchHHHHhcccccccccc
Confidence            33577899999999999999999999999999999976              6999999999999999999999999999


Q ss_pred             cc
Q psy3854         113 KR  114 (222)
Q Consensus       113 k~  114 (222)
                      ++
T Consensus       141 ~m  142 (346)
T KOG0109|consen  141 RM  142 (346)
T ss_pred             ee
Confidence            86

>KOG0132|consensus

Probab=98.43  E-value=3.4e-07  Score=91.79  Aligned_cols=92  Identities=16%  Similarity=0.478  Sum_probs=75.8

Q ss_pred             ccCCccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCC
Q psy3854          32 KKYKKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDC  111 (222)
Q Consensus        32 k~~~~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~G  111 (222)
                      -+.-.++||||.||..|++.+|..+|+.||+|.+|.|....            |.|||.+....+|.+|+..|++..+.+
T Consensus       417 isV~SrTLwvG~i~k~v~e~dL~~~feefGeiqSi~li~~R------------~cAfI~M~~RqdA~kalqkl~n~kv~~  484 (894)
T KOG0132|consen  417 ISVCSRTLWVGGIPKNVTEQDLANLFEEFGEIQSIILIPPR------------GCAFIKMVRRQDAEKALQKLSNVKVAD  484 (894)
T ss_pred             eeEeeeeeeeccccchhhHHHHHHHHHhcccceeEeeccCC------------ceeEEEEeehhHHHHHHHHHhcccccc
Confidence            34467889999999999999999999999999999997642            899999999999999999999999998


Q ss_pred             ccccc----------cccccccc----ccCCCcccchhhHH
Q psy3854         112 RKRSK----------HYDFIWNF----KYLPRFKWIHLNER  138 (222)
Q Consensus       112 rk~~~----------~~~~lWni----kyL~~fkW~~L~e~  138 (222)
                      +.+..          -+.|.|.+    .|+   -|+.|+..
T Consensus       485 k~Iki~Wa~g~G~kse~k~~wD~~lGVt~I---P~~kLt~d  522 (894)
T KOG0132|consen  485 KTIKIAWAVGKGPKSEYKDYWDVELGVTYI---PWEKLTDD  522 (894)
T ss_pred             eeeEEeeeccCCcchhhhhhhhcccCeeEe---ehHhcCHH
Confidence            88731          22456665    444   47777655

>KOG4212|consensus

Probab=98.43  E-value=4.6e-07  Score=86.55  Aligned_cols=70  Identities=16%  Similarity=0.310  Sum_probs=65.7

Q ss_pred             EEEcCCCCCCCHHHHHHHhhc-CcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCCcccc
Q psy3854          39 IYLSKVPPHMNVTQLTEFMSR-FGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDCRKRS  115 (222)
Q Consensus        39 VYIsnLP~~m~e~~Lr~lFs~-fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~Grk~~  115 (222)
                      |||.|||++..-.+|+.||-. -|+|+-|.|..|.. |++|      |.|-|||.+++.+++|++.||-..+.||.+.
T Consensus        47 vfItNIpyd~rWqdLKdLvrekvGev~yveLl~D~~-GK~r------GcavVEFk~~E~~qKa~E~lnk~~~~GR~l~  117 (608)
T KOG4212|consen   47 VFITNIPYDYRWQDLKDLVREKVGEVEYVELLFDES-GKAR------GCAVVEFKDPENVQKALEKLNKYEVNGRELV  117 (608)
T ss_pred             EEEecCcchhhhHhHHHHHHHhcCceEeeeeecccC-CCcC------CceEEEeeCHHHHHHHHHHhhhccccCceEE
Confidence            999999999999999999965 89999999988765 8888      9999999999999999999999999999973

>KOG0153|consensus

Probab=98.39  E-value=4.3e-07  Score=84.29  Aligned_cols=69  Identities=14%  Similarity=0.362  Sum_probs=61.0

Q ss_pred             CccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHh-cCCccCCcc
Q psy3854          35 KKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQY-NNTQIDCRK  113 (222)
Q Consensus        35 ~~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~L-Ng~~i~Grk  113 (222)
                      .-..||||+|-+.+++.+|+..|.+||+|.+|.+.+..            +.+||+|.++..|+.|++.+ |...|.|.+
T Consensus       227 ~I~tLyIg~l~d~v~e~dIrdhFyqyGeirsi~~~~~~------------~CAFv~ftTR~aAE~Aae~~~n~lvI~G~R  294 (377)
T KOG0153|consen  227 SIKTLYIGGLNDEVLEQDIRDHFYQYGEIRSIRILPRK------------GCAFVTFTTREAAEKAAEKSFNKLVINGFR  294 (377)
T ss_pred             ceeEEEecccccchhHHHHHHHHhhcCCeeeEEeeccc------------ccceeeehhhHHHHHHHHhhcceeeecceE
Confidence            45679999999999999999999999999999998743            68999999999999888766 668889988


Q ss_pred             cc
Q psy3854         114 RS  115 (222)
Q Consensus       114 ~~  115 (222)
                      +.
T Consensus       295 l~  296 (377)
T KOG0153|consen  295 LK  296 (377)
T ss_pred             EE
Confidence            73

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

Probab=98.33  E-value=2.9e-06  Score=66.02  Aligned_cols=77  Identities=12%  Similarity=0.194  Sum_probs=65.8

Q ss_pred             ccEEEEcCCCCCCCHHHHHHHhhc--CcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCCcc
Q psy3854          36 KGIIYLSKVPPHMNVTQLTEFMSR--FGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDCRK  113 (222)
Q Consensus        36 ~g~VYIsnLP~~m~e~~Lr~lFs~--fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~Grk  113 (222)
                      +++|-|.|||..++..+|.+++..  .|...-+||..|..++-+.      |||||.|.++..|..-...+||+....-.
T Consensus         1 RTTvMirNIPn~~t~~~L~~~l~~~~~g~yDF~YLPiDf~~~~N~------GYAFVNf~~~~~~~~F~~~f~g~~w~~~~   74 (97)
T PF04059_consen    1 RTTVMIRNIPNKYTQEMLIQILDEHFKGKYDFFYLPIDFKNKCNL------GYAFVNFTSPQAAIRFYKAFNGKKWPNFN   74 (97)
T ss_pred             CeeEEEecCCCCCCHHHHHHHHHHhccCcceEEEeeeeccCCCce------EEEEEEcCCHHHHHHHHHHHcCCccccCC
Confidence            478999999999999999999987  5788889999987766655      99999999999999999999999887554


Q ss_pred             ccccc
Q psy3854         114 RSKHY  118 (222)
Q Consensus       114 ~~~~~  118 (222)
                      ..+..
T Consensus        75 s~Kvc   79 (97)
T PF04059_consen   75 SKKVC   79 (97)
T ss_pred             CCcEE
Confidence            43333

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

>KOG0146|consensus

Probab=98.31  E-value=1.3e-06  Score=79.33  Aligned_cols=74  Identities=8%  Similarity=0.201  Sum_probs=65.6

Q ss_pred             CccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcC-CccCCcc
Q psy3854          35 KKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNN-TQIDCRK  113 (222)
Q Consensus        35 ~~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg-~~i~Grk  113 (222)
                      ....||||-|...-.++++|.+|+.||.|..|.+.+..+ |-||      |.+||.|.+.-+|..||..|+| ..|.|-.
T Consensus        18 ~drklfvgml~kqq~e~dvrrlf~pfG~~~e~tvlrg~d-g~sK------GCAFVKf~s~~eAqaAI~aLHgSqTmpGAS   90 (371)
T KOG0146|consen   18 DDRKLFVGMLNKQQSEDDVRRLFQPFGNIEECTVLRGPD-GNSK------GCAFVKFSSHAEAQAAINALHGSQTMPGAS   90 (371)
T ss_pred             cchhhhhhhhcccccHHHHHHHhcccCCcceeEEecCCC-CCCC------CceEEEeccchHHHHHHHHhcccccCCCCc
Confidence            445699999999999999999999999999999988766 7788      9999999999999999999999 4566665


Q ss_pred             cc
Q psy3854         114 RS  115 (222)
Q Consensus       114 ~~  115 (222)
                      .|
T Consensus        91 SS   92 (371)
T KOG0146|consen   91 SS   92 (371)
T ss_pred             cc
Confidence            44

>KOG4212|consensus

Probab=98.30  E-value=1e-06  Score=84.18  Aligned_cols=73  Identities=21%  Similarity=0.274  Sum_probs=65.2

Q ss_pred             ccCCccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCC
Q psy3854          32 KKYKKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDC  111 (222)
Q Consensus        32 k~~~~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~G  111 (222)
                      ...+.+.|+|.|||.++|-..||.-|-.||.|..+.||..   |+++        |-|.|.++++|++|+..|||..+.|
T Consensus       532 aarKa~qIiirNlP~dfTWqmlrDKfre~G~v~yadime~---Gksk--------GVVrF~s~edAEra~a~Mngs~l~G  600 (608)
T KOG4212|consen  532 AARKACQIIIRNLPFDFTWQMLRDKFREIGHVLYADIMEN---GKSK--------GVVRFFSPEDAERACALMNGSRLDG  600 (608)
T ss_pred             ccccccEEEEecCCccccHHHHHHHHHhccceehhhhhcc---CCcc--------ceEEecCHHHHHHHHHHhccCcccC
Confidence            3446677999999999999999999999999999988543   6766        6999999999999999999999999


Q ss_pred             cccc
Q psy3854         112 RKRS  115 (222)
Q Consensus       112 rk~~  115 (222)
                      |.++
T Consensus       601 r~I~  604 (608)
T KOG4212|consen  601 RNIK  604 (608)
T ss_pred             ceee
Confidence            9875

>KOG1548|consensus

Probab=98.28  E-value=2.2e-06  Score=79.65  Aligned_cols=75  Identities=17%  Similarity=0.294  Sum_probs=65.8

Q ss_pred             CCccEEEEcCCCCCCCHHHHHHHhhcCccee--------EEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhc
Q psy3854          34 YKKGIIYLSKVPPHMNVTQLTEFMSRFGEVG--------RVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYN  105 (222)
Q Consensus        34 ~~~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~--------rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LN  105 (222)
                      ...+.|||++||.++|.+++.++|+++|-|-        +|.|-++.. |+-|      |.|-|.|...+....|+..||
T Consensus       132 ~~Nt~VYVsgLP~DiT~dE~~~~~sKcGiI~~d~~t~epk~KlYrd~~-G~lK------GDaLc~y~K~ESVeLA~~ilD  204 (382)
T KOG1548|consen  132 KVNTSVYVSGLPLDITVDEFAEVMSKCGIIMRDPQTGEPKVKLYRDNQ-GKLK------GDALCCYIKRESVELAIKILD  204 (382)
T ss_pred             ccCceEEecCCCCcccHHHHHHHHHhcceEeccCCCCCeeEEEEecCC-CCcc------CceEEEeecccHHHHHHHHhC
Confidence            3456799999999999999999999999874        356666655 6666      999999999999999999999


Q ss_pred             CCccCCcccc
Q psy3854         106 NTQIDCRKRS  115 (222)
Q Consensus       106 g~~i~Grk~~  115 (222)
                      +.++.|++++
T Consensus       205 e~~~rg~~~r  214 (382)
T KOG1548|consen  205 EDELRGKKLR  214 (382)
T ss_pred             cccccCcEEE
Confidence            9999999985

>KOG4205|consensus

Probab=98.24  E-value=1.2e-06  Score=80.58  Aligned_cols=70  Identities=19%  Similarity=0.481  Sum_probs=61.0

Q ss_pred             ccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHH----HhcCCccCC
Q psy3854          36 KGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAA----QYNNTQIDC  111 (222)
Q Consensus        36 ~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~----~LNg~~i~G  111 (222)
                      .-.||||.||+++++.++++.|.+||.|..+-++.|..+.+++      |||||.|.+.+..++++.    .|||+.+.-
T Consensus        97 tkkiFvGG~~~~~~e~~~r~yfe~~g~v~~~~~~~d~~~~~~r------gFgfv~~~~e~sVdkv~~~~f~~~~gk~vev  170 (311)
T KOG4205|consen   97 TKKIFVGGLPPDTTEEDFKDYFEQFGKVADVVIMYDKTTSRPR------GFGFVTFDSEDSVDKVTLQKFHDFNGKKVEV  170 (311)
T ss_pred             eeEEEecCcCCCCchHHHhhhhhccceeEeeEEeecccccccc------cceeeEeccccccceecccceeeecCceeeE
Confidence            3479999999999999999999999999999999999988888      999999999998888774    355555443

>KOG0120|consensus

Probab=98.12  E-value=1.8e-06  Score=83.78  Aligned_cols=78  Identities=19%  Similarity=0.271  Sum_probs=72.8

Q ss_pred             ccCCccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCC
Q psy3854          32 KKYKKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDC  111 (222)
Q Consensus        32 k~~~~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~G  111 (222)
                      .-..+..+|||+||..+++..++++...||.+....|..+..+|-++      ||+|.||-|..++..|++.|||..+|+
T Consensus       285 ~~~~~~ki~v~~lp~~l~~~q~~Ell~~fg~lk~f~lv~d~~~g~sk------g~af~ey~dpsvtd~A~agLnGm~lgd  358 (500)
T KOG0120|consen  285 VPDSPNKIFVGGLPLYLTEDQVKELLDSFGPLKAFRLVKDSATGNSK------GFAFCEYCDPSVTDQAIAGLNGMQLGD  358 (500)
T ss_pred             cccccchhhhccCcCccCHHHHHHHHHhcccchhheeeccccccccc------ceeeeeeeCCcchhhhhcccchhhhcC
Confidence            44556678999999999999999999999999999999999988888      999999999999999999999999999


Q ss_pred             cccc
Q psy3854         112 RKRS  115 (222)
Q Consensus       112 rk~~  115 (222)
                      +++.
T Consensus       359 ~~lv  362 (500)
T KOG0120|consen  359 KKLV  362 (500)
T ss_pred             ceeE
Confidence            9974

>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=97.88  E-value=3.4e-05  Score=60.42  Aligned_cols=59  Identities=24%  Similarity=0.375  Sum_probs=41.1

Q ss_pred             cEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCC
Q psy3854          37 GIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNT  107 (222)
Q Consensus        37 g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~  107 (222)
                      .+|+|.+++..++-++|+++|++||.|.-|.+.+..            ..|||-|.+.+.|+.|+..+.-.
T Consensus         2 ~il~~~g~~~~~~re~iK~~f~~~g~V~yVD~~~G~------------~~g~VRf~~~~~A~~a~~~~~~~   60 (105)
T PF08777_consen    2 CILKFSGLGEPTSREDIKEAFSQFGEVAYVDFSRGD------------TEGYVRFKTPEAAQKALEKLKEA   60 (105)
T ss_dssp             -EEEEEE--SS--HHHHHHHT-SS--EEEEE--TT-------------SEEEEEESS---HHHHHHHHHHT
T ss_pred             eEEEEecCCCCcCHHHHHHHHHhcCCcceEEecCCC------------CEEEEEECCcchHHHHHHHHHhc
Confidence            478999999999999999999999999999887643            58999999999999999998766

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

>KOG4210|consensus

Probab=97.88  E-value=1.5e-05  Score=72.53  Aligned_cols=89  Identities=17%  Similarity=0.221  Sum_probs=75.4

Q ss_pred             cccCCCCCCcccccCCccEEE-EcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHH
Q psy3854          20 YVLKPKDNTENSKKYKKGIIY-LSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAK   98 (222)
Q Consensus        20 ~~~k~k~~~~~~k~~~~g~VY-IsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak   98 (222)
                      ..+.|+............++| ++++|..++.++|+..|..+|.|.+|++..+..+|..+      |+|||+|.+...+.
T Consensus       168 ~~~~~~n~~~~~~~~~s~~~~~~~~~~f~~~~d~~~~~~~~~~~i~~~r~~~~~~s~~~k------g~a~~~~~~~~~~~  241 (285)
T KOG4210|consen  168 RGLRPKNKLSRLSSGPSDTIFFVGELDFSLTRDDLKEHFVSSGEITSVRLPTDEESGDSK------GFAYVDFSAGNSKK  241 (285)
T ss_pred             ccccccchhcccccCccccceeecccccccchHHHhhhccCcCcceeeccCCCCCccchh------hhhhhhhhhchhHH
Confidence            334455554444555667777 99999999999999999999999999999999999998      99999999999999


Q ss_pred             HHHHHhcCCccCCcccc
Q psy3854          99 QVAAQYNNTQIDCRKRS  115 (222)
Q Consensus        99 ~A~~~LNg~~i~Grk~~  115 (222)
                      .++.. .+..++|+.+.
T Consensus       242 ~~~~~-~~~~~~~~~~~  257 (285)
T KOG4210|consen  242 LALND-QTRSIGGRPLR  257 (285)
T ss_pred             HHhhc-ccCcccCcccc
Confidence            99988 88888888653

>KOG4454|consensus

Probab=97.63  E-value=3.2e-05  Score=68.58  Aligned_cols=72  Identities=11%  Similarity=0.164  Sum_probs=63.4

Q ss_pred             ccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCCcccc
Q psy3854          36 KGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDCRKRS  115 (222)
Q Consensus        36 ~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~Grk~~  115 (222)
                      .-+|||+|+-..++++-|-+||-+-|+|.+|.|..+.+ ++.|       |+||+|.+.-....|++.|||..+.++.+.
T Consensus         9 drtl~v~n~~~~v~eelL~ElfiqaGPV~kv~ip~~~d-~~~k-------Fa~v~f~~E~sv~~a~~L~ng~~l~~~e~q   80 (267)
T KOG4454|consen    9 DRTLLVQNMYSGVSEELLSELFIQAGPVYKVGIPSGQD-QEQK-------FAYVFFPNENSVQLAGQLENGDDLEEDEEQ   80 (267)
T ss_pred             hhHHHHHhhhhhhhHHHHHHHhhccCceEEEeCCCCcc-CCCc-------eeeeecccccchhhhhhhcccchhccchhh
Confidence            45799999999999999999999999999999855544 4443       999999999999999999999999888763

>KOG2314|consensus

Probab=97.58  E-value=0.00012  Score=71.86  Aligned_cols=73  Identities=16%  Similarity=0.253  Sum_probs=59.8

Q ss_pred             ccCCccEEEEcCCCCCCCHH-------HHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHh
Q psy3854          32 KKYKKGIIYLSKVPPHMNVT-------QLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQY  104 (222)
Q Consensus        32 k~~~~g~VYIsnLP~~m~e~-------~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~L  104 (222)
                      +..--.+|.|-++|- +.++       -|..+||++|+|+.+++.++..+| .+      |+-|+||.+.++|+.|+..|
T Consensus        54 ~eg~D~vVvv~g~Pv-V~~~rl~klk~vl~kvfsk~gk~vn~~~P~~e~gg-tk------G~lf~E~~~~~~A~~aVK~l  125 (698)
T KOG2314|consen   54 AEGFDSVVVVDGAPV-VGPARLEKLKKVLTKVFSKAGKIVNMYYPIDEEGG-TK------GYLFVEYASMRDAKKAVKSL  125 (698)
T ss_pred             cCCcceEEEECCCcc-cChhHHHHHHHHHHHHHHhhccccceeeccCccCC-ee------eEEEEEecChhhHHHHHHhc
Confidence            344567899999984 3333       346789999999999998887754 66      99999999999999999999


Q ss_pred             cCCccCCc
Q psy3854         105 NNTQIDCR  112 (222)
Q Consensus       105 Ng~~i~Gr  112 (222)
                      ||..+.-.
T Consensus       126 ~G~~ldkn  133 (698)
T KOG2314|consen  126 NGKRLDKN  133 (698)
T ss_pred             ccceeccc
Confidence            99988754

>COG5175 MOT2 Transcriptional repressor [Transcription]

Probab=97.50  E-value=0.00019  Score=67.22  Aligned_cols=80  Identities=19%  Similarity=0.428  Sum_probs=61.6

Q ss_pred             ccCCccEEEEcCCCCCCCHHH------HHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEE-EEEecchHHHHHHHHHh
Q psy3854          32 KKYKKGIIYLSKVPPHMNVTQ------LTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEG-WIEFLKKKVAKQVAAQY  104 (222)
Q Consensus        32 k~~~~g~VYIsnLP~~m~e~~------Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~G-fVEF~dk~~Ak~A~~~L  104 (222)
                      +-.+..-|||-.|||.+-.+.      =.+.|++||.|..|.+-+...+..+-  ..  .+| ||.|..+++|.+||...
T Consensus       110 RVvQKNLvYVigi~pkva~Ee~~~vLk~~eyFGQyGkI~KIvvNkkt~s~nst--~~--h~gvYITy~~kedAarcIa~v  185 (480)
T COG5175         110 RVVQKNLVYVIGIPPKVADEEVAPVLKRHEYFGQYGKIKKIVVNKKTSSLNST--AS--HAGVYITYSTKEDAARCIAEV  185 (480)
T ss_pred             eeeecceeEEecCCCCCCcccccccccchhhhhhccceeEEEecccccccccc--cc--cceEEEEecchHHHHHHHHHh
Confidence            344566689999999988776      35799999999999885543222111  11  233 89999999999999999


Q ss_pred             cCCccCCcccc
Q psy3854         105 NNTQIDCRKRS  115 (222)
Q Consensus       105 Ng~~i~Grk~~  115 (222)
                      +|+.+.||-+.
T Consensus       186 Dgs~~DGr~lk  196 (480)
T COG5175         186 DGSLLDGRVLK  196 (480)
T ss_pred             ccccccCceEe
Confidence            99999999885

>KOG1457|consensus

Probab=97.47  E-value=0.00037  Score=62.17  Aligned_cols=71  Identities=13%  Similarity=0.194  Sum_probs=56.2

Q ss_pred             CccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccC
Q psy3854          35 KKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQID  110 (222)
Q Consensus        35 ~~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~  110 (222)
                      .-.+|||+.||-++.+.+|..||-.|-=-....|......++     ..--+|||.|.+..+|..|...|||..++
T Consensus        33 ~VRTLFVSGLP~DvKpREiynLFR~f~GYEgslLK~Tsk~~~-----~~~pvaFatF~s~q~A~aamnaLNGvrFD  103 (284)
T KOG1457|consen   33 AVRTLFVSGLPNDVKPREIYNLFRRFHGYEGSLLKYTSKGDQ-----VCKPVAFATFTSHQFALAAMNALNGVRFD  103 (284)
T ss_pred             ccceeeeccCCcccCHHHHHHHhccCCCccceeeeeccCCCc-----cccceEEEEecchHHHHHHHHHhcCeeec
Confidence            356799999999999999999999986566666654332111     11168999999999999999999998875

>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=97.29  E-value=0.00085  Score=51.54  Aligned_cols=63  Identities=17%  Similarity=0.316  Sum_probs=44.7

Q ss_pred             cEEEEcCCCCCCCHHH----HHHHhhcCc-ceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCC
Q psy3854          37 GIIYLSKVPPHMNVTQ----LTEFMSRFG-EVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDC  111 (222)
Q Consensus        37 g~VYIsnLP~~m~e~~----Lr~lFs~fG-~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~G  111 (222)
                      +.|||+|||.+.++..    |++|+..+| +|.+|.       |         +-|.|-|.+.+.|.+|..-|+|-.+-|
T Consensus         3 s~L~V~NLP~~~d~~~I~~RL~qLsdNCGGkVl~v~-------~---------~tAilrF~~~~~A~RA~KRmegEdVfG   66 (90)
T PF11608_consen    3 SLLYVSNLPTNKDPSSIKNRLRQLSDNCGGKVLSVS-------G---------GTAILRFPNQEFAERAQKRMEGEDVFG   66 (90)
T ss_dssp             EEEEEES--TTS-HHHHHHHHHHHHHTTT--EEE---------T---------T-EEEEESSHHHHHHHHHHHTT--SSS
T ss_pred             cEEEEecCCCCCCHHHHHHHHHHHhhccCCEEEEEe-------C---------CEEEEEeCCHHHHHHHHHhhccccccc
Confidence            5699999999999885    566676776 777762       2         679999999999999999999999999


Q ss_pred             cccc
Q psy3854         112 RKRS  115 (222)
Q Consensus       112 rk~~  115 (222)
                      .+++
T Consensus        67 ~kI~   70 (90)
T PF11608_consen   67 NKIS   70 (90)
T ss_dssp             S--E
T ss_pred             ceEE
Confidence            9985

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

>KOG1190|consensus

Probab=97.20  E-value=0.00084  Score=64.06  Aligned_cols=69  Identities=14%  Similarity=0.265  Sum_probs=61.6

Q ss_pred             ccEEEEcCCCC-CCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCCccc
Q psy3854          36 KGIIYLSKVPP-HMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDCRKR  114 (222)
Q Consensus        36 ~g~VYIsnLP~-~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~Grk~  114 (222)
                      ..+|.|+||.+ .+|++.|-.+|+-||.|.||.|..++.           .-+-|-|.|.-.|..|.+.|+|..+.|+++
T Consensus       297 n~vllvsnln~~~VT~d~LftlFgvYGdVqRVkil~nkk-----------d~ALIQmsd~~qAqLA~~hL~g~~l~gk~l  365 (492)
T KOG1190|consen  297 NVVLLVSNLNEEAVTPDVLFTLFGVYGDVQRVKILYNKK-----------DNALIQMSDGQQAQLAMEHLEGHKLYGKKL  365 (492)
T ss_pred             ceEEEEecCchhccchhHHHHHHhhhcceEEEEeeecCC-----------cceeeeecchhHHHHHHHHhhcceecCceE
Confidence            46788888865 679999999999999999999988653           469999999999999999999999999988


Q ss_pred             c
Q psy3854         115 S  115 (222)
Q Consensus       115 ~  115 (222)
                      +
T Consensus       366 r  366 (492)
T KOG1190|consen  366 R  366 (492)
T ss_pred             E
Confidence            4

>KOG0106|consensus

Probab=97.16  E-value=0.00021  Score=62.94  Aligned_cols=68  Identities=16%  Similarity=0.239  Sum_probs=58.9

Q ss_pred             CccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCCccc
Q psy3854          35 KKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDCRKR  114 (222)
Q Consensus        35 ~~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~Grk~  114 (222)
                      ...++.|-+++-.+...+|...|++||+++.+.++        .      ++|||+|...++|+.|++.|+|..+.|+.+
T Consensus        98 s~~r~~~~~~~~r~~~qdl~d~~~~~g~~~~~~~~--------~------~~~~v~Fs~~~da~ra~~~l~~~~~~~~~l  163 (216)
T KOG0106|consen   98 THFRLIVRNLSLRVSWQDLKDHFRPAGEVTYVDAR--------R------NFAFVEFSEQEDAKRALEKLDGKKLNGRRI  163 (216)
T ss_pred             ccceeeeccchhhhhHHHHhhhhcccCCCchhhhh--------c------cccceeehhhhhhhhcchhccchhhcCcee
Confidence            34568899999999999999999999999554441        1      799999999999999999999999999987


Q ss_pred             cc
Q psy3854         115 SK  116 (222)
Q Consensus       115 ~~  116 (222)
                      ..
T Consensus       164 ~~  165 (216)
T KOG0106|consen  164 SV  165 (216)
T ss_pred             ee
Confidence            53

>KOG0147|consensus

Probab=97.13  E-value=0.0002  Score=69.94  Aligned_cols=73  Identities=14%  Similarity=0.222  Sum_probs=66.8

Q ss_pred             CccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCCccc
Q psy3854          35 KKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDCRKR  114 (222)
Q Consensus        35 ~~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~Grk~  114 (222)
                      ..-+||+--|+-..+|.+|.++|+.+|+|..|.++.|..++++|      |-|||||.|...--.|| .|+|+.+.|-++
T Consensus       178 d~Rtvf~~qla~r~~pRdL~efFs~~gkVrdVriI~Dr~s~rsk------gi~Yvef~D~~sVp~ai-aLsGqrllg~pv  250 (549)
T KOG0147|consen  178 DQRTVFCMQLARRNPPRDLEEFFSIVGKVRDVRIIGDRNSRRSK------GIAYVEFCDEQSVPLAI-ALSGQRLLGVPV  250 (549)
T ss_pred             hHHHHHHHHHhhcCCchhHHHHHHhhcCcceeEeeccccchhhc------ceeEEEEecccchhhHh-hhcCCcccCcee
Confidence            44567888888999999999999999999999999999999998      99999999998888888 899999999986

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

Probab=97.09  E-value=0.0012  Score=45.69  Aligned_cols=52  Identities=23%  Similarity=0.414  Sum_probs=41.6

Q ss_pred             cEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHH
Q psy3854          37 GIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVA  101 (222)
Q Consensus        37 g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~  101 (222)
                      .-|=|+..|+++.+.-| ..|+.||+|..+++....            ...||.|.+..+|++|+
T Consensus         2 ~wI~V~Gf~~~~~~~vl-~~F~~fGeI~~~~~~~~~------------~~~~l~y~~~~~ae~Al   53 (53)
T PF14605_consen    2 TWISVSGFPPDLAEEVL-EHFASFGEIVDIYVPEST------------NWMYLKYKSRKDAEKAL   53 (53)
T ss_pred             cEEEEEeECchHHHHHH-HHHHhcCCEEEEEcCCCC------------cEEEEEECCHHHHHhhC
Confidence            45778889988875544 588889999999986221            57999999999999984

>KOG1457|consensus

Probab=97.02  E-value=0.00084  Score=59.96  Aligned_cols=69  Identities=12%  Similarity=0.294  Sum_probs=57.3

Q ss_pred             ccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCCccc
Q psy3854          36 KGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDCRKR  114 (222)
Q Consensus        36 ~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~Grk~  114 (222)
                      ..++||.||.+.++++.|+.+|+.|--..+++|-. +  |.+       .-+||+|++-+.|..|+..|.|..|....+
T Consensus       210 cstlfianl~~~~~ed~l~~~~~~~~gf~~l~~~~-~--~g~-------~vaf~~~~~~~~at~am~~lqg~~~s~~dr  278 (284)
T KOG1457|consen  210 CSTLFIANLGPNCTEDELKQLLSRYPGFHILKIRA-R--GGM-------PVAFADFEEIEQATDAMNHLQGNLLSSSDR  278 (284)
T ss_pred             hhhHhhhccCCCCCHHHHHHHHHhCCCceEEEEec-C--CCc-------ceEeecHHHHHHHHHHHHHhhcceeccccC
Confidence            34689999999999999999999998777777732 2  212       589999999999999999999988865443

>KOG0115|consensus

Probab=96.96  E-value=0.00083  Score=60.63  Aligned_cols=63  Identities=24%  Similarity=0.350  Sum_probs=56.6

Q ss_pred             cEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcC
Q psy3854          37 GIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNN  106 (222)
Q Consensus        37 g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg  106 (222)
                      ..|||-||++.+.-+.|.+-|+.||+|.+..+..|+. ++.-      +.|.|+|..+-.|..|+..++-
T Consensus        32 a~l~V~nl~~~~sndll~~~f~~fg~~e~av~~vD~r-~k~t------~eg~v~~~~k~~a~~a~rr~~~   94 (275)
T KOG0115|consen   32 AELYVVNLMQGASNDLLEQAFRRFGPIERAVAKVDDR-GKPT------REGIVEFAKKPNARKAARRCRE   94 (275)
T ss_pred             ceEEEEecchhhhhHHHHHhhhhcCccchheeeeccc-cccc------ccchhhhhcchhHHHHHHHhcc
Confidence            7899999999999999999999999999988887765 4433      8999999999999999999964

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

Probab=96.95  E-value=0.0043  Score=47.52  Aligned_cols=58  Identities=17%  Similarity=0.360  Sum_probs=43.7

Q ss_pred             CCccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcC
Q psy3854          34 YKKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNN  106 (222)
Q Consensus        34 ~~~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg  106 (222)
                      ....+.||+ .|..+.-.+|.+||++||.|. |--+.|             +-+||...+++.|+.|...++-
T Consensus         7 ~RdHVFhlt-FPkeWK~~DI~qlFspfG~I~-VsWi~d-------------TSAfV~l~~r~~~~~v~~~~~~   64 (87)
T PF08675_consen    7 SRDHVFHLT-FPKEWKTSDIYQLFSPFGQIY-VSWIND-------------TSAFVALHNRDQAKVVMNTLKK   64 (87)
T ss_dssp             SGCCEEEEE---TT--HHHHHHHCCCCCCEE-EEEECT-------------TEEEEEECCCHHHHHHHHHHTT
T ss_pred             CcceEEEEe-CchHhhhhhHHHHhccCCcEE-EEEEcC-------------CcEEEEeecHHHHHHHHHHhcc
Confidence            355677777 999999999999999999874 333333             5799999999999999998863

; 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.

>KOG1995|consensus

Probab=96.89  E-value=0.0014  Score=61.23  Aligned_cols=77  Identities=14%  Similarity=0.214  Sum_probs=67.6

Q ss_pred             ccCCccEEEEcCCCCCCCHHHHHHHhhcCcceeE--------EEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHH
Q psy3854          32 KKYKKGIIYLSKVPPHMNVTQLTEFMSRFGEVGR--------VYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQ  103 (222)
Q Consensus        32 k~~~~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~r--------v~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~  103 (222)
                      .......|||..||..++...|-..|.+.|.|.+        |.|-.|..|++.|      +.|-|.|+|...|+.|+..
T Consensus        62 ~~s~~~ti~v~g~~d~~~~~~~~~~f~qcg~ikrnK~t~kPki~~y~dkeT~~~K------GeatvS~~D~~~akaai~~  135 (351)
T KOG1995|consen   62 DKSDNETIFVWGCPDSVCENDNADFFLQCGVIKRNKRTGKPKIKIYTDKETGAPK------GEATVSYEDPPAAKAAIEW  135 (351)
T ss_pred             cccccccceeeccCccchHHHHHHHHhhcceeccCCCCCCcchhccccccccCcC------CceeeeecChhhhhhhhhh
Confidence            3566778999999999999999999999999853        5566677778777      9999999999999999999


Q ss_pred             hcCCccCCccc
Q psy3854         104 YNNTQIDCRKR  114 (222)
Q Consensus       104 LNg~~i~Grk~  114 (222)
                      +++..+.|..+
T Consensus       136 ~agkdf~gn~i  146 (351)
T KOG1995|consen  136 FAGKDFCGNTI  146 (351)
T ss_pred             hccccccCCCc
Confidence            99999999664

>KOG1548|consensus

Probab=96.84  E-value=0.0021  Score=60.12  Aligned_cols=76  Identities=21%  Similarity=0.243  Sum_probs=58.5

Q ss_pred             ccccCCccEEEEcCCCC----CCCH-------HHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHH
Q psy3854          30 NSKKYKKGIIYLSKVPP----HMNV-------TQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAK   98 (222)
Q Consensus        30 ~~k~~~~g~VYIsnLP~----~m~e-------~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak   98 (222)
                      +.+.....+|-|+|+-.    .-++       ++|++-.++||.|.+|.|--..+.          |..-|.|.+.++|.
T Consensus       259 ~sk~r~~~tVi~kn~Ftp~~~~~~~~l~~dlkedl~eec~K~G~v~~vvv~d~hPd----------GvvtV~f~n~eeA~  328 (382)
T KOG1548|consen  259 PSKARADRTVILKNMFTPEDFEKNPDLLNDLKEDLTEECEKFGQVRKVVVYDRHPD----------GVVTVSFRNNEEAD  328 (382)
T ss_pred             cccccCCcEEEeeecCCHHHhccCHHHHHHHHHHHHHHHHHhCCcceEEEeccCCC----------ceeEEEeCChHHHH
Confidence            34555677788888643    2232       355666999999999988533222          88999999999999


Q ss_pred             HHHHHhcCCccCCcccc
Q psy3854          99 QVAAQYNNTQIDCRKRS  115 (222)
Q Consensus        99 ~A~~~LNg~~i~Grk~~  115 (222)
                      .||..|+|+-++||.+.
T Consensus       329 ~ciq~m~GR~fdgRql~  345 (382)
T KOG1548|consen  329 QCIQTMDGRWFDGRQLT  345 (382)
T ss_pred             HHHHHhcCeeecceEEE
Confidence            99999999999999974

>KOG1456|consensus

Probab=96.64  E-value=0.0055  Score=58.20  Aligned_cols=71  Identities=18%  Similarity=0.244  Sum_probs=63.5

Q ss_pred             CccEEEEcCCCC-CCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCCcc
Q psy3854          35 KKGIIYLSKVPP-HMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDCRK  113 (222)
Q Consensus        35 ~~g~VYIsnLP~-~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~Grk  113 (222)
                      ...++.|..|.. .|+-+.|-.||-.||.|.+|.+|+...           |-|-||+.|....++|+..|||.++-|.+
T Consensus       286 ~g~VmMVyGLdh~k~N~drlFNl~ClYGNV~rvkFmkTk~-----------gtamVemgd~~aver~v~hLnn~~lfG~k  354 (494)
T KOG1456|consen  286 PGCVMMVYGLDHGKMNCDRLFNLFCLYGNVERVKFMKTKP-----------GTAMVEMGDAYAVERAVTHLNNIPLFGGK  354 (494)
T ss_pred             CCcEEEEEeccccccchhhhhhhhhhcCceeeEEEeeccc-----------ceeEEEcCcHHHHHHHHHHhccCccccce
Confidence            456778888876 688999999999999999999998765           78999999999999999999999999999


Q ss_pred             ccc
Q psy3854         114 RSK  116 (222)
Q Consensus       114 ~~~  116 (222)
                      +..
T Consensus       355 l~v  357 (494)
T KOG1456|consen  355 LNV  357 (494)
T ss_pred             EEE
Confidence            854

>KOG4211|consensus

Probab=96.59  E-value=0.0063  Score=59.11  Aligned_cols=58  Identities=14%  Similarity=0.248  Sum_probs=49.7

Q ss_pred             ccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHH
Q psy3854          36 KGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAA  102 (222)
Q Consensus        36 ~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~  102 (222)
                      .-.|-+-.||+..|+.+|+++|+-.+ |.++.+.++  +|+..      |++||||.+.++++.|++
T Consensus        10 ~~~vr~rGLPwsat~~ei~~Ff~~~~-I~~~~~~r~--~Gr~s------GeA~Ve~~seedv~~Alk   67 (510)
T KOG4211|consen   10 AFEVRLRGLPWSATEKEILDFFSNCG-IENLEIPRR--NGRPS------GEAYVEFTSEEDVEKALK   67 (510)
T ss_pred             ceEEEecCCCccccHHHHHHHHhcCc-eeEEEEecc--CCCcC------cceEEEeechHHHHHHHH
Confidence            34577889999999999999999998 888776665  36665      999999999999999986

>KOG4307|consensus

Probab=96.46  E-value=0.0075  Score=61.02  Aligned_cols=76  Identities=12%  Similarity=0.209  Sum_probs=66.5

Q ss_pred             ccCCccEEEEcCCCCCCCHHHHHHHhhcCcce-eEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccC
Q psy3854          32 KKYKKGIIYLSKVPPHMNVTQLTEFMSRFGEV-GRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQID  110 (222)
Q Consensus        32 k~~~~g~VYIsnLP~~m~e~~Lr~lFs~fG~I-~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~  110 (222)
                      ++.-+.+|-+-|+|++++-++|-++|+-|-.+ .+|.+..+++ |..-      |++-|-|++.++|.+|...||+++|+
T Consensus       863 ~~pGp~V~~~~n~Pf~v~l~dI~~FF~dY~~~p~sI~~r~nd~-G~pT------Ge~mvAfes~~eAr~A~~dl~~~~i~  935 (944)
T KOG4307|consen  863 KSPGPRVLSCNNFPFDVTLEDIVEFFNDYEPDPNSIRIRRNDD-GVPT------GECMVAFESQEEARRASMDLDGQKIR  935 (944)
T ss_pred             CCCCCeEEEecCCCccccHHHHHHHhcccccCCCceeEeecCC-CCcc------cceeEeecCHHHHHhhhhccccCccc
Confidence            55566789999999999999999999999876 4777776655 5554      99999999999999999999999999


Q ss_pred             Cccc
Q psy3854         111 CRKR  114 (222)
Q Consensus       111 Grk~  114 (222)
                      .++.
T Consensus       936 nr~V  939 (944)
T KOG4307|consen  936 NRVV  939 (944)
T ss_pred             ceeE
Confidence            9986

>KOG4206|consensus

Probab=96.26  E-value=0.021  Score=50.59  Aligned_cols=66  Identities=18%  Similarity=0.432  Sum_probs=58.9

Q ss_pred             CCccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccC
Q psy3854          34 YKKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQID  110 (222)
Q Consensus        34 ~~~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~  110 (222)
                      ....++++-|||...+.+.|..+|.+|+--..|++++...           +.+||+|.+...|..|...|.|-.|.
T Consensus       144 ppn~ilf~~niP~es~~e~l~~lf~qf~g~keir~i~~~~-----------~iAfve~~~d~~a~~a~~~lq~~~it  209 (221)
T KOG4206|consen  144 PPNNILFLTNIPSESESEMLSDLFEQFPGFKEIRLIPPRS-----------GIAFVEFLSDRQASAAQQALQGFKIT  209 (221)
T ss_pred             CCceEEEEecCCcchhHHHHHHHHhhCcccceeEeccCCC-----------ceeEEecchhhhhHHHhhhhccceec
Confidence            3455789999999999999999999999999999988543           89999999999999999999987766

>KOG4211|consensus

Probab=96.20  E-value=0.012  Score=57.19  Aligned_cols=71  Identities=17%  Similarity=0.309  Sum_probs=56.0

Q ss_pred             CCccEEEEcCCCCCCCHHHHHHHhhcCcceeE-EEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCCc
Q psy3854          34 YKKGIIYLSKVPPHMNVTQLTEFMSRFGEVGR-VYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDCR  112 (222)
Q Consensus        34 ~~~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~r-v~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~Gr  112 (222)
                      ...++|-|-.||+.+++++|.++|+.-=-|.. |.|..+ ..+++-      |++||.|++.+.|+.|+.- |...|+-|
T Consensus       101 ~~d~vVRLRGLPfscte~dI~~FFaGL~Iv~~gi~l~~d-~rgR~t------GEAfVqF~sqe~ae~Al~r-hre~iGhR  172 (510)
T KOG4211|consen  101 ANDGVVRLRGLPFSCTEEDIVEFFAGLEIVPDGILLPMD-QRGRPT------GEAFVQFESQESAEIALGR-HRENIGHR  172 (510)
T ss_pred             CCCceEEecCCCccCcHHHHHHHhcCCcccccceeeecc-CCCCcc------cceEEEecCHHHHHHHHHH-HHHhhccc
Confidence            57789999999999999999999999876666 444444 446655      9999999999999999853 44445444

>KOG1996|consensus

Probab=96.12  E-value=0.01  Score=54.95  Aligned_cols=64  Identities=19%  Similarity=0.312  Sum_probs=49.2

Q ss_pred             HHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCCccccccc
Q psy3854          50 VTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDCRKRSKHY  118 (222)
Q Consensus        50 e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~Grk~~~~~  118 (222)
                      ++++.+-+++||+|++|-|.-....---.     -.-=||+|...+.|-+|+-.|||.-||||..+.+.
T Consensus       300 ede~keEceKyg~V~~viifeip~~p~de-----avRiFveF~r~e~aiKA~VdlnGRyFGGr~v~A~F  363 (378)
T KOG1996|consen  300 EDETKEECEKYGKVGNVIIFEIPSQPEDE-----AVRIFVEFERVESAIKAVVDLNGRYFGGRVVSACF  363 (378)
T ss_pred             HHHHHHHHHhhcceeeEEEEecCCCccch-----hheeeeeeccHHHHHHHHHhcCCceecceeeehee
Confidence            45788999999999999886443211000     03479999999999999999999999999976543

>KOG1855|consensus

Probab=95.76  E-value=0.01  Score=57.02  Aligned_cols=73  Identities=12%  Similarity=0.172  Sum_probs=56.1

Q ss_pred             CccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEec-----CCCCCCCCCC--CCCccEEEEEecchHHHHHHHHHhcCC
Q psy3854          35 KKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMP-----KKRKPGEKKP--AKQFTEGWIEFLKKKVAKQVAAQYNNT  107 (222)
Q Consensus        35 ~~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~-----d~~tgksKkk--~~~~g~GfVEF~dk~~Ak~A~~~LNg~  107 (222)
                      ..-+|.+-|||.+-.-+.|..||+.+|.|.+|+|..     ++..+.+++-  -..--.++|||...+.|.+|.+.||..
T Consensus       230 ~srtivaenLP~Dh~~enl~kiFg~~G~IksIRIckPgaip~d~r~~~~~~~~~~tk~~AlvEye~~~~A~KA~e~~~~e  309 (484)
T KOG1855|consen  230 PSRTIVAENLPLDHSYENLSKIFGTVGSIKSIRICKPGAIPEDVRGFPKKYFELQTKECALVEYEEVEAARKARELLNPE  309 (484)
T ss_pred             ccceEEEecCCcchHHHHHHHHhhcccceeeeeecCCCCCCcccccCCccchhhhhhhhhhhhhhhhHHHHHHHHhhchh
Confidence            456788999999999999999999999999999953     2333333210  001256999999999999999999753

>KOG2193|consensus

Probab=95.76  E-value=0.015  Score=56.17  Aligned_cols=64  Identities=8%  Similarity=0.272  Sum_probs=50.7

Q ss_pred             EEEEcCCCCCCCHHHHHHHhhcCcce-eEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcC-CccCCccc
Q psy3854          38 IIYLSKVPPHMNVTQLTEFMSRFGEV-GRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNN-TQIDCRKR  114 (222)
Q Consensus        38 ~VYIsnLP~~m~e~~Lr~lFs~fG~I-~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg-~~i~Grk~  114 (222)
                      .+|||||.|..++++|..+|...--- ..-+|+.      +       ||+||...|..-|-+|++.||| .++-|++.
T Consensus         3 klyignL~p~~~psdl~svfg~ak~~~~g~fl~k------~-------gyafvd~pdq~wa~kaie~~sgk~elqGkr~   68 (584)
T KOG2193|consen    3 KLYIGNLSPQVTPSDLESVFGDAKIPGSGQFLVK------S-------GYAFVDCPDQQWANKAIETLSGKVELQGKRQ   68 (584)
T ss_pred             cccccccCCCCChHHHHHHhccccCCCCcceeee------c-------ceeeccCCchhhhhhhHHhhchhhhhcCcee
Confidence            58999999999999999999876211 1222221      1       8999999999999999999999 55777765

>KOG0128|consensus

Probab=95.70  E-value=0.0028  Score=64.80  Aligned_cols=63  Identities=25%  Similarity=0.381  Sum_probs=52.5

Q ss_pred             EEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcC
Q psy3854          38 IIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNN  106 (222)
Q Consensus        38 ~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg  106 (222)
                      .+||+|||+.|...+|...|+.||.|..|.+.--...++-|      |.|||+|.++++|.+|+....+
T Consensus       669 ~~fvsnl~~~~~~~dl~~~~~~~~~~e~vqi~~h~n~~~~r------G~~Y~~F~~~~~~~aaV~f~d~  731 (881)
T KOG0128|consen  669 KIFVSNLSPKMSEEDLSERFSPSGTIEVVQIVIHKNEKRFR------GKAYVEFLKPEHAGAAVAFRDS  731 (881)
T ss_pred             HHHHhhcchhhcCchhhhhcCccchhhhHHHHHHhhccccc------cceeeEeecCCchhhhhhhhhh
Confidence            47999999999999999999999999888776333445555      9999999999999988875543

>KOG0120|consensus

Probab=95.68  E-value=0.025  Score=55.40  Aligned_cols=61  Identities=11%  Similarity=0.156  Sum_probs=47.1

Q ss_pred             HHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCCcccc
Q psy3854          52 QLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDCRKRS  115 (222)
Q Consensus        52 ~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~Grk~~  115 (222)
                      +|+.-+++||.|.+|.+.++...+...   -.-|-=||||.+.+++++|.+.|+|..++||...
T Consensus       425 dvr~ec~k~g~v~~v~ipr~~~~~~~~---~G~GkVFVefas~ed~qrA~~~L~GrKF~nRtVv  485 (500)
T KOG0120|consen  425 DVRTECAKFGAVRSVEIPRPYPDENPV---PGTGKVFVEFADTEDSQRAMEELTGRKFANRTVV  485 (500)
T ss_pred             HHHHHhcccCceeEEecCCCCCCCCcC---CCcccEEEEecChHHHHHHHHHccCceeCCcEEE
Confidence            456678899999999997762221111   0015579999999999999999999999999974

>KOG1456|consensus

Probab=95.28  E-value=0.051  Score=51.87  Aligned_cols=79  Identities=19%  Similarity=0.212  Sum_probs=63.9

Q ss_pred             cccccCCccEEEEcCCCCCCCHHHHHHHhhcCcce-eEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCC
Q psy3854          29 ENSKKYKKGIIYLSKVPPHMNVTQLTEFMSRFGEV-GRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNT  107 (222)
Q Consensus        29 ~~~k~~~~g~VYIsnLP~~m~e~~Lr~lFs~fG~I-~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~  107 (222)
                      .+.=+..+.+|..-|-|..||++.|-.||...+.- ++|.|.+-+ +-+|       .-|-+||+++.+|-.|+..||.+
T Consensus       399 KNrIq~Ps~vLHffNaP~~vtEe~l~~i~nek~v~~~svkvFp~k-serS-------ssGllEfe~~s~Aveal~~~NH~  470 (494)
T KOG1456|consen  399 KNRIQPPSNVLHFFNAPLGVTEEQLIGICNEKDVPPTSVKVFPLK-SERS-------SSGLLEFENKSDAVEALMKLNHY  470 (494)
T ss_pred             cccccCCcceeEEecCCCccCHHHHHHHhhhcCCCcceEEeeccc-cccc-------ccceeeeehHHHHHHHHHHhccc
Confidence            33344456789999999999999999999998843 677776654 2333       46999999999999999999999


Q ss_pred             ccCCcccc
Q psy3854         108 QIDCRKRS  115 (222)
Q Consensus       108 ~i~Grk~~  115 (222)
                      +|.+...+
T Consensus       471 pi~~p~gs  478 (494)
T KOG1456|consen  471 PIEGPNGS  478 (494)
T ss_pred             cccCCCCC
Confidence            99987654

>KOG0105|consensus

Probab=95.12  E-value=0.063  Score=47.09  Aligned_cols=64  Identities=19%  Similarity=0.293  Sum_probs=57.3

Q ss_pred             CccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCC
Q psy3854          35 KKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDC  111 (222)
Q Consensus        35 ~~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~G  111 (222)
                      ..-.|.|+.||+.-.-.+|+..+-+-|.|.-..+.+|             |.|-|+|..+++.+.|+..|..+.+..
T Consensus       114 Se~RVvVsGLp~SgSWQDLKDHmReaGdvCfadv~rD-------------g~GvV~~~r~eDMkYAvr~ld~~~~~s  177 (241)
T KOG0105|consen  114 SEYRVVVSGLPPSGSWQDLKDHMREAGDVCFADVQRD-------------GVGVVEYLRKEDMKYAVRKLDDQKFRS  177 (241)
T ss_pred             cceeEEEecCCCCCchHHHHHHHHhhCCeeeeeeecc-------------cceeeeeeehhhHHHHHHhhccccccC
Confidence            3456889999999999999999999999998888776             789999999999999999999876644

>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=95.02  E-value=0.033  Score=47.26  Aligned_cols=78  Identities=10%  Similarity=0.150  Sum_probs=50.4

Q ss_pred             cCCccEEEEcCCCCCCCHHHHHHHhhc-Ccce---eEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCc
Q psy3854          33 KYKKGIIYLSKVPPHMNVTQLTEFMSR-FGEV---GRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQ  108 (222)
Q Consensus        33 ~~~~g~VYIsnLP~~m~e~~Lr~lFs~-fG~I---~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~  108 (222)
                      .....-|-|.+|||.|+++++.+.++. +|.-   ..+.-.......    +...|.-+||.|.+.+++..-+..+||..
T Consensus         4 ~~~~~KvVIR~LPP~LteeeF~~~i~~~l~~~~~w~y~~g~~~~~~~----~~~~~SRaYi~F~~~~~~~~F~~~~~g~~   79 (176)
T PF03467_consen    4 EKEGTKVVIRRLPPNLTEEEFWEQISPWLPDEWDWYYFQGKYGKKSF----KPPTYSRAYINFKNPEDLLEFRDRFDGHV   79 (176)
T ss_dssp             -----EEEEEEE-TTS-HHHHCCCCSS--SSE---EEEEEEES-SSS----TTS--EEEEEEESSCHHHHHHHHHCTTEE
T ss_pred             cccCceEEEeCCCCCCCHHHHHHHhhhhcccccceEEEecCCCCccC----CCCcceEEEEEeCCHHHHHHHHHhcCCcE
Confidence            334557999999999999999999998 7766   222211221111    22346889999999999999999999988


Q ss_pred             cCCccc
Q psy3854         109 IDCRKR  114 (222)
Q Consensus       109 i~Grk~  114 (222)
                      +-..+.
T Consensus        80 F~D~kg   85 (176)
T PF03467_consen   80 FVDSKG   85 (176)
T ss_dssp             EE-TTS
T ss_pred             EECCCC
Confidence            766554

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.

>KOG4676|consensus

Probab=94.85  E-value=0.032  Score=53.30  Aligned_cols=76  Identities=18%  Similarity=0.321  Sum_probs=58.0

Q ss_pred             CccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCCccc
Q psy3854          35 KKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDCRKR  114 (222)
Q Consensus        35 ~~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~Grk~  114 (222)
                      ..|+|-|.||.|..+-++|+.||+-.|+|-.+.|+|......-   ...--.+||-|.|...+. |+..|-++.+-++-+
T Consensus         6 ~~~vIqvanispsat~dqm~tlFg~lGkI~elrlyp~~~d~~~---pv~sRtcyVkf~d~~sv~-vaQhLtntvfvdral   81 (479)
T KOG4676|consen    6 SLGVIQVANISPSATKDQMQTLFGNLGKIPELRLYPNVDDSKI---PVISRTCYVKFLDSQSVT-VAQHLTNTVFVDRAL   81 (479)
T ss_pred             CCceeeecccCchhhHHHHHHHHhhccccccccccCCCCCccC---cceeeeEEEeccCCccee-HHhhhccceeeeeeE
Confidence            5679999999999999999999999999999999985322110   001147999999988776 666777766655544

>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=94.82  E-value=0.086  Score=41.22  Aligned_cols=76  Identities=14%  Similarity=0.169  Sum_probs=45.6

Q ss_pred             ccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEE--EEecchHHHHHHHHHhcCCccCCcc
Q psy3854          36 KGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGW--IEFLKKKVAKQVAAQYNNTQIDCRK  113 (222)
Q Consensus        36 ~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~Gf--VEF~dk~~Ak~A~~~LNg~~i~Grk  113 (222)
                      ..-|.|=..|+. .-..|-+.|++||.|.+.+=......+-... ...-|-.|  |.|.++.+|.+|+. -||+.|+|.-
T Consensus         6 ~~wVtVFGfp~~-~~~~Vl~~F~~~G~Ile~~~~~~~~~~~~~~-~~~~~~NWi~I~Y~~~~~A~rAL~-~NG~i~~g~~   82 (100)
T PF05172_consen    6 ETWVTVFGFPPS-ASNQVLRHFSSFGTILEHFEVLRSSSGINPY-PIPSGGNWIHITYDNPLSAQRALQ-KNGTIFSGSL   82 (100)
T ss_dssp             CCEEEEE---GG-GHHHHHHHHHCCS-EECEEGGG-----------E-CCTTEEEEEESSHHHHHHHHT-TTTEEETTCE
T ss_pred             CeEEEEEccCHH-HHHHHHHHHHhcceEEEeecccccccccccc-cCCCCCCEEEEECCCHHHHHHHHH-hCCeEEcCcE
Confidence            345777788888 5567788999999999886222111000000 00003345  89999999999994 7999998865


Q ss_pred             c
Q psy3854         114 R  114 (222)
Q Consensus       114 ~  114 (222)
                      +
T Consensus        83 m   83 (100)
T PF05172_consen   83 M   83 (100)
T ss_dssp             E
T ss_pred             E
Confidence            3

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.

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

Probab=94.82  E-value=0.075  Score=44.40  Aligned_cols=49  Identities=20%  Similarity=0.355  Sum_probs=40.7

Q ss_pred             HHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCCcccc
Q psy3854          52 QLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDCRKRS  115 (222)
Q Consensus        52 ~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~Grk~~  115 (222)
                      .|-+.|+.||+|.=|++.-              +.=||.|.+-+.|-+|+ .|||..|+|+.+.
T Consensus        52 ~ll~~~~~~GevvLvRfv~--------------~~mwVTF~dg~sALaal-s~dg~~v~g~~l~  100 (146)
T PF08952_consen   52 ELLQKFAQYGEVVLVRFVG--------------DTMWVTFRDGQSALAAL-SLDGIQVNGRTLK  100 (146)
T ss_dssp             HHHHHHHCCS-ECEEEEET--------------TCEEEEESSCHHHHHHH-HGCCSEETTEEEE
T ss_pred             HHHHHHHhCCceEEEEEeC--------------CeEEEEECccHHHHHHH-ccCCcEECCEEEE
Confidence            6778889999999888865              34799999999998776 6999999999874

; PDB: 1UFW_A 2DNR_A.

>KOG0129|consensus

Probab=94.56  E-value=0.11  Score=50.91  Aligned_cols=62  Identities=13%  Similarity=0.278  Sum_probs=42.9

Q ss_pred             CccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCC--CCCCccEEEEEecchHHHHH
Q psy3854          35 KKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKK--PAKQFTEGWIEFLKKKVAKQ   99 (222)
Q Consensus        35 ~~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKk--k~~~~g~GfVEF~dk~~Ak~   99 (222)
                      -..-||||.||++|+++.|-..|..||.|. |.=..  ..+...+  .+.++||.|.-|++.+....
T Consensus       258 ~S~KVFvGGlp~dise~~i~~~F~~FGs~~-VdWP~--k~~~~~~~ppkGs~~YvflvFe~E~sV~~  321 (520)
T KOG0129|consen  258 YSRKVFVGGLPWDITEAQINASFGQFGSVK-VDWPG--KANSRGRAPPKGSYGYVFLVFEDERSVQS  321 (520)
T ss_pred             cccceeecCCCccccHHHHHhhcccccceE-eecCC--CccccccCCCCCcccEEEEEecchHHHHH
Confidence            344599999999999999999999999763 21111  1111111  34456799999999776653

>KOG1190|consensus

Probab=94.16  E-value=0.17  Score=48.80  Aligned_cols=68  Identities=13%  Similarity=0.202  Sum_probs=57.6

Q ss_pred             ccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCCcc
Q psy3854          36 KGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDCRK  113 (222)
Q Consensus        36 ~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~Grk  113 (222)
                      ...+.++|||+++++++|+++|...|-.++.+.-.    ++.+      -.+.+-+++.++|-.|.-.|++..+|+..
T Consensus       414 satlHlsnip~svsee~lk~~f~~~g~~vkafkff----~kd~------kmal~q~~sveeA~~ali~~hnh~lgen~  481 (492)
T KOG1190|consen  414 SATLHLSNIPPSVSEEDLKNLFQEPGGQVKAFKFF----QKDR------KMALPQLESVEEAIQALIDLHNHYLGENH  481 (492)
T ss_pred             hhheeeccCCcccchhHHHHhhhcCCceEEeeeec----CCCc------ceeecccCChhHhhhhccccccccCCCCc
Confidence            44789999999999999999999999887766533    2222      58999999999999999999999998874

>KOG0128|consensus

Probab=93.92  E-value=0.028  Score=57.72  Aligned_cols=71  Identities=15%  Similarity=0.142  Sum_probs=60.9

Q ss_pred             ccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCCcc
Q psy3854          36 KGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDCRK  113 (222)
Q Consensus        36 ~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~Grk  113 (222)
                      ...|+|++.|+.-|.+.|+.+++.+|.++++.++.... |+.+      |-+||.|.+..+|.+++..+.+..+.-+.
T Consensus       736 K~~v~i~g~pf~gt~e~~k~l~~~~gn~~~~~~vt~r~-gkpk------g~a~v~y~~ea~~s~~~~s~d~~~~rE~~  806 (881)
T KOG0128|consen  736 KISVAISGPPFQGTKEELKSLASKTGNVTSLRLVTVRA-GKPK------GKARVDYNTEADASRKVASVDVAGKRENN  806 (881)
T ss_pred             hhhhheeCCCCCCchHHHHhhccccCCccccchhhhhc-cccc------cceeccCCCcchhhhhcccchhhhhhhcC
Confidence            44689999999999999999999999999999876655 7777      99999999999999999888776554433

>KOG0112|consensus

Probab=93.78  E-value=0.14  Score=53.14  Aligned_cols=72  Identities=14%  Similarity=0.190  Sum_probs=63.1

Q ss_pred             ccCCccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCC
Q psy3854          32 KKYKKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDC  111 (222)
Q Consensus        32 k~~~~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~G  111 (222)
                      +-...+.+++|.|+++.....|...|+.||.|..|.+..    |.        -|+||-|++...|..|+..|-|.+|||
T Consensus       451 kst~ttr~~sgglg~w~p~~~l~r~fd~fGpir~Idy~h----gq--------~yayi~yes~~~aq~a~~~~rgap~G~  518 (975)
T KOG0112|consen  451 KSTPTTRLQSGGLGPWSPVSRLNREFDRFGPIRIIDYRH----GQ--------PYAYIQYESPPAAQAATHDMRGAPLGG  518 (975)
T ss_pred             ccccceeeccCCCCCCChHHHHHHHhhccCcceeeeccc----CC--------cceeeecccCccchhhHHHHhcCcCCC
Confidence            555667799999999999999999999999999987743    32        599999999999999999999999998


Q ss_pred             cccc
Q psy3854         112 RKRS  115 (222)
Q Consensus       112 rk~~  115 (222)
                      -+..
T Consensus       519 P~~r  522 (975)
T KOG0112|consen  519 PPRR  522 (975)
T ss_pred             CCcc
Confidence            6653

>KOG2202|consensus

Probab=93.73  E-value=0.032  Score=50.42  Aligned_cols=57  Identities=12%  Similarity=0.177  Sum_probs=44.0

Q ss_pred             HHHHHhh-cCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCCcccc
Q psy3854          52 QLTEFMS-RFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDCRKRS  115 (222)
Q Consensus        52 ~Lr~lFs-~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~Grk~~  115 (222)
                      +|-.-|+ +||+|..+.+-.+- .-.-+      |--||.|...++|.+|++.|||.-++|+++.
T Consensus        84 d~f~E~~~kygEiee~~Vc~Nl-~~hl~------GNVYV~f~~Ee~ae~a~~~lnnRw~~G~pi~  141 (260)
T KOG2202|consen   84 DVFTELEDKYGEIEELNVCDNL-GDHLV------GNVYVKFRSEEDAEAALEDLNNRWYNGRPIH  141 (260)
T ss_pred             HHHHHHHHHhhhhhhhhhhccc-chhhh------hhhhhhcccHHHHHHHHHHHcCccccCCcce
Confidence            4444445 99999998664332 11222      7899999999999999999999999999973

>KOG4849|consensus

Probab=93.15  E-value=0.2  Score=47.62  Aligned_cols=74  Identities=11%  Similarity=0.101  Sum_probs=62.8

Q ss_pred             CccEEEEcCCCCCCCHHHHHHHhhcCc--ceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCCc
Q psy3854          35 KKGIIYLSKVPPHMNVTQLTEFMSRFG--EVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDCR  112 (222)
Q Consensus        35 ~~g~VYIsnLP~~m~e~~Lr~lFs~fG--~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~Gr  112 (222)
                      +.-.+|||||-++.|+++|-+.+..-|  .|..+++.-+..-|.||      ||+.|...+-...|..++.|--+.|.|.
T Consensus        79 rk~~~YvGNL~W~TTD~DL~~A~~S~G~~~~~dmKFFENR~NGQSK------G~AL~~~~SdAa~Kq~MeiLP~k~iHGQ  152 (498)
T KOG4849|consen   79 RKYCCYVGNLLWYTTDADLLKALQSTGLAQFADMKFFENRTNGQSK------GYALLVLNSDAAVKQTMEILPTKTIHGQ  152 (498)
T ss_pred             ceEEEEecceeEEeccHHHHHHHHhhhHHHHhhhhhhhcccCCccc------ceEEEEecchHHHHHHHHhcccceecCC
Confidence            445689999999999999999988877  45566666666668898      9999999999999999999999999887


Q ss_pred             cc
Q psy3854         113 KR  114 (222)
Q Consensus       113 k~  114 (222)
                      .-
T Consensus       153 ~P  154 (498)
T KOG4849|consen  153 SP  154 (498)
T ss_pred             CC
Confidence            63

>KOG0112|consensus

Probab=92.60  E-value=0.054  Score=56.13  Aligned_cols=74  Identities=9%  Similarity=0.173  Sum_probs=61.3

Q ss_pred             ccCCccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCC
Q psy3854          32 KKYKKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDC  111 (222)
Q Consensus        32 k~~~~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~G  111 (222)
                      ...-+-+||+|||+..+++.+|+..|+.||.|.+|.|..-.....+       .||||-|.+-..|-.|...|-|..|+.
T Consensus       368 D~~atrTLf~Gnl~~kl~eseiR~af~e~gkve~VDiKtP~~~~es-------a~~f~~~~n~dmtp~ak~e~s~~~I~~  440 (975)
T KOG0112|consen  368 DFRATRTLFLGNLDSKLTESEIRPAFDESGKVEEVDIKTPHIKTES-------AYAFVSLLNTDMTPSAKFEESGPLIGN  440 (975)
T ss_pred             chhhhhhhhhcCcccchhhhhhhhhhhhhccccccccccCCCCccc-------chhhhhhhccccCcccchhhcCCcccc
Confidence            4455678999999999999999999999999999998654221112       589999999999999999999988764


Q ss_pred             c
Q psy3854         112 R  112 (222)
Q Consensus       112 r  112 (222)
                      -
T Consensus       441 g  441 (975)
T KOG0112|consen  441 G  441 (975)
T ss_pred             C
Confidence            3

>KOG0129|consensus

Probab=92.36  E-value=0.45  Score=46.82  Aligned_cols=66  Identities=15%  Similarity=0.222  Sum_probs=55.7

Q ss_pred             ccCCccEEEEcCCCCCCCHHHHHHHhh-cCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHH
Q psy3854          32 KKYKKGIIYLSKVPPHMNVTQLTEFMS-RFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQ  103 (222)
Q Consensus        32 k~~~~g~VYIsnLP~~m~e~~Lr~lFs-~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~  103 (222)
                      ....+-+||||.||.-++-.+|-.||+ -||-|.=|-|=.|.+-+-.|      |-|=|.|.+...=-+||..
T Consensus       366 ~lDprrTVFVGgvprpl~A~eLA~imd~lyGgV~yaGIDtD~k~KYPk------GaGRVtFsnqqsYi~AIsa  432 (520)
T KOG0129|consen  366 PIDPRRTVFVGGLPRPLTAEELAMIMEDLFGGVLYVGIDTDPKLKYPK------GAGRVTFSNQQAYIKAISA  432 (520)
T ss_pred             ccCccceEEecCCCCcchHHHHHHHHHHhcCceEEEEeccCcccCCCC------CcceeeecccHHHHHHHhh
Confidence            455677899999999999999999999 79999998887776656666      8899999998877777763

>KOG4307|consensus

Probab=91.29  E-value=0.81  Score=46.92  Aligned_cols=75  Identities=9%  Similarity=0.072  Sum_probs=61.3

Q ss_pred             cCCccEEEEcCCCCCCCHHHHHHHhhcCcceeE-EEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCC
Q psy3854          33 KYKKGIIYLSKVPPHMNVTQLTEFMSRFGEVGR-VYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDC  111 (222)
Q Consensus        33 ~~~~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~r-v~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~G  111 (222)
                      ..-.+.|||-.||...+..++-.+|..--.|.. |+|.+-.. ++.+      +.|||+|.....+..|+..-.-.-+|-
T Consensus       431 ~~ag~~lyv~~lP~~t~~~~~v~~f~~~~~Ved~I~lt~~P~-~~~~------~~afv~F~~~~a~~~a~~~~~k~y~G~  503 (944)
T KOG4307|consen  431 GGAGGALYVFQLPVMTPIVPPVNKFMGAAAVEDFIELTRLPT-DLLR------PAAFVAFIHPTAPLTASSVKTKFYPGH  503 (944)
T ss_pred             CCccceEEeccCCccccccchhhhhhhhhhhhheeEeccCCc-cccc------chhhheeccccccchhhhcccccccCc
Confidence            345788999999999999999999999887776 88877643 5555      899999999999998887766666666


Q ss_pred             ccc
Q psy3854         112 RKR  114 (222)
Q Consensus       112 rk~  114 (222)
                      +-+
T Consensus       504 r~i  506 (944)
T KOG4307|consen  504 RII  506 (944)
T ss_pred             eEE
Confidence            555

>KOG2891|consensus

Probab=91.20  E-value=0.29  Score=45.43  Aligned_cols=91  Identities=18%  Similarity=0.239  Sum_probs=56.4

Q ss_pred             cccCCCCCCcccccCCccEEEEcCCCCC------------CCHHHHHHHhhcCcceeEEEEecCCC-----CCCCCC-CC
Q psy3854          20 YVLKPKDNTENSKKYKKGIIYLSKVPPH------------MNVTQLTEFMSRFGEVGRVYLMPKKR-----KPGEKK-PA   81 (222)
Q Consensus        20 ~~~k~k~~~~~~k~~~~g~VYIsnLP~~------------m~e~~Lr~lFs~fG~I~rv~L~~d~~-----tgksKk-k~   81 (222)
                      +..++++-++.+.-..|.+||+.+||-.            -+++.|+..|..||.|..|.|..-++     +|+--- ..
T Consensus       133 ~fm~~kdmdemkpgerpdti~la~ip~kwf~lkedg~~dlpse~rlr~a~eafg~ir~vdipicdplr~~mn~kisgiq~  212 (445)
T KOG2891|consen  133 FFMDAKDMDEMKPGERPDTIHLAGIPCKWFALKEDGSEDLPSEDRLRKAFEAFGEIRNVDIPICDPLREEMNGKISGIQF  212 (445)
T ss_pred             HHhhhhhhhccCCCCCCCceeecCCcceeeeecccccccCChHHHHHHHHHHhccceecCCcccchhHHHhcCcccccee
Confidence            4455555555556667899999999953            35678999999999999998853322     121100 11


Q ss_pred             CCccEE-------EEEecchHHHHHHHHHhcCCccC
Q psy3854          82 KQFTEG-------WIEFLKKKVAKQVAAQYNNTQID  110 (222)
Q Consensus        82 ~~~g~G-------fVEF~dk~~Ak~A~~~LNg~~i~  110 (222)
                      ..||||       ||.|..-.---.|+..|-|..+.
T Consensus       213 ~gfg~g~dlffeayvqfmeykgfa~amdalr~~k~a  248 (445)
T KOG2891|consen  213 HGFGFGGDLFFEAYVQFMEYKGFAQAMDALRGMKLA  248 (445)
T ss_pred             eccccCcchhHHHHHHHHHHHhHHHHHHHHhcchHH
Confidence            224443       44454444445677777775543

>KOG1365|consensus

Probab=91.11  E-value=0.22  Score=47.82  Aligned_cols=71  Identities=18%  Similarity=0.297  Sum_probs=59.5

Q ss_pred             ccEEEEcCCCCCCCHHHHHHHhhcCcceeE---EEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCCc
Q psy3854          36 KGIIYLSKVPPHMNVTQLTEFMSRFGEVGR---VYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDCR  112 (222)
Q Consensus        36 ~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~r---v~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~Gr  112 (222)
                      .+.|-+..||+..+.++|-.+|..|-.-.+   |+++.+.. |+.-      |++||+|.+.+.|..|+..-+.+.+.+|
T Consensus       280 kdcvRLRGLPy~AtvEdIL~FlgdFa~~i~f~gVHmv~N~q-GrPS------GeAFIqm~nae~a~aaaqk~hk~~mk~R  352 (508)
T KOG1365|consen  280 KDCVRLRGLPYEATVEDILDFLGDFATDIRFQGVHMVLNGQ-GRPS------GEAFIQMRNAERARAAAQKCHKKLMKSR  352 (508)
T ss_pred             CCeeEecCCChhhhHHHHHHHHHHHhhhcccceeEEEEcCC-CCcC------hhhhhhhhhhHHHHHHHHHHHHhhcccc
Confidence            789999999999999999999999985443   67766654 6655      9999999999999999998888777444


Q ss_pred             c
Q psy3854         113 K  113 (222)
Q Consensus       113 k  113 (222)
                      -
T Consensus       353 Y  353 (508)
T KOG1365|consen  353 Y  353 (508)
T ss_pred             e
Confidence            3

>KOG2068|consensus

Probab=90.86  E-value=0.16  Score=47.32  Aligned_cols=78  Identities=13%  Similarity=0.286  Sum_probs=59.6

Q ss_pred             CccEEEEcCCCCCCCHHHH---HHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCC
Q psy3854          35 KKGIIYLSKVPPHMNVTQL---TEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDC  111 (222)
Q Consensus        35 ~~g~VYIsnLP~~m~e~~L---r~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~G  111 (222)
                      ...-+||-.||+.+..+.+   .+.|++||.|.+|.+..+..+..+   ...+.-++|.|...++|..|+..-+|..+.|
T Consensus        76 qknlvyvvgl~~~~ade~~l~~~eyfgqygki~ki~~~~~~S~~s~---~~~~~s~yITy~~~eda~rci~~v~g~~~dg  152 (327)
T KOG2068|consen   76 QKNLVYVVGLPLDLADESVLERTEYFGQYGKINKIVKNKDPSSSSS---SGGTCSVYITYEEEEDADRCIDDVDGFVDDG  152 (327)
T ss_pred             hhhhhhhhCCCccccchhhhhCcccccccccceEEeecCCcccccC---CCCCCcccccccchHhhhhHHHHhhhHHhhh
Confidence            4455799999988876655   357999999999988776521111   1223459999999999999999999999999


Q ss_pred             cccc
Q psy3854         112 RKRS  115 (222)
Q Consensus       112 rk~~  115 (222)
                      +.+.
T Consensus       153 ~~lk  156 (327)
T KOG2068|consen  153 RALK  156 (327)
T ss_pred             hhhH
Confidence            9853

>PF04847 Calcipressin: Calcipressin; InterPro: IPR006931 Calcipressin 1 negatively regulates calcineurin (IPR015757 from INTERPRO) by direct binding and is essential for the survival of T helper type 1 cells

Probab=90.02  E-value=0.69  Score=39.80  Aligned_cols=77  Identities=14%  Similarity=0.208  Sum_probs=47.0

Q ss_pred             HHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhc--CCccCCccccccccccccc---
Q psy3854          50 VTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYN--NTQIDCRKRSKHYDFIWNF---  124 (222)
Q Consensus        50 e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LN--g~~i~Grk~~~~~~~lWni---  124 (222)
                      ...|+.+|+.|+.+..+...+            +|+---|.|.+.++|..|...|+  ++.+.|..+..|+.....+   
T Consensus         9 ~~~l~~l~~~~~~~~~~~~L~------------sFrRi~v~f~~~~~A~~~r~~l~~~~~~~~g~~l~~yf~~~~~~~~~   76 (184)
T PF04847_consen    9 LAELEELFSTYDPPVQFSPLK------------SFRRIRVVFESPESAQRARQLLHWDGTSFNGKRLRVYFGQPTPIEDD   76 (184)
T ss_dssp             HHHHHHHHHTT-SS-EEEEET------------TTTEEEEE-SSTTHHHHHHHTST--TSEETTEE-EEE----SS----
T ss_pred             HHHHHHHHHhcCCceEEEEcC------------CCCEEEEEeCCHHHHHHHHHHhcccccccCCCceEEEEccccccccc
Confidence            468999999999998877665            24568899999999999999999  9999999988777766554   


Q ss_pred             ---ccCC----------------CcccchhhHH
Q psy3854         125 ---KYLP----------------RFKWIHLNER  138 (222)
Q Consensus       125 ---kyL~----------------~fkW~~L~e~  138 (222)
                         .||.                ...|....|.
T Consensus        77 ~~~~~L~~P~~~K~FLISPP~SPP~gWe~~~E~  109 (184)
T PF04847_consen   77 SEKQYLEPPKPEKQFLISPPPSPPVGWEPRCED  109 (184)
T ss_dssp             --S--S---------------------------
T ss_pred             ccccccCCCCccceeeecCCCCCCCCCcccccC
Confidence               5552                6789876654

Calcipressin 1 is a phosphoprotein that increases its capacity to inhibit calcineurin when phosphorylated at the FLISPP motif, and this phosphorylation also controls the half-life of calcipressin 1 by accelerating its degradation []. Calcineurin is a calcium-responsive enzyme that dephosphorylates the nuclear factor of activated T cells (NFAT). In so doing it promotes its nuclear translocation and uniquely links calcium signalling to transcriptional regulation []. Calcipressins are a family of proteins derived from three genes. Calcipressin 1 is also known as modulatory calcineurin-interacting protein 1 (MCIP1), Adapt78 and Down syndrome critical region 1 (DSCR1). Calcipressin 2 is variously known as MCIP2, ZAKI-4 and DSCR1-like 1. Calcipressin 3 is also called MCIP3 and DSCR1-like 2 []. DSCR1 (Adapt78) is associated with successful adaptation to oxidative stress and calcium stress as well as with diseases like Alzheimer's and Down syndrome. The DSCR1 (Adapt78) isoform 1 protein, calcipressin 1, inhibits calcineurin and protects against acute calcium-mediated stress damage, including transient oxidative stress []. Calcipressin 1 is encoded by DSCR1, a gene on human chromosome 21. Calcipressin 1 isoform 1 has an N-terminal coding region, which generates a new polypeptide of 252 amino acids. Endogenous calcipressin 1 exists as a complex together with the calcineurin A and B heterodimer []. ; GO: 0019722 calcium-mediated signaling; PDB: 1WEY_A.

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

Probab=89.49  E-value=1.7  Score=31.30  Aligned_cols=55  Identities=11%  Similarity=0.245  Sum_probs=45.4

Q ss_pred             CccEEEEcCCCCCCCHHHHHHHhhcC----cceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHh
Q psy3854          35 KKGIIYLSKVPPHMNVTQLTEFMSRF----GEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQY  104 (222)
Q Consensus        35 ~~g~VYIsnLP~~m~e~~Lr~lFs~f----G~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~L  104 (222)
                      .+..|+|.++ ..|+.++|...|..|    | ..+|.-+-|.             -.=|.|.|...|.+|+..|
T Consensus         4 rpeavhirGv-d~lsT~dI~~y~~~y~~~~~-~~~IEWIdDt-------------ScNvvf~d~~~A~~AL~~L   62 (62)
T PF10309_consen    4 RPEAVHIRGV-DELSTDDIKAYFSEYFDEEG-PFRIEWIDDT-------------SCNVVFKDEETAARALVAL   62 (62)
T ss_pred             eeceEEEEcC-CCCCHHHHHHHHHHhcccCC-CceEEEecCC-------------cEEEEECCHHHHHHHHHcC
Confidence            5677999998 569999999999999    4 4577776653             3779999999999999765

>KOG1365|consensus

Probab=89.34  E-value=1.3  Score=42.61  Aligned_cols=63  Identities=14%  Similarity=0.229  Sum_probs=47.9

Q ss_pred             ccCCccEEEEcCCCCCCCHHHHHHHhhcC-----cceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHH
Q psy3854          32 KKYKKGIIYLSKVPPHMNVTQLTEFMSRF-----GEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAA  102 (222)
Q Consensus        32 k~~~~g~VYIsnLP~~m~e~~Lr~lFs~f-----G~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~  102 (222)
                      .+...-+|-+..||++.++.++.++|.+.     |..+=+++.+-+  |+.-      |.+||-|...++|..|+.
T Consensus       157 sk~~qvivRmRGLPfdat~~dVv~FF~~~cpv~~g~egvLFV~rpd--grpT------GdAFvlfa~ee~aq~aL~  224 (508)
T KOG1365|consen  157 SKENQVIVRMRGLPFDATALDVVEFFGPPCPVTGGTEGVLFVTRPD--GRPT------GDAFVLFACEEDAQFALR  224 (508)
T ss_pred             CcccceEEEecCCCCCcchHHHHHhcCCCCcccCCccceEEEECCC--CCcc------cceEEEecCHHHHHHHHH
Confidence            34456788999999999999999999843     444455554422  4444      999999999999997764

>KOG2416|consensus

Probab=89.16  E-value=0.34  Score=48.61  Aligned_cols=66  Identities=17%  Similarity=0.249  Sum_probs=53.8

Q ss_pred             ccCCccEEEEcCCCCCCCHHHHHHHhhc-CcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCcc
Q psy3854          32 KKYKKGIIYLSKVPPHMNVTQLTEFMSR-FGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQI  109 (222)
Q Consensus        32 k~~~~g~VYIsnLP~~m~e~~Lr~lFs~-fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i  109 (222)
                      +.....+|||.||=.-+|..+|++|+++ -|.|...  ..|.  .+        ..+||.|.+-++|-.....|||...
T Consensus       440 R~~~SnvlhI~nLvRPFTlgQLkelL~rtgg~Vee~--WmDk--IK--------ShCyV~yss~eEA~atr~AlhnV~W  506 (718)
T KOG2416|consen  440 RKEPSNVLHIDNLVRPFTLGQLKELLGRTGGNVEEF--WMDK--IK--------SHCYVSYSSVEEAAATREALHNVQW  506 (718)
T ss_pred             CCCccceEeeecccccchHHHHHHHHhhccCchHHH--HHHH--hh--------cceeEecccHHHHHHHHHHHhcccc
Confidence            4456788999999999999999999995 5566665  4443  23        4599999999999999999999654

>KOG0804|consensus

Probab=87.84  E-value=2  Score=42.01  Aligned_cols=68  Identities=16%  Similarity=0.265  Sum_probs=56.9

Q ss_pred             ccEEEEcCCCCCCCHHHHHHHhhcCc-ceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCC
Q psy3854          36 KGIIYLSKVPPHMNVTQLTEFMSRFG-EVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDC  111 (222)
Q Consensus        36 ~g~VYIsnLP~~m~e~~Lr~lFs~fG-~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~G  111 (222)
                      ...|.|=-+|-.|+..+|-.+...|= .|..|.+++|....+        ----|.|.+..+|..-.+.+||.++..
T Consensus        74 ~~mLcilaVP~~mt~~Dll~F~~~~~~~I~~irivRd~~pnr--------ymvLIkFr~q~da~~Fy~efNGk~Fn~  142 (493)
T KOG0804|consen   74 STMLCILAVPAYMTSHDLLRFCASFIKQISDIRIVRDGMPNR--------YMVLIKFRDQADADTFYEEFNGKQFNS  142 (493)
T ss_pred             CcEEEEEeccccccHHHHHHHHHHHhhhhheeEEeecCCCce--------EEEEEEeccchhHHHHHHHcCCCcCCC
Confidence            67799999999999999999998865 678999999644211        235699999999999999999998753

>PF03880 DbpA: DbpA RNA binding domain ; InterPro: IPR005580 This RNA binding domain is found at the C terminus of a number of DEAD helicase proteins []

Probab=86.22  E-value=3  Score=30.16  Aligned_cols=54  Identities=17%  Similarity=0.314  Sum_probs=35.8

Q ss_pred             CCCCHHHHHHHhhcCc-----ceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCCccc
Q psy3854          46 PHMNVTQLTEFMSRFG-----EVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDCRKR  114 (222)
Q Consensus        46 ~~m~e~~Lr~lFs~fG-----~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~Grk~  114 (222)
                      ..+++.+|-.++..-+     .|++|.|..              .|.||+-.. +.|..++..||+..+.|+++
T Consensus        11 dg~~~~~iv~~i~~~~gi~~~~IG~I~I~~--------------~~S~vev~~-~~a~~v~~~l~~~~~~gk~v   69 (74)
T PF03880_consen   11 DGLTPRDIVGAICNEAGIPGRDIGRIDIFD--------------NFSFVEVPE-EVAEKVLEALNGKKIKGKKV   69 (74)
T ss_dssp             GT--HHHHHHHHHTCTTB-GGGEEEEEE-S--------------S-EEEEE-T-T-HHHHHHHHTT--SSS---
T ss_pred             cCCCHHHHHHHHHhccCCCHHhEEEEEEee--------------eEEEEEECH-HHHHHHHHHhcCCCCCCeeE
Confidence            4678889988888864     567888854              589999766 69999999999999999986

; PDB: 2G0C_A 3MOJ_B.

>KOG2253|consensus

Probab=85.43  E-value=0.61  Score=47.10  Aligned_cols=68  Identities=15%  Similarity=0.138  Sum_probs=60.2

Q ss_pred             ccCCccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCC
Q psy3854          32 KKYKKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDC  111 (222)
Q Consensus        32 k~~~~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~G  111 (222)
                      .....-+||||+|-..+..+-++.++...|-|-++...               -|||++|.++..+-+|+..|+-..++|
T Consensus        36 ~~~~~~~vfv~~~~~~~s~~~~~~il~~~g~v~s~kr~---------------~fgf~~f~~~~~~~ra~r~~t~~~~~~  100 (668)
T KOG2253|consen   36 PLPPRDTVFVGNISYLVSQEFWKSILAKSGFVPSWKRD---------------KFGFCEFLKHIGDLRASRLLTELNIDD  100 (668)
T ss_pred             CCCCCceeEecchhhhhhHHHHHHHHhhCCcchhhhhh---------------hhcccchhhHHHHHHHHHHhcccCCCc
Confidence            44567789999999999999999999999998877432               389999999999999999999999988


Q ss_pred             ccc
Q psy3854         112 RKR  114 (222)
Q Consensus       112 rk~  114 (222)
                      .++
T Consensus       101 ~kl  103 (668)
T KOG2253|consen  101 QKL  103 (668)
T ss_pred             chh
Confidence            886

>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=83.29  E-value=11  Score=29.88  Aligned_cols=70  Identities=13%  Similarity=0.201  Sum_probs=48.0

Q ss_pred             ccEEEEcCCCCCCCHHHHHHHhhcCc-ceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCCcc
Q psy3854          36 KGIIYLSKVPPHMNVTQLTEFMSRFG-EVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDCRK  113 (222)
Q Consensus        36 ~g~VYIsnLP~~m~e~~Lr~lFs~fG-~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~Grk  113 (222)
                      ...+-+...|+.++.+.|..+.+.+- .|..++|.+|...  .+      --.-+.|.+...|..-....||+++..-.
T Consensus        13 ~~~~~l~vp~~~~~~d~l~~f~~~~~~~i~~~riird~~p--nr------ymVLikF~~~~~Ad~Fy~~fNGk~FnslE   83 (110)
T PF07576_consen   13 STLCCLAVPPYMTPSDFLLFFGAPFREDIEHIRIIRDGTP--NR------YMVLIKFRDQESADEFYEEFNGKPFNSLE   83 (110)
T ss_pred             ceEEEEEeCcccccHHHHHHhhhcccccEEEEEEeeCCCC--ce------EEEEEEECCHHHHHHHHHHhCCCccCCCC
Confidence            33444444444444556777777765 4567788776432  22      34668999999999999999999987543

These proteins share a region of sequence similarity at their N terminus. They also have IPR001607 from INTERPRO at the C terminus.

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

No homologous structure with e-value below 0.005

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	222
3s8s_A	110	Histone-lysine N-methyltransferase SETD1A; chromat	1e-04

>3s8s_A Histone-lysine N-methyltransferase SETD1A; chromatin modification, transcription regulation, structural genomics, structural genomics consortium; 1.30A {Homo sapiens} Length = 110

 Score = 39.3 bits (92), Expect = 1e-04
 Identities = 19/102 (18%), Positives = 40/102 (39%), Gaps = 17/102 (16%)

Query: 39  IYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAK 98
           +  +++  ++  T L +   ++GEV  V ++     P  +K         + F   + AK
Sbjct: 9   VTFARLNDNVRETFLKDMCRKYGEVEEVEIL---LHPRTRKH-LGL--ARVLFTSTRGAK 62

Query: 99  QVAAQYNNTQIDCR-----------KRSKHYDFIWNFKYLPR 129
           +     + T +              +R K+Y+ I N  Y P+
Sbjct: 63  ETVKNLHLTSVMGNIIHAQLDIKGQQRMKYYELIVNGSYTPQ 104

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	222
4fxv_A	99	ELAV-like protein 1; RNA recognition motif, putati	99.83
4f25_A	115	Polyadenylate-binding protein 1; RRM fold, transla	99.82
3s8s_A	110	Histone-lysine N-methyltransferase SETD1A; chromat	99.81
3md1_A	83	Nuclear and cytoplasmic polyadenylated RNA-bindin	99.79
3p5t_L	90	Cleavage and polyadenylation specificity factor S;	99.78
2lxi_A	91	RNA-binding protein 10; NMR {Homo sapiens}	99.78
3mdf_A	85	Peptidyl-prolyl CIS-trans isomerase E; RRM domain,	99.78
1x4e_A	85	RNA binding motif, single-stranded interacting pro	99.78
2la6_A	99	RNA-binding protein FUS; structural genomics, nort	99.78
3bs9_A	87	Nucleolysin TIA-1 isoform P40; RNA recognition mot	99.78
3ns6_A	100	Eukaryotic translation initiation factor 3 subuni;	99.78
2lkz_A	95	RNA-binding protein 5; RRM; NMR {Homo sapiens}	99.77
2dnz_A	95	Probable RNA-binding protein 23; RNA recognition m	99.77
1x5u_A	105	Splicing factor 3B subunit 4 (spliceosome associat	99.77
2e5h_A	94	Zinc finger CCHC-type and RNA-binding motif- conta	99.77
2khc_A	118	Testis-specific RNP-type RNA binding protein; RRM,	99.77
2x1f_A	96	MRNA 3'-END-processing protein RNA15; transcriptio	99.77
1p27_B	106	RNA-binding protein 8A; nuclear protein, mRNA spli	99.77
1whw_A	99	Hypothetical protein riken cDNA 1200009A02; RNA re	99.77
2dnm_A	103	SRP46 splicing factor; RRM domain, RBD, structural	99.77
4a8x_A	88	RNA-binding protein with serine-rich domain 1; tra	99.77
2krb_A	81	Eukaryotic translation initiation factor 3 subunit	99.77
1s79_A	103	Lupus LA protein; RRM, alpha/beta, RNA binding pro	99.77
2mss_A	75	Protein (musashi1); RNA-binding domain, RNA bindin	99.77
2cq0_A	103	Eukaryotic translation initiation factor 3 subunit	99.76
2cqc_A	95	Arginine/serine-rich splicing factor 10; RNA recog	99.76
2cph_A	107	RNA binding motif protein 19; RNA recognition moti	99.76
1x5s_A	102	Cold-inducible RNA-binding protein; structure geno	99.76
2dgs_A	99	DAZ-associated protein 1; RRM domain, structural g	99.76
1x5t_A	96	Splicing factor 3B subunit 4; structure genomics,	99.76
2div_A	99	TRNA selenocysteine associated protein; structural	99.76
2dgp_A	106	Bruno-like 4, RNA binding protein; RRM domain, str	99.75
1oo0_B	110	CG8781-PA, drosophila Y14; RNA recognition motif,	99.75
3s7r_A	87	Heterogeneous nuclear ribonucleoprotein A/B; ferre	99.75
3ucg_A	89	Polyadenylate-binding protein 2; ferredoxin-like,	99.75
2jrs_A	108	RNA-binding protein 39; RNA binding motif of RBM39	99.75
2do4_A	100	Squamous cell carcinoma antigen recognized by T- c	99.75
2cqb_A	102	Peptidyl-prolyl CIS-trans isomerase E; RNA recogni	99.75
2dgo_A	115	Cytotoxic granule-associated RNA binding protein 1	99.75
2dnh_A	105	Bruno-like 5, RNA binding protein; RRM domain, RBD	99.75
2ywk_A	95	Putative RNA-binding protein 11; RRM-domain, struc	99.75
3n9u_C	156	Cleavage and polyadenylation specificity factor S;	99.75
1uaw_A	77	Mouse-musashi-1; RNP-type structure, RNA binding p	99.75
1x5o_A	114	RNA binding motif, single-stranded interacting pro	99.75
2d9p_A	103	Polyadenylate-binding protein 3; RRM domain, struc	99.75
1x4h_A	111	RNA-binding protein 28; structural genomics, RRM d	99.74
2ki2_A	90	SS-DNA binding protein 12RNP2; HP0827, RRM, SS-DNA	99.74
2m2b_A	131	RNA-binding protein 10; T-cell, JCSG, MPP, PSI-bio	99.74
2cpi_A	111	CCR4-NOT transcription complex subunit 4; RNA reco	99.74
2cpz_A	115	CUG triplet repeat RNA-binding protein 1; RRM doma	99.74
2fy1_A	116	RNA-binding motif protein, Y chromosome, family 1	99.74
2ek1_A	95	RNA-binding protein 12; RNA recognition motif, dim	99.74
3ulh_A	107	THO complex subunit 4; nuclear protein, RNA bindin	99.74
2cpf_A	98	RNA binding motif protein 19; RNA recognition moti	99.74
2dhg_A	104	TRNA selenocysteine associated protein (SECP43); R	99.74
2kn4_A	158	Immunoglobulin G-binding protein G, splicing FACT	99.74
1p1t_A	104	Cleavage stimulation factor, 64 kDa subunit; RNA r	99.74
3ex7_B	126	RNA-binding protein 8A; protein-RNA complex, mRNA	99.74
2nlw_A	105	Eukaryotic translation initiation factor 3 subunit	99.74
2cqp_A	98	RNA-binding protein 12; RNA recognition motif, RRM	99.73
2dgv_A	92	HnRNP M, heterogeneous nuclear ribonucleoprotein M	99.73
1wi8_A	104	EIF-4B, eukaryotic translation initiation factor 4	99.73
2cpe_A	113	RNA-binding protein EWS; RNA recognition motif, RR	99.73
2cq4_A	114	RNA binding motif protein 23; RRM domain, structur	99.73
2dng_A	103	Eukaryotic translation initiation factor 4H; RRM d	99.73
2ku7_A	140	MLL1 PHD3-CYP33 RRM chimeric protein; transcriptio	99.73
2cq3_A	103	RNA-binding protein 9; RRM domain, structural geno	99.73
1u6f_A	139	Tcubp1, RNA-binding protein UBP1; trypanosome, mRN	99.73
2j76_E	100	EIF-4B, EIF4B, eukaryotic translation initiation f	99.72
2cqi_A	103	Nucleolysin TIAR; RNA recognition motif, RRM, RNA	99.72
2kxn_B	129	Transformer-2 protein homolog beta; SR protein, RR	99.72
2jwn_A	124	Embryonic polyadenylate-binding protein 2-B; epabp	99.72
1iqt_A	75	AUF1, heterogeneous nuclear ribonucleoprotein D0;	99.72
2dgx_A	96	KIAA0430 protein; RRM domain, structural genomics,	99.72
2err_A	109	Ataxin-2-binding protein 1; protein-RNA complex, R	99.72
2kt5_A	124	RNA and export factor-binding protein 2; chaperone	99.72
2j8a_A	136	Histone-lysine N-methyltransferase, H3 lysine-4 sp	99.72
2cqd_A	116	RNA-binding region containing protein 1; RNA recog	99.72
2wbr_A	89	GW182, gawky, LD47780P; DNA-binding protein, RRM,	99.72
1sjq_A	105	Polypyrimidine tract-binding protein 1; babbab mot	99.71
1h2v_Z	156	20 kDa nuclear CAP binding protein; CAP-binding-co	99.71
2dh8_A	105	DAZ-associated protein 1; RRM domain, structural g	99.71
1x4b_A	116	Heterogeneous nuclear ribonucleoproteins A2/B1; st	99.71
2rs2_A	109	Musashi-1, RNA-binding protein musashi homolog 1;	99.71
2do0_A	114	HnRNP M, heterogeneous nuclear ribonucleoprotein M	99.71
1rk8_A	165	CG8781-PA, CG8781-PA protein; mRNA processing, RRM	99.71
2dis_A	109	Unnamed protein product; structural genomics, RRM	99.7
1x4d_A	102	Matrin 3; structural genomics, RRM domain, NPPSFA,	99.7
1wg5_A	104	Heterogeneous nuclear ribonucleoprotein H; structu	99.7
1wel_A	124	RNA-binding protein 12; structural genomics, NPPSF	99.7
2a3j_A	127	U1 small nuclear ribonucleoprotein A; computationa	99.7
4f02_A	213	Polyadenylate-binding protein 1; mRNA, eukaryotic	99.69
3lqv_A	115	PRE-mRNA branch site protein P14; cysless mutant,	99.69
2lea_A	135	Serine/arginine-rich splicing factor 2; SR protein	99.69
1x4a_A	109	Splicing factor, arginine/serine-rich 1 (splicing	99.69
2cpy_A	114	RNA-binding protein 12; RRM domain, structural gen	99.69
1fxl_A	167	Paraneoplastic encephalomyelitis antigen HUD; prot	99.69
2dgw_A	91	Probable RNA-binding protein 19; RRM domain, struc	99.69
3q2s_C	229	Cleavage and polyadenylation specificity factor S;	99.69
1fj7_A	101	Nucleolin RBD1, protein C23; RNP, RRM, RNA binding	99.69
1wez_A	102	HnRNP H', FTP-3, heterogeneous nuclear ribonucleop	99.68
2cqg_A	103	TDP-43, TAR DNA-binding protein-43; RNA recognitio	99.68
2lmi_A	107	GRSF-1, G-rich sequence factor 1; G-rich RNA seque	99.68
3r27_A	100	HnRNP L, heterogeneous nuclear ribonucleoprotein L	99.68
3md3_A	166	Nuclear and cytoplasmic polyadenylated RNA-bindin	99.68
1b7f_A	168	Protein (SXL-lethal protein), RNA (5'-R(P*GP*UP*UP	99.68
1whx_A	111	Hypothetical protein riken cDNA 1200009A02; RNA re	99.68
2xs2_A	102	Deleted in azoospermia-like; RNA binding protein-R	99.68
2hvz_A	101	Splicing factor, arginine/serine-rich 7; RRM, RNA	99.68
2cpx_A	115	Hypothetical protein FLJ11016; RRM domain, structu	99.68
2ytc_A	85	PRE-mRNA-splicing factor RBM22; RRM domain, RBD, s	99.67
2la4_A	101	Nuclear and cytoplasmic polyadenylated RNA-bindin	99.67
2g4b_A	172	Splicing factor U2AF 65 kDa subunit; protein-RNA c	99.67
1why_A	97	Hypothetical protein riken cDNA 1810017N16; RNA re	99.67
2cpj_A	99	Non-POU domain-containing octamer-binding protein;	99.67
1wex_A	104	Hypothetical protein (riken cDNA 2810036L13); stru	99.67
2dnq_A	90	RNA-binding protein 4B; RRM domain,RBD, structural	99.67
2jvr_A	111	Nucleolar protein 3; RNA recognition motif, nucleu	99.67
2i2y_A	150	Fusion protein consists of immunoglobin G- binding	99.67
1x4g_A	109	Nucleolysin TIAR; structural genomics, RRM domain,	99.66
2cq1_A	101	PTB-like protein L; RRM domain, structural genomic	99.66
1nu4_A	97	U1A RNA binding domain; RNA recognition motif, U1	99.66
2db1_A	118	Heterogeneous nuclear ribonucleoprotein F; RRM dom	99.66
2ad9_A	119	Polypyrimidine tract-binding protein 1; RBD, RRM,	99.66
2dgt_A	92	RNA-binding protein 30; RRM domain, structural gen	99.66
2cpd_A	99	Apobec-1 stimulating protein; RNA recognition moti	99.66
2e5j_A	97	Methenyltetrahydrofolate synthetase domain contain	99.66
2fc9_A	101	NCL protein; structure genomics, RRM_1 domain, str	99.66
1x4f_A	112	Matrin 3; structural genomics, RRM domain, NPPSFA,	99.66
2hgl_A	136	HNRPF protein, heterogeneous nuclear ribonucleopro	99.66
2xnq_A	97	Nuclear polyadenylated RNA-binding protein 3; tran	99.66
2e44_A	96	Insulin-like growth factor 2 mRNA binding protein	99.66
2dnp_A	90	RNA-binding protein 14; RRM domain, RBD, structura	99.66
2dnn_A	109	RNA-binding protein 12; RRM domain, RBD, structura	99.66
1fxl_A	167	Paraneoplastic encephalomyelitis antigen HUD; prot	99.65
2qfj_A	216	FBP-interacting repressor; protein-DNA complex; HE	99.65
2qfj_A	216	FBP-interacting repressor; protein-DNA complex; HE	99.65
2lcw_A	116	RNA-binding protein FUS; RRM, nucleic acid binding	99.47
2kvi_A	96	Nuclear polyadenylated RNA-binding protein 3; RNA-	99.65
1x4c_A	108	Splicing factor, arginine/serine-rich 1; structura	99.65
2dnl_A	114	Cytoplasmic polyadenylation element binding protei	99.65
2jvo_A	108	Nucleolar protein 3; nucleus, phosphorylation, rib	99.65
1l3k_A	196	Heterogeneous nuclear ribonucleoprotein A1; nuclea	99.65
2f3j_A	177	RNA and export factor binding protein 2; RRM domai	99.65
1b7f_A	168	Protein (SXL-lethal protein), RNA (5'-R(P*GP*UP*UP	99.64
2fc8_A	102	NCL protein; structure genomics, RRM_1 domain, str	99.64
2cjk_A	167	Nuclear polyadenylated RNA-binding protein 4; HRP1	99.64
1fjc_A	96	Nucleolin RBD2, protein C23; RNP, RRM, RNA binding	99.64
1wf1_A	110	RNA-binding protein RALY; structural genomics, RRM	99.64
3beg_B	115	Splicing factor, arginine/serine-rich 1; kinase, S	99.64
3nmr_A	175	Cugbp ELAV-like family member 1; RRM, PRE-mRNA spl	99.63
2dha_A	123	FLJ20171 protein; RRM domain, structural genomics,	99.63
2dgu_A	103	Heterogeneous nuclear ribonucleoprotein Q; RRM dom	99.63
2e5g_A	94	U6 snRNA-specific terminal uridylyltransferase 1;	99.63
3md3_A	166	Nuclear and cytoplasmic polyadenylated RNA-bindin	99.63
2yh0_A	198	Splicing factor U2AF 65 kDa subunit; PRE-mRNA spli	99.63
2hgn_A	139	Heterogeneous nuclear ribonucleoprotein F; RNA rec	99.63
3egn_A	143	RNA-binding protein 40; RNA recognition motif (RRM	99.62
3tyt_A	205	Heterogeneous nuclear ribonucleoprotein L; ferredo	99.62
2cjk_A	167	Nuclear polyadenylated RNA-binding protein 4; HRP1	99.62
2cq2_A	114	Hypothetical protein LOC91801; RRM domain, structu	99.62
2hgm_A	126	HNRPF protein, heterogeneous nuclear ribonucleopro	99.62
3pgw_S	437	U1-70K; protein-RNA complex, U1 snRNA, SM fold, SM	99.61
3nmr_A	175	Cugbp ELAV-like family member 1; RRM, PRE-mRNA spl	99.61
2hzc_A	87	Splicing factor U2AF 65 kDa subunit; RNA splicing,	99.61
1l3k_A	196	Heterogeneous nuclear ribonucleoprotein A1; nuclea	99.61
4f02_A	213	Polyadenylate-binding protein 1; mRNA, eukaryotic	99.61
2cqh_A	93	IGF-II mRNA-binding protein 2 isoform A; RNA recog	99.6
1wg1_A	88	KIAA1579 protein, homolog EXC-7; RBD, structural g	99.6
3d2w_A	89	TAR DNA-binding protein 43; DP-43 proteinopathy, T	99.6
2pe8_A	105	Splicing factor 45; RRM, protein binding; 2.00A {H	99.58
3sde_A	261	Paraspeckle component 1; RRM, anti parallel right	99.58
3zzy_A	130	Polypyrimidine tract-binding protein 1; protein bi	99.58
2e5i_A	124	Heterogeneous nuclear ribonucleoprotein L-like; RR	99.58
3smz_A	284	Protein raver-1, ribonucleoprotein PTB-binding 1;	99.57
1sjr_A	164	Polypyrimidine tract-binding protein 1; extended b	99.57
2voo_A	193	Lupus LA protein; RNA-binding protein, RNA recogni	99.56
1x5p_A	97	Negative elongation factor E; structure genomics,	99.56
3tyt_A	205	Heterogeneous nuclear ribonucleoprotein L; ferredo	99.55
3smz_A	284	Protein raver-1, ribonucleoprotein PTB-binding 1;	99.54
1fje_B	175	Nucleolin RBD12, protein C23; RNP, RRM, RNA bindin	99.54
3sde_A	261	Paraspeckle component 1; RRM, anti parallel right	99.54
2adc_A	229	Polypyrimidine tract-binding protein 1; RBD, RRM,	99.53
2diu_A	96	KIAA0430 protein; structural genomics, RRM domain,	99.53
1qm9_A	198	Polypyrimidine tract-binding protein; ribonucleopr	99.53
2ghp_A	292	U4/U6 snRNA-associated splicing factor PRP24; RNA	99.52
3pgw_A	282	U1-A; protein-RNA complex, U1 snRNA, SM fold, SM c	99.52
2ghp_A	292	U4/U6 snRNA-associated splicing factor PRP24; RNA	99.51
1fje_B	175	Nucleolin RBD12, protein C23; RNP, RRM, RNA bindin	99.5
1qm9_A	198	Polypyrimidine tract-binding protein; ribonucleopr	99.5
3v4m_A	105	Splicing factor U2AF 65 kDa subunit; canonical RNA	99.5
2bz2_A	121	Negative elongation factor E; NELF E, RNA recognit	99.49
1wf0_A	88	TDP-43, TAR DNA-binding protein-43; structural gen	99.49
3pgw_A	282	U1-A; protein-RNA complex, U1 snRNA, SM fold, SM c	99.48
2adc_A	229	Polypyrimidine tract-binding protein 1; RBD, RRM,	99.46
1jmt_A	104	Splicing factor U2AF 35 kDa subunit; RRM, RNA spli	99.44
3ue2_A	118	Poly(U)-binding-splicing factor PUF60; RNA recogni	99.44
2g4b_A	172	Splicing factor U2AF 65 kDa subunit; protein-RNA c	99.44
2dit_A	112	HIV TAT specific factor 1 variant; structural geno	99.43
3u1l_A	240	PRE-mRNA-splicing factor CWC2; CSMP, zinc finger;	99.43
2yh0_A	198	Splicing factor U2AF 65 kDa subunit; PRE-mRNA spli	99.4
3tht_A	345	Alkylated DNA repair protein ALKB homolog 8; struc	99.38
3s6e_A	114	RNA-binding protein 39; ferredoxin-like, structura	99.24
2d9o_A	100	DNAJ (HSP40) homolog, subfamily C, member 17; RRM	99.23
1owx_A	121	Lupus LA protein, SS-B, LA; RRM, transcription; NM	99.18
3dxb_A	222	Thioredoxin N-terminally fused to PUF60(UHM); spli	99.01
2dnr_A	91	Synaptojanin-1; RRM domain, RBD, structural genomi	98.99
1ufw_A	95	Synaptojanin 2; RNP domain, structural genomics, r	98.86
2l9w_A	117	U4/U6 snRNA-associated-splicing factor PRP24; RRM,	98.53
1uw4_A	91	UPF3X; nonsense mediated mRNA decay protein, RNA-b	97.57
3ctr_A	101	Poly(A)-specific ribonuclease PARN; protein-RNA-co	97.53
1whv_A	100	Poly(A)-specific ribonuclease; RNA recognition mot	97.43
1wey_A	104	Calcipressin 1; structural genomics, RRM domain, r	97.1
2dhx_A	104	Poly (ADP-ribose) polymerase family, member 10 var	96.95
2l08_A	97	Regulator of nonsense transcripts 3A; NESG, nonsen	96.57
3pq1_A	464	Poly(A) RNA polymerase; nucleotidyl transferase, R	95.63
2kn4_A	158	Immunoglobulin G-binding protein G, splicing FACT	95.26
1wwh_A	119	Nucleoporin 35, nucleoporin; structural genomics,	94.83
3d45_A	507	Poly(A)-specific ribonuclease PARN; CAP analogue,	94.14
2i2y_A	150	Fusion protein consists of immunoglobin G- binding	91.82
3p3d_A	132	Nucleoporin 53; structural genomics, PSI-2, protei	87.48
3pgw_S	437	U1-70K; protein-RNA complex, U1 snRNA, SM fold, SM	82.24

>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=99.83  E-value=8.5e-21  Score=143.10  Aligned_cols=76  Identities=17%  Similarity=0.322  Sum_probs=72.0

Q ss_pred             CCccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCCcc
Q psy3854          34 YKKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDCRK  113 (222)
Q Consensus        34 ~~~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~Grk  113 (222)
                      ...++|||+|||+++++++|+++|++||+|.+|.|++|..+|+++      |||||+|.+.++|.+|+..|||..|+|++
T Consensus        17 ~~gt~lfV~nLp~~~te~~L~~~F~~~G~I~~v~i~~d~~tg~~k------G~afV~f~~~~~A~~Ai~~lng~~~~gr~   90 (99)
T 4fxv_A           17 FQGTNLIVNYLPQNMTQDELRSLFSSIGEVESAKLIRDKVAGHSL------GYGFVNYVTAKDAERAINTLNGLRLQSKT   90 (99)
T ss_dssp             CCCSEEEEESCCTTCCHHHHHHHHHTTSCEEEEEEEECSSSCCEE------EEEEEEESSHHHHHHHHHHHTTCEETTEE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCEEEeEeeecCCCCccc------ccEEEEECCHHHHHHHHHHhCCCEECCEE
Confidence            346789999999999999999999999999999999999999988      99999999999999999999999999998


Q ss_pred             cc
Q psy3854         114 RS  115 (222)
Q Consensus       114 ~~  115 (222)
                      +.
T Consensus        91 l~   92 (99)
T 4fxv_A           91 IK   92 (99)
T ss_dssp             CE
T ss_pred             EE
Confidence            73

>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=99.82  E-value=1.6e-21  Score=149.74  Aligned_cols=73  Identities=19%  Similarity=0.352  Sum_probs=67.1

Q ss_pred             CccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCCccc
Q psy3854          35 KKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDCRKR  114 (222)
Q Consensus        35 ~~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~Grk~  114 (222)
                      ..++|||||||+.+++++|+++|++||.|.+|.|+.+..  .+|      |||||+|.+.++|..|+..|||..|.|+++
T Consensus         4 ~~~~lfV~nLp~~~te~~L~~~F~~~G~v~~v~i~~d~~--~~k------g~afV~f~~~~~A~~Ai~~l~~~~~~g~~i   75 (115)
T 4f25_A            4 GSGNIFIKNLDKSIDNKALYDTFSAFGNILSCKVVCDEN--GSK------GYGFVHFETQEAAERAIEKMNGMLLNDRKV   75 (115)
T ss_dssp             -CCEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEEETT--EEE------EEEEEEESCHHHHHHHHHHHTTCEETTEEC
T ss_pred             CCCEEEECCCCCCCCHHHHHHHHhccCCEEEEEEeecCC--CCC------ceEEEEECCHHHHHHHHHHcCCCEECCEEE
Confidence            357899999999999999999999999999999998853  356      999999999999999999999999999987


Q ss_pred             c
Q psy3854         115 S  115 (222)
Q Consensus       115 ~  115 (222)
                      .
T Consensus        76 ~   76 (115)
T 4f25_A           76 F   76 (115)
T ss_dssp             E
T ss_pred             E
Confidence            3

>3s8s_A Histone-lysine N-methyltransferase SETD1A; chromatin modification, transcription regulation, structural genomics, structural genomics consortium; 1.30A {Homo sapiens}

Probab=99.81  E-value=9e-20  Score=140.25  Aligned_cols=75  Identities=15%  Similarity=0.171  Sum_probs=71.6

Q ss_pred             CccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCCccc
Q psy3854          35 KKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDCRKR  114 (222)
Q Consensus        35 ~~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~Grk~  114 (222)
                      .+.+|||+|||+.+++++|+++|++||+|.+|.|+.|..+|++|      |||||+|.+.++|+.|+..|||+.|.|+.+
T Consensus         5 p~~~lfV~nL~~~~te~~L~~~F~~~G~i~~v~i~~d~~tg~~r------G~aFV~f~~~~~A~~Ai~~lng~~~~gr~i   78 (110)
T 3s8s_A            5 PLKEVTFARLNDNVRETFLKDMCRKYGEVEEVEILLHPRTRKHL------GLARVLFTSTRGAKETVKNLHLTSVMGNII   78 (110)
T ss_dssp             CCCEEEEESCCTTCCHHHHHHHHTTTSCEEEEEEEECTTTCCEE------EEEEEEESSHHHHHHHHHHHTTCEETTEEC
T ss_pred             CCcEEEEECCCCCCCHHHHHHHHHhcCCeeEEEEEECCCCCcee------eEEEEEECCHHHHHHHHHHhCCCEECCeEE
Confidence            35689999999999999999999999999999999999999998      999999999999999999999999999997


Q ss_pred             c
Q psy3854         115 S  115 (222)
Q Consensus       115 ~  115 (222)
                      .
T Consensus        79 ~   79 (110)
T 3s8s_A           79 H   79 (110)
T ss_dssp             E
T ss_pred             E
Confidence            4

>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=99.79  E-value=3.1e-19  Score=127.53  Aligned_cols=73  Identities=10%  Similarity=0.141  Sum_probs=69.8

Q ss_pred             cEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCCcccc
Q psy3854          37 GIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDCRKRS  115 (222)
Q Consensus        37 g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~Grk~~  115 (222)
                      .+|||+|||+.+++++|+++|++||+|.+|.|+.+..+|+++      |||||+|.+.++|..|+..|||..|+|+++.
T Consensus         2 ~~l~V~nlp~~~t~~~l~~~f~~~G~i~~~~i~~~~~~~~~~------g~afV~f~~~~~a~~a~~~l~g~~~~g~~l~   74 (83)
T 3md1_A            2 FNLFVGDLNVNVDDETLRNAFKDFPSYLSGHVMWDMQTGSSR------GYGFVSFTSQDDAQNAMDSMQGQDLNGRPLR   74 (83)
T ss_dssp             EEEEEECCCTTCCHHHHHHHHTTSTTEEEEEEEECTTTCCEE------EEEEEEESCHHHHHHHHHHHTTCEETTEECE
T ss_pred             eEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEEEcCCCCCcc------ceEEEEECCHHHHHHHHHHhcCCeeCCcEEE
Confidence            579999999999999999999999999999999998888888      9999999999999999999999999999874

>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=99.78  E-value=1.5e-19  Score=132.60  Aligned_cols=73  Identities=10%  Similarity=0.148  Sum_probs=67.9

Q ss_pred             cEEEEcCCCCCCCHHHHHHHhhcCc--ceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCCccc
Q psy3854          37 GIIYLSKVPPHMNVTQLTEFMSRFG--EVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDCRKR  114 (222)
Q Consensus        37 g~VYIsnLP~~m~e~~Lr~lFs~fG--~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~Grk~  114 (222)
                      .+|||||||+++++++|+++|++||  .|.+|.|+.+..+|+++      |||||+|.+.++|..|++.|||..|.|+.+
T Consensus         2 ~~l~V~nL~~~~t~~~l~~~F~~~G~~~v~~v~i~~~~~~g~~k------G~afV~f~~~~~a~~Ai~~l~g~~~~gr~i   75 (90)
T 3p5t_L            2 IALYIGNLTWWTTDEDLTEAVHSLGVNDILEIKFFENRANGQSK------GFALVGVGSEASSKKLMDLLPKRELHGQNP   75 (90)
T ss_dssp             --CEEESCCTTCCHHHHHHHHHTTTCCCCCCEEEEECTTTCCEE------EEEEECC-CHHHHHHHHHHGGGSCSSSCCC
T ss_pred             eEEEEeCCCCCCCHHHHHHHHHHhCCCceEEEEEEecCCCCccC------cEEEEEECCHHHHHHHHHHcCCCeeCCEEE
Confidence            4699999999999999999999999  99999999999899998      999999999999999999999999999997


Q ss_pred             c
Q psy3854         115 S  115 (222)
Q Consensus       115 ~  115 (222)
                      .
T Consensus        76 ~   76 (90)
T 3p5t_L           76 V   76 (90)
T ss_dssp             E
T ss_pred             E
Confidence            4

>2lxi_A RNA-binding protein 10; NMR {Homo sapiens}

Probab=99.78  E-value=8.6e-20  Score=135.21  Aligned_cols=74  Identities=19%  Similarity=0.232  Sum_probs=68.9

Q ss_pred             ccEEEEcCCCCCCCHHHHHHHhhcCc-ceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHh-cCCccCCcc
Q psy3854          36 KGIIYLSKVPPHMNVTQLTEFMSRFG-EVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQY-NNTQIDCRK  113 (222)
Q Consensus        36 ~g~VYIsnLP~~m~e~~Lr~lFs~fG-~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~L-Ng~~i~Grk  113 (222)
                      +.+|||+|||+.+++++|+++|++|| +|.+|+|++|..+|++|      |||||+|.+.++|.+|++.| |+..|+|++
T Consensus         1 S~~i~v~nLp~~~te~~l~~~F~~~G~~v~~v~i~~d~~t~~~r------g~aFV~F~~~~~A~~Ai~~~~~~~~~~gr~   74 (91)
T 2lxi_A            1 SNIVMLRMLPQAATEDDIRGQLQSHGVQAREVRLMRNKSSGQSR------GFAFVEFSHLQDATRWMEANQHSLNILGQK   74 (91)
T ss_dssp             CCEEEEETCCSSCCHHHHHHHHHHHTCCCSBCCSSSCSSSCCCS------SEEEEECSSHHHHHHHHHTTTTEEEETTEE
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHHhCCEeEEEEEEecCCCCCcC------ceEEEEecCHHHHHHHHHhcCCCeEECCEE
Confidence            36899999999999999999999999 89999999999999998      99999999999999999988 457899998


Q ss_pred             cc
Q psy3854         114 RS  115 (222)
Q Consensus       114 ~~  115 (222)
                      +.
T Consensus        75 i~   76 (91)
T 2lxi_A           75 VS   76 (91)
T ss_dssp             EE
T ss_pred             EE
Confidence            74

>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=99.78  E-value=4.6e-19  Score=127.17  Aligned_cols=76  Identities=13%  Similarity=0.214  Sum_probs=71.6

Q ss_pred             CCccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCCcc
Q psy3854          34 YKKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDCRK  113 (222)
Q Consensus        34 ~~~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~Grk  113 (222)
                      ....+|||+|||+.+++++|+++|++||+|.+|.|+.+..+++++      |+|||+|.+.++|..|+..|||..|+|++
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 TTKRVLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHR------GFAFVEFELAEDAAAAIDNMNESELFGRT   78 (85)
T ss_dssp             CCSSEEEEECCCTTCCHHHHHHHHGGGSCEEEEECCEETTTTEEC------SEEEEEESSHHHHHHHHHHHTTCEETTEE
T ss_pred             CCCCEEEEECCCCCCCHHHHHHHHhccCCEEEEEEEECCCCCccc------cEEEEEECCHHHHHHHHHHhCCCEECCcE
Confidence            456889999999999999999999999999999999998888888      99999999999999999999999999998


Q ss_pred             cc
Q psy3854         114 RS  115 (222)
Q Consensus       114 ~~  115 (222)
                      +.
T Consensus        79 l~   80 (85)
T 3mdf_A           79 IR   80 (85)
T ss_dssp             CE
T ss_pred             EE
Confidence            73

>1x4e_A RNA binding motif, single-stranded interacting protein 2; structural genomics, RRM domain, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.78  E-value=3e-19  Score=128.68  Aligned_cols=75  Identities=12%  Similarity=0.248  Sum_probs=71.1

Q ss_pred             CccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCCccc
Q psy3854          35 KKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDCRKR  114 (222)
Q Consensus        35 ~~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~Grk~  114 (222)
                      ...+|||+|||+.+++++|+++|++||.|.+|.|+.+..+|+++      |||||+|.+.++|..|+..|||..|.|+.+
T Consensus         4 ~~~~l~v~nlp~~~t~~~l~~~f~~~G~i~~~~i~~~~~~~~~~------g~afV~f~~~~~a~~A~~~l~g~~~~g~~~   77 (85)
T 1x4e_A            4 GSSGLYIRGLQPGTTDQDLVKLCQPYGKIVSTKAILDKTTNKCK------GYGFVDFDSPSAAQKAVTALKASGVQAQMA   77 (85)
T ss_dssp             CCCEEEEESCCTTCCHHHHHTTSTTTSCEEEEEEECCSSSCSCC------SEEEEEESCHHHHHHHHHHHHHHTCCEESC
T ss_pred             CCcEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEecCCCCCcC------cEEEEEECCHHHHHHHHHHhcCCeEeeEEE
Confidence            46789999999999999999999999999999999998888888      999999999999999999999999999986


Q ss_pred             c
Q psy3854         115 S  115 (222)
Q Consensus       115 ~  115 (222)
                      .
T Consensus        78 ~   78 (85)
T 1x4e_A           78 K   78 (85)
T ss_dssp             C
T ss_pred             e
Confidence            3

>2la6_A RNA-binding protein FUS; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative, RNA recognition; NMR {Homo sapiens}

Probab=99.78  E-value=1e-18  Score=129.73  Aligned_cols=78  Identities=10%  Similarity=0.239  Sum_probs=73.1

Q ss_pred             ccCCccEEEEcCCCCCCCHHHHHHHhhcCcceeE--------EEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHH
Q psy3854          32 KKYKKGIIYLSKVPPHMNVTQLTEFMSRFGEVGR--------VYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQ  103 (222)
Q Consensus        32 k~~~~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~r--------v~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~  103 (222)
                      ......+|||+|||+++++++|+++|++||.|.+        |.|+.+..+|+++      |||||+|.+.++|..|+..
T Consensus         9 ~~~~~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~~~~~~~~~v~i~~~~~~g~~~------G~afV~f~~~~~a~~Ai~~   82 (99)
T 2la6_A            9 SHSDNNTIFVQGLGENVTIESVADYFKQIGIIKTNKKTGQPMINLYTDRETGKLK------GEATVSFDDPPSAKAAIDW   82 (99)
T ss_dssp             SCCCCSEEEEECCCSSCCHHHHHHHHTTTSCBCEETTTTEESEEEEECTTTCSEE------EEEEEEBSSHHHHHHHHHH
T ss_pred             CCCCCCEEEEeCCCCCCCHHHHHHHHHHhCCEeeccccccccEEEEecCCCCCee------eEEEEEECCHHHHHHHHHH
Confidence            4456789999999999999999999999999999        9999998889888      9999999999999999999


Q ss_pred             hcCCccCCcccc
Q psy3854         104 YNNTQIDCRKRS  115 (222)
Q Consensus       104 LNg~~i~Grk~~  115 (222)
                      |||..++|+.+.
T Consensus        83 l~g~~~~g~~l~   94 (99)
T 2la6_A           83 FDGKEFSGNPIK   94 (99)
T ss_dssp             HTTCBSSSSBCE
T ss_pred             hCCCEeCCcEEE
Confidence            999999999873

>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=99.78  E-value=6.7e-19  Score=126.83  Aligned_cols=75  Identities=13%  Similarity=0.282  Sum_probs=70.6

Q ss_pred             CccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCCccc
Q psy3854          35 KKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDCRKR  114 (222)
Q Consensus        35 ~~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~Grk~  114 (222)
                      ...+|||+|||+.+++++|+++|++||.|.+|.++.+..+|+++      |||||+|.+.++|..|+..|||..++|+.+
T Consensus         5 ~~~~l~v~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~~~~~------g~afV~f~~~~~A~~A~~~l~g~~~~g~~l   78 (87)
T 3bs9_A            5 SHFHVFVGDLSPEITTAAIAAAFAPFGRISDARVVKDMATGKSK------GYGFVSFFNKWDAENAIQQMGGQWLGGRQI   78 (87)
T ss_dssp             -CEEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEECTTTCCEE------EEEEEEESSHHHHHHHHHHHTTCEETTEEC
T ss_pred             CceEEEEeCCCCCCCHHHHHHHHHhcCCEeEEEEEecCCCCccc------eEEEEEECCHHHHHHHHHHcCCCEECCeEE
Confidence            45689999999999999999999999999999999998888888      999999999999999999999999999987


Q ss_pred             c
Q psy3854         115 S  115 (222)
Q Consensus       115 ~  115 (222)
                      .
T Consensus        79 ~   79 (87)
T 3bs9_A           79 R   79 (87)
T ss_dssp             E
T ss_pred             E
Confidence            4

>3ns6_A Eukaryotic translation initiation factor 3 subuni; 1.25A {Saccharomyces cerevisiae} PDB: 3ns5_A

Probab=99.78  E-value=2e-19  Score=134.86  Aligned_cols=74  Identities=16%  Similarity=0.184  Sum_probs=70.7

Q ss_pred             CccEEEEcCCCC------CCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCc
Q psy3854          35 KKGIIYLSKVPP------HMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQ  108 (222)
Q Consensus        35 ~~g~VYIsnLP~------~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~  108 (222)
                      ...+|||+|||+      .+++++|+++|++||+|.+|.|+.+..||++|      |||||+|.+.++|..|+..|||+.
T Consensus         5 ~~~~vfV~nLp~v~~~~~~~~~~~L~~~F~~~G~i~~v~i~~d~~tg~~k------G~afV~f~~~~~A~~Ai~~lng~~   78 (100)
T 3ns6_A            5 SDQYIVVNGAPVIPSAKVPVLKKALTSLFSKAGKVVNMEFPIDEATGKTK------GFLFVECGSMNDAKKIIKSFHGKR   78 (100)
T ss_dssp             GGGEEEEESCCCCBGGGHHHHHHHHHHHHHTTSCEEEEECCEETTTTEEC------SEEEEEESSHHHHHHHHHHHTTCB
T ss_pred             cCcEEEEeCCCcCChHHHHHHHHHHHHHHHhcCCEeEEEEEEcCCCCccc------eEEEEEECCHHHHHHHHHHhCCcc
Confidence            356899999999      99999999999999999999999999999998      999999999999999999999999


Q ss_pred             cCC-ccc
Q psy3854         109 IDC-RKR  114 (222)
Q Consensus       109 i~G-rk~  114 (222)
                      |.| +.+
T Consensus        79 ~~g~r~l   85 (100)
T 3ns6_A           79 LDLKHRL   85 (100)
T ss_dssp             SSSSCBC
T ss_pred             cCCCeEE
Confidence            999 876

>2lkz_A RNA-binding protein 5; RRM; NMR {Homo sapiens}

Probab=99.77  E-value=3.1e-19  Score=134.61  Aligned_cols=75  Identities=17%  Similarity=0.290  Sum_probs=69.3

Q ss_pred             CccEEEEcCCCCCCCHHHHHHHhhcCcc--eeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCc----
Q psy3854          35 KKGIIYLSKVPPHMNVTQLTEFMSRFGE--VGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQ----  108 (222)
Q Consensus        35 ~~g~VYIsnLP~~m~e~~Lr~lFs~fG~--I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~----  108 (222)
                      .-.+|||+|||+.+|+++|+++|++||.  |.+|+|++|..+|++|      |||||+|.+.++|..|++.|||++    
T Consensus         8 ~m~tlfV~nL~~~~tee~L~~~F~~~G~i~v~~v~i~~d~~tg~sr------G~aFV~f~~~~~A~~Ai~~lng~~~~~~   81 (95)
T 2lkz_A            8 HMDTIILRNIAPHTVVDSIMTALSPYASLAVNNIRLIKDKQTQQNR------GFAFVQLSSAMDASQLLQILQSLHPPLK   81 (95)
T ss_dssp             CCCEEEEESCCTTCCHHHHHHHSTTTCCCCGGGEECCCCSSSSSCS------SEEEEECSSSHHHHHHHHHHHSSSSCEE
T ss_pred             ccCEEEEeCCCCcCCHHHHHHHHHhhCCccEEEEEEEecCCCCCCc------eEeEEEECCHHHHHHHHHHhcCCCCCce
Confidence            4567999999999999999999999995  6799999999999998      999999999999999999999985    


Q ss_pred             cCCcccc
Q psy3854         109 IDCRKRS  115 (222)
Q Consensus       109 i~Grk~~  115 (222)
                      |+||++.
T Consensus        82 i~Gr~i~   88 (95)
T 2lkz_A           82 IDGKTIG   88 (95)
T ss_dssp             ETTEEEE
T ss_pred             ECCEEEE
Confidence            8899863

>2dnz_A Probable RNA-binding protein 23; RNA recognition motif, RRM, RNA binding domain, RBD, RNP, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=99.77  E-value=1.5e-18  Score=127.09  Aligned_cols=75  Identities=19%  Similarity=0.320  Sum_probs=71.4

Q ss_pred             CccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCCccc
Q psy3854          35 KKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDCRKR  114 (222)
Q Consensus        35 ~~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~Grk~  114 (222)
                      .+.+|||+|||+.+++++|+++|++||.|.+|.|+.+..+++++      |||||+|.+.++|..|+..|||..|.|+++
T Consensus         4 ~~~~l~v~nlp~~~t~~~l~~~f~~~G~v~~v~i~~~~~~~~~~------g~afV~f~~~~~a~~A~~~l~g~~~~g~~l   77 (95)
T 2dnz_A            4 GSSGLYVGSLHFNITEDMLRGIFEPFGKIDNIVLMKDSDTGRSK------GYGFITFSDSECARRALEQLNGFELAGRPM   77 (95)
T ss_dssp             CCCEEEEESCCTTCCHHHHHHHHTTTSCEEEEEEECCSSSCCCC------SEEEEEESCHHHHHHHHHHHTTCCSSSSCC
T ss_pred             CCcEEEEeCCCCCCCHHHHHHHHHhcCCEeEEEEeecCCCCcee------eEEEEEECCHHHHHHHHHHhCCCeeCCcEE
Confidence            46789999999999999999999999999999999998888888      999999999999999999999999999987


Q ss_pred             c
Q psy3854         115 S  115 (222)
Q Consensus       115 ~  115 (222)
                      .
T Consensus        78 ~   78 (95)
T 2dnz_A           78 R   78 (95)
T ss_dssp             E
T ss_pred             E
Confidence            4

>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=99.77  E-value=1.7e-18  Score=129.28  Aligned_cols=78  Identities=13%  Similarity=0.200  Sum_probs=73.2

Q ss_pred             ccCCccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCC
Q psy3854          32 KKYKKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDC  111 (222)
Q Consensus        32 k~~~~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~G  111 (222)
                      .......|||+|||+.+++++|+++|++||.|.+|.|+.+..+++++      |||||+|.+.++|..|+..|||..|.|
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 ERNQDATVYVGGLDEKVSEPLLWELFLQAGPVVNTHMPKDRVTGQHQ------GYGFVEFLSEEDADYAIKIMDMIKLYG   84 (105)
T ss_dssp             CCCTTTEEEEECCCTTCCHHHHHHHHHTTSCEEEEECCBCSSSCSBC------SCEEEEESSHHHHHHHHHHSSSCBCSS
T ss_pred             cCCCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEecCCCCcCC------cEEEEEECCHHHHHHHHHHhCCCeECC
Confidence            44567899999999999999999999999999999999998888888      999999999999999999999999999


Q ss_pred             cccc
Q psy3854         112 RKRS  115 (222)
Q Consensus       112 rk~~  115 (222)
                      +++.
T Consensus        85 ~~l~   88 (105)
T 1x5u_A           85 KPIR   88 (105)
T ss_dssp             CBCE
T ss_pred             eEEE
Confidence            9874

>2e5h_A Zinc finger CCHC-type and RNA-binding motif- containing protein 1; RRM domain, RBD, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=99.77  E-value=1.2e-18  Score=127.47  Aligned_cols=77  Identities=27%  Similarity=0.388  Sum_probs=72.2

Q ss_pred             cCCccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCCc
Q psy3854          33 KYKKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDCR  112 (222)
Q Consensus        33 ~~~~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~Gr  112 (222)
                      .....+|||+|||+.+++++|+++|++||+|.+|.|+.+..+++++      |||||+|.+.++|..|+..|||..|.|+
T Consensus        13 ~~~~~~l~V~nlp~~~t~~~l~~~f~~~G~v~~v~i~~~~~~~~~~------g~afV~f~~~~~A~~A~~~l~g~~~~g~   86 (94)
T 2e5h_A           13 APSKSTVYVSNLPFSLTNNDLYRIFSKYGKVVKVTIMKDKDTRKSK------GVAFILFLDKDSAQNCTRAINNKQLFGR   86 (94)
T ss_dssp             CCCTTSEEEESCCTTSCHHHHHHHTTTTSCEEEEEECCCSSSCCCT------TCEEEEESCHHHHHHHHHHTTTEEETTE
T ss_pred             CCCCCEEEEECCCCCCCHHHHHHHHHhcCCeEEEEEEeCCCCCCcc------cEEEEEECCHHHHHHHHHHcCCCeeCCc
Confidence            3456789999999999999999999999999999999998888888      9999999999999999999999999999


Q ss_pred             ccc
Q psy3854         113 KRS  115 (222)
Q Consensus       113 k~~  115 (222)
                      ++.
T Consensus        87 ~l~   89 (94)
T 2e5h_A           87 VIK   89 (94)
T ss_dssp             EEE
T ss_pred             EEE
Confidence            873

>2khc_A Testis-specific RNP-type RNA binding protein; RRM, RNA recognition motif, bruno; NMR {Drosophila melanogaster}

Probab=99.77  E-value=4.2e-18  Score=129.79  Aligned_cols=77  Identities=17%  Similarity=0.236  Sum_probs=72.2

Q ss_pred             cCCccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCCc
Q psy3854          33 KYKKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDCR  112 (222)
Q Consensus        33 ~~~~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~Gr  112 (222)
                      .....+|||+|||+++++++|+++|++||.|.+|.|+.+..+|+++      |||||+|.+.++|..|++.|||..|+|+
T Consensus        37 ~~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~~~i~~~~~~g~~~------g~afV~f~~~~~A~~A~~~l~g~~~~g~  110 (118)
T 2khc_A           37 GPEGCNLFIYHLPQEFTDTDLASTFLPFGNVISAKVFIDKQTSLSK------CFGFVSFDNPDSAQVAIKAMNGFQVGTK  110 (118)
T ss_dssp             CCCSEEEEEECSCTTCCHHHHHHHTTTSCEEEEEEECCCSSSSCCC------CEEEEEEESSHHHHHHHHHCCCCEETTE
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEeCCCCCCcC------cEEEEEECCHHHHHHHHHHcCCCEECCE
Confidence            3456789999999999999999999999999999999998888888      9999999999999999999999999999


Q ss_pred             ccc
Q psy3854         113 KRS  115 (222)
Q Consensus       113 k~~  115 (222)
                      ++.
T Consensus       111 ~l~  113 (118)
T 2khc_A          111 RLK  113 (118)
T ss_dssp             ECC
T ss_pred             EEE
Confidence            874

>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=99.77  E-value=1.2e-18  Score=128.53  Aligned_cols=74  Identities=20%  Similarity=0.290  Sum_probs=70.5

Q ss_pred             ccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCCcccc
Q psy3854          36 KGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDCRKRS  115 (222)
Q Consensus        36 ~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~Grk~~  115 (222)
                      ..+|||+|||+.+++++|+++|++||.|.+|.|+.+..+|+++      |||||+|.+.++|..|+..|||..|+|+.+.
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 SRVVYLGSIPYDQTEEQILDLCSNVGPVINLKMMFDPQTGRSK------GYAFIEFRDLESSASAVRNLNGYQLGSRFLK   75 (96)
T ss_dssp             CSEEEEESCCTTCCHHHHHHHHHTTSCEEEEECCBCTTTCCBC------SEEEEEESSHHHHHHHHHHHTTCEETTEECE
T ss_pred             CcEEEEECCCCCCCHHHHHHHHHhcCCEEEEEEEeCCCCCccc------eEEEEEECCHHHHHHHHHHhCCCeECCeEEE
Confidence            4689999999999999999999999999999999998888888      9999999999999999999999999999874

>1p27_B RNA-binding protein 8A; nuclear protein, mRNA splicing; 2.00A {Homo sapiens} SCOP: d.58.7.1

Probab=99.77  E-value=1.5e-18  Score=129.74  Aligned_cols=78  Identities=15%  Similarity=0.203  Sum_probs=72.7

Q ss_pred             ccCCccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCC
Q psy3854          32 KKYKKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDC  111 (222)
Q Consensus        32 k~~~~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~G  111 (222)
                      ......+|||+|||+.+++++|+++|++||.|.+|.|+.+..+|+++      |||||+|.+.++|..|+..|||..|+|
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 RSVEGWILFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLK------GYTLVEYETYKEAQAAMEGLNGQDLMG   92 (106)
T ss_dssp             CBTTBEEEEEECCCTTCCHHHHHHHHGGGSCEEEEEEEECTTTSSEE------EEEEEEESCHHHHHHHHHHHTTCBSSS
T ss_pred             CCCCCCEEEEeCCCCCCCHHHHHHHHhccCCeEEEEEEecCCCCcee------eEEEEEECCHHHHHHHHHHhcCCEECC
Confidence            33456789999999999999999999999999999999999889888      999999999999999999999999999


Q ss_pred             cccc
Q psy3854         112 RKRS  115 (222)
Q Consensus       112 rk~~  115 (222)
                      +.+.
T Consensus        93 ~~l~   96 (106)
T 1p27_B           93 QPIS   96 (106)
T ss_dssp             SBCE
T ss_pred             cEEE
Confidence            9874

>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=99.77  E-value=1.3e-18  Score=128.57  Aligned_cols=76  Identities=12%  Similarity=0.174  Sum_probs=71.7

Q ss_pred             CCccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCCcc
Q psy3854          34 YKKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDCRK  113 (222)
Q Consensus        34 ~~~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~Grk  113 (222)
                      ....+|||+|||+.+++++|+++|++||+|.+|.|+.+..+++++      |||||+|.+.++|..|+..|||..|.|++
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 SGSGRLFVRNLSYTSSEEDLEKLFSAYGPLSELHYPIDSLTKKPK------GFAFVTFMFPEHAVKAYAEVDGQVFQGRM   79 (99)
T ss_dssp             CSCEEEEEECCCTTCCHHHHHHHHHTTSCEEEEECCCCTTTCCCC------SEEEEEESSHHHHHHHHHHTTTEESSSCE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCEeEEEEEecCCCCCcC------eEEEEEECCHHHHHHHHHHhCCCEECCcE
Confidence            356789999999999999999999999999999999998888888      99999999999999999999999999998


Q ss_pred             cc
Q psy3854         114 RS  115 (222)
Q Consensus       114 ~~  115 (222)
                      +.
T Consensus        80 l~   81 (99)
T 1whw_A           80 LH   81 (99)
T ss_dssp             EE
T ss_pred             EE
Confidence            74

>2dnm_A SRP46 splicing factor; RRM domain, RBD, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.77  E-value=1.2e-18  Score=129.91  Aligned_cols=77  Identities=14%  Similarity=0.287  Sum_probs=72.5

Q ss_pred             cCCccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCCc
Q psy3854          33 KYKKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDCR  112 (222)
Q Consensus        33 ~~~~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~Gr  112 (222)
                      .....+|||+|||+.+++++|+++|++||.|.+|.|+.+..+++++      |||||+|.+.++|..|+..|||..|.|+
T Consensus        10 ~~~~~~l~V~nLp~~~t~~~l~~~f~~~G~i~~v~i~~~~~~~~~~------g~afV~f~~~~~A~~A~~~l~g~~~~g~   83 (103)
T 2dnm_A           10 VDGMITLKVDNLTYRTSPDSLRRVFEKYGRVGDVYIPREPHTKAPR------GFAFVRFHDRRDAQDAEAAMDGAELDGR   83 (103)
T ss_dssp             CSCCCEEEEESCCTTCCHHHHHHHHTTTSCEEEEECCBCSSSCSBC------SCEEEEESSSSHHHHHHHHHSSCCBTTB
T ss_pred             CCCCeEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEeCCCCCCCC------eEEEEEECCHHHHHHHHHHcCCCEECCc
Confidence            3456889999999999999999999999999999999998888888      9999999999999999999999999999


Q ss_pred             ccc
Q psy3854         113 KRS  115 (222)
Q Consensus       113 k~~  115 (222)
                      .+.
T Consensus        84 ~l~   86 (103)
T 2dnm_A           84 ELR   86 (103)
T ss_dssp             CCE
T ss_pred             EEE
Confidence            874

>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=99.77  E-value=6e-19  Score=127.08  Aligned_cols=75  Identities=16%  Similarity=0.325  Sum_probs=69.8

Q ss_pred             CccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCC-CCCCCCCccEEEEEecchHHHHHHHHHhcCCccCCcc
Q psy3854          35 KKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPG-EKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDCRK  113 (222)
Q Consensus        35 ~~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgk-sKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~Grk  113 (222)
                      .+.+|||+|||+.+++++|+++|++||.|.+|.|+.+..++. ++      |+|||+|.+.++|..|+..|||..|+|+.
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 KPTKVHIGRLTRNVTKDHIMEIFSTYGKIKMIDMPVERMHPHLSK------GYAYVEFENPDEAEKALKHMDGGQIDGQE   76 (88)
T ss_dssp             CCCEEEEECCCTTCCHHHHHHHHHTTSCEEEEECCEETTEEEEEC------SEEEEEESSHHHHHHHHHHHTTCEETTEE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhCCCEEEEEEEeCCCCCCCCC------cEEEEEEecHHHHHHHHHHcCCCeECCeE
Confidence            567899999999999999999999999999999999877654 66      99999999999999999999999999998


Q ss_pred             cc
Q psy3854         114 RS  115 (222)
Q Consensus       114 ~~  115 (222)
                      +.
T Consensus        77 l~   78 (88)
T 4a8x_A           77 IT   78 (88)
T ss_dssp             CE
T ss_pred             EE
Confidence            74

>2krb_A Eukaryotic translation initiation factor 3 subunit B; EIF3, eukaryotic initiation factor, EIF3B, EIF3J; NMR {Homo sapiens}

Probab=99.77  E-value=7.4e-19  Score=126.27  Aligned_cols=70  Identities=14%  Similarity=0.228  Sum_probs=64.9

Q ss_pred             cEEEEcCCCCCC------CHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccC
Q psy3854          37 GIIYLSKVPPHM------NVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQID  110 (222)
Q Consensus        37 g~VYIsnLP~~m------~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~  110 (222)
                      .+|||+|||+.+      ++++|+++|++||+|.+|.|.  ..+|+++      |||||+|.+.++|..|+..|||..|+
T Consensus         2 ~~l~V~nLp~~~~~~~~~t~~~l~~~F~~~G~i~~v~i~--~~~g~~~------g~afV~f~~~~~A~~Ai~~lng~~~~   73 (81)
T 2krb_A            2 SVIVVDNVPQVGPDRLEKLKNVIHKIFSKFGKITNDFYP--EEDGKTK------GYIFLEYASPAHAVDAVKNADGYKLD   73 (81)
T ss_dssp             CEEEEESCCCCCTTTHHHHHHHHHHHHHTTCCEEEEECC--CBTTBCC------CEEEEEESSHHHHHHHHTTSSSCCCS
T ss_pred             CEEEEeCCCCCcHHHHHHHHHHHHHHHhhcCCeEEEEec--CCCCcEe------EEEEEEECCHHHHHHHHHHhcCcccC
Confidence            579999999999      679999999999999999987  3567888      99999999999999999999999999


Q ss_pred             Cc-cc
Q psy3854         111 CR-KR  114 (222)
Q Consensus       111 Gr-k~  114 (222)
                      |+ ++
T Consensus        74 g~~~l   78 (81)
T 2krb_A           74 KQHTF   78 (81)
T ss_dssp             SSSCC
T ss_pred             CceeE
Confidence            99 75

>1s79_A Lupus LA protein; RRM, alpha/beta, RNA binding protein, translation; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.77  E-value=1.3e-18  Score=132.54  Aligned_cols=74  Identities=14%  Similarity=0.181  Sum_probs=69.3

Q ss_pred             CCccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCCcc
Q psy3854          34 YKKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDCRK  113 (222)
Q Consensus        34 ~~~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~Grk  113 (222)
                      ....+|||||||+++++++|+++|++||+|.+|.|+.+.. |++|      |||||+|.+.++|..|+. |||..|+|+.
T Consensus         9 ~~~~~lfV~~Lp~~~te~~L~~~F~~~G~v~~v~i~~d~~-g~~r------G~aFV~F~~~e~a~~Ai~-~~~~~~~gr~   80 (103)
T 1s79_A            9 VKNRSVYIKGFPTDATLDDIKEWLEDKGQVLNIQMRRTLH-KAFK------GSIFVVFDSIESAKKFVE-TPGQKYKETD   80 (103)
T ss_dssp             SGGGCEEEECCCTTCCHHHHHHHHHTSSCEEEEEEECCCT-TSCC------CEEEEEESSHHHHHHHHT-SSCCCCTTTT
T ss_pred             CCCCEEEEECCCCCCCHHHHHHHHhhcCCEEEEEEEECCC-CCCc------cEEEEEECCHHHHHHHHH-cCCCEECCEE
Confidence            3567899999999999999999999999999999999877 8888      999999999999999999 9999999998


Q ss_pred             cc
Q psy3854         114 RS  115 (222)
Q Consensus       114 ~~  115 (222)
                      +.
T Consensus        81 l~   82 (103)
T 1s79_A           81 LL   82 (103)
T ss_dssp             CE
T ss_pred             EE
Confidence            73

>2mss_A Protein (musashi1); RNA-binding domain, RNA binding protein; NMR {Mus musculus} SCOP: d.58.7.1 PDB: 2mst_A

Probab=99.77  E-value=6.4e-19  Score=124.16  Aligned_cols=70  Identities=17%  Similarity=0.374  Sum_probs=66.9

Q ss_pred             EEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCCccc
Q psy3854          38 IIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDCRKR  114 (222)
Q Consensus        38 ~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~Grk~  114 (222)
                      .|||+|||+.+++++|+++|++||+|.+|.++.+..+|+++      |||||+|.+.++|+.|++ |||..|+|+++
T Consensus         1 ~l~v~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~~~~~------g~afV~f~~~~~a~~a~~-~~~~~~~g~~l   70 (75)
T 2mss_A            1 KIFVGGLSVNTTVEDVKHYFEQFGKVDDAMLMFDKTTNRHR------GFGFVTFESEDIVEKVCE-IHFHEINNKMV   70 (75)
T ss_dssp             CEEEECCCSSCCHHHHHHHHHTTSCCSEECCCBCSSSTTSC------BEEEEECSCHHHHHHHHS-SSCCCSSSCCC
T ss_pred             CEEEecCCCCCCHHHHHHHHHhcCCEEEEEEEecCCCCCcC------cEEEEEECCHHHHHHHHH-CCCCEECCEEE
Confidence            48999999999999999999999999999999998888888      999999999999999997 99999999986

>2cq0_A Eukaryotic translation initiation factor 3 subunit 4; RRM domain, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.76  E-value=1.1e-18  Score=130.11  Aligned_cols=78  Identities=21%  Similarity=0.304  Sum_probs=73.0

Q ss_pred             ccCCccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCC
Q psy3854          32 KKYKKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDC  111 (222)
Q Consensus        32 k~~~~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~G  111 (222)
                      ......+|||+|||+.+++++|+++|++||+|.+|.|+.+..+++++      |||||+|.+.++|..|+..|||..|.|
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 RADDNATIRVTNLSEDTRETDLQELFRPFGSISRIYLAKDKTTGQSK------GFAFISFHRREDAARAIAGVSGFGYDH   84 (103)
T ss_dssp             CCSSSEEEEEESCCTTCCHHHHHTTSTTTCCEEEEEEEECSSSCSEE------EEEEEEESSHHHHHHHHHHTTTCEETT
T ss_pred             CCCCCCEEEEeCCCCCCCHHHHHHHHHhCCCeEEEEEeecCCCCcee------eEEEEEECCHHHHHHHHHHcCCCeeCC
Confidence            44567889999999999999999999999999999999998888888      999999999999999999999999999


Q ss_pred             cccc
Q psy3854         112 RKRS  115 (222)
Q Consensus       112 rk~~  115 (222)
                      +.+.
T Consensus        85 ~~l~   88 (103)
T 2cq0_A           85 LILN   88 (103)
T ss_dssp             EECE
T ss_pred             cEEE
Confidence            9874

>2cqc_A Arginine/serine-rich splicing factor 10; RNA recognition motif, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.76  E-value=1.9e-18  Score=126.29  Aligned_cols=77  Identities=14%  Similarity=0.197  Sum_probs=72.0

Q ss_pred             cCCccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCCc
Q psy3854          33 KYKKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDCR  112 (222)
Q Consensus        33 ~~~~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~Gr  112 (222)
                      .....+|||+|||+.+++++|+++|++||.|.+|.|+.+..+++++      |||||+|.+.++|..|+..|||..|.|+
T Consensus        12 ~~~~~~l~v~nlp~~~t~~~l~~~f~~~G~v~~v~i~~~~~~~~~~------g~afV~f~~~~~A~~A~~~l~g~~~~g~   85 (95)
T 2cqc_A           12 PDPNCCLGVFGLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSR------GFAFVYFENVDDAKEAKERANGMELDGR   85 (95)
T ss_dssp             CCGGGCEEEESCCSSCCHHHHHHHHHTTSCEEEEEEEECSSSSSEE------EEEEEEESSHHHHHHHHHHHTTEEETTE
T ss_pred             CCCCCEEEEECCCCCCCHHHHHHHHHhcCCeeEEEEEEcCCCCCcc------cEEEEEECCHHHHHHHHHHhCCCEECCE
Confidence            3456789999999999999999999999999999999998888888      9999999999999999999999999999


Q ss_pred             ccc
Q psy3854         113 KRS  115 (222)
Q Consensus       113 k~~  115 (222)
                      ++.
T Consensus        86 ~l~   88 (95)
T 2cqc_A           86 RIR   88 (95)
T ss_dssp             EEE
T ss_pred             EEE
Confidence            874

>2cph_A RNA binding motif protein 19; RNA recognition motif, RRM, RNP, structural genomics, NPPSFA; NMR {Mus musculus} SCOP: d.58.7.1

Probab=99.76  E-value=3.6e-18  Score=127.60  Aligned_cols=78  Identities=26%  Similarity=0.396  Sum_probs=72.1

Q ss_pred             ccCCccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecC-CCCCCCCCCCCCccEEEEEecchHHHHHHHHHh-cCCcc
Q psy3854          32 KKYKKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPK-KRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQY-NNTQI  109 (222)
Q Consensus        32 k~~~~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d-~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~L-Ng~~i  109 (222)
                      ......+|||+|||+.+++++|+++|++||.|.+|.|+.+ ..+++++      |||||+|.+.++|..|+..| ||..|
T Consensus        11 ~~~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~~~~~~------g~afV~f~~~~~a~~A~~~l~~~~~~   84 (107)
T 2cph_A           11 KKQTTSKILVRNIPFQANQREIRELFSTFGELKTVRLPKKMTGTGAHR------GFGFVDFITKQDAKKAFNALCHSTHL   84 (107)
T ss_dssp             CSSCCCCEEEESCCTTCCHHHHHHHHHTTSCEEEEECCCCCSSSCSSC------SEEEEEESSHHHHHHHHHHHHTCCBS
T ss_pred             cCCCCCEEEEeCCCCcCCHHHHHHHHHccCCeEEEEEecCCCCCCCcC------ceEEEEECCHHHHHHHHHHhccCCeE
Confidence            3446688999999999999999999999999999999998 6778888      99999999999999999999 99999


Q ss_pred             CCcccc
Q psy3854         110 DCRKRS  115 (222)
Q Consensus       110 ~Grk~~  115 (222)
                      .|+.+.
T Consensus        85 ~g~~l~   90 (107)
T 2cph_A           85 YGRRLV   90 (107)
T ss_dssp             SSCBCE
T ss_pred             CCCEEE
Confidence            999874

>1x5s_A Cold-inducible RNA-binding protein; structure genomics, RRM domain, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.76  E-value=1.8e-18  Score=128.45  Aligned_cols=77  Identities=17%  Similarity=0.350  Sum_probs=72.3

Q ss_pred             cCCccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCCc
Q psy3854          33 KYKKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDCR  112 (222)
Q Consensus        33 ~~~~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~Gr  112 (222)
                      .....+|||+|||+.+++++|+++|++||+|.+|.|+.+..+++++      |||||+|.+.++|..|+..|||..|.|+
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 ASDEGKLFVGGLSFDTNEQSLEQVFSKYGQISEVVVVKDRETQRSR------GFGFVTFENIDDAKDAMMAMNGKSVDGR   82 (102)
T ss_dssp             CCCCSEEEEESCCTTCCHHHHHHHHHHHSCCCEEEECCCSSSCSCC------SEEEEECSSHHHHHHHHHHHTTCCTTSC
T ss_pred             CCCCCEEEEECCCCCCCHHHHHHHHHhcCCeEEEEEEeCCCCCCcc------cEEEEEECCHHHHHHHHHHhCCCEECCe
Confidence            3456899999999999999999999999999999999998888888      9999999999999999999999999999


Q ss_pred             ccc
Q psy3854         113 KRS  115 (222)
Q Consensus       113 k~~  115 (222)
                      ++.
T Consensus        83 ~l~   85 (102)
T 1x5s_A           83 QIR   85 (102)
T ss_dssp             CCE
T ss_pred             EEE
Confidence            874

>2dgs_A DAZ-associated protein 1; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.76  E-value=4.2e-18  Score=126.09  Aligned_cols=75  Identities=23%  Similarity=0.372  Sum_probs=70.8

Q ss_pred             CCccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCCcc
Q psy3854          34 YKKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDCRK  113 (222)
Q Consensus        34 ~~~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~Grk  113 (222)
                      .....|||+|||+.+++++|+++|++||.|.+|.|+.+..+++++      |||||+|.+.++|..|++ |||..|.|+.
T Consensus         8 ~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~~~~~------g~afV~f~~~~~a~~A~~-~~~~~~~g~~   80 (99)
T 2dgs_A            8 SKSNKIFVGGIPHNCGETELREYFKKFGVVTEVVMIYDAEKQRPR------GFGFITFEDEQSVDQAVN-MHFHDIMGKK   80 (99)
T ss_dssp             SSCCEEEEESCCSSCCHHHHHHHHSSSSCEEEEEECCCTTTCSCC------SEEEEEESSHHHHHHHHH-HCCCBSSSCB
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEeCCCCCCCC------ceEEEEECCHHHHHHHHH-hCCCEECCeE
Confidence            456789999999999999999999999999999999998888888      999999999999999998 9999999998


Q ss_pred             cc
Q psy3854         114 RS  115 (222)
Q Consensus       114 ~~  115 (222)
                      +.
T Consensus        81 l~   82 (99)
T 2dgs_A           81 VE   82 (99)
T ss_dssp             CE
T ss_pred             EE
Confidence            74

>1x5t_A Splicing factor 3B subunit 4; structure genomics, RRM domain, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.76  E-value=1.6e-18  Score=127.20  Aligned_cols=75  Identities=16%  Similarity=0.243  Sum_probs=71.0

Q ss_pred             CccEEEEcCCCCCCCHHHHHHHhhcCcceeEE-EEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCCcc
Q psy3854          35 KKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRV-YLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDCRK  113 (222)
Q Consensus        35 ~~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv-~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~Grk  113 (222)
                      ...+|||+|||+.+++++|+++|++||.|.+| .|+.+..+|+++      |||||+|.+.++|..|+..|||..|.|++
T Consensus         4 ~~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~~~~i~~~~~~g~~~------g~afV~f~~~~~A~~A~~~l~g~~~~g~~   77 (96)
T 1x5t_A            4 GSSGIFIGNLDPEIDEKLLYDTFSAFGVILQTPKIMRDPDTGNSK------GYAFINFASFDASDAAIEAMNGQYLCNRP   77 (96)
T ss_dssp             CCCEEEEECCCTTCCHHHHHHHHHTTSCBSSCCEECCCTTTCSCC------SEEEEEBSSHHHHHHHHHTTTTCEETTEE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEEEEcCCCCCcC------eEEEEEECCHHHHHHHHHHcCCCEECCEE
Confidence            46789999999999999999999999999999 999998888888      99999999999999999999999999998


Q ss_pred             cc
Q psy3854         114 RS  115 (222)
Q Consensus       114 ~~  115 (222)
                      +.
T Consensus        78 l~   79 (96)
T 1x5t_A           78 IT   79 (96)
T ss_dssp             CE
T ss_pred             EE
Confidence            74

>2div_A TRNA selenocysteine associated protein; structural genomics, RRM domain, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.76  E-value=2e-18  Score=127.65  Aligned_cols=74  Identities=12%  Similarity=0.191  Sum_probs=70.8

Q ss_pred             CCccEEEEcCCCCCCCHHHHHHHhhcCccee-EEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCCc
Q psy3854          34 YKKGIIYLSKVPPHMNVTQLTEFMSRFGEVG-RVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDCR  112 (222)
Q Consensus        34 ~~~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~-rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~Gr  112 (222)
                      ....+|||+|||+.+++++|+++|++||+|. +|.|+++..+|+++      |||||+|.+.++|..|+..|||..|.|+
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 GMAASLWMGDLEPYMDENFISRAFATMGETVMSVKIIRNRLTGIPA------GYCFVEFADLATAEKCLHKINGKPLPGA   80 (99)
T ss_dssp             SSSSEEEECSCCTTCCHHHHHHHHHHTTCCCCEEEEEECSSSCCEE------EEEEEECSCHHHHHHHHHTTTTSEESSC
T ss_pred             CCccEEEEeCCCCCCCHHHHHHHHHHhCCcceEEEEeecCCCCCcC------CEEEEEeCCHHHHHHHHHHHcCCccCCC
Confidence            4568899999999999999999999999999 99999998889888      9999999999999999999999999999


Q ss_pred             c
Q psy3854         113 K  113 (222)
Q Consensus       113 k  113 (222)
                      .
T Consensus        81 ~   81 (99)
T 2div_A           81 T   81 (99)
T ss_dssp             S
T ss_pred             C
Confidence            8

>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=99.75  E-value=2.3e-18  Score=128.73  Aligned_cols=78  Identities=10%  Similarity=0.260  Sum_probs=71.8

Q ss_pred             ccCCccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCcc--
Q psy3854          32 KKYKKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQI--  109 (222)
Q Consensus        32 k~~~~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i--  109 (222)
                      ......+|||+|||+.+++++|+++|++||+|.+|.|+.+..+|+++      |||||+|.+.++|..|+..|||..+  
T Consensus         9 ~~~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~g~~~------g~afV~f~~~~~A~~A~~~l~g~~~~~   82 (106)
T 2dgp_A            9 KDHDAIKLFIGQIPRNLDEKDLKPLFEEFGKIYELTVLKDRFTGMHK------GCAFLTYCERESALKAQSALHEQKTLP   82 (106)
T ss_dssp             CCTTCEEEEEESCCTTCCHHHHHHHHHHHSCCCEEECCCCSSSCSCC------SEEEEEESSHHHHHHHHHHHTTTCCCT
T ss_pred             CCCCCCEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEEecCCCCCcc------eEEEEEECCHHHHHHHHHHhcCCcccC
Confidence            34456789999999999999999999999999999999998889888      9999999999999999999999987  


Q ss_pred             -CCcccc
Q psy3854         110 -DCRKRS  115 (222)
Q Consensus       110 -~Grk~~  115 (222)
                       .|+++.
T Consensus        83 ~~g~~l~   89 (106)
T 2dgp_A           83 GMNRPIQ   89 (106)
T ss_dssp             TCSSCCE
T ss_pred             CCCceEE
Confidence             788763

>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=99.75  E-value=3.2e-18  Score=128.95  Aligned_cols=77  Identities=16%  Similarity=0.223  Sum_probs=72.2

Q ss_pred             cCCccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCCc
Q psy3854          33 KYKKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDCR  112 (222)
Q Consensus        33 ~~~~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~Gr  112 (222)
                      .....+|||+|||+.+++++|+++|++||.|.+|.|+.+..+|+++      |||||+|.+.++|..|+..|||..|+|+
T Consensus        23 ~~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~~~~~------g~afV~f~~~~~A~~Ai~~l~g~~~~g~   96 (110)
T 1oo0_B           23 SVEGWILFVTSIHEEAQEDEIQEKFCDYGEIKNIHLNLDRRTGFSK------GYALVEYETHKQALAAKEALNGAEIMGQ   96 (110)
T ss_dssp             BTTBEEEEEESCCTTCCHHHHHHHHGGGSCEEEEECCBCTTTSSBC------SEEEEEESSHHHHHHHHHHHTTCEETTE
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEecCCCCCcc------eEEEEEECCHHHHHHHHHHcCCCEECCc
Confidence            3456789999999999999999999999999999999998889888      9999999999999999999999999999


Q ss_pred             ccc
Q psy3854         113 KRS  115 (222)
Q Consensus       113 k~~  115 (222)
                      .+.
T Consensus        97 ~l~   99 (110)
T 1oo0_B           97 TIQ   99 (110)
T ss_dssp             ECE
T ss_pred             EEE
Confidence            874

>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=99.75  E-value=2.8e-18  Score=124.01  Aligned_cols=76  Identities=16%  Similarity=0.283  Sum_probs=69.9

Q ss_pred             ccCCccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCC
Q psy3854          32 KKYKKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDC  111 (222)
Q Consensus        32 k~~~~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~G  111 (222)
                      ......+|||+|||+.+++++|+++|++||+|.+|.|+.+..+|+++      |||||+|.+.++|..|+. +||..|.|
T Consensus         7 ~~~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~g~~~------g~afV~f~~~~~a~~A~~-~~~~~~~g   79 (87)
T 3s7r_A            7 NEEDAGKMFVGGLSWDTSKKDLKDYFTKFGEVVDCTIKMDPNTGRSR------GFGFILFKDAASVEKVLD-QKEHRLDG   79 (87)
T ss_dssp             CCSCTTEEEEECCCTTCCHHHHHHHHTTTSCEEEEEEEECTTTCCEE------EEEEEEESSTHHHHHHHH-SSCEEETT
T ss_pred             CCCCCCEEEEeCCCCCCCHHHHHHHHHhCCCEEEEEEeecCCCCccc------cEEEEEECCHHHHHHHHH-hCCCEECC
Confidence            34467899999999999999999999999999999999998889888      999999999999999995 58888999


Q ss_pred             ccc
Q psy3854         112 RKR  114 (222)
Q Consensus       112 rk~  114 (222)
                      +.+
T Consensus        80 ~~i   82 (87)
T 3s7r_A           80 RVI   82 (87)
T ss_dssp             EEE
T ss_pred             EEE
Confidence            986

>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=99.75  E-value=2.9e-18  Score=123.93  Aligned_cols=74  Identities=20%  Similarity=0.258  Sum_probs=70.0

Q ss_pred             CccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCCccc
Q psy3854          35 KKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDCRKR  114 (222)
Q Consensus        35 ~~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~Grk~  114 (222)
                      ...+|||+|||+.+++++|+++|++||.|.+|.|+.+..+|+++      |||||+|.+.++|..|+ .|||..|.|+.+
T Consensus         5 ~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~~~~~------g~afV~f~~~~~a~~a~-~~~g~~~~g~~l   77 (89)
T 3ucg_A            5 DARSIYVGNVDYGATAEELEAHFHGCGSVNRVTILCDKFSGHPK------GFAYIEFSDKESVRTSL-ALDESLFRGRQI   77 (89)
T ss_dssp             HHTEEEEESCCTTCCHHHHHHHHGGGCCEEEEEEEESCSSSSCC------EEEEEEESSTHHHHHHG-GGTTCEETTEEC
T ss_pred             cCCEEEEeCCCCCCCHHHHHHHHHhCCCEEEEEEEecCCCCCcc------eEEEEEECCHHHHHHHH-hcCCCEECCcEE
Confidence            35689999999999999999999999999999999998888888      99999999999999999 999999999987


Q ss_pred             c
Q psy3854         115 S  115 (222)
Q Consensus       115 ~  115 (222)
                      .
T Consensus        78 ~   78 (89)
T 3ucg_A           78 K   78 (89)
T ss_dssp             E
T ss_pred             E
Confidence            4

>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=99.75  E-value=3.6e-18  Score=130.09  Aligned_cols=77  Identities=19%  Similarity=0.279  Sum_probs=72.3

Q ss_pred             cCCccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCCc
Q psy3854          33 KYKKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDCR  112 (222)
Q Consensus        33 ~~~~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~Gr  112 (222)
                      ...+.+|||+|||+.+++++|+++|++||.|.+|.|+.+..+|+++      |||||+|.+.++|..|+..|||..|+|+
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 SAGPMRLYVGSLHFNITEDMLRGIFEPFGRIESIQLMMDSETGRSK------GYGFITFSDSECAKKALEQLNGFELAGR   96 (108)
T ss_dssp             CSSCEEEEEECCCSSCCHHHHHHHHTTTSCEEEEEEEEETTTTEEE------EEEEEEESCHHHHHHHHHHHTTCCSSSS
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEEcCCCCccc------eEEEEEECCHHHHHHHHHHcCCCEECCE
Confidence            3456789999999999999999999999999999999998888888      9999999999999999999999999999


Q ss_pred             ccc
Q psy3854         113 KRS  115 (222)
Q Consensus       113 k~~  115 (222)
                      ++.
T Consensus        97 ~l~   99 (108)
T 2jrs_A           97 PMK   99 (108)
T ss_dssp             CCE
T ss_pred             EEE
Confidence            874

>2do4_A Squamous cell carcinoma antigen recognized by T- cells 3; RRM domaim, RDB, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=99.75  E-value=3e-18  Score=127.10  Aligned_cols=75  Identities=17%  Similarity=0.258  Sum_probs=70.5

Q ss_pred             CCccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCCcc
Q psy3854          34 YKKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDCRK  113 (222)
Q Consensus        34 ~~~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~Grk  113 (222)
                      ....+|||+|||+.+++++|+++|++||.|.+|.|+.+. +|+++      |||||+|.+.++|..|+..|||..|+|++
T Consensus        15 ~~~~~l~v~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~-~g~~~------g~afV~f~~~~~a~~A~~~l~g~~~~g~~   87 (100)
T 2do4_A           15 LEKHKLFISGLPFSCTKEELEEICKAHGTVKDLRLVTNR-AGKPK------GLAYVEYENESQASQAVMKMDGMTIKENI   87 (100)
T ss_dssp             CCCSCEEEESCCTTCCHHHHHHHHTTTSCEEEEEEEECT-TSCEE------EEEEEEESSHHHHHHHHHHHTTEESSSCE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhCCCeEEEEEEECC-CCCEE------eEEEEEECCHHHHHHHHHHhCCCEECCEE
Confidence            456789999999999999999999999999999999988 78888      99999999999999999999999999998


Q ss_pred             cc
Q psy3854         114 RS  115 (222)
Q Consensus       114 ~~  115 (222)
                      +.
T Consensus        88 l~   89 (100)
T 2do4_A           88 IK   89 (100)
T ss_dssp             EE
T ss_pred             EE
Confidence            74

>2cqb_A Peptidyl-prolyl CIS-trans isomerase E; RNA recognition motif, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.75  E-value=1.5e-18  Score=128.84  Aligned_cols=76  Identities=13%  Similarity=0.214  Sum_probs=71.8

Q ss_pred             CCccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCCcc
Q psy3854          34 YKKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDCRK  113 (222)
Q Consensus        34 ~~~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~Grk  113 (222)
                      ....+|||+|||+.+++++|+++|++||+|.+|.|+.+..+++++      |||||+|.+.++|..|+..|||..|.|++
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 TTKRVLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHR------GFAFVEFELAEDAAAAIDNMNESELFGRT   83 (102)
T ss_dssp             CCCSCEEEESCCSSCCHHHHHHHHTTTSCCCCEECCCCSSSCCCS------SEEEECCSSHHHHHHHHHHHTTEEETTEE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHhhccCCEEEEEEEecCCCCCcc------eEEEEEECCHHHHHHHHHHhCCCEECCcE
Confidence            356789999999999999999999999999999999998888888      99999999999999999999999999998


Q ss_pred             cc
Q psy3854         114 RS  115 (222)
Q Consensus       114 ~~  115 (222)
                      +.
T Consensus        84 l~   85 (102)
T 2cqb_A           84 IR   85 (102)
T ss_dssp             EE
T ss_pred             EE
Confidence            74

>2dgo_A Cytotoxic granule-associated RNA binding protein 1; RRM domain, structural genomics, NPPSFA; NMR {Mus musculus} PDB: 2rne_A 2dh7_A

Probab=99.75  E-value=4.3e-18  Score=129.22  Aligned_cols=77  Identities=13%  Similarity=0.270  Sum_probs=72.1

Q ss_pred             cCCccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCCc
Q psy3854          33 KYKKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDCR  112 (222)
Q Consensus        33 ~~~~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~Gr  112 (222)
                      .....+|||+|||+.+++++|+++|++||.|.+|.|+.+..+++++      |||||+|.+.++|..|+..|||..|+|+
T Consensus        12 ~~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~~~~~------g~afV~f~~~~~a~~A~~~l~g~~~~g~   85 (115)
T 2dgo_A           12 TSNHFHVFVGDLSPEITTEDIKAAFAPFGRISDARVVKDMATGKSK------GYGFVSFFNKWDAENAIQQMGGQWLGGR   85 (115)
T ss_dssp             STTCEEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEECTTTCCEE------EEEEEEESSHHHHHHHHHHTTTCEETTE
T ss_pred             CCCCcEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEEcCCCCCcc------eEEEEEECCHHHHHHHHHHhCCCEECCE
Confidence            3456789999999999999999999999999999999998888888      9999999999999999999999999999


Q ss_pred             ccc
Q psy3854         113 KRS  115 (222)
Q Consensus       113 k~~  115 (222)
                      .+.
T Consensus        86 ~l~   88 (115)
T 2dgo_A           86 QIR   88 (115)
T ss_dssp             ECE
T ss_pred             EEE
Confidence            874

>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=99.75  E-value=6.6e-18  Score=126.02  Aligned_cols=74  Identities=8%  Similarity=0.155  Sum_probs=69.0

Q ss_pred             CCccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCC--
Q psy3854          34 YKKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDC--  111 (222)
Q Consensus        34 ~~~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~G--  111 (222)
                      ....+|||+|||+.+++++|+++|++||.|.+|.|+.+. +|+++      |||||+|.+.++|..|+..|||..+.|  
T Consensus        13 ~~~~~l~v~nLp~~~t~~~l~~~F~~~G~i~~v~i~~~~-~g~~~------g~afV~f~~~~~A~~Ai~~l~g~~~~gg~   85 (105)
T 2dnh_A           13 GRDRKLFVGMLNKQQSEEDVLRLFQPFGVIDECTVLRGP-DGSSK------GCAFVKFSSHTEAQAAIHALHGSQTMPGA   85 (105)
T ss_dssp             CCCCEEEEESCCTTCCHHHHHHHHTTTSCEEEEEEEECS-SSCEE------EEEEEEESSHHHHHHHHHHHSSCCCCTTC
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEECC-CCCcC------cEEEEEeCCHHHHHHHHHHHcCCccCCCC
Confidence            357889999999999999999999999999999999987 68887      999999999999999999999999988  


Q ss_pred             -ccc
Q psy3854         112 -RKR  114 (222)
Q Consensus       112 -rk~  114 (222)
                       +.+
T Consensus        86 ~~~l   89 (105)
T 2dnh_A           86 SSSL   89 (105)
T ss_dssp             SSCC
T ss_pred             CccE
Confidence             776

>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=99.75  E-value=3.8e-18  Score=124.97  Aligned_cols=75  Identities=13%  Similarity=0.210  Sum_probs=70.1

Q ss_pred             CCccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCCcc
Q psy3854          34 YKKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDCRK  113 (222)
Q Consensus        34 ~~~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~Grk  113 (222)
                      .....|||+|||+.+++++|+++|++||+|.+|.|+.+.. |+++      |||||+|.+.++|..|+..|||..|.|++
T Consensus        14 ~~~~~l~v~nlp~~~~~~~l~~~F~~~G~i~~v~i~~~~~-g~~~------g~afV~f~~~~~a~~A~~~l~g~~~~g~~   86 (95)
T 2ywk_A           14 EADRTVFVGNLEARVREEILYELFLQAGPLTKVTICKDRE-GKPK------SFGFVCFKHPESVSYAIALLNGIRLYGRP   86 (95)
T ss_dssp             TGGGEEEEECCCTTCCHHHHHHHHGGGSCEEEEEEEECTT-SCEE------EEEEEEESSTHHHHHHHHHHTTCEETTEE
T ss_pred             CCCCEEEEECCCCCCCHHHHHHHHHhcCCEEEEEEEECCC-CCCc------eEEEEEECCHHHHHHHHHHhCCCEECCCE
Confidence            3567899999999999999999999999999999999876 7777      99999999999999999999999999998


Q ss_pred             cc
Q psy3854         114 RS  115 (222)
Q Consensus       114 ~~  115 (222)
                      +.
T Consensus        87 l~   88 (95)
T 2ywk_A           87 IN   88 (95)
T ss_dssp             CE
T ss_pred             EE
Confidence            74

>3n9u_C Cleavage and polyadenylation specificity factor S; protein-protein complex, coexpression, heterotetramer, mRNA maturation, mRNA cleavage; 1.92A {Homo sapiens}

Probab=99.75  E-value=5.1e-18  Score=138.08  Aligned_cols=75  Identities=9%  Similarity=0.152  Sum_probs=70.7

Q ss_pred             CccEEEEcCCCCCCCHHHHHHHhhcCc--ceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCCc
Q psy3854          35 KKGIIYLSKVPPHMNVTQLTEFMSRFG--EVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDCR  112 (222)
Q Consensus        35 ~~g~VYIsnLP~~m~e~~Lr~lFs~fG--~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~Gr  112 (222)
                      ....|||||||+++++++|+++|++||  .|.+|.|+.|..+|++|      |||||+|.+.++|..|+..|||..|+|+
T Consensus        54 ~~~~lfVgnLp~~~te~~L~~~F~~~G~i~v~~v~i~~d~~tg~sk------GfaFV~f~~~~~A~~Ai~~lng~~~~Gr  127 (156)
T 3n9u_C           54 RRAAVYVGSFSWWTTDQQLIQVIRSIGVYDVVELKFAENRANGQSK------GYAEVVVASENSVHKLLELLPGKVLNGE  127 (156)
T ss_dssp             --CEEEEECCCTTCCHHHHHHHHHHTTCCCEEEEEEEECTTTCCEE------EEEEEEESCHHHHHHHHHHSTTCEETTE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHHHCCccEEEEEEEecCCCCccc------eEEEEEECCHHHHHHHHHHcCCCEECCe
Confidence            457899999999999999999999999  99999999999999998      9999999999999999999999999999


Q ss_pred             ccc
Q psy3854         113 KRS  115 (222)
Q Consensus       113 k~~  115 (222)
                      .+.
T Consensus       128 ~l~  130 (156)
T 3n9u_C          128 KVD  130 (156)
T ss_dssp             ECE
T ss_pred             EeE
Confidence            973

>1uaw_A Mouse-musashi-1; RNP-type structure, RNA binding protein; NMR {Mus musculus} SCOP: d.58.7.1

Probab=99.75  E-value=1.7e-18  Score=122.01  Aligned_cols=72  Identities=18%  Similarity=0.351  Sum_probs=68.3

Q ss_pred             cEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCCcccc
Q psy3854          37 GIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDCRKRS  115 (222)
Q Consensus        37 g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~Grk~~  115 (222)
                      +.|||+|||+.+++++|+++|++||+|.+|.++++..+|+++      |+|||+|.+.++|..|+..|| ..++|+++.
T Consensus         1 ~~l~v~nlp~~~t~~~l~~~F~~~G~v~~v~i~~~~~~~~~~------g~afV~f~~~~~a~~a~~~~~-~~~~g~~l~   72 (77)
T 1uaw_A            1 CKMFIGGLSWQTTQEGLREYFGQFGEVKECLVMRDPLTKRSR------GFGFVTFMDQAGVDKVLAQSR-HELDSKTID   72 (77)
T ss_dssp             CCEEEESCCSSCCSHHHHHHHTTTSCCCCEEEECCCCSSSCS------SEEEECCCCTTHHHHHHHTTT-CCCSSCCCE
T ss_pred             CEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEecCCCCCCcC------ceEEEEEcCHHHHHHHHHhCC-CccCCEEEE
Confidence            469999999999999999999999999999999998888888      999999999999999999999 999999863

>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=99.75  E-value=1.3e-17  Score=126.34  Aligned_cols=75  Identities=16%  Similarity=0.316  Sum_probs=69.7

Q ss_pred             cCCccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCCc
Q psy3854          33 KYKKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDCR  112 (222)
Q Consensus        33 ~~~~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~Gr  112 (222)
                      .....+|||+|||+.+++++|+++|++||.|.+|.|+.+. +|+++      |||||+|.+.++|..|+..|||..|.|+
T Consensus        22 ~~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~~~i~~~~-~g~~~------g~afV~f~~~~~a~~A~~~l~g~~~~~~   94 (114)
T 1x5o_A           22 EQDPTNLYISNLPLSMDEQELENMLKPFGQVISTRILRDS-SGTSR------GVGFARMESTEKCEAVIGHFNGKFIKTP   94 (114)
T ss_dssp             CCCTTEEEEESCCTTCCHHHHHHTTTTTSCEEEEEEEECS-SSCEE------EEEEEEESCHHHHHHHHHHHBTCCCCCC
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEECC-CCCcc------eEEEEEECCHHHHHHHHHHhCCCEEcCC
Confidence            3456889999999999999999999999999999999988 78888      9999999999999999999999999877


Q ss_pred             cc
Q psy3854         113 KR  114 (222)
Q Consensus       113 k~  114 (222)
                      ++
T Consensus        95 ~~   96 (114)
T 1x5o_A           95 PG   96 (114)
T ss_dssp             TT
T ss_pred             cc
Confidence            64

>2d9p_A Polyadenylate-binding protein 3; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.75  E-value=5.7e-18  Score=126.21  Aligned_cols=75  Identities=16%  Similarity=0.272  Sum_probs=70.0

Q ss_pred             cCCccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCCc
Q psy3854          33 KYKKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDCR  112 (222)
Q Consensus        33 ~~~~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~Gr  112 (222)
                      .....+|||+|||+.+++++|+++|++||.|.+|.|+.+  +|+++      |||||+|.+.++|..|+..|||..|.|+
T Consensus        12 ~~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~--~g~~~------g~afV~f~~~~~A~~A~~~l~g~~~~g~   83 (103)
T 2d9p_A           12 RYQVVNLYVKNLDDGIDDERLRKAFSPFGTITSAKVMME--GGRSK------GFGFVCFSSPEEATKAVTEMNGRIVATK   83 (103)
T ss_dssp             CSSCCCEEEECCCTTCCHHHHHHTTTTTSCEEEEEEEEC--SSSEE------EEEEEEESSHHHHHHHHHHHTTCBSSSS
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEcC--CCCcC------EEEEEEECCHHHHHHHHHHhCCCEeCCc
Confidence            346778999999999999999999999999999999988  67777      9999999999999999999999999999


Q ss_pred             ccc
Q psy3854         113 KRS  115 (222)
Q Consensus       113 k~~  115 (222)
                      .+.
T Consensus        84 ~l~   86 (103)
T 2d9p_A           84 PLY   86 (103)
T ss_dssp             BCE
T ss_pred             EEE
Confidence            874

>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=99.74  E-value=6.8e-18  Score=126.87  Aligned_cols=77  Identities=14%  Similarity=0.269  Sum_probs=72.1

Q ss_pred             cCCccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhc------C
Q psy3854          33 KYKKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYN------N  106 (222)
Q Consensus        33 ~~~~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LN------g  106 (222)
                      .....+|||+|||+.+++++|+++|++||+|.+|.|+.+..+|+++      |||||+|.+.++|..|+..||      |
T Consensus        12 ~~~~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~g~~~------g~afV~f~~~~~A~~A~~~~~~~~~~~~   85 (111)
T 1x4h_A           12 VTEGKTVFIRNLSFDSEEEALGEVLQQFGDLKYVRVVLHPDTEHSK------GCAFAQFMTQEAAQKCLAAASLEAEGGG   85 (111)
T ss_dssp             CCCCCCEEEESCCTTCCHHHHHHHHHTTSCEEEEECCBCSSSCCBC------SEEEEEESSHHHHHHHHHHHCTTTTTCC
T ss_pred             CCCCCEEEEECCCCCCCHHHHHHHHHhcCCeEEEEEEecCCCCCCc------cEEEEEECCHHHHHHHHHHhccccccCC
Confidence            3456789999999999999999999999999999999998888888      999999999999999999999      9


Q ss_pred             CccCCcccc
Q psy3854         107 TQIDCRKRS  115 (222)
Q Consensus       107 ~~i~Grk~~  115 (222)
                      ..|.|+.+.
T Consensus        86 ~~~~g~~l~   94 (111)
T 1x4h_A           86 LKLDGRQLK   94 (111)
T ss_dssp             EESSSCEEE
T ss_pred             cEEcCEEEE
Confidence            999999874

>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=99.74  E-value=1.1e-18  Score=126.98  Aligned_cols=72  Identities=24%  Similarity=0.333  Sum_probs=69.0

Q ss_pred             cEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCCcccc
Q psy3854          37 GIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDCRKRS  115 (222)
Q Consensus        37 g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~Grk~~  115 (222)
                      ..|||+|||+.+++++|+++|++||+|.+|.|+.+..+|+++      |||||+|.+.+ |..|+..|||..++|+++.
T Consensus         2 ~~l~V~nLp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~~~~~------g~afV~f~~~~-a~~a~~~l~g~~~~g~~l~   73 (90)
T 2ki2_A            2 RNIYVGNLVYSATSEQVKELFSQFGKVFNVKLIYDRETKKPK------GFGFVEMQEES-VSEAIAKLDNTDFMGRTIR   73 (90)
T ss_dssp             EEEEEEEECTTSSHHHHTTTHHHHTCCSEEEECCCSSSCCCC------EEEEEEECTTH-HHHHHHTSCSSCCSSSSCS
T ss_pred             cEEEECCCCCCCCHHHHHHHHHhcCCEEEEEEEEcCCCCCcc------eEEEEEECCHH-HHHHHHHhCCCEECCeEEE
Confidence            479999999999999999999999999999999998888888      99999999999 9999999999999999974

>2m2b_A RNA-binding protein 10; T-cell, JCSG, MPP, PSI-biology; NMR {Homo sapiens}

Probab=99.74  E-value=3.8e-18  Score=133.40  Aligned_cols=75  Identities=15%  Similarity=0.222  Sum_probs=70.4

Q ss_pred             CCccEEEEcCCCCCCCHHHHHHHhhcCcceeE--EEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCC----
Q psy3854          34 YKKGIIYLSKVPPHMNVTQLTEFMSRFGEVGR--VYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNT----  107 (222)
Q Consensus        34 ~~~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~r--v~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~----  107 (222)
                      ....+|||+|||+.+++++|+++|++||.|..  |+|+.|..+|++|      |||||+|.+. +|..|+..|||.    
T Consensus        21 ~~~~~lfV~nL~~~~te~~L~~~F~~~G~v~~~~v~i~~d~~tg~~r------G~aFV~f~~~-~a~~Ai~~l~g~~~~~   93 (131)
T 2m2b_A           21 NANDTIILRNLNPHSTMDSILGALAPYAVLSSSNVRVIKDKQTQLNR------GFAFIQLSTI-EAAQLLQILQALHPPL   93 (131)
T ss_dssp             CCCCEEEECSCCTTCCSHHHHHHHGGGCCCCTTTEECCBCSSSSSBC------SCEEEECCHH-HHHHHHHHHTTCCCSC
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHHhCCcceeeEEEEEcCCCCCcc------eEEEEEECCH-HHHHHHHHhcCCCCCc
Confidence            34568999999999999999999999999977  9999999899998      9999999999 999999999999    


Q ss_pred             ccCCcccc
Q psy3854         108 QIDCRKRS  115 (222)
Q Consensus       108 ~i~Grk~~  115 (222)
                      .|.|+.+.
T Consensus        94 ~~~gr~l~  101 (131)
T 2m2b_A           94 TIDGKTIN  101 (131)
T ss_dssp             CGGGCCCC
T ss_pred             cCCCEEEE
Confidence            99999874

>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=99.74  E-value=2.8e-18  Score=130.69  Aligned_cols=82  Identities=13%  Similarity=0.349  Sum_probs=72.3

Q ss_pred             cccCCccEEEEcCCCCCCCHHHHH---HHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCC
Q psy3854          31 SKKYKKGIIYLSKVPPHMNVTQLT---EFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNT  107 (222)
Q Consensus        31 ~k~~~~g~VYIsnLP~~m~e~~Lr---~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~  107 (222)
                      .+.....+|||+|||+.+++++|+   ++|++||+|.+|.|+++..+++++   +..|||||+|.+.++|..|+..|||.
T Consensus        10 ~r~~~~~~l~V~nLp~~~~~~~l~~~~~~F~~~G~i~~v~i~~~~~~~~~~---~~~G~afV~f~~~~~A~~Ai~~lng~   86 (111)
T 2cpi_A           10 VRVVQKNLVFVVGLSQRLADPEVLKRPEYFGKFGKIHKVVINNSTSYAGSQ---GPSASAYVTYIRSEDALRAIQCVNNV   86 (111)
T ss_dssp             CCCCCSSCEEEEEECTTTCCHHHHHSTTTTTTTSCEEEEEEECCSSCCSSS---CCCEEEEEEESSHHHHHHHHHHHTTE
T ss_pred             ccccCCCEEEEECCCCCCCHHHHHHHHHHhhccCCEEEEEEecCCCcCccC---CCCeEEEEEECcHHHHHHHHHHhCCC
Confidence            355567889999999999999999   999999999999999987765443   22399999999999999999999999


Q ss_pred             ccCCcccc
Q psy3854         108 QIDCRKRS  115 (222)
Q Consensus       108 ~i~Grk~~  115 (222)
                      .|.|+++.
T Consensus        87 ~~~gr~l~   94 (111)
T 2cpi_A           87 VVDGRTLK   94 (111)
T ss_dssp             EETTEEEE
T ss_pred             EECCEEEE
Confidence            99999874

>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=99.74  E-value=5e-18  Score=129.07  Aligned_cols=76  Identities=16%  Similarity=0.253  Sum_probs=71.7

Q ss_pred             CCccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCCcc
Q psy3854          34 YKKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDCRK  113 (222)
Q Consensus        34 ~~~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~Grk  113 (222)
                      ....+|||+|||+.+++++|+++|++||.|.+|.|+.+..+++++      |||||+|.+.++|..|+..|||..|.|++
T Consensus        23 ~~~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~g~~~------g~afV~f~~~~~a~~A~~~l~g~~~~g~~   96 (115)
T 2cpz_A           23 PEGANLFIYHLPQEFGDQDLLQMFMPFGNVVSAKVFIDKQTNLSK------CFGFVSYDNPVSAQAAIQSMNGFQIGMKR   96 (115)
T ss_dssp             STTCCEEEESCCSSCCHHHHHHHHGGGSCCSEEEEEECSSSCSEE------EEEEEECSSHHHHHHHHHHHTTCEETTEE
T ss_pred             CCCcEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEECCCCCCcC------ccEEEEECCHHHHHHHHHHcCCCEECCEE
Confidence            355789999999999999999999999999999999998888888      99999999999999999999999999998


Q ss_pred             cc
Q psy3854         114 RS  115 (222)
Q Consensus       114 ~~  115 (222)
                      +.
T Consensus        97 l~   98 (115)
T 2cpz_A           97 LK   98 (115)
T ss_dssp             CE
T ss_pred             EE
Confidence            74

>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=99.74  E-value=5.6e-18  Score=130.53  Aligned_cols=75  Identities=16%  Similarity=0.290  Sum_probs=70.7

Q ss_pred             CCccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCCcc
Q psy3854          34 YKKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDCRK  113 (222)
Q Consensus        34 ~~~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~Grk  113 (222)
                      ..+.+|||+|||+.+++++|+++|++||.|.+|.|+.+. +|+++      |||||+|.+.++|..|+..|||..|.|+.
T Consensus         5 ~~~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~v~i~~~~-~g~~~------g~afV~F~~~~~A~~Ai~~l~g~~~~g~~   77 (116)
T 2fy1_A            5 DHPGKLFIGGLNRETNEKMLKAVFGKHGPISEVLLIKDR-TSKSR------GFAFITFENPADAKNAAKDMNGKSLHGKA   77 (116)
T ss_dssp             CSCCEEEEECCTTTCCHHHHHHHHHTSSCCSEEEEECST-TTTCC------CEEEEECSSHHHHHHHHHHCSSCBCSSSB
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEECC-CCCcc------cEEEEEECCHHHHHHHHHHhCCCEECCEE
Confidence            356789999999999999999999999999999999988 78888      99999999999999999999999999998


Q ss_pred             cc
Q psy3854         114 RS  115 (222)
Q Consensus       114 ~~  115 (222)
                      +.
T Consensus        78 l~   79 (116)
T 2fy1_A           78 IK   79 (116)
T ss_dssp             CE
T ss_pred             EE
Confidence            74

>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=99.74  E-value=1.5e-18  Score=127.07  Aligned_cols=75  Identities=15%  Similarity=0.244  Sum_probs=70.5

Q ss_pred             CccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCCccc
Q psy3854          35 KKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDCRKR  114 (222)
Q Consensus        35 ~~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~Grk~  114 (222)
                      .+.+|||+|||+.+++++|+++|++||.|.++.++.+..+|+++      |||||+|.+.++|..|+..|||..|.|+++
T Consensus        14 ~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~~~~~~~~~~g~~~------g~afV~f~~~~~a~~Ai~~l~g~~~~gr~l   87 (95)
T 2ek1_A           14 GPTVIKVQNMPFTVSIDEILDFFYGYQVIPGSVCLKYNEKGMPT------GEAMVAFESRDEATAAVIDLNDRPIGSRKV   87 (95)
T ss_dssp             -CEEEEEECCCTTCCHHHHHHHTTTSCBCTTCCEEEECTTSCEE------EEEEEEESSHHHHHHHHHHHTTCEETTEEC
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhcCCccceEEEEeCCCCCEe------eEEEEEECCHHHHHHHHHHhCCCeECCcEE
Confidence            45789999999999999999999999999999999988888888      999999999999999999999999999987


Q ss_pred             c
Q psy3854         115 S  115 (222)
Q Consensus       115 ~  115 (222)
                      .
T Consensus        88 ~   88 (95)
T 2ek1_A           88 K   88 (95)
T ss_dssp             E
T ss_pred             E
Confidence            4

>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=99.74  E-value=5.1e-18  Score=127.04  Aligned_cols=75  Identities=17%  Similarity=0.252  Sum_probs=70.6

Q ss_pred             CCccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCCcc
Q psy3854          34 YKKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDCRK  113 (222)
Q Consensus        34 ~~~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~Grk  113 (222)
                      ....+|||+|||+.+++++|+++|++||.|.+|.|+.+. +|+++      |||||+|.+.++|..|+..|||..|.|+.
T Consensus        27 ~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~-~g~~~------g~afV~f~~~~~a~~A~~~l~g~~~~g~~   99 (107)
T 3ulh_A           27 ETGGKLLVSNLDFGVSDADIQELFAEFGTLKKAAVHYDR-SGRSL------GTADVHFERKADALKAMKQYNGVPLDGRP   99 (107)
T ss_dssp             CCSEEEEEESCCTTCCHHHHHHHHHTTSCEEEEEEEECT-TSCEE------EEEEEEESSHHHHHHHHHHHTTCEETTEE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEECC-CCCcc------eEEEEEECCHHHHHHHHHHhCCCEeCCcE
Confidence            456789999999999999999999999999999999988 78888      99999999999999999999999999998


Q ss_pred             cc
Q psy3854         114 RS  115 (222)
Q Consensus       114 ~~  115 (222)
                      +.
T Consensus       100 l~  101 (107)
T 3ulh_A          100 MN  101 (107)
T ss_dssp             CE
T ss_pred             EE
Confidence            74

>2cpf_A RNA binding motif protein 19; RNA recognition motif, RRM, RNP, structural genomics, NPPSFA; NMR {Mus musculus} SCOP: d.58.7.1

Probab=99.74  E-value=2.4e-18  Score=126.96  Aligned_cols=75  Identities=16%  Similarity=0.215  Sum_probs=69.4

Q ss_pred             CccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCC---CCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCC
Q psy3854          35 KKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKR---KPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDC  111 (222)
Q Consensus        35 ~~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~---tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~G  111 (222)
                      ...+|||+|||+.+++++|+++|++||+|.+|.|+.+..   +++++      |||||+|.+.++|..|+..|||..|.|
T Consensus         4 ~~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~~gt~~~~------g~afV~f~~~~~a~~A~~~l~g~~~~g   77 (98)
T 2cpf_A            4 GSSGLFIKNLNFSTTEETLKGVFSKVGAIKSCTISKKKNKAGVLLSM------GFGFVEYKKPEQAQKALKQLQGHTVDG   77 (98)
T ss_dssp             CCCCEEEESCCTTCCHHHHHHHHHTTSCEEEEEEEEEECTTCCEEEE------EEEEEEESSHHHHHHHHHHSTTCEETT
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEecCCCCCCcCcc------cEEEEEECCHHHHHHHHHHhCCCeeCC
Confidence            457899999999999999999999999999999998865   55777      999999999999999999999999999


Q ss_pred             cccc
Q psy3854         112 RKRS  115 (222)
Q Consensus       112 rk~~  115 (222)
                      +++.
T Consensus        78 ~~l~   81 (98)
T 2cpf_A           78 HKLE   81 (98)
T ss_dssp             EECE
T ss_pred             eEEE
Confidence            9874

>2dhg_A TRNA selenocysteine associated protein (SECP43); RRM domain, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=99.74  E-value=5.9e-18  Score=126.10  Aligned_cols=74  Identities=11%  Similarity=0.229  Sum_probs=70.1

Q ss_pred             CccEEEEcCCCCCCCHHHHHHHhhc-CcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCc-cCCc
Q psy3854          35 KKGIIYLSKVPPHMNVTQLTEFMSR-FGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQ-IDCR  112 (222)
Q Consensus        35 ~~g~VYIsnLP~~m~e~~Lr~lFs~-fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~-i~Gr  112 (222)
                      ...+|||+|||+.+++++|+++|++ ||.|.+|.|+.+. +|+++      |||||+|.+.++|..|+..|||.. |+|+
T Consensus         8 ~~~~l~V~nLp~~~t~~~l~~~F~~~~G~v~~v~i~~~~-~g~~~------g~afV~f~~~~~a~~A~~~l~g~~~~~g~   80 (104)
T 2dhg_A            8 PEYSLFVGDLTPDVDDGMLYEFFVKVYPSCRGGKVVLDQ-TGVSK------GYGFVKFTDELEQKRALTECQGAVGLGSK   80 (104)
T ss_dssp             CCCCEEEECCCTTCCHHHHHHHHHHHCTTEEEEEEEECT-TCCEE------EEEEEEESCHHHHHHHHHHTTTCCSSSSS
T ss_pred             CCcEEEEeCCCCCCCHHHHHHHHHHhCCCeEEEEEEECC-CCCcc------ceEEEEECCHHHHHHHHHHccCCcccCCE
Confidence            4578999999999999999999999 9999999999998 88888      999999999999999999999999 9999


Q ss_pred             ccc
Q psy3854         113 KRS  115 (222)
Q Consensus       113 k~~  115 (222)
                      ++.
T Consensus        81 ~l~   83 (104)
T 2dhg_A           81 PVR   83 (104)
T ss_dssp             CCC
T ss_pred             eEE
Confidence            874

>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=99.74  E-value=6.6e-18  Score=134.49  Aligned_cols=77  Identities=14%  Similarity=0.267  Sum_probs=72.7

Q ss_pred             cCCccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCCc
Q psy3854          33 KYKKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDCR  112 (222)
Q Consensus        33 ~~~~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~Gr  112 (222)
                      .....+|||+|||+.+++++|+++|++||.|.+|.|+.+..+|+++      |||||+|.+.++|..|+..|||..|+|+
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 VEGMTSLKVDNLTYRTSPDTLRRVFEKYGRVGDVYIPRDRYTKESR------GFAFVRFHDKRDAEDAMDAMDGAVLDGR  140 (158)
T ss_dssp             CCBCCEEEEESCCTTCCHHHHHHHHHHHSCEEEEECCCCSSCTTSC------CEEEEEESBHHHHHHHHHHSTTEESSSS
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEeecCCCCccc------eEEEEEECCHHHHHHHHHHhCCCEECCe
Confidence            3457899999999999999999999999999999999998889988      9999999999999999999999999999


Q ss_pred             ccc
Q psy3854         113 KRS  115 (222)
Q Consensus       113 k~~  115 (222)
                      .+.
T Consensus       141 ~l~  143 (158)
T 2kn4_A          141 ELR  143 (158)
T ss_dssp             EEE
T ss_pred             EEE
Confidence            874

>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=99.74  E-value=3e-18  Score=127.43  Aligned_cols=75  Identities=17%  Similarity=0.269  Sum_probs=70.8

Q ss_pred             CccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCCccc
Q psy3854          35 KKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDCRKR  114 (222)
Q Consensus        35 ~~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~Grk~  114 (222)
                      ...+|||+|||+.+++++|+++|++||.|.+|.|+.+..+|+++      |||||+|.+.++|..|+..|||..|+|+.+
T Consensus         7 ~~~~l~V~nlp~~~~~~~l~~~f~~~G~i~~~~i~~~~~~g~~~------g~afV~f~~~~~a~~A~~~l~g~~~~g~~l   80 (104)
T 1p1t_A            7 SLRSVFVGNIPYEATEEQLKDIFSEVGPVVSFRLVYDRETGKPK------GYGFCEYQDQETALSAMRNLNGREFSGRAL   80 (104)
T ss_dssp             HHSCEEEESCCTTSCHHHHHHHHHTTSCCSEEEEEEETTTTEEE------EEEEEECSCHHHHHHHHHHSSSBSCSSSCB
T ss_pred             CccEEEEeCCCCcCCHHHHHHHHHhcCCeeEEEEEeCCCCCccc------eEEEEEECCHHHHHHHHHHhCCCeeCCcEE
Confidence            35689999999999999999999999999999999998888888      999999999999999999999999999987


Q ss_pred             c
Q psy3854         115 S  115 (222)
Q Consensus       115 ~  115 (222)
                      .
T Consensus        81 ~   81 (104)
T 1p1t_A           81 R   81 (104)
T ss_dssp             E
T ss_pred             E
Confidence            3

>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=99.74  E-value=8.1e-18  Score=129.56  Aligned_cols=76  Identities=16%  Similarity=0.196  Sum_probs=71.7

Q ss_pred             CCccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCCcc
Q psy3854          34 YKKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDCRK  113 (222)
Q Consensus        34 ~~~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~Grk  113 (222)
                      ....+|||+|||+.+++++|+++|++||.|.+|.|+.+..+++++      |||||+|.+.++|..|+..|||..|.|+.
T Consensus        20 ~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~~~~~------g~afV~f~~~~~a~~A~~~l~g~~~~g~~   93 (126)
T 3ex7_B           20 VEGWILFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLK------GYTLVEYETYKEAQAAMEGLNGQDLMGQP   93 (126)
T ss_dssp             SSSEEEEEESCCTTCCHHHHHHHHHTTSCEEEEECCBCTTTSSBC------SCEEEEESSHHHHHHHHHHHTTCBSSSSB
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEecCCCCccc------eEEEEEECCHHHHHHHHHHhCCCeeCCeE
Confidence            346789999999999999999999999999999999998888888      99999999999999999999999999998


Q ss_pred             cc
Q psy3854         114 RS  115 (222)
Q Consensus       114 ~~  115 (222)
                      +.
T Consensus        94 l~   95 (126)
T 3ex7_B           94 IS   95 (126)
T ss_dssp             CE
T ss_pred             EE
Confidence            74

>2nlw_A Eukaryotic translation initiation factor 3 subunit 9; eukaryotic initiation factor 3 complex, RNA recognition motif; NMR {Homo sapiens}

Probab=99.74  E-value=4.5e-18  Score=128.32  Aligned_cols=74  Identities=14%  Similarity=0.190  Sum_probs=67.4

Q ss_pred             CCccEEEEcCCCCCC------CHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCC
Q psy3854          34 YKKGIIYLSKVPPHM------NVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNT  107 (222)
Q Consensus        34 ~~~g~VYIsnLP~~m------~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~  107 (222)
                      ....+|||+|||+.+      ++++|+++|++||.|.+|.|+  ..+|+++      |||||+|.+.++|..|+..|||.
T Consensus        13 ~~~~~l~V~nLp~~~~~~~~~t~~~l~~~F~~~G~v~~v~i~--~~~g~~~------G~afV~f~~~~~A~~Ai~~l~g~   84 (105)
T 2nlw_A           13 GIDSVIVVDNVPQVGPDRLEKLKNVIHKIFSKFGKITNDFYP--EEDGKTK------GYIFLEYASPAHAVDAVKNADGY   84 (105)
T ss_dssp             SCCSEEEEESCCCCCTTTTTHHHHHHHHHHGGGSCEEEEECC--CBTTBSC------CEEEEEECSSSHHHHHHHHCSSE
T ss_pred             CCCCEEEEeCCCcchhhhhHHHHHHHHHHHhcCCCEEEEEee--CCCCCee------eEEEEEECCHHHHHHHHHHhCCc
Confidence            346789999999999      779999999999999999997  3568888      99999999999999999999999


Q ss_pred             ccCCc-ccc
Q psy3854         108 QIDCR-KRS  115 (222)
Q Consensus       108 ~i~Gr-k~~  115 (222)
                      .|+|+ ++.
T Consensus        85 ~~~g~~~l~   93 (105)
T 2nlw_A           85 KLDKQHTFR   93 (105)
T ss_dssp             ECSTTCEEE
T ss_pred             ccCCCceEE
Confidence            99998 763

>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=99.73  E-value=2.2e-18  Score=127.16  Aligned_cols=76  Identities=16%  Similarity=0.231  Sum_probs=71.4

Q ss_pred             CCccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCCcc
Q psy3854          34 YKKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDCRK  113 (222)
Q Consensus        34 ~~~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~Grk  113 (222)
                      ..+.+|||+|||+.+++++|+++|++||.|..+.++.+..+|+++      |||||+|.+.++|..|+..|||..|+|+.
T Consensus        13 ~~~~~l~v~nLp~~~t~~~l~~~F~~~G~v~~~~~~~~~~~g~~~------g~afV~f~~~~~a~~Ai~~l~g~~~~g~~   86 (98)
T 2cqp_A           13 PGPTIIKVQNMPFTVSIDEILDFFYGYQVIPGSVCLKYNEKGMPT------GEAMVAFESRDEATAAVIDLNDRPIGSRK   86 (98)
T ss_dssp             CSSEEEEEESCCTTCCHHHHHHHTTTSCCCTTTCEEEECSSSCEE------EEEEEEESCHHHHHHHHHHTTTCEETTEE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHHcCCccceEEEEECCCCCee------eEEEEEECCHHHHHHHHHHhCCCeeCCeE
Confidence            356789999999999999999999999999999999988888888      99999999999999999999999999998


Q ss_pred             cc
Q psy3854         114 RS  115 (222)
Q Consensus       114 ~~  115 (222)
                      +.
T Consensus        87 l~   88 (98)
T 2cqp_A           87 VK   88 (98)
T ss_dssp             CE
T ss_pred             EE
Confidence            74

>2dgv_A HnRNP M, heterogeneous nuclear ribonucleoprotein M; RRM domain, structural genomics, NPPSFA; NMR {Homo sapiens} PDB: 2dh9_A

Probab=99.73  E-value=1.2e-17  Score=121.52  Aligned_cols=74  Identities=16%  Similarity=0.202  Sum_probs=68.6

Q ss_pred             CCccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCCcc
Q psy3854          34 YKKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDCRK  113 (222)
Q Consensus        34 ~~~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~Grk  113 (222)
                      ....+|||+|||+.+++++|+++|++||.|.+|.|+.+  +|+++      |||||+|.+.++|..|+..|||..|.|+.
T Consensus         6 ~~~~~l~V~nlp~~~t~~~l~~~f~~~G~v~~~~i~~~--~g~~~------g~afV~f~~~~~a~~a~~~l~g~~~~g~~   77 (92)
T 2dgv_A            6 SGACQIFVRNLPFDFTWKMLKDKFNECGHVLYADIKME--NGKSK------GCGVVKFESPEVAERACRMMNGMKLSGRE   77 (92)
T ss_dssp             SSCCEEEECSCCTTCCHHHHHHHHHTTSCEEEEEEEES--SSCEE------EEEEEEESSHHHHHHHHHHHTTCCBTTBC
T ss_pred             CCCcEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEcc--CCCcc------eEEEEEECCHHHHHHHHHHhCCCEECCcE
Confidence            35678999999999999999999999999999999984  57777      99999999999999999999999999998


Q ss_pred             cc
Q psy3854         114 RS  115 (222)
Q Consensus       114 ~~  115 (222)
                      +.
T Consensus        78 l~   79 (92)
T 2dgv_A           78 ID   79 (92)
T ss_dssp             CC
T ss_pred             EE
Confidence            74

>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=99.73  E-value=1e-17  Score=125.24  Aligned_cols=74  Identities=15%  Similarity=0.208  Sum_probs=69.4

Q ss_pred             CCccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCC-CCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCCc
Q psy3854          34 YKKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRK-PGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDCR  112 (222)
Q Consensus        34 ~~~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~t-gksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~Gr  112 (222)
                      ..+.+|||+|||+.+++++|+++|++|| |.+|.|+.+..+ |+++      |||||+|.+.++|..|+ .|||..|.|+
T Consensus        13 ~~~~~l~V~nlp~~~t~~~l~~~F~~~G-i~~v~i~~~~~~~g~~~------g~afV~f~~~~~a~~A~-~l~g~~~~g~   84 (104)
T 1wi8_A           13 SPPYTAFLGNLPYDVTEESIKEFFRGLN-ISAVRLPREPSNPERLK------GFGYAEFEDLDSLLSAL-SLNEESLGNK   84 (104)
T ss_dssp             SSCEEEEEESCCSSCCHHHHHHHTTTSC-EEEEECCBCSSCTTSBC------SCEEEEESSHHHHHHHH-GGGTCEETTE
T ss_pred             CCCCEEEEeCCCCcCCHHHHHHHHHHCC-ceEEEEecCCCCCCCcC------eEEEEEECCHHHHHHHH-hcCCCEeCCc
Confidence            3567999999999999999999999999 999999999887 8888      99999999999999999 9999999999


Q ss_pred             ccc
Q psy3854         113 KRS  115 (222)
Q Consensus       113 k~~  115 (222)
                      .+.
T Consensus        85 ~l~   87 (104)
T 1wi8_A           85 RIR   87 (104)
T ss_dssp             ECE
T ss_pred             EEE
Confidence            874

>2cpe_A RNA-binding protein EWS; RNA recognition motif, RRM, RNP, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.73  E-value=8.7e-18  Score=127.14  Aligned_cols=77  Identities=14%  Similarity=0.263  Sum_probs=72.0

Q ss_pred             cCCccEEEEcCCCCCCCHHHHHHHhhcCccee--------EEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHh
Q psy3854          33 KYKKGIIYLSKVPPHMNVTQLTEFMSRFGEVG--------RVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQY  104 (222)
Q Consensus        33 ~~~~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~--------rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~L  104 (222)
                      .....+|||+|||+.+++++|+++|++||.|.        .|.|+.+..+|+++      |||||+|.+.++|..|+..|
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 DSDNSAIYVQGLNDSVTLDDLADFFKQCGVVKMNKRTGQPMIHIYLDKETGKPK------GDATVSYEDPPTAKAAVEWF   85 (113)
T ss_dssp             CCCCCEEEEECCCTTCCHHHHHHHHTTTSCBCBCSSSCCBSEECCBCTTTCSBC------SEEEEEBSSHHHHHHHHHHH
T ss_pred             CCCCCEEEEcCCCCCCCHHHHHHHHHhcCCEeEccccCccCEEEEEeCCCCCee------eEEEEEECCHHHHHHHHHHc
Confidence            34678999999999999999999999999999        69999998889888      99999999999999999999


Q ss_pred             cCCccCCcccc
Q psy3854         105 NNTQIDCRKRS  115 (222)
Q Consensus       105 Ng~~i~Grk~~  115 (222)
                      ||..|.|+.+.
T Consensus        86 ~g~~~~g~~l~   96 (113)
T 2cpe_A           86 DGKDFQGSKLK   96 (113)
T ss_dssp             TTCEETTEECE
T ss_pred             CCCccCCCEEE
Confidence            99999999874

>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=99.73  E-value=5.8e-18  Score=128.54  Aligned_cols=75  Identities=12%  Similarity=0.218  Sum_probs=70.8

Q ss_pred             CCccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCCcc
Q psy3854          34 YKKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDCRK  113 (222)
Q Consensus        34 ~~~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~Grk  113 (222)
                      ....+|||+|||+.+++++|+++|++||.|.+|.|+.+..+|+++      |||||+|.+.++|..|+ .|||..|+|+.
T Consensus        23 ~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~g~~~------g~afV~f~~~~~a~~A~-~l~g~~~~g~~   95 (114)
T 2cq4_A           23 RDARTVFCMQLAARIRPRDLEDFFSAVGKVRDVRIISDRNSRRSK------GIAYVEFCEIQSVPLAI-GLTGQRLLGVP   95 (114)
T ss_dssp             HHHTEEEEESCCTTCCHHHHHHHHTTTSCEEEEEECCSCCSSSCC------CCEEEEESCGGGHHHHH-HHTTEEETTEE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhCCCEeEEEEEecCCCCccC------cEEEEEeCcHHHHHHHH-HcCCCEeCCeE
Confidence            356789999999999999999999999999999999999888888      99999999999999999 99999999998


Q ss_pred             cc
Q psy3854         114 RS  115 (222)
Q Consensus       114 ~~  115 (222)
                      +.
T Consensus        96 l~   97 (114)
T 2cq4_A           96 II   97 (114)
T ss_dssp             EE
T ss_pred             EE
Confidence            63

>2dng_A Eukaryotic translation initiation factor 4H; RRM domain, RBD, structural genomics, NPPSFA; NMR {Mus musculus}

Probab=99.73  E-value=1.2e-17  Score=124.68  Aligned_cols=74  Identities=15%  Similarity=0.184  Sum_probs=69.7

Q ss_pred             CCccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCCcc
Q psy3854          34 YKKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDCRK  113 (222)
Q Consensus        34 ~~~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~Grk  113 (222)
                      ....+|||+|||+.+++++|+++|++|| |.+|.|+.+..+|+++      |||||+|.+.++|..|+ .|||..|.|+.
T Consensus        13 ~~~~~l~V~nLp~~~t~~~l~~~F~~~g-i~~v~i~~~~~~g~~~------g~afV~f~~~~~a~~A~-~l~g~~~~g~~   84 (103)
T 2dng_A           13 EPPYTAYVGNLPFNTVQGDIDAIFKDLS-IRSVRLVRDKDTDKFK------GFCYVEFDEVDSLKEAL-TYDGALLGDRS   84 (103)
T ss_dssp             SSCEEEEEESCCTTCCHHHHHHHTTTSC-EEEEEEEECSSSCSEE------EEEEEEESSHHHHHHHG-GGTTCEETTEE
T ss_pred             CCCeEEEEeCCCCCCCHHHHHHHHHhCC-ceEEEEeecCCCCccc------eEEEEEECCHHHHHHHH-hhCCCeECCeE
Confidence            3467899999999999999999999998 9999999999888888      99999999999999999 99999999998


Q ss_pred             cc
Q psy3854         114 RS  115 (222)
Q Consensus       114 ~~  115 (222)
                      +.
T Consensus        85 l~   86 (103)
T 2dng_A           85 LR   86 (103)
T ss_dssp             CE
T ss_pred             EE
Confidence            74

>2ku7_A MLL1 PHD3-CYP33 RRM chimeric protein; transcriptional regulation, RRM domain, transcr; NMR {Homo sapiens}

Probab=99.73  E-value=1.1e-17  Score=129.84  Aligned_cols=78  Identities=13%  Similarity=0.207  Sum_probs=72.9

Q ss_pred             ccCCccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCC
Q psy3854          32 KKYKKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDC  111 (222)
Q Consensus        32 k~~~~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~G  111 (222)
                      ......+|||+|||+.+++++|+++|++||+|.+|.|+.+..+|+++      |||||+|.+.++|.+|+..|||..|+|
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 SATTKRVLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHR------GFAFVEFELAEDAAAAIDNMNESELFG  132 (140)
T ss_dssp             SCSSCCEEEEECCCTTCCHHHHHHHHGGGSCEEEEECCCCTTTCCCC------SEEEEEESCHHHHHHHHHHSTEEEETT
T ss_pred             CCCCCcEEEEEeCCCCCCHHHHHHHHHhcCCEEEEEEeecCCCCCcC------cEEEEEECCHHHHHHHHHHhCCCEECC
Confidence            44467889999999999999999999999999999999998888888      999999999999999999999999999


Q ss_pred             cccc
Q psy3854         112 RKRS  115 (222)
Q Consensus       112 rk~~  115 (222)
                      +.+.
T Consensus       133 ~~l~  136 (140)
T 2ku7_A          133 RTIR  136 (140)
T ss_dssp             EEEE
T ss_pred             EEEE
Confidence            9873

>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=99.73  E-value=2.2e-17  Score=122.99  Aligned_cols=76  Identities=20%  Similarity=0.321  Sum_probs=69.3

Q ss_pred             ccCCccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCC
Q psy3854          32 KKYKKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDC  111 (222)
Q Consensus        32 k~~~~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~G  111 (222)
                      ......+|||+|||+.+++++|+++|++||.|.+|.|+.+...  ++      |||||+|.+.++|..|+..|||..|+|
T Consensus        11 ~~~~~~~l~V~nlp~~~t~~~l~~~f~~~G~v~~v~i~~~~~~--~~------g~afV~f~~~~~a~~A~~~l~g~~~~g   82 (103)
T 2cq3_A           11 SKSTPKRLHVSNIPFRFRDPDLRQMFGQFGKILDVEIIFNERG--SK------GFGFVTFENSADADRAREKLHGTVVEG   82 (103)
T ss_dssp             CSCCCCEEEEESCCTTCCHHHHHHHGGGTSCEEEEEEECCTTT--TC------CEEEEEESCHHHHHHHHHHHTTCEETT
T ss_pred             CCCCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEecCCC--Cc------EEEEEEECCHHHHHHHHHHhCCCEECC
Confidence            3456789999999999999999999999999999999988642  55      999999999999999999999999999


Q ss_pred             cccc
Q psy3854         112 RKRS  115 (222)
Q Consensus       112 rk~~  115 (222)
                      +.+.
T Consensus        83 ~~l~   86 (103)
T 2cq3_A           83 RKIE   86 (103)
T ss_dssp             EECE
T ss_pred             EEEE
Confidence            9874

>1u6f_A Tcubp1, RNA-binding protein UBP1; trypanosome, mRNA-binding protein, GU-rich RNA, structure; NMR {Trypanosoma cruzi} SCOP: d.58.7.1

Probab=99.73  E-value=1.4e-17  Score=130.16  Aligned_cols=78  Identities=17%  Similarity=0.296  Sum_probs=72.8

Q ss_pred             ccCCccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCC
Q psy3854          32 KKYKKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDC  111 (222)
Q Consensus        32 k~~~~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~G  111 (222)
                      ......+|||+|||+.+++++|+++|+.||+|.+|.|+.+..+|+++      |||||+|.+.++|..|+..|||..|.|
T Consensus        38 ~~~~~~~l~V~nLp~~~~~~~l~~~F~~~G~i~~v~i~~~~~~~~~~------g~afV~f~~~~~a~~A~~~l~g~~~~g  111 (139)
T 1u6f_A           38 EPDVLRNLMVNYIPTTVDEVQLRQLFERYGPIESVKIVCDRETRQSR------GYGFVKFQSGSSAQQAIAGLNGFNILN  111 (139)
T ss_dssp             CTTTTSEEEEESCSTTCCHHHHHHHHHHHSCEEEEEEEEETTTTEEE------EEEEEEESSHHHHHHHHHHTTTEECSS
T ss_pred             CCCCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEEcCCCCCcc------eEEEEEECCHHHHHHHHHHhCCCEECC
Confidence            34456789999999999999999999999999999999998888888      999999999999999999999999999


Q ss_pred             cccc
Q psy3854         112 RKRS  115 (222)
Q Consensus       112 rk~~  115 (222)
                      +.+.
T Consensus       112 ~~l~  115 (139)
T 1u6f_A          112 KRLK  115 (139)
T ss_dssp             CEEE
T ss_pred             eEEE
Confidence            9874

>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=99.72  E-value=7.4e-18  Score=125.89  Aligned_cols=76  Identities=17%  Similarity=0.218  Sum_probs=67.7

Q ss_pred             ccCCccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCC-CCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccC
Q psy3854          32 KKYKKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKK-RKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQID  110 (222)
Q Consensus        32 k~~~~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~-~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~  110 (222)
                      ......+|||+|||+.+++++|+++|++|| |.+|.|+.+. .+|+++      |||||+|.+.++|..|+ .|||..|+
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-ISAVRLPREPSNPERLK------GFGYAEFEDLDSLLSAL-SLNEESLG   86 (100)
T ss_dssp             -----CEEEESCCSSCCSSSHHHHHSCSSC-EEEEECSCCTTTTCCCC------SCEEEEECCHHHHHHHH-HTTTCCBT
T ss_pred             CCCCCcEEEEeCCCCCCCHHHHHHHHHhcC-CeEEEEEecCCcCCccC------eEEEEEECCHHHHHHHH-hcCCCEEC
Confidence            445678899999999999999999999999 9999999987 578888      99999999999999999 99999999


Q ss_pred             Ccccc
Q psy3854         111 CRKRS  115 (222)
Q Consensus       111 Grk~~  115 (222)
                      |+.+.
T Consensus        87 g~~l~   91 (100)
T 2j76_E           87 NRRIR   91 (100)
T ss_dssp             TBCCC
T ss_pred             CeEEE
Confidence            99874

>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=99.72  E-value=1.8e-17  Score=123.53  Aligned_cols=75  Identities=12%  Similarity=0.246  Sum_probs=68.6

Q ss_pred             cCCccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCCc
Q psy3854          33 KYKKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDCR  112 (222)
Q Consensus        33 ~~~~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~Gr  112 (222)
                      .....+|||+|||+.+++++|+++|++||.|.+|.|+.+..+  ++      |||||+|.+.++|..|+..|||..|.|+
T Consensus        12 ~~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~--~~------g~afV~f~~~~~a~~A~~~l~g~~~~g~   83 (103)
T 2cqi_A           12 DGQPRTLYVGNLSRDVTEVLILQLFSQIGPCKSCKMITEHTS--ND------PYCFVEFYEHRDAAAALAAMNGRKILGK   83 (103)
T ss_dssp             SCCCCEEEEESCCTTCCHHHHHHHHHHHSCEEEEEEECCCCS--SC------CEEEEEESSHHHHHHHHHHHTTEEETTE
T ss_pred             CCCCCEEEEeCCCccCCHHHHHHHHHhcCCEeEEEEEecCCC--CC------CEEEEEECCHHHHHHHHHHhCCCCcCCC
Confidence            345688999999999999999999999999999999998543  45      9999999999999999999999999999


Q ss_pred             ccc
Q psy3854         113 KRS  115 (222)
Q Consensus       113 k~~  115 (222)
                      .+.
T Consensus        84 ~l~   86 (103)
T 2cqi_A           84 EVK   86 (103)
T ss_dssp             EEE
T ss_pred             eEE
Confidence            874

>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=99.72  E-value=1.2e-17  Score=131.38  Aligned_cols=76  Identities=14%  Similarity=0.202  Sum_probs=71.7

Q ss_pred             CCccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCCcc
Q psy3854          34 YKKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDCRK  113 (222)
Q Consensus        34 ~~~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~Grk  113 (222)
                      ....+|||+|||+.+++++|+++|++||+|.+|.|+.+..+|+++      |||||+|.+.++|..|+..|||..|.|++
T Consensus        44 ~~~~~l~V~nLp~~~te~~L~~~F~~~G~I~~v~i~~d~~tg~~~------G~afV~F~~~~~A~~Ai~~lng~~i~g~~  117 (129)
T 2kxn_B           44 DPNCCLGVFGLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSR------GFAFVYFENVDDAKEAKERANGMELDGRR  117 (129)
T ss_dssp             CCSSCBCEETCTTSCCHHHHHHHHTTTSCEEEEEEECCSSSSCCC------CEEEEEESCHHHHHHHHHHHTTCCSSSSC
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEecCCCCccc------eEEEEEECCHHHHHHHHHHhCCCEECCEE
Confidence            346789999999999999999999999999999999998888888      99999999999999999999999999998


Q ss_pred             cc
Q psy3854         114 RS  115 (222)
Q Consensus       114 ~~  115 (222)
                      +.
T Consensus       118 l~  119 (129)
T 2kxn_B          118 IR  119 (129)
T ss_dssp             CE
T ss_pred             EE
Confidence            74

>2jwn_A Embryonic polyadenylate-binding protein 2-B; epabp2, poly(A) binding, structural genomics, protein structure initiative, PSI-2; NMR {Xenopus laevis}

Probab=99.72  E-value=7.6e-18  Score=129.39  Aligned_cols=77  Identities=19%  Similarity=0.286  Sum_probs=71.7

Q ss_pred             ccCCccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCC
Q psy3854          32 KKYKKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDC  111 (222)
Q Consensus        32 k~~~~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~G  111 (222)
                      ......+|||+|||+.+++++|+++|++||.|.+|.|+.+..+|+++      |||||+|.+.++|..|+ .|||..|+|
T Consensus        32 ~~~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~~~~~------g~afV~f~~~~~a~~A~-~l~g~~~~g  104 (124)
T 2jwn_A           32 KEIDKRSVYVGNVDYGSTAQDLEAHFSSCGSINRITILCDKFSGHPK------GYAYIEFAERNSVDAAV-AMDETVFRG  104 (124)
T ss_dssp             HHHHHTEEEEEEECTTCCHHHHHHHHHTTSCEEEEEEEEECTTSSCE------EEEEEEESSHHHHHHHH-TTTTCEETT
T ss_pred             ccCCCCEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEecCCCCCcc------cEEEEEECCHHHHHHHH-hcCCCeECC
Confidence            34457899999999999999999999999999999999998888888      99999999999999999 899999999


Q ss_pred             cccc
Q psy3854         112 RKRS  115 (222)
Q Consensus       112 rk~~  115 (222)
                      +.+.
T Consensus       105 ~~l~  108 (124)
T 2jwn_A          105 RTIK  108 (124)
T ss_dssp             EECE
T ss_pred             eEEE
Confidence            9874

>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=99.72  E-value=4.6e-18  Score=119.49  Aligned_cols=71  Identities=17%  Similarity=0.337  Sum_probs=66.8

Q ss_pred             EEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCCcccc
Q psy3854          38 IIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDCRKRS  115 (222)
Q Consensus        38 ~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~Grk~~  115 (222)
                      +|||+|||+.+++++|+++|++||+|.+|.++.+..+|+++      |||||+|.+.++|..|+.. ||..|+|+++.
T Consensus         1 ~l~v~nLp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~~~~~------g~afV~f~~~~~a~~Ai~~-~~~~~~g~~l~   71 (75)
T 1iqt_A            1 KIFVGGLSPDTPEEKIREYFGGFGEVESIELPMDNKTNKRR------GFCFITFKEEEPVKKIMEK-KYHNVGLSKCE   71 (75)
T ss_dssp             CEEESCCCSSCCHHHHHHHHHHHSCCSEECCCCSCCCSSSC------CCEEEECSSSHHHHHHHTT-SSCCBTTBCCC
T ss_pred             CEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEecCCCCCcC------CEEEEEECCHHHHHHHHHh-CCCeECCEEEE
Confidence            48999999999999999999999999999999998888888      9999999999999999985 99999999863

>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=99.72  E-value=9.7e-18  Score=124.39  Aligned_cols=72  Identities=17%  Similarity=0.206  Sum_probs=67.2

Q ss_pred             CccEEEEcCCCCCCCHHHHH----HHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccC
Q psy3854          35 KKGIIYLSKVPPHMNVTQLT----EFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQID  110 (222)
Q Consensus        35 ~~g~VYIsnLP~~m~e~~Lr----~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~  110 (222)
                      ....|||+|||+.+++++|+    ++|++||+|.+|.|+.+..+   +      |||||+|.+.++|..|+..|||..|+
T Consensus         8 ~~~~l~V~nL~~~~~~~~l~~~l~~~F~~~G~v~~v~i~~~~~~---r------g~afV~f~~~~~A~~Ai~~l~g~~~~   78 (96)
T 2dgx_A            8 NGADVQVSNIDYRLSRKELQQLLQEAFARHGKVKSVELSPHTDY---Q------LKAVVQMENLQDAIGAVNSLHRYKIG   78 (96)
T ss_dssp             SCEEEEEESCCTTSCHHHHHHHHHHHHHHHSCEEEEEECSCCST---T------CCEEEEESSHHHHHHHHHHHTTEEET
T ss_pred             CCCEEEEECCCCCCCHHHHHHHHHHhccccCcEEEEEEEeCCCC---C------eEEEEEECCHHHHHHHHHHhCCCEEC
Confidence            45689999999999999999    99999999999999988765   4      89999999999999999999999999


Q ss_pred             Ccccc
Q psy3854         111 CRKRS  115 (222)
Q Consensus       111 Grk~~  115 (222)
                      |+++.
T Consensus        79 gr~l~   83 (96)
T 2dgx_A           79 SKKIL   83 (96)
T ss_dssp             TEEEE
T ss_pred             CeEEE
Confidence            99874

>2err_A Ataxin-2-binding protein 1; protein-RNA complex, RNA binding protein; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.72  E-value=1.2e-17  Score=126.93  Aligned_cols=85  Identities=19%  Similarity=0.326  Sum_probs=72.0

Q ss_pred             CCCCCCcccccCCccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHH
Q psy3854          23 KPKDNTENSKKYKKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAA  102 (222)
Q Consensus        23 k~k~~~~~~k~~~~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~  102 (222)
                      .|..+.+........+|||+|||+.+++++|+++|++||+|.+|.|+.+..  +++      |||||+|.+.++|..|+.
T Consensus        16 ~~~~S~~~~~~~~~~~l~V~nLp~~~te~~l~~~F~~~G~i~~v~i~~~~~--~~k------g~afV~f~~~~~A~~Ai~   87 (109)
T 2err_A           16 PRGSHMNTENKSQPKRLHVSNIPFRFRDPDLRQMFGQFGKILDVEIIFNER--GSK------GFGFVTFENSADADRARE   87 (109)
T ss_dssp             ------CCSCTTCCCEEEEESCCTTCCHHHHHHHGGGTCCCSCEEECCBTT--BCT------TEEEEECCCSHHHHHHHH
T ss_pred             CCCCCCCccCCCCCCEEEEECCCCcCCHHHHHHHHHhcCCEEEEEEEECCC--CCc------eEEEEEECCHHHHHHHHH
Confidence            334455555667788999999999999999999999999999999998853  356      999999999999999999


Q ss_pred             HhcCCccCCcccc
Q psy3854         103 QYNNTQIDCRKRS  115 (222)
Q Consensus       103 ~LNg~~i~Grk~~  115 (222)
                      .|||..|+|+.+.
T Consensus        88 ~l~g~~~~g~~l~  100 (109)
T 2err_A           88 KLHGTVVEGRKIE  100 (109)
T ss_dssp             HHTTCEETTEECE
T ss_pred             HcCCCEECCEEEE
Confidence            9999999999874

>2kt5_A RNA and export factor-binding protein 2; chaperone, mRNA processing, mRNA splicing, transport, nucleus, RNA-binding, spliceosome, transport; NMR {Mus musculus}

Probab=99.72  E-value=6.4e-17  Score=124.68  Aligned_cols=77  Identities=13%  Similarity=0.183  Sum_probs=71.7

Q ss_pred             ccCCccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCC
Q psy3854          32 KKYKKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDC  111 (222)
Q Consensus        32 k~~~~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~G  111 (222)
                      ......+|||+|||+.+++++|+++|++||.|.+|.|+.+. +|+++      |||||+|.+.++|..|+..|||..|+|
T Consensus        31 ~~~~~~~l~V~nlp~~~t~~~l~~~F~~~G~v~~v~i~~~~-~g~~~------g~afV~f~~~~~A~~Ai~~l~g~~~~g  103 (124)
T 2kt5_A           31 GVETGAKLLVSNLDFGVSDADIQELFAEFGTLKKAAVDYDR-SGRSL------GTADVHFERRADALKAMKQYKGVPLDG  103 (124)
T ss_dssp             CCSSCEEEEEESCCSSCCHHHHHHHHHTTSCCSEEEEECCS-SSSCC------SEEEEEESSHHHHHHHHHHHTTEESSS
T ss_pred             CCCCCCEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEEECC-CCCEe------eEEEEEECCHHHHHHHHHHcCCCEECC
Confidence            34566789999999999999999999999999999999988 78888      999999999999999999999999999


Q ss_pred             cccc
Q psy3854         112 RKRS  115 (222)
Q Consensus       112 rk~~  115 (222)
                      +.+.
T Consensus       104 ~~l~  107 (124)
T 2kt5_A          104 RPMD  107 (124)
T ss_dssp             CEEE
T ss_pred             cEEE
Confidence            9874

>2j8a_A Histone-lysine N-methyltransferase, H3 lysine-4 specific; histone methyltransferase, RRM fold, telomere, nuclear protein; 3.0A {Saccharomyces cerevisiae}

Probab=99.72  E-value=7.4e-18  Score=136.48  Aligned_cols=107  Identities=10%  Similarity=0.058  Sum_probs=82.9

Q ss_pred             ccEEEEcCC----CCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecc----hHH----HHHHHH-
Q psy3854          36 KGIIYLSKV----PPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLK----KKV----AKQVAA-  102 (222)
Q Consensus        36 ~g~VYIsnL----P~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~d----k~~----Ak~A~~-  102 (222)
                      ++.|||+||    |+.+++..|+++|+.||+|.+|.++.|+.||+|+      |||||+|.|    +.+    |..|+. 
T Consensus         2 p~kI~VgnL~~~~~~~tte~~Lk~~Fs~fGeV~~~~li~Dp~Tg~sl------GfgfVef~d~~g~~d~a~kAA~kAi~~   75 (136)
T 2j8a_A            2 SCEIVVYPAQDSTTTNIQDISIKNYFKKYGEISHFEAFNDPNSALPL------HVYLIKYASSDGKINDAAKAAFSAVRK   75 (136)
T ss_dssp             CCEEEEEESSSSCCCCCCHHHHHHHHHTTSCCSEEEEEECTTTCCEE------EEEEEECC------CCHHHHHHHHHHH
T ss_pred             CcEEEEeCCCCCCCCCCCHHHHHHHHHhcCCeEEEEEEecCCCCcee------eEEEEEECCCCCCcchHHHHHHHHHHH
Confidence            478999999    9999999999999999999999999999999999      999999996    333    899999 


Q ss_pred             -HhcCCccCCcccccccccccccccCC-CcccchhhHHHHHHHHHHHHHHHHHHHHH
Q psy3854         103 -QYNNTQIDCRKRSKHYDFIWNFKYLP-RFKWIHLNERLAYEKQAHRQKLRAEIAEA  157 (222)
Q Consensus       103 -~LNg~~i~Grk~~~~~~~lWnikyL~-~fkW~~L~e~~a~ek~~R~~rLr~e~~qa  157 (222)
                       .|||..|+|+++..-.        -+ +.. ..|.+..-.....+.|+|+..+..|
T Consensus        76 ~~lng~~I~Gr~irV~l--------n~~g~~-~~~~~~~i~~~~~~~~~~~~~~~~~  123 (136)
T 2j8a_A           76 HESSGCFIMGFKFEVIL--------NKHSIL-NNIISKFVEINVKKLQKLQENLKKA  123 (136)
T ss_dssp             TTTTCEEETTEEEEEEE--------CCTTHH-HHHHHHHHHHHHHHHHHHHHHTC--
T ss_pred             hhhcCCeecCcEEEEEE--------CcccHH-HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence             8999999999985322        22 333 5555555555555556665444333

>2cqd_A RNA-binding region containing protein 1; RNA recognition motif, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.72  E-value=1.8e-17  Score=126.14  Aligned_cols=76  Identities=17%  Similarity=0.363  Sum_probs=71.2

Q ss_pred             cCCccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCCc
Q psy3854          33 KYKKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDCR  112 (222)
Q Consensus        33 ~~~~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~Gr  112 (222)
                      .....+|||+|||+.+++++|+++|++||.|.+|.|+.+..+++++      |||||+|.+.++|..|+..||+ .|.|+
T Consensus        14 ~~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~~~~~------g~afV~f~~~~~a~~Ai~~~~~-~~~g~   86 (116)
T 2cqd_A           14 DTTFTKIFVGGLPYHTTDASLRKYFEGFGDIEEAVVITDRQTGKSR------GYGFVTMADRAAAERACKDPNP-IIDGR   86 (116)
T ss_dssp             SCSSSEEEEECCCSSCCHHHHHHHHHTTSCEEEEEESCCSSSCCCC------SEEEEEESSHHHHHHHHTCSSC-EETTE
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhCCCeeEEEEEEcCCCCccc------eEEEEEECCHHHHHHHHHhCCC-cCCCE
Confidence            3456889999999999999999999999999999999998888888      9999999999999999999999 89999


Q ss_pred             ccc
Q psy3854         113 KRS  115 (222)
Q Consensus       113 k~~  115 (222)
                      .+.
T Consensus        87 ~l~   89 (116)
T 2cqd_A           87 KAN   89 (116)
T ss_dssp             ECE
T ss_pred             EEE
Confidence            874

>2wbr_A GW182, gawky, LD47780P; DNA-binding protein, RRM, RBD, TNRC6A, mirnas, P-bodies, argonaute, mRNA decay; NMR {Drosophila melanogaster}

Probab=99.72  E-value=9.6e-18  Score=127.14  Aligned_cols=69  Identities=9%  Similarity=0.107  Sum_probs=64.8

Q ss_pred             CccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCCccc
Q psy3854          35 KKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDCRKR  114 (222)
Q Consensus        35 ~~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~Grk~  114 (222)
                      ..+-|||+||++.+|+++|+++|++||+|.+++|+.      +|      |||||||.+.++|..|+..|||..++|+++
T Consensus         6 ~~~wL~VgNL~~~~te~~L~~lF~q~G~V~~~~l~~------~k------GfaFVey~~~~eA~~Ai~~Ln~~~l~gr~I   73 (89)
T 2wbr_A            6 GSSWLLLKNLTAQIDGPTLRTLCMQHGPLVSFHPYL------NQ------GIALCKYTTREEANKAQMALNNCVLANTTI   73 (89)
T ss_dssp             CCCEEEEECCCTTCCCHHHHHHHHHHSCEEEEEEET------TT------TEEEEEESSHHHHHHHHHHHTTEEETTEEE
T ss_pred             ccceEEEeCCCccCCHHHHHHHHHhhCCEEEEEEcC------CC------cEEEEEECCHHHHHHHHHHhcCCEECCcEE
Confidence            467899999999999999999999999999999976      45      999999999999999999999999999998


Q ss_pred             c
Q psy3854         115 S  115 (222)
Q Consensus       115 ~  115 (222)
                      .
T Consensus        74 ~   74 (89)
T 2wbr_A           74 F   74 (89)
T ss_dssp             E
T ss_pred             E
Confidence            4

>1sjq_A Polypyrimidine tract-binding protein 1; babbab motif, RNA binding protein; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.71  E-value=1.7e-17  Score=128.48  Aligned_cols=71  Identities=15%  Similarity=0.288  Sum_probs=64.5

Q ss_pred             cCCccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcC--CccC
Q psy3854          33 KYKKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNN--TQID  110 (222)
Q Consensus        33 ~~~~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg--~~i~  110 (222)
                      .....+|||+|||+++++++|+++|++||+|.+|.|+++      |      |||||+|.+.++|..|++.||+  ..|.
T Consensus        13 ~~~~~~LfV~nLp~~vte~dL~~lF~~fG~V~~v~i~~~------k------GfaFVeF~~~~~A~~Ai~~l~~~~~~l~   80 (105)
T 1sjq_A           13 GVPSRVIHIRKLPIDVTEGEVISLGLPFGKVTNLLMLKG------K------NQAFIEMNTEEAANTMVNYYTSVTPVLR   80 (105)
T ss_dssp             CCCCCEEEECSCCTTSCHHHHHHHHHHHCCEEEEEEETT------T------TEEEEEESSHHHHHHHHHHHTTSCCEET
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEcC------C------CEEEEEECCHHHHHHHHHHhccCCceEC
Confidence            345788999999999999999999999999999999875      3      9999999999999999999874  7899


Q ss_pred             Ccccc
Q psy3854         111 CRKRS  115 (222)
Q Consensus       111 Grk~~  115 (222)
                      |+++.
T Consensus        81 Gr~l~   85 (105)
T 1sjq_A           81 GQPIY   85 (105)
T ss_dssp             TEECC
T ss_pred             CEEEE
Confidence            99874

>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=99.71  E-value=2.3e-17  Score=131.82  Aligned_cols=78  Identities=18%  Similarity=0.216  Sum_probs=73.1

Q ss_pred             ccCCccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCC
Q psy3854          32 KKYKKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDC  111 (222)
Q Consensus        32 k~~~~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~G  111 (222)
                      ......+|||+|||+.+++++|+++|++||+|.+|.|+.+..+++++      |||||+|.+.++|..|+..|||..|.|
T Consensus        35 ~~~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~~~~~------g~afV~f~~~~~A~~Ai~~l~g~~~~g  108 (156)
T 1h2v_Z           35 LLKKSCTLYVGNLSFYTTEEQIYELFSKSGDIKKIIMGLDKMKKTAC------GFCFVEYYSRADAENAMRYINGTRLDD  108 (156)
T ss_dssp             TTTTCCEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEECTTTCCEE------EEEEEEESSHHHHHHHHHHTTTSEETT
T ss_pred             cCCCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEecCCCCccc------eEEEEEECCHHHHHHHHHHhCCCEECC
Confidence            34467899999999999999999999999999999999999888888      999999999999999999999999999


Q ss_pred             cccc
Q psy3854         112 RKRS  115 (222)
Q Consensus       112 rk~~  115 (222)
                      +++.
T Consensus       109 ~~l~  112 (156)
T 1h2v_Z          109 RIIR  112 (156)
T ss_dssp             EECE
T ss_pred             eEEE
Confidence            9874

>2dh8_A DAZ-associated protein 1; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.71  E-value=1.3e-17  Score=124.59  Aligned_cols=75  Identities=19%  Similarity=0.315  Sum_probs=70.8

Q ss_pred             CCccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCCcc
Q psy3854          34 YKKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDCRK  113 (222)
Q Consensus        34 ~~~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~Grk  113 (222)
                      ....+|||+|||+.+++++|+++|++||+|.+|.|+.+..+++++      |||||+|.+.++|..|+.. ||..|.|+.
T Consensus        14 ~~~~~l~V~nlp~~~t~~~l~~~F~~~G~v~~v~i~~~~~~g~~~------g~afV~f~~~~~a~~a~~~-~~~~~~g~~   86 (105)
T 2dh8_A           14 DEIGKLFVGGLDWSTTQETLRSYFSQYGEVVDCVIMKDKTTNQSR------GFGFVKFKDPNCVGTVLAS-RPHTLDGRN   86 (105)
T ss_dssp             SSSSEECCBSCCTTCCHHHHHHHHHTTSCEEEEEEEECSSSCCEE------EEEEEEESSTTHHHHHHHH-CSEEETTEE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEeeCCCCCCcc------eEEEEEECCHHHHHHHHHh-CCCeECCEE
Confidence            456789999999999999999999999999999999998888888      9999999999999999999 999999998


Q ss_pred             cc
Q psy3854         114 RS  115 (222)
Q Consensus       114 ~~  115 (222)
                      +.
T Consensus        87 l~   88 (105)
T 2dh8_A           87 ID   88 (105)
T ss_dssp             EB
T ss_pred             EE
Confidence            74

>1x4b_A Heterogeneous nuclear ribonucleoproteins A2/B1; structure genomics, RRM domain, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.71  E-value=1.8e-17  Score=126.16  Aligned_cols=76  Identities=13%  Similarity=0.217  Sum_probs=71.1

Q ss_pred             cCCccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCCc
Q psy3854          33 KYKKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDCR  112 (222)
Q Consensus        33 ~~~~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~Gr  112 (222)
                      .....+|||+|||+.+++++|+++|++||.|.+|.|+.+..+|+++      |||||+|.+.++|..|+.. ||..|+|+
T Consensus        24 ~~~~~~l~V~nLp~~~te~~l~~~F~~~G~i~~v~i~~~~~~g~~~------g~afV~f~~~~~a~~Ai~~-~~~~~~g~   96 (116)
T 1x4b_A           24 KEQFRKLFIGGLSFETTEESLRNYYEQWGKLTDCVVMRDPASKRSR------GFGFVTFSSMAEVDAAMAA-RPHSIDGR   96 (116)
T ss_dssp             HHHHTEEEEECCTTCCCHHHHHHHHTSSCCCSEEEEECCTTTSSCC------SEEEEECSSHHHHHHHHTS-CSEEETTE
T ss_pred             cCCCCEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEECCCCCCcC------ceEEEEeCCHHHHHHHHHh-CCcEECCE
Confidence            3456889999999999999999999999999999999998888888      9999999999999999998 99999999


Q ss_pred             ccc
Q psy3854         113 KRS  115 (222)
Q Consensus       113 k~~  115 (222)
                      .+.
T Consensus        97 ~l~   99 (116)
T 1x4b_A           97 VVE   99 (116)
T ss_dssp             EEE
T ss_pred             EEE
Confidence            874

>2rs2_A Musashi-1, RNA-binding protein musashi homolog 1; protein-RNA complex, RRM, RBD, RNA binding protein- complex; NMR {Mus musculus}

Probab=99.71  E-value=1.7e-17  Score=126.32  Aligned_cols=78  Identities=17%  Similarity=0.300  Sum_probs=68.1

Q ss_pred             cccCCccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccC
Q psy3854          31 SKKYKKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQID  110 (222)
Q Consensus        31 ~k~~~~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~  110 (222)
                      .......+|||+|||+.+++++|+++|++||.|.+|.|+.+..+|+++      |||||+|.+.++|..|+..|| ..|+
T Consensus        20 ~~~~~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~tg~~k------g~afV~f~~~~~A~~Ai~~~~-~~l~   92 (109)
T 2rs2_A           20 HMGSSGCKMFIGGLSWQTTQEGLREYFGQFGEVKECLVMRDPLTKRSR------GFGFVTFMDQAGVDKVLAQSR-HELD   92 (109)
T ss_dssp             ------CCEEEESCCTTCCHHHHHHHHTTTSCEEEEEECCCTTTCCCT------TCEEEEESSHHHHHHHHHSSC-EEET
T ss_pred             ccCCCCCEEEEeCCCCCCCHHHHHHHHHccCCeEEEEEEECCCCCCcC------cEEEEEECCHHHHHHHHHHCC-CcCC
Confidence            344567889999999999999999999999999999999998889888      999999999999999999875 9999


Q ss_pred             Ccccc
Q psy3854         111 CRKRS  115 (222)
Q Consensus       111 Grk~~  115 (222)
                      |+.+.
T Consensus        93 g~~l~   97 (109)
T 2rs2_A           93 SKTID   97 (109)
T ss_dssp             TEEEE
T ss_pred             CEEEE
Confidence            99873

>2do0_A HnRNP M, heterogeneous nuclear ribonucleoprotein M; RNA recognition motif, RRM, RNA binding domain, RBD, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=99.71  E-value=2.6e-17  Score=124.46  Aligned_cols=74  Identities=18%  Similarity=0.196  Sum_probs=69.3

Q ss_pred             CccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCCccc
Q psy3854          35 KKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDCRKR  114 (222)
Q Consensus        35 ~~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~Grk~  114 (222)
                      ...+|||+|||+.+++++|+++|++||.|.+|.|+.+.. |+++      |||||+|.+.++|..|+..|||..|.|+.+
T Consensus        14 ~~~~l~V~nlp~~~~~~~l~~~f~~~G~i~~~~i~~~~~-g~~~------g~afV~f~~~~~a~~A~~~l~g~~~~g~~l   86 (114)
T 2do0_A           14 LGSTVFVANLDYKVGWKKLKEVFSMAGVVVRADILEDKD-GKSR------GIGTVTFEQSIEAVQAISMFNGQLLFDRPM   86 (114)
T ss_dssp             CCSCEEEESCCTTCCHHHHHHHHTTTSCEEEEEEEECTT-CSEE------EEEEEEESSHHHHHHHHHHHTTCEETTEEC
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEECCC-CCee------eEEEEEECCHHHHHHHHHHhCCCEeCCCEE
Confidence            457899999999999999999999999999999998874 7777      999999999999999999999999999987


Q ss_pred             c
Q psy3854         115 S  115 (222)
Q Consensus       115 ~  115 (222)
                      .
T Consensus        87 ~   87 (114)
T 2do0_A           87 H   87 (114)
T ss_dssp             E
T ss_pred             E
Confidence            4

>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=99.71  E-value=2.6e-17  Score=133.26  Aligned_cols=78  Identities=15%  Similarity=0.232  Sum_probs=72.0

Q ss_pred             ccCCccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCC
Q psy3854          32 KKYKKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDC  111 (222)
Q Consensus        32 k~~~~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~G  111 (222)
                      +.....+|||+|||+.+++++|+.+|++||+|..|.|+.+..+|+++      |||||+|.+.++|..|+..|||..|.|
T Consensus        68 ~~~~~~~l~V~nLp~~~t~~~L~~~F~~~G~i~~v~i~~~~~~g~~~------g~afV~f~~~~~A~~Ai~~l~g~~~~g  141 (165)
T 1rk8_A           68 RSVEGWILFVTSIHEEAQEDEIQEKFCDYGEIKNIHLNLDRRTGFSK------GYALVEYETHKQALAAKEALNGAEIMG  141 (165)
T ss_dssp             CCC-CEEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEECTTTSSEE------EEEEEEESSHHHHHHHHHHHTTCEETT
T ss_pred             CCCCCCEEEEeCCCCCCCHHHHHHHhhcCCCEEEEEEEecCCCCcEe------eEEEEEECCHHHHHHHHHHhCCCEECC
Confidence            33455679999999999999999999999999999999998889888      999999999999999999999999999


Q ss_pred             cccc
Q psy3854         112 RKRS  115 (222)
Q Consensus       112 rk~~  115 (222)
                      +.+.
T Consensus       142 ~~l~  145 (165)
T 1rk8_A          142 QTIQ  145 (165)
T ss_dssp             EECE
T ss_pred             EEEE
Confidence            9874

>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=99.70  E-value=2.8e-17  Score=123.32  Aligned_cols=75  Identities=12%  Similarity=0.173  Sum_probs=69.1

Q ss_pred             CccEEEEcCCCCCCCHHHHHHHhhcCcc-eeEEEEe-cCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhc--CCccC
Q psy3854          35 KKGIIYLSKVPPHMNVTQLTEFMSRFGE-VGRVYLM-PKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYN--NTQID  110 (222)
Q Consensus        35 ~~g~VYIsnLP~~m~e~~Lr~lFs~fG~-I~rv~L~-~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LN--g~~i~  110 (222)
                      ...+|||+|||+.+++++|+++|++||. |.+|.|+ .+..+|+++      |||||+|.+.++|..|+..||  +..+.
T Consensus         7 ~~~~l~V~nLp~~~t~~~l~~~f~~~G~~v~~v~i~~~~~~~g~~~------g~afV~f~~~~~A~~A~~~l~~g~~~~~   80 (109)
T 2dis_A            7 GNCRLFIGGIPKMKKREEILEEIAKVTEGVLDVIVYASAADKMKNR------GFAFVEYESHRAAAMARRKLMPGRIQLW   80 (109)
T ss_dssp             CSEEEEEECCCTTSCHHHHHHHHHHHSTTEEEEECCSSSCTTTTTC------CEEEEEESSHHHHHHHHTTTTTCCSCBT
T ss_pred             CCCEEEEeCCCCcCCHHHHHHHHHHhcCCceEEEEEccCCCCCCcC------cEEEEEecCHHHHHHHHHHhhCCCceec
Confidence            4578999999999999999999999999 9999998 777788888      999999999999999999996  59999


Q ss_pred             Ccccc
Q psy3854         111 CRKRS  115 (222)
Q Consensus       111 Grk~~  115 (222)
                      |+++.
T Consensus        81 g~~l~   85 (109)
T 2dis_A           81 GHQIA   85 (109)
T ss_dssp             TBCCE
T ss_pred             CCeEE
Confidence            99874

>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=99.70  E-value=1.3e-17  Score=127.98  Aligned_cols=69  Identities=16%  Similarity=0.251  Sum_probs=63.0

Q ss_pred             CccEEEEcCCCC-CCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCc--cCC
Q psy3854          35 KKGIIYLSKVPP-HMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQ--IDC  111 (222)
Q Consensus        35 ~~g~VYIsnLP~-~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~--i~G  111 (222)
                      ...+|||+|||+ .+++++|+++|++||+|.+|.|+++      |      |||||+|.+.++|..|++.|||.+  |.|
T Consensus        14 p~~~l~V~nLp~~~~te~dL~~lF~~fG~V~~v~i~~~------k------g~aFVef~~~~~A~~Ai~~l~~~~~~~~G   81 (102)
T 1x4d_A           14 TRRVVHIMDFQRGKNLRYQLLQLVEPFGVISNHLILNK------I------NEAFIEMATTEDAQAAVDYYTTTPALVFG   81 (102)
T ss_dssp             CCCEEEEESCCCSSSHHHHHHTTTGGGSCEEEEEECSS------S------SCEEEEESSHHHHHHHHHHHHHSCCEETT
T ss_pred             CCCEEEEeCCCCCcCCHHHHHHHHHhcCCEEEEEEEcC------C------CEEEEEECCHHHHHHHHHHHcCCCceECC
Confidence            456899999999 9999999999999999999999864      2      899999999999999999999765  999


Q ss_pred             cccc
Q psy3854         112 RKRS  115 (222)
Q Consensus       112 rk~~  115 (222)
                      +++.
T Consensus        82 r~l~   85 (102)
T 1x4d_A           82 KPVR   85 (102)
T ss_dssp             EECE
T ss_pred             cEEE
Confidence            9974

>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=99.70  E-value=4.3e-17  Score=122.74  Aligned_cols=75  Identities=16%  Similarity=0.261  Sum_probs=68.8

Q ss_pred             CCccEEEEcCCCCCCCHHHHHHHhhcCcceeE-EEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCCc
Q psy3854          34 YKKGIIYLSKVPPHMNVTQLTEFMSRFGEVGR-VYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDCR  112 (222)
Q Consensus        34 ~~~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~r-v~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~Gr  112 (222)
                      ....+|||+|||+.+++++|+++|++||.|.. |.|+.+ .+|+++      |||||+|.+.++|..|+.. ||..|+|+
T Consensus        13 ~~~~~l~V~nLp~~~te~~l~~~F~~~G~v~~~v~i~~~-~~g~~~------G~afV~F~~~~~a~~A~~~-~~~~~~gr   84 (104)
T 1wg5_A           13 ANDGFVRLRGLPFGCSKEEIVQFFSGLEIVPNGMTLPVD-FQGRST------GEAFVQFASQEIAEKALKK-HKERIGHR   84 (104)
T ss_dssp             SCCCEEEEESCCTTCCHHHHHHHTTTCCEEEEEEECCBC-SSSCBC------SEEEEEESSHHHHHHHHTT-TTCCSSSS
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCcceeEEEEEC-CCCCcc------eEEEEEECCHHHHHHHHHh-CcchhCCc
Confidence            35678999999999999999999999999997 888887 778888      9999999999999999998 99999999


Q ss_pred             cccc
Q psy3854         113 KRSK  116 (222)
Q Consensus       113 k~~~  116 (222)
                      .+..
T Consensus        85 ~i~v   88 (104)
T 1wg5_A           85 YIEI   88 (104)
T ss_dssp             CCEE
T ss_pred             EEEE
Confidence            8753

>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=99.70  E-value=1.4e-17  Score=128.84  Aligned_cols=75  Identities=15%  Similarity=0.191  Sum_probs=69.4

Q ss_pred             CCccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCCcc
Q psy3854          34 YKKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDCRK  113 (222)
Q Consensus        34 ~~~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~Grk  113 (222)
                      ....+|||+|||+.+++++|+++|++||.|..+.++.+..+|+++      |||||+|.+.++|..|+. |||..|+|+.
T Consensus        23 ~~~~~l~V~nLp~~~te~~l~~~F~~~G~v~~~~~~~~~~~g~~~------G~afV~F~~~~~a~~Al~-~~g~~~~gr~   95 (124)
T 1wel_A           23 EAGFCVYLKGLPFEAENKHVIDFFKKLDIVEDSIYIAYGPNGKAT------GEGFVEFRNEADYKAALC-RHKQYMGNRF   95 (124)
T ss_dssp             CCCCEEEEECCCTTCCHHHHHHHSCSSCBCTTTCEEEECTTSSEE------EEEEEEBSSSHHHHHHHT-SCSBCSTTSC
T ss_pred             CCCcEEEEeCCCCCCCHHHHHHHHHhcCCccceEEEEECCCCCCC------eEEEEEECCHHHHHHHHH-hCCCeECCcE
Confidence            456789999999999999999999999999997777777789888      999999999999999999 9999999998


Q ss_pred             cc
Q psy3854         114 RS  115 (222)
Q Consensus       114 ~~  115 (222)
                      +.
T Consensus        96 i~   97 (124)
T 1wel_A           96 IQ   97 (124)
T ss_dssp             BE
T ss_pred             EE
Confidence            74

>2a3j_A U1 small nuclear ribonucleoprotein A; computationally designed protein, RRM, U1A, RNA binding protein; NMR {Homo sapiens}

Probab=99.70  E-value=4.3e-17  Score=129.06  Aligned_cols=72  Identities=10%  Similarity=0.235  Sum_probs=64.9

Q ss_pred             CccEEEEcCCCCCCCHHHHH----HHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccC
Q psy3854          35 KKGIIYLSKVPPHMNVTQLT----EFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQID  110 (222)
Q Consensus        35 ~~g~VYIsnLP~~m~e~~Lr----~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~  110 (222)
                      ...+|||+|||+.+++++|+    ++|++||+|.+|.+..   ++++|      |||||+|.+.++|..|+..|||..|.
T Consensus        28 p~~~LfV~nL~~~~~e~~L~~~L~~~F~~~G~I~~v~i~~---~~~~r------G~aFV~F~~~~~A~~Ai~~lng~~l~   98 (127)
T 2a3j_A           28 PSQVVLITNINPEVPKEKLQALLYALASSQGDILDIVVDL---SDDNS------GKAYIVFATQESAQAFVEAFQGYPFQ   98 (127)
T ss_dssp             CCSEEEEESCCTTSCHHHHHHHHHHHHHHHSCEEEEEECC---CCSSC------CCEEEEESSHHHHHHHHHHSTTCCCT
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHHHhccCCCeEEEEecc---CCCcC------CEEEEEECCHHHHHHHHHHHCCCEeC
Confidence            35679999999999999876    7999999999998854   46777      99999999999999999999999999


Q ss_pred             Ccccc
Q psy3854         111 CRKRS  115 (222)
Q Consensus       111 Grk~~  115 (222)
                      |+++.
T Consensus        99 gr~l~  103 (127)
T 2a3j_A           99 GNPLV  103 (127)
T ss_dssp             TSCCE
T ss_pred             CCEEE
Confidence            99874

>4f02_A Polyadenylate-binding protein 1; mRNA, eukaryotic initiation factors PAIP1 and PAIP2, translation-RNA complex; 2.00A {Homo sapiens} PDB: 1cvj_A*

Probab=99.69  E-value=4e-17  Score=136.29  Aligned_cols=74  Identities=14%  Similarity=0.155  Sum_probs=70.8

Q ss_pred             ccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCCcccc
Q psy3854          36 KGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDCRKRS  115 (222)
Q Consensus        36 ~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~Grk~~  115 (222)
                      ..+|||||||+++++++|+++|++||+|.+|.|++|..+|+++      |||||+|.+.++|..|+..|||..+.|+.+.
T Consensus        15 ~~tlfVgnLp~~~te~~L~~~F~~~G~I~~v~i~~d~~tg~~~------G~afV~F~~~~~A~~Ai~~~~~~~~~g~~i~   88 (213)
T 4f02_A           15 MASLYVGDLHPDVTEAMLYEKFSPAGPILSIRVCRDMITRRSL------GYAYVNFQQPADAERALDTMNFDVIKGKPVR   88 (213)
T ss_dssp             CCEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEECTTTCCEE------EEEEEEESSHHHHHHHHHHHTTCEETTEECE
T ss_pred             CcEEEEeCCCCCCCHHHHHHHHHhhCCEEEEEEecccCCCCcc------ccccceeCCHHHHHHHHHHhhhhhcCCcccc
Confidence            4689999999999999999999999999999999999999888      9999999999999999999999999999874

>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=99.69  E-value=8.1e-17  Score=122.13  Aligned_cols=72  Identities=11%  Similarity=0.314  Sum_probs=66.0

Q ss_pred             CccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCCccc
Q psy3854          35 KKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDCRKR  114 (222)
Q Consensus        35 ~~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~Grk~  114 (222)
                      ...+|||+|||+.+++++|+++|++||.|.+|.|+.+   +.++      |||||+|.+.++|..|+..|||..|+|+.+
T Consensus         7 ~~~~l~V~nlp~~~t~~~l~~~F~~~G~v~~v~i~~~---~~~~------g~afV~f~~~~~A~~A~~~l~g~~~~g~~l   77 (115)
T 3lqv_A            7 VNRILYIRNLPYKITAEEMYDIFGKYGPIRQIRVGNT---PETR------GTAYVVYEDIFDAKNAVDHLSGFNVSNRYL   77 (115)
T ss_dssp             CCSEEEEESCCTTCCHHHHHHHHHTTSCEEEEEEECS---TTTT------TCEEEEESSHHHHHHHHHHHTTCBSSSCBC
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEeeC---CCCC------cEEEEEECCHHHHHHHHHHcCCCEECCeEE
Confidence            4568999999999999999999999999999999876   3345      999999999999999999999999999987


Q ss_pred             c
Q psy3854         115 S  115 (222)
Q Consensus       115 ~  115 (222)
                      .
T Consensus        78 ~   78 (115)
T 3lqv_A           78 V   78 (115)
T ss_dssp             E
T ss_pred             E
Confidence            4

>2lea_A Serine/arginine-rich splicing factor 2; SR protein, RNA binding protein; NMR {Homo sapiens} PDB: 2leb_A 2lec_A

Probab=99.69  E-value=1.8e-17  Score=131.20  Aligned_cols=80  Identities=14%  Similarity=0.257  Sum_probs=73.6

Q ss_pred             ccccCCccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCcc
Q psy3854          30 NSKKYKKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQI  109 (222)
Q Consensus        30 ~~k~~~~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i  109 (222)
                      ........+|||+|||+.+++++|+++|++||.|.+|.|+.+..+++++      |||||+|.+.++|..|+..|||..|
T Consensus        41 ~~~~~~~~~l~V~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~~g~~~------G~afV~F~~~~~A~~Ai~~l~g~~i  114 (135)
T 2lea_A           41 PPDVEGMTSLKVDNLTYRTSPDTLRRVFEKYGRVGDVYIPRDRYTKESR------GFAFVRFHDKRDAEDAMDAMDGAVL  114 (135)
T ss_dssp             CSSGGGCCCEEEECCCSSCHHHHHHHHHGGGSCCSEEECCCCSSSSSCC------SCCEEECSCHHHHHHHHTTTTTCCS
T ss_pred             CCCCCCCCEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEecCCCCccc------eEEEEEECCHHHHHHHHHHcCCCEE
Confidence            3344567789999999999999999999999999999999998888888      9999999999999999999999999


Q ss_pred             CCcccc
Q psy3854         110 DCRKRS  115 (222)
Q Consensus       110 ~Grk~~  115 (222)
                      .|+++.
T Consensus       115 ~g~~l~  120 (135)
T 2lea_A          115 DGRELR  120 (135)
T ss_dssp             SSSCCE
T ss_pred             CCEEEE
Confidence            999874

>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=99.69  E-value=1.1e-16  Score=120.48  Aligned_cols=74  Identities=15%  Similarity=0.332  Sum_probs=66.8

Q ss_pred             cCCccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCCc
Q psy3854          33 KYKKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDCR  112 (222)
Q Consensus        33 ~~~~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~Gr  112 (222)
                      .....+|||+|||+.+++++|+++|++||.|.+|.|..+   ++++      |||||+|.+.++|..|+..|||..|.|+
T Consensus        19 ~~~~~~l~V~nLp~~~t~~~l~~~F~~~G~v~~~~i~~~---~~~~------g~afV~f~~~~~A~~A~~~l~g~~~~g~   89 (109)
T 1x4a_A           19 GNNDCRIYVGNLPPDIRTKDIEDVFYKYGAIRDIDLKNR---RGGP------PFAFVEFEDPRDAEDAVYGRDGYDYDGY   89 (109)
T ss_dssp             CCCSSEEEEESCCTTCCHHHHHHHHGGGSCEEEEEECCS---SSSS------CCEEEEESCHHHHHHHHHHHTTCEETTE
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEEC---CCCC------cEEEEEECCHHHHHHHHHHcCCCEECCe
Confidence            345679999999999999999999999999999999664   3455      9999999999999999999999999999


Q ss_pred             ccc
Q psy3854         113 KRS  115 (222)
Q Consensus       113 k~~  115 (222)
                      .+.
T Consensus        90 ~l~   92 (109)
T 1x4a_A           90 RLR   92 (109)
T ss_dssp             ECE
T ss_pred             EEE
Confidence            874

>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=99.69  E-value=3.3e-17  Score=125.21  Aligned_cols=75  Identities=9%  Similarity=0.160  Sum_probs=69.5

Q ss_pred             cCCccEEEEcCCCCCCCHHHHHHHhhcCcce-eEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCC
Q psy3854          33 KYKKGIIYLSKVPPHMNVTQLTEFMSRFGEV-GRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDC  111 (222)
Q Consensus        33 ~~~~g~VYIsnLP~~m~e~~Lr~lFs~fG~I-~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~G  111 (222)
                      .....+|||+|||+.+++++|+++|++||.| .+|.|+.+. +|+++      |||||+|.+.++|..|+.. ||..|+|
T Consensus        12 ~~~~~~l~V~nLp~~~t~~~l~~~F~~~g~v~~~v~i~~d~-~g~~~------G~afV~F~~~~~a~~Al~~-~~~~~~g   83 (114)
T 2cpy_A           12 NSAKVCAHITNIPFSITKMDVLQFLEGIPVDENAVHVLVDN-NGQGL------GQALVQFKNEDDARKSERL-HRKKLNG   83 (114)
T ss_dssp             CSCCCEEEEESCCTTSCHHHHHHHTTTSCCCSTTEEECCCT-TSSCS------SCEEEECSSHHHHHHHGGG-CSEEETT
T ss_pred             CCCccEEEEeCcCCcCCHHHHHHHHHhCCCcCCeEEEEECC-CCCcc------eEEEEEECCHHHHHHHHHh-CCCccCC
Confidence            3456789999999999999999999999999 999999988 78888      9999999999999999987 9999999


Q ss_pred             cccc
Q psy3854         112 RKRS  115 (222)
Q Consensus       112 rk~~  115 (222)
                      +.+.
T Consensus        84 r~i~   87 (114)
T 2cpy_A           84 REAF   87 (114)
T ss_dssp             EEEE
T ss_pred             eEEE
Confidence            9874

>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=99.69  E-value=5.9e-17  Score=126.70  Aligned_cols=74  Identities=15%  Similarity=0.302  Sum_probs=70.5

Q ss_pred             ccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCCcccc
Q psy3854          36 KGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDCRKRS  115 (222)
Q Consensus        36 ~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~Grk~~  115 (222)
                      ..+|||+|||+.+++++|+++|++||+|.+|.++++..+|+++      |+|||+|.+.++|..|+..|||..++|+++.
T Consensus         2 ~~~l~v~nlp~~~~~~~l~~~f~~~G~i~~v~~~~~~~~~~~~------g~afV~f~~~~~A~~a~~~l~~~~~~g~~l~   75 (167)
T 1fxl_A            2 KTNLIVNYLPQNMTQEEFRSLFGSIGEIESCKLVRDKITGQSL------GYGFVNYIDPKDAEKAINTLNGLRLQTKTIK   75 (167)
T ss_dssp             CSEEEEESCCTTCCHHHHHHHHHTTSCEEEEEEEECTTTCCEE------EEEEEEESSHHHHHHHHHHHTTCEETTEECE
T ss_pred             cceEEEcCCCCCCCHHHHHHHHHhcCCeEEEEEEeCCCCCcce------eEEEEEECCHHHHHHHHHHcCCCccCCceEE
Confidence            4689999999999999999999999999999999998889888      9999999999999999999999999999874

>2dgw_A Probable RNA-binding protein 19; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.69  E-value=5.7e-17  Score=118.25  Aligned_cols=73  Identities=12%  Similarity=0.165  Sum_probs=68.4

Q ss_pred             CCccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCCcc
Q psy3854          34 YKKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDCRK  113 (222)
Q Consensus        34 ~~~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~Grk  113 (222)
                      ....+|||+|||+.+++++|+++|++| .|.+|.|+.+ .+|+++      |||||+|.+.++|..|+. |||..|+|+.
T Consensus         8 ~~~~~l~v~nLp~~~t~~~l~~~F~~~-~i~~v~i~~~-~~g~~~------g~afV~f~~~~~a~~A~~-~~g~~~~gr~   78 (91)
T 2dgw_A            8 TTCHTVKLRGAPFNVTEKNVMEFLAPL-KPVAIRIVRN-AHGNKT------GYIFVDFSNEEEVKQALK-CNREYMGGRY   78 (91)
T ss_dssp             CCCCEEEEECCCSSCCHHHHHHHHTTS-CCSEEEEEEC-TTSCEE------EEEEEECSSHHHHHHHHH-SCSEEETTEE
T ss_pred             CCccEEEEECCCCCCCHHHHHHHHhhC-CceEEEEEEC-CCCCCc------eEEEEEECCHHHHHHHHH-hCCceeCCcE
Confidence            356789999999999999999999999 9999999998 678888      999999999999999999 9999999998


Q ss_pred             cc
Q psy3854         114 RS  115 (222)
Q Consensus       114 ~~  115 (222)
                      +.
T Consensus        79 i~   80 (91)
T 2dgw_A           79 IE   80 (91)
T ss_dssp             EE
T ss_pred             EE
Confidence            74

>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=99.69  E-value=3.9e-17  Score=140.21  Aligned_cols=75  Identities=11%  Similarity=0.170  Sum_probs=70.5

Q ss_pred             CccEEEEcCCCCCCCHHHHHHHhhcCc--ceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCCc
Q psy3854          35 KKGIIYLSKVPPHMNVTQLTEFMSRFG--EVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDCR  112 (222)
Q Consensus        35 ~~g~VYIsnLP~~m~e~~Lr~lFs~fG--~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~Gr  112 (222)
                      ...+|||+|||+.+++++|+++|++||  .|.+|.|+.|..+|++|      |||||+|.+.++|.+|+..|||+.|.|+
T Consensus        67 ~~~~lfVgnL~~~~te~~L~~~F~~~G~~~v~~v~i~~d~~tg~sk------GfaFV~f~~~~~a~~Ai~~lng~~~~Gr  140 (229)
T 3q2s_C           67 KRIALYIGNLTWWTTDEDLTEAVHSLGVNDILEIKFFENRANGQSK------GFALVGVGSEASSKKLMDLLPKRELHGQ  140 (229)
T ss_dssp             --CEEEEESCCTTCCHHHHHHHHHTTTCCCEEEEEEEECTTTCCEE------EEEEEEESCTTHHHHHHTTSTTSCBTTB
T ss_pred             CccEEEEeCCCCCCCHHHHHHHHHHHCCcceEEEEEEecCCCCccc------eEEEEEECCHHHHHHHHHHcCCCeECCE
Confidence            566899999999999999999999999  99999999999899998      9999999999999999999999999999


Q ss_pred             ccc
Q psy3854         113 KRS  115 (222)
Q Consensus       113 k~~  115 (222)
                      .+.
T Consensus       141 ~l~  143 (229)
T 3q2s_C          141 NPV  143 (229)
T ss_dssp             CCE
T ss_pred             EeE
Confidence            873

>1fj7_A Nucleolin RBD1, protein C23; RNP, RRM, RNA binding domain, nucleolus, structural protein; NMR {Mesocricetus auratus} SCOP: d.58.7.1

Probab=99.69  E-value=1.3e-17  Score=123.89  Aligned_cols=73  Identities=10%  Similarity=0.156  Sum_probs=67.5

Q ss_pred             CccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCCccc
Q psy3854          35 KKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDCRKR  114 (222)
Q Consensus        35 ~~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~Grk~  114 (222)
                      ....|||+|||+.+++++|+++|++||.|.. .++.+..+|+++      |||||+|.+.++|..|++ |||..|.|+.+
T Consensus        16 ~~~~l~V~nLp~~~t~~~l~~~F~~~G~v~~-~~~~~~~~g~~~------g~afV~f~~~~~a~~A~~-l~g~~~~g~~l   87 (101)
T 1fj7_A           16 TPFNLFIGNLNPNKSVAELKVAISELFAKND-LAVVDVRTGTNR------KFGYVDFESAEDLEKALE-LTGLKVFGNEI   87 (101)
T ss_dssp             CSEEEEEECCCTTSCHHHHHHHHHHHHHHHT-CCCCEEEEETTT------TEEEEEESSHHHHHHHHH-GGGCCBTTBCC
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHHhCCcce-EEEecCCCCCcC------cEEEEEECCHHHHHHHHh-cCCcEECCcEE
Confidence            4678999999999999999999999999999 677777778888      999999999999999999 99999999987


Q ss_pred             c
Q psy3854         115 S  115 (222)
Q Consensus       115 ~  115 (222)
                      .
T Consensus        88 ~   88 (101)
T 1fj7_A           88 K   88 (101)
T ss_dssp             E
T ss_pred             E
Confidence            4

>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=99.68  E-value=4.6e-17  Score=123.18  Aligned_cols=75  Identities=13%  Similarity=0.103  Sum_probs=67.9

Q ss_pred             cCCccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCCc
Q psy3854          33 KYKKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDCR  112 (222)
Q Consensus        33 ~~~~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~Gr  112 (222)
                      .....+|||+|||+.+++++|+++|++|| |.+|.|+.+. +|+++      |||||+|.+.++|++|+ .||+..|+|+
T Consensus        12 ~~~~~~l~V~nLp~~~te~~l~~~F~~~G-~~~v~i~~d~-~g~~~------G~afV~F~~~~~a~~Al-~~~~~~~~gr   82 (102)
T 1wez_A           12 STTGHCVHMRGLPYRATENDIYNFFSPLN-PMRVHIEIGP-DGRVT------GEADVEFATHEDAVAAM-AKDKANMQHR   82 (102)
T ss_dssp             CSSSCEEEEESCCTTCCHHHHHHSSCSCC-CSEEEEEESS-SSCEE------EEEEEECSSSHHHHHHH-TTSSCCSSSS
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHHcC-ceEEEEEECC-CCCEe------eEEEEEECCHHHHHHHH-HhCCCeECCc
Confidence            34567899999999999999999999999 4599999987 78888      99999999999999999 5899999999


Q ss_pred             cccc
Q psy3854         113 KRSK  116 (222)
Q Consensus       113 k~~~  116 (222)
                      .+..
T Consensus        83 ~i~V   86 (102)
T 1wez_A           83 YVEL   86 (102)
T ss_dssp             CCEE
T ss_pred             EEEE
Confidence            8743

>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=99.68  E-value=8.7e-17  Score=119.76  Aligned_cols=75  Identities=23%  Similarity=0.264  Sum_probs=68.5

Q ss_pred             cCCccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCCc
Q psy3854          33 KYKKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDCR  112 (222)
Q Consensus        33 ~~~~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~Gr  112 (222)
                      .....+|||+|||+.+++++|+++|++||.|.+|.|+.+..+|+++      |||||+|.+.++|..|+.  ++..|.|+
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 VQKTSDLIVLGLPWKTTEQDLKEYFSTFGEVLMVQVKKDLKTGHSK------GFGFVRFTEYETQVKVMS--QRHMIDGR   83 (103)
T ss_dssp             CCCCCCEEEESCCSSCCHHHHHHHHGGGSCEEEEEEEECSSSCSEE------EEEEEEESSHHHHHHHHH--SCEEETTE
T ss_pred             cCCCCEEEEEcCCCcCCHHHHHHHHHhcCCeEEEEEEecCCCCCcc------ceEEEEECCHHHHHHHHH--cCCeeCCe
Confidence            3456789999999999999999999999999999999998889888      999999999999999998  57788998


Q ss_pred             ccc
Q psy3854         113 KRS  115 (222)
Q Consensus       113 k~~  115 (222)
                      .+.
T Consensus        84 ~l~   86 (103)
T 2cqg_A           84 WCD   86 (103)
T ss_dssp             EEE
T ss_pred             EEE
Confidence            863

>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=99.68  E-value=3.7e-17  Score=123.66  Aligned_cols=74  Identities=9%  Similarity=0.091  Sum_probs=69.3

Q ss_pred             CCccEEEEcCCCCCCCHHHHHHHhhcCcc---eeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccC
Q psy3854          34 YKKGIIYLSKVPPHMNVTQLTEFMSRFGE---VGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQID  110 (222)
Q Consensus        34 ~~~g~VYIsnLP~~m~e~~Lr~lFs~fG~---I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~  110 (222)
                      ....+|||+|||+.+++++|+++|+.||.   |.+|.|+.+.. |+++      |||||+|.+.++|..|+. |||..|+
T Consensus         9 ~~~~~l~V~nLp~~~te~~l~~~F~~~g~~~~v~~v~i~~~~~-g~~~------G~afV~F~~~~~a~~Al~-~~~~~~~   80 (107)
T 2lmi_A            9 DDVFLIRAQGLPWSCTMEDVLNFFSDCRIRNGENGIHFLLNRD-GKRR------GDALIEMESEQDVQKALE-KHRMYMG   80 (107)
T ss_dssp             SSCCEEEEECCCSSCCSHHHHHHTTTSCBTTTTTTEECCCCTT-STTC------SEEEEEBSSHHHHHHHHT-TTTCCSS
T ss_pred             CCccEEEEeCCCCCCCHHHHHHHHHhcCCcCCcceEEEEECCC-CCEe------eEEEEEECCHHHHHHHHH-hCcceeC
Confidence            45778999999999999999999999998   89999999877 8888      999999999999999999 9999999


Q ss_pred             Ccccc
Q psy3854         111 CRKRS  115 (222)
Q Consensus       111 Grk~~  115 (222)
                      |+.+.
T Consensus        81 gr~i~   85 (107)
T 2lmi_A           81 QRYVE   85 (107)
T ss_dssp             SSCCC
T ss_pred             CeEEE
Confidence            99874

>3r27_A HnRNP L, heterogeneous nuclear ribonucleoprotein L; RBD fold, protein binding, nucleus; 2.04A {Homo sapiens}

Probab=99.68  E-value=6.9e-17  Score=124.17  Aligned_cols=68  Identities=19%  Similarity=0.255  Sum_probs=62.6

Q ss_pred             CccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCc--cCCc
Q psy3854          35 KKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQ--IDCR  112 (222)
Q Consensus        35 ~~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~--i~Gr  112 (222)
                      ...+|||+|||+.+++++|+++|++||.|.+|.|++      +|      |+|||+|.+.++|..|+..|||.+  |+|+
T Consensus        20 ps~~l~V~NLp~~~te~~L~~lF~~fG~V~~v~i~~------~k------g~AFVef~~~~~A~~Av~~ln~~~~~i~Gr   87 (100)
T 3r27_A           20 ASPVVHIRGLIDGVVEADLVEALQEFGPISYVVVMP------KK------RQALVEFEDVLGACNAVNYAADNQIYIAGH   87 (100)
T ss_dssp             CCSEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEET------TT------TEEEEEESSHHHHHHHHHHHHHSCEEETTE
T ss_pred             CCcEEEEeCCCCCCCHHHHHHHHhccCCEEEEEEEc------CC------CEEEEEECCHHHHHHHHHHhcCCCceeCCc
Confidence            456899999999999999999999999999999975      24      899999999999999999999987  7899


Q ss_pred             cc
Q psy3854         113 KR  114 (222)
Q Consensus       113 k~  114 (222)
                      ++
T Consensus        88 ~i   89 (100)
T 3r27_A           88 PA   89 (100)
T ss_dssp             EE
T ss_pred             EE
Confidence            87

>3md3_A Nuclear and cytoplasmic polyadenylated RNA-bindin PUB1; RRM, RNP, RBD, poly(U) binding, tandem, acetylation, cytopla nucleus; 2.70A {Saccharomyces cerevisiae}

Probab=99.68  E-value=9.9e-17  Score=125.28  Aligned_cols=78  Identities=9%  Similarity=0.123  Sum_probs=72.7

Q ss_pred             ccCCccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCC
Q psy3854          32 KKYKKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDC  111 (222)
Q Consensus        32 k~~~~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~G  111 (222)
                      ......+|||+|||+.+++++|+++|++||.|.+|.++++..+|+++      |+|||+|.+.++|..|+..|||..|+|
T Consensus        83 ~~~~~~~l~v~nl~~~~t~~~l~~~f~~~G~i~~~~i~~~~~~~~~~------g~afV~f~~~~~A~~A~~~l~g~~~~g  156 (166)
T 3md3_A           83 SSDDTFNLFVGDLNVNVDDETLRNAFKDFPSYLSGHVMWDMQTGSSR------GYGFVSFTSQDDAQNAMDSMQGQDLNG  156 (166)
T ss_dssp             CCTTCEEEEEESCCTTCCHHHHHHHHTTSTTEEEEEEEECTTTCCEE------EEEEEEESCHHHHHHHHHHHTTCEETT
T ss_pred             CCCCCceEEECCCCCCCCHHHHHHHHhccCCeeEEEEEecCCCCCcc------eEEEEEeCCHHHHHHHHHHhCCCccCC
Confidence            34456789999999999999999999999999999999998888888      999999999999999999999999999


Q ss_pred             cccc
Q psy3854         112 RKRS  115 (222)
Q Consensus       112 rk~~  115 (222)
                      +++.
T Consensus       157 ~~i~  160 (166)
T 3md3_A          157 RPLR  160 (166)
T ss_dssp             EECE
T ss_pred             cEEE
Confidence            9874

>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=99.68  E-value=6.4e-17  Score=127.20  Aligned_cols=75  Identities=9%  Similarity=0.199  Sum_probs=71.0

Q ss_pred             CccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCCccc
Q psy3854          35 KKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDCRKR  114 (222)
Q Consensus        35 ~~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~Grk~  114 (222)
                      ...+|||+|||+++++++|+++|++||+|.+|.|+++..+|+++      |||||+|.+.++|..|+..|||..++|+++
T Consensus         2 ~~~~l~v~nlp~~~~~~~l~~~f~~~G~i~~v~i~~~~~~~~~~------g~afV~f~~~~~A~~a~~~l~~~~~~g~~l   75 (168)
T 1b7f_A            2 SNTNLIVNYLPQDMTDRELYALFRAIGPINTCRIMRDYKTGYSY------GYAFVDFTSEMDSQRAIKVLNGITVRNKRL   75 (168)
T ss_dssp             CCSEEEEECCCTTCCHHHHHHHHHTTSCEEEEECCEETTTTEEC------SEEEEEESSHHHHHHHHHHHTTCEETTEEC
T ss_pred             CccEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEEEeCCCCccc------eEEEEEECCHHHHHHHHHhcCCCEeCCcEE
Confidence            35789999999999999999999999999999999998888888      999999999999999999999999999987


Q ss_pred             c
Q psy3854         115 S  115 (222)
Q Consensus       115 ~  115 (222)
                      .
T Consensus        76 ~   76 (168)
T 1b7f_A           76 K   76 (168)
T ss_dssp             E
T ss_pred             E
Confidence            4

>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=99.68  E-value=7.3e-17  Score=123.39  Aligned_cols=69  Identities=23%  Similarity=0.341  Sum_probs=63.8

Q ss_pred             CccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCCccc
Q psy3854          35 KKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDCRKR  114 (222)
Q Consensus        35 ~~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~Grk~  114 (222)
                      ...+|||+|||+.+++++|+++|++||.|.+|.|++      ++      |||||+|.+.++|..|+..|||..|.|+.+
T Consensus         9 ~~~~l~V~nLp~~~te~~L~~~F~~~G~i~~v~i~~------~~------g~afV~f~~~~~A~~Ai~~l~g~~~~g~~l   76 (111)
T 1whx_A            9 SKTVILAKNLPAGTLAAEIQETFSRFGSLGRVLLPE------GG------ITAIVEFLEPLEARKAFRHLAYSKFHHVPL   76 (111)
T ss_dssp             EEEEEEEESCCTTCCHHHHHHHHHTTSCEEEEECCS------SS------SCEEEEESCHHHHHHHHHHHTTCBSSSSBC
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEeC------CC------CEEEEEeCCHHHHHHHHHHhCCCEECCeEE
Confidence            456899999999999999999999999999999864      34      899999999999999999999999999987


Q ss_pred             c
Q psy3854         115 S  115 (222)
Q Consensus       115 ~  115 (222)
                      .
T Consensus        77 ~   77 (111)
T 1whx_A           77 Y   77 (111)
T ss_dssp             E
T ss_pred             E
Confidence            4

>2xs2_A Deleted in azoospermia-like; RNA binding protein-RNA complex; 1.35A {Mus musculus} PDB: 2xs7_A 2xs5_A 2xsf_A

Probab=99.68  E-value=2.9e-17  Score=122.18  Aligned_cols=73  Identities=15%  Similarity=0.373  Sum_probs=67.3

Q ss_pred             CCccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCCcc
Q psy3854          34 YKKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDCRK  113 (222)
Q Consensus        34 ~~~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~Grk  113 (222)
                      .....|||+|||+.+++++|+++|++||.|.+|.|+.+. +|+++      |||||+|.+.++|..|+.  ||..|.|+.
T Consensus         7 ~~~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~v~i~~~~-~g~~~------g~afV~f~~~~~a~~Ai~--~~~~~~g~~   77 (102)
T 2xs2_A            7 IMPNTVFVGGIDVRMDETEIRSFFARYGSVKEVKIITDR-TGVSK------GYGFVSFYNDVDVQKIVE--SQINFHGKK   77 (102)
T ss_dssp             EEEEEEEEECCCTTCCHHHHHHHHGGGSCEEEEEEEECT-TSCEE------EEEEEEESSCCCHHHHTT--CCCEETTEE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhCCCeEEEEEEECC-CCCcc------ceEEEEECCHHHHHHHHh--CCCeECCEE
Confidence            356789999999999999999999999999999999998 78888      999999999999999999  888888887


Q ss_pred             cc
Q psy3854         114 RS  115 (222)
Q Consensus       114 ~~  115 (222)
                      +.
T Consensus        78 l~   79 (102)
T 2xs2_A           78 LK   79 (102)
T ss_dssp             CE
T ss_pred             EE
Confidence            63

>2hvz_A Splicing factor, arginine/serine-rich 7; RRM, RNA binding protein; NMR {Homo sapiens}

Probab=99.68  E-value=5.5e-17  Score=120.46  Aligned_cols=68  Identities=13%  Similarity=0.213  Sum_probs=64.1

Q ss_pred             cEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCCcccc
Q psy3854          37 GIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDCRKRS  115 (222)
Q Consensus        37 g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~Grk~~  115 (222)
                      +.|||+|||+.+++++|+++|++||+|.+|.|+.+     ++      |||||+|.+.++|..|+..|||..|.|+.+.
T Consensus         1 ~~l~V~nLp~~~t~~~l~~~F~~~G~i~~v~i~~~-----~~------g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~   68 (101)
T 2hvz_A            1 MKVYVGNLGTGAGKGELERAFSYYGPLRTVWIARN-----PP------GFAFVEFEDPRDAEDAVRGLDGKVICGSRVR   68 (101)
T ss_dssp             CEEEEECCCSSCSHHHHHHHHHHHCCCSEEEEESS-----SS------SEEEEECSSHHHHHHHHHHHHHSCSSSCCCE
T ss_pred             CEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEeeC-----CC------CEEEEEECCHHHHHHHHHHHCCCeECCcEEE
Confidence            47999999999999999999999999999999887     44      9999999999999999999999999999874

>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=99.68  E-value=4.2e-17  Score=123.46  Aligned_cols=75  Identities=17%  Similarity=0.255  Sum_probs=64.9

Q ss_pred             CccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCCccc
Q psy3854          35 KKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDCRKR  114 (222)
Q Consensus        35 ~~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~Grk~  114 (222)
                      ...+|||+|||+.+++++|+++|++||.|.+|.+..+..+|+++      |||||+|.+.++|..|+..|||..|.|+.+
T Consensus        24 ~~~~l~V~nLp~~~t~~~l~~~f~~~G~v~~~~~~~~~~~g~~~------g~afV~f~~~~~a~~Ai~~l~g~~~~g~~l   97 (115)
T 2cpx_A           24 PNKVLYLKNLSPRVTERDLVSLFARFQEKKGPPIQFRMMTGRMR------GQAFITFPNKEIAWQALHLVNGYKLYGKIL   97 (115)
T ss_dssp             CCSEEEEECCCTTCCHHHHHHHTHHHHHSSSSCCEEEEECSSSC------SEEEEECSSHHHHHHHHHHSTTCBCSSCBC
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHHhCCccceEEEEEcCCCccc------eEEEEEECCHHHHHHHHHHhCCCEeCCcEE
Confidence            45789999999999999999999999999544333332367777      999999999999999999999999999987


Q ss_pred             c
Q psy3854         115 S  115 (222)
Q Consensus       115 ~  115 (222)
                      .
T Consensus        98 ~   98 (115)
T 2cpx_A           98 V   98 (115)
T ss_dssp             E
T ss_pred             E
Confidence            4

>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=99.67  E-value=1.8e-16  Score=113.79  Aligned_cols=70  Identities=17%  Similarity=0.359  Sum_probs=64.6

Q ss_pred             CCccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHh-cCCccCCc
Q psy3854          34 YKKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQY-NNTQIDCR  112 (222)
Q Consensus        34 ~~~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~L-Ng~~i~Gr  112 (222)
                      ....+|||+|||+.+++++|+++|++||.|.+|.++++      +      |||||+|.+.++|..|+..| ||..+.|+
T Consensus        10 ~~~~~l~V~~l~~~~t~~~l~~~f~~~G~i~~~~~~~~------k------g~afV~f~~~~~A~~a~~~l~~~~~~~g~   77 (85)
T 2ytc_A           10 KTITTLYVGGLGDTITETDLRNHFYQFGEIRTITVVQR------Q------QCAFIQFATRQAAEVAAEKSFNKLIVNGR   77 (85)
T ss_dssp             SSCCCEEEECCTTTSCHHHHHHHHHTTSCEEEEEEEGG------G------TEEEEEESSHHHHHHHHHTTTTTCEETTE
T ss_pred             CCccEEEEcCCCCCCCHHHHHHHHHhCCCEeEEEEECC------C------CEEEEEECCHHHHHHHHHHhcCCeeECCC
Confidence            35678999999999999999999999999999999863      3      89999999999999999999 99999999


Q ss_pred             ccc
Q psy3854         113 KRS  115 (222)
Q Consensus       113 k~~  115 (222)
                      ++.
T Consensus        78 ~l~   80 (85)
T 2ytc_A           78 RLN   80 (85)
T ss_dssp             ECC
T ss_pred             EEE
Confidence            863

>2la4_A Nuclear and cytoplasmic polyadenylated RNA-bindin PUB1; RRM, RNA recognition, stress granules, nucleus, RNA-binding, transcription; NMR {Saccharomyces cerevisiae}

Probab=99.67  E-value=1.6e-16  Score=117.93  Aligned_cols=70  Identities=16%  Similarity=0.193  Sum_probs=64.5

Q ss_pred             CCccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCCcc
Q psy3854          34 YKKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDCRK  113 (222)
Q Consensus        34 ~~~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~Grk  113 (222)
                      ....+|||+|||+.+++++|+++|++||.|.+|.+.      +++      |||||+|.+.++|..|+..|||..|+|+.
T Consensus        25 ~~~~~l~V~nlp~~~~~~~l~~~f~~~G~i~~~~~~------~~~------g~afV~f~~~~~A~~Ai~~l~g~~~~g~~   92 (101)
T 2la4_A           25 PRVTTAYIGNIPHFATEADLIPLFQNFGFILDFKHY------PEK------GCCFIKYDTHEQAAVCIVALANFPFQGRN   92 (101)
T ss_dssp             SSCCEEEEESCCTTCCHHHHHHHHHTTSCCSEEEEE------TTT------TEEEEECSSHHHHHHHHHHHTTCEETTEE
T ss_pred             CCCCEEEEcCCCcccCHHHHHHHHHhCCCEEEEEEe------cCC------CEEEEEECCHHHHHHHHHHhCCCeECCeE
Confidence            345789999999999999999999999999999997      234      99999999999999999999999999998


Q ss_pred             cc
Q psy3854         114 RS  115 (222)
Q Consensus       114 ~~  115 (222)
                      +.
T Consensus        93 l~   94 (101)
T 2la4_A           93 LR   94 (101)
T ss_dssp             CC
T ss_pred             EE
Confidence            74

>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=99.67  E-value=1e-16  Score=126.83  Aligned_cols=76  Identities=20%  Similarity=0.287  Sum_probs=71.7

Q ss_pred             CCccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCCcc
Q psy3854          34 YKKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDCRK  113 (222)
Q Consensus        34 ~~~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~Grk  113 (222)
                      ....+|||+|||+.+++++|+++|++||.|.+|.++++..+|+++      |+|||+|.+.++|.+|+..|||..|+|++
T Consensus        92 ~~~~~l~v~nlp~~~t~~~l~~~f~~~G~v~~v~i~~~~~~g~~~------g~afV~f~~~~~A~~A~~~l~g~~~~g~~  165 (172)
T 2g4b_A           92 PGAHKLFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSK------GYAFCEYVDINVTDQAIAGLNGMQLGDKK  165 (172)
T ss_dssp             TTTTCEEEECCCTTCCHHHHHHHHHTTSCEEEEEEEECTTTCSEE------EEEEEEESSTTHHHHHHHHHTTCEETTEE
T ss_pred             CCCCEEEEEcCCCcCCHHHHHHHHHhcCCceEEEEEecCCCCCcc------eEEEEEeCCHHHHHHHHHHcCCCEECCeE
Confidence            346889999999999999999999999999999999998888888      99999999999999999999999999998


Q ss_pred             cc
Q psy3854         114 RS  115 (222)
Q Consensus       114 ~~  115 (222)
                      +.
T Consensus       166 l~  167 (172)
T 2g4b_A          166 LL  167 (172)
T ss_dssp             CE
T ss_pred             EE
Confidence            74

>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=99.67  E-value=1.9e-16  Score=116.99  Aligned_cols=70  Identities=13%  Similarity=0.270  Sum_probs=64.2

Q ss_pred             CCccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccC--C
Q psy3854          34 YKKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQID--C  111 (222)
Q Consensus        34 ~~~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~--G  111 (222)
                      ....+|||+|||+.+++++|+++|++||.|.+|.+..+      +      |||||+|.+.++|..|+..|||..|.  |
T Consensus        15 ~~~~~l~V~nlp~~~t~~~l~~~F~~~G~v~~v~~~~~------~------g~afV~f~~~~~A~~A~~~l~g~~~~~~g   82 (97)
T 1why_A           15 NPTTRLWVGGLGPNTSLAALAREFDRFGSIRTIDHVKG------D------SFAYIQYESLDAAQAACAKMRGFPLGGPD   82 (97)
T ss_dssp             CCCSCEEEECCCSSCCHHHHHHHHHTTSCEEEEEECSS------S------CCEEEEESSHHHHHHHHHHHTTCBCSSSS
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEeCC------C------CEEEEEECCHHHHHHHHHHHCCCEeCCCC
Confidence            34578999999999999999999999999999999764      3      89999999999999999999999999  8


Q ss_pred             cccc
Q psy3854         112 RKRS  115 (222)
Q Consensus       112 rk~~  115 (222)
                      +.+.
T Consensus        83 ~~l~   86 (97)
T 1why_A           83 RRLR   86 (97)
T ss_dssp             CBCE
T ss_pred             cEEE
Confidence            8763

>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=99.67  E-value=1.9e-16  Score=117.33  Aligned_cols=71  Identities=14%  Similarity=0.450  Sum_probs=65.3

Q ss_pred             cCCccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCCc
Q psy3854          33 KYKKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDCR  112 (222)
Q Consensus        33 ~~~~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~Gr  112 (222)
                      .....+|||+|||+.+++++|+++|++||+|.+|.|.++      +      |||||+|.+.++|..|+..|||..|.|+
T Consensus        12 ~~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~~~~~------k------g~afV~f~~~~~a~~a~~~l~g~~~~g~   79 (99)
T 2cpj_A           12 FTQRSRLFVGNLPPDITEEEMRKLFEKYGKAGEVFIHKD------K------GFGFIRLETRTLAEIAKVELDNMPLRGK   79 (99)
T ss_dssp             CCCTTEEEEESCCTTCCHHHHHHHTSTTCCCSEEEEETT------T------TEEEEECSSSHHHHHHHHHHTTCCBTTB
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHhhcCCeEEEEEecC------C------CEEEEEECCHHHHHHHHHHhCCCEeCCc
Confidence            345678999999999999999999999999999999754      3      8999999999999999999999999999


Q ss_pred             ccc
Q psy3854         113 KRS  115 (222)
Q Consensus       113 k~~  115 (222)
                      ++.
T Consensus        80 ~l~   82 (99)
T 2cpj_A           80 QLR   82 (99)
T ss_dssp             CCE
T ss_pred             eEE
Confidence            874

>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=99.67  E-value=2.1e-16  Score=120.86  Aligned_cols=69  Identities=19%  Similarity=0.275  Sum_probs=62.6

Q ss_pred             CccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCc--cCCc
Q psy3854          35 KKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQ--IDCR  112 (222)
Q Consensus        35 ~~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~--i~Gr  112 (222)
                      ...+|||+|||+.+++++|+++|++||.|.+|.|+++      |      |||||+|.+.++|..|+..|||..  |.|+
T Consensus        14 p~~~l~V~nLp~~~te~~L~~~F~~fG~V~~v~i~~~------k------g~aFVef~~~~~A~~Ai~~l~~~~~~i~Gr   81 (104)
T 1wex_A           14 VSPVVHVRGLCESVVEADLVEALEKFGTICYVMMMPF------K------RQALVEFENIDSAKECVTFAADVPVYIAGQ   81 (104)
T ss_dssp             CCSEEEEESCCSSCCHHHHHHHHTTTSCEEEEEEETT------T------TEEEEEESSHHHHHHHHHHHHHSCCBSSSS
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhCCCEEEEEEECC------C------CEEEEEECCHHHHHHHHHHhccCCceECCE
Confidence            3468999999999999999999999999999999863      3      899999999999999999998765  8999


Q ss_pred             ccc
Q psy3854         113 KRS  115 (222)
Q Consensus       113 k~~  115 (222)
                      ++.
T Consensus        82 ~l~   84 (104)
T 1wex_A           82 QAF   84 (104)
T ss_dssp             BCE
T ss_pred             EEE
Confidence            874

>2dnq_A RNA-binding protein 4B; RRM domain,RBD, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.67  E-value=2.4e-16  Score=114.92  Aligned_cols=68  Identities=10%  Similarity=0.270  Sum_probs=63.7

Q ss_pred             CCccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCCcc
Q psy3854          34 YKKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDCRK  113 (222)
Q Consensus        34 ~~~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~Grk  113 (222)
                      ....+|||+|||+.+++++|+++|++||+|.+|.|+        +      |||||+|.+.++|..|+..|||..|.|++
T Consensus         6 ~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~~~--------~------g~afV~f~~~~~A~~A~~~l~g~~~~g~~   71 (90)
T 2dnq_A            6 SGMVKLFIGNLPREATEQEIRSLFEQYGKVLECDII--------K------NYGFVHIEDKTAAEDAIRNLHHYKLHGVN   71 (90)
T ss_dssp             SCCEEEEEESCCSSCCHHHHHHHHHTSSCEEEEEEE--------T------TEEEEEESSHHHHHHHHHHHTTCBCSSCB
T ss_pred             CCCeEEEEeCCCCCCCHHHHHHHHHhCCCEEEEEEE--------C------CEEEEEECCHHHHHHHHHHhcCCccCCcE
Confidence            356789999999999999999999999999999997        3      89999999999999999999999999998


Q ss_pred             cc
Q psy3854         114 RS  115 (222)
Q Consensus       114 ~~  115 (222)
                      +.
T Consensus        72 l~   73 (90)
T 2dnq_A           72 IN   73 (90)
T ss_dssp             CE
T ss_pred             EE
Confidence            74

>2jvr_A Nucleolar protein 3; RNA recognition motif, nucleus, phosphorylation, ribonucleoprotein, ribosome biogenesis, RNA-binding; NMR {Saccharomyces cerevisiae} PDB: 2osr_A

Probab=99.67  E-value=7.5e-17  Score=125.11  Aligned_cols=73  Identities=14%  Similarity=0.147  Sum_probs=65.7

Q ss_pred             cCCccEEEEcCCCCCCCHHHHHHHhhcCc-ceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCC
Q psy3854          33 KYKKGIIYLSKVPPHMNVTQLTEFMSRFG-EVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDC  111 (222)
Q Consensus        33 ~~~~g~VYIsnLP~~m~e~~Lr~lFs~fG-~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~G  111 (222)
                      ......|||+|||+++++++|+++|++|| +|..|.|...    +++      |||||+|.+.++|+.|++.|||..|.|
T Consensus        25 p~~~~~l~VgnLp~~~te~dL~~~F~~~G~~v~~v~i~~~----~~r------GfaFV~F~~~e~A~~Ai~~lng~~l~G   94 (111)
T 2jvr_A           25 PAKRYRITMKNLPEGCSWQDLKDLARENSLETTFSSVNTR----DFD------GTGALEFPSEEILVEALERLNNIEFRG   94 (111)
T ss_dssp             CCCCEEEEEECSSCCCCHHHHHHHHHHHTCCCSEEECSSC----SSS------CCEEEEESSHHHHHHHHHHTTTEEETT
T ss_pred             CCCCCEEEEECCCCCCCHHHHHHHHHHhCCeeEEEEEEcC----CCC------CEEEEEECCHHHHHHHHHHcCCCEECC
Confidence            34567899999999999999999999999 9999998642    355      999999999999999999999999999


Q ss_pred             cccc
Q psy3854         112 RKRS  115 (222)
Q Consensus       112 rk~~  115 (222)
                      +.+.
T Consensus        95 r~i~   98 (111)
T 2jvr_A           95 SVIT   98 (111)
T ss_dssp             EEEE
T ss_pred             eEEE
Confidence            9874

>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=99.67  E-value=1.9e-16  Score=125.65  Aligned_cols=73  Identities=12%  Similarity=0.181  Sum_probs=67.3

Q ss_pred             ccCCccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCC
Q psy3854          32 KKYKKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDC  111 (222)
Q Consensus        32 k~~~~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~G  111 (222)
                      ......+|||+|||+.+++++|+++|++||.|.+|.|+.+     ++      |||||+|.+.++|..|+..|||..|+|
T Consensus        69 ~~~~~~~l~V~nl~~~~t~~~l~~~F~~~G~i~~v~i~~~-----~~------g~afV~f~~~~~a~~A~~~l~g~~~~g  137 (150)
T 2i2y_A           69 SCPLDCKVYVGNLGNNGNKTELERAFGYYGPLRSVWVARN-----PP------GFAFVEFEDPRDAADAVRELDGRTLCG  137 (150)
T ss_dssp             SSTTSCEEEEESCCSCCSCHHHHHHHHHHSCEEEEEECSS-----SC------SEEEEEESSHHHHHHHHHHHSSSCSSS
T ss_pred             CCCCCCEEEEeCCCCCCCHHHHHHHHHhhCCEEEEEEeeC-----CC------cEEEEEECCHHHHHHHHHHcCCCEECC
Confidence            4456789999999999999999999999999999999886     34      999999999999999999999999999


Q ss_pred             cccc
Q psy3854         112 RKRS  115 (222)
Q Consensus       112 rk~~  115 (222)
                      +++.
T Consensus       138 ~~l~  141 (150)
T 2i2y_A          138 CRVR  141 (150)
T ss_dssp             SCCE
T ss_pred             eEEE
Confidence            9874

>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=99.66  E-value=1.8e-16  Score=119.53  Aligned_cols=72  Identities=17%  Similarity=0.302  Sum_probs=66.7

Q ss_pred             ccCCccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCC
Q psy3854          32 KKYKKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDC  111 (222)
Q Consensus        32 k~~~~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~G  111 (222)
                      ......+|||+|||+.+++++|+++|++||.|.+|.|+++      +      |||||+|.+.++|..|+..|||..|+|
T Consensus        21 ~~~~~~~l~V~nl~~~~t~~~l~~~F~~~G~i~~v~i~~~------~------g~afV~f~~~~~a~~A~~~l~g~~~~g   88 (109)
T 1x4g_A           21 SSPKNCTVYCGGIASGLTDQLMRQTFSPFGQIMEIRVFPE------K------GYSFVRFSTHESAAHAIVSVNGTTIEG   88 (109)
T ss_dssp             SCSSCCEEEEECCSSCCCHHHHHHHHHHHSCEEEEEEETT------T------TEEEEEESSHHHHHHHHHHHTTCEETT
T ss_pred             CCCCCcEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEeCC------C------CEEEEEECCHHHHHHHHHHcCCCEECC
Confidence            4456778999999999999999999999999999999876      3      899999999999999999999999999


Q ss_pred             cccc
Q psy3854         112 RKRS  115 (222)
Q Consensus       112 rk~~  115 (222)
                      +.+.
T Consensus        89 ~~l~   92 (109)
T 1x4g_A           89 HVVK   92 (109)
T ss_dssp             EECE
T ss_pred             cEEE
Confidence            9874

>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=99.66  E-value=3.2e-16  Score=119.39  Aligned_cols=69  Identities=14%  Similarity=0.334  Sum_probs=62.4

Q ss_pred             CccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhc--CCccCCc
Q psy3854          35 KKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYN--NTQIDCR  112 (222)
Q Consensus        35 ~~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LN--g~~i~Gr  112 (222)
                      ...+|||+|||+.+++++|+++|++||.|.+|.|+++      |      |||||+|.+.++|..|+..||  +..|.|+
T Consensus        14 p~~~l~V~nLp~~~te~~L~~~F~~fG~v~~v~i~~~------k------g~aFVef~~~~~A~~Ai~~l~~~~~~~~Gr   81 (101)
T 2cq1_A           14 PSRVLHIRKLPGEVTETEVIALGLPFGKVTNILMLKG------K------NQAFLELATEEAAITMVNYYSAVTPHLRNQ   81 (101)
T ss_dssp             CCSEEEEESCCTTCCHHHHHHTTTTTSCEEEEEEETT------T------TEEEEEESSHHHHHHHHHHHHHSCCEETTE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEECC------C------CEEEEEECCHHHHHHHHHHhccCCceECCc
Confidence            3468999999999999999999999999999999864      3      899999999999999999875  6779999


Q ss_pred             ccc
Q psy3854         113 KRS  115 (222)
Q Consensus       113 k~~  115 (222)
                      ++.
T Consensus        82 ~l~   84 (101)
T 2cq1_A           82 PIY   84 (101)
T ss_dssp             ECE
T ss_pred             EEE
Confidence            874

>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=99.66  E-value=5.4e-17  Score=119.18  Aligned_cols=72  Identities=13%  Similarity=0.234  Sum_probs=66.0

Q ss_pred             CccEEEEcCCCCCCCHHHHH----HHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccC
Q psy3854          35 KKGIIYLSKVPPHMNVTQLT----EFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQID  110 (222)
Q Consensus        35 ~~g~VYIsnLP~~m~e~~Lr----~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~  110 (222)
                      ...+|||+|||+.+++++|+    ++|++||.|.+|.+..   +|+++      |||||+|.+.++|..|+..|||..|+
T Consensus         7 ~~~~l~V~nLp~~~~~~~l~~~l~~~f~~~G~i~~v~i~~---~~~~~------g~afV~f~~~~~A~~A~~~l~g~~~~   77 (97)
T 1nu4_A            7 PNHTIYINNLNEKIKKDELKKSLHAIFSRFGQILDILVSR---SLKMR------GQAFVIFKEVSSATNALRSMQGFPFY   77 (97)
T ss_dssp             CCSEEEEESCCTTSCHHHHHHHHHHHHGGGSCEEEEECCH---HHHHT------TCEEEEESSHHHHHHHHHHHTTCEET
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHHHHHhCCCEEEEEEEc---CCCcC------cEEEEEeCCHHHHHHHHHHhCCCEEC
Confidence            45789999999999999999    9999999999999874   36666      99999999999999999999999999


Q ss_pred             Ccccc
Q psy3854         111 CRKRS  115 (222)
Q Consensus       111 Grk~~  115 (222)
                      |+.+.
T Consensus        78 g~~l~   82 (97)
T 1nu4_A           78 DKPMR   82 (97)
T ss_dssp             TEECE
T ss_pred             CcEEE
Confidence            99874

>2db1_A Heterogeneous nuclear ribonucleoprotein F; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Mus musculus}

Probab=99.66  E-value=8e-17  Score=124.37  Aligned_cols=73  Identities=14%  Similarity=0.196  Sum_probs=68.7

Q ss_pred             CccEEEEcCCCCCCCHHHHHHHhhcCcc---eeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCC
Q psy3854          35 KKGIIYLSKVPPHMNVTQLTEFMSRFGE---VGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDC  111 (222)
Q Consensus        35 ~~g~VYIsnLP~~m~e~~Lr~lFs~fG~---I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~G  111 (222)
                      ...+|||+|||+.+++++|+++|++||.   |.+|.|+.+.. |+++      |||||+|.+.++|+.|+. |||..|+|
T Consensus        16 ~~~~l~V~nLp~~~te~~l~~~F~~~G~~~~v~~v~i~~~~~-g~~~------G~afV~F~~~~~a~~Al~-~~g~~~~g   87 (118)
T 2db1_A           16 EGYVVKLRGLPWSCSIEDVQNFLSDCTIHDGVAGVHFIYTRE-GRQS------GEAFVELESEDDVKLALK-KDRESMGH   87 (118)
T ss_dssp             CCCEEEEESCCTTCCHHHHHHHTTTSCBTTGGGGEEEEECSS-SCEE------EEEEEEBSSHHHHHHHGG-GTTEEETT
T ss_pred             CCcEEEEeCCCCCCCHHHHHHHHHHcCCccCceeEEEEECCC-CCCC------eEEEEEECCHHHHHHHHh-cCCCeECC
Confidence            5678999999999999999999999999   89999999877 8888      999999999999999999 99999999


Q ss_pred             cccc
Q psy3854         112 RKRS  115 (222)
Q Consensus       112 rk~~  115 (222)
                      +.+.
T Consensus        88 r~i~   91 (118)
T 2db1_A           88 RYIE   91 (118)
T ss_dssp             EEEE
T ss_pred             eEEE
Confidence            9874

>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=99.66  E-value=1.9e-16  Score=124.94  Aligned_cols=69  Identities=16%  Similarity=0.307  Sum_probs=63.3

Q ss_pred             CccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcC--CccCCc
Q psy3854          35 KKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNN--TQIDCR  112 (222)
Q Consensus        35 ~~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg--~~i~Gr  112 (222)
                      ...+|||+|||+++++++|+++|++||.|.+|.|+++      |      |||||+|.+.++|..|+..||+  ..|.|+
T Consensus        30 ps~~LfVgNLp~~vte~dL~~lF~~fG~V~~v~i~~~------k------G~AFVeF~~~e~A~~Ai~~l~~~~~~l~Gr   97 (119)
T 2ad9_A           30 PSRVIHIRKLPIDVTEGEVISLGLPFGKVTNLLMLKG------K------NQAFIEMNTEEAANTMVNYYTSVTPVLRGQ   97 (119)
T ss_dssp             CCSEEEEESCCTTCCHHHHHHHHTTTSCCCEEEEEGG------G------TEEEEECSCHHHHHHHHHHHHHHCCCBTTB
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEeCC------C------CEEEEEECCHHHHHHHHHHhccCCceECCe
Confidence            4568999999999999999999999999999999875      3      8999999999999999999985  689999


Q ss_pred             ccc
Q psy3854         113 KRS  115 (222)
Q Consensus       113 k~~  115 (222)
                      ++.
T Consensus        98 ~l~  100 (119)
T 2ad9_A           98 PIY  100 (119)
T ss_dssp             CCE
T ss_pred             EEE
Confidence            874

>2dgt_A RNA-binding protein 30; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.66  E-value=2.4e-16  Score=115.30  Aligned_cols=70  Identities=10%  Similarity=0.188  Sum_probs=64.5

Q ss_pred             ccCCccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCC
Q psy3854          32 KKYKKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDC  111 (222)
Q Consensus        32 k~~~~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~G  111 (222)
                      ......+|||+|||+.+++++|+++|++||.|.+|.+++              +||||+|.+.++|..|+..|||..|.|
T Consensus         6 ~~~~~~~l~V~nLp~~~t~~~l~~~F~~~G~v~~v~~~~--------------~~afV~f~~~~~a~~A~~~l~g~~~~g   71 (92)
T 2dgt_A            6 SGKASTKLHVGNISPTCTNQELRAKFEEYGPVIECDIVK--------------DYAFVHMERAEDAVEAIRGLDNTEFQG   71 (92)
T ss_dssp             CCCSSEEEEEESCCSSCCHHHHHHHHHTTSCCCEEEECS--------------SEEEEEESCHHHHHHHHHHHTTEEETT
T ss_pred             CCCCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEC--------------CEEEEEECCHHHHHHHHHHhCCCeeCC
Confidence            344678899999999999999999999999999999962              699999999999999999999999999


Q ss_pred             cccc
Q psy3854         112 RKRS  115 (222)
Q Consensus       112 rk~~  115 (222)
                      +.+.
T Consensus        72 ~~l~   75 (92)
T 2dgt_A           72 KRMH   75 (92)
T ss_dssp             EEEE
T ss_pred             cEEE
Confidence            9874

>2cpd_A Apobec-1 stimulating protein; RNA recognition motif, RRM, RNP, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.66  E-value=3.8e-16  Score=115.74  Aligned_cols=70  Identities=14%  Similarity=0.218  Sum_probs=63.8

Q ss_pred             ccCCccEEEEcCCCCCCCHHHHHHHhhcC--cceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCcc
Q psy3854          32 KKYKKGIIYLSKVPPHMNVTQLTEFMSRF--GEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQI  109 (222)
Q Consensus        32 k~~~~g~VYIsnLP~~m~e~~Lr~lFs~f--G~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i  109 (222)
                      ......+|||+|||+.+++++|+++|++|  |.|.+|.+.        +      |||||+|.+.++|..|+..|||..|
T Consensus        11 ~~~~~~~l~V~nLp~~~t~~~l~~~F~~~g~g~v~~~~~~--------~------g~afV~f~~~~~A~~A~~~l~g~~~   76 (99)
T 2cpd_A           11 TMSSVKILYVRNLMLSTSEEMIEKEFNNIKPGAVERVKKI--------R------DYAFVHFSNREDAVEAMKALNGKVL   76 (99)
T ss_dssp             CSSCCCEEEEESCCTTCCHHHHHHHHHTTSTTCEEEEEEC--------S------SEEEEEESSHHHHHHHHHHHSSEEE
T ss_pred             ccCCcCEEEEeCCCCCCCHHHHHHHHHhcCCcceEEEEEe--------C------CeEEEEeCCHHHHHHHHHHhCCCEe
Confidence            34456789999999999999999999999  999999874        2      8999999999999999999999999


Q ss_pred             CCcccc
Q psy3854         110 DCRKRS  115 (222)
Q Consensus       110 ~Grk~~  115 (222)
                      .|+++.
T Consensus        77 ~g~~l~   82 (99)
T 2cpd_A           77 DGSPIE   82 (99)
T ss_dssp             TTEEEE
T ss_pred             CCcEEE
Confidence            999874

>2e5j_A Methenyltetrahydrofolate synthetase domain containing; RRM domain, RBD, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=99.66  E-value=3.9e-16  Score=115.46  Aligned_cols=72  Identities=14%  Similarity=0.274  Sum_probs=63.8

Q ss_pred             cCCccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCCc
Q psy3854          33 KYKKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDCR  112 (222)
Q Consensus        33 ~~~~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~Gr  112 (222)
                      .....+|||+|||+.+++++|+++|++||.|. +.++.    ++++      |||||+|.+.++|..|+..|||..|+|+
T Consensus        16 ~~~~~~l~V~nL~~~~t~~~l~~~F~~~G~v~-~~~~~----~~~~------g~afV~f~~~~~a~~A~~~l~g~~~~g~   84 (97)
T 2e5j_A           16 APLAADVYVGNLPRDARVSDLKRALRELGSVP-LRLTW----QGPR------RRAFLHYPDSAAAQQAVSCLQGLRLGTD   84 (97)
T ss_dssp             SCCCCEEEEECCCTTCCHHHHHHHHHHTTCCC-SEEEE----ETTT------TEEEEECSSHHHHHHHHHHHTTCCSSSS
T ss_pred             CCCCCEEEEeCCCCcCcHHHHHHHHHhcCCEE-EEEEc----CCCC------cEEEEEECCHHHHHHHHHHhCCCEECCc
Confidence            34567999999999999999999999999997 66664    3455      9999999999999999999999999999


Q ss_pred             ccc
Q psy3854         113 KRS  115 (222)
Q Consensus       113 k~~  115 (222)
                      ++.
T Consensus        85 ~l~   87 (97)
T 2e5j_A           85 TLR   87 (97)
T ss_dssp             CCE
T ss_pred             EEE
Confidence            874

>2fc9_A NCL protein; structure genomics, RRM_1 domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.66  E-value=2.2e-16  Score=117.14  Aligned_cols=72  Identities=18%  Similarity=0.172  Sum_probs=64.8

Q ss_pred             CCccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCCcc
Q psy3854          34 YKKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDCRK  113 (222)
Q Consensus        34 ~~~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~Grk  113 (222)
                      ....+|||+|||+.+++++|+++|++||.|   .++.+ .+++++      |||||+|.+.++|..|+..|||..|.|+.
T Consensus        13 ~~~~~l~V~nLp~~~t~~~l~~~F~~~g~v---~~~~~-~~g~~~------g~afV~f~~~~~A~~A~~~l~g~~~~g~~   82 (101)
T 2fc9_A           13 GESKTLVLSNLSYSATEETLQEVFEKATFI---KVPQN-QNGKSK------GYAFIEFASFEDAKEALNSCNKREIEGRA   82 (101)
T ss_dssp             CCCSEEEEESCCTTCCHHHHHHHCSSCSEE---ECCBC-SSSCBC------SEEEEECSSHHHHHHHHHHTSSEEETTEE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhCCEE---EEEEC-CCCCEe------eEEEEEECCHHHHHHHHHHhCCCEeCCeE
Confidence            356889999999999999999999999987   55555 567777      99999999999999999999999999998


Q ss_pred             cc
Q psy3854         114 RS  115 (222)
Q Consensus       114 ~~  115 (222)
                      +.
T Consensus        83 l~   84 (101)
T 2fc9_A           83 IR   84 (101)
T ss_dssp             EE
T ss_pred             EE
Confidence            74

>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=99.66  E-value=2.1e-16  Score=123.43  Aligned_cols=69  Identities=17%  Similarity=0.246  Sum_probs=62.1

Q ss_pred             CccEEEEcCCCCC-CCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcC--CccCC
Q psy3854          35 KKGIIYLSKVPPH-MNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNN--TQIDC  111 (222)
Q Consensus        35 ~~g~VYIsnLP~~-m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg--~~i~G  111 (222)
                      ...+|||+|||++ +++++|+++|++||+|.+|.|++      +|      |||||+|.+.++|..|+..||+  ..|.|
T Consensus        24 p~~~l~V~NLp~~~~te~~L~~lF~~fG~V~~v~i~~------~k------g~aFVef~~~~~A~~Ai~~l~~~~~~l~G   91 (112)
T 1x4f_A           24 LGRVIHLSNLPHSGYSDSAVLKLAEPYGKIKNYILMR------MK------SQAFIEMETREDAMAMVDHCLKKALWFQG   91 (112)
T ss_dssp             CCCEEEEESCCCSSCCSHHHHTTTTTTSCCSEEEEET------TT------TEEEEECSSHHHHHHHHHHHHHSCCCSSS
T ss_pred             CCCEEEEeCCCCccCCHHHHHHHHHhcCCEEEEEEec------CC------CEEEEEECCHHHHHHHHHHhccCCceECC
Confidence            4668999999998 99999999999999999999974      34      9999999999999999999975  45999


Q ss_pred             cccc
Q psy3854         112 RKRS  115 (222)
Q Consensus       112 rk~~  115 (222)
                      +++.
T Consensus        92 r~l~   95 (112)
T 1x4f_A           92 RCVK   95 (112)
T ss_dssp             SCCE
T ss_pred             EEEE
Confidence            9874

>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=99.66  E-value=7.5e-17  Score=129.20  Aligned_cols=74  Identities=14%  Similarity=0.152  Sum_probs=69.5

Q ss_pred             CCccEEEEcCCCCCCCHHHHHHHhhcCcc---eeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccC
Q psy3854          34 YKKGIIYLSKVPPHMNVTQLTEFMSRFGE---VGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQID  110 (222)
Q Consensus        34 ~~~g~VYIsnLP~~m~e~~Lr~lFs~fG~---I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~  110 (222)
                      ....+|||+|||+.+++++|+++|++||.   |.+|.|+.+.. |+++      |||||+|.+.++|++|+. |||..|+
T Consensus        42 ~~~~~lfVgnLp~~~te~dL~~~F~~~G~v~~v~~v~i~~d~~-g~sr------G~aFV~F~~~e~a~~Al~-~~g~~l~  113 (136)
T 2hgl_A           42 GEGFVVKLRGLPWSCSVEDVQNFLSDCTIHDGAAGVHFIYTRE-GRQS------GEAFVELGSEDDVKMALK-KDRESMG  113 (136)
T ss_dssp             CTTCEEEEESCCTTCCHHHHHHHTTTCCCSSSSTTEEEEECSS-SCEE------EEEEEECSSHHHHHHHHT-TTEEESS
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHHhCCcCceeEEEEEECCC-CCCC------eEEEEEECCHHHHHHHHh-cCCCEEC
Confidence            35678999999999999999999999999   89999999887 8888      999999999999999999 9999999


Q ss_pred             Ccccc
Q psy3854         111 CRKRS  115 (222)
Q Consensus       111 Grk~~  115 (222)
                      |+.+.
T Consensus       114 gr~i~  118 (136)
T 2hgl_A          114 HRYIE  118 (136)
T ss_dssp             SSEEE
T ss_pred             CEEEE
Confidence            99874

>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=99.66  E-value=3.2e-16  Score=116.92  Aligned_cols=70  Identities=13%  Similarity=0.246  Sum_probs=64.0

Q ss_pred             ccCCccEEEEcCCCC-CCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccC
Q psy3854          32 KKYKKGIIYLSKVPP-HMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQID  110 (222)
Q Consensus        32 k~~~~g~VYIsnLP~-~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~  110 (222)
                      ......+|||+|||+ .+++++|+++|++||.|.+|.|.        +      |||||+|.+.++|..|+..|||..++
T Consensus        18 ~~~~~~~l~V~nLp~~~~t~~~L~~~F~~~G~v~~v~i~--------~------g~afV~f~~~~~A~~Ai~~l~g~~~~   83 (97)
T 2xnq_A           18 GSHMKSRLFIGNLPLKNVSKEDLFRIFSPYGHIMQINIK--------N------AFGFIQFDNPQSVRDAIEXESQEMNF   83 (97)
T ss_dssp             -CCTTCEEEEESCCSSCCCHHHHHHHHGGGSCEEEEEEC--------S------SEEEEEESSHHHHHHHHHHHTTSEET
T ss_pred             CCCCCCEEEEeCCCcccCCHHHHHHHHHhcCCEEEEEEe--------C------CEEEEEECCHHHHHHHHHHcCCCEEC
Confidence            444678899999998 99999999999999999999993        3      89999999999999999999999999


Q ss_pred             Ccccc
Q psy3854         111 CRKRS  115 (222)
Q Consensus       111 Grk~~  115 (222)
                      |+++.
T Consensus        84 g~~l~   88 (97)
T 2xnq_A           84 GKKLI   88 (97)
T ss_dssp             TEECE
T ss_pred             CEEEE
Confidence            99874

>2e44_A Insulin-like growth factor 2 mRNA binding protein 3; RRM domain, RBD, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=99.66  E-value=2e-16  Score=116.13  Aligned_cols=72  Identities=15%  Similarity=0.260  Sum_probs=65.0

Q ss_pred             CCccEEEEcCCCCCCCHHHHHHHhhcCcceeEE-EEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCCc
Q psy3854          34 YKKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRV-YLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDCR  112 (222)
Q Consensus        34 ~~~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv-~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~Gr  112 (222)
                      ....+|||+|||+.+++++|+++|++||.|.+| .|+.+..+          |.|||+|.+.++|..|+..|||..|+|+
T Consensus        13 ~~~~~l~V~nlp~~~t~~~l~~~F~~~G~v~~~~~i~~~~~~----------~~afV~f~~~~~a~~Ai~~l~g~~~~g~   82 (96)
T 2e44_A           13 QRIRKLQIRNIPPHLQWEVLDSLLVQYGVVESCEQVNTDSET----------AVVNVTYSSKDQARQALDKLNGFQLENF   82 (96)
T ss_dssp             CSCCCEEEEEECSSSCHHHHHHHHHHHSCEEEEEEECCSSSS----------EEEEEEESSHHHHHHHHHHHTTCBCSSC
T ss_pred             CCCCEEEEEcCCCCCCHHHHHHHHHhcCCeEEEEEeecCCCC----------CEEEEEECCHHHHHHHHHHhCCCEECCc
Confidence            356789999999999999999999999999999 58777553          4599999999999999999999999999


Q ss_pred             ccc
Q psy3854         113 KRS  115 (222)
Q Consensus       113 k~~  115 (222)
                      ++.
T Consensus        83 ~l~   85 (96)
T 2e44_A           83 TLK   85 (96)
T ss_dssp             BCE
T ss_pred             EEE
Confidence            874

>2dnp_A RNA-binding protein 14; RRM domain, RBD, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.66  E-value=2e-16  Score=115.38  Aligned_cols=69  Identities=17%  Similarity=0.235  Sum_probs=64.0

Q ss_pred             cCCccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCCc
Q psy3854          33 KYKKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDCR  112 (222)
Q Consensus        33 ~~~~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~Gr  112 (222)
                      .....+|||+|||+.+++++|+++|++||.|.+|.|++              +||||+|.+.++|..|+..|||..|.|+
T Consensus         6 ~~~~~~l~V~nlp~~~t~~~l~~~F~~~G~v~~~~~~~--------------~~afV~f~~~~~a~~A~~~l~g~~~~g~   71 (90)
T 2dnp_A            6 SGNTWKIFVGNVSAACTSQELRSLFERRGRVIECDVVK--------------DYAFVHMEKEADAKAAIAQLNGKEVKGK   71 (90)
T ss_dssp             SCCSCCEEEESCCTTCCHHHHHHHHHHHSCEEEEEECS--------------SCEEEEESCHHHHHHHHHHHTTCEETTE
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHcCCCEEEEEEEC--------------CEEEEEECCHHHHHHHHHHhCCCEECCc
Confidence            34567899999999999999999999999999999973              6999999999999999999999999999


Q ss_pred             ccc
Q psy3854         113 KRS  115 (222)
Q Consensus       113 k~~  115 (222)
                      ++.
T Consensus        72 ~l~   74 (90)
T 2dnp_A           72 RIN   74 (90)
T ss_dssp             ECE
T ss_pred             EEE
Confidence            874

>2dnn_A RNA-binding protein 12; RRM domain, RBD, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.66  E-value=2.1e-16  Score=122.01  Aligned_cols=72  Identities=14%  Similarity=0.176  Sum_probs=67.1

Q ss_pred             CccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCCccc
Q psy3854          35 KKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDCRKR  114 (222)
Q Consensus        35 ~~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~Grk~  114 (222)
                      ...+|||+|||+.+++++|+++|++| .|.+|.|+.+.. |+++      |||||+|.+.++|.+|+ .|||..|+||.+
T Consensus        15 ~~~~v~V~nLp~~~te~dl~~~F~~~-~v~~v~i~~d~~-g~~~------G~afV~F~~~~~a~~Al-~~~~~~~~gr~i   85 (109)
T 2dnn_A           15 DDLYVSVHGMPFSAMENDVRDFFHGL-RVDAVHLLKDHV-GRNN------GNGLVKFLSPQDTFEAL-KRNRMLMIQRYV   85 (109)
T ss_dssp             HHHEEEEECCCSSCCHHHHHHHTTTS-CCCEEEECCCTT-CCCC------SEEEEECSSHHHHHHHH-HTTTEEETTEEE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHhccC-CeeEEEEEECCC-CCCC------eEEEEEECCHHHHHHHH-hcCCCeECCeEE
Confidence            35689999999999999999999999 899999999876 8888      99999999999999999 799999999987


Q ss_pred             c
Q psy3854         115 S  115 (222)
Q Consensus       115 ~  115 (222)
                      .
T Consensus        86 ~   86 (109)
T 2dnn_A           86 E   86 (109)
T ss_dssp             E
T ss_pred             E
Confidence            4

>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=99.65  E-value=3.7e-16  Score=122.16  Aligned_cols=75  Identities=17%  Similarity=0.317  Sum_probs=70.6

Q ss_pred             CCccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCCcc
Q psy3854          34 YKKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDCRK  113 (222)
Q Consensus        34 ~~~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~Grk  113 (222)
                      .....|||+|||+.+++++|+++|++||.|.+|.++++..+|+++      |+|||+|.+.++|..|+..|||..++|+.
T Consensus        86 ~~~~~l~v~nl~~~~t~~~l~~~f~~~G~i~~~~i~~~~~~g~~~------g~afV~f~~~~~A~~A~~~l~g~~~~g~~  159 (167)
T 1fxl_A           86 IRDANLYVSGLPKTMTQKELEQLFSQYGRIITSRILVDQVTGVSR------GVGFIRFDKRIEAEEAIKGLNGQKPSGAT  159 (167)
T ss_dssp             GTTCEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEECTTTCCEE------EEEEEEESSHHHHHHHHHHHTTCCCTTCS
T ss_pred             CCCCcEEECCCCCcCCHHHHHHHHHhcCCEeEEEEEecCCCCCcc------ceEEEEeCCHHHHHHHHHHhcCCccCCCc
Confidence            356789999999999999999999999999999999998888888      99999999999999999999999999987


Q ss_pred             c
Q psy3854         114 R  114 (222)
Q Consensus       114 ~  114 (222)
                      +
T Consensus       160 ~  160 (167)
T 1fxl_A          160 E  160 (167)
T ss_dssp             S
T ss_pred             c
Confidence            4

>2qfj_A FBP-interacting repressor; protein-DNA complex; HET: DNA; 2.10A {Homo sapiens} PDB: 3uwt_A 2kxf_A 2kxh_A

Probab=99.65  E-value=3.3e-16  Score=128.11  Aligned_cols=75  Identities=12%  Similarity=0.176  Sum_probs=68.5

Q ss_pred             CccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCCccc
Q psy3854          35 KKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDCRKR  114 (222)
Q Consensus        35 ~~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~Grk~  114 (222)
                      ...+|||+|||+++++++|+++|++||+|.+|.|+++..+|+++      |||||+|.+.++|..|++.|||..|+|+.+
T Consensus        27 ~~~~l~V~nLp~~~t~~~l~~~f~~~G~i~~v~i~~~~~~g~~~------g~afV~f~~~~~A~~A~~~l~~~~~~g~~l  100 (216)
T 2qfj_A           27 IMSRVYVGSIYYELGEDTIRQAFAPFGPIKSIDMSWDSVTMKHK------GFAFVEYEVPEAAQLALEQMNSVMLGGRNI  100 (216)
T ss_dssp             HHTEEEEECCCTTCCHHHHHHHHGGGSCEEEEEECCC-CC-CCC------SEEEEEESSHHHHHHHHHHHSSCCCC-CCC
T ss_pred             cCCEEEEECCCCCCCHHHHHHHHHhCCCEEEEEEeecCCCCccC------ceEEEEeCCHHHHHHHHHHccCCeeCCeeE
Confidence            45789999999999999999999999999999999998888888      999999999999999999999999999987


Q ss_pred             c
Q psy3854         115 S  115 (222)
Q Consensus       115 ~  115 (222)
                      .
T Consensus       101 ~  101 (216)
T 2qfj_A          101 K  101 (216)
T ss_dssp             E
T ss_pred             E
Confidence            4

>2qfj_A FBP-interacting repressor; protein-DNA complex; HET: DNA; 2.10A {Homo sapiens} PDB: 3uwt_A 2kxf_A 2kxh_A

Probab=99.65  E-value=3.7e-16  Score=127.80  Aligned_cols=76  Identities=16%  Similarity=0.246  Sum_probs=71.9

Q ss_pred             CCccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCCcc
Q psy3854          34 YKKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDCRK  113 (222)
Q Consensus        34 ~~~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~Grk  113 (222)
                      ....+|||+|||+.+++++|+++|++||.|.+|.|..+..+|+++      |||||+|.+.++|.+|+..|||..|+|+.
T Consensus       123 ~~~~~l~v~nlp~~~t~~~l~~~f~~~G~v~~v~i~~~~~~g~~~------g~afV~F~~~~~A~~A~~~l~g~~~~g~~  196 (216)
T 2qfj_A          123 RAFNRIYVASVHQDLSDDDIKSVFEAFGKIKSATLARDPTTGKHK------GYGFIEYEKAQSSQDAVSSMNLFDLGGQY  196 (216)
T ss_dssp             TTSCEEEEECCCTTCCHHHHHHHHTTSSCEEEEEEEECTTTCCEE------EEEEEEESSHHHHHHHHHHHTTCBCSSSB
T ss_pred             CCCcEEEEeCCCCcCCHHHHHHHHhccCCeeEEEEEecCCCCCcC------ceEEEEecCHHHHHHHHHHccCCEeCCcE
Confidence            455799999999999999999999999999999999998888888      99999999999999999999999999999


Q ss_pred             cc
Q psy3854         114 RS  115 (222)
Q Consensus       114 ~~  115 (222)
                      +.
T Consensus       197 i~  198 (216)
T 2qfj_A          197 LR  198 (216)
T ss_dssp             CE
T ss_pred             EE
Confidence            74

>2lcw_A RNA-binding protein FUS; RRM, nucleic acid binding protein; NMR {Homo sapiens}

Probab=99.47  E-value=8.6e-18  Score=128.19  Aligned_cols=76  Identities=11%  Similarity=0.242  Sum_probs=70.9

Q ss_pred             CCccEEEEcCCCCCCCHHHHHHHhhcCcceeE--------EEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhc
Q psy3854          34 YKKGIIYLSKVPPHMNVTQLTEFMSRFGEVGR--------VYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYN  105 (222)
Q Consensus        34 ~~~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~r--------v~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LN  105 (222)
                      ....+|||+|||+.+++++|+++|++||.|.+        |.|+.+..+|+++      |||||+|.+.++|..|+..||
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 SDNNTIFVQGLGENVTIESVADYFKQIGIIKTNKKTGQPMINLYTDRETGKLK------GEATVSFDDPPSAKAAIDWFD   78 (116)
Confidence            34678999999999999999999999999999        9999998888888      999999999999999999999


Q ss_pred             CCccCCcccc
Q psy3854         106 NTQIDCRKRS  115 (222)
Q Consensus       106 g~~i~Grk~~  115 (222)
                      |..|.|+++.
T Consensus        79 g~~~~g~~l~   88 (116)
T 2lcw_A           79 GKEFSGNPIK   88 (116)
Confidence            9999999863

>2kvi_A Nuclear polyadenylated RNA-binding protein 3; RNA-binding motif, RRM, transcription termination, NUC phosphoprotein; NMR {Saccharomyces cerevisiae}

Probab=99.65  E-value=4e-16  Score=115.41  Aligned_cols=68  Identities=13%  Similarity=0.246  Sum_probs=63.0

Q ss_pred             CCccEEEEcCCCC-CCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCCc
Q psy3854          34 YKKGIIYLSKVPP-HMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDCR  112 (222)
Q Consensus        34 ~~~g~VYIsnLP~-~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~Gr  112 (222)
                      ....+|||+|||+ .+++++|+++|++||.|.+|.|.        +      |||||+|.+.++|..|+..|||..+.|+
T Consensus         8 ~~~~~l~V~nlp~~~~t~~~l~~~F~~~G~v~~v~i~--------~------g~afV~f~~~~~A~~A~~~l~g~~~~g~   73 (96)
T 2kvi_A            8 PPKSRLFIGNLPLKNVSKEDLFRIFSPYGHIMQINIK--------N------AFGFIQFDNPQSVRDAIECESQEMNFGK   73 (96)
T ss_dssp             -CCEEEEEESSTTSCCCHHHHHHHHTTTCCCCEEEEE--------T------TEEEEEESCHHHHHHHHHHHTCSSCBTT
T ss_pred             CCCCEEEEeCCCcccCCHHHHHHHHHhcCCEEEEEEe--------C------CEEEEEECCHHHHHHHHHHcCCCeeCCc
Confidence            4567899999999 99999999999999999999994        3      8999999999999999999999999999


Q ss_pred             ccc
Q psy3854         113 KRS  115 (222)
Q Consensus       113 k~~  115 (222)
                      ++.
T Consensus        74 ~l~   76 (96)
T 2kvi_A           74 KLI   76 (96)
T ss_dssp             TBC
T ss_pred             EEE
Confidence            874

>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=99.65  E-value=3.3e-16  Score=118.40  Aligned_cols=65  Identities=20%  Similarity=0.326  Sum_probs=61.6

Q ss_pred             CCccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCC
Q psy3854          34 YKKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDC  111 (222)
Q Consensus        34 ~~~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~G  111 (222)
                      .....|||+|||+++++++|+++|++||+|..|.|+.+             |||||+|.+.++|..|++.|||..|.|
T Consensus        13 ~~~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~~~i~~~-------------g~afV~f~~~~~a~~Ai~~l~g~~~~g   77 (108)
T 1x4c_A           13 RSENRVVVSGLPPSGSWQDLKDHMREAGDVCYADVYRD-------------GTGVVEFVRKEDMTYAVRKLDNTKFRS   77 (108)
T ss_dssp             SCCCEEEEESCCSSCCHHHHHHHHGGGSCEEEEEEETT-------------TEEEEEESSHHHHHHHHHHSSSEEEEC
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCEeEEEEecC-------------CEEEEEECCHHHHHHHHHHHCcCCccC
Confidence            35678999999999999999999999999999999875             699999999999999999999999999

>2dnl_A Cytoplasmic polyadenylation element binding protein 3; RRM domain, RBD, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=99.65  E-value=3e-16  Score=119.84  Aligned_cols=66  Identities=15%  Similarity=0.282  Sum_probs=60.6

Q ss_pred             CccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCC---CCCCCCCCCccEEEEEecchHHHHHHHHHh---cCC
Q psy3854          35 KKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRK---PGEKKPAKQFTEGWIEFLKKKVAKQVAAQY---NNT  107 (222)
Q Consensus        35 ~~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~t---gksKkk~~~~g~GfVEF~dk~~Ak~A~~~L---Ng~  107 (222)
                      ...+|||+|||+.+++++|+++|++||+|. +.++.+..+   |+++      |||||+|.+.++|..|+..|   ||.
T Consensus         7 ~~~~lfVgnLp~~~te~~L~~~F~~~G~i~-~~~~~~~~~~~~g~~~------G~aFV~f~~~~~a~~Ai~~~~~~~G~   78 (114)
T 2dnl_A            7 GSRKVFVGGLPPDIDEDEITASFRRFGPLV-VDWPHKAESKSYFPPK------GYAFLLFQEESSVQALIDACLEEDGK   78 (114)
T ss_dssp             CCCCEEEECCCTTCCHHHHHHHTTTTCCCC-EECTTSSSSCCCSCTT------SEEEECCSSHHHHHHHHHHSEEETTE
T ss_pred             CCCEEEEcCCCCCCCHHHHHHHHHhcCCEE-EEEeecCCCCCCCCcc------cEEEEEECCHHHHHHHHHhhhhcCCc
Confidence            457899999999999999999999999999 888888776   6777      99999999999999999999   666

>2jvo_A Nucleolar protein 3; nucleus, phosphorylation, ribonucleoprotein, ribosome biogenesis, RNA-binding, rRNA processing; NMR {Saccharomyces cerevisiae} PDB: 2osq_A

Probab=99.65  E-value=4e-16  Score=118.90  Aligned_cols=70  Identities=13%  Similarity=0.296  Sum_probs=64.8

Q ss_pred             ccCCccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCC
Q psy3854          32 KKYKKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDC  111 (222)
Q Consensus        32 k~~~~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~G  111 (222)
                      ......+|||+|||+.+++++|+++|++||.|.+|.|+        +      |||||+|.+.++|..|+..|||..|+|
T Consensus        27 ~~~~~~~l~V~nLp~~~t~~~L~~~F~~~G~i~~v~i~--------k------g~afV~f~~~~~A~~Ai~~l~g~~~~g   92 (108)
T 2jvo_A           27 GELSNTRLFVRPFPLDVQESELNEIFGPFGPMKEVKIL--------N------GFAFVEFEEAESAAKAIEEVHGKSFAN   92 (108)
T ss_dssp             -CCSCSEEEECSSCTTCCHHHHHHHHTTTSCCCEEEEE--------T------TEEEEECSSHHHHHHHHHHHTTCEETT
T ss_pred             CCCCCCEEEEECCCCCCCHHHHHHHHHhcCCEEEEEEE--------C------CEEEEEECCHHHHHHHHHHcCCCEECC
Confidence            34567899999999999999999999999999999997        3      899999999999999999999999999


Q ss_pred             cccc
Q psy3854         112 RKRS  115 (222)
Q Consensus       112 rk~~  115 (222)
                      +.+.
T Consensus        93 ~~l~   96 (108)
T 2jvo_A           93 QPLE   96 (108)
T ss_dssp             EECE
T ss_pred             eEEE
Confidence            9874

>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=99.65  E-value=3.2e-16  Score=126.36  Aligned_cols=76  Identities=8%  Similarity=0.173  Sum_probs=70.6

Q ss_pred             cCCccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCCc
Q psy3854          33 KYKKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDCR  112 (222)
Q Consensus        33 ~~~~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~Gr  112 (222)
                      .....+|||+|||+.+++++|+++|++||+|.+|.|+.+..+|+++      |||||+|.+.++|..|+.. ||..|.|+
T Consensus        10 ~~~~~~l~V~nLp~~~te~~l~~~F~~~G~i~~v~i~~~~~~g~~~------g~afV~f~~~~~A~~A~~~-~~~~~~g~   82 (196)
T 1l3k_A           10 PEQLRKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSR------GFGFVTYATVEEVDAAMNA-RPHKVDGR   82 (196)
T ss_dssp             CGGGGEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEECTTTCCEE------EEEEEEESSHHHHHHHHHT-CSCEETTE
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhCCCEEEEEEEEcCCCCCcc------ceEEEEeCCHHHHHHHHhc-CCCEECCE
Confidence            3456789999999999999999999999999999999998889888      9999999999999999976 99999999


Q ss_pred             ccc
Q psy3854         113 KRS  115 (222)
Q Consensus       113 k~~  115 (222)
                      .+.
T Consensus        83 ~l~   85 (196)
T 1l3k_A           83 VVE   85 (196)
T ss_dssp             ECE
T ss_pred             Eee
Confidence            874

>2f3j_A RNA and export factor binding protein 2; RRM domain, RBD domain., transport protein; NMR {Mus musculus}

Probab=99.65  E-value=4.3e-16  Score=128.87  Aligned_cols=75  Identities=13%  Similarity=0.201  Sum_probs=70.7

Q ss_pred             CCccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCCcc
Q psy3854          34 YKKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDCRK  113 (222)
Q Consensus        34 ~~~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~Grk  113 (222)
                      ....+|||+|||+.+++++|+++|++||.|.+|.|..+. +|+++      |||||+|.+.++|..|+..|||..|.|+.
T Consensus        86 ~~~~~l~V~nLp~~~te~~L~~~F~~~G~I~~v~i~~d~-~g~~k------G~afV~F~~~~~A~~Ai~~lng~~l~Gr~  158 (177)
T 2f3j_A           86 ETGAKLLVSNLDFGVSDADIQELFAEFGTLKKAAVDYDR-SGRSL------GTADVHFERRADALKAMKQYKGVPLDGRP  158 (177)
T ss_dssp             TTCEEEEEECCCSCCCHHHHHHHHHHTSCCSEEEECCCT-TSSCS------CCEEEEESCHHHHHHHHHHSTTCBCSSSB
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEECC-CCCEe------eEEEEEeCCHHHHHHHHHHhCCCEECCEE
Confidence            346789999999999999999999999999999999988 78888      99999999999999999999999999998


Q ss_pred             cc
Q psy3854         114 RS  115 (222)
Q Consensus       114 ~~  115 (222)
                      +.
T Consensus       159 l~  160 (177)
T 2f3j_A          159 MD  160 (177)
T ss_dssp             CE
T ss_pred             EE
Confidence            75

>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=99.64  E-value=6.8e-16  Score=121.32  Aligned_cols=76  Identities=14%  Similarity=0.312  Sum_probs=70.4

Q ss_pred             cCCccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCC-
Q psy3854          33 KYKKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDC-  111 (222)
Q Consensus        33 ~~~~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~G-  111 (222)
                      .....+|||+|||+.+++++|+++|++||.|.+|.++++..+|+++      |+|||+|.+.++|.+|+..|||..+.| 
T Consensus        86 ~~~~~~l~v~nl~~~~t~~~l~~~f~~~G~i~~~~i~~~~~~~~~~------g~afV~f~~~~~A~~A~~~l~g~~~~g~  159 (168)
T 1b7f_A           86 SIKDTNLYVTNLPRTITDDQLDTIFGKYGSIVQKNILRDKLTGRPR------GVAFVRYNKREEAQEAISALNNVIPEGG  159 (168)
T ss_dssp             TTTTCEEEEESCCTTCCHHHHHHHHTSSSCEEEEEEEECTTTCCEE------EEEEEEESSHHHHHHHHHHHTTCCCTTC
T ss_pred             cCCCCCEEEeCCCCCCCHHHHHHhhhcCCcEEEEEEEEcCCCCCcc------eEEEEEECCHHHHHHHHHHhcCCEecCC
Confidence            3456789999999999999999999999999999999998888888      999999999999999999999999988 


Q ss_pred             -ccc
Q psy3854         112 -RKR  114 (222)
Q Consensus       112 -rk~  114 (222)
                       +++
T Consensus       160 ~~~l  163 (168)
T 1b7f_A          160 SQPL  163 (168)
T ss_dssp             SSCC
T ss_pred             CeEE
Confidence             554

>2fc8_A NCL protein; structure genomics, RRM_1 domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.64  E-value=4.3e-16  Score=115.53  Aligned_cols=76  Identities=14%  Similarity=0.242  Sum_probs=68.0

Q ss_pred             cccCCccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccC
Q psy3854          31 SKKYKKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQID  110 (222)
Q Consensus        31 ~k~~~~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~  110 (222)
                      .......+|||+|||+.+++++|+++|+.|+   .|.++.+..+++++      |||||+|.+.++|..|+..|||..|.
T Consensus        10 ~~~~~~~~l~V~nLp~~~t~~~l~~~F~~~~---~~~~~~~~~~~~~~------g~afV~f~~~~~A~~A~~~l~g~~~~   80 (102)
T 2fc8_A           10 ARSQPSKTLFVKGLSEDTTEETLKESFDGSV---RARIVTDRETGSSK------GFGFVDFNSEEDAKAAKEAMEDGEID   80 (102)
T ss_dssp             SSSCCCSSEEEECCCTTCCHHHHHHTSTTCS---EEEEEECSSSCSEE------EEEEEECSSHHHHHHHHHHHTTCEET
T ss_pred             CCCCCCCEEEEeCCCCccCHHHHHHHhcCCe---EEEEEecCCCCCcC------cEEEEEECCHHHHHHHHHHhCCCeEC
Confidence            3445678899999999999999999999884   67788887788888      99999999999999999999999999


Q ss_pred             Ccccc
Q psy3854         111 CRKRS  115 (222)
Q Consensus       111 Grk~~  115 (222)
                      |+.+.
T Consensus        81 g~~l~   85 (102)
T 2fc8_A           81 GNKVT   85 (102)
T ss_dssp             TEECE
T ss_pred             CeEEE
Confidence            99874

>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=99.64  E-value=2e-16  Score=124.50  Aligned_cols=75  Identities=20%  Similarity=0.344  Sum_probs=70.5

Q ss_pred             CCccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCCcc
Q psy3854          34 YKKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDCRK  113 (222)
Q Consensus        34 ~~~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~Grk  113 (222)
                      ...++|||+|||+.+++++|+++|++||.|.+|.++.+..+|+++      |||||+|.+.++|.+|++ |||..|+|++
T Consensus        85 ~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~~~i~~~~~~g~~~------g~afV~f~~~~~a~~A~~-~~~~~~~g~~  157 (167)
T 2cjk_A           85 DKTGKIFVGGIGPDVRPKEFEEFFSQWGTIIDAQLMLDKDTGQSR------GFGFVTYDSADAVDRVCQ-NKFIDFKDRK  157 (167)
T ss_dssp             HHCEEEEEEEECTTCCHHHHHHHHHTTSCCSEEECCCSSSSSTTS------EEEEEEESSHHHHHHHHH-CSEECSSSSC
T ss_pred             cCCCeEEECCCCCCCCHHHHHHHHHhCccEEEEEEEEcCCCCccc------eEEEEEECCHHHHHHHHh-CCCEEeCCeE
Confidence            356789999999999999999999999999999999998889888      999999999999999998 8999999998


Q ss_pred             cc
Q psy3854         114 RS  115 (222)
Q Consensus       114 ~~  115 (222)
                      +.
T Consensus       158 i~  159 (167)
T 2cjk_A          158 IE  159 (167)
T ss_dssp             EE
T ss_pred             EE
Confidence            74

>1fjc_A Nucleolin RBD2, protein C23; RNP, RRM, RNA binding domain, nucleolus, structural protein; NMR {Mesocricetus auratus} SCOP: d.58.7.1

Probab=99.64  E-value=1.3e-16  Score=117.20  Aligned_cols=72  Identities=18%  Similarity=0.183  Sum_probs=64.6

Q ss_pred             cCCccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCCc
Q psy3854          33 KYKKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDCR  112 (222)
Q Consensus        33 ~~~~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~Gr  112 (222)
                      .....+|||+|||+.+++++|+++|++||.|..|     ..+++++      |||||+|.+.++|..|+..|||..|+|+
T Consensus        13 ~~~~~~l~V~nL~~~~t~~~l~~~F~~~g~v~~~-----~~~~~~~------g~afV~f~~~~~a~~A~~~l~g~~~~g~   81 (96)
T 1fjc_A           13 VRAARTLLAKNLSFNITEDELKEVFEDALEIRLV-----SQDGKSK------GIAYIEFKSEADAEKNLEEKQGAEIDGR   81 (96)
T ss_dssp             TTGGGEEEEESCCSSCCHHHHHHHHCSEEEECCE-----EETTEEE------EEEEEEESSHHHHHHHHHHTTEEEETTE
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHhhCCcEEEe-----CCCCCcc------eEEEEEECCHHHHHHHHHHhCCCEECCe
Confidence            3456889999999999999999999999999877     3346677      9999999999999999999999999999


Q ss_pred             ccc
Q psy3854         113 KRS  115 (222)
Q Consensus       113 k~~  115 (222)
                      .+.
T Consensus        82 ~l~   84 (96)
T 1fjc_A           82 SVS   84 (96)
T ss_dssp             EEE
T ss_pred             EEE
Confidence            874

>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=99.64  E-value=1.2e-15  Score=115.14  Aligned_cols=67  Identities=9%  Similarity=0.269  Sum_probs=62.7

Q ss_pred             CccEEEEcCCCCC-CCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCCcc
Q psy3854          35 KKGIIYLSKVPPH-MNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDCRK  113 (222)
Q Consensus        35 ~~g~VYIsnLP~~-m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~Grk  113 (222)
                      ....|||+|||+. +++++|+++|++||.|.+|.|        ++      |||||+|.+.++|..|+..|||..|.|+.
T Consensus        26 ~~~~l~V~nl~~~~~t~~~l~~~F~~~G~v~~v~i--------~~------g~afV~f~~~~~A~~A~~~l~g~~~~g~~   91 (110)
T 1wf1_A           26 INSRVFIGNLNTALVKKSDVETIFSKYGRVAGCSV--------HK------GYAFVQYSNERHARAAVLGENGRVLAGQT   91 (110)
T ss_dssp             CSSEEEECSCCCSSCCHHHHHHHHGGGSCCSEEEE--------ET------TEEEEECSSSHHHHHHHHHHTTCEETTEE
T ss_pred             CCcEEEEeCCCcccCCHHHHHHHHHhCCCeEEEEE--------eC------CEEEEEECCHHHHHHHHHHcCCCEECCeE
Confidence            4578999999999 999999999999999999999        23      89999999999999999999999999998


Q ss_pred             cc
Q psy3854         114 RS  115 (222)
Q Consensus       114 ~~  115 (222)
                      +.
T Consensus        92 l~   93 (110)
T 1wf1_A           92 LD   93 (110)
T ss_dssp             CC
T ss_pred             EE
Confidence            74

>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=99.64  E-value=3.9e-16  Score=119.83  Aligned_cols=67  Identities=19%  Similarity=0.329  Sum_probs=62.1

Q ss_pred             CccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCCccc
Q psy3854          35 KKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDCRKR  114 (222)
Q Consensus        35 ~~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~Grk~  114 (222)
                      ....|||+|||+.+++++|+++|++||+|..|.|+.+             |||||+|.+.++|..|+..|||+.|.|+++
T Consensus        15 ~~~~l~V~nLp~~~t~~~l~~~F~~~G~v~~~~i~~~-------------g~afV~f~~~~~a~~Ai~~l~g~~~~gr~~   81 (115)
T 3beg_B           15 SENRVVVSGLPPSGSWQDLKDHMREAGDVCYADVYRD-------------GTGVVEFVRKEDMTYAVRKLDNTKFRSHEG   81 (115)
T ss_dssp             --CCEEEEECCSSCCTTHHHHHHGGGSCEEEEEECTT-------------SEEEEEESSHHHHHHHHHHHTTCBCCCTTS
T ss_pred             CCcEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEecC-------------CEEEEEECCHHHHHHHHHHhCCCEECCcEe
Confidence            4578999999999999999999999999999999765             699999999999999999999999999985

>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=99.63  E-value=5.6e-16  Score=122.25  Aligned_cols=71  Identities=15%  Similarity=0.312  Sum_probs=65.6

Q ss_pred             CccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCC--CCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCC
Q psy3854          35 KKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKP--GEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDC  111 (222)
Q Consensus        35 ~~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tg--ksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~G  111 (222)
                      ...+|||+|||+.+++++|+++|++||+|.+|.|+.+..+|  +++      |||||+|.+.++|..|+..|||..+.+
T Consensus         2 ~~~~l~V~nLp~~~te~~l~~~F~~~G~i~~v~i~~~~~~~~~~~~------g~afV~f~~~~~A~~A~~~l~~~~~~~   74 (175)
T 3nmr_A            2 DAIKMFVGQVPRTWSEKDLRELFEQYGAVYEINVLRDRSQNPPQSK------GCCFVTFYTRKAALEAQNALHNMKVLP   74 (175)
T ss_dssp             CCEEEEEESCCTTCCHHHHHHHHHTTSCEEEEEEEEECSSSSCEEE------EEEEEEESSHHHHHHHHHHHTTTCCCT
T ss_pred             CceEEEEeCCCCCCCHHHHHHHHHhCCCEEEEEEEecCCCCCCCcc------eEEEEEECCHHHHHHHHHHhcCcEEcc
Confidence            35689999999999999999999999999999999998876  677      999999999999999999999988763

>2dha_A FLJ20171 protein; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.63  E-value=2.5e-16  Score=124.15  Aligned_cols=76  Identities=9%  Similarity=0.173  Sum_probs=68.5

Q ss_pred             cCCccEEEEcCCCCCCCHHHHHHHhhcCcce----eEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCc
Q psy3854          33 KYKKGIIYLSKVPPHMNVTQLTEFMSRFGEV----GRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQ  108 (222)
Q Consensus        33 ~~~~g~VYIsnLP~~m~e~~Lr~lFs~fG~I----~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~  108 (222)
                      .....+|||+|||+.+++++|+++|++||.|    .+|.|+.+ .+|+++      |||||+|.+.++|..|+.. ||..
T Consensus        20 ~~~~~~v~V~nLp~~~te~dl~~~F~~~g~v~g~v~~v~i~~d-~~gr~~------G~aFV~F~~~~~A~~Al~~-~~~~   91 (123)
T 2dha_A           20 KENQVIVRMRGLPFTATAEEVVAFFGQHCPITGGKEGILFVTY-PDGRPT------GDAFVLFACEEYAQNALRK-HKDL   91 (123)
T ss_dssp             CCSCCEEEECSCCTTCCHHHHHHHHHTTSCCTTGGGGEEEEEC-TTSCEE------EEEEECCSSHHHHHHHHTT-TTEE
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhhCCccCCcceEEEEEC-CCCCEe------eEEEEEECCHHHHHHHHHh-CCCe
Confidence            3457899999999999999999999999986    69999988 478888      9999999999999999986 9999


Q ss_pred             cCCccccc
Q psy3854         109 IDCRKRSK  116 (222)
Q Consensus       109 i~Grk~~~  116 (222)
                      |+||.+..
T Consensus        92 l~gR~i~V   99 (123)
T 2dha_A           92 LGKRYIEL   99 (123)
T ss_dssp             SSSCEECC
T ss_pred             eCCeEEEE
Confidence            99998643

>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=99.63  E-value=3.9e-16  Score=116.63  Aligned_cols=67  Identities=16%  Similarity=0.318  Sum_probs=62.8

Q ss_pred             CccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCCccc
Q psy3854          35 KKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDCRKR  114 (222)
Q Consensus        35 ~~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~Grk~  114 (222)
                      ...+|||+|||+.+++++|+++|++||.|.+|.|++              +||||+|.+.++|..|+..|||..|.|+.+
T Consensus        10 ~~~~l~V~nl~~~~t~~~l~~~F~~~G~i~~v~~~~--------------~~afV~f~~~~~a~~A~~~l~g~~~~g~~l   75 (103)
T 2dgu_A           10 KVKVLFVRNLANTVTEEILEKAFSQFGKLERVKKLK--------------DYAFIHFDERDGAVKAMEEMNGKDLEGENI   75 (103)
T ss_dssp             CCCCEEEECCCTTCCHHHHHHHHHHHSCEEEEEECS--------------SCEEEEESSHHHHHHHHHHHTTEEETTEEE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEC--------------CEEEEEeCCHHHHHHHHHHHCCCccCCCEE
Confidence            457899999999999999999999999999999862              799999999999999999999999999987


Q ss_pred             c
Q psy3854         115 S  115 (222)
Q Consensus       115 ~  115 (222)
                      .
T Consensus        76 ~   76 (103)
T 2dgu_A           76 E   76 (103)
T ss_dssp             E
T ss_pred             E
Confidence            4

>2e5g_A U6 snRNA-specific terminal uridylyltransferase 1; RRM domain, RBD, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=99.63  E-value=8.4e-16  Score=113.07  Aligned_cols=70  Identities=19%  Similarity=0.259  Sum_probs=61.7

Q ss_pred             CCccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCCcc
Q psy3854          34 YKKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDCRK  113 (222)
Q Consensus        34 ~~~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~Grk  113 (222)
                      .....|||+|||+.+++++|+++|++||.|.+|  +.+..+|         .||||+|.+.++|..|+. |||..|+|+.
T Consensus         6 ~~~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v--~~~~~~g---------~~afV~f~~~~~a~~ai~-l~g~~~~g~~   73 (94)
T 2e5g_A            6 SGLRSVFVSGFPRGVDSAQLSEYFLAFGPVASV--VMDKDKG---------VFAIVEMGDVGAREAVLS-QSQHSLGGHR   73 (94)
T ss_dssp             TTCCEEEEECCCTTCCHHHHHHHGGGTSCEEEE--EECSSSC---------CEEEEEESSHHHHHHHHT-CSCCEETTEE
T ss_pred             CCCCEEEEECCCCCCCHHHHHHHHHhcCCeEEE--EEcCCCC---------cEEEEEECCHHHHHHHHh-cCCeEECCEE
Confidence            355689999999999999999999999999998  4444433         299999999999999999 9999999998


Q ss_pred             cc
Q psy3854         114 RS  115 (222)
Q Consensus       114 ~~  115 (222)
                      +.
T Consensus        74 l~   75 (94)
T 2e5g_A           74 LR   75 (94)
T ss_dssp             CC
T ss_pred             EE
Confidence            74

>3md3_A Nuclear and cytoplasmic polyadenylated RNA-bindin PUB1; RRM, RNP, RBD, poly(U) binding, tandem, acetylation, cytopla nucleus; 2.70A {Saccharomyces cerevisiae}

Probab=99.63  E-value=4.1e-16  Score=121.74  Aligned_cols=71  Identities=14%  Similarity=0.270  Sum_probs=66.2

Q ss_pred             EEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCCcccc
Q psy3854          38 IIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDCRKRS  115 (222)
Q Consensus        38 ~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~Grk~~  115 (222)
                      +|||+|||+.+++++|+++|++||+|.+|.|+++.. ++++      |+|||+|.+.++|..|+..|||..+.|+.+.
T Consensus         2 ~l~V~nlp~~~t~~~l~~~f~~~G~i~~v~i~~~~~-~~~~------g~afV~f~~~~~a~~A~~~l~~~~~~g~~i~   72 (166)
T 3md3_A            2 VLYVGNLDKAITEDILKQYFQVGGPIANIKIMIDKN-NKNV------NYAFVEYHQSHDANIALQTLNGKQIENNIVK   72 (166)
T ss_dssp             EEEEEEEETTCCHHHHHHHHGGGSCEEEEEEECCCC--CCE------EEEEEEESSHHHHHHHHHHHTTCEETTEECE
T ss_pred             EEEECCCCCcCCHHHHHHHHHhcCCeEEEEEEECCC-CCCC------CEEEEEeCCHHHHHHHHHHcCCCccCCCeeE
Confidence            699999999999999999999999999999998865 6677      9999999999999999999999999999874

>2yh0_A Splicing factor U2AF 65 kDa subunit; PRE-mRNA splicing, transcription, RNA binding protein, mRNA processing; NMR {Homo sapiens} PDB: 2yh1_A

Probab=99.63  E-value=6.1e-16  Score=124.89  Aligned_cols=76  Identities=20%  Similarity=0.293  Sum_probs=72.0

Q ss_pred             CCccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCCcc
Q psy3854          34 YKKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDCRK  113 (222)
Q Consensus        34 ~~~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~Grk  113 (222)
                      ....+|||+|||+.+++++|+++|++||.|.+|.+..+..+|+++      |||||+|.+.++|..|+..|||..|+|+.
T Consensus       112 ~~~~~l~v~nl~~~~~~~~l~~~f~~~G~v~~~~~~~~~~~~~~~------g~afV~f~~~~~a~~A~~~l~g~~~~g~~  185 (198)
T 2yh0_A          112 DSAHKLFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSK------GYAFCEYVDINVTDQAIAGLNGMQLGDKK  185 (198)
T ss_dssp             CCCCEEEEECCCTTCCHHHHHHHHHTBSCEEEEEEEECTTTCSEE------EEEEEEESSSSHHHHHHHHHTTCEETTEE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHHcCCccEEEEeecCCCCCcc------eEEEEEECCHHHHHHHHHHcCCCEECCEE
Confidence            567899999999999999999999999999999999998888888      99999999999999999999999999998


Q ss_pred             cc
Q psy3854         114 RS  115 (222)
Q Consensus       114 ~~  115 (222)
                      +.
T Consensus       186 l~  187 (198)
T 2yh0_A          186 LL  187 (198)
T ss_dssp             CE
T ss_pred             EE
Confidence            74

>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=99.63  E-value=2.4e-16  Score=126.75  Aligned_cols=75  Identities=13%  Similarity=0.102  Sum_probs=67.8

Q ss_pred             cCCccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCCc
Q psy3854          33 KYKKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDCR  112 (222)
Q Consensus        33 ~~~~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~Gr  112 (222)
                      .....+|||+|||+++++++|+++|++|| |.+|.|+.+.. |+++      |||||+|.+.++|+.|+ .||+..|+|+
T Consensus        43 ~~~~~~lfV~nLp~~~te~dL~~~F~~~G-i~~v~i~~d~~-g~sr------GfaFV~F~~~e~A~~Al-~~~g~~l~gR  113 (139)
T 2hgn_A           43 STTGHCVHMRGLPYKATENDIYNFFSPLN-PVRVHIEIGPD-GRVT------GEADVEFATHEEAVAAM-SKDRANMQHR  113 (139)
T ss_dssp             --CCCCEECCSCCTTCCHHHHHHHHCSCC-CSEEECCCSSS-SCSS------CCCEEECSHHHHHHHHT-TCCSCSSSSC
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhcC-CeEEEEEECCC-CCCc------eEEEEEeCCHHHHHHHH-hhCCCEECCE
Confidence            34567899999999999999999999999 77999999876 8888      99999999999999999 8999999999


Q ss_pred             cccc
Q psy3854         113 KRSK  116 (222)
Q Consensus       113 k~~~  116 (222)
                      .+..
T Consensus       114 ~i~V  117 (139)
T 2hgn_A          114 YIEL  117 (139)
T ss_dssp             CCCC
T ss_pred             EEEE
Confidence            8754

>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=99.62  E-value=7.4e-17  Score=127.14  Aligned_cols=76  Identities=14%  Similarity=0.188  Sum_probs=64.9

Q ss_pred             CCccEEEEcCCCCCCCHHHHHHHhhcCcceeEEE--EecC---CCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCc
Q psy3854          34 YKKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVY--LMPK---KRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQ  108 (222)
Q Consensus        34 ~~~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~--L~~d---~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~  108 (222)
                      ....+|||+|||+.+++++|+++|++||.|.+|.  ++.+   ..+|+++      |||||+|.+.++|..|+..|||..
T Consensus        43 ~~~~~l~V~nLp~~~te~~L~~~F~~~G~i~~~~~~~~~di~~~~~g~~~------g~afV~f~~~~~A~~Ai~~lng~~  116 (143)
T 3egn_A           43 EPNCRIYVKNLAKHVQEKDLKYIFGRYVDFSSETQRIMFDIRLMKEGRMK------GQAFIGLPNEKAAAKALKEANGYV  116 (143)
T ss_dssp             SCCSEEEEEEECTTCCHHHHHHHHGGGCCTTCHHHHHHCEEEEEEETTTE------EEEEEECSSHHHHHHHHHHHTTBE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHHhCCcccccccceeeEEeccCCCcc------cEEEEEeCCHHHHHHHHHHhCCCE
Confidence            3457899999999999999999999999998751  1111   2357777      999999999999999999999999


Q ss_pred             cCCcccc
Q psy3854         109 IDCRKRS  115 (222)
Q Consensus       109 i~Grk~~  115 (222)
                      |.|+.+.
T Consensus       117 ~~g~~l~  123 (143)
T 3egn_A          117 LFGKPMV  123 (143)
T ss_dssp             ETTEECE
T ss_pred             eCCcEEE
Confidence            9999874

>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=99.62  E-value=8.5e-16  Score=129.32  Aligned_cols=70  Identities=16%  Similarity=0.261  Sum_probs=64.8

Q ss_pred             CccEEEEcCCC-CCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCCcc
Q psy3854          35 KKGIIYLSKVP-PHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDCRK  113 (222)
Q Consensus        35 ~~g~VYIsnLP-~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~Grk  113 (222)
                      ...+|||+||| +.+++++|+++|++||.|.+|.|+++.     +      |||||+|.+.++|..|+..|||+.+.|++
T Consensus         3 ~~~~l~V~nL~~~~~~~~~L~~~F~~~G~v~~v~i~~~~-----~------g~afV~f~~~~~A~~Ai~~lng~~~~g~~   71 (205)
T 3tyt_A            3 DSPVLMVYGLDQSKMNCDRVFNVFCLYGNVEKVKFMKSK-----P------GAAMVEMADGYAVDRAITHLNNNFMFGQK   71 (205)
T ss_dssp             CCSEEEEECCCTTTCCHHHHHHHHTTTSCEEEEEECTTS-----T------TCEEEEESSHHHHHHHHHHHTTCEETTEE
T ss_pred             CCCEEEEeCCCcccCCHHHHHHHHHhcCCeEEEEEecCC-----C------CEEEEEECCHHHHHHHHHHhCCCEECCce
Confidence            35689999999 799999999999999999999998752     3      99999999999999999999999999999


Q ss_pred             cc
Q psy3854         114 RS  115 (222)
Q Consensus       114 ~~  115 (222)
                      +.
T Consensus        72 l~   73 (205)
T 3tyt_A           72 MN   73 (205)
T ss_dssp             CE
T ss_pred             EE
Confidence            74

>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=99.62  E-value=1.1e-15  Score=120.24  Aligned_cols=72  Identities=14%  Similarity=0.283  Sum_probs=65.9

Q ss_pred             CccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCCccc
Q psy3854          35 KKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDCRKR  114 (222)
Q Consensus        35 ~~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~Grk~  114 (222)
                      ...+|||+|||+++++++|+++|++||+|.+|.|+++..+|+++      |||||+|.+.++|..|+..  +..+.|+.+
T Consensus         2 ~~~~l~v~nLp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~g~~~------g~afV~f~~~~~a~~A~~~--~~~~~g~~i   73 (167)
T 2cjk_A            2 ESCKMFIGGLNWDTTEDNLREYFGKYGTVTDLKIMKDPATGRSR------GFGFLSFEKPSSVDEVVKT--QHILDGKVI   73 (167)
T ss_dssp             GGGEEEECSCCTTCCHHHHHHHHTTTCCEEEEECCCCTTTSSCC------SCEEEEESSTHHHHHHHHS--CCEETTEEC
T ss_pred             CCcEEEEeCCCCCCCHHHHHHHHHhCCCEEEEEEEECCCCCCcc------ceEEEEEccHHHHHHHHhc--ccccCCeEc
Confidence            45789999999999999999999999999999999998889888      9999999999999999995  566777765

>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=99.62  E-value=5.4e-16  Score=121.75  Aligned_cols=63  Identities=13%  Similarity=0.241  Sum_probs=57.5

Q ss_pred             CccEEEE--cCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCcc
Q psy3854          35 KKGIIYL--SKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQI  109 (222)
Q Consensus        35 ~~g~VYI--snLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i  109 (222)
                      ...+|||  ||||+.+++++|+++|++||+|.+|.|.++      |      |||||+|.+.++|..|++.|||+.|
T Consensus        24 pt~~L~V~Ng~L~~~~te~~L~~~F~~fG~v~~v~i~~~------r------gfaFV~f~~~~~A~~Ai~~lnG~~~   88 (114)
T 2cq2_A           24 ATQSLVVANGGLGNGVSRNQLLPVLEKCGLVDALLMPPN------K------PYSFARYRTTEESKRAYVTLNGKEV   88 (114)
T ss_dssp             CCSEEEEETCTGGGTCCHHHHHHHHHHHSCEEEEECCTT------C------SCEEEEESSHHHHHHHHHHTTTCEE
T ss_pred             CCCEEEEECCCCCCCCCHHHHHHHHHhcCCeEEEEEeCC------C------CEEEEEECCHHHHHHHHHHhCCCEE
Confidence            3567999  779999999999999999999999988642      3      8999999999999999999999987

>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=99.62  E-value=1.1e-15  Score=121.25  Aligned_cols=74  Identities=16%  Similarity=0.264  Sum_probs=66.7

Q ss_pred             CCccEEEEcCCCCCCCHHHHHHHhhcCccee--EEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCC
Q psy3854          34 YKKGIIYLSKVPPHMNVTQLTEFMSRFGEVG--RVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDC  111 (222)
Q Consensus        34 ~~~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~--rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~G  111 (222)
                      ....+|||+|||+.+++++|+++|++| .|.  +|.|+.|.. |+++      |||||+|.+.++|++|+. +||..|+|
T Consensus        40 ~~~~~lfVgnLp~~~te~dL~~~F~~~-~i~~~~v~i~~d~~-Grsr------GfaFV~F~~~e~A~~Al~-~~~~~l~g  110 (126)
T 2hgm_A           40 ANDGFVRLRGLPFGCTKEEIVQFFSGL-EIVPNGITLPVDPE-GKIT------GEAFVQFASQELAEKALG-KHKERIGH  110 (126)
T ss_dssp             SSCCEEEEECCCTTCCHHHHHHHTTTS-CEEEEEEECCCCSS-SSSC------SEEEEEESSTTHHHHHHT-TTTCCBTT
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHhcC-CceeeEEEEEECCC-CCCc------eEEEEEECCHHHHHHHHH-HCCCEECC
Confidence            356789999999999999999999999 576  999999877 8888      999999999999999998 47899999


Q ss_pred             ccccc
Q psy3854         112 RKRSK  116 (222)
Q Consensus       112 rk~~~  116 (222)
                      |.+..
T Consensus       111 R~I~V  115 (126)
T 2hgm_A          111 RYIEV  115 (126)
T ss_dssp             BCCCC
T ss_pred             EEEEE
Confidence            98743

>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=99.61  E-value=1e-15  Score=143.02  Aligned_cols=76  Identities=14%  Similarity=0.249  Sum_probs=71.8

Q ss_pred             CCccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCCcc
Q psy3854          34 YKKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDCRK  113 (222)
Q Consensus        34 ~~~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~Grk  113 (222)
                      ....+|||+|||+.+++++|+++|++||.|..|.|+.+..+|+++      |||||+|.+.++|..|+..|||+.|+|+.
T Consensus       100 ~~~~~lfV~nL~~~~te~~L~~~F~~~G~I~~v~i~~d~~tg~~k------G~aFV~F~~~e~A~~Ai~~lng~~i~gr~  173 (437)
T 3pgw_S          100 DAFKTLFVARVNYDTTESKLRREFEVYGPIKRIHMVYSKRSGKPR------GYAFIEYEHERDMHSAYKHADGKKIDGRR  173 (437)
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHHcCCeeEEEeeccCCCCCcc------ceEEEeeccHHHHHHHHHHcCCCEECCEE
Confidence            345789999999999999999999999999999999998889888      99999999999999999999999999999


Q ss_pred             cc
Q psy3854         114 RS  115 (222)
Q Consensus       114 ~~  115 (222)
                      +.
T Consensus       174 i~  175 (437)
T 3pgw_S          174 VL  175 (437)
T ss_pred             EE
Confidence            84

>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=99.61  E-value=1.7e-15  Score=119.42  Aligned_cols=74  Identities=8%  Similarity=0.194  Sum_probs=67.1

Q ss_pred             CCccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCC--
Q psy3854          34 YKKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDC--  111 (222)
Q Consensus        34 ~~~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~G--  111 (222)
                      ....+|||+|||+.+++++|+++|++||.|.+|.|+++.. |+++      |||||+|.+.++|.+|+..|||..+.+  
T Consensus        93 ~~~~~l~v~nl~~~~t~~~l~~~F~~~G~i~~v~~~~~~~-g~~~------g~afV~f~~~~~A~~A~~~l~g~~~~~g~  165 (175)
T 3nmr_A           93 VEDRKLFIGMISKKCTENDIRVMFSSFGQIEECRILRGPD-GLSR------GCAFVTFTTRAMAQTAIKAMHQAQTMEGC  165 (175)
T ss_dssp             GGGSEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEECTT-SCEE------EEEEEEESSHHHHHHHHHHHTTSCCCTTC
T ss_pred             CCCCeEEEcCCCCcCCHHHHHHHHHhCCCEEEEEEEECCC-CCEE------EEEEEEECCHHHHHHHHHHhcCCcccCCC
Confidence            3567899999999999999999999999999999998864 7777      999999999999999999999987764  


Q ss_pred             -ccc
Q psy3854         112 -RKR  114 (222)
Q Consensus       112 -rk~  114 (222)
                       +++
T Consensus       166 ~~~l  169 (175)
T 3nmr_A          166 SSPM  169 (175)
T ss_dssp             SSCC
T ss_pred             CCCe
Confidence             665

>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=99.61  E-value=1.3e-15  Score=109.46  Aligned_cols=68  Identities=15%  Similarity=0.265  Sum_probs=62.8

Q ss_pred             CccEEEEcCCCCCCCHHHHHHHhhcC----c-------ceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHH
Q psy3854          35 KKGIIYLSKVPPHMNVTQLTEFMSRF----G-------EVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQ  103 (222)
Q Consensus        35 ~~g~VYIsnLP~~m~e~~Lr~lFs~f----G-------~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~  103 (222)
                      ...+|||+|||+.+++++|+++|++|    |       .|.+|.+..+      +      |||||+|.+.++|..|+ .
T Consensus         5 ~~~~l~V~nLp~~~t~~~l~~~F~~~~~~~g~~~~~~~~v~~~~~~~~------k------g~afV~f~~~~~a~~A~-~   71 (87)
T 2hzc_A            5 SARRLYVGNIPFGITEEAMMDFFNAQMRLGGLTQAPGNPVLAVQINQD------K------NFAFLEFRSVDETTQAM-A   71 (87)
T ss_dssp             GGGEEEEESCCTTCCHHHHHHHHHHHHHHTTCCSSSSCSEEEEEECSS------S------SEEEEEESSHHHHHHHG-G
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHHHhhhcccccCCCCcceEEEecCC------C------cEEEEEcCCHHHHHHHH-h
Confidence            46789999999999999999999999    8       9999999754      3      89999999999999999 9


Q ss_pred             hcCCccCCcccc
Q psy3854         104 YNNTQIDCRKRS  115 (222)
Q Consensus       104 LNg~~i~Grk~~  115 (222)
                      |||..+.|+.+.
T Consensus        72 l~g~~~~g~~l~   83 (87)
T 2hzc_A           72 FDGIIFQGQSLK   83 (87)
T ss_dssp             GTTCEETTEECE
T ss_pred             cCCCEECCeEEE
Confidence            999999999863

>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=99.61  E-value=1.6e-15  Score=122.20  Aligned_cols=75  Identities=8%  Similarity=0.273  Sum_probs=69.4

Q ss_pred             CCccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCCcc
Q psy3854          34 YKKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDCRK  113 (222)
Q Consensus        34 ~~~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~Grk  113 (222)
                      ....+|||+|||+.+++++|+++|++||.|.+|.|+.+..+|+++      |||||+|.+.++|.+|+.. ||..|+|+.
T Consensus       102 ~~~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~g~~~------g~afV~F~~~~~A~~A~~~-~~~~~~G~~  174 (196)
T 1l3k_A          102 LTVKKIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKR------GFAFVTFDDHDSVDKIVIQ-KYHTVNGHN  174 (196)
T ss_dssp             -CCSEEEEECCTTTCCHHHHHHHHTTTSCEEEEEEEECTTTCCEE------EEEEEEESSHHHHHHHHHC-SCCEETTEE
T ss_pred             CCcceEEEeCCCCCCCHHHHHHHHhcCCCeEEEEEeecCCCCCcc------ceEEEEECCHHHHHHHHHh-CCcEECCEE
Confidence            345789999999999999999999999999999999998888888      9999999999999999986 899999998


Q ss_pred             cc
Q psy3854         114 RS  115 (222)
Q Consensus       114 ~~  115 (222)
                      +.
T Consensus       175 i~  176 (196)
T 1l3k_A          175 CE  176 (196)
T ss_dssp             CE
T ss_pred             EE
Confidence            73

>4f02_A Polyadenylate-binding protein 1; mRNA, eukaryotic initiation factors PAIP1 and PAIP2, translation-RNA complex; 2.00A {Homo sapiens} PDB: 1cvj_A*

Probab=99.61  E-value=9.8e-16  Score=127.81  Aligned_cols=74  Identities=19%  Similarity=0.331  Sum_probs=67.9

Q ss_pred             CCccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCCcc
Q psy3854          34 YKKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDCRK  113 (222)
Q Consensus        34 ~~~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~Grk  113 (222)
                      ...++|||+|||+.+++++|+++|++||.|.+|.|+.+..  .++      |||||+|.+.++|.+|+..|||..|+|++
T Consensus       101 ~~~~~l~v~nl~~~~t~~~l~~~F~~~G~i~~~~i~~d~~--~~~------g~~fV~f~~~~~a~~Ai~~lng~~~~g~~  172 (213)
T 4f02_A          101 SGVGNIFIKNLDKSIDNKALYDTFSAFGNILSCKVVCDEN--GSK------GYGFVHFETQEAAERAIEKMNGMLLNDRK  172 (213)
T ss_dssp             HCTTEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEEETT--EEE------EEEEEEESSHHHHHHHHHHHTTCEETTEE
T ss_pred             cccccceECCcccccHHHHHHHHHhhcCCeEEEEeeccCC--CCc------eEEEEEeCCHHHHHHHHHHhCCCEECCEE
Confidence            3567899999999999999999999999999999998853  355      99999999999999999999999999998


Q ss_pred             cc
Q psy3854         114 RS  115 (222)
Q Consensus       114 ~~  115 (222)
                      +.
T Consensus       173 i~  174 (213)
T 4f02_A          173 VF  174 (213)
T ss_dssp             CE
T ss_pred             EE
Confidence            73

>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=99.60  E-value=5.6e-16  Score=113.37  Aligned_cols=68  Identities=7%  Similarity=0.222  Sum_probs=61.5

Q ss_pred             CccEEEEcCCCCCCCHHHHHHHhhcCcc-eeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcC-CccCCc
Q psy3854          35 KKGIIYLSKVPPHMNVTQLTEFMSRFGE-VGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNN-TQIDCR  112 (222)
Q Consensus        35 ~~g~VYIsnLP~~m~e~~Lr~lFs~fG~-I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg-~~i~Gr  112 (222)
                      ....|||+|||+.+++++|+++|++||. |..+.+.       ++      |||||+|.+.++|..|+..||| ..|.|+
T Consensus         7 ~~~~l~V~nLp~~~t~~~l~~~F~~~G~vv~~~~~~-------~~------g~afV~f~~~~~A~~A~~~l~g~~~~~g~   73 (93)
T 2cqh_A            7 GMNKLYIGNLSPAVTADDLRQLFGDRKLPLAGQVLL-------KS------GYAFVDYPDQNWAIRAIETLSGKVELHGK   73 (93)
T ss_dssp             CCCCEEEECCCTTCCHHHHHHHHHHTTCCCSSCEEE-------ET------TEEEECCSCHHHHHHHHHHHTTTCEETTE
T ss_pred             CCcEEEEeCCCCCCCHHHHHHHHHHcCCceEEEEEc-------CC------CEEEEEECCHHHHHHHHHHccCCeeECCE
Confidence            4578999999999999999999999999 7777663       23      8999999999999999999999 999999


Q ss_pred             ccc
Q psy3854         113 KRS  115 (222)
Q Consensus       113 k~~  115 (222)
                      ++.
T Consensus        74 ~l~   76 (93)
T 2cqh_A           74 IME   76 (93)
T ss_dssp             ECE
T ss_pred             EEE
Confidence            874

>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=99.60  E-value=8.6e-16  Score=111.95  Aligned_cols=68  Identities=10%  Similarity=0.289  Sum_probs=62.9

Q ss_pred             CccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCCccc
Q psy3854          35 KKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDCRKR  114 (222)
Q Consensus        35 ~~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~Grk~  114 (222)
                      ....|||+|||+.+++++|+++|++| .|.+|.|.      +++      |||||+|.+.++|..|+..|||..++|+++
T Consensus         4 ~~~~l~V~nLp~~~t~~~l~~~F~~~-~v~~~~i~------~~~------g~afV~f~~~~~a~~Ai~~l~g~~~~g~~l   70 (88)
T 1wg1_A            4 GSSGILVKNLPQDSNCQEVHDLLKDY-DLKYCYVD------RNK------RTAFVTLLNGEQAQNAIQMFHQYSFRGKDL   70 (88)
T ss_dssp             CCCCEEEESCCSSCCHHHHHHHTCSS-CCCCEEEE------GGG------TEEEECCSCHHHHHHHHHHHTTEEETTEEE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHhhC-CeEEEEEe------CCC------cEEEEEECCHHHHHHHHHHhCCCeECCcEE
Confidence            45789999999999999999999999 99999984      455      999999999999999999999999999997


Q ss_pred             c
Q psy3854         115 S  115 (222)
Q Consensus       115 ~  115 (222)
                      .
T Consensus        71 ~   71 (88)
T 1wg1_A           71 I   71 (88)
T ss_dssp             E
T ss_pred             E
Confidence            4

>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=99.60  E-value=1.7e-15  Score=111.74  Aligned_cols=68  Identities=16%  Similarity=0.331  Sum_probs=56.7

Q ss_pred             ccCCccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccC-
Q psy3854          32 KKYKKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQID-  110 (222)
Q Consensus        32 k~~~~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~-  110 (222)
                      ....+.+|||||||+++++++|+++|++||+|.+|.|+.+     +|      |||||+|.+.++|.    .|||..+. 
T Consensus         7 ~~~~~~~l~V~~Lp~~~te~~L~~~F~~~G~i~~v~i~~~-----sr------GfaFV~F~~~~~A~----~~~~~~~~~   71 (89)
T 3d2w_A            7 HHHHGSKVFVGRCTEDMTAEELQQFFCQYGEVVDVFIPKP-----FR------AFAFVTFADDKVAQ----SLCGEDLII   71 (89)
T ss_dssp             ----CCEEEEESCCTTCCHHHHHHHHTTTSCEEEEECCSS-----CC------SEEEEEESCHHHHH----HHTTCEEEE
T ss_pred             CCCCCCEEEEeCCCCCCCHHHHHHHHhccCCEEEEEEeeC-----CC------CEEEEEECCHHHHH----HHcCCCccc
Confidence            3456789999999999999999999999999999999874     45      99999999999998    47887665 


Q ss_pred             -Cccc
Q psy3854         111 -CRKR  114 (222)
Q Consensus       111 -Grk~  114 (222)
                       |+++
T Consensus        72 ~g~~v   76 (89)
T 3d2w_A           72 KGISV   76 (89)
T ss_dssp             TTEEE
T ss_pred             CCEEE
Confidence             5554

>2pe8_A Splicing factor 45; RRM, protein binding; 2.00A {Homo sapiens} PDB: 2peh_A

Probab=99.58  E-value=5.7e-15  Score=113.03  Aligned_cols=76  Identities=14%  Similarity=0.201  Sum_probs=66.2

Q ss_pred             CCccEEEEcCCCC-----CCCHHHHHHHhhcCcceeEEEEecCCCC-CCCCCCCCCccEEEEEecchHHHHHHHHHhcCC
Q psy3854          34 YKKGIIYLSKVPP-----HMNVTQLTEFMSRFGEVGRVYLMPKKRK-PGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNT  107 (222)
Q Consensus        34 ~~~g~VYIsnLP~-----~m~e~~Lr~lFs~fG~I~rv~L~~d~~t-gksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~  107 (222)
                      ..+.+|+|.|+..     +-++++|+++|++||+|.+|.|+.+..+ ++++      |+|||+|.+.++|.+|+..|||+
T Consensus         6 ~~s~~l~l~Nm~~~~~l~dd~~~dl~~~f~~~G~V~~v~i~~~~~~~~~~~------G~~FV~f~~~~~A~~Ai~~lnG~   79 (105)
T 2pe8_A            6 CPTKVVLLRNMVGAGEVDEDLEVETKEECEKYGKVGKCVIFEIPGAPDDEA------VRIFLEFERVESAIKAVVDLNGR   79 (105)
T ss_dssp             SCCSEEEEESSSCSCCC---CHHHHHHHGGGGSCEEEEEEEECSSCCTTTS------EEEEEEESSHHHHHHHHHHHTTC
T ss_pred             CCCCEEEEEcCCChHHhhHHHHHHHHHHHHhcCCEEEEEEecCCCCCCCCc------EEEEEEECCHHHHHHHHHHHCCC
Confidence            3467899999973     2368999999999999999999988654 5777      99999999999999999999999


Q ss_pred             ccCCcccc
Q psy3854         108 QIDCRKRS  115 (222)
Q Consensus       108 ~i~Grk~~  115 (222)
                      .++||.+.
T Consensus        80 ~~~Gr~i~   87 (105)
T 2pe8_A           80 YFGGRVVK   87 (105)
T ss_dssp             EETTEECE
T ss_pred             EECCcEEE
Confidence            99999974

>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=99.58  E-value=7.6e-15  Score=126.12  Aligned_cols=73  Identities=16%  Similarity=0.300  Sum_probs=64.7

Q ss_pred             CccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcC-CccC---
Q psy3854          35 KKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNN-TQID---  110 (222)
Q Consensus        35 ~~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg-~~i~---  110 (222)
                      ...+|||+|||+.+++++|+++|++||.|.+|.|+.+ .+|+++      |||||+|.+.++|..|+..||| ..+.   
T Consensus        95 ~~~~l~v~nl~~~~t~~~l~~~F~~~G~i~~v~i~~~-~~g~~~------g~afV~f~~~~~A~~A~~~l~~~~~~~~~~  167 (261)
T 3sde_A           95 HGAALTVKNLSPVVSNELLEQAFSQFGPVEKAVVVVD-DRGRAT------GKGFVEFAAKPPARKALERCGDGAFLLTTT  167 (261)
T ss_dssp             CSSEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEEE-TTSCEE------EEEEEEESSHHHHHHHHHHHHHSCEESSSS
T ss_pred             cCCcccccCCCCCCCHHHHHHHHHhcCCeEEEEeeeC-CCCCcC------cEEEEEeCCHHHHHHHHHHhcCCeEEecCC
Confidence            3568999999999999999999999999999999998 578888      9999999999999999999954 4443   


Q ss_pred             Cccc
Q psy3854         111 CRKR  114 (222)
Q Consensus       111 Grk~  114 (222)
                      |+++
T Consensus       168 ~r~i  171 (261)
T 3sde_A          168 PRPV  171 (261)
T ss_dssp             CCBC
T ss_pred             CceE
Confidence            6655

>3zzy_A Polypyrimidine tract-binding protein 1; protein binding, peptide binding, RNA recognition motif; 1.40A {Homo sapiens} PDB: 3zzz_A

Probab=99.58  E-value=2.8e-15  Score=120.22  Aligned_cols=69  Identities=13%  Similarity=0.159  Sum_probs=61.1

Q ss_pred             CccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccE-EEEEecchHHHHHHHHHhcCCccCC--
Q psy3854          35 KKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTE-GWIEFLKKKVAKQVAAQYNNTQIDC--  111 (222)
Q Consensus        35 ~~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~-GfVEF~dk~~Ak~A~~~LNg~~i~G--  111 (222)
                      +--.|||+|||+.+++++|+++|++||+|.+|.+....     +      || |||+|.+.++|..|+..|||..|.|  
T Consensus        27 ~VL~I~V~NL~~~vte~~L~~lFs~yG~V~~V~i~~~~-----~------gfqAFVef~~~~~A~~Ai~~LnG~~i~g~~   95 (130)
T 3zzy_A           27 PVLRIIVENLFYPVTLDVLHQIFSKFGTVLKIITFTKN-----N------QFQALLQYADPVSAQHAKLSLDGQNIYNAC   95 (130)
T ss_dssp             SEEEEEEESCCSCCCHHHHHHHHTTSSCEEEEEEEEET-----T------EEEEEEEESCHHHHHHHHHHHTTCEEETTE
T ss_pred             ceEEEEECCCCCCCCHHHHHHHHhCcCCEEEEEEEcCC-----C------CcEEEEEECCHHHHHHHHHHcCCCeecCCC
Confidence            34558999999999999999999999999999987532     3      77 9999999999999999999999987  


Q ss_pred             ccc
Q psy3854         112 RKR  114 (222)
Q Consensus       112 rk~  114 (222)
                      +.+
T Consensus        96 ~~L   98 (130)
T 3zzy_A           96 CTL   98 (130)
T ss_dssp             EEE
T ss_pred             cEE
Confidence            544

>2e5i_A Heterogeneous nuclear ribonucleoprotein L-like; RRM domain, RBD, structural genomics, NPPSFA; NMR {Mus musculus}

Probab=99.58  E-value=8e-15  Score=116.25  Aligned_cols=66  Identities=18%  Similarity=0.220  Sum_probs=59.0

Q ss_pred             CccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccE-EEEEecchHHHHHHHHHhcCCccCCc
Q psy3854          35 KKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTE-GWIEFLKKKVAKQVAAQYNNTQIDCR  112 (222)
Q Consensus        35 ~~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~-GfVEF~dk~~Ak~A~~~LNg~~i~Gr  112 (222)
                      ..-.|||+|||+.+++++|+++|++||.|.+|.|...      .      || |||+|.+.++|..|+..|||..|.|+
T Consensus        24 ~vl~l~V~NL~~~vt~~~L~~~Fs~yG~V~~v~i~~~------~------Gf~aFVef~~~~~A~~A~~~LnG~~i~g~   90 (124)
T 2e5i_A           24 KVLLLSIQNPLYPITVDVLYTVCNPVGKVQRIVIFKR------N------GIQAMVEFESVLCAQKAKAALNGADIYAG   90 (124)
T ss_dssp             SEEEEEEESCCSCCCHHHHHHHHTTTSCEEEEEEEES------S------SEEEEEEESSHHHHHHHHHHHTTCCCBTT
T ss_pred             cEEEEEEcCcCCCCCHHHHHHHHHhcCCEEEEEEEeC------C------CCEEEEEECCHHHHHHHHHHhCCCEecCC
Confidence            3345799999999999999999999999999999641      1      76 99999999999999999999999874

>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=99.57  E-value=1.4e-15  Score=130.61  Aligned_cols=75  Identities=13%  Similarity=0.155  Sum_probs=69.5

Q ss_pred             CCccEEEEcCCCCCC-CHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCCc
Q psy3854          34 YKKGIIYLSKVPPHM-NVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDCR  112 (222)
Q Consensus        34 ~~~g~VYIsnLP~~m-~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~Gr  112 (222)
                      ....+|||+|||+.+ ++++|+++|++||.|.+|.|+++. +|+++      |+|||+|.+.++|..|+..|||..|+|+
T Consensus       182 ~~~~~l~v~nlp~~~~~~~~l~~~f~~~G~i~~v~i~~~~-~g~~~------g~afV~f~~~~~A~~A~~~l~g~~~~g~  254 (284)
T 3smz_A          182 LHSRCLCVDRLPPGFNDVDALCRALSAVHSPTFCQLACGQ-DGQLK------GFAVLEYETAEMAEEAQQQADGLSLGGS  254 (284)
T ss_dssp             TSCSEEEEECCCTTCCCHHHHHHHTCSSSCCSEEEEEECS-SCCEE------EEEEEECSSHHHHHHHHHHHTTCEETTE
T ss_pred             CCccEEEEecCCcccCCHHHHHHHhhCCCCeEEEEEEECC-CCCcc------cEEEEEeCCHHHHHHHHHHhCCCccCCe
Confidence            456789999999996 999999999999999999999886 58777      9999999999999999999999999999


Q ss_pred             ccc
Q psy3854         113 KRS  115 (222)
Q Consensus       113 k~~  115 (222)
                      ++.
T Consensus       255 ~l~  257 (284)
T 3smz_A          255 HLR  257 (284)
T ss_dssp             ECE
T ss_pred             EEE
Confidence            873

>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=99.57  E-value=5.4e-15  Score=122.91  Aligned_cols=72  Identities=13%  Similarity=0.166  Sum_probs=63.0

Q ss_pred             CCccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCC--
Q psy3854          34 YKKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDC--  111 (222)
Q Consensus        34 ~~~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~G--  111 (222)
                      .....|||+|||+.+++++|+++|++||+|.+|.|....    ++      |||||+|.+.++|..|+..|||..|.|  
T Consensus        44 s~vl~l~VgNL~~~vted~L~~~Fs~fG~V~~V~i~~k~----~r------gfAFVeF~d~~~A~~Ai~~LnG~~i~g~g  113 (164)
T 1sjr_A           44 SPVLRIIVENLFYPVTLDVLHQIFSKFGTVLKIITFTKN----NQ------FQALLQYADPVSAQHAKLSLDGQNIYNAC  113 (164)
T ss_dssp             CCEEEEEECSCCSCCCHHHHHHHHHHHSCEEEEEEEESS----SC------EEEEEEESCHHHHHHHHHHSTTBCSSSSC
T ss_pred             CceEEEEEeCcCCCCCHHHHHHHHHhcCCEEEEEEEeCC----CC------CEEEEEECCHHHHHHHHHHhCCCEecCCC
Confidence            345569999999999999999999999999999996432    33      899999999999999999999999965  


Q ss_pred             cccc
Q psy3854         112 RKRS  115 (222)
Q Consensus       112 rk~~  115 (222)
                      +++.
T Consensus       114 ~~L~  117 (164)
T 1sjr_A          114 CTLR  117 (164)
T ss_dssp             SCEE
T ss_pred             cEEE
Confidence            7663

>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=99.56  E-value=3.2e-15  Score=125.04  Aligned_cols=75  Identities=13%  Similarity=0.183  Sum_probs=67.2

Q ss_pred             cCCccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCCc
Q psy3854          33 KYKKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDCR  112 (222)
Q Consensus        33 ~~~~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~Gr  112 (222)
                      .....+|||+|||+.+++++|+++|++||+|.+|.|..+.. |+++      |||||+|.+.++|..|+..+|. .++|+
T Consensus       106 ~~~~~~l~V~nLp~~~t~~~L~~~F~~~G~v~~v~i~~~~~-~~~k------G~aFVeF~~~e~A~~A~~~~~~-~~~Gr  177 (193)
T 2voo_A          106 DVKNRSVYIKGFPTDATLDDIKEWLEDKGQVLNIQMRRTLH-KAFK------GSIFVVFDSIESAKKFVETPGQ-KYKET  177 (193)
T ss_dssp             HHHHTEEEEECCCTTCCHHHHHHHHTTSCCEEEEEEEECTT-CCEE------EEEEEEESSHHHHHHHHHCTTC-EETTE
T ss_pred             ccccCEEEecCCCCcCCHHHHHHHHhcCCCEEEEEEEECCC-CCcc------cEEEEEECCHHHHHHHHHhCCC-eECCE
Confidence            33567899999999999999999999999999999988764 7777      9999999999999999987765 89999


Q ss_pred             ccc
Q psy3854         113 KRS  115 (222)
Q Consensus       113 k~~  115 (222)
                      .+.
T Consensus       178 ~l~  180 (193)
T 2voo_A          178 DLL  180 (193)
T ss_dssp             ECE
T ss_pred             EEE
Confidence            874

>1x5p_A Negative elongation factor E; structure genomics, RRM domain, PARP14, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.56  E-value=1e-14  Score=107.76  Aligned_cols=68  Identities=22%  Similarity=0.296  Sum_probs=61.7

Q ss_pred             CCccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCCcc
Q psy3854          34 YKKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDCRK  113 (222)
Q Consensus        34 ~~~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~Grk  113 (222)
                      ....+|||+|+  .+++++|+++|++||+|.+|.|.      +++      |||||+|.+.++|..|+..|||..|.|++
T Consensus        13 ~~~~~l~V~n~--~~t~~~l~~~F~~~G~i~~v~i~------~~~------g~afV~f~~~~~a~~Ai~~l~g~~~~g~~   78 (97)
T 1x5p_A           13 RKGNTLYVYGE--DMTPTLLRGAFSPFGNIIDLSMD------PPR------NCAFVTYEKMESADQAVAELNGTQVESVQ   78 (97)
T ss_dssp             CCCSEEEEECS--SCCHHHHHHHHTTTSCEEEEEEE------TTT------TEEEEEESSHHHHHHHHHHTTTEEETTEE
T ss_pred             CCCCEEEEcCC--CCCHHHHHHHHhhCCCEEEEEec------CCC------CEEEEEECCHHHHHHHHHHhCCCeECCeE
Confidence            35678999996  99999999999999999999994      344      99999999999999999999999999998


Q ss_pred             cc
Q psy3854         114 RS  115 (222)
Q Consensus       114 ~~  115 (222)
                      +.
T Consensus        79 l~   80 (97)
T 1x5p_A           79 LK   80 (97)
T ss_dssp             EE
T ss_pred             EE
Confidence            74

>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=99.55  E-value=5e-15  Score=124.61  Aligned_cols=71  Identities=15%  Similarity=0.213  Sum_probs=65.0

Q ss_pred             ccEEEEcCCCCCCCHHHHHHHhhcCcce--eEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCCcc
Q psy3854          36 KGIIYLSKVPPHMNVTQLTEFMSRFGEV--GRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDCRK  113 (222)
Q Consensus        36 ~g~VYIsnLP~~m~e~~Lr~lFs~fG~I--~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~Grk  113 (222)
                      ..+|||+|||+.+++++|+++|++||.|  .+|.++++.  ++++      |+|||+|.+.++|..|+..|||+.|.|+.
T Consensus       123 ~~~l~v~NLp~~~t~~~L~~~F~~~G~v~~~~v~~~~~~--~~~~------g~gfV~f~~~~~A~~Ai~~lng~~~~g~~  194 (205)
T 3tyt_A          123 SNVLHFFNAPLEVTEENFFEICDELGVKRPTSVKVFSGK--SERS------SSGLLEWDSKSDALETLGFLNHYQMKNPN  194 (205)
T ss_dssp             CSEEEEEEECTTCCHHHHHHHHHHHTCCCCSEEEECSCC--SSSS------EEEEEECSSHHHHHHHHHHHTTCEECCSS
T ss_pred             cceEEEeCCCCCCCHHHHHHHHHhcCCcceEEEEEEcCC--CCCc------eEEEEEeCCHHHHHHHHHHhCCCCccCCC
Confidence            4579999999999999999999999999  899998875  4455      99999999999999999999999999986


Q ss_pred             c
Q psy3854         114 R  114 (222)
Q Consensus       114 ~  114 (222)
                      .
T Consensus       195 ~  195 (205)
T 3tyt_A          195 G  195 (205)
T ss_dssp             S
T ss_pred             C
Confidence            4

>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=99.54  E-value=1.3e-14  Score=124.41  Aligned_cols=75  Identities=21%  Similarity=0.442  Sum_probs=71.3

Q ss_pred             CccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCCccc
Q psy3854          35 KKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDCRKR  114 (222)
Q Consensus        35 ~~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~Grk~  114 (222)
                      ...+|||+|||+.+++++|+++|++||.|.+|.++.+..+|+++      |||||+|.+.++|..|+..|||..|+|+.+
T Consensus        94 ~~~~l~v~nlp~~~t~~~l~~~f~~~G~i~~~~i~~~~~~g~~~------g~afV~f~~~~~a~~A~~~l~~~~~~g~~i  167 (284)
T 3smz_A           94 TDALLCVANLPPSLTQQQFEELVRPFGSLERCFLVYSERTGQSK------GYGFAEYMKKDSAARAKSDLLGKPLGPRTL  167 (284)
T ss_dssp             CSCEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEECTTTCCEE------EEEEEEESSHHHHHHHHHHHTTCEETTEEC
T ss_pred             CCCEEEEcCCCCcCCHHHHHHHHHhcCCeeEEEEEeeCCCCccc------eEEEEEECCHHHHHHHHHHhCCCEeCCcEE
Confidence            45789999999999999999999999999999999998889888      999999999999999999999999999987


Q ss_pred             c
Q psy3854         115 S  115 (222)
Q Consensus       115 ~  115 (222)
                      .
T Consensus       168 ~  168 (284)
T 3smz_A          168 Y  168 (284)
T ss_dssp             E
T ss_pred             E
Confidence            4

>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=99.54  E-value=1e-14  Score=116.05  Aligned_cols=73  Identities=19%  Similarity=0.195  Sum_probs=65.2

Q ss_pred             ccCCccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCC
Q psy3854          32 KKYKKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDC  111 (222)
Q Consensus        32 k~~~~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~G  111 (222)
                      ......+|||+|||+.+++++|+++|++||.|..+     ..+|+++      |||||+|.+.++|..|+..|||..|+|
T Consensus        95 ~~~~~~~l~v~nlp~~~t~~~l~~~F~~~g~v~~~-----~~~~~~~------g~afV~f~~~~~A~~A~~~l~g~~~~g  163 (175)
T 1fje_B           95 KVRAARTLLAKNLSFNITEDELKEVFEDALEIRLV-----SQDGKSK------GIAYIEFKSEADAEKNLEEKQGAEIDG  163 (175)
T ss_dssp             TTGGGGEEEEESCCSSCCHHHHHHHCTTCSEEEEE-----CSSSSCC------SEEEEECSSHHHHHHHHHHHTEEEETT
T ss_pred             ccccCCEEEEeCCCCCCCHHHHHHHHHhcCeEEEe-----cCCCCCc------eEEEEEECCHHHHHHHHHHhCCCEECC
Confidence            33456789999999999999999999999998776     4457777      999999999999999999999999999


Q ss_pred             cccc
Q psy3854         112 RKRS  115 (222)
Q Consensus       112 rk~~  115 (222)
                      +.+.
T Consensus       164 ~~i~  167 (175)
T 1fje_B          164 RSVS  167 (175)
T ss_dssp             EEEE
T ss_pred             eEEE
Confidence            9874

>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=99.54  E-value=1.7e-14  Score=123.89  Aligned_cols=72  Identities=15%  Similarity=0.394  Sum_probs=66.0

Q ss_pred             ccCCccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCC
Q psy3854          32 KKYKKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDC  111 (222)
Q Consensus        32 k~~~~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~G  111 (222)
                      ......+|||+|||+++++++|+++|++||.|.+|.|.+      ++      |||||+|.+.++|..|+..|||..|.|
T Consensus        18 ~~~~~~~l~V~nLp~~~te~~l~~~F~~~G~i~~v~i~~------~k------g~afV~f~~~~~A~~A~~~l~g~~i~g   85 (261)
T 3sde_A           18 TYTQRCRLFVGNLPTDITEEDFKRLFERYGEPSEVFINR------DR------GFGFIRLESRTLAEIAKAELDGTILKS   85 (261)
T ss_dssp             SSCGGGEEEEESCCTTCCHHHHHHHTGGGCCCSEEEEET------TT------TEEEEECSSHHHHHHHHHHHTTCEETT
T ss_pred             CCCCCCEEEEECCCCCCCHHHHHHHHHhcCCEEEEEEeC------CC------cEEEEEECCHHHHHHHHHHcCCcEECC
Confidence            445678899999999999999999999999999999954      34      999999999999999999999999999


Q ss_pred             cccc
Q psy3854         112 RKRS  115 (222)
Q Consensus       112 rk~~  115 (222)
                      +.+.
T Consensus        86 ~~l~   89 (261)
T 3sde_A           86 RPLR   89 (261)
T ss_dssp             EECE
T ss_pred             ceeE
Confidence            9874

>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=99.53  E-value=1.8e-14  Score=121.34  Aligned_cols=74  Identities=15%  Similarity=0.281  Sum_probs=67.8

Q ss_pred             cccCCccEEEEcCCCC-CCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCcc
Q psy3854          31 SKKYKKGIIYLSKVPP-HMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQI  109 (222)
Q Consensus        31 ~k~~~~g~VYIsnLP~-~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i  109 (222)
                      .......+|||+|||+ .+++++|+++|++||.|.+|.|+++.     +      |||||+|.+.++|..|++.|||..|
T Consensus        29 ~~~~~~~~l~V~nLp~~~~te~~L~~~F~~~G~i~~v~i~~~~-----~------g~afV~F~~~~~A~~Ai~~l~g~~~   97 (229)
T 2adc_A           29 LAGAGNSVLLVSNLNPERVTPQSLFILFGVYGDVQRVKILFNK-----K------ENALVQMADGNQAQLAMSHLNGHKL   97 (229)
T ss_dssp             GGCCCCSEEEEESCCTTTCCHHHHHHHHHHHTCEEEEEECCTT-----S------CCEEEEESCHHHHHHHHHHHTTCBC
T ss_pred             CCCCCCCEEEEeCCCcccCCHHHHHHHHHhCCCeEEEEEEECC-----C------CEEEEEECCHHHHHHHHHHhCCCeE
Confidence            3445677899999999 99999999999999999999999875     3      8999999999999999999999999


Q ss_pred             CCcccc
Q psy3854         110 DCRKRS  115 (222)
Q Consensus       110 ~Grk~~  115 (222)
                      .|+.+.
T Consensus        98 ~g~~l~  103 (229)
T 2adc_A           98 HGKPIR  103 (229)
T ss_dssp             SSSBCE
T ss_pred             CCeEEE
Confidence            999874

>2diu_A KIAA0430 protein; structural genomics, RRM domain, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.53  E-value=1.7e-14  Score=110.67  Aligned_cols=65  Identities=12%  Similarity=0.271  Sum_probs=58.4

Q ss_pred             CccEEEEcCCCCCCCHHH----HHHHhhcC-cceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCcc
Q psy3854          35 KKGIIYLSKVPPHMNVTQ----LTEFMSRF-GEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQI  109 (222)
Q Consensus        35 ~~g~VYIsnLP~~m~e~~----Lr~lFs~f-G~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i  109 (222)
                      ..+.|||+|||+.+++++    |+++|++| |+|.+|       +|         |+|||.|.+.++|.+|+..|||.+|
T Consensus         8 ~~T~lYV~NL~~~~~~~~lk~~L~~lF~~yGG~Vl~V-------tg---------G~AfV~F~~~esA~~A~~~l~G~~l   71 (96)
T 2diu_A            8 CHTLLYVYNLPANKDGKSVSNRLRRLSDNCGGKVLSI-------TG---------CSAILRFINQDSAERAQKRMENEDV   71 (96)
T ss_dssp             SSEEEEEESCCTTSCHHHHHHHHHHHHHTTTCCEEEC-------CT---------TCEEEEESSHHHHHHHHHHHTTCCS
T ss_pred             cceEEEEeCCCCcCCHHHHHHHHHHHHHHcCCeeEEE-------ec---------CEEEEEECCHHHHHHHHHHhcCCcc
Confidence            344599999999999998    55899999 599999       33         8999999999999999999999999


Q ss_pred             CCcccc
Q psy3854         110 DCRKRS  115 (222)
Q Consensus       110 ~Grk~~  115 (222)
                      .||++.
T Consensus        72 ~gr~i~   77 (96)
T 2diu_A           72 FGNRII   77 (96)
T ss_dssp             SSSCCE
T ss_pred             CCceEE
Confidence            999974

>1qm9_A Polypyrimidine tract-binding protein; ribonucleoprotein, RNP, RNA, spicing, translation; NMR {Homo sapiens} SCOP: d.58.7.1 d.58.7.1

Probab=99.53  E-value=1.1e-14  Score=118.44  Aligned_cols=69  Identities=16%  Similarity=0.335  Sum_probs=64.8

Q ss_pred             ccEEEEcCCCC-CCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCCccc
Q psy3854          36 KGIIYLSKVPP-HMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDCRKR  114 (222)
Q Consensus        36 ~g~VYIsnLP~-~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~Grk~  114 (222)
                      ..+|||+|||+ .+++++|+++|++||.|.+|.|+.+.     +      |||||+|.+.++|..|+..|||..+.|+.+
T Consensus         3 ~~~l~v~nlp~~~~~~~~l~~~F~~~G~i~~v~i~~~~-----~------g~afV~f~~~~~a~~A~~~l~~~~~~g~~l   71 (198)
T 1qm9_A            3 NSVLLVSNLNPERVTPQSLFILFGVYGDVQRVKILFNK-----K------ENALVQMADGNQAQLAMSHLNGHKLHGKPI   71 (198)
T ss_dssp             CCEEEEECCCSSSCCHHHHHHHHHTTCCCSEEECSTTC-----S------SCCEEECTTTHHHHHHHHHHTTCCCSSCCC
T ss_pred             CcEEEEeCCCcccCCHHHHHHHHHhcCCEEEEEEEeCC-----C------CEEEEEECCHHHHHHHHHHhCCCeecCeEE
Confidence            46899999999 99999999999999999999998875     3      899999999999999999999999999987


Q ss_pred             c
Q psy3854         115 S  115 (222)
Q Consensus       115 ~  115 (222)
                      .
T Consensus        72 ~   72 (198)
T 1qm9_A           72 R   72 (198)
T ss_dssp             E
T ss_pred             E
Confidence            4

>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=99.52  E-value=1.2e-14  Score=125.15  Aligned_cols=76  Identities=16%  Similarity=0.273  Sum_probs=68.8

Q ss_pred             cCCccEEEEcCCCCC-CCHHHHHHHhhcCcceeEEEEecCCC-CCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccC
Q psy3854          33 KYKKGIIYLSKVPPH-MNVTQLTEFMSRFGEVGRVYLMPKKR-KPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQID  110 (222)
Q Consensus        33 ~~~~g~VYIsnLP~~-m~e~~Lr~lFs~fG~I~rv~L~~d~~-tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~  110 (222)
                      .....+|||+|||+. +++++|+++|++||.|.+|.|+++.. +|+++      |||||+|.+.++|..|+ .|||..|+
T Consensus       207 ~~~~~~l~v~nlp~~~~t~~~l~~~F~~~G~v~~v~i~~~~~~tg~~~------g~afV~F~~~~~A~~A~-~l~g~~~~  279 (292)
T 2ghp_A          207 TLEGREIMIRNLSTELLDENLLRESFEGFGSIEKINIPAGQKEHSFNN------CCAFMVFENKDSAERAL-QMNRSLLG  279 (292)
T ss_dssp             CCTTTEEEEEEECTTTCCHHHHHHHHGGGSCEEEEECCSCCC---CCC------EEEEEEESSHHHHHHHG-GGTTEEET
T ss_pred             CCCCceEEEECCCcccCCHHHHHHHHhccCCeeEEEEEecCCcCCCCc------eEEEEEeCCHHHHHHHH-HhcCCEEC
Confidence            345688999999999 99999999999999999999998876 58888      99999999999999999 99999999


Q ss_pred             Ccccc
Q psy3854         111 CRKRS  115 (222)
Q Consensus       111 Grk~~  115 (222)
                      |+.+.
T Consensus       280 g~~i~  284 (292)
T 2ghp_A          280 NREIS  284 (292)
T ss_dssp             TEEEE
T ss_pred             CcEEE
Confidence            99874

>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=99.52  E-value=2.5e-14  Score=122.59  Aligned_cols=72  Identities=11%  Similarity=0.219  Sum_probs=66.4

Q ss_pred             CccEEEEcCCCCCCCHHHHH----HHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccC
Q psy3854          35 KKGIIYLSKVPPHMNVTQLT----EFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQID  110 (222)
Q Consensus        35 ~~g~VYIsnLP~~m~e~~Lr----~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~  110 (222)
                      ...+|||+|||+.+++++|+    ++|++||.|.+|.|+.   +|++|      |||||+|.+.++|..|+..|||..|.
T Consensus         8 ~~~~l~V~nlp~~~~~~~l~~~L~~~F~~~G~i~~v~~~~---~~~~~------g~afV~f~~~~~a~~A~~~l~g~~~~   78 (282)
T 3pgw_A            8 PNHTIYINNLNEKIKKDELKKSLYAIFSQFGQILDILVSR---SLKMR------GQAFVIFKEVSSATNALRSMQGFPFY   78 (282)
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHHHHhccCCeEEEEEcC---CCCcc------eEEEEEECCHHHHHHHHHHhcCCeeC
Confidence            46789999999999999977    9999999999999986   47777      99999999999999999999999999


Q ss_pred             Ccccc
Q psy3854         111 CRKRS  115 (222)
Q Consensus       111 Grk~~  115 (222)
                      |+.+.
T Consensus        79 g~~l~   83 (282)
T 3pgw_A           79 DKPMR   83 (282)
T ss_pred             CcEEE
Confidence            99874

>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=99.51  E-value=3.5e-14  Score=122.28  Aligned_cols=78  Identities=12%  Similarity=0.144  Sum_probs=65.1

Q ss_pred             cccccCCccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCc
Q psy3854          29 ENSKKYKKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQ  108 (222)
Q Consensus        29 ~~~k~~~~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~  108 (222)
                      ..+......+|||+|||+.+++++|+++|++||+|.+|.|+++..+  ++      |||||+|.+.++|..|+ .|||..
T Consensus        34 ~~~~~~~~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~--~~------g~afV~f~~~~~A~~A~-~~~~~~  104 (292)
T 2ghp_A           34 ALTRNRELTTVLVKNLPKSYNQNKVYKYFKHCGPIIHVDVADSLKK--NF------RFARIEFARYDGALAAI-TKTHKV  104 (292)
T ss_dssp             --------CEEEEEEECTTCCHHHHHHHHGGGSCEEEEEEEECTTS--SS------EEEEEEESSHHHHHHHH-TTTTCE
T ss_pred             ccccCCCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEECCCC--Cc------EEEEEEECCHHHHHHHH-HhCCcE
Confidence            3345667889999999999999999999999999999999998653  34      99999999999999999 599999


Q ss_pred             cCCcccc
Q psy3854         109 IDCRKRS  115 (222)
Q Consensus       109 i~Grk~~  115 (222)
                      |+|+.+.
T Consensus       105 ~~g~~i~  111 (292)
T 2ghp_A          105 VGQNEII  111 (292)
T ss_dssp             ETTEECE
T ss_pred             eCCcEEE
Confidence            9999875

>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=99.50  E-value=5.2e-15  Score=117.76  Aligned_cols=76  Identities=9%  Similarity=0.155  Sum_probs=66.9

Q ss_pred             ccCCccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCC
Q psy3854          32 KKYKKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDC  111 (222)
Q Consensus        32 k~~~~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~G  111 (222)
                      ......+|||+|||+.+++++|+++|++||.|.. .++.+..+|+++      |||||+|.+.++|..|+ .|||..|.|
T Consensus         9 ~~~~~~~l~V~nLp~~~t~~~l~~~f~~~g~~~~-~~~~~~~~~~~~------g~afV~f~~~~~a~~A~-~l~g~~~~g   80 (175)
T 1fje_B            9 ESTTPFNLFIGNLNPNKSVAELKVAISELFAKND-LAVVDVRTGTNR------KFGYVDFESAEDLEKAL-ELTGLKVFG   80 (175)
T ss_dssp             SCSSSEEEEEECCCTTSCHHHHHHHHHHHHHHHT-CCCCEEEEETTT------TEEEEEESSHHHHHHHH-HGGGEEETT
T ss_pred             CCCCCcEEEEeCCCCCCCHHHHHHHHHHhCCcce-EEEEECCCCccc------cEEEEEECCHHHHHHHH-hcCCCEeCC
Confidence            4456789999999999999999999999999987 344555667777      99999999999999999 599999999


Q ss_pred             cccc
Q psy3854         112 RKRS  115 (222)
Q Consensus       112 rk~~  115 (222)
                      +++.
T Consensus        81 ~~l~   84 (175)
T 1fje_B           81 NEIK   84 (175)
T ss_dssp             EEEE
T ss_pred             eEEE
Confidence            9874

>1qm9_A Polypyrimidine tract-binding protein; ribonucleoprotein, RNP, RNA, spicing, translation; NMR {Homo sapiens} SCOP: d.58.7.1 d.58.7.1

Probab=99.50  E-value=6.7e-14  Score=113.86  Aligned_cols=70  Identities=19%  Similarity=0.247  Sum_probs=64.6

Q ss_pred             CccEEEEcCCCCCCCHHHHHHHhhcCc-ceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccC-Cc
Q psy3854          35 KKGIIYLSKVPPHMNVTQLTEFMSRFG-EVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQID-CR  112 (222)
Q Consensus        35 ~~g~VYIsnLP~~m~e~~Lr~lFs~fG-~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~-Gr  112 (222)
                      ...+|||+|||+.+++++|+++|++|| .|.+|.|+++.     +      |+|||+|.+.++|..|+..|||..|+ |+
T Consensus       119 ~~~~l~v~nl~~~~~~~~l~~~f~~~G~~v~~v~i~~~~-----~------g~afV~f~~~~~A~~A~~~l~g~~~~~g~  187 (198)
T 1qm9_A          119 PSATLHLSNIPPSVSEEDLKVLFSSNGGVVKGFKFFQKD-----R------KMALIQMGSVEEAVQALIDLHNHDLGENH  187 (198)
T ss_dssp             CCCEEEECCCCTTCCHHHHHHHHHHTTSCCCEEEESSTT-----S------SCEEEECSSHHHHHHHHHHHTSSCCSSCC
T ss_pred             CccEEEEeCCCCCCCHHHHHHHHHHcCCCceEEEEEeCC-----C------cEEEEEeCCHHHHHHHHHHhcCCccCCCC
Confidence            367899999999999999999999999 99999998753     3      89999999999999999999999999 88


Q ss_pred             ccc
Q psy3854         113 KRS  115 (222)
Q Consensus       113 k~~  115 (222)
                      ++.
T Consensus       188 ~l~  190 (198)
T 1qm9_A          188 HLR  190 (198)
T ss_dssp             SCC
T ss_pred             eEE
Confidence            874

>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=99.50  E-value=3.9e-14  Score=108.24  Aligned_cols=74  Identities=11%  Similarity=0.120  Sum_probs=63.9

Q ss_pred             ccEEEEcCC--CCCCCH--------HHHHHHhhcCcceeEEEEecCCCC--CCCCCCCCCccEEEEEecchHHHHHHHHH
Q psy3854          36 KGIIYLSKV--PPHMNV--------TQLTEFMSRFGEVGRVYLMPKKRK--PGEKKPAKQFTEGWIEFLKKKVAKQVAAQ  103 (222)
Q Consensus        36 ~g~VYIsnL--P~~m~e--------~~Lr~lFs~fG~I~rv~L~~d~~t--gksKkk~~~~g~GfVEF~dk~~Ak~A~~~  103 (222)
                      +.+|.|.|+  |..+.+        ++|+++|++||+|.+|+|+.+..+  ++++      |+|||+|.+.++|.+|+..
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 TEVLCLMNMVLPEELLDDEEYEEIVEDVRDECSKYGLVKSIEIPRPVDGVEVPGC------GKIFVEFTSVFDCQKAMQG   78 (105)
T ss_dssp             CSEEEEESSCCGGGSSSHHHHHHHHHHHHHHHHTTSCEEEEECCCCBTTBCCTTT------TEEEEEESSHHHHHHHHHH
T ss_pred             CeEEEEECCCCHHHccChHHHHHHHHHHHHHHHccCCEEEEEEeccCCCCCcCCc------EEEEEEECCHHHHHHHHHH
Confidence            567899998  555543        699999999999999999887654  3455      9999999999999999999


Q ss_pred             hcCCccCCcccc
Q psy3854         104 YNNTQIDCRKRS  115 (222)
Q Consensus       104 LNg~~i~Grk~~  115 (222)
                      |||+.++||.+.
T Consensus        79 lnG~~f~GR~i~   90 (105)
T 3v4m_A           79 LTGRKFANRVVV   90 (105)
T ss_dssp             HTTCEETTEECE
T ss_pred             hCCCEeCCCEEE
Confidence            999999999984

>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=99.49  E-value=3.6e-14  Score=102.90  Aligned_cols=65  Identities=15%  Similarity=0.347  Sum_probs=55.8

Q ss_pred             CccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCcc--CCc
Q psy3854          35 KKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQI--DCR  112 (222)
Q Consensus        35 ~~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i--~Gr  112 (222)
                      ...+|||+|||+.+++++|+++|++||+|.+|.|+.+     ++      |||||+|.+.++|+.    ||+..+  .|+
T Consensus         4 ~~~~l~V~nLp~~~te~~l~~~F~~~G~i~~v~i~~~-----~~------g~afV~f~~~~~a~~----~~~~~~~~~g~   68 (88)
T 1wf0_A            4 GSSGVFVGRCTGDMTEDELREFFSQYGDVMDVFIPKP-----FR------AFAFVTFADDQIAQS----LCGEDLIIKGI   68 (88)
T ss_dssp             CCCEEEEESCCSSSCHHHHHHHSTTTSCCCEEECCSS-----CC------SCCEEECSCHHHHHH----TTTCEEEETTE
T ss_pred             CCcEEEEeCCCCCCCHHHHHHHHHHcCCeeEEEEecC-----CC------CEEEEEECCHHHHHH----HhcCCceeCCE
Confidence            4678999999999999999999999999999999865     44      999999999999974    566655  666


Q ss_pred             cc
Q psy3854         113 KR  114 (222)
Q Consensus       113 k~  114 (222)
                      ++
T Consensus        69 ~l   70 (88)
T 1wf0_A           69 SV   70 (88)
T ss_dssp             EE
T ss_pred             EE
Confidence            54

>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=99.48  E-value=6.4e-14  Score=120.07  Aligned_cols=70  Identities=19%  Similarity=0.319  Sum_probs=64.4

Q ss_pred             CccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccC-Ccc
Q psy3854          35 KKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQID-CRK  113 (222)
Q Consensus        35 ~~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~-Grk  113 (222)
                      ...+|||+|||+.+++++|+++|++||.|.+|.|+++.     +      |||||+|.+.++|..|+..|||..|+ |+.
T Consensus       206 ~~~~l~v~nl~~~~~~~~l~~~F~~~G~i~~v~~~~~~-----~------g~afV~f~~~~~A~~A~~~l~g~~~~~g~~  274 (282)
T 3pgw_A          206 PNHILFLTNLPEETNELMLSMLFNQFPGFKEVRLVPGR-----H------DIAFVEFDNEVQAGAARDALQGFKITQNNA  274 (282)
T ss_pred             CCCEEEEeCCCCcCCHHHHHHHHHhcCCeEEEEEecCC-----C------cEEEEEeCCHHHHHHHHHHcCCcEeCCCCE
Confidence            45679999999999999999999999999999998654     2      89999999999999999999999999 887


Q ss_pred             cc
Q psy3854         114 RS  115 (222)
Q Consensus       114 ~~  115 (222)
                      +.
T Consensus       275 l~  276 (282)
T 3pgw_A          275 MK  276 (282)
T ss_pred             EE
Confidence            63

>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=99.46  E-value=1.8e-13  Score=115.22  Aligned_cols=70  Identities=19%  Similarity=0.247  Sum_probs=64.4

Q ss_pred             CccEEEEcCCCCCCCHHHHHHHhhcCc-ceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccC-Cc
Q psy3854          35 KKGIIYLSKVPPHMNVTQLTEFMSRFG-EVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQID-CR  112 (222)
Q Consensus        35 ~~g~VYIsnLP~~m~e~~Lr~lFs~fG-~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~-Gr  112 (222)
                      ...+|||+|||+.+++++|+++|++|| .|.+|.|+++.     +      |+|||+|.+.++|..|+..|||..|+ |+
T Consensus       150 ~~~~l~V~nlp~~~t~~~l~~~f~~~G~~i~~v~i~~~~-----~------g~afV~f~~~~~A~~Ai~~l~g~~~~~g~  218 (229)
T 2adc_A          150 PSATLHLSNIPPSVSEEDLKVLFSSNGGVVKGFKFFQKD-----R------KMALIQMGSVEEAVQALIDLHNHDLGENH  218 (229)
T ss_dssp             SCSEEEEECCCTTCCHHHHHHHHHTTSCCEEEEEECSSS-----T------TCEEEEESSHHHHHHHHHHHTTCBSSSSC
T ss_pred             CCCEEEEeCCCccCCHHHHHHHHHHcCCCeeEEEEEECC-----C------cEEEEEECCHHHHHHHHHHHCCCccCCCC
Confidence            357899999999999999999999999 99999998742     3      89999999999999999999999999 88


Q ss_pred             ccc
Q psy3854         113 KRS  115 (222)
Q Consensus       113 k~~  115 (222)
                      ++.
T Consensus       219 ~l~  221 (229)
T 2adc_A          219 HLR  221 (229)
T ss_dssp             BCE
T ss_pred             eEE
Confidence            874

>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=99.44  E-value=2.5e-14  Score=108.96  Aligned_cols=68  Identities=12%  Similarity=0.199  Sum_probs=60.2

Q ss_pred             EcCCCCCCCHHHHHHHh------------hcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCc
Q psy3854          41 LSKVPPHMNVTQLTEFM------------SRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQ  108 (222)
Q Consensus        41 IsnLP~~m~e~~Lr~lF------------s~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~  108 (222)
                      +.+||+.+++++|+++|            ++||+|.+|.|+++.. ++++      |||||+|.+.++|.+|+..|||+.
T Consensus        20 ~~~l~~~~~~~~l~~~f~~~~edl~~~f~~~~G~V~~v~i~~~~~-~~~~------G~~fV~f~~~~~A~~A~~~lng~~   92 (104)
T 1jmt_A           20 ADGLRSAVSDVEMQEHYDEFFEEVFTEMEEKYGEVEEMNVCDNLG-DHLV------GNVYVKFRREEDAEKAVIDLNNRW   92 (104)
T ss_dssp             -CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCCEEEEEECCSSS-SSSE------EEEEEEESCHHHHHHHHHHHTTCE
T ss_pred             cCCcccccCHHHHHHHHHHHHHHHHHHhhccCCceEEEEEEeCCC-CCcc------EEEEEEECCHHHHHHHHHHHCCCE
Confidence            56788888888888777            9999999999988754 6777      999999999999999999999999


Q ss_pred             cCCcccc
Q psy3854         109 IDCRKRS  115 (222)
Q Consensus       109 i~Grk~~  115 (222)
                      ++||.+.
T Consensus        93 ~~Gr~i~   99 (104)
T 1jmt_A           93 FNGQPIH   99 (104)
T ss_dssp             ETTEECC
T ss_pred             ECCEEEE
Confidence            9999874

>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=99.44  E-value=1e-13  Score=108.61  Aligned_cols=75  Identities=19%  Similarity=0.249  Sum_probs=64.6

Q ss_pred             CccEEEEcCCCC--CC---CHHHHHHHhhcCcceeEEEEecCCC----CCCCCCCCCCccEEEEEecchHHHHHHHHHhc
Q psy3854          35 KKGIIYLSKVPP--HM---NVTQLTEFMSRFGEVGRVYLMPKKR----KPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYN  105 (222)
Q Consensus        35 ~~g~VYIsnLP~--~m---~e~~Lr~lFs~fG~I~rv~L~~d~~----tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LN  105 (222)
                      .+.+|+|.|+-.  .+   -+++|++.|++||+|.+|+|..+..    +++++      |+|||+|.+.++|.+|+..||
T Consensus        19 ps~vl~L~Nm~~~~el~ddleedl~eef~k~G~V~~v~I~~~~~~~~~~~~~~------G~~FV~F~~~e~A~~Ai~~Ln   92 (118)
T 3ue2_A           19 ESTVMVLRNMVDPKDIDDDLEGEVTEECGKFGAVNRVIIYQEKQGEEEDAEII------VKIFVEFSIASETHKAIQALN   92 (118)
T ss_dssp             SCCEEEEESCSCGGGCCTTHHHHHHHHHTTTSCEEEEEEEEEEESSSTTCEEE------EEEEEEESSHHHHHHHHHHHT
T ss_pred             CCCEEEEECCCCHHHHHHHHHHHHHHHHhccCCEeEEEEeecCCCcccCCcce------EEEEEEECCHHHHHHHHHHHC
Confidence            567899999842  22   2579999999999999999998754    35666      999999999999999999999


Q ss_pred             CCccCCcccc
Q psy3854         106 NTQIDCRKRS  115 (222)
Q Consensus       106 g~~i~Grk~~  115 (222)
                      |+.++||.+.
T Consensus        93 Gr~f~GR~i~  102 (118)
T 3ue2_A           93 GRWFAGRKVV  102 (118)
T ss_dssp             TCEETTEECE
T ss_pred             CCEECCcEEE
Confidence            9999999974

>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=99.44  E-value=1.7e-13  Score=108.17  Aligned_cols=68  Identities=15%  Similarity=0.276  Sum_probs=60.4

Q ss_pred             CccEEEEcCCCCCCCHHHHHHHhhcC----c-------ceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHH
Q psy3854          35 KKGIIYLSKVPPHMNVTQLTEFMSRF----G-------EVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQ  103 (222)
Q Consensus        35 ~~g~VYIsnLP~~m~e~~Lr~lFs~f----G-------~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~  103 (222)
                      ...+|||+|||+.+++++|+++|++|    |       .|.++.+.+      ++      |||||+|.+.++|..|+ .
T Consensus         3 ~~~~l~V~nLp~~~t~~~l~~~F~~~g~~~g~~~~~~~~v~~~~~~~------~~------g~afV~f~~~~~A~~A~-~   69 (172)
T 2g4b_A            3 SARRLYVGNIPFGITEEAMMDFFNAQMRLGGLTQAPGNPVLAVQINQ------DK------NFAFLEFRSVDETTQAM-A   69 (172)
T ss_dssp             GGGEEEEESCCTTCCHHHHHHHHHHHHHHTTCCSSSSCSEEEEEEET------TT------TEEEEEESSHHHHHHHG-G
T ss_pred             cccEEEEcCCCcccCHHHHHHHHHHHhhhcccccCCCCceeeeEecC------CC------CEEEEEeCCHHHHHHHH-H
Confidence            45789999999999999999999999    5       677777643      34      99999999999999999 9


Q ss_pred             hcCCccCCcccc
Q psy3854         104 YNNTQIDCRKRS  115 (222)
Q Consensus       104 LNg~~i~Grk~~  115 (222)
                      |||..|.|+++.
T Consensus        70 ~~~~~~~g~~i~   81 (172)
T 2g4b_A           70 FDGIIFQGQSLK   81 (172)
T ss_dssp             GTTCEETTEECE
T ss_pred             hCCcEecCceee
Confidence            999999999874

>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=99.43  E-value=3.7e-13  Score=102.49  Aligned_cols=74  Identities=12%  Similarity=0.200  Sum_probs=62.4

Q ss_pred             ccCCccEEEEcCCCCCCC-----------HHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHH
Q psy3854          32 KKYKKGIIYLSKVPPHMN-----------VTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQV  100 (222)
Q Consensus        32 k~~~~g~VYIsnLP~~m~-----------e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A  100 (222)
                      +.....+|+|.||....+           +++|+++|++||+|.+|.| ++..   ++      |||||+|.+.++|..|
T Consensus        11 ~~~~s~~l~l~Nl~~~~~~~~~~~~~~~~e~~l~~~f~~~G~v~~v~i-~~~~---~~------G~afV~f~~~~~A~~A   80 (112)
T 2dit_A           11 RMRHERVVIIKNMFHPMDFEDDPLVLNEIREDLRVECSKFGQIRKLLL-FDRH---PD------GVASVSFRDPEEADYC   80 (112)
T ss_dssp             CCCSCCEEEEESSCCTTHHHHCSHHHHHHHHHHHHHGGGTSCCSEEEE-ETTC---TT------CEEEEECSCHHHHHHH
T ss_pred             CCCCceEEEEEcCCCHHHhccCHHHHHHHHHHHHHHHHccCCEeEEEE-ecCC---CC------EEEEEEECCHHHHHHH
Confidence            444677899999944432           5799999999999999966 5532   45      9999999999999999


Q ss_pred             HHHhcCCccCCcccc
Q psy3854         101 AAQYNNTQIDCRKRS  115 (222)
Q Consensus       101 ~~~LNg~~i~Grk~~  115 (222)
                      +..|||..|+|+++.
T Consensus        81 i~~lng~~~~gr~l~   95 (112)
T 2dit_A           81 IQTLDGRWFGGRQIT   95 (112)
T ss_dssp             HHHSTTCEETTEECE
T ss_pred             HHHcCCCEECCcEEE
Confidence            999999999999974

>3u1l_A PRE-mRNA-splicing factor CWC2; CSMP, zinc finger; 1.64A {Saccharomyces cerevisiae} PDB: 3u1m_A 3tp2_A

Probab=99.43  E-value=1.5e-13  Score=120.13  Aligned_cols=64  Identities=17%  Similarity=0.349  Sum_probs=59.4

Q ss_pred             CCccEEEEcCCCCCC---------CHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHh
Q psy3854          34 YKKGIIYLSKVPPHM---------NVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQY  104 (222)
Q Consensus        34 ~~~g~VYIsnLP~~m---------~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~L  104 (222)
                      ....+|||||||+.+         ++++|+++|++||+|.+|.|++.      |      |||||+|.+.++|+.|++.|
T Consensus       132 ~~~rtLfVgnL~~~~~~~~~~~~~tEe~L~~~F~~fG~I~~v~v~~~------k------G~AFV~F~~~~~Ae~A~~am  199 (240)
T 3u1l_A          132 KKNKTLYVGGIDGALNSKHLKPAQIESRIRFVFSRLGDIDRIRYVES------K------NCGFVKFKYQANAEFAKEAM  199 (240)
T ss_dssp             CCCCEEEEECTTGGGTTCCCCHHHHHHHHHHHHHTTSCEEEEEEEGG------G------TEEEEEESSHHHHHHHHHHH
T ss_pred             cCCceeecCCCChhhhcccccccCcHHHHHHHHHccCCEEEEEEECC------C------CEEEEEeCCHHHHHHHHHHh
Confidence            356789999999999         79999999999999999999863      4      99999999999999999999


Q ss_pred             cCCcc
Q psy3854         105 NNTQI  109 (222)
Q Consensus       105 Ng~~i  109 (222)
                      ||+.|
T Consensus       200 ~g~~l  204 (240)
T 3u1l_A          200 SNQTL  204 (240)
T ss_dssp             TTCCC
T ss_pred             CCCEE
Confidence            99999

>2yh0_A Splicing factor U2AF 65 kDa subunit; PRE-mRNA splicing, transcription, RNA binding protein, mRNA processing; NMR {Homo sapiens} PDB: 2yh1_A

Probab=99.40  E-value=3.4e-13  Score=108.72  Aligned_cols=68  Identities=13%  Similarity=0.222  Sum_probs=58.7

Q ss_pred             CccEEEEcCCCCCCCHHHHHHHhhcCc-----------ceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHH
Q psy3854          35 KKGIIYLSKVPPHMNVTQLTEFMSRFG-----------EVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQ  103 (222)
Q Consensus        35 ~~g~VYIsnLP~~m~e~~Lr~lFs~fG-----------~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~  103 (222)
                      ...+|||+|||+++++++|+++|++||           .|.++.+      ++++      |||||+|.+.++|..|+ .
T Consensus         3 ~~~~l~V~nLp~~~te~~l~~~F~~~g~i~g~~~~~~~~v~~~~~------~~~~------g~afV~F~~~~~A~~Al-~   69 (198)
T 2yh0_A            3 MARRLYVGNIPFGITEEAMMDFFNAQMRLGGLTQAPGNPVLAVQI------NQDK------NFAFLEFRSVDETTQAM-A   69 (198)
T ss_dssp             -CCEEEEESCCTTCCHHHHHHHHHHHHHHHTCCSSSSCSEEEEEE------ETTT------TEEEEEESCSHHHHHHG-G
T ss_pred             ceeEEEEcCCCCCCCHHHHHHHHHHHHhhcccccCCCCceEEeEe------cCCC------CEEEEEeCCHHHHHHHH-H
Confidence            357899999999999999999999996           4555544      4455      99999999999999999 8


Q ss_pred             hcCCccCCcccc
Q psy3854         104 YNNTQIDCRKRS  115 (222)
Q Consensus       104 LNg~~i~Grk~~  115 (222)
                      |||..|.|+.+.
T Consensus        70 l~g~~~~g~~i~   81 (198)
T 2yh0_A           70 FDGIIFQGQSLK   81 (198)
T ss_dssp             GTTEEETTEEEE
T ss_pred             hcCCEEcCceEE
Confidence            999999999874

>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=99.38  E-value=5.2e-13  Score=122.17  Aligned_cols=64  Identities=14%  Similarity=0.292  Sum_probs=57.6

Q ss_pred             CCccEEEEcC--CCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCcc
Q psy3854          34 YKKGIIYLSK--VPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQI  109 (222)
Q Consensus        34 ~~~g~VYIsn--LP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i  109 (222)
                      ..+.+|||||  |++.+++++|+++|++||+|.+|.+.+      +|      |||||+|.+.++|+.|++.|||+.+
T Consensus        16 ~ps~~l~VgN~gl~~~~te~~L~~~F~~~G~V~~v~~~~------~k------gfaFV~f~~~~~A~~Ai~~lnG~~~   81 (345)
T 3tht_A           16 YATQSLVVANGGLGNGVSRNQLLPVLEKCGLVDALLMPP------NK------PYSFARYRTTEESKRAYVTLNGKEV   81 (345)
T ss_dssp             SCCSEEEEETCSGGGTCCHHHHHHHHHTTSCEEEEECCT------TC------SEEEEEESSHHHHHHHHHHTTTCEE
T ss_pred             CCCCEEEEEcCCCCCCCCHHHHHHHHHhcCCeEEEEEeC------CC------CEEEEEECCHHHHHHHHHHhCCCcc
Confidence            3456899999  589999999999999999999998754      34      9999999999999999999999988

>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=99.24  E-value=2.1e-11  Score=94.92  Aligned_cols=71  Identities=10%  Similarity=0.076  Sum_probs=59.4

Q ss_pred             CccEEEEcCCCCCCC----------HHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHh
Q psy3854          35 KKGIIYLSKVPPHMN----------VTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQY  104 (222)
Q Consensus        35 ~~g~VYIsnLP~~m~----------e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~L  104 (222)
                      .+.+|.|.|+=....          .++|++.|++||.|.+|.|.++.    ++      |+|||+|.+.++|.+|+..|
T Consensus         6 ps~vv~L~Nm~~~~e~~d~~~~~el~edl~~~f~kfG~V~~v~i~~~~----~~------G~~fV~f~~~e~A~~Ai~~l   75 (114)
T 3s6e_A            6 ATQCFQLSNMFNPQTEEEVGWDTEIKDDVIEECNKHGGVIHIYVDKNS----AQ------GNVYVKCPSIAAAIAAVNAL   75 (114)
T ss_dssp             CCSEEEEESSCCTTTCCSTTHHHHHHHHHHHHHTTTTCCSEEEECTTC----TT------CCEEEECSSHHHHHHHHHHH
T ss_pred             CCcEEEEECCCChHHccChhHHHHHHHHHHHHHhccCCEEEEEEecCC----Cc------EEEEEEECCHHHHHHHHHHh
Confidence            355788888644332          34889999999999999996653    24      99999999999999999999


Q ss_pred             cCCccCCcccc
Q psy3854         105 NNTQIDCRKRS  115 (222)
Q Consensus       105 Ng~~i~Grk~~  115 (222)
                      ||+.++||.+.
T Consensus        76 nG~~f~GR~i~   86 (114)
T 3s6e_A           76 HGRWFAGKMIT   86 (114)
T ss_dssp             TTCEETTEECE
T ss_pred             CCCEECCEEEE
Confidence            99999999984

>2d9o_A DNAJ (HSP40) homolog, subfamily C, member 17; RRM domain, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=99.23  E-value=2.1e-11  Score=92.94  Aligned_cols=57  Identities=16%  Similarity=0.153  Sum_probs=50.1

Q ss_pred             CCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCCccc
Q psy3854          45 PPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDCRKR  114 (222)
Q Consensus        45 P~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~Grk~  114 (222)
                      ++.+++++|+++|++||+|.+|.|+     +++|      |||||+|.+.++|..|+..++|  +.|+++
T Consensus        26 ~~~~te~~L~~~F~~~G~V~~v~i~-----~~~r------GfaFVeF~~~~~A~~Ai~~~~~--~~g~~l   82 (100)
T 2d9o_A           26 KGGYSKDVLLRLLQKYGEVLNLVLS-----SKKP------GTAVVEFATVKAAELAVQNEVG--LVDNPL   82 (100)
T ss_dssp             CCSCCHHHHHHHHHTTSCEEEEEEE-----SSSS------SEEEEEESCHHHHHHHHHTCCB--CSSSBC
T ss_pred             CCCCCHHHHHHHHHhcCCEEEEEEc-----cCCC------CEEEEEECCHHHHHHHHHhcCC--CCCCeE
Confidence            4789999999999999999999997     3555      9999999999999999999776  467765

>1owx_A Lupus LA protein, SS-B, LA; RRM, transcription; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.18  E-value=6e-11  Score=94.11  Aligned_cols=67  Identities=22%  Similarity=0.201  Sum_probs=60.2

Q ss_pred             CccEEEEcCCCCC-CCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecc-hHHHHHHHHHhc--CCccC
Q psy3854          35 KKGIIYLSKVPPH-MNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLK-KKVAKQVAAQYN--NTQID  110 (222)
Q Consensus        35 ~~g~VYIsnLP~~-m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~d-k~~Ak~A~~~LN--g~~i~  110 (222)
                      ...+|||+|||+. ++.++|+++|++||+|..|.+++++            .+|||+|.+ ..+|..|+..||  |..|.
T Consensus        17 ~G~il~v~~l~~~~~sredLke~F~~~G~V~~Vd~~~g~------------~tgfVrf~~~~~~A~~av~~ln~~~~~i~   84 (121)
T 1owx_A           17 IGCLLKFSGDLDDQTCREDLHILFSNHGEIKWIDFVRGA------------KEGIILFKEKAKEALGKAKDANNGNLQLR   84 (121)
T ss_dssp             CCCEEEEEESCCSSCCHHHHHHHTCSSCCEEEEECCTTC------------SEEEEEESSCHHHHHHHHHHTTTSCBCTT
T ss_pred             CCeEEEEecCCCCcCCHHHHHHHHHhcCCEEEEEEecCC------------CEEEEEECCChHHHHHHHHHhhcCCcEEe
Confidence            4578999999999 9999999999999999999998875            469999999 799999999996  67788


Q ss_pred             Ccc
Q psy3854         111 CRK  113 (222)
Q Consensus       111 Grk  113 (222)
                      |..
T Consensus        85 g~~   87 (121)
T 1owx_A           85 NKE   87 (121)
T ss_dssp             SSS
T ss_pred             CcE
Confidence            854

>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=99.01  E-value=4.8e-10  Score=93.75  Aligned_cols=62  Identities=21%  Similarity=0.218  Sum_probs=54.8

Q ss_pred             CCHHHHHHHhhcCcceeEEEEecCC----CCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCCcccc
Q psy3854          48 MNVTQLTEFMSRFGEVGRVYLMPKK----RKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDCRKRS  115 (222)
Q Consensus        48 m~e~~Lr~lFs~fG~I~rv~L~~d~----~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~Grk~~  115 (222)
                      -.+++|++.|++||+|.+|.|..+.    .+++++      |+|||+|.+.++|.+|+..|||+.++||.+.
T Consensus       141 e~~~dl~~e~~~~G~v~~~~v~~~~~~~~~~~~~~------G~~fv~f~~~~~a~~a~~~l~gr~~~gr~i~  206 (222)
T 3dxb_A          141 DLEGEVTEECGKFGAVNRVIIYQEKQGEEEDAEII------VKIFVEFSIASETHKAIQALNGRWFAGRKVV  206 (222)
T ss_dssp             THHHHHHHHHTTTSCEEEEEEEEEECCSSTTCCEE------EEEEEEESSHHHHHHHHHHHTTCBSSSSBCE
T ss_pred             HHHHHHHHHHHccCCeEEEEEecCCCCcccCcCce------eEEEEEECCHHHHHHHHHHhcCceECCeEEE
Confidence            3467999999999999999998443    345777      9999999999999999999999999999984

>2dnr_A Synaptojanin-1; RRM domain, RBD, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=98.99  E-value=3.5e-10  Score=85.88  Aligned_cols=66  Identities=21%  Similarity=0.333  Sum_probs=56.4

Q ss_pred             CccEEEEcCCC----CCCCH----HHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcC
Q psy3854          35 KKGIIYLSKVP----PHMNV----TQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNN  106 (222)
Q Consensus        35 ~~g~VYIsnLP----~~m~e----~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg  106 (222)
                      .-++|.|+..|    ..+-+    .+|.+.|++||+|..|+++.|              .|||+|.+.++|.+|+. |||
T Consensus         6 pd~tv~V~~~~~~~~~~~fd~~l~~~L~~~F~~~G~Vi~vr~~~d--------------~~fVtF~d~~sAlaAi~-mnG   70 (91)
T 2dnr_A            6 SGGTVLVSIKSSLPENNFFDDALIDELLQQFASFGEVILIRFVED--------------KMWVTFLEGSSALNVLS-LNG   70 (91)
T ss_dssp             SSCEEEEEEECSSTTTCSCCHHHHHHHHHHHHTTCCEEEEEECSS--------------SEEEEESSHHHHHHGGG-GTT
T ss_pred             CCCeEEEEeccCccccccCCHHHHHHHHHHHHhCCCeEEEEEecC--------------CEEEEECChHHHHHHHh-cCC
Confidence            35788888877    24444    689999999999999999874              39999999999999998 999


Q ss_pred             CccCCcccc
Q psy3854         107 TQIDCRKRS  115 (222)
Q Consensus       107 ~~i~Grk~~  115 (222)
                      ..++||.+.
T Consensus        71 ~~v~Gr~Lk   79 (91)
T 2dnr_A           71 KELLNRTIT   79 (91)
T ss_dssp             CEETTEEEE
T ss_pred             eEeCCeEEE
Confidence            999999974

>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=98.86  E-value=2.5e-09  Score=81.78  Aligned_cols=66  Identities=14%  Similarity=0.182  Sum_probs=57.0

Q ss_pred             CccEEEEcCCCCC-----CCH----HHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhc
Q psy3854          35 KKGIIYLSKVPPH-----MNV----TQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYN  105 (222)
Q Consensus        35 ~~g~VYIsnLP~~-----m~e----~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LN  105 (222)
                      .-++|.|+.+|+.     +-+    .+|.+.|++||+|..|+++.|              -|||+|.+.++|.+|+. ||
T Consensus        14 pD~Tv~V~~~~~~~~~~~~fd~~l~~~L~~~F~~~G~Vilvr~v~d--------------~~fVtF~d~~sAl~AI~-ld   78 (95)
T 1ufw_A           14 LDATVVVNLQSPTLEEKNEFPEDLRTELMQTLGSYGTIVLVRINQG--------------QMLVTFADSHSALSVLD-VD   78 (95)
T ss_dssp             TTCEEEEEESSCCHHHHHSCCHHHHHHHHHHHHHHSCCSEEEEETT--------------EEEEECSCSHHHHHHHH-GG
T ss_pred             CCCeEEEEecCCcccccccCCHHHHHHHHHHHHHCCCEEEEEEecC--------------cEEEEEcChHHHHHHHh-cC
Confidence            4578999998853     333    579999999999999999875              39999999999999998 99


Q ss_pred             CCccCCcccc
Q psy3854         106 NTQIDCRKRS  115 (222)
Q Consensus       106 g~~i~Grk~~  115 (222)
                      |+.|+||.+.
T Consensus        79 G~~v~Gr~L~   88 (95)
T 1ufw_A           79 GMKVKGRAVK   88 (95)
T ss_dssp             GSEETTEEEE
T ss_pred             CeeeCCeEEE
Confidence            9999999874

>2l9w_A U4/U6 snRNA-associated-splicing factor PRP24; RRM, U6 snRNP, RNA binding protein; NMR {Saccharomyces cerevisiae}

Probab=98.53  E-value=2e-07  Score=73.46  Aligned_cols=69  Identities=14%  Similarity=0.230  Sum_probs=64.4

Q ss_pred             CccEEEEcCCCCCCCHHHHHHHhhcC-----cceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCcc
Q psy3854          35 KKGIIYLSKVPPHMNVTQLTEFMSRF-----GEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQI  109 (222)
Q Consensus        35 ~~g~VYIsnLP~~m~e~~Lr~lFs~f-----G~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i  109 (222)
                      ...+|=|=+||..+++..||.+..+|     |.|..|.|.||.            +-+.|||.|...|-+|.-.|||..|
T Consensus        20 ~~rtiaL~~ipDtvndarIr~lve~~~~i~~g~i~KI~L~pDH------------~GAivef~d~~~AgKasLaL~G~ef   87 (117)
T 2l9w_A           20 LETLICLFPLSDKVSPSLICQFLQEEIHINEKDIRKILLVSDF------------NGAIIIFRDSKFAAKMLMILNGSQF   87 (117)
T ss_dssp             TTSCEEEECCCTTCCHHHHHHHHHHHTCCCTTTCSEEEEETTT------------TEEEEECSCHHHHHHHHHHHSSEEE
T ss_pred             CCcEEEEecCCCCCCHHHHHHHHhhhhccCccceeEEEEecCC------------CceEEEEccchhhHHHHhhcCCeee
Confidence            36788889999999999999999999     999999999985            4599999999999999999999999


Q ss_pred             CCcccc
Q psy3854         110 DCRKRS  115 (222)
Q Consensus       110 ~Grk~~  115 (222)
                      .||++.
T Consensus        88 ~gr~Lr   93 (117)
T 2l9w_A           88 QGKVIR   93 (117)
T ss_dssp             TTEEEE
T ss_pred             cCeEEE
Confidence            999984

>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=97.57  E-value=0.00033  Score=52.76  Aligned_cols=74  Identities=12%  Similarity=0.231  Sum_probs=62.9

Q ss_pred             cEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCCccc
Q psy3854          37 GIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDCRKR  114 (222)
Q Consensus        37 g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~Grk~  114 (222)
                      ..|-|.+|||.||++++.+.++.++++...+.++-+.+.    +...++-+||.|.+.+++..-.+.+||..+-+.+.
T Consensus         2 ~KvVIRrLPP~LteeeF~~~l~~~~~~d~~~fv~G~~s~----~~~~~SRaYi~f~~~e~v~~f~~~~~g~~F~D~kg   75 (91)
T 1uw4_A            2 SKVVIRRLPPTLTKEQLQEHLQPMPEHDYFEFFSNDTSL----YPHMYARAYINFKNQEDIILFRDRFDGYVFLDNKG   75 (91)
T ss_dssp             CEEEEEEECTTCCHHHHHHHHCSCCCEEEEEEEESCCSS----TTCCCEEEEEEESSSHHHHHHHHHHTTCEEECTTC
T ss_pred             cEEEEeCCCCCCCHHHHHHHhcCcccceEEEEeCCccCC----CCCcceEEEEEeCCHHHHHHHHHHhCCcEEEcCCC
Confidence            357899999999999999999999999988887755432    23557889999999999999999999998876654

>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=97.53  E-value=0.00012  Score=56.44  Aligned_cols=64  Identities=11%  Similarity=0.228  Sum_probs=50.8

Q ss_pred             CccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhc-CCccCCcc
Q psy3854          35 KKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYN-NTQIDCRK  113 (222)
Q Consensus        35 ~~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LN-g~~i~Grk  113 (222)
                      ...++|| ++|+.+.-.+|.++|++||   -|.|.--++           +-+||.|.+++.|..|+.+|+ +..+..+.
T Consensus         5 R~HV~~l-~FP~ewKt~Di~~lFs~fg---gv~I~WidD-----------TsAlvvf~~~~~a~~al~~i~~~~~y~i~t   69 (101)
T 3ctr_A            5 SDHVLHV-TFPKEWKTSDLYQLFSAFG---NIQISWIDD-----------TSAFVSLSQPEQVKIAVNTSKYAESYRIQT   69 (101)
T ss_dssp             EEEEEEE-ECCTTCCHHHHHHHTTTSE---EEEEEEEET-----------TEEEEEEEEECHHHHHHHHHTTCSSCCCCC
T ss_pred             CCeEEEE-eCChhhhhHHHHHHHhccC---CEEEEEEcC-----------CeEEEEecCHHHHHHHHHhcccCCceEEEE
Confidence            3567888 9999999999999999999   444443233           579999999999999999887 44455554

>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=97.43  E-value=0.00052  Score=52.74  Aligned_cols=59  Identities=10%  Similarity=0.317  Sum_probs=48.9

Q ss_pred             ccCCccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhc
Q psy3854          32 KKYKKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYN  105 (222)
Q Consensus        32 k~~~~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LN  105 (222)
                      +.....++|| .+|+.+.-.+|.++|++||-| .|.-+-|             +-+||.|.+++.|..|+.+|+
T Consensus        12 ~p~r~HVf~l-~FP~ewKt~DI~~lFs~fggv-~I~WidD-------------TsAlvvf~~~~~a~~al~~i~   70 (100)
T 1whv_A           12 QPKRDHVLHV-TFPKEWKTSDLYQLFSAFGNI-QISWIDD-------------TSAFVSLSQPEQVQIAVNTSK   70 (100)
T ss_dssp             CCCCCSEEEE-ECCTTCCHHHHHHHHTTTCSC-CCEEEET-------------TEEEEECSCHHHHHHHHHHHH
T ss_pred             CCCCCeEEEE-eCChhhhhHHHHHHhhccCCE-EEEEEcC-------------CeEEEEecCHHHHHHHHHhcc
Confidence            4457788999 999999999999999999933 3333333             579999999999999999886

>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=97.10  E-value=0.00068  Score=52.40  Aligned_cols=74  Identities=7%  Similarity=0.076  Sum_probs=61.9

Q ss_pred             CccEEEEcCCCCCC-CH----HHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCcc
Q psy3854          35 KKGIIYLSKVPPHM-NV----TQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQI  109 (222)
Q Consensus        35 ~~g~VYIsnLP~~m-~e----~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i  109 (222)
                      -+++|+|.|||+.+ .+    ..++.+|..|+++.+....+.            |.---|.|.+.++|-+|-..|+|+.+
T Consensus         4 ~pntLiitnl~~~vF~~~~lk~~~e~Lf~~~~~~~tF~~lkS------------FRRirv~F~~~~~A~~AR~~Lh~~~f   71 (104)
T 1wey_A            4 GSSGLIACVANDDVFSESETRAKFESLFRTYDKDTTFQYFKS------------FKRVRINFSNPLSAADARLRLHKTEF   71 (104)
T ss_dssp             CCCEEEEECCCGGGGSTTTHHHHHHHHHHTTCSSCEEEEETT------------TTEEEEECSSTTHHHHHHHTSTTSEE
T ss_pred             CCceEEEecCCHHHcCCHHHHHHHHHHHHhhCcCcceeecCc------------ceEEEEEeCChHHHHHHHHHhcccee
Confidence            57889999999866 43    467999999999998766553            23468999999999999999999999


Q ss_pred             CCccccccccc
Q psy3854         110 DCRKRSKHYDF  120 (222)
Q Consensus       110 ~Grk~~~~~~~  120 (222)
                      .|+++..|.+.
T Consensus        72 ~g~~~r~YFgq   82 (104)
T 1wey_A           72 LGKEMKLYFAQ   82 (104)
T ss_dssp             TTEECEEECCC
T ss_pred             cCceeEEEecC
Confidence            99998877754

>2dhx_A Poly (ADP-ribose) polymerase family, member 10 variant; RRM domain, RNA- binding, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=96.95  E-value=0.0028  Score=49.01  Aligned_cols=64  Identities=22%  Similarity=0.241  Sum_probs=53.8

Q ss_pred             ccEEEEcCCCCCCCHHHHHHHhhcC-----cceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHH----hcC
Q psy3854          36 KGIIYLSKVPPHMNVTQLTEFMSRF-----GEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQ----YNN  106 (222)
Q Consensus        36 ~g~VYIsnLP~~m~e~~Lr~lFs~f-----G~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~----LNg  106 (222)
                      ...|.|.|||+.++++.|.-.|+.-     |+|.+|...+              +-|.|+|.+..+|++++..    |||
T Consensus         8 ~~~I~V~~lPp~~~~e~L~LYFEn~rrsGGG~V~~v~~~~--------------~~AvItF~d~~va~rVL~k~~H~L~~   73 (104)
T 2dhx_A            8 GVAVEVRGLPPAVPDELLTLYFENRRRSGGGPVLSWQRLG--------------CGGVLTFREPADAERVLAQADHELHG   73 (104)
T ss_dssp             CCEEEEESCCTTSCHHHHHHHHHCTTTTCCCCEEEEEEET--------------TEEEEEESSHHHHHHHHTCSCCBSSS
T ss_pred             ccEEEEECCCCCCChhHheEEEeCCCcCCCceeeEEEEcC--------------CcEEEEEcChHHHHHHhcCCcceecC
Confidence            4579999999999999999999982     7999998865              2489999999999999987    777


Q ss_pred             CccCCcc
Q psy3854         107 TQIDCRK  113 (222)
Q Consensus       107 ~~i~Grk  113 (222)
                      +++.=.+
T Consensus        74 ~~LsV~P   80 (104)
T 2dhx_A           74 AQLSLRP   80 (104)
T ss_dssp             SBCEEEE
T ss_pred             eEEEEEc
Confidence            6665433

>2l08_A Regulator of nonsense transcripts 3A; NESG, nonsense regulator, structural genomics, PSI-2, protei structure initiative; NMR {Homo sapiens}

Probab=96.57  E-value=0.0026  Score=48.49  Aligned_cols=74  Identities=11%  Similarity=0.178  Sum_probs=59.0

Q ss_pred             EEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCCcccc
Q psy3854          38 IIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDCRKRS  115 (222)
Q Consensus        38 ~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~Grk~~  115 (222)
                      .|-|.+|||.||++++.+.++..=++...+..+-+.+    .+...|.-+||.|.+.++...-.+..||..+-+.+..
T Consensus        11 KvVIRrLPP~Ltee~F~~~l~~~~~~d~~~fv~G~~s----~~~~~~SRAYI~F~~~edv~~F~~~f~g~~F~D~kg~   84 (97)
T 2l08_A           11 MVVIRRLPPGLTKEQLEEQLRPLPAHDYFEFFAADLS----LYPHLYSRAYINFRNPDDILLFRDRFDGYIFLDSKGL   84 (97)
T ss_dssp             CEEEECCCSCSCHHHHTTTTSCCSSEEECCCCCCCSS----SCCSCCCCCEEEESCHHHHHHHHHHSTTEEEECTTCC
T ss_pred             eEEEeCCCCCCCHHHHHHHhCCcCccceEEEeCCccC----CCCCcceEEEEEeCCHHHHHHHHHHcCCcEEEeCCCC
Confidence            4889999999999999999998777665555543322    2345578899999999999999999999988776654

>3pq1_A Poly(A) RNA polymerase; nucleotidyl transferase, RNP-type RNA binding domain, poly(A polymerase, mitochondria, transferase; 3.10A {Homo sapiens}

Probab=95.63  E-value=0.0059  Score=57.84  Aligned_cols=58  Identities=12%  Similarity=0.343  Sum_probs=43.0

Q ss_pred             ccCCccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHH
Q psy3854          32 KKYKKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVA  101 (222)
Q Consensus        32 k~~~~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~  101 (222)
                      +..-...|||+ .|+..++.+|.+.|++||+|.++++-.+.  |         .|+-|||.+++.|..+.
T Consensus        49 ~~qa~rsv~v~-~~~~~~~~~l~~y~~~~g~i~~~~~~~~~--g---------~~~~vef~~~~~~~~~~  106 (464)
T 3pq1_A           49 REQAQRTVLIH-CPEKISENKFLKYLSQFGPINNHFFYESF--G---------LYAVVEFCQKESIGSLQ  106 (464)
T ss_dssp             HHHHHTEEEEE-ECCC---CHHHHHHGGGSCCCCEEEECSS--S---------EEEEEECC---CCHHHH
T ss_pred             HHHhcceEEEE-cCCCCCHHHHHHHHHhcCCcceEEEEccC--C---------eEEEEEeCCHHHHHHHH
Confidence            44556789998 89999999999999999999999986432  2         79999999998888554

>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=95.26  E-value=0.011  Score=46.05  Aligned_cols=35  Identities=26%  Similarity=0.231  Sum_probs=28.0

Q ss_pred             EEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCC
Q psy3854          65 RVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNT  107 (222)
Q Consensus        65 rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~  107 (222)
                      ++.|+.+..  +++      |||||+|.+.++|++|+..+|+.
T Consensus         2 ~~kl~ln~~--~~~------G~~fV~f~~~~~A~~al~~~~~~   36 (158)
T 2kn4_A            2 QYKLILNGK--TLK------GETTTEAVDAATAEKVFKQYAND   36 (158)
T ss_dssp             EEEEEEECS--SCE------EEEEEECSSHHHHHHHHHHHHHH
T ss_pred             cEEEEecCc--ccc------chhHHHHHHHHhHHHHHHhhccc
Confidence            456666643  355      99999999999999999999863

>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=94.83  E-value=0.072  Score=41.88  Aligned_cols=67  Identities=9%  Similarity=0.110  Sum_probs=52.8

Q ss_pred             cCCccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCCc
Q psy3854          33 KYKKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDCR  112 (222)
Q Consensus        33 ~~~~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~Gr  112 (222)
                      .....-|-|-..|+.. -..|-..|++||+|.+.....    +.        ..=.|.|.++.+|++|+. .||+.|+|.
T Consensus        21 ~~~~~wVtVFGFp~~~-~~~VL~~F~~~G~Iv~~~~~~----~~--------NWihI~Y~s~~~A~rAL~-kNG~ii~g~   86 (119)
T 1wwh_A           21 HLDDTWVTVFGFPQAS-ASYILLQFAQYGNILKHVMSN----TG--------NWMHIRYQSKLQARKALS-KDGRIFGES   86 (119)
T ss_dssp             CGGGGEEEEECCCGGG-HHHHHHHHHTTSCEEEEEECS----SS--------SEEEEEESSHHHHHHHHT-TTTCEETTT
T ss_pred             CCCCCEEEEECCCHHH-HHHHHHHHHhhCcEEEeccCC----CC--------CeEEEEeCCHHHHHHHHH-hCCeEecCC
Confidence            3356778899999995 667888899999999988721    11        355699999999999996 599999865


Q ss_pred             c
Q psy3854         113 K  113 (222)
Q Consensus       113 k  113 (222)
                      -
T Consensus        87 ~   87 (119)
T 1wwh_A           87 I   87 (119)
T ss_dssp             E
T ss_pred             E
Confidence            4

>3d45_A Poly(A)-specific ribonuclease PARN; CAP analogue, exonuclease, hydrolase, magnesium, metal nonsense-mediated mRNA decay, nucleus; HET: 7MG GDP; 3.00A {Mus musculus}

Probab=94.14  E-value=0.15  Score=48.27  Aligned_cols=59  Identities=10%  Similarity=0.311  Sum_probs=48.2

Q ss_pred             CCccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCC
Q psy3854          34 YKKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNT  107 (222)
Q Consensus        34 ~~~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~  107 (222)
                      ..+.++||+ +|+.+...+|.++|+.||.| +|+-+-  +           +-+||.|.+++.|..|+..++..
T Consensus       438 ~R~~vl~v~-f~~~~~~~~i~~~fs~fg~v-~V~wid--d-----------t~a~V~~~~~~~a~~~l~~~~~~  496 (507)
T 3d45_A          438 KRDHVLHVT-FPKEWKTSDLYQLFSAFGNI-QISWID--D-----------TSAFVSLSQPEQVQIAVNTSKYA  496 (507)
T ss_dssp             CGGGEEEEE-CCTTCCHHHHHHHGGGGCCC-EEEECS--S-----------SEEEEECSCHHHHHHHHHHHTTC
T ss_pred             CcCcEEEEe-CCCCCCHHHHHHHHHhcCCE-EEEEEc--C-----------CeEEEEECCHHHHHHHHHHHHhC
Confidence            456788887 99999999999999999943 554333  2           56999999999999999999643

>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=91.82  E-value=0.049  Score=42.13  Aligned_cols=29  Identities=28%  Similarity=0.315  Sum_probs=27.3

Q ss_pred             cEEEEEecchHHHHHHHHHh-cCCccCCccc
Q psy3854          85 TEGWIEFLKKKVAKQVAAQY-NNTQIDCRKR  114 (222)
Q Consensus        85 g~GfVEF~dk~~Ak~A~~~L-Ng~~i~Grk~  114 (222)
                      |+++|+|.+.++|++|+..| ||..+.| .+
T Consensus        14 G~~~ve~~~~~~A~~a~~~~~ng~~~~G-~~   43 (150)
T 2i2y_A           14 GETTTEAVDAATAEKVFKQYANDNGVDG-EW   43 (150)
T ss_dssp             EEEEEECSSHHHHTTTHHHHHHHHTCCC-EE
T ss_pred             ccceeeecCHHHHHHHHHHHhcCCCCCC-ce
Confidence            99999999999999999999 9999999 54

>3p3d_A Nucleoporin 53; structural genomics, PSI-2, protein structure initiative, NE structural genomix research consortium, nysgxrc; 2.35A {Pichia guilliermondii}

Probab=87.48  E-value=0.43  Score=38.12  Aligned_cols=74  Identities=16%  Similarity=0.261  Sum_probs=46.5

Q ss_pred             cEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCC-----CCCCCCCCCc-cEEE--EEecchHHHHHHHHHhcCCc
Q psy3854          37 GIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRK-----PGEKKPAKQF-TEGW--IEFLKKKVAKQVAAQYNNTQ  108 (222)
Q Consensus        37 g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~t-----gksKkk~~~~-g~Gf--VEF~dk~~Ak~A~~~LNg~~  108 (222)
                      .-|-|=..|+.+. ..+-..|++||.|..-+-..+...     ++..++--.| |..|  |.|.++.+|.+|+. -||+.
T Consensus         8 ~~VtVFGFp~~~~-~~VI~~Fs~~G~IlE~~~~~~~~~~~~~~~~~~k~yP~f~g~NWikItYds~~~A~rAL~-~NG~i   85 (132)
T 3p3d_A            8 LAILVFGYPETMA-NQVIAYFQEFGTILEDFEVLRKPQAMTVGLQDRQFVPIFSGNSWTKITYDNPASAVDALL-ENGAV   85 (132)
T ss_dssp             CEEEEECCCGGGH-HHHHHHHGGGSCBCSCCGGGCCC-----------CCCCCEETTEEEEEBSSHHHHHHHHT-TTTCE
T ss_pred             eEEEEEecCHHHH-HHHHHHHHhhceEeeeccccccccccccccccccccCccCCCcEEEEEcCCHHHHHHHHH-hCCeE
Confidence            3445555677665 466678999999987543332111     0000011111 4566  89999999999994 79999


Q ss_pred             cCCc
Q psy3854         109 IDCR  112 (222)
Q Consensus       109 i~Gr  112 (222)
                      |+|-
T Consensus        86 i~G~   89 (132)
T 3p3d_A           86 FNGV   89 (132)
T ss_dssp             ETTE
T ss_pred             eCcE
Confidence            9996

>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=82.24  E-value=0.049  Score=50.51  Aligned_cols=54  Identities=9%  Similarity=-0.024  Sum_probs=28.5

Q ss_pred             HHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEE--EEEecchHHHHHHHHHhcC
Q psy3854          52 QLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEG--WIEFLKKKVAKQVAAQYNN  106 (222)
Q Consensus        52 ~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~G--fVEF~dk~~Ak~A~~~LNg  106 (222)
                      .|..||.++|+|..|-.+......+.+ .....|++  |++|.+..+|..++..+|.
T Consensus         8 ~L~~lF~p~pPl~~~~P~~~~p~~~~~-~~~~~gia~~~~~f~~~~~~~~~~~~e~~   63 (437)
T 3pgw_S            8 NLLALFAPRDPIPYLPPLEKLPHEKHH-NQPYCGIAPYIREFEDPRDAPPPTRAETR   63 (437)
T ss_pred             cHHHhcCCCCCCcCCCCcccccccccC-CCCcccHHHHHHhhcCcccccccccccCH
Confidence            378999999999887332211100000 00111233  7788777666555544443

---

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	222
d2cpfa1	85	d.58.7.1 (A:362-446) Probable RNA-binding protein	3e-04
d1cvja1	80	d.58.7.1 (A:11-90) Poly(A)-binding protein {Human	3e-04
d1no8a_	78	d.58.7.1 (A:) Nuclear factor Aly {Mouse (Mus muscu	4e-04
d2cpea1	101	d.58.7.1 (A:353-453) RNA-binding protein EWS {Huma	5e-04
d1b7fa2	85	d.58.7.1 (A:205-289) Sex-lethal protein {Drosophil	6e-04

>d2cpfa1 d.58.7.1 (A:362-446) Probable RNA-binding protein 19, Rbm19 {Mouse (Mus musculus) [TaxId: 10090]} Length = 85

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Probable RNA-binding protein 19, Rbm19
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 36.5 bits (84), Expect = 3e-04
 Identities = 14/75 (18%), Positives = 28/75 (37%), Gaps = 3/75 (4%)

Query: 39  IYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAK 98
           +++  +        L    S+ G +    +  KK K G          G++E+ K + A+
Sbjct: 1   LFIKNLNFSTTEETLKGVFSKVGAIKSCTISKKKNKAGVL---LSMGFGFVEYKKPEQAQ 57

Query: 99  QVAAQYNNTQIDCRK 113
           +   Q     +D  K
Sbjct: 58  KALKQLQGHTVDGHK 72

>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 = 3e-04
 Identities = 10/75 (13%), Positives = 24/75 (32%), Gaps = 6/75 (8%)

Query: 39  IYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAK 98
           +Y+  + P +    L E  S  G +  + +             +     ++ F +   A+
Sbjct: 3   LYVGDLHPDVTEAMLYEKFSPAGPILSIRVCRDMITR------RSLGYAYVNFQQPADAE 56

Query: 99  QVAAQYNNTQIDCRK 113
           +     N   I  + 
Sbjct: 57  RALDTMNFDVIKGKP 71

>d1no8a_ d.58.7.1 (A:) Nuclear factor Aly {Mouse (Mus musculus) [TaxId: 10090]} Length = 78

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Nuclear factor Aly
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 36.1 bits (83), Expect = 4e-04
 Identities = 13/77 (16%), Positives = 28/77 (36%), Gaps = 7/77 (9%)

Query: 37  GIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKV 96
           G + +S +   ++   + E  + FG + +  +   +                + F +K  
Sbjct: 1   GKLLVSNLDFGVSDADIQELFAEFGTLKKAAVHYDRSGR-------SLGTADVHFERKAD 53

Query: 97  AKQVAAQYNNTQIDCRK 113
           A +   QYN   +D R 
Sbjct: 54  ALKAMKQYNGVPLDGRP 70

>d2cpea1 d.58.7.1 (A:353-453) RNA-binding protein EWS {Human (Homo sapiens) [TaxId: 9606]} Length = 101

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding protein EWS
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 35.9 bits (82), Expect = 5e-04
 Identities = 14/92 (15%), Positives = 32/92 (34%), Gaps = 8/92 (8%)

Query: 24  PKDNTENSKKYKKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKK--RKPGEKKPA 81
           P ++++NS       IY+  +   + +  L +F  + G V       +       +K+  
Sbjct: 2   PDEDSDNSA------IYVQGLNDSVTLDDLADFFKQCGVVKMNKRTGQPMIHIYLDKETG 55

Query: 82  KQFTEGWIEFLKKKVAKQVAAQYNNTQIDCRK 113
           K   +  + +     AK     ++       K
Sbjct: 56  KPKGDATVSYEDPPTAKAAVEWFDGKDFQGSK 87

>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 = 35.3 bits (81), Expect = 6e-04
 Identities = 10/76 (13%), Positives = 32/76 (42%), Gaps = 6/76 (7%)

Query: 39  IYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAK 98
           +Y++ +P  +   QL     ++G + +  ++  K         +     ++ + K++ A+
Sbjct: 9   LYVTNLPRTITDDQLDTIFGKYGSIVQKNILRDKLTG------RPRGVAFVRYNKREEAQ 62

Query: 99  QVAAQYNNTQIDCRKR 114
           +  +  NN   +   +
Sbjct: 63  EAISALNNVIPEGGSQ 78

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	222
d2cq0a1	90	Eukaryotic translation initiation factor 3 subunit	99.84
d1fxla1	82	Hu antigen D (Hud) {Human (Homo sapiens) [TaxId: 9	99.83
d1b7fa1	82	Sex-lethal protein {Drosophila melanogaster [TaxId	99.83
d1cvja1	80	Poly(A)-binding protein {Human (Homo sapiens) [Tax	99.83
d1rk8a_	88	RNA-binding protein 8 {Fruit fly (Drosophila melan	99.83
d1x5ua1	93	Splicing factor 3B subunit 4 {Human (Homo sapiens)	99.82
d1fxla2	85	Hu antigen D (Hud) {Human (Homo sapiens) [TaxId: 9	99.82
d2u2fa_	85	Splicing factor U2AF 65 KDa subunit {Human (Homo s	99.82
d1no8a_	78	Nuclear factor Aly {Mouse (Mus musculus) [TaxId: 1	99.82
d1h2vz_	93	CBP20, 20KDa nuclear cap-binding protein {Human (H	99.81
d2cqca1	83	Arginine/serine-rich splicing factor 10 {Human (Ho	99.81
d2cqba1	89	Peptidyl-prolyl cis-trans isomerase E, N-terminal	99.81
d1b7fa2	85	Sex-lethal protein {Drosophila melanogaster [TaxId	99.81
d1x4ea1	72	RNA-binding motif, single-stranded-interacting pro	99.81
d2cpha1	94	Probable RNA-binding protein 19, Rbm19 {Mouse (Mus	99.81
d1x5sa1	90	Cold-inducible RNA-binding protein {Human (Homo sa	99.81
d1hd0a_	75	Heterogeneous nuclear ribonucleoprotein d0 {Human	99.8
d1whwa_	99	Probable RNA-binding protein 19, Rbm19 {Mouse (Mus	99.8
d1x5ta1	83	Splicing factor 3B subunit 4 {Human (Homo sapiens)	99.8
d1uawa_	77	Musashi-1 {Mouse (Mus musculus) [TaxId: 10090]}	99.8
d2ghpa1	81	U4/U6 snRNA-associated-splicing factor PRP24 {Bake	99.79
d2cpia1	89	E3 ubiquitin protein ligase CNOT4 {Mouse (Mus musc	99.79
d1cvja2	89	Poly(A)-binding protein {Human (Homo sapiens) [Tax	99.79
d1x5oa1	101	RNA-binding motif, single-stranded-interacting pro	99.79
d2cpza1	102	CUG triplet repeat RNA-binding protein 1 {Human (H	99.79
d2cqda1	103	RNA-binding region containing protein 1 {Human (Ho	99.79
d1p1ta_	104	Cleavage stimulation factor, 64 kda subunit {Human	99.78
d1u6fa1	139	RNA-binding protein UBP1 {Trypanosoma cruzi [TaxId	99.78
d2cpfa1	85	Probable RNA-binding protein 19, Rbm19 {Mouse (Mus	99.78
d2cq4a1	101	RNA binding protein 23 {Human (Homo sapiens) [TaxI	99.78
d1l3ka1	84	Nuclear ribonucleoprotein A1 (RNP A1, UP1) {Human	99.78
d2cq3a1	93	RNA-binding protein 9 {Human (Homo sapiens) [TaxId	99.77
d1x0fa1	75	Nuclear ribonucleoprotein D0 (AUF1) {Human (Homo s	99.77
d2msta_	75	Neural RNA-binding protein Musashi-1 {Mouse (Mus m	99.77
d2cqia1	90	Nucleolysin TIAR {Human (Homo sapiens) [TaxId: 960	99.77
d1l3ka2	79	Nuclear ribonucleoprotein A1 (RNP A1, UP1) {Human	99.77
d2cqga1	90	TAR DNA-binding protein 43, TDP-43 {Human (Homo sa	99.76
d2f9da1	114	Pre-mRNA branch site protein p14 {Human (Homo sapi	99.75
d1x4ba1	103	Heterogeneous nuclear ribonucleoproteins A2/B1 {Hu	99.75
d1x4ha1	98	RNA-binding protein 28 {Mouse (Mus musculus) [TaxI	99.75
d2adca1	109	Polypyrimidine tract-binding protein {Human (Homo	99.74
d2cpea1	101	RNA-binding protein EWS {Human (Homo sapiens) [Tax	99.74
d2ghpa2	75	U4/U6 snRNA-associated-splicing factor PRP24 {Bake	99.73
d2ghpa3	86	U4/U6 snRNA-associated-splicing factor PRP24 {Bake	99.73
d2cpja1	86	Non-POU domain-containing octamer-binding protein,	99.73
d2cqpa1	86	RNA-binding protein 12 {Mouse (Mus musculus) [TaxI	99.72
d3begb1	87	Splicing factor, arginine/serine-rich 1, SFRS1 {Hu	99.72
d2cpxa1	102	RNA-binding protein 41, RBM41 {Human (Homo sapiens	99.72
d1zh5a2	85	Lupus LA protein {Human (Homo sapiens) [TaxId: 960	99.72
d1whxa_	111	Probable RNA-binding protein 19, Rbm19 {Mouse (Mus	99.72
d1x4ga1	96	Nucleolysin TIAR {Human (Homo sapiens) [TaxId: 960	99.72
d1fjeb1	91	Nucleolin {Golden hamster (Mesocricetus auratus) [	99.71
d2b0ga1	83	Splicesomal U1A protein {Drosophila melanogaster [	99.7
d1x4aa1	95	Splicing factor, arginine/serine-rich 1, SFRS1 {Hu	99.69
d2bz2a1	79	Negative elongation factor E, NELF-E {Human (Homo	99.68
d2adca2	88	Polypyrimidine tract-binding protein {Human (Homo	99.67
d2disa1	96	Hypothetical protein FLJ20273 {Human (Homo sapiens	99.67
d1wg5a_	104	Heterogeneous nuclear ribonucleoprotein H' {Human	99.67
d1wi8a_	104	Eukaryotic translation initiation factor 4B {Human	99.67
d2adba1	108	Polypyrimidine tract-binding protein {Human (Homo	99.67
d2cpya1	103	RNA-binding protein 12 {Human (Homo sapiens) [TaxI	99.66
d1wg4a_	98	Splicing factor, arginine/serine-rich 9 (SFRS9) {M	99.66
d1wi6a1	75	Ribonucleoprotein PTB-binding 1, Raver-1 {Mouse (M	99.66
d1whya_	97	Putative RNA-binding protein 15B, Rbm15b {Mouse (M	99.66
d1fjca_	96	Nucleolin {Golden hamster (Mesocricetus auratus) [	99.66
d2cpda1	86	APOBEC1 stimulating protein {Human (Homo sapiens)	99.65
d2cqha1	80	IGF-II mRNA-binding protein 2 isoform A {Human (Ho	99.65
d1wf2a_	98	Heterogeneous nuclear ribonucleoproteins C1/C2 {Hu	99.65
d1nu4a_	91	Splicesomal U1A protein {Human (Homo sapiens) [Tax	99.64
d1wela1	112	RNA-binding protein 12 {Human (Homo sapiens) [TaxI	99.63
d1wg1a_	88	Probable RNA-binding protein KIAA1579 {Human (Homo	99.62
d1wf0a_	88	TAR DNA-binding protein 43, TDP-43 {Human (Homo sa	99.61
d1weza_	102	Heterogeneous nuclear ribonucleoprotein H' {Human	99.61
d2cq1a1	88	Polypyrimidine tract-binding protein 2, PTBP2 {Hum	99.59
d1u2fa_	90	Splicing factor U2AF 65 KDa subunit {Human (Homo s	99.59
d1x4fa1	99	Matrin 3 {Mouse (Mus musculus) [TaxId: 10090]}	99.59
d1wexa_	104	Heterogeneous nuclear ribonucleoprotein L-like {Mo	99.57
d1owxa_	113	Lupus LA protein {Human (Homo sapiens) [TaxId: 960	99.57
d2cq2a1	101	Alkylation repair AlkB homolog 8, ALKBH8 {Human (H	99.57
d1u1qa_	183	Nuclear ribonucleoprotein A1 (RNP A1, UP1) {Human	99.56
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	99.55
d1x4da1	89	Matrin 3 {Mouse (Mus musculus) [TaxId: 10090]}	99.54
d1weya_	104	Calcipressin-1 {Mouse (Mus musculus) [TaxId: 10090	99.48
d1u1qa_	183	Nuclear ribonucleoprotein A1 (RNP A1, UP1) {Human	99.45
d1wwha1	81	Nucleoporin 35 {Mouse (Mus musculus) [TaxId: 10090	99.4
d2dita1	99	HIV Tat-specific factor 1 {Human (Homo sapiens) [T	99.35
d1o0pa_	104	Splicing factor U2AF 65 KDa subunit {Human (Homo s	99.27
d1uw4a_	91	RNA processing protein UPF3x, RRM domain {Human (H	97.49
d1ufwa_	95	Synaptojanin 2 {Human (Homo sapiens) [TaxId: 9606]	96.56
d2dgxa1	73	Limkain-b1, LKAP {Human (Homo sapiens) [TaxId: 960	96.16
d1whva_	100	Poly(A)-specific ribonuclease PARN {Mouse (Mus mus	94.04

>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=99.84  E-value=2.6e-21  Score=142.06  Aligned_cols=80  Identities=21%  Similarity=0.311  Sum_probs=74.7

Q ss_pred             ccccCCccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCcc
Q psy3854          30 NSKKYKKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQI  109 (222)
Q Consensus        30 ~~k~~~~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i  109 (222)
                      .++....++|||+|||+.+++++|+++|++||+|.+|+|+.+..+|++|      |||||+|.+.++|..|++.|||..|
T Consensus         2 ~~~~~~~~~i~V~nLp~~~t~~~l~~~f~~~G~v~~v~i~~d~~t~~~r------g~afV~f~~~~~A~~Ai~~l~g~~~   75 (90)
T d2cq0a1           2 NRRADDNATIRVTNLSEDTRETDLQELFRPFGSISRIYLAKDKTTGQSK------GFAFISFHRREDAARAIAGVSGFGY   75 (90)
T ss_dssp             CCCCSSSEEEEEESCCTTCCHHHHHTTSTTTCCEEEEEEEECSSSCSEE------EEEEEEESSHHHHHHHHHHTTTCEE
T ss_pred             CCCCCCCCEEEEECCCCCCCHHHHHHHHHHhcccccccccccccccccc------cceeEEECCHHHHHHHHHHhCCCEE
Confidence            4455677889999999999999999999999999999999998889888      9999999999999999999999999


Q ss_pred             CCcccc
Q psy3854         110 DCRKRS  115 (222)
Q Consensus       110 ~Grk~~  115 (222)
                      +|+++.
T Consensus        76 ~g~~i~   81 (90)
T d2cq0a1          76 DHLILN   81 (90)
T ss_dssp             TTEECE
T ss_pred             CCEEEE
Confidence            999874

>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=99.83  E-value=6.6e-21  Score=136.55  Aligned_cols=74  Identities=15%  Similarity=0.302  Sum_probs=70.2

Q ss_pred             ccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCCcccc
Q psy3854          36 KGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDCRKRS  115 (222)
Q Consensus        36 ~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~Grk~~  115 (222)
                      .++|||+|||+.+++++|+++|++||+|.+|.|..+..+|+++      |||||+|.+.++|..|+..|||..|+|+++.
T Consensus         2 ~t~l~V~nLp~~~te~~l~~~f~~~G~v~~v~i~~~~~~~~~~------g~afv~f~~~~~a~~a~~~l~g~~~~g~~l~   75 (82)
T d1fxla1           2 KTNLIVNYLPQNMTQEEFRSLFGSIGEIESCKLVRDKITGQSL------GYGFVNYIDPKDAEKAINTLNGLRLQTKTIK   75 (82)
T ss_dssp             CSEEEEESCCTTCCHHHHHHHHHTTSCEEEEEEEECTTTCCEE------EEEEEEESSHHHHHHHHHHHTTCEETTEECE
T ss_pred             CCEEEEECCCCCCCHHHHHHHHHHhCCcccccceeeccCCCce------eeEEEEECCHHHHHHHHHHhCCCEECCEEEE
Confidence            4679999999999999999999999999999999998888888      9999999999999999999999999999873

>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=99.83  E-value=4.5e-21  Score=137.66  Aligned_cols=74  Identities=9%  Similarity=0.201  Sum_probs=70.3

Q ss_pred             ccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCCcccc
Q psy3854          36 KGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDCRKRS  115 (222)
Q Consensus        36 ~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~Grk~~  115 (222)
                      .++|||+|||+.+++++|+++|++||+|.+|.|..+..+|+++      |||||+|.+.++|+.|+..|||..++|+++.
T Consensus         2 ~t~l~V~nLp~~~t~~~l~~~F~~~G~v~~~~i~~~~~~g~~~------g~afV~f~~~~~A~~ai~~lng~~~~g~~l~   75 (82)
T d1b7fa1           2 NTNLIVNYLPQDMTDRELYALFRAIGPINTCRIMRDYKTGYSY------GYAFVDFTSEMDSQRAIKVLNGITVRNKRLK   75 (82)
T ss_dssp             CSEEEEECCCTTCCHHHHHHHHHTTSCEEEEECCEETTTTEEC------SEEEEEESSHHHHHHHHHHHTTCEETTEECE
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHHhCCcceeeeeeecccCCcc------ccceEEECCHHHHHHHHHHhCCCEECCEEEE
Confidence            3579999999999999999999999999999999998888888      9999999999999999999999999999873

>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=99.83  E-value=4.9e-21  Score=137.72  Aligned_cols=72  Identities=14%  Similarity=0.163  Sum_probs=69.5

Q ss_pred             EEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCCcccc
Q psy3854          38 IIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDCRKRS  115 (222)
Q Consensus        38 ~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~Grk~~  115 (222)
                      .|||||||+.+++++|+++|++||+|.+|+|++|..+|+++      |||||+|.++++|..|++.|||..++|+++.
T Consensus         2 slfV~nL~~~~te~~l~~~F~~~G~i~~v~i~~d~~tg~~~------g~aFV~f~~~~~a~~ai~~l~g~~~~gr~i~   73 (80)
T d1cvja1           2 SLYVGDLHPDVTEAMLYEKFSPAGPILSIRVCRDMITRRSL------GYAYVNFQQPADAERALDTMNFDVIKGKPVR   73 (80)
T ss_dssp             EEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEECTTTCCEE------EEEEEEESSHHHHHHHHTTSTTCEETTEECE
T ss_pred             EEEEeCCCCcCCHHHHHHHHHHhCCEeEEEEEecccccCCC------CceEEEECCHHHHHHHHHHcCCCEECCEEEE
Confidence            69999999999999999999999999999999999999888      9999999999999999999999999999873

>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=99.83  E-value=9.2e-21  Score=138.72  Aligned_cols=77  Identities=16%  Similarity=0.223  Sum_probs=71.8

Q ss_pred             cCCccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCCc
Q psy3854          33 KYKKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDCR  112 (222)
Q Consensus        33 ~~~~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~Gr  112 (222)
                      .....+|||+|||+.+++++|+++|++||+|.+|.|+.|..+|+++      |||||+|.+.++|..|+..|||+.++|+
T Consensus         4 s~~~~~l~V~nL~~~~t~~~l~~~F~~~G~i~~v~i~~d~~tg~~~------g~afV~f~~~~~A~~A~~~lng~~l~g~   77 (88)
T d1rk8a_           4 SVEGWILFVTSIHEEAQEDEIQEKFCDYGEIKNIHLNLDRRTGFSK------GYALVEYETHKQALAAKEALNGAEIMGQ   77 (88)
T ss_dssp             CC-CEEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEECTTTSSEE------EEEEEEESSHHHHHHHHHHHTTCEETTE
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHHcCCcccccccccccccccc------cceeEEECCHHHHHHHHHHcCCCEECCE
Confidence            3455789999999999999999999999999999999999899988      9999999999999999999999999999


Q ss_pred             ccc
Q psy3854         113 KRS  115 (222)
Q Consensus       113 k~~  115 (222)
                      ++.
T Consensus        78 ~l~   80 (88)
T d1rk8a_          78 TIQ   80 (88)
T ss_dssp             ECE
T ss_pred             EEE
Confidence            874

>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=99.82  E-value=1.2e-20  Score=139.49  Aligned_cols=77  Identities=13%  Similarity=0.197  Sum_probs=72.4

Q ss_pred             cCCccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCCc
Q psy3854          33 KYKKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDCR  112 (222)
Q Consensus        33 ~~~~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~Gr  112 (222)
                      .....+|||||||+.+++++|+++|++||+|.+|+|+.+..+|+++      |||||+|.+.++|..|+..|||+.|+|+
T Consensus         6 ~~~~~tlfV~nLp~~~t~~~l~~~F~~~G~v~~v~~~~d~~tg~~k------g~afV~f~~~~~A~~Ai~~l~g~~~~g~   79 (93)
T d1x5ua1           6 RNQDATVYVGGLDEKVSEPLLWELFLQAGPVVNTHMPKDRVTGQHQ------GYGFVEFLSEEDADYAIKIMDMIKLYGK   79 (93)
T ss_dssp             CCTTTEEEEECCCTTCCHHHHHHHHHTTSCEEEEECCBCSSSCSBC------SCEEEEESSHHHHHHHHHHSSSCBCSSC
T ss_pred             CCCCCEEEEeCCCCcCCHHHHHHHHHHhCCccccceeecccccccc------cceEEEECCHHHHHHHHHHcCCCEECCE
Confidence            3345789999999999999999999999999999999999999998      9999999999999999999999999999


Q ss_pred             ccc
Q psy3854         113 KRS  115 (222)
Q Consensus       113 k~~  115 (222)
                      ++.
T Consensus        80 ~l~   82 (93)
T d1x5ua1          80 PIR   82 (93)
T ss_dssp             BCE
T ss_pred             EEE
Confidence            873

>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=99.82  E-value=1.3e-20  Score=137.17  Aligned_cols=74  Identities=18%  Similarity=0.324  Sum_probs=70.0

Q ss_pred             CccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCCccc
Q psy3854          35 KKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDCRKR  114 (222)
Q Consensus        35 ~~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~Grk~  114 (222)
                      +.++|||||||+.+++++|+++|++||+|.+|.|+.+..+|+++      |||||+|.+.++|..|+..|||..+.|+.+
T Consensus         5 k~~~lfV~nLp~~~te~~L~~~F~~~G~v~~v~i~~d~~~g~~k------g~afV~f~~~~~a~~Ai~~lng~~~~G~~~   78 (85)
T d1fxla2           5 RDANLYVSGLPKTMTQKELEQLFSQYGRIITSRILVDQVTGVSR------GVGFIRFDKRIEAEEAIKGLNGQKPSGATE   78 (85)
T ss_dssp             TTCEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEECTTTCCEE------EEEEEEESSHHHHHHHHHHHTTCCCTTCSS
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHHhCCccccccccccccccCC------CeeEEEEcCHHHHHHHHHHhCCCEeCCCCE
Confidence            45679999999999999999999999999999999998888888      999999999999999999999999999764

>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=99.82  E-value=1.1e-20  Score=137.68  Aligned_cols=73  Identities=21%  Similarity=0.319  Sum_probs=70.1

Q ss_pred             cEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCCcccc
Q psy3854          37 GIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDCRKRS  115 (222)
Q Consensus        37 g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~Grk~~  115 (222)
                      ..|||||||+.+++++|+++|++||+|.+|.|++|..+|+++      |||||+|.++++|..|+..|||..|+|+++.
T Consensus         2 ~rlfV~nlp~~~te~~l~~~F~~~G~v~~v~i~~d~~tg~~r------g~aFV~f~~~~~A~~a~~~l~~~~l~g~~l~   74 (85)
T d2u2fa_           2 HKLFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSK------GYAFCEYVDINVTDQAIAGLNGMQLGDKKLL   74 (85)
T ss_dssp             CCEEEETCCSSCCSHHHHHHHTSSSCEEEEEEECCCSSSCCC------CEEEEEESSSHHHHHHHHTSSSCCCSSSCCE
T ss_pred             CEEEEECCCCCCCHHHHHHHHHhcCccceEEeeccccccccc------eeEEEEECCHHHHHHHHHHhCCCEECCEEEE
Confidence            369999999999999999999999999999999999999998      9999999999999999999999999999874

>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=99.82  E-value=1.2e-20  Score=135.23  Aligned_cols=72  Identities=18%  Similarity=0.280  Sum_probs=68.2

Q ss_pred             cEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCCcccc
Q psy3854          37 GIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDCRKRS  115 (222)
Q Consensus        37 g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~Grk~~  115 (222)
                      |.|||+|||+.+++++|+++|++||+|.+|.|..+. +|+++      |||||+|.+.++|..|+..|||+.++|+++.
T Consensus         1 grl~V~nLp~~~~~~~l~~~F~~~G~v~~~~i~~~~-~g~~~------g~afV~f~~~~~A~~Ai~~l~g~~l~g~~l~   72 (78)
T d1no8a_           1 GKLLVSNLDFGVSDADIQELFAEFGTLKKAAVHYDR-SGRSL------GTADVHFERKADALKAMKQYNGVPLDGRPMN   72 (78)
T ss_dssp             CEEEEESCCTTCCHHHHHHHHHHHSCEEEEEESCSS-CCCSC------CEEEEEESCHHHHHHHHHHHTTCEETTEECE
T ss_pred             CEEEEECCCCCCCHHHHHHHHHHhCCCeEEEEEEee-ccccc------eeEEEEECCHHHHHHHHHHhCCCEECCEEEE
Confidence            689999999999999999999999999999998875 58888      9999999999999999999999999999873

>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=99.81  E-value=2.5e-20  Score=137.87  Aligned_cols=76  Identities=18%  Similarity=0.240  Sum_probs=72.1

Q ss_pred             CCccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCCcc
Q psy3854          34 YKKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDCRK  113 (222)
Q Consensus        34 ~~~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~Grk  113 (222)
                      ....+|||||||+.+++++|+++|++||+|.+|.|+.+..+|+++      |||||+|.+.++|..|+..|||+.|+|++
T Consensus         5 ~~s~tlfV~nlp~~~te~~l~~~F~~~G~i~~v~i~~~~~~~~~k------g~afV~f~~~~~A~~Ai~~l~g~~~~gr~   78 (93)
T d1h2vz_           5 KKSCTLYVGNLSFYTTEEQIYELFSKSGDIKKIIMGLDKMKKTAC------GFCFVEYYSRADAENAMRYINGTRLDDRI   78 (93)
T ss_dssp             TTCCEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEECTTTCCEE------EEEEEEESSHHHHHHHHHHTTTSEETTEE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHHHCCcceecccccccccccc------ceEEEEECCHHHHHHHHHHhCCCEECCEE
Confidence            356789999999999999999999999999999999999989888      99999999999999999999999999998


Q ss_pred             cc
Q psy3854         114 RS  115 (222)
Q Consensus       114 ~~  115 (222)
                      +.
T Consensus        79 i~   80 (93)
T d1h2vz_          79 IR   80 (93)
T ss_dssp             CE
T ss_pred             EE
Confidence            74

>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=99.81  E-value=1.9e-20  Score=135.05  Aligned_cols=73  Identities=15%  Similarity=0.226  Sum_probs=69.9

Q ss_pred             ccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCCccc
Q psy3854          36 KGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDCRKR  114 (222)
Q Consensus        36 ~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~Grk~  114 (222)
                      ..+|||+|||+++++++|+++|++||.|.+|.|+.+..+|+++      |||||+|.+.++|..|+..|||+.|+|+++
T Consensus         9 ~~~l~V~nL~~~~te~~l~~~F~~~G~i~~v~i~~~~~~~~~~------g~afV~f~~~~~A~~Ai~~l~g~~~~gr~i   81 (83)
T d2cqca1           9 NCCLGVFGLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSR------GFAFVYFENVDDAKEAKERANGMELDGRRI   81 (83)
T ss_dssp             GGCEEEESCCSSCCHHHHHHHHHTTSCEEEEEEEECSSSSSEE------EEEEEEESSHHHHHHHHHHHTTEEETTEEE
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHHhCCCccccccccccccccc------cceEEEECCHHHHHHHHHHcCCCEECCEEe
Confidence            4579999999999999999999999999999999998889888      999999999999999999999999999986

>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=99.81  E-value=1.2e-20  Score=138.14  Aligned_cols=75  Identities=13%  Similarity=0.225  Sum_probs=71.1

Q ss_pred             CccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCCccc
Q psy3854          35 KKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDCRKR  114 (222)
Q Consensus        35 ~~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~Grk~  114 (222)
                      ...+|||+|||+++++++|+++|++||+|.+|.|+.|..+|++|      |||||+|.+.++|..|+..|||..|+|+++
T Consensus         4 ~~~tlfV~nLp~~~te~~l~~~F~~~G~i~~v~i~~d~~~~~~k------g~afV~f~~~~~A~~ai~~l~~~~i~g~~l   77 (89)
T d2cqba1           4 TKRVLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHR------GFAFVEFELAEDAAAAIDNMNESELFGRTI   77 (89)
T ss_dssp             CCSCEEEESCCSSCCHHHHHHHHTTTSCCCCEECCCCSSSCCCS------SEEEECCSSHHHHHHHHHHHTTEEETTEEE
T ss_pred             CCcEEEEeCCCCcCCHHHHHHHHhhCCeEEeccccccccccccc------ceeEEEECCHHHHHHHHHHcCCCEECCEEE
Confidence            34689999999999999999999999999999999999999988      999999999999999999999999999987


Q ss_pred             c
Q psy3854         115 S  115 (222)
Q Consensus       115 ~  115 (222)
                      .
T Consensus        78 ~   78 (89)
T d2cqba1          78 R   78 (89)
T ss_dssp             E
T ss_pred             E
Confidence            3

>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=99.81  E-value=4.5e-20  Score=133.79  Aligned_cols=71  Identities=15%  Similarity=0.342  Sum_probs=67.8

Q ss_pred             CccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCC
Q psy3854          35 KKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDC  111 (222)
Q Consensus        35 ~~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~G  111 (222)
                      ..++|||+|||+++++++|+++|++||+|.+|.|+++..+|++|      |||||+|.+.++|..|++.|||..+.|
T Consensus         5 ~~t~lfV~nlp~~~te~~l~~~F~~~G~i~~~~~~~d~~~g~~~------g~afV~f~~~~~A~~Ai~~l~g~~~~g   75 (85)
T d1b7fa2           5 KDTNLYVTNLPRTITDDQLDTIFGKYGSIVQKNILRDKLTGRPR------GVAFVRYNKREEAQEAISALNNVIPEG   75 (85)
T ss_dssp             TTCEEEEESCCTTCCHHHHHHHHTSSSCEEEEEEEECTTTCCEE------EEEEEEESSHHHHHHHHHHHTTCCCTT
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhhCCEeeeeeecccccccCc------eeEEEEECCHHHHHHHHHHHCCCEeCC
Confidence            45679999999999999999999999999999999998889888      999999999999999999999999977

>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=99.81  E-value=1.5e-20  Score=132.07  Aligned_cols=70  Identities=13%  Similarity=0.290  Sum_probs=67.8

Q ss_pred             EEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCCccc
Q psy3854          39 IYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDCRKR  114 (222)
Q Consensus        39 VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~Grk~  114 (222)
                      |||+|||+++++++|+++|++||.|.++.+.++..+++++      |+|||+|.+.++|.+|+..|||+.|.|+.+
T Consensus         1 lyV~nLp~~~te~~l~~~F~~~G~v~~~~~~~~~~~~~~~------g~afV~f~~~~~A~~Ai~~lng~~~~Gr~~   70 (72)
T d1x4ea1           1 LYIRGLQPGTTDQDLVKLCQPYGKIVSTKAILDKTTNKCK------GYGFVDFDSPSAAQKAVTALKASGVQAQMA   70 (72)
T ss_dssp             EEEESCCTTCCHHHHHTTSTTTSCEEEEEEECCSSSCSCC------SEEEEEESCHHHHHHHHHHHHHHTCCEESC
T ss_pred             CEEeCCCCcCCHHHHHHHHhhhcccccccccccccccccc------ceeEEEECCHHHHHHHHHHhCCCEECCEEC
Confidence            7999999999999999999999999999999998888888      999999999999999999999999999976

>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=99.81  E-value=5.3e-20  Score=136.29  Aligned_cols=77  Identities=25%  Similarity=0.381  Sum_probs=70.4

Q ss_pred             cCCccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCC-CCCCCCCCCCCccEEEEEecchHHHHHHHHHh-cCCccC
Q psy3854          33 KYKKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKK-RKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQY-NNTQID  110 (222)
Q Consensus        33 ~~~~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~-~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~L-Ng~~i~  110 (222)
                      .....+|||+|||+.+++++|+++|++||.|.+|.|+++. .+|++|      |||||+|.+.++|..|+..| ||..|.
T Consensus         5 ~~~~~~l~V~nLp~~~~e~~l~~~F~~~G~i~~v~i~~~~~~~g~~r------g~afV~f~~~~~A~~Ai~~l~~~~~~~   78 (94)
T d2cpha1           5 KQTTSKILVRNIPFQANQREIRELFSTFGELKTVRLPKKMTGTGAHR------GFGFVDFITKQDAKKAFNALCHSTHLY   78 (94)
T ss_dssp             SSCCCCEEEESCCTTCCHHHHHHHHHTTSCEEEEECCCCCSSSCSSC------SEEEEEESSHHHHHHHHHHHHTCCBSS
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHHhCCceEEEEEeccccCCCcc------cEEEEEECCHHHHHHHHHHccCCcEEC
Confidence            3456779999999999999999999999999999998875 478888      99999999999999999998 899999


Q ss_pred             Ccccc
Q psy3854         111 CRKRS  115 (222)
Q Consensus       111 Grk~~  115 (222)
                      |+++.
T Consensus        79 Gr~l~   83 (94)
T d2cpha1          79 GRRLV   83 (94)
T ss_dssp             SCBCE
T ss_pred             CEEEE
Confidence            99873

>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=99.81  E-value=3.8e-20  Score=135.12  Aligned_cols=75  Identities=17%  Similarity=0.370  Sum_probs=71.2

Q ss_pred             CccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCCccc
Q psy3854          35 KKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDCRKR  114 (222)
Q Consensus        35 ~~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~Grk~  114 (222)
                      ..+.|||||||+.+++++|+++|++||+|.+|.++.+..+|+++      |||||+|.+.++|+.|+..|||+.|+|+++
T Consensus         4 ~~~kifV~nLp~~~t~~~l~~~F~~~G~i~~~~~~~~~~~~~~~------g~afV~f~~~~~a~~Ai~~l~~~~~~g~~l   77 (90)
T d1x5sa1           4 DEGKLFVGGLSFDTNEQSLEQVFSKYGQISEVVVVKDRETQRSR------GFGFVTFENIDDAKDAMMAMNGKSVDGRQI   77 (90)
T ss_dssp             CCSEEEEESCCTTCCHHHHHHHHHHHSCCCEEEECCCSSSCSCC------SEEEEECSSHHHHHHHHHHHTTCCTTSCCC
T ss_pred             CCCEEEEECCCCcCCHHHHHHhhhccccccceeecccccccccc------ceEEEEECCHHHHHHHHHHcCCCEECCEEE
Confidence            45679999999999999999999999999999999998889888      999999999999999999999999999987


Q ss_pred             c
Q psy3854         115 S  115 (222)
Q Consensus       115 ~  115 (222)
                      .
T Consensus        78 ~   78 (90)
T d1x5sa1          78 R   78 (90)
T ss_dssp             E
T ss_pred             E
Confidence            4

>d1hd0a_ d.58.7.1 (A:) Heterogeneous nuclear ribonucleoprotein d0 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Heterogeneous nuclear ribonucleoprotein d0
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.80  E-value=6.6e-20  Score=130.61  Aligned_cols=70  Identities=14%  Similarity=0.265  Sum_probs=66.9

Q ss_pred             EEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCCccc
Q psy3854          38 IIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDCRKR  114 (222)
Q Consensus        38 ~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~Grk~  114 (222)
                      .|||||||+++++++|+++|++||+|.+|.|+.+..+|+++      |||||+|.+.++|+.|+. +|+..|+|+.+
T Consensus         1 klfV~nl~~~~te~~l~~~F~~~G~i~~~~i~~d~~t~~~k------g~afV~f~~~~~a~~Al~-~~~~~l~Gr~i   70 (75)
T d1hd0a_           1 KMFIGGLSWDTTKKDLKDYFSKFGEVVDCTLKLDPITGRSR------GFGFVLFKESESVDKVMD-QKEHKLNGKVI   70 (75)
T ss_dssp             CEEEECCCTTCCHHHHHHHHHTTSCEEEEECCCBTTTTBCC------SEEEEEESSHHHHHHHHH-TCCCCBTTBCC
T ss_pred             CEEEeCCCCcCCHHHHHHHHHhhccccccccccCCCCCCcC------ceEEEEECCHHHHHHHHh-cCCCEECCCEE
Confidence            38999999999999999999999999999999999999988      999999999999999997 79999999986

>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=99.80  E-value=6.9e-20  Score=136.29  Aligned_cols=76  Identities=12%  Similarity=0.174  Sum_probs=71.9

Q ss_pred             CCccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCCcc
Q psy3854          34 YKKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDCRK  113 (222)
Q Consensus        34 ~~~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~Grk  113 (222)
                      ..++.|||+|||+.+++++|+++|++||+|.+|.|+.+..+|+++      |||||+|.+.++|..|+..|||+.|+|++
T Consensus         6 ~~~~~lfV~nL~~~~t~~~l~~~F~~~g~v~~v~i~~d~~tg~~~------g~afV~f~~~~~a~~A~~~l~g~~~~gr~   79 (99)
T d1whwa_           6 SGSGRLFVRNLSYTSSEEDLEKLFSAYGPLSELHYPIDSLTKKPK------GFAFVTFMFPEHAVKAYAEVDGQVFQGRM   79 (99)
T ss_dssp             CSCEEEEEECCCTTCCHHHHHHHHHTTSCEEEEECCCCTTTCCCC------SEEEEEESSHHHHHHHHHHTTTEESSSCE
T ss_pred             CCCCEEEEECCCCcCCHHHHHHHHHhcCCceeeeecccccccccC------cceEEEECCHHHHHHHHHHcCCCEECCEE
Confidence            356789999999999999999999999999999999999889888      99999999999999999999999999998


Q ss_pred             cc
Q psy3854         114 RS  115 (222)
Q Consensus       114 ~~  115 (222)
                      +.
T Consensus        80 i~   81 (99)
T d1whwa_          80 LH   81 (99)
T ss_dssp             EE
T ss_pred             EE
Confidence            74

>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=99.80  E-value=4e-20  Score=133.10  Aligned_cols=71  Identities=17%  Similarity=0.280  Sum_probs=66.8

Q ss_pred             EEEcCCCCCCCHHHHHHHhhcCcceeEE-EEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCCcccc
Q psy3854          39 IYLSKVPPHMNVTQLTEFMSRFGEVGRV-YLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDCRKRS  115 (222)
Q Consensus        39 VYIsnLP~~m~e~~Lr~lFs~fG~I~rv-~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~Grk~~  115 (222)
                      |||+|||+++++++|+++|++||.|.++ .++.+..+|+++      |||||+|.+.++|+.|+..|||..|+|+++.
T Consensus         1 lfV~nLp~~~te~~l~~~F~~~G~i~~~~~i~~~~~~g~~~------g~afV~f~~~~~a~~Ai~~~~g~~~~gr~l~   72 (83)
T d1x5ta1           1 IFIGNLDPEIDEKLLYDTFSAFGVILQTPKIMRDPDTGNSK------GYAFINFASFDASDAAIEAMNGQYLCNRPIT   72 (83)
T ss_dssp             EEEECCCTTCCHHHHHHHHHTTSCBSSCCEECCCTTTCSCC------SEEEEEBSSHHHHHHHHHTTTTCEETTEECE
T ss_pred             CEEcCCCCcCcHHHHHHHHHHhCceeeeEEEEeeccccccC------ceEEEEECCHHHHHHHHHhCCCcEECCEEEE
Confidence            8999999999999999999999999775 788888889888      9999999999999999999999999999874

>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=99.80  E-value=3.7e-20  Score=133.03  Aligned_cols=71  Identities=17%  Similarity=0.358  Sum_probs=67.8

Q ss_pred             EEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCCcccc
Q psy3854          38 IIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDCRKRS  115 (222)
Q Consensus        38 ~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~Grk~~  115 (222)
                      .|||+|||+++++++|+++|++||+|.+|.|+.|+.+|++|      |||||+|.+.++|++|++ ||++.|+|+++.
T Consensus         2 klfV~nLp~~~te~~l~~~F~~~G~i~~v~i~~d~~tg~~k------G~aFV~f~~~~~a~~al~-~~~~~i~Gr~i~   72 (77)
T d1uawa_           2 KMFIGGLSWQTTQEGLREYFGQFGEVKECLVMRDPLTKRSR------GFGFVTFMDQAGVDKVLA-QSRHELDSKTID   72 (77)
T ss_dssp             CEEEESCCSSCCSHHHHHHHTTTSCCCCEEEECCCCSSSCS------SEEEECCCCTTHHHHHHH-TTTCCCSSCCCE
T ss_pred             EEEEeCCCCcCCHHHHHHHHHHhCCcceeeeecccCCCCcc------ceEEEEECCHHHHHHHHH-cCCCEECCeEEE
Confidence            69999999999999999999999999999999999999998      999999999999999997 799999999863

>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=99.79  E-value=6e-20  Score=131.62  Aligned_cols=73  Identities=14%  Similarity=0.269  Sum_probs=63.5

Q ss_pred             cEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCCcccc
Q psy3854          37 GIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDCRKRS  115 (222)
Q Consensus        37 g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~Grk~~  115 (222)
                      ++|||+|||+++++++|+++|++||.|.++.++++..+|+++      |||||+|.+.++|..|+..|||+.|.|+++.
T Consensus         2 ~tl~v~nLp~~~t~~~l~~~f~~~G~v~~~~~~~~~~~~~~~------g~afV~f~~~e~A~~Ai~~l~g~~~~g~~i~   74 (81)
T d2ghpa1           2 CTLWMTNFPPSYTQRNIRDLLQDINVVALSIRLPSLRFNTSR------RFAYIDVTSKEDARYCVEKLNGLKIEGYTLV   74 (81)
T ss_dssp             CEEEEECCCTTCCHHHHHHHHHHTTCCCCEEECC-------C------CEEEEECSSHHHHHHHHHHHTTCEETTEECE
T ss_pred             cEEEEECCCCcCCHHHHHHHHHHhCcEEeeeeeccccccccc------ceeEEEECCHHHHHHHHHHhCCCEECCEEEE
Confidence            589999999999999999999999999999999888888887      9999999999999999999999999999974

>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=99.79  E-value=4.9e-20  Score=135.39  Aligned_cols=80  Identities=14%  Similarity=0.368  Sum_probs=70.6

Q ss_pred             ccCCccEEEEcCCCCCCCHHHH---HHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCc
Q psy3854          32 KKYKKGIIYLSKVPPHMNVTQL---TEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQ  108 (222)
Q Consensus        32 k~~~~g~VYIsnLP~~m~e~~L---r~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~  108 (222)
                      +..+...|||+|||+.+++++|   +++|++||+|.+|.|+++..++.++   ...|||||+|.++++|..|++.|||+.
T Consensus         4 Rviq~n~vyV~nLp~~~t~~~l~~~~e~F~~~G~I~~v~i~~~~~~~~~~---~~~g~aFV~f~~~~~A~~Ai~~lng~~   80 (89)
T d2cpia1           4 RVVQKNLVFVVGLSQRLADPEVLKRPEYFGKFGKIHKVVINNSTSYAGSQ---GPSASAYVTYIRSEDALRAIQCVNNVV   80 (89)
T ss_dssp             CCCCSSCEEEEEECTTTCCHHHHHSTTTTTTTSCEEEEEEECCSSCCSSS---CCCEEEEEEESSHHHHHHHHHHHTTEE
T ss_pred             eEEecCEEEEECCCCccCHHHHHHHHHHhcccCCceEEEEeeccCcCCCC---CcceEEEEecccchhHHHHHHHhCCCE
Confidence            3445678999999999999999   7789999999999999998766554   233899999999999999999999999


Q ss_pred             cCCccc
Q psy3854         109 IDCRKR  114 (222)
Q Consensus       109 i~Grk~  114 (222)
                      ++|+.+
T Consensus        81 ~~gr~l   86 (89)
T d2cpia1          81 VDGRTL   86 (89)
T ss_dssp             ETTEEE
T ss_pred             ECCEEE
Confidence            999986

>d1cvja2 d.58.7.1 (A:91-179) Poly(A)-binding protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Poly(A)-binding protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.79  E-value=3.4e-20  Score=135.68  Aligned_cols=77  Identities=19%  Similarity=0.335  Sum_probs=69.7

Q ss_pred             cccCCccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccC
Q psy3854          31 SKKYKKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQID  110 (222)
Q Consensus        31 ~k~~~~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~  110 (222)
                      .++...++|||+|||+.+++++|+++|++||.|.+|.|+.+..  .++      |||||+|.+.++|..|++.|||+.|+
T Consensus         3 ~r~s~~~~l~V~nLp~~~t~~~l~~~F~~~G~v~~~~i~~~~~--~~k------g~afV~f~~~~~A~~Ai~~l~g~~~~   74 (89)
T d1cvja2           3 LRKSGVGNIFIKNLDKSIDNKALYDTFSAFGNILSCKVVCDEN--GSK------GYGFVHFETQEAAERAIEKMNGMLLN   74 (89)
T ss_dssp             HHHTTTTEEEEESCCSSCCHHHHHHHHHTTSCEEEEEECCBTT--BCC------SCEEEEESCHHHHHHHTTSSSEEEET
T ss_pred             CccCCCCEEEEeCCCCCCCHHHHHHHHHhcCCceEEEEEeecC--CCc------ceeEEEECCHHHHHHHHHHcCCCEEC
Confidence            3455678899999999999999999999999999999998864  345      99999999999999999999999999


Q ss_pred             Ccccc
Q psy3854         111 CRKRS  115 (222)
Q Consensus       111 Grk~~  115 (222)
                      |+++.
T Consensus        75 g~~i~   79 (89)
T d1cvja2          75 DRKVF   79 (89)
T ss_dssp             TEEEE
T ss_pred             CEEEE
Confidence            99873

>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=99.79  E-value=1.7e-19  Score=134.96  Aligned_cols=74  Identities=16%  Similarity=0.318  Sum_probs=68.8

Q ss_pred             CccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCCccc
Q psy3854          35 KKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDCRKR  114 (222)
Q Consensus        35 ~~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~Grk~  114 (222)
                      .+++|||+|||+.+++++|+++|++||+|.++.+..+. +++++      |||||+|.+.++|..|+..|||+.|.|+++
T Consensus        17 ~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~~~~~~~~-~~~~~------g~afV~f~~~~~A~~Ai~~lng~~i~gr~~   89 (101)
T d1x5oa1          17 DPTNLYISNLPLSMDEQELENMLKPFGQVISTRILRDS-SGTSR------GVGFARMESTEKCEAVIGHFNGKFIKTPPG   89 (101)
T ss_dssp             CTTEEEEESCCTTCCHHHHHHTTTTTSCEEEEEEEECS-SSCEE------EEEEEEESCHHHHHHHHHHHBTCCCCCCTT
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHhhcccccceeeeccc-ccccc------cceeEEeCCHHHHHHHHHHhCCCEECCcCC
Confidence            46789999999999999999999999999999998874 57777      999999999999999999999999999997


Q ss_pred             c
Q psy3854         115 S  115 (222)
Q Consensus       115 ~  115 (222)
                      .
T Consensus        90 ~   90 (101)
T d1x5oa1          90 V   90 (101)
T ss_dssp             S
T ss_pred             c
Confidence            4

>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=99.79  E-value=8.8e-20  Score=136.93  Aligned_cols=74  Identities=16%  Similarity=0.268  Sum_probs=70.5

Q ss_pred             ccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCCcccc
Q psy3854          36 KGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDCRKRS  115 (222)
Q Consensus        36 ~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~Grk~~  115 (222)
                      ..+|||+|||+++++++|+++|++||.|.+|.++.+..+|++|      |||||+|.+.++|..|++.|||..|+|+++.
T Consensus        18 ~~~l~V~nLp~~~te~~l~~~F~~~G~i~~~~~~~~~~~g~~k------G~afV~f~~~~~A~~Ai~~lng~~~~g~~i~   91 (102)
T d2cpza1          18 GANLFIYHLPQEFGDQDLLQMFMPFGNVVSAKVFIDKQTNLSK------CFGFVSYDNPVSAQAAIQSMNGFQIGMKRLK   91 (102)
T ss_dssp             TCCEEEESCCSSCCHHHHHHHHGGGSCCSEEEEEECSSSCSEE------EEEEEECSSHHHHHHHHHHHTTCEETTEECE
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHhhccccccceeeecccCCCc------cceEEEeCCHHHHHHHHHHhCCCEECCEEEE
Confidence            3579999999999999999999999999999999999999988      9999999999999999999999999999873

>d2cqda1 d.58.7.1 (A:1-103) RNA-binding region containing protein 1 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding region containing protein 1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.79  E-value=1.5e-19  Score=135.82  Aligned_cols=74  Identities=18%  Similarity=0.379  Sum_probs=69.4

Q ss_pred             CccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCCccc
Q psy3854          35 KKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDCRKR  114 (222)
Q Consensus        35 ~~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~Grk~  114 (222)
                      ....|||||||+.+++++|+++|++||+|.+|.|+.+..+|++|      |||||+|.+.++|..|++.||+ .|.|+++
T Consensus         9 ~~~~lfV~nLp~~~te~~l~~~F~~~G~i~~v~i~~d~~tg~~k------g~afV~f~~~~~A~~Ai~~~~~-~l~Gr~l   81 (103)
T d2cqda1           9 TFTKIFVGGLPYHTTDASLRKYFEGFGDIEEAVVITDRQTGKSR------GYGFVTMADRAAAERACKDPNP-IIDGRKA   81 (103)
T ss_dssp             SSSEEEEECCCSSCCHHHHHHHHHTTSCEEEEEESCCSSSCCCC------SEEEEEESSHHHHHHHHTCSSC-EETTEEC
T ss_pred             CCcEEEEeCCCCcCcHHHHHHHHhhcccccceeccccccccccC------CeEEEEECCHHHHHHHHHHCCC-cCCCEEE
Confidence            45679999999999999999999999999999999999999998      9999999999999999999987 6899987


Q ss_pred             c
Q psy3854         115 S  115 (222)
Q Consensus       115 ~  115 (222)
                      .
T Consensus        82 ~   82 (103)
T d2cqda1          82 N   82 (103)
T ss_dssp             E
T ss_pred             E
Confidence            4

>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=99.78  E-value=7.5e-20  Score=136.97  Aligned_cols=73  Identities=18%  Similarity=0.286  Sum_probs=69.8

Q ss_pred             cEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCCcccc
Q psy3854          37 GIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDCRKRS  115 (222)
Q Consensus        37 g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~Grk~~  115 (222)
                      .+|||+|||+++++++|+++|++||+|.+|.|+.+..+|+++      |||||+|.+.++|..|+..|||..|+|+++.
T Consensus         9 rtl~V~nLp~~~te~~l~~~f~~~G~i~~v~i~~~~~tg~~~------g~afV~f~~~~~a~~ai~~l~~~~~~g~~i~   81 (104)
T d1p1ta_           9 RSVFVGNIPYEATEEQLKDIFSEVGPVVSFRLVYDRETGKPK------GYGFCEYQDQETALSAMRNLNGREFSGRALR   81 (104)
T ss_dssp             SCEEEESCCTTSCHHHHHHHHHTTSCCSEEEEEEETTTTEEE------EEEEEECSCHHHHHHHHHHSSSBSCSSSCBE
T ss_pred             CEEEEECCCCcCCHHHHHHhhhccccccccccccccceeccC------CceEEEECCHHHHHHHHHHcCCCEECCEEEE
Confidence            469999999999999999999999999999999999889888      9999999999999999999999999999873

>d1u6fa1 d.58.7.1 (A:1-139) RNA-binding protein UBP1 {Trypanosoma cruzi [TaxId: 5693]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding protein UBP1
species: Trypanosoma cruzi [TaxId: 5693]

Probab=99.78  E-value=2.8e-19  Score=139.93  Aligned_cols=75  Identities=17%  Similarity=0.317  Sum_probs=71.3

Q ss_pred             CccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCCccc
Q psy3854          35 KKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDCRKR  114 (222)
Q Consensus        35 ~~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~Grk~  114 (222)
                      ...+|||||||+++++++|+++|++||+|.+|.|+++..+|++|      |||||+|.+.++|..|++.|||..|+|+++
T Consensus        41 ~~~~l~V~nLp~~~te~~l~~~F~~~G~i~~v~i~~d~~t~~~r------g~afV~f~~~~~A~~Ai~~lng~~~~gr~l  114 (139)
T d1u6fa1          41 VLRNLMVNYIPTTVDEVQLRQLFERYGPIESVKIVCDRETRQSR------GYGFVKFQSGSSAQQAIAGLNGFNILNKRL  114 (139)
T ss_dssp             TTSEEEEESCSTTCCHHHHHHHHHHHSCEEEEEEEEETTTTEEE------EEEEEEESSHHHHHHHHHHTTTEECSSCEE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhhcccccccccccccccccc------ceeeEEECCHHHHHHHHHHhCCCEECCEEE
Confidence            34579999999999999999999999999999999999999888      999999999999999999999999999987


Q ss_pred             c
Q psy3854         115 S  115 (222)
Q Consensus       115 ~  115 (222)
                      .
T Consensus       115 ~  115 (139)
T d1u6fa1         115 K  115 (139)
T ss_dssp             E
T ss_pred             E
Confidence            4

>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=99.78  E-value=1.1e-19  Score=131.38  Aligned_cols=71  Identities=18%  Similarity=0.286  Sum_probs=65.8

Q ss_pred             EEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCC---CCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCCcccc
Q psy3854          39 IYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKP---GEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDCRKRS  115 (222)
Q Consensus        39 VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tg---ksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~Grk~~  115 (222)
                      |||+|||+++++++|+++|++||+|.+|.|+++..++   ++|      |||||+|.+.++|..|++.|||..|+|+++.
T Consensus         1 LfV~nLp~~~t~~~l~~~F~~~G~v~~v~i~~~~~~~~~~~~k------G~afV~f~~~~~A~~A~~~~~~~~~~g~~i~   74 (85)
T d2cpfa1           1 LFIKNLNFSTTEETLKGVFSKVGAIKSCTISKKKNKAGVLLSM------GFGFVEYKKPEQAQKALKQLQGHTVDGHKLE   74 (85)
T ss_dssp             EEEESCCTTCCHHHHHHHHHTTSCEEEEEEEEEECTTCCEEEE------EEEEEEESSHHHHHHHHHHSTTCEETTEECE
T ss_pred             CEEcCCCCCCCHHHHHHHHHHhCCccccceecccccccccccc------eEEEEEECCHHHHHHHHHHhCCCEECCEEEE
Confidence            7999999999999999999999999999999886654   345      9999999999999999999999999999874

>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=99.78  E-value=1.4e-19  Score=136.31  Aligned_cols=72  Identities=13%  Similarity=0.248  Sum_probs=68.8

Q ss_pred             ccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCCccc
Q psy3854          36 KGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDCRKR  114 (222)
Q Consensus        36 ~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~Grk~  114 (222)
                      ..+|||+|||+.+++++|+++|+.||+|.+|.|+.+..+|++|      |||||+|.+.++|..|+. |||..|+|+.+
T Consensus        18 ~~tifV~nL~~~~te~~l~~~F~~~G~V~~v~i~~d~~tg~~k------G~afV~F~~~e~a~~A~~-l~g~~~~G~~l   89 (101)
T d2cq4a1          18 ARTVFCMQLAARIRPRDLEDFFSAVGKVRDVRIISDRNSRRSK------GIAYVEFCEIQSVPLAIG-LTGQRLLGVPI   89 (101)
T ss_dssp             HTEEEEESCCTTCCHHHHHHHHTTTSCEEEEEECCSCCSSSCC------CCEEEEESCGGGHHHHHH-HTTEEETTEEE
T ss_pred             CCEEEEECCCCCCCHHHHHHHHcCCCeEEEEEeeecCCCcccc------ceEEEEECCHHHHHHHHH-HCCCEECCEEE
Confidence            3579999999999999999999999999999999999999999      999999999999999995 99999999986

>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=99.78  E-value=2.6e-19  Score=130.16  Aligned_cols=72  Identities=8%  Similarity=0.181  Sum_probs=68.2

Q ss_pred             ccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCCccc
Q psy3854          36 KGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDCRKR  114 (222)
Q Consensus        36 ~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~Grk~  114 (222)
                      ...|||+|||+.+++++|+++|++||+|.+|.|+.|..+|+++      |||||+|.+.++|+.|++ +||..|.|+.+
T Consensus         6 ~~~lfV~nlp~~~te~~l~~~F~~~G~i~~v~i~~d~~tg~~k------G~afV~f~~~~~a~~ai~-~~~~~i~Gr~i   77 (84)
T d1l3ka1           6 LRKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSR------GFGFVTYATVEEVDAAMN-ARPHKVDGRVV   77 (84)
T ss_dssp             GGEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEECTTTCCEE------EEEEEEESSHHHHHHHHH-TCSCEETTEEC
T ss_pred             CcEEEEECCCCCCCHHHHHHHHHhhccccceeecccccCCCcc------cEEEEEEcCHHHHHHHHH-hCCCEECCEEE
Confidence            4579999999999999999999999999999999999999998      999999999999999996 69999999986

>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=99.77  E-value=6.8e-19  Score=129.80  Aligned_cols=76  Identities=20%  Similarity=0.321  Sum_probs=68.6

Q ss_pred             ccCCccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCC
Q psy3854          32 KKYKKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDC  111 (222)
Q Consensus        32 k~~~~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~G  111 (222)
                      ....+.+|||+|||+.+++++|+++|++||+|.+|.|+.+..+  ++      |||||+|.+.++|.+|+..|||..|+|
T Consensus         7 ~~~~~~~l~v~nLp~~~t~~~L~~~F~~~G~v~~v~~~~~~~~--~k------g~afV~f~~~~~a~~Ai~~l~~~~~~g   78 (93)
T d2cq3a1           7 SKSTPKRLHVSNIPFRFRDPDLRQMFGQFGKILDVEIIFNERG--SK------GFGFVTFENSADADRAREKLHGTVVEG   78 (93)
T ss_dssp             CSCCCCEEEEESCCTTCCHHHHHHHGGGTSCEEEEEEECCTTT--TC------CEEEEEESCHHHHHHHHHHHTTCEETT
T ss_pred             CCCCCCEEEEECCCCCCCHHHHHHHHhhcceeeeccccccccC--Cc------ceeEEEECCHHHHHHHHHHcCCCEECC
Confidence            3445677999999999999999999999999999999987643  45      999999999999999999999999999


Q ss_pred             cccc
Q psy3854         112 RKRS  115 (222)
Q Consensus       112 rk~~  115 (222)
                      +++.
T Consensus        79 ~~l~   82 (93)
T d2cq3a1          79 RKIE   82 (93)
T ss_dssp             EECE
T ss_pred             EEEE
Confidence            9873

>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=99.77  E-value=1.9e-19  Score=128.96  Aligned_cols=70  Identities=17%  Similarity=0.340  Sum_probs=65.5

Q ss_pred             EEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCCccc
Q psy3854          38 IIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDCRKR  114 (222)
Q Consensus        38 ~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~Grk~  114 (222)
                      .|||||||+++|+++|+++|++||+|.+|.|+.+..+|++|      |||||+|.+.++|.+|++. ++..|+|+.+
T Consensus         1 klfVgnLp~~~te~~l~~~F~~~G~I~~v~i~~d~~t~~~r------G~~FV~f~~~~~a~~al~~-~~~~i~g~~i   70 (75)
T d1x0fa1           1 KIFVGGLSPDTPEEKIREYFGGFGEVESIELPMDNKTNKRR------GFCFITFKEEEPVKKIMEK-KYHNVGLSKC   70 (75)
T ss_dssp             EEEEESCCSSCCHHHHHHHHHHHSCEEEEECCCCTTTCCTT------CCEEEEESSSHHHHHHTTC-SSCCBTTBCC
T ss_pred             CEEEcCCCCCCCHHHHHHHHHHhCCcccccccccccccccc------cEEEEEECCHHHHHHHHhh-CCCEECCEEe
Confidence            48999999999999999999999999999999999999998      9999999999999999964 7778999875

>d2msta_ d.58.7.1 (A:) Neural RNA-binding protein Musashi-1 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Neural RNA-binding protein Musashi-1
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.77  E-value=3.4e-19  Score=125.30  Aligned_cols=71  Identities=17%  Similarity=0.369  Sum_probs=66.9

Q ss_pred             EEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCCcccc
Q psy3854          38 IIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDCRKRS  115 (222)
Q Consensus        38 ~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~Grk~~  115 (222)
                      .|||||||+++++++|+++|++||.|..+.++.+..+++++      |+|||+|.+.++|..|++ |||..|+|+++.
T Consensus         1 rlfV~nLp~~~te~~l~~~F~~~G~i~~~~~~~~~~~~~~~------~~afV~F~~~~~a~~al~-~~~~~l~gr~i~   71 (75)
T d2msta_           1 KIFVGGLSVNTTVEDVKHYFEQFGKVDDAMLMFDKTTNRHR------GFGFVTFESEDIVEKVCE-IHFHEINNKMVE   71 (75)
T ss_dssp             CEEEECCCSSCCHHHHHHHHHTTSCCSEECCBCCTTCTTSC------CEEEEECSCHHHHHHHHH-CSSCCBTTBCCE
T ss_pred             CEEEeCCCCCCCHHHHHHHHHHhCCcceeeeeeeccccccC------ceeEEEECCHHHHHHHHh-cCCCEECCeEEE
Confidence            48999999999999999999999999999999998888887      999999999999999986 999999999873

>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=99.77  E-value=4.8e-19  Score=129.75  Aligned_cols=73  Identities=12%  Similarity=0.260  Sum_probs=67.4

Q ss_pred             CccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCCccc
Q psy3854          35 KKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDCRKR  114 (222)
Q Consensus        35 ~~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~Grk~  114 (222)
                      .+.+|||||||+.+++++|+++|++||+|.+|.|.++..++  +      |||||+|.+.++|..|+..|||..|.|+.+
T Consensus         7 ~~~tl~V~nLp~~~te~~l~~~F~~~G~i~~v~i~~d~~~~--~------~~afV~f~~~~~A~~A~~~l~~~~~~g~~i   78 (90)
T d2cqia1           7 QPRTLYVGNLSRDVTEVLILQLFSQIGPCKSCKMITEHTSN--D------PYCFVEFYEHRDAAAALAAMNGRKILGKEV   78 (90)
T ss_dssp             CCCEEEEESCCTTCCHHHHHHHHHHHSCEEEEEEECCCCSS--C------CEEEEEESSHHHHHHHHHHHTTEEETTEEE
T ss_pred             CCCEEEEECCCCCCCHHHHHHHHHhcCCceeeeeecccCcc--c------eeeEEEECCHHHHHHHHHHcCCCEECCEEE
Confidence            45689999999999999999999999999999999987654  4      899999999999999999999999999987


Q ss_pred             c
Q psy3854         115 S  115 (222)
Q Consensus       115 ~  115 (222)
                      .
T Consensus        79 ~   79 (90)
T d2cqia1          79 K   79 (90)
T ss_dssp             E
T ss_pred             E
Confidence            4

>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=99.77  E-value=5.4e-19  Score=125.78  Aligned_cols=72  Identities=7%  Similarity=0.266  Sum_probs=66.9

Q ss_pred             cEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCCcccc
Q psy3854          37 GIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDCRKRS  115 (222)
Q Consensus        37 g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~Grk~~  115 (222)
                      ..|||||||+++|+++|+++|++||.|.++.+..++.+++++      |||||+|.++++|.+|+ .|||..|+|+++.
T Consensus         3 r~lfV~nLp~~~te~~l~~~F~~~G~i~~~~~~~~~~~~~~~------g~afV~f~~~e~~~~al-~~~~~~l~Gr~i~   74 (79)
T d1l3ka2           3 KKIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKR------GFAFVTFDDHDSVDKIV-IQKYHTVNGHNCE   74 (79)
T ss_dssp             SEEEEECCTTTCCHHHHHHHHTTTSCEEEEEEEECTTTCCEE------EEEEEEESSHHHHHHHH-HCSCCEETTEECE
T ss_pred             CEEEECCCCCcCCHHHHHHHHHHhccccccccccCCCCcccc------cEEEEEEcCHHHHHHHH-HhCCCEECCEEEE
Confidence            469999999999999999999999999999999999888888      99999999998888887 5899999999863

>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=99.76  E-value=5.2e-19  Score=130.56  Aligned_cols=73  Identities=25%  Similarity=0.283  Sum_probs=67.6

Q ss_pred             CCccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCCcc
Q psy3854          34 YKKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDCRK  113 (222)
Q Consensus        34 ~~~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~Grk  113 (222)
                      ...++|||+|||+++++++|+++|++||+|.+|.|+.|..+|++|      |||||+|.++++|.+|++.+|  .|+|+.
T Consensus         6 ~~~~~lfV~nLp~~~te~~l~~~F~~~G~i~~v~i~~d~~tg~sr------G~aFV~f~~~~~a~~al~~~~--~l~Gr~   77 (90)
T d2cqga1           6 QKTSDLIVLGLPWKTTEQDLKEYFSTFGEVLMVQVKKDLKTGHSK------GFGFVRFTEYETQVKVMSQRH--MIDGRW   77 (90)
T ss_dssp             CCCCCEEEESCCSSCCHHHHHHHHGGGSCEEEEEEEECSSSCSEE------EEEEEEESSHHHHHHHHHSCE--EETTEE
T ss_pred             cCCCeEEEECCCCCCCHHHHHHHHHhhcccceeeeccCCCCcccC------CEEEEEECCHHHHHHHHhcCC--ccCCEE
Confidence            456789999999999999999999999999999999999999998      999999999999999998644  788987


Q ss_pred             c
Q psy3854         114 R  114 (222)
Q Consensus       114 ~  114 (222)
                      +
T Consensus        78 i   78 (90)
T d2cqga1          78 C   78 (90)
T ss_dssp             E
T ss_pred             e
Confidence            6

>d2f9da1 d.58.7.1 (A:12-125) Pre-mRNA branch site protein p14 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Pre-mRNA branch site protein p14
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.75  E-value=1.6e-18  Score=131.15  Aligned_cols=71  Identities=11%  Similarity=0.311  Sum_probs=65.5

Q ss_pred             ccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCCcccc
Q psy3854          36 KGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDCRKRS  115 (222)
Q Consensus        36 ~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~Grk~~  115 (222)
                      ..+|||+|||+.+++++|+++|++||+|.+|.+..+   +++|      |||||+|.+.++|..|+..|||..|.|+.+.
T Consensus         7 ~r~l~V~nLp~~~te~~l~~~F~~~G~v~~i~~~~~---~~~k------G~afV~f~~~~~A~~Ai~~l~g~~~~gr~l~   77 (114)
T d2f9da1           7 NRILYIRNLPYKITAEEMYDIFGKYGPIRQIRVGNT---PETR------GTAYVVYEDIFDAKNACDHLSGFNVCNRYLV   77 (114)
T ss_dssp             CSEEEEESCCTTCCHHHHHHHHHTTSCEEEEEEECS---TTTT------TEEEEEESSHHHHHHHHHHHTTCEETTEECE
T ss_pred             CCEEEEECCCCCCCHHHHHHHHhhcCCeEeeccccc---CCcC------CeEEEEECCHHHHHHHHHHhCCCEECCEEEE
Confidence            457999999999999999999999999999999764   4556      9999999999999999999999999999874

>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=99.75  E-value=9e-19  Score=132.37  Aligned_cols=73  Identities=12%  Similarity=0.208  Sum_probs=68.1

Q ss_pred             ccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCCcccc
Q psy3854          36 KGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDCRKRS  115 (222)
Q Consensus        36 ~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~Grk~~  115 (222)
                      ...|||||||+++++++|+++|++||+|..|.|+.|..++++|      |||||+|.+.++|..|+. |||..|.|+.+.
T Consensus        20 ~~~lfVgnLp~~~te~~L~~~F~~~G~i~~~~i~~d~~~~~~k------g~aFV~f~~~~~a~~al~-~~~~~l~G~~i~   92 (103)
T d1x4ba1          20 FRKLFIGGLSFETTEESLRNYYEQWGKLTDCVVMRDPASKRSR------GFGFVTFSSMAEVDAAMA-ARPHSIDGRVVE   92 (103)
T ss_dssp             HTEEEEECCTTCCCHHHHHHHHTSSCCCSEEEEECCTTTSSCC------SEEEEECSSHHHHHHHHT-SCSEEETTEEEE
T ss_pred             CCEEEEeCCCCcCCHHHHHHHHHhhCcccceeecccccCCCcc------CeEEEEECCHHHHHHHHH-hCCCeECCEEEE
Confidence            4679999999999999999999999999999999999888888      999999999999998885 899999999873

>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=99.75  E-value=2e-18  Score=126.74  Aligned_cols=74  Identities=15%  Similarity=0.295  Sum_probs=67.2

Q ss_pred             CccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhc------CCc
Q psy3854          35 KKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYN------NTQ  108 (222)
Q Consensus        35 ~~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LN------g~~  108 (222)
                      ...+|||||||+.+++++|+++|++||+|.++.++.+..+++++      |||||+|.+.++|..|+..||      |..
T Consensus         7 ~~~tlfV~nLp~~~te~~l~~~f~~~G~v~~~~~~~~~~~~~~~------g~afV~F~~~~~a~~ai~~l~~~~~~~g~~   80 (98)
T d1x4ha1           7 EGKTVFIRNLSFDSEEEALGEVLQQFGDLKYVRVVLHPDTEHSK------GCAFAQFMTQEAAQKCLAAASLEAEGGGLK   80 (98)
T ss_dssp             CCCCEEEESCCTTCCHHHHHHHHHTTSCEEEEECCBCSSSCCBC------SEEEEEESSHHHHHHHHHHHCTTTTTCCEE
T ss_pred             CCCEEEEcCCCCcCCHHHHHHHHhccccceeeeecccccccccc------ceEEEEEcCHHHHHHHHHHcccccccCCcE
Confidence            44679999999999999999999999999999999998888888      999999999999999999998      455


Q ss_pred             cCCccc
Q psy3854         109 IDCRKR  114 (222)
Q Consensus       109 i~Grk~  114 (222)
                      |.|+++
T Consensus        81 ~~gr~l   86 (98)
T d1x4ha1          81 LDGRQL   86 (98)
T ss_dssp             SSSCEE
T ss_pred             ECCEEE
Confidence            667665

>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=99.74  E-value=1.8e-18  Score=129.53  Aligned_cols=69  Identities=16%  Similarity=0.334  Sum_probs=63.7

Q ss_pred             ccEEEEcCCCCC-CCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCCccc
Q psy3854          36 KGIIYLSKVPPH-MNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDCRKR  114 (222)
Q Consensus        36 ~g~VYIsnLP~~-m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~Grk~  114 (222)
                      ..+|||+||||. +++++|+++|++||+|.+|.|+++.     +      |+|||+|.+.++|.+|++.|||..|.|+.+
T Consensus         2 ~~~l~V~nL~p~~~te~~L~~~F~~fG~I~~v~i~~~~-----k------g~afV~f~~~~~A~~ai~~lng~~l~g~~l   70 (109)
T d2adca1           2 NSVLLVSNLNPERVTPQSLFILFGVYGDVQRVKILFNK-----K------ENALVQMADGNQAQLAMSHLNGHKLHGKPI   70 (109)
T ss_dssp             CSEEEEESCCTTTCCHHHHHHHHHHHTCEEEEEECCTT-----S------CCEEEEESCHHHHHHHHHHHTTCBCSSSBC
T ss_pred             CCEEEEeCCCcccCCHHHHHHHHhhccccceEEEEecc-----c------ceEEEEECCHHHHHHHHHHhCCCEECCEEE
Confidence            468999999765 9999999999999999999998863     3      899999999999999999999999999988


Q ss_pred             c
Q psy3854         115 S  115 (222)
Q Consensus       115 ~  115 (222)
                      .
T Consensus        71 ~   71 (109)
T d2adca1          71 R   71 (109)
T ss_dssp             E
T ss_pred             E
Confidence            4

>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=99.74  E-value=3.3e-18  Score=126.46  Aligned_cols=76  Identities=14%  Similarity=0.264  Sum_probs=68.8

Q ss_pred             CCccEEEEcCCCCCCCHHHHHHHhhcCccee--------EEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhc
Q psy3854          34 YKKGIIYLSKVPPHMNVTQLTEFMSRFGEVG--------RVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYN  105 (222)
Q Consensus        34 ~~~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~--------rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LN  105 (222)
                      ....+|||+|||+.+++++|+++|++||+|.        .+.+..+..+|+++      |||||+|.+.++|..|++.||
T Consensus         6 ~~~~~i~V~nLp~~~te~~l~~~F~~~G~i~~~~~~~~~~~~~~~d~~~~~~~------g~afV~f~~~~~a~~Ai~~l~   79 (101)
T d2cpea1           6 SDNSAIYVQGLNDSVTLDDLADFFKQCGVVKMNKRTGQPMIHIYLDKETGKPK------GDATVSYEDPPTAKAAVEWFD   79 (101)
T ss_dssp             CCCCEEEEECCCTTCCHHHHHHHHTTTSCBCBCSSSCCBSEECCBCTTTCSBC------SEEEEEBSSHHHHHHHHHHHT
T ss_pred             CCCCEEEEECCCCcCCHHHHHHHHHHCceEEEeeecccceeEEeecccccccc------ceeeEEecCHHHHHHHHHHhC
Confidence            3567999999999999999999999999984        66777777778887      999999999999999999999


Q ss_pred             CCccCCcccc
Q psy3854         106 NTQIDCRKRS  115 (222)
Q Consensus       106 g~~i~Grk~~  115 (222)
                      |..|+|+++.
T Consensus        80 g~~~~gr~i~   89 (101)
T d2cpea1          80 GKDFQGSKLK   89 (101)
T ss_dssp             TCEETTEECE
T ss_pred             CCEECCEEEE
Confidence            9999999974

>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=99.73  E-value=3.4e-18  Score=121.92  Aligned_cols=69  Identities=13%  Similarity=0.175  Sum_probs=63.1

Q ss_pred             cEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCCccc
Q psy3854          37 GIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDCRKR  114 (222)
Q Consensus        37 g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~Grk~  114 (222)
                      ++|||+|||+.+++++|+++|++||+|.+|.|.+++..  ++      ++|||+|.+.++|.+|+ .|||..|+|+.+
T Consensus         1 Ttv~V~nlp~~~t~~~l~~~F~~~G~I~~v~~~~~~~~--~~------~~afV~F~~~~~a~~Al-~~~~~~i~g~~i   69 (75)
T d2ghpa2           1 TTVLVKNLPKSYNQNKVYKYFKHCGPIIHVDVADSLKK--NF------RFARIEFARYDGALAAI-TKTHKVVGQNEI   69 (75)
T ss_dssp             CEEEEEEECTTCCHHHHHHHHGGGSCEEEEEEEECTTS--SS------EEEEEEESSHHHHHHHH-TTTTCEETTEEC
T ss_pred             CEEEEECCCCCCCHHHHHHHHhcCCceEEEEEEeeccc--cc------eEEEEEEcchHHhHHHH-HhcCcEECCEEE
Confidence            57999999999999999999999999999999988653  23      89999999999999998 599999999986

>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=99.73  E-value=1.5e-18  Score=126.20  Aligned_cols=74  Identities=16%  Similarity=0.240  Sum_probs=63.5

Q ss_pred             CccEEEEcCCCCCCC-HHHHHHHhhcCcceeEEEEecC-CCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCCc
Q psy3854          35 KKGIIYLSKVPPHMN-VTQLTEFMSRFGEVGRVYLMPK-KRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDCR  112 (222)
Q Consensus        35 ~~g~VYIsnLP~~m~-e~~Lr~lFs~fG~I~rv~L~~d-~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~Gr  112 (222)
                      ....|||+|||+.++ ++.|+++|++||+|.+|.|..+ ..+|+++      |||||+|.+.++|..|++ |||+.++|+
T Consensus         3 e~~~l~V~nLp~~~t~ed~l~~~F~~~G~i~~v~i~~~~~~~~~~k------g~afV~f~~~~~a~~Al~-~n~~~~~gr   75 (86)
T d2ghpa3           3 EGREIMIRNLSTELLDENLLRESFEGFGSIEKINIPAGQKEHSFNN------CCAFMVFENKDSAERALQ-MNRSLLGNR   75 (86)
T ss_dssp             TTTEEEEEEECTTTCCHHHHHHHHGGGSCEEEEECCSCCC---CCC------EEEEEEESSHHHHHHHGG-GTTEEETTE
T ss_pred             CCCEEEEECCCCCcccHHHHHHHHHhhhhccceeeecccCCccccc------eeeeEEECCHHHHHHHHh-cCCCEECCE
Confidence            456899999999986 5569999999999999999765 4567777      999999999999999995 999999999


Q ss_pred             ccc
Q psy3854         113 KRS  115 (222)
Q Consensus       113 k~~  115 (222)
                      .+.
T Consensus        76 ~l~   78 (86)
T d2ghpa3          76 EIS   78 (86)
T ss_dssp             EEE
T ss_pred             EEE
Confidence            874

>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=99.73  E-value=4.9e-18  Score=123.80  Aligned_cols=69  Identities=14%  Similarity=0.488  Sum_probs=64.1

Q ss_pred             CccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCCccc
Q psy3854          35 KKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDCRKR  114 (222)
Q Consensus        35 ~~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~Grk~  114 (222)
                      ....|||+|||+++++++|+++|++||+|.+|++.++      |      |||||+|.+.++|..|+..|||..|.|+++
T Consensus         7 ~~~~l~V~nLp~~~~~~~l~~~F~~~G~i~~i~~~~~------k------~~afV~f~~~~~A~~A~~~l~g~~i~g~~l   74 (86)
T d2cpja1           7 QRSRLFVGNLPPDITEEEMRKLFEKYGKAGEVFIHKD------K------GFGFIRLETRTLAEIAKVELDNMPLRGKQL   74 (86)
T ss_dssp             CTTEEEEESCCTTCCHHHHHHHTSTTCCCSEEEEETT------T------TEEEEECSSSHHHHHHHHHHTTCCBTTBCC
T ss_pred             CCCEEEEECCCCCCCHHHHHHHHHHhCCceEeeeecc------c------ceEEEEECCHHHHHHHHHHhCCCEECCEEE
Confidence            4567999999999999999999999999999999764      3      899999999999999999999999999987


Q ss_pred             c
Q psy3854         115 S  115 (222)
Q Consensus       115 ~  115 (222)
                      .
T Consensus        75 ~   75 (86)
T d2cpja1          75 R   75 (86)
T ss_dssp             E
T ss_pred             E
Confidence            4

>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=99.72  E-value=1.7e-18  Score=125.16  Aligned_cols=76  Identities=16%  Similarity=0.231  Sum_probs=67.6

Q ss_pred             CCccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCCcc
Q psy3854          34 YKKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDCRK  113 (222)
Q Consensus        34 ~~~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~Grk  113 (222)
                      ..+++|||+|||+++++++|+++|+.||.|....++.++.+|+++      |+|||+|.+.++|..|+..|||+.|+|++
T Consensus         7 p~~~~l~v~nLp~~~~~~di~~~F~~~~~~~~~~~~~~~~~g~~~------G~afV~f~~~e~a~~Ai~~l~~~~l~gr~   80 (86)
T d2cqpa1           7 PGPTIIKVQNMPFTVSIDEILDFFYGYQVIPGSVCLKYNEKGMPT------GEAMVAFESRDEATAAVIDLNDRPIGSRK   80 (86)
T ss_dssp             CSSEEEEEESCCTTCCHHHHHHHTTTSCCCTTTCEEEECSSSCEE------EEEEEEESCHHHHHHHHHHTTTCEETTEE
T ss_pred             CCCCEEEEECCCCCCCHHHHHHHHhhcccceeEEEEEeCCCCCcc------eEEEEEEcCcHHHHHHHHHcCCCEECCEE
Confidence            456789999999999999999999999999865444555678888      99999999999999999999999999998


Q ss_pred             cc
Q psy3854         114 RS  115 (222)
Q Consensus       114 ~~  115 (222)
                      +.
T Consensus        81 i~   82 (86)
T d2cqpa1          81 VK   82 (86)
T ss_dssp             CE
T ss_pred             EE
Confidence            73

>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=99.72  E-value=3.3e-18  Score=124.67  Aligned_cols=65  Identities=20%  Similarity=0.332  Sum_probs=61.4

Q ss_pred             EEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCCcccc
Q psy3854          38 IIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDCRKRS  115 (222)
Q Consensus        38 ~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~Grk~~  115 (222)
                      .|||||||+.+++++|+++|++||+|.+|.+.++             |||||+|.+.++|..|+..|||+.|.|+.+.
T Consensus         2 rvfV~nlp~~~~~~~l~~~F~~~G~v~~~~i~~~-------------g~afV~f~~~~~a~~Ai~~l~g~~~~g~~i~   66 (87)
T d3begb1           2 RVVVSGLPPSGSWQDLKDHMREAGDVCYADVYRD-------------GTGVVEFVRKEDMTYAVRKLDNTKFRSHEGE   66 (87)
T ss_dssp             CEEEEECCSSCCTTHHHHHHGGGSCEEEEEECTT-------------SEEEEEESSHHHHHHHHHHHTTCBCCCTTSC
T ss_pred             eEEEECCCCcCCHHHHHHHHhhhccccccccccc-------------ceeeEEeCCHHHHHHHHHHhCCCEECCcEeE
Confidence            5999999999999999999999999999998653             8999999999999999999999999999874

>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=99.72  E-value=1e-18  Score=129.71  Aligned_cols=74  Identities=18%  Similarity=0.262  Sum_probs=70.0

Q ss_pred             ccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCCcccc
Q psy3854          36 KGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDCRKRS  115 (222)
Q Consensus        36 ~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~Grk~~  115 (222)
                      ..+|||+|||+++++++|+++|++||.|.++.++.+..+|+++      |||||+|.+.++|..|+..|||..|+|+++.
T Consensus        18 s~tl~V~nLp~~~t~~~l~~~f~~~G~v~~~~~~~~~~~g~~~------g~~fV~f~~~~~A~~Ai~~l~g~~~~g~~l~   91 (102)
T d2cpxa1          18 NKVLYLKNLSPRVTERDLVSLFARFQEKKGPPIQFRMMTGRMR------GQAFITFPNKEIAWQALHLVNGYKLYGKILV   91 (102)
T ss_dssp             CSEEEEECCCTTCCHHHHHHHTHHHHHSSSSCCEEEEECSSSC------SEEEEECSSHHHHHHHHHHSTTCBCSSCBCE
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHhhccceeeEEeeccccccccc------ccceEEeccHHHHHHHHHHhCCCEECCEEEE
Confidence            4689999999999999999999999999999999888888888      9999999999999999999999999999874

>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=99.72  E-value=6.1e-18  Score=123.04  Aligned_cols=72  Identities=13%  Similarity=0.176  Sum_probs=66.0

Q ss_pred             ccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCCcccc
Q psy3854          36 KGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDCRKRS  115 (222)
Q Consensus        36 ~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~Grk~~  115 (222)
                      ..+|||+|||+++++++|+++|+.||+|.+|.|..+. +|++|      |||||+|.+.++|.+|++ +||..++|+.+.
T Consensus         6 ~rtvfV~nlp~~~te~~l~~~F~~~G~v~~v~l~~~~-~~~~k------G~afV~f~~~e~a~~al~-~~~~~~~g~~l~   77 (85)
T d1zh5a2           6 NRSVYIKGFPTDATLDDIKEWLEDKGQVLNIQMRRTL-HKAFK------GSIFVVFDSIESAKKFVE-TPGQKYKETDLL   77 (85)
T ss_dssp             TTEEEEECCCTTCCHHHHHHHHTTSCCEEEEEEEECT-TCCEE------EEEEEEESCHHHHHHHHT-CCCCEETTEECE
T ss_pred             cCEEEEECCCCCCCHHHHHHHHHHhcccccceeeeec-cCCcc------eEEEEEEcCHHHHHHHHH-HCCCEECCEEEE
Confidence            4579999999999999999999999999999997764 68887      999999999999999995 799999999874

>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=99.72  E-value=5.2e-18  Score=127.11  Aligned_cols=69  Identities=23%  Similarity=0.341  Sum_probs=63.4

Q ss_pred             CccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCCccc
Q psy3854          35 KKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDCRKR  114 (222)
Q Consensus        35 ~~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~Grk~  114 (222)
                      ..++|||+|||+.+++++|+++|++||+|.+|.|.+      ++      |||||+|.+.++|.+|+..|||..|.|+++
T Consensus         9 ~~~~l~V~nLp~~~t~~~L~~~F~~fG~I~~v~l~~------~k------g~afV~f~~~~~A~~A~~~lng~~~~gr~l   76 (111)
T d1whxa_           9 SKTVILAKNLPAGTLAAEIQETFSRFGSLGRVLLPE------GG------ITAIVEFLEPLEARKAFRHLAYSKFHHVPL   76 (111)
T ss_dssp             EEEEEEEESCCTTCCHHHHHHHHHTTSCEEEEECCS------SS------SCEEEEESCHHHHHHHHHHHTTCBSSSSBC
T ss_pred             CCCEEEEECCCCCCCHHHHHhhhhccCCccEEEeec------cC------ceEEEEEcCHHHHHHHHHHHcCCccCCCeE
Confidence            446899999999999999999999999999999843      34      899999999999999999999999999987


Q ss_pred             c
Q psy3854         115 S  115 (222)
Q Consensus       115 ~  115 (222)
                      .
T Consensus        77 ~   77 (111)
T d1whxa_          77 Y   77 (111)
T ss_dssp             E
T ss_pred             E
Confidence            3

>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=99.72  E-value=6.8e-18  Score=125.54  Aligned_cols=69  Identities=17%  Similarity=0.329  Sum_probs=64.6

Q ss_pred             CccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCCccc
Q psy3854          35 KKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDCRKR  114 (222)
Q Consensus        35 ~~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~Grk~  114 (222)
                      ...+|||+|||+.+++++|+++|++||+|.+|+|+++      |      |||||+|.+.++|..|+..|||+.|+|+.+
T Consensus        17 ~~~~l~v~nL~~~~te~~L~~~F~~fG~i~~v~i~~~------k------g~afV~f~~~~~A~~Ai~~l~~~~i~g~~l   84 (96)
T d1x4ga1          17 KNCTVYCGGIASGLTDQLMRQTFSPFGQIMEIRVFPE------K------GYSFVRFSTHESAAHAIVSVNGTTIEGHVV   84 (96)
T ss_dssp             SCCEEEEECCSSCCCHHHHHHHHHHHSCEEEEEEETT------T------TEEEEEESSHHHHHHHHHHHTTCEETTEEC
T ss_pred             CCCEEEEcCCCCCCCHHHHHHHHHHhCCceEEEEEec------c------eEEEEEECCHHHHHHHHHHhCCCEECCEEE
Confidence            4568999999999999999999999999999999876      3      899999999999999999999999999987


Q ss_pred             c
Q psy3854         115 S  115 (222)
Q Consensus       115 ~  115 (222)
                      .
T Consensus        85 ~   85 (96)
T d1x4ga1          85 K   85 (96)
T ss_dssp             E
T ss_pred             E
Confidence            4

>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=99.71  E-value=7.7e-19  Score=129.55  Aligned_cols=75  Identities=9%  Similarity=0.158  Sum_probs=67.6

Q ss_pred             cCCccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCCc
Q psy3854          33 KYKKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDCR  112 (222)
Q Consensus        33 ~~~~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~Gr  112 (222)
                      ...+.+|||+|||+++++++|+++|++||.|.+|.|+. +.+|++|      |||||+|.+.++|.+|++ |||..|+|+
T Consensus        10 ~~~~~~ifV~nL~~~~te~~l~~~F~~~G~i~~~~v~~-~~~g~~k------g~afv~F~~~e~a~~Al~-~~g~~~~g~   81 (91)
T d1fjeb1          10 STTPFNLFIGNLNPNKSVAELKVAISELFAKNDLAVVD-VRTGTNR------KFGYVDFESAEDLEKALE-LTGLKVFGN   81 (91)
T ss_dssp             CSSSEEEEEECCCTTSCHHHHHHHHHHHHHHHTCCCCE-EEEETTT------TEEEEEESSHHHHHHHHH-GGGEEETTE
T ss_pred             CCCCcEEEEeCccCcchHHHHHHHHhcCCcEEEeeeee-cCCCCcc------EEeEEeeCCHHHHHHHHh-cCCcEECCE
Confidence            33566899999999999999999999999999999864 4578888      999999999999999996 999999999


Q ss_pred             ccc
Q psy3854         113 KRS  115 (222)
Q Consensus       113 k~~  115 (222)
                      ++.
T Consensus        82 ~i~   84 (91)
T d1fjeb1          82 EIK   84 (91)
T ss_dssp             EEE
T ss_pred             EEE
Confidence            873

>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=99.70  E-value=2.9e-17  Score=118.38  Aligned_cols=68  Identities=18%  Similarity=0.366  Sum_probs=61.5

Q ss_pred             ccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccC-Cccc
Q psy3854          36 KGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQID-CRKR  114 (222)
Q Consensus        36 ~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~-Grk~  114 (222)
                      ..+|||+|||+.+++++|+++|++||.|.+|.++++.     +      |+|||+|.+.++|..|+..|||+.|. |+++
T Consensus         8 ~~tl~V~nLp~~~t~~~l~~~f~~~G~i~~v~~~~~~-----~------g~afV~f~~~~~A~~A~~~l~g~~~~~~~~i   76 (83)
T d2b0ga1           8 NQILFLTNLPEETNEMMLSMLFNQFPGFKEVRLVPNR-----H------DIAFVEFTTELQSNAAKEALQGFKITPTHAM   76 (83)
T ss_dssp             CSEEEEESCCTTCCHHHHHHHHTTSTTEEEEEECTTT-----C------SCEEEEESSHHHHHHHHHHHTTCBSSTTCBC
T ss_pred             CCEEEEECCCCCCCHHHHHhhhccCccEEEeeeeccc-----c------eeEEEecCCHHHHHHHHHHhCCcEeCCCcEE
Confidence            3589999999999999999999999999999998653     3      89999999999999999999999995 5654

>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=99.69  E-value=3e-17  Score=121.10  Aligned_cols=72  Identities=15%  Similarity=0.370  Sum_probs=64.8

Q ss_pred             CccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCCccc
Q psy3854          35 KKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDCRKR  114 (222)
Q Consensus        35 ~~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~Grk~  114 (222)
                      ..+.|||+|||+.+++++|+++|++||.|..|.+..+.   .++      +||||+|.+.++|..|+..|||..|.|+++
T Consensus        13 ~~~~l~V~nLp~~~t~~~l~~~F~~~G~v~~~~~~~~~---~~~------g~afV~f~~~e~a~~Ai~~l~g~~~~g~~l   83 (95)
T d1x4aa1          13 NDCRIYVGNLPPDIRTKDIEDVFYKYGAIRDIDLKNRR---GGP------PFAFVEFEDPRDAEDAVYGRDGYDYDGYRL   83 (95)
T ss_dssp             CSSEEEEESCCTTCCHHHHHHHHGGGSCEEEEEECCSS---SSS------CCEEEEESCHHHHHHHHHHHTTCEETTEEC
T ss_pred             CCCEEEEECCCCCCCHHHHHHHHhcCCceEEEEecccc---ccc------ceEEEEECCHHHHHHHHHHhCCCEECCEEE
Confidence            44579999999999999999999999999999986543   344      899999999999999999999999999987


Q ss_pred             c
Q psy3854         115 S  115 (222)
Q Consensus       115 ~  115 (222)
                      .
T Consensus        84 ~   84 (95)
T d1x4aa1          84 R   84 (95)
T ss_dssp             E
T ss_pred             E
Confidence            3

>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=99.68  E-value=4.7e-17  Score=116.45  Aligned_cols=68  Identities=24%  Similarity=0.335  Sum_probs=61.7

Q ss_pred             CCccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCCcc
Q psy3854          34 YKKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDCRK  113 (222)
Q Consensus        34 ~~~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~Grk  113 (222)
                      ....+|||+|||  +++++|+++|++||+|.+|.+.++      +      |||||+|.+.++|..|+..|||..|+|++
T Consensus         3 ~~~~ti~V~~~~--~te~~L~~~F~~~G~I~~v~~~~~------~------~~afV~f~~~~~A~~Ai~~lng~~~~g~~   68 (79)
T d2bz2a1           3 RKGNTLYVYGED--MTPTLLRGAFSPFGNIIDLSMDPP------R------NCAFVTYEKMESADQAVAELNGTQVESVQ   68 (79)
T ss_dssp             CCCCEEEEECSS--CCHHHHHHHHSTTCCCSCEEEETT------T------TEEEEECSSHHHHHHHHHHHTTCBCSSCB
T ss_pred             CCCCEEEEECCC--CCHHHHHHHHhccCccceeeeccC------C------CEEEEEEcccHHHHHHHHHhCCCEECCEE
Confidence            355689999996  999999999999999999999643      3      89999999999999999999999999998


Q ss_pred             cc
Q psy3854         114 RS  115 (222)
Q Consensus       114 ~~  115 (222)
                      +.
T Consensus        69 l~   70 (79)
T d2bz2a1          69 LK   70 (79)
T ss_dssp             CE
T ss_pred             EE
Confidence            74

>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=99.67  E-value=9.4e-17  Score=116.49  Aligned_cols=70  Identities=17%  Similarity=0.240  Sum_probs=62.2

Q ss_pred             ccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccC-Cccc
Q psy3854          36 KGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQID-CRKR  114 (222)
Q Consensus        36 ~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~-Grk~  114 (222)
                      ..+|||+|||+++++++|+++|++||.|.++.+...    +++      |+|||+|.+.++|..|+..|||..|+ |+++
T Consensus        10 s~tL~V~NLp~~~te~~l~~~F~~~G~v~~~~~~~~----~~~------~~afV~f~~~~~A~~A~~~l~~~~i~~g~~l   79 (88)
T d2adca2          10 SATLHLSNIPPSVSEEDLKVLFSSNGGVVKGFKFFQ----KDR------KMALIQMGSVEEAVQALIDLHNHDLGENHHL   79 (88)
T ss_dssp             CSEEEEECCCTTCCHHHHHHHHHTTSCCEEEEEECS----SST------TCEEEEESSHHHHHHHHHHHTTCBSSSSCBC
T ss_pred             CCEEEEECCCCCCCHHHHHHHhhccCCEEEEEEeee----ccc------ceeEEEECCHHHHHHHHHhccCCEecCCCEE
Confidence            458999999999999999999999999999887653    234      89999999999999999999999985 7876


Q ss_pred             c
Q psy3854         115 S  115 (222)
Q Consensus       115 ~  115 (222)
                      .
T Consensus        80 ~   80 (88)
T d2adca2          80 R   80 (88)
T ss_dssp             E
T ss_pred             E
Confidence            3

>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=99.67  E-value=4.4e-17  Score=120.23  Aligned_cols=72  Identities=13%  Similarity=0.170  Sum_probs=64.1

Q ss_pred             cEEEEcCCCCCCCHHHHHHHhhcCcc-eeEEEEecCC-CCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCC--ccCCc
Q psy3854          37 GIIYLSKVPPHMNVTQLTEFMSRFGE-VGRVYLMPKK-RKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNT--QIDCR  112 (222)
Q Consensus        37 g~VYIsnLP~~m~e~~Lr~lFs~fG~-I~rv~L~~d~-~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~--~i~Gr  112 (222)
                      +.|||||||+++++++|+++|++||+ |.+|.|+++. .+|+++      |||||+|.++++|..|+..||+.  .++|+
T Consensus         2 ~rLyV~nLp~~~te~~l~~~f~~~g~~i~~v~~~~~~~~~~~~r------g~aFV~F~~~~~A~~Ai~~l~~~~~~~~g~   75 (96)
T d2disa1           2 CRLFIGGIPKMKKREEILEEIAKVTEGVLDVIVYASAADKMKNR------GFAFVEYESHRAAAMARRKLMPGRIQLWGH   75 (96)
T ss_dssp             EEEEEECCCTTSCHHHHHHHHHHHSTTEEEEECCSSSCTTTTTC------CEEEEEESSHHHHHHHHTTTTTCCSCBTTB
T ss_pred             CEEEEcCCCCcCCHHHHHHHHHHhCCcceEEEEeeeccccccCC------CeEEEEEcCHHHHHHHHHHHcCCCeEECCE
Confidence            47999999999999999999999996 9999999885 467777      99999999999999999999764  45687


Q ss_pred             cc
Q psy3854         113 KR  114 (222)
Q Consensus       113 k~  114 (222)
                      .+
T Consensus        76 ~i   77 (96)
T d2disa1          76 QI   77 (96)
T ss_dssp             CC
T ss_pred             EE
Confidence            76

>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=99.67  E-value=7.9e-17  Score=120.59  Aligned_cols=76  Identities=16%  Similarity=0.271  Sum_probs=68.4

Q ss_pred             cCCccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCCc
Q psy3854          33 KYKKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDCR  112 (222)
Q Consensus        33 ~~~~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~Gr  112 (222)
                      ....++|||+|||+++++++|+++|+.||.|..+.++.++.+++++      |||||+|.++++|++|++ ||+..|+||
T Consensus        12 ~~~~~~v~v~nLP~~~te~dI~~~F~~~g~v~~~v~~~~~~~~~~k------G~afV~F~~~e~a~~a~~-~~~~~i~gR   84 (104)
T d1wg5a_          12 TANDGFVRLRGLPFGCSKEEIVQFFSGLEIVPNGMTLPVDFQGRST------GEAFVQFASQEIAEKALK-KHKERIGHR   84 (104)
T ss_dssp             CSCCCEEEEESCCTTCCHHHHHHHTTTCCEEEEEEECCBCSSSCBC------SEEEEEESSHHHHHHHHT-TTTCCSSSS
T ss_pred             CCCCcEEEEeCCCCCCCHHHHHHHHHhcCCceEEEEEEeCCCCCcc------eEEEEEeCCHHHHHHHHh-hCCCEEcce
Confidence            3366789999999999999999999999999987777777778888      999999999999998885 999999999


Q ss_pred             ccc
Q psy3854         113 KRS  115 (222)
Q Consensus       113 k~~  115 (222)
                      .+.
T Consensus        85 ~i~   87 (104)
T d1wg5a_          85 YIE   87 (104)
T ss_dssp             CCE
T ss_pred             EEE
Confidence            874

>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=99.67  E-value=1e-16  Score=119.48  Aligned_cols=72  Identities=15%  Similarity=0.221  Sum_probs=63.6

Q ss_pred             ccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCC-CCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCCccc
Q psy3854          36 KGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKK-RKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDCRKR  114 (222)
Q Consensus        36 ~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~-~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~Grk~  114 (222)
                      +.+|||+|||+++++++|+++|++|| |..+.++.+. .+|+++      |||||+|.+.++|++|+ .|||..|+|+++
T Consensus        15 ~~~v~V~nLp~~~te~~l~~~f~~~g-~~~~~~~~~~~~~g~~~------g~afV~f~~~e~a~~~~-~~~~~~~~gr~l   86 (104)
T d1wi8a_          15 PYTAFLGNLPYDVTEESIKEFFRGLN-ISAVRLPREPSNPERLK------GFGYAEFEDLDSLLSAL-SLNEESLGNKRI   86 (104)
T ss_dssp             CEEEEEESCCSSCCHHHHHHHTTTSC-EEEEECCBCSSCTTSBC------SCEEEEESSHHHHHHHH-GGGTCEETTEEC
T ss_pred             CCEEEEeCCCCcCCHHHHHHHHHHhc-cccceeeeeeccCCCcc------eeeeEEECCHHHHHHHH-HcCCCEECCEEE
Confidence            47899999999999999999999999 7788888765 467777      99999999999998555 799999999987


Q ss_pred             c
Q psy3854         115 S  115 (222)
Q Consensus       115 ~  115 (222)
                      .
T Consensus        87 ~   87 (104)
T d1wi8a_          87 R   87 (104)
T ss_dssp             E
T ss_pred             E
Confidence            4

>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=99.67  E-value=4.2e-17  Score=122.88  Aligned_cols=71  Identities=14%  Similarity=0.232  Sum_probs=62.8

Q ss_pred             CCccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccC--C
Q psy3854          34 YKKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQID--C  111 (222)
Q Consensus        34 ~~~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~--G  111 (222)
                      .....|||+|||+.+|+++|+++|++||.|.+|.|+.+.    ++      |+|||+|.+.++|..|+..|||++|.  |
T Consensus         5 s~~~~v~V~NL~~~vte~~L~~~F~~~G~i~~~~i~~~~----~~------g~aFV~f~~~e~A~~Ai~~ln~~~l~~~~   74 (108)
T d2adba1           5 SPVLRIIVENLFYPVTLDVLHQIFSKFGTVLKIITFTKN----NQ------FQALLQYADPVSAQHAKLSLDGQNIYNAC   74 (108)
T ss_dssp             CCEEEEESCSCCSTTHHHHHHHHHTTTSCEEEEEEEEET----TE------EEEEEEESCHHHHHHHHHHHHSCCSSTTC
T ss_pred             CCeEEEEEeCcCCCCCHHHHHHHHccCCcEEEEEEEeeC----CC------CeEEEEECCHHHHHHHHHHHCCCEeccCC
Confidence            345679999999999999999999999999999998753    34      99999999999999999999999995  4


Q ss_pred             ccc
Q psy3854         112 RKR  114 (222)
Q Consensus       112 rk~  114 (222)
                      +++
T Consensus        75 ~~l   77 (108)
T d2adba1          75 CTL   77 (108)
T ss_dssp             CCC
T ss_pred             cEE
Confidence            444

>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=99.66  E-value=2.7e-17  Score=122.61  Aligned_cols=73  Identities=8%  Similarity=0.133  Sum_probs=66.0

Q ss_pred             ccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCCcccc
Q psy3854          36 KGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDCRKRS  115 (222)
Q Consensus        36 ~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~Grk~~  115 (222)
                      ...|||+|||+.+++++|+++|+.||.|..+.+++...+|+++      |||||+|.++++|+.|+. |||..|+|+.+.
T Consensus         8 ~~~v~v~nLp~~~t~~~l~~~F~~~g~i~~~~~~~~~~~g~~~------G~afV~F~s~~~a~~Al~-~n~~~i~gr~i~   80 (103)
T d2cpya1           8 KVCAHITNIPFSITKMDVLQFLEGIPVDENAVHVLVDNNGQGL------GQALVQFKNEDDARKSER-LHRKKLNGREAF   80 (103)
T ss_dssp             CCEEEEESCCTTSCHHHHHHHTTTSCCCSTTEEECCCTTSSCS------SCEEEECSSHHHHHHHGG-GCSEEETTEEEE
T ss_pred             ceEEEEeCCCCCCCHHHHhhhhcccceEEEEEEEEeCCCCCcC------ccEEEEECCHHHHHHHHh-cCCCeECCcEEE
Confidence            4569999999999999999999999999876666776778888      999999999999999995 999999999874

>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=99.66  E-value=1.4e-16  Score=118.84  Aligned_cols=68  Identities=18%  Similarity=0.289  Sum_probs=63.1

Q ss_pred             CccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCCccc
Q psy3854          35 KKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDCRKR  114 (222)
Q Consensus        35 ~~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~Grk~  114 (222)
                      ...+|||+|||+.+++++|+++|++||+|.+|.|.+       +      |||||+|.+.++|+.|++.|||+.|.|+.+
T Consensus        14 ~~~~i~V~Nlp~~~~~~~L~~~F~~~G~v~~~~i~~-------~------g~afV~f~~~~~a~~Ai~~lng~~~~g~~i   80 (98)
T d1wg4a_          14 SDFRVLVSGLPPSGSWQDLKDHMREAGDVCYADVQK-------D------GMGMVEYLRKEDMEYALRKLDDTKFRSHEG   80 (98)
T ss_dssp             CSCEEEEECCCSSCCHHHHHHHHTTSSCEEEEEEET-------T------TEEEEEESSHHHHHHHHHHHSSEEEECTTS
T ss_pred             CCCEEEEECCCCCCCHHHHHHHHHhhcccccccccc-------c------ceEEEEECCHHHHHHHHHHhCCCEeCCeEE
Confidence            455799999999999999999999999999999864       2      899999999999999999999999999997


Q ss_pred             c
Q psy3854         115 S  115 (222)
Q Consensus       115 ~  115 (222)
                      .
T Consensus        81 ~   81 (98)
T d1wg4a_          81 E   81 (98)
T ss_dssp             C
T ss_pred             E
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=99.66  E-value=8.2e-17  Score=114.58  Aligned_cols=64  Identities=13%  Similarity=0.335  Sum_probs=57.9

Q ss_pred             EEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCCcccc
Q psy3854          39 IYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDCRKRS  115 (222)
Q Consensus        39 VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~Grk~~  115 (222)
                      |||||||+++++++|+++|++|| |..+++      ++++      |+|||+|.+.++|..|+..|||..+.|+++.
T Consensus         1 i~V~nLp~~~t~~~l~~~F~~~g-~~~~~~------~~~~------g~afv~f~~~~~A~~Ai~~ln~~~~~g~~l~   64 (75)
T d1wi6a1           1 ILIRGLPGDVTNQEVHDLLSDYE-LKYCFV------DKYK------GTAFVTLLNGEQAEAAINTFHQSRLRERELS   64 (75)
T ss_dssp             EEEECCCTTCCHHHHHHHTTTSC-EEEEEE------ETTT------TEEEEEESSHHHHHHHHHHHTTEESSSCEEE
T ss_pred             CEEeCCCCcCCHHHHHHHHhccc-ccceee------cccc------eeEEEEECCHHHHHHHHHHhCCccCCCCEEE
Confidence            79999999999999999999999 556655      3445      9999999999999999999999999999974

>d1whya_ d.58.7.1 (A:) Putative RNA-binding protein 15B, Rbm15b {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Putative RNA-binding protein 15B, Rbm15b
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.66  E-value=1.3e-16  Score=118.18  Aligned_cols=67  Identities=13%  Similarity=0.294  Sum_probs=61.8

Q ss_pred             ccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCCccc
Q psy3854          36 KGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDCRKR  114 (222)
Q Consensus        36 ~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~Grk~  114 (222)
                      ..+|||+|||+.+++++|+++|++||+|.+|.+.++      +      ++|||+|.+.++|..|++.|||..|.|..+
T Consensus        17 s~tl~V~nLp~~~t~~~l~~~f~~~G~i~~~~~~~~------~------~~afV~f~~~~~A~~A~~~l~~~~i~g~~~   83 (97)
T d1whya_          17 TTRLWVGGLGPNTSLAALAREFDRFGSIRTIDHVKG------D------SFAYIQYESLDAAQAACAKMRGFPLGGPDR   83 (97)
T ss_dssp             CSCEEEECCCSSCCHHHHHHHHHTTSCEEEEEECSS------S------CCEEEEESSHHHHHHHHHHHTTCBCSSSSC
T ss_pred             CCEEEEcCCCCCCCHHHHHHHHHhhcccceEeeecc------c------cEEEeccCCHHHHHHHHHHhCCCEeCCCce
Confidence            468999999999999999999999999999999764      3      799999999999999999999999998654

>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=99.66  E-value=5.9e-17  Score=119.70  Aligned_cols=71  Identities=18%  Similarity=0.169  Sum_probs=63.8

Q ss_pred             CCccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCCcc
Q psy3854          34 YKKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDCRK  113 (222)
Q Consensus        34 ~~~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~Grk  113 (222)
                      ....+|||+|||+.+++++|+++|++||.|..+..     +++++      |||||+|.+.++|..|+..|||..|+|++
T Consensus        14 ~~~~~l~V~nL~~~~te~~l~~~F~~~g~v~~~~~-----~~~~~------~~afV~f~~~~~A~~A~~~l~~~~~~gr~   82 (96)
T d1fjca_          14 RAARTLLAKNLSFNITEDELKEVFEDALEIRLVSQ-----DGKSK------GIAYIEFKSEADAEKNLEEKQGAEIDGRS   82 (96)
T ss_dssp             TGGGEEEEESCCSSCCHHHHHHHHCSEEEECCEEE-----TTEEE------EEEEEEESSHHHHHHHHHHTTEEEETTEE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcccceeeee-----cCccc------cEEEEEeCCHHHHHHHHHHcCCCEECCEE
Confidence            34578999999999999999999999999987753     36666      99999999999999999999999999999


Q ss_pred             cc
Q psy3854         114 RS  115 (222)
Q Consensus       114 ~~  115 (222)
                      +.
T Consensus        83 i~   84 (96)
T d1fjca_          83 VS   84 (96)
T ss_dssp             EE
T ss_pred             EE
Confidence            84

>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=99.65  E-value=9.1e-17  Score=116.10  Aligned_cols=68  Identities=9%  Similarity=0.098  Sum_probs=62.1

Q ss_pred             ccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCCcccc
Q psy3854          36 KGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDCRKRS  115 (222)
Q Consensus        36 ~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~Grk~~  115 (222)
                      ..+|||+|||+.+++++|+++|++||.|..+.+.      +++      |||||+|.+.++|..|+..|||..|+|+++.
T Consensus         8 ~k~l~V~nLp~~~te~~l~~~F~~~g~i~~~~~~------~~r------g~afV~f~~~~~A~~Ai~~l~~~~i~g~~i~   75 (86)
T d2cpda1           8 VKILYVRNLMLSTSEEMIEKEFNNIKPGAVERVK------KIR------DYAFVHFSNREDAVEAMKALNGKVLDGSPIE   75 (86)
T ss_dssp             CCEEEEESCCTTCCHHHHHHHHHTTSTTCEEEEE------ECS------SEEEEEESSHHHHHHHHHHHSSEEETTEEEE
T ss_pred             CCEEEEcCCCCCCCHHHHHHhhcccceeeeEEEc------ccc------EEEEEEeCCHHHHHHHHHHcCCCEECCEEEE
Confidence            4689999999999999999999999999888773      344      8999999999999999999999999999874

>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=99.65  E-value=3.8e-17  Score=117.33  Aligned_cols=67  Identities=6%  Similarity=0.164  Sum_probs=60.3

Q ss_pred             cEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCC-ccCCcccc
Q psy3854          37 GIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNT-QIDCRKRS  115 (222)
Q Consensus        37 g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~-~i~Grk~~  115 (222)
                      ..|||||||+++++++|+++|++||.|.++.+..      +|      |||||+|.+.++|..|++.|||. .|.|+++.
T Consensus         2 n~l~V~nLp~~~te~~L~~~F~~~G~i~~~~~~~------~r------g~aFV~f~~~~~A~~Ai~~lng~~~~~G~~i~   69 (80)
T d2cqha1           2 NKLYIGNLSPAVTADDLRQLFGDRKLPLAGQVLL------KS------GYAFVDYPDQNWAIRAIETLSGKVELHGKIME   69 (80)
T ss_dssp             CCEEEECCCTTCCHHHHHHHHHHTTCCCSSCEEE------ET------TEEEECCSCHHHHHHHHHHHTTTCEETTEECE
T ss_pred             CEEEEECCCCCCCHHHHHHHHHHhCcEEEeEEec------cc------ceEEEEECCHHHHHHHHHHhCCCeEECCEEEE
Confidence            3699999999999999999999999998777654      34      89999999999999999999996 59999874

>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=99.65  E-value=8.6e-17  Score=120.02  Aligned_cols=66  Identities=9%  Similarity=0.275  Sum_probs=59.8

Q ss_pred             ccEEEEcCCCC-CCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCCccc
Q psy3854          36 KGIIYLSKVPP-HMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDCRKR  114 (222)
Q Consensus        36 ~g~VYIsnLP~-~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~Grk~  114 (222)
                      ...|||+|||+ .+++.+|+++|++||+|.+|.|.        |      |||||+|.+.++|++|+..|||+.|.|+++
T Consensus        15 ~~~lfV~nL~~~~~~~~~L~~~F~~~G~i~~~~i~--------r------g~aFV~f~~~~~A~~Ai~~lng~~~~g~~l   80 (98)
T d1wf2a_          15 NSRVFIGNLNTLVVKKSDVEAIFSKYGKIVGCSVH--------K------GFAFVQYVNERNARAAVAGEDGRMIAGQVL   80 (98)
T ss_dssp             CCCEEEEEECTTTCCHHHHHHSSTTSSCEEEEEEE--------T------EEEEEEESSHHHHHHHHHTTTTCEETTEEC
T ss_pred             CcEEEEeCCCcccCCHHHHHHHHhhcCCEEEEEEe--------C------CeEEEEECCHHHHHHHHHHcCCCEECCEEE
Confidence            34699999976 57788999999999999999982        3      999999999999999999999999999987


Q ss_pred             c
Q psy3854         115 S  115 (222)
Q Consensus       115 ~  115 (222)
                      .
T Consensus        81 ~   81 (98)
T d1wf2a_          81 D   81 (98)
T ss_dssp             E
T ss_pred             E
Confidence            4

>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=99.64  E-value=7.3e-17  Score=118.12  Aligned_cols=71  Identities=13%  Similarity=0.245  Sum_probs=63.0

Q ss_pred             ccEEEEcCCCCCCCHHHHHH----HhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCC
Q psy3854          36 KGIIYLSKVPPHMNVTQLTE----FMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDC  111 (222)
Q Consensus        36 ~g~VYIsnLP~~m~e~~Lr~----lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~G  111 (222)
                      ..+|||||||+.+++++|++    +|++||+|.+|.+..+   ++++      |||||+|.+.++|..|+..|||..++|
T Consensus         3 ~~tl~V~nLp~~~t~~dl~~~l~~~f~~~G~i~~i~~~~~---~~~~------g~afV~F~~~~~A~~A~~~~~~~~~~g   73 (91)
T d1nu4a_           3 NHTIYINNLNEKIKKDELKKSLHAIFSRFGQILDILVSRS---LKMR------GQAFVIFKEVSSATNALRSMQGFPFYD   73 (91)
T ss_dssp             CSEEEEESCCTTSCHHHHHHHHHHHHGGGSCEEEEECCHH---HHHT------TCEEEEESSHHHHHHHHHHHTTCEETT
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHHHhcccccccceEEeee---ccCC------CceEEEECCHHHHHHHHHHhCCCEECC
Confidence            35799999999999998864    6899999999998653   5556      999999999999999999999999999


Q ss_pred             cccc
Q psy3854         112 RKRS  115 (222)
Q Consensus       112 rk~~  115 (222)
                      +.+.
T Consensus        74 ~~l~   77 (91)
T d1nu4a_          74 KPMR   77 (91)
T ss_dssp             EECE
T ss_pred             EEEE
Confidence            9874

>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=99.63  E-value=1.4e-16  Score=121.06  Aligned_cols=76  Identities=14%  Similarity=0.168  Sum_probs=66.5

Q ss_pred             CCccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCCcc
Q psy3854          34 YKKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDCRK  113 (222)
Q Consensus        34 ~~~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~Grk  113 (222)
                      ....+|||+|||+.+++++|+++|+.||.|..+.++.+..+|+++      |||||+|.+.++|.+|+ .|||..|+||.
T Consensus        16 ~~~~~i~v~nLp~~~t~~di~~~F~~~g~~~~~~~~~~~~~g~~~------G~afVeF~~~e~a~~al-~~~~~~i~gR~   88 (112)
T d1wela1          16 EAGFCVYLKGLPFEAENKHVIDFFKKLDIVEDSIYIAYGPNGKAT------GEGFVEFRNEADYKAAL-CRHKQYMGNRF   88 (112)
T ss_dssp             CCCCEEEEECCCTTCCHHHHHHHSCSSCBCTTTCEEEECTTSSEE------EEEEEEBSSSHHHHHHH-TSCSBCSTTSC
T ss_pred             CCCeEEEEecCCCcCcHHHHhhHHhhccccccceeeecCccccee------eEEEEEECCHHHHHHHH-HcCCCcCCCEE
Confidence            345689999999999999999999999999876666666678887      99999999999999777 59999999999


Q ss_pred             ccc
Q psy3854         114 RSK  116 (222)
Q Consensus       114 ~~~  116 (222)
                      +..
T Consensus        89 i~V   91 (112)
T d1wela1          89 IQV   91 (112)
T ss_dssp             BEE
T ss_pred             EEE
Confidence            743

>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=99.62  E-value=1.5e-16  Score=116.24  Aligned_cols=67  Identities=10%  Similarity=0.297  Sum_probs=58.8

Q ss_pred             ccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCCcccc
Q psy3854          36 KGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDCRKRS  115 (222)
Q Consensus        36 ~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~Grk~~  115 (222)
                      ...|||+|||+++++++|+++|++|| |..+++      +++|      |||||+|.+.++|..|+..|||..|.|+++.
T Consensus         5 s~~i~V~nLp~~~t~~~l~~lF~~~G-~~~~~~------~~~k------g~afV~f~~~~~A~~Ai~~ln~~~~~G~~l~   71 (88)
T d1wg1a_           5 SSGILVKNLPQDSNCQEVHDLLKDYD-LKYCYV------DRNK------RTAFVTLLNGEQAQNAIQMFHQYSFRGKDLI   71 (88)
T ss_dssp             CCCEEEESCCSSCCHHHHHHHTCSSC-CCCEEE------EGGG------TEEEECCSCHHHHHHHHHHHTTEEETTEEEE
T ss_pred             CCEEEEeCCCCccChHHHHHHHHhcC-ceeeee------eccC------CceEEEECCHHHHHHHHHHhCCCEECCEEEE
Confidence            46799999999999999999999999 333444      2344      8999999999999999999999999999984

>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=99.61  E-value=1.3e-16  Score=116.34  Aligned_cols=68  Identities=16%  Similarity=0.353  Sum_probs=60.6

Q ss_pred             CccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCCccc
Q psy3854          35 KKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDCRKR  114 (222)
Q Consensus        35 ~~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~Grk~  114 (222)
                      ...+|||+|||+.+++++|+++|++||+|.+|.++.+     ++      |||||+|.+.++|+.|+.  |+..|.|+++
T Consensus         4 ~s~~lfV~nLp~~~te~~L~~~F~~~G~v~~v~~~~~-----~~------gfafV~f~~~~~a~~a~~--~~~~i~g~~l   70 (88)
T d1wf0a_           4 GSSGVFVGRCTGDMTEDELREFFSQYGDVMDVFIPKP-----FR------AFAFVTFADDQIAQSLCG--EDLIIKGISV   70 (88)
T ss_dssp             CCCEEEEESCCSSSCHHHHHHHSTTTSCCCEEECCSS-----CC------SCCEEECSCHHHHHHTTT--CEEEETTEEE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHHcCCceEEEEeec-----cC------ceEEEEECCHHHHHHHHh--CCCEECCEEe
Confidence            4678999999999999999999999999999987543     34      899999999999999984  8899999987


Q ss_pred             c
Q psy3854         115 S  115 (222)
Q Consensus       115 ~  115 (222)
                      .
T Consensus        71 ~   71 (88)
T d1wf0a_          71 H   71 (88)
T ss_dssp             E
T ss_pred             E
Confidence            3

>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=99.61  E-value=5.6e-16  Score=115.66  Aligned_cols=73  Identities=15%  Similarity=0.123  Sum_probs=64.3

Q ss_pred             CCccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCCcc
Q psy3854          34 YKKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDCRK  113 (222)
Q Consensus        34 ~~~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~Grk  113 (222)
                      ....+|||+|||+++|+++|+++|+.|| |.+|.++.+.. |+++      |||||+|.+.++|..|++ |||+.|+||.
T Consensus        13 ~~~~~v~v~nLp~~~te~dl~~~F~~~~-~~~v~~~~~~~-g~~~------G~afVeF~~~~~a~~Al~-~~~~~i~gR~   83 (102)
T d1weza_          13 TTGHCVHMRGLPYRATENDIYNFFSPLN-PMRVHIEIGPD-GRVT------GEADVEFATHEDAVAAMA-KDKANMQHRY   83 (102)
T ss_dssp             SSSCEEEEESCCTTCCHHHHHHSSCSCC-CSEEEEEESSS-SCEE------EEEEEECSSSHHHHHHHT-TSSCCSSSSC
T ss_pred             CCCCEEEEeCCCCcCCHHHHHHHHhccC-cceeeeEEecC-Ccce------EEEEEEECCHHHHHHHHH-cCCCEECCEE
Confidence            4556899999999999999999999998 55888877754 6776      999999999999999985 8999999998


Q ss_pred             cc
Q psy3854         114 RS  115 (222)
Q Consensus       114 ~~  115 (222)
                      +.
T Consensus        84 I~   85 (102)
T d1weza_          84 VE   85 (102)
T ss_dssp             CE
T ss_pred             EE
Confidence            74

>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=99.59  E-value=1.8e-15  Score=109.78  Aligned_cols=69  Identities=14%  Similarity=0.319  Sum_probs=61.6

Q ss_pred             CccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHh--cCCccCCc
Q psy3854          35 KKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQY--NNTQIDCR  112 (222)
Q Consensus        35 ~~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~L--Ng~~i~Gr  112 (222)
                      ...+|||+|||+++++++|+++|++||.|.+|.+.++      +      ++|||+|.+.++|..|+..|  |+..+.|+
T Consensus         7 Ps~~l~V~nLp~~~t~~~L~~~f~~~G~i~~v~~~~~------~------~~afV~f~~~e~A~~a~~~~~~~~~~~~g~   74 (88)
T d2cq1a1           7 PSRVLHIRKLPGEVTETEVIALGLPFGKVTNILMLKG------K------NQAFLELATEEAAITMVNYYSAVTPHLRNQ   74 (88)
T ss_dssp             CCSEEEEESCCTTCCHHHHHHTTTTTSCEEEEEEETT------T------TEEEEEESSHHHHHHHHHHHHHSCCEETTE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHhccccccccccccc------c------eEEEEEeCCHHHHHHHHHHHccCCCccCCC
Confidence            4457999999999999999999999999999999754      2      79999999999999999876  56789999


Q ss_pred             ccc
Q psy3854         113 KRS  115 (222)
Q Consensus       113 k~~  115 (222)
                      ++.
T Consensus        75 ~l~   77 (88)
T d2cq1a1          75 PIY   77 (88)
T ss_dssp             ECE
T ss_pred             EEE
Confidence            874

>d1u2fa_ d.58.7.1 (A:) Splicing factor U2AF 65 KDa subunit {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Splicing factor U2AF 65 KDa subunit
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.59  E-value=4.6e-17  Score=118.61  Aligned_cols=71  Identities=13%  Similarity=0.259  Sum_probs=63.0

Q ss_pred             EEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecC-----CCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCCc
Q psy3854          38 IIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPK-----KRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDCR  112 (222)
Q Consensus        38 ~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d-----~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~Gr  112 (222)
                      .|||||||+++++++|+++|++||.|..+.+.+.     ..+++++      |||||+|.+.++|..|+ .|||+.+.|+
T Consensus         3 rlyVgNLp~~~te~~l~~~F~~~g~~~~~~~~~~~~~~~~~~~~~k------g~afV~f~~~e~a~~a~-~l~g~~~~Gr   75 (90)
T d1u2fa_           3 RLYVGNIPFGITEEAMMDFFNAQMRLGGLTQAPGNPVLAVQINQDK------NFAFLEFRSVDETTQAM-AFDGIIFQGQ   75 (90)
T ss_dssp             EEEECSCCTTCCTTHHHHHHHHHHTTTTSCCSSSCSEEECCEETTT------TEEEEEESSCTTTTTGG-GGSSCCSSSS
T ss_pred             EEEEcCCCCccchHHHHHHHHhhCcEEEEEEeccceeeecccCCCc------eEEEEEeCCHHHHHHHH-hhCCcEECCE
Confidence            6999999999999999999999999988887643     3445666      99999999999999998 5999999999


Q ss_pred             ccc
Q psy3854         113 KRS  115 (222)
Q Consensus       113 k~~  115 (222)
                      .+.
T Consensus        76 ~l~   78 (90)
T d1u2fa_          76 SLK   78 (90)
T ss_dssp             CCC
T ss_pred             EEE
Confidence            985

>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=99.59  E-value=1.8e-15  Score=112.74  Aligned_cols=69  Identities=17%  Similarity=0.241  Sum_probs=61.7

Q ss_pred             CccEEEEcCCCCC-CCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHH--HhcCCccCC
Q psy3854          35 KKGIIYLSKVPPH-MNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAA--QYNNTQIDC  111 (222)
Q Consensus        35 ~~g~VYIsnLP~~-m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~--~LNg~~i~G  111 (222)
                      ...+|||+|||.. +++++|+++|++||.|.+|.++++      |      |+|||+|.+.++|..|++  .+|+..|+|
T Consensus        17 ~~~~l~v~nLp~~~~te~~l~~~F~~fG~V~~v~~~~~------k------~~afV~f~~~~~A~~Ai~~~~~~~~~~~g   84 (99)
T d1x4fa1          17 LGRVIHLSNLPHSGYSDSAVLKLAEPYGKIKNYILMRM------K------SQAFIEMETREDAMAMVDHCLKKALWFQG   84 (99)
T ss_dssp             CCCEEEEESCCCSSCCSHHHHTTTTTTSCCSEEEEETT------T------TEEEEECSSHHHHHHHHHHHHHSCCCSSS
T ss_pred             CCCEEEEeCCcCCccCHHHHHhhhccccceeEEEEeec------C------CcEEEEecchHHHHHHHHHHhcCCceECC
Confidence            4568999999985 899999999999999999999764      3      899999999999999998  578889999


Q ss_pred             cccc
Q psy3854         112 RKRS  115 (222)
Q Consensus       112 rk~~  115 (222)
                      +.+.
T Consensus        85 r~l~   88 (99)
T d1x4fa1          85 RCVK   88 (99)
T ss_dssp             SCCE
T ss_pred             EEEE
Confidence            9874

>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=99.57  E-value=4.8e-15  Score=110.86  Aligned_cols=70  Identities=19%  Similarity=0.240  Sum_probs=61.9

Q ss_pred             CCccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhc--CCccCC
Q psy3854          34 YKKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYN--NTQIDC  111 (222)
Q Consensus        34 ~~~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LN--g~~i~G  111 (222)
                      ....+|||+|||+.+++++|+++|++||.|.+|.|.++      |      ++|||+|.+.++|..|+..||  +..++|
T Consensus        13 ~ps~~l~v~nlp~~~te~~l~~~F~~fG~I~~~~~~~~------k------~~AfV~f~~~e~A~~ai~~~~~~~~~~~g   80 (104)
T d1wexa_          13 SVSPVVHVRGLCESVVEADLVEALEKFGTICYVMMMPF------K------RQALVEFENIDSAKECVTFAADVPVYIAG   80 (104)
T ss_dssp             CCCSEEEEESCCSSCCHHHHHHHHTTTSCEEEEEEETT------T------TEEEEEESSHHHHHHHHHHHHHSCCBSSS
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHhhhhcccceEEEEEec------c------eeEEEEeCCHHHHHHHHHHHcCCCcEEee
Confidence            34668999999999999999999999999999999653      3      899999999999999999885  456789


Q ss_pred             cccc
Q psy3854         112 RKRS  115 (222)
Q Consensus       112 rk~~  115 (222)
                      +++.
T Consensus        81 ~~l~   84 (104)
T d1wexa_          81 QQAF   84 (104)
T ss_dssp             SBCE
T ss_pred             EEEE
Confidence            8874

>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=99.57  E-value=6.9e-15  Score=111.93  Aligned_cols=66  Identities=23%  Similarity=0.272  Sum_probs=59.9

Q ss_pred             cEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecch-HHHHHHHHHhcCCccCCccc
Q psy3854          37 GIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKK-KVAKQVAAQYNNTQIDCRKR  114 (222)
Q Consensus        37 g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk-~~Ak~A~~~LNg~~i~Grk~  114 (222)
                      ..+||||||+.+|+++|+++|++||+|.+|.|+++      +      |+|||.|.++ ++|..|+..|||..+.++.+
T Consensus        12 ~~~fvgnL~~~~tee~Lk~~F~~fG~V~~v~i~~~------k------g~gfV~F~~~~~~A~~a~~~~~~~~l~~~~~   78 (113)
T d1owxa_          12 LLKFSGDLDDQTCREDLHILFSNHGEIKWIDFVRG------A------KEGIILFKEKAKEALGKAKDANNGNLQLRNK   78 (113)
T ss_dssp             EEEEEESCCSSCCHHHHHHHTCSSCCEEEEECCTT------C------SEEEEEESSCHHHHHHHHHHTTTSCBCTTSS
T ss_pred             eEEEECCCCCCCCHHHHHHHHHhcCChheEEEecC------C------ceEEEEecCcHHHHHHHHHHhcCCceecCce
Confidence            34699999999999999999999999999999853      3      8999999996 68999999999999998875

>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=99.57  E-value=1.7e-15  Score=113.69  Aligned_cols=78  Identities=13%  Similarity=0.287  Sum_probs=62.9

Q ss_pred             cEEEE--cCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccC-C--
Q psy3854          37 GIIYL--SKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQID-C--  111 (222)
Q Consensus        37 g~VYI--snLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~-G--  111 (222)
                      .++||  |+||+.+++++|+++|++||.|..|.++++      +      +||||+|.+.++|..|+..|||+.|. |  
T Consensus        19 ~~l~V~ng~L~~~vte~~L~~~F~~~G~i~~i~~~~~------k------~~aFV~f~~~e~A~~A~~~lng~~i~~~~~   86 (101)
T d2cq2a1          19 QSLVVANGGLGNGVSRNQLLPVLEKCGLVDALLMPPN------K------PYSFARYRTTEESKRAYVTLNGKEVVDDLG   86 (101)
T ss_dssp             SEEEEETCTGGGTCCHHHHHHHHHHHSCEEEEECCTT------C------SCEEEEESSHHHHHHHHHHTTTCEEECTTS
T ss_pred             ceEEEECCCCCCCCCHHHHHHHHHhhCcccEEeeccC------c------cEEEEEECCHHHHHHHHHHhCCCCCCCCCC
Confidence            45666  569999999999999999999999998764      2      79999999999999999999998873 3  


Q ss_pred             cccccccccccccccCCCccc
Q psy3854         112 RKRSKHYDFIWNFKYLPRFKW  132 (222)
Q Consensus       112 rk~~~~~~~lWnikyL~~fkW  132 (222)
                      .++..|      +-|+.+..|
T Consensus        87 ~~i~~~------~~~~~~~~~  101 (101)
T d2cq2a1          87 QKITLY------LNFVEKVQW  101 (101)
T ss_dssp             CEEECE------EEEESCCCC
T ss_pred             cEEEEE------EEeeeeccC
Confidence            333222      346666666

>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=99.56  E-value=2.9e-15  Score=119.35  Aligned_cols=77  Identities=6%  Similarity=0.248  Sum_probs=70.7

Q ss_pred             ccCCccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCC
Q psy3854          32 KKYKKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDC  111 (222)
Q Consensus        32 k~~~~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~G  111 (222)
                      ......+|||+|||+.+++++|+++|+.||.|..|.|+.+..+|+++      |+|||+|.+.++|.+|++ |||..|.|
T Consensus        93 ~~~~~~~i~V~~lp~~~te~~L~~~f~~~G~v~~~~i~~~~~~~~~~------g~~fV~f~~~e~A~~Al~-~~~~~~~G  165 (183)
T d1u1qa_          93 AHLTVKKIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKR------GFAFVTFDDHDSVDKIVI-QKYHTVNG  165 (183)
T ss_dssp             TTCCCSEEEEECCCTTCCHHHHHHHHGGGSCEEEEEEEECTTTCCEE------EEEEEEESCHHHHHHHHT-SSCEEETT
T ss_pred             cccccceeEEccCCCcCCHHHHhhhhccCCceeeeeeecccccCccc------eeEEEEECCHHHHHHHHH-hCCCeECC
Confidence            44556789999999999999999999999999999999998888888      999999999999999996 79999999


Q ss_pred             cccc
Q psy3854         112 RKRS  115 (222)
Q Consensus       112 rk~~  115 (222)
                      +++.
T Consensus       166 ~~i~  169 (183)
T d1u1qa_         166 HNCE  169 (183)
T ss_dssp             EEEE
T ss_pred             EEEE
Confidence            9863

>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=99.55  E-value=1.8e-16  Score=119.78  Aligned_cols=74  Identities=12%  Similarity=0.139  Sum_probs=68.1

Q ss_pred             CccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCCccc
Q psy3854          35 KKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDCRKR  114 (222)
Q Consensus        35 ~~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~Grk~  114 (222)
                      ..+.+||.+++..++++.|+++|++||+|.+|.|+++ .+|+++      |+|||+|.+.++|.+|+..|||+.++||++
T Consensus        26 ~~~~~~v~~~~~~~~ed~l~e~f~k~G~I~~v~I~~~-~~~~~~------G~~fV~f~~~~~A~~Ai~~lng~~~~gr~i   98 (104)
T d1jmta_          26 AVSDVEMQEHYDEFFEEVFTEMEEKYGEVEEMNVCDN-LGDHLV------GNVYVKFRREEDAEKAVIDLNNRWFNGQPI   98 (104)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHTCCEEEEEECCS-SSSSSE------EEEEEEESCHHHHHHHHHHHTTCEETTEEC
T ss_pred             ccchHHhhhhhhhhhHHHHHHHhccCCCEEEEEeecC-CCCCEe------eEEEEEEechhHHHHHHHHHCCCEECCEEE
Confidence            3457999999999999999999999999999999765 568888      999999999999999999999999999997


Q ss_pred             c
Q psy3854         115 S  115 (222)
Q Consensus       115 ~  115 (222)
                      .
T Consensus        99 ~   99 (104)
T d1jmta_          99 H   99 (104)
T ss_dssp             C
T ss_pred             E
Confidence            3

>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=99.54  E-value=4.8e-15  Score=108.56  Aligned_cols=71  Identities=14%  Similarity=0.192  Sum_probs=62.4

Q ss_pred             cCCccEEEEcCCCCC-CCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHh--cCCcc
Q psy3854          33 KYKKGIIYLSKVPPH-MNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQY--NNTQI  109 (222)
Q Consensus        33 ~~~~g~VYIsnLP~~-m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~L--Ng~~i  109 (222)
                      ...+-+|||+|||.. +++++|++||++||+|.+|.++++.            ++|||+|.+.++|..|+..|  |+..+
T Consensus         5 ~~~sr~v~v~nl~~~~~t~~eL~~lF~~fG~I~~i~i~~~k------------~~afV~f~~~~~A~~A~~~l~~~~~~~   72 (89)
T d1x4da1           5 VETRRVVHIMDFQRGKNLRYQLLQLVEPFGVISNHLILNKI------------NEAFIEMATTEDAQAAVDYYTTTPALV   72 (89)
T ss_dssp             CCCCCEEEEESCCCSSSHHHHHHTTTGGGSCEEEEEECSSS------------SCEEEEESSHHHHHHHHHHHHHSCCEE
T ss_pred             CCCCcEEEEECCCCCcCCHHHHHHHHHhhCCeEEEEeeccc------------eEEEEEEcchhhHHHHHHHHhhCCCcc
Confidence            445678999999997 7899999999999999999997642            68999999999999999976  56779


Q ss_pred             CCcccc
Q psy3854         110 DCRKRS  115 (222)
Q Consensus       110 ~Grk~~  115 (222)
                      .|+++.
T Consensus        73 ~gr~l~   78 (89)
T d1x4da1          73 FGKPVR   78 (89)
T ss_dssp             TTEECE
T ss_pred             CCceEE
Confidence            999874

>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=99.48  E-value=1e-14  Score=110.04  Aligned_cols=69  Identities=6%  Similarity=0.028  Sum_probs=61.4

Q ss_pred             CccEEEEcCCCCCCCH-----HHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCcc
Q psy3854          35 KKGIIYLSKVPPHMNV-----TQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQI  109 (222)
Q Consensus        35 ~~g~VYIsnLP~~m~e-----~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i  109 (222)
                      ...+|||+||++++..     ++|+.+|++||.|.+|.+.+      ++      ++|||+|.+.++|..|+..|||+.|
T Consensus         4 ~~~~L~v~nl~~~v~~~d~~k~~l~~lF~~~G~i~~~~~~k------~~------~~afV~f~~~~~A~~Ai~~lng~~~   71 (104)
T d1weya_           4 GSSGLIACVANDDVFSESETRAKFESLFRTYDKDTTFQYFK------SF------KRVRINFSNPLSAADARLRLHKTEF   71 (104)
T ss_dssp             CCCEEEEECCCGGGGSTTTHHHHHHHHHHTTCSSCEEEEET------TT------TEEEEECSSTTHHHHHHHTSTTSEE
T ss_pred             CCceEEEEeCCchhcCcHHHHHHHHHHhcccccceEEEEec------CC------CEEEEEECCHHHHHHHHHHhccccc
Confidence            4568999999998743     56999999999999999974      23      8999999999999999999999999


Q ss_pred             CCcccc
Q psy3854         110 DCRKRS  115 (222)
Q Consensus       110 ~Grk~~  115 (222)
                      +|+.+.
T Consensus        72 ~g~~l~   77 (104)
T d1weya_          72 LGKEMK   77 (104)
T ss_dssp             TTEECE
T ss_pred             CCCEeE
Confidence            999985

>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=99.45  E-value=6.3e-14  Score=111.47  Aligned_cols=70  Identities=9%  Similarity=0.212  Sum_probs=62.4

Q ss_pred             cEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCCcc
Q psy3854          37 GIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDCRK  113 (222)
Q Consensus        37 g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~Grk  113 (222)
                      .+|||||||+.+++++|+++|++||.|.+|.++.+..+|.++      |+|||+|.+.++|..|+..+++ .++++.
T Consensus         7 r~lfV~nLp~~~te~~L~~~F~~~G~v~~~~~~~~~~~~~~~------g~afv~f~~~~~a~~a~~~~~~-~~~~~~   76 (183)
T d1u1qa_           7 RKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSR------GFGFVTYATVEEVDAAMNARPH-KVDGRV   76 (183)
T ss_dssp             HEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEECTTTCCEE------EEEEEEESSHHHHHHHHHTCSC-EETTEE
T ss_pred             CEEEEECCCCCCCHHHHHHHHHHcCCEEEEEeeecccCCCcc------CceecccCCHHHHHHHHHhcCC-cccccc
Confidence            579999999999999999999999999999999998888888      9999999999999999876554 444444

>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=99.40  E-value=1.5e-13  Score=99.60  Aligned_cols=65  Identities=9%  Similarity=0.046  Sum_probs=56.0

Q ss_pred             ccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCCccc
Q psy3854          36 KGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDCRKR  114 (222)
Q Consensus        36 ~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~Grk~  114 (222)
                      ..-|+|+++||..++..| +.|++||+|.++.+.+      ++      |||||+|.++++|.+|+. |||+.|+|+.+
T Consensus         4 ~~wV~V~G~p~~~~~~il-~~F~~~G~I~~~~~~~------~~------~~~fV~f~~~~~A~~Al~-~nG~~~~g~~~   68 (81)
T d1wwha1           4 DTWVTVFGFPQASASYIL-LQFAQYGNILKHVMSN------TG------NWMHIRYQSKLQARKALS-KDGRIFGESIM   68 (81)
T ss_dssp             GGEEEEECCCGGGHHHHH-HHHHTTSCEEEEEECS------SS------SEEEEEESSHHHHHHHHT-TTTCEETTTEE
T ss_pred             ccEEEEECCChHHHHHHH-HHHHhhhhhheEEecC------CC------CEEEEEEcccHHHHHHHh-cCCCeECCcEE
Confidence            356999999999997655 5799999999998743      34      899999999999999995 99999999864

>d2dita1 d.58.7.1 (A:8-106) HIV Tat-specific factor 1 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: HIV Tat-specific factor 1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.35  E-value=6.3e-13  Score=98.95  Aligned_cols=74  Identities=12%  Similarity=0.253  Sum_probs=62.7

Q ss_pred             ccCCccEEEEcCC--CCCCC---------HHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHH
Q psy3854          32 KKYKKGIIYLSKV--PPHMN---------VTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQV  100 (222)
Q Consensus        32 k~~~~g~VYIsnL--P~~m~---------e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A  100 (222)
                      +.....+|+|.|+  |.++.         .++|++.|++||+|..|.+..+.    .+      |+|||+|.+.++|..|
T Consensus         4 ~~~~~r~v~l~nmf~~~~~~~~~~~~~~i~edv~~~~~~~G~V~~v~~~~~~----~~------G~~fV~f~~~e~A~~A   73 (99)
T d2dita1           4 RMRHERVVIIKNMFHPMDFEDDPLVLNEIREDLRVECSKFGQIRKLLLFDRH----PD------GVASVSFRDPEEADYC   73 (99)
T ss_dssp             CCCSCCEEEEESSCCTTHHHHCSHHHHHHHHHHHHHGGGTSCCSEEEEETTC----TT------CEEEEECSCHHHHHHH
T ss_pred             CCCCccEEEEccCCCHHHhhcchHHHHHHHHHHHHHhcCcccEEEEeccCCC----Cc------cEEEEEECCHHHHHHH
Confidence            3446678999999  66543         25899999999999999987653    33      9999999999999999


Q ss_pred             HHHhcCCccCCcccc
Q psy3854         101 AAQYNNTQIDCRKRS  115 (222)
Q Consensus       101 ~~~LNg~~i~Grk~~  115 (222)
                      +..|||..++||++.
T Consensus        74 ~~~lng~~~~gr~i~   88 (99)
T d2dita1          74 IQTLDGRWFGGRQIT   88 (99)
T ss_dssp             HHHSTTCEETTEECE
T ss_pred             HHHhCCcEECCEEEE
Confidence            999999999999974

>d1o0pa_ d.58.7.1 (A:) Splicing factor U2AF 65 KDa subunit {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Splicing factor U2AF 65 KDa subunit
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.27  E-value=9.1e-12  Score=93.02  Aligned_cols=76  Identities=11%  Similarity=0.117  Sum_probs=62.3

Q ss_pred             ccEEEEcCC--CCCCCH--------HHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhc
Q psy3854          36 KGIIYLSKV--PPHMNV--------TQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYN  105 (222)
Q Consensus        36 ~g~VYIsnL--P~~m~e--------~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LN  105 (222)
                      +.+|.|.||  |..+.+        ++|++.|++||.|.+|.|.++..+...    ...|++||+|.+.++|.+|+..||
T Consensus         4 s~vl~l~N~~~~~~l~~~~~~~~i~edi~~e~~k~G~v~~v~I~~~~~~~~~----~~~g~vfV~f~~~e~A~~A~~~l~   79 (104)
T d1o0pa_           4 TEVLCLMNMVLPEELLDDEEYEEIVEDVRDECSKYGLVKSIEIPRPVDGVEV----PGCGKIFVEFTSVFDCQKAMQGLT   79 (104)
T ss_dssp             CSEEEEESSCCTTTTTSHHHHHHHHHHHHHHHTTTSCEEEEECCCCTTSSSC----TTCCEEEEEESCHHHHHHHHHHHS
T ss_pred             CcEEEEeCCCCHHHcCCchhHHHHHHHHHHHhcccCceEEEEEeecCCCCcc----CCceEEEEEECCHHHHHHHHHHHC
Confidence            567999999  665543        469999999999999999776543221    122899999999999999999999


Q ss_pred             CCccCCcccc
Q psy3854         106 NTQIDCRKRS  115 (222)
Q Consensus       106 g~~i~Grk~~  115 (222)
                      |+.++||.+.
T Consensus        80 Gr~f~gR~v~   89 (104)
T d1o0pa_          80 GRKFANRVVV   89 (104)
T ss_dssp             SCCSSSSCCE
T ss_pred             CCEECCeEEE
Confidence            9999999984

>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=97.49  E-value=0.00022  Score=52.09  Aligned_cols=75  Identities=12%  Similarity=0.229  Sum_probs=64.0

Q ss_pred             cEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCCcccc
Q psy3854          37 GIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDCRKRS  115 (222)
Q Consensus        37 g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~Grk~~  115 (222)
                      +.|-|.+|||.||++++.+.++..|++...+..+-+.+.    +...+.-+||.|.+.++...-.+..+|..+-+.+..
T Consensus         2 tKvVvRrLPP~Lte~~F~~~l~~~~~~d~~~f~~Gk~s~----~~~~~SRAYi~F~~~~~v~~F~~~f~g~~F~D~~g~   76 (91)
T d1uw4a_           2 SKVVIRRLPPTLTKEQLQEHLQPMPEHDYFEFFSNDTSL----YPHMYARAYINFKNQEDIILFRDRFDGYVFLDNKGQ   76 (91)
T ss_dssp             CEEEEEEECTTCCHHHHHHHHCSCCCEEEEEEEESCCSS----TTCCCEEEEEEESSSHHHHHHHHHHTTCEEECTTCC
T ss_pred             ceEEEecCCCCCCHHHHHHHhCCcCceEEEEEeCCCcCC----CCCcceEEEEEeCCHHHHHHHHHHcCCcEEEcCCCC
Confidence            468899999999999999999999999999888865432    234578899999999999999999999988766543

>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=96.56  E-value=0.0012  Score=48.39  Aligned_cols=50  Identities=16%  Similarity=0.246  Sum_probs=43.0

Q ss_pred             HHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCCcccc
Q psy3854          51 TQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDCRKRS  115 (222)
Q Consensus        51 ~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~Grk~~  115 (222)
                      ..|-+.|+.||+|.-|+++.|              .-||.|.|-+.|-.|+ .|||..+.|+.+.
T Consensus        39 ~~Llq~l~~~GeViLvRFv~d--------------~mwVTF~dG~SAL~al-~l~g~~v~G~~l~   88 (95)
T d1ufwa_          39 TELMQTLGSYGTIVLVRINQG--------------QMLVTFADSHSALSVL-DVDGMKVKGRAVK   88 (95)
T ss_dssp             HHHHHHHHHHSCCSEEEEETT--------------EEEEECSCSHHHHHHH-HGGGSEETTEEEE
T ss_pred             HHHHHHHhhCCeEEEEEEeCC--------------eEEEEECCcHHHHHHh-ccCCeEEcceEEE
Confidence            467888999999999998764              5899999999998777 6999999999863

>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=96.16  E-value=0.0047  Score=43.12  Aligned_cols=60  Identities=18%  Similarity=0.211  Sum_probs=49.5

Q ss_pred             CCCCHHH----HHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhcCCccCCccc
Q psy3854          46 PHMNVTQ----LTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYNNTQIDCRKR  114 (222)
Q Consensus        46 ~~m~e~~----Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LNg~~i~Grk~  114 (222)
                      +.++..+    |.++|++||+|.+|.|.+-.+ |.        -.+=|...+..+|..|+..|+-..||++++
T Consensus         2 ~~L~~kelqq~L~~~f~~h~~V~sv~l~~~~d-g~--------~~A~V~v~~~q~A~~~v~~LhR~KiG~KRI   65 (73)
T d2dgxa1           2 YRLSRKELQQLLQEAFARHGKVKSVELSPHTD-YQ--------LKAVVQMENLQDAIGAVNSLHRYKIGSKKI   65 (73)
T ss_dssp             TTSCHHHHHHHHHHHHHHHSCEEEEEECSCCS-TT--------CCEEEEESSHHHHHHHHHHHTTEEETTEEE
T ss_pred             CcCCHHHHHHHHHHHHHhheeEEEEEEEeccC-Cc--------EEEEEEcCCHHHHHHHHHHHHHHhcCCeEE
Confidence            3445554    456799999999999987654 33        348999999999999999999999999987

>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=94.04  E-value=0.055  Score=39.62  Aligned_cols=57  Identities=12%  Similarity=0.307  Sum_probs=47.9

Q ss_pred             CccEEEEcCCCCCCCHHHHHHHhhcCcceeEEEEecCCCCCCCCCCCCCccEEEEEecchHHHHHHHHHhc
Q psy3854          35 KKGIIYLSKVPPHMNVTQLTEFMSRFGEVGRVYLMPKKRKPGEKKPAKQFTEGWIEFLKKKVAKQVAAQYN  105 (222)
Q Consensus        35 ~~g~VYIsnLP~~m~e~~Lr~lFs~fG~I~rv~L~~d~~tgksKkk~~~~g~GfVEF~dk~~Ak~A~~~LN  105 (222)
                      .+.-||.=+.|..+.-.+|.+||++||.|.=-.|   ++           +-+||.-.+.++|+.+...++
T Consensus        14 ~RdHVf~~tFP~~Wk~~dI~~lFSpfG~V~VswI---dd-----------TSa~V~L~~~e~~~~v~~~~~   70 (100)
T d1whva_          14 KRDHVLHVTFPKEWKTSDLYQLFSAFGNIQISWI---DD-----------TSAFVSLSQPEQVQIAVNTSK   70 (100)
T ss_dssp             CCCSEEEEECCTTCCHHHHHHHHTTTCSCCCEEE---ET-----------TEEEEECSCHHHHHHHHHHHH
T ss_pred             CcceeEEEeCCcccchhHHHHHhcCCCceEEEEe---cC-----------ceEEEEecCHHHHHHHHHHhc
Confidence            4456888899999999999999999998864444   22           469999999999999998776