Psyllid ID: psy6375

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80------
Protein Sequence
MDAFNIIKYPLTTESAMKKIEDNNTLVFIVHLQANKHHIKAAVKKMYDINVAKVNTLIRPDGKKKAYVRLARDYDALDVANKIGII
Secondary Structure (PSIPRED)
cccccccccccccHHHHHcHHHccEEEEEEEccccHHHHHHHHHHHHcccEEEEEEEcccccEEEEEEEEcccccHHHHHHHHccc
Secondary Structure Prediction (SSPRO)
ccccccEEEEcccHHHHHHHHHHcEEEEEEcccccHHHHHHHHHHHHcccEEEEEEEEcccccEEEEEEEcccccHHHHHHccccc
Coil and Loop (DISEMBL)
mdafniikyplttESAMKKIEDNNTLVFIVHLQANKHHIKAAVKKMYDINVAKVNtlirpdgkkKAYVRLARDYDALDVANKIGII
Flexible Loop (DISEMBL)
mdafniikyplttesAMKKIEDNNTLVFIVHLQANKHHIKAAVKKMYDINVAKvntlirpdgkkkayvrlardydaldvankigii
Low Complexity Region (SEG)
MDAFNIIKYPLTTESAMKKIEDNNTLVFIVHLQANKHHIKAAVKKMYDINVAKVNTLIRPDGKKKAYVRLARDYDALDVANKIGII
Disordered region (IsUnstruct)
***FNIIKYPLTTESAMKKIEDNNTLVFIVHLQANKHHIKAAVKKMYDINVAKVNTLIRPDGKKKAYVRLARDYDALDVANKI***
Disordered Region (DISOPRED)
*DAFNIIKYPLTTESAMKKIEDNNTLVFIVHLQANKHHIKAAVKKMYDINVAKVNTLIRPDGKKKAYVRLARDYDALDVANKIGII
Disordered Region (DISEMBL)
MDAFNIIKYPLTTESAMKKIEDNNTLVFIVHLQANKHHIKAAVKKMYDINVAKVNTLIRPDGKKKAYVRLARDYDALDVANKIGII
Disordered Region (DISPRO)
*DAFNIIKYPLTTESAMKKIEDNNTLVFIVHLQANKHHIKAAVKKMYDINVAKVNTLIRPDGKKKAYVRLARDYDALDVANKIGII
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhhooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhoooo
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Signal Peptide (SignalP NN Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Coiled Coils (COILS)
MDAFNIIKYPLTTESAMKKIEDNNTLVFIVHLQANKHHIKAAVKKMYDINVAKVNTLIRPDGKKKAYVRLARDYDALDVANKIGII
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	86	2.2.26 [Sep-21-2011]
P62752	156	60S ribosomal protein L23	yes	N/A	1.0	0.551	0.837	1e-34
P62751	156	60S ribosomal protein L23	yes	N/A	1.0	0.551	0.837	1e-34
P62750	156	60S ribosomal protein L23	yes	N/A	1.0	0.551	0.837	1e-34
Q24JY1	156	60S ribosomal protein L23	yes	N/A	1.0	0.551	0.837	1e-34
Q9AT35	154	60S ribosomal protein L23	N/A	N/A	1.0	0.558	0.802	4e-29
Q9M3C3	154	60S ribosomal protein L23	yes	N/A	1.0	0.558	0.790	4e-28
P51997	158	60S ribosomal protein L25	N/A	N/A	1.0	0.544	0.686	4e-28
Q8LD46	154	60S ribosomal protein L23	no	N/A	1.0	0.558	0.790	4e-28
P41165	164	60S ribosomal protein L23	N/A	N/A	1.0	0.524	0.651	8e-28
Q07761	154	60S ribosomal protein L23	N/A	N/A	1.0	0.558	0.790	3e-27

>sp|P62752|RL23A_RAT 60S ribosomal protein L23a OS=Rattus norvegicus GN=Rpl23a PE=2 SV=1

 Score =  145 bits (365), Expect = 1e-34,   Method: Compositional matrix adjust.
 Identities = 72/86 (83%), Positives = 80/86 (93%)

Query: 1   MDAFNIIKYPLTTESAMKKIEDNNTLVFIVHLQANKHHIKAAVKKMYDINVAKVNTLIRP 60
           +D + IIK+PLTTESAMKKIEDNNTLVFIV ++ANKH IK AVKK+YDI+VAKVNTLIRP
Sbjct: 71  LDHYAIIKFPLTTESAMKKIEDNNTLVFIVDVKANKHQIKQAVKKLYDIDVAKVNTLIRP 130

Query: 61  DGKKKAYVRLARDYDALDVANKIGII 86
           DG+KKAYVRLA DYDALDVANKIGII
Sbjct: 131 DGEKKAYVRLAPDYDALDVANKIGII 156

This protein binds to a specific region on the 26S rRNA.
Rattus norvegicus (taxid: 10116)

>sp|P62751|RL23A_MOUSE 60S ribosomal protein L23a OS=Mus musculus GN=Rpl23a PE=1 SV=1

 Score =  145 bits (365), Expect = 1e-34,   Method: Compositional matrix adjust.
 Identities = 72/86 (83%), Positives = 80/86 (93%)

Query: 1   MDAFNIIKYPLTTESAMKKIEDNNTLVFIVHLQANKHHIKAAVKKMYDINVAKVNTLIRP 60
           +D + IIK+PLTTESAMKKIEDNNTLVFIV ++ANKH IK AVKK+YDI+VAKVNTLIRP
Sbjct: 71  LDHYAIIKFPLTTESAMKKIEDNNTLVFIVDVKANKHQIKQAVKKLYDIDVAKVNTLIRP 130

Query: 61  DGKKKAYVRLARDYDALDVANKIGII 86
           DG+KKAYVRLA DYDALDVANKIGII
Sbjct: 131 DGEKKAYVRLAPDYDALDVANKIGII 156

This protein binds to a specific region on the 26S rRNA.

Mus musculus (taxid: 10090)

>sp|P62750|RL23A_HUMAN 60S ribosomal protein L23a OS=Homo sapiens GN=RPL23A PE=1 SV=1

 Score =  145 bits (365), Expect = 1e-34,   Method: Compositional matrix adjust.
 Identities = 72/86 (83%), Positives = 80/86 (93%)

Query: 1   MDAFNIIKYPLTTESAMKKIEDNNTLVFIVHLQANKHHIKAAVKKMYDINVAKVNTLIRP 60
           +D + IIK+PLTTESAMKKIEDNNTLVFIV ++ANKH IK AVKK+YDI+VAKVNTLIRP
Sbjct: 71  LDHYAIIKFPLTTESAMKKIEDNNTLVFIVDVKANKHQIKQAVKKLYDIDVAKVNTLIRP 130

Query: 61  DGKKKAYVRLARDYDALDVANKIGII 86
           DG+KKAYVRLA DYDALDVANKIGII
Sbjct: 131 DGEKKAYVRLAPDYDALDVANKIGII 156

This protein binds to a specific region on the 26S rRNA.

Homo sapiens (taxid: 9606)

>sp|Q24JY1|RL23A_BOVIN 60S ribosomal protein L23a OS=Bos taurus GN=RPL23A PE=2 SV=1

 Score =  145 bits (365), Expect = 1e-34,   Method: Compositional matrix adjust.
 Identities = 72/86 (83%), Positives = 80/86 (93%)

Query: 1   MDAFNIIKYPLTTESAMKKIEDNNTLVFIVHLQANKHHIKAAVKKMYDINVAKVNTLIRP 60
           +D + IIK+PLTTESAMKKIEDNNTLVFIV ++ANKH IK AVKK+YDI+VAKVNTLIRP
Sbjct: 71  LDHYAIIKFPLTTESAMKKIEDNNTLVFIVDVKANKHQIKQAVKKLYDIDVAKVNTLIRP 130

Query: 61  DGKKKAYVRLARDYDALDVANKIGII 86
           DG+KKAYVRLA DYDALDVANKIGII
Sbjct: 131 DGEKKAYVRLAPDYDALDVANKIGII 156

This protein binds to a specific region on the 26S rRNA.

Bos taurus (taxid: 9913)

>sp|Q9AT35|RL23A_DAUCA 60S ribosomal protein L23a OS=Daucus carota GN=RPL23A PE=2 SV=1

 Score =  126 bits (317), Expect = 4e-29,   Method: Compositional matrix adjust.
 Identities = 69/86 (80%), Positives = 74/86 (86%)

Query: 1   MDAFNIIKYPLTTESAMKKIEDNNTLVFIVHLQANKHHIKAAVKKMYDINVAKVNTLIRP 60
           +D + I+KYPLTTESAMKKIEDNNTLVFIV ++ANK  IK AVKKMYDI   KVNTLIRP
Sbjct: 69  LDQYQILKYPLTTESAMKKIEDNNTLVFIVDIRANKKKIKDAVKKMYDIQTKKVNTLIRP 128

Query: 61  DGKKKAYVRLARDYDALDVANKIGII 86
           DG KKAYVRL  DYDALDVANKIGII
Sbjct: 129 DGTKKAYVRLTPDYDALDVANKIGII 154

This protein binds to a specific region on the 26S rRNA.

Daucus carota (taxid: 4039)

>sp|Q9M3C3|R23A2_ARATH 60S ribosomal protein L23a-2 OS=Arabidopsis thaliana GN=RPL23AB PE=2 SV=1

 Score =  123 bits (308), Expect = 4e-28,   Method: Compositional matrix adjust.
 Identities = 68/86 (79%), Positives = 74/86 (86%)

Query: 1   MDAFNIIKYPLTTESAMKKIEDNNTLVFIVHLQANKHHIKAAVKKMYDINVAKVNTLIRP 60
           +D + I+KYPLTTESAMKKIEDNNTLVFIV ++A+K  IK AVKKMYDI   KVNTLIRP
Sbjct: 69  LDHYQILKYPLTTESAMKKIEDNNTLVFIVDIRADKKKIKDAVKKMYDIQTKKVNTLIRP 128

Query: 61  DGKKKAYVRLARDYDALDVANKIGII 86
           DG KKAYVRL  DYDALDVANKIGII
Sbjct: 129 DGTKKAYVRLTPDYDALDVANKIGII 154

Binds to a specific region on the 26S rRNA.

Arabidopsis thaliana (taxid: 3702)

>sp|P51997|RL25_PUCGR 60S ribosomal protein L25 OS=Puccinia graminis PE=2 SV=2

 Score =  123 bits (308), Expect = 4e-28,   Method: Compositional matrix adjust.
 Identities = 59/86 (68%), Positives = 69/86 (80%)

Query: 1   MDAFNIIKYPLTTESAMKKIEDNNTLVFIVHLQANKHHIKAAVKKMYDINVAKVNTLIRP 60
           MDA+  +  PL TESAMKKIEDNNTL+FIV L+ANK  I  AVKK+YD+   +VNTLIRP
Sbjct: 73  MDAYRTLVRPLNTESAMKKIEDNNTLLFIVDLKANKRQIADAVKKLYDVTPLRVNTLIRP 132

Query: 61  DGKKKAYVRLARDYDALDVANKIGII 86
           DGKKKA+VRL  + DALD+ANKIG I
Sbjct: 133 DGKKKAFVRLTPEVDALDIANKIGFI 158

This protein binds to a specific region on the 26S rRNA.

Puccinia graminis (taxid: 5297)

>sp|Q8LD46|R23A1_ARATH 60S ribosomal protein L23a-1 OS=Arabidopsis thaliana GN=RPL23AA PE=2 SV=2

 Score =  123 bits (308), Expect = 4e-28,   Method: Compositional matrix adjust.
 Identities = 68/86 (79%), Positives = 74/86 (86%)

Query: 1   MDAFNIIKYPLTTESAMKKIEDNNTLVFIVHLQANKHHIKAAVKKMYDINVAKVNTLIRP 60
           +D + I+KYPLTTESAMKKIEDNNTLVFIV ++A+K  IK AVKKMYDI   KVNTLIRP
Sbjct: 69  LDHYQILKYPLTTESAMKKIEDNNTLVFIVDIRADKKKIKDAVKKMYDIQTKKVNTLIRP 128

Query: 61  DGKKKAYVRLARDYDALDVANKIGII 86
           DG KKAYVRL  DYDALDVANKIGII
Sbjct: 129 DGTKKAYVRLTPDYDALDVANKIGII 154

Binds to a specific region on the 26S rRNA.

Arabidopsis thaliana (taxid: 3702)

>sp|P41165|RL23A_TRYBB 60S ribosomal protein L23a OS=Trypanosoma brucei brucei GN=RPL23A PE=2 SV=1

 Score =  122 bits (305), Expect = 8e-28,   Method: Compositional matrix adjust.
 Identities = 56/86 (65%), Positives = 69/86 (80%)

Query: 1   MDAFNIIKYPLTTESAMKKIEDNNTLVFIVHLQANKHHIKAAVKKMYDINVAKVNTLIRP 60
            DAF II+YPLTT+ AMKKIE+NNTL FIV  +ANK  IK A++K+Y +   KVNTLIRP
Sbjct: 79  WDAFRIIRYPLTTDKAMKKIEENNTLTFIVDSRANKTEIKKAIRKLYQVKTVKVNTLIRP 138

Query: 61  DGKKKAYVRLARDYDALDVANKIGII 86
           DG KKAY+RL+  YDALD ANK+G++
Sbjct: 139 DGLKKAYIRLSASYDALDTANKMGLV 164

This protein binds to a specific region on the 26S rRNA.

Trypanosoma brucei brucei (taxid: 5702)

>sp|Q07761|RL23A_TOBAC 60S ribosomal protein L23a OS=Nicotiana tabacum GN=RPL23A PE=2 SV=1

 Score =  120 bits (300), Expect = 3e-27,   Method: Compositional matrix adjust.
 Identities = 68/86 (79%), Positives = 74/86 (86%)

Query: 1   MDAFNIIKYPLTTESAMKKIEDNNTLVFIVHLQANKHHIKAAVKKMYDINVAKVNTLIRP 60
           +D + I+KYPLTTESAMKKIEDNNTLVFIV ++A+K  IK AVKKMYDI   KVNTLIRP
Sbjct: 69  LDQYGILKYPLTTESAMKKIEDNNTLVFIVDIKADKKKIKDAVKKMYDIQTKKVNTLIRP 128

Query: 61  DGKKKAYVRLARDYDALDVANKIGII 86
           DG KKAYVRL  DYDALDVANKIGII
Sbjct: 129 DGTKKAYVRLTPDYDALDVANKIGII 154

This protein binds to a specific region on the 26S rRNA.

Nicotiana tabacum (taxid: 4097)

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	86
193690532	430	PREDICTED: hypothetical protein LOC10016	1.0	0.2	0.965	1e-43
307095104	314	ribosomal protein L23A [Triatoma matogro	1.0	0.273	0.906	3e-40
315115345	287	ribosomal protein L23A [Euphydryas aurin	1.0	0.299	0.918	4e-40
357603654	285	ribosomal protein L23A [Danaus plexippus	1.0	0.301	0.918	1e-39
270014014	302	hypothetical protein TcasGA2_TC012708 [T	1.0	0.284	0.906	2e-39
91090868	278	PREDICTED: similar to ribosomal protein	1.0	0.309	0.906	2e-39
70909775	272	ribosomal protein L23Ae [Georissus sp. A	1.0	0.316	0.895	2e-39
112984266	352	ribosomal protein L23A [Bombyx mori] gi|	1.0	0.244	0.918	2e-39
268306478	305	ribosomal protein L23A [Manduca sexta]	1.0	0.281	0.918	2e-39
342356331	290	ribosomal protein L23A [Heliconius melpo	1.0	0.296	0.918	3e-39

>gi|193690532|ref|XP_001942614.1| PREDICTED: hypothetical protein LOC100166785 [Acyrthosiphon pisum]

 Score =  180 bits (456), Expect = 1e-43,   Method: Compositional matrix adjust.
 Identities = 83/86 (96%), Positives = 86/86 (100%)

Query: 1   MDAFNIIKYPLTTESAMKKIEDNNTLVFIVHLQANKHHIKAAVKKMYDINVAKVNTLIRP 60
           MDAFNIIK+PLTTESAMKKIEDNNTLVFIVHL+ANKHH+KAAVKKMYDINVAKVNTLIRP
Sbjct: 345 MDAFNIIKFPLTTESAMKKIEDNNTLVFIVHLRANKHHVKAAVKKMYDINVAKVNTLIRP 404

Query: 61  DGKKKAYVRLARDYDALDVANKIGII 86
           DGKKKAYVRLARDYDALDVANKIGII
Sbjct: 405 DGKKKAYVRLARDYDALDVANKIGII 430

Source: Acyrthosiphon pisum

Species: Acyrthosiphon pisum

Genus: Acyrthosiphon

Family: Aphididae

Order: Hemiptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|307095104|gb|ADN29858.1| ribosomal protein L23A [Triatoma matogrossensis]

 Score =  168 bits (426), Expect = 3e-40,   Method: Compositional matrix adjust.
 Identities = 78/86 (90%), Positives = 85/86 (98%)

Query: 1   MDAFNIIKYPLTTESAMKKIEDNNTLVFIVHLQANKHHIKAAVKKMYDINVAKVNTLIRP 60
           MDA+NIIKYPLTTE+AMKKIEDNNTLVFIVHL+ANKHHI+ AVKK+YDI+VAKVNTL+RP
Sbjct: 229 MDAYNIIKYPLTTEAAMKKIEDNNTLVFIVHLKANKHHIRTAVKKLYDIDVAKVNTLVRP 288

Query: 61  DGKKKAYVRLARDYDALDVANKIGII 86
           DGKKKAYVRLARDYDALDVANKIGII
Sbjct: 289 DGKKKAYVRLARDYDALDVANKIGII 314

Source: Triatoma matogrossensis

Species: Triatoma matogrossensis

Genus: Triatoma

Family: Reduviidae

Order: Hemiptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|315115345|gb|ADT80645.1| ribosomal protein L23A [Euphydryas aurinia]

 Score =  168 bits (425), Expect = 4e-40,   Method: Compositional matrix adjust.
 Identities = 79/86 (91%), Positives = 84/86 (97%)

Query: 1   MDAFNIIKYPLTTESAMKKIEDNNTLVFIVHLQANKHHIKAAVKKMYDINVAKVNTLIRP 60
           MDA+NIIKYPLT+E+AMKKIEDNNTLVFIVH  +NKHHIKAAVKK+YDINVAKVNTLIRP
Sbjct: 202 MDAYNIIKYPLTSEAAMKKIEDNNTLVFIVHTSSNKHHIKAAVKKLYDINVAKVNTLIRP 261

Query: 61  DGKKKAYVRLARDYDALDVANKIGII 86
           DGKKKAYVRLARDYDALDVANKIGII
Sbjct: 262 DGKKKAYVRLARDYDALDVANKIGII 287

Source: Euphydryas aurinia

Species: Euphydryas aurinia

Genus: Euphydryas

Family: Nymphalidae

Order: Lepidoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|357603654|gb|EHJ63866.1| ribosomal protein L23A [Danaus plexippus]

 Score =  167 bits (422), Expect = 1e-39,   Method: Compositional matrix adjust.
 Identities = 79/86 (91%), Positives = 84/86 (97%)

Query: 1   MDAFNIIKYPLTTESAMKKIEDNNTLVFIVHLQANKHHIKAAVKKMYDINVAKVNTLIRP 60
           MDA+NIIKYPLT+E+AMKKIEDNNTLVFIVH  +NKHHIKAAVKK+YDINVAKVNTLIRP
Sbjct: 200 MDAYNIIKYPLTSEAAMKKIEDNNTLVFIVHTSSNKHHIKAAVKKLYDINVAKVNTLIRP 259

Query: 61  DGKKKAYVRLARDYDALDVANKIGII 86
           DGKKKAYVRLARDYDALDVANKIGII
Sbjct: 260 DGKKKAYVRLARDYDALDVANKIGII 285

Source: Danaus plexippus

Species: Danaus plexippus

Genus: Danaus

Family: Nymphalidae

Order: Lepidoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|270014014|gb|EFA10462.1| hypothetical protein TcasGA2_TC012708 [Tribolium castaneum]

 Score =  166 bits (420), Expect = 2e-39,   Method: Compositional matrix adjust.
 Identities = 78/86 (90%), Positives = 85/86 (98%)

Query: 1   MDAFNIIKYPLTTESAMKKIEDNNTLVFIVHLQANKHHIKAAVKKMYDINVAKVNTLIRP 60
           MDA+NIIK+PLTTE+AMKKIEDNNTLVF+VH +ANKHHI+AAVKK+YDINVAKVNTLIRP
Sbjct: 217 MDAYNIIKFPLTTEAAMKKIEDNNTLVFLVHTRANKHHIRAAVKKLYDINVAKVNTLIRP 276

Query: 61  DGKKKAYVRLARDYDALDVANKIGII 86
           DGKKKAYVRLARDYDALDVANKIGII
Sbjct: 277 DGKKKAYVRLARDYDALDVANKIGII 302

Source: Tribolium castaneum

Species: Tribolium castaneum

Genus: Tribolium

Family: Tenebrionidae

Order: Coleoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|91090868|ref|XP_967229.1| PREDICTED: similar to ribosomal protein L23Ae isoform 1 [Tribolium castaneum]

 Score =  166 bits (420), Expect = 2e-39,   Method: Compositional matrix adjust.
 Identities = 78/86 (90%), Positives = 85/86 (98%)

Query: 1   MDAFNIIKYPLTTESAMKKIEDNNTLVFIVHLQANKHHIKAAVKKMYDINVAKVNTLIRP 60
           MDA+NIIK+PLTTE+AMKKIEDNNTLVF+VH +ANKHHI+AAVKK+YDINVAKVNTLIRP
Sbjct: 193 MDAYNIIKFPLTTEAAMKKIEDNNTLVFLVHTRANKHHIRAAVKKLYDINVAKVNTLIRP 252

Query: 61  DGKKKAYVRLARDYDALDVANKIGII 86
           DGKKKAYVRLARDYDALDVANKIGII
Sbjct: 253 DGKKKAYVRLARDYDALDVANKIGII 278

Source: Tribolium castaneum

Species: Tribolium castaneum

Genus: Tribolium

Family: Tenebrionidae

Order: Coleoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|70909775|emb|CAJ17313.1| ribosomal protein L23Ae [Georissus sp. APV-2005]

 Score =  166 bits (419), Expect = 2e-39,   Method: Compositional matrix adjust.
 Identities = 77/86 (89%), Positives = 85/86 (98%)

Query: 1   MDAFNIIKYPLTTESAMKKIEDNNTLVFIVHLQANKHHIKAAVKKMYDINVAKVNTLIRP 60
           MDA+NIIK+PLTTE+AMKKIEDNNTLVF+VH +ANKHHI+AAVKK+YDINV+KVNTLIRP
Sbjct: 187 MDAYNIIKFPLTTEAAMKKIEDNNTLVFLVHTRANKHHIRAAVKKLYDINVSKVNTLIRP 246

Query: 61  DGKKKAYVRLARDYDALDVANKIGII 86
           DGKKKAYVRLARDYDALDVANKIGII
Sbjct: 247 DGKKKAYVRLARDYDALDVANKIGII 272

Source: Georissus sp. APV-2005

Species: Georissus sp. APV-2005

Genus: Georissus

Family: Georissidae

Order: Coleoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|112984266|ref|NP_001037229.1| ribosomal protein L23A [Bombyx mori] gi|54609239|gb|AAV34835.1| ribosomal protein L23A [Bombyx mori]

 Score =  166 bits (419), Expect = 2e-39,   Method: Compositional matrix adjust.
 Identities = 79/86 (91%), Positives = 84/86 (97%)

Query: 1   MDAFNIIKYPLTTESAMKKIEDNNTLVFIVHLQANKHHIKAAVKKMYDINVAKVNTLIRP 60
           MDA+NIIK+PLT+E+AMKKIEDNNTLVFIVH  ANKHHIKAAVKK+YDINVAKVNTLIRP
Sbjct: 267 MDAYNIIKFPLTSEAAMKKIEDNNTLVFIVHTSANKHHIKAAVKKLYDINVAKVNTLIRP 326

Query: 61  DGKKKAYVRLARDYDALDVANKIGII 86
           DGKKKAYVRLARDYDALDVANKIGII
Sbjct: 327 DGKKKAYVRLARDYDALDVANKIGII 352

Source: Bombyx mori

Species: Bombyx mori

Genus: Bombyx

Family: Bombycidae

Order: Lepidoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|268306478|gb|ACY95360.1| ribosomal protein L23A [Manduca sexta]

 Score =  166 bits (419), Expect = 2e-39,   Method: Compositional matrix adjust.
 Identities = 79/86 (91%), Positives = 84/86 (97%)

Query: 1   MDAFNIIKYPLTTESAMKKIEDNNTLVFIVHLQANKHHIKAAVKKMYDINVAKVNTLIRP 60
           MDA+NIIKYPLT+E+AMKKIEDNNTLVFIVH  +NKHHIKAAVKK+YDINVAKVNTLIRP
Sbjct: 220 MDAYNIIKYPLTSEAAMKKIEDNNTLVFIVHTSSNKHHIKAAVKKLYDINVAKVNTLIRP 279

Query: 61  DGKKKAYVRLARDYDALDVANKIGII 86
           DGKKKAYVRLARDYDALDVANKIGII
Sbjct: 280 DGKKKAYVRLARDYDALDVANKIGII 305

Source: Manduca sexta

Species: Manduca sexta

Genus: Manduca

Family: Sphingidae

Order: Lepidoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|342356331|gb|AEL28824.1| ribosomal protein L23A [Heliconius melpomene cythera]

 Score =  165 bits (417), Expect = 3e-39,   Method: Compositional matrix adjust.
 Identities = 79/86 (91%), Positives = 84/86 (97%)

Query: 1   MDAFNIIKYPLTTESAMKKIEDNNTLVFIVHLQANKHHIKAAVKKMYDINVAKVNTLIRP 60
           MDA+NIIKYPLT+E+AMKKIEDNNTLVFIVH  +NKHHIKAAVKK+YDINVAKVNTLIRP
Sbjct: 205 MDAYNIIKYPLTSEAAMKKIEDNNTLVFIVHTSSNKHHIKAAVKKLYDINVAKVNTLIRP 264

Query: 61  DGKKKAYVRLARDYDALDVANKIGII 86
           DGKKKAYVRLARDYDALDVANKIGII
Sbjct: 265 DGKKKAYVRLARDYDALDVANKIGII 290

Source: Heliconius melpomene cythera

Species: Heliconius melpomene

Genus: Heliconius

Family: Nymphalidae

Order: Lepidoptera

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	86
UNIPROTKB|E1BS06	155	RPL23A "Uncharacterized protei	1.0	0.554	0.837	2.5e-33
UNIPROTKB|E1BB71	156	E1BB71 "Uncharacterized protei	1.0	0.551	0.837	2.5e-33
UNIPROTKB|E1BII3	156	E1BII3 "Uncharacterized protei	1.0	0.551	0.837	2.5e-33
UNIPROTKB|Q24JY1	156	RPL23A "60S ribosomal protein	1.0	0.551	0.837	2.5e-33
UNIPROTKB|E2QZG2	156	LOC478212 "Uncharacterized pro	1.0	0.551	0.837	2.5e-33
UNIPROTKB|J9NZX1	156	LOC100687735 "Uncharacterized	1.0	0.551	0.837	2.5e-33
UNIPROTKB|J9P168	156	LOC100856406 "Uncharacterized	1.0	0.551	0.837	2.5e-33
UNIPROTKB|J9PAG2	156	LOC100687735 "Uncharacterized	1.0	0.551	0.837	2.5e-33
UNIPROTKB|A8MUS3	194	RPL23A "Ribosomal protein L23a	1.0	0.443	0.837	2.5e-33
UNIPROTKB|H7BY10	158	RPL23A "60S ribosomal protein	1.0	0.544	0.837	2.5e-33

UNIPROTKB|E1BS06 RPL23A "Uncharacterized protein" [Gallus gallus (taxid:9031)]

 Score = 363 (132.8 bits), Expect = 2.5e-33, P = 2.5e-33
 Identities = 72/86 (83%), Positives = 80/86 (93%)

Query:     1 MDAFNIIKYPLTTESAMKKIEDNNTLVFIVHLQANKHHIKAAVKKMYDINVAKVNTLIRP 60
             +D + IIK+PLTTESAMKKIEDNNTLVFIV ++ANKH IK AVKK+YDI+VAKVNTLIRP
Sbjct:    70 LDHYAIIKFPLTTESAMKKIEDNNTLVFIVDVKANKHQIKQAVKKLYDIDVAKVNTLIRP 129

Query:    61 DGKKKAYVRLARDYDALDVANKIGII 86
             DG+KKAYVRLA DYDALDVANKIGII
Sbjct:   130 DGEKKAYVRLAPDYDALDVANKIGII 155

GO:0000166 "nucleotide binding" evidence=IEA

GO:0003735 "structural constituent of ribosome" evidence=IEA

GO:0006412 "translation" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

GO:0008283 "cell proliferation" evidence=IEA

GO:0022625 "cytosolic large ribosomal subunit" evidence=IEA

UNIPROTKB|E1BB71 E1BB71 "Uncharacterized protein" [Bos taurus (taxid:9913)]

 Score = 363 (132.8 bits), Expect = 2.5e-33, P = 2.5e-33
 Identities = 72/86 (83%), Positives = 80/86 (93%)

Query:     1 MDAFNIIKYPLTTESAMKKIEDNNTLVFIVHLQANKHHIKAAVKKMYDINVAKVNTLIRP 60
             +D + IIK+PLTTESAMKKIEDNNTLVFIV ++ANKH IK AVKK+YDI+VAKVNTLIRP
Sbjct:    71 LDHYAIIKFPLTTESAMKKIEDNNTLVFIVDVKANKHQIKQAVKKLYDIDVAKVNTLIRP 130

Query:    61 DGKKKAYVRLARDYDALDVANKIGII 86
             DG+KKAYVRLA DYDALDVANKIGII
Sbjct:   131 DGEKKAYVRLAPDYDALDVANKIGII 156

GO:0005840 "ribosome" evidence=IEA

GO:0006412 "translation" evidence=IEA

GO:0003735 "structural constituent of ribosome" evidence=IEA

GO:0000166 "nucleotide binding" evidence=IEA

UNIPROTKB|E1BII3 E1BII3 "Uncharacterized protein" [Bos taurus (taxid:9913)]

 Score = 363 (132.8 bits), Expect = 2.5e-33, P = 2.5e-33
 Identities = 72/86 (83%), Positives = 80/86 (93%)

Query:     1 MDAFNIIKYPLTTESAMKKIEDNNTLVFIVHLQANKHHIKAAVKKMYDINVAKVNTLIRP 60
             +D + IIK+PLTTESAMKKIEDNNTLVFIV ++ANKH IK AVKK+YDI+VAKVNTLIRP
Sbjct:    71 LDHYAIIKFPLTTESAMKKIEDNNTLVFIVDVKANKHQIKQAVKKLYDIDVAKVNTLIRP 130

Query:    61 DGKKKAYVRLARDYDALDVANKIGII 86
             DG+KKAYVRLA DYDALDVANKIGII
Sbjct:   131 DGEKKAYVRLAPDYDALDVANKIGII 156

GO:0005840 "ribosome" evidence=IEA

GO:0006412 "translation" evidence=IEA

GO:0003735 "structural constituent of ribosome" evidence=IEA

GO:0000166 "nucleotide binding" evidence=IEA

UNIPROTKB|Q24JY1 RPL23A "60S ribosomal protein L23a" [Bos taurus (taxid:9913)]

 Score = 363 (132.8 bits), Expect = 2.5e-33, P = 2.5e-33
 Identities = 72/86 (83%), Positives = 80/86 (93%)

Query:     1 MDAFNIIKYPLTTESAMKKIEDNNTLVFIVHLQANKHHIKAAVKKMYDINVAKVNTLIRP 60
             +D + IIK+PLTTESAMKKIEDNNTLVFIV ++ANKH IK AVKK+YDI+VAKVNTLIRP
Sbjct:    71 LDHYAIIKFPLTTESAMKKIEDNNTLVFIVDVKANKHQIKQAVKKLYDIDVAKVNTLIRP 130

Query:    61 DGKKKAYVRLARDYDALDVANKIGII 86
             DG+KKAYVRLA DYDALDVANKIGII
Sbjct:   131 DGEKKAYVRLAPDYDALDVANKIGII 156

GO:0031932 "TORC2 complex" evidence=ISS

GO:0003674 "molecular_function" evidence=ND

GO:0008150 "biological_process" evidence=ND

GO:0005634 "nucleus" evidence=ISS

GO:0022625 "cytosolic large ribosomal subunit" evidence=IEA

GO:0008283 "cell proliferation" evidence=IEA

GO:0019843 "rRNA binding" evidence=IEA

GO:0006412 "translation" evidence=IEA

GO:0003735 "structural constituent of ribosome" evidence=IEA

GO:0000166 "nucleotide binding" evidence=IEA

UNIPROTKB|E2QZG2 LOC478212 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]

 Score = 363 (132.8 bits), Expect = 2.5e-33, P = 2.5e-33
 Identities = 72/86 (83%), Positives = 80/86 (93%)

Query:     1 MDAFNIIKYPLTTESAMKKIEDNNTLVFIVHLQANKHHIKAAVKKMYDINVAKVNTLIRP 60
             +D + IIK+PLTTESAMKKIEDNNTLVFIV ++ANKH IK AVKK+YDI+VAKVNTLIRP
Sbjct:    71 LDHYAIIKFPLTTESAMKKIEDNNTLVFIVDVKANKHQIKQAVKKLYDIDVAKVNTLIRP 130

Query:    61 DGKKKAYVRLARDYDALDVANKIGII 86
             DG+KKAYVRLA DYDALDVANKIGII
Sbjct:   131 DGEKKAYVRLAPDYDALDVANKIGII 156

GO:0031932 "TORC2 complex" evidence=ISS

GO:0003674 "molecular_function" evidence=ND

GO:0008150 "biological_process" evidence=ND

GO:0005634 "nucleus" evidence=ISS

GO:0005840 "ribosome" evidence=IEA

GO:0006412 "translation" evidence=IEA

GO:0003735 "structural constituent of ribosome" evidence=IEA

GO:0000166 "nucleotide binding" evidence=IEA

UNIPROTKB|J9NZX1 LOC100687735 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]

 Score = 363 (132.8 bits), Expect = 2.5e-33, P = 2.5e-33
 Identities = 72/86 (83%), Positives = 80/86 (93%)

Query:     1 MDAFNIIKYPLTTESAMKKIEDNNTLVFIVHLQANKHHIKAAVKKMYDINVAKVNTLIRP 60
             +D + IIK+PLTTESAMKKIEDNNTLVFIV ++ANKH IK AVKK+YDI+VAKVNTLIRP
Sbjct:    71 LDHYAIIKFPLTTESAMKKIEDNNTLVFIVDVKANKHQIKQAVKKLYDIDVAKVNTLIRP 130

Query:    61 DGKKKAYVRLARDYDALDVANKIGII 86
             DG+KKAYVRLA DYDALDVANKIGII
Sbjct:   131 DGEKKAYVRLAPDYDALDVANKIGII 156

GO:0005840 "ribosome" evidence=IEA

GO:0006412 "translation" evidence=IEA

GO:0003735 "structural constituent of ribosome" evidence=IEA

GO:0000166 "nucleotide binding" evidence=IEA

UNIPROTKB|J9P168 LOC100856406 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]

 Score = 363 (132.8 bits), Expect = 2.5e-33, P = 2.5e-33
 Identities = 72/86 (83%), Positives = 80/86 (93%)

Query:     1 MDAFNIIKYPLTTESAMKKIEDNNTLVFIVHLQANKHHIKAAVKKMYDINVAKVNTLIRP 60
             +D + IIK+PLTTESAMKKIEDNNTLVFIV ++ANKH IK AVKK+YDI+VAKVNTLIRP
Sbjct:    71 LDHYAIIKFPLTTESAMKKIEDNNTLVFIVDVKANKHQIKQAVKKLYDIDVAKVNTLIRP 130

Query:    61 DGKKKAYVRLARDYDALDVANKIGII 86
             DG+KKAYVRLA DYDALDVANKIGII
Sbjct:   131 DGEKKAYVRLAPDYDALDVANKIGII 156

GO:0005840 "ribosome" evidence=IEA

GO:0006412 "translation" evidence=IEA

GO:0003735 "structural constituent of ribosome" evidence=IEA

GO:0000166 "nucleotide binding" evidence=IEA

UNIPROTKB|J9PAG2 LOC100687735 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]

 Score = 363 (132.8 bits), Expect = 2.5e-33, P = 2.5e-33
 Identities = 72/86 (83%), Positives = 80/86 (93%)

Query:     1 MDAFNIIKYPLTTESAMKKIEDNNTLVFIVHLQANKHHIKAAVKKMYDINVAKVNTLIRP 60
             +D + IIK+PLTTESAMKKIEDNNTLVFIV ++ANKH IK AVKK+YDI+VAKVNTLIRP
Sbjct:    71 LDHYAIIKFPLTTESAMKKIEDNNTLVFIVDVKANKHQIKQAVKKLYDIDVAKVNTLIRP 130

Query:    61 DGKKKAYVRLARDYDALDVANKIGII 86
             DG+KKAYVRLA DYDALDVANKIGII
Sbjct:   131 DGEKKAYVRLAPDYDALDVANKIGII 156

GO:0005840 "ribosome" evidence=IEA

GO:0006412 "translation" evidence=IEA

GO:0003735 "structural constituent of ribosome" evidence=IEA

GO:0000166 "nucleotide binding" evidence=IEA

UNIPROTKB|A8MUS3 RPL23A "Ribosomal protein L23a, isoform CRA_a" [Homo sapiens (taxid:9606)]

 Score = 363 (132.8 bits), Expect = 2.5e-33, P = 2.5e-33
 Identities = 72/86 (83%), Positives = 80/86 (93%)

Query:     1 MDAFNIIKYPLTTESAMKKIEDNNTLVFIVHLQANKHHIKAAVKKMYDINVAKVNTLIRP 60
             +D + IIK+PLTTESAMKKIEDNNTLVFIV ++ANKH IK AVKK+YDI+VAKVNTLIRP
Sbjct:   109 LDHYAIIKFPLTTESAMKKIEDNNTLVFIVDVKANKHQIKQAVKKLYDIDVAKVNTLIRP 168

Query:    61 DGKKKAYVRLARDYDALDVANKIGII 86
             DG+KKAYVRLA DYDALDVANKIGII
Sbjct:   169 DGEKKAYVRLAPDYDALDVANKIGII 194

GO:0000166 "nucleotide binding" evidence=IEA

GO:0003735 "structural constituent of ribosome" evidence=IEA

GO:0006412 "translation" evidence=IEA

GO:0005840 "ribosome" evidence=IEA

UNIPROTKB|H7BY10 RPL23A "60S ribosomal protein L23a" [Homo sapiens (taxid:9606)]

 Score = 363 (132.8 bits), Expect = 2.5e-33, P = 2.5e-33
 Identities = 72/86 (83%), Positives = 80/86 (93%)

Query:     1 MDAFNIIKYPLTTESAMKKIEDNNTLVFIVHLQANKHHIKAAVKKMYDINVAKVNTLIRP 60
             +D + IIK+PLTTESAMKKIEDNNTLVFIV ++ANKH IK AVKK+YDI+VAKVNTLIRP
Sbjct:    73 LDHYAIIKFPLTTESAMKKIEDNNTLVFIVDVKANKHQIKQAVKKLYDIDVAKVNTLIRP 132

Query:    61 DGKKKAYVRLARDYDALDVANKIGII 86
             DG+KKAYVRLA DYDALDVANKIGII
Sbjct:   133 DGEKKAYVRLAPDYDALDVANKIGII 158

GO:0000166 "nucleotide binding" evidence=IEA

GO:0003735 "structural constituent of ribosome" evidence=IEA

GO:0006412 "translation" evidence=IEA

GO:0005840 "ribosome" 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)
Q06842	RL23_HALSA	No assigned EC number	0.4691	0.9418	0.9642	yes	N/A
C5A284	RL23_THEGJ	No assigned EC number	0.4705	0.9883	0.9883	yes	N/A
P10143	RL23_METVS	No assigned EC number	0.4941	0.9883	0.9883	yes	N/A
Q20647	R23A2_CAEEL	No assigned EC number	0.6976	1.0	0.5890	yes	N/A
C6A161	RL23_THESM	No assigned EC number	0.4470	0.9883	0.9883	yes	N/A
A4FVY0	RL23_METM5	No assigned EC number	0.5058	0.9883	0.9883	yes	N/A
Q6LX09	RL23_METMP	No assigned EC number	0.4941	0.9883	0.9883	yes	N/A
Q2NFV8	RL23_METST	No assigned EC number	0.3882	0.9883	0.9883	yes	N/A
Q8ZW50	RL23_PYRAE	No assigned EC number	0.4074	0.9418	1.0	yes	N/A
P62752	RL23A_RAT	No assigned EC number	0.8372	1.0	0.5512	yes	N/A
P62750	RL23A_HUMAN	No assigned EC number	0.8372	1.0	0.5512	yes	N/A
P62751	RL23A_MOUSE	No assigned EC number	0.8372	1.0	0.5512	yes	N/A
P12732	RL23_HALMA	No assigned EC number	0.4285	0.9767	0.9882	yes	N/A
A9A9B6	RL23_METM6	No assigned EC number	0.5058	0.9883	0.9883	yes	N/A
Q97ZQ4	RL23_SULSO	No assigned EC number	0.4691	0.9418	1.0	yes	N/A
Q5JDH1	RL23_PYRKO	No assigned EC number	0.4823	0.9883	0.9883	yes	N/A
Q54BQ3	RL23A_DICDI	No assigned EC number	0.5813	1.0	0.5088	yes	N/A
A5UL87	RL23_METS3	No assigned EC number	0.4117	0.9883	0.9883	yes	N/A
A3DNA6	RL23_STAMF	No assigned EC number	0.4337	0.9651	0.9120	yes	N/A
A6VHD4	RL23_METM7	No assigned EC number	0.5058	0.9883	0.9883	yes	N/A
Q3IMY6	RL23_NATPD	No assigned EC number	0.4625	0.9302	0.9756	yes	N/A
Q24JY1	RL23A_BOVIN	No assigned EC number	0.8372	1.0	0.5512	yes	N/A
B6YSL5	RL23_THEON	No assigned EC number	0.4823	0.9883	0.9883	yes	N/A
O26112	RL23_METTH	No assigned EC number	0.3604	1.0	1.0	yes	N/A
O28356	RL23_ARCFU	No assigned EC number	0.425	0.9186	0.9518	yes	N/A
P04456	RL25_YEAST	No assigned EC number	0.6046	1.0	0.6056	yes	N/A
Q8U000	RL23_PYRFU	No assigned EC number	0.4705	0.9883	0.9883	yes	N/A
Q18GF1	RL23_HALWD	No assigned EC number	0.4320	0.9418	0.9642	yes	N/A
Q4JB42	RL23_SULAC	No assigned EC number	0.5061	0.9418	0.9878	yes	N/A
Q975I3	RL23_SULTO	No assigned EC number	0.5061	0.9418	0.9878	yes	N/A
Q9M3C3	R23A2_ARATH	No assigned EC number	0.7906	1.0	0.5584	yes	N/A
P48045	RL25_KLULA	No assigned EC number	0.6046	1.0	0.6056	yes	N/A
P54016	RL23_METJA	No assigned EC number	0.5176	0.9883	0.9883	yes	N/A
Q9YFM0	RL23_AERPE	No assigned EC number	0.5	0.8604	0.8604	yes	N/A
Q8TY92	RL23_METKA	No assigned EC number	0.5058	0.9883	0.8947	yes	N/A
A6UV66	RL23_META3	No assigned EC number	0.5058	0.9883	0.9883	yes	N/A
Q9V1T7	RL23_PYRAB	No assigned EC number	0.4352	0.9883	0.9883	yes	N/A
O74391	RL25B_SCHPO	No assigned EC number	0.6279	1.0	0.6099	yes	N/A
O74095	RL23_PYRHO	No assigned EC number	0.4470	0.9883	0.9883	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	86
PTZ00191	145	PTZ00191, PTZ00191, 60S ribosomal protein L23a; Pr	3e-41
PRK14548	84	PRK14548, PRK14548, 50S ribosomal protein L23P; Pr	3e-32
TIGR03636	77	TIGR03636, L23_arch, archaeal ribosomal protein L2	4e-29
COG0089	94	COG0089, RplW, Ribosomal protein L23 [Translation,	4e-23
PRK05738	92	PRK05738, rplW, 50S ribosomal protein L23; Reviewe	3e-17
pfam00276	90	pfam00276, Ribosomal_L23, Ribosomal protein L23	2e-14
PRK12280	158	PRK12280, rplW, 50S ribosomal protein L23; Reviewe	2e-08
CHL00030	93	CHL00030, rpl23, ribosomal protein L23	8e-08

>gnl|CDD|185507 PTZ00191, PTZ00191, 60S ribosomal protein L23a; Provisional

 Score =  131 bits (332), Expect = 3e-41
 Identities = 64/86 (74%), Positives = 73/86 (84%)

Query: 1   MDAFNIIKYPLTTESAMKKIEDNNTLVFIVHLQANKHHIKAAVKKMYDINVAKVNTLIRP 60
           +D ++IIKYPLTTE AMKKIEDNNTLVFIV  +ANK  IK AV+K+YD+ V KVNTLI P
Sbjct: 60  LDKYSIIKYPLTTEKAMKKIEDNNTLVFIVDQRANKTQIKKAVEKLYDVKVVKVNTLITP 119

Query: 61  DGKKKAYVRLARDYDALDVANKIGII 86
           DG KKAY+RL+ D DALDVANKIGII
Sbjct: 120 DGLKKAYIRLSPDVDALDVANKIGII 145

Length = 145

>gnl|CDD|237750 PRK14548, PRK14548, 50S ribosomal protein L23P; Provisional

 Score =  106 bits (268), Expect = 3e-32
 Identities = 45/84 (53%), Positives = 62/84 (73%)

Query: 3  AFNIIKYPLTTESAMKKIEDNNTLVFIVHLQANKHHIKAAVKKMYDINVAKVNTLIRPDG 62
           ++IIKYPL TE AM  IE  N L FIV  +A K  IK AV++++D+ V KVNTLI P G
Sbjct: 1  PYSIIKYPLVTEKAMNLIEKENKLTFIVDRRATKPDIKRAVEELFDVKVEKVNTLITPKG 60

Query: 63 KKKAYVRLARDYDALDVANKIGII 86
          +KKAYV+LA +YDA ++A+++G+ 
Sbjct: 61 EKKAYVKLAEEYDAEEIASRLGVF 84

Length = 84

>gnl|CDD|132675 TIGR03636, L23_arch, archaeal ribosomal protein L23

 Score = 98.8 bits (247), Expect = 4e-29
 Identities = 41/77 (53%), Positives = 55/77 (71%)

Query: 10 PLTTESAMKKIEDNNTLVFIVHLQANKHHIKAAVKKMYDINVAKVNTLIRPDGKKKAYVR 69
          PL TE AM  IE  N L FIV  +A K  IK AV+K++D+ V KVNTLI P G+KKAYV+
Sbjct: 1  PLVTEKAMNLIEKENKLTFIVDRKATKGDIKRAVEKLFDVKVEKVNTLITPRGEKKAYVK 60

Query: 70 LARDYDALDVANKIGII 86
          LA +Y A ++A+++G+ 
Sbjct: 61 LAEEYAAEEIASRLGVF 77

This model describes the archaeal ribosomal protein L23P and rigorously excludes the bacterial counterpart L23. In order to capture every known instance of archaeal L23P, the trusted cutoff is set lower than a few of the highest scoring eukaryotic cytosolic ribosomal counterparts [Protein synthesis, Ribosomal proteins: synthesis and modification]. Length = 77

>gnl|CDD|223167 COG0089, RplW, Ribosomal protein L23 [Translation, ribosomal structure and biogenesis]

 Score = 83.8 bits (208), Expect = 4e-23
 Identities = 35/86 (40%), Positives = 48/86 (55%), Gaps = 3/86 (3%)

Query: 3  AFNIIKYPLTTESAMKKIEDNNTLVFIVHLQANKHHIKAAVKKMYDINVAKVNTLIRPDG 62
           +++IK P+ TE AM  +E  N  VFIV   A K  IKAAV++++ + V KVNTL     
Sbjct: 1  LYDVIKSPVVTEKAMLLMEKENKYVFIVDPDATKPEIKAAVEELFGVKVEKVNTLNTKGK 60

Query: 63 KKKAYVR---LARDYDALDVANKIGI 85
           K+A V+   L +DY    V  K G 
Sbjct: 61 TKRAGVKRIGLRKDYKKAYVTLKEGQ 86

Length = 94

>gnl|CDD|235586 PRK05738, rplW, 50S ribosomal protein L23; Reviewed

 Score = 69.0 bits (170), Expect = 3e-17
 Identities = 31/82 (37%), Positives = 41/82 (50%), Gaps = 15/82 (18%)

Query: 4  FNIIKYPLTTESAMKKIEDNNTLVFIVHLQANKHHIKAAVKKMYDINVAKVNTLIRPDGK 63
          +++IK P+ TE +   +E  N  VF V   A K  IKAAV+K++ + V  VNTL    GK
Sbjct: 1  YDVIKRPVITEKSTLLMEKQNKYVFEVAPDATKPEIKAAVEKLFGVKVESVNTLNVK-GK 59

Query: 64 --------------KKAYVRLA 71
                        KKA V LA
Sbjct: 60 TKRFGRRIGKRSDWKKAIVTLA 81

Length = 92

>gnl|CDD|144021 pfam00276, Ribosomal_L23, Ribosomal protein L23

 Score = 62.0 bits (151), Expect = 2e-14
 Identities = 37/91 (40%), Positives = 48/91 (52%), Gaps = 14/91 (15%)

Query: 5  NIIKYPLTTESAMKKIEDNNTLVFIVHLQANKHHIKAAVKKMYDINVAKVNTLIRPDGK- 63
          ++IKYP+ TE AM  +E  N  VFIV  +ANK  IK AV+ ++ + V KVNTLI P    
Sbjct: 1  DVIKYPIITEKAMNLLEKPNQYVFIVDKKANKTEIKDAVEHIFGVKVEKVNTLILPGKVK 60

Query: 64 ------------KKAYVRLARDYDALDVANK 82
                      KKA V L    D L  A++
Sbjct: 61 RNGQYLGRKKSYKKAIVTLEEG-DILPFASR 90

Length = 90

>gnl|CDD|237035 PRK12280, rplW, 50S ribosomal protein L23; Reviewed

 Score = 47.8 bits (114), Expect = 2e-08
 Identities = 28/88 (31%), Positives = 39/88 (44%), Gaps = 14/88 (15%)

Query: 1  MDAFNIIKYPLTTESAMKKIEDNNTLVFIVHLQANKHHIKAAVKKMYDINVAKVNTLIRP 60
          M+   +IK P+ TE +   +  N    F V  +ANK  IK AV+ ++ + V KVN     
Sbjct: 1  MNINEVIKKPILTEKSYSLMSKN-VYTFKVDRRANKIEIKKAVEFIFKVKVLKVNIFNVD 59

Query: 61 -------------DGKKKAYVRLARDYD 75
                       +  KKAYV LA  Y 
Sbjct: 60 KKPKRLGRFPGFTNSYKKAYVTLAEGYS 87

Length = 158

>gnl|CDD|176971 CHL00030, rpl23, ribosomal protein L23

 Score = 44.9 bits (107), Expect = 8e-08
 Identities = 18/62 (29%), Positives = 32/62 (51%), Gaps = 2/62 (3%)

Query: 4  FNIIKYPLTTESAMKKIEDNNTLVFIVHLQANKHHIKAAVKKMYDINVAKVNTLIRPDGK 63
           + IKYP+ T+ +++ +E  N   F V   + K  IK  ++  + + V  VN+  R   K
Sbjct: 1  MDGIKYPVFTDKSIRLLE-KNQYTFDVDSGSTKTEIKHWIELFFGVKVIAVNSH-RLPRK 58

Query: 64 KK 65
          K+
Sbjct: 59 KR 60

Length = 93

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	86
PRK14548	84	50S ribosomal protein L23P; Provisional	100.0
PTZ00191	145	60S ribosomal protein L23a; Provisional	100.0
TIGR03636	77	L23_arch archaeal ribosomal protein L23. This mode	100.0
CHL00030	93	rpl23 ribosomal protein L23	99.98
PRK05738	92	rplW 50S ribosomal protein L23; Reviewed	99.97
PRK12280	158	rplW 50S ribosomal protein L23; Reviewed	99.97
COG0089	94	RplW Ribosomal protein L23 [Translation, ribosomal	99.97
PF00276	91	Ribosomal_L23: Ribosomal protein L23; InterPro: IP	99.97
KOG1751|consensus	157		99.94
KOG4089|consensus	165		98.05
PF08777	105	RRM_3: RNA binding motif; InterPro: IPR014886 This	90.57
PF14259	70	RRM_6: RNA recognition motif (a.k.a. RRM, RBD, or	88.79
PRK01178	99	rps24e 30S ribosomal protein S24e; Reviewed	85.99
PF00076	70	RRM_1: RNA recognition motif. (a.k.a. RRM, RBD, or	84.24
PF14560	87	Ubiquitin_2: Ubiquitin-like domain; PDB: 1WJN_A 2K	80.44

>PRK14548 50S ribosomal protein L23P; Provisional

Probab=100.00  E-value=2.1e-39  Score=207.91  Aligned_cols=84  Identities=54%  Similarity=0.896  Sum_probs=81.8

Q ss_pred             ccccccccccchhhhhhhhcCCEEEEEEeCCCCHHHHHHHHHHHhCCceeeEEEeeCCCCeeEEEEEcCCCCcHHHHHHh
Q psy6375           3 AFNIIKYPLTTESAMKKIEDNNTLVFIVHLQANKHHIKAAVKKMYDINVAKVNTLIRPDGKKKAYVRLARDYDALDVANK   82 (86)
Q Consensus         3 ~~~vi~~P~~TEKs~~l~e~~n~~~F~V~~~a~K~eIk~ave~lf~VkV~~VnT~~~~~~~KKA~VtL~~g~~a~d~a~~   82 (86)
                      ++++|++|++|||++.++|++|+|+|.|+++|||.|||+|||++|||+|.+|||++.++|||||||+|++|++|+|+|++
T Consensus         1 ~~~iI~~PviTEK~~~~~e~~n~y~F~V~~~anK~eIK~AvE~lf~VkV~~VnT~~~~~~~KKA~V~L~~g~~A~~va~k   80 (84)
T PRK14548          1 PYSIIKYPLVTEKAMNLIEKENKLTFIVDRRATKPDIKRAVEELFDVKVEKVNTLITPKGEKKAYVKLAEEYDAEEIASR   80 (84)
T ss_pred             CccchhccccCHHHHHHHHhCCEEEEEECCCCCHHHHHHHHHHHhCCceEEEEeEEcCCCcEEEEEEeCCCCcHHHHHHh
Confidence            47899999999999999998899999999999999999999999999999999999999999999999999999999999


Q ss_pred             hCCC
Q psy6375          83 IGII   86 (86)
Q Consensus        83 ~g~~   86 (86)
                      ||++
T Consensus        81 ig~~   84 (84)
T PRK14548         81 LGVF   84 (84)
T ss_pred             hccC
Confidence            9986

>PTZ00191 60S ribosomal protein L23a; Provisional

Probab=100.00  E-value=2.9e-38  Score=219.48  Aligned_cols=86  Identities=74%  Similarity=1.072  Sum_probs=84.5

Q ss_pred             CCccccccccccchhhhhhhhcCCEEEEEEeCCCCHHHHHHHHHHHhCCceeeEEEeeCCCCeeEEEEEcCCCCcHHHHH
Q psy6375           1 MDAFNIIKYPLTTESAMKKIEDNNTLVFIVHLQANKHHIKAAVKKMYDINVAKVNTLIRPDGKKKAYVRLARDYDALDVA   80 (86)
Q Consensus         1 m~~~~vi~~P~~TEKs~~l~e~~n~~~F~V~~~a~K~eIk~ave~lf~VkV~~VnT~~~~~~~KKA~VtL~~g~~a~d~a   80 (86)
                      ||.|++|++|++||||+.++|++|+|+|.||++|||.|||+|||++|||+|.+|||+++++|||||||+|++|++|+|+|
T Consensus        60 md~~~IIk~Pl~TEKa~~~~E~~N~yvF~Vd~kAnK~qIK~AVEklf~VkV~kVNTli~p~g~KKA~V~L~~~~~aidva  139 (145)
T PTZ00191         60 LDKYSIIKYPLTTEKAMKKIEDNNTLVFIVDQRANKTQIKKAVEKLYDVKVVKVNTLITPDGLKKAYIRLSPDVDALDVA  139 (145)
T ss_pred             CchhhhhhcccccHHHHHHHhhCCEEEEEEcCCCCHHHHHHHHHHHhCCeeEEEEeEEcCCCceEEEEEECCCCcHHHHH
Confidence            78999999999999999999988999999999999999999999999999999999999999999999999999999999


Q ss_pred             HhhCCC
Q psy6375          81 NKIGII   86 (86)
Q Consensus        81 ~~~g~~   86 (86)
                      ++||+|
T Consensus       140 ~kiGi~  145 (145)
T PTZ00191        140 NKIGII  145 (145)
T ss_pred             HhhccC
Confidence            999986

>TIGR03636 L23_arch archaeal ribosomal protein L23

Probab=100.00  E-value=5.8e-37  Score=193.82  Aligned_cols=77  Identities=53%  Similarity=0.850  Sum_probs=75.6

Q ss_pred             cccchhhhhhhhcCCEEEEEEeCCCCHHHHHHHHHHHhCCceeeEEEeeCCCCeeEEEEEcCCCCcHHHHHHhhCCC
Q psy6375          10 PLTTESAMKKIEDNNTLVFIVHLQANKHHIKAAVKKMYDINVAKVNTLIRPDGKKKAYVRLARDYDALDVANKIGII   86 (86)
Q Consensus        10 P~~TEKs~~l~e~~n~~~F~V~~~a~K~eIk~ave~lf~VkV~~VnT~~~~~~~KKA~VtL~~g~~a~d~a~~~g~~   86 (86)
                      |++||||+.++|+.|+|+|.|+++|||+|||+|||.+|||+|.+|||++.++|||||||+|++|++|+|+|++||++
T Consensus         1 P~iTEKs~~~~e~~n~y~F~V~~~anK~eIK~avE~lf~VkV~~Vnt~~~~~~~KKA~VtL~~g~~a~~va~k~g~~   77 (77)
T TIGR03636         1 PLVTEKAMNLIEKENKLTFIVDRKATKGDIKRAVEKLFDVKVEKVNTLITPRGEKKAYVKLAEEYAAEEIASRLGVF   77 (77)
T ss_pred             CcccHHHHHHHHhCCEEEEEECCCCCHHHHHHHHHHHhCCceEEEEeEEcCCCceEEEEEECCCCcHHHHHHhhccC
Confidence            89999999999988999999999999999999999999999999999999999999999999999999999999986

This model describes the archaeal ribosomal protein L23P and rigorously excludes the bacterial counterpart L23. In order to capture every known instance of archaeal L23P, the trusted cutoff is set lower than a few of the highest scoring eukaryotic cytosolic ribosomal counterparts.

>CHL00030 rpl23 ribosomal protein L23

Probab=99.98  E-value=2e-32  Score=178.34  Aligned_cols=77  Identities=25%  Similarity=0.420  Sum_probs=71.8

Q ss_pred             cccccccccchhhhhhhhcCCEEEEEEeCCCCHHHHHHHHHHHhCCceeeEEEeeCCCC-------------eeEEEEEc
Q psy6375           4 FNIIKYPLTTESAMKKIEDNNTLVFIVHLQANKHHIKAAVKKMYDINVAKVNTLIRPDG-------------KKKAYVRL   70 (86)
Q Consensus         4 ~~vi~~P~~TEKs~~l~e~~n~~~F~V~~~a~K~eIk~ave~lf~VkV~~VnT~~~~~~-------------~KKA~VtL   70 (86)
                      +++|++|++||||+.++| +|+|+|.|+++|||+|||+|||.+|||+|.+|||++.+++             ||||||+|
T Consensus         1 ~~iI~~PivTEKs~~l~e-~n~y~F~V~~~anK~eIK~avE~lf~VkV~~VNt~~~~~k~kr~~~~~G~~~~~KKAiVtL   79 (93)
T CHL00030          1 MDGIKYPVFTDKSIRLLE-KNQYTFDVDSGSTKTEIKHWIELFFGVKVIAVNSHRLPRKKRRMGPIMGHKMHYKRMIITL   79 (93)
T ss_pred             CceeccceeCHHHHHhhH-CCEEEEEECCCCCHHHHHHHHHHHhCCeEEEEEEEEcCCCccccCCcccccCCcEEEEEEc
Confidence            469999999999999997 5999999999999999999999999999999999998863             99999999


Q ss_pred             CCCCcHHHHHHh
Q psy6375          71 ARDYDALDVANK   82 (86)
Q Consensus        71 ~~g~~a~d~a~~   82 (86)
                      ++|++ ||+++.
T Consensus        80 ~~g~~-I~~~~~   90 (93)
T CHL00030         80 QPGYS-IPLFRE   90 (93)
T ss_pred             CCcCE-eccccc
Confidence            99987 998764

>PRK05738 rplW 50S ribosomal protein L23; Reviewed

Probab=99.97  E-value=2.7e-32  Score=176.90  Aligned_cols=77  Identities=39%  Similarity=0.503  Sum_probs=73.0

Q ss_pred             cccccccccchhhhhhhhcCCEEEEEEeCCCCHHHHHHHHHHHhCCceeeEEEeeCC-------------CCeeEEEEEc
Q psy6375           4 FNIIKYPLTTESAMKKIEDNNTLVFIVHLQANKHHIKAAVKKMYDINVAKVNTLIRP-------------DGKKKAYVRL   70 (86)
Q Consensus         4 ~~vi~~P~~TEKs~~l~e~~n~~~F~V~~~a~K~eIk~ave~lf~VkV~~VnT~~~~-------------~~~KKA~VtL   70 (86)
                      +++|++|++||||+.++|++|+|+|.|+++|||+|||+|||++|||+|.+|||++.+             .+||||||+|
T Consensus         1 ~~ii~~P~~TEKs~~~~e~~n~~~F~V~~~a~K~eIK~aie~lf~VkV~~VnT~~~~gk~kr~~~~~g~~~~~KKA~VtL   80 (92)
T PRK05738          1 YDVIKRPVITEKSTLLMEKQNKYVFEVAPDATKPEIKAAVEKLFGVKVESVNTLNVKGKTKRFGRRIGKRSDWKKAIVTL   80 (92)
T ss_pred             CccccccccCHHHHHhHHhCCEEEEEECCCCCHHHHHHHHHHHcCCceeEEEEEEeCCceeeecccccccCCcEEEEEEc
Confidence            469999999999999999789999999999999999999999999999999999998             5899999999


Q ss_pred             CCCCcHHHHHH
Q psy6375          71 ARDYDALDVAN   81 (86)
Q Consensus        71 ~~g~~a~d~a~   81 (86)
                      ++|++ +|+++
T Consensus        81 ~~g~~-i~~~~   90 (92)
T PRK05738         81 AEGQK-IDFFG   90 (92)
T ss_pred             CCCCE-Eeccc
Confidence            99988 88875

>PRK12280 rplW 50S ribosomal protein L23; Reviewed

Probab=99.97  E-value=2.4e-31  Score=187.04  Aligned_cols=80  Identities=35%  Similarity=0.493  Sum_probs=75.6

Q ss_pred             CCccccccccccchhhhhhhhcCCEEEEEEeCCCCHHHHHHHHHHHhCCceeeEEEeeCCC-------------CeeEEE
Q psy6375           1 MDAFNIIKYPLTTESAMKKIEDNNTLVFIVHLQANKHHIKAAVKKMYDINVAKVNTLIRPD-------------GKKKAY   67 (86)
Q Consensus         1 m~~~~vi~~P~~TEKs~~l~e~~n~~~F~V~~~a~K~eIk~ave~lf~VkV~~VnT~~~~~-------------~~KKA~   67 (86)
                      ||++++|++|++||||+.++++ |+|+|.|+++|||+|||+|||.+|||+|.+|||+++++             +|||||
T Consensus         1 Md~~~iIk~PviTEKs~~l~e~-N~ytF~V~~~anK~eIK~AVE~iF~VkV~~VNT~~~~~K~KR~g~~~G~~~~~KKAi   79 (158)
T PRK12280          1 MNINEVIKKPILTEKSYSLMSK-NVYTFKVDRRANKIEIKKAVEFIFKVKVLKVNIFNVDKKPKRLGRFPGFTNSYKKAY   79 (158)
T ss_pred             CChHhhhhccccCHHHHhhhhC-CEEEEEECCCCCHHHHHHHHHHHhCCceEEEEeEecCCcccccCCcccccCCcEEEE
Confidence            8999999999999999999985 99999999999999999999999999999999999885             799999


Q ss_pred             EEcCCCCcHHHHHHh
Q psy6375          68 VRLARDYDALDVANK   82 (86)
Q Consensus        68 VtL~~g~~a~d~a~~   82 (86)
                      |+|++|+. |||++.
T Consensus        80 VtL~~g~~-I~~f~~   93 (158)
T PRK12280         80 VTLAEGYS-INLFPE   93 (158)
T ss_pred             EECCCCCE-eeccCC
Confidence            99999987 888753

>COG0089 RplW Ribosomal protein L23 [Translation, ribosomal structure and biogenesis]

Probab=99.97  E-value=3.6e-31  Score=172.84  Aligned_cols=78  Identities=42%  Similarity=0.595  Sum_probs=71.8

Q ss_pred             ccccccccccchhhhhhhhcCCEEEEEEeCCCCHHHHHHHHHHHhCCceeeEEEeeCCC--------------CeeEEEE
Q psy6375           3 AFNIIKYPLTTESAMKKIEDNNTLVFIVHLQANKHHIKAAVKKMYDINVAKVNTLIRPD--------------GKKKAYV   68 (86)
Q Consensus         3 ~~~vi~~P~~TEKs~~l~e~~n~~~F~V~~~a~K~eIk~ave~lf~VkV~~VnT~~~~~--------------~~KKA~V   68 (86)
                      ++++|++|++||||+.++|++|+|+|.|+++|||+|||+|||++|||+|.+|||+++++              +||||||
T Consensus         1 ~~dvI~~PvvTEKa~~l~~~~nk~vF~V~~~AtK~~IK~AvE~lF~VkV~kVNTl~~k~k~KR~~~k~~G~~~~~kka~V   80 (94)
T COG0089           1 LYDVIKSPVVTEKAMLLMEKENKYVFIVDPDATKPEIKAAVEELFGVKVEKVNTLNTKGKTKRAGVKRIGLRKDYKKAYV   80 (94)
T ss_pred             CcchhhcceecHHHHHhHhhCCEEEEEECCCCCHHHHHHHHHHHhCCeEEEEEEEEeCCcceEEeccccccCcccceeEE
Confidence            57899999999999999987799999999999999999999999999999999999875              5899999


Q ss_pred             EcCCCCcHHHHHH
Q psy6375          69 RLARDYDALDVAN   81 (86)
Q Consensus        69 tL~~g~~a~d~a~   81 (86)
                      +|++|+. ||++.
T Consensus        81 ~l~~G~~-i~~~~   92 (94)
T COG0089          81 TLKEGQS-IDFFG   92 (94)
T ss_pred             EccCCCE-Eeecc
Confidence            9999987 77664

>PF00276 Ribosomal_L23: Ribosomal protein L23; InterPro: IPR013025 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms

Probab=99.97  E-value=2.4e-30  Score=167.09  Aligned_cols=78  Identities=38%  Similarity=0.560  Sum_probs=71.0

Q ss_pred             cccccccccchhhhhhhhcCCEEEEEEeCCCCHHHHHHHHHHHhCCceeeEEEeeCCC-------------CeeEEEEEc
Q psy6375           4 FNIIKYPLTTESAMKKIEDNNTLVFIVHLQANKHHIKAAVKKMYDINVAKVNTLIRPD-------------GKKKAYVRL   70 (86)
Q Consensus         4 ~~vi~~P~~TEKs~~l~e~~n~~~F~V~~~a~K~eIk~ave~lf~VkV~~VnT~~~~~-------------~~KKA~VtL   70 (86)
                      |++|++|++||||+.++|+.|+|+|.|+++|||+|||+|||++|||+|.+|||+++++             +||||||+|
T Consensus         1 ~~ii~~p~iTeKs~~~~~~~n~~tF~V~~~atK~~Ik~aie~iy~V~V~~Vnt~~~~gk~kR~g~~~g~~~~~KKaiVtL   80 (91)
T PF00276_consen    1 YDIIKKPVITEKSMKLLENPNQYTFEVDPRATKTEIKEAIEKIYGVKVKKVNTMNYPGKKKRKGKFVGKTKDYKKAIVTL   80 (91)
T ss_dssp             TTTEEEE--SHHHHHHHHHSSEEEEEETTTSTHHHHHHHHHHHHTSEEEEEEEEEETSEEEESSSCEEEE-EEEEEEEEE
T ss_pred             CCEeecceecHhHHHhhhcCCEEEEEEeCCCCHHHHHHHHHhhcCCCeeEEEEeEeCCCceEeCCccccCCCcEEEEEEe
Confidence            5799999999999999998899999999999999999999999999999999999883             589999999


Q ss_pred             CCCCcHHHHHHh
Q psy6375          71 ARDYDALDVANK   82 (86)
Q Consensus        71 ~~g~~a~d~a~~   82 (86)
                      ++|+. ++++++
T Consensus        81 ~~~~~-i~~~~~   91 (91)
T PF00276_consen   81 KEGDK-IPLFEE   91 (91)
T ss_dssp             STTSC-HHHHHT
T ss_pred             CCCCc-cccccC
Confidence            99955 999874

The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. This domain is found in both eukaryotic L25 and prokaryotic and eukaryotic L23 proteins.; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0005622 intracellular, 0005840 ribosome; PDB: 3DF4_T 3DF2_T 4A1E_R 4A1A_R 4A1C_R 4A17_R 2HGU_W 2HGQ_W 1N88_A 2HGJ_W ....

>KOG1751|consensus

Probab=99.94  E-value=1.9e-27  Score=166.95  Aligned_cols=86  Identities=83%  Similarity=1.167  Sum_probs=82.2

Q ss_pred             CCcccc-ccccccchhhhhhhhcCCEEEEEEeCCCCHHHHHHHHHHHhCCceeeEEEeeCCCCeeEEEEEcCCCCcHHHH
Q psy6375           1 MDAFNI-IKYPLTTESAMKKIEDNNTLVFIVHLQANKHHIKAAVKKMYDINVAKVNTLIRPDGKKKAYVRLARDYDALDV   79 (86)
Q Consensus         1 m~~~~v-i~~P~~TEKs~~l~e~~n~~~F~V~~~a~K~eIk~ave~lf~VkV~~VnT~~~~~~~KKA~VtL~~g~~a~d~   79 (86)
                      +|.|.+ |+.|+.||++|+-+|++|+++|.||.+|||.|||+||.+||++.|.+|||++.|+|.|||||+|+++++|+|+
T Consensus        71 ld~y~~iik~plTtEsamKk~ednNtlvf~vd~kankhqiKqAVkkLyd~dvakvntli~p~g~kkayv~la~dydaldv  150 (157)
T KOG1751|consen   71 LDHYAIIIKFPLTTESAMKKIEDNNTLVFIVDSKANKHQIKQAVKKLYDTDVAKVNTLIRPDGEKKAYVRLAPDYDALDV  150 (157)
T ss_pred             chhhhhHhccccchhhhhcchhhCceeEEEEecccchHHHHHHHHHHhccchhhheeeecCCCceeEEEecCCchhHHHH
Confidence            356555 8999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHhhCCC
Q psy6375          80 ANKIGII   86 (86)
Q Consensus        80 a~~~g~~   86 (86)
                      |+++|+|
T Consensus       151 ankig~i  157 (157)
T KOG1751|consen  151 ANKIGII  157 (157)
T ss_pred             hcccccC
Confidence            9999986

>KOG4089|consensus

Probab=98.05  E-value=6.5e-06  Score=58.61  Aligned_cols=53  Identities=25%  Similarity=0.402  Sum_probs=46.4

Q ss_pred             CCEEEEEEeCCCCHHHHHHHHHHHhCCceeeEEEeeCCC--------------------CeeEEEEEcCCCCc
Q psy6375          23 NNTLVFIVHLQANKHHIKAAVKKMYDINVAKVNTLIRPD--------------------GKKKAYVRLARDYD   75 (86)
Q Consensus        23 ~n~~~F~V~~~a~K~eIk~ave~lf~VkV~~VnT~~~~~--------------------~~KKA~VtL~~g~~   75 (86)
                      .++..|.|++.+||.|++++++.+||.+|.+|.|.+.++                    +++-|||.++.|.+
T Consensus        37 p~~~~FrVp~~m~k~DvR~YL~~iY~l~v~~vrtrl~~Gk~~~~~k~r~~~~k~i~kdmd~p~~Yv~~pr~~~  109 (165)
T KOG4089|consen   37 PKIVKFRVPMSMNKFDVRDYLTHIYDLPVVDVRTRLQHGKDYKKTKKRLQSPKRIKKDMDEPVAYVEEPRGSK  109 (165)
T ss_pred             CceEEEEcchhhccccHHHHHHHhcCCceeeeeeeeeechhhhcceecccccceeecccccceeeecCCCCcc
Confidence            579999999999999999999999999999999998775                    46777887776653

>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=90.57  E-value=1.1  Score=29.28  Aligned_cols=53  Identities=26%  Similarity=0.360  Sum_probs=30.5

Q ss_pred             EEEE-EeCCCCHHHHHHHHHHHhCCceeeEEEeeCCCCeeEEEEEcCCCCcHHHHHHhh
Q psy6375          26 LVFI-VHLQANKHHIKAAVKKMYDINVAKVNTLIRPDGKKKAYVRLARDYDALDVANKI   83 (86)
Q Consensus        26 ~~F~-V~~~a~K~eIk~ave~lf~VkV~~VnT~~~~~~~KKA~VtL~~g~~a~d~a~~~   83 (86)
                      +.|. ++...++.+||.+|.. || .|.-|   -...|-+.+||++.....|..+..++
T Consensus         4 l~~~g~~~~~~re~iK~~f~~-~g-~V~yV---D~~~G~~~g~VRf~~~~~A~~a~~~~   57 (105)
T PF08777_consen    4 LKFSGLGEPTSREDIKEAFSQ-FG-EVAYV---DFSRGDTEGYVRFKTPEAAQKALEKL   57 (105)
T ss_dssp             EEEEE--SS--HHHHHHHT-S-S---EEEE---E--TT-SEEEEEESS---HHHHHHHH
T ss_pred             EEEecCCCCcCHHHHHHHHHh-cC-CcceE---EecCCCCEEEEEECCcchHHHHHHHH
Confidence            4466 7889999999999998 66 45444   44567799999999998777666543

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

>PF14259 RRM_6: RNA recognition motif (a

Probab=88.79  E-value=0.7  Score=26.48  Aligned_cols=54  Identities=15%  Similarity=0.237  Sum_probs=40.3

Q ss_pred             EEeCCCCHHHHHHHHHHHhCCceeeEEEeeCCC--CeeEEEEEcCCCCcHHHHHHhhC
Q psy6375          29 IVHLQANKHHIKAAVKKMYDINVAKVNTLIRPD--GKKKAYVRLARDYDALDVANKIG   84 (86)
Q Consensus        29 ~V~~~a~K~eIk~ave~lf~VkV~~VnT~~~~~--~~KKA~VtL~~g~~a~d~a~~~g   84 (86)
                      .++++++..+|++.++.. | .|..|.....+.  ...-|+|+++...+|.......+
T Consensus         5 nlp~~~~~~~l~~~f~~~-g-~v~~v~~~~~~~~~~~~~a~v~f~~~~~a~~al~~~~   60 (70)
T PF14259_consen    5 NLPPSTTEEDLRNFFSRF-G-PVEKVRLIKNKDGQSRGFAFVEFSSEEDAKRALELLN   60 (70)
T ss_dssp             SSTTT--HHHHHHHCTTS-S-BEEEEEEEESTTSSEEEEEEEEESSHHHHHHHHHHHT
T ss_pred             CCCCCCCHHHHHHHHHhc-C-CcceEEEEeeeccccCCEEEEEeCCHHHHHHHHHHCC
Confidence            357789999999999884 5 588888876543  46899999998888877766554

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 ....

>PRK01178 rps24e 30S ribosomal protein S24e; Reviewed

Probab=85.99  E-value=1.4  Score=29.00  Aligned_cols=45  Identities=9%  Similarity=0.188  Sum_probs=36.3

Q ss_pred             ccchhhhhhhhcCCEEEEEEe----CCCCHHHHHHHHHHHhCCceeeEEE
Q psy6375          11 LTTESAMKKIEDNNTLVFIVH----LQANKHHIKAAVKKMYDINVAKVNT   56 (86)
Q Consensus        11 ~~TEKs~~l~e~~n~~~F~V~----~~a~K~eIk~ave~lf~VkV~~VnT   56 (86)
                      ++.++...|+.. .++.|.|.    +..+|.||+..+-++|+.++.-|=.
T Consensus         5 I~~~~~N~LL~R-ke~~~~v~h~g~~tpsr~eirekLa~~~~~~~~~vvv   53 (99)
T PRK01178          5 IISDKENPLLGR-REIKFEVYHEGSATPSRKDVRKKLAAMLNADKELVVV   53 (99)
T ss_pred             EEEeeecCCcCc-EEEEEEEEeCCCCCCCHHHHHHHHHHHHCcCCCEEEE
Confidence            567788888865 79999885    5679999999999999988766533

>PF00076 RRM_1: RNA recognition motif

Probab=84.24  E-value=3.2  Score=23.07  Aligned_cols=54  Identities=9%  Similarity=0.153  Sum_probs=38.2

Q ss_pred             EEEeCCCCHHHHHHHHHHHhCCceeeEEEeeC--CCCeeEEEEEcCCCCcHHHHHHhh
Q psy6375          28 FIVHLQANKHHIKAAVKKMYDINVAKVNTLIR--PDGKKKAYVRLARDYDALDVANKI   83 (86)
Q Consensus        28 F~V~~~a~K~eIk~ave~lf~VkV~~VnT~~~--~~~~KKA~VtL~~g~~a~d~a~~~   83 (86)
                      =.++++++..+|+++++. ||-- ..+.....  .....-|+|++....+|......+
T Consensus         4 ~nlp~~~t~~~l~~~f~~-~g~i-~~~~~~~~~~~~~~~~a~V~F~~~~~a~~a~~~l   59 (70)
T PF00076_consen    4 GNLPPDVTEEELRDFFSQ-FGKI-ESIKVMRNSSGKSKGYAFVEFESEEDAEKALEEL   59 (70)
T ss_dssp             ESETTTSSHHHHHHHHHT-TSTE-EEEEEEEETTSSEEEEEEEEESSHHHHHHHHHHH
T ss_pred             cCCCCcCCHHHHHHHHHH-hhhc-ccccccccccccccceEEEEEcCHHHHHHHHHHc
Confidence            346889999999999999 6543 45544442  234567999999887776665544

(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 ....

>PF14560 Ubiquitin_2: Ubiquitin-like domain; PDB: 1WJN_A 2KJ6_A 2KJR_A 1V6E_A 1T0Y_A

Probab=80.44  E-value=3  Score=25.65  Aligned_cols=52  Identities=12%  Similarity=0.123  Sum_probs=38.0

Q ss_pred             CEEEEEEeCCCCHHHHHHHHHHHhCCceeeEEEeeCCCCeeEEEEEcCCCCc
Q psy6375          24 NTLVFIVHLQANKHHIKAAVKKMYDINVAKVNTLIRPDGKKKAYVRLARDYD   75 (86)
Q Consensus        24 n~~~F~V~~~a~K~eIk~ave~lf~VkV~~VnT~~~~~~~KKA~VtL~~g~~   75 (86)
                      ....-+++++.|=.|+|+-++.+||+++...+.......--..+..+..+..
T Consensus        14 ~~~ekr~~~~~Tv~eLK~kl~~~~Gi~~~~m~L~l~~~~~~~~~~~~~dd~~   65 (87)
T PF14560_consen   14 RSVEKRFPKSITVSELKQKLEKLTGIPPSDMRLQLKSDKDDSKIEELDDDDA   65 (87)
T ss_dssp             SEEEEEEETTSBHHHHHHHHHHHHTS-TTTEEEEEE-TSSSSEEEESSGSSS
T ss_pred             eeEEEEcCCCCCHHHHHHHHHHHhCCCcccEEEEEEecCCCccccccCCCcc
Confidence            3666889999999999999999999999999998873222244455544433

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	86
2zkr_s	156	Structure Of A Mammalian Ribosomal 60s Subunit With		8e-36
3izr_X	152	Localization Of The Large Subunit Ribosomal Protein		4e-29
2go5_4	152	Structure Of Signal Recognition Particle Receptor (		6e-29
3zf7_X	164	High-resolution Cryo-electron Microscopy Structure		6e-29
2ww9_K	142	Cryo-Em Structure Of The Active Yeast Ssh1 Complex		1e-27
1s1i_T	83	Structure Of The Ribosomal 80s-Eef2-Sordarin Comple		2e-26
3jyw_T	80	Structure Of The 60s Proteins For Eukaryotic Riboso		3e-25
4a17_R	150	T.Thermophila 60s Ribosomal Subunit In Complex With		3e-21
3bbo_V	198	Homology Model For The Spinach Chloroplast 50s Subu		6e-19
3j21_T	86	Promiscuous Behavior Of Proteins In Archaeal Riboso		5e-17
1ffk_P	84	Crystal Structure Of The Large Ribosomal Subunit Fr		4e-14
1s72_S	85	Refined Crystal Structure Of The Haloarcula Marismo		4e-14
3g4s_S	81	Co-Crystal Structure Of Tiamulin Bound To The Large		7e-13
1p85_R	100	Real Space Refined Coordinates Of The 50s Subunit F		4e-06
2gya_R	92	Structure Of The 50s Subunit Of A Pre-Translocation		4e-06
2j28_T	99	Model Of E. Coli Srp Bound To 70s Rncs Length = 99		5e-06
3fik_T	93	Ternary Complex-Bound E.Coli 70s Ribosome. This Ent		5e-06

>pdb|2ZKR|SS Chain s, Structure Of A Mammalian Ribosomal 60s Subunit Within An 80s Complex Obtained By Docking Homology Models Of The Rna And Proteins Into An 8.7 A Cryo-Em Map Length = 156

Iteration: 1
 Score =  145 bits (365), Expect = 8e-36,   Method: Compositional matrix adjust.
 Identities = 72/86 (83%), Positives = 80/86 (93%)
Query: 1   MDAFNIIKYPLTTESAMKKIEDNNTLVFIVHLQANKHHIKAAVKKMYDINVAKVNTLIRP 60
           +D + IIK+PLTTESAMKKIEDNNTLVFIV ++ANKH IK AVKK+YDI+VAKVNTLIRP
Sbjct: 71  LDHYAIIKFPLTTESAMKKIEDNNTLVFIVDVKANKHQIKQAVKKLYDIDVAKVNTLIRP 130
Query: 61  DGKKKAYVRLARDYDALDVANKIGII 86
           DG+KKAYVRLA DYDALDVANKIGII
Sbjct: 131 DGEKKAYVRLAPDYDALDVANKIGII 156

>pdb|3IZR|X Chain X, Localization Of The Large Subunit Ribosomal Proteins Into A 5.5 A Cryo-Em Map Of Triticum Aestivum Translating 80s Ribosome Length = 152

Iteration: 1
 Score =  122 bits (307), Expect = 4e-29,   Method: Compositional matrix adjust.
 Identities = 70/86 (81%), Positives = 76/86 (88%)
Query: 1   MDAFNIIKYPLTTESAMKKIEDNNTLVFIVHLQANKHHIKAAVKKMYDINVAKVNTLIRP 60
           +D + I+KYPLTTESAMKKIEDNNTLVFIV L+A+K  IKAAVKKMYDI   KVNTLIRP
Sbjct: 67  LDQYQILKYPLTTESAMKKIEDNNTLVFIVDLKADKKKIKAAVKKMYDIQAKKVNTLIRP 126
Query: 61  DGKKKAYVRLARDYDALDVANKIGII 86
           DGKKKAYV+L  DYDALDVANKIGII
Sbjct: 127 DGKKKAYVKLTPDYDALDVANKIGII 152

>pdb|2GO5|4 Chain 4, Structure Of Signal Recognition Particle Receptor (Sr) In Complex With Signal Recognition Particle (Srp) And Ribosome Nascent Chain Complex Length = 152

Iteration: 1
 Score =  122 bits (305), Expect = 6e-29,   Method: Compositional matrix adjust.
 Identities = 70/86 (81%), Positives = 76/86 (88%)
Query: 1   MDAFNIIKYPLTTESAMKKIEDNNTLVFIVHLQANKHHIKAAVKKMYDINVAKVNTLIRP 60
           +D + I+KYPLTTESAMKKIEDNNTLVFIV L+A+K  IKAAVKKMYDI   KVNTLIRP
Sbjct: 67  LDQYQILKYPLTTESAMKKIEDNNTLVFIVDLKADKKKIKAAVKKMYDIQAKKVNTLIRP 126
Query: 61  DGKKKAYVRLARDYDALDVANKIGII 86
           DGKKKAYV+L  DYDALDVANKIGII
Sbjct: 127 DGKKKAYVKLTPDYDALDVANKIGII 152

>pdb|3ZF7|X Chain X, High-resolution Cryo-electron Microscopy Structure Of The Trypanosoma Brucei Ribosome Length = 164

Iteration: 1
 Score =  122 bits (305), Expect = 6e-29,   Method: Compositional matrix adjust.
 Identities = 56/86 (65%), Positives = 69/86 (80%)
Query: 1   MDAFNIIKYPLTTESAMKKIEDNNTLVFIVHLQANKHHIKAAVKKMYDINVAKVNTLIRP 60
            DAF II+YPLTT+ AMKKIE+NNTL FIV  +ANK  IK A++K+Y +   KVNTLIRP
Sbjct: 79  WDAFRIIRYPLTTDKAMKKIEENNTLTFIVDSRANKTEIKKAIRKLYQVKTVKVNTLIRP 138
Query: 61  DGKKKAYVRLARDYDALDVANKIGII 86
           DG KKAY+RL+  YDALD ANK+G++
Sbjct: 139 DGLKKAYIRLSASYDALDTANKMGLV 164

>pdb|2WW9|K Chain K, Cryo-Em Structure Of The Active Yeast Ssh1 Complex Bound To The Yeast 80s Ribosome Length = 142

Iteration: 1
 Score =  117 bits (294), Expect = 1e-27,   Method: Compositional matrix adjust.
 Identities = 52/86 (60%), Positives = 73/86 (84%)
Query: 1   MDAFNIIKYPLTTESAMKKIEDNNTLVFIVHLQANKHHIKAAVKKMYDINVAKVNTLIRP 60
           +D++ +I+ P+T+E+AMKK+ED N LVF V ++ANK+ IK AVK++Y+++V KVNTL+RP
Sbjct: 57  LDSYKVIEQPITSETAMKKVEDGNILVFQVSMKANKYQIKKAVKELYEVDVLKVNTLVRP 116
Query: 61  DGKKKAYVRLARDYDALDVANKIGII 86
           +G KKAYVRL  DYDALD+AN+IG I
Sbjct: 117 NGTKKAYVRLTADYDALDIANRIGYI 142

>pdb|1S1I|T Chain T, Structure Of The Ribosomal 80s-Eef2-Sordarin Complex From Yeast Obtained By Docking Atomic Models For Rna And Protein Components Into A 11.7 A Cryo-Em Map. This File, 1s1i, Contains 60s Subunit. The 40s Ribosomal Subunit Is In File 1s1h Length = 83

Iteration: 1
 Score =  113 bits (283), Expect = 2e-26,   Method: Compositional matrix adjust.
 Identities = 51/83 (61%), Positives = 70/83 (84%)
Query: 4  FNIIKYPLTTESAMKKIEDNNTLVFIVHLQANKHHIKAAVKKMYDINVAKVNTLIRPDGK 63
          + +I+ P+T+E+AMKK+ED N LVF V ++ANK+ IK AVK++Y+++V KVNTL+RP+G 
Sbjct: 1  YKVIEQPITSETAMKKVEDGNILVFQVSMKANKYQIKKAVKELYEVDVLKVNTLVRPNGT 60
Query: 64 KKAYVRLARDYDALDVANKIGII 86
          KKAYVRL  DYDALD+AN+IG I
Sbjct: 61 KKAYVRLTADYDALDIANRIGYI 83

>pdb|3JYW|T Chain T, Structure Of The 60s Proteins For Eukaryotic Ribosome Based On Cryo-Em Map Of Thermomyces Lanuginosus Ribosome At 8.9a Resolution Length = 80

Iteration: 1
 Score =  110 bits (274), Expect = 3e-25,   Method: Compositional matrix adjust.
 Identities = 49/80 (61%), Positives = 68/80 (85%)
Query: 4  FNIIKYPLTTESAMKKIEDNNTLVFIVHLQANKHHIKAAVKKMYDINVAKVNTLIRPDGK 63
          + +I+ P+T+E+AMKK+ED N LVF V ++ANK+ IK AVK++Y+++V KVNTL+RP+G 
Sbjct: 1  YKVIEQPITSETAMKKVEDGNILVFQVSMKANKYQIKKAVKELYEVDVLKVNTLVRPNGT 60
Query: 64 KKAYVRLARDYDALDVANKI 83
          KKAYVRL  DYDALD+AN+I
Sbjct: 61 KKAYVRLTADYDALDIANRI 80

>pdb|4A17|R Chain R, T.Thermophila 60s Ribosomal Subunit In Complex With Initiation Factor 6. This File Contains 5s Rrna, 5.8s Rrna And Proteins Of Molecule 2. Length = 150

Iteration: 1
 Score = 96.7 bits (239), Expect = 3e-21,   Method: Compositional matrix adjust.
 Identities = 47/86 (54%), Positives = 64/86 (74%)
Query: 1   MDAFNIIKYPLTTESAMKKIEDNNTLVFIVHLQANKHHIKAAVKKMYDINVAKVNTLIRP 60
           +D  +++K PLTTE AMKK+ED NT+VF VH ++ K  IK+A +K+Y++ V  VNTL   
Sbjct: 65  LDNHSVVKTPLTTEKAMKKMEDENTMVFYVHNRSTKPQIKSAFEKLYNVKVRSVNTLNTI 124
Query: 61  DGKKKAYVRLARDYDALDVANKIGII 86
            G KKAY+RLA D D+L +ANKIG+I
Sbjct: 125 TGNKKAYIRLAADSDSLTLANKIGLI 150

>pdb|3BBO|V Chain V, Homology Model For The Spinach Chloroplast 50s Subunit Fitted To 9.4a Cryo-Em Map Of The 70s Chlororibosome Length = 198

Iteration: 1
 Score = 89.0 bits (219), Expect = 6e-19,   Method: Compositional matrix adjust.
 Identities = 40/86 (46%), Positives = 62/86 (72%)
Query: 1   MDAFNIIKYPLTTESAMKKIEDNNTLVFIVHLQANKHHIKAAVKKMYDINVAKVNTLIRP 60
           +D + I++ P+ TE+A+K I D N+L+F V ++A+K  I+ A+   + + V KVNTLIRP
Sbjct: 109 LDVYQILQSPIITEAAIKNIADENSLLFTVDVRADKKMIREAISNFFGVKVRKVNTLIRP 168
Query: 61  DGKKKAYVRLARDYDALDVANKIGII 86
           DG KKAY+ L ++Y+A ++A KIGI 
Sbjct: 169 DGTKKAYIMLNKEYNASELAKKIGIF 194

>pdb|3J21|T Chain T, Promiscuous Behavior Of Proteins In Archaeal Ribosomes Revealed By Cryo-em: Implications For Evolution Of Eukaryotic Ribosomes (50s Ribosomal Proteins) Length = 86

Iteration: 1
 Score = 82.8 bits (203), Expect = 5e-17,   Method: Compositional matrix adjust.
 Identities = 40/85 (47%), Positives = 58/85 (68%)
Query: 1  MDAFNIIKYPLTTESAMKKIEDNNTLVFIVHLQANKHHIKAAVKKMYDINVAKVNTLIRP 60
          MD + +I  P+ TE A+  IE  N L FIV  +A K  IK AV++++++ V KVNTLI P
Sbjct: 1  MDPYKVIIRPVVTEKAISLIEKENKLTFIVDRRATKQDIKRAVEEIFNVKVEKVNTLITP 60
Query: 61 DGKKKAYVRLARDYDALDVANKIGI 85
           G+KKAYV+L  +Y A +VA ++G+
Sbjct: 61 RGEKKAYVKLKPEYSASEVAARLGL 85

>pdb|1FFK|P Chain P, Crystal Structure Of The Large Ribosomal Subunit From Haloarcula Marismortui At 2.4 Angstrom Resolution Length = 84

Iteration: 1
 Score = 73.2 bits (178), Expect = 4e-14,   Method: Compositional matrix adjust.
 Identities = 36/84 (42%), Positives = 56/84 (66%)
Query: 3  AFNIIKYPLTTESAMKKIEDNNTLVFIVHLQANKHHIKAAVKKMYDINVAKVNTLIRPDG 62
          ++++IK+P  TE AM  ++  N L F V  +A+K  +  AV++ YD+ V +VNT    DG
Sbjct: 1  SWDVIKHPHVTEKAMNDMDFQNKLQFAVDDRASKGEVADAVEEQYDVTVEQVNTQNTMDG 60
Query: 63 KKKAYVRLARDYDALDVANKIGII 86
          +KKA VRL+ D DA +VA++IG+ 
Sbjct: 61 EKKAVVRLSEDDDAQEVASRIGVF 84

>pdb|1S72|S Chain S, Refined Crystal Structure Of The Haloarcula Marismortui Large Ribosomal Subunit At 2.4 Angstrom Resolution Length = 85

Iteration: 1
 Score = 73.2 bits (178), Expect = 4e-14,   Method: Compositional matrix adjust.
 Identities = 36/84 (42%), Positives = 56/84 (66%)
Query: 3  AFNIIKYPLTTESAMKKIEDNNTLVFIVHLQANKHHIKAAVKKMYDINVAKVNTLIRPDG 62
          ++++IK+P  TE AM  ++  N L F V  +A+K  +  AV++ YD+ V +VNT    DG
Sbjct: 2  SWDVIKHPHVTEKAMNDMDFQNKLQFAVDDRASKGEVADAVEEQYDVTVEQVNTQNTMDG 61
Query: 63 KKKAYVRLARDYDALDVANKIGII 86
          +KKA VRL+ D DA +VA++IG+ 
Sbjct: 62 EKKAVVRLSEDDDAQEVASRIGVF 85

>pdb|3G4S|S Chain S, Co-Crystal Structure Of Tiamulin Bound To The Large Ribosomal Subunit Length = 81

Iteration: 1
 Score = 68.9 bits (167), Expect = 7e-13,   Method: Compositional matrix adjust.
 Identities = 35/81 (43%), Positives = 54/81 (66%)
Query: 3  AFNIIKYPLTTESAMKKIEDNNTLVFIVHLQANKHHIKAAVKKMYDINVAKVNTLIRPDG 62
          ++++IK+P  TE AM  ++  N L F V  +A+K  +  AV++ YD+ V +VNT    DG
Sbjct: 1  SWDVIKHPHVTEKAMNDMDFQNKLQFAVDDRASKGEVADAVEEQYDVTVEQVNTQNTMDG 60
Query: 63 KKKAYVRLARDYDALDVANKI 83
          +KKA VRL+ D DA +VA++I
Sbjct: 61 EKKAVVRLSEDDDAQEVASRI 81

>pdb|1P85|R Chain R, Real Space Refined Coordinates Of The 50s Subunit Fitted Into The Low Resolution Cryo-Em Map Of The Ef-G.Gtp State Of E. Coli 70s Ribosome Length = 100

Iteration: 1
 Score = 46.2 bits (108), Expect = 4e-06,   Method: Compositional matrix adjust.
 Identities = 25/72 (34%), Positives = 40/72 (55%)
Query: 4  FNIIKYPLTTESAMKKIEDNNTLVFIVHLQANKHHIKAAVKKMYDINVAKVNTLIRPDGK 63
            +++ P  +E A   +E +NT+V  V   A K  IKAAV+K++++ V  VNTL+     
Sbjct: 8  LKVLRAPHVSEKASTAMEKSNTIVLKVAKDATKAEIKAAVQKLFEVEVEVVNTLVVKGKV 67
Query: 64 KKAYVRLARDYD 75
          K+   R+ R  D
Sbjct: 68 KRHGQRIGRRSD 79

>pdb|2GYA|R Chain R, Structure Of The 50s Subunit Of A Pre-Translocational E. Coli Ribosome Obtained By Fitting Atomic Models For Rna And Protein Components Into Cryo-Em Map Emd-1056 Length = 92

Iteration: 1
 Score = 46.2 bits (108), Expect = 4e-06,   Method: Compositional matrix adjust.
 Identities = 25/72 (34%), Positives = 40/72 (55%)
Query: 4  FNIIKYPLTTESAMKKIEDNNTLVFIVHLQANKHHIKAAVKKMYDINVAKVNTLIRPDGK 63
            +++ P  +E A   +E +NT+V  V   A K  IKAAV+K++++ V  VNTL+     
Sbjct: 2  LKVLRAPHVSEKASTAMEKSNTIVLKVAKDATKAEIKAAVQKLFEVEVEVVNTLVVKGKV 61
Query: 64 KKAYVRLARDYD 75
          K+   R+ R  D
Sbjct: 62 KRHGQRIGRRSD 73

>pdb|2J28|T Chain T, Model Of E. Coli Srp Bound To 70s Rncs Length = 99

Iteration: 1
 Score = 46.2 bits (108), Expect = 5e-06,   Method: Compositional matrix adjust.
 Identities = 25/72 (34%), Positives = 40/72 (55%)
Query: 4  FNIIKYPLTTESAMKKIEDNNTLVFIVHLQANKHHIKAAVKKMYDINVAKVNTLIRPDGK 63
            +++ P  +E A   +E +NT+V  V   A K  IKAAV+K++++ V  VNTL+     
Sbjct: 8  LKVLRAPHVSEKASTAMEKSNTIVLKVAKDATKAEIKAAVQKLFEVEVEVVNTLVVKGKV 67
Query: 64 KKAYVRLARDYD 75
          K+   R+ R  D
Sbjct: 68 KRHGQRIGRRSD 79

>pdb|3FIK|T Chain T, Ternary Complex-Bound E.Coli 70s Ribosome. This Entry Consists Of The 50s Subunit. Length = 93

Iteration: 1
 Score = 46.2 bits (108), Expect = 5e-06,   Method: Compositional matrix adjust.
 Identities = 25/72 (34%), Positives = 40/72 (55%)
Query: 4  FNIIKYPLTTESAMKKIEDNNTLVFIVHLQANKHHIKAAVKKMYDINVAKVNTLIRPDGK 63
            +++ P  +E A   +E +NT+V  V   A K  IKAAV+K++++ V  VNTL+     
Sbjct: 8  LKVLRAPHVSEKASTAMEKSNTIVLKVAKDATKAEIKAAVQKLFEVEVEVVNTLVVKGKV 67
Query: 64 KKAYVRLARDYD 75
          K+   R+ R  D
Sbjct: 68 KRHGQRIGRRSD 79

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	86
3bbo_V	198	Ribosomal protein L23; large ribosomal subunit, sp	7e-43
1vq8_S	85	50S ribosomal protein L23P; ribosome 50S, protein-	2e-42
4a17_R	150	RPL23A, 60S ribosomal protein L21; eukaryotic ribo	4e-40
3u5e_X	142	60S ribosomal protein L25; translation, ribosome,	1e-39
3iz5_X	152	60S ribosomal protein L23A (L23P); eukaryotic ribo	4e-38
2zkr_s	156	60S ribosomal protein L23A; protein-RNA complex, 6	4e-37
2zjr_Q	95	50S ribosomal protein L23; ribosome, large ribosom	1e-17
3tve_T	92	50S ribosomal protein L23; RNA, ribosome, tRNA, tr	1e-16
3r8s_T	93	50S ribosomal protein L23; protein biosynthesis, R	2e-16

>3bbo_V Ribosomal protein L23; large ribosomal subunit, spinach chloroplast ribosome, ribonucleoprotein particle, macromolecular complex; 9.40A {Spinacea oleracea} SCOP: i.1.1.1 Length = 198

 Score =  137 bits (345), Expect = 7e-43
 Identities = 40/85 (47%), Positives = 62/85 (72%)

Query: 1   MDAFNIIKYPLTTESAMKKIEDNNTLVFIVHLQANKHHIKAAVKKMYDINVAKVNTLIRP 60
           +D + I++ P+ TE+A+K I D N+L+F V ++A+K  I+ A+   + + V KVNTLIRP
Sbjct: 109 LDVYQILQSPIITEAAIKNIADENSLLFTVDVRADKKMIREAISNFFGVKVRKVNTLIRP 168

Query: 61  DGKKKAYVRLARDYDALDVANKIGI 85
           DG KKAY+ L ++Y+A ++A KIGI
Sbjct: 169 DGTKKAYIMLNKEYNASELAKKIGI 193

>1vq8_S 50S ribosomal protein L23P; ribosome 50S, protein-protein complex, RNA-RNA complex, PROT complex, peptidyl transferase reaction; HET: 1MA OMU OMG UR3 PSU SPS; 2.20A {Haloarcula marismortui} SCOP: d.12.1.1 PDB: 1vq4_S* 1vq5_S* 1vq6_S* 1vq7_S* 1s72_S* 1vq9_S* 1vqk_S* 1vql_S* 1vqm_S* 1vqn_S* 1vqo_S* 1vqp_S* 1yhq_S* 1yi2_S* 1yij_S* 1yit_S* 1yj9_S* 1yjn_S* 1yjw_S* 2otj_S* ... Length = 85

 Score =  131 bits (332), Expect = 2e-42
 Identities = 36/83 (43%), Positives = 56/83 (67%)

Query: 3  AFNIIKYPLTTESAMKKIEDNNTLVFIVHLQANKHHIKAAVKKMYDINVAKVNTLIRPDG 62
          ++++IK+P  TE AM  ++  N L F V  +A+K  +  AV++ YD+ V +VNT    DG
Sbjct: 2  SWDVIKHPHVTEKAMNDMDFQNKLQFAVDDRASKGEVADAVEEQYDVTVEQVNTQNTMDG 61

Query: 63 KKKAYVRLARDYDALDVANKIGI 85
          +KKA VRL+ D DA +VA++IG+
Sbjct: 62 EKKAVVRLSEDDDAQEVASRIGV 84

>4a17_R RPL23A, 60S ribosomal protein L21; eukaryotic ribosome, ribosome, eukaryotic initiation factor 60S, translation, large ribosomal subunit; 3.52A {Tetrahymena thermophila} PDB: 4a1a_R 4a1c_R 4a1e_R Length = 150

 Score =  128 bits (323), Expect = 4e-40
 Identities = 47/86 (54%), Positives = 64/86 (74%)

Query: 1   MDAFNIIKYPLTTESAMKKIEDNNTLVFIVHLQANKHHIKAAVKKMYDINVAKVNTLIRP 60
           +D  +++K PLTTE AMKK+ED NT+VF VH ++ K  IK+A +K+Y++ V  VNTL   
Sbjct: 65  LDNHSVVKTPLTTEKAMKKMEDENTMVFYVHNRSTKPQIKSAFEKLYNVKVRSVNTLNTI 124

Query: 61  DGKKKAYVRLARDYDALDVANKIGII 86
            G KKAY+RLA D D+L +ANKIG+I
Sbjct: 125 TGNKKAYIRLAADSDSLTLANKIGLI 150

>3u5e_X 60S ribosomal protein L25; translation, ribosome, ribosomal R ribosomal protein, STM1, eukaryotic ribosome; 3.00A {Saccharomyces cerevisiae} PDB: 2wwa_K 2ww9_K 3izc_X 3izs_X 2wwb_K 3o5h_W 3o58_W 3u5i_X 1s1i_T 3jyw_T Length = 142

 Score =  126 bits (319), Expect = 1e-39
 Identities = 52/86 (60%), Positives = 73/86 (84%)

Query: 1   MDAFNIIKYPLTTESAMKKIEDNNTLVFIVHLQANKHHIKAAVKKMYDINVAKVNTLIRP 60
           +D++ +I+ P+T+E+AMKK+ED N LVF V ++ANK+ IK AVK++Y+++V KVNTL+RP
Sbjct: 57  LDSYKVIEQPITSETAMKKVEDGNILVFQVSMKANKYQIKKAVKELYEVDVLKVNTLVRP 116

Query: 61  DGKKKAYVRLARDYDALDVANKIGII 86
           +G KKAYVRL  DYDALD+AN+IG I
Sbjct: 117 NGTKKAYVRLTADYDALDIANRIGYI 142

>2zkr_s 60S ribosomal protein L23A; protein-RNA complex, 60S ribosomal subunit, ribosomal protein/RNA complex; 8.70A {Canis familiaris} Length = 156

 Score =  120 bits (303), Expect = 4e-37
 Identities = 72/86 (83%), Positives = 80/86 (93%)

Query: 1   MDAFNIIKYPLTTESAMKKIEDNNTLVFIVHLQANKHHIKAAVKKMYDINVAKVNTLIRP 60
           +D + IIK+PLTTESAMKKIEDNNTLVFIV ++ANKH IK AVKK+YDI+VAKVNTLIRP
Sbjct: 71  LDHYAIIKFPLTTESAMKKIEDNNTLVFIVDVKANKHQIKQAVKKLYDIDVAKVNTLIRP 130

Query: 61  DGKKKAYVRLARDYDALDVANKIGII 86
           DG+KKAYVRLA DYDALDVANKIGII
Sbjct: 131 DGEKKAYVRLAPDYDALDVANKIGII 156

>2zjr_Q 50S ribosomal protein L23; ribosome, large ribosomal subunit, ribonucleoprotein, RNA-binding, rRNA-binding, tRNA-binding, methylation; 2.91A {Deinococcus radiodurans} SCOP: d.12.1.1 PDB: 1sm1_R* 2aar_R 2d3o_R 2zjp_Q* 2zjq_Q 1nkw_R 3cf5_Q* 3dll_Q* 3pio_Q* 3pip_Q* 1nwy_R* 1nwx_R* 1xbp_R* 1pnu_R 1pny_R 1vor_U 1vou_U 1vow_U 1voy_U 1vp0_U Length = 95

 Score = 69.5 bits (171), Expect = 1e-17
 Identities = 25/85 (29%), Positives = 41/85 (48%), Gaps = 16/85 (18%)

Query: 1  MDAFNIIKYPLTTESAMKKIEDNNTLVFIVHLQANKHHIKAAVKKMYDINVAKVNTLIRP 60
          M  ++I++ P+ +E A   +E      F V  +A K  IK A+++ + + V  ++T+  P
Sbjct: 1  MSHYDILQAPVISEKAYSAME-RGVYSFWVSPKATKTEIKDAIQQAFGVRVIGISTMNVP 59

Query: 61 DGK--------------KKAYVRLA 71
           GK              KKA VRLA
Sbjct: 60 -GKRKRVGRFIGQRNDRKKAIVRLA 83

>3tve_T 50S ribosomal protein L23; RNA, ribosome, tRNA, translation, mRNA; 3.10A {Thermus thermophilus} PDB: 3pyr_T 3pyo_T 3pyv_T 3pyt_T 3tvh_T 1n88_A 1vsa_R 1vsp_R 2hgj_W 2hgq_W 2hgu_W 2j01_X 2j03_X 2jl6_X 2jl8_X 2v47_X 2v49_X 2wdi_X 2wdj_X 2wdl_X ... Length = 92

 Score = 67.2 bits (165), Expect = 1e-16
 Identities = 27/87 (31%), Positives = 38/87 (43%), Gaps = 16/87 (18%)

Query: 3  AFNIIKYPLTTESAMKKIEDNNTLVFIVHLQANKHHIKAAVKKMYDINVAKVNTLIRPDG 62
          A+++I  P+ +E A           F VH +A K  IK AV+  + + V KVNTL    G
Sbjct: 2  AYDVILAPVLSEKAYAGFA-EGKYTFWVHPKATKTEIKNAVETAFKVKVVKVNTLHVR-G 59

Query: 63 K--------------KKAYVRLARDYD 75
          K              KKA V++A    
Sbjct: 60 KKKRLGRYLGKRPDRKKAIVQVAPGQK 86

>3r8s_T 50S ribosomal protein L23; protein biosynthesis, RNA, tRNA, transfer RNA, 23S ribosomal subunit, ribosome recycling factor, RRF, ribosome; 3.00A {Escherichia coli} PDB: 3fik_T 2wwq_T 3oat_T* 3oas_T* 3ofd_T 3ofc_T 3ofr_T* 3ofz_T* 3og0_T 3ofq_T 3r8t_T 2j28_T 3e1b_M 3e1d_M 3iy9_T 3i1n_T 1p85_R 1p86_R 1vs8_T 1vs6_T ... Length = 93

 Score = 66.8 bits (164), Expect = 2e-16
 Identities = 29/87 (33%), Positives = 43/87 (49%), Gaps = 15/87 (17%)

Query: 3  AFNIIKYPLTTESAMKKIEDNNTLVFIVHLQANKHHIKAAVKKMYDINVAKVNTLIRPDG 62
             +++ P  +E A   +E +NT+V  V   A K  IKAAV+K++++ V  VNTL+   G
Sbjct: 7  LLKVLRAPHVSEKASTAMEKSNTIVLKVAKDATKAEIKAAVQKLFEVEVEVVNTLVVK-G 65

Query: 63 K--------------KKAYVRLARDYD 75
          K              KKAYV L    +
Sbjct: 66 KVKRHGQRIGRRSDWKKAYVTLKEGQN 92

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	86
3j21_T	86	50S ribosomal protein L23P; archaea, archaeal, KIN	100.0
1vq8_S	85	50S ribosomal protein L23P; ribosome 50S, protein-	100.0
3u5e_X	142	60S ribosomal protein L25; translation, ribosome,	100.0
4a17_R	150	RPL23A, 60S ribosomal protein L21; eukaryotic ribo	100.0
3iz5_X	152	60S ribosomal protein L23A (L23P); eukaryotic ribo	100.0
2zkr_s	156	60S ribosomal protein L23A; protein-RNA complex, 6	100.0
3bbo_V	198	Ribosomal protein L23; large ribosomal subunit, sp	100.0
2zjr_Q	95	50S ribosomal protein L23; ribosome, large ribosom	100.0
3tve_T	92	50S ribosomal protein L23; RNA, ribosome, tRNA, tr	100.0
3r8s_T	93	50S ribosomal protein L23; protein biosynthesis, R	100.0
2dhg_A	104	TRNA selenocysteine associated protein (SECP43); R	92.33
3md3_A	166	Nuclear and cytoplasmic polyadenylated RNA-bindin	91.96
2ywk_A	95	Putative RNA-binding protein 11; RRM-domain, struc	90.78
2e44_A	96	Insulin-like growth factor 2 mRNA binding protein	90.55
2do4_A	100	Squamous cell carcinoma antigen recognized by T- c	88.97
2lxi_A	91	RNA-binding protein 10; NMR {Homo sapiens}	88.76
2hvz_A	101	Splicing factor, arginine/serine-rich 7; RRM, RNA	88.6
3q2s_C	229	Cleavage and polyadenylation specificity factor S;	88.47
3s7r_A	87	Heterogeneous nuclear ribonucleoprotein A/B; ferre	87.62
2d9o_A	100	DNAJ (HSP40) homolog, subfamily C, member 17; RRM	87.52
2do0_A	114	HnRNP M, heterogeneous nuclear ribonucleoprotein M	87.47
3mdf_A	85	Peptidyl-prolyl CIS-trans isomerase E; RRM domain,	87.43
1whw_A	99	Hypothetical protein riken cDNA 1200009A02; RNA re	87.14
1x4a_A	109	Splicing factor, arginine/serine-rich 1 (splicing	85.98
1x4g_A	109	Nucleolysin TIAR; structural genomics, RRM domain,	85.47
2cph_A	107	RNA binding motif protein 19; RNA recognition moti	85.46
1ywx_A	102	30S ribosomal protein S24E; GFT MRR16, nesgc, stru	85.44
1owx_A	121	Lupus LA protein, SS-B, LA; RRM, transcription; NM	85.39
2dnh_A	105	Bruno-like 5, RNA binding protein; RRM domain, RBD	85.21
2cqc_A	95	Arginine/serine-rich splicing factor 10; RNA recog	85.0
3d2w_A	89	TAR DNA-binding protein 43; DP-43 proteinopathy, T	84.98
4fxv_A	99	ELAV-like protein 1; RNA recognition motif, putati	84.88
3beg_B	115	Splicing factor, arginine/serine-rich 1; kinase, S	84.86
1xn9_A	101	30S ribosomal protein S24E; beta+alpha, GFT struct	84.43
2dnq_A	90	RNA-binding protein 4B; RRM domain,RBD, structural	84.21
3md1_A	83	Nuclear and cytoplasmic polyadenylated RNA-bindin	84.09
1p27_B	106	RNA-binding protein 8A; nuclear protein, mRNA spli	83.97
3p5t_L	90	Cleavage and polyadenylation specificity factor S;	83.84
1x5p_A	97	Negative elongation factor E; structure genomics,	83.77
3ulh_A	107	THO complex subunit 4; nuclear protein, RNA bindin	83.72
3nmr_A	175	Cugbp ELAV-like family member 1; RRM, PRE-mRNA spl	83.57
2adc_A	229	Polypyrimidine tract-binding protein 1; RBD, RRM,	83.47
1wi8_A	104	EIF-4B, eukaryotic translation initiation factor 4	83.21
2jvr_A	111	Nucleolar protein 3; RNA recognition motif, nucleu	83.07
4a8x_A	88	RNA-binding protein with serine-rich domain 1; tra	83.03
2dis_A	109	Unnamed protein product; structural genomics, RRM	83.03
2hzc_A	87	Splicing factor U2AF 65 kDa subunit; RNA splicing,	82.83
2err_A	109	Ataxin-2-binding protein 1; protein-RNA complex, R	82.71
1wf1_A	110	RNA-binding protein RALY; structural genomics, RRM	82.64
4f25_A	115	Polyadenylate-binding protein 1; RRM fold, transla	82.63
2i2y_A	150	Fusion protein consists of immunoglobin G- binding	82.55
2xs2_A	102	Deleted in azoospermia-like; RNA binding protein-R	82.24
2fy1_A	116	RNA-binding motif protein, Y chromosome, family 1	82.08
3ex7_B	126	RNA-binding protein 8A; protein-RNA complex, mRNA	81.85
1x4c_A	108	Splicing factor, arginine/serine-rich 1; structura	81.65
2cq3_A	103	RNA-binding protein 9; RRM domain, structural geno	81.6
2dnm_A	103	SRP46 splicing factor; RRM domain, RBD, structural	81.59
1x5s_A	102	Cold-inducible RNA-binding protein; structure geno	81.57
2voo_A	193	Lupus LA protein; RNA-binding protein, RNA recogni	81.19
2adc_A	229	Polypyrimidine tract-binding protein 1; RBD, RRM,	81.11
2dgt_A	92	RNA-binding protein 30; RRM domain, structural gen	81.01
2dgw_A	91	Probable RNA-binding protein 19; RRM domain, struc	80.99
2kt5_A	124	RNA and export factor-binding protein 2; chaperone	80.98
1s79_A	103	Lupus LA protein; RRM, alpha/beta, RNA binding pro	80.89
2dnz_A	95	Probable RNA-binding protein 23; RNA recognition m	80.58
1fxl_A	167	Paraneoplastic encephalomyelitis antigen HUD; prot	80.45
3s8s_A	110	Histone-lysine N-methyltransferase SETD1A; chromat	80.4
2dgv_A	92	HnRNP M, heterogeneous nuclear ribonucleoprotein M	80.29
2la4_A	101	Nuclear and cytoplasmic polyadenylated RNA-bindin	80.06

>3j21_T 50S ribosomal protein L23P; archaea, archaeal, KINK-turn, protein synthe ribosome; 6.60A {Pyrococcus furiosus}

Probab=100.00  E-value=1.5e-42  Score=222.28  Aligned_cols=86  Identities=47%  Similarity=0.791  Sum_probs=82.9

Q ss_pred             CCccccccccccchhhhhhhhcCCEEEEEEeCCCCHHHHHHHHHHHhCCceeeEEEeeCCCCeeEEEEEcCCCCcHHHHH
Q psy6375           1 MDAFNIIKYPLTTESAMKKIEDNNTLVFIVHLQANKHHIKAAVKKMYDINVAKVNTLIRPDGKKKAYVRLARDYDALDVA   80 (86)
Q Consensus         1 m~~~~vi~~P~~TEKs~~l~e~~n~~~F~V~~~a~K~eIk~ave~lf~VkV~~VnT~~~~~~~KKA~VtL~~g~~a~d~a   80 (86)
                      ||++++|++|++||||+.++|++|+|+|.|+++|||+|||+|||++|||+|.+|||+++|+|||||||+|++|++|+|+|
T Consensus         1 md~~~iIk~P~iTEKa~~~~e~~n~~~F~Vd~~AnK~qIK~AVe~lf~VkV~~VNTl~~~~~~KKA~V~L~~~~~a~dva   80 (86)
T 3j21_T            1 MDPYKVIIRPVVTEKAISLIEKENKLTFIVDRRATKQDIKRAVEEIFNVKVEKVNTLITPRGEKKAYVKLKPEYSASEVA   80 (86)
T ss_dssp             --CCCCEEECCCSHHHHHHHHTSCEEEEEECTTCCHHHHHHHHHHHTTCCEEEEEEEECTTSCEEEEEEECTTSCHHHHH
T ss_pred             CChHHhhhccccCHHHHHHHHhCCEEEEEEcCCCCHHHHHHHHHHHcCCCceEEEEeEcCCCceEEEEEcCCCCcHHHHH
Confidence            89999999999999999999988999999999999999999999999999999999999999999999999999999999


Q ss_pred             HhhCCC
Q psy6375          81 NKIGII   86 (86)
Q Consensus        81 ~~~g~~   86 (86)
                      ++||++
T Consensus        81 ~kigi~   86 (86)
T 3j21_T           81 ARLGLF   86 (86)
T ss_dssp             HHSSCC
T ss_pred             HhhccC
Confidence            999986

>1vq8_S 50S ribosomal protein L23P; ribosome 50S, protein-protein complex, RNA-RNA complex, PROT complex, peptidyl transferase reaction; HET: 1MA OMU OMG UR3 PSU SPS; 2.20A {Haloarcula marismortui} SCOP: d.12.1.1 PDB: 1vq4_S* 1vq5_S* 1vq6_S* 1vq7_S* 1s72_S* 1vq9_S* 1vqk_S* 1vql_S* 1vqm_S* 1vqn_S* 1vqo_S* 1vqp_S* 1yhq_S* 1yi2_S* 1yij_S* 1yit_S* 1yj9_S* 1yjn_S* 1yjw_S* 2otj_S* ...

Probab=100.00  E-value=1.4e-40  Score=212.80  Aligned_cols=84  Identities=43%  Similarity=0.623  Sum_probs=79.4

Q ss_pred             ccccccccccchhhhhhhhcCCEEEEEEeCCCCHHHHHHHHHHHhCCceeeEEEeeCCCCeeEEEEEcCCCCcHHHHHHh
Q psy6375           3 AFNIIKYPLTTESAMKKIEDNNTLVFIVHLQANKHHIKAAVKKMYDINVAKVNTLIRPDGKKKAYVRLARDYDALDVANK   82 (86)
Q Consensus         3 ~~~vi~~P~~TEKs~~l~e~~n~~~F~V~~~a~K~eIk~ave~lf~VkV~~VnT~~~~~~~KKA~VtL~~g~~a~d~a~~   82 (86)
                      ++++|++|++||||+.++|++|+|+|.|+++|||+|||+|||++|||+|.+|||+++++|||||||+|++|++|+|+|++
T Consensus         2 ~~~iIk~P~iTEKa~~~~e~~n~~~F~V~~~AnK~qIK~ave~lf~VkV~~VNT~~~~~~~KKA~VtL~~g~~aid~~~k   81 (85)
T 1vq8_S            2 SWDVIKHPHVTEKAMNDMDFQNKLQFAVDDRASKGEVADAVEEQYDVTVEQVNTQNTMDGEKKAVVRLSEDDDAQEVASR   81 (85)
T ss_dssp             CCCSEEEECCSHHHHHHHHHSCEEEEEECTTCCHHHHHHHHHHHHCCCEEEEEEEECTTSSEEEEEEECTTSCHHHHHTT
T ss_pred             CcceeeccccCHHHHHHHHhCCEEEEEECCCCCHHHHHHHHHHHhCCCceEEEeeecCCCceEEEEEECCCCcHHHHHHh
Confidence            57899999999999999998899999999999999999999999999999999999999999999999999999999999


Q ss_pred             hCCC
Q psy6375          83 IGII   86 (86)
Q Consensus        83 ~g~~   86 (86)
                      ||++
T Consensus        82 ig~~   85 (85)
T 1vq8_S           82 IGVF   85 (85)
T ss_dssp             C---
T ss_pred             hCCC
Confidence            9986

>3u5e_X 60S ribosomal protein L25; translation, ribosome, ribosomal R ribosomal protein, STM1, eukaryotic ribosome; 3.00A {Saccharomyces cerevisiae} PDB: 2wwa_K 2ww9_K 3izc_X 3izs_X 2wwb_K 3o5h_W 3o58_W 3u5i_X 4b6a_X 1s1i_T 3jyw_T

Probab=100.00  E-value=1.1e-39  Score=224.99  Aligned_cols=86  Identities=60%  Similarity=1.003  Sum_probs=84.5

Q ss_pred             CCccccccccccchhhhhhhhcCCEEEEEEeCCCCHHHHHHHHHHHhCCceeeEEEeeCCCCeeEEEEEcCCCCcHHHHH
Q psy6375           1 MDAFNIIKYPLTTESAMKKIEDNNTLVFIVHLQANKHHIKAAVKKMYDINVAKVNTLIRPDGKKKAYVRLARDYDALDVA   80 (86)
Q Consensus         1 m~~~~vi~~P~~TEKs~~l~e~~n~~~F~V~~~a~K~eIk~ave~lf~VkV~~VnT~~~~~~~KKA~VtL~~g~~a~d~a   80 (86)
                      ||+|+||++|++||||+.++|++|+|+|.||++|||.|||+|||++|||+|.+|||+++++|||||||+|++|++|+|+|
T Consensus        57 ld~~~IIk~PliTEKa~~~~E~~N~~vF~Vd~~AnK~qIK~AVEklf~VkV~kVNTl~~~~g~KKAyV~L~~~~daldvA  136 (142)
T 3u5e_X           57 LDSYKVIEQPITSETAMKKVEDGNILVFQVSMKANKYQIKKAVKELYEVDVLKVNTLVRPNGTKKAYVRLTADYDALDIA  136 (142)
T ss_dssp             TCHHHHEEEECCCHHHHHHHHHHCEEEEEECTTCCHHHHHHHHHHHHSCCEEEEEEEECTTSCEEEEEEECTTCCHHHHH
T ss_pred             CCHHHhhhcCCcCHHHHHHHHhCCEEEEEEcCCCCHHHHHHHHHHHhCCceeEEEeeEcCCCceEEEEEeCCCCcHHHHH
Confidence            78999999999999999999988999999999999999999999999999999999999999999999999999999999


Q ss_pred             HhhCCC
Q psy6375          81 NKIGII   86 (86)
Q Consensus        81 ~~~g~~   86 (86)
                      ++||+|
T Consensus       137 nkigii  142 (142)
T 3u5e_X          137 NRIGYI  142 (142)
T ss_dssp             HHHTCC
T ss_pred             HhhccC
Confidence            999996

>4a17_R RPL23A, 60S ribosomal protein L21; eukaryotic ribosome, ribosome, eukaryotic initiation factor 60S, translation, large ribosomal subunit; 3.52A {Tetrahymena thermophila} PDB: 4a1a_R 4a1c_R 4a1e_R

Probab=100.00  E-value=3e-39  Score=224.40  Aligned_cols=86  Identities=55%  Similarity=0.829  Sum_probs=84.6

Q ss_pred             CCccccccccccchhhhhhhhcCCEEEEEEeCCCCHHHHHHHHHHHhCCceeeEEEeeCCCCeeEEEEEcCCCCcHHHHH
Q psy6375           1 MDAFNIIKYPLTTESAMKKIEDNNTLVFIVHLQANKHHIKAAVKKMYDINVAKVNTLIRPDGKKKAYVRLARDYDALDVA   80 (86)
Q Consensus         1 m~~~~vi~~P~~TEKs~~l~e~~n~~~F~V~~~a~K~eIk~ave~lf~VkV~~VnT~~~~~~~KKA~VtL~~g~~a~d~a   80 (86)
                      ||+|+||++|++||||+.++|++|+|+|.||++|||+|||+|||++|||+|.+|||+++++|||||||+|++|++|+|+|
T Consensus        65 ld~y~IIk~PliTEKa~~~~E~~N~~vF~Vd~kAnK~qIK~AVEklf~VkV~kVNTl~~p~g~KKAyV~La~~~dAldvA  144 (150)
T 4a17_R           65 LDNHSVVKTPLTTEKAMKKMEDENTMVFYVHNRSTKPQIKSAFEKLYNVKVRSVNTLNTITGNKKAYIRLAADSDSLTLA  144 (150)
T ss_dssp             CCHHHHEEEECCSHHHHHHHHHSSEEEEEECTTCCHHHHHHHHHHHHCCCEEEEEEEECTTSCEEEEEEECSSSCHHHHH
T ss_pred             CCHHHhhhccccCHHHHHHHHhCCEEEEEEcCCCCHHHHHHHHHHHhCCceeEEEeeEcCCCcEEEEEEcCCCCcHHHHH
Confidence            78999999999999999999988999999999999999999999999999999999999999999999999999999999


Q ss_pred             HhhCCC
Q psy6375          81 NKIGII   86 (86)
Q Consensus        81 ~~~g~~   86 (86)
                      ++||+|
T Consensus       145 nkiGii  150 (150)
T 4a17_R          145 NKIGLI  150 (150)
T ss_dssp             HHHTCC
T ss_pred             HhhccC
Confidence            999996

>2zkr_s 60S ribosomal protein L23A; protein-RNA complex, 60S ribosomal subunit, ribosomal protein/RNA complex; 8.70A {Canis familiaris}

Probab=100.00  E-value=1.1e-38  Score=222.80  Aligned_cols=86  Identities=84%  Similarity=1.200  Sum_probs=77.4

Q ss_pred             CCccccccccccchhhhhhhhcCCEEEEEEeCCCCHHHHHHHHHHHhCCceeeEEEeeCCCCeeEEEEEcCCCCcHHHHH
Q psy6375           1 MDAFNIIKYPLTTESAMKKIEDNNTLVFIVHLQANKHHIKAAVKKMYDINVAKVNTLIRPDGKKKAYVRLARDYDALDVA   80 (86)
Q Consensus         1 m~~~~vi~~P~~TEKs~~l~e~~n~~~F~V~~~a~K~eIk~ave~lf~VkV~~VnT~~~~~~~KKA~VtL~~g~~a~d~a   80 (86)
                      ||+++||++|++||||+.++|++|+|+|.||++|||+|||+|||++|||+|.+|||+++++|||||||+|++|++|||+|
T Consensus        71 md~~~iIk~PliTEKa~~~~E~~n~yvF~Vd~~AnK~qIK~AVEklf~VkV~kVNTl~~~~~~KKAiVtL~~g~~aid~~  150 (156)
T 2zkr_s           71 LDHYAIIKFPLTTESAMKKIEDNNTLVFIVDVKANKHQIKQAVKKLYDIDVAKVNTLIRPDGEKKAYVRLAPDYDALDVA  150 (156)
T ss_dssp             -----CEEEECCSHHHHHHHHHHCEEEEEECTTCCHHHHHHHHHHHHCCCEEEEEEEECSSSCEEEEEEECTTSCHHHHH
T ss_pred             CCHHHhHhcccccHHHHHHHHhCCcEEEEEECCCCHHHHHHHHHHHhCCcceEEEeeEcCCCceEEEEEECCCCcHHHHH
Confidence            78999999999999999999988999999999999999999999999999999999999999999999999999999999


Q ss_pred             HhhCCC
Q psy6375          81 NKIGII   86 (86)
Q Consensus        81 ~~~g~~   86 (86)
                      ++||+|
T Consensus       151 ~kiGii  156 (156)
T 2zkr_s          151 NKIGII  156 (156)
T ss_dssp             HHC---
T ss_pred             HhccCC
Confidence            999986

>3bbo_V Ribosomal protein L23; large ribosomal subunit, spinach chloroplast ribosome, ribonucleoprotein particle, macromolecular complex; 9.40A {Spinacea oleracea} SCOP: i.1.1.1

Probab=100.00  E-value=7.6e-38  Score=224.16  Aligned_cols=86  Identities=47%  Similarity=0.860  Sum_probs=83.7

Q ss_pred             CCccccccccccchhhhhhhhcCCEEEEEEeCCCCHHHHHHHHHHHhCCceeeEEEeeCCCCeeEEEEEcCCCCcHHHHH
Q psy6375           1 MDAFNIIKYPLTTESAMKKIEDNNTLVFIVHLQANKHHIKAAVKKMYDINVAKVNTLIRPDGKKKAYVRLARDYDALDVA   80 (86)
Q Consensus         1 m~~~~vi~~P~~TEKs~~l~e~~n~~~F~V~~~a~K~eIk~ave~lf~VkV~~VnT~~~~~~~KKA~VtL~~g~~a~d~a   80 (86)
                      ||+++||++|++|||++.++|++|+|+|.||++|||.|||+|||++|||+|.+|||+++++|||||||+|++|++|||+|
T Consensus       109 Md~ydIIk~PvITEKAmkliE~nNkyvF~Vd~kANK~QIKqAVEkLFdVKV~kVNTln~~gg~KKAyVtLaeG~~AID~a  188 (198)
T 3bbo_V          109 LDVYQILQSPIITEAAIKNIADENSLLFTVDVRADKKMIREAISNFFGVKVRKVNTLIRPDGTKKAYIMLNKEYNASELA  188 (198)
T ss_dssp             -CCCCCBCCCCCCHHHHHHHHTSCEECCEECTTCCHHHHHHTTTTTSCCCEEECCCEEETTTEEECCEEECTTTCTTTHH
T ss_pred             CCHhheeeccccCHHHHHHHHhCCEEEEEECCCCCHHHHHHHHHHHhCCceeEEEeeEcCCCeEEEEEEeCCCCchHHHH
Confidence            78999999999999999999988999999999999999999999999999999999999999999999999999999999


Q ss_pred             HhhCCC
Q psy6375          81 NKIGII   86 (86)
Q Consensus        81 ~~~g~~   86 (86)
                      ++||++
T Consensus       189 nKIGii  194 (198)
T 3bbo_V          189 KKIGIF  194 (198)
T ss_dssp             HHCCCC
T ss_pred             Hhcccc
Confidence            999986

>2zjr_Q 50S ribosomal protein L23; ribosome, large ribosomal subunit, ribonucleoprotein, RNA-binding, rRNA-binding, tRNA-binding, methylation; 2.91A {Deinococcus radiodurans} SCOP: d.12.1.1 PDB: 1sm1_R* 2aar_R 2d3o_R 2zjp_Q* 2zjq_Q 1nkw_R 3cf5_Q* 3dll_Q* 3pio_Q* 3pip_Q* 1nwy_R* 1nwx_R* 1xbp_R* 1pnu_R 1pny_R 1vor_U 1vou_U 1vow_U 1voy_U 1vp0_U

Probab=100.00  E-value=8.4e-36  Score=193.83  Aligned_cols=81  Identities=28%  Similarity=0.475  Sum_probs=75.8

Q ss_pred             CCccccccccccchhhhhhhhcCCEEEEEEeCCCCHHHHHHHHHHHhCCceeeEEEeeCCC-------------CeeEEE
Q psy6375           1 MDAFNIIKYPLTTESAMKKIEDNNTLVFIVHLQANKHHIKAAVKKMYDINVAKVNTLIRPD-------------GKKKAY   67 (86)
Q Consensus         1 m~~~~vi~~P~~TEKs~~l~e~~n~~~F~V~~~a~K~eIk~ave~lf~VkV~~VnT~~~~~-------------~~KKA~   67 (86)
                      ||++++|++|++||||+.++|+ |+|+|.|+++|||+|||+|||++|||+|.+|||+++++             +|||||
T Consensus         1 m~~~~iI~~PviTEKs~~~~e~-n~y~F~V~~~anK~eIK~aVE~lf~VkV~~VNT~~~~gK~kR~g~~~G~~~~~KKAi   79 (95)
T 2zjr_Q            1 MSHYDILQAPVISEKAYSAMER-GVYSFWVSPKATKTEIKDAIQQAFGVRVIGISTMNVPGKRKRVGRFIGQRNDRKKAI   79 (95)
T ss_dssp             -CCSSSCCEECCTHHHHHHHTT-TCCEEEECSSCTHHHHHHHHHHHHCCCCSEEEECCBCCCCCSSSSCCCCCCCBEEEE
T ss_pred             CChHhceeccccCHHHHHHHHC-CEEEEEEcCCCCHHHHHHHHHHHhCCCceEEEeEEeCCccceeccccccCCCcEEEE
Confidence            8999999999999999999997 67999999999999999999999999999999999885             799999


Q ss_pred             EEcCCCCcHHHHHHhh
Q psy6375          68 VRLARDYDALDVANKI   83 (86)
Q Consensus        68 VtL~~g~~a~d~a~~~   83 (86)
                      |+|++|++ ||+++.+
T Consensus        80 VtL~~g~~-id~~~~~   94 (95)
T 2zjr_Q           80 VRLAEGQS-IEALAGQ   94 (95)
T ss_dssp             EECCSSCC-CSSTTTC
T ss_pred             EEeCCCCe-eecccCC
Confidence            99999999 9998754

>3tve_T 50S ribosomal protein L23; RNA, ribosome, tRNA, translation, mRNA; 3.10A {Thermus thermophilus} PDB: 3pyr_T 3pyo_T 3pyv_T 3pyt_T 3tvh_T 1n88_A 1vsa_R 1vsp_R 2hgj_W 2hgq_W 2hgu_W 2j01_X 2j03_X 2jl6_X 2jl8_X 2v47_X 2v49_X 2wdi_X 2wdj_X 2wdl_X ...

Probab=100.00  E-value=7.2e-35  Score=188.50  Aligned_cols=78  Identities=32%  Similarity=0.477  Sum_probs=73.6

Q ss_pred             CccccccccccchhhhhhhhcCCEEEEEEeCCCCHHHHHHHHHHHhCCceeeEEEeeCC-------------CCeeEEEE
Q psy6375           2 DAFNIIKYPLTTESAMKKIEDNNTLVFIVHLQANKHHIKAAVKKMYDINVAKVNTLIRP-------------DGKKKAYV   68 (86)
Q Consensus         2 ~~~~vi~~P~~TEKs~~l~e~~n~~~F~V~~~a~K~eIk~ave~lf~VkV~~VnT~~~~-------------~~~KKA~V   68 (86)
                      |++++|++|++||||+.++|+ |+|+|.|+++|||+|||+|||++|||+|.+|||++++             +|||||||
T Consensus         1 ~~~~iI~~P~iTEKa~~~~e~-n~~~F~V~~~AnK~qIK~aVe~lf~VkV~~VnT~~~~gK~kR~g~~~G~~~~~KKA~V   79 (92)
T 3tve_T            1 TAYDVILAPVLSEKAYAGFAE-GKYTFWVHPKATKTEIKNAVETAFKVKVVKVNTLHVRGKKKRLGRYLGKRPDRKKAIV   79 (92)
T ss_dssp             CHHHHEEEECCSHHHHTTTTT-TEEEEEECTTCCHHHHHHHHHHHTTCCEEEEEEEEECCCEEESSSCEEECCCEEEEEE
T ss_pred             ChhheecccccCHHHHHHhhC-CEEEEEECCCCCHHHHHHHHHHHhCCceeeeeeeeeCCceeeeccccccCCCceEEEE
Confidence            678999999999999999998 9999999999999999999999999999999999988             58999999


Q ss_pred             EcCCCCcHHHHHH
Q psy6375          69 RLARDYDALDVAN   81 (86)
Q Consensus        69 tL~~g~~a~d~a~   81 (86)
                      +|++|++ ||+++
T Consensus        80 tL~~g~~-Id~f~   91 (92)
T 3tve_T           80 QVAPGQK-IEALE   91 (92)
T ss_dssp             EECTTCC-CTTTC
T ss_pred             EcCCCCc-ccCCC
Confidence            9999954 88764

>3r8s_T 50S ribosomal protein L23; protein biosynthesis, RNA, tRNA, transfer RNA, 23S ribosomal subunit, ribosome recycling factor, RRF, ribosome; 3.00A {Escherichia coli} PDB: 3fik_T 3j19_T 2wwq_T 3oat_T* 3oas_T* 3ofd_T 3ofc_T 3ofr_T* 3ofz_T* 3og0_T 3ofq_T 3r8t_T 2j28_T 3e1b_M 3e1d_M 3iy9_T 3i1n_T 1p85_R 1p86_R 1vs8_T ...

Probab=100.00  E-value=9.4e-34  Score=183.57  Aligned_cols=74  Identities=36%  Similarity=0.534  Sum_probs=70.9

Q ss_pred             CccccccccccchhhhhhhhcCCEEEEEEeCCCCHHHHHHHHHHHhCCceeeEEEeeCC-------------CCeeEEEE
Q psy6375           2 DAFNIIKYPLTTESAMKKIEDNNTLVFIVHLQANKHHIKAAVKKMYDINVAKVNTLIRP-------------DGKKKAYV   68 (86)
Q Consensus         2 ~~~~vi~~P~~TEKs~~l~e~~n~~~F~V~~~a~K~eIk~ave~lf~VkV~~VnT~~~~-------------~~~KKA~V   68 (86)
                      +++++|++|++||||+.++|++|+|+|.||++|||+|||+|||++|||+|.+|||++++             +|||||||
T Consensus         6 ~~~~iIk~P~iTEKa~~~~e~~n~~~F~V~~~AnK~eIK~AVE~lf~VkV~~VnT~~~~gK~kR~g~~~G~~~~~KKAiV   85 (93)
T 3r8s_T            6 RLLKVLRAPHVSEKASTAMEKSNTIVLKVAKDATKAEIKAAVQKLFEVEVEVVNTLVVKGKVKRHGQRIGRRSDWKKAYV   85 (93)
T ss_dssp             HHHHHEEEECCSHHHHHHHHTTSEEEEEECSSCCHHHHHHHHHHHSCCCCCEEEEEEECCCBCCSSSSCCBCCCEEEEEE
T ss_pred             hHHhhhhccccCHHHHHHHHhCCEEEEEECCCCCHHHHHHHHHHHcCCceEEEEEEEeCCceeeeCCccccCCCcEEEEE
Confidence            47899999999999999999889999999999999999999999999999999999987             58999999


Q ss_pred             EcCCCCc
Q psy6375          69 RLARDYD   75 (86)
Q Consensus        69 tL~~g~~   75 (86)
                      +|++|++
T Consensus        86 tL~~g~~   92 (93)
T 3r8s_T           86 TLKEGQN   92 (93)
T ss_dssp             ECCSCCC
T ss_pred             EcCCcCC
Confidence            9999986

>2dhg_A TRNA selenocysteine associated protein (SECP43); RRM domain, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=92.33  E-value=0.6  Score=27.70  Aligned_cols=58  Identities=9%  Similarity=0.151  Sum_probs=43.1

Q ss_pred             CEEEEEEeCCCCHHHHHHHHHHHhCCceeeEEEeeCCCCee--EEEEEcCCCCcHHHHHHh
Q psy6375          24 NTLVFIVHLQANKHHIKAAVKKMYDINVAKVNTLIRPDGKK--KAYVRLARDYDALDVANK   82 (86)
Q Consensus        24 n~~~F~V~~~a~K~eIk~ave~lf~VkV~~VnT~~~~~~~K--KA~VtL~~g~~a~d~a~~   82 (86)
                      .-|+-.++.+++..+|++.++..|| .|.+|.....+.|..  =|+|++....+|......
T Consensus        11 ~l~V~nLp~~~t~~~l~~~F~~~~G-~v~~v~i~~~~~g~~~g~afV~f~~~~~a~~A~~~   70 (104)
T 2dhg_A           11 SLFVGDLTPDVDDGMLYEFFVKVYP-SCRGGKVVLDQTGVSKGYGFVKFTDELEQKRALTE   70 (104)
T ss_dssp             CEEEECCCTTCCHHHHHHHHHHHCT-TEEEEEEEECTTCCEEEEEEEEESCHHHHHHHHHH
T ss_pred             EEEEeCCCCCCCHHHHHHHHHHhCC-CeEEEEEEECCCCCccceEEEEECCHHHHHHHHHH
Confidence            4566677899999999999999788 467887776544432  499999987776655443

>3md3_A Nuclear and cytoplasmic polyadenylated RNA-bindin PUB1; RRM, RNP, RBD, poly(U) binding, tandem, acetylation, cytopla nucleus; 2.70A {Saccharomyces cerevisiae}

Probab=91.96  E-value=0.63  Score=28.97  Aligned_cols=55  Identities=16%  Similarity=0.144  Sum_probs=41.3

Q ss_pred             EEEEEeCCCCHHHHHHHHHHHhCCceeeEEEeeCCCCe--eEEEEEcCCCCcHHHHHHh
Q psy6375          26 LVFIVHLQANKHHIKAAVKKMYDINVAKVNTLIRPDGK--KKAYVRLARDYDALDVANK   82 (86)
Q Consensus        26 ~~F~V~~~a~K~eIk~ave~lf~VkV~~VnT~~~~~~~--KKA~VtL~~g~~a~d~a~~   82 (86)
                      |+-..+.+++..+|++.++. || +|.+|.....+.|.  --|+|++....+|......
T Consensus         4 ~V~nlp~~~t~~~l~~~f~~-~G-~i~~v~i~~~~~~~~~g~afV~f~~~~~a~~A~~~   60 (166)
T 3md3_A            4 YVGNLDKAITEDILKQYFQV-GG-PIANIKIMIDKNNKNVNYAFVEYHQSHDANIALQT   60 (166)
T ss_dssp             EEEEEETTCCHHHHHHHHGG-GS-CEEEEEEECCCC-CCEEEEEEEESSHHHHHHHHHH
T ss_pred             EECCCCCcCCHHHHHHHHHh-cC-CeEEEEEEECCCCCCCCEEEEEeCCHHHHHHHHHH
Confidence            55667899999999999986 67 68888887665443  3499999988776665543

>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=90.78  E-value=1.3  Score=25.71  Aligned_cols=56  Identities=11%  Similarity=0.046  Sum_probs=41.3

Q ss_pred             EEEEEEeCCCCHHHHHHHHHHHhCCceeeEEEeeCCCCe--eEEEEEcCCCCcHHHHHHh
Q psy6375          25 TLVFIVHLQANKHHIKAAVKKMYDINVAKVNTLIRPDGK--KKAYVRLARDYDALDVANK   82 (86)
Q Consensus        25 ~~~F~V~~~a~K~eIk~ave~lf~VkV~~VnT~~~~~~~--KKA~VtL~~g~~a~d~a~~   82 (86)
                      -|+-.++.+++..+|++.++. || +|.+|.....+.|.  --|+|++....+|......
T Consensus        19 l~v~nlp~~~~~~~l~~~F~~-~G-~i~~v~i~~~~~g~~~g~afV~f~~~~~a~~A~~~   76 (95)
T 2ywk_A           19 VFVGNLEARVREEILYELFLQ-AG-PLTKVTICKDREGKPKSFGFVCFKHPESVSYAIAL   76 (95)
T ss_dssp             EEEECCCTTCCHHHHHHHHGG-GS-CEEEEEEEECTTSCEEEEEEEEESSTHHHHHHHHH
T ss_pred             EEEECCCCCCCHHHHHHHHHh-cC-CEEEEEEEECCCCCCceEEEEEECCHHHHHHHHHH
Confidence            455567889999999999987 66 67788777655442  3599999988776655543

>2e44_A Insulin-like growth factor 2 mRNA binding protein 3; RRM domain, RBD, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=90.55  E-value=1.5  Score=25.45  Aligned_cols=59  Identities=8%  Similarity=0.064  Sum_probs=40.5

Q ss_pred             CCEEEEEEeCCCCHHHHHHHHHHHhCCceeeEEEeeCCCCeeEEEEEcCCCCcHHHHHHhh
Q psy6375          23 NNTLVFIVHLQANKHHIKAAVKKMYDINVAKVNTLIRPDGKKKAYVRLARDYDALDVANKI   83 (86)
Q Consensus        23 ~n~~~F~V~~~a~K~eIk~ave~lf~VkV~~VnT~~~~~~~KKA~VtL~~g~~a~d~a~~~   83 (86)
                      ..-|+-.++.+++..++++.++. || +|.+|+.+.....-.+|+|++....+|......+
T Consensus        16 ~~l~V~nlp~~~t~~~l~~~F~~-~G-~v~~~~~i~~~~~~~~afV~f~~~~~a~~Ai~~l   74 (96)
T 2e44_A           16 RKLQIRNIPPHLQWEVLDSLLVQ-YG-VVESCEQVNTDSETAVVNVTYSSKDQARQALDKL   74 (96)
T ss_dssp             CCEEEEEECSSSCHHHHHHHHHH-HS-CEEEEEEECCSSSSEEEEEEESSHHHHHHHHHHH
T ss_pred             CEEEEEcCCCCCCHHHHHHHHHh-cC-CeEEEEEeecCCCCCEEEEEECCHHHHHHHHHHh
Confidence            35778888999999999999986 66 4667743332222223999999877665554433

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

Probab=88.97  E-value=1.1  Score=26.40  Aligned_cols=57  Identities=18%  Similarity=0.231  Sum_probs=42.0

Q ss_pred             CEEEEEEeCCCCHHHHHHHHHHHhCCceeeEEEeeCCCCe--eEEEEEcCCCCcHHHHHHh
Q psy6375          24 NTLVFIVHLQANKHHIKAAVKKMYDINVAKVNTLIRPDGK--KKAYVRLARDYDALDVANK   82 (86)
Q Consensus        24 n~~~F~V~~~a~K~eIk~ave~lf~VkV~~VnT~~~~~~~--KKA~VtL~~g~~a~d~a~~   82 (86)
                      .-|+-.++.+++..+|++.++. || +|.+|.....+.|.  --|+|++....+|......
T Consensus        19 ~l~v~nlp~~~t~~~l~~~F~~-~G-~i~~v~i~~~~~g~~~g~afV~f~~~~~a~~A~~~   77 (100)
T 2do4_A           19 KLFISGLPFSCTKEELEEICKA-HG-TVKDLRLVTNRAGKPKGLAYVEYENESQASQAVMK   77 (100)
T ss_dssp             CEEEESCCTTCCHHHHHHHHTT-TS-CEEEEEEEECTTSCEEEEEEEEESSHHHHHHHHHH
T ss_pred             EEEEeCCCCCCCHHHHHHHHHh-CC-CeEEEEEEECCCCCEEeEEEEEECCHHHHHHHHHH
Confidence            4555667889999999999987 66 57788877655443  3599999987776655544

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

Probab=88.76  E-value=0.3  Score=29.05  Aligned_cols=55  Identities=15%  Similarity=0.242  Sum_probs=39.8

Q ss_pred             EEEEEeCCCCHHHHHHHHHHHhCCceeeEEEeeCCC-Ce--eEEEEEcCCCCcHHHHHH
Q psy6375          26 LVFIVHLQANKHHIKAAVKKMYDINVAKVNTLIRPD-GK--KKAYVRLARDYDALDVAN   81 (86)
Q Consensus        26 ~~F~V~~~a~K~eIk~ave~lf~VkV~~VnT~~~~~-~~--KKA~VtL~~g~~a~d~a~   81 (86)
                      |+--.+.++|..+|++.++. ||..|.+|+.+.-+. |.  -=|+|++....+|.....
T Consensus         5 ~v~nLp~~~te~~l~~~F~~-~G~~v~~v~i~~d~~t~~~rg~aFV~F~~~~~A~~Ai~   62 (91)
T 2lxi_A            5 MLRMLPQAATEDDIRGQLQS-HGVQAREVRLMRNKSSGQSRGFAFVEFSHLQDATRWME   62 (91)
T ss_dssp             EEETCCSSCCHHHHHHHHHH-HTCCCSBCCSSSCSSSCCCSSEEEEECSSHHHHHHHHH
T ss_pred             EEeCCCCCCCHHHHHHHHHH-hCCEeEEEEEEecCCCCCcCceEEEEecCHHHHHHHHH
Confidence            34456789999999999987 788888888765332 21  139999998777665543

>2hvz_A Splicing factor, arginine/serine-rich 7; RRM, RNA binding protein; NMR {Homo sapiens}

Probab=88.60  E-value=1.2  Score=26.26  Aligned_cols=53  Identities=25%  Similarity=0.226  Sum_probs=38.1

Q ss_pred             EEEEEeCCCCHHHHHHHHHHHhCCceeeEEEeeCCCCeeEEEEEcCCCCcHHHHHHh
Q psy6375          26 LVFIVHLQANKHHIKAAVKKMYDINVAKVNTLIRPDGKKKAYVRLARDYDALDVANK   82 (86)
Q Consensus        26 ~~F~V~~~a~K~eIk~ave~lf~VkV~~VnT~~~~~~~KKA~VtL~~g~~a~d~a~~   82 (86)
                      |+-.++.+++..++++.++. || +|.+|.....+.|  -|+|++....+|......
T Consensus         4 ~V~nLp~~~t~~~l~~~F~~-~G-~i~~v~i~~~~~g--~afV~f~~~~~a~~A~~~   56 (101)
T 2hvz_A            4 YVGNLGTGAGKGELERAFSY-YG-PLRTVWIARNPPG--FAFVEFEDPRDAEDAVRG   56 (101)
T ss_dssp             EEECCCSSCSHHHHHHHHHH-HC-CCSEEEEESSSSS--EEEEECSSHHHHHHHHHH
T ss_pred             EEeCCCCCCCHHHHHHHHHh-cC-CeEEEEEeeCCCC--EEEEEECCHHHHHHHHHH
Confidence            44456789999999999987 56 5677776554345  599999887766555443

>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=88.47  E-value=1.8  Score=30.07  Aligned_cols=58  Identities=9%  Similarity=0.181  Sum_probs=43.2

Q ss_pred             EEEEEEeCCCCHHHHHHHHHHHhCC-ceeeEEEeeCC-CCee--EEEEEcCCCCcHHHHHHhh
Q psy6375          25 TLVFIVHLQANKHHIKAAVKKMYDI-NVAKVNTLIRP-DGKK--KAYVRLARDYDALDVANKI   83 (86)
Q Consensus        25 ~~~F~V~~~a~K~eIk~ave~lf~V-kV~~VnT~~~~-~~~K--KA~VtL~~g~~a~d~a~~~   83 (86)
                      -|+-.++.+++..+|++.|+. ||+ +|.+|..+.-+ .|.-  =|||++....+|......|
T Consensus        71 lfVgnL~~~~te~~L~~~F~~-~G~~~v~~v~i~~d~~tg~skGfaFV~f~~~~~a~~Ai~~l  132 (229)
T 3q2s_C           71 LYIGNLTWWTTDEDLTEAVHS-LGVNDILEIKFFENRANGQSKGFALVGVGSEASSKKLMDLL  132 (229)
T ss_dssp             EEEESCCTTCCHHHHHHHHHT-TTCCCEEEEEEEECTTTCCEEEEEEEEESCTTHHHHHHTTS
T ss_pred             EEEeCCCCCCCHHHHHHHHHH-HCCcceEEEEEEecCCCCccceEEEEEECCHHHHHHHHHHc
Confidence            466667789999999999976 887 89999887654 3332  3999999887766554433

>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=87.62  E-value=2.3  Score=24.23  Aligned_cols=56  Identities=14%  Similarity=0.265  Sum_probs=40.2

Q ss_pred             CEEEEEEeCCCCHHHHHHHHHHHhCCceeeEEEeeCCC-Cee--EEEEEcCCCCcHHHHHH
Q psy6375          24 NTLVFIVHLQANKHHIKAAVKKMYDINVAKVNTLIRPD-GKK--KAYVRLARDYDALDVAN   81 (86)
Q Consensus        24 n~~~F~V~~~a~K~eIk~ave~lf~VkV~~VnT~~~~~-~~K--KA~VtL~~g~~a~d~a~   81 (86)
                      .-|+-.++.+++..+|++.++. || +|.+|.....+. |.-  =|+|++....+|.....
T Consensus        13 ~l~V~nlp~~~t~~~l~~~F~~-~G-~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~A~~   71 (87)
T 3s7r_A           13 KMFVGGLSWDTSKKDLKDYFTK-FG-EVVDCTIKMDPNTGRSRGFGFILFKDAASVEKVLD   71 (87)
T ss_dssp             EEEEECCCTTCCHHHHHHHHTT-TS-CEEEEEEEECTTTCCEEEEEEEEESSTHHHHHHHH
T ss_pred             EEEEeCCCCCCCHHHHHHHHHh-CC-CEEEEEEeecCCCCccccEEEEEECCHHHHHHHHH
Confidence            3555667889999999999966 66 677887766542 322  49999998877655443

>2d9o_A DNAJ (HSP40) homolog, subfamily C, member 17; RRM domain, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=87.52  E-value=1.2  Score=27.45  Aligned_cols=46  Identities=20%  Similarity=0.112  Sum_probs=35.1

Q ss_pred             CCCCHHHHHHHHHHHhCCceeeEEEeeCCCCeeEEEEEcCCCCcHHHHHH
Q psy6375          32 LQANKHHIKAAVKKMYDINVAKVNTLIRPDGKKKAYVRLARDYDALDVAN   81 (86)
Q Consensus        32 ~~a~K~eIk~ave~lf~VkV~~VnT~~~~~~~KKA~VtL~~g~~a~d~a~   81 (86)
                      .+++..++++.|+. || +|..|.....+.|+  |+|++....+|.+...
T Consensus        27 ~~~te~~L~~~F~~-~G-~V~~v~i~~~~rGf--aFVeF~~~~~A~~Ai~   72 (100)
T 2d9o_A           27 GGYSKDVLLRLLQK-YG-EVLNLVLSSKKPGT--AVVEFATVKAAELAVQ   72 (100)
T ss_dssp             CSCCHHHHHHHHHT-TS-CEEEEEEESSSSSE--EEEEESCHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHh-cC-CEEEEEEccCCCCE--EEEEECCHHHHHHHHH
Confidence            56899999999987 77 57788877555665  9999998766655443

>2do0_A HnRNP M, heterogeneous nuclear ribonucleoprotein M; RNA recognition motif, RRM, RNA binding domain, RBD, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=87.47  E-value=1.5  Score=26.35  Aligned_cols=58  Identities=14%  Similarity=0.204  Sum_probs=42.2

Q ss_pred             CEEEEEEeCCCCHHHHHHHHHHHhCCceeeEEEeeCCCC--eeEEEEEcCCCCcHHHHHHhh
Q psy6375          24 NTLVFIVHLQANKHHIKAAVKKMYDINVAKVNTLIRPDG--KKKAYVRLARDYDALDVANKI   83 (86)
Q Consensus        24 n~~~F~V~~~a~K~eIk~ave~lf~VkV~~VnT~~~~~~--~KKA~VtL~~g~~a~d~a~~~   83 (86)
                      .-|+-.++.+++..+|++.++. || +|.+|.....+.|  .--|||++....+|......+
T Consensus        17 ~l~V~nlp~~~~~~~l~~~f~~-~G-~i~~~~i~~~~~g~~~g~afV~f~~~~~a~~A~~~l   76 (114)
T 2do0_A           17 TVFVANLDYKVGWKKLKEVFSM-AG-VVVRADILEDKDGKSRGIGTVTFEQSIEAVQAISMF   76 (114)
T ss_dssp             CEEEESCCTTCCHHHHHHHHTT-TS-CEEEEEEEECTTCSEEEEEEEEESSHHHHHHHHHHH
T ss_pred             EEEEeCCCCCCCHHHHHHHHHh-cC-CeEEEEEEECCCCCeeeEEEEEECCHHHHHHHHHHh
Confidence            4556667889999999999986 66 6778887765544  235999999877666555443

>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=87.43  E-value=1.3  Score=25.00  Aligned_cols=56  Identities=14%  Similarity=0.162  Sum_probs=39.3

Q ss_pred             EEEEEEeCCCCHHHHHHHHHHHhCCceeeEEEeeCC-CCee--EEEEEcCCCCcHHHHHHh
Q psy6375          25 TLVFIVHLQANKHHIKAAVKKMYDINVAKVNTLIRP-DGKK--KAYVRLARDYDALDVANK   82 (86)
Q Consensus        25 ~~~F~V~~~a~K~eIk~ave~lf~VkV~~VnT~~~~-~~~K--KA~VtL~~g~~a~d~a~~   82 (86)
                      -|+-.++.+++..++++.++. || +|.+|.....+ .|..  -|+|++....+|......
T Consensus        10 l~V~nl~~~~~~~~l~~~f~~-~G-~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~A~~~   68 (85)
T 3mdf_A           10 LYVGGLAEEVDDKVLHAAFIP-FG-DITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDN   68 (85)
T ss_dssp             EEEECCCTTCCHHHHHHHHGG-GS-CEEEEECCEETTTTEECSEEEEEESSHHHHHHHHHH
T ss_pred             EEEECCCCCCCHHHHHHHHhc-cC-CEEEEEEEECCCCCccccEEEEEECCHHHHHHHHHH
Confidence            455567789999999999987 67 67777765432 2322  399999987776655444

>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=87.14  E-value=1.2  Score=26.04  Aligned_cols=56  Identities=13%  Similarity=0.162  Sum_probs=38.5

Q ss_pred             EEEEEEeCCCCHHHHHHHHHHHhCCceeeEEEeeCC-CCe--eEEEEEcCCCCcHHHHHHh
Q psy6375          25 TLVFIVHLQANKHHIKAAVKKMYDINVAKVNTLIRP-DGK--KKAYVRLARDYDALDVANK   82 (86)
Q Consensus        25 ~~~F~V~~~a~K~eIk~ave~lf~VkV~~VnT~~~~-~~~--KKA~VtL~~g~~a~d~a~~   82 (86)
                      -|+-.++.+++..+|++.++. || +|.+|.....+ .|.  --|||++....+|......
T Consensus        11 l~V~nlp~~~t~~~l~~~F~~-~G-~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~A~~~   69 (99)
T 1whw_A           11 LFVRNLSYTSSEEDLEKLFSA-YG-PLSELHYPIDSLTKKPKGFAFVTFMFPEHAVKAYAE   69 (99)
T ss_dssp             EEEECCCTTCCHHHHHHHHHT-TS-CEEEEECCCCTTTCCCCSEEEEEESSHHHHHHHHHH
T ss_pred             EEEeCCCCCCCHHHHHHHHHh-cC-CEeEEEEEecCCCCCcCeEEEEEECCHHHHHHHHHH
Confidence            344456789999999999987 66 66777765433 221  2499999987776655444

>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=85.98  E-value=1.4  Score=26.41  Aligned_cols=57  Identities=19%  Similarity=0.186  Sum_probs=39.3

Q ss_pred             EEEEEEeCCCCHHHHHHHHHHHhCCceeeEEEeeCCCCeeEEEEEcCCCCcHHHHHHhh
Q psy6375          25 TLVFIVHLQANKHHIKAAVKKMYDINVAKVNTLIRPDGKKKAYVRLARDYDALDVANKI   83 (86)
Q Consensus        25 ~~~F~V~~~a~K~eIk~ave~lf~VkV~~VnT~~~~~~~KKA~VtL~~g~~a~d~a~~~   83 (86)
                      -|+-.++.+++..+|++.|+. || +|..|.........--|+|++....+|......+
T Consensus        25 l~V~nLp~~~t~~~l~~~F~~-~G-~v~~~~i~~~~~~~g~afV~f~~~~~A~~A~~~l   81 (109)
T 1x4a_A           25 IYVGNLPPDIRTKDIEDVFYK-YG-AIRDIDLKNRRGGPPFAFVEFEDPRDAEDAVYGR   81 (109)
T ss_dssp             EEEESCCTTCCHHHHHHHHGG-GS-CEEEEEECCSSSSSCCEEEEESCHHHHHHHHHHH
T ss_pred             EEEeCCCCCCCHHHHHHHHHh-cC-CeEEEEEEECCCCCcEEEEEECCHHHHHHHHHHc
Confidence            445556789999999999988 66 4666666443322336999999877766555443

>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=85.47  E-value=2.4  Score=25.35  Aligned_cols=54  Identities=7%  Similarity=0.180  Sum_probs=39.8

Q ss_pred             EEEEEEeCCCCHHHHHHHHHHHhCCceeeEEEeeCCCCeeEEEEEcCCCCcHHHHHHhh
Q psy6375          25 TLVFIVHLQANKHHIKAAVKKMYDINVAKVNTLIRPDGKKKAYVRLARDYDALDVANKI   83 (86)
Q Consensus        25 ~~~F~V~~~a~K~eIk~ave~lf~VkV~~VnT~~~~~~~KKA~VtL~~g~~a~d~a~~~   83 (86)
                      -|+-.++.+++..++++.++. || +|.+|..... .|  -|+|++....+|......+
T Consensus        28 l~V~nl~~~~t~~~l~~~F~~-~G-~i~~v~i~~~-~g--~afV~f~~~~~a~~A~~~l   81 (109)
T 1x4g_A           28 VYCGGIASGLTDQLMRQTFSP-FG-QIMEIRVFPE-KG--YSFVRFSTHESAAHAIVSV   81 (109)
T ss_dssp             EEEECCSSCCCHHHHHHHHHH-HS-CEEEEEEETT-TT--EEEEEESSHHHHHHHHHHH
T ss_pred             EEEeCCCCCCCHHHHHHHHHh-cC-CeEEEEEeCC-CC--EEEEEECCHHHHHHHHHHc
Confidence            455556789999999999987 78 6777776543 44  5999999877766655443

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

Probab=85.46  E-value=1.9  Score=25.51  Aligned_cols=58  Identities=21%  Similarity=0.298  Sum_probs=41.8

Q ss_pred             CEEEEEEeCCCCHHHHHHHHHHHhCCceeeEEEeeCC--CC--eeEEEEEcCCCCcHHHHHHhh
Q psy6375          24 NTLVFIVHLQANKHHIKAAVKKMYDINVAKVNTLIRP--DG--KKKAYVRLARDYDALDVANKI   83 (86)
Q Consensus        24 n~~~F~V~~~a~K~eIk~ave~lf~VkV~~VnT~~~~--~~--~KKA~VtL~~g~~a~d~a~~~   83 (86)
                      .-|+-.++.+++..+|++.|+. || .|.+|.....+  .|  .--|+|++....+|......+
T Consensus        17 ~l~V~nlp~~~t~~~l~~~F~~-~G-~i~~v~i~~~~~~~~~~~g~afV~f~~~~~a~~A~~~l   78 (107)
T 2cph_A           17 KILVRNIPFQANQREIRELFST-FG-ELKTVRLPKKMTGTGAHRGFGFVDFITKQDAKKAFNAL   78 (107)
T ss_dssp             CEEEESCCTTCCHHHHHHHHHT-TS-CEEEEECCCCCSSSCSSCSEEEEEESSHHHHHHHHHHH
T ss_pred             EEEEeCCCCcCCHHHHHHHHHc-cC-CeEEEEEecCCCCCCCcCceEEEEECCHHHHHHHHHHh
Confidence            3455557889999999999988 66 57777776542  11  225999999887777666555

>1ywx_A 30S ribosomal protein S24E; GFT MRR16, nesgc, structural genomics, PSI, protein structure initiative; NMR {Methanococcus maripaludis} SCOP: d.12.1.3

Probab=85.44  E-value=0.56  Score=30.08  Aligned_cols=43  Identities=9%  Similarity=0.195  Sum_probs=33.8

Q ss_pred             ccchhhhhhhhcCCEEEEEEe---CCCCHHHHHHHHHHHhCCceeeE
Q psy6375          11 LTTESAMKKIEDNNTLVFIVH---LQANKHHIKAAVKKMYDINVAKV   54 (86)
Q Consensus        11 ~~TEKs~~l~e~~n~~~F~V~---~~a~K~eIk~ave~lf~VkV~~V   54 (86)
                      +++++...|+.. .+++|.|.   +..+|.||+..+-++|++++.-|
T Consensus         5 I~~~~~N~LL~R-ke~~~~v~H~~~tpsk~eirekLAk~~~~~~d~V   50 (102)
T 1ywx_A            5 IISDRNNPLLQR-REIKFTVSFDAATPSIKDVKMKLVAVLNANKQVL   50 (102)
T ss_dssp             EEEEEEETTTTE-EEEEEEEECSSCCCCHHHHHHHHHHHHTSCSTTE
T ss_pred             EEEeeecCCcCc-EEEEEEEEcCCCCCCHHHHHHHHHHHHCCCCCEE
Confidence            456777788875 68888663   45699999999999999987544

>1owx_A Lupus LA protein, SS-B, LA; RRM, transcription; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=85.39  E-value=1.4  Score=28.61  Aligned_cols=55  Identities=11%  Similarity=0.160  Sum_probs=41.6

Q ss_pred             CEEEEEE--eCC-CCHHHHHHHHHHHhCCceeeEEEeeCCCCeeEEEEEcCC-CCcHHHHHHhh
Q psy6375          24 NTLVFIV--HLQ-ANKHHIKAAVKKMYDINVAKVNTLIRPDGKKKAYVRLAR-DYDALDVANKI   83 (86)
Q Consensus        24 n~~~F~V--~~~-a~K~eIk~ave~lf~VkV~~VnT~~~~~~~KKA~VtL~~-g~~a~d~a~~~   83 (86)
                      +.+.+.-  +.+ +++.+||.+|.. || +|..|...   .|-.-|||+++. ..+|.+.+.++
T Consensus        18 G~il~v~~l~~~~~sredLke~F~~-~G-~V~~Vd~~---~g~~tgfVrf~~~~~~A~~av~~l   76 (121)
T 1owx_A           18 GCLLKFSGDLDDQTCREDLHILFSN-HG-EIKWIDFV---RGAKEGIILFKEKAKEALGKAKDA   76 (121)
T ss_dssp             CCEEEEEESCCSSCCHHHHHHHTCS-SC-CEEEEECC---TTCSEEEEEESSCHHHHHHHHHHT
T ss_pred             CeEEEEecCCCCcCCHHHHHHHHHh-cC-CEEEEEEe---cCCCEEEEEECCChHHHHHHHHHh
Confidence            5666554  677 899999999998 77 56666654   344579999998 56888888776

>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=85.21  E-value=2.4  Score=25.00  Aligned_cols=56  Identities=16%  Similarity=0.327  Sum_probs=39.9

Q ss_pred             EEEEEEeCCCCHHHHHHHHHHHhCCceeeEEEeeCCCCe--eEEEEEcCCCCcHHHHHHh
Q psy6375          25 TLVFIVHLQANKHHIKAAVKKMYDINVAKVNTLIRPDGK--KKAYVRLARDYDALDVANK   82 (86)
Q Consensus        25 ~~~F~V~~~a~K~eIk~ave~lf~VkV~~VnT~~~~~~~--KKA~VtL~~g~~a~d~a~~   82 (86)
                      -|+-.++.+++..+|++.|+. ||- |.+|.....+.|.  --|||++....+|......
T Consensus        18 l~v~nLp~~~t~~~l~~~F~~-~G~-i~~v~i~~~~~g~~~g~afV~f~~~~~A~~Ai~~   75 (105)
T 2dnh_A           18 LFVGMLNKQQSEEDVLRLFQP-FGV-IDECTVLRGPDGSSKGCAFVKFSSHTEAQAAIHA   75 (105)
T ss_dssp             EEEESCCTTCCHHHHHHHHTT-TSC-EEEEEEEECSSSCEEEEEEEEESSHHHHHHHHHH
T ss_pred             EEEeCCCCCCCHHHHHHHHHh-cCC-eEEEEEEECCCCCcCcEEEEEeCCHHHHHHHHHH
Confidence            344456789999999999986 563 7788877655443  3599999987776555443

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

Probab=85.00  E-value=2.7  Score=24.17  Aligned_cols=58  Identities=19%  Similarity=0.266  Sum_probs=41.8

Q ss_pred             CEEEEEEeCCCCHHHHHHHHHHHhCCceeeEEEeeCCC-C--eeEEEEEcCCCCcHHHHHHhh
Q psy6375          24 NTLVFIVHLQANKHHIKAAVKKMYDINVAKVNTLIRPD-G--KKKAYVRLARDYDALDVANKI   83 (86)
Q Consensus        24 n~~~F~V~~~a~K~eIk~ave~lf~VkV~~VnT~~~~~-~--~KKA~VtL~~g~~a~d~a~~~   83 (86)
                      .-|+-.++.+++..+|++.++. || +|.+|.....+. |  .--|+|++....+|......+
T Consensus        17 ~l~v~nlp~~~t~~~l~~~f~~-~G-~v~~v~i~~~~~~~~~~g~afV~f~~~~~A~~A~~~l   77 (95)
T 2cqc_A           17 CLGVFGLSLYTTERDLREVFSK-YG-PIADVSIVYDQQSRRSRGFAFVYFENVDDAKEAKERA   77 (95)
T ss_dssp             CEEEESCCSSCCHHHHHHHHHT-TS-CEEEEEEEECSSSSSEEEEEEEEESSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCCHHHHHHHHHh-cC-CeeEEEEEEcCCCCCcccEEEEEECCHHHHHHHHHHh
Confidence            3566667889999999999988 66 577887765443 2  235999999877766555443

>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=84.98  E-value=1.1  Score=26.38  Aligned_cols=50  Identities=18%  Similarity=0.088  Sum_probs=39.0

Q ss_pred             CEEEEEEeCCCCHHHHHHHHHHHhCCceeeEEEeeCCCCeeEEEEEcCCCCcHH
Q psy6375          24 NTLVFIVHLQANKHHIKAAVKKMYDINVAKVNTLIRPDGKKKAYVRLARDYDAL   77 (86)
Q Consensus        24 n~~~F~V~~~a~K~eIk~ave~lf~VkV~~VnT~~~~~~~KKA~VtL~~g~~a~   77 (86)
                      +-|+-..+.+++..++++.+++ || +|.+|+.....+|+  |+|++....+|.
T Consensus        13 ~l~V~~Lp~~~te~~L~~~F~~-~G-~i~~v~i~~~srGf--aFV~F~~~~~A~   62 (89)
T 3d2w_A           13 KVFVGRCTEDMTAEELQQFFCQ-YG-EVVDVFIPKPFRAF--AFVTFADDKVAQ   62 (89)
T ss_dssp             EEEEESCCTTCCHHHHHHHHTT-TS-CEEEEECCSSCCSE--EEEEESCHHHHH
T ss_pred             EEEEeCCCCCCCHHHHHHHHhc-cC-CEEEEEEeeCCCCE--EEEEECCHHHHH
Confidence            4566678889999999999987 67 47788777655675  999998776654

>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=84.88  E-value=2.9  Score=25.04  Aligned_cols=58  Identities=14%  Similarity=0.200  Sum_probs=42.3

Q ss_pred             CEEEEEEeCCCCHHHHHHHHHHHhCCceeeEEEeeCCC-Cee--EEEEEcCCCCcHHHHHHhh
Q psy6375          24 NTLVFIVHLQANKHHIKAAVKKMYDINVAKVNTLIRPD-GKK--KAYVRLARDYDALDVANKI   83 (86)
Q Consensus        24 n~~~F~V~~~a~K~eIk~ave~lf~VkV~~VnT~~~~~-~~K--KA~VtL~~g~~a~d~a~~~   83 (86)
                      +-|+=..+.++|..++++.++. || +|.+|+...-+. |.-  =|+|++....+|......+
T Consensus        21 ~lfV~nLp~~~te~~L~~~F~~-~G-~I~~v~i~~d~~tg~~kG~afV~f~~~~~A~~Ai~~l   81 (99)
T 4fxv_A           21 NLIVNYLPQNMTQDELRSLFSS-IG-EVESAKLIRDKVAGHSLGYGFVNYVTAKDAERAINTL   81 (99)
T ss_dssp             EEEEESCCTTCCHHHHHHHHHT-TS-CEEEEEEEECSSSCCEEEEEEEEESSHHHHHHHHHHH
T ss_pred             EEEEeCCCCCCCHHHHHHHHHh-cC-CEEEeEeeecCCCCcccccEEEEECCHHHHHHHHHHh
Confidence            4566678899999999999987 66 677888776432 332  3999999877766554443

>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=84.86  E-value=2  Score=26.33  Aligned_cols=55  Identities=18%  Similarity=0.232  Sum_probs=41.0

Q ss_pred             CCEEEEEEeCCCCHHHHHHHHHHHhCCceeeEEEeeCCCCeeEEEEEcCCCCcHHHHHHhh
Q psy6375          23 NNTLVFIVHLQANKHHIKAAVKKMYDINVAKVNTLIRPDGKKKAYVRLARDYDALDVANKI   83 (86)
Q Consensus        23 ~n~~~F~V~~~a~K~eIk~ave~lf~VkV~~VnT~~~~~~~KKA~VtL~~g~~a~d~a~~~   83 (86)
                      ..-|+-.++.+++..++++.|+. || +|..|....  +|  -|+|++....+|......|
T Consensus        17 ~~l~V~nLp~~~t~~~l~~~F~~-~G-~v~~~~i~~--~g--~afV~f~~~~~a~~Ai~~l   71 (115)
T 3beg_B           17 NRVVVSGLPPSGSWQDLKDHMRE-AG-DVCYADVYR--DG--TGVVEFVRKEDMTYAVRKL   71 (115)
T ss_dssp             CCEEEEECCSSCCTTHHHHHHGG-GS-CEEEEEECT--TS--EEEEEESSHHHHHHHHHHH
T ss_pred             cEEEEeCCCCCCCHHHHHHHHHh-cC-CeEEEEEec--CC--EEEEEECCHHHHHHHHHHh
Confidence            45677788999999999999986 66 677776543  25  4999999877766555444

>1xn9_A 30S ribosomal protein S24E; beta+alpha, GFT structural genomics, protein structure initiative, PSI, NESG, MAR11; NMR {Methanosarcina mazei} SCOP: d.12.1.3

Probab=84.43  E-value=0.7  Score=29.50  Aligned_cols=43  Identities=12%  Similarity=0.275  Sum_probs=33.1

Q ss_pred             ccchhhhhhhhcCCEEEEEEe---CCCCHHHHHHHHHHHhCCceeeE
Q psy6375          11 LTTESAMKKIEDNNTLVFIVH---LQANKHHIKAAVKKMYDINVAKV   54 (86)
Q Consensus        11 ~~TEKs~~l~e~~n~~~F~V~---~~a~K~eIk~ave~lf~VkV~~V   54 (86)
                      ++.++...|+.. .+++|.|.   +..+|.||+..+-++|++++.-|
T Consensus         5 I~~~~~N~LL~R-ke~~~~v~H~~~tpsk~eirekLAk~~~~~~~~V   50 (101)
T 1xn9_A            5 IIKDKKNPLLNR-RELDFIVKYEGSTPSRNDVRNKLAAMLNAPLELL   50 (101)
T ss_dssp             EEEEEEETTTTE-EEEEEEEECSSSCCCHHHHHHHHHHHTTCCTTTE
T ss_pred             EEEeeecCCcCc-EEEEEEEEcCCCCCCHHHHHHHHHHHHCCCCCEE
Confidence            345666677765 68888664   45799999999999999987555

>2dnq_A RNA-binding protein 4B; RRM domain,RBD, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=84.21  E-value=2.6  Score=24.24  Aligned_cols=51  Identities=14%  Similarity=0.300  Sum_probs=36.7

Q ss_pred             EEEEEeCCCCHHHHHHHHHHHhCCceeeEEEeeCCCCeeEEEEEcCCCCcHHHHHHhh
Q psy6375          26 LVFIVHLQANKHHIKAAVKKMYDINVAKVNTLIRPDGKKKAYVRLARDYDALDVANKI   83 (86)
Q Consensus        26 ~~F~V~~~a~K~eIk~ave~lf~VkV~~VnT~~~~~~~KKA~VtL~~g~~a~d~a~~~   83 (86)
                      |+-.++.+++..++++.++. || +|.+|...   .|  -|+|++....+|......+
T Consensus        12 ~V~nlp~~~t~~~l~~~F~~-~G-~i~~v~~~---~g--~afV~f~~~~~A~~A~~~l   62 (90)
T 2dnq_A           12 FIGNLPREATEQEIRSLFEQ-YG-KVLECDII---KN--YGFVHIEDKTAAEDAIRNL   62 (90)
T ss_dssp             EEESCCSSCCHHHHHHHHHT-SS-CEEEEEEE---TT--EEEEEESSHHHHHHHHHHH
T ss_pred             EEeCCCCCCCHHHHHHHHHh-CC-CEEEEEEE---CC--EEEEEECCHHHHHHHHHHh
Confidence            44446789999999999987 56 56677665   45  4999999877666554433

>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=84.09  E-value=3.6  Score=22.97  Aligned_cols=56  Identities=13%  Similarity=0.262  Sum_probs=39.8

Q ss_pred             EEEEEeCCCCHHHHHHHHHHHhCCceeeEEEeeCCC-C--eeEEEEEcCCCCcHHHHHHhh
Q psy6375          26 LVFIVHLQANKHHIKAAVKKMYDINVAKVNTLIRPD-G--KKKAYVRLARDYDALDVANKI   83 (86)
Q Consensus        26 ~~F~V~~~a~K~eIk~ave~lf~VkV~~VnT~~~~~-~--~KKA~VtL~~g~~a~d~a~~~   83 (86)
                      |+-.++.+++..++++.++. || +|.++.....+. |  .--|+|++....+|......+
T Consensus         5 ~V~nlp~~~t~~~l~~~f~~-~G-~i~~~~i~~~~~~~~~~g~afV~f~~~~~a~~a~~~l   63 (83)
T 3md1_A            5 FVGDLNVNVDDETLRNAFKD-FP-SYLSGHVMWDMQTGSSRGYGFVSFTSQDDAQNAMDSM   63 (83)
T ss_dssp             EEECCCTTCCHHHHHHHHTT-ST-TEEEEEEEECTTTCCEEEEEEEEESCHHHHHHHHHHH
T ss_pred             EEeCCCCCCCHHHHHHHHHh-cC-CeeEEEEEEcCCCCCccceEEEEECCHHHHHHHHHHh
Confidence            45556789999999999976 66 677887765432 3  235999999887766655443

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

Probab=83.97  E-value=3.8  Score=24.09  Aligned_cols=56  Identities=18%  Similarity=0.224  Sum_probs=39.7

Q ss_pred             EEEEEEeCCCCHHHHHHHHHHHhCCceeeEEEeeCCC-C--eeEEEEEcCCCCcHHHHHHh
Q psy6375          25 TLVFIVHLQANKHHIKAAVKKMYDINVAKVNTLIRPD-G--KKKAYVRLARDYDALDVANK   82 (86)
Q Consensus        25 ~~~F~V~~~a~K~eIk~ave~lf~VkV~~VnT~~~~~-~--~KKA~VtL~~g~~a~d~a~~   82 (86)
                      -|+-.++.+++..+|++.++. || +|.+|.....+. |  .--|+|++....+|......
T Consensus        26 l~V~nlp~~~t~~~l~~~f~~-~G-~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~A~~~   84 (106)
T 1p27_B           26 LFVTGVHEEATEEDIHDKFAE-YG-EIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEG   84 (106)
T ss_dssp             EEEECCCTTCCHHHHHHHHGG-GS-CEEEEEEEECTTTSSEEEEEEEEESCHHHHHHHHHH
T ss_pred             EEEeCCCCCCCHHHHHHHHhc-cC-CeEEEEEEecCCCCceeeEEEEEECCHHHHHHHHHH
Confidence            455556789999999999977 56 677887765432 2  23499999987776655544

>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=83.84  E-value=2.3  Score=24.61  Aligned_cols=56  Identities=9%  Similarity=0.178  Sum_probs=38.9

Q ss_pred             EEEEEeCCCCHHHHHHHHHHHhCC-ceeeEEEeeCC-CCee--EEEEEcCCCCcHHHHHHh
Q psy6375          26 LVFIVHLQANKHHIKAAVKKMYDI-NVAKVNTLIRP-DGKK--KAYVRLARDYDALDVANK   82 (86)
Q Consensus        26 ~~F~V~~~a~K~eIk~ave~lf~V-kV~~VnT~~~~-~~~K--KA~VtL~~g~~a~d~a~~   82 (86)
                      |+-..+.+++..++++.++. ||+ +|.+|.....+ .|.-  =|+|++....+|......
T Consensus         5 ~V~nL~~~~t~~~l~~~F~~-~G~~~v~~v~i~~~~~~g~~kG~afV~f~~~~~a~~Ai~~   64 (90)
T 3p5t_L            5 YIGNLTWWTTDEDLTEAVHS-LGVNDILEIKFFENRANGQSKGFALVGVGSEASSKKLMDL   64 (90)
T ss_dssp             EEESCCTTCCHHHHHHHHHT-TTCCCCCCEEEEECTTTCCEEEEEEECC-CHHHHHHHHHH
T ss_pred             EEeCCCCCCCHHHHHHHHHH-hCCCceEEEEEEecCCCCccCcEEEEEECCHHHHHHHHHH
Confidence            44456778999999999977 775 78899887654 2322  399999877665554433

>1x5p_A Negative elongation factor E; structure genomics, RRM domain, PARP14, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=83.77  E-value=4.5  Score=23.60  Aligned_cols=54  Identities=11%  Similarity=0.204  Sum_probs=38.1

Q ss_pred             CEEEEEEeCCCCHHHHHHHHHHHhCCceeeEEEeeCCCCeeEEEEEcCCCCcHHHHHHh
Q psy6375          24 NTLVFIVHLQANKHHIKAAVKKMYDINVAKVNTLIRPDGKKKAYVRLARDYDALDVANK   82 (86)
Q Consensus        24 n~~~F~V~~~a~K~eIk~ave~lf~VkV~~VnT~~~~~~~KKA~VtL~~g~~a~d~a~~   82 (86)
                      ++-.|.-+.+++..++++.++. || +|.+|... ...|+  |+|++....+|......
T Consensus        15 ~~~l~V~n~~~t~~~l~~~F~~-~G-~i~~v~i~-~~~g~--afV~f~~~~~a~~Ai~~   68 (97)
T 1x5p_A           15 GNTLYVYGEDMTPTLLRGAFSP-FG-NIIDLSMD-PPRNC--AFVTYEKMESADQAVAE   68 (97)
T ss_dssp             CSEEEEECSSCCHHHHHHHHTT-TS-CEEEEEEE-TTTTE--EEEEESSHHHHHHHHHH
T ss_pred             CCEEEEcCCCCCHHHHHHHHhh-CC-CEEEEEec-CCCCE--EEEEECCHHHHHHHHHH
Confidence            3445666679999999999987 66 57777663 34564  99999877666555443

>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=83.72  E-value=3.8  Score=24.13  Aligned_cols=55  Identities=20%  Similarity=0.294  Sum_probs=39.1

Q ss_pred             EEEEEeCCCCHHHHHHHHHHHhCCceeeEEEeeCCCCe--eEEEEEcCCCCcHHHHHHh
Q psy6375          26 LVFIVHLQANKHHIKAAVKKMYDINVAKVNTLIRPDGK--KKAYVRLARDYDALDVANK   82 (86)
Q Consensus        26 ~~F~V~~~a~K~eIk~ave~lf~VkV~~VnT~~~~~~~--KKA~VtL~~g~~a~d~a~~   82 (86)
                      |+-.++.+++..+|++.|+. || +|.+|.....+.|.  --|+|++....+|......
T Consensus        33 ~V~nlp~~~t~~~l~~~F~~-~G-~i~~v~i~~~~~g~~~g~afV~f~~~~~a~~A~~~   89 (107)
T 3ulh_A           33 LVSNLDFGVSDADIQELFAE-FG-TLKKAAVHYDRSGRSLGTADVHFERKADALKAMKQ   89 (107)
T ss_dssp             EEESCCTTCCHHHHHHHHHT-TS-CEEEEEEEECTTSCEEEEEEEEESSHHHHHHHHHH
T ss_pred             EEeCCCCCCCHHHHHHHHHh-cC-CeEEEEEEECCCCCcceEEEEEECCHHHHHHHHHH
Confidence            34446789999999999986 66 56777777655443  3599999977766555443

>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=83.57  E-value=3.3  Score=25.86  Aligned_cols=59  Identities=14%  Similarity=0.300  Sum_probs=43.3

Q ss_pred             CCEEEEEEeCCCCHHHHHHHHHHHhCCceeeEEEeeCCCCeeE--EEEEcCCCCcHHHHHHhh
Q psy6375          23 NNTLVFIVHLQANKHHIKAAVKKMYDINVAKVNTLIRPDGKKK--AYVRLARDYDALDVANKI   83 (86)
Q Consensus        23 ~n~~~F~V~~~a~K~eIk~ave~lf~VkV~~VnT~~~~~~~KK--A~VtL~~g~~a~d~a~~~   83 (86)
                      .+-|+-.++.+++..+|++.++. ||- |.+|.....+.|.-+  |+|++....+|......+
T Consensus        96 ~~l~v~nl~~~~t~~~l~~~F~~-~G~-i~~v~~~~~~~g~~~g~afV~f~~~~~A~~A~~~l  156 (175)
T 3nmr_A           96 RKLFIGMISKKCTENDIRVMFSS-FGQ-IEECRILRGPDGLSRGCAFVTFTTRAMAQTAIKAM  156 (175)
T ss_dssp             SEEEEESCCTTCCHHHHHHHHGG-GSC-EEEEEEEECTTSCEEEEEEEEESSHHHHHHHHHHH
T ss_pred             CeEEEcCCCCcCCHHHHHHHHHh-CCC-EEEEEEEECCCCCEEEEEEEEECCHHHHHHHHHHh
Confidence            34556677889999999999986 664 778888776665433  999999877766654443

>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=83.47  E-value=2.3  Score=28.72  Aligned_cols=56  Identities=7%  Similarity=0.030  Sum_probs=42.1

Q ss_pred             EEEEEEeCCCCHHHHHHHHHHHhCCceeeEEEeeCCCCeeEEEEEcCCCCcHHHHHHhh
Q psy6375          25 TLVFIVHLQANKHHIKAAVKKMYDINVAKVNTLIRPDGKKKAYVRLARDYDALDVANKI   83 (86)
Q Consensus        25 ~~~F~V~~~a~K~eIk~ave~lf~VkV~~VnT~~~~~~~KKA~VtL~~g~~a~d~a~~~   83 (86)
                      -|+-.++.+++..+|++.++. ||.+|.+|..+....|  -|+|++....+|......+
T Consensus       154 l~V~nlp~~~t~~~l~~~f~~-~G~~i~~v~i~~~~~g--~afV~f~~~~~A~~Ai~~l  209 (229)
T 2adc_A          154 LHLSNIPPSVSEEDLKVLFSS-NGGVVKGFKFFQKDRK--MALIQMGSVEEAVQALIDL  209 (229)
T ss_dssp             EEEECCCTTCCHHHHHHHHHT-TSCCEEEEEECSSSTT--CEEEEESSHHHHHHHHHHH
T ss_pred             EEEeCCCccCCHHHHHHHHHH-cCCCeeEEEEEECCCc--EEEEEECCHHHHHHHHHHH
Confidence            445556788999999999988 5888888887654445  6999999877766655543

>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=83.21  E-value=1.1  Score=26.55  Aligned_cols=51  Identities=12%  Similarity=0.133  Sum_probs=36.7

Q ss_pred             EEEEeCCCCHHHHHHHHHHHhCCceeeEEEeeCCC--Ce--eEEEEEcCCCCcHHHHH
Q psy6375          27 VFIVHLQANKHHIKAAVKKMYDINVAKVNTLIRPD--GK--KKAYVRLARDYDALDVA   80 (86)
Q Consensus        27 ~F~V~~~a~K~eIk~ave~lf~VkV~~VnT~~~~~--~~--KKA~VtL~~g~~a~d~a   80 (86)
                      +-.++.+++..+|++.++. ||  |.+|.....+.  |.  -=|||++....+|....
T Consensus        20 V~nlp~~~t~~~l~~~F~~-~G--i~~v~i~~~~~~~g~~~g~afV~f~~~~~a~~A~   74 (104)
T 1wi8_A           20 LGNLPYDVTEESIKEFFRG-LN--ISAVRLPREPSNPERLKGFGYAEFEDLDSLLSAL   74 (104)
T ss_dssp             EESCCSSCCHHHHHHHTTT-SC--EEEEECCBCSSCTTSBCSCEEEEESSHHHHHHHH
T ss_pred             EeCCCCcCCHHHHHHHHHH-CC--ceEEEEecCCCCCCCcCeEEEEEECCHHHHHHHH
Confidence            3345789999999999987 58  88888775442  21  24999998776665544

>2jvr_A Nucleolar protein 3; RNA recognition motif, nucleus, phosphorylation, ribonucleoprotein, ribosome biogenesis, RNA-binding; NMR {Saccharomyces cerevisiae} PDB: 2osr_A

Probab=83.07  E-value=2.2  Score=26.60  Aligned_cols=56  Identities=5%  Similarity=0.049  Sum_probs=38.9

Q ss_pred             EEEEEEeCCCCHHHHHHHHHHHhCCceeeEEEe-eCCCCeeEEEEEcCCCCcHHHHHHhh
Q psy6375          25 TLVFIVHLQANKHHIKAAVKKMYDINVAKVNTL-IRPDGKKKAYVRLARDYDALDVANKI   83 (86)
Q Consensus        25 ~~~F~V~~~a~K~eIk~ave~lf~VkV~~VnT~-~~~~~~KKA~VtL~~g~~a~d~a~~~   83 (86)
                      -|+-..+.+++..++++.++. ||..|..+... ....|  -|+|++....+|.....++
T Consensus        31 l~VgnLp~~~te~dL~~~F~~-~G~~v~~v~i~~~~~rG--faFV~F~~~e~A~~Ai~~l   87 (111)
T 2jvr_A           31 ITMKNLPEGCSWQDLKDLARE-NSLETTFSSVNTRDFDG--TGALEFPSEEILVEALERL   87 (111)
T ss_dssp             EEEECSSCCCCHHHHHHHHHH-HTCCCSEEECSSCSSSC--CEEEEESSHHHHHHHHHHT
T ss_pred             EEEECCCCCCCHHHHHHHHHH-hCCeeEEEEEEcCCCCC--EEEEEECCHHHHHHHHHHc
Confidence            344455789999999999987 67667777664 22345  4999999876665554443

>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=83.03  E-value=2.9  Score=23.60  Aligned_cols=57  Identities=16%  Similarity=0.216  Sum_probs=40.0

Q ss_pred             EEEEEEeCCCCHHHHHHHHHHHhCCceeeEEEeeCCC----CeeEEEEEcCCCCcHHHHHHhh
Q psy6375          25 TLVFIVHLQANKHHIKAAVKKMYDINVAKVNTLIRPD----GKKKAYVRLARDYDALDVANKI   83 (86)
Q Consensus        25 ~~~F~V~~~a~K~eIk~ave~lf~VkV~~VnT~~~~~----~~KKA~VtL~~g~~a~d~a~~~   83 (86)
                      -|+-.++.+++..++++.++. || .|.+|.....+.    ..--|+|++....+|......+
T Consensus         7 l~V~nlp~~~t~~~l~~~F~~-~G-~i~~~~i~~~~~~~~~~~g~afV~f~~~~~a~~A~~~l   67 (88)
T 4a8x_A            7 VHIGRLTRNVTKDHIMEIFST-YG-KIKMIDMPVERMHPHLSKGYAYVEFENPDEAEKALKHM   67 (88)
T ss_dssp             EEEECCCTTCCHHHHHHHHHT-TS-CEEEEECCEETTEEEEECSEEEEEESSHHHHHHHHHHH
T ss_pred             EEEeCCCCCCCHHHHHHHHHh-CC-CEEEEEEEeCCCCCCCCCcEEEEEEecHHHHHHHHHHc
Confidence            455567889999999999987 66 666776655432    1235999999887766555443

>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=83.03  E-value=2.5  Score=25.12  Aligned_cols=58  Identities=14%  Similarity=0.097  Sum_probs=39.4

Q ss_pred             EEEEEEeCCCCHHHHHHHHHHHhCCceeeEEEeeCC----CCeeEEEEEcCCCCcHHHHHHhh
Q psy6375          25 TLVFIVHLQANKHHIKAAVKKMYDINVAKVNTLIRP----DGKKKAYVRLARDYDALDVANKI   83 (86)
Q Consensus        25 ~~~F~V~~~a~K~eIk~ave~lf~VkV~~VnT~~~~----~~~KKA~VtL~~g~~a~d~a~~~   83 (86)
                      -|+-..+.+++..++++.++. ||-.|.+|......    ...--|+|++....+|......+
T Consensus        11 l~V~nLp~~~t~~~l~~~f~~-~G~~v~~v~i~~~~~~~g~~~g~afV~f~~~~~A~~A~~~l   72 (109)
T 2dis_A           11 LFIGGIPKMKKREEILEEIAK-VTEGVLDVIVYASAADKMKNRGFAFVEYESHRAAAMARRKL   72 (109)
T ss_dssp             EEEECCCTTSCHHHHHHHHHH-HSTTEEEEECCSSSCTTTTTCCEEEEEESSHHHHHHHHTTT
T ss_pred             EEEeCCCCcCCHHHHHHHHHH-hcCCceEEEEEccCCCCCCcCcEEEEEecCHHHHHHHHHHh
Confidence            344456788999999999988 56557788665211    11225999999877766555544

>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=82.83  E-value=3.6  Score=23.20  Aligned_cols=53  Identities=8%  Similarity=0.019  Sum_probs=38.6

Q ss_pred             EEEEEEeCCCCHHHHHHHHHHHh---CC------ceeeEEEeeCCCCeeEEEEEcCCCCcHHHHH
Q psy6375          25 TLVFIVHLQANKHHIKAAVKKMY---DI------NVAKVNTLIRPDGKKKAYVRLARDYDALDVA   80 (86)
Q Consensus        25 ~~~F~V~~~a~K~eIk~ave~lf---~V------kV~~VnT~~~~~~~KKA~VtL~~g~~a~d~a   80 (86)
                      -|+-.++.+++..++++.++...   |+      .|.++.+... .|  -|+|++....+|....
T Consensus         9 l~V~nLp~~~t~~~l~~~F~~~~~~~g~~~~~~~~v~~~~~~~~-kg--~afV~f~~~~~a~~A~   70 (87)
T 2hzc_A            9 LYVGNIPFGITEEAMMDFFNAQMRLGGLTQAPGNPVLAVQINQD-KN--FAFLEFRSVDETTQAM   70 (87)
T ss_dssp             EEEESCCTTCCHHHHHHHHHHHHHHTTCCSSSSCSEEEEEECSS-SS--EEEEEESSHHHHHHHG
T ss_pred             EEEeCCCCCCCHHHHHHHHHHHhhhcccccCCCCcceEEEecCC-Cc--EEEEEcCCHHHHHHHH
Confidence            45556788999999999999854   75      6777776532 44  5999999776655443

>2err_A Ataxin-2-binding protein 1; protein-RNA complex, RNA binding protein; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=82.71  E-value=1.4  Score=26.76  Aligned_cols=57  Identities=14%  Similarity=0.250  Sum_probs=39.8

Q ss_pred             EEEEEEeCCCCHHHHHHHHHHHhCCceeeEEEeeCCCC-eeEEEEEcCCCCcHHHHHHhh
Q psy6375          25 TLVFIVHLQANKHHIKAAVKKMYDINVAKVNTLIRPDG-KKKAYVRLARDYDALDVANKI   83 (86)
Q Consensus        25 ~~~F~V~~~a~K~eIk~ave~lf~VkV~~VnT~~~~~~-~KKA~VtL~~g~~a~d~a~~~   83 (86)
                      -|+-.++.+++..++++.++. || +|.+|.....+++ .--|||++....+|......+
T Consensus        32 l~V~nLp~~~te~~l~~~F~~-~G-~i~~v~i~~~~~~~kg~afV~f~~~~~A~~Ai~~l   89 (109)
T 2err_A           32 LHVSNIPFRFRDPDLRQMFGQ-FG-KILDVEIIFNERGSKGFGFVTFENSADADRAREKL   89 (109)
T ss_dssp             EEEESCCTTCCHHHHHHHGGG-TC-CCSCEEECCBTTBCTTEEEEECCCSHHHHHHHHHH
T ss_pred             EEEECCCCcCCHHHHHHHHHh-cC-CEEEEEEEECCCCCceEEEEEECCHHHHHHHHHHc
Confidence            344456789999999999987 56 5667776654332 225999999887776655543

>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=82.64  E-value=2  Score=25.77  Aligned_cols=52  Identities=17%  Similarity=0.236  Sum_probs=37.5

Q ss_pred             EEEEEEeCC-CCHHHHHHHHHHHhCCceeeEEEeeCCCCeeEEEEEcCCCCcHHHHHHhh
Q psy6375          25 TLVFIVHLQ-ANKHHIKAAVKKMYDINVAKVNTLIRPDGKKKAYVRLARDYDALDVANKI   83 (86)
Q Consensus        25 ~~~F~V~~~-a~K~eIk~ave~lf~VkV~~VnT~~~~~~~KKA~VtL~~g~~a~d~a~~~   83 (86)
                      -|+-.++.+ ++..++++.|+. || +|.+|..   +.|  -|+|++....+|......+
T Consensus        30 l~V~nl~~~~~t~~~l~~~F~~-~G-~v~~v~i---~~g--~afV~f~~~~~A~~A~~~l   82 (110)
T 1wf1_A           30 VFIGNLNTALVKKSDVETIFSK-YG-RVAGCSV---HKG--YAFVQYSNERHARAAVLGE   82 (110)
T ss_dssp             EEECSCCCSSCCHHHHHHHHGG-GS-CCSEEEE---ETT--EEEEECSSSHHHHHHHHHH
T ss_pred             EEEeCCCcccCCHHHHHHHHHh-CC-CeEEEEE---eCC--EEEEEECCHHHHHHHHHHc
Confidence            344446777 999999999987 66 4556655   455  4999999888777665544

>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=82.63  E-value=3  Score=25.38  Aligned_cols=57  Identities=12%  Similarity=0.230  Sum_probs=41.8

Q ss_pred             CEEEEEEeCCCCHHHHHHHHHHHhCCceeeEEEeeCCCCee-EEEEEcCCCCcHHHHHHh
Q psy6375          24 NTLVFIVHLQANKHHIKAAVKKMYDINVAKVNTLIRPDGKK-KAYVRLARDYDALDVANK   82 (86)
Q Consensus        24 n~~~F~V~~~a~K~eIk~ave~lf~VkV~~VnT~~~~~~~K-KA~VtL~~g~~a~d~a~~   82 (86)
                      |-|+=.++.+++..++++.|.. || +|.+|+....+++-| =|||++....+|......
T Consensus         7 ~lfV~nLp~~~te~~L~~~F~~-~G-~v~~v~i~~d~~~~kg~afV~f~~~~~A~~Ai~~   64 (115)
T 4f25_A            7 NIFIKNLDKSIDNKALYDTFSA-FG-NILSCKVVCDENGSKGYGFVHFETQEAAERAIEK   64 (115)
T ss_dssp             EEEEESCCTTCCHHHHHHHHGG-GS-CEEEEEEEEETTEEEEEEEEEESCHHHHHHHHHH
T ss_pred             EEEECCCCCCCCHHHHHHHHhc-cC-CEEEEEEeecCCCCCceEEEEECCHHHHHHHHHH
Confidence            5666678899999999999987 77 577888776544322 399999987776555443

>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=82.55  E-value=2.4  Score=26.83  Aligned_cols=55  Identities=24%  Similarity=0.271  Sum_probs=40.6

Q ss_pred             EEEEEEeCCCCHHHHHHHHHHHhCCceeeEEEeeCCCCeeEEEEEcCCCCcHHHHHHhh
Q psy6375          25 TLVFIVHLQANKHHIKAAVKKMYDINVAKVNTLIRPDGKKKAYVRLARDYDALDVANKI   83 (86)
Q Consensus        25 ~~~F~V~~~a~K~eIk~ave~lf~VkV~~VnT~~~~~~~KKA~VtL~~g~~a~d~a~~~   83 (86)
                      -|+=.++.+++..++++.|+. || .|.+|.....+.|  =|+|++....+|......+
T Consensus        76 l~V~nl~~~~t~~~l~~~F~~-~G-~i~~v~i~~~~~g--~afV~f~~~~~a~~A~~~l  130 (150)
T 2i2y_A           76 VYVGNLGNNGNKTELERAFGY-YG-PLRSVWVARNPPG--FAFVEFEDPRDAADAVREL  130 (150)
T ss_dssp             EEEESCCSCCSCHHHHHHHHH-HS-CEEEEEECSSSCS--EEEEEESSHHHHHHHHHHH
T ss_pred             EEEeCCCCCCCHHHHHHHHHh-hC-CEEEEEEeeCCCc--EEEEEECCHHHHHHHHHHc
Confidence            444456789999999999987 67 6778877655456  4999999877766554443

>2xs2_A Deleted in azoospermia-like; RNA binding protein-RNA complex; 1.35A {Mus musculus} PDB: 2xs7_A 2xs5_A 2xsf_A

Probab=82.24  E-value=5.6  Score=23.24  Aligned_cols=55  Identities=16%  Similarity=0.321  Sum_probs=39.6

Q ss_pred             EEEEEEeCCCCHHHHHHHHHHHhCCceeeEEEeeCCCCe--eEEEEEcCCCCcHHHHHH
Q psy6375          25 TLVFIVHLQANKHHIKAAVKKMYDINVAKVNTLIRPDGK--KKAYVRLARDYDALDVAN   81 (86)
Q Consensus        25 ~~~F~V~~~a~K~eIk~ave~lf~VkV~~VnT~~~~~~~--KKA~VtL~~g~~a~d~a~   81 (86)
                      -|+-.++.+++..++++.++. || .|.+|.....+.|.  -=|+|++....+|.....
T Consensus        12 l~V~nLp~~~t~~~l~~~F~~-~G-~i~~v~i~~~~~g~~~g~afV~f~~~~~a~~Ai~   68 (102)
T 2xs2_A           12 VFVGGIDVRMDETEIRSFFAR-YG-SVKEVKIITDRTGVSKGYGFVSFYNDVDVQKIVE   68 (102)
T ss_dssp             EEEECCCTTCCHHHHHHHHGG-GS-CEEEEEEEECTTSCEEEEEEEEESSCCCHHHHTT
T ss_pred             EEEeCCCCCCCHHHHHHHHHh-CC-CeEEEEEEECCCCCccceEEEEECCHHHHHHHHh
Confidence            344456789999999999977 66 57788777654432  359999998888765443

>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=82.08  E-value=2.4  Score=26.00  Aligned_cols=57  Identities=16%  Similarity=0.198  Sum_probs=40.0

Q ss_pred             EEEEEEeCCCCHHHHHHHHHHHhCCceeeEEEeeCCCC--eeEEEEEcCCCCcHHHHHHhh
Q psy6375          25 TLVFIVHLQANKHHIKAAVKKMYDINVAKVNTLIRPDG--KKKAYVRLARDYDALDVANKI   83 (86)
Q Consensus        25 ~~~F~V~~~a~K~eIk~ave~lf~VkV~~VnT~~~~~~--~KKA~VtL~~g~~a~d~a~~~   83 (86)
                      -|+-.++.+++..+|++.++. ||- |.+|.....+.|  .--|+|++....+|......+
T Consensus        10 l~V~nLp~~~t~~~l~~~F~~-~G~-i~~v~i~~~~~g~~~g~afV~F~~~~~A~~Ai~~l   68 (116)
T 2fy1_A           10 LFIGGLNRETNEKMLKAVFGK-HGP-ISEVLLIKDRTSKSRGFAFITFENPADAKNAAKDM   68 (116)
T ss_dssp             EEEECCTTTCCHHHHHHHHHT-SSC-CSEEEEECSTTTTCCCEEEEECSSHHHHHHHHHHC
T ss_pred             EEEeCCCCCCCHHHHHHHHHh-cCC-EEEEEEEECCCCCcccEEEEEECCHHHHHHHHHHh
Confidence            345556788999999999987 564 677777664432  235999999877766555443

>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=81.85  E-value=2.8  Score=25.60  Aligned_cols=56  Identities=18%  Similarity=0.226  Sum_probs=39.1

Q ss_pred             EEEEEEeCCCCHHHHHHHHHHHhCCceeeEEEeeCC-CC--eeEEEEEcCCCCcHHHHHHh
Q psy6375          25 TLVFIVHLQANKHHIKAAVKKMYDINVAKVNTLIRP-DG--KKKAYVRLARDYDALDVANK   82 (86)
Q Consensus        25 ~~~F~V~~~a~K~eIk~ave~lf~VkV~~VnT~~~~-~~--~KKA~VtL~~g~~a~d~a~~   82 (86)
                      -|+-.++.+++..+|++.|+. || .|.+|.....+ .|  .--|||++....+|......
T Consensus        25 l~V~nlp~~~t~~~l~~~F~~-~G-~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~A~~~   83 (126)
T 3ex7_B           25 LFVTGVHEEATEEDIHDKFAE-YG-EIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEG   83 (126)
T ss_dssp             EEEESCCTTCCHHHHHHHHHT-TS-CEEEEECCBCTTTSSBCSCEEEEESSHHHHHHHHHH
T ss_pred             EEEeCCCCCCCHHHHHHHHHh-cC-CeEEEEEEecCCCCccceEEEEEECCHHHHHHHHHH
Confidence            455566789999999999987 66 66777665443 11  22599999987776655444

>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=81.65  E-value=2.9  Score=25.09  Aligned_cols=54  Identities=15%  Similarity=0.182  Sum_probs=38.8

Q ss_pred             CEEEEEEeCCCCHHHHHHHHHHHhCCceeeEEEeeCCCCeeEEEEEcCCCCcHHHHHHhh
Q psy6375          24 NTLVFIVHLQANKHHIKAAVKKMYDINVAKVNTLIRPDGKKKAYVRLARDYDALDVANKI   83 (86)
Q Consensus        24 n~~~F~V~~~a~K~eIk~ave~lf~VkV~~VnT~~~~~~~KKA~VtL~~g~~a~d~a~~~   83 (86)
                      .-|+-.++.+++..++++.|+. || +|..|.....  |  -|+|++....+|......|
T Consensus        17 ~l~V~nLp~~~t~~~l~~~F~~-~G-~i~~~~i~~~--g--~afV~f~~~~~a~~Ai~~l   70 (108)
T 1x4c_A           17 RVVVSGLPPSGSWQDLKDHMRE-AG-DVCYADVYRD--G--TGVVEFVRKEDMTYAVRKL   70 (108)
T ss_dssp             EEEEESCCSSCCHHHHHHHHGG-GS-CEEEEEEETT--T--EEEEEESSHHHHHHHHHHS
T ss_pred             EEEEeCCCCCCCHHHHHHHHHh-cC-CEeEEEEecC--C--EEEEEECCHHHHHHHHHHH
Confidence            3455667889999999999986 66 5777766543  5  4999998876665554433

>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=81.60  E-value=2.8  Score=24.65  Aligned_cols=57  Identities=14%  Similarity=0.250  Sum_probs=39.8

Q ss_pred             EEEEEEeCCCCHHHHHHHHHHHhCCceeeEEEeeCCCC-eeEEEEEcCCCCcHHHHHHhh
Q psy6375          25 TLVFIVHLQANKHHIKAAVKKMYDINVAKVNTLIRPDG-KKKAYVRLARDYDALDVANKI   83 (86)
Q Consensus        25 ~~~F~V~~~a~K~eIk~ave~lf~VkV~~VnT~~~~~~-~KKA~VtL~~g~~a~d~a~~~   83 (86)
                      -|+-.++.+++..+|++.++. || +|.+|.....+.+ .--|||++....+|......+
T Consensus        18 l~V~nlp~~~t~~~l~~~f~~-~G-~v~~v~i~~~~~~~~g~afV~f~~~~~a~~A~~~l   75 (103)
T 2cq3_A           18 LHVSNIPFRFRDPDLRQMFGQ-FG-KILDVEIIFNERGSKGFGFVTFENSADADRAREKL   75 (103)
T ss_dssp             EEEESCCTTCCHHHHHHHGGG-TS-CEEEEEEECCTTTTCCEEEEEESCHHHHHHHHHHH
T ss_pred             EEEeCCCCCCCHHHHHHHHHh-cC-CeEEEEEEecCCCCcEEEEEEECCHHHHHHHHHHh
Confidence            344456789999999999987 55 5777777654432 236999999877766555443

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

Probab=81.59  E-value=4.2  Score=23.84  Aligned_cols=57  Identities=21%  Similarity=0.280  Sum_probs=39.9

Q ss_pred             EEEEEEeCCCCHHHHHHHHHHHhCCceeeEEEeeCCC-C--eeEEEEEcCCCCcHHHHHHhh
Q psy6375          25 TLVFIVHLQANKHHIKAAVKKMYDINVAKVNTLIRPD-G--KKKAYVRLARDYDALDVANKI   83 (86)
Q Consensus        25 ~~~F~V~~~a~K~eIk~ave~lf~VkV~~VnT~~~~~-~--~KKA~VtL~~g~~a~d~a~~~   83 (86)
                      -|+-.++.+++..+|++.++. || +|.+|.....+. |  .--|||++....+|......+
T Consensus        16 l~V~nLp~~~t~~~l~~~f~~-~G-~i~~v~i~~~~~~~~~~g~afV~f~~~~~A~~A~~~l   75 (103)
T 2dnm_A           16 LKVDNLTYRTSPDSLRRVFEK-YG-RVGDVYIPREPHTKAPRGFAFVRFHDRRDAQDAEAAM   75 (103)
T ss_dssp             EEEESCCTTCCHHHHHHHHTT-TS-CEEEEECCBCSSSCSBCSCEEEEESSSSHHHHHHHHH
T ss_pred             EEEeCCCCCCCHHHHHHHHHh-cC-CEEEEEEEeCCCCCCCCeEEEEEECCHHHHHHHHHHc
Confidence            444556789999999999987 56 477777654332 2  225999999888877665544

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

Probab=81.57  E-value=3.4  Score=24.14  Aligned_cols=57  Identities=16%  Similarity=0.236  Sum_probs=39.4

Q ss_pred             EEEEEEeCCCCHHHHHHHHHHHhCCceeeEEEeeCCC-C--eeEEEEEcCCCCcHHHHHHhh
Q psy6375          25 TLVFIVHLQANKHHIKAAVKKMYDINVAKVNTLIRPD-G--KKKAYVRLARDYDALDVANKI   83 (86)
Q Consensus        25 ~~~F~V~~~a~K~eIk~ave~lf~VkV~~VnT~~~~~-~--~KKA~VtL~~g~~a~d~a~~~   83 (86)
                      -|+-.++.+++..+|++.++. || +|.+|.....+. +  .--|+|++....+|......+
T Consensus        15 l~v~nLp~~~t~~~l~~~f~~-~G-~i~~v~i~~~~~~~~~~g~afV~f~~~~~A~~A~~~l   74 (102)
T 1x5s_A           15 LFVGGLSFDTNEQSLEQVFSK-YG-QISEVVVVKDRETQRSRGFGFVTFENIDDAKDAMMAM   74 (102)
T ss_dssp             EEEESCCTTCCHHHHHHHHHH-HS-CCCEEEECCCSSSCSCCSEEEEECSSHHHHHHHHHHH
T ss_pred             EEEECCCCCCCHHHHHHHHHh-cC-CeEEEEEEeCCCCCCcccEEEEEECCHHHHHHHHHHh
Confidence            444556789999999999987 55 466777655332 1  226999999877766655443

>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=81.19  E-value=4.9  Score=26.98  Aligned_cols=62  Identities=11%  Similarity=0.043  Sum_probs=43.4

Q ss_pred             hcCCEEEEEEeCCCCHHHHHHHHHHHhCCceeeEEEeeCCCCe--eEEEEEcCCCCcHHHHHHhhC
Q psy6375          21 EDNNTLVFIVHLQANKHHIKAAVKKMYDINVAKVNTLIRPDGK--KKAYVRLARDYDALDVANKIG   84 (86)
Q Consensus        21 e~~n~~~F~V~~~a~K~eIk~ave~lf~VkV~~VnT~~~~~~~--KKA~VtL~~g~~a~d~a~~~g   84 (86)
                      ....-|+=..+.+++..++++.++. ||- |.+|+....+.|.  ==|+|++....+|.......|
T Consensus       108 ~~~~l~V~nLp~~~t~~~L~~~F~~-~G~-v~~v~i~~~~~~~~kG~aFVeF~~~e~A~~A~~~~~  171 (193)
T 2voo_A          108 KNRSVYIKGFPTDATLDDIKEWLED-KGQ-VLNIQMRRTLHKAFKGSIFVVFDSIESAKKFVETPG  171 (193)
T ss_dssp             HHTEEEEECCCTTCCHHHHHHHHTT-SCC-EEEEEEEECTTCCEEEEEEEEESSHHHHHHHHHCTT
T ss_pred             ccCEEEecCCCCcCCHHHHHHHHhc-CCC-EEEEEEEECCCCCcccEEEEEECCHHHHHHHHHhCC
Confidence            3334566667889999999999987 664 7788776544332  249999998877666554443

>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=81.11  E-value=3.3  Score=27.95  Aligned_cols=52  Identities=19%  Similarity=0.178  Sum_probs=38.8

Q ss_pred             EEEEEeC-CCCHHHHHHHHHHHhCCceeeEEEeeCCCCeeEEEEEcCCCCcHHHHHH
Q psy6375          26 LVFIVHL-QANKHHIKAAVKKMYDINVAKVNTLIRPDGKKKAYVRLARDYDALDVAN   81 (86)
Q Consensus        26 ~~F~V~~-~a~K~eIk~ave~lf~VkV~~VnT~~~~~~~KKA~VtL~~g~~a~d~a~   81 (86)
                      |+-.++. +++..+|++.++. ||- |.+|+....+.|+  |+|++....+|.....
T Consensus        38 ~V~nLp~~~~te~~L~~~F~~-~G~-i~~v~i~~~~~g~--afV~F~~~~~A~~Ai~   90 (229)
T 2adc_A           38 LVSNLNPERVTPQSLFILFGV-YGD-VQRVKILFNKKEN--ALVQMADGNQAQLAMS   90 (229)
T ss_dssp             EEESCCTTTCCHHHHHHHHHH-HTC-EEEEEECCTTSCC--EEEEESCHHHHHHHHH
T ss_pred             EEeCCCcccCCHHHHHHHHHh-CCC-eEEEEEEECCCCE--EEEEECCHHHHHHHHH
Confidence            3444566 8999999999987 664 7788887766665  9999998777655544

>2dgt_A RNA-binding protein 30; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=81.01  E-value=3  Score=24.05  Aligned_cols=51  Identities=18%  Similarity=0.322  Sum_probs=36.7

Q ss_pred             EEEEEeCCCCHHHHHHHHHHHhCCceeeEEEeeCCCCeeEEEEEcCCCCcHHHHHHhh
Q psy6375          26 LVFIVHLQANKHHIKAAVKKMYDINVAKVNTLIRPDGKKKAYVRLARDYDALDVANKI   83 (86)
Q Consensus        26 ~~F~V~~~a~K~eIk~ave~lf~VkV~~VnT~~~~~~~KKA~VtL~~g~~a~d~a~~~   83 (86)
                      |+-.++.+++..++++.++. || +|.+|...   .|  -|+|++....+|......+
T Consensus        14 ~V~nLp~~~t~~~l~~~F~~-~G-~v~~v~~~---~~--~afV~f~~~~~a~~A~~~l   64 (92)
T 2dgt_A           14 HVGNISPTCTNQELRAKFEE-YG-PVIECDIV---KD--YAFVHMERAEDAVEAIRGL   64 (92)
T ss_dssp             EEESCCSSCCHHHHHHHHHT-TS-CCCEEEEC---SS--EEEEEESCHHHHHHHHHHH
T ss_pred             EEeCCCCCCCHHHHHHHHHh-cC-CeEEEEEE---CC--EEEEEECCHHHHHHHHHHh
Confidence            34446788999999999988 66 46666654   33  6999999876666555443

>2dgw_A Probable RNA-binding protein 19; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=80.99  E-value=3.4  Score=23.74  Aligned_cols=52  Identities=4%  Similarity=0.119  Sum_probs=37.2

Q ss_pred             EEEEEEeCCCCHHHHHHHHHHHhCCceeeEEEeeCCCC--eeEEEEEcCCCCcHHHH
Q psy6375          25 TLVFIVHLQANKHHIKAAVKKMYDINVAKVNTLIRPDG--KKKAYVRLARDYDALDV   79 (86)
Q Consensus        25 ~~~F~V~~~a~K~eIk~ave~lf~VkV~~VnT~~~~~~--~KKA~VtL~~g~~a~d~   79 (86)
                      -|+-.++.+++..+|++.++..   .|.+|.......|  .--|||++....+|...
T Consensus        13 l~v~nLp~~~t~~~l~~~F~~~---~i~~v~i~~~~~g~~~g~afV~f~~~~~a~~A   66 (91)
T 2dgw_A           13 VKLRGAPFNVTEKNVMEFLAPL---KPVAIRIVRNAHGNKTGYIFVDFSNEEEVKQA   66 (91)
T ss_dssp             EEEECCCSSCCHHHHHHHHTTS---CCSEEEEEECTTSCEEEEEEEECSSHHHHHHH
T ss_pred             EEEECCCCCCCHHHHHHHHhhC---CceEEEEEECCCCCCceEEEEEECCHHHHHHH
Confidence            3445567899999999999985   5777877665444  23699999876654443

>2kt5_A RNA and export factor-binding protein 2; chaperone, mRNA processing, mRNA splicing, transport, nucleus, RNA-binding, spliceosome, transport; NMR {Mus musculus}

Probab=80.98  E-value=2.8  Score=25.62  Aligned_cols=54  Identities=20%  Similarity=0.243  Sum_probs=37.7

Q ss_pred             EEEEEeCCCCHHHHHHHHHHHhCCceeeEEEeeCCCC--eeEEEEEcCCCCcHHHHHH
Q psy6375          26 LVFIVHLQANKHHIKAAVKKMYDINVAKVNTLIRPDG--KKKAYVRLARDYDALDVAN   81 (86)
Q Consensus        26 ~~F~V~~~a~K~eIk~ave~lf~VkV~~VnT~~~~~~--~KKA~VtL~~g~~a~d~a~   81 (86)
                      |+-.++.+++..+|++.++. || +|.+|.....+.|  .--|+|++....+|.....
T Consensus        39 ~V~nlp~~~t~~~l~~~F~~-~G-~v~~v~i~~~~~g~~~g~afV~f~~~~~A~~Ai~   94 (124)
T 2kt5_A           39 LVSNLDFGVSDADIQELFAE-FG-TLKKAAVDYDRSGRSLGTADVHFERRADALKAMK   94 (124)
T ss_dssp             EEESCCSSCCHHHHHHHHHT-TS-CCSEEEEECCSSSSCCSEEEEEESSHHHHHHHHH
T ss_pred             EEeCCCCCCCHHHHHHHHHh-cC-CeeEEEEEECCCCCEeeEEEEEECCHHHHHHHHH
Confidence            44445788999999999988 66 5667776654332  2359999988766655444

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

Probab=80.89  E-value=3  Score=25.36  Aligned_cols=55  Identities=11%  Similarity=0.011  Sum_probs=40.2

Q ss_pred             CEEEEEEeCCCCHHHHHHHHHHHhCCceeeEEEeeCCCCe--eEEEEEcCCCCcHHHHH
Q psy6375          24 NTLVFIVHLQANKHHIKAAVKKMYDINVAKVNTLIRPDGK--KKAYVRLARDYDALDVA   80 (86)
Q Consensus        24 n~~~F~V~~~a~K~eIk~ave~lf~VkV~~VnT~~~~~~~--KKA~VtL~~g~~a~d~a   80 (86)
                      .-|+-.++.++|..++++.++. || +|.+|+...-+.|.  ==|||++....+|....
T Consensus        13 ~lfV~~Lp~~~te~~L~~~F~~-~G-~v~~v~i~~d~~g~~rG~aFV~F~~~e~a~~Ai   69 (103)
T 1s79_A           13 SVYIKGFPTDATLDDIKEWLED-KG-QVLNIQMRRTLHKAFKGSIFVVFDSIESAKKFV   69 (103)
T ss_dssp             CEEEECCCTTCCHHHHHHHHHT-SS-CEEEEEEECCCTTSCCCEEEEEESSHHHHHHHH
T ss_pred             EEEEECCCCCCCHHHHHHHHhh-cC-CEEEEEEEECCCCCCccEEEEEECCHHHHHHHH
Confidence            4667778899999999999987 77 68888877544321  13999998776655433

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

Probab=80.58  E-value=3.8  Score=23.56  Aligned_cols=55  Identities=11%  Similarity=0.251  Sum_probs=38.6

Q ss_pred             EEEEEeCCCCHHHHHHHHHHHhCCceeeEEEeeCCC-C--eeEEEEEcCCCCcHHHHHHh
Q psy6375          26 LVFIVHLQANKHHIKAAVKKMYDINVAKVNTLIRPD-G--KKKAYVRLARDYDALDVANK   82 (86)
Q Consensus        26 ~~F~V~~~a~K~eIk~ave~lf~VkV~~VnT~~~~~-~--~KKA~VtL~~g~~a~d~a~~   82 (86)
                      |+-.++.+++..+|++.++. || +|.+|.....+. |  .--|+|++....+|......
T Consensus         9 ~v~nlp~~~t~~~l~~~f~~-~G-~v~~v~i~~~~~~~~~~g~afV~f~~~~~a~~A~~~   66 (95)
T 2dnz_A            9 YVGSLHFNITEDMLRGIFEP-FG-KIDNIVLMKDSDTGRSKGYGFITFSDSECARRALEQ   66 (95)
T ss_dssp             EEESCCTTCCHHHHHHHHTT-TS-CEEEEEEECCSSSCCCCSEEEEEESCHHHHHHHHHH
T ss_pred             EEeCCCCCCCHHHHHHHHHh-cC-CEeEEEEeecCCCCceeeEEEEEECCHHHHHHHHHH
Confidence            44456788999999999987 66 577777765432 1  22699999987776655443

>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=80.45  E-value=5.5  Score=24.49  Aligned_cols=56  Identities=11%  Similarity=0.132  Sum_probs=40.6

Q ss_pred             EEEEEEeCCCCHHHHHHHHHHHhCCceeeEEEeeCC-CC--eeEEEEEcCCCCcHHHHHHh
Q psy6375          25 TLVFIVHLQANKHHIKAAVKKMYDINVAKVNTLIRP-DG--KKKAYVRLARDYDALDVANK   82 (86)
Q Consensus        25 ~~~F~V~~~a~K~eIk~ave~lf~VkV~~VnT~~~~-~~--~KKA~VtL~~g~~a~d~a~~   82 (86)
                      -|+-.++++++..++++.++. || +|.+|.....+ .|  .--|+|++....+|......
T Consensus         5 l~v~nlp~~~~~~~l~~~f~~-~G-~i~~v~~~~~~~~~~~~g~afV~f~~~~~A~~a~~~   63 (167)
T 1fxl_A            5 LIVNYLPQNMTQEEFRSLFGS-IG-EIESCKLVRDKITGQSLGYGFVNYIDPKDAEKAINT   63 (167)
T ss_dssp             EEEESCCTTCCHHHHHHHHHT-TS-CEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHH
T ss_pred             EEEcCCCCCCCHHHHHHHHHh-cC-CeEEEEEEeCCCCCcceeEEEEEECCHHHHHHHHHH
Confidence            345557889999999999987 66 57888887655 23  23599999987766555443

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

Probab=80.40  E-value=4.5  Score=24.74  Aligned_cols=58  Identities=19%  Similarity=0.285  Sum_probs=41.6

Q ss_pred             CEEEEEEeCCCCHHHHHHHHHHHhCCceeeEEEeeCCC-Cee--EEEEEcCCCCcHHHHHHhh
Q psy6375          24 NTLVFIVHLQANKHHIKAAVKKMYDINVAKVNTLIRPD-GKK--KAYVRLARDYDALDVANKI   83 (86)
Q Consensus        24 n~~~F~V~~~a~K~eIk~ave~lf~VkV~~VnT~~~~~-~~K--KA~VtL~~g~~a~d~a~~~   83 (86)
                      +-|+-..+.+++..++++.+++ || +|.+|+...-+. |.-  =|+|++....+|......+
T Consensus         8 ~lfV~nL~~~~te~~L~~~F~~-~G-~i~~v~i~~d~~tg~~rG~aFV~f~~~~~A~~Ai~~l   68 (110)
T 3s8s_A            8 EVTFARLNDNVRETFLKDMCRK-YG-EVEEVEILLHPRTRKHLGLARVLFTSTRGAKETVKNL   68 (110)
T ss_dssp             EEEEESCCTTCCHHHHHHHHTT-TS-CEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCCHHHHHHHHHh-cC-CeeEEEEEECCCCCceeeEEEEEECCHHHHHHHHHHh
Confidence            4566777889999999999976 66 577888776543 322  3899998877766554443

>2dgv_A HnRNP M, heterogeneous nuclear ribonucleoprotein M; RRM domain, structural genomics, NPPSFA; NMR {Homo sapiens} PDB: 2dh9_A

Probab=80.29  E-value=5.4  Score=22.73  Aligned_cols=56  Identities=11%  Similarity=0.056  Sum_probs=38.1

Q ss_pred             EEEEEeCCCCHHHHHHHHHHHhCCceeeEEEeeCCC-CeeEEEEEcCCCCcHHHHHHhh
Q psy6375          26 LVFIVHLQANKHHIKAAVKKMYDINVAKVNTLIRPD-GKKKAYVRLARDYDALDVANKI   83 (86)
Q Consensus        26 ~~F~V~~~a~K~eIk~ave~lf~VkV~~VnT~~~~~-~~KKA~VtL~~g~~a~d~a~~~   83 (86)
                      |+-.++.+++..++++.++. || +|.+|......+ ..--|+|++....+|......+
T Consensus        12 ~V~nlp~~~t~~~l~~~f~~-~G-~v~~~~i~~~~g~~~g~afV~f~~~~~a~~a~~~l   68 (92)
T 2dgv_A           12 FVRNLPFDFTWKMLKDKFNE-CG-HVLYADIKMENGKSKGCGVVKFESPEVAERACRMM   68 (92)
T ss_dssp             EECSCCTTCCHHHHHHHHHT-TS-CEEEEEEEESSSCEEEEEEEEESSHHHHHHHHHHH
T ss_pred             EEeCCCCCCCHHHHHHHHHh-cC-CEEEEEEEccCCCcceEEEEEECCHHHHHHHHHHh
Confidence            34446788999999999998 55 566777665222 1235999999877766554443

>2la4_A Nuclear and cytoplasmic polyadenylated RNA-bindin PUB1; RRM, RNA recognition, stress granules, nucleus, RNA-binding, transcription; NMR {Saccharomyces cerevisiae}

Probab=80.06  E-value=4.6  Score=23.57  Aligned_cols=53  Identities=6%  Similarity=0.075  Sum_probs=37.9

Q ss_pred             EEEEEEeCCCCHHHHHHHHHHHhCCceeeEEEeeCCCCeeEEEEEcCCCCcHHHHHHh
Q psy6375          25 TLVFIVHLQANKHHIKAAVKKMYDINVAKVNTLIRPDGKKKAYVRLARDYDALDVANK   82 (86)
Q Consensus        25 ~~~F~V~~~a~K~eIk~ave~lf~VkV~~VnT~~~~~~~KKA~VtL~~g~~a~d~a~~   82 (86)
                      -|+-.++.+++..++++.++. || .|.+|... ...|+  |+|++....+|......
T Consensus        30 l~V~nlp~~~~~~~l~~~f~~-~G-~i~~~~~~-~~~g~--afV~f~~~~~A~~Ai~~   82 (101)
T 2la4_A           30 AYIGNIPHFATEADLIPLFQN-FG-FILDFKHY-PEKGC--CFIKYDTHEQAAVCIVA   82 (101)
T ss_dssp             EEEESCCTTCCHHHHHHHHHT-TS-CCSEEEEE-TTTTE--EEEECSSHHHHHHHHHH
T ss_pred             EEEcCCCcccCHHHHHHHHHh-CC-CEEEEEEe-cCCCE--EEEEECCHHHHHHHHHH
Confidence            344456789999999999987 55 36677665 34454  99999987776655544

---

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	86
d1vqos1	81	d.12.1.1 (S:1-81) Ribosomal protein L23 {Archaeon	5e-34
d2qamt1	93	d.12.1.1 (T:1-93) Ribosomal protein L23 {Escherich	1e-21
d2j01x1	93	d.12.1.1 (X:3-95) Ribosomal protein L23 {Thermus t	5e-19
d2zjrq1	93	d.12.1.1 (Q:2-94) Ribosomal protein L23 {Deinococc	3e-17

>d1vqos1 d.12.1.1 (S:1-81) Ribosomal protein L23 {Archaeon Haloarcula marismortui [TaxId: 2238]} Length = 81

class: Alpha and beta proteins (a+b)
fold: Ribosomal proteins S24e, L23 and L15e
superfamily: Ribosomal proteins S24e, L23 and L15e
family: L23p
domain: Ribosomal protein L23
species: Archaeon Haloarcula marismortui [TaxId: 2238]

 Score =  109 bits (274), Expect = 5e-34
 Identities = 35/81 (43%), Positives = 54/81 (66%)

Query: 3  AFNIIKYPLTTESAMKKIEDNNTLVFIVHLQANKHHIKAAVKKMYDINVAKVNTLIRPDG 62
          ++++IK+P  TE AM  ++  N L F V  +A+K  +  AV++ YD+ V +VNT    DG
Sbjct: 1  SWDVIKHPHVTEKAMNDMDFQNKLQFAVDDRASKGEVADAVEEQYDVTVEQVNTQNTMDG 60

Query: 63 KKKAYVRLARDYDALDVANKI 83
          +KKA VRL+ D DA +VA++I
Sbjct: 61 EKKAVVRLSEDDDAQEVASRI 81

>d2qamt1 d.12.1.1 (T:1-93) Ribosomal protein L23 {Escherichia coli [TaxId: 562]} Length = 93

class: Alpha and beta proteins (a+b)
fold: Ribosomal proteins S24e, L23 and L15e
superfamily: Ribosomal proteins S24e, L23 and L15e
family: L23p
domain: Ribosomal protein L23
species: Escherichia coli [TaxId: 562]

 Score = 79.0 bits (195), Expect = 1e-21
 Identities = 27/85 (31%), Positives = 41/85 (48%), Gaps = 13/85 (15%)

Query: 4  FNIIKYPLTTESAMKKIEDNNTLVFIVHLQANKHHIKAAVKKMYDINVAKVNTLIRP--- 60
            +++ P  +E A   +E +NT+V  V   A K  IKAAV+K++++ V  VNTL+     
Sbjct: 8  LKVLRAPHVSEKASTAMEKSNTIVLKVAKDATKAEIKAAVQKLFEVEVEVVNTLVVKGKV 67

Query: 61 ----------DGKKKAYVRLARDYD 75
                       KKAYV L    +
Sbjct: 68 KRHGQRIGRRSDWKKAYVTLKEGQN 92

>d2j01x1 d.12.1.1 (X:3-95) Ribosomal protein L23 {Thermus thermophilus [TaxId: 274]} Length = 93

class: Alpha and beta proteins (a+b)
fold: Ribosomal proteins S24e, L23 and L15e
superfamily: Ribosomal proteins S24e, L23 and L15e
family: L23p
domain: Ribosomal protein L23
species: Thermus thermophilus [TaxId: 274]

 Score = 72.0 bits (177), Expect = 5e-19
 Identities = 25/86 (29%), Positives = 37/86 (43%), Gaps = 14/86 (16%)

Query: 3  AFNIIKYPLTTESAMKKIEDNNTLVFIVHLQANKHHIKAAVKKMYDINVAKVNTLIRP-- 60
          A+++I  P+ +E A           F VH +A K  IK AV+  + + V KVNTL     
Sbjct: 2  AYDVILAPVLSEKAYAGFA-EGKYTFWVHPKATKTEIKNAVETAFKVKVVKVNTLHVRGK 60

Query: 61 -----------DGKKKAYVRLARDYD 75
                       +KKA V++A    
Sbjct: 61 KKRLGRYLGKRPDRKKAIVQVAPGQK 86

>d2zjrq1 d.12.1.1 (Q:2-94) Ribosomal protein L23 {Deinococcus radiodurans [TaxId: 1299]} Length = 93

class: Alpha and beta proteins (a+b)
fold: Ribosomal proteins S24e, L23 and L15e
superfamily: Ribosomal proteins S24e, L23 and L15e
family: L23p
domain: Ribosomal protein L23
species: Deinococcus radiodurans [TaxId: 1299]

 Score = 67.4 bits (165), Expect = 3e-17
 Identities = 22/85 (25%), Positives = 40/85 (47%), Gaps = 14/85 (16%)

Query: 4  FNIIKYPLTTESAMKKIEDNNTLVFIVHLQANKHHIKAAVKKMYDINVAKVNTLIRP--- 60
          ++I++ P+ +E A   +E      F V  +A K  IK A+++ + + V  ++T+  P   
Sbjct: 3  YDILQAPVISEKAYSAME-RGVYSFWVSPKATKTEIKDAIQQAFGVRVIGISTMNVPGKR 61

Query: 61 ----------DGKKKAYVRLARDYD 75
                    + +KKA VRLA    
Sbjct: 62 KRVGRFIGQRNDRKKAIVRLAEGQS 86

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	86
d1vqos1	81	Ribosomal protein L23 {Archaeon Haloarcula marismo	100.0
d2zjrq1	93	Ribosomal protein L23 {Deinococcus radiodurans [Ta	99.98
d2qamt1	93	Ribosomal protein L23 {Escherichia coli [TaxId: 56	99.97
d2j01x1	93	Ribosomal protein L23 {Thermus thermophilus [TaxId	99.97
d1fxla2	85	Hu antigen D (Hud) {Human (Homo sapiens) [TaxId: 9	93.28
d1fxla1	82	Hu antigen D (Hud) {Human (Homo sapiens) [TaxId: 9	92.31
d2ghpa2	75	U4/U6 snRNA-associated-splicing factor PRP24 {Bake	91.52
d1p1ta_	104	Cleavage stimulation factor, 64 kda subunit {Human	91.09
d1u6fa1	139	RNA-binding protein UBP1 {Trypanosoma cruzi [TaxId	90.94
d2cqga1	90	TAR DNA-binding protein 43, TDP-43 {Human (Homo sa	90.6
d1rk8a_	88	RNA-binding protein 8 {Fruit fly (Drosophila melan	89.96
d1h2vz_	93	CBP20, 20KDa nuclear cap-binding protein {Human (H	89.44
d3begb1	87	Splicing factor, arginine/serine-rich 1, SFRS1 {Hu	89.43
d1no8a_	78	Nuclear factor Aly {Mouse (Mus musculus) [TaxId: 1	89.12
d1wi6a1	75	Ribonucleoprotein PTB-binding 1, Raver-1 {Mouse (M	88.78
d2cqca1	83	Arginine/serine-rich splicing factor 10 {Human (Ho	88.77
d2cqba1	89	Peptidyl-prolyl cis-trans isomerase E, N-terminal	88.69
d1b7fa2	85	Sex-lethal protein {Drosophila melanogaster [TaxId	88.61
d1cvja2	89	Poly(A)-binding protein {Human (Homo sapiens) [Tax	88.33
d1x0fa1	75	Nuclear ribonucleoprotein D0 (AUF1) {Human (Homo s	87.93
d1b7fa1	82	Sex-lethal protein {Drosophila melanogaster [TaxId	87.58
d2cqia1	90	Nucleolysin TIAR {Human (Homo sapiens) [TaxId: 960	86.83
d1wf0a_	88	TAR DNA-binding protein 43, TDP-43 {Human (Homo sa	85.18
d2adca1	109	Polypyrimidine tract-binding protein {Human (Homo	84.94
d1x4ha1	98	RNA-binding protein 28 {Mouse (Mus musculus) [TaxI	84.49
d2b0ga1	83	Splicesomal U1A protein {Drosophila melanogaster [	84.48
d1x5sa1	90	Cold-inducible RNA-binding protein {Human (Homo sa	84.46
d1whwa_	99	Probable RNA-binding protein 19, Rbm19 {Mouse (Mus	83.95
d1wg1a_	88	Probable RNA-binding protein KIAA1579 {Human (Homo	83.91
d1yqba1	84	Ubiquilin-3 {Human (Homo sapiens) [TaxId: 9606]}	83.75
d2cqha1	80	IGF-II mRNA-binding protein 2 isoform A {Human (Ho	83.6
d1nu4a_	91	Splicesomal U1A protein {Human (Homo sapiens) [Tax	83.57
d1x5oa1	101	RNA-binding motif, single-stranded-interacting pro	83.43
d1wjna_	97	Tubulin-folding protein TbcE {Mouse (Mus musculus)	83.4
d2cq3a1	93	RNA-binding protein 9 {Human (Homo sapiens) [TaxId	83.23
d2bwfa1	73	DSK2 {Baker's yeast (Saccharomyces cerevisiae) [Ta	83.14
d1x5ua1	93	Splicing factor 3B subunit 4 {Human (Homo sapiens)	83.04
d2cq0a1	90	Eukaryotic translation initiation factor 3 subunit	82.76
d1hd0a_	75	Heterogeneous nuclear ribonucleoprotein d0 {Human	82.59
d2adca2	88	Polypyrimidine tract-binding protein {Human (Homo	82.45
d2cpia1	89	E3 ubiquitin protein ligase CNOT4 {Mouse (Mus musc	82.34
d2cqda1	103	RNA-binding region containing protein 1 {Human (Ho	82.17
d1j8ca_	103	Ubiquitin-like N-terminal domain of PLIC-2 {Human	82.06
d1zkha1	86	Splicing factor 3 subunit 1, C-terminal domain {Hu	81.83
d2disa1	96	Hypothetical protein FLJ20273 {Human (Homo sapiens	80.86
d2ghpa3	86	U4/U6 snRNA-associated-splicing factor PRP24 {Bake	80.72
d1weza_	102	Heterogeneous nuclear ribonucleoprotein H' {Human	80.45
d2cpha1	94	Probable RNA-binding protein 19, Rbm19 {Mouse (Mus	80.37
d2cpfa1	85	Probable RNA-binding protein 19, Rbm19 {Mouse (Mus	80.36
d1x5ta1	83	Splicing factor 3B subunit 4 {Human (Homo sapiens)	80.09

>d1vqos1 d.12.1.1 (S:1-81) Ribosomal protein L23 {Archaeon Haloarcula marismortui [TaxId: 2238]}

class: Alpha and beta proteins (a+b)
fold: Ribosomal proteins S24e, L23 and L15e
superfamily: Ribosomal proteins S24e, L23 and L15e
family: L23p
domain: Ribosomal protein L23
species: Archaeon Haloarcula marismortui [TaxId: 2238]

Probab=100.00  E-value=3e-37  Score=194.34  Aligned_cols=81  Identities=43%  Similarity=0.603  Sum_probs=78.9

Q ss_pred             ccccccccccchhhhhhhhcCCEEEEEEeCCCCHHHHHHHHHHHhCCceeeEEEeeCCCCeeEEEEEcCCCCcHHHHHHh
Q psy6375           3 AFNIIKYPLTTESAMKKIEDNNTLVFIVHLQANKHHIKAAVKKMYDINVAKVNTLIRPDGKKKAYVRLARDYDALDVANK   82 (86)
Q Consensus         3 ~~~vi~~P~~TEKs~~l~e~~n~~~F~V~~~a~K~eIk~ave~lf~VkV~~VnT~~~~~~~KKA~VtL~~g~~a~d~a~~   82 (86)
                      .|++|++|++||||+.++|.+|+|+|.|+++|||.|||+|||++|||+|.+|||+++++|+|||||+|++|++|+|+|++
T Consensus         1 ~y~iI~~P~iTEKs~~~~e~~n~y~F~V~~~A~K~~IK~AVe~lf~VkV~~Vnt~~~~~~~KkA~V~L~~~~~a~dia~k   80 (81)
T d1vqos1           1 SWDVIKHPHVTEKAMNDMDFQNKLQFAVDDRASKGEVADAVEEQYDVTVEQVNTQNTMDGEKKAVVRLSEDDDAQEVASR   80 (81)
T ss_dssp             CCCSEEEECCSHHHHHHHHHSCEEEEEECTTCCHHHHHHHHHHHHCCCEEEEEEEECTTSSEEEEEEECTTSCHHHHHTT
T ss_pred             CcceeeccccCHHHHHHHHhCCEEEEEEcCcCCHHHHHHHHHHHcCCceeEEEEeEcCCCcEEEEEEeCCCCcHHHHHhc
Confidence            48999999999999999998899999999999999999999999999999999999999999999999999999999998


Q ss_pred             h
Q psy6375          83 I   83 (86)
Q Consensus        83 ~   83 (86)
                      |
T Consensus        81 i   81 (81)
T d1vqos1          81 I   81 (81)
T ss_dssp             C
T ss_pred             C
Confidence            6

>d2zjrq1 d.12.1.1 (Q:2-94) Ribosomal protein L23 {Deinococcus radiodurans [TaxId: 1299]}

class: Alpha and beta proteins (a+b)
fold: Ribosomal proteins S24e, L23 and L15e
superfamily: Ribosomal proteins S24e, L23 and L15e
family: L23p
domain: Ribosomal protein L23
species: Deinococcus radiodurans [TaxId: 1299]

Probab=99.98  E-value=1.7e-33  Score=180.73  Aligned_cols=78  Identities=28%  Similarity=0.496  Sum_probs=72.9

Q ss_pred             CccccccccccchhhhhhhhcCCEEEEEEeCCCCHHHHHHHHHHHhCCceeeEEEeeCC-------------CCeeEEEE
Q psy6375           2 DAFNIIKYPLTTESAMKKIEDNNTLVFIVHLQANKHHIKAAVKKMYDINVAKVNTLIRP-------------DGKKKAYV   68 (86)
Q Consensus         2 ~~~~vi~~P~~TEKs~~l~e~~n~~~F~V~~~a~K~eIk~ave~lf~VkV~~VnT~~~~-------------~~~KKA~V   68 (86)
                      ++|+||++|++||||+.++|+ |+|+|.|+++|||.|||+|||++|||+|.+|||++.+             ++||||||
T Consensus         1 ~~ydvi~~P~iTEKs~~~~e~-n~y~F~V~~~atK~~Ik~ave~lf~VkV~~Vnt~~~~gK~kr~~~~~g~~~~~KKAiV   79 (93)
T d2zjrq1           1 SHYDILQAPVISEKAYSAMER-GVYSFWVSPKATKTEIKDAIQQAFGVRVIGISTMNVPGKRKRVGRFIGQRNDRKKAIV   79 (93)
T ss_dssp             CCSSSCCEECCTHHHHHHHTT-TCCEEEECSSCTHHHHHHHHHHHHCCCCSEEEECCBCCCCCSSSSCCCCCCCBEEEEE
T ss_pred             CcccEEeecccCHHHHHHHHC-CEEEEEEeCCCCHHHHHHHHHHHcCCCeEEEEEEEeCCCceEECCcceecCCCEEEEE
Confidence            479999999999999999985 9999999999999999999999999999999999987             48999999


Q ss_pred             EcCCCCcHHHHHH
Q psy6375          69 RLARDYDALDVAN   81 (86)
Q Consensus        69 tL~~g~~a~d~a~   81 (86)
                      +|++|++ ||+++
T Consensus        80 tL~~g~~-I~~~~   91 (93)
T d2zjrq1          80 RLAEGQS-IEALA   91 (93)
T ss_dssp             ECCSSCC-CSSTT
T ss_pred             EcCCcCc-ccccC
Confidence            9999987 88765

>d2qamt1 d.12.1.1 (T:1-93) Ribosomal protein L23 {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a+b)
fold: Ribosomal proteins S24e, L23 and L15e
superfamily: Ribosomal proteins S24e, L23 and L15e
family: L23p
domain: Ribosomal protein L23
species: Escherichia coli [TaxId: 562]

Probab=99.97  E-value=8.1e-33  Score=177.52  Aligned_cols=74  Identities=36%  Similarity=0.534  Sum_probs=70.8

Q ss_pred             CccccccccccchhhhhhhhcCCEEEEEEeCCCCHHHHHHHHHHHhCCceeeEEEeeCC-------------CCeeEEEE
Q psy6375           2 DAFNIIKYPLTTESAMKKIEDNNTLVFIVHLQANKHHIKAAVKKMYDINVAKVNTLIRP-------------DGKKKAYV   68 (86)
Q Consensus         2 ~~~~vi~~P~~TEKs~~l~e~~n~~~F~V~~~a~K~eIk~ave~lf~VkV~~VnT~~~~-------------~~~KKA~V   68 (86)
                      +++++|++|++||||+.++|+.|+|+|.|+++|||.|||+|||++|||+|.+|||++.+             ++||||||
T Consensus         6 ~~~~ii~~PviTEKs~~~~e~~n~ytF~V~~~AtK~eIK~ave~~f~VkV~~Vnt~~~~gK~kr~~~~~g~~~~~KKAiV   85 (93)
T d2qamt1           6 RLLKVLRAPHVSEKASTAMEKSNTIVLKVAKDATKAEIKAAVQKLFEVEVEVVNTLVVKGKVKRHGQRIGRRSDWKKAYV   85 (93)
T ss_dssp             TTCCCEEEECCCHHHHTHHHHSSCCCEEECSSCCSHHHHHHHHHTTCCCCCCCCCEEECCCEECSTTCCEECCCEEECCC
T ss_pred             HHHHHHhccccCHHHHHhHhhCCEEEEEECCCCCHHHHHHHHHHHhCCcceEEEEEEeCCceeEeCCcccccCCCEEEEE
Confidence            48899999999999999999889999999999999999999999999999999999988             48999999


Q ss_pred             EcCCCCc
Q psy6375          69 RLARDYD   75 (86)
Q Consensus        69 tL~~g~~   75 (86)
                      +|++|++
T Consensus        86 tL~~g~~   92 (93)
T d2qamt1          86 TLKEGQN   92 (93)
T ss_dssp             CCSSCCC
T ss_pred             EcCCCCc
Confidence            9999986

>d2j01x1 d.12.1.1 (X:3-95) Ribosomal protein L23 {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a+b)
fold: Ribosomal proteins S24e, L23 and L15e
superfamily: Ribosomal proteins S24e, L23 and L15e
family: L23p
domain: Ribosomal protein L23
species: Thermus thermophilus [TaxId: 274]

Probab=99.97  E-value=1.5e-33  Score=180.89  Aligned_cols=78  Identities=32%  Similarity=0.472  Sum_probs=73.1

Q ss_pred             ccccccccccchhhhhhhhcCCEEEEEEeCCCCHHHHHHHHHHHhCCceeeEEEeeCC-------------CCeeEEEEE
Q psy6375           3 AFNIIKYPLTTESAMKKIEDNNTLVFIVHLQANKHHIKAAVKKMYDINVAKVNTLIRP-------------DGKKKAYVR   69 (86)
Q Consensus         3 ~~~vi~~P~~TEKs~~l~e~~n~~~F~V~~~a~K~eIk~ave~lf~VkV~~VnT~~~~-------------~~~KKA~Vt   69 (86)
                      +||+|++|++||||+.+.|+ |+|+|.|+++|||.|||+|||++|||+|.+|||++.+             ++||||||+
T Consensus         2 aydvi~~PiiTEKs~~l~e~-n~y~F~V~~~atK~eIK~ave~~f~VkV~~Vnt~~~~gK~kr~~~~~g~~~~~KKA~V~   80 (93)
T d2j01x1           2 AYDVILAPVLSEKAYAGFAE-GKYTFWVHPKATKTEIKNAVETAFKVKVVKVNTLHVRGKKKRLGRYLGKRPDRKKAIVQ   80 (93)
T ss_dssp             CSTTCCEECCSHHHHHHHTS-SCCCEECCSSSCCTTCHHHHTTTTTCCCCCBCCCCCCCCCCSSCCCCSCCCCBCCBCCS
T ss_pred             chheeeccccCHhHhhhHhC-CeEEEEEeCCCCHHHHHHHHHHHhCCCeeEEEEEEeCCceeEeCCcccccCCCEEEEEE
Confidence            68999999999999999885 9999999999999999999999999999999999987             379999999


Q ss_pred             cCCCCcHHHHHHh
Q psy6375          70 LARDYDALDVANK   82 (86)
Q Consensus        70 L~~g~~a~d~a~~   82 (86)
                      |++|++ ||+++.
T Consensus        81 L~~g~~-I~~~~g   92 (93)
T d2j01x1          81 VAPGQK-IEALEG   92 (93)
T ss_dssp             TTTCCS-SSSTTC
T ss_pred             cCCcCE-ecccCC
Confidence            999977 888764

>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=93.28  E-value=0.13  Score=29.05  Aligned_cols=59  Identities=12%  Similarity=0.288  Sum_probs=45.7

Q ss_pred             CCEEEEEEeCCCCHHHHHHHHHHHhCCceeeEEEeeCC-CCeeE--EEEEcCCCCcHHHHHHhh
Q psy6375          23 NNTLVFIVHLQANKHHIKAAVKKMYDINVAKVNTLIRP-DGKKK--AYVRLARDYDALDVANKI   83 (86)
Q Consensus        23 ~n~~~F~V~~~a~K~eIk~ave~lf~VkV~~VnT~~~~-~~~KK--A~VtL~~g~~a~d~a~~~   83 (86)
                      .+-|+=.+++++|..++++.+++ || +|.+|..+.-+ .|.-|  |+|++....+|......|
T Consensus         7 ~~lfV~nLp~~~te~~L~~~F~~-~G-~v~~v~i~~d~~~g~~kg~afV~f~~~~~a~~Ai~~l   68 (85)
T d1fxla2           7 ANLYVSGLPKTMTQKELEQLFSQ-YG-RIITSRILVDQVTGVSRGVGFIRFDKRIEAEEAIKGL   68 (85)
T ss_dssp             CEEEEESCCTTCCHHHHHHHHGG-GS-CEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHH
T ss_pred             CEEEEeCCCCCCCHHHHHHHHHH-hC-CccccccccccccccCCCeeEEEEcCHHHHHHHHHHh
Confidence            45688889999999999999976 88 68899887644 34444  899999887776665554

>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=92.31  E-value=0.19  Score=27.73  Aligned_cols=58  Identities=12%  Similarity=0.193  Sum_probs=42.5

Q ss_pred             CEEEEEEeCCCCHHHHHHHHHHHhCCceeeEEEeeCC-CCeeE--EEEEcCCCCcHHHHHHhh
Q psy6375          24 NTLVFIVHLQANKHHIKAAVKKMYDINVAKVNTLIRP-DGKKK--AYVRLARDYDALDVANKI   83 (86)
Q Consensus        24 n~~~F~V~~~a~K~eIk~ave~lf~VkV~~VnT~~~~-~~~KK--A~VtL~~g~~a~d~a~~~   83 (86)
                      +-|+=.++.+++-.|+++.+++ || +|.+|.....+ .|..+  |+|++....+|......+
T Consensus         4 ~l~V~nLp~~~te~~l~~~f~~-~G-~v~~v~i~~~~~~~~~~g~afv~f~~~~~a~~a~~~l   64 (82)
T d1fxla1           4 NLIVNYLPQNMTQEEFRSLFGS-IG-EIESCKLVRDKITGQSLGYGFVNYIDPKDAEKAINTL   64 (82)
T ss_dssp             EEEEESCCTTCCHHHHHHHHHT-TS-CEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCCHHHHHHHHHH-hC-CcccccceeeccCCCceeeEEEEECCHHHHHHHHHHh
Confidence            3455667889999999999998 88 78888887533 33333  899999877766554443

>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=91.52  E-value=0.41  Score=26.36  Aligned_cols=50  Identities=20%  Similarity=0.123  Sum_probs=38.7

Q ss_pred             EEEEEeCCCCHHHHHHHHHHHhCCceeeEEEeeCCC-CeeEEEEEcCCCCcHH
Q psy6375          26 LVFIVHLQANKHHIKAAVKKMYDINVAKVNTLIRPD-GKKKAYVRLARDYDAL   77 (86)
Q Consensus        26 ~~F~V~~~a~K~eIk~ave~lf~VkV~~VnT~~~~~-~~KKA~VtL~~g~~a~   77 (86)
                      |+=.++.+++..+|++.+.. || +|.+|+....++ +.+-|+|++...++|.
T Consensus         4 ~V~nlp~~~t~~~l~~~F~~-~G-~I~~v~~~~~~~~~~~~afV~F~~~~~a~   54 (75)
T d2ghpa2           4 LVKNLPKSYNQNKVYKYFKH-CG-PIIHVDVADSLKKNFRFARIEFARYDGAL   54 (75)
T ss_dssp             EEEEECTTCCHHHHHHHHGG-GS-CEEEEEEEECTTSSSEEEEEEESSHHHHH
T ss_pred             EEECCCCCCCHHHHHHHHhc-CC-ceEEEEEEeeccccceEEEEEEcchHHhH
Confidence            55678899999999999988 66 777888765444 4568999998766543

>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=91.09  E-value=0.26  Score=28.53  Aligned_cols=58  Identities=16%  Similarity=0.237  Sum_probs=43.2

Q ss_pred             CEEEEEEeCCCCHHHHHHHHHHHhCCceeeEEEeeCC-CCeeE--EEEEcCCCCcHHHHHHhh
Q psy6375          24 NTLVFIVHLQANKHHIKAAVKKMYDINVAKVNTLIRP-DGKKK--AYVRLARDYDALDVANKI   83 (86)
Q Consensus        24 n~~~F~V~~~a~K~eIk~ave~lf~VkV~~VnT~~~~-~~~KK--A~VtL~~g~~a~d~a~~~   83 (86)
                      .-|+=.++.+++..||++.++. || +|.+|+...-+ .|.-+  |||++....+|......+
T Consensus        10 tl~V~nLp~~~te~~l~~~f~~-~G-~i~~v~i~~~~~tg~~~g~afV~f~~~~~a~~ai~~l   70 (104)
T d1p1ta_          10 SVFVGNIPYEATEEQLKDIFSE-VG-PVVSFRLVYDRETGKPKGYGFCEYQDQETALSAMRNL   70 (104)
T ss_dssp             CEEEESCCTTSCHHHHHHHHHT-TS-CCSEEEEEEETTTTEEEEEEEEECSCHHHHHHHHHHS
T ss_pred             EEEEECCCCcCCHHHHHHhhhc-cc-cccccccccccceeccCCceEEEECCHHHHHHHHHHc
Confidence            3566678999999999999987 77 68888876543 34333  999999887766655554

>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=90.94  E-value=0.32  Score=29.50  Aligned_cols=58  Identities=10%  Similarity=0.290  Sum_probs=43.8

Q ss_pred             CEEEEEEeCCCCHHHHHHHHHHHhCCceeeEEEeeCCC-CeeE--EEEEcCCCCcHHHHHHhh
Q psy6375          24 NTLVFIVHLQANKHHIKAAVKKMYDINVAKVNTLIRPD-GKKK--AYVRLARDYDALDVANKI   83 (86)
Q Consensus        24 n~~~F~V~~~a~K~eIk~ave~lf~VkV~~VnT~~~~~-~~KK--A~VtL~~g~~a~d~a~~~   83 (86)
                      +-|+-.++.+++..+|++.|+. || +|.+|..+..+. |.-|  |||++....+|......+
T Consensus        44 ~l~V~nLp~~~te~~l~~~F~~-~G-~i~~v~i~~d~~t~~~rg~afV~f~~~~~A~~Ai~~l  104 (139)
T d1u6fa1          44 NLMVNYIPTTVDEVQLRQLFER-YG-PIESVKIVCDRETRQSRGYGFVKFQSGSSAQQAIAGL  104 (139)
T ss_dssp             EEEEESCSTTCCHHHHHHHHHH-HS-CEEEEEEEEETTTTEEEEEEEEEESSHHHHHHHHHHT
T ss_pred             EEEEeCCCCCCCHHHHHHHHHh-hc-cccccccccccccccccceeeEEECCHHHHHHHHHHh
Confidence            4777888899999999999988 77 788888876443 4333  999999877765544443

>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=90.60  E-value=0.27  Score=28.23  Aligned_cols=57  Identities=14%  Similarity=0.239  Sum_probs=43.4

Q ss_pred             CCEEEEEEeCCCCHHHHHHHHHHHhCCceeeEEEeeCCC-Cee--EEEEEcCCCCcHHHHHH
Q psy6375          23 NNTLVFIVHLQANKHHIKAAVKKMYDINVAKVNTLIRPD-GKK--KAYVRLARDYDALDVAN   81 (86)
Q Consensus        23 ~n~~~F~V~~~a~K~eIk~ave~lf~VkV~~VnT~~~~~-~~K--KA~VtL~~g~~a~d~a~   81 (86)
                      .+-|+--++.++|..+|++.++. || +|.+|+...-+. |.-  =|+|++....+|....+
T Consensus         9 ~~lfV~nLp~~~te~~l~~~F~~-~G-~i~~v~i~~d~~tg~srG~aFV~f~~~~~a~~al~   68 (90)
T d2cqga1           9 SDLIVLGLPWKTTEQDLKEYFST-FG-EVLMVQVKKDLKTGHSKGFGFVRFTEYETQVKVMS   68 (90)
T ss_dssp             CCEEEESCCSSCCHHHHHHHHGG-GS-CEEEEEEEECSSSCSEEEEEEEEESSHHHHHHHHH
T ss_pred             CeEEEECCCCCCCHHHHHHHHHh-hc-ccceeeeccCCCCcccCCEEEEEECCHHHHHHHHh
Confidence            35677888999999999999998 88 788998876442 322  48999988776655543

>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=89.96  E-value=0.39  Score=27.09  Aligned_cols=57  Identities=19%  Similarity=0.297  Sum_probs=41.3

Q ss_pred             EEEEEEeCCCCHHHHHHHHHHHhCCceeeEEEeeCCC-CeeE--EEEEcCCCCcHHHHHHhh
Q psy6375          25 TLVFIVHLQANKHHIKAAVKKMYDINVAKVNTLIRPD-GKKK--AYVRLARDYDALDVANKI   83 (86)
Q Consensus        25 ~~~F~V~~~a~K~eIk~ave~lf~VkV~~VnT~~~~~-~~KK--A~VtL~~g~~a~d~a~~~   83 (86)
                      -|+-.++.+++..+|++.++. || +|.+|+...-+. |.-+  |||++....+|......+
T Consensus        10 l~V~nL~~~~t~~~l~~~F~~-~G-~i~~v~i~~d~~tg~~~g~afV~f~~~~~A~~A~~~l   69 (88)
T d1rk8a_          10 LFVTSIHEEAQEDEIQEKFCD-YG-EIKNIHLNLDRRTGFSKGYALVEYETHKQALAAKEAL   69 (88)
T ss_dssp             EEEESCCTTCCHHHHHHHHGG-GS-CEEEEEEEECTTTSSEEEEEEEEESSHHHHHHHHHHH
T ss_pred             EEEeCCCCCCCHHHHHHHHHH-cC-CcccccccccccccccccceeEEECCHHHHHHHHHHc
Confidence            344557889999999999976 88 688898776442 3323  999999887766655443

>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=89.44  E-value=0.47  Score=27.07  Aligned_cols=56  Identities=14%  Similarity=0.087  Sum_probs=41.5

Q ss_pred             EEEEEeCCCCHHHHHHHHHHHhCCceeeEEEeeCCC-CeeE--EEEEcCCCCcHHHHHHhh
Q psy6375          26 LVFIVHLQANKHHIKAAVKKMYDINVAKVNTLIRPD-GKKK--AYVRLARDYDALDVANKI   83 (86)
Q Consensus        26 ~~F~V~~~a~K~eIk~ave~lf~VkV~~VnT~~~~~-~~KK--A~VtL~~g~~a~d~a~~~   83 (86)
                      |+=.++.++|..+|++.+++ || +|.+|+...-+. |.-|  |+|++....+|......+
T Consensus        11 fV~nlp~~~te~~l~~~F~~-~G-~i~~v~i~~~~~~~~~kg~afV~f~~~~~A~~Ai~~l   69 (93)
T d1h2vz_          11 YVGNLSFYTTEEQIYELFSK-SG-DIKKIIMGLDKMKKTACGFCFVEYYSRADAENAMRYI   69 (93)
T ss_dssp             EEESCCTTCCHHHHHHHHGG-GS-CEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHT
T ss_pred             EEeCCCCCCCHHHHHHHHHH-HC-CcceeccccccccccccceEEEEECCHHHHHHHHHHh
Confidence            44457889999999999987 78 688998876443 3333  999999877766655443

>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=89.43  E-value=0.5  Score=26.56  Aligned_cols=53  Identities=17%  Similarity=0.213  Sum_probs=39.7

Q ss_pred             EEEEEEeCCCCHHHHHHHHHHHhCCceeeEEEeeCCCCeeEEEEEcCCCCcHHHHHHhh
Q psy6375          25 TLVFIVHLQANKHHIKAAVKKMYDINVAKVNTLIRPDGKKKAYVRLARDYDALDVANKI   83 (86)
Q Consensus        25 ~~~F~V~~~a~K~eIk~ave~lf~VkV~~VnT~~~~~~~KKA~VtL~~g~~a~d~a~~~   83 (86)
                      -|+=.++++++..|+++.|++ || +|.++..  .++|+  |+|++....+|.....+|
T Consensus         3 vfV~nlp~~~~~~~l~~~F~~-~G-~v~~~~i--~~~g~--afV~f~~~~~a~~Ai~~l   55 (87)
T d3begb1           3 VVVSGLPPSGSWQDLKDHMRE-AG-DVCYADV--YRDGT--GVVEFVRKEDMTYAVRKL   55 (87)
T ss_dssp             EEEEECCSSCCTTHHHHHHGG-GS-CEEEEEE--CTTSE--EEEEESSHHHHHHHHHHH
T ss_pred             EEEECCCCcCCHHHHHHHHhh-hc-ccccccc--cccce--eeEEeCCHHHHHHHHHHh
Confidence            456678899999999999986 56 4667663  34565  999999887776655554

>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=89.12  E-value=0.41  Score=26.38  Aligned_cols=55  Identities=20%  Similarity=0.265  Sum_probs=40.0

Q ss_pred             EEEEEeCCCCHHHHHHHHHHHhCCceeeEEEeeCCCC--eeEEEEEcCCCCcHHHHHHh
Q psy6375          26 LVFIVHLQANKHHIKAAVKKMYDINVAKVNTLIRPDG--KKKAYVRLARDYDALDVANK   82 (86)
Q Consensus        26 ~~F~V~~~a~K~eIk~ave~lf~VkV~~VnT~~~~~~--~KKA~VtL~~g~~a~d~a~~   82 (86)
                      |+=..+++++..++++.++. || +|.+|.....+.|  .-=|||++....+|......
T Consensus         4 ~V~nLp~~~~~~~l~~~F~~-~G-~v~~~~i~~~~~g~~~g~afV~f~~~~~A~~Ai~~   60 (78)
T d1no8a_           4 LVSNLDFGVSDADIQELFAE-FG-TLKKAAVHYDRSGRSLGTADVHFERKADALKAMKQ   60 (78)
T ss_dssp             EEESCCTTCCHHHHHHHHHH-HS-CEEEEEESCSSCCCSCCEEEEEESCHHHHHHHHHH
T ss_pred             EEECCCCCCCHHHHHHHHHH-hC-CCeEEEEEEeeccccceeEEEEECCHHHHHHHHHH
Confidence            34456889999999999987 66 5778887654443  22599999987776665444

>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=88.78  E-value=0.38  Score=26.55  Aligned_cols=52  Identities=15%  Similarity=0.211  Sum_probs=37.7

Q ss_pred             EEEEEeCCCCHHHHHHHHHHHhCCceeeEEEeeCCCCeeEEEEEcCCCCcHHHHHHhh
Q psy6375          26 LVFIVHLQANKHHIKAAVKKMYDINVAKVNTLIRPDGKKKAYVRLARDYDALDVANKI   83 (86)
Q Consensus        26 ~~F~V~~~a~K~eIk~ave~lf~VkV~~VnT~~~~~~~KKA~VtL~~g~~a~d~a~~~   83 (86)
                      |+-.++++.+..||++.++. ||+..  +.+ ...+|+  |+|++....+|......+
T Consensus         2 ~V~nLp~~~t~~~l~~~F~~-~g~~~--~~~-~~~~g~--afv~f~~~~~A~~Ai~~l   53 (75)
T d1wi6a1           2 LIRGLPGDVTNQEVHDLLSD-YELKY--CFV-DKYKGT--AFVTLLNGEQAEAAINTF   53 (75)
T ss_dssp             EEECCCTTCCHHHHHHHTTT-SCEEE--EEE-ETTTTE--EEEEESSHHHHHHHHHHH
T ss_pred             EEeCCCCcCCHHHHHHHHhc-ccccc--eee-ccccee--EEEEECCHHHHHHHHHHh
Confidence            45567889999999999987 68443  333 345565  999999888877766554

>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=88.77  E-value=0.56  Score=25.92  Aligned_cols=57  Identities=19%  Similarity=0.297  Sum_probs=41.5

Q ss_pred             CEEEEEEeCCCCHHHHHHHHHHHhCCceeeEEEeeCCC-Ce-e-EEEEEcCCCCcHHHHHHh
Q psy6375          24 NTLVFIVHLQANKHHIKAAVKKMYDINVAKVNTLIRPD-GK-K-KAYVRLARDYDALDVANK   82 (86)
Q Consensus        24 n~~~F~V~~~a~K~eIk~ave~lf~VkV~~VnT~~~~~-~~-K-KA~VtL~~g~~a~d~a~~   82 (86)
                      .-|+--.+.++|..+|++.+++ || +|.+|....-+. |. | =|||++....+|......
T Consensus        11 ~l~V~nL~~~~te~~l~~~F~~-~G-~i~~v~i~~~~~~~~~~g~afV~f~~~~~A~~Ai~~   70 (83)
T d2cqca1          11 CLGVFGLSLYTTERDLREVFSK-YG-PIADVSIVYDQQSRRSRGFAFVYFENVDDAKEAKER   70 (83)
T ss_dssp             CEEEESCCSSCCHHHHHHHHHT-TS-CEEEEEEEECSSSSSEEEEEEEEESSHHHHHHHHHH
T ss_pred             EEEEeCCCCCCCHHHHHHHHHH-hC-CCccccccccccccccccceEEEECCHHHHHHHHHH
Confidence            3566677899999999999977 77 688887765432 21 2 399999988776655443

>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=88.69  E-value=0.15  Score=28.94  Aligned_cols=58  Identities=14%  Similarity=0.174  Sum_probs=41.8

Q ss_pred             CEEEEEEeCCCCHHHHHHHHHHHhCCceeeEEEeeCCC-Cee--EEEEEcCCCCcHHHHHHhh
Q psy6375          24 NTLVFIVHLQANKHHIKAAVKKMYDINVAKVNTLIRPD-GKK--KAYVRLARDYDALDVANKI   83 (86)
Q Consensus        24 n~~~F~V~~~a~K~eIk~ave~lf~VkV~~VnT~~~~~-~~K--KA~VtL~~g~~a~d~a~~~   83 (86)
                      .-|+=.++.++|..+|++.++. || +|.+|+...-+. |.-  =|||++....+|......+
T Consensus         7 tlfV~nLp~~~te~~l~~~F~~-~G-~i~~v~i~~d~~~~~~kg~afV~f~~~~~A~~ai~~l   67 (89)
T d2cqba1           7 VLYVGGLAEEVDDKVLHAAFIP-FG-DITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDNM   67 (89)
T ss_dssp             CEEEESCCSSCCHHHHHHHHTT-TS-CCCCEECCCCSSSCCCSSEEEECCSSHHHHHHHHHHH
T ss_pred             EEEEeCCCCcCCHHHHHHHHhh-CC-eEEecccccccccccccceeEEEECCHHHHHHHHHHc
Confidence            3456667889999999999986 77 788888765332 222  2999999887766655443

>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=88.61  E-value=0.47  Score=26.41  Aligned_cols=59  Identities=19%  Similarity=0.281  Sum_probs=44.1

Q ss_pred             CCEEEEEEeCCCCHHHHHHHHHHHhCCceeeEEEeeCCC-Cee--EEEEEcCCCCcHHHHHHhh
Q psy6375          23 NNTLVFIVHLQANKHHIKAAVKKMYDINVAKVNTLIRPD-GKK--KAYVRLARDYDALDVANKI   83 (86)
Q Consensus        23 ~n~~~F~V~~~a~K~eIk~ave~lf~VkV~~VnT~~~~~-~~K--KA~VtL~~g~~a~d~a~~~   83 (86)
                      .+-|+=.++.+.|..++++.+++ || +|.+++...-+. |.-  =|||++....+|......+
T Consensus         7 t~lfV~nlp~~~te~~l~~~F~~-~G-~i~~~~~~~d~~~g~~~g~afV~f~~~~~A~~Ai~~l   68 (85)
T d1b7fa2           7 TNLYVTNLPRTITDDQLDTIFGK-YG-SIVQKNILRDKLTGRPRGVAFVRYNKREEAQEAISAL   68 (85)
T ss_dssp             CEEEEESCCTTCCHHHHHHHHTS-SS-CEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHH
T ss_pred             CEEEEeCCCCCCCHHHHHHHHHh-hC-CEeeeeeecccccccCceeEEEEECCHHHHHHHHHHH
Confidence            34566668999999999999988 78 788998775432 322  3999999887777665554

>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=88.33  E-value=0.3  Score=27.60  Aligned_cols=59  Identities=12%  Similarity=0.238  Sum_probs=42.7

Q ss_pred             CCEEEEEEeCCCCHHHHHHHHHHHhCCceeeEEEeeCCCCee-EEEEEcCCCCcHHHHHHhh
Q psy6375          23 NNTLVFIVHLQANKHHIKAAVKKMYDINVAKVNTLIRPDGKK-KAYVRLARDYDALDVANKI   83 (86)
Q Consensus        23 ~n~~~F~V~~~a~K~eIk~ave~lf~VkV~~VnT~~~~~~~K-KA~VtL~~g~~a~d~a~~~   83 (86)
                      .|-|+-..+.+++..++++.+.. || .|.++......++.| =|||++....+|......+
T Consensus         9 ~~l~V~nLp~~~t~~~l~~~F~~-~G-~v~~~~i~~~~~~~kg~afV~f~~~~~A~~Ai~~l   68 (89)
T d1cvja2           9 GNIFIKNLDKSIDNKALYDTFSA-FG-NILSCKVVCDENGSKGYGFVHFETQEAAERAIEKM   68 (89)
T ss_dssp             TEEEEESCCSSCCHHHHHHHHHT-TS-CEEEEEECCBTTBCCSCEEEEESCHHHHHHHTTSS
T ss_pred             CEEEEeCCCCCCCHHHHHHHHHh-cC-CceEEEEEeecCCCcceeEEEECCHHHHHHHHHHc
Confidence            46788889999999999999987 55 466776655443211 4999999887766554443

>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=87.93  E-value=0.48  Score=26.25  Aligned_cols=53  Identities=8%  Similarity=0.164  Sum_probs=37.2

Q ss_pred             EEEEEeCCCCHHHHHHHHHHHhCCceeeEEEeeCCC-Cee--EEEEEcCCCCcHHHHH
Q psy6375          26 LVFIVHLQANKHHIKAAVKKMYDINVAKVNTLIRPD-GKK--KAYVRLARDYDALDVA   80 (86)
Q Consensus        26 ~~F~V~~~a~K~eIk~ave~lf~VkV~~VnT~~~~~-~~K--KA~VtL~~g~~a~d~a   80 (86)
                      |+=.++.++|..+|++.+++ || +|.+|....-+. |.-  =|+|++....+|....
T Consensus         3 fVgnLp~~~te~~l~~~F~~-~G-~I~~v~i~~d~~t~~~rG~~FV~f~~~~~a~~al   58 (75)
T d1x0fa1           3 FVGGLSPDTPEEKIREYFGG-FG-EVESIELPMDNKTNKRRGFCFITFKEEEPVKKIM   58 (75)
T ss_dssp             EEESCCSSCCHHHHHHHHHH-HS-CEEEEECCCCTTTCCTTCCEEEEESSSHHHHHHT
T ss_pred             EEcCCCCCCCHHHHHHHHHH-hC-CcccccccccccccccccEEEEEECCHHHHHHHH
Confidence            33456889999999999999 66 677777655432 211  2999999876655543

>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=87.58  E-value=0.69  Score=25.31  Aligned_cols=57  Identities=12%  Similarity=0.171  Sum_probs=41.4

Q ss_pred             CEEEEEEeCCCCHHHHHHHHHHHhCCceeeEEEeeCC-CCee--EEEEEcCCCCcHHHHHHh
Q psy6375          24 NTLVFIVHLQANKHHIKAAVKKMYDINVAKVNTLIRP-DGKK--KAYVRLARDYDALDVANK   82 (86)
Q Consensus        24 n~~~F~V~~~a~K~eIk~ave~lf~VkV~~VnT~~~~-~~~K--KA~VtL~~g~~a~d~a~~   82 (86)
                      +-|+-..+++.+..||++.+++ || +|.+|+...-+ .|.-  =|+|++....+|......
T Consensus         4 ~l~V~nLp~~~t~~~l~~~F~~-~G-~v~~~~i~~~~~~g~~~g~afV~f~~~~~A~~ai~~   63 (82)
T d1b7fa1           4 NLIVNYLPQDMTDRELYALFRA-IG-PINTCRIMRDYKTGYSYGYAFVDFTSEMDSQRAIKV   63 (82)
T ss_dssp             EEEEECCCTTCCHHHHHHHHHT-TS-CEEEEECCEETTTTEECSEEEEEESSHHHHHHHHHH
T ss_pred             EEEEeCCCCCCCHHHHHHHHHH-hC-CcceeeeeeecccCCccccceEEECCHHHHHHHHHH
Confidence            4567778899999999999987 66 57788776533 3322  399999988776655443

>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=86.83  E-value=0.97  Score=25.33  Aligned_cols=56  Identities=9%  Similarity=0.055  Sum_probs=39.7

Q ss_pred             EEEEEeCCCCHHHHHHHHHHHhCCceeeEEEeeCC-CCeeEEEEEcCCCCcHHHHHHhh
Q psy6375          26 LVFIVHLQANKHHIKAAVKKMYDINVAKVNTLIRP-DGKKKAYVRLARDYDALDVANKI   83 (86)
Q Consensus        26 ~~F~V~~~a~K~eIk~ave~lf~VkV~~VnT~~~~-~~~KKA~VtL~~g~~a~d~a~~~   83 (86)
                      |+=.++.++|..+|++.++. || +|.+|....-+ .+..-|||++....+|....+.+
T Consensus        12 ~V~nLp~~~te~~l~~~F~~-~G-~i~~v~i~~d~~~~~~~afV~f~~~~~A~~A~~~l   68 (90)
T d2cqia1          12 YVGNLSRDVTEVLILQLFSQ-IG-PCKSCKMITEHTSNDPYCFVEFYEHRDAAAALAAM   68 (90)
T ss_dssp             EEESCCTTCCHHHHHHHHHH-HS-CEEEEEEECCCCSSCCEEEEEESSHHHHHHHHHHH
T ss_pred             EEECCCCCCCHHHHHHHHHh-cC-CceeeeeecccCccceeeEEEECCHHHHHHHHHHc
Confidence            34446799999999999988 56 57787765433 23345999999877766655543

>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=85.18  E-value=0.19  Score=28.49  Aligned_cols=49  Identities=18%  Similarity=0.127  Sum_probs=35.9

Q ss_pred             CEEEEEEeCCCCHHHHHHHHHHHhCCceeeEEEeeCCCCeeEEEEEcCCCCcH
Q psy6375          24 NTLVFIVHLQANKHHIKAAVKKMYDINVAKVNTLIRPDGKKKAYVRLARDYDA   76 (86)
Q Consensus        24 n~~~F~V~~~a~K~eIk~ave~lf~VkV~~VnT~~~~~~~KKA~VtL~~g~~a   76 (86)
                      +-|+=.++.++|..++++.|++ || +|.+|.......||  |||++....+|
T Consensus         7 ~lfV~nLp~~~te~~L~~~F~~-~G-~v~~v~~~~~~~gf--afV~f~~~~~a   55 (88)
T d1wf0a_           7 GVFVGRCTGDMTEDELREFFSQ-YG-DVMDVFIPKPFRAF--AFVTFADDQIA   55 (88)
T ss_dssp             EEEEESCCSSSCHHHHHHHSTT-TS-CCCEEECCSSCCSC--CEEECSCHHHH
T ss_pred             EEEEeCCCCCCCHHHHHHHHHH-cC-CceEEEEeeccCce--EEEEECCHHHH
Confidence            4566677889999999999988 56 56677655545555  99999865443

>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=84.94  E-value=1.1  Score=25.64  Aligned_cols=50  Identities=16%  Similarity=0.237  Sum_probs=36.0

Q ss_pred             EeCC-CCHHHHHHHHHHHhCCceeeEEEeeCCCCeeEEEEEcCCCCcHHHHHHhh
Q psy6375          30 VHLQ-ANKHHIKAAVKKMYDINVAKVNTLIRPDGKKKAYVRLARDYDALDVANKI   83 (86)
Q Consensus        30 V~~~-a~K~eIk~ave~lf~VkV~~VnT~~~~~~~KKA~VtL~~g~~a~d~a~~~   83 (86)
                      .+++ .|..++++.+.. || +|.+|..+.-.+|  -|+|++....+|......+
T Consensus        10 L~p~~~te~~L~~~F~~-fG-~I~~v~i~~~~kg--~afV~f~~~~~A~~ai~~l   60 (109)
T d2adca1          10 LNPERVTPQSLFILFGV-YG-DVQRVKILFNKKE--NALVQMADGNQAQLAMSHL   60 (109)
T ss_dssp             CCTTTCCHHHHHHHHHH-HT-CEEEEEECCTTSC--CEEEEESCHHHHHHHHHHH
T ss_pred             CCcccCCHHHHHHHHhh-cc-ccceEEEEecccc--eEEEEECCHHHHHHHHHHh
Confidence            4444 688899998886 77 7888887765545  4999999877766555443

>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=84.49  E-value=1.1  Score=25.08  Aligned_cols=57  Identities=9%  Similarity=0.243  Sum_probs=40.6

Q ss_pred             EEEEEEeCCCCHHHHHHHHHHHhCCceeeEEEeeCCC-Cee--EEEEEcCCCCcHHHHHHhh
Q psy6375          25 TLVFIVHLQANKHHIKAAVKKMYDINVAKVNTLIRPD-GKK--KAYVRLARDYDALDVANKI   83 (86)
Q Consensus        25 ~~~F~V~~~a~K~eIk~ave~lf~VkV~~VnT~~~~~-~~K--KA~VtL~~g~~a~d~a~~~   83 (86)
                      -|+=.++.++|..+|++.++.. | ++.++.....+. +..  =|+|++....+|......+
T Consensus        11 lfV~nLp~~~te~~l~~~f~~~-G-~v~~~~~~~~~~~~~~~g~afV~F~~~~~a~~ai~~l   70 (98)
T d1x4ha1          11 VFIRNLSFDSEEEALGEVLQQF-G-DLKYVRVVLHPDTEHSKGCAFAQFMTQEAAQKCLAAA   70 (98)
T ss_dssp             EEEESCCTTCCHHHHHHHHHTT-S-CEEEEECCBCSSSCCBCSEEEEEESSHHHHHHHHHHH
T ss_pred             EEEcCCCCcCCHHHHHHHHhcc-c-cceeeeeccccccccccceEEEEEcCHHHHHHHHHHc
Confidence            4666788999999999999984 4 466666554433 222  4999999887776665544

>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=84.48  E-value=0.69  Score=25.62  Aligned_cols=54  Identities=7%  Similarity=0.175  Sum_probs=40.2

Q ss_pred             EEEEEeCCCCHHHHHHHHHHHhCCceeeEEEeeCCCCeeEEEEEcCCCCcHHHHHHhh
Q psy6375          26 LVFIVHLQANKHHIKAAVKKMYDINVAKVNTLIRPDGKKKAYVRLARDYDALDVANKI   83 (86)
Q Consensus        26 ~~F~V~~~a~K~eIk~ave~lf~VkV~~VnT~~~~~~~KKA~VtL~~g~~a~d~a~~~   83 (86)
                      |+-.++.+.+..++++.++. || .|.+|+.....+|  =|+|.+....+|......|
T Consensus        12 ~V~nLp~~~t~~~l~~~f~~-~G-~i~~v~~~~~~~g--~afV~f~~~~~A~~A~~~l   65 (83)
T d2b0ga1          12 FLTNLPEETNEMMLSMLFNQ-FP-GFKEVRLVPNRHD--IAFVEFTTELQSNAAKEAL   65 (83)
T ss_dssp             EEESCCTTCCHHHHHHHHTT-ST-TEEEEEECTTTCS--CEEEEESSHHHHHHHHHHH
T ss_pred             EEECCCCCCCHHHHHhhhcc-Cc-cEEEeeeecccce--eEEEecCCHHHHHHHHHHh
Confidence            45567889999999999876 67 6778877654445  4999999887776665544

>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=84.46  E-value=0.9  Score=25.30  Aligned_cols=56  Identities=16%  Similarity=0.240  Sum_probs=38.3

Q ss_pred             EEEEEEeCCCCHHHHHHHHHHHhCCceeeEEEeeCCCCee---EEEEEcCCCCcHHHHHHh
Q psy6375          25 TLVFIVHLQANKHHIKAAVKKMYDINVAKVNTLIRPDGKK---KAYVRLARDYDALDVANK   82 (86)
Q Consensus        25 ~~~F~V~~~a~K~eIk~ave~lf~VkV~~VnT~~~~~~~K---KA~VtL~~g~~a~d~a~~   82 (86)
                      -|+=.++++++..+|++.++. || +|.++.....+...+   =|||.+....+|......
T Consensus         8 ifV~nLp~~~t~~~l~~~F~~-~G-~i~~~~~~~~~~~~~~~g~afV~f~~~~~a~~Ai~~   66 (90)
T d1x5sa1           8 LFVGGLSFDTNEQSLEQVFSK-YG-QISEVVVVKDRETQRSRGFGFVTFENIDDAKDAMMA   66 (90)
T ss_dssp             EEEESCCTTCCHHHHHHHHHH-HS-CCCEEEECCCSSSCSCCSEEEEECSSHHHHHHHHHH
T ss_pred             EEEECCCCcCCHHHHHHhhhc-cc-cccceeeccccccccccceEEEEECCHHHHHHHHHH
Confidence            344568899999999999998 66 466776554332111   299999977666554443

>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=83.95  E-value=0.92  Score=25.83  Aligned_cols=57  Identities=12%  Similarity=0.157  Sum_probs=38.8

Q ss_pred             EEEEEEeCCCCHHHHHHHHHHHhCCceeeEEEeeCCC-Cee--EEEEEcCCCCcHHHHHHhh
Q psy6375          25 TLVFIVHLQANKHHIKAAVKKMYDINVAKVNTLIRPD-GKK--KAYVRLARDYDALDVANKI   83 (86)
Q Consensus        25 ~~~F~V~~~a~K~eIk~ave~lf~VkV~~VnT~~~~~-~~K--KA~VtL~~g~~a~d~a~~~   83 (86)
                      -|+=.++.+++..+|++.+++ || +|.+|....-+. |.-  =|||++....+|.....++
T Consensus        11 lfV~nL~~~~t~~~l~~~F~~-~g-~v~~v~i~~d~~tg~~~g~afV~f~~~~~a~~A~~~l   70 (99)
T d1whwa_          11 LFVRNLSYTSSEEDLEKLFSA-YG-PLSELHYPIDSLTKKPKGFAFVTFMFPEHAVKAYAEV   70 (99)
T ss_dssp             EEEECCCTTCCHHHHHHHHHT-TS-CEEEEECCCCTTTCCCCSEEEEEESSHHHHHHHHHHT
T ss_pred             EEEECCCCcCCHHHHHHHHHh-cC-CceeeeecccccccccCcceEEEECCHHHHHHHHHHc
Confidence            455567889999999999987 66 467777654321 211  3999998776665544443

>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=83.91  E-value=0.3  Score=27.73  Aligned_cols=54  Identities=22%  Similarity=0.308  Sum_probs=39.7

Q ss_pred             CEEEEEEeCCCCHHHHHHHHHHHhCCceeeEEEeeCCCCeeEEEEEcCCCCcHHHHHHhh
Q psy6375          24 NTLVFIVHLQANKHHIKAAVKKMYDINVAKVNTLIRPDGKKKAYVRLARDYDALDVANKI   83 (86)
Q Consensus        24 n~~~F~V~~~a~K~eIk~ave~lf~VkV~~VnT~~~~~~~KKA~VtL~~g~~a~d~a~~~   83 (86)
                      .-|+-..+.+++..||++.++. ||+++..+.   ..+|+  |+|++....+|......+
T Consensus         7 ~i~V~nLp~~~t~~~l~~lF~~-~G~~~~~~~---~~kg~--afV~f~~~~~A~~Ai~~l   60 (88)
T d1wg1a_           7 GILVKNLPQDSNCQEVHDLLKD-YDLKYCYVD---RNKRT--AFVTLLNGEQAQNAIQMF   60 (88)
T ss_dssp             CEEEESCCSSCCHHHHHHHTCS-SCCCCEEEE---GGGTE--EEECCSCHHHHHHHHHHH
T ss_pred             EEEEeCCCCccChHHHHHHHHh-cCceeeeee---ccCCc--eEEEECCHHHHHHHHHHh
Confidence            4677788999999999999986 886554432   33454  999998887776665544

>d1yqba1 d.15.1.1 (A:15-98) Ubiquilin-3 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: Ubiquilin-3
species: Human (Homo sapiens) [TaxId: 9606]

Probab=83.75  E-value=1.1  Score=25.26  Aligned_cols=35  Identities=9%  Similarity=0.180  Sum_probs=32.8

Q ss_pred             CEEEEEEeCCCCHHHHHHHHHHHhCCceeeEEEee
Q psy6375          24 NTLVFIVHLQANKHHIKAAVKKMYDINVAKVNTLI   58 (86)
Q Consensus        24 n~~~F~V~~~a~K~eIk~ave~lf~VkV~~VnT~~   58 (86)
                      +++.|.|+++.+=.++|+.|+..+|+.+...+.+.
T Consensus        17 ~~~~~~V~~~~tV~~lK~~i~~~~gi~~~~qrL~~   51 (84)
T d1yqba1          17 DKEDFSVTDTCTIQQLKEEISQRFKAHPDQLVLIF   51 (84)
T ss_dssp             CEEEEEEETTCBHHHHHHHHHHHHTCCGGGEEEEE
T ss_pred             CcEEEEECCCCcHHHHHHHHHHHHCcCchhEEEEE
Confidence            68899999999999999999999999999988775

>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=83.60  E-value=0.7  Score=25.53  Aligned_cols=55  Identities=9%  Similarity=0.111  Sum_probs=41.1

Q ss_pred             CEEEEEEeCCCCHHHHHHHHHHHhCCceeeEEEeeCCCCeeEEEEEcCCCCcHHHHHHhh
Q psy6375          24 NTLVFIVHLQANKHHIKAAVKKMYDINVAKVNTLIRPDGKKKAYVRLARDYDALDVANKI   83 (86)
Q Consensus        24 n~~~F~V~~~a~K~eIk~ave~lf~VkV~~VnT~~~~~~~KKA~VtL~~g~~a~d~a~~~   83 (86)
                      .-|+-..+.+++..|+++.+++ ||. |.++.+.. ++|+  |+|++....+|......+
T Consensus         3 ~l~V~nLp~~~te~~L~~~F~~-~G~-i~~~~~~~-~rg~--aFV~f~~~~~A~~Ai~~l   57 (80)
T d2cqha1           3 KLYIGNLSPAVTADDLRQLFGD-RKL-PLAGQVLL-KSGY--AFVDYPDQNWAIRAIETL   57 (80)
T ss_dssp             CEEEECCCTTCCHHHHHHHHHH-TTC-CCSSCEEE-ETTE--EEECCSCHHHHHHHHHHH
T ss_pred             EEEEECCCCCCCHHHHHHHHHH-hCc-EEEeEEec-ccce--EEEEECCHHHHHHHHHHh
Confidence            3567778899999999999988 674 34455544 3565  999999888877766655

>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=83.57  E-value=0.16  Score=29.00  Aligned_cols=58  Identities=9%  Similarity=0.145  Sum_probs=40.9

Q ss_pred             EEEEEeCCCCHHHHHHHHHHHhCC--ceeeEEEeeCCCCeeEEEEEcCCCCcHHHHHHhh
Q psy6375          26 LVFIVHLQANKHHIKAAVKKMYDI--NVAKVNTLIRPDGKKKAYVRLARDYDALDVANKI   83 (86)
Q Consensus        26 ~~F~V~~~a~K~eIk~ave~lf~V--kV~~VnT~~~~~~~KKA~VtL~~g~~a~d~a~~~   83 (86)
                      |+=..+++++..||++.+..+|+-  +|.+|..........-|||++....+|....+.+
T Consensus         7 ~V~nLp~~~t~~dl~~~l~~~f~~~G~i~~i~~~~~~~~~g~afV~F~~~~~A~~A~~~~   66 (91)
T d1nu4a_           7 YINNLNEKIKKDELKKSLHAIFSRFGQILDILVSRSLKMRGQAFVIFKEVSSATNALRSM   66 (91)
T ss_dssp             EEESCCTTSCHHHHHHHHHHHHGGGSCEEEEECCHHHHHTTCEEEEESSHHHHHHHHHHH
T ss_pred             EEeCCCCCCCHHHHHHHHHHHhcccccccceEEeeeccCCCceEEEECCHHHHHHHHHHh
Confidence            444467899999999999988875  7777765432111224999999888877666554

>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=83.43  E-value=0.83  Score=26.25  Aligned_cols=58  Identities=14%  Similarity=0.268  Sum_probs=42.4

Q ss_pred             CEEEEEEeCCCCHHHHHHHHHHHhCCceeeEEEeeCCCC--eeEEEEEcCCCCcHHHHHHhh
Q psy6375          24 NTLVFIVHLQANKHHIKAAVKKMYDINVAKVNTLIRPDG--KKKAYVRLARDYDALDVANKI   83 (86)
Q Consensus        24 n~~~F~V~~~a~K~eIk~ave~lf~VkV~~VnT~~~~~~--~KKA~VtL~~g~~a~d~a~~~   83 (86)
                      +-|+-.++.+++..+|++.++. || +|..+.......+  .-=|+|++....+|......+
T Consensus        20 ~lfV~nLp~~~te~~L~~~F~~-~G-~i~~~~~~~~~~~~~~g~afV~f~~~~~A~~Ai~~l   79 (101)
T d1x5oa1          20 NLYISNLPLSMDEQELENMLKP-FG-QVISTRILRDSSGTSRGVGFARMESTEKCEAVIGHF   79 (101)
T ss_dssp             EEEEESCCTTCCHHHHHHTTTT-TS-CEEEEEEEECSSSCEEEEEEEEESCHHHHHHHHHHH
T ss_pred             EEEEeCCCCCCCHHHHHHHHhh-cc-cccceeeecccccccccceeEEeCCHHHHHHHHHHh
Confidence            5677788999999999999887 66 4666666654443  234999999887776655543

>d1wjna_ d.15.1.1 (A:) Tubulin-folding protein TbcE {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: Tubulin-folding protein TbcE
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=83.40  E-value=0.42  Score=28.04  Aligned_cols=52  Identities=10%  Similarity=0.112  Sum_probs=39.6

Q ss_pred             CEEEEEEeCCCCHHHHHHHHHHHhCCceeeEEEeeCCCCeeEEEEEcCCCCc
Q psy6375          24 NTLVFIVHLQANKHHIKAAVKKMYDINVAKVNTLIRPDGKKKAYVRLARDYD   75 (86)
Q Consensus        24 n~~~F~V~~~a~K~eIk~ave~lf~VkV~~VnT~~~~~~~KKA~VtL~~g~~   75 (86)
                      ..+..+|++++|=.++|..++.+||+++...+....-..-....+.|..+..
T Consensus        23 ~~~~~kv~~~~TV~~LK~~i~~~~gip~~~qrL~y~~~~~~~~~~~l~~d~~   74 (97)
T d1wjna_          23 QILEKQLPDSMTVQKVKGLLSRLLKVPVSELLLSYESSKMPGREIELENDLQ   74 (97)
T ss_dssp             CCEEEEEETTSBHHHHHHHHHTTTTCCTTTCEEEEECTTSCSCEEECCCSSS
T ss_pred             ceEEEEcCCCCCHHHHHHHHHHHHCcChHHeEEEecCCCCCcccceecCCCc
Confidence            5788999999999999999999999999988876533222233455665544

>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=83.23  E-value=0.99  Score=25.50  Aligned_cols=57  Identities=14%  Similarity=0.235  Sum_probs=41.9

Q ss_pred             CEEEEEEeCCCCHHHHHHHHHHHhCCceeeEEEeeCCCC-eeEEEEEcCCCCcHHHHHHh
Q psy6375          24 NTLVFIVHLQANKHHIKAAVKKMYDINVAKVNTLIRPDG-KKKAYVRLARDYDALDVANK   82 (86)
Q Consensus        24 n~~~F~V~~~a~K~eIk~ave~lf~VkV~~VnT~~~~~~-~KKA~VtL~~g~~a~d~a~~   82 (86)
                      +-|+-.++.+++..+|++.++. || +|.+|+...-+++ .--|+|++....+|......
T Consensus        13 ~l~v~nLp~~~t~~~L~~~F~~-~G-~v~~v~~~~~~~~~kg~afV~f~~~~~a~~Ai~~   70 (93)
T d2cq3a1          13 RLHVSNIPFRFRDPDLRQMFGQ-FG-KILDVEIIFNERGSKGFGFVTFENSADADRAREK   70 (93)
T ss_dssp             EEEEESCCTTCCHHHHHHHGGG-TS-CEEEEEEECCTTTTCCEEEEEESCHHHHHHHHHH
T ss_pred             EEEEECCCCCCCHHHHHHHHhh-cc-eeeeccccccccCCcceeEEEECCHHHHHHHHHH
Confidence            4566678899999999999987 56 6888887765443 12499999987776655444

>d2bwfa1 d.15.1.1 (A:2-74) DSK2 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: DSK2
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=83.14  E-value=0.93  Score=24.86  Aligned_cols=35  Identities=20%  Similarity=0.185  Sum_probs=32.3

Q ss_pred             CEEEEEEeCCCCHHHHHHHHHHHhCCceeeEEEee
Q psy6375          24 NTLVFIVHLQANKHHIKAAVKKMYDINVAKVNTLI   58 (86)
Q Consensus        24 n~~~F~V~~~a~K~eIk~ave~lf~VkV~~VnT~~   58 (86)
                      +++.+.|+++.|=.++|+.++..+|+++..-+.+.
T Consensus        11 ~~~~i~v~~~~tV~~lK~~I~~~~gip~~~qrLi~   45 (73)
T d2bwfa1          11 DKWEVNVAPESTVLQFKEAINKANGIPVANQRLIY   45 (73)
T ss_dssp             EEEEEEECTTCBHHHHHHHHHHHHCCCGGGEEEEE
T ss_pred             eEEEEEECCCChHHHHHHHHHHHHCcChHHeEEEE
Confidence            68999999999999999999999999999887765

>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=83.04  E-value=1.1  Score=25.33  Aligned_cols=57  Identities=11%  Similarity=0.032  Sum_probs=40.4

Q ss_pred             EEEEEEeCCCCHHHHHHHHHHHhCCceeeEEEeeCC-CCee--EEEEEcCCCCcHHHHHHhh
Q psy6375          25 TLVFIVHLQANKHHIKAAVKKMYDINVAKVNTLIRP-DGKK--KAYVRLARDYDALDVANKI   83 (86)
Q Consensus        25 ~~~F~V~~~a~K~eIk~ave~lf~VkV~~VnT~~~~-~~~K--KA~VtL~~g~~a~d~a~~~   83 (86)
                      -|+=-++.+++-.+|++.+++ || +|.+|..+.-+ .|.-  =|+|.+....+|......+
T Consensus        12 lfV~nLp~~~t~~~l~~~F~~-~G-~v~~v~~~~d~~tg~~kg~afV~f~~~~~A~~Ai~~l   71 (93)
T d1x5ua1          12 VYVGGLDEKVSEPLLWELFLQ-AG-PVVNTHMPKDRVTGQHQGYGFVEFLSEEDADYAIKIM   71 (93)
T ss_dssp             EEEECCCTTCCHHHHHHHHHT-TS-CEEEEECCBCSSSCSBCSCEEEEESSHHHHHHHHHHS
T ss_pred             EEEeCCCCcCCHHHHHHHHHH-hC-CccccceeecccccccccceEEEECCHHHHHHHHHHc
Confidence            455678899999999999977 56 67788775533 2222  3999999887766554443

>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=82.76  E-value=0.55  Score=26.46  Aligned_cols=58  Identities=10%  Similarity=0.216  Sum_probs=42.2

Q ss_pred             CEEEEEEeCCCCHHHHHHHHHHHhCCceeeEEEeeCC-CCee--EEEEEcCCCCcHHHHHHhh
Q psy6375          24 NTLVFIVHLQANKHHIKAAVKKMYDINVAKVNTLIRP-DGKK--KAYVRLARDYDALDVANKI   83 (86)
Q Consensus        24 n~~~F~V~~~a~K~eIk~ave~lf~VkV~~VnT~~~~-~~~K--KA~VtL~~g~~a~d~a~~~   83 (86)
                      .-|+-..+.+.+..+|++.++. || +|.+|+...-+ .|.-  =|+|++....+|......+
T Consensus        10 ~i~V~nLp~~~t~~~l~~~f~~-~G-~v~~v~i~~d~~t~~~rg~afV~f~~~~~A~~Ai~~l   70 (90)
T d2cq0a1          10 TIRVTNLSEDTRETDLQELFRP-FG-SISRIYLAKDKTTGQSKGFAFISFHRREDAARAIAGV   70 (90)
T ss_dssp             EEEEESCCTTCCHHHHHTTSTT-TC-CEEEEEEEECSSSCSEEEEEEEEESSHHHHHHHHHHT
T ss_pred             EEEEECCCCCCCHHHHHHHHHH-hc-ccccccccccccccccccceeEEECCHHHHHHHHHHh
Confidence            3566778899999999999977 88 68888876533 2322  3999999877766554443

>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=82.59  E-value=1.3  Score=23.97  Aligned_cols=51  Identities=14%  Similarity=0.208  Sum_probs=36.3

Q ss_pred             EEEEEeCCCCHHHHHHHHHHHhCCceeeEEEeeCCC-C--eeEEEEEcCCCCcHHH
Q psy6375          26 LVFIVHLQANKHHIKAAVKKMYDINVAKVNTLIRPD-G--KKKAYVRLARDYDALD   78 (86)
Q Consensus        26 ~~F~V~~~a~K~eIk~ave~lf~VkV~~VnT~~~~~-~--~KKA~VtL~~g~~a~d   78 (86)
                      |+=.+++++|..+|++.+++ || +|.+++....+. |  .-=|+|++....+|..
T Consensus         3 fV~nl~~~~te~~l~~~F~~-~G-~i~~~~i~~d~~t~~~kg~afV~f~~~~~a~~   56 (75)
T d1hd0a_           3 FIGGLSWDTTKKDLKDYFSK-FG-EVVDCTLKLDPITGRSRGFGFVLFKESESVDK   56 (75)
T ss_dssp             EEECCCTTCCHHHHHHHHHT-TS-CEEEEECCCBTTTTBCCSEEEEEESSHHHHHH
T ss_pred             EEeCCCCcCCHHHHHHHHHh-hc-cccccccccCCCCCCcCceEEEEECCHHHHHH
Confidence            44457889999999999998 67 677887665332 1  1239999997765443

>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=82.45  E-value=1.6  Score=24.09  Aligned_cols=55  Identities=9%  Similarity=0.099  Sum_probs=38.5

Q ss_pred             EEEEEeCCCCHHHHHHHHHHHhCCceeeEEEeeCCCCeeEEEEEcCCCCcHHHHHHhh
Q psy6375          26 LVFIVHLQANKHHIKAAVKKMYDINVAKVNTLIRPDGKKKAYVRLARDYDALDVANKI   83 (86)
Q Consensus        26 ~~F~V~~~a~K~eIk~ave~lf~VkV~~VnT~~~~~~~KKA~VtL~~g~~a~d~a~~~   83 (86)
                      |+-.++.+++..+|++.++..-++  .++.... +++..-|+|.+....+|......|
T Consensus        14 ~V~NLp~~~te~~l~~~F~~~G~v--~~~~~~~-~~~~~~afV~f~~~~~A~~A~~~l   68 (88)
T d2adca2          14 HLSNIPPSVSEEDLKVLFSSNGGV--VKGFKFF-QKDRKMALIQMGSVEEAVQALIDL   68 (88)
T ss_dssp             EEECCCTTCCHHHHHHHHHTTSCC--EEEEEEC-SSSTTCEEEEESSHHHHHHHHHHH
T ss_pred             EEECCCCCCCHHHHHHHhhccCCE--EEEEEee-ecccceeEEEECCHHHHHHHHHhc
Confidence            566788999999999999885444  3333332 333346999999888877765544

>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=82.34  E-value=0.8  Score=25.83  Aligned_cols=66  Identities=17%  Similarity=0.179  Sum_probs=44.2

Q ss_pred             hhhhhcCCEEEEEEeCCCCHHHHHHHHHHHhCC--ceeeEEEeeCCCCe-e-----EEEEEcCCCCcHHHHHHhh
Q psy6375          17 MKKIEDNNTLVFIVHLQANKHHIKAAVKKMYDI--NVAKVNTLIRPDGK-K-----KAYVRLARDYDALDVANKI   83 (86)
Q Consensus        17 ~~l~e~~n~~~F~V~~~a~K~eIk~ave~lf~V--kV~~VnT~~~~~~~-K-----KA~VtL~~g~~a~d~a~~~   83 (86)
                      ++..+++.-|+-..+++.+..|+.+ +..+|+-  +|.+|.....+... .     =|||++....+|..-...+
T Consensus         3 ~Rviq~n~vyV~nLp~~~t~~~l~~-~~e~F~~~G~I~~v~i~~~~~~~~~~~~~g~aFV~f~~~~~A~~Ai~~l   76 (89)
T d2cpia1           3 VRVVQKNLVFVVGLSQRLADPEVLK-RPEYFGKFGKIHKVVINNSTSYAGSQGPSASAYVTYIRSEDALRAIQCV   76 (89)
T ss_dssp             CCCCCSSCEEEEEECTTTCCHHHHH-STTTTTTTSCEEEEEEECCSSCCSSSCCCEEEEEEESSHHHHHHHHHHH
T ss_pred             eeEEecCEEEEECCCCccCHHHHHH-HHHHhcccCCceEEEEeeccCcCCCCCcceEEEEecccchhHHHHHHHh
Confidence            3445554468999999999999943 3444542  78888776544211 1     2899999887777665544

>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=82.17  E-value=1  Score=26.01  Aligned_cols=55  Identities=11%  Similarity=0.186  Sum_probs=40.3

Q ss_pred             EEEEEEeCCCCHHHHHHHHHHHhCCceeeEEEeeCCC-Ce--eEEEEEcCCCCcHHHHHH
Q psy6375          25 TLVFIVHLQANKHHIKAAVKKMYDINVAKVNTLIRPD-GK--KKAYVRLARDYDALDVAN   81 (86)
Q Consensus        25 ~~~F~V~~~a~K~eIk~ave~lf~VkV~~VnT~~~~~-~~--KKA~VtL~~g~~a~d~a~   81 (86)
                      -|+=.++.+++-.||++.++. || +|.+|+...-+. |.  -=|+|++....+|.....
T Consensus        13 lfV~nLp~~~te~~l~~~F~~-~G-~i~~v~i~~d~~tg~~kg~afV~f~~~~~A~~Ai~   70 (103)
T d2cqda1          13 IFVGGLPYHTTDASLRKYFEG-FG-DIEEAVVITDRQTGKSRGYGFVTMADRAAAERACK   70 (103)
T ss_dssp             EEEECCCSSCCHHHHHHHHHT-TS-CEEEEEESCCSSSCCCCSEEEEEESSHHHHHHHHT
T ss_pred             EEEeCCCCcCcHHHHHHHHhh-cc-cccceeccccccccccCCeEEEEECCHHHHHHHHH
Confidence            566678999999999999976 77 688888765432 21  239999987766655444

>d1j8ca_ d.15.1.1 (A:) Ubiquitin-like N-terminal domain of PLIC-2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: Ubiquitin-like N-terminal domain of PLIC-2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=82.06  E-value=1.5  Score=25.64  Aligned_cols=35  Identities=14%  Similarity=0.235  Sum_probs=32.5

Q ss_pred             CEEEEEEeCCCCHHHHHHHHHHHhCCceeeEEEee
Q psy6375          24 NTLVFIVHLQANKHHIKAAVKKMYDINVAKVNTLI   58 (86)
Q Consensus        24 n~~~F~V~~~a~K~eIk~ave~lf~VkV~~VnT~~   58 (86)
                      +++.|.|+++.|=.++|+.|+..+|+.+...+.+.
T Consensus        42 ~~~~i~V~~~~tV~~LK~~I~~~~gi~~~~qrLi~   76 (103)
T d1j8ca_          42 EKEEFAVPENSSVQQFKEAISKRFKSQTDQLVLIF   76 (103)
T ss_dssp             CEEEEEECTTCCHHHHHHHHHHHHCSCSSSEEEEE
T ss_pred             ccEEEEECCCChHHHHHHHHHHHHCcCHHHeeeee
Confidence            57899999999999999999999999999887765

>d1zkha1 d.15.1.1 (A:1-86) Splicing factor 3 subunit 1, C-terminal domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: Splicing factor 3 subunit 1, C-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=81.83  E-value=0.77  Score=26.32  Aligned_cols=51  Identities=18%  Similarity=0.253  Sum_probs=40.4

Q ss_pred             ccccccchhhhhhhhcCCEEEEEEeCCCCHHHHHHHHHHHhCCceeeEEEee
Q psy6375           7 IKYPLTTESAMKKIEDNNTLVFIVHLQANKHHIKAAVKKMYDINVAKVNTLI   58 (86)
Q Consensus         7 i~~P~~TEKs~~l~e~~n~~~F~V~~~a~K~eIk~ave~lf~VkV~~VnT~~   58 (86)
                      +..|-..|+....+.. ..++|.|+++.+=.++|+.|+...|+++..-+...
T Consensus         6 v~~p~~~~~~~~~L~G-~~~~l~v~~~~tV~~lK~~I~~~~~ip~~~q~Li~   56 (86)
T d1zkha1           6 VQVPNMQDKTEWKLNG-QVLVFTLPLTDQVSVIKVKIHEATGMPAGKQKLQY   56 (86)
T ss_dssp             EECCCCSSSSSSSCSS-CEEEEEECTTSBHHHHHHHHHHHTCCCTTTEEEEE
T ss_pred             EEcCCCCcccccccCC-eEEEEEECCCChHHHHHHHHHhhhcCChHHEEEEe
Confidence            3446566666544443 68999999999999999999999999998877755

>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=80.86  E-value=0.91  Score=25.70  Aligned_cols=57  Identities=14%  Similarity=0.095  Sum_probs=39.9

Q ss_pred             EEEEEeCCCCHHHHHHHHHHHhCCceeeEEEeeCCC--C--eeEEEEEcCCCCcHHHHHHhh
Q psy6375          26 LVFIVHLQANKHHIKAAVKKMYDINVAKVNTLIRPD--G--KKKAYVRLARDYDALDVANKI   83 (86)
Q Consensus        26 ~~F~V~~~a~K~eIk~ave~lf~VkV~~VnT~~~~~--~--~KKA~VtL~~g~~a~d~a~~~   83 (86)
                      |+=.++.+++..+|++.++.. |-.+.+|.....+.  |  .--|+|++....+|......|
T Consensus         5 yV~nLp~~~te~~l~~~f~~~-g~~i~~v~~~~~~~~~~~~rg~aFV~F~~~~~A~~Ai~~l   65 (96)
T d2disa1           5 FIGGIPKMKKREEILEEIAKV-TEGVLDVIVYASAADKMKNRGFAFVEYESHRAAAMARRKL   65 (96)
T ss_dssp             EEECCCTTSCHHHHHHHHHHH-STTEEEEECCSSSCTTTTTCCEEEEEESSHHHHHHHHTTT
T ss_pred             EEcCCCCcCCHHHHHHHHHHh-CCcceEEEEeeeccccccCCCeEEEEEcCHHHHHHHHHHH
Confidence            344678899999999999984 54577777654332  1  125999999887766555444

>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=80.72  E-value=1.2  Score=24.73  Aligned_cols=56  Identities=9%  Similarity=0.167  Sum_probs=35.1

Q ss_pred             hcCCEEEEEEeCCCCHHH-HHHHHHHHhCCceeeEEEeeCC--CCee--EEEEEcCCCCcHHH
Q psy6375          21 EDNNTLVFIVHLQANKHH-IKAAVKKMYDINVAKVNTLIRP--DGKK--KAYVRLARDYDALD   78 (86)
Q Consensus        21 e~~n~~~F~V~~~a~K~e-Ik~ave~lf~VkV~~VnT~~~~--~~~K--KA~VtL~~g~~a~d   78 (86)
                      |...-|+=.++.+++..+ +++.++. || +|.+|+.....  .|.-  =|||++....+|..
T Consensus         3 e~~~l~V~nLp~~~t~ed~l~~~F~~-~G-~i~~v~i~~~~~~~~~~kg~afV~f~~~~~a~~   63 (86)
T d2ghpa3           3 EGREIMIRNLSTELLDENLLRESFEG-FG-SIEKINIPAGQKEHSFNNCCAFMVFENKDSAER   63 (86)
T ss_dssp             TTTEEEEEEECTTTCCHHHHHHHHGG-GS-CEEEEECCSCCC---CCCEEEEEEESSHHHHHH
T ss_pred             CCCEEEEECCCCCcccHHHHHHHHHh-hh-hccceeeecccCCccccceeeeEEECCHHHHHH
Confidence            333445566778887654 8877766 77 78888765432  2222  39999997655443

>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=80.45  E-value=0.69  Score=26.67  Aligned_cols=51  Identities=24%  Similarity=0.266  Sum_probs=36.1

Q ss_pred             EEEEEeCCCCHHHHHHHHHHHhCCceeeEEEeeCCCCee--EEEEEcCCCCcHHHH
Q psy6375          26 LVFIVHLQANKHHIKAAVKKMYDINVAKVNTLIRPDGKK--KAYVRLARDYDALDV   79 (86)
Q Consensus        26 ~~F~V~~~a~K~eIk~ave~lf~VkV~~VnT~~~~~~~K--KA~VtL~~g~~a~d~   79 (86)
                      |+=-++.++|+.||++.++. |+  +..|.....+.|..  =|||.+....+|...
T Consensus        19 ~v~nLp~~~te~dl~~~F~~-~~--~~~v~~~~~~~g~~~G~afVeF~~~~~a~~A   71 (102)
T d1weza_          19 HMRGLPYRATENDIYNFFSP-LN--PMRVHIEIGPDGRVTGEADVEFATHEDAVAA   71 (102)
T ss_dssp             EEESCCTTCCHHHHHHSSCS-CC--CSEEEEEESSSSCEEEEEEEECSSSHHHHHH
T ss_pred             EEeCCCCcCCHHHHHHHHhc-cC--cceeeeEEecCCcceEEEEEEECCHHHHHHH
Confidence            33346789999999999987 46  44666655555433  489999988776553

>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=80.37  E-value=1.2  Score=25.20  Aligned_cols=59  Identities=20%  Similarity=0.281  Sum_probs=43.7

Q ss_pred             CCEEEEEEeCCCCHHHHHHHHHHHhCCceeeEEEeeCCC--Ce--eEEEEEcCCCCcHHHHHHhh
Q psy6375          23 NNTLVFIVHLQANKHHIKAAVKKMYDINVAKVNTLIRPD--GK--KKAYVRLARDYDALDVANKI   83 (86)
Q Consensus        23 ~n~~~F~V~~~a~K~eIk~ave~lf~VkV~~VnT~~~~~--~~--KKA~VtL~~g~~a~d~a~~~   83 (86)
                      .+-|+-.++.+++..++++.++. || +|.+|+....+.  |.  -=|+|++....+|......|
T Consensus         9 ~~l~V~nLp~~~~e~~l~~~F~~-~G-~i~~v~i~~~~~~~g~~rg~afV~f~~~~~A~~Ai~~l   71 (94)
T d2cpha1           9 SKILVRNIPFQANQREIRELFST-FG-ELKTVRLPKKMTGTGAHRGFGFVDFITKQDAKKAFNAL   71 (94)
T ss_dssp             CCEEEESCCTTCCHHHHHHHHHT-TS-CEEEEECCCCCSSSCSSCSEEEEEESSHHHHHHHHHHH
T ss_pred             CEEEEeCCCCCCCHHHHHHHHHH-hC-CceEEEEEeccccCCCcccEEEEEECCHHHHHHHHHHc
Confidence            35677788999999999999987 77 788887654322  21  14999999887777666654

>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=80.36  E-value=2  Score=23.45  Aligned_cols=54  Identities=9%  Similarity=0.162  Sum_probs=36.3

Q ss_pred             EEEEeCCCCHHHHHHHHHHHhCCceeeEEEeeCC--CCeeE----EEEEcCCCCcHHHHHHh
Q psy6375          27 VFIVHLQANKHHIKAAVKKMYDINVAKVNTLIRP--DGKKK----AYVRLARDYDALDVANK   82 (86)
Q Consensus        27 ~F~V~~~a~K~eIk~ave~lf~VkV~~VnT~~~~--~~~KK----A~VtL~~g~~a~d~a~~   82 (86)
                      +=..+.+.|..+|++.++. || +|.+|.....+  ++..+    |||++....+|....+.
T Consensus         3 V~nLp~~~t~~~l~~~F~~-~G-~v~~v~i~~~~~~~~~~~~kG~afV~f~~~~~A~~A~~~   62 (85)
T d2cpfa1           3 IKNLNFSTTEETLKGVFSK-VG-AIKSCTISKKKNKAGVLLSMGFGFVEYKKPEQAQKALKQ   62 (85)
T ss_dssp             EESCCTTCCHHHHHHHHHT-TS-CEEEEEEEEEECTTCCEEEEEEEEEEESSHHHHHHHHHH
T ss_pred             EcCCCCCCCHHHHHHHHHH-hC-CccccceecccccccccccceEEEEEECCHHHHHHHHHH
Confidence            3346788999999999988 55 56666554322  22122    99999988776665444

>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=80.09  E-value=1.5  Score=23.90  Aligned_cols=55  Identities=7%  Similarity=0.158  Sum_probs=35.7

Q ss_pred             EEEEEeCCCCHHHHHHHHHHHhCCceeeEEEeeCC-----CCeeEEEEEcCCCCcHHHHHHhh
Q psy6375          26 LVFIVHLQANKHHIKAAVKKMYDINVAKVNTLIRP-----DGKKKAYVRLARDYDALDVANKI   83 (86)
Q Consensus        26 ~~F~V~~~a~K~eIk~ave~lf~VkV~~VnT~~~~-----~~~KKA~VtL~~g~~a~d~a~~~   83 (86)
                      |+-.++.++|..||++.+.+ ||.-+..+.....+     .|+  |+|++....+|......+
T Consensus         2 fV~nLp~~~te~~l~~~F~~-~G~i~~~~~i~~~~~~g~~~g~--afV~f~~~~~a~~Ai~~~   61 (83)
T d1x5ta1           2 FIGNLDPEIDEKLLYDTFSA-FGVILQTPKIMRDPDTGNSKGY--AFINFASFDASDAAIEAM   61 (83)
T ss_dssp             EEECCCTTCCHHHHHHHHHT-TSCBSSCCEECCCTTTCSCCSE--EEEEBSSHHHHHHHHHTT
T ss_pred             EEcCCCCcCcHHHHHHHHHH-hCceeeeEEEEeeccccccCce--EEEEECCHHHHHHHHHhC
Confidence            44456889999999999988 77332222332211     244  999999887766654443