Psyllid ID: psy6355

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80---
Protein Sequence
MKGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSPSSSNKVIAPLAAYLTPQAAAARRFGGPIHHAGRF
Secondary Structure (PSIPRED)
cccccccccEEEEEEEccHHHHHHHHHHHcccccccccccEEEEEcccccccccccccHHHHccccccccccccccccccccc
Secondary Structure Prediction (SSPRO)
cccccccEEEEEEEEEccHHHHHHHHHHHccccccccccccEEEEcccccccHHcccHHHHHccccccccccccccccccccc
Coil and Loop (DISEMBL)
MKGFTDFCRYLGFIRFDQRIEAERAIQELngtipkgsnepitvkfanspsssnkviaplaayltpQAAAArrfggpihhagrf
Flexible Loop (DISEMBL)
MKGFTDFCRYLGFIRFDQRIEAERAIQELngtipkgsnepITVKFANSPSSSNKVIAPLAAYLTPQAAAARRFGGPIHHAGRF
Low Complexity Region (SEG)
MKGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSPSSSNKVIaplaayltpqaaaaRRFGGPIHHAGRF
Disordered region (IsUnstruct)
***FTDFCRYLGFIRFDQRIEAERAIQEL*************************VIAPLAAYLTP******************
Disordered Region (DISOPRED)
****TDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKF**************************************
Disordered Region (DISEMBL)
MKGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSPSSSNKVIAPLAAYLTPQAAAARRFGGPIHHAGRF
Disordered Region (DISPRO)
****TDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSPSSS**VIA*LAAYL********************
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhiiii
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Signal Peptide (SignalP NN Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Coiled Coils (COILS)
MKGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSPSSSNKVIAPLAAYLTPQAAAARRFGGPIHHAGRF
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	83	2.2.26 [Sep-21-2011]
Q61701	385	ELAV-like protein 4 OS=Mu	yes	N/A	0.879	0.189	0.548	3e-14
P26378	380	ELAV-like protein 4 OS=Ho	yes	N/A	0.879	0.192	0.548	4e-14
O09032	373	ELAV-like protein 4 OS=Ra	yes	N/A	0.879	0.195	0.548	4e-14
A4QNI8	400	ELAV-like protein 4 OS=Xe	yes	N/A	0.903	0.187	0.525	4e-14
Q7SZT7	400	ELAV-like protein 4 OS=Xe	N/A	N/A	0.903	0.187	0.525	4e-14
Q14576	367	ELAV-like protein 3 OS=Ho	no	N/A	0.855	0.193	0.546	5e-14
Q60900	367	ELAV-like protein 3 OS=Mu	no	N/A	0.855	0.193	0.546	5e-14
Q91584	348	ELAV-like protein 3 OS=Xe	N/A	N/A	0.855	0.204	0.533	5e-14
Q28FX0	343	ELAV-like protein 3 OS=Xe	no	N/A	0.807	0.195	0.549	8e-14
Q15717	326	ELAV-like protein 1 OS=Ho	no	N/A	0.903	0.230	0.525	1e-13

>sp|Q61701|ELAV4_MOUSE ELAV-like protein 4 OS=Mus musculus GN=Elavl4 PE=1 SV=1

 Score = 77.0 bits (188), Expect = 3e-14,   Method: Composition-based stats.
 Identities = 45/82 (54%), Positives = 56/82 (68%), Gaps = 9/82 (10%)

Query: 5   TDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSPS--SSNKVIAPLAAY 62
           T   R +GFIRFD+RIEAE AI+ LNG  P G+ EPITVKFAN+PS  SS  +++ L  Y
Sbjct: 174 TGVSRGVGFIRFDKRIEAEEAIKGLNGQKPSGATEPITVKFANNPSQKSSQALLSQL--Y 231

Query: 63  LTPQAAAARRFGGPIHH-AGRF 83
            +P     RR+ GP+HH A RF
Sbjct: 232 QSPN----RRYPGPLHHQAQRF 249

May play a role in neuron-specific RNA processing. Protects CDKN1A mRNA from decay by binding to its 3'-UTR. Binds to AU-rich sequences (AREs) of target mRNAs, including VEGF and FOS mRNA.
Mus musculus (taxid: 10090)

>sp|P26378|ELAV4_HUMAN ELAV-like protein 4 OS=Homo sapiens GN=ELAVL4 PE=1 SV=2

 Score = 76.6 bits (187), Expect = 4e-14,   Method: Composition-based stats.
 Identities = 45/82 (54%), Positives = 56/82 (68%), Gaps = 9/82 (10%)

Query: 5   TDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSPS--SSNKVIAPLAAY 62
           T   R +GFIRFD+RIEAE AI+ LNG  P G+ EPITVKFAN+PS  SS  +++ L  Y
Sbjct: 169 TGVSRGVGFIRFDKRIEAEEAIKGLNGQKPSGATEPITVKFANNPSQKSSQALLSQL--Y 226

Query: 63  LTPQAAAARRFGGPIHH-AGRF 83
            +P     RR+ GP+HH A RF
Sbjct: 227 QSPN----RRYPGPLHHQAQRF 244

May play a role in neuron-specific RNA processing. Protects CDKN1A mRNA from decay by binding to its 3'-UTR (By similarity). Binds to AU-rich sequences (AREs) of target mRNAs, including VEGF and FOS mRNA.

Homo sapiens (taxid: 9606)

>sp|O09032|ELAV4_RAT ELAV-like protein 4 OS=Rattus norvegicus GN=Elavl4 PE=1 SV=1

 Score = 76.6 bits (187), Expect = 4e-14,   Method: Compositional matrix adjust.
 Identities = 45/82 (54%), Positives = 56/82 (68%), Gaps = 9/82 (10%)

Query: 5   TDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSPS--SSNKVIAPLAAY 62
           T   R +GFIRFD+RIEAE AI+ LNG  P G+ EPITVKFAN+PS  SS  +++ L  Y
Sbjct: 162 TGVSRGVGFIRFDKRIEAEEAIKGLNGQKPSGATEPITVKFANNPSQKSSQALLSQL--Y 219

Query: 63  LTPQAAAARRFGGPIHH-AGRF 83
            +P     RR+ GP+HH A RF
Sbjct: 220 QSPN----RRYPGPLHHQAQRF 237

Binds to AU-rich sequences (AREs) of target mRNAs, including VEGF and FOS mRNA (By similarity). May play a role in neuron-specific RNA processing. Protects CDKN1A mRNA from decay by binding to its 3'-UTR.

Rattus norvegicus (taxid: 10116)

>sp|A4QNI8|ELAV4_XENTR ELAV-like protein 4 OS=Xenopus tropicalis GN=elavl4 PE=2 SV=1

 Score = 76.6 bits (187), Expect = 4e-14,   Method: Composition-based stats.
 Identities = 42/80 (52%), Positives = 50/80 (62%), Gaps = 5/80 (6%)

Query: 5   TDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSPSSSNKVIAPLAAYLT 64
           T   R +GFIRFD+RIEAE AI+ LNG  P G+ EPITVKFAN+PS           Y +
Sbjct: 203 TGVSRGVGFIRFDKRIEAEEAIKGLNGQKPSGAAEPITVKFANNPSQKTSQALLSQLYQS 262

Query: 65  PQAAAARRFGGPIHH-AGRF 83
           P     RR+ GP+HH A RF
Sbjct: 263 PN----RRYPGPLHHQAQRF 278

Binds to AU-rich sequences (AREs) of target mRNAs. May play a role in neuron-specific RNA processing.

Xenopus tropicalis (taxid: 8364)

>sp|Q7SZT7|ELAV4_XENLA ELAV-like protein 4 OS=Xenopus laevis GN=elavl4 PE=2 SV=1

 Score = 76.6 bits (187), Expect = 4e-14,   Method: Composition-based stats.
 Identities = 42/80 (52%), Positives = 50/80 (62%), Gaps = 5/80 (6%)

Query: 5   TDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSPSSSNKVIAPLAAYLT 64
           T   R +GFIRFD+RIEAE AI+ LNG  P G+ EPITVKFAN+PS           Y +
Sbjct: 203 TGVSRGVGFIRFDKRIEAEEAIKGLNGQKPSGAAEPITVKFANNPSQKTSQALLSQLYQS 262

Query: 65  PQAAAARRFGGPIHH-AGRF 83
           P     RR+ GP+HH A RF
Sbjct: 263 PN----RRYPGPLHHQAQRF 278

Binds to AU-rich sequences (AREs) of target mRNAs. May play a role in neuron-specific RNA processing.

Xenopus laevis (taxid: 8355)

>sp|Q14576|ELAV3_HUMAN ELAV-like protein 3 OS=Homo sapiens GN=ELAVL3 PE=1 SV=3

 Score = 76.3 bits (186), Expect = 5e-14,   Method: Compositional matrix adjust.
 Identities = 41/75 (54%), Positives = 51/75 (68%), Gaps = 4/75 (5%)

Query: 5   TDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSPSSSNKVIAPLAAYLT 64
           T   R +GFIRFD+RIEAE AI+ LNG  P G+ EPITVKFAN+P  S K    L  +L 
Sbjct: 162 TGVSRGVGFIRFDKRIEAEEAIKGLNGQKPLGAAEPITVKFANNP--SQKTGQALLTHL- 218

Query: 65  PQAAAARRFGGPIHH 79
              ++ARR+ GP+HH
Sbjct: 219 -YQSSARRYAGPLHH 232

Binds to AU-rich sequences (AREs) of target mRNAs, including VEGF mRNA. May also bind poly-A tracts via RRM 3 (By similarity). May be involved in neuronal differentiation and maintenance.

Homo sapiens (taxid: 9606)

>sp|Q60900|ELAV3_MOUSE ELAV-like protein 3 OS=Mus musculus GN=Elavl3 PE=1 SV=1

 Score = 76.3 bits (186), Expect = 5e-14,   Method: Compositional matrix adjust.
 Identities = 41/75 (54%), Positives = 51/75 (68%), Gaps = 4/75 (5%)

Query: 5   TDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSPSSSNKVIAPLAAYLT 64
           T   R +GFIRFD+RIEAE AI+ LNG  P G+ EPITVKFAN+P  S K    L  +L 
Sbjct: 162 TGVSRGVGFIRFDKRIEAEEAIKGLNGQKPLGAAEPITVKFANNP--SQKTGQALLTHL- 218

Query: 65  PQAAAARRFGGPIHH 79
              ++ARR+ GP+HH
Sbjct: 219 -YQSSARRYAGPLHH 232

Binds to AU-rich sequences (AREs) of target mRNAs, including VEGF mRNA. May also bind poly-A tracts via RRM 3. May be involved in neuronal differentiation and maintenance.

Mus musculus (taxid: 10090)

>sp|Q91584|ELAV3_XENLA ELAV-like protein 3 OS=Xenopus laevis GN=elavl3 PE=2 SV=1

 Score = 76.3 bits (186), Expect = 5e-14,   Method: Composition-based stats.
 Identities = 40/75 (53%), Positives = 48/75 (64%), Gaps = 4/75 (5%)

Query: 5   TDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSPSSSNKVIAPLAAYLT 64
           T   R +GFIRFD+RIEAE AI+ LNG  P G++EPITVKFAN+PS           Y T
Sbjct: 157 TGVSRGVGFIRFDKRIEAEEAIKGLNGQKPLGASEPITVKFANNPSQKTGQALLTHLYQT 216

Query: 65  PQAAAARRFGGPIHH 79
                ARR+ GP+HH
Sbjct: 217 ----TARRYTGPLHH 227

Binds to AU-rich sequences (AREs) of target mRNAs. May also bind poly-A tracts via RRM 3. May be involved in neuronal differentiation and maintenance.

Xenopus laevis (taxid: 8355)

>sp|Q28FX0|ELAV3_XENTR ELAV-like protein 3 OS=Xenopus tropicalis GN=elavl3 PE=2 SV=1

 Score = 75.5 bits (184), Expect = 8e-14,   Method: Composition-based stats.
 Identities = 39/71 (54%), Positives = 47/71 (66%), Gaps = 4/71 (5%)

Query: 9   RYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSPSSSNKVIAPLAAYLTPQAA 68
           R +GFIRFD+RIEAE AI+ LNG  P G++EPITVKFAN+PS           Y T    
Sbjct: 163 RGVGFIRFDKRIEAEEAIKGLNGQKPLGASEPITVKFANNPSQKTGQALLTHLYQT---- 218

Query: 69  AARRFGGPIHH 79
            ARR+ GP+HH
Sbjct: 219 TARRYTGPLHH 229

Binds to AU-rich sequences (AREs) of target mRNAs. May also bind poly-A tracts via RRM 3. May be involved in neuronal differentiation and maintenance.

Xenopus tropicalis (taxid: 8364)

>sp|Q15717|ELAV1_HUMAN ELAV-like protein 1 OS=Homo sapiens GN=ELAVL1 PE=1 SV=2

 Score = 75.1 bits (183), Expect = 1e-13,   Method: Compositional matrix adjust.
 Identities = 42/80 (52%), Positives = 50/80 (62%), Gaps = 5/80 (6%)

Query: 5   TDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSPSSSNKVIAPLAAYLT 64
           T   R + FIRFD+R EAE AI   NG  P GS+EPITVKFA +P+ +  V      Y +
Sbjct: 143 TGLSRGVAFIRFDKRSEAEEAITSFNGHKPPGSSEPITVKFAANPNQNKNVALLSQLYHS 202

Query: 65  PQAAAARRFGGPIHH-AGRF 83
           P    ARRFGGP+HH A RF
Sbjct: 203 P----ARRFGGPVHHQAQRF 218

Involved in 3'-UTR ARE-mediated MYC stabilization. Binds avidly to the AU-rich element in FOS and IL3/interleukin-3 mRNAs. In the case of the FOS AU-rich element, HUR binds to a core element of 27 nucleotides that contain AUUUA, AUUUUA and AUUUUUA motifs. Binds preferentially to the 5'-UUUU[AG]UUU-3' motif in vitro.

Homo sapiens (taxid: 9606)

Close Homologs in the Non-Redundant Database Detected by BLAST

Original result of BLAST against Nonredundant Database

GI	Length	Definition	Q cover	H cover	Identity	E-value
Query	83
383865034	502	PREDICTED: ELAV-like protein 2-like [Meg	0.855	0.141	0.824	4e-27
345493619	383	PREDICTED: ELAV-like protein 3-like isof	0.903	0.195	0.782	7e-27
307194503	349	ELAV-like protein 2 [Harpegnathos saltat	0.939	0.223	0.753	8e-27
345493621	349	PREDICTED: ELAV-like protein 3-like isof	0.903	0.214	0.782	8e-27
332029758	359	ELAV-like protein 2 [Acromyrmex echinati	0.939	0.217	0.753	9e-27
322798581	523	hypothetical protein SINV_01390 [Solenop	0.939	0.149	0.753	1e-26
270014670	350	hypothetical protein TcasGA2_TC004718 [T	0.927	0.22	0.762	2e-26
189233813	352	PREDICTED: similar to RNA-binding protei	0.927	0.218	0.762	2e-26
307168947	466	ELAV-like protein 4 [Camponotus floridan	0.903	0.160	0.769	3e-26
328792242	378	PREDICTED: ELAV-like protein 2-like [Api	0.915	0.201	0.75	4e-25

>gi|383865034|ref|XP_003707981.1| PREDICTED: ELAV-like protein 2-like [Megachile rotundata]

 Score =  125 bits (313), Expect = 4e-27,   Method: Composition-based stats.
 Identities = 61/74 (82%), Positives = 67/74 (90%), Gaps = 3/74 (4%)

Query: 11  LGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSPSSSNKVIAPLAAYLTPQAAAA 70
           +GFIRFDQR+EAERAIQELNGTIPKGS+EPITVKFAN+PS++NK I PLAAYLTPQ  A 
Sbjct: 170 VGFIRFDQRVEAERAIQELNGTIPKGSSEPITVKFANNPSNNNKAIPPLAAYLTPQ--AT 227

Query: 71  RRFGGPIHH-AGRF 83
           RRFGGPIHH  GRF
Sbjct: 228 RRFGGPIHHPTGRF 241

Source: Megachile rotundata

Species: Megachile rotundata

Genus: Megachile

Family: Megachilidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|345493619|ref|XP_003427110.1| PREDICTED: ELAV-like protein 3-like isoform 2 [Nasonia vitripennis]

 Score =  124 bits (311), Expect = 7e-27,   Method: Compositional matrix adjust.
 Identities = 61/78 (78%), Positives = 67/78 (85%), Gaps = 3/78 (3%)

Query: 7   FCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSPSSSNKVIAPLAAYLTPQ 66
             + +GFIRFDQR+EAERAIQELNGTIPKGS EPITVKFAN+PS++NK I PLAAYLTPQ
Sbjct: 186 LSKGVGFIRFDQRVEAERAIQELNGTIPKGSTEPITVKFANNPSNNNKAIPPLAAYLTPQ 245

Query: 67  AAAARRFGGPIHH-AGRF 83
             A RRFGGPIHH  GRF
Sbjct: 246 --ATRRFGGPIHHPTGRF 261

Source: Nasonia vitripennis

Species: Nasonia vitripennis

Genus: Nasonia

Family: Pteromalidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|307194503|gb|EFN76795.1| ELAV-like protein 2 [Harpegnathos saltator]

 Score =  124 bits (311), Expect = 8e-27,   Method: Compositional matrix adjust.
 Identities = 61/81 (75%), Positives = 68/81 (83%), Gaps = 3/81 (3%)

Query: 4   FTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSPSSSNKVIAPLAAYL 63
            T   + +GFIRFDQR+EAERAIQELNGTIPKGS+EPITVKFAN+PS++NK I PLAAYL
Sbjct: 149 ITGLSKGVGFIRFDQRVEAERAIQELNGTIPKGSSEPITVKFANNPSNNNKAIPPLAAYL 208

Query: 64  TPQAAAARRFGGPIHH-AGRF 83
            PQ  A RRFGGPIHH  GRF
Sbjct: 209 APQ--ATRRFGGPIHHPTGRF 227

Source: Harpegnathos saltator

Species: Harpegnathos saltator

Genus: Harpegnathos

Family: Formicidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|345493621|ref|XP_003427111.1| PREDICTED: ELAV-like protein 3-like isoform 3 [Nasonia vitripennis] gi|345493623|ref|XP_001603257.2| PREDICTED: ELAV-like protein 3-like isoform 1 [Nasonia vitripennis]

 Score =  124 bits (310), Expect = 8e-27,   Method: Compositional matrix adjust.
 Identities = 61/78 (78%), Positives = 67/78 (85%), Gaps = 3/78 (3%)

Query: 7   FCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSPSSSNKVIAPLAAYLTPQ 66
             + +GFIRFDQR+EAERAIQELNGTIPKGS EPITVKFAN+PS++NK I PLAAYLTPQ
Sbjct: 166 LSKGVGFIRFDQRVEAERAIQELNGTIPKGSTEPITVKFANNPSNNNKAIPPLAAYLTPQ 225

Query: 67  AAAARRFGGPIHH-AGRF 83
             A RRFGGPIHH  GRF
Sbjct: 226 --ATRRFGGPIHHPTGRF 241

Source: Nasonia vitripennis

Species: Nasonia vitripennis

Genus: Nasonia

Family: Pteromalidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|332029758|gb|EGI69627.1| ELAV-like protein 2 [Acromyrmex echinatior]

 Score =  124 bits (310), Expect = 9e-27,   Method: Compositional matrix adjust.
 Identities = 61/81 (75%), Positives = 68/81 (83%), Gaps = 3/81 (3%)

Query: 4   FTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSPSSSNKVIAPLAAYL 63
            T   + +GFIRFDQR+EAERAIQELNGTIPKGS+EPITVKFAN+PS++NK I PLAAYL
Sbjct: 150 ITGLSKGVGFIRFDQRVEAERAIQELNGTIPKGSSEPITVKFANNPSNNNKAIPPLAAYL 209

Query: 64  TPQAAAARRFGGPIHH-AGRF 83
            PQ  A RRFGGPIHH  GRF
Sbjct: 210 APQ--ATRRFGGPIHHPTGRF 228

Source: Acromyrmex echinatior

Species: Acromyrmex echinatior

Genus: Acromyrmex

Family: Formicidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|322798581|gb|EFZ20185.1| hypothetical protein SINV_01390 [Solenopsis invicta]

 Score =  123 bits (309), Expect = 1e-26,   Method: Compositional matrix adjust.
 Identities = 61/81 (75%), Positives = 68/81 (83%), Gaps = 3/81 (3%)

Query: 4   FTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSPSSSNKVIAPLAAYL 63
            T   + +GFIRFDQR+EAERAIQELNGTIPKGS+EPITVKFAN+PS++NK I PLAAYL
Sbjct: 149 ITGLSKGVGFIRFDQRVEAERAIQELNGTIPKGSSEPITVKFANNPSNNNKAIPPLAAYL 208

Query: 64  TPQAAAARRFGGPIHH-AGRF 83
            PQ  A RRFGGPIHH  GRF
Sbjct: 209 APQ--ATRRFGGPIHHPTGRF 227

Source: Solenopsis invicta

Species: Solenopsis invicta

Genus: Solenopsis

Family: Formicidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|270014670|gb|EFA11118.1| hypothetical protein TcasGA2_TC004718 [Tribolium castaneum]

 Score =  122 bits (307), Expect = 2e-26,   Method: Composition-based stats.
 Identities = 61/80 (76%), Positives = 67/80 (83%), Gaps = 3/80 (3%)

Query: 5   TDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSPSSSNKVIAPLAAYLT 64
           T   + +GFIRFDQR+EAERAIQELNGTIPKGS EPITVKFAN+PS++NK I PLAAYLT
Sbjct: 165 TGLSKGVGFIRFDQRLEAERAIQELNGTIPKGSTEPITVKFANNPSNNNKAIPPLAAYLT 224

Query: 65  PQAAAARRFGGPIHH-AGRF 83
           PQ  A RRF GPIHH  GRF
Sbjct: 225 PQ--ATRRFAGPIHHPTGRF 242

Source: Tribolium castaneum

Species: Tribolium castaneum

Genus: Tribolium

Family: Tenebrionidae

Order: Coleoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|189233813|ref|XP_971256.2| PREDICTED: similar to RNA-binding protein, putative [Tribolium castaneum]

 Score =  122 bits (307), Expect = 2e-26,   Method: Composition-based stats.
 Identities = 61/80 (76%), Positives = 67/80 (83%), Gaps = 3/80 (3%)

Query: 5   TDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSPSSSNKVIAPLAAYLT 64
           T   + +GFIRFDQR+EAERAIQELNGTIPKGS EPITVKFAN+PS++NK I PLAAYLT
Sbjct: 167 TGLSKGVGFIRFDQRLEAERAIQELNGTIPKGSTEPITVKFANNPSNNNKAIPPLAAYLT 226

Query: 65  PQAAAARRFGGPIHH-AGRF 83
           PQ  A RRF GPIHH  GRF
Sbjct: 227 PQ--ATRRFAGPIHHPTGRF 244

Source: Tribolium castaneum

Species: Tribolium castaneum

Genus: Tribolium

Family: Tenebrionidae

Order: Coleoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|307168947|gb|EFN61833.1| ELAV-like protein 4 [Camponotus floridanus]

 Score =  122 bits (305), Expect = 3e-26,   Method: Compositional matrix adjust.
 Identities = 60/78 (76%), Positives = 67/78 (85%), Gaps = 3/78 (3%)

Query: 7   FCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSPSSSNKVIAPLAAYLTPQ 66
             + +GFIRFDQR+EAERAIQELNGTIPKGS+EPITVKFAN+PS++NK I PLAAYL PQ
Sbjct: 166 LSKGVGFIRFDQRVEAERAIQELNGTIPKGSSEPITVKFANNPSNNNKAIPPLAAYLAPQ 225

Query: 67  AAAARRFGGPIHH-AGRF 83
             A RRFGGPIHH  GRF
Sbjct: 226 --ATRRFGGPIHHPTGRF 241

Source: Camponotus floridanus

Species: Camponotus floridanus

Genus: Camponotus

Family: Formicidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|328792242|ref|XP_394166.4| PREDICTED: ELAV-like protein 2-like [Apis mellifera]

 Score =  118 bits (296), Expect = 4e-25,   Method: Composition-based stats.
 Identities = 60/80 (75%), Positives = 68/80 (85%), Gaps = 4/80 (5%)

Query: 5   TDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSPSSSNKVIAPLAAYLT 64
           T   + +GFIRFDQR+EAERAIQELNGTIPKGS+EPITVKFAN+PS++NK I PL AYLT
Sbjct: 180 TGLSKGVGFIRFDQRVEAERAIQELNGTIPKGSSEPITVKFANNPSNNNKAIPPL-AYLT 238

Query: 65  PQAAAARRFGGPIHH-AGRF 83
           PQ  A RR+GGPIHH  GRF
Sbjct: 239 PQ--ATRRYGGPIHHPTGRF 256

Source: Apis mellifera

Species: Apis mellifera

Genus: Apis

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

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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	83
FB|FBgn0086675	356	fne "found in neurons" [Drosop	0.867	0.202	0.546	2.7e-13
UNIPROTKB|D4AAT0	351	Elavl4 "ELAV-like protein 4" [	0.903	0.213	0.5	7.1e-13
UNIPROTKB|A2VDK5	366	ELAVL4 "Uncharacterized protei	0.903	0.204	0.5	8.1e-13
UNIPROTKB|J9PAL3	366	ELAVL4 "Uncharacterized protei	0.903	0.204	0.5	8.1e-13
UNIPROTKB|B1APY9	371	ELAVL4 "cDNA FLJ50619, highly	0.903	0.202	0.5	8.4e-13
RGD|1560027	373	Elavl4 "ELAV (embryonic lethal	0.903	0.201	0.5	8.5e-13
UNIPROTKB|O09032	373	Elavl4 "ELAV-like protein 4" [	0.903	0.201	0.5	8.5e-13
UNIPROTKB|P26378	380	ELAVL4 "ELAV-like protein 4" [	0.903	0.197	0.5	9e-13
UNIPROTKB|F1LRX3	380	Elavl4 "ELAV-like protein 4" [	0.903	0.197	0.5	9e-13
UNIPROTKB|F1P856	382	ELAVL4 "Uncharacterized protei	0.903	0.196	0.5	9.1e-13

FB|FBgn0086675 fne "found in neurons" [Drosophila melanogaster (taxid:7227)]

 Score = 179 (68.1 bits), Expect = 2.7e-13, P = 2.7e-13
 Identities = 41/75 (54%), Positives = 45/75 (60%)

Query:    11 LGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSPSSSNKVIXX---XXXXXXXXX 67
             +GFIRFDQR EAERAIQELNG  PKG  EPITVKFAN+PS+S K                
Sbjct:   173 VGFIRFDQRNEAERAIQELNGKTPKGYAEPITVKFANNPSNSAKAQIAPPLTAYLTPQAA 232

Query:    68 XXXRRFGGPIHHAGR 82
                RR  G +  AGR
Sbjct:   233 AATRRLAGALPSAGR 247

GO:0003729 "mRNA binding" evidence=ISS;NAS

GO:0005737 "cytoplasm" evidence=IDA

GO:0051252 "regulation of RNA metabolic process" evidence=IMP

GO:0008266 "poly(U) RNA binding" evidence=IDA

GO:0000166 "nucleotide binding" evidence=IEA

GO:0008049 "male courtship behavior" evidence=IMP

UNIPROTKB|D4AAT0 Elavl4 "ELAV-like protein 4" [Rattus norvegicus (taxid:10116)]

 Score = 175 (66.7 bits), Expect = 7.1e-13, P = 7.1e-13
 Identities = 40/80 (50%), Positives = 48/80 (60%)

Query:     5 TDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSPSSSNKVIXXXXXXXX 64
             T   R +GFIRFD+RIEAE AI+ LNG  P G+ EPITVKFAN+PS  +           
Sbjct:   167 TGVSRGVGFIRFDKRIEAEEAIKGLNGQKPSGATEPITVKFANNPSQKSS----QALLSQ 222

Query:    65 XXXXXXRRFGGPIHH-AGRF 83
                   RR+ GP+HH A RF
Sbjct:   223 LYQSPNRRYPGPLHHQAQRF 242

GO:0000166 "nucleotide binding" evidence=IEA

GO:0003723 "RNA binding" evidence=IEA

UNIPROTKB|A2VDK5 ELAVL4 "Uncharacterized protein" [Bos taurus (taxid:9913)]

 Score = 175 (66.7 bits), Expect = 8.1e-13, P = 8.1e-13
 Identities = 40/80 (50%), Positives = 48/80 (60%)

Query:     5 TDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSPSSSNKVIXXXXXXXX 64
             T   R +GFIRFD+RIEAE AI+ LNG  P G+ EPITVKFAN+PS  +           
Sbjct:   169 TGVSRGVGFIRFDKRIEAEEAIKGLNGQKPSGATEPITVKFANNPSQKSS----QALLSQ 224

Query:    65 XXXXXXRRFGGPIHH-AGRF 83
                   RR+ GP+HH A RF
Sbjct:   225 LYQSPNRRYPGPLHHQAQRF 244

GO:0017091 "AU-rich element binding" evidence=IEA

GO:0000166 "nucleotide binding" evidence=IEA

UNIPROTKB|J9PAL3 ELAVL4 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]

 Score = 175 (66.7 bits), Expect = 8.1e-13, P = 8.1e-13
 Identities = 40/80 (50%), Positives = 48/80 (60%)

Query:     5 TDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSPSSSNKVIXXXXXXXX 64
             T   R +GFIRFD+RIEAE AI+ LNG  P G+ EPITVKFAN+PS  +           
Sbjct:   169 TGVSRGVGFIRFDKRIEAEEAIKGLNGQKPSGATEPITVKFANNPSQKSS----QALLSQ 224

Query:    65 XXXXXXRRFGGPIHH-AGRF 83
                   RR+ GP+HH A RF
Sbjct:   225 LYQSPNRRYPGPLHHQAQRF 244

GO:0003723 "RNA binding" evidence=IEA

GO:0000166 "nucleotide binding" evidence=IEA

UNIPROTKB|B1APY9 ELAVL4 "cDNA FLJ50619, highly similar to ELAV-like protein 4" [Homo sapiens (taxid:9606)]

 Score = 175 (66.7 bits), Expect = 8.4e-13, P = 8.4e-13
 Identities = 40/80 (50%), Positives = 48/80 (60%)

Query:     5 TDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSPSSSNKVIXXXXXXXX 64
             T   R +GFIRFD+RIEAE AI+ LNG  P G+ EPITVKFAN+PS  +           
Sbjct:   174 TGVSRGVGFIRFDKRIEAEEAIKGLNGQKPSGATEPITVKFANNPSQKSS----QALLSQ 229

Query:    65 XXXXXXRRFGGPIHH-AGRF 83
                   RR+ GP+HH A RF
Sbjct:   230 LYQSPNRRYPGPLHHQAQRF 249

GO:0000166 "nucleotide binding" evidence=IEA

GO:0003723 "RNA binding" evidence=IEA

RGD|1560027 Elavl4 "ELAV (embryonic lethal, abnormal vision, Drosophila)-like 4" [Rattus norvegicus (taxid:10116)]

 Score = 175 (66.7 bits), Expect = 8.5e-13, P = 8.5e-13
 Identities = 40/80 (50%), Positives = 48/80 (60%)

Query:     5 TDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSPSSSNKVIXXXXXXXX 64
             T   R +GFIRFD+RIEAE AI+ LNG  P G+ EPITVKFAN+PS  +           
Sbjct:   162 TGVSRGVGFIRFDKRIEAEEAIKGLNGQKPSGATEPITVKFANNPSQKSS----QALLSQ 217

Query:    65 XXXXXXRRFGGPIHH-AGRF 83
                   RR+ GP+HH A RF
Sbjct:   218 LYQSPNRRYPGPLHHQAQRF 237

GO:0000166 "nucleotide binding" evidence=IEA

GO:0017091 "AU-rich element binding" evidence=IEA;ISO;ISS

UNIPROTKB|O09032 Elavl4 "ELAV-like protein 4" [Rattus norvegicus (taxid:10116)]

 Score = 175 (66.7 bits), Expect = 8.5e-13, P = 8.5e-13
 Identities = 40/80 (50%), Positives = 48/80 (60%)

Query:     5 TDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSPSSSNKVIXXXXXXXX 64
             T   R +GFIRFD+RIEAE AI+ LNG  P G+ EPITVKFAN+PS  +           
Sbjct:   162 TGVSRGVGFIRFDKRIEAEEAIKGLNGQKPSGATEPITVKFANNPSQKSS----QALLSQ 217

Query:    65 XXXXXXRRFGGPIHH-AGRF 83
                   RR+ GP+HH A RF
Sbjct:   218 LYQSPNRRYPGPLHHQAQRF 237

GO:0000166 "nucleotide binding" evidence=IEA

UNIPROTKB|P26378 ELAVL4 "ELAV-like protein 4" [Homo sapiens (taxid:9606)]

 Score = 175 (66.7 bits), Expect = 9.0e-13, P = 9.0e-13
 Identities = 40/80 (50%), Positives = 48/80 (60%)

Query:     5 TDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSPSSSNKVIXXXXXXXX 64
             T   R +GFIRFD+RIEAE AI+ LNG  P G+ EPITVKFAN+PS  +           
Sbjct:   169 TGVSRGVGFIRFDKRIEAEEAIKGLNGQKPSGATEPITVKFANNPSQKSS----QALLSQ 224

Query:    65 XXXXXXRRFGGPIHH-AGRF 83
                   RR+ GP+HH A RF
Sbjct:   225 LYQSPNRRYPGPLHHQAQRF 244

GO:0000166 "nucleotide binding" evidence=IEA

GO:0017091 "AU-rich element binding" evidence=IDA

GO:0006397 "mRNA processing" evidence=TAS

GO:0003723 "RNA binding" evidence=TAS

GO:0003730 "mRNA 3'-UTR binding" evidence=TAS

GO:0006396 "RNA processing" evidence=TAS

UNIPROTKB|F1LRX3 Elavl4 "ELAV-like protein 4" [Rattus norvegicus (taxid:10116)]

 Score = 175 (66.7 bits), Expect = 9.0e-13, P = 9.0e-13
 Identities = 40/80 (50%), Positives = 48/80 (60%)

Query:     5 TDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSPSSSNKVIXXXXXXXX 64
             T   R +GFIRFD+RIEAE AI+ LNG  P G+ EPITVKFAN+PS  +           
Sbjct:   169 TGVSRGVGFIRFDKRIEAEEAIKGLNGQKPSGATEPITVKFANNPSQKSS----QALLSQ 224

Query:    65 XXXXXXRRFGGPIHH-AGRF 83
                   RR+ GP+HH A RF
Sbjct:   225 LYQSPNRRYPGPLHHQAQRF 244

GO:0000166 "nucleotide binding" evidence=IEA

GO:0017091 "AU-rich element binding" evidence=IEA

UNIPROTKB|F1P856 ELAVL4 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]

 Score = 175 (66.7 bits), Expect = 9.1e-13, P = 9.1e-13
 Identities = 40/80 (50%), Positives = 48/80 (60%)

Query:     5 TDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSPSSSNKVIXXXXXXXX 64
             T   R +GFIRFD+RIEAE AI+ LNG  P G+ EPITVKFAN+PS  +           
Sbjct:   185 TGVSRGVGFIRFDKRIEAEEAIKGLNGQKPSGATEPITVKFANNPSQKSS----QALLSQ 240

Query:    65 XXXXXXRRFGGPIHH-AGRF 83
                   RR+ GP+HH A RF
Sbjct:   241 LYQSPNRRYPGPLHHQAQRF 260

GO:0003723 "RNA binding" evidence=IEA

GO:0000166 "nucleotide binding" evidence=IEA

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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)
O09032	ELAV4_RAT	No assigned EC number	0.5487	0.8795	0.1957	yes	N/A
P26378	ELAV4_HUMAN	No assigned EC number	0.5487	0.8795	0.1921	yes	N/A
Q61701	ELAV4_MOUSE	No assigned EC number	0.5487	0.8795	0.1896	yes	N/A
A4QNI8	ELAV4_XENTR	No assigned EC number	0.525	0.9036	0.1875	yes	N/A

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

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Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database

ID	Length	Definition	E-value
Query	83
TIGR01661	352	TIGR01661, ELAV_HUD_SF, ELAV/HuD family splicing f	6e-24
cd12652	79	cd12652, RRM2_Hu, RNA recognition motif 2 in the H	1e-19
cd12775	90	cd12775, RRM2_HuB, RNA recognition motif 2 in vert	6e-15
cd12776	81	cd12776, RRM2_HuC, RNA recognition motif 2 in vert	9e-14
cd12376	79	cd12376, RRM2_Hu_like, RNA recognition motif 2 in	4e-13
cd12774	81	cd12774, RRM2_HuD, RNA recognition motif 2 in vert	8e-13
cd12773	84	cd12773, RRM2_HuR, RNA recognition motif 2 in vert	3e-12
cd12651	79	cd12651, RRM2_SXL, RNA recognition motif 2 in Dros	4e-09
TIGR01659	346	TIGR01659, sex-lethal, sex-lethal family splicing	1e-06
cd12637	80	cd12637, RRM2_FCA, RNA recognition motif 2 in plan	1e-05
cd12244	79	cd12244, RRM2_MSSP, RNA recognition motif 2 in the	2e-05
cd12332	71	cd12332, RRM1_p54nrb_like, RNA recognition motif 1	5e-05
cd12346	72	cd12346, RRM3_NGR1_NAM8_like, RNA recognition moti	3e-04
pfam00076	70	pfam00076, RRM_1, RNA recognition motif	5e-04
cd12361	77	cd12361, RRM1_2_CELF1-6_like, RNA recognition moti	8e-04
cd00590	72	cd00590, RRM_SF, RNA recognition motif (RRM) super	0.001

>gnl|CDD|233516 TIGR01661, ELAV_HUD_SF, ELAV/HuD family splicing factor

 Score = 91.9 bits (228), Expect = 6e-24
 Identities = 42/85 (49%), Positives = 52/85 (61%), Gaps = 9/85 (10%)

Query: 5   TDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSPSSSNK--VIAPLAAY 62
           T   + +GFIRFD+R EA+RAI+ LNGT P G  EPITVKFAN+PSSSN   +++ L A 
Sbjct: 127 TGLSKGVGFIRFDKRDEADRAIKTLNGTTPSGCTEPITVKFANNPSSSNSKGLLSQLEAV 186

Query: 63  LTPQ-------AAAARRFGGPIHHA 80
             PQ               GP+HHA
Sbjct: 187 QNPQTTRVPLSTILTAAGIGPMHHA 211

This model describes the ELAV/HuD subfamily of splicing factors found in metazoa. HuD stands for the human paraneoplastic encephalomyelitis antigen D of which there are 4 variants in human. ELAV stnds for the Drosophila Embryonic lethal abnormal visual protein. ELAV-like splicing factors are also known in human as HuB (ELAV-like protein 2), HuC (ELAV-like protein 3, Paraneoplastic cerebellar degeneration-associated antigen) and HuR (ELAV-like protein 1). These genes are most closely related to the sex-lethal subfamily of splicing factors found in Dipteran insects (TIGR01659). These proteins contain 3 RNA-recognition motifs (rrm: pfam00076). Length = 352

>gnl|CDD|241096 cd12652, RRM2_Hu, RNA recognition motif 2 in the Hu proteins family

 Score = 74.6 bits (184), Expect = 1e-19
 Identities = 30/38 (78%), Positives = 34/38 (89%)

Query: 9  RYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFA 46
          R +GFIRFD+RIEAERAI+ LNGTIP G+ EPITVKFA
Sbjct: 42 RGVGFIRFDKRIEAERAIKALNGTIPPGATEPITVKFA 79

This subfamily corresponds to the RRM2 of Hu proteins family which represents a group of RNA-binding proteins involved in diverse biological processes. Since the Hu proteins share high homology with the Drosophila embryonic lethal abnormal vision (ELAV) protein, the Hu family is sometimes referred to as the ELAV family. Drosophila ELAV is exclusively expressed in neurons and is required for the correct differentiation and survival of neurons in flies. The neuronal members of the Hu family include Hu-antigen B (HuB or ELAV-2 or Hel-N1), Hu-antigen C (HuC or ELAV-3 or PLE21), and Hu-antigen D (HuD or ELAV-4), which play important roles in neuronal differentiation, plasticity and memory. HuB is also expressed in gonads. Hu-antigen R (HuR or ELAV-1 or HuA) is the ubiquitously expressed Hu family member. It has a variety of biological functions mostly related to the regulation of cellular response to DNA damage and other types of stress. Moreover, HuR has an anti-apoptotic function during early cell stress response. It binds to mRNAs and enhances the expression of several anti-apoptotic proteins, such as p21waf1, p53, and prothymosin alpha. HuR also has pro-apoptotic function by promoting apoptosis when cell death is unavoidable. Furthermore, HuR may be important in muscle differentiation, adipogenesis, suppression of inflammatory response and modulation of gene expression in response to chronic ethanol exposure and amino acid starvation. Hu proteins perform their cytoplasmic and nuclear molecular functions by coordinately regulating functionally related mRNAs. In the cytoplasm, Hu proteins recognize and bind to AU-rich RNA elements (AREs) in the 3' untranslated regions (UTRs) of certain target mRNAs, such as GAP-43, vascular epithelial growth factor (VEGF), the glucose transporter GLUT1, eotaxin and c-fos, and stabilize those ARE-containing mRNAs. They also bind and regulate the translation of some target mRNAs, such as neurofilament M, GLUT1, and p27. In the nucleus, Hu proteins function as regulators of polyadenylation and alternative splicing. Each Hu protein contains three RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains). RRM1 and RRM2 may cooperate in binding to an ARE. RRM3 may help to maintain the stability of the RNA-protein complex, and might also bind to poly(A) tails or be involved in protein-protein interactions. . Length = 79

>gnl|CDD|241219 cd12775, RRM2_HuB, RNA recognition motif 2 in vertebrate Hu-antigen B (HuB)

 Score = 63.3 bits (153), Expect = 6e-15
 Identities = 31/46 (67%), Positives = 36/46 (78%)

Query: 5  TDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSPS 50
          T   R +GFIRFD+RIEAE AI+ LNG  P G+ EPITVKFAN+PS
Sbjct: 43 TGVSRGVGFIRFDKRIEAEEAIKGLNGQKPPGATEPITVKFANNPS 88

This subgroup corresponds to the RRM2 of HuB, also termed ELAV-like protein 2 (ELAV-2), or ELAV-like neuronal protein 1, or nervous system-specific RNA-binding protein Hel-N1 (Hel-N1), one of the neuronal members of the Hu family. The neuronal Hu proteins play important roles in neuronal differentiation, plasticity and memory. HuB is also expressed in gonads. It is up-regulated during neuronal differentiation of embryonic carcinoma P19 cells. Like other Hu proteins, HuB contains three RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains). RRM1 and RRM2 may cooperate in binding to an AU-rich RNA element (ARE). RRM3 may help to maintain the stability of the RNA-protein complex, and might also bind to poly(A) tails or be involved in protein-protein interactions. . Length = 90

>gnl|CDD|241220 cd12776, RRM2_HuC, RNA recognition motif 2 in vertebrate Hu-antigen C (HuC)

 Score = 60.0 bits (145), Expect = 9e-14
 Identities = 29/43 (67%), Positives = 33/43 (76%)

Query: 5  TDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFAN 47
          T   R +GFIRFD+RIEAE AI+ LNG  P G+ EPITVKFAN
Sbjct: 39 TGISRGVGFIRFDKRIEAEEAIKGLNGQKPLGAAEPITVKFAN 81

This subgroup corresponds to the RRM2 of HuC, also termed ELAV-like protein 3 (ELAV-3), or paraneoplastic cerebellar degeneration-associated antigen, or paraneoplastic limbic encephalitis antigen 21 (PLE21), one of the neuronal members of the Hu family. The neuronal Hu proteins play important roles in neuronal differentiation, plasticity and memory. Like other Hu proteins, HuC contains three RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains). RRM1 and RRM2 may cooperate in binding to an AU-rich RNA element (ARE). The AU-rich element binding of HuC can be inhibited by flavonoids. RRM3 may help to maintain the stability of the RNA-protein complex, and might also bind to poly(A) tails or be involved in protein-protein interactions. . Length = 81

>gnl|CDD|240822 cd12376, RRM2_Hu_like, RNA recognition motif 2 in the Hu proteins family, Drosophila sex-lethal (SXL), and similar proteins

 Score = 58.4 bits (141), Expect = 4e-13
 Identities = 27/38 (71%), Positives = 33/38 (86%)

Query: 9  RYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFA 46
          R +GFIRFD+RIEAE AI+ LNG  P+G++EPITVKFA
Sbjct: 42 RGVGFIRFDKRIEAEEAIKGLNGQKPEGASEPITVKFA 79

This subfamily corresponds to the RRM2 of Hu proteins and SXL. The Hu proteins family represents a group of RNA-binding proteins involved in diverse biological processes. Since the Hu proteins share high homology with the Drosophila embryonic lethal abnormal vision (ELAV) protein, the Hu family is sometimes referred to as the ELAV family. Drosophila ELAV is exclusively expressed in neurons and is required for the correct differentiation and survival of neurons in flies. The neuronal members of the Hu family include Hu-antigen B (HuB or ELAV-2 or Hel-N1), Hu-antigen C (HuC or ELAV-3 or PLE21), and Hu-antigen D (HuD or ELAV-4), which play important roles in neuronal differentiation, plasticity and memory. HuB is also expressed in gonads. Hu-antigen R (HuR or ELAV-1 or HuA) is the ubiquitously expressed Hu family member. It has a variety of biological functions mostly related to the regulation of cellular response to DNA damage and other types of stress. Hu proteins perform their cytoplasmic and nuclear molecular functions by coordinately regulating functionally related mRNAs. In the cytoplasm, Hu proteins recognize and bind to AU-rich RNA elements (AREs) in the 3' untranslated regions (UTRs) of certain target mRNAs, such as GAP-43, vascular epithelial growth factor (VEGF), the glucose transporter GLUT1, eotaxin and c-fos, and stabilize those ARE-containing mRNAs. They also bind and regulate the translation of some target mRNAs, such as neurofilament M, GLUT1, and p27. In the nucleus, Hu proteins function as regulators of polyadenylation and alternative splicing. Each Hu protein contains three RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains). RRM1 and RRM2 may cooperate in binding to an ARE. RRM3 may help to maintain the stability of the RNA-protein complex, and might also bind to poly(A) tails or be involved in protein-protein interactions. Also included in this subfamily is the sex-lethal protein (SXL) from Drosophila melanogaster. SXL governs sexual differentiation and X chromosome dosage compensation in flies. It induces female-specific alternative splicing of the transformer (tra) pre-mRNA by binding to the tra uridine-rich polypyrimidine tract at the non-sex-specific 3' splice site during the sex-determination process. SXL binds also to its own pre-mRNA and promotes female-specific alternative splicing. SXL contains an N-terminal Gly/Asn-rich domain that may be responsible for the protein-protein interaction, and tandem RRMs that show high preference to bind single-stranded, uridine-rich target RNA transcripts. . Length = 79

>gnl|CDD|241218 cd12774, RRM2_HuD, RNA recognition motif 2 in vertebrate Hu-antigen D (HuD)

 Score = 57.4 bits (138), Expect = 8e-13
 Identities = 28/42 (66%), Positives = 32/42 (76%)

Query: 5  TDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFA 46
          T   R +GFIRFD+RIEAE AI+ LNG  P G+ EPITVKFA
Sbjct: 40 TGVSRGVGFIRFDKRIEAEEAIKGLNGQKPSGAAEPITVKFA 81

This subgroup corresponds to the RRM2 of HuD, also termed ELAV-like protein 4 (ELAV-4), or paraneoplastic encephalomyelitis antigen HuD, one of the neuronal members of the Hu family. The neuronal Hu proteins play important roles in neuronal differentiation, plasticity and memory. HuD has been implicated in various aspects of neuronal function, such as the commitment and differentiation of neuronal precursors as well as synaptic remodeling in mature neurons. HuD also functions as an important regulator of mRNA expression in neurons by interacting with AU-rich RNA element (ARE) and stabilizing multiple transcripts. Moreover, HuD regulates the nuclear processing/stability of N-myc pre-mRNA in neuroblastoma cells and also regulates the neurite elongation and morphological differentiation. HuD specifically binds poly(A) RNA. Like other Hu proteins, HuD contains three RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains). RRM1 and RRM2 may cooperate in binding to an ARE. RRM3 may help to maintain the stability of the RNA-protein complex, and might also bind to poly(A) tails or be involved in protein-protein interactions. . Length = 81

>gnl|CDD|241217 cd12773, RRM2_HuR, RNA recognition motif 2 in vertebrate Hu-antigen R (HuR)

 Score = 56.2 bits (135), Expect = 3e-12
 Identities = 27/46 (58%), Positives = 32/46 (69%)

Query: 5  TDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSPS 50
          T   R + FIRFD+R EAE AI   NG  P GS+EPITVKFA +P+
Sbjct: 38 TGLSRGVAFIRFDKRSEAEEAITSFNGHKPPGSSEPITVKFAANPN 83

This subgroup corresponds to the RRM2 of HuR, also termed ELAV-like protein 1 (ELAV-1), the ubiquitously expressed Hu family member. It has a variety of biological functions mostly related to the regulation of cellular response to DNA damage and other types of stress. HuR has an anti-apoptotic function during early cell stress response. It binds to mRNAs and enhances the expression of several anti-apoptotic proteins, such as p21waf1, p53, and prothymosin alpha. HuR also has pro-apoptotic function by promoting apoptosis when cell death is unavoidable. Furthermore, HuR may be important in muscle differentiation, adipogenesis, suppression of inflammatory response and modulation of gene expression in response to chronic ethanol exposure and amino acid starvation. Like other Hu proteins, HuR contains three RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains). RRM1 and RRM2 may cooperate in binding to an AU-rich RNA element (ARE). RRM3 may help to maintain the stability of the RNA-protein complex, and might also bind to poly(A) tails or be involved in protein-protein interactions. . Length = 84

>gnl|CDD|241095 cd12651, RRM2_SXL, RNA recognition motif 2 in Drosophila sex-lethal (SXL) and similar proteins

 Score = 48.0 bits (114), Expect = 4e-09
 Identities = 20/38 (52%), Positives = 29/38 (76%)

Query: 9  RYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFA 46
          R + F+R+D+R EA+ AI  LNGTIP GS  P++V++A
Sbjct: 42 RGVAFVRYDKREEAQAAISSLNGTIPPGSTMPLSVRYA 79

This subfamily corresponds to the RRM2 of the sex-lethal protein (SXL) which governs sexual differentiation and X chromosome dosage compensation in Drosophila melanogaster. It induces female-specific alternative splicing of the transformer (tra) pre-mRNA by binding to the tra uridine-rich polypyrimidine tract at the non-sex-specific 3' splice site during the sex-determination process. SXL binds also to its own pre-mRNA and promotes female-specific alternative splicing. SXL contains an N-terminal Gly/Asn-rich domain that may be responsible for the protein-protein interaction, and tandem RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), that show high preference to bind single-stranded, uridine-rich target RNA transcripts. . Length = 79

>gnl|CDD|233515 TIGR01659, sex-lethal, sex-lethal family splicing factor

 Score = 43.9 bits (103), Expect = 1e-06
 Identities = 18/38 (47%), Positives = 28/38 (73%)

Query: 9   RYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFA 46
           R + F+RF++R EA+ AI  LN  IP+G ++P+TV+ A
Sbjct: 235 RGVAFVRFNKREEAQEAISALNNVIPEGGSQPLTVRLA 272

This model describes the sex-lethal family of splicing factors found in Dipteran insects. The sex-lethal phenotype, however, may be limited to the Melanogasters and closely related species. In Drosophila the protein acts as an inhibitor of splicing. This subfamily is most closely related to the ELAV/HUD subfamily of splicing factors (TIGR01661). Length = 346

>gnl|CDD|241081 cd12637, RRM2_FCA, RNA recognition motif 2 in plant flowering time control protein FCA and similar proteins

 Score = 39.4 bits (92), Expect = 1e-05
 Identities = 13/41 (31%), Positives = 25/41 (60%), Gaps = 1/41 (2%)

Query: 8  CRYLGFIRFDQRIEAERAIQELNGT-IPKGSNEPITVKFAN 47
           R   F+++  +  A+ AI+ LNG    +G ++P+ V+FA+
Sbjct: 39 SRGCAFVKYSSKEMAQAAIKALNGVYTMRGCDQPLIVRFAD 79

This subgroup corresponds to the RRM2 of FCA, a gene controlling flowering time in Arabidopsis, which encodes a flowering time control protein that functions in the posttranscriptional regulation of transcripts involved in the flowering process. The flowering time control protein FCA contains two RNA recognition motifs (RRMs), also known as RBDs (RNA binding domains) or RNP (ribonucleoprotein domains), and a WW protein interaction domain. . Length = 80

>gnl|CDD|240690 cd12244, RRM2_MSSP, RNA recognition motif 2 in the c-myc gene single-strand binding proteins (MSSP) family

 Score = 38.5 bits (90), Expect = 2e-05
 Identities = 17/38 (44%), Positives = 22/38 (57%)

Query: 9  RYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFA 46
          R +GF R + R + E  I + NG   KG  EP+ VKFA
Sbjct: 41 RGVGFARMESREKCEDIISKFNGKYLKGEGEPLLVKFA 78

This subfamily corresponds to the RRM2 of c-myc gene single-strand binding proteins (MSSP) family, including single-stranded DNA-binding protein MSSP-1 (also termed RBMS1 or SCR2) and MSSP-2 (also termed RBMS2 or SCR3). All MSSP family members contain two RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), both of which are responsible for the specific DNA binding activity. Both, MSSP-1 and -2, have been identified as protein factors binding to a putative DNA replication origin/transcriptional enhancer sequence present upstream from the human c-myc gene in both single- and double-stranded forms. Thus they have been implied in regulating DNA replication, transcription, apoptosis induction, and cell-cycle movement, via the interaction with C-MYC, the product of protooncogene c-myc. Moreover, they family includes a new member termed RNA-binding motif, single-stranded-interacting protein 3 (RBMS3), which is not a transcriptional regulator. RBMS3 binds with high affinity to A/U-rich stretches of RNA, and to A/T-rich DNA sequences, and functions as a regulator of cytoplasmic activity. In addition, a putative meiosis-specific RNA-binding protein termed sporulation-specific protein 5 (SPO5, or meiotic RNA-binding protein 1, or meiotically up-regulated gene 12 protein), encoded by Schizosaccharomyces pombe Spo5/Mug12 gene, is also included in this family. SPO5 is a novel meiosis I regulator that may function in the vicinity of the Mei2 dot. . Length = 79

>gnl|CDD|240778 cd12332, RRM1_p54nrb_like, RNA recognition motif 1 in the p54nrb/PSF/PSP1 family

 Score = 37.3 bits (87), Expect = 5e-05
 Identities = 19/44 (43%), Positives = 24/44 (54%), Gaps = 9/44 (20%)

Query: 2  KGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKF 45
          KGF       GFIR D R  AE+A  EL+G + KG    + V+F
Sbjct: 37 KGF-------GFIRLDTRTNAEKAKAELDGIMRKG--RQLRVRF 71

This subfamily corresponds to the RRM1 of the p54nrb/PSF/PSP1 family, including 54 kDa nuclear RNA- and DNA-binding protein (p54nrb or NonO or NMT55), polypyrimidine tract-binding protein (PTB)-associated-splicing factor (PSF or POMp100), paraspeckle protein 1 (PSP1 or PSPC1), which are ubiquitously expressed and are conserved in vertebrates. p54nrb is a multi-functional protein involved in numerous nuclear processes including transcriptional regulation, splicing, DNA unwinding, nuclear retention of hyperedited double-stranded RNA, viral RNA processing, control of cell proliferation, and circadian rhythm maintenance. PSF is also a multi-functional protein that binds RNA, single-stranded DNA (ssDNA), double-stranded DNA (dsDNA) and many factors, and mediates diverse activities in the cell. PSP1 is a novel nucleolar factor that accumulates within a new nucleoplasmic compartment, termed paraspeckles, and diffusely distributes in the nucleoplasm. The cellular function of PSP1 remains unknown currently. This subfamily also includes some p54nrb/PSF/PSP1 homologs from invertebrate species, such as the Drosophila melanogaster gene no-ontransient A (nonA) encoding puff-specific protein Bj6 (also termed NONA) and Chironomus tentans hrp65 gene encoding protein Hrp65. D. melanogaster NONA is involved in eye development and behavior, and may play a role in circadian rhythm maintenance, similar to vertebrate p54nrb. C. tentans Hrp65 is a component of nuclear fibers associated with ribonucleoprotein particles in transit from the gene to the nuclear pore. All family members contain a DBHS domain (for Drosophila behavior, human splicing), which comprises two conserved RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), and a charged protein-protein interaction module. PSF has an additional large N-terminal domain that differentiates it from other family members. . Length = 71

>gnl|CDD|240792 cd12346, RRM3_NGR1_NAM8_like, RNA recognition motif 3 in yeast negative growth regulatory protein NGR1 (RBP1), yeast protein NAM8 and similar proteins

 Score = 35.4 bits (82), Expect = 3e-04
 Identities = 15/26 (57%), Positives = 18/26 (69%)

Query: 12 GFIRFDQRIEAERAIQELNGTIPKGS 37
          GF++F  R  AE AIQ+L GTI  GS
Sbjct: 40 GFVQFVHRAAAEAAIQQLQGTIIGGS 65

This subfamily corresponds to the RRM3 of NGR1 and NAM8. NGR1, also termed RNA-binding protein RBP1, is a putative glucose-repressible protein that binds both RNA and single-stranded DNA (ssDNA) in yeast. It may function in regulating cell growth in early log phase, possibly through its participation in RNA metabolism. NGR1 contains two RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), followed by a glutamine-rich stretch that may be involved in transcriptional activity. In addition, NGR1 has an asparagine-rich region near the carboxyl terminus which also harbors a methionine-rich region. The family also includes protein NAM8, which is a putative RNA-binding protein that acts as a suppressor of mitochondrial splicing deficiencies when overexpressed in yeast. It may be a non-essential component of the mitochondrial splicing machinery. Like NGR1, NAM8 contains two RRMs. . Length = 72

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

 Score = 34.5 bits (80), Expect = 5e-04
 Identities = 10/38 (26%), Positives = 19/38 (50%)

Query: 1  MKGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSN 38
          ++  T   +   F+ F+   +AE+A++ LNG    G  
Sbjct: 31 VRDETGRSKGFAFVEFEDEEDAEKALEALNGKELGGRE 68

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

>gnl|CDD|240807 cd12361, RRM1_2_CELF1-6_like, RNA recognition motif 1 and 2 in CELF/Bruno-like family of RNA binding proteins and plant flowering time control protein FCA

 Score = 34.1 bits (79), Expect = 8e-04
 Identities = 13/34 (38%), Positives = 23/34 (67%), Gaps = 1/34 (2%)

Query: 12 GFIRFDQRIEAERAIQELNGTIP-KGSNEPITVK 44
           F++F  R EA++AI+ L+G +   G++ P+ VK
Sbjct: 44 AFVKFSSREEAQKAIEALHGKVTMPGASRPLQVK 77

This subfamily corresponds to the RRM1 and RRM2 domains of the CUGBP1 and ETR-3-like factors (CELF) as well as plant flowering time control protein FCA. CELF, also termed BRUNOL (Bruno-like) proteins, is a family of structurally related RNA-binding proteins involved in regulation of pre-mRNA splicing in the nucleus, and control of mRNA translation and deadenylation in the cytoplasm. The family contains six members: CELF-1 (also known as BRUNOL-2, CUG-BP1, NAPOR, EDEN-BP), CELF-2 (also known as BRUNOL-3, ETR-3, CUG-BP2, NAPOR-2), CELF-3 (also known as BRUNOL-1, TNRC4, ETR-1, CAGH4, ER DA4), CELF-4 (BRUNOL-4), CELF-5 (BRUNOL-5) and CELF-6 (BRUNOL-6). They all contain three highly conserved RNA recognition motifs (RRMs), also known as RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains): two consecutive RRMs (RRM1 and RRM2) situated in the N-terminal region followed by a linker region and the third RRM (RRM3) close to the C-terminus of the protein. The low sequence conservation of the linker region is highly suggestive of a large variety in the co-factors that associate with the various CELF family members. Based on both, sequence similarity and function, the CELF family can be divided into two subfamilies, the first containing CELFs 1 and 2, and the second containing CELFs 3, 4, 5, and 6. The different CELF proteins may act through different sites on at least some substrates. Furthermore, CELF proteins may interact with each other in varying combinations to influence alternative splicing in different contexts. This subfamily also includes plant flowering time control protein FCA that functions in the posttranscriptional regulation of transcripts involved in the flowering process. FCA contains two RRMs, and a WW protein interaction domain. . Length = 77

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

 Score = 33.4 bits (77), Expect = 0.001
 Identities = 10/44 (22%), Positives = 20/44 (45%), Gaps = 2/44 (4%)

Query: 1  MKGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVK 44
          ++      +   F+ F+   +AE+A++ LNG    G    + V 
Sbjct: 31 VRDKDGKSKGFAFVEFESPEDAEKALEALNGKELDGR--KLKVS 72

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

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	83
KOG0145|consensus	360		99.75
KOG0144|consensus	510		99.11
KOG0144|consensus	510		99.08
TIGR01661	352	ELAV_HUD_SF ELAV/HuD family splicing factor. These	99.05
KOG0122|consensus	270		99.04
PLN03134	144	glycine-rich RNA-binding protein 4; Provisional	99.02
smart00361	70	RRM_1 RNA recognition motif.	98.99
KOG0146|consensus	371		98.94
KOG0145|consensus	360		98.91
TIGR01659	346	sex-lethal sex-lethal family splicing factor. This	98.9
KOG4207|consensus	256		98.85
KOG0117|consensus	506		98.82
TIGR01659	346	sex-lethal sex-lethal family splicing factor. This	98.8
TIGR01661	352	ELAV_HUD_SF ELAV/HuD family splicing factor. These	98.79
KOG0148|consensus	321		98.74
PF13893	56	RRM_5: RNA recognition motif. (a.k.a. RRM, RBD, or	98.57
TIGR01628	562	PABP-1234 polyadenylate binding protein, human typ	98.55
KOG0111|consensus	298		98.52
TIGR01645	612	half-pint poly-U binding splicing factor, half-pin	98.52
TIGR01645	612	half-pint poly-U binding splicing factor, half-pin	98.5
KOG0108|consensus	435		98.5
TIGR01622	457	SF-CC1 splicing factor, CC1-like family. A homolog	98.49
KOG4208|consensus	214		98.49
KOG0113|consensus	335		98.49
TIGR01642	509	U2AF_lg U2 snRNP auxilliary factor, large subunit,	98.48
KOG0130|consensus	170		98.48
smart00360	71	RRM RNA recognition motif.	98.46
KOG0131|consensus	203		98.46
KOG0149|consensus	247		98.45
PF00076	70	RRM_1: RNA recognition motif. (a.k.a. RRM, RBD, or	98.4
KOG0146|consensus	371		98.4
COG0724	306	RNA-binding proteins (RRM domain) [General functio	98.36
TIGR01628	562	PABP-1234 polyadenylate binding protein, human typ	98.35
TIGR01622	457	SF-CC1 splicing factor, CC1-like family. A homolog	98.28
TIGR01642	509	U2AF_lg U2 snRNP auxilliary factor, large subunit,	98.26
KOG0226|consensus	290		98.25
smart00362	72	RRM_2 RNA recognition motif.	98.17
KOG0125|consensus	376		98.16
KOG0131|consensus	203		98.14
TIGR01648	578	hnRNP-R-Q heterogeneous nuclear ribonucleoprotein	98.07
PF14259	70	RRM_6: RNA recognition motif (a.k.a. RRM, RBD, or	98.02
KOG0126|consensus	219		98.02
TIGR01648	578	hnRNP-R-Q heterogeneous nuclear ribonucleoprotein	97.99
KOG0147|consensus	549		97.98
KOG0124|consensus	544		97.96
KOG0107|consensus	195		97.95
KOG0117|consensus	506		97.91
TIGR01649	481	hnRNP-L_PTB hnRNP-L/PTB/hephaestus splicing factor	97.89
KOG0121|consensus	153		97.85
cd00590	74	RRM RRM (RNA recognition motif), also known as RBD	97.81
PLN03120	260	nucleic acid binding protein; Provisional	97.78
TIGR01649	481	hnRNP-L_PTB hnRNP-L/PTB/hephaestus splicing factor	97.77
KOG0148|consensus	321		97.74
KOG0110|consensus	725		97.7
KOG0110|consensus	725		97.69
KOG0127|consensus	678		97.67
PLN03213	759	repressor of silencing 3; Provisional	97.66
PF04059	97	RRM_2: RNA recognition motif 2; InterPro: IPR00720	97.65
KOG4212|consensus	608		97.61
KOG0123|consensus	369		97.29
KOG1457|consensus	284		97.17
KOG0127|consensus	678		97.17
PLN03121	243	nucleic acid binding protein; Provisional	97.15
KOG0123|consensus	369		97.07
KOG4206|consensus	221		97.02
KOG4209|consensus	231		96.9
KOG0114|consensus	124		96.85
KOG0105|consensus	241		96.84
KOG0120|consensus	500		96.74
KOG0109|consensus	346		96.51
KOG4212|consensus	608		96.45
KOG0533|consensus	243		96.09
KOG0132|consensus	894		96.07
KOG0109|consensus	346		95.92
KOG2314|consensus	698		95.89
PF11608	90	Limkain-b1: Limkain b1; InterPro: IPR024582 This e	95.64
KOG4205|consensus	311		95.61
KOG0106|consensus	216		95.6
KOG1995|consensus	351		95.47
KOG0415|consensus	479		95.04
KOG0124|consensus	544		94.7
KOG0147|consensus	549		94.28
KOG1548|consensus	382		94.24
KOG4661|consensus	940		94.15
KOG0120|consensus	500		94.05
KOG4205|consensus	311		93.65
KOG0153|consensus	377		93.42
KOG1456|consensus	494		92.41
KOG0106|consensus	216		91.49
KOG4454|consensus	267		91.32
KOG2202|consensus	260		89.69
KOG4660|consensus	549		88.94
KOG4307|consensus	944		88.05
KOG4660|consensus	549		87.81
KOG2416|consensus	718		87.7
KOG4849|consensus	498		87.53
KOG0151|consensus	877		87.19
COG5175	480	MOT2 Transcriptional repressor [Transcription]	85.45
KOG4206|consensus	221		85.1
PF11767	66	SET_assoc: Histone lysine methyltransferase SET as	83.39
KOG1190|consensus	492		82.6
KOG1996|consensus	378		82.02
KOG4210|consensus	285		81.89
KOG1548|consensus	382		81.8
PF02714	325	DUF221: Domain of unknown function DUF221; InterPr	81.45
KOG4211|consensus	510		80.99

>KOG0145|consensus

Probab=99.75  E-value=1.8e-18  Score=127.84  Aligned_cols=79  Identities=54%  Similarity=0.908  Sum_probs=72.2

Q ss_pred             CCCCCCCccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecCCCCCCcccccchhhhccchhhhhcccCCCCCCC
Q psy6355           1 MKGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSPSSSNKVIAPLAAYLTPQAAAARRFGGPIHHA   80 (83)
Q Consensus         1 ~Dk~TG~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   80 (83)
                      .|..||.|||+|||+|+.++||++||..|||+++.|++.||.|+||+.+++++......+++.++    .+|++|||||+
T Consensus       161 ~dqvtg~srGVgFiRFDKr~EAe~AIk~lNG~~P~g~tepItVKFannPsq~t~~a~ls~ly~sp----~rr~~Gp~hh~  236 (360)
T KOG0145|consen  161 VDQVTGLSRGVGFIRFDKRIEAEEAIKGLNGQKPSGCTEPITVKFANNPSQKTNQALLSQLYQSP----ARRYGGPMHHQ  236 (360)
T ss_pred             hhcccceecceeEEEecchhHHHHHHHhccCCCCCCCCCCeEEEecCCcccccchhhhHHhhcCc----cccCCCcccch
Confidence            37889999999999999999999999999999999999999999999998887666777888887    69999999999


Q ss_pred             -CCC
Q psy6355          81 -GRF   83 (83)
Q Consensus        81 -~~~   83 (83)
                       .||
T Consensus       237 ~~r~  240 (360)
T KOG0145|consen  237 AQRF  240 (360)
T ss_pred             hhhh
Confidence             776

>KOG0144|consensus

Probab=99.11  E-value=9e-11  Score=91.26  Aligned_cols=49  Identities=33%  Similarity=0.531  Sum_probs=46.1

Q ss_pred             CCCCccceEEEEeCCHHHHHHHHHHhCCCC-CCCCCcceEEEecCCCCCC
Q psy6355           4 FTDFCRYLGFIRFDQRIEAERAIQELNGTI-PKGSNEPITVKFANSPSSS   52 (83)
Q Consensus         4 ~TG~SrG~gFV~F~~~e~A~~AI~~LnG~~-~~G~~~~l~V~fA~~~~~~   52 (83)
                      ..|.||||+||.|..+|.|..||+.|||.. ++|++.||.|+||++.+.|
T Consensus       160 ~~~~sRGcaFV~fstke~A~~Aika~ng~~tmeGcs~PLVVkFADtqkdk  209 (510)
T KOG0144|consen  160 PDGLSRGCAFVKFSTKEMAVAAIKALNGTQTMEGCSQPLVVKFADTQKDK  209 (510)
T ss_pred             ccccccceeEEEEehHHHHHHHHHhhccceeeccCCCceEEEecccCCCc
Confidence            368999999999999999999999999996 8999999999999998777

>KOG0144|consensus

Probab=99.08  E-value=1.3e-10  Score=90.33  Aligned_cols=53  Identities=25%  Similarity=0.352  Sum_probs=49.7

Q ss_pred             CCCCCCCccceEEEEeCCHHHHHHHHHHhCCCC-CCCCCcceEEEecCCCCCCc
Q psy6355           1 MKGFTDFCRYLGFIRFDQRIEAERAIQELNGTI-PKGSNEPITVKFANSPSSSN   53 (83)
Q Consensus         1 ~Dk~TG~SrG~gFV~F~~~e~A~~AI~~LnG~~-~~G~~~~l~V~fA~~~~~~~   53 (83)
                      .||.||.|+|||||.|.++++|.+||..||..+ ++|...||.|+||+.+++++
T Consensus        68 kDk~t~~s~gcCFv~~~trk~a~~a~~Alhn~ktlpG~~~pvqvk~Ad~E~er~  121 (510)
T KOG0144|consen   68 KDKSTGQSKGCCFVKYYTRKEADEAINALHNQKTLPGMHHPVQVKYADGERERI  121 (510)
T ss_pred             cccccCcccceEEEEeccHHHHHHHHHHhhcccccCCCCcceeecccchhhhcc
Confidence            499999999999999999999999999999987 79999999999999888873

>TIGR01661 ELAV_HUD_SF ELAV/HuD family splicing factor

Probab=99.05  E-value=3.4e-10  Score=82.85  Aligned_cols=46  Identities=28%  Similarity=0.363  Sum_probs=42.5

Q ss_pred             CCCCCCccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecCCC
Q psy6355           2 KGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSP   49 (83)
Q Consensus         2 Dk~TG~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~~~   49 (83)
                      |+.||.|||||||.|.+.++|.+||+.|||..+.|  ++|.|.|+...
T Consensus       304 d~~t~~skG~aFV~F~~~~~A~~Ai~~lnG~~~~g--r~i~V~~~~~~  349 (352)
T TIGR01661       304 DLTTNQCKGYGFVSMTNYDEAAMAILSLNGYTLGN--RVLQVSFKTNK  349 (352)
T ss_pred             cCCCCCccceEEEEECCHHHHHHHHHHhCCCEECC--eEEEEEEccCC
Confidence            77899999999999999999999999999999977  78999998754

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

>KOG0122|consensus

Probab=99.04  E-value=2.8e-10  Score=83.28  Aligned_cols=47  Identities=28%  Similarity=0.401  Sum_probs=42.3

Q ss_pred             CCCCCCCccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecCCC
Q psy6355           1 MKGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSP   49 (83)
Q Consensus         1 ~Dk~TG~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~~~   49 (83)
                      +|+.||.|||||||.|.++++|.+||+.|||+-+  ...-|+|.++.+.
T Consensus       223 rdK~TG~~kGFAFVtF~sRddA~rAI~~LnG~gy--d~LILrvEwskP~  269 (270)
T KOG0122|consen  223 RDKETGLSKGFAFVTFESRDDAARAIADLNGYGY--DNLILRVEWSKPS  269 (270)
T ss_pred             EccccCcccceEEEEEecHHHHHHHHHHccCccc--ceEEEEEEecCCC
Confidence            5899999999999999999999999999999988  4467999998754

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

Probab=99.02  E-value=5.9e-10  Score=74.87  Aligned_cols=47  Identities=32%  Similarity=0.410  Sum_probs=42.5

Q ss_pred             CCCCCCCccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecCCC
Q psy6355           1 MKGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSP   49 (83)
Q Consensus         1 ~Dk~TG~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~~~   49 (83)
                      +|+.||.+||||||.|.+.++|++||+.|||..+.|  ++|.|+++...
T Consensus        68 ~d~~tg~~kGfaFV~F~~~e~A~~Al~~lng~~i~G--r~l~V~~a~~~  114 (144)
T PLN03134         68 VDRETGRSRGFGFVNFNDEGAATAAISEMDGKELNG--RHIRVNPANDR  114 (144)
T ss_pred             ecCCCCCcceEEEEEECCHHHHHHHHHHcCCCEECC--EEEEEEeCCcC
Confidence            478899999999999999999999999999999977  67999998654

>smart00361 RRM_1 RNA recognition motif

Probab=98.99  E-value=7.4e-10  Score=65.61  Aligned_cols=41  Identities=27%  Similarity=0.418  Sum_probs=35.5

Q ss_pred             CCCCC--CCccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEE
Q psy6355           1 MKGFT--DFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITV   43 (83)
Q Consensus         1 ~Dk~T--G~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V   43 (83)
                      +|+.+  |.+|||+||.|.+.++|.+|++.|||..+.|  +.|.+
T Consensus        27 ~~~~~~~~~~rG~~fV~f~~~~dA~~A~~~l~g~~~~g--r~l~~   69 (70)
T smart00361       27 IDNVGYENHKRGNVYITFERSEDAARAIVDLNGRYFDG--RTVKA   69 (70)
T ss_pred             eCCCCCCCCCcEEEEEEECCHHHHHHHHHHhCCCEECC--EEEEe
Confidence            35666  9999999999999999999999999999977  45654

>KOG0146|consensus

Probab=98.94  E-value=7e-10  Score=82.76  Aligned_cols=50  Identities=26%  Similarity=0.449  Sum_probs=46.7

Q ss_pred             CCCccceEEEEeCCHHHHHHHHHHhCCCC-CCCCCcceEEEecCCCCCCcc
Q psy6355           5 TDFCRYLGFIRFDQRIEAERAIQELNGTI-PKGSNEPITVKFANSPSSSNK   54 (83)
Q Consensus         5 TG~SrG~gFV~F~~~e~A~~AI~~LnG~~-~~G~~~~l~V~fA~~~~~~~~   54 (83)
                      +|.||||+||+|.+..||..||..|||.. +.|.+..|.|+||+++++++.
T Consensus        56 dg~sKGCAFVKf~s~~eAqaAI~aLHgSqTmpGASSSLVVK~ADTdkER~l  106 (371)
T KOG0146|consen   56 DGNSKGCAFVKFSSHAEAQAAINALHGSQTMPGASSSLVVKFADTDKERTL  106 (371)
T ss_pred             CCCCCCceEEEeccchHHHHHHHHhcccccCCCCccceEEEeccchHHHHH
Confidence            68999999999999999999999999997 799999999999999988843

>KOG0145|consensus

Probab=98.91  E-value=1.2e-09  Score=81.26  Aligned_cols=52  Identities=33%  Similarity=0.411  Sum_probs=48.2

Q ss_pred             CCCCCCCccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecCCCCCCcc
Q psy6355           1 MKGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSPSSSNK   54 (83)
Q Consensus         1 ~Dk~TG~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~~~~~~~~   54 (83)
                      .||.||+|-|||||.|.++++|++||+.|||-.+  .++.|.|+||++.+..++
T Consensus        75 RDKitGqSLGYGFVNYv~p~DAe~AintlNGLrL--Q~KTIKVSyARPSs~~Ik  126 (360)
T KOG0145|consen   75 RDKITGQSLGYGFVNYVRPKDAEKAINTLNGLRL--QNKTIKVSYARPSSDSIK  126 (360)
T ss_pred             eccccccccccceeeecChHHHHHHHhhhcceee--ccceEEEEeccCChhhhc
Confidence            4899999999999999999999999999999999  668899999999888755

>TIGR01659 sex-lethal sex-lethal family splicing factor

Probab=98.90  E-value=3.4e-09  Score=80.00  Aligned_cols=50  Identities=38%  Similarity=0.656  Sum_probs=45.6

Q ss_pred             CCCCCCccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecCCCCC
Q psy6355           2 KGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSPSS   51 (83)
Q Consensus         2 Dk~TG~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~~~~~   51 (83)
                      |+.||.+||||||+|.+.++|++||+.||+..+++..++|.|++|+....
T Consensus       228 d~~tg~~kG~aFV~F~~~e~A~~Ai~~lng~~~~g~~~~l~V~~a~~~~~  277 (346)
T TIGR01659       228 DKLTGTPRGVAFVRFNKREEAQEAISALNNVIPEGGSQPLTVRLAEEHGK  277 (346)
T ss_pred             cCCCCccceEEEEEECCHHHHHHHHHHhCCCccCCCceeEEEEECCcccc
Confidence            77899999999999999999999999999999988888999999986533

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

>KOG4207|consensus

Probab=98.85  E-value=1.8e-09  Score=77.94  Aligned_cols=44  Identities=27%  Similarity=0.585  Sum_probs=41.2

Q ss_pred             CCCCCCccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecC
Q psy6355           2 KGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFAN   47 (83)
Q Consensus         2 Dk~TG~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~   47 (83)
                      |+.|++++|||||.|.+..+|+.|++.|+|.+++|  ++|.|.+|.
T Consensus        48 dr~Tr~sRgFaFVrf~~k~daedA~damDG~~ldg--RelrVq~ar   91 (256)
T KOG4207|consen   48 DRYTRQSRGFAFVRFHDKRDAEDALDAMDGAVLDG--RELRVQMAR   91 (256)
T ss_pred             ccccccccceeEEEeeecchHHHHHHhhcceeecc--ceeeehhhh
Confidence            89999999999999999999999999999999988  679888875

>KOG0117|consensus

Probab=98.82  E-value=5.6e-09  Score=81.52  Aligned_cols=47  Identities=34%  Similarity=0.371  Sum_probs=40.3

Q ss_pred             CCCCCCCccceEEEEeCCHHHHHHHHHHhCCCCC-CCCCcceEEEecC
Q psy6355           1 MKGFTDFCRYLGFIRFDQRIEAERAIQELNGTIP-KGSNEPITVKFAN   47 (83)
Q Consensus         1 ~Dk~TG~SrG~gFV~F~~~e~A~~AI~~LnG~~~-~G~~~~l~V~fA~   47 (83)
                      ||+.+|.+||||||.|++.++|++||+.||++.| .|...-++|+.++
T Consensus       117 mD~~sG~nRGYAFVtf~~Ke~Aq~Aik~lnn~Eir~GK~igvc~Svan  164 (506)
T KOG0117|consen  117 MDPFSGDNRGYAFVTFCTKEEAQEAIKELNNYEIRPGKLLGVCVSVAN  164 (506)
T ss_pred             ecccCCCCcceEEEEeecHHHHHHHHHHhhCccccCCCEeEEEEeeec
Confidence            7999999999999999999999999999999987 6754445556555

>TIGR01659 sex-lethal sex-lethal family splicing factor

Probab=98.80  E-value=9e-09  Score=77.73  Aligned_cols=48  Identities=23%  Similarity=0.394  Sum_probs=42.8

Q ss_pred             CCCCCCCccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecCCCC
Q psy6355           1 MKGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSPS   50 (83)
Q Consensus         1 ~Dk~TG~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~~~~   50 (83)
                      .|+.||.+||||||+|.+.++|++||+.|||..+.+  ++|.|.++.+..
T Consensus       141 ~d~~tg~srGyaFVeF~~~e~A~~Ai~~LnG~~l~g--r~i~V~~a~p~~  188 (346)
T TIGR01659       141 RDYKTGYSFGYAFVDFGSEADSQRAIKNLNGITVRN--KRLKVSYARPGG  188 (346)
T ss_pred             ecCCCCccCcEEEEEEccHHHHHHHHHHcCCCccCC--ceeeeecccccc
Confidence            378899999999999999999999999999999965  689999987643

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

>TIGR01661 ELAV_HUD_SF ELAV/HuD family splicing factor

Probab=98.79  E-value=3e-08  Score=72.54  Aligned_cols=51  Identities=63%  Similarity=0.964  Sum_probs=46.3

Q ss_pred             CCCCCCccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecCCCCCC
Q psy6355           2 KGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSPSSS   52 (83)
Q Consensus         2 Dk~TG~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~~~~~~   52 (83)
                      |+.+|.++|||||.|.+.++|++||+.|||..+.|...+|.|++++.+.++
T Consensus       124 ~~~~~~~~g~~fv~f~~~~~A~~ai~~l~g~~~~g~~~~i~v~~a~~~~~~  174 (352)
T TIGR01661       124 DNVTGLSKGVGFIRFDKRDEADRAIKTLNGTTPSGCTEPITVKFANNPSSS  174 (352)
T ss_pred             cCCCCCcCcEEEEEECCHHHHHHHHHHhCCCccCCCceeEEEEECCCCCcC
Confidence            566889999999999999999999999999999888889999999887654

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

>KOG0148|consensus

Probab=98.74  E-value=1e-08  Score=76.30  Aligned_cols=47  Identities=28%  Similarity=0.366  Sum_probs=41.9

Q ss_pred             CCCCCCCccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecCCC
Q psy6355           1 MKGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSP   49 (83)
Q Consensus         1 ~Dk~TG~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~~~   49 (83)
                      .|..|++|||||||.|..+++||+||..|||+=|.+  +.|+-.+|...
T Consensus        96 rD~~T~KsKGYgFVSf~~k~dAEnAI~~MnGqWlG~--R~IRTNWATRK  142 (321)
T KOG0148|consen   96 RDMNTGKSKGYGFVSFPNKEDAENAIQQMNGQWLGR--RTIRTNWATRK  142 (321)
T ss_pred             ecccCCcccceeEEeccchHHHHHHHHHhCCeeecc--ceeeccccccC
Confidence            378899999999999999999999999999998944  77999887654

>PF13893 RRM_5: RNA recognition motif

Probab=98.57  E-value=1.1e-07  Score=53.58  Aligned_cols=36  Identities=36%  Similarity=0.676  Sum_probs=33.1

Q ss_pred             cceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEec
Q psy6355           9 RYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFA   46 (83)
Q Consensus         9 rG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA   46 (83)
                      +|++||+|.+.++|+.|++.|||..+.|  ++|.|.||
T Consensus        21 ~~~a~V~f~~~~~A~~a~~~l~~~~~~g--~~l~V~~a   56 (56)
T PF13893_consen   21 RGFAFVEFASVEDAQKAIEQLNGRQFNG--RPLKVSYA   56 (56)
T ss_dssp             TTEEEEEESSHHHHHHHHHHHTTSEETT--EEEEEEEE
T ss_pred             CCEEEEEECCHHHHHHHHHHhCCCEECC--cEEEEEEC
Confidence            6999999999999999999999999966  67999885

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

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

Probab=98.55  E-value=8.8e-08  Score=74.83  Aligned_cols=46  Identities=30%  Similarity=0.526  Sum_probs=41.4

Q ss_pred             CCCCccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecCCCCC
Q psy6355           4 FTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSPSS   51 (83)
Q Consensus         4 ~TG~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~~~~~   51 (83)
                      .+|.+||||||.|.+.++|.+|++.|||..+.|  ++|.|.+|.....
T Consensus       321 ~~g~~~g~gfV~f~~~~~A~~A~~~~~g~~~~g--k~l~V~~a~~k~~  366 (562)
T TIGR01628       321 EKGVSRGFGFVCFSNPEEANRAVTEMHGRMLGG--KPLYVALAQRKEQ  366 (562)
T ss_pred             CCCCcCCeEEEEeCCHHHHHHHHHHhcCCeeCC--ceeEEEeccCcHH
Confidence            579999999999999999999999999998976  7899999986543

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

>KOG0111|consensus

Probab=98.52  E-value=8.4e-08  Score=70.11  Aligned_cols=50  Identities=24%  Similarity=0.344  Sum_probs=44.8

Q ss_pred             CCCCCCCccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecCCCCCC
Q psy6355           1 MKGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSPSSS   52 (83)
Q Consensus         1 ~Dk~TG~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~~~~~~   52 (83)
                      +|-.+++.||||||.|...|+|..||..||+..+-|  +.|+|.||.+++-+
T Consensus        44 lDyesqkHRgFgFVefe~aEDAaaAiDNMnesEL~G--rtirVN~AkP~kik   93 (298)
T KOG0111|consen   44 LDYESQKHRGFGFVEFEEAEDAAAAIDNMNESELFG--RTIRVNLAKPEKIK   93 (298)
T ss_pred             cchhcccccceeEEEeeccchhHHHhhcCchhhhcc--eeEEEeecCCcccc
Confidence            577889999999999999999999999999999977  67999999987544

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

Probab=98.52  E-value=2.1e-07  Score=75.07  Aligned_cols=47  Identities=19%  Similarity=0.164  Sum_probs=42.4

Q ss_pred             CCCCCCccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecCCCC
Q psy6355           2 KGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSPS   50 (83)
Q Consensus         2 Dk~TG~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~~~~   50 (83)
                      |+.+|.+||||||.|.+.++|.+||+.|||..+.|  +.|.|.++.++.
T Consensus       239 D~~tgksKGfGFVeFe~~e~A~kAI~amNg~elgG--r~LrV~kAi~pP  285 (612)
T TIGR01645       239 APTGRGHKGYGFIEYNNLQSQSEAIASMNLFDLGG--QYLRVGKCVTPP  285 (612)
T ss_pred             cCCCCCcCCeEEEEECCHHHHHHHHHHhCCCeeCC--eEEEEEecCCCc
Confidence            67789999999999999999999999999999977  679999887653

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

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

Probab=98.50  E-value=1.2e-07  Score=76.55  Aligned_cols=45  Identities=20%  Similarity=0.307  Sum_probs=40.2

Q ss_pred             CCCCCCCccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecC
Q psy6355           1 MKGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFAN   47 (83)
Q Consensus         1 ~Dk~TG~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~   47 (83)
                      +|+.||.+||||||.|.+.++|++||+.|||..+.|  ++|.|....
T Consensus       141 ~D~~TgkskGfAFVeF~s~e~A~~Ai~~lnG~~i~G--R~IkV~rp~  185 (612)
T TIGR01645       141 WDPATGKHKGFAFVEYEVPEAAQLALEQMNGQMLGG--RNIKVGRPS  185 (612)
T ss_pred             ecCCCCCcCCeEEEEeCcHHHHHHHHHhcCCeEEec--ceeeecccc
Confidence            478899999999999999999999999999999977  568887544

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

>KOG0108|consensus

Probab=98.50  E-value=1.7e-07  Score=73.05  Aligned_cols=50  Identities=30%  Similarity=0.422  Sum_probs=44.9

Q ss_pred             CCCCCCCccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecCCCCCC
Q psy6355           1 MKGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSPSSS   52 (83)
Q Consensus         1 ~Dk~TG~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~~~~~~   52 (83)
                      .|+.||.+|||||+.|.+.++|+.||+.|||..+.|  ++|+|.|+.....+
T Consensus        52 ~D~~tG~~~G~~f~~~~~~~~~~~a~~~lNg~~~~g--r~l~v~~~~~~~~~  101 (435)
T KOG0108|consen   52 YDRETGKPKGFGFCEFTDEETAERAIRNLNGAEFNG--RKLRVNYASNRKNA  101 (435)
T ss_pred             ccccCCCcCceeeEecCchhhHHHHHHhcCCcccCC--ceEEeecccccchh
Confidence            499999999999999999999999999999999977  67999998765443

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

Probab=98.49  E-value=2.1e-07  Score=70.54  Aligned_cols=45  Identities=33%  Similarity=0.499  Sum_probs=41.0

Q ss_pred             CCCCCCccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecCC
Q psy6355           2 KGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANS   48 (83)
Q Consensus         2 Dk~TG~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~~   48 (83)
                      |+.+|.++|||||.|.+.++|.+|++.|||..+.|  ++|.|.|+..
T Consensus       221 d~~~g~~~g~afV~f~~~e~A~~A~~~l~g~~i~g--~~i~v~~a~~  265 (457)
T TIGR01622       221 DPETGRSKGFGFIQFHDAEEAKEALEVMNGFELAG--RPIKVGYAQD  265 (457)
T ss_pred             cCCCCccceEEEEEECCHHHHHHHHHhcCCcEECC--EEEEEEEccC
Confidence            67789999999999999999999999999988866  7899999764

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

>KOG4208|consensus

Probab=98.49  E-value=1.6e-07  Score=67.31  Aligned_cols=46  Identities=13%  Similarity=0.140  Sum_probs=39.7

Q ss_pred             CCCCCCccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecCCC
Q psy6355           2 KGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSP   49 (83)
Q Consensus         2 Dk~TG~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~~~   49 (83)
                      .+.||.|||||||.|++.+.|+-|.+.||+..+.+  +-|.|.|=.+.
T Consensus        85 nkrTGNSKgYAFVEFEs~eVA~IaAETMNNYLl~e--~lL~c~vmppe  130 (214)
T KOG4208|consen   85 NKRTGNSKGYAFVEFESEEVAKIAAETMNNYLLME--HLLECHVMPPE  130 (214)
T ss_pred             ccccCCcCceEEEEeccHHHHHHHHHHhhhhhhhh--heeeeEEeCch
Confidence            57899999999999999999999999999999866  45777775544

>KOG0113|consensus

Probab=98.49  E-value=2.6e-07  Score=69.42  Aligned_cols=52  Identities=15%  Similarity=0.180  Sum_probs=44.0

Q ss_pred             CCCCCCccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecCCCCCCcccccc
Q psy6355           2 KGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSPSSSNKVIAP   58 (83)
Q Consensus         2 Dk~TG~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~~~~~~~~~~~~   58 (83)
                      |+.||.|||||||+|.+..+...|.+..+|.+|+|  +.|.|.+-.   .++-+.|.
T Consensus       136 d~vTgkskGYAFIeye~erdm~~AYK~adG~~Idg--rri~VDvER---gRTvkgW~  187 (335)
T KOG0113|consen  136 DKVTGKSKGYAFIEYEHERDMKAAYKDADGIKIDG--RRILVDVER---GRTVKGWL  187 (335)
T ss_pred             ecccCCccceEEEEeccHHHHHHHHHhccCceecC--cEEEEEecc---cccccccc
Confidence            78999999999999999999999999999999988  568887654   33334677

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

Probab=98.48  E-value=3e-07  Score=70.50  Aligned_cols=46  Identities=20%  Similarity=0.187  Sum_probs=41.1

Q ss_pred             CCCCCCccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecCCC
Q psy6355           2 KGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSP   49 (83)
Q Consensus         2 Dk~TG~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~~~   49 (83)
                      |+.+|.++|||||.|.+.++|+.||+.|||..+.|  +.|.|.+|...
T Consensus       330 ~~~~g~~~g~afv~f~~~~~a~~A~~~l~g~~~~~--~~l~v~~a~~~  375 (509)
T TIGR01642       330 DIATGLSKGYAFCEYKDPSVTDVAIAALNGKDTGD--NKLHVQRACVG  375 (509)
T ss_pred             cCCCCCcCeEEEEEECCHHHHHHHHHHcCCCEECC--eEEEEEECccC
Confidence            67799999999999999999999999999999966  56899988643

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

>KOG0130|consensus

Probab=98.48  E-value=1.3e-07  Score=64.82  Aligned_cols=46  Identities=22%  Similarity=0.387  Sum_probs=40.5

Q ss_pred             CCCCCCCccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecCC
Q psy6355           1 MKGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANS   48 (83)
Q Consensus         1 ~Dk~TG~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~~   48 (83)
                      +|+.||..|||+.|.|.+.++|++||..|||..+.|  ++|.|.|+..
T Consensus       106 LDRRtGy~KGYaLvEYet~keAq~A~~~~Ng~~ll~--q~v~VDw~Fv  151 (170)
T KOG0130|consen  106 LDRRTGYVKGYALVEYETLKEAQAAIDALNGAELLG--QNVSVDWCFV  151 (170)
T ss_pred             cccccccccceeeeehHhHHHHHHHHHhccchhhhC--CceeEEEEEe
Confidence            689999999999999999999999999999999866  4577766543

>smart00360 RRM RNA recognition motif

Probab=98.46  E-value=4.6e-07  Score=50.09  Aligned_cols=40  Identities=30%  Similarity=0.524  Sum_probs=33.7

Q ss_pred             CCCCCCccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEE
Q psy6355           2 KGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITV   43 (83)
Q Consensus         2 Dk~TG~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V   43 (83)
                      ++.++.++|+|||.|.+.++|..|++.||+..+.|  +.|.|
T Consensus        31 ~~~~~~~~~~a~v~f~~~~~a~~a~~~~~~~~~~~--~~~~v   70 (71)
T smart00360       31 DKDTGKSKGFAFVEFESEEDAEKALEALNGKELDG--RPLKV   70 (71)
T ss_pred             CCCCCCCCceEEEEeCCHHHHHHHHHHcCCCeeCC--cEEEe
Confidence            34478899999999999999999999999988865  45555

>KOG0131|consensus

Probab=98.46  E-value=2.8e-07  Score=65.32  Aligned_cols=50  Identities=28%  Similarity=0.373  Sum_probs=45.3

Q ss_pred             CCCCCCccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecCCCCCCc
Q psy6355           2 KGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSPSSSN   53 (83)
Q Consensus         2 Dk~TG~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~~~~~~~   53 (83)
                      |..||.++|||||.|.+.+.+++||..|||+.+  ++++++|.++.+...+-
T Consensus       132 d~~tg~~~~~g~i~~~sfeasd~ai~s~ngq~l--~nr~itv~ya~k~~~kg  181 (203)
T KOG0131|consen  132 DPDTGNPKGFGFINYASFEASDAAIGSMNGQYL--CNRPITVSYAFKKDTKG  181 (203)
T ss_pred             cccCCCCCCCeEEechhHHHHHHHHHHhccchh--cCCceEEEEEEecCCCc
Confidence            678999999999999999999999999999999  67899999998776553

>KOG0149|consensus

Probab=98.45  E-value=1.3e-07  Score=68.83  Aligned_cols=41  Identities=24%  Similarity=0.303  Sum_probs=34.3

Q ss_pred             CCCCCCccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEE
Q psy6355           2 KGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITV   43 (83)
Q Consensus         2 Dk~TG~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V   43 (83)
                      ||.||+|||||||.|.|.+.|++|++..|. +|+|+.-.+++
T Consensus        47 d~~t~rskGyGfVTf~d~~aa~rAc~dp~p-iIdGR~aNcnl   87 (247)
T KOG0149|consen   47 DKNTGRSKGYGFVTFRDAEAATRACKDPNP-IIDGRKANCNL   87 (247)
T ss_pred             ccCCccccceeeEEeecHHHHHHHhcCCCC-cccccccccch
Confidence            899999999999999999999999987665 57886544443

>PF00076 RRM_1: RNA recognition motif

Probab=98.40  E-value=2.9e-07  Score=52.34  Aligned_cols=33  Identities=30%  Similarity=0.526  Sum_probs=30.5

Q ss_pred             CCCCccceEEEEeCCHHHHHHHHHHhCCCCCCC
Q psy6355           4 FTDFCRYLGFIRFDQRIEAERAIQELNGTIPKG   36 (83)
Q Consensus         4 ~TG~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G   36 (83)
                      .++.++|||||.|.+.++|++|++.|||..+.|
T Consensus        34 ~~~~~~~~a~V~F~~~~~a~~a~~~l~g~~~~~   66 (70)
T PF00076_consen   34 SSGKSKGYAFVEFESEEDAEKALEELNGKKING   66 (70)
T ss_dssp             TTSSEEEEEEEEESSHHHHHHHHHHHTTEEETT
T ss_pred             ccccccceEEEEEcCHHHHHHHHHHcCCCEECc
Confidence            468899999999999999999999999998866

(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 ....

>KOG0146|consensus

Probab=98.40  E-value=1.5e-07  Score=70.43  Aligned_cols=49  Identities=24%  Similarity=0.418  Sum_probs=43.0

Q ss_pred             CCCCCCCccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecCCCCC
Q psy6355           1 MKGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSPSS   51 (83)
Q Consensus         1 ~Dk~TG~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~~~~~   51 (83)
                      +||.|++||.||||.|++..+|+.||..|||.+|  +.+.|.|.+.++..+
T Consensus       319 vDRATNQSKCFGFVSfDNp~SaQaAIqAMNGFQI--GMKRLKVQLKRPkda  367 (371)
T KOG0146|consen  319 VDRATNQSKCFGFVSFDNPASAQAAIQAMNGFQI--GMKRLKVQLKRPKDA  367 (371)
T ss_pred             ehhccccccceeeEecCCchhHHHHHHHhcchhh--hhhhhhhhhcCcccc
Confidence            5999999999999999999999999999999999  446788887766544

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

Probab=98.36  E-value=7.4e-07  Score=59.75  Aligned_cols=45  Identities=36%  Similarity=0.503  Sum_probs=40.4

Q ss_pred             CCCCCCCccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecC
Q psy6355           1 MKGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFAN   47 (83)
Q Consensus         1 ~Dk~TG~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~   47 (83)
                      .|+.+|.++|||||.|.+.++|..|++.|+|..+.|  ++|.|..+.
T Consensus       149 ~d~~~~~~~g~~~v~f~~~~~~~~a~~~~~~~~~~~--~~~~v~~~~  193 (306)
T COG0724         149 RDRETGKSRGFAFVEFESEESAEKAIEELNGKELEG--RPLRVQKAQ  193 (306)
T ss_pred             eccccCccCceEEEEecCHHHHHHHHHHcCCCeECC--ceeEeeccc
Confidence            367799999999999999999999999999999977  678898864

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

Probab=98.35  E-value=6.9e-07  Score=69.85  Aligned_cols=46  Identities=24%  Similarity=0.408  Sum_probs=40.9

Q ss_pred             CCCCCCCccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecCC
Q psy6355           1 MKGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANS   48 (83)
Q Consensus         1 ~Dk~TG~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~~   48 (83)
                      .|+.|+.|+|||||.|.+.++|++|++.||+..+.|  ++|.|.++..
T Consensus        34 ~d~~t~~s~G~afV~F~~~~~A~~Al~~ln~~~i~g--k~i~i~~s~~   79 (562)
T TIGR01628        34 RDSVTRRSLGYGYVNFQNPADAERALETMNFKRLGG--KPIRIMWSQR   79 (562)
T ss_pred             ecCCCCCcceEEEEEECCHHHHHHHHHHhCCCEECC--eeEEeecccc
Confidence            378899999999999999999999999999998866  6799988654

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

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

Probab=98.28  E-value=1.2e-06  Score=66.55  Aligned_cols=46  Identities=17%  Similarity=0.292  Sum_probs=39.4

Q ss_pred             CCCCCCCccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecCCC
Q psy6355           1 MKGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSP   49 (83)
Q Consensus         1 ~Dk~TG~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~~~   49 (83)
                      .|+.+|.++|||||.|.+.++|++||. |||..+.|  .+|.|.++...
T Consensus       123 ~d~~~~~skg~afVeF~~~e~A~~Al~-l~g~~~~g--~~i~v~~~~~~  168 (457)
T TIGR01622       123 KDRNSRRSKGVAYVEFYDVESVIKALA-LTGQMLLG--RPIIVQSSQAE  168 (457)
T ss_pred             ecCCCCCcceEEEEEECCHHHHHHHHH-hCCCEECC--eeeEEeecchh
Confidence            377899999999999999999999996 89999866  67888876543

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

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

Probab=98.26  E-value=1.6e-06  Score=66.54  Aligned_cols=44  Identities=16%  Similarity=0.163  Sum_probs=38.7

Q ss_pred             CCCCCccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecCC
Q psy6355           3 GFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANS   48 (83)
Q Consensus         3 k~TG~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~~   48 (83)
                      ..++.++|++||.|.+.++|++||..|||..+.|  +.|.|.|.+.
T Consensus       458 ~~~~~~~G~~fV~F~~~e~A~~A~~~lnGr~~~g--r~v~~~~~~~  501 (509)
T TIGR01642       458 RNSTPGVGKVFLEYADVRSAEKAMEGMNGRKFND--RVVVAAFYGE  501 (509)
T ss_pred             CCcCCCcceEEEEECCHHHHHHHHHHcCCCEECC--eEEEEEEeCH
Confidence            3456788999999999999999999999999977  6799998764

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

>KOG0226|consensus

Probab=98.25  E-value=6.1e-07  Score=66.33  Aligned_cols=42  Identities=26%  Similarity=0.453  Sum_probs=37.6

Q ss_pred             CCCCCCCccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEE
Q psy6355           1 MKGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVK   44 (83)
Q Consensus         1 ~Dk~TG~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~   44 (83)
                      .|+.||+|+||+||.|.+..++..|+.+|||...  ++++|..+
T Consensus       224 RdkRTgKSkgygfVSf~~pad~~rAmrem~gkyV--gsrpiklR  265 (290)
T KOG0226|consen  224 RDKRTGKSKGYGFVSFRDPADYVRAMREMNGKYV--GSRPIKLR  265 (290)
T ss_pred             ccccccccccceeeeecCHHHHHHHHHhhccccc--ccchhHhh
Confidence            3889999999999999999999999999999988  55777664

>smart00362 RRM_2 RNA recognition motif

Probab=98.17  E-value=3.2e-06  Score=46.88  Aligned_cols=36  Identities=36%  Similarity=0.627  Sum_probs=31.1

Q ss_pred             CCccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEE
Q psy6355           6 DFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITV   43 (83)
Q Consensus         6 G~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V   43 (83)
                      +.++|+|||.|.+.++|++|++.|+|..+.|  +.|.|
T Consensus        36 ~~~~~~~~v~f~~~~~a~~a~~~~~~~~~~~--~~i~v   71 (72)
T smart00362       36 GKSKGFAFVEFESEEDAEKAIEALNGTKLGG--RPLRV   71 (72)
T ss_pred             CCCCceEEEEeCCHHHHHHHHHHhCCcEECC--EEEee
Confidence            6788999999999999999999999988865  45555

>KOG0125|consensus

Probab=98.16  E-value=2.1e-06  Score=65.31  Aligned_cols=41  Identities=32%  Similarity=0.510  Sum_probs=36.3

Q ss_pred             CCccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecCC
Q psy6355           6 DFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANS   48 (83)
Q Consensus         6 G~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~~   48 (83)
                      .-|||||||.|++.++|++|-++|||..++|+  .|.|..|..
T Consensus       133 RGSKGFGFVTmen~~dadRARa~LHgt~VEGR--kIEVn~ATa  173 (376)
T KOG0125|consen  133 RGSKGFGFVTMENPADADRARAELHGTVVEGR--KIEVNNATA  173 (376)
T ss_pred             CCCCccceEEecChhhHHHHHHHhhcceeece--EEEEeccch
Confidence            45899999999999999999999999999994  588887653

>KOG0131|consensus

Probab=98.14  E-value=2.2e-06  Score=60.79  Aligned_cols=45  Identities=31%  Similarity=0.325  Sum_probs=40.9

Q ss_pred             CCCCCCCccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecC
Q psy6355           1 MKGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFAN   47 (83)
Q Consensus         1 ~Dk~TG~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~   47 (83)
                      .|+.|...+||||++|.++|+|+-||+.||+-++.|  +||.|.-+.
T Consensus        43 kDrv~~~~qGygF~Ef~~eedadYAikiln~VkLYg--rpIrv~kas   87 (203)
T KOG0131|consen   43 KDRVTQKHQGYGFAEFRTEEDADYAIKILNMVKLYG--RPIRVNKAS   87 (203)
T ss_pred             hhhhcccccceeEEEEechhhhHHHHHHHHHHHhcC--ceeEEEecc
Confidence            378899999999999999999999999999878877  789998876

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

Probab=98.07  E-value=4.3e-06  Score=67.22  Aligned_cols=33  Identities=30%  Similarity=0.362  Sum_probs=30.9

Q ss_pred             CCCCCCCccceEEEEeCCHHHHHHHHHHhCCCCC
Q psy6355           1 MKGFTDFCRYLGFIRFDQRIEAERAIQELNGTIP   34 (83)
Q Consensus         1 ~Dk~TG~SrG~gFV~F~~~e~A~~AI~~LnG~~~   34 (83)
                      +| .+|.|||||||.|.+.++|++||+.||+..+
T Consensus        92 ~D-~sG~sRGfaFV~F~~~e~A~~Ai~~lng~~i  124 (578)
T TIGR01648        92 MD-FSGQNRGYAFVTFCGKEEAKEAVKLLNNYEI  124 (578)
T ss_pred             EC-CCCCccceEEEEeCCHHHHHHHHHHcCCCee
Confidence            46 6899999999999999999999999999887

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

>PF14259 RRM_6: RNA recognition motif (a

Probab=98.02  E-value=6.5e-06  Score=47.46  Aligned_cols=34  Identities=29%  Similarity=0.426  Sum_probs=30.2

Q ss_pred             CCCCCCccceEEEEeCCHHHHHHHHHHhCCCCCCC
Q psy6355           2 KGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKG   36 (83)
Q Consensus         2 Dk~TG~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G   36 (83)
                      ++. |.++|+|||.|.+.++|.+|++.++|..+.|
T Consensus        33 ~~~-~~~~~~a~v~f~~~~~a~~al~~~~~~~~~g   66 (70)
T PF14259_consen   33 NKD-GQSRGFAFVEFSSEEDAKRALELLNGKEIDG   66 (70)
T ss_dssp             STT-SSEEEEEEEEESSHHHHHHHHHHHTTEEETT
T ss_pred             eec-cccCCEEEEEeCCHHHHHHHHHHCCCcEECC
Confidence            344 8899999999999999999999999888866

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 ....

>KOG0126|consensus

Probab=98.02  E-value=8.3e-07  Score=63.17  Aligned_cols=43  Identities=21%  Similarity=0.275  Sum_probs=38.6

Q ss_pred             CCCCCCCccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEe
Q psy6355           1 MKGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKF   45 (83)
Q Consensus         1 ~Dk~TG~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~f   45 (83)
                      .|+.||.|+||||.+|++..+-.-||..|||-++.|  +.|+|.-
T Consensus        69 RDk~TGKSKGFaFLcYEDQRSTILAVDN~NGiki~g--RtirVDH  111 (219)
T KOG0126|consen   69 RDKKTGKSKGFAFLCYEDQRSTILAVDNLNGIKILG--RTIRVDH  111 (219)
T ss_pred             ecCCCCcccceEEEEecCccceEEEEeccCCceecc--eeEEeee
Confidence            389999999999999999999999999999999977  5688753

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

Probab=97.99  E-value=9.9e-06  Score=65.14  Aligned_cols=41  Identities=34%  Similarity=0.528  Sum_probs=37.1

Q ss_pred             CccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecCCC
Q psy6355           7 FCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSP   49 (83)
Q Consensus         7 ~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~~~   49 (83)
                      ..+|||||.|.+.++|++|++.|||..+.|  +.|.|.+|.++
T Consensus       267 ~~rgfAFVeF~s~e~A~kAi~~lnG~~i~G--r~I~V~~Akp~  307 (578)
T TIGR01648       267 KIRDYAFVHFEDREDAVKAMDELNGKELEG--SEIEVTLAKPV  307 (578)
T ss_pred             eecCeEEEEeCCHHHHHHHHHHhCCCEECC--EEEEEEEccCC
Confidence            457899999999999999999999999977  67999999765

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

>KOG0147|consensus

Probab=97.98  E-value=8.1e-06  Score=65.04  Aligned_cols=44  Identities=30%  Similarity=0.411  Sum_probs=38.5

Q ss_pred             CCCCCCCccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEec
Q psy6355           1 MKGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFA   46 (83)
Q Consensus         1 ~Dk~TG~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA   46 (83)
                      +|..||+++|||||.|.+.++|.+|++.|||-.+.|  +.|.|...
T Consensus       312 ~d~~tG~skgfGfi~f~~~~~ar~a~e~lngfelAG--r~ikV~~v  355 (549)
T KOG0147|consen  312 KDSETGRSKGFGFITFVNKEDARKALEQLNGFELAG--RLIKVSVV  355 (549)
T ss_pred             cccccccccCcceEEEecHHHHHHHHHHhccceecC--ceEEEEEe
Confidence            466799999999999999999999999999977877  66887653

>KOG0124|consensus

Probab=97.96  E-value=8.3e-06  Score=63.37  Aligned_cols=44  Identities=20%  Similarity=0.322  Sum_probs=39.3

Q ss_pred             CCCCCCccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecC
Q psy6355           2 KGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFAN   47 (83)
Q Consensus         2 Dk~TG~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~   47 (83)
                      |+.||..|||+||+|+-+|.|.-|++.|||..++|  +.|.|....
T Consensus       148 Dp~T~kHKgFAFVEYEvPEaAqLAlEqMNg~mlGG--RNiKVgrPs  191 (544)
T KOG0124|consen  148 DPATGKHKGFAFVEYEVPEAAQLALEQMNGQMLGG--RNIKVGRPS  191 (544)
T ss_pred             ccccccccceEEEEEeCcHHHHHHHHHhccccccC--ccccccCCC
Confidence            88999999999999999999999999999999988  457776433

>KOG0107|consensus

Probab=97.95  E-value=8.4e-06  Score=57.57  Aligned_cols=40  Identities=25%  Similarity=0.367  Sum_probs=35.0

Q ss_pred             CccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecCC
Q psy6355           7 FCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANS   48 (83)
Q Consensus         7 ~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~~   48 (83)
                      ...|||||+|+++.+|+.|+..|||..+-|  ..|.|++..-
T Consensus        45 nPPGfAFVEFed~RDA~DAvr~LDG~~~cG--~r~rVE~S~G   84 (195)
T KOG0107|consen   45 NPPGFAFVEFEDPRDAEDAVRYLDGKDICG--SRIRVELSTG   84 (195)
T ss_pred             cCCCceEEeccCcccHHHHHhhcCCccccC--ceEEEEeecC
Confidence            467999999999999999999999999966  5688888654

>KOG0117|consensus

Probab=97.91  E-value=1.4e-05  Score=62.87  Aligned_cols=45  Identities=33%  Similarity=0.529  Sum_probs=39.8

Q ss_pred             ccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecCCCCCCcc
Q psy6355           8 CRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSPSSSNK   54 (83)
Q Consensus         8 SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~~~~~~~~   54 (83)
                      .|-||||+|.++++|-+|++.|||+.++|  .+|.|.+|.++.++++
T Consensus       292 ~rDYaFVHf~eR~davkAm~~~ngkeldG--~~iEvtLAKP~~k~k~  336 (506)
T KOG0117|consen  292 PRDYAFVHFAEREDAVKAMKETNGKELDG--SPIEVTLAKPVDKKKK  336 (506)
T ss_pred             ccceeEEeecchHHHHHHHHHhcCceecC--ceEEEEecCChhhhcc
Confidence            46799999999999999999999999998  5799999998766643

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

Probab=97.89  E-value=2.1e-05  Score=61.16  Aligned_cols=40  Identities=23%  Similarity=0.302  Sum_probs=35.7

Q ss_pred             ccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecCCC
Q psy6355           8 CRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSP   49 (83)
Q Consensus         8 SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~~~   49 (83)
                      ++|||||.|.+.++|+.||+.|||..+.|  ++|.|.++...
T Consensus       312 ~~g~afV~f~~~~~A~~Ai~~lng~~l~g--~~l~v~~s~~~  351 (481)
T TIGR01649       312 KKETALIEMADPYQAQLALTHLNGVKLFG--KPLRVCPSKQQ  351 (481)
T ss_pred             CCCEEEEEECCHHHHHHHHHHhCCCEECC--ceEEEEEcccc
Confidence            47999999999999999999999999977  67999987543

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

>KOG0121|consensus

Probab=97.85  E-value=2.8e-05  Score=52.82  Aligned_cols=45  Identities=22%  Similarity=0.385  Sum_probs=39.9

Q ss_pred             CCCCCCCccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecC
Q psy6355           1 MKGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFAN   47 (83)
Q Consensus         1 ~Dk~TG~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~   47 (83)
                      +|+.+-..=|||||.|.++++|+.|++.+||+.++.  ++|.+.+..
T Consensus        70 Ldr~kktpCGFCFVeyy~~~dA~~AlryisgtrLdd--r~ir~D~D~  114 (153)
T KOG0121|consen   70 LDRFKKTPCGFCFVEYYSRDDAEDALRYISGTRLDD--RPIRIDWDA  114 (153)
T ss_pred             cccCCcCccceEEEEEecchhHHHHHHHhccCcccc--cceeeeccc
Confidence            588888889999999999999999999999999954  789888643

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

Probab=97.81  E-value=6.7e-05  Score=41.59  Aligned_cols=36  Identities=31%  Similarity=0.605  Sum_probs=31.3

Q ss_pred             CccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEE
Q psy6355           7 FCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVK   44 (83)
Q Consensus         7 ~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~   44 (83)
                      .++|++||.|.+.++|..|++.+++..+.|  +.+.|.
T Consensus        38 ~~~~~~~v~f~s~~~a~~a~~~~~~~~~~~--~~~~v~   73 (74)
T cd00590          38 KSKGFAFVEFEDEEDAEKALEALNGKELGG--RPLRVE   73 (74)
T ss_pred             CcceEEEEEECCHHHHHHHHHHhCCCeECC--eEEEEe
Confidence            568999999999999999999999998865  556665

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

>PLN03120 nucleic acid binding protein; Provisional

Probab=97.78  E-value=5.3e-05  Score=55.90  Aligned_cols=39  Identities=21%  Similarity=0.307  Sum_probs=34.3

Q ss_pred             CccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecCC
Q psy6355           7 FCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANS   48 (83)
Q Consensus         7 ~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~~   48 (83)
                      .++|||||.|.+.++|+.||. |||..+.|  ++|.|..++.
T Consensus        41 ~~~GfAFVtF~d~eaAe~All-LnG~~l~g--r~V~Vt~a~~   79 (260)
T PLN03120         41 ERSQIAYVTFKDPQGAETALL-LSGATIVD--QSVTITPAED   79 (260)
T ss_pred             CCCCEEEEEeCcHHHHHHHHH-hcCCeeCC--ceEEEEeccC
Confidence            468999999999999999995 99999966  6799998763

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

Probab=97.77  E-value=5e-05  Score=59.03  Aligned_cols=40  Identities=18%  Similarity=0.302  Sum_probs=33.7

Q ss_pred             cceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecCC
Q psy6355           9 RYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANS   48 (83)
Q Consensus         9 rG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~~   48 (83)
                      +|+|||.|.+.++|++|++.|||..+.+....|.|.|+..
T Consensus       134 ~~~afVef~~~~~A~~A~~~Lng~~i~~~~~~l~v~~sk~  173 (481)
T TIGR01649       134 VFQALVEFESVNSAQHAKAALNGADIYNGCCTLKIEYAKP  173 (481)
T ss_pred             ceEEEEEECCHHHHHHHHHHhcCCcccCCceEEEEEEecC
Confidence            4799999999999999999999999865445677777654

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

>KOG0148|consensus

Probab=97.74  E-value=5e-05  Score=56.86  Aligned_cols=40  Identities=23%  Similarity=0.372  Sum_probs=34.9

Q ss_pred             ccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecCCC
Q psy6355           8 CRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSP   49 (83)
Q Consensus         8 SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~~~   49 (83)
                      -+||+||+|+++|.|..||-.||++.++|  ..++|.+-...
T Consensus       199 ~qGYaFVrF~tkEaAahAIv~mNntei~G--~~VkCsWGKe~  238 (321)
T KOG0148|consen  199 DQGYAFVRFETKEAAAHAIVQMNNTEIGG--QLVRCSWGKEG  238 (321)
T ss_pred             ccceEEEEecchhhHHHHHHHhcCceeCc--eEEEEeccccC
Confidence            47999999999999999999999999988  56888876543

>KOG0110|consensus

Probab=97.70  E-value=6e-05  Score=61.69  Aligned_cols=39  Identities=26%  Similarity=0.537  Sum_probs=36.0

Q ss_pred             CccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecC
Q psy6355           7 FCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFAN   47 (83)
Q Consensus         7 ~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~   47 (83)
                      .|.|||||.|.+.++|+.|++.|+|+.+.|  +.|.|+++.
T Consensus       558 lSmGfgFVEF~~~e~A~~a~k~lqgtvldG--H~l~lk~S~  596 (725)
T KOG0110|consen  558 LSMGFGFVEFAKPESAQAALKALQGTVLDG--HKLELKISE  596 (725)
T ss_pred             cccceeEEEecCHHHHHHHHHHhcCceecC--ceEEEEecc
Confidence            578999999999999999999999999988  668898887

>KOG0110|consensus

Probab=97.69  E-value=5.9e-05  Score=61.75  Aligned_cols=42  Identities=36%  Similarity=0.520  Sum_probs=38.0

Q ss_pred             CCCccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecCC
Q psy6355           5 TDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANS   48 (83)
Q Consensus         5 TG~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~~   48 (83)
                      +|.+|+||||.|.+.++|++||+.+|+..+  .+.-|.|.++..
T Consensus         5 dGk~R~F~FiGf~~eeeA~~Ai~~fn~s~i--~ts~i~Ve~~~~   46 (725)
T KOG0110|consen    5 DGKFRRFGFIGFKSEEEAQKAIKYFNKSFI--NTSRITVEFCKS   46 (725)
T ss_pred             CCceeeeeEeeeccHHHHHHHHHHhhcccc--ccceEEEEehhh
Confidence            699999999999999999999999999999  556799988664

>KOG0127|consensus

Probab=97.67  E-value=6.1e-05  Score=60.72  Aligned_cols=43  Identities=28%  Similarity=0.600  Sum_probs=37.3

Q ss_pred             CCCCccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecCCC
Q psy6355           4 FTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSP   49 (83)
Q Consensus         4 ~TG~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~~~   49 (83)
                      +++.+ |||||.|....+|+.|++.|||.++.|  +||-|.||-..
T Consensus       154 dgklc-GFaFV~fk~~~dA~~Al~~~N~~~i~g--R~VAVDWAV~K  196 (678)
T KOG0127|consen  154 DGKLC-GFAFVQFKEKKDAEKALEFFNGNKIDG--RPVAVDWAVDK  196 (678)
T ss_pred             CCCcc-ceEEEEEeeHHHHHHHHHhccCceecC--ceeEEeeeccc
Confidence            33455 999999999999999999999999988  78999998643

>PLN03213 repressor of silencing 3; Provisional

Probab=97.66  E-value=5.8e-05  Score=60.61  Aligned_cols=42  Identities=19%  Similarity=0.309  Sum_probs=36.2

Q ss_pred             CCCCCccceEEEEeCCH--HHHHHHHHHhCCCCCCCCCcceEEEecCC
Q psy6355           3 GFTDFCRYLGFIRFDQR--IEAERAIQELNGTIPKGSNEPITVKFANS   48 (83)
Q Consensus         3 k~TG~SrG~gFV~F~~~--e~A~~AI~~LnG~~~~G~~~~l~V~fA~~   48 (83)
                      +.||  ||||||.|...  .++++||..|||..+.|  +.|.|.-|.+
T Consensus        44 RETG--RGFAFVEMssdddaEeeKAISaLNGAEWKG--R~LKVNKAKP   87 (759)
T PLN03213         44 RTKG--RSFAYIDFSPSSTNSLTKLFSTYNGCVWKG--GRLRLEKAKE   87 (759)
T ss_pred             cccC--CceEEEEecCCcHHHHHHHHHHhcCCeecC--ceeEEeeccH
Confidence            5677  99999999987  78999999999999988  5688987753

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

Probab=97.65  E-value=0.00011  Score=46.90  Aligned_cols=49  Identities=16%  Similarity=0.140  Sum_probs=41.5

Q ss_pred             CCCCCCCccceEEEEeCCHHHHHHHHHHhCCCCCC--CCCcceEEEecCCC
Q psy6355           1 MKGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPK--GSNEPITVKFANSP   49 (83)
Q Consensus         1 ~Dk~TG~SrG~gFV~F~~~e~A~~AI~~LnG~~~~--G~~~~l~V~fA~~~   49 (83)
                      +|..++.+.|||||-|.+.+.+.+-.+.++|..+.  .+.+.+.|.+|.-.
T Consensus        37 iDf~~~~N~GYAFVNf~~~~~~~~F~~~f~g~~w~~~~s~Kvc~i~yAriQ   87 (97)
T PF04059_consen   37 IDFKNKCNLGYAFVNFTSPQAAIRFYKAFNGKKWPNFNSKKVCEISYARIQ   87 (97)
T ss_pred             eeccCCCceEEEEEEcCCHHHHHHHHHHHcCCccccCCCCcEEEEehhHhh
Confidence            57788999999999999999999999999999874  24567778888654

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

>KOG4212|consensus

Probab=97.61  E-value=8.6e-05  Score=58.80  Aligned_cols=41  Identities=20%  Similarity=0.240  Sum_probs=37.2

Q ss_pred             CCCCccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEec
Q psy6355           4 FTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFA   46 (83)
Q Consensus         4 ~TG~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA   46 (83)
                      ..|++|||+.|+|.++|.+++|++.||-+.+.|  ++|.|+-.
T Consensus        81 ~~GK~rGcavVEFk~~E~~qKa~E~lnk~~~~G--R~l~vKEd  121 (608)
T KOG4212|consen   81 ESGKARGCAVVEFKDPENVQKALEKLNKYEVNG--RELVVKED  121 (608)
T ss_pred             cCCCcCCceEEEeeCHHHHHHHHHHhhhccccC--ceEEEecc
Confidence            479999999999999999999999999999977  78999843

>KOG0123|consensus

Probab=97.29  E-value=0.00036  Score=53.42  Aligned_cols=41  Identities=27%  Similarity=0.494  Sum_probs=34.8

Q ss_pred             ccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecCCCCC
Q psy6355           8 CRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSPSS   51 (83)
Q Consensus         8 SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~~~~~   51 (83)
                      |+|| ||+|.+.++|++||+.|||..+.+  ..|.|.......+
T Consensus       115 ~kg~-FV~f~~e~~a~~ai~~~ng~ll~~--kki~vg~~~~~~e  155 (369)
T KOG0123|consen  115 SKGY-FVQFESEESAKKAIEKLNGMLLNG--KKIYVGLFERKEE  155 (369)
T ss_pred             ceee-EEEeCCHHHHHHHHHHhcCcccCC--CeeEEeeccchhh
Confidence            9999 999999999999999999999866  6688876554433

>KOG1457|consensus

Probab=97.17  E-value=0.0011  Score=48.82  Aligned_cols=44  Identities=23%  Similarity=0.379  Sum_probs=36.0

Q ss_pred             CccceEEEEeCCHHHHHHHHHHhCCCCC-CCCCcceEEEecCCCC
Q psy6355           7 FCRYLGFIRFDQRIEAERAIQELNGTIP-KGSNEPITVKFANSPS   50 (83)
Q Consensus         7 ~SrG~gFV~F~~~e~A~~AI~~LnG~~~-~G~~~~l~V~fA~~~~   50 (83)
                      -.+-+|||.|.+..+|..|++.|||..+ ......|.+.+|....
T Consensus        75 ~~~pvaFatF~s~q~A~aamnaLNGvrFDpE~~stLhiElAKSNt  119 (284)
T KOG1457|consen   75 VCKPVAFATFTSHQFALAAMNALNGVRFDPETGSTLHIELAKSNT  119 (284)
T ss_pred             cccceEEEEecchHHHHHHHHHhcCeeeccccCceeEeeehhcCc
Confidence            3457999999999999999999999987 3345678898887543

>KOG0127|consensus

Probab=97.17  E-value=0.00042  Score=55.99  Aligned_cols=48  Identities=21%  Similarity=0.252  Sum_probs=41.4

Q ss_pred             CCCCCCccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecCCCCC
Q psy6355           2 KGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSPSS   51 (83)
Q Consensus         2 Dk~TG~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~~~~~   51 (83)
                      ++.++.+||||||.|.=.++++.|+..+++.+++|+  .|+|.+|.+...
T Consensus        40 ~~gs~~~RGfgfVtFam~ED~qrA~~e~~~~kf~Gr--~l~v~~A~~R~r   87 (678)
T KOG0127|consen   40 NKGSSEKRGFGFVTFAMEEDVQRALAETEQSKFEGR--ILNVDPAKKRAR   87 (678)
T ss_pred             CCCcccccCccceeeehHhHHHHHHHHhhcCcccce--eccccccccccc
Confidence            567789999999999999999999999999999884  588888775433

>PLN03121 nucleic acid binding protein; Provisional

Probab=97.15  E-value=0.00089  Score=49.08  Aligned_cols=39  Identities=13%  Similarity=0.184  Sum_probs=33.5

Q ss_pred             CCccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecC
Q psy6355           6 DFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFAN   47 (83)
Q Consensus         6 G~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~   47 (83)
                      +.++|+|||+|.+++.++.|+ .|||..|.+  ++|.|.-+.
T Consensus        41 ~et~gfAfVtF~d~~aaetAl-lLnGa~l~d--~~I~It~~~   79 (243)
T PLN03121         41 GEYACTAYVTFKDAYALETAV-LLSGATIVD--QRVCITRWG   79 (243)
T ss_pred             CCcceEEEEEECCHHHHHHHH-hcCCCeeCC--ceEEEEeCc
Confidence            677799999999999999998 699999965  678887655

>KOG0123|consensus

Probab=97.07  E-value=0.0011  Score=50.86  Aligned_cols=40  Identities=28%  Similarity=0.517  Sum_probs=35.7

Q ss_pred             ccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecCCC
Q psy6355           8 CRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSP   49 (83)
Q Consensus         8 SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~~~   49 (83)
                      |-|||||.|.++++|++||+.||...+.|  ++|++.+....
T Consensus        36 slgy~yvnf~~~~da~~A~~~~n~~~~~~--~~~rim~s~rd   75 (369)
T KOG0123|consen   36 SLGYAYVNFQQPADAERALDTMNFDVLKG--KPIRIMWSQRD   75 (369)
T ss_pred             ccceEEEecCCHHHHHHHHHHcCCcccCC--cEEEeehhccC
Confidence            99999999999999999999999999977  67888876543

>KOG4206|consensus

Probab=97.02  E-value=0.0011  Score=48.06  Aligned_cols=45  Identities=29%  Similarity=0.414  Sum_probs=40.3

Q ss_pred             CCCccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecCCCCC
Q psy6355           5 TDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSPSS   51 (83)
Q Consensus         5 TG~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~~~~~   51 (83)
                      |...||-|||.|.+.+.|-.|++.|+|.-+.|  +++++.||..++.
T Consensus        48 t~KmRGQA~VvFk~~~~As~A~r~l~gfpFyg--K~mriqyA~s~sd   92 (221)
T KOG4206|consen   48 TPKMRGQAFVVFKETEAASAALRALQGFPFYG--KPMRIQYAKSDSD   92 (221)
T ss_pred             CCCccCceEEEecChhHHHHHHHHhcCCcccC--chhheecccCccc
Confidence            67889999999999999999999999999866  7899999986644

>KOG4209|consensus

Probab=96.90  E-value=0.0015  Score=47.26  Aligned_cols=42  Identities=21%  Similarity=0.346  Sum_probs=36.5

Q ss_pred             CCCCCCCccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEe
Q psy6355           1 MKGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKF   45 (83)
Q Consensus         1 ~Dk~TG~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~f   45 (83)
                      .|+.+|.+|||+||.|.+.+..++|+. |||..+.|  +.+.|..
T Consensus       135 ~d~~~~~~k~~~yvef~~~~~~~~ay~-l~gs~i~~--~~i~vt~  176 (231)
T KOG4209|consen  135 KDKFRGHPKGFAYVEFSSYELVEEAYK-LDGSEIPG--PAIEVTL  176 (231)
T ss_pred             ccccCCCcceeEEEecccHhhhHHHhh-cCCccccc--ccceeee
Confidence            478889999999999999999999998 99999977  4566654

>KOG0114|consensus

Probab=96.85  E-value=0.0025  Score=42.11  Aligned_cols=43  Identities=16%  Similarity=0.268  Sum_probs=36.8

Q ss_pred             CCccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecCCCC
Q psy6355           6 DFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSPS   50 (83)
Q Consensus         6 G~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~~~~   50 (83)
                      -.-||-|||.|++..+|.+|++.|+|..+.+  +.|.|-+..+..
T Consensus        54 k~TrGTAFVVYedi~dAk~A~dhlsg~n~~~--ryl~vlyyq~~~   96 (124)
T KOG0114|consen   54 KETRGTAFVVYEDIFDAKKACDHLSGYNVDN--RYLVVLYYQPED   96 (124)
T ss_pred             cCcCceEEEEehHhhhHHHHHHHhcccccCC--ceEEEEecCHHH
Confidence            3568999999999999999999999999844  789998876543

>KOG0105|consensus

Probab=96.84  E-value=0.00093  Score=48.06  Aligned_cols=41  Identities=24%  Similarity=0.361  Sum_probs=36.2

Q ss_pred             ccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecCCCC
Q psy6355           8 CRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSPS   50 (83)
Q Consensus         8 SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~~~~   50 (83)
                      ...||||+|++..+|+.||..-||..++|+.  |.|+|+..-.
T Consensus        44 ~ppfafVeFEd~RDAeDAiygRdGYdydg~r--LRVEfprggr   84 (241)
T KOG0105|consen   44 PPPFAFVEFEDPRDAEDAIYGRDGYDYDGCR--LRVEFPRGGR   84 (241)
T ss_pred             CCCeeEEEecCccchhhhhhcccccccCcce--EEEEeccCCC
Confidence            3579999999999999999999999998864  9999987654

>KOG0120|consensus

Probab=96.74  E-value=0.00088  Score=53.36  Aligned_cols=50  Identities=20%  Similarity=0.186  Sum_probs=42.7

Q ss_pred             CCCCCCCccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecCCCCCC
Q psy6355           1 MKGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSPSSS   52 (83)
Q Consensus         1 ~Dk~TG~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~~~~~~   52 (83)
                      .|..||.|+||+|-.|.+....+.||..|||.++.+  +.|.|..|-....+
T Consensus       323 ~d~~~g~skg~af~ey~dpsvtd~A~agLnGm~lgd--~~lvvq~A~~g~~~  372 (500)
T KOG0120|consen  323 KDSATGNSKGFAFCEYCDPSVTDQAIAGLNGMQLGD--KKLVVQRAIVGASN  372 (500)
T ss_pred             cccccccccceeeeeeeCCcchhhhhcccchhhhcC--ceeEeehhhccchh
Confidence            367889999999999999999999999999999955  56888877665444

>KOG0109|consensus

Probab=96.51  E-value=0.0031  Score=47.83  Aligned_cols=40  Identities=28%  Similarity=0.473  Sum_probs=34.6

Q ss_pred             CccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecCC
Q psy6355           7 FCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANS   48 (83)
Q Consensus         7 ~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~~   48 (83)
                      .-|+|+||+|+-.++|..||+.||+..+.|  +++.|.+...
T Consensus       110 ivkdy~fvh~d~~eda~~air~l~~~~~~g--k~m~vq~sts  149 (346)
T KOG0109|consen  110 IVKDYAFVHFDRAEDAVEAIRGLDNTEFQG--KRMHVQLSTS  149 (346)
T ss_pred             eecceeEEEEeeccchHHHHhccccccccc--ceeeeeeecc
Confidence            458999999999999999999999999988  5677776554

>KOG4212|consensus

Probab=96.45  E-value=0.0052  Score=48.95  Aligned_cols=38  Identities=29%  Similarity=0.368  Sum_probs=33.5

Q ss_pred             CCCccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEec
Q psy6355           5 TDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFA   46 (83)
Q Consensus         5 TG~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA   46 (83)
                      .|.++|  .|+|.++++|+.|+..|||.+++|  +.|.|.|.
T Consensus       571 ~GkskG--VVrF~s~edAEra~a~Mngs~l~G--r~I~V~y~  608 (608)
T KOG4212|consen  571 NGKSKG--VVRFFSPEDAERACALMNGSRLDG--RNIKVTYF  608 (608)
T ss_pred             cCCccc--eEEecCHHHHHHHHHHhccCcccC--ceeeeeeC
Confidence            578888  899999999999999999999988  56888763

>KOG0533|consensus

Probab=96.09  E-value=0.016  Score=42.54  Aligned_cols=48  Identities=29%  Similarity=0.463  Sum_probs=41.0

Q ss_pred             CCCCCCccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecCCCCCC
Q psy6355           2 KGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSPSSS   52 (83)
Q Consensus         2 Dk~TG~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~~~~~~   52 (83)
                      |+ .|.|.|.|-|.|...++|+.||+.+||..++|  +++.+....++...
T Consensus       118 ~~-~G~s~Gta~v~~~r~~DA~~avk~~~gv~ldG--~~mk~~~i~~~~~~  165 (243)
T KOG0533|consen  118 DR-AGRSLGTADVSFNRRDDAERAVKKYNGVALDG--RPMKIEIISSPSQS  165 (243)
T ss_pred             CC-CCCCCccceeeecchHhHHHHHHHhcCcccCC--ceeeeEEecCcccc
Confidence            44 69999999999999999999999999976888  56888877776655

>KOG0132|consensus

Probab=96.07  E-value=0.0093  Score=49.95  Aligned_cols=45  Identities=24%  Similarity=0.358  Sum_probs=38.3

Q ss_pred             CccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecCCCCCCc
Q psy6355           7 FCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSPSSSN   53 (83)
Q Consensus         7 ~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~~~~~~~   53 (83)
                      -+||||||++..+.+|++|+..|+...+  ..+.|.|+||....-+.
T Consensus       455 ~~R~cAfI~M~~RqdA~kalqkl~n~kv--~~k~Iki~Wa~g~G~ks  499 (894)
T KOG0132|consen  455 PPRGCAFIKMVRRQDAEKALQKLSNVKV--ADKTIKIAWAVGKGPKS  499 (894)
T ss_pred             cCCceeEEEEeehhHHHHHHHHHhcccc--cceeeEEeeeccCCcch
Confidence            4799999999999999999999998888  44679999988765553

>KOG0109|consensus

Probab=95.92  E-value=0.0053  Score=46.56  Aligned_cols=37  Identities=30%  Similarity=0.533  Sum_probs=32.3

Q ss_pred             ccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEec
Q psy6355           8 CRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFA   46 (83)
Q Consensus         8 SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA   46 (83)
                      -|-||||+.++...|+.||..|||.++.|  ..|+|+-+
T Consensus        35 vKNYgFVHiEdktaaedairNLhgYtLhg--~nInVeaS   71 (346)
T KOG0109|consen   35 VKNYGFVHIEDKTAAEDAIRNLHGYTLHG--VNINVEAS   71 (346)
T ss_pred             ecccceEEeecccccHHHHhhcccceecc--eEEEEEec
Confidence            46799999999999999999999999988  45777744

>KOG2314|consensus

Probab=95.89  E-value=0.013  Score=47.80  Aligned_cols=41  Identities=20%  Similarity=0.283  Sum_probs=33.7

Q ss_pred             CCCCCCccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEE
Q psy6355           2 KGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVK   44 (83)
Q Consensus         2 Dk~TG~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~   44 (83)
                      |..+| ++||.|+.|.+..+|+.||+.|||+.++- .+.+.|.
T Consensus        99 ~e~gg-tkG~lf~E~~~~~~A~~aVK~l~G~~ldk-nHtf~v~  139 (698)
T KOG2314|consen   99 DEEGG-TKGYLFVEYASMRDAKKAVKSLNGKRLDK-NHTFFVR  139 (698)
T ss_pred             CccCC-eeeEEEEEecChhhHHHHHHhcccceecc-cceEEee
Confidence            44444 99999999999999999999999999853 3456664

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

Probab=95.64  E-value=0.034  Score=35.25  Aligned_cols=42  Identities=26%  Similarity=0.329  Sum_probs=28.8

Q ss_pred             CccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecCCCC
Q psy6355           7 FCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSPS   50 (83)
Q Consensus         7 ~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~~~~   50 (83)
                      .+.|.|.|.|.+.+.|++|.+-|+|...-|  ..|.|+|....+
T Consensus        37 v~~~tAilrF~~~~~A~RA~KRmegEdVfG--~kI~v~~~~~~r   78 (90)
T PF11608_consen   37 VSGGTAILRFPNQEFAERAQKRMEGEDVFG--NKISVSFSPKNR   78 (90)
T ss_dssp             --TT-EEEEESSHHHHHHHHHHHTT--SSS--S--EEESS--S-
T ss_pred             EeCCEEEEEeCCHHHHHHHHHhhccccccc--ceEEEEEcCCcc
Confidence            456889999999999999999999998766  458999985443

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

>KOG4205|consensus

Probab=95.61  E-value=0.0059  Score=46.07  Aligned_cols=49  Identities=18%  Similarity=0.187  Sum_probs=36.3

Q ss_pred             CCCCCCCccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecCCCCCC
Q psy6355           1 MKGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSPSSS   52 (83)
Q Consensus         1 ~Dk~TG~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~~~~~~   52 (83)
                      .|+.++++|||+||.|.+.++-.+++.. .-+.++|  +.|.++-|.+....
T Consensus        40 ~d~~t~rsrgFgfv~f~~~~~v~~vl~~-~~h~~dg--r~ve~k~av~r~~~   88 (311)
T KOG4205|consen   40 RDPSTGRSRGFGFVTFATPEGVDAVLNA-RTHKLDG--RSVEPKRAVSREDQ   88 (311)
T ss_pred             ccCCCCCcccccceecCCCcchheeecc-cccccCC--ccccceeccCcccc
Confidence            4889999999999999998888877654 3445766  45666666655443

>KOG0106|consensus

Probab=95.60  E-value=0.005  Score=44.47  Aligned_cols=39  Identities=26%  Similarity=0.509  Sum_probs=33.9

Q ss_pred             ccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecCC
Q psy6355           8 CRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANS   48 (83)
Q Consensus         8 SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~~   48 (83)
                      -.||+||.|.+..+|+.||..|||..+.|..  +.|.++..
T Consensus        34 k~gf~fv~fed~rda~Dav~~l~~~~l~~e~--~vve~~r~   72 (216)
T KOG0106|consen   34 KNGFGFVEFEDPRDADDAVHDLDGKELCGER--LVVEHARG   72 (216)
T ss_pred             ecccceeccCchhhhhcccchhcCceeccee--eeeecccc
Confidence            3589999999999999999999999987654  88888773

>KOG1995|consensus

Probab=95.47  E-value=0.012  Score=45.17  Aligned_cols=47  Identities=19%  Similarity=0.134  Sum_probs=42.1

Q ss_pred             CCCCCCCccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecCCC
Q psy6355           1 MKGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSP   49 (83)
Q Consensus         1 ~Dk~TG~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~~~   49 (83)
                      .|+.|+.+||-|.|.|++...|..||..++++.+.+  .+|.|.+|...
T Consensus       108 ~dkeT~~~KGeatvS~~D~~~akaai~~~agkdf~g--n~ikvs~a~~r  154 (351)
T KOG1995|consen  108 TDKETGAPKGEATVSYEDPPAAKAAIEWFAGKDFCG--NTIKVSLAERR  154 (351)
T ss_pred             ccccccCcCCceeeeecChhhhhhhhhhhccccccC--CCchhhhhhhc
Confidence            488999999999999999999999999999999866  67889888654

>KOG0415|consensus

Probab=95.04  E-value=0.023  Score=44.40  Aligned_cols=45  Identities=22%  Similarity=0.321  Sum_probs=39.9

Q ss_pred             CCCCCCccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecCC
Q psy6355           2 KGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANS   48 (83)
Q Consensus         2 Dk~TG~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~~   48 (83)
                      |+.||.|--|+||.|.+.+++++|.-.|+...|+-  +.|.|.|...
T Consensus       274 D~ktgdsLqyaFiEFen~escE~AyFKMdNvLIDD--rRIHVDFSQS  318 (479)
T KOG0415|consen  274 DRKTGDSLQYAFIEFENKESCEQAYFKMDNVLIDD--RRIHVDFSQS  318 (479)
T ss_pred             cccccchhheeeeeecchhhHHHHHhhhcceeecc--ceEEeehhhh
Confidence            78899999999999999999999999999988854  6688888654

>KOG0124|consensus

Probab=94.70  E-value=0.041  Score=43.27  Aligned_cols=43  Identities=19%  Similarity=0.123  Sum_probs=35.3

Q ss_pred             CCCCCCccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEec
Q psy6355           2 KGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFA   46 (83)
Q Consensus         2 Dk~TG~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA   46 (83)
                      ++.++..|||||++|.+...-.+||..||=..++|  +-|+|--+
T Consensus       245 ~pt~~~HkGyGfiEy~n~qs~~eAiasMNlFDLGG--QyLRVGk~  287 (544)
T KOG0124|consen  245 APTGRGHKGYGFIEYNNLQSQSEAIASMNLFDLGG--QYLRVGKC  287 (544)
T ss_pred             cCCCCCccceeeEEeccccchHHHhhhcchhhccc--ceEecccc
Confidence            56678899999999999999999999999777766  44666543

>KOG0147|consensus

Probab=94.28  E-value=0.024  Score=45.71  Aligned_cols=44  Identities=18%  Similarity=0.283  Sum_probs=37.7

Q ss_pred             CCCCCCCccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecC
Q psy6355           1 MKGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFAN   47 (83)
Q Consensus         1 ~Dk~TG~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~   47 (83)
                      +|+.++.|||.+||.|.|.+.-..|| .|.|+.+.|  .||.|....
T Consensus       213 ~Dr~s~rskgi~Yvef~D~~sVp~ai-aLsGqrllg--~pv~vq~sE  256 (549)
T KOG0147|consen  213 GDRNSRRSKGIAYVEFCDEQSVPLAI-ALSGQRLLG--VPVIVQLSE  256 (549)
T ss_pred             ccccchhhcceeEEEEecccchhhHh-hhcCCcccC--ceeEecccH
Confidence            58899999999999999999988888 799999866  678887543

>KOG1548|consensus

Probab=94.24  E-value=0.084  Score=40.83  Aligned_cols=39  Identities=21%  Similarity=0.277  Sum_probs=33.0

Q ss_pred             CccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecC
Q psy6355           7 FCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFAN   47 (83)
Q Consensus         7 ~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~   47 (83)
                      -+.|++-|.|.+.++|+.||+.|+|..++|  +.|..+..+
T Consensus       312 hPdGvvtV~f~n~eeA~~ciq~m~GR~fdg--Rql~A~i~D  350 (382)
T KOG1548|consen  312 HPDGVVTVSFRNNEEADQCIQTMDGRWFDG--RQLTASIWD  350 (382)
T ss_pred             CCCceeEEEeCChHHHHHHHHHhcCeeecc--eEEEEEEeC
Confidence            467999999999999999999999999988  456665544

>KOG4661|consensus

Probab=94.15  E-value=0.068  Score=44.13  Aligned_cols=39  Identities=31%  Similarity=0.468  Sum_probs=33.6

Q ss_pred             ccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecCC
Q psy6355           8 CRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANS   48 (83)
Q Consensus         8 SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~~   48 (83)
                      -|.||||.+.+..+|.+||+.||.+.+.|.  -|.|.-+..
T Consensus       446 aRCYGfVTMSts~eAtkCI~hLHrTELHGr--mISVEkaKN  484 (940)
T KOG4661|consen  446 ARCYGFVTMSTSAEATKCIEHLHRTELHGR--MISVEKAKN  484 (940)
T ss_pred             cceeEEEEecchHHHHHHHHHhhhhhhcce--eeeeeeccc
Confidence            467999999999999999999999999884  488876654

>KOG0120|consensus

Probab=94.05  E-value=0.11  Score=41.59  Aligned_cols=42  Identities=17%  Similarity=0.245  Sum_probs=34.7

Q ss_pred             CCccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecCCC
Q psy6355           6 DFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSP   49 (83)
Q Consensus         6 G~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~~~   49 (83)
                      ...-|.=||+|.+.+++++|..+|+|.++.+  +.|..+|-+..
T Consensus       451 ~~G~GkVFVefas~ed~qrA~~~L~GrKF~n--RtVvtsYydeD  492 (500)
T KOG0120|consen  451 VPGTGKVFVEFADTEDSQRAMEELTGRKFAN--RTVVASYYDED  492 (500)
T ss_pred             CCCcccEEEEecChHHHHHHHHHccCceeCC--cEEEEEecCHH
Confidence            3445778999999999999999999999966  66888876543

>KOG4205|consensus

Probab=93.65  E-value=0.03  Score=42.31  Aligned_cols=49  Identities=20%  Similarity=0.156  Sum_probs=37.9

Q ss_pred             CCCCCCCccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecCCCCCC
Q psy6355           1 MKGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSPSSS   52 (83)
Q Consensus         1 ~Dk~TG~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~~~~~~   52 (83)
                      +|+.+..+|||+||.|.+.+..++++. ..-+.+.|  +.+.|+-|.+....
T Consensus       131 ~d~~~~~~rgFgfv~~~~e~sVdkv~~-~~f~~~~g--k~vevkrA~pk~~~  179 (311)
T KOG4205|consen  131 YDKTTSRPRGFGFVTFDSEDSVDKVTL-QKFHDFNG--KKVEVKRAIPKEVM  179 (311)
T ss_pred             ecccccccccceeeEeccccccceecc-cceeeecC--ceeeEeeccchhhc
Confidence            588999999999999999988887764 35556755  66888887765443

>KOG0153|consensus

Probab=93.42  E-value=0.15  Score=39.53  Aligned_cols=38  Identities=21%  Similarity=0.369  Sum_probs=30.5

Q ss_pred             cceEEEEeCCHHHHHHHHHHhCCCC-CCCCCcceEEEecCC
Q psy6355           9 RYLGFIRFDQRIEAERAIQELNGTI-PKGSNEPITVKFANS   48 (83)
Q Consensus         9 rG~gFV~F~~~e~A~~AI~~LnG~~-~~G~~~~l~V~fA~~   48 (83)
                      +|||||.|.+++.|+.|.+..-... +.|  ..|.|.+..+
T Consensus       264 ~~CAFv~ftTR~aAE~Aae~~~n~lvI~G--~Rl~i~Wg~~  302 (377)
T KOG0153|consen  264 KGCAFVTFTTREAAEKAAEKSFNKLVING--FRLKIKWGRP  302 (377)
T ss_pred             cccceeeehhhHHHHHHHHhhcceeeecc--eEEEEEeCCC
Confidence            5799999999999999997764443 677  5588888766

>KOG1456|consensus

Probab=92.41  E-value=0.2  Score=39.50  Aligned_cols=41  Identities=24%  Similarity=0.370  Sum_probs=34.6

Q ss_pred             eEEEEeCCHHHHHHHHHHhCCCCC-CCCCcceEEEecCCCCCC
Q psy6355          11 LGFIRFDQRIEAERAIQELNGTIP-KGSNEPITVKFANSPSSS   52 (83)
Q Consensus        11 ~gFV~F~~~e~A~~AI~~LnG~~~-~G~~~~l~V~fA~~~~~~   52 (83)
                      -|.|+|++.+.|++|-..|||..| .|+ =+|.|.||.+.+..
T Consensus       161 QAmVEFdsv~~AqrAk~alNGADIYsGC-CTLKIeyAkP~rln  202 (494)
T KOG1456|consen  161 QAMVEFDSVEVAQRAKAALNGADIYSGC-CTLKIEYAKPTRLN  202 (494)
T ss_pred             eeEEeechhHHHHHHHhhcccccccccc-eeEEEEecCcceee
Confidence            389999999999999999999986 555 47899999876544

>KOG0106|consensus

Probab=91.49  E-value=0.12  Score=37.45  Aligned_cols=36  Identities=31%  Similarity=0.588  Sum_probs=30.9

Q ss_pred             ccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEe
Q psy6355           8 CRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKF   45 (83)
Q Consensus         8 SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~f   45 (83)
                      .++++||+|...++|.+|++.|+|..+.+  ..|.+..
T Consensus       132 ~~~~~~v~Fs~~~da~ra~~~l~~~~~~~--~~l~~~~  167 (216)
T KOG0106|consen  132 RRNFAFVEFSEQEDAKRALEKLDGKKLNG--RRISVEK  167 (216)
T ss_pred             hccccceeehhhhhhhhcchhccchhhcC--ceeeecc
Confidence            47899999999999999999999999966  4566643

>KOG4454|consensus

Probab=91.32  E-value=0.34  Score=35.77  Aligned_cols=39  Identities=13%  Similarity=0.070  Sum_probs=32.9

Q ss_pred             CCCccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEec
Q psy6355           5 TDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFA   46 (83)
Q Consensus         5 TG~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA   46 (83)
                      ++..| |+||.|.+.-.-.-|++-|||-.+.+  .++++++-
T Consensus        46 d~~~k-Fa~v~f~~E~sv~~a~~L~ng~~l~~--~e~q~~~r   84 (267)
T KOG4454|consen   46 DQEQK-FAYVFFPNENSVQLAGQLENGDDLEE--DEEQRTLR   84 (267)
T ss_pred             cCCCc-eeeeecccccchhhhhhhcccchhcc--chhhcccc
Confidence            45667 99999999999999999999999966  56777663

>KOG2202|consensus

Probab=89.69  E-value=0.34  Score=35.99  Aligned_cols=37  Identities=24%  Similarity=0.421  Sum_probs=32.3

Q ss_pred             cceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecC
Q psy6355           9 RYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFAN   47 (83)
Q Consensus         9 rG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~   47 (83)
                      +|=.+|.|...++|++|++.||+.-+.|  +||...|..
T Consensus       110 ~GNVYV~f~~Ee~ae~a~~~lnnRw~~G--~pi~ae~~p  146 (260)
T KOG2202|consen  110 VGNVYVKFRSEEDAEAALEDLNNRWYNG--RPIHAELSP  146 (260)
T ss_pred             hhhhhhhcccHHHHHHHHHHHcCccccC--CcceeeecC
Confidence            4668999999999999999999999977  778887754

>KOG4660|consensus

Probab=88.94  E-value=0.28  Score=39.77  Aligned_cols=35  Identities=31%  Similarity=0.267  Sum_probs=31.1

Q ss_pred             CCCCCCccceEEEEeCCHHHHHHHHHHhCCCCCCC
Q psy6355           2 KGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKG   36 (83)
Q Consensus         2 Dk~TG~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G   36 (83)
                      ++.|-..+|..||+|.|..+|+.|+++||+..+.|
T Consensus       105 ir~t~~~~~~~~v~FyDvR~A~~Alk~l~~~~~~~  139 (549)
T KOG4660|consen  105 IRETPNKRGIVFVEFYDVRDAERALKALNRREIAG  139 (549)
T ss_pred             hhcccccCceEEEEEeehHhHHHHHHHHHHHHhhh
Confidence            35566788999999999999999999999999865

>KOG4307|consensus

Probab=88.05  E-value=0.83  Score=38.58  Aligned_cols=39  Identities=21%  Similarity=0.251  Sum_probs=32.4

Q ss_pred             CCCCccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEE
Q psy6355           4 FTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVK   44 (83)
Q Consensus         4 ~TG~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~   44 (83)
                      +.|..-|-|.|-|+++++|..|...|++++|  .++.|.+.
T Consensus       904 d~G~pTGe~mvAfes~~eAr~A~~dl~~~~i--~nr~V~l~  942 (944)
T KOG4307|consen  904 DDGVPTGECMVAFESQEEARRASMDLDGQKI--RNRVVSLR  942 (944)
T ss_pred             CCCCcccceeEeecCHHHHHhhhhccccCcc--cceeEEEE
Confidence            3578889999999999999999999999999  44455543

>KOG4660|consensus

Probab=87.81  E-value=0.96  Score=36.75  Aligned_cols=48  Identities=15%  Similarity=0.089  Sum_probs=36.7

Q ss_pred             CCCCCCccceEEEEeCCHHHHHHHHHHhCCCCCC--CCCcceEEEecCCC
Q psy6355           2 KGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPK--GSNEPITVKFANSP   49 (83)
Q Consensus         2 Dk~TG~SrG~gFV~F~~~e~A~~AI~~LnG~~~~--G~~~~l~V~fA~~~   49 (83)
                      |-.+--..|||||.|.+++.+..+.+++||+..+  .+.+.+.+.||+-.
T Consensus       424 DF~nkcNvGYAFINm~sp~ai~~F~kAFnGk~W~~FnS~Kia~itYArIQ  473 (549)
T KOG4660|consen  424 DFKNKCNVGYAFINMTSPEAIIRFYKAFNGKKWEKFNSEKIASITYARIQ  473 (549)
T ss_pred             ccccccccceeEEeecCHHHHHHHHHHHcCCchhhhcceeeeeeehhhhh
Confidence            4444566899999999999999999999999741  24456667777643

>KOG2416|consensus

Probab=87.70  E-value=0.91  Score=37.58  Aligned_cols=41  Identities=10%  Similarity=0.169  Sum_probs=35.2

Q ss_pred             cceEEEEeCCHHHHHHHHHHhCCCCC-CCCCcceEEEecCCC
Q psy6355           9 RYLGFIRFDQRIEAERAIQELNGTIP-KGSNEPITVKFANSP   49 (83)
Q Consensus         9 rG~gFV~F~~~e~A~~AI~~LnG~~~-~G~~~~l~V~fA~~~   49 (83)
                      |-.|||.|.+.++|.+-+.+|||.++ .+..+-|.+.|+...
T Consensus       481 KShCyV~yss~eEA~atr~AlhnV~WP~sNPK~L~adf~~~d  522 (718)
T KOG2416|consen  481 KSHCYVSYSSVEEAAATREALHNVQWPPSNPKHLIADFVRAD  522 (718)
T ss_pred             hcceeEecccHHHHHHHHHHHhccccCCCCCceeEeeecchh
Confidence            55799999999999999999999995 666788999997643

>KOG4849|consensus

Probab=87.53  E-value=1.1  Score=35.20  Aligned_cols=43  Identities=7%  Similarity=0.212  Sum_probs=33.5

Q ss_pred             CCCCCCccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEe
Q psy6355           2 KGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKF   45 (83)
Q Consensus         2 Dk~TG~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~f   45 (83)
                      ++..|+||||+.|...+.....+-++.|--+.+.|.+ |.+..+
T Consensus       117 NR~NGQSKG~AL~~~~SdAa~Kq~MeiLP~k~iHGQ~-P~V~~~  159 (498)
T KOG4849|consen  117 NRTNGQSKGYALLVLNSDAAVKQTMEILPTKTIHGQS-PTVLSY  159 (498)
T ss_pred             cccCCcccceEEEEecchHHHHHHHHhcccceecCCC-Ceeecc
Confidence            4678999999999999988888888887777777753 444443

>KOG0151|consensus

Probab=87.19  E-value=0.7  Score=38.94  Aligned_cols=38  Identities=34%  Similarity=0.517  Sum_probs=31.5

Q ss_pred             CccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEec
Q psy6355           7 FCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFA   46 (83)
Q Consensus         7 ~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA   46 (83)
                      ..+-||||.|-++.+|++|++.|+|..+.+  .++.+-|+
T Consensus       217 r~r~cgfvafmnR~D~era~k~lqg~iv~~--~e~K~gWg  254 (877)
T KOG0151|consen  217 RERNCGFVAFMNRADAERALKELQGIIVME--YEMKLGWG  254 (877)
T ss_pred             cccccceeeehhhhhHHHHHHHhcceeeee--eeeeeccc
Confidence            456799999999999999999999998754  45666655

>COG5175 MOT2 Transcriptional repressor [Transcription]

Probab=85.45  E-value=1.2  Score=34.83  Aligned_cols=33  Identities=21%  Similarity=0.604  Sum_probs=28.6

Q ss_pred             EEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecC
Q psy6355          13 FIRFDQRIEAERAIQELNGTIPKGSNEPITVKFAN   47 (83)
Q Consensus        13 FV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~   47 (83)
                      ||.|.+.++|.+||..++|..++|  +-|...|..
T Consensus       169 YITy~~kedAarcIa~vDgs~~DG--r~lkatYGT  201 (480)
T COG5175         169 YITYSTKEDAARCIAEVDGSLLDG--RVLKATYGT  201 (480)
T ss_pred             EEEecchHHHHHHHHHhccccccC--ceEeeecCc
Confidence            899999999999999999999988  457776644

>KOG4206|consensus

Probab=85.10  E-value=1.4  Score=32.06  Aligned_cols=38  Identities=24%  Similarity=0.336  Sum_probs=32.0

Q ss_pred             cceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecC
Q psy6355           9 RYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFAN   47 (83)
Q Consensus         9 rG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~   47 (83)
                      +|.+||.|.+...|..|.+.+.|..+.- ...++|.|+.
T Consensus       183 ~~iAfve~~~d~~a~~a~~~lq~~~it~-~~~m~i~~a~  220 (221)
T KOG4206|consen  183 SGIAFVEFLSDRQASAAQQALQGFKITK-KNTMQITFAK  220 (221)
T ss_pred             CceeEEecchhhhhHHHhhhhccceecc-CceEEecccC
Confidence            5789999999999999999999998732 4678888875

>PF11767 SET_assoc: Histone lysine methyltransferase SET associated; InterPro: IPR024636 The SET domain is a protein-protein interaction domain found in protein lysine methyltransferase enzymes

Probab=83.39  E-value=1.4  Score=26.18  Aligned_cols=22  Identities=36%  Similarity=0.602  Sum_probs=20.5

Q ss_pred             EEEeCCHHHHHHHHHHhCCCCC
Q psy6355          13 FIRFDQRIEAERAIQELNGTIP   34 (83)
Q Consensus        13 FV~F~~~e~A~~AI~~LnG~~~   34 (83)
                      ||.|.+.++|++|.+..||..+
T Consensus        37 YIvF~~~~Ea~rC~~~~~~~~~   58 (66)
T PF11767_consen   37 YIVFNDSKEAERCFRAEDGTLF   58 (66)
T ss_pred             EEEECChHHHHHHHHhcCCCEE
Confidence            7999999999999999999875

This entry represents a domain of unknown function which is associated with the SET domain and found in histone lysine methyltransferases [].

>KOG1190|consensus

Probab=82.60  E-value=2.7  Score=33.57  Aligned_cols=38  Identities=18%  Similarity=0.306  Sum_probs=33.2

Q ss_pred             ceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecCCC
Q psy6355          10 YLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSP   49 (83)
Q Consensus        10 G~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~~~   49 (83)
                      --|.|.|.|...|+-|++.|+|+++.|  +.|+|.+....
T Consensus       336 d~ALIQmsd~~qAqLA~~hL~g~~l~g--k~lrvt~SKH~  373 (492)
T KOG1190|consen  336 DNALIQMSDGQQAQLAMEHLEGHKLYG--KKLRVTLSKHT  373 (492)
T ss_pred             cceeeeecchhHHHHHHHHhhcceecC--ceEEEeeccCc
Confidence            458999999999999999999999977  67999887654

>KOG1996|consensus

Probab=82.02  E-value=1.6  Score=33.50  Aligned_cols=38  Identities=26%  Similarity=0.359  Sum_probs=30.9

Q ss_pred             EEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecCCCCC
Q psy6355          12 GFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSPSS   51 (83)
Q Consensus        12 gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~~~~~   51 (83)
                      -||.|...++|.+|+=.|||..++|  +.+...|-+..+-
T Consensus       332 iFveF~r~e~aiKA~VdlnGRyFGG--r~v~A~Fyn~ekf  369 (378)
T KOG1996|consen  332 IFVEFERVESAIKAVVDLNGRYFGG--RVVSACFYNLEKF  369 (378)
T ss_pred             eeeeeccHHHHHHHHHhcCCceecc--eeeeheeccHHhh
Confidence            5999999999999999999999988  4466666655433

>KOG4210|consensus

Probab=81.89  E-value=0.81  Score=34.03  Aligned_cols=45  Identities=9%  Similarity=0.175  Sum_probs=36.6

Q ss_pred             CCCCCCccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecCCC
Q psy6355           2 KGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSP   49 (83)
Q Consensus         2 Dk~TG~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~~~   49 (83)
                      ++.+|.++|+++|.|.....+..++.. ....+.+  +++.+.+....
T Consensus       220 ~~~s~~~kg~a~~~~~~~~~~~~~~~~-~~~~~~~--~~~~~~~~~~~  264 (285)
T KOG4210|consen  220 DEESGDSKGFAYVDFSAGNSKKLALND-QTRSIGG--RPLRLEEDEPR  264 (285)
T ss_pred             CCCccchhhhhhhhhhhchhHHHHhhc-ccCcccC--cccccccCCCC
Confidence            567899999999999999999988876 5666744  67888887654

>KOG1548|consensus

Probab=81.80  E-value=2.2  Score=33.26  Aligned_cols=41  Identities=20%  Similarity=0.152  Sum_probs=36.6

Q ss_pred             CCCccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecC
Q psy6355           5 TDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFAN   47 (83)
Q Consensus         5 TG~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~   47 (83)
                      .|.-||-|.+.|-.+++-+-||+.|++..+.|  ..|+|.-|.
T Consensus       179 ~G~lKGDaLc~y~K~ESVeLA~~ilDe~~~rg--~~~rVerAk  219 (382)
T KOG1548|consen  179 QGKLKGDALCCYIKRESVELAIKILDEDELRG--KKLRVERAK  219 (382)
T ss_pred             CCCccCceEEEeecccHHHHHHHHhCcccccC--cEEEEehhh
Confidence            48889999999999999999999999999966  568888765

>PF02714 DUF221: Domain of unknown function DUF221; InterPro: IPR003864 This domain is found in a family of hypothetical transmembrane proteins none of which have any known function, the aligned region is at 538 residues at maximum length

Probab=81.45  E-value=3.1  Score=30.31  Aligned_cols=37  Identities=27%  Similarity=0.365  Sum_probs=28.0

Q ss_pred             EEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecCCCCCC
Q psy6355          12 GFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSPSSS   52 (83)
Q Consensus        12 gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~~~~~~   52 (83)
                      |||.|++..+|..|.+.+.....    ..+.++.|..|..-
T Consensus         1 aFVtF~~~~~a~~~~q~~~~~~~----~~~~v~~APeP~DI   37 (325)
T PF02714_consen    1 AFVTFNSQKSAQIALQLLLSKRP----NSWRVSPAPEPDDI   37 (325)
T ss_pred             CEEEECCHHHHHHHHHHHhcCCC----CCceEeeCCCcccc
Confidence            79999999999999997766554    33577777666443

; GO: 0016020 membrane

>KOG4211|consensus

Probab=80.99  E-value=2.5  Score=34.09  Aligned_cols=42  Identities=14%  Similarity=0.117  Sum_probs=32.4

Q ss_pred             CCCCCccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecC
Q psy6355           3 GFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFAN   47 (83)
Q Consensus         3 k~TG~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~   47 (83)
                      +.+|+..|-|||+|.+.++.++|++. |...+  ..+=|.|--+.
T Consensus        43 r~~Gr~sGeA~Ve~~seedv~~Alkk-dR~~m--g~RYIEVf~~~   84 (510)
T KOG4211|consen   43 RRNGRPSGEAYVEFTSEEDVEKALKK-DRESM--GHRYIEVFTAG   84 (510)
T ss_pred             ccCCCcCcceEEEeechHHHHHHHHh-hHHHh--CCceEEEEccC
Confidence            56799999999999999999999864 65555  34556665443

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	83
1d9a_A	85	Solution Structure Of The Second Rna-Binding Domain		2e-11
1fnx_H	174	Solution Structure Of The Huc Rbd1-Rbd2 Complexed W		3e-11
1fxl_A	167	Crystal Structure Of Hud And Au-Rich Element Of The		1e-09
4ed5_A	177	Crystal Structure Of The Two N-Terminal Rrm Domains		5e-08
4egl_A	177	Crystal Structure Of Two Tandem Rna Recognition Mot		2e-07
1sxl_A	97	Resonance Assignments And Solution Structure Of The		1e-04
1b7f_A	168	Sxl-Lethal ProteinRNA COMPLEX Length = 168		1e-04
3sxl_A	184	Sex-Lethal Rna Recognition Domains 1 And 2 From Dro		1e-04

>pdb|1D9A|A Chain A, Solution Structure Of The Second Rna-Binding Domain (Rbd2) Of Hu Antigen C (Huc) Length = 85

Iteration: 1
 Score = 63.9 bits (154), Expect = 2e-11,   Method: Compositional matrix adjust.
 Identities = 31/46 (67%), Positives = 36/46 (78%)
Query: 5  TDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSPS 50
          T   R +GFIRFD+RIEAE AI+ LNG  P G+ EPITVKFAN+PS
Sbjct: 39 TGVSRGVGFIRFDKRIEAEEAIKGLNGQKPLGAAEPITVKFANNPS 84

>pdb|1FNX|H Chain H, Solution Structure Of The Huc Rbd1-Rbd2 Complexed With The Au-Rich Element Length = 174

Iteration: 1
 Score = 63.5 bits (153), Expect = 3e-11,   Method: Compositional matrix adjust.
 Identities = 31/46 (67%), Positives = 36/46 (78%)
Query: 5   TDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSPS 50
           T   R +GFIRFD+RIEAE AI+ LNG  P G+ EPITVKFAN+PS
Sbjct: 128 TGVSRGVGFIRFDKRIEAEEAIKGLNGQKPLGAAEPITVKFANNPS 173

>pdb|1FXL|A Chain A, Crystal Structure Of Hud And Au-Rich Element Of The C-Fos Rna Length = 167

Iteration: 1
 Score = 58.2 bits (139), Expect = 1e-09,   Method: Compositional matrix adjust.
 Identities = 28/42 (66%), Positives = 32/42 (76%)
Query: 5   TDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFA 46
           T   R +GFIRFD+RIEAE AI+ LNG  P G+ EPITVKFA
Sbjct: 126 TGVSRGVGFIRFDKRIEAEEAIKGLNGQKPSGATEPITVKFA 167

>pdb|4ED5|A Chain A, Crystal Structure Of The Two N-Terminal Rrm Domains Of Hur Complexed With Rna Length = 177

Iteration: 1
 Score = 52.8 bits (125), Expect = 5e-08,   Method: Compositional matrix adjust.
 Identities = 26/42 (61%), Positives = 29/42 (69%)
Query: 5   TDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFA 46
           T   R + FIRFD+R EAE AI   NG  P GS+EPITVKFA
Sbjct: 126 TGLSRGVAFIRFDKRSEAEEAITSFNGHKPPGSSEPITVKFA 167

>pdb|4EGL|A Chain A, Crystal Structure Of Two Tandem Rna Recognition Motifs Of Human Antigen R Length = 177

Iteration: 1
 Score = 50.4 bits (119), Expect = 2e-07,   Method: Compositional matrix adjust.
 Identities = 25/42 (59%), Positives = 28/42 (66%)
Query: 5   TDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFA 46
           T   R + FIRFD+R EAE AI   NG  P GS+EPITV FA
Sbjct: 126 TGLSRGVAFIRFDKRSEAEEAITSFNGHKPPGSSEPITVXFA 167

>pdb|1SXL|A Chain A, Resonance Assignments And Solution Structure Of The Second Rna-Binding Domain Of Sex-Lethal Determined By Multidimensional Heteronuclear Magnetic Resonance Spectroscopy Length = 97

Iteration: 1
 Score = 41.6 bits (96), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 17/43 (39%), Positives = 29/43 (67%)
Query: 4  FTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFA 46
           T   R + F+R+++R EA+ AI  LN  IP+G ++P++V+ A
Sbjct: 50 LTGRPRGVAFVRYNKREEAQEAISALNNVIPEGGSQPLSVRLA 92

>pdb|1B7F|A Chain A, Sxl-Lethal ProteinRNA COMPLEX Length = 168

Iteration: 1
 Score = 41.2 bits (95), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 16/38 (42%), Positives = 28/38 (73%)
Query: 9   RYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFA 46
           R + F+R+++R EA+ AI  LN  IP+G ++P++V+ A
Sbjct: 131 RGVAFVRYNKREEAQEAISALNNVIPEGGSQPLSVRLA 168

>pdb|3SXL|A Chain A, Sex-Lethal Rna Recognition Domains 1 And 2 From Drosophila Melanogaster Length = 184

Iteration: 1
 Score = 41.2 bits (95), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 16/38 (42%), Positives = 28/38 (73%)
Query: 9   RYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFA 46
           R + F+R+++R EA+ AI  LN  IP+G ++P++V+ A
Sbjct: 142 RGVAFVRYNKREEAQEAISALNNVIPEGGSQPLSVRLA 179

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	83
2dnh_A	105	Bruno-like 5, RNA binding protein; RRM domain, RBD	1e-12
1b7f_A	168	Protein (SXL-lethal protein), RNA (5'-R(P*GP*UP*UP	3e-12
1b7f_A	168	Protein (SXL-lethal protein), RNA (5'-R(P*GP*UP*UP	8e-05
1fxl_A	167	Paraneoplastic encephalomyelitis antigen HUD; prot	5e-12
1fxl_A	167	Paraneoplastic encephalomyelitis antigen HUD; prot	8e-05
1x5o_A	114	RNA binding motif, single-stranded interacting pro	5e-12
3nmr_A	175	Cugbp ELAV-like family member 1; RRM, PRE-mRNA spl	2e-11
3nmr_A	175	Cugbp ELAV-like family member 1; RRM, PRE-mRNA spl	7e-04
3smz_A	284	Protein raver-1, ribonucleoprotein PTB-binding 1;	4e-09
3smz_A	284	Protein raver-1, ribonucleoprotein PTB-binding 1;	2e-06
3smz_A	284	Protein raver-1, ribonucleoprotein PTB-binding 1;	4e-04
2dgp_A	106	Bruno-like 4, RNA binding protein; RRM domain, str	8e-09
4f02_A	213	Polyadenylate-binding protein 1; mRNA, eukaryotic	1e-08
4f02_A	213	Polyadenylate-binding protein 1; mRNA, eukaryotic	5e-05
2cpj_A	99	Non-POU domain-containing octamer-binding protein;	3e-07
1why_A	97	Hypothetical protein riken cDNA 1810017N16; RNA re	4e-07
1x4g_A	109	Nucleolysin TIAR; structural genomics, RRM domain,	4e-07
3md3_A	166	Nuclear and cytoplasmic polyadenylated RNA-bindin	2e-06
3md3_A	166	Nuclear and cytoplasmic polyadenylated RNA-bindin	5e-05
1qm9_A	198	Polypyrimidine tract-binding protein; ribonucleopr	2e-06
1qm9_A	198	Polypyrimidine tract-binding protein; ribonucleopr	2e-04
3sde_A	261	Paraspeckle component 1; RRM, anti parallel right	2e-06
3sde_A	261	Paraspeckle component 1; RRM, anti parallel right	2e-05
2jvo_A	108	Nucleolar protein 3; nucleus, phosphorylation, rib	3e-06
2dgu_A	103	Heterogeneous nuclear ribonucleoprotein Q; RRM dom	3e-06
2dis_A	109	Unnamed protein product; structural genomics, RRM	4e-06
2la4_A	101	Nuclear and cytoplasmic polyadenylated RNA-bindin	9e-06
2cqi_A	103	Nucleolysin TIAR; RNA recognition motif, RRM, RNA	1e-05
2dnp_A	90	RNA-binding protein 14; RRM domain, RBD, structura	1e-05
1x5p_A	97	Negative elongation factor E; structure genomics,	2e-05
2adc_A	229	Polypyrimidine tract-binding protein 1; RBD, RRM,	2e-05
2bz2_A	121	Negative elongation factor E; NELF E, RNA recognit	2e-05
1wf1_A	110	RNA-binding protein RALY; structural genomics, RRM	2e-05
2cpd_A	99	Apobec-1 stimulating protein; RNA recognition moti	3e-05
2cpx_A	115	Hypothetical protein FLJ11016; RRM domain, structu	3e-05
3ulh_A	107	THO complex subunit 4; nuclear protein, RNA bindin	3e-05
2dgt_A	92	RNA-binding protein 30; RRM domain, structural gen	4e-05
1wg1_A	88	KIAA1579 protein, homolog EXC-7; RBD, structural g	4e-05
2dhg_A	104	TRNA selenocysteine associated protein (SECP43); R	4e-05
2ywk_A	95	Putative RNA-binding protein 11; RRM-domain, struc	5e-05
2dnq_A	90	RNA-binding protein 4B; RRM domain,RBD, structural	5e-05
2kvi_A	96	Nuclear polyadenylated RNA-binding protein 3; RNA-	7e-05
3bs9_A	87	Nucleolysin TIA-1 isoform P40; RNA recognition mot	7e-05
2ytc_A	85	PRE-mRNA-splicing factor RBM22; RRM domain, RBD, s	9e-05
2xnq_A	97	Nuclear polyadenylated RNA-binding protein 3; tran	1e-04
2cq3_A	103	RNA-binding protein 9; RRM domain, structural geno	2e-04
1nu4_A	97	U1A RNA binding domain; RNA recognition motif, U1	2e-04
2cpf_A	98	RNA binding motif protein 19; RNA recognition moti	2e-04
3s8s_A	110	Histone-lysine N-methyltransferase SETD1A; chromat	2e-04
1fje_B	175	Nucleolin RBD12, protein C23; RNP, RRM, RNA bindin	2e-04
2div_A	99	TRNA selenocysteine associated protein; structural	2e-04
2do4_A	100	Squamous cell carcinoma antigen recognized by T- c	2e-04
2cpz_A	115	CUG triplet repeat RNA-binding protein 1; RRM doma	2e-04
3egn_A	143	RNA-binding protein 40; RNA recognition motif (RRM	2e-04
2do0_A	114	HnRNP M, heterogeneous nuclear ribonucleoprotein M	3e-04
3pgw_A	282	U1-A; protein-RNA complex, U1 snRNA, SM fold, SM c	3e-04
3md1_A	83	Nuclear and cytoplasmic polyadenylated RNA-bindin	3e-04
2dgo_A	115	Cytotoxic granule-associated RNA binding protein 1	3e-04
2lkz_A	95	RNA-binding protein 5; RRM; NMR {Homo sapiens} Len	3e-04
2err_A	109	Ataxin-2-binding protein 1; protein-RNA complex, R	3e-04
2cqh_A	93	IGF-II mRNA-binding protein 2 isoform A; RNA recog	3e-04
2ghp_A	292	U4/U6 snRNA-associated splicing factor PRP24; RNA	3e-04
2ghp_A	292	U4/U6 snRNA-associated splicing factor PRP24; RNA	5e-04
3tyt_A	205	Heterogeneous nuclear ribonucleoprotein L; ferredo	4e-04
2kt5_A	124	RNA and export factor-binding protein 2; chaperone	4e-04
2d9p_A	103	Polyadenylate-binding protein 3; RRM domain, struc	4e-04
2khc_A	118	Testis-specific RNP-type RNA binding protein; RRM,	5e-04
2dgv_A	92	HnRNP M, heterogeneous nuclear ribonucleoprotein M	6e-04
2cqc_A	95	Arginine/serine-rich splicing factor 10; RNA recog	7e-04
4f25_A	115	Polyadenylate-binding protein 1; RRM fold, transla	7e-04
1x4e_A	85	RNA binding motif, single-stranded interacting pro	7e-04
2fy1_A	116	RNA-binding motif protein, Y chromosome, family 1	8e-04
1x5s_A	102	Cold-inducible RNA-binding protein; structure geno	8e-04
2a3j_A	127	U1 small nuclear ribonucleoprotein A; computationa	8e-04

>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 Length = 105

 Score = 57.3 bits (139), Expect = 1e-12
 Identities = 15/53 (28%), Positives = 28/53 (52%), Gaps = 1/53 (1%)

Query: 1   MKGFTDFCRYLGFIRFDQRIEAERAIQELNGT-IPKGSNEPITVKFANSPSSS 52
           ++G     +   F++F    EA+ AI  L+G+    G++  + VKFA++   S
Sbjct: 48  LRGPDGSSKGCAFVKFSSHTEAQAAIHALHGSQTMPGASSSLVVKFADTDKES 100

>1b7f_A Protein (SXL-lethal protein), RNA (5'-R(P*GP*UP*UP*GP*UP*UP*UP*UP*UP*UP*UP*U)-3; splicing regulation, RNP domain, RNA complex; 2.60A {Drosophila melanogaster} SCOP: d.58.7.1 d.58.7.1 PDB: 3sxl_A* 1sxl_A 2sxl_A Length = 168

 Score = 57.6 bits (140), Expect = 3e-12
 Identities = 16/45 (35%), Positives = 28/45 (62%), Gaps = 7/45 (15%)

Query: 2   KGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFA 46
           +G         F+R+++R EA+ AI  LN  IP+G ++P++V+ A
Sbjct: 131 RGV-------AFVRYNKREEAQEAISALNNVIPEGGSQPLSVRLA 168

>1b7f_A Protein (SXL-lethal protein), RNA (5'-R(P*GP*UP*UP*GP*UP*UP*UP*UP*UP*UP*UP*U)-3; splicing regulation, RNP domain, RNA complex; 2.60A {Drosophila melanogaster} SCOP: d.58.7.1 d.58.7.1 PDB: 3sxl_A* 1sxl_A 2sxl_A Length = 168

 Score = 37.6 bits (88), Expect = 8e-05
 Identities = 13/50 (26%), Positives = 23/50 (46%), Gaps = 2/50 (4%)

Query: 5  TDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSPSSSNK 54
          T +     F+ F   ++++RAI+ LNG   +     + V +A     S K
Sbjct: 41 TGYSYGYAFVDFTSEMDSQRAIKVLNGITVRNK--RLKVSYARPGGESIK 88

>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 Length = 167

 Score = 56.8 bits (138), Expect = 5e-12
 Identities = 27/45 (60%), Positives = 31/45 (68%), Gaps = 7/45 (15%)

Query: 2   KGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFA 46
           +G        GFIRFD+RIEAE AI+ LNG  P G+ EPITVKFA
Sbjct: 130 RGV-------GFIRFDKRIEAEEAIKGLNGQKPSGATEPITVKFA 167

>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 Length = 167

 Score = 37.6 bits (88), Expect = 8e-05
 Identities = 15/51 (29%), Positives = 23/51 (45%), Gaps = 2/51 (3%)

Query: 5  TDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSPSSSNKV 55
          T      GF+ +    +AE+AI  LNG   +     I V +A   S+S + 
Sbjct: 40 TGQSLGYGFVNYIDPKDAEKAINTLNGLRLQTK--TIKVSYARPSSASIRD 88

>1x5o_A RNA binding motif, single-stranded interacting protein 1; structure genomics, RRM domain, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 114

 Score = 55.7 bits (135), Expect = 5e-12
 Identities = 14/55 (25%), Positives = 19/55 (34%), Gaps = 13/55 (23%)

Query: 2   KGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKG------SNEPITVKFANSPS 50
           +G        GF R +   + E  I   NG   K         EP+  KF+   S
Sbjct: 66  RGV-------GFARMESTEKCEAVIGHFNGKFIKTPPGVSAPTEPLLCKFSGPSS 113

>3nmr_A Cugbp ELAV-like family member 1; RRM, PRE-mRNA splicing, RNA binding protein-RNA complex; 1.85A {Homo sapiens} PDB: 3nna_A 3nnc_A 2dhs_A 3nnh_A Length = 175

 Score = 55.3 bits (134), Expect = 2e-11
 Identities = 13/47 (27%), Positives = 23/47 (48%), Gaps = 8/47 (17%)

Query: 2   KGFTDFCRYLGFIRFDQRIEAERAIQELNGT-IPKGSNEPITVKFAN 47
           +G         F+ F  R  A+ AI+ ++     +G + P+ VKFA+
Sbjct: 136 RGC-------AFVTFTTRAMAQTAIKAMHQAQTMEGCSSPMVVKFAD 175

>3nmr_A Cugbp ELAV-like family member 1; RRM, PRE-mRNA splicing, RNA binding protein-RNA complex; 1.85A {Homo sapiens} PDB: 3nna_A 3nnc_A 2dhs_A 3nnh_A Length = 175

 Score = 34.9 bits (81), Expect = 7e-04
 Identities = 12/41 (29%), Positives = 19/41 (46%), Gaps = 1/41 (2%)

Query: 12 GFIRFDQRIEAERAIQELNGT-IPKGSNEPITVKFANSPSS 51
           F+ F  R  A  A   L+   +  G + PI +K A+S  +
Sbjct: 50 CFVTFYTRKAALEAQNALHNMKVLPGMHHPIQMKPADSEKN 90

>3smz_A Protein raver-1, ribonucleoprotein PTB-binding 1; RNA binding, RNA recognition motif, vincu alpha-actinin, nucleus, RNA binding protein; 1.99A {Homo sapiens} PDB: 3h2u_B 3h2v_E Length = 284

 Score = 50.4 bits (121), Expect = 4e-09
 Identities = 19/71 (26%), Positives = 27/71 (38%), Gaps = 12/71 (16%)

Query: 2   KGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSPSSSNKVIAPLAA 61
           KGF         + ++    AE A Q+ +G    GS   + V F           + LAA
Sbjct: 226 KGF-------AVLEYETAEMAEEAQQQADGLSLGGS--HLRVSFCAPGPPGR---SMLAA 273

Query: 62  YLTPQAAAARR 72
            +  QA A  R
Sbjct: 274 LIAAQATALNR 284

>3smz_A Protein raver-1, ribonucleoprotein PTB-binding 1; RNA binding, RNA recognition motif, vincu alpha-actinin, nucleus, RNA binding protein; 1.99A {Homo sapiens} PDB: 3h2u_B 3h2v_E Length = 284

 Score = 42.3 bits (100), Expect = 2e-06
 Identities = 10/51 (19%), Positives = 20/51 (39%), Gaps = 9/51 (17%)

Query: 2   KGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSPSSS 52
           KG+       GF  + ++  A RA  +L G         + V + ++   +
Sbjct: 137 KGY-------GFAEYMKKDSAARAKSDLLGKPLGPR--TLYVHWTDAGQLT 178

>3smz_A Protein raver-1, ribonucleoprotein PTB-binding 1; RNA binding, RNA recognition motif, vincu alpha-actinin, nucleus, RNA binding protein; 1.99A {Homo sapiens} PDB: 3h2u_B 3h2v_E Length = 284

 Score = 36.1 bits (84), Expect = 4e-04
 Identities = 6/39 (15%), Positives = 16/39 (41%), Gaps = 2/39 (5%)

Query: 12 GFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSPS 50
           F+      +AE AI   + +  +     ++V+   + +
Sbjct: 60 AFVTLLNGEQAEAAINAFHQSRLRER--ELSVQLQPTDA 96

>2dgp_A Bruno-like 4, RNA binding protein; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} PDB: 2dgq_A Length = 106

 Score = 47.3 bits (113), Expect = 8e-09
 Identities = 16/50 (32%), Positives = 22/50 (44%), Gaps = 8/50 (16%)

Query: 2  KGFTDFCRYLGFIRFDQRIEAERAIQELNG-TIPKGSNEPITVKFANSPS 50
          KG         F+ + +R  A +A   L+      G N PI VK A+S S
Sbjct: 55 KGC-------AFLTYCERESALKAQSALHEQKTLPGMNRPIQVKPADSES 97

>4f02_A Polyadenylate-binding protein 1; mRNA, eukaryotic initiation factors PAIP1 and PAIP2, translation-RNA complex; 2.00A {Homo sapiens} PDB: 1cvj_A* Length = 213

 Score = 48.0 bits (115), Expect = 1e-08
 Identities = 17/75 (22%), Positives = 30/75 (40%), Gaps = 11/75 (14%)

Query: 2   KGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSPSSSNKVIAPLAA 61
           KG+       GF+ F+ +  AERAI+++NG +   ++  + V    S       +   A 
Sbjct: 143 KGY-------GFVHFETQEAAERAIEKMNGMLL--NDRKVFVGRFKSRKEREAELGARAK 193

Query: 62  YLTPQAAAARRFGGP 76
              P       + G 
Sbjct: 194 EFYPY--DVPDYAGS 206

>4f02_A Polyadenylate-binding protein 1; mRNA, eukaryotic initiation factors PAIP1 and PAIP2, translation-RNA complex; 2.00A {Homo sapiens} PDB: 1cvj_A* Length = 213

 Score = 38.4 bits (90), Expect = 5e-05
 Identities = 12/44 (27%), Positives = 22/44 (50%), Gaps = 2/44 (4%)

Query: 12  GFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSPSSSNKV 55
            ++ F Q  +AERA+  +N  + KG   P+ + ++    S  K 
Sbjct: 60  AYVNFQQPADAERALDTMNFDVIKGK--PVRIMWSQRDPSLRKS 101

>2cpj_A Non-POU domain-containing octamer-binding protein; RNA recognition motif, RRM, RNP, structural genomics, NPPSFA; NMR {Mus musculus} SCOP: d.58.7.1 Length = 99

 Score = 43.0 bits (102), Expect = 3e-07
 Identities = 18/50 (36%), Positives = 24/50 (48%), Gaps = 9/50 (18%)

Query: 2  KGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSPSS 51
          KGF       GFIR + R  AE A  EL+    +G    + V+FA   +S
Sbjct: 51 KGF-------GFIRLETRTLAEIAKVELDNMPLRGK--QLRVRFACHSAS 91

>1why_A Hypothetical protein riken cDNA 1810017N16; RNA recognition motif, RRM, RNA binding domain, RBD, RNP, structural genomics; NMR {Mus musculus} SCOP: d.58.7.1 Length = 97

 Score = 42.6 bits (101), Expect = 4e-07
 Identities = 11/41 (26%), Positives = 20/41 (48%)

Query: 12 GFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSPSSS 52
           +I+++    A+ A  ++ G    G +  + V FA S  SS
Sbjct: 56 AYIQYESLDAAQAACAKMRGFPLGGPDRRLRVDFAKSGPSS 96

>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 Length = 109

 Score = 42.7 bits (101), Expect = 4e-07
 Identities = 12/53 (22%), Positives = 18/53 (33%), Gaps = 9/53 (16%)

Query: 2   KGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSPSSSNK 54
           KG+        F+RF     A  AI  +NGT  +G    +   +         
Sbjct: 61  KGY-------SFVRFSTHESAAHAIVSVNGTTIEGH--VVKCYWGKESPDMTS 104

>3md3_A Nuclear and cytoplasmic polyadenylated RNA-bindin PUB1; RRM, RNP, RBD, poly(U) binding, tandem, acetylation, cytopla nucleus; 2.70A {Saccharomyces cerevisiae} Length = 166

 Score = 42.1 bits (100), Expect = 2e-06
 Identities = 9/45 (20%), Positives = 21/45 (46%), Gaps = 9/45 (20%)

Query: 2   KGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFA 46
           +G+       GF+ F  + +A+ A+  + G     +  P+ + +A
Sbjct: 129 RGY-------GFVSFTSQDDAQNAMDSMQGQDL--NGRPLRINWA 164

>3md3_A Nuclear and cytoplasmic polyadenylated RNA-bindin PUB1; RRM, RNP, RBD, poly(U) binding, tandem, acetylation, cytopla nucleus; 2.70A {Saccharomyces cerevisiae} Length = 166

 Score = 38.3 bits (90), Expect = 5e-05
 Identities = 10/43 (23%), Positives = 20/43 (46%), Gaps = 2/43 (4%)

Query: 12 GFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSPSSSNK 54
           F+ + Q  +A  A+Q LNG   + +   + + +A     S+ 
Sbjct: 44 AFVEYHQSHDANIALQTLNGKQIENN--IVKINWAFQSQQSSS 84

>1qm9_A Polypyrimidine tract-binding protein; ribonucleoprotein, RNP, RNA, spicing, translation; NMR {Homo sapiens} SCOP: d.58.7.1 d.58.7.1 Length = 198

 Score = 42.2 bits (99), Expect = 2e-06
 Identities = 10/71 (14%), Positives = 21/71 (29%), Gaps = 8/71 (11%)

Query: 9   RYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSPSSSNKVIAPLAAYLTPQAA 68
           +    ++     +A+ A+  LNG    G   PI +  +   +                  
Sbjct: 41  KENALVQMADGNQAQLAMSHLNGHKLHGK--PIRITLSKHQNVQLPREGQ------EDQG 92

Query: 69  AARRFGGPIHH 79
             + +G    H
Sbjct: 93  LTKDYGNSPLH 103

>1qm9_A Polypyrimidine tract-binding protein; ribonucleoprotein, RNP, RNA, spicing, translation; NMR {Homo sapiens} SCOP: d.58.7.1 d.58.7.1 Length = 198

 Score = 36.8 bits (85), Expect = 2e-04
 Identities = 12/49 (24%), Positives = 20/49 (40%), Gaps = 1/49 (2%)

Query: 1   MKGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSP 49
              F    R +  I+     EA +A+ +L+     G N  + V F+ S 
Sbjct: 150 GFKFFQKDRKMALIQMGSVEEAVQALIDLHNH-DLGENHHLRVSFSKST 197

>3sde_A Paraspeckle component 1; RRM, anti parallel right handed coiled-coil, NOPS, DBHS, RNA protein, RNA binding; 1.90A {Homo sapiens} PDB: 3sde_B Length = 261

 Score = 42.4 bits (100), Expect = 2e-06
 Identities = 14/84 (16%), Positives = 25/84 (29%), Gaps = 10/84 (11%)

Query: 2   KGFTDFCRYLGFIRFDQRIEAERAIQELNGT--IPKGSNEPITVKFANSPSSSNKVIAPL 59
            G        GF+ F  +  A +A++       +   +  P+ V+        + +   L
Sbjct: 137 TGK-------GFVEFAAKPPARKALERCGDGAFLLTTTPRPVIVEPMEQFDDEDGLPEKL 189

Query: 60  AAYLTPQAAAARRFGGPIHHAGRF 83
               T Q    R         G F
Sbjct: 190 MQK-TQQYHKEREQPPRFAQPGTF 212

>3sde_A Paraspeckle component 1; RRM, anti parallel right handed coiled-coil, NOPS, DBHS, RNA protein, RNA binding; 1.90A {Homo sapiens} PDB: 3sde_B Length = 261

 Score = 39.7 bits (93), Expect = 2e-05
 Identities = 19/49 (38%), Positives = 26/49 (53%), Gaps = 9/49 (18%)

Query: 2  KGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSPS 50
          +GF       GFIR + R  AE A  EL+GTI K    P+ ++FA   +
Sbjct: 58 RGF-------GFIRLESRTLAEIAKAELDGTILKSR--PLRIRFATHGA 97

>2jvo_A Nucleolar protein 3; nucleus, phosphorylation, ribonucleoprotein, ribosome biogenesis, RNA-binding, rRNA processing; NMR {Saccharomyces cerevisiae} PDB: 2osq_A Length = 108

 Score = 40.7 bits (96), Expect = 3e-06
 Identities = 12/50 (24%), Positives = 25/50 (50%), Gaps = 9/50 (18%)

Query: 1   MKGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSPS 50
           + GF        F+ F++   A +AI+E++G       +P+ V ++  P+
Sbjct: 64  LNGF-------AFVEFEEAESAAKAIEEVHGKSFAN--QPLEVVYSKLPA 104

>2dgu_A Heterogeneous nuclear ribonucleoprotein Q; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} PDB: 2dk2_A Length = 103

 Score = 40.3 bits (95), Expect = 3e-06
 Identities = 17/54 (31%), Positives = 26/54 (48%), Gaps = 9/54 (16%)

Query: 1  MKGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSPSSSNK 54
          +K +        FI FD+R  A +A++E+NG   +G    I + FA  P    K
Sbjct: 44 LKDY-------AFIHFDERDGAVKAMEEMNGKDLEGE--NIEIVFAKPPDQKRK 88

>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 Length = 109

 Score = 40.2 bits (94), Expect = 4e-06
 Identities = 10/63 (15%), Positives = 17/63 (26%), Gaps = 5/63 (7%)

Query: 1   MKGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANS-----PSSSNKV 55
                   R   F+ ++    A  A ++L     +     I V +A             V
Sbjct: 44  SAADKMKNRGFAFVEYESHRAAAMARRKLMPGRIQLWGHQIAVDWAEPEIDVDEDVMETV 103

Query: 56  IAP 58
             P
Sbjct: 104 SGP 106

>2la4_A Nuclear and cytoplasmic polyadenylated RNA-bindin PUB1; RRM, RNA recognition, stress granules, nucleus, RNA-binding, transcription; NMR {Saccharomyces cerevisiae} Length = 101

 Score = 39.2 bits (92), Expect = 9e-06
 Identities = 9/47 (19%), Positives = 15/47 (31%), Gaps = 9/47 (19%)

Query: 2   KGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANS 48
           KG         FI++D   +A   I  L     +G    +   +   
Sbjct: 63  KGC-------CFIKYDTHEQAAVCIVALANFPFQGR--NLRTGWGKE 100

>2cqi_A Nucleolysin TIAR; RNA recognition motif, RRM, RNA binding domain, RBD, RNP, ST genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 103

 Score = 39.2 bits (92), Expect = 1e-05
 Identities = 12/43 (27%), Positives = 20/43 (46%), Gaps = 2/43 (4%)

Query: 12 GFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSPSSSNK 54
           F+ F +  +A  A+  +NG    G    + V +A +PSS   
Sbjct: 58 CFVEFYEHRDAAAALAAMNGRKILGK--EVKVNWATTPSSQKS 98

>2dnp_A RNA-binding protein 14; RRM domain, RBD, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Length = 90

 Score = 38.7 bits (91), Expect = 1e-05
 Identities = 12/50 (24%), Positives = 23/50 (46%), Gaps = 9/50 (18%)

Query: 1  MKGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSPS 50
          +K +        F+  ++  +A+ AI +LNG   KG  + I V+ +    
Sbjct: 42 VKDY-------AFVHMEKEADAKAAIAQLNGKEVKG--KRINVELSTKGQ 82

>1x5p_A Negative elongation factor E; structure genomics, RRM domain, PARP14, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 97

 Score = 38.4 bits (90), Expect = 2e-05
 Identities = 10/52 (19%), Positives = 21/52 (40%), Gaps = 9/52 (17%)

Query: 2  KGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSPSSSN 53
          +          F+ +++   A++A+ ELNGT  +     + V  A      +
Sbjct: 49 RNC-------AFVTYEKMESADQAVAELNGTQVESV--QLKVNIARKQPMLD 91

>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 Length = 229

 Score = 40.0 bits (93), Expect = 2e-05
 Identities = 11/69 (15%), Positives = 21/69 (30%)

Query: 8   CRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSPSSSNKVIAPLAAYLTPQA 67
            +    ++     +A+ A+  LNG    G    IT+    +     +             
Sbjct: 71  KKENALVQMADGNQAQLAMSHLNGHKLHGKPIRITLSKHQNVQLPREGQEDQGLTKDYGN 130

Query: 68  AAARRFGGP 76
           +   RF  P
Sbjct: 131 SPLHRFKKP 139

>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 Length = 110

 Score = 38.5 bits (90), Expect = 2e-05
 Identities = 10/54 (18%), Positives = 19/54 (35%), Gaps = 9/54 (16%)

Query: 1   MKGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSPSSSNK 54
            KG+        F+++     A  A+   NG +  G  + + +  A  P     
Sbjct: 61  HKGY-------AFVQYSNERHARAAVLGENGRVLAG--QTLDINMAGEPKPDRS 105

>2cpd_A Apobec-1 stimulating protein; RNA recognition motif, RRM, RNP, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 99

 Score = 38.0 bits (89), Expect = 3e-05
 Identities = 14/46 (30%), Positives = 22/46 (47%), Gaps = 9/46 (19%)

Query: 1  MKGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFA 46
          ++ +        F+ F  R +A  A++ LNG +  GS  PI V  A
Sbjct: 50 IRDY-------AFVHFSNREDAVEAMKALNGKVLDGS--PIEVTLA 86

>2cpx_A Hypothetical protein FLJ11016; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 115

 Score = 38.0 bits (89), Expect = 3e-05
 Identities = 11/50 (22%), Positives = 21/50 (42%), Gaps = 9/50 (18%)

Query: 1   MKGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSPS 50
           M+G         FI F  +  A +A+  +NG    G  + + ++F  +  
Sbjct: 66  MRGQ-------AFITFPNKEIAWQALHLVNGYKLYG--KILVIEFGKNKK 106

>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 Length = 107

 Score = 38.0 bits (89), Expect = 3e-05
 Identities = 9/47 (19%), Positives = 21/47 (44%), Gaps = 9/47 (19%)

Query: 2   KGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANS 48
            G          + F+++ +A +A+++ NG    G   P+ ++   S
Sbjct: 70  LGT-------ADVHFERKADALKAMKQYNGVPLDG--RPMNIQLVTS 107

>2dgt_A RNA-binding protein 30; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Length = 92

 Score = 37.6 bits (88), Expect = 4e-05
 Identities = 10/50 (20%), Positives = 23/50 (46%), Gaps = 9/50 (18%)

Query: 1  MKGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSPS 50
          +K +        F+  ++  +A  AI+ L+ T  +G  + + V+ + S  
Sbjct: 43 VKDY-------AFVHMERAEDAVEAIRGLDNTEFQG--KRMHVQLSTSRL 83

>1wg1_A KIAA1579 protein, homolog EXC-7; RBD, structural genomics, riken structural genomics/proteomics initiative, RSGI, RNA binding protein; NMR {Homo sapiens} SCOP: d.58.7.1 PDB: 1wi6_A Length = 88

 Score = 37.4 bits (87), Expect = 4e-05
 Identities = 10/55 (18%), Positives = 21/55 (38%), Gaps = 4/55 (7%)

Query: 4  FTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSPSSSNKVIAP 58
          + D  +   F+      +A+ AIQ  +    +G    + V+    P+ +     P
Sbjct: 35 YVDRNKRTAFVTLLNGEQAQNAIQMFHQYSFRGK--DLIVQLQ--PTDALLCSGP 85

>2dhg_A TRNA selenocysteine associated protein (SECP43); RRM domain, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 104

 Score = 37.6 bits (88), Expect = 4e-05
 Identities = 14/46 (30%), Positives = 23/46 (50%), Gaps = 8/46 (17%)

Query: 2  KGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFAN 47
          KG+       GF++F   +E +RA+ E  G +  GS  P+ +  A 
Sbjct: 51 KGY-------GFVKFTDELEQKRALTECQGAVGLGSK-PVRLSVAI 88

>2ywk_A Putative RNA-binding protein 11; RRM-domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; 1.54A {Homo sapiens} Length = 95

 Score = 37.2 bits (87), Expect = 5e-05
 Identities = 15/47 (31%), Positives = 17/47 (36%), Gaps = 9/47 (19%)

Query: 2  KGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANS 48
          K F       GF+ F        AI  LNG    G   PI V   +S
Sbjct: 57 KSF-------GFVCFKHPESVSYAIALLNGIRLYGR--PINVSGPSS 94

>2dnq_A RNA-binding protein 4B; RRM domain,RBD, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Length = 90

 Score = 37.2 bits (87), Expect = 5e-05
 Identities = 12/54 (22%), Positives = 24/54 (44%), Gaps = 9/54 (16%)

Query: 1  MKGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSPSSSNK 54
          +K +       GF+  + +  AE AI+ L+     G    I V+ + + S ++ 
Sbjct: 41 IKNY-------GFVHIEDKTAAEDAIRNLHHYKLHG--VNINVEASKNKSKASS 85

>2kvi_A Nuclear polyadenylated RNA-binding protein 3; RNA-binding motif, RRM, transcription termination, NUC phosphoprotein; NMR {Saccharomyces cerevisiae} Length = 96

 Score = 36.8 bits (86), Expect = 7e-05
 Identities = 10/50 (20%), Positives = 21/50 (42%), Gaps = 9/50 (18%)

Query: 1  MKGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSPS 50
             F       GFI+FD       AI+  +  +  G  + + ++ ++S +
Sbjct: 44 KNAF-------GFIQFDNPQSVRDAIECESQEMNFG--KKLILEVSSSNA 84

>3bs9_A Nucleolysin TIA-1 isoform P40; RNA recognition motif, RRM, RNA binding domain, RBD, RNA splicing, apoptosis, phosphoprotein, RNA-binding; 1.95A {Homo sapiens} Length = 87

 Score = 36.8 bits (86), Expect = 7e-05
 Identities = 14/46 (30%), Positives = 21/46 (45%), Gaps = 9/46 (19%)

Query: 2  KGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFAN 47
          KG+       GF+ F  + +AE AIQ++ G    G    I   +A 
Sbjct: 48 KGY-------GFVSFFNKWDAENAIQQMGGQWLGG--RQIRTNWAT 84

>2ytc_A PRE-mRNA-splicing factor RBM22; RRM domain, RBD, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Length = 85

 Score = 36.5 bits (85), Expect = 9e-05
 Identities = 12/36 (33%), Positives = 17/36 (47%), Gaps = 3/36 (8%)

Query: 12 GFIRFDQRIEAERAIQE-LNGTIPKGSNEPITVKFA 46
           FI+F  R  AE A ++  N  I  G    + VK+ 
Sbjct: 51 AFIQFATRQAAEVAAEKSFNKLIVNG--RRLNVKWG 84

>2xnq_A Nuclear polyadenylated RNA-binding protein 3; transcription termination, RNA processi recognition, RRM; HET: CAF; 1.30A {Saccharomyces cerevisiae} PDB: 2xnr_A 2l41_A Length = 97

 Score = 36.1 bits (84), Expect = 1e-04
 Identities = 10/50 (20%), Positives = 21/50 (42%), Gaps = 9/50 (18%)

Query: 1  MKGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSPS 50
             F       GFI+FD       AI+  +  +  G  + + ++ ++S +
Sbjct: 56 KNAF-------GFIQFDNPQSVRDAIEXESQEMNFG--KKLILEVSSSNA 96

>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 Length = 103

 Score = 36.1 bits (84), Expect = 2e-04
 Identities = 17/53 (32%), Positives = 28/53 (52%), Gaps = 9/53 (16%)

Query: 2  KGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSPSSSNK 54
          KGF       GF+ F+   +A+RA ++L+GT+ +G    I V  A +   +N 
Sbjct: 55 KGF-------GFVTFENSADADRAREKLHGTVVEG--RKIEVNNATARVMTNS 98

>1nu4_A U1A RNA binding domain; RNA recognition motif, U1 small nuclear ribonucleoprotein, R binding domain, RNA binding protein; HET: MLA; 1.80A {Homo sapiens} SCOP: d.58.7.1 PDB: 1drz_A* 1urn_A 3hhn_B* 3egz_A* 1zzn_A* 1u6b_A* 3cun_A* 3cul_A* 3g8s_A* 3g8t_A* 3g96_A* 3g9c_A* 3irw_P* 3mum_P* 3mur_P* 3mut_P* 3muv_P* 3mxh_P* 3p49_B 3r1h_A* ... Length = 97

 Score = 36.1 bits (84), Expect = 2e-04
 Identities = 10/50 (20%), Positives = 21/50 (42%), Gaps = 9/50 (18%)

Query: 1  MKGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSPS 50
          M+G         F+ F +   A  A++ + G        P+ +++A + S
Sbjct: 50 MRGQ-------AFVIFKEVSSATNALRSMQGFPFYDK--PMRIQYAKTDS 90

>2cpf_A RNA binding motif protein 19; RNA recognition motif, RRM, RNP, structural genomics, NPPSFA; NMR {Mus musculus} SCOP: d.58.7.1 Length = 98

 Score = 35.7 bits (83), Expect = 2e-04
 Identities = 10/46 (21%), Positives = 22/46 (47%), Gaps = 9/46 (19%)

Query: 2  KGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFAN 47
           GF       GF+ + +  +A++A+++L G    G    + V+ + 
Sbjct: 50 MGF-------GFVEYKKPEQAQKALKQLQGHTVDGH--KLEVRISE 86

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

 Score = 36.2 bits (84), Expect = 2e-04
 Identities = 11/67 (16%), Positives = 19/67 (28%), Gaps = 10/67 (14%)

Query: 2   KGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSPSSSNKVIAPLAA 61
            G          + F     A+  ++ L+ T   G+   I  +         K    +  
Sbjct: 48  LGL-------ARVLFTSTRGAKETVKNLHLTSVMGN--IIHAQLDIKGQQRMKYYELIVN 98

Query: 62  YL-TPQA 67
              TPQ 
Sbjct: 99  GSYTPQT 105

>1fje_B Nucleolin RBD12, protein C23; RNP, RRM, RNA binding domain, RNA-protein complex, nucleolus, structural protein/RNA complex; NMR {Mesocricetus auratus} SCOP: d.58.7.1 d.58.7.1 PDB: 1rkj_A 2krr_A Length = 175

 Score = 36.8 bits (86), Expect = 2e-04
 Identities = 9/47 (19%), Positives = 18/47 (38%), Gaps = 9/47 (19%)

Query: 1   MKGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFAN 47
            KG         +I F    +AE+ ++E  G    G    +++ +  
Sbjct: 135 SKGI-------AYIEFKSEADAEKNLEEKQGAEIDGR--SVSLYYTG 172

>2div_A TRNA selenocysteine associated protein; structural genomics, RRM domain, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Length = 99

 Score = 35.8 bits (83), Expect = 2e-04
 Identities = 9/44 (20%), Positives = 18/44 (40%), Gaps = 2/44 (4%)

Query: 12 GFIRFDQRIEAERAIQELNGTIPKGSNE--PITVKFANSPSSSN 53
           F+ F     AE+ + ++NG    G+       + +A     S+
Sbjct: 55 CFVEFADLATAEKCLHKINGKPLPGATPAKRFKLNYATYSGPSS 98

>2do4_A Squamous cell carcinoma antigen recognized by T- cells 3; RRM domaim, RDB, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 100

 Score = 35.7 bits (83), Expect = 2e-04
 Identities = 12/51 (23%), Positives = 23/51 (45%), Gaps = 9/51 (17%)

Query: 2  KGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSPSSS 52
          KG         ++ ++   +A +A+ +++G   K     I V  +NS  SS
Sbjct: 58 KGL-------AYVEYENESQASQAVMKMDGMTIKE--NIIKVAISNSGPSS 99

>2cpz_A CUG triplet repeat RNA-binding protein 1; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: d.58.7.1 PDB: 2rq4_A 2rqc_A Length = 115

 Score = 35.8 bits (83), Expect = 2e-04
 Identities = 14/53 (26%), Positives = 23/53 (43%), Gaps = 9/53 (16%)

Query: 2   KGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSPSSSNK 54
           K F       GF+ +D  + A+ AIQ +NG       + + V+   S + S  
Sbjct: 67  KCF-------GFVSYDNPVSAQAAIQSMNGFQIGM--KRLKVQLKRSKNDSKS 110

>3egn_A RNA-binding protein 40; RNA recognition motif (RRM), RNP motif, U11/U12-65K protein, DI-snRNP, U1A protein, U2B protein; 2.50A {Homo sapiens} Length = 143

 Score = 36.3 bits (84), Expect = 2e-04
 Identities = 16/50 (32%), Positives = 23/50 (46%), Gaps = 9/50 (18%)

Query: 1   MKGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSPS 50
           MKG         FI       A +A++E NG +  G  +P+ V+FA S  
Sbjct: 91  MKGQ-------AFIGLPNEKAAAKALKEANGYVLFG--KPMVVQFARSAR 131

>2do0_A HnRNP M, heterogeneous nuclear ribonucleoprotein M; RNA recognition motif, RRM, RNA binding domain, RBD, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 114

 Score = 35.7 bits (83), Expect = 3e-04
 Identities = 14/48 (29%), Positives = 20/48 (41%), Gaps = 9/48 (18%)

Query: 2  KGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSP 49
          +G        G + F+Q IEA +AI   NG +      P+ VK     
Sbjct: 56 RGI-------GTVTFEQSIEAVQAISMFNGQLLFD--RPMHVKMDERA 94

>3pgw_A U1-A; protein-RNA complex, U1 snRNA, SM fold, SM core, RRM, splici SNRNPS, splicing factors; HET: DNA; 4.40A {Homo sapiens} PDB: 1fht_A 2u1a_A 2aym_A 2b0g_A Length = 282

 Score = 36.8 bits (84), Expect = 3e-04
 Identities = 10/50 (20%), Positives = 21/50 (42%), Gaps = 9/50 (18%)

Query: 1  MKGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSPS 50
          M+G         F+ F +   A  A++ + G        P+ +++A + S
Sbjct: 51 MRGQ-------AFVIFKEVSSATNALRSMQGFPFYDK--PMRIQYAKTDS 91

>3md1_A Nuclear and cytoplasmic polyadenylated RNA-bindin PUB1; RRM, RBD, RNP, poly(U) binding, nucleus, RNA-binding, binding protein; 1.60A {Saccharomyces cerevisiae} Length = 83

 Score = 35.2 bits (82), Expect = 3e-04
 Identities = 10/46 (21%), Positives = 21/46 (45%), Gaps = 9/46 (19%)

Query: 2  KGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFAN 47
          +G+       GF+ F  + +A+ A+  + G    G   P+ + +A 
Sbjct: 43 RGY-------GFVSFTSQDDAQNAMDSMQGQDLNG--RPLRINWAA 79

>2dgo_A Cytotoxic granule-associated RNA binding protein 1; RRM domain, structural genomics, NPPSFA; NMR {Mus musculus} PDB: 2rne_A 2dh7_A Length = 115

 Score = 35.4 bits (82), Expect = 3e-04
 Identities = 15/53 (28%), Positives = 23/53 (43%), Gaps = 9/53 (16%)

Query: 2   KGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSPSSSNK 54
           KG+       GF+ F  + +AE AIQ++ G    G    I   +A     + K
Sbjct: 57  KGY-------GFVSFFNKWDAENAIQQMGGQWLGG--RQIRTNWATRKPPAPK 100

>2lkz_A RNA-binding protein 5; RRM; NMR {Homo sapiens} Length = 95

 Score = 35.0 bits (81), Expect = 3e-04
 Identities = 12/49 (24%), Positives = 20/49 (40%), Gaps = 9/49 (18%)

Query: 2  KGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGS--NEPITVKFANS 48
          +GF        F++    ++A + +Q L    P      + I V FA S
Sbjct: 53 RGF-------AFVQLSSAMDASQLLQILQSLHPPLKIDGKTIGVDFAKS 94

>2err_A Ataxin-2-binding protein 1; protein-RNA complex, RNA binding protein; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 109

 Score = 35.4 bits (82), Expect = 3e-04
 Identities = 16/46 (34%), Positives = 25/46 (54%), Gaps = 9/46 (19%)

Query: 2   KGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFAN 47
           KGF       GF+ F+   +A+RA ++L+GT+ +G    I V  A 
Sbjct: 69  KGF-------GFVTFENSADADRAREKLHGTVVEG--RKIEVNNAT 105

>2cqh_A IGF-II mRNA-binding protein 2 isoform A; RNA recognition motif, RRM, RNA binding domain, RBD, RNP, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 93

 Score = 34.9 bits (81), Expect = 3e-04
 Identities = 11/51 (21%), Positives = 22/51 (43%), Gaps = 10/51 (19%)

Query: 2  KGFTDFCRYLGFIRFDQRIEAERAIQELNGTIP-KGSNEPITVKFANSPSS 51
           G+        F+ +  +  A RAI+ L+G +   G  + + V ++ S   
Sbjct: 44 SGY-------AFVDYPDQNWAIRAIETLSGKVELHG--KIMEVDYSVSKKL 85

>2ghp_A U4/U6 snRNA-associated splicing factor PRP24; RNA chaperone, RNA binding domain, RNA recognition motif, SP factor, snRNP, spliceosome; 2.70A {Saccharomyces cerevisiae} SCOP: d.58.7.1 d.58.7.1 d.58.7.1 PDB: 2go9_A 2kh9_A Length = 292

 Score = 36.1 bits (84), Expect = 3e-04
 Identities = 10/53 (18%), Positives = 21/53 (39%), Gaps = 9/53 (16%)

Query: 2   KGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSPSSSNK 54
           + F        +I    + +A   +++LNG   +G    +  K +N    S +
Sbjct: 159 RRF-------AYIDVTSKEDARYCVEKLNGLKIEG--YTLVTKVSNPLEKSKR 202

>2ghp_A U4/U6 snRNA-associated splicing factor PRP24; RNA chaperone, RNA binding domain, RNA recognition motif, SP factor, snRNP, spliceosome; 2.70A {Saccharomyces cerevisiae} SCOP: d.58.7.1 d.58.7.1 d.58.7.1 PDB: 2go9_A 2kh9_A Length = 292

 Score = 35.7 bits (83), Expect = 5e-04
 Identities = 10/45 (22%), Positives = 19/45 (42%), Gaps = 10/45 (22%)

Query: 2   KGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFA 46
                      F+ F+ +  AERA+ ++N ++       I+V  A
Sbjct: 254 NCC-------AFMVFENKDSAERAL-QMNRSLLGNR--EISVSLA 288

>3tyt_A Heterogeneous nuclear ribonucleoprotein L; ferredoxin-like, structural genomics, joint center for struc genomics, JCSG; 1.60A {Mus musculus} PDB: 3s01_A 3to8_A Length = 205

 Score = 36.2 bits (83), Expect = 4e-04
 Identities = 10/41 (24%), Positives = 16/41 (39%), Gaps = 2/41 (4%)

Query: 8   CRYLGFIRFDQRIEAERAIQELNGTIPKGSN--EPITVKFA 46
               G + +D + +A   +  LN    K  N   P T+K  
Sbjct: 164 RSSSGLLEWDSKSDALETLGFLNHYQMKNPNGPYPYTLKLC 204

>2kt5_A RNA and export factor-binding protein 2; chaperone, mRNA processing, mRNA splicing, transport, nucleus, RNA-binding, spliceosome, transport; NMR {Mus musculus} Length = 124

 Score = 35.4 bits (82), Expect = 4e-04
 Identities = 9/47 (19%), Positives = 20/47 (42%), Gaps = 9/47 (19%)

Query: 2   KGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANS 48
            G          + F++R +A +A+++  G    G   P+ ++   S
Sbjct: 76  LGT-------ADVHFERRADALKAMKQYKGVPLDG--RPMDIQLVAS 113

>2d9p_A Polyadenylate-binding protein 3; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Length = 103

 Score = 34.9 bits (81), Expect = 4e-04
 Identities = 16/46 (34%), Positives = 22/46 (47%), Gaps = 9/46 (19%)

Query: 2  KGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFAN 47
          KGF       GF+ F    EA +A+ E+NG I     +P+ V  A 
Sbjct: 55 KGF-------GFVCFSSPEEATKAVTEMNGRIVAT--KPLYVALAQ 91

>2khc_A Testis-specific RNP-type RNA binding protein; RRM, RNA recognition motif, bruno; NMR {Drosophila melanogaster} Length = 118

 Score = 35.0 bits (81), Expect = 5e-04
 Identities = 12/45 (26%), Positives = 18/45 (40%), Gaps = 9/45 (20%)

Query: 2   KGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFA 46
           K F       GF+ FD    A+ AI+ +NG         + V+  
Sbjct: 82  KCF-------GFVSFDNPDSAQVAIKAMNGFQVGTK--RLKVQLK 117

>2dgv_A HnRNP M, heterogeneous nuclear ribonucleoprotein M; RRM domain, structural genomics, NPPSFA; NMR {Homo sapiens} PDB: 2dh9_A Length = 92

 Score = 34.5 bits (80), Expect = 6e-04
 Identities = 14/49 (28%), Positives = 21/49 (42%), Gaps = 9/49 (18%)

Query: 2  KGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSPS 50
          KG        G ++F+    AERA + +NG    G    I V+   + S
Sbjct: 48 KGC-------GVVKFESPEVAERACRMMNGMKLSG--REIDVRIDRNAS 87

>2cqc_A Arginine/serine-rich splicing factor 10; RNA recognition motif, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 95

 Score = 34.1 bits (79), Expect = 7e-04
 Identities = 12/47 (25%), Positives = 19/47 (40%), Gaps = 9/47 (19%)

Query: 2  KGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANS 48
          +GF        F+ F+   +A+ A +  NG    G    I V   +S
Sbjct: 57 RGF-------AFVYFENVDDAKEAKERANGMELDG--RRIRVSGPSS 94

>4f25_A Polyadenylate-binding protein 1; RRM fold, translation initiation, RNA-binding, EIF4G-binding translation; 1.90A {Homo sapiens} PDB: 4f26_A 2k8g_A Length = 115

 Score = 34.5 bits (80), Expect = 7e-04
 Identities = 14/47 (29%), Positives = 23/47 (48%), Gaps = 9/47 (19%)

Query: 2  KGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANS 48
          KG+       GF+ F+ +  AERAI+++NG +       + V    S
Sbjct: 45 KGY-------GFVHFETQEAAERAIEKMNGMLLNDR--KVFVGRFKS 82

>1x4e_A RNA binding motif, single-stranded interacting protein 2; structural genomics, RRM domain, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 85

 Score = 34.0 bits (79), Expect = 7e-04
 Identities = 9/35 (25%), Positives = 16/35 (45%), Gaps = 7/35 (20%)

Query: 2  KGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKG 36
          KG+       GF+ FD    A++A+  L  +  + 
Sbjct: 47 KGY-------GFVDFDSPSAAQKAVTALKASGVQA 74

>2fy1_A RNA-binding motif protein, Y chromosome, family 1 member A1; RNA binding protein, structure, protein-RNA complex, RNA stem-loop, structural protein/RNA complex; NMR {Homo sapiens} Length = 116

 Score = 34.6 bits (80), Expect = 8e-04
 Identities = 15/49 (30%), Positives = 24/49 (48%), Gaps = 9/49 (18%)

Query: 2  KGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSPS 50
          +GF        FI F+   +A+ A +++NG    G  + I V+ A  PS
Sbjct: 48 RGF-------AFITFENPADAKNAAKDMNGKSLHG--KAIKVEQAKKPS 87

>1x5s_A Cold-inducible RNA-binding protein; structure genomics, RRM domain, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 102

 Score = 34.1 bits (79), Expect = 8e-04
 Identities = 14/52 (26%), Positives = 22/52 (42%), Gaps = 9/52 (17%)

Query: 2  KGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSPSSSN 53
          +GF       GF+ F+   +A+ A+  +NG    G    I V  A   S + 
Sbjct: 54 RGF-------GFVTFENIDDAKDAMMAMNGKSVDG--RQIRVDQAGKSSDNR 96

>2a3j_A U1 small nuclear ribonucleoprotein A; computationally designed protein, RRM, U1A, RNA binding protein; NMR {Homo sapiens} Length = 127

 Score = 34.5 bits (79), Expect = 8e-04
 Identities = 8/39 (20%), Positives = 19/39 (48%), Gaps = 2/39 (5%)

Query: 12  GFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSPS 50
            +I F  +  A+  ++   G   +G+  P+ + F+ +P 
Sbjct: 75  AYIVFATQESAQAFVEAFQGYPFQGN--PLVITFSETPQ 111

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	83
4fxv_A	99	ELAV-like protein 1; RNA recognition motif, putati	99.33
3p5t_L	90	Cleavage and polyadenylation specificity factor S;	99.3
2lkz_A	95	RNA-binding protein 5; RRM; NMR {Homo sapiens}	99.29
2lxi_A	91	RNA-binding protein 10; NMR {Homo sapiens}	99.26
3s8s_A	110	Histone-lysine N-methyltransferase SETD1A; chromat	99.26
2dnz_A	95	Probable RNA-binding protein 23; RNA recognition m	99.24
1x5t_A	96	Splicing factor 3B subunit 4; structure genomics,	99.22
2dgs_A	99	DAZ-associated protein 1; RRM domain, structural g	99.21
2dgp_A	106	Bruno-like 4, RNA binding protein; RRM domain, str	99.2
2fc8_A	102	NCL protein; structure genomics, RRM_1 domain, str	99.2
1x5u_A	105	Splicing factor 3B subunit 4 (spliceosome associat	99.2
3md1_A	83	Nuclear and cytoplasmic polyadenylated RNA-bindin	99.2
1whw_A	99	Hypothetical protein riken cDNA 1200009A02; RNA re	99.2
2dnm_A	103	SRP46 splicing factor; RRM domain, RBD, structural	99.2
2la6_A	99	RNA-binding protein FUS; structural genomics, nort	99.19
2fy1_A	116	RNA-binding motif protein, Y chromosome, family 1	99.19
2x1f_A	96	MRNA 3'-END-processing protein RNA15; transcriptio	99.19
1x5s_A	102	Cold-inducible RNA-binding protein; structure geno	99.18
2cpe_A	113	RNA-binding protein EWS; RNA recognition motif, RR	99.18
2dnh_A	105	Bruno-like 5, RNA binding protein; RRM domain, RBD	99.17
1p27_B	106	RNA-binding protein 8A; nuclear protein, mRNA spli	99.17
2cqb_A	102	Peptidyl-prolyl CIS-trans isomerase E; RNA recogni	99.17
3bs9_A	87	Nucleolysin TIA-1 isoform P40; RNA recognition mot	99.17
3ns6_A	100	Eukaryotic translation initiation factor 3 subuni;	99.17
2cq0_A	103	Eukaryotic translation initiation factor 3 subunit	99.16
2cqp_A	98	RNA-binding protein 12; RNA recognition motif, RRM	99.16
2do4_A	100	Squamous cell carcinoma antigen recognized by T- c	99.15
2kn4_A	158	Immunoglobulin G-binding protein G, splicing FACT	99.15
1fj7_A	101	Nucleolin RBD1, protein C23; RNP, RRM, RNA binding	99.15
1oo0_B	110	CG8781-PA, drosophila Y14; RNA recognition motif,	99.15
2kxn_B	129	Transformer-2 protein homolog beta; SR protein, RR	99.15
1x4h_A	111	RNA-binding protein 28; structural genomics, RRM d	99.14
2cpz_A	115	CUG triplet repeat RNA-binding protein 1; RRM doma	99.14
2dgo_A	115	Cytotoxic granule-associated RNA binding protein 1	99.14
1p1t_A	104	Cleavage stimulation factor, 64 kDa subunit; RNA r	99.13
1x5o_A	114	RNA binding motif, single-stranded interacting pro	99.13
2cph_A	107	RNA binding motif protein 19; RNA recognition moti	99.13
2ki2_A	90	SS-DNA binding protein 12RNP2; HP0827, RRM, SS-DNA	99.13
2dhg_A	104	TRNA selenocysteine associated protein (SECP43); R	99.13
2m2b_A	131	RNA-binding protein 10; T-cell, JCSG, MPP, PSI-bio	99.12
3n9u_C	156	Cleavage and polyadenylation specificity factor S;	99.12
2div_A	99	TRNA selenocysteine associated protein; structural	99.12
2e5h_A	94	Zinc finger CCHC-type and RNA-binding motif- conta	99.11
3ex7_B	126	RNA-binding protein 8A; protein-RNA complex, mRNA	99.11
2cqc_A	95	Arginine/serine-rich splicing factor 10; RNA recog	99.11
2dis_A	109	Unnamed protein product; structural genomics, RRM	99.11
2dng_A	103	Eukaryotic translation initiation factor 4H; RRM d	99.11
2jrs_A	108	RNA-binding protein 39; RNA binding motif of RBM39	99.11
3mdf_A	85	Peptidyl-prolyl CIS-trans isomerase E; RRM domain,	99.11
2mss_A	75	Protein (musashi1); RNA-binding domain, RNA bindin	99.11
1u6f_A	139	Tcubp1, RNA-binding protein UBP1; trypanosome, mRN	99.1
2a3j_A	127	U1 small nuclear ribonucleoprotein A; computationa	99.1
1wi8_A	104	EIF-4B, eukaryotic translation initiation factor 4	99.1
2ek1_A	95	RNA-binding protein 12; RNA recognition motif, dim	99.09
1fxl_A	167	Paraneoplastic encephalomyelitis antigen HUD; prot	99.09
2j76_E	100	EIF-4B, EIF4B, eukaryotic translation initiation f	99.08
4a8x_A	88	RNA-binding protein with serine-rich domain 1; tra	99.08
1b7f_A	168	Protein (SXL-lethal protein), RNA (5'-R(P*GP*UP*UP	99.07
2cpx_A	115	Hypothetical protein FLJ11016; RRM domain, structu	99.07
2d9p_A	103	Polyadenylate-binding protein 3; RRM domain, struc	99.07
2hvz_A	101	Splicing factor, arginine/serine-rich 7; RRM, RNA	99.04
2pe8_A	105	Splicing factor 45; RRM, protein binding; 2.00A {H	99.04
3ulh_A	107	THO complex subunit 4; nuclear protein, RNA bindin	99.04
2lea_A	135	Serine/arginine-rich splicing factor 2; SR protein	99.04
2dgw_A	91	Probable RNA-binding protein 19; RRM domain, struc	99.04
2dgv_A	92	HnRNP M, heterogeneous nuclear ribonucleoprotein M	99.04
3ucg_A	89	Polyadenylate-binding protein 2; ferredoxin-like,	99.03
2krb_A	81	Eukaryotic translation initiation factor 3 subunit	99.03
2kt5_A	124	RNA and export factor-binding protein 2; chaperone	99.03
2fc9_A	101	NCL protein; structure genomics, RRM_1 domain, str	99.03
2do0_A	114	HnRNP M, heterogeneous nuclear ribonucleoprotein M	99.03
2nlw_A	105	Eukaryotic translation initiation factor 3 subunit	99.03
2cpf_A	98	RNA binding motif protein 19; RNA recognition moti	99.02
2khc_A	118	Testis-specific RNP-type RNA binding protein; RRM,	99.02
1h2v_Z	156	20 kDa nuclear CAP binding protein; CAP-binding-co	99.02
2jwn_A	124	Embryonic polyadenylate-binding protein 2-B; epabp	99.02
2wbr_A	89	GW182, gawky, LD47780P; DNA-binding protein, RRM,	99.02
3md3_A	166	Nuclear and cytoplasmic polyadenylated RNA-bindin	99.02
2ku7_A	140	MLL1 PHD3-CYP33 RRM chimeric protein; transcriptio	99.01
2e5j_A	97	Methenyltetrahydrofolate synthetase domain contain	99.01
2cpi_A	111	CCR4-NOT transcription complex subunit 4; RNA reco	99.01
2rs2_A	109	Musashi-1, RNA-binding protein musashi homolog 1;	99.0
2qfj_A	216	FBP-interacting repressor; protein-DNA complex; HE	99.0
1uaw_A	77	Mouse-musashi-1; RNP-type structure, RNA binding p	98.99
3q2s_C	229	Cleavage and polyadenylation specificity factor S;	98.99
4f25_A	115	Polyadenylate-binding protein 1; RRM fold, transla	98.99
2cqi_A	103	Nucleolysin TIAR; RNA recognition motif, RRM, RNA	98.99
1fjc_A	96	Nucleolin RBD2, protein C23; RNP, RRM, RNA binding	98.99
2lcw_A	116	RNA-binding protein FUS; RRM, nucleic acid binding	98.54
3nmr_A	175	Cugbp ELAV-like family member 1; RRM, PRE-mRNA spl	98.98
1rk8_A	165	CG8781-PA, CG8781-PA protein; mRNA processing, RRM	98.98
2dgx_A	96	KIAA0430 protein; RRM domain, structural genomics,	98.98
2cqd_A	116	RNA-binding region containing protein 1; RNA recog	98.98
1jmt_A	104	Splicing factor U2AF 35 kDa subunit; RRM, RNA spli	98.97
2ywk_A	95	Putative RNA-binding protein 11; RRM-domain, struc	98.97
1x4e_A	85	RNA binding motif, single-stranded interacting pro	98.97
1wel_A	124	RNA-binding protein 12; structural genomics, NPPSF	98.96
2cq4_A	114	RNA binding motif protein 23; RRM domain, structur	98.96
1nu4_A	97	U1A RNA binding domain; RNA recognition motif, U1	98.95
1x4a_A	109	Splicing factor, arginine/serine-rich 1 (splicing	98.95
1wez_A	102	HnRNP H', FTP-3, heterogeneous nuclear ribonucleop	98.95
3egn_A	143	RNA-binding protein 40; RNA recognition motif (RRM	98.93
1iqt_A	75	AUF1, heterogeneous nuclear ribonucleoprotein D0;	98.93
2cjk_A	167	Nuclear polyadenylated RNA-binding protein 4; HRP1	98.93
3v4m_A	105	Splicing factor U2AF 65 kDa subunit; canonical RNA	98.93
1x4b_A	116	Heterogeneous nuclear ribonucleoproteins A2/B1; st	98.92
1s79_A	103	Lupus LA protein; RRM, alpha/beta, RNA binding pro	98.91
2g4b_A	172	Splicing factor U2AF 65 kDa subunit; protein-RNA c	98.9
2yh0_A	198	Splicing factor U2AF 65 kDa subunit; PRE-mRNA spli	98.9
2cq3_A	103	RNA-binding protein 9; RRM domain, structural geno	98.89
2lmi_A	107	GRSF-1, G-rich sequence factor 1; G-rich RNA seque	98.89
2dh8_A	105	DAZ-associated protein 1; RRM domain, structural g	98.88
2jvr_A	111	Nucleolar protein 3; RNA recognition motif, nucleu	98.88
2cpy_A	114	RNA-binding protein 12; RRM domain, structural gen	98.87
1fje_B	175	Nucleolin RBD12, protein C23; RNP, RRM, RNA bindin	98.87
2f3j_A	177	RNA and export factor binding protein 2; RRM domai	98.86
3s7r_A	87	Heterogeneous nuclear ribonucleoprotein A/B; ferre	98.86
1x5p_A	97	Negative elongation factor E; structure genomics,	98.86
1fxl_A	167	Paraneoplastic encephalomyelitis antigen HUD; prot	98.86
1wg5_A	104	Heterogeneous nuclear ribonucleoprotein H; structu	98.86
2dnn_A	109	RNA-binding protein 12; RRM domain, RBD, structura	98.85
2cqh_A	93	IGF-II mRNA-binding protein 2 isoform A; RNA recog	98.85
3ue2_A	118	Poly(U)-binding-splicing factor PUF60; RNA recogni	98.84
2err_A	109	Ataxin-2-binding protein 1; protein-RNA complex, R	98.84
1b7f_A	168	Protein (SXL-lethal protein), RNA (5'-R(P*GP*UP*UP	98.83
2dit_A	112	HIV TAT specific factor 1 variant; structural geno	98.83
2cqg_A	103	TDP-43, TAR DNA-binding protein-43; RNA recognitio	98.82
2cpj_A	99	Non-POU domain-containing octamer-binding protein;	98.82
1why_A	97	Hypothetical protein riken cDNA 1810017N16; RNA re	98.82
2hgl_A	136	HNRPF protein, heterogeneous nuclear ribonucleopro	98.82
2db1_A	118	Heterogeneous nuclear ribonucleoprotein F; RRM dom	98.82
3lqv_A	115	PRE-mRNA branch site protein P14; cysless mutant,	98.82
1wg1_A	88	KIAA1579 protein, homolog EXC-7; RBD, structural g	98.81
2bz2_A	121	Negative elongation factor E; NELF E, RNA recognit	98.81
2i2y_A	150	Fusion protein consists of immunoglobin G- binding	98.8
2dnq_A	90	RNA-binding protein 4B; RRM domain,RBD, structural	98.79
2cpd_A	99	Apobec-1 stimulating protein; RNA recognition moti	98.77
2diu_A	96	KIAA0430 protein; structural genomics, RRM domain,	98.76
2dgu_A	103	Heterogeneous nuclear ribonucleoprotein Q; RRM dom	98.76
2qfj_A	216	FBP-interacting repressor; protein-DNA complex; HE	98.76
2kvi_A	96	Nuclear polyadenylated RNA-binding protein 3; RNA-	98.75
1whx_A	111	Hypothetical protein riken cDNA 1200009A02; RNA re	98.75
2cq2_A	114	Hypothetical protein LOC91801; RRM domain, structu	98.75
2xnq_A	97	Nuclear polyadenylated RNA-binding protein 3; tran	98.75
1l3k_A	196	Heterogeneous nuclear ribonucleoprotein A1; nuclea	98.75
2la4_A	101	Nuclear and cytoplasmic polyadenylated RNA-bindin	98.74
1x4g_A	109	Nucleolysin TIAR; structural genomics, RRM domain,	98.74
1sjr_A	164	Polypyrimidine tract-binding protein 1; extended b	98.74
2jvo_A	108	Nucleolar protein 3; nucleus, phosphorylation, rib	98.73
1wf1_A	110	RNA-binding protein RALY; structural genomics, RRM	98.73
2hgn_A	139	Heterogeneous nuclear ribonucleoprotein F; RNA rec	98.73
3pgw_S	437	U1-70K; protein-RNA complex, U1 snRNA, SM fold, SM	98.72
4f02_A	213	Polyadenylate-binding protein 1; mRNA, eukaryotic	98.72
2j8a_A	136	Histone-lysine N-methyltransferase, H3 lysine-4 sp	98.72
3s6e_A	114	RNA-binding protein 39; ferredoxin-like, structura	98.72
3dxb_A	222	Thioredoxin N-terminally fused to PUF60(UHM); spli	98.71
2dnp_A	90	RNA-binding protein 14; RRM domain, RBD, structura	98.7
1fje_B	175	Nucleolin RBD12, protein C23; RNP, RRM, RNA bindin	98.7
3smz_A	284	Protein raver-1, ribonucleoprotein PTB-binding 1;	98.69
2d9o_A	100	DNAJ (HSP40) homolog, subfamily C, member 17; RRM	98.67
2dgt_A	92	RNA-binding protein 30; RRM domain, structural gen	98.67
4f02_A	213	Polyadenylate-binding protein 1; mRNA, eukaryotic	98.67
3pgw_A	282	U1-A; protein-RNA complex, U1 snRNA, SM fold, SM c	98.66
2ytc_A	85	PRE-mRNA-splicing factor RBM22; RRM domain, RBD, s	98.66
2hgm_A	126	HNRPF protein, heterogeneous nuclear ribonucleopro	98.65
1wex_A	104	Hypothetical protein (riken cDNA 2810036L13); stru	98.64
1x4f_A	112	Matrin 3; structural genomics, RRM domain, NPPSFA,	98.64
2e5i_A	124	Heterogeneous nuclear ribonucleoprotein L-like; RR	98.63
3r27_A	100	HnRNP L, heterogeneous nuclear ribonucleoprotein L	98.63
2ghp_A	292	U4/U6 snRNA-associated splicing factor PRP24; RNA	98.63
1x4d_A	102	Matrin 3; structural genomics, RRM domain, NPPSFA,	98.63
3nmr_A	175	Cugbp ELAV-like family member 1; RRM, PRE-mRNA spl	98.62
1x4c_A	108	Splicing factor, arginine/serine-rich 1; structura	98.62
3smz_A	284	Protein raver-1, ribonucleoprotein PTB-binding 1;	98.62
2e44_A	96	Insulin-like growth factor 2 mRNA binding protein	98.61
3md3_A	166	Nuclear and cytoplasmic polyadenylated RNA-bindin	98.6
1l3k_A	196	Heterogeneous nuclear ribonucleoprotein A1; nuclea	98.58
3tyt_A	205	Heterogeneous nuclear ribonucleoprotein L; ferredo	98.58
3zzy_A	130	Polypyrimidine tract-binding protein 1; protein bi	98.57
2cq1_A	101	PTB-like protein L; RRM domain, structural genomic	98.57
2dnl_A	114	Cytoplasmic polyadenylation element binding protei	98.56
3tyt_A	205	Heterogeneous nuclear ribonucleoprotein L; ferredo	98.55
2ad9_A	119	Polypyrimidine tract-binding protein 1; RBD, RRM,	98.55
1sjq_A	105	Polypyrimidine tract-binding protein 1; babbab mot	98.55
2dha_A	123	FLJ20171 protein; RRM domain, structural genomics,	98.55
2e5g_A	94	U6 snRNA-specific terminal uridylyltransferase 1;	98.52
2xs2_A	102	Deleted in azoospermia-like; RNA binding protein-R	98.5
3u1l_A	240	PRE-mRNA-splicing factor CWC2; CSMP, zinc finger;	98.49
2hzc_A	87	Splicing factor U2AF 65 kDa subunit; RNA splicing,	98.48
2adc_A	229	Polypyrimidine tract-binding protein 1; RBD, RRM,	98.46
1qm9_A	198	Polypyrimidine tract-binding protein; ribonucleopr	98.46
2yh0_A	198	Splicing factor U2AF 65 kDa subunit; PRE-mRNA spli	98.42
3beg_B	115	Splicing factor, arginine/serine-rich 1; kinase, S	98.41
2g4b_A	172	Splicing factor U2AF 65 kDa subunit; protein-RNA c	98.4
2ghp_A	292	U4/U6 snRNA-associated splicing factor PRP24; RNA	98.38
2cjk_A	167	Nuclear polyadenylated RNA-binding protein 4; HRP1	98.34
3pgw_A	282	U1-A; protein-RNA complex, U1 snRNA, SM fold, SM c	98.32
3sde_A	261	Paraspeckle component 1; RRM, anti parallel right	98.27
2voo_A	193	Lupus LA protein; RNA-binding protein, RNA recogni	98.27
1qm9_A	198	Polypyrimidine tract-binding protein; ribonucleopr	98.27
2adc_A	229	Polypyrimidine tract-binding protein 1; RBD, RRM,	98.25
3d2w_A	89	TAR DNA-binding protein 43; DP-43 proteinopathy, T	98.25
3tht_A	345	Alkylated DNA repair protein ALKB homolog 8; struc	98.24
3sde_A	261	Paraspeckle component 1; RRM, anti parallel right	98.16
1wf0_A	88	TDP-43, TAR DNA-binding protein-43; structural gen	97.81
2dnr_A	91	Synaptojanin-1; RRM domain, RBD, structural genomi	97.81
1ufw_A	95	Synaptojanin 2; RNP domain, structural genomics, r	97.31
2kn4_A	158	Immunoglobulin G-binding protein G, splicing FACT	96.98
2i2y_A	150	Fusion protein consists of immunoglobin G- binding	96.66
1owx_A	121	Lupus LA protein, SS-B, LA; RRM, transcription; NM	93.52
2l9w_A	117	U4/U6 snRNA-associated-splicing factor PRP24; RRM,	90.94
1wey_A	104	Calcipressin 1; structural genomics, RRM domain, r	84.93

>4fxv_A ELAV-like protein 1; RNA recognition motif, putative RNA-binding domain, transcri structural genomics, joint center for structural genomics; 1.90A {Homo sapiens}

Probab=99.33  E-value=1.2e-12  Score=80.89  Aligned_cols=45  Identities=29%  Similarity=0.433  Sum_probs=41.9

Q ss_pred             CCCCCCccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecCC
Q psy6355           2 KGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANS   48 (83)
Q Consensus         2 Dk~TG~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~~   48 (83)
                      |+.||.+||||||.|.+.++|++||+.|||..+.|  ++|.|++|.+
T Consensus        54 d~~tg~~kG~afV~f~~~~~A~~Ai~~lng~~~~g--r~l~V~~AkP   98 (99)
T 4fxv_A           54 DKVAGHSLGYGFVNYVTAKDAERAINTLNGLRLQS--KTIKVSYARP   98 (99)
T ss_dssp             CSSSCCEEEEEEEEESSHHHHHHHHHHHTTCEETT--EECEEEECCB
T ss_pred             cCCCCcccccEEEEECCHHHHHHHHHHhCCCEECC--EEEEEEEeeC
Confidence            78899999999999999999999999999999977  7899999864

>3p5t_L Cleavage and polyadenylation specificity factor S; RRM domain, poly(A) site recognition, RNA, nuclear, RNA BIND protein; 2.70A {Homo sapiens} PDB: 3p6y_C

Probab=99.30  E-value=1.8e-12  Score=78.05  Aligned_cols=49  Identities=8%  Similarity=0.070  Sum_probs=39.6

Q ss_pred             CCCCCCccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecCCCCCC
Q psy6355           2 KGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSPSSS   52 (83)
Q Consensus         2 Dk~TG~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~~~~~~   52 (83)
                      |+.+|.+||||||.|.+.++|++||+.|||..+.|  +.|.|+++.++...
T Consensus        38 ~~~~g~~kG~afV~f~~~~~a~~Ai~~l~g~~~~g--r~i~V~~~~~~~~~   86 (90)
T 3p5t_L           38 NRANGQSKGFALVGVGSEASSKKLMDLLPKRELHG--QNPVVTPSNKLEHH   86 (90)
T ss_dssp             CTTTCCEEEEEEECC-CHHHHHHHHHHGGGSCSSS--CCCEECCC------
T ss_pred             cCCCCccCcEEEEEECCHHHHHHHHHHcCCCeeCC--EEEEEEECCCCccc
Confidence            77899999999999999999999999999999977  67999998876443

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

Probab=99.29  E-value=2.7e-12  Score=79.45  Aligned_cols=46  Identities=26%  Similarity=0.355  Sum_probs=41.5

Q ss_pred             CCCCCCCccceEEEEeCCHHHHHHHHHHhCCCC----CCCCCcceEEEecCC
Q psy6355           1 MKGFTDFCRYLGFIRFDQRIEAERAIQELNGTI----PKGSNEPITVKFANS   48 (83)
Q Consensus         1 ~Dk~TG~SrG~gFV~F~~~e~A~~AI~~LnG~~----~~G~~~~l~V~fA~~   48 (83)
                      .|+.||.|||||||.|.+.++|++||+.|||..    ++|  ++|.|+||..
T Consensus        45 ~d~~tg~srG~aFV~f~~~~~A~~Ai~~lng~~~~~~i~G--r~i~V~~Aks   94 (95)
T 2lkz_A           45 KDKQTQQNRGFAFVQLSSAMDASQLLQILQSLHPPLKIDG--KTIGVDFAKS   94 (95)
T ss_dssp             CCSSSSSCSSEEEEECSSSHHHHHHHHHHHSSSSCEEETT--EEEEEEECCC
T ss_pred             ecCCCCCCceEeEEEECCHHHHHHHHHHhcCCCCCceECC--EEEEEEEccC
Confidence            488899999999999999999999999999974    666  7899999864

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

Probab=99.26  E-value=4.7e-12  Score=76.94  Aligned_cols=50  Identities=12%  Similarity=0.232  Sum_probs=42.4

Q ss_pred             CCCCCCCccceEEEEeCCHHHHHHHHHHhCCC-CCCCCCcceEEEecCCCCCC
Q psy6355           1 MKGFTDFCRYLGFIRFDQRIEAERAIQELNGT-IPKGSNEPITVKFANSPSSS   52 (83)
Q Consensus         1 ~Dk~TG~SrG~gFV~F~~~e~A~~AI~~LnG~-~~~G~~~~l~V~fA~~~~~~   52 (83)
                      .|+.||.+||||||.|.+.++|++||+.|++. .+.|  ++|.|.||.+....
T Consensus        36 ~d~~t~~~rg~aFV~F~~~~~A~~Ai~~~~~~~~~~g--r~i~V~~a~~~~~~   86 (91)
T 2lxi_A           36 RNKSSGQSRGFAFVEFSHLQDATRWMEANQHSLNILG--QKVSMHYSDPKPKI   86 (91)
T ss_dssp             SCSSSCCCSSEEEEECSSHHHHHHHHHTTTTEEEETT--EEEEEECCCSCCCC
T ss_pred             ecCCCCCcCceEEEEecCHHHHHHHHHhcCCCeEECC--EEEEEEEcCCCCCC
Confidence            47889999999999999999999999988554 5777  78999999865443

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

Probab=99.26  E-value=4.6e-12  Score=79.81  Aligned_cols=50  Identities=16%  Similarity=0.084  Sum_probs=44.5

Q ss_pred             CCCCCCCccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecCCCCCC
Q psy6355           1 MKGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSPSSS   52 (83)
Q Consensus         1 ~Dk~TG~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~~~~~~   52 (83)
                      .|+.||.|||||||.|.+.++|++||+.|||..+.|  ++|.|.+|.....+
T Consensus        40 ~d~~tg~~rG~aFV~f~~~~~A~~Ai~~lng~~~~g--r~i~V~~a~~~~~~   89 (110)
T 3s8s_A           40 LHPRTRKHLGLARVLFTSTRGAKETVKNLHLTSVMG--NIIHAQLDIKGQQR   89 (110)
T ss_dssp             ECTTTCCEEEEEEEEESSHHHHHHHHHHHTTCEETT--EECEEEECSTTHHH
T ss_pred             ECCCCCceeeEEEEEECCHHHHHHHHHHhCCCEECC--eEEEEEECCCCcHH
Confidence            378899999999999999999999999999999977  77999999765444

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

Probab=99.24  E-value=3e-11  Score=72.57  Aligned_cols=49  Identities=29%  Similarity=0.377  Sum_probs=43.8

Q ss_pred             CCCCCCccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecCCCCCC
Q psy6355           2 KGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSPSSS   52 (83)
Q Consensus         2 Dk~TG~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~~~~~~   52 (83)
                      |+.+|.++|||||.|.+.++|++|++.|||..+.|  ++|.|.++......
T Consensus        40 ~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g--~~l~V~~a~~~~~~   88 (95)
T 2dnz_A           40 DSDTGRSKGYGFITFSDSECARRALEQLNGFELAG--RPMRVGHVTERLDG   88 (95)
T ss_dssp             CSSSCCCCSEEEEEESCHHHHHHHHHHHTTCCSSS--SCCEEEESSCCCCC
T ss_pred             cCCCCceeeEEEEEECCHHHHHHHHHHhCCCeeCC--cEEEEEEcccccCC
Confidence            67789999999999999999999999999999977  67999999766443

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

Probab=99.22  E-value=2e-11  Score=73.46  Aligned_cols=49  Identities=29%  Similarity=0.329  Sum_probs=44.1

Q ss_pred             CCCCCCccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecCCCCCC
Q psy6355           2 KGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSPSSS   52 (83)
Q Consensus         2 Dk~TG~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~~~~~~   52 (83)
                      |+.+|.++|||||.|.+.++|++|++.|||..+.|  ++|.|+++.+...+
T Consensus        41 ~~~~g~~~g~afV~f~~~~~A~~A~~~l~g~~~~g--~~l~v~~a~~~~~~   89 (96)
T 1x5t_A           41 DPDTGNSKGYAFINFASFDASDAAIEAMNGQYLCN--RPITVSYAFKKDSK   89 (96)
T ss_dssp             CTTTCSCCSEEEEEBSSHHHHHHHHHTTTTCEETT--EECEEEESCCCCCC
T ss_pred             cCCCCCcCeEEEEEECCHHHHHHHHHHcCCCEECC--EEEEEEEecccCCC
Confidence            67899999999999999999999999999999976  78999999876544

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

Probab=99.21  E-value=4.5e-11  Score=72.54  Aligned_cols=49  Identities=22%  Similarity=0.283  Sum_probs=43.5

Q ss_pred             CCCCCCCccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecCCCCCC
Q psy6355           1 MKGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSPSSS   52 (83)
Q Consensus         1 ~Dk~TG~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~~~~~~   52 (83)
                      .|+.+|.++|||||.|.+.++|++||+ |||..+.|  ++|.|.++.+...+
T Consensus        44 ~~~~~~~~~g~afV~f~~~~~a~~A~~-~~~~~~~g--~~l~V~~a~~~~~~   92 (99)
T 2dgs_A           44 YDAEKQRPRGFGFITFEDEQSVDQAVN-MHFHDIMG--KKVEVKRAEPRDSK   92 (99)
T ss_dssp             CCTTTCSCCSEEEEEESSHHHHHHHHH-HCCCBSSS--CBCEEEECCCCCCC
T ss_pred             eCCCCCCCCceEEEEECCHHHHHHHHH-hCCCEECC--eEEEEEECCCCccc
Confidence            367889999999999999999999998 99999977  67999999876554

>2dgp_A Bruno-like 4, RNA binding protein; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} PDB: 2dgq_A

Probab=99.20  E-value=5.1e-11  Score=72.96  Aligned_cols=51  Identities=31%  Similarity=0.392  Sum_probs=44.3

Q ss_pred             CCCCCCccceEEEEeCCHHHHHHHHHHhCCCCC-CCCCcceEEEecCCCCCC
Q psy6355           2 KGFTDFCRYLGFIRFDQRIEAERAIQELNGTIP-KGSNEPITVKFANSPSSS   52 (83)
Q Consensus         2 Dk~TG~SrG~gFV~F~~~e~A~~AI~~LnG~~~-~G~~~~l~V~fA~~~~~~   52 (83)
                      |+.+|.+||||||.|.+.++|++||+.|||..+ .+..++|.|+++.+...+
T Consensus        48 ~~~~g~~~g~afV~f~~~~~A~~A~~~l~g~~~~~~~g~~l~v~~a~~~~~~   99 (106)
T 2dgp_A           48 DRFTGMHKGCAFLTYCERESALKAQSALHEQKTLPGMNRPIQVKPADSESRG   99 (106)
T ss_dssp             CSSSCSCCSEEEEEESSHHHHHHHHHHHTTTCCCTTCSSCCEEEECCCCSCC
T ss_pred             cCCCCCcceEEEEEECCHHHHHHHHHHhcCCcccCCCCceEEEEECCccccc
Confidence            677899999999999999999999999999874 444578999999876554

>2fc8_A NCL protein; structure genomics, RRM_1 domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.20  E-value=2.1e-11  Score=74.21  Aligned_cols=49  Identities=18%  Similarity=0.326  Sum_probs=44.0

Q ss_pred             CCCCCCccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecCCCCCC
Q psy6355           2 KGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSPSSS   52 (83)
Q Consensus         2 Dk~TG~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~~~~~~   52 (83)
                      |+.+|.++|||||.|.+.++|++||+.|||..+.|  +.|.|.++.+..+.
T Consensus        47 ~~~~~~~~g~afV~f~~~~~A~~A~~~l~g~~~~g--~~l~V~~a~~~~~~   95 (102)
T 2fc8_A           47 DRETGSSKGFGFVDFNSEEDAKAAKEAMEDGEIDG--NKVTLDWAKPKGEG   95 (102)
T ss_dssp             CSSSCSEEEEEEEECSSHHHHHHHHHHHTTCEETT--EECEEEECCCCCSS
T ss_pred             cCCCCCcCcEEEEEECCHHHHHHHHHHhCCCeECC--eEEEEEEecCCCCC
Confidence            67789999999999999999999999999999977  67999999876544

>1x5u_A Splicing factor 3B subunit 4 (spliceosome associated protein 49) (SAP 49) (SF3B50)...; structure genomics,RRM domain,splicing factor 3B; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.20  E-value=3.7e-11  Score=73.49  Aligned_cols=49  Identities=24%  Similarity=0.306  Sum_probs=43.9

Q ss_pred             CCCCCCccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecCCCCCC
Q psy6355           2 KGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSPSSS   52 (83)
Q Consensus         2 Dk~TG~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~~~~~~   52 (83)
                      |+.+|.++|||||.|.+.++|++||+.|||..+.|  ++|.|.++.+...+
T Consensus        50 ~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g--~~l~v~~a~~~~~~   98 (105)
T 1x5u_A           50 DRVTGQHQGYGFVEFLSEEDADYAIKIMDMIKLYG--KPIRVNKASAHNKN   98 (105)
T ss_dssp             CSSSCSBCSCEEEEESSHHHHHHHHHHSSSCBCSS--CBCEEEETTTTSCC
T ss_pred             cCCCCcCCcEEEEEECCHHHHHHHHHHhCCCeECC--eEEEEEECCCCCcC
Confidence            66789999999999999999999999999999977  67999999876544

>3md1_A Nuclear and cytoplasmic polyadenylated RNA-bindin PUB1; RRM, RBD, RNP, poly(U) binding, nucleus, RNA-binding, binding protein; 1.60A {Saccharomyces cerevisiae} SCOP: d.58.7.0

Probab=99.20  E-value=2.6e-11  Score=71.12  Aligned_cols=46  Identities=24%  Similarity=0.428  Sum_probs=42.1

Q ss_pred             CCCCCCccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecCCC
Q psy6355           2 KGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSP   49 (83)
Q Consensus         2 Dk~TG~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~~~   49 (83)
                      |+.+|.++|||||.|.+.++|++|++.|||..+.|  ++|.|+++.+.
T Consensus        36 ~~~~~~~~g~afV~f~~~~~a~~a~~~l~g~~~~g--~~l~v~~a~~~   81 (83)
T 3md1_A           36 DMQTGSSRGYGFVSFTSQDDAQNAMDSMQGQDLNG--RPLRINWAAKL   81 (83)
T ss_dssp             CTTTCCEEEEEEEEESCHHHHHHHHHHHTTCEETT--EECEEEECCCC
T ss_pred             cCCCCCccceEEEEECCHHHHHHHHHHhcCCeeCC--cEEEEEecCcC
Confidence            67789999999999999999999999999999976  78999999754

>1whw_A Hypothetical protein riken cDNA 1200009A02; RNA recognition motif, RRM, RNA binding domain, RBD, RNP, structural genomics; NMR {Mus musculus} SCOP: d.58.7.1

Probab=99.20  E-value=3.6e-11  Score=72.84  Aligned_cols=49  Identities=18%  Similarity=0.231  Sum_probs=44.1

Q ss_pred             CCCCCCccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecCCCCCC
Q psy6355           2 KGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSPSSS   52 (83)
Q Consensus         2 Dk~TG~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~~~~~~   52 (83)
                      |+.+|.++|||||.|.+.++|++||+.|||..+.|  ++|.|.++.+...+
T Consensus        43 ~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g--~~l~V~~a~~~~~~   91 (99)
T 1whw_A           43 DSLTKKPKGFAFVTFMFPEHAVKAYAEVDGQVFQG--RMLHVLPSTIKKEA   91 (99)
T ss_dssp             CTTTCCCCSEEEEEESSHHHHHHHHHHTTTEESSS--CEEEEEECCCCSTT
T ss_pred             cCCCCCcCeEEEEEECCHHHHHHHHHHhCCCEECC--cEEEEEEcCCCccc
Confidence            66789999999999999999999999999999976  67999999876554

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

Probab=99.20  E-value=2.6e-11  Score=74.05  Aligned_cols=49  Identities=24%  Similarity=0.360  Sum_probs=44.0

Q ss_pred             CCCCCCccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecCCCCCC
Q psy6355           2 KGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSPSSS   52 (83)
Q Consensus         2 Dk~TG~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~~~~~~   52 (83)
                      |+.||.++|||||.|.+.++|++||+.|||..+.|  ++|.|.++......
T Consensus        48 ~~~~~~~~g~afV~f~~~~~A~~A~~~l~g~~~~g--~~l~V~~a~~~~~~   96 (103)
T 2dnm_A           48 EPHTKAPRGFAFVRFHDRRDAQDAEAAMDGAELDG--RELRVQVARYGRRD   96 (103)
T ss_dssp             CSSSCSBCSCEEEEESSSSHHHHHHHHHSSCCBTT--BCCEEEECSSCCSC
T ss_pred             CCCCCCCCeEEEEEECCHHHHHHHHHHcCCCEECC--cEEEEEECCcCCCC
Confidence            67789999999999999999999999999999977  67999999866444

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

Probab=99.19  E-value=2.9e-11  Score=73.55  Aligned_cols=44  Identities=30%  Similarity=0.327  Sum_probs=40.4

Q ss_pred             CCCCCCccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecC
Q psy6355           2 KGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFAN   47 (83)
Q Consensus         2 Dk~TG~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~   47 (83)
                      |+.+|.++|||||.|.+.++|++||+.|||..+.|  +.|.|++|.
T Consensus        56 ~~~~g~~~G~afV~f~~~~~a~~Ai~~l~g~~~~g--~~l~V~~A~   99 (99)
T 2la6_A           56 DRETGKLKGEATVSFDDPPSAKAAIDWFDGKEFSG--NPIKVSFAT   99 (99)
T ss_dssp             CTTTCSEEEEEEEEBSSHHHHHHHHHHHTTCBSSS--SBCEEEECC
T ss_pred             cCCCCCeeeEEEEEECCHHHHHHHHHHhCCCEeCC--cEEEEEecC
Confidence            67899999999999999999999999999999977  679999873

>2fy1_A RNA-binding motif protein, Y chromosome, family 1 member A1; RNA binding protein, structure, protein-RNA complex, RNA stem-loop, structural protein/RNA complex; NMR {Homo sapiens}

Probab=99.19  E-value=5.2e-11  Score=75.09  Aligned_cols=48  Identities=31%  Similarity=0.479  Sum_probs=42.9

Q ss_pred             CCCCCCccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecCCCCCC
Q psy6355           2 KGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSPSSS   52 (83)
Q Consensus         2 Dk~TG~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~~~~~~   52 (83)
                      |+ +|.++|||||.|.+.++|++||+.|||..+.|  ++|.|.++..+...
T Consensus        42 ~~-~g~~~g~afV~F~~~~~A~~Ai~~l~g~~~~g--~~l~V~~a~~~~~~   89 (116)
T 2fy1_A           42 DR-TSKSRGFAFITFENPADAKNAAKDMNGKSLHG--KAIKVEQAKKPSFQ   89 (116)
T ss_dssp             ST-TTTCCCEEEEECSSHHHHHHHHHHCSSCBCSS--SBCEEEECCCSSCS
T ss_pred             CC-CCCcccEEEEEECCHHHHHHHHHHhCCCEECC--EEEEEEECCCCCCC
Confidence            55 89999999999999999999999999999977  67999999876544

>2x1f_A MRNA 3'-END-processing protein RNA15; transcription-RNA complex, mRNA processing; 1.60A {Saccharomyces cerevisiae} PDB: 2x1b_A 2x1a_A 2km8_B

Probab=99.19  E-value=2.9e-11  Score=73.19  Aligned_cols=48  Identities=17%  Similarity=0.218  Sum_probs=43.5

Q ss_pred             CCCCCCccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecCCCCC
Q psy6355           2 KGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSPSS   51 (83)
Q Consensus         2 Dk~TG~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~~~~~   51 (83)
                      |+.+|.++|||||.|.+.++|++|++.|||..+.|  +.|.|+++.+...
T Consensus        37 ~~~~g~~~g~afV~f~~~~~A~~Ai~~l~g~~~~g--~~l~V~~a~~~~~   84 (96)
T 2x1f_A           37 DPQTGRSKGYAFIEFRDLESSASAVRNLNGYQLGS--RFLKCGYSSNSDI   84 (96)
T ss_dssp             CTTTCCBCSEEEEEESSHHHHHHHHHHHTTCEETT--EECEEEECSCSSG
T ss_pred             CCCCCccceEEEEEECCHHHHHHHHHHhCCCeECC--eEEEEEEcCCCCC
Confidence            67789999999999999999999999999999977  7899999987644

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

Probab=99.18  E-value=5.5e-11  Score=72.34  Aligned_cols=49  Identities=29%  Similarity=0.397  Sum_probs=43.7

Q ss_pred             CCCCCCccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecCCCCCC
Q psy6355           2 KGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSPSSS   52 (83)
Q Consensus         2 Dk~TG~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~~~~~~   52 (83)
                      |+.+|.++|||||.|.+.++|++||+.|||..+.|  ++|.|.++.+....
T Consensus        47 ~~~~~~~~g~afV~f~~~~~A~~A~~~l~g~~~~g--~~l~v~~a~~~~~~   95 (102)
T 1x5s_A           47 DRETQRSRGFGFVTFENIDDAKDAMMAMNGKSVDG--RQIRVDQAGKSSDN   95 (102)
T ss_dssp             CSSSCSCCSEEEEECSSHHHHHHHHHHHTTCCTTS--CCCEEEEEECCCCC
T ss_pred             CCCCCCcccEEEEEECCHHHHHHHHHHhCCCEECC--eEEEEEECCCCCCC
Confidence            67789999999999999999999999999999977  67999999876543

>2cpe_A RNA-binding protein EWS; RNA recognition motif, RRM, RNP, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.18  E-value=3.4e-11  Score=74.61  Aligned_cols=49  Identities=14%  Similarity=0.135  Sum_probs=44.0

Q ss_pred             CCCCCCccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecCCCCCC
Q psy6355           2 KGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSPSSS   52 (83)
Q Consensus         2 Dk~TG~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~~~~~~   52 (83)
                      |+.+|.++|||||.|.+.++|++||+.|||..+.|  ++|.|.++.+....
T Consensus        58 ~~~~g~~~g~afV~f~~~~~A~~Ai~~l~g~~~~g--~~l~V~~a~~~~~~  106 (113)
T 2cpe_A           58 DKETGKPKGDATVSYEDPPTAKAAVEWFDGKDFQG--SKLKVSLARKKPPM  106 (113)
T ss_dssp             CTTTCSBCSEEEEEBSSHHHHHHHHHHHTTCEETT--EECEEECSSCCCCS
T ss_pred             eCCCCCeeeEEEEEECCHHHHHHHHHHcCCCccCC--CEEEEEECCCCCCC
Confidence            67899999999999999999999999999999976  77999999876544

>2dnh_A Bruno-like 5, RNA binding protein; RRM domain, RBD, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} PDB: 2dnk_A 2dno_A

Probab=99.17  E-value=7.5e-11  Score=72.08  Aligned_cols=51  Identities=25%  Similarity=0.415  Sum_probs=44.0

Q ss_pred             CCCCCCccceEEEEeCCHHHHHHHHHHhCCCCCCC-CCcceEEEecCCCCCCc
Q psy6355           2 KGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKG-SNEPITVKFANSPSSSN   53 (83)
Q Consensus         2 Dk~TG~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G-~~~~l~V~fA~~~~~~~   53 (83)
                      |+ +|.++|||||.|.+.++|++||+.|||..+.| ..++|.|.++....++.
T Consensus        50 ~~-~g~~~g~afV~f~~~~~A~~Ai~~l~g~~~~gg~~~~l~V~~a~~~~~~~  101 (105)
T 2dnh_A           50 GP-DGSSKGCAFVKFSSHTEAQAAIHALHGSQTMPGASSSLVVKFADTDKESG  101 (105)
T ss_dssp             CS-SSCEEEEEEEEESSHHHHHHHHHHHSSCCCCTTCSSCCEEEESCSSCCCS
T ss_pred             CC-CCCcCcEEEEEeCCHHHHHHHHHHHcCCccCCCCCccEEEEECccCcccC
Confidence            45 79999999999999999999999999998743 44789999998876653

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

Probab=99.17  E-value=3.7e-11  Score=73.57  Aligned_cols=46  Identities=24%  Similarity=0.390  Sum_probs=42.0

Q ss_pred             CCCCCCccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecCCC
Q psy6355           2 KGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSP   49 (83)
Q Consensus         2 Dk~TG~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~~~   49 (83)
                      |+.||.++|||||.|.+.++|++|++.|||..+.|  ++|.|+++.+.
T Consensus        58 ~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g--~~l~V~~a~~~  103 (106)
T 1p27_B           58 DRRTGYLKGYTLVEYETYKEAQAAMEGLNGQDLMG--QPISVDWCFVR  103 (106)
T ss_dssp             CTTTSSEEEEEEEEESCHHHHHHHHHHHTTCBSSS--SBCEEEESEES
T ss_pred             cCCCCceeeEEEEEECCHHHHHHHHHHhcCCEECC--cEEEEEeecCC
Confidence            67889999999999999999999999999999977  67999998754

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

Probab=99.17  E-value=2.8e-11  Score=73.69  Aligned_cols=50  Identities=24%  Similarity=0.286  Sum_probs=44.6

Q ss_pred             CCCCCCCccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecCCCCCC
Q psy6355           1 MKGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSPSSS   52 (83)
Q Consensus         1 ~Dk~TG~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~~~~~~   52 (83)
                      .|+.+|.++|||||.|.+.++|++||+.|||..+.|  ++|.|.++.+...+
T Consensus        46 ~~~~~~~~~g~afV~f~~~~~A~~A~~~l~g~~~~g--~~l~V~~a~~~~~~   95 (102)
T 2cqb_A           46 LDYETEKHRGFAFVEFELAEDAAAAIDNMNESELFG--RTIRVNLAKPMRIK   95 (102)
T ss_dssp             CCSSSCCCSSEEEECCSSHHHHHHHHHHHTTEEETT--EEEEEEECCCCCCC
T ss_pred             ecCCCCCcceEEEEEECCHHHHHHHHHHhCCCEECC--cEEEEEeCCCCCCC
Confidence            367889999999999999999999999999999976  78999999876554

>3bs9_A Nucleolysin TIA-1 isoform P40; RNA recognition motif, RRM, RNA binding domain, RBD, RNA splicing, apoptosis, phosphoprotein, RNA-binding; 1.95A {Homo sapiens}

Probab=99.17  E-value=2.8e-11  Score=71.52  Aligned_cols=45  Identities=29%  Similarity=0.412  Sum_probs=40.7

Q ss_pred             CCCCCCccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecCC
Q psy6355           2 KGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANS   48 (83)
Q Consensus         2 Dk~TG~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~~   48 (83)
                      |+.+|.++|||||.|.+.++|++|++.|||..+.|  ++|.|.++.+
T Consensus        41 ~~~~~~~~g~afV~f~~~~~A~~A~~~l~g~~~~g--~~l~v~~a~~   85 (87)
T 3bs9_A           41 DMATGKSKGYGFVSFFNKWDAENAIQQMGGQWLGG--RQIRTNWATR   85 (87)
T ss_dssp             CTTTCCEEEEEEEEESSHHHHHHHHHHHTTCEETT--EECEEEEEC-
T ss_pred             cCCCCccceEEEEEECCHHHHHHHHHHcCCCEECC--eEEEEEecCC
Confidence            56789999999999999999999999999999977  7799999865

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

Probab=99.17  E-value=2.9e-11  Score=74.29  Aligned_cols=46  Identities=11%  Similarity=0.091  Sum_probs=41.2

Q ss_pred             CCCCCCccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecCC
Q psy6355           2 KGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANS   48 (83)
Q Consensus         2 Dk~TG~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~~   48 (83)
                      |+.||.+||||||.|.+.++|++||+.|||..+.| .++|.|.+|.+
T Consensus        47 d~~tg~~kG~afV~f~~~~~A~~Ai~~lng~~~~g-~r~l~V~~a~~   92 (100)
T 3ns6_A           47 DEATGKTKGFLFVECGSMNDAKKIIKSFHGKRLDL-KHRLFLYTMKD   92 (100)
T ss_dssp             ETTTTEECSEEEEEESSHHHHHHHHHHHTTCBSSS-SCBCEEEESHH
T ss_pred             cCCCCccceEEEEEECCHHHHHHHHHHhCCcccCC-CeEEEEEECch
Confidence            77899999999999999999999999999999965 25799998854

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

Probab=99.16  E-value=4.8e-11  Score=72.85  Aligned_cols=49  Identities=27%  Similarity=0.333  Sum_probs=44.1

Q ss_pred             CCCCCCccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecCCCCCC
Q psy6355           2 KGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSPSSS   52 (83)
Q Consensus         2 Dk~TG~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~~~~~~   52 (83)
                      |+.+|.++|||||.|.+.++|++||+.|||..+.|  ++|.|.++.+...+
T Consensus        50 ~~~~~~~~g~afV~f~~~~~A~~A~~~l~g~~~~g--~~l~v~~a~~~~~~   98 (103)
T 2cq0_A           50 DKTTGQSKGFAFISFHRREDAARAIAGVSGFGYDH--LILNVEWAKPSTNS   98 (103)
T ss_dssp             CSSSCSEEEEEEEEESSHHHHHHHHHHTTTCEETT--EECEEEESSCCCCS
T ss_pred             cCCCCceeeEEEEEECCHHHHHHHHHHcCCCeeCC--cEEEEEECCCCCCC
Confidence            66789999999999999999999999999999977  68999999876554

>2cqp_A RNA-binding protein 12; RNA recognition motif, RRM, RNA binding domain, RBD, RNP, structural genomics, NPPSFA; NMR {Mus musculus} SCOP: d.58.7.1

Probab=99.16  E-value=3.5e-11  Score=72.77  Aligned_cols=47  Identities=19%  Similarity=0.226  Sum_probs=42.4

Q ss_pred             CCCCCCccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecCCCC
Q psy6355           2 KGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSPS   50 (83)
Q Consensus         2 Dk~TG~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~~~~   50 (83)
                      |+.+|.++|||||.|.+.++|++||+.|||..+.|  ++|.|+++..+.
T Consensus        50 ~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~~~g--~~l~V~~a~~~~   96 (98)
T 2cqp_A           50 YNEKGMPTGEAMVAFESRDEATAAVIDLNDRPIGS--RKVKLVLGSGPS   96 (98)
T ss_dssp             ECSSSCEEEEEEEEESCHHHHHHHHHHTTTCEETT--EECEEEESSCSS
T ss_pred             ECCCCCeeeEEEEEECCHHHHHHHHHHhCCCeeCC--eEEEEEEcCCCC
Confidence            56789999999999999999999999999999977  779999987653

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

Probab=99.15  E-value=5.3e-11  Score=72.34  Aligned_cols=47  Identities=21%  Similarity=0.350  Sum_probs=42.2

Q ss_pred             CCCCCCccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecCCCCC
Q psy6355           2 KGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSPSS   51 (83)
Q Consensus         2 Dk~TG~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~~~~~   51 (83)
                      |+ +|.++|||||.|.+.++|++|++.|||..+.|  ++|.|.++.+...
T Consensus        52 ~~-~g~~~g~afV~f~~~~~a~~A~~~l~g~~~~g--~~l~v~~a~~~~~   98 (100)
T 2do4_A           52 NR-AGKPKGLAYVEYENESQASQAVMKMDGMTIKE--NIIKVAISNSGPS   98 (100)
T ss_dssp             CT-TSCEEEEEEEEESSHHHHHHHHHHHTTEESSS--CEEEEEECCCCSC
T ss_pred             CC-CCCEEeEEEEEECCHHHHHHHHHHhCCCEECC--EEEEEEECCCCCC
Confidence            55 89999999999999999999999999999977  6799999987644

>2kn4_A Immunoglobulin G-binding protein G, splicing FACT arginine/serine-rich 2, S35, splicing factor SC35,; RRM domain, cell WALL; NMR {Streptococcus SP}

Probab=99.15  E-value=5.3e-11  Score=77.42  Aligned_cols=50  Identities=24%  Similarity=0.480  Sum_probs=44.3

Q ss_pred             CCCCCCCccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecCCCCCC
Q psy6355           1 MKGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSPSSS   52 (83)
Q Consensus         1 ~Dk~TG~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~~~~~~   52 (83)
                      .|+.+|.++|||||.|.+.++|++||+.|||..+.|  ++|.|.++.+...+
T Consensus       104 ~~~~~g~~~g~afV~f~~~~~a~~A~~~l~g~~~~g--~~l~v~~a~~~~~~  153 (158)
T 2kn4_A          104 RDRYTKESRGFAFVRFHDKRDAEDAMDAMDGAVLDG--RELRVQMARYGRPP  153 (158)
T ss_dssp             CCSSCTTSCCEEEEEESBHHHHHHHHHHSTTEESSS--SEEEEEEECCSSCC
T ss_pred             ecCCCCccceEEEEEECCHHHHHHHHHHhCCCEECC--eEEEEEECCCCCCC
Confidence            367799999999999999999999999999999976  78999999865443

>1fj7_A Nucleolin RBD1, protein C23; RNP, RRM, RNA binding domain, nucleolus, structural protein; NMR {Mesocricetus auratus} SCOP: d.58.7.1

Probab=99.15  E-value=2.8e-11  Score=73.67  Aligned_cols=47  Identities=21%  Similarity=0.341  Sum_probs=41.4

Q ss_pred             CCCCCCccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecCCCCC
Q psy6355           2 KGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSPSS   51 (83)
Q Consensus         2 Dk~TG~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~~~~~   51 (83)
                      |+.+|.+||||||.|.+.++|++||+ |||..+.|  ++|.|.++.+...
T Consensus        51 ~~~~g~~~g~afV~f~~~~~a~~A~~-l~g~~~~g--~~l~V~~a~~~~~   97 (101)
T 1fj7_A           51 DVRTGTNRKFGYVDFESAEDLEKALE-LTGLKVFG--NEIKLEKPKGRDG   97 (101)
T ss_dssp             EEEEETTTTEEEEEESSHHHHHHHHH-GGGCCBTT--BCCEEECCSCCCC
T ss_pred             cCCCCCcCcEEEEEECCHHHHHHHHh-cCCcEECC--cEEEEEEcCCCCC
Confidence            56679999999999999999999998 99999977  6799999976543

>1oo0_B CG8781-PA, drosophila Y14; RNA recognition motif, splicing, protein complex, EXON junct complex, signaling protein; 1.85A {Drosophila melanogaster} SCOP: d.58.7.1 PDB: 2hyi_B* 2j0s_D* 2xb2_D*

Probab=99.15  E-value=3.9e-11  Score=74.06  Aligned_cols=48  Identities=21%  Similarity=0.311  Sum_probs=43.0

Q ss_pred             CCCCCCccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecCCCCC
Q psy6355           2 KGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSPSS   51 (83)
Q Consensus         2 Dk~TG~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~~~~~   51 (83)
                      |+.+|.++|||||.|.+.++|++||+.|||..+.|  ++|.|.++.+...
T Consensus        61 ~~~~~~~~g~afV~f~~~~~A~~Ai~~l~g~~~~g--~~l~V~~a~~~~~  108 (110)
T 1oo0_B           61 DRRTGFSKGYALVEYETHKQALAAKEALNGAEIMG--QTIQVDWCFVKGP  108 (110)
T ss_dssp             CTTTSSBCSEEEEEESSHHHHHHHHHHHTTCEETT--EECEEEESEESSC
T ss_pred             cCCCCCcceEEEEEECCHHHHHHHHHHcCCCEECC--cEEEEEEcccCCC
Confidence            67789999999999999999999999999999977  6899999876543

>2kxn_B Transformer-2 protein homolog beta; SR protein, RRM, splicing factor, RNA protein complex, SMN, binding protein-RNA complex; NMR {Homo sapiens} PDB: 2rra_A 2rrb_A

Probab=99.15  E-value=8.2e-11  Score=75.74  Aligned_cols=48  Identities=23%  Similarity=0.306  Sum_probs=43.2

Q ss_pred             CCCCCCCccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecCCCC
Q psy6355           1 MKGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSPS   50 (83)
Q Consensus         1 ~Dk~TG~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~~~~   50 (83)
                      .|+.+|.++|||||.|.+.++|++||+.|||..+.|  ++|.|+++.+.+
T Consensus        80 ~d~~tg~~~G~afV~F~~~~~A~~Ai~~lng~~i~g--~~l~V~~a~~~~  127 (129)
T 2kxn_B           80 YDQQSRRSRGFAFVYFENVDDAKEAKERANGMELDG--RRIRVDFSITKR  127 (129)
T ss_dssp             CCSSSSCCCCEEEEEESCHHHHHHHHHHHTTCCSSS--SCCEESCCSSSS
T ss_pred             ecCCCCccceEEEEEECCHHHHHHHHHHhCCCEECC--EEEEEEEecCCC
Confidence            377899999999999999999999999999999977  679999987653

>1x4h_A RNA-binding protein 28; structural genomics, RRM domain, NPPSFA, national project on protein structural and functional analyses; NMR {Mus musculus} SCOP: d.58.7.1

Probab=99.14  E-value=8e-11  Score=72.44  Aligned_cols=50  Identities=16%  Similarity=0.268  Sum_probs=44.3

Q ss_pred             CCCCCCCccceEEEEeCCHHHHHHHHHHhC------CCCCCCCCcceEEEecCCCCCC
Q psy6355           1 MKGFTDFCRYLGFIRFDQRIEAERAIQELN------GTIPKGSNEPITVKFANSPSSS   52 (83)
Q Consensus         1 ~Dk~TG~SrG~gFV~F~~~e~A~~AI~~Ln------G~~~~G~~~~l~V~fA~~~~~~   52 (83)
                      .|+.+|.++|||||.|.+.++|++||+.||      |..+.|  ++|.|.++.+....
T Consensus        49 ~~~~~g~~~g~afV~f~~~~~A~~A~~~~~~~~~~~~~~~~g--~~l~v~~a~~~~~~  104 (111)
T 1x4h_A           49 LHPDTEHSKGCAFAQFMTQEAAQKCLAAASLEAEGGGLKLDG--RQLKVDLAVTRDEA  104 (111)
T ss_dssp             BCSSSCCBCSEEEEEESSHHHHHHHHHHHCTTTTTCCEESSS--CEEEEECCCCCCCC
T ss_pred             ecCCCCCCccEEEEEECCHHHHHHHHHHhccccccCCcEEcC--EEEEEEECCCCccC
Confidence            367889999999999999999999999999      888977  67999999876554

>2cpz_A CUG triplet repeat RNA-binding protein 1; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: d.58.7.1 PDB: 2rq4_A 2rqc_A

Probab=99.14  E-value=5.1e-11  Score=74.17  Aligned_cols=49  Identities=27%  Similarity=0.457  Sum_probs=44.0

Q ss_pred             CCCCCCccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecCCCCCC
Q psy6355           2 KGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSPSSS   52 (83)
Q Consensus         2 Dk~TG~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~~~~~~   52 (83)
                      |+.+|.++|||||.|.+.++|++||+.|||..+.|  ++|.|.++.+...+
T Consensus        60 ~~~~g~~~g~afV~f~~~~~a~~A~~~l~g~~~~g--~~l~V~~a~~~~~~  108 (115)
T 2cpz_A           60 DKQTNLSKCFGFVSYDNPVSAQAAIQSMNGFQIGM--KRLKVQLKRSKNDS  108 (115)
T ss_dssp             CSSSCSEEEEEEEECSSHHHHHHHHHHHTTCEETT--EECEEECCCCSCCC
T ss_pred             CCCCCCcCccEEEEECCHHHHHHHHHHcCCCEECC--EEEEEEEcCCCCcC
Confidence            66789999999999999999999999999999977  78999999876554

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

Probab=99.14  E-value=6.9e-11  Score=73.42  Aligned_cols=49  Identities=27%  Similarity=0.388  Sum_probs=43.9

Q ss_pred             CCCCCCccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecCCCCCC
Q psy6355           2 KGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSPSSS   52 (83)
Q Consensus         2 Dk~TG~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~~~~~~   52 (83)
                      |+.+|.++|||||.|.+.++|++||+.|||..+.|  +.|.|.++......
T Consensus        50 ~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g--~~l~V~~a~~~~~~   98 (115)
T 2dgo_A           50 DMATGKSKGYGFVSFFNKWDAENAIQQMGGQWLGG--RQIRTNWATRKPPA   98 (115)
T ss_dssp             CTTTCCEEEEEEEEESSHHHHHHHHHHTTTCEETT--EECEEEESSCCCCC
T ss_pred             cCCCCCcceEEEEEECCHHHHHHHHHHhCCCEECC--EEEEEEEccCCCCC
Confidence            56789999999999999999999999999999977  78999999876554

>1p1t_A Cleavage stimulation factor, 64 kDa subunit; RNA recognition motif, C-terminal helix, N-terminal helix, RNA binding protein; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.13  E-value=5.9e-11  Score=72.28  Aligned_cols=49  Identities=24%  Similarity=0.268  Sum_probs=43.7

Q ss_pred             CCCCCCccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecCCCCCC
Q psy6355           2 KGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSPSSS   52 (83)
Q Consensus         2 Dk~TG~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~~~~~~   52 (83)
                      |+.+|.++|||||.|.+.++|++|++.|||..+.|  ++|.|.++.+...+
T Consensus        43 ~~~~g~~~g~afV~f~~~~~a~~A~~~l~g~~~~g--~~l~v~~a~~~~~~   91 (104)
T 1p1t_A           43 DRETGKPKGYGFCEYQDQETALSAMRNLNGREFSG--RALRVDNAASEKNK   91 (104)
T ss_dssp             ETTTTEEEEEEEEECSCHHHHHHHHHHSSSBSCSS--SCBEEEETTCTTHH
T ss_pred             CCCCCccceEEEEEECCHHHHHHHHHHhCCCeeCC--cEEEEEeCCCccch
Confidence            56789999999999999999999999999999977  67999999876544

>1x5o_A RNA binding motif, single-stranded interacting protein 1; structure genomics, RRM domain, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.13  E-value=1.3e-10  Score=72.06  Aligned_cols=47  Identities=28%  Similarity=0.492  Sum_probs=41.4

Q ss_pred             CCCCCCccceEEEEeCCHHHHHHHHHHhCCCCCCC------CCcceEEEecCCC
Q psy6355           2 KGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKG------SNEPITVKFANSP   49 (83)
Q Consensus         2 Dk~TG~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G------~~~~l~V~fA~~~   49 (83)
                      |+ +|.++|||||.|.+.++|++||+.|||..+.+      ..++|.|+||+++
T Consensus        60 ~~-~g~~~g~afV~f~~~~~a~~A~~~l~g~~~~~~~~~~~~~~~l~v~~a~p~  112 (114)
T 1x5o_A           60 DS-SGTSRGVGFARMESTEKCEAVIGHFNGKFIKTPPGVSAPTEPLLCKFSGPS  112 (114)
T ss_dssp             CS-SSCEEEEEEEEESCHHHHHHHHHHHBTCCCCCCTTSCCCSSCBEEEECCCS
T ss_pred             CC-CCCcceEEEEEECCHHHHHHHHHHhCCCEEcCCccccCCCCceeEEccCCC
Confidence            55 89999999999999999999999999998843      3478999999865

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

Probab=99.13  E-value=1.6e-10  Score=70.61  Aligned_cols=48  Identities=25%  Similarity=0.360  Sum_probs=42.8

Q ss_pred             CCCCCccceEEEEeCCHHHHHHHHHHh-CCCCCCCCCcceEEEecCCCCCC
Q psy6355           3 GFTDFCRYLGFIRFDQRIEAERAIQEL-NGTIPKGSNEPITVKFANSPSSS   52 (83)
Q Consensus         3 k~TG~SrG~gFV~F~~~e~A~~AI~~L-nG~~~~G~~~~l~V~fA~~~~~~   52 (83)
                      +.+|.++|||||.|.+.++|++||+.| ||..+.|  ++|.|.++.+....
T Consensus        52 ~~~~~~~g~afV~f~~~~~a~~A~~~l~~~~~~~g--~~l~v~~a~~~~~~  100 (107)
T 2cph_A           52 TGTGAHRGFGFVDFITKQDAKKAFNALCHSTHLYG--RRLVLEWADSEVTV  100 (107)
T ss_dssp             SSSCSSCSEEEEEESSHHHHHHHHHHHHTCCBSSS--CBCEEEECCCCCCC
T ss_pred             CCCCCcCceEEEEECCHHHHHHHHHHhccCCeECC--CEEEEEeCCCCCCC
Confidence            568999999999999999999999999 9999977  67999999876544

>2ki2_A SS-DNA binding protein 12RNP2; HP0827, RRM, SS-DNA binding proteins, RNA binding protein/SS-DNA binding protein complex; NMR {Helicobacter pylori}

Probab=99.13  E-value=5e-11  Score=71.07  Aligned_cols=48  Identities=27%  Similarity=0.277  Sum_probs=39.6

Q ss_pred             CCCCCCCccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecCCCCC
Q psy6355           1 MKGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSPSS   51 (83)
Q Consensus         1 ~Dk~TG~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~~~~~   51 (83)
                      .|+.+|.++|||||.|.+.+ |++|++.|||..+.|  ++|.|++|.+...
T Consensus        35 ~~~~~~~~~g~afV~f~~~~-a~~a~~~l~g~~~~g--~~l~V~~a~~~~~   82 (90)
T 2ki2_A           35 YDRETKKPKGFGFVEMQEES-VSEAIAKLDNTDFMG--RTIRVTEANPKKS   82 (90)
T ss_dssp             CCSSSCCCCEEEEEEECTTH-HHHHHHTSCSSCCSS--SSCSEEEC-----
T ss_pred             EcCCCCCcceEEEEEECCHH-HHHHHHHhCCCEECC--eEEEEEEcCCCCC
Confidence            36778999999999999999 999999999999977  6799999886543

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

Probab=99.13  E-value=7.1e-11  Score=72.06  Aligned_cols=48  Identities=25%  Similarity=0.503  Sum_probs=42.9

Q ss_pred             CCCCCCccceEEEEeCCHHHHHHHHHHhCCCC-CCCCCcceEEEecCCCCCC
Q psy6355           2 KGFTDFCRYLGFIRFDQRIEAERAIQELNGTI-PKGSNEPITVKFANSPSSS   52 (83)
Q Consensus         2 Dk~TG~SrG~gFV~F~~~e~A~~AI~~LnG~~-~~G~~~~l~V~fA~~~~~~   52 (83)
                      |+ +|.++|||||.|.+.++|++||+.|||.. +.|  ++|.|.++.+...+
T Consensus        45 ~~-~g~~~g~afV~f~~~~~a~~A~~~l~g~~~~~g--~~l~v~~a~~~~~~   93 (104)
T 2dhg_A           45 DQ-TGVSKGYGFVKFTDELEQKRALTECQGAVGLGS--KPVRLSVAIPKASR   93 (104)
T ss_dssp             CT-TCCEEEEEEEEESCHHHHHHHHHHTTTCCSSSS--SCCCCCBCCCCCSC
T ss_pred             CC-CCCccceEEEEECCHHHHHHHHHHccCCcccCC--EeEEEEEccCCCcC
Confidence            56 89999999999999999999999999999 977  67999999776554

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

Probab=99.12  E-value=3.4e-11  Score=77.01  Aligned_cols=48  Identities=27%  Similarity=0.369  Sum_probs=42.4

Q ss_pred             CCCCCCCccceEEEEeCCHHHHHHHHHHhCCC----CCCCCCcceEEEecCCCCC
Q psy6355           1 MKGFTDFCRYLGFIRFDQRIEAERAIQELNGT----IPKGSNEPITVKFANSPSS   51 (83)
Q Consensus         1 ~Dk~TG~SrG~gFV~F~~~e~A~~AI~~LnG~----~~~G~~~~l~V~fA~~~~~   51 (83)
                      +|+.||.+||||||.|.+. +|++||+.|||.    .+.|  ++|.|+++.+...
T Consensus        59 ~d~~tg~~rG~aFV~f~~~-~a~~Ai~~l~g~~~~~~~~g--r~l~V~~a~~~~~  110 (131)
T 2m2b_A           59 KDKQTQLNRGFAFIQLSTI-EAAQLLQILQALHPPLTIDG--KTINVEFAKGSKR  110 (131)
T ss_dssp             BCSSSSSBCSCEEEECCHH-HHHHHHHHHTTCCCSCCGGG--CCCCCEECCCSCC
T ss_pred             EcCCCCCcceEEEEEECCH-HHHHHHHHhcCCCCCccCCC--EEEEEEECCCCCC
Confidence            4788999999999999999 999999999999    8877  6799999976533

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

Probab=99.12  E-value=4e-11  Score=79.73  Aligned_cols=47  Identities=13%  Similarity=0.147  Sum_probs=42.9

Q ss_pred             CCCCCCCccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecCCC
Q psy6355           1 MKGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSP   49 (83)
Q Consensus         1 ~Dk~TG~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~~~   49 (83)
                      .|+.||.+||||||.|.+.++|++||+.|||..+.|  +.|.|++|.+.
T Consensus        91 ~d~~tg~skGfaFV~f~~~~~A~~Ai~~lng~~~~G--r~l~V~~a~~~  137 (156)
T 3n9u_C           91 ENRANGQSKGYAEVVVASENSVHKLLELLPGKVLNG--EKVDVRPATRQ  137 (156)
T ss_dssp             ECTTTCCEEEEEEEEESCHHHHHHHHHHSTTCEETT--EECEEEECCHH
T ss_pred             ecCCCCccceEEEEEECCHHHHHHHHHHcCCCEECC--eEeEEEEcCCC
Confidence            378899999999999999999999999999999977  77999999753

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

Probab=99.12  E-value=5.8e-11  Score=71.89  Aligned_cols=49  Identities=18%  Similarity=0.344  Sum_probs=42.3

Q ss_pred             CCCCCCccceEEEEeCCHHHHHHHHHHhCCCCCCCCCc--ceEEEecCCCC
Q psy6355           2 KGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNE--PITVKFANSPS   50 (83)
Q Consensus         2 Dk~TG~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~--~l~V~fA~~~~   50 (83)
                      |+.+|.++|||||.|.+.++|++|++.|||..+.|...  +|.|.+|....
T Consensus        45 ~~~~g~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~~~~~l~v~~a~~~~   95 (99)
T 2div_A           45 NRLTGIPAGYCFVEFADLATAEKCLHKINGKPLPGATPAKRFKLNYATYSG   95 (99)
T ss_dssp             CSSSCCEEEEEEEECSCHHHHHHHHHTTTTSEESSCSSCEECCEEETTCCS
T ss_pred             cCCCCCcCCEEEEEeCCHHHHHHHHHHHcCCccCCCCcceeEEEeecCCCC
Confidence            67899999999999999999999999999999877432  28999987653

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

Probab=99.11  E-value=7.7e-11  Score=70.61  Aligned_cols=44  Identities=20%  Similarity=0.170  Sum_probs=40.2

Q ss_pred             CCCCCCccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecC
Q psy6355           2 KGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFAN   47 (83)
Q Consensus         2 Dk~TG~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~   47 (83)
                      |+.+|.++|||||.|.+.++|++|++.|||..+.|  ++|.|++|.
T Consensus        51 ~~~~~~~~g~afV~f~~~~~A~~A~~~l~g~~~~g--~~l~v~~ak   94 (94)
T 2e5h_A           51 DKDTRKSKGVAFILFLDKDSAQNCTRAINNKQLFG--RVIKASIAI   94 (94)
T ss_dssp             CSSSCCCTTCEEEEESCHHHHHHHHHHTTTEEETT--EEEEEEECC
T ss_pred             CCCCCCcccEEEEEECCHHHHHHHHHHcCCCeeCC--cEEEEEecC
Confidence            67789999999999999999999999999999976  779999873

>3ex7_B RNA-binding protein 8A; protein-RNA complex, mRNA processing, mRNA splicing, mRNA transport, nonsense-mediated mRNA decay, nucleus; HET: ADP; 2.30A {Homo sapiens} PDB: 2j0q_D*

Probab=99.11  E-value=1.2e-10  Score=73.37  Aligned_cols=49  Identities=22%  Similarity=0.375  Sum_probs=43.6

Q ss_pred             CCCCCCccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecCCCCCC
Q psy6355           2 KGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSPSSS   52 (83)
Q Consensus         2 Dk~TG~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~~~~~~   52 (83)
                      |+.+|.++|||||.|.+.++|++||+.|||..+.|  +.|.|+++......
T Consensus        57 ~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g--~~l~v~~a~~~~~~  105 (126)
T 3ex7_B           57 DRRTGYLKGYTLVEYETYKEAQAAMEGLNGQDLMG--QPISVDWCFVRGPP  105 (126)
T ss_dssp             CTTTSSBCSCEEEEESSHHHHHHHHHHHTTCBSSS--SBCEEEESEESSSC
T ss_pred             cCCCCccceEEEEEECCHHHHHHHHHHhCCCeeCC--eEEEEEEecCCCCC
Confidence            67799999999999999999999999999999977  67999999765444

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

Probab=99.11  E-value=6.2e-11  Score=71.01  Aligned_cols=45  Identities=24%  Similarity=0.268  Sum_probs=41.2

Q ss_pred             CCCCCCccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecCC
Q psy6355           2 KGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANS   48 (83)
Q Consensus         2 Dk~TG~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~~   48 (83)
                      |+.+|.++|||||.|.+.++|++|++.|||..+.|  ++|.|+++..
T Consensus        50 ~~~~~~~~g~afV~f~~~~~A~~A~~~l~g~~~~g--~~l~v~~a~~   94 (95)
T 2cqc_A           50 DQQSRRSRGFAFVYFENVDDAKEAKERANGMELDG--RRIRVSGPSS   94 (95)
T ss_dssp             CSSSSSEEEEEEEEESSHHHHHHHHHHHTTEEETT--EEEEEECCSC
T ss_pred             cCCCCCcccEEEEEECCHHHHHHHHHHhCCCEECC--EEEEEEecCC
Confidence            67789999999999999999999999999999977  7899999864

>2dis_A Unnamed protein product; structural genomics, RRM domain, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.11  E-value=1.8e-10  Score=70.74  Aligned_cols=48  Identities=19%  Similarity=0.170  Sum_probs=42.0

Q ss_pred             CCCCCCccceEEEEeCCHHHHHHHHHHhC--CCCCCCCCcceEEEecCCCCC
Q psy6355           2 KGFTDFCRYLGFIRFDQRIEAERAIQELN--GTIPKGSNEPITVKFANSPSS   51 (83)
Q Consensus         2 Dk~TG~SrG~gFV~F~~~e~A~~AI~~Ln--G~~~~G~~~~l~V~fA~~~~~   51 (83)
                      |+.+|.+||||||.|.+.++|++||+.||  +..+.|  ++|.|.+|.+...
T Consensus        45 ~~~~g~~~g~afV~f~~~~~A~~A~~~l~~g~~~~~g--~~l~V~~a~~~~~   94 (109)
T 2dis_A           45 AADKMKNRGFAFVEYESHRAAAMARRKLMPGRIQLWG--HQIAVDWAEPEID   94 (109)
T ss_dssp             SCTTTTTCCEEEEEESSHHHHHHHHTTTTTCCSCBTT--BCCEEEESCSSCS
T ss_pred             CCCCCCcCcEEEEEecCHHHHHHHHHHhhCCCceecC--CeEEEEEcCCCCC
Confidence            67789999999999999999999999996  477877  6799999986544

>2dng_A Eukaryotic translation initiation factor 4H; RRM domain, RBD, structural genomics, NPPSFA; NMR {Mus musculus}

Probab=99.11  E-value=7.5e-11  Score=72.12  Aligned_cols=48  Identities=17%  Similarity=0.275  Sum_probs=42.9

Q ss_pred             CCCCCCccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecCCCCCC
Q psy6355           2 KGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSPSSS   52 (83)
Q Consensus         2 Dk~TG~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~~~~~~   52 (83)
                      |+.||.++|||||.|.+.++|++|+ .|||..+.|  ++|.|.++.+....
T Consensus        49 ~~~~g~~~g~afV~f~~~~~a~~A~-~l~g~~~~g--~~l~V~~a~~~~~~   96 (103)
T 2dng_A           49 DKDTDKFKGFCYVEFDEVDSLKEAL-TYDGALLGD--RSLRVDIAEGRKQD   96 (103)
T ss_dssp             CSSSCSEEEEEEEEESSHHHHHHHG-GGTTCEETT--EECEEEECCCCCCC
T ss_pred             cCCCCccceEEEEEECCHHHHHHHH-hhCCCeECC--eEEEEEEecCCCCC
Confidence            6778999999999999999999999 899999977  68999999876544

>2jrs_A RNA-binding protein 39; RNA binding motif of RBM39_human (caper), RRM2 domain, solution structure, structural genomics, PSI-2; NMR {Homo sapiens}

Probab=99.11  E-value=1.1e-10  Score=72.77  Aligned_cols=46  Identities=28%  Similarity=0.408  Sum_probs=41.9

Q ss_pred             CCCCCCccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecCCC
Q psy6355           2 KGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSP   49 (83)
Q Consensus         2 Dk~TG~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~~~   49 (83)
                      |+.+|.++|||||.|.+.++|++|++.|||..+.|  ++|.|+++.+.
T Consensus        61 ~~~~g~~~g~afV~F~~~~~A~~Ai~~l~g~~i~g--~~l~V~~a~~k  106 (108)
T 2jrs_A           61 DSETGRSKGYGFITFSDSECAKKALEQLNGFELAG--RPMKVGHVTER  106 (108)
T ss_dssp             ETTTTEEEEEEEEEESCHHHHHHHHHHHTTCCSSS--SCCEEECSCSS
T ss_pred             cCCCCccceEEEEEECCHHHHHHHHHHcCCCEECC--EEEEEEEcccC
Confidence            56789999999999999999999999999999977  67999998754

>3mdf_A Peptidyl-prolyl CIS-trans isomerase E; RRM domain, PHD finger, CYP33, MLL, RNA binding protein, ISO mRNA processing, mRNA splicing, nucleus; 1.85A {Homo sapiens} SCOP: d.58.7.1 PDB: 2kyx_A 3lpy_A*

Probab=99.11  E-value=6.4e-11  Score=69.66  Aligned_cols=44  Identities=27%  Similarity=0.332  Sum_probs=40.1

Q ss_pred             CCCCCCccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecC
Q psy6355           2 KGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFAN   47 (83)
Q Consensus         2 Dk~TG~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~   47 (83)
                      |+.+|.++|||||.|.+.++|++|++.|||..+.|  ++|.|++|.
T Consensus        42 ~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g--~~l~v~~ak   85 (85)
T 3mdf_A           42 DYETEKHRGFAFVEFELAEDAAAAIDNMNESELFG--RTIRVNLAK   85 (85)
T ss_dssp             ETTTTEECSEEEEEESSHHHHHHHHHHHTTCEETT--EECEEEECC
T ss_pred             CCCCCccccEEEEEECCHHHHHHHHHHhCCCEECC--cEEEEEEcC
Confidence            56789999999999999999999999999999977  679999873

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

Probab=99.11  E-value=9.4e-11  Score=67.73  Aligned_cols=42  Identities=19%  Similarity=0.208  Sum_probs=37.8

Q ss_pred             CCCCCCccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEec
Q psy6355           2 KGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFA   46 (83)
Q Consensus         2 Dk~TG~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA   46 (83)
                      |+.+|.++|||||.|.+.++|++|++ |||..+.|  ++|.|++|
T Consensus        34 ~~~~~~~~g~afV~f~~~~~a~~a~~-~~~~~~~g--~~l~v~~A   75 (75)
T 2mss_A           34 DKTTNRHRGFGFVTFESEDIVEKVCE-IHFHEINN--KMVECKKA   75 (75)
T ss_dssp             CSSSTTSCBEEEEECSCHHHHHHHHS-SSCCCSSS--CCCEEECC
T ss_pred             cCCCCCcCcEEEEEECCHHHHHHHHH-CCCCEECC--EEEEEEeC
Confidence            66789999999999999999999998 99999977  67888875

>1u6f_A Tcubp1, RNA-binding protein UBP1; trypanosome, mRNA-binding protein, GU-rich RNA, structure; NMR {Trypanosoma cruzi} SCOP: d.58.7.1

Probab=99.10  E-value=8.1e-11  Score=75.26  Aligned_cols=49  Identities=29%  Similarity=0.326  Sum_probs=44.1

Q ss_pred             CCCCCCccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecCCCCCC
Q psy6355           2 KGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSPSSS   52 (83)
Q Consensus         2 Dk~TG~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~~~~~~   52 (83)
                      |+.+|.++|||||.|.+.++|++||+.|||..+.|  +.|.|.++.+...+
T Consensus        77 ~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g--~~l~v~~a~~~~~~  125 (139)
T 1u6f_A           77 DRETRQSRGYGFVKFQSGSSAQQAIAGLNGFNILN--KRLKVALAASGHQR  125 (139)
T ss_dssp             ETTTTEEEEEEEEEESSHHHHHHHHHHTTTEECSS--CEEEEEESSCCCCC
T ss_pred             cCCCCCcceEEEEEECCHHHHHHHHHHhCCCEECC--eEEEEEECCCCCCC
Confidence            67789999999999999999999999999999976  67999999876554

>2a3j_A U1 small nuclear ribonucleoprotein A; computationally designed protein, RRM, U1A, RNA binding protein; NMR {Homo sapiens}

Probab=99.10  E-value=1.6e-10  Score=74.83  Aligned_cols=46  Identities=22%  Similarity=0.429  Sum_probs=41.3

Q ss_pred             CCCCccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecCCCCC
Q psy6355           4 FTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSPSS   51 (83)
Q Consensus         4 ~TG~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~~~~~   51 (83)
                      .+|.+||||||.|.+.++|++||+.|||..+.|  ++|.|.||.....
T Consensus        67 ~~~~~rG~aFV~F~~~~~A~~Ai~~lng~~l~g--r~l~V~~a~~~~~  112 (127)
T 2a3j_A           67 LSDDNSGKAYIVFATQESAQAFVEAFQGYPFQG--NPLVITFSETPQS  112 (127)
T ss_dssp             CCCSSCCCEEEEESSHHHHHHHHHHSTTCCCTT--SCCEEEECCCCCH
T ss_pred             cCCCcCCEEEEEECCHHHHHHHHHHHCCCEeCC--CEEEEEEccCcch
Confidence            378999999999999999999999999999977  6899999986543

>1wi8_A EIF-4B, eukaryotic translation initiation factor 4B; RNA recognition motif, RRM, RNA binding domain, RBD, RNP, structural genomics; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.10  E-value=1.2e-10  Score=71.23  Aligned_cols=48  Identities=17%  Similarity=0.206  Sum_probs=42.4

Q ss_pred             CCCC-CCccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecCCCCCC
Q psy6355           2 KGFT-DFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSPSSS   52 (83)
Q Consensus         2 Dk~T-G~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~~~~~~   52 (83)
                      |+.+ |.++|||||.|.+.++|++|| .|||..+.|  ++|.|.++.+...+
T Consensus        49 ~~~~~g~~~g~afV~f~~~~~a~~A~-~l~g~~~~g--~~l~V~~a~~~~~~   97 (104)
T 1wi8_A           49 EPSNPERLKGFGYAEFEDLDSLLSAL-SLNEESLGN--KRIRVDVADQAQDK   97 (104)
T ss_dssp             CSSCTTSBCSCEEEEESSHHHHHHHH-GGGTCEETT--EECEEEECCCCCCC
T ss_pred             CCCCCCCcCeEEEEEECCHHHHHHHH-hcCCCEeCC--cEEEEEEccCCCCC
Confidence            5666 999999999999999999999 999999976  67999999876544

>2ek1_A RNA-binding protein 12; RNA recognition motif, dimer, structural genomics, NPPSFA, national project on protein structural and functional analyses; 2.00A {Homo sapiens} PDB: 2ek6_A

Probab=99.09  E-value=7.5e-11  Score=70.78  Aligned_cols=44  Identities=16%  Similarity=0.122  Sum_probs=40.3

Q ss_pred             CCCCCCccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecC
Q psy6355           2 KGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFAN   47 (83)
Q Consensus         2 Dk~TG~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~   47 (83)
                      |+.+|.++|||||.|.+.++|++||+.|||..+.|  ++|.|.++.
T Consensus        50 ~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~~~g--r~l~v~~a~   93 (95)
T 2ek1_A           50 YNEKGMPTGEAMVAFESRDEATAAVIDLNDRPIGS--RKVKLSGPS   93 (95)
T ss_dssp             ECTTSCEEEEEEEEESSHHHHHHHHHHHTTCEETT--EECEEECCC
T ss_pred             eCCCCCEeeEEEEEECCHHHHHHHHHHhCCCeECC--cEEEEEecc
Confidence            56789999999999999999999999999999977  779999875

>1fxl_A Paraneoplastic encephalomyelitis antigen HUD; protein-RNA complex, AU-rich element, transcription/RNA complex; 1.80A {Homo sapiens} SCOP: d.58.7.1 d.58.7.1 PDB: 1g2e_A 1fnx_H 1d8z_A 1d9a_A 3hi9_A

Probab=99.09  E-value=2e-10  Score=73.44  Aligned_cols=45  Identities=62%  Similarity=0.948  Sum_probs=41.8

Q ss_pred             CCCCCCccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEec
Q psy6355           2 KGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFA   46 (83)
Q Consensus         2 Dk~TG~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA   46 (83)
                      |+.+|.++|||||.|.+.++|++|++.|||..+.|...+|.|+||
T Consensus       123 ~~~~g~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~~~i~v~~A  167 (167)
T 1fxl_A          123 DQVTGVSRGVGFIRFDKRIEAEEAIKGLNGQKPSGATEPITVKFA  167 (167)
T ss_dssp             CTTTCCEEEEEEEEESSHHHHHHHHHHHTTCCCTTCSSCCEEEEC
T ss_pred             cCCCCCccceEEEEeCCHHHHHHHHHHhcCCccCCCccceEEEeC
Confidence            567899999999999999999999999999999888788999986

>2j76_E EIF-4B, EIF4B, eukaryotic translation initiation factor 4B; protein biosynthesis, RNA recognition motif, RNA binding domain, RRM, RBD, RNP; NMR {Homo sapiens}

Probab=99.08  E-value=1.9e-10  Score=70.35  Aligned_cols=45  Identities=18%  Similarity=0.203  Sum_probs=40.1

Q ss_pred             CC-CCCCccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecCCC
Q psy6355           2 KG-FTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSP   49 (83)
Q Consensus         2 Dk-~TG~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~~~   49 (83)
                      |+ .+|.++|||||.|.+.++|++|| .|||..+.|  +.|.|+++...
T Consensus        53 ~~~~~g~~~g~afV~f~~~~~a~~Ai-~l~g~~~~g--~~l~V~~a~~~   98 (100)
T 2j76_E           53 EPSNPERLKGFGYAEFEDLDSLLSAL-SLNEESLGN--RRIRVDVADQA   98 (100)
T ss_dssp             CTTTTCCCCSCEEEEECCHHHHHHHH-HTTTCCBTT--BCCCCEECCCS
T ss_pred             cCCcCCccCeEEEEEECCHHHHHHHH-hcCCCEECC--eEEEEEeccCC
Confidence            45 58999999999999999999999 899999977  67999998754

>4a8x_A RNA-binding protein with serine-rich domain 1; transcription, splicing, RNA processing, nonsense mediated D NMD, HDAC, histone deacetylation; 1.90A {Homo sapiens}

Probab=99.08  E-value=8.1e-11  Score=69.47  Aligned_cols=48  Identities=21%  Similarity=0.385  Sum_probs=41.1

Q ss_pred             CCCCCC-ccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecCCCCC
Q psy6355           2 KGFTDF-CRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSPSS   51 (83)
Q Consensus         2 Dk~TG~-SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~~~~~   51 (83)
                      |+.++. ++|||||.|.+.++|++|++.|||..+.|  +.|.|+++.++..
T Consensus        39 ~~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g--~~l~v~~a~~~~~   87 (88)
T 4a8x_A           39 ERMHPHLSKGYAYVEFENPDEAEKALKHMDGGQIDG--QEITATAVLAPWP   87 (88)
T ss_dssp             ETTEEEEECSEEEEEESSHHHHHHHHHHHTTCEETT--EECEEEEECCCCC
T ss_pred             CCCCCCCCCcEEEEEEecHHHHHHHHHHcCCCeECC--eEEEEEECCCCCC
Confidence            344554 99999999999999999999999999977  6799999977654

>1b7f_A Protein (SXL-lethal protein), RNA (5'-R(P*GP*UP*UP*GP*UP*UP*UP*UP*UP*UP*UP*U)-3; splicing regulation, RNP domain, RNA complex; 2.60A {Drosophila melanogaster} SCOP: d.58.7.1 d.58.7.1 PDB: 3sxl_A* 1sxl_A 2sxl_A

Probab=99.07  E-value=2.5e-10  Score=73.33  Aligned_cols=45  Identities=38%  Similarity=0.696  Sum_probs=41.9

Q ss_pred             CCCCCCccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEec
Q psy6355           2 KGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFA   46 (83)
Q Consensus         2 Dk~TG~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA   46 (83)
                      |+.+|.++|||||.|.+.++|.+|++.|||..+.|..++|.|+||
T Consensus       124 ~~~~~~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~~~l~V~~A  168 (168)
T 1b7f_A          124 DKLTGRPRGVAFVRYNKREEAQEAISALNNVIPEGGSQPLSVRLA  168 (168)
T ss_dssp             CTTTCCEEEEEEEEESSHHHHHHHHHHHTTCCCTTCSSCCEEEEC
T ss_pred             cCCCCCcceEEEEEECCHHHHHHHHHHhcCCEecCCCeEEEEEeC
Confidence            566899999999999999999999999999999888899999986

>2cpx_A Hypothetical protein FLJ11016; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.07  E-value=2.6e-10  Score=70.64  Aligned_cols=47  Identities=23%  Similarity=0.305  Sum_probs=42.2

Q ss_pred             CCCCccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecCCCCCC
Q psy6355           4 FTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSPSSS   52 (83)
Q Consensus         4 ~TG~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~~~~~~   52 (83)
                      .+|.++|||||.|.+.++|++||+.|||..+.|  ++|.|.++.+...+
T Consensus        62 ~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~~~g--~~l~v~~a~~~~~~  108 (115)
T 2cpx_A           62 MTGRMRGQAFITFPNKEIAWQALHLVNGYKLYG--KILVIEFGKNKKQR  108 (115)
T ss_dssp             ECSSSCSEEEEECSSHHHHHHHHHHSTTCBCSS--CBCEEEECCCCSCC
T ss_pred             CCCccceEEEEEECCHHHHHHHHHHhCCCEeCC--cEEEEEEccCCCCC
Confidence            478999999999999999999999999999966  67999999876554

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

Probab=99.07  E-value=3.2e-10  Score=69.14  Aligned_cols=46  Identities=28%  Similarity=0.463  Sum_probs=42.0

Q ss_pred             CCCccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecCCCCCC
Q psy6355           5 TDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSPSSS   52 (83)
Q Consensus         5 TG~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~~~~~~   52 (83)
                      +|.++|||||.|.+.++|++||+.|||..+.|  ++|.|.++.+...+
T Consensus        51 ~g~~~g~afV~f~~~~~A~~A~~~l~g~~~~g--~~l~V~~a~~~~~~   96 (103)
T 2d9p_A           51 GGRSKGFGFVCFSSPEEATKAVTEMNGRIVAT--KPLYVALAQRKEER   96 (103)
T ss_dssp             SSSEEEEEEEEESSHHHHHHHHHHHTTCBSSS--SBCEEEECSSCCCC
T ss_pred             CCCcCEEEEEEECCHHHHHHHHHHhCCCEeCC--cEEEEEEecccccC
Confidence            78999999999999999999999999999976  67999999876655

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

Probab=99.04  E-value=4.3e-10  Score=68.37  Aligned_cols=66  Identities=21%  Similarity=0.378  Sum_probs=47.5

Q ss_pred             ccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecCCCCCCcccccchhhhccchhhhhcccCCCCCC
Q psy6355           8 CRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSPSSSNKVIAPLAAYLTPQAAAARRFGGPIHH   79 (83)
Q Consensus         8 SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   79 (83)
                      ++|||||.|.+.++|++|++.|||..+.|  ++|.|+++.+....... ...+.....   ...-|-|+++|
T Consensus        36 ~~g~afV~f~~~~~a~~A~~~l~g~~~~g--~~l~V~~a~~~~~~~~~-~~~~~~~~~---~~~ifvg~L~h  101 (101)
T 2hvz_A           36 PPGFAFVEFEDPRDAEDAVRGLDGKVICG--SRVRVELSTGMPRRSRF-DRPPARRKL---LEVLFNGPLEH  101 (101)
T ss_dssp             SSSEEEEECSSHHHHHHHHHHHHHSCSSS--CCCEEEESSSCCCSSCC-CSCCCSCCC---CSCCCSCCCCC
T ss_pred             CCCEEEEEECCHHHHHHHHHHHCCCeECC--cEEEEEEccCCCCcccC-CCCCccccC---CCceecCCCCC
Confidence            79999999999999999999999999977  56999999876544222 222222211   13445677765

>2pe8_A Splicing factor 45; RRM, protein binding; 2.00A {Homo sapiens} PDB: 2peh_A

Probab=99.04  E-value=2.5e-10  Score=71.61  Aligned_cols=42  Identities=26%  Similarity=0.285  Sum_probs=38.6

Q ss_pred             CCCccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecCC
Q psy6355           5 TDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANS   48 (83)
Q Consensus         5 TG~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~~   48 (83)
                      ++.++||+||.|.+.++|++|++.|||..+.|  ++|.|.++..
T Consensus        52 ~~~~~G~~FV~f~~~~~A~~Ai~~lnG~~~~G--r~i~v~~a~~   93 (105)
T 2pe8_A           52 PDDEAVRIFLEFERVESAIKAVVDLNGRYFGG--RVVKACFYNL   93 (105)
T ss_dssp             CTTTSEEEEEEESSHHHHHHHHHHHTTCEETT--EECEEEECCH
T ss_pred             CCCCcEEEEEEECCHHHHHHHHHHHCCCEECC--cEEEEEEcCH
Confidence            47899999999999999999999999999977  7899999864

>3ulh_A THO complex subunit 4; nuclear protein, RNA binding, structural genomi center for structural genomics, JCSG, protein structure INI PSI-biology; 2.54A {Homo sapiens} PDB: 1no8_A

Probab=99.04  E-value=1.7e-10  Score=70.72  Aligned_cols=43  Identities=16%  Similarity=0.367  Sum_probs=39.6

Q ss_pred             CCCCCCccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecC
Q psy6355           2 KGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFAN   47 (83)
Q Consensus         2 Dk~TG~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~   47 (83)
                      |+ +|.++|||||.|.+.++|++||+.|||..+.|  ++|.|+++.
T Consensus        64 ~~-~g~~~g~afV~f~~~~~a~~A~~~l~g~~~~g--~~l~V~~a~  106 (107)
T 3ulh_A           64 DR-SGRSLGTADVHFERKADALKAMKQYNGVPLDG--RPMNIQLVT  106 (107)
T ss_dssp             CT-TSCEEEEEEEEESSHHHHHHHHHHHTTCEETT--EECEEEEEC
T ss_pred             CC-CCCcceEEEEEECCHHHHHHHHHHhCCCEeCC--cEEEEEEeC
Confidence            56 89999999999999999999999999999977  779999875

>2lea_A Serine/arginine-rich splicing factor 2; SR protein, RNA binding protein; NMR {Homo sapiens} PDB: 2leb_A 2lec_A

Probab=99.04  E-value=3.2e-10  Score=73.36  Aligned_cols=48  Identities=25%  Similarity=0.508  Sum_probs=43.0

Q ss_pred             CCCCCCccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecCCCCC
Q psy6355           2 KGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSPSS   51 (83)
Q Consensus         2 Dk~TG~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~~~~~   51 (83)
                      |+.+|.++|||||.|.+.++|++||+.|||..+.|  ++|.|+++.....
T Consensus        82 ~~~~g~~~G~afV~F~~~~~A~~Ai~~l~g~~i~g--~~l~V~~a~~~~~  129 (135)
T 2lea_A           82 DRYTKESRGFAFVRFHDKRDAEDAMDAMDGAVLDG--RELRVQMARYGRP  129 (135)
T ss_dssp             CSSSSSCCSCCEEECSCHHHHHHHHTTTTTCCSSS--SCCEEEECCCCCC
T ss_pred             cCCCCccceEEEEEECCHHHHHHHHHHcCCCEECC--EEEEEEECCCCCC
Confidence            67789999999999999999999999999999977  6799999976533

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

Probab=99.04  E-value=1.8e-10  Score=68.84  Aligned_cols=44  Identities=20%  Similarity=0.117  Sum_probs=39.8

Q ss_pred             CCCCccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecCCCC
Q psy6355           4 FTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSPS   50 (83)
Q Consensus         4 ~TG~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~~~~   50 (83)
                      .+|.++|||||.|.+.++|++||+ |||..+.|  +.|.|.++....
T Consensus        45 ~~g~~~g~afV~f~~~~~a~~A~~-~~g~~~~g--r~i~v~~a~~~~   88 (91)
T 2dgw_A           45 AHGNKTGYIFVDFSNEEEVKQALK-CNREYMGG--RYIEVFREKSGP   88 (91)
T ss_dssp             TTSCEEEEEEEECSSHHHHHHHHH-SCSEEETT--EEEEEEEESSCC
T ss_pred             CCCCCceEEEEEECCHHHHHHHHH-hCCceeCC--cEEEEEECCcCC
Confidence            579999999999999999999999 99999977  689999987654

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

Probab=99.04  E-value=3.3e-10  Score=67.54  Aligned_cols=46  Identities=26%  Similarity=0.355  Sum_probs=41.2

Q ss_pred             CCCCccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecCCCCC
Q psy6355           4 FTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSPSS   51 (83)
Q Consensus         4 ~TG~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~~~~~   51 (83)
                      .+|.++|||||.|.+.++|++||+.|||..+.|  ++|.|+++.+...
T Consensus        43 ~~g~~~g~afV~f~~~~~a~~a~~~l~g~~~~g--~~l~v~~a~~~~~   88 (92)
T 2dgv_A           43 ENGKSKGCGVVKFESPEVAERACRMMNGMKLSG--REIDVRIDRNASG   88 (92)
T ss_dssp             SSSCEEEEEEEEESSHHHHHHHHHHHTTCCBTT--BCCCCEECSCCSS
T ss_pred             cCCCcceEEEEEECCHHHHHHHHHHhCCCEECC--cEEEEEEcCCCCC
Confidence            478999999999999999999999999999977  6799999987644

>3ucg_A Polyadenylate-binding protein 2; ferredoxin-like, structural genomics, joint center for struc genomics, JCSG, protein structure initiative; HET: PGE; 1.95A {Homo sapiens} PDB: 3b4d_A 3b4m_A

Probab=99.03  E-value=2.1e-10  Score=67.92  Aligned_cols=45  Identities=16%  Similarity=0.341  Sum_probs=40.8

Q ss_pred             CCCCCCccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecCCC
Q psy6355           2 KGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSP   49 (83)
Q Consensus         2 Dk~TG~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~~~   49 (83)
                      |+.+|.++|||||.|.+.++|++|+ .|||..+.|  ++|.|.++.+.
T Consensus        41 ~~~~~~~~g~afV~f~~~~~a~~a~-~~~g~~~~g--~~l~V~~a~~~   85 (89)
T 3ucg_A           41 DKFSGHPKGFAYIEFSDKESVRTSL-ALDESLFRG--RQIKVIPKRTN   85 (89)
T ss_dssp             SCSSSSCCEEEEEEESSTHHHHHHG-GGTTCEETT--EECEEEETTTT
T ss_pred             cCCCCCcceEEEEEECCHHHHHHHH-hcCCCEECC--cEEEEEEccCC
Confidence            6778999999999999999999999 999999977  67999998754

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

Probab=99.03  E-value=1.4e-10  Score=68.30  Aligned_cols=40  Identities=13%  Similarity=0.114  Sum_probs=34.9

Q ss_pred             CCCCCccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEE
Q psy6355           3 GFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITV   43 (83)
Q Consensus         3 k~TG~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V   43 (83)
                      +.+|.++|||||.|.+.++|++||+.|||..+.|. ++|.|
T Consensus        41 ~~~g~~~g~afV~f~~~~~A~~Ai~~lng~~~~g~-~~l~V   80 (81)
T 2krb_A           41 EEDGKTKGYIFLEYASPAHAVDAVKNADGYKLDKQ-HTFRV   80 (81)
T ss_dssp             CBTTBCCCEEEEEESSHHHHHHHHTTSSSCCCSSS-SCCCC
T ss_pred             CCCCcEeEEEEEEECCHHHHHHHHHHhcCcccCCc-eeEEe
Confidence            56899999999999999999999999999999773 15654

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

Probab=99.03  E-value=3.8e-10  Score=71.11  Aligned_cols=47  Identities=17%  Similarity=0.325  Sum_probs=42.1

Q ss_pred             CCCCCCccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecCCCCC
Q psy6355           2 KGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSPSS   51 (83)
Q Consensus         2 Dk~TG~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~~~~~   51 (83)
                      |+ +|.++|||||.|.+.++|++|++.|||..+.|  ++|.|.+|.....
T Consensus        70 ~~-~g~~~g~afV~f~~~~~A~~Ai~~l~g~~~~g--~~l~V~~a~~~~~  116 (124)
T 2kt5_A           70 DR-SGRSLGTADVHFERRADALKAMKQYKGVPLDG--RPMDIQLVASQID  116 (124)
T ss_dssp             CS-SSSCCSEEEEEESSHHHHHHHHHHHTTEESSS--CEEEEEEECCTTC
T ss_pred             CC-CCCEeeEEEEEECCHHHHHHHHHHcCCCEECC--cEEEEEEeCCCCC
Confidence            56 89999999999999999999999999999977  6799999976543

>2fc9_A NCL protein; structure genomics, RRM_1 domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.03  E-value=3.3e-10  Score=68.86  Aligned_cols=46  Identities=20%  Similarity=0.252  Sum_probs=41.5

Q ss_pred             CCCCccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecCCCCC
Q psy6355           4 FTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSPSS   51 (83)
Q Consensus         4 ~TG~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~~~~~   51 (83)
                      .+|.++|||||.|.+.++|++||+.|||..+.|  ++|.|.++.+...
T Consensus        48 ~~g~~~g~afV~f~~~~~A~~A~~~l~g~~~~g--~~l~v~~a~~~~~   93 (101)
T 2fc9_A           48 QNGKSKGYAFIEFASFEDAKEALNSCNKREIEG--RAIRLELQGPRGS   93 (101)
T ss_dssp             SSSCBCSEEEEECSSHHHHHHHHHHTSSEEETT--EEEEEEECSSCCC
T ss_pred             CCCCEeeEEEEEECCHHHHHHHHHHhCCCEeCC--eEEEEEEcCCCCC
Confidence            578999999999999999999999999999976  7899999987644

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

Probab=99.03  E-value=3.9e-10  Score=69.75  Aligned_cols=48  Identities=29%  Similarity=0.423  Sum_probs=42.1

Q ss_pred             CCCCCCccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecCCCCCC
Q psy6355           2 KGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSPSSS   52 (83)
Q Consensus         2 Dk~TG~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~~~~~~   52 (83)
                      |+ +|.++|||||.|.+.++|++||+.|||..+.|  +.|.|+++.....+
T Consensus        50 ~~-~g~~~g~afV~f~~~~~a~~A~~~l~g~~~~g--~~l~v~~a~~~~~~   97 (114)
T 2do0_A           50 DK-DGKSRGIGTVTFEQSIEAVQAISMFNGQLLFD--RPMHVKMDERALPK   97 (114)
T ss_dssp             CT-TCSEEEEEEEEESSHHHHHHHHHHHTTCEETT--EECEEEECSCCCCC
T ss_pred             CC-CCCeeeEEEEEECCHHHHHHHHHHhCCCEeCC--CEEEEEEcccCCCC
Confidence            45 58999999999999999999999999999976  67999999865444

>2nlw_A Eukaryotic translation initiation factor 3 subunit 9; eukaryotic initiation factor 3 complex, RNA recognition motif; NMR {Homo sapiens}

Probab=99.03  E-value=2e-10  Score=70.96  Aligned_cols=45  Identities=11%  Similarity=0.093  Sum_probs=40.4

Q ss_pred             CCCCCccceEEEEeCCHHHHHHHHHHhCCCCCCCCCc-ceEEEecCCC
Q psy6355           3 GFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNE-PITVKFANSP   49 (83)
Q Consensus         3 k~TG~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~-~l~V~fA~~~   49 (83)
                      +.+|.+||||||.|.+.++|++||+.|||..+.|  + +|.|.++...
T Consensus        55 ~~~g~~~G~afV~f~~~~~A~~Ai~~l~g~~~~g--~~~l~V~~a~~~  100 (105)
T 2nlw_A           55 EEDGKTKGYIFLEYASPAHAVDAVKNADGYKLDK--QHTFRVNLFTDF  100 (105)
T ss_dssp             CBTTBSCCEEEEEECSSSHHHHHHHHCSSEECST--TCEEEEECSCCC
T ss_pred             CCCCCeeeEEEEEECCHHHHHHHHHHhCCcccCC--CceEEEEEcchH
Confidence            4689999999999999999999999999999977  5 7999998643

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

Probab=99.02  E-value=1.4e-10  Score=70.10  Aligned_cols=46  Identities=17%  Similarity=0.445  Sum_probs=40.8

Q ss_pred             CCCccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecCCCCCC
Q psy6355           5 TDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSPSSS   52 (83)
Q Consensus         5 TG~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~~~~~~   52 (83)
                      ||.++|||||.|.+.++|++|++.|||..+.|  ++|.|+++.+....
T Consensus        46 t~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g--~~l~V~~a~~~~~~   91 (98)
T 2cpf_A           46 VLLSMGFGFVEYKKPEQAQKALKQLQGHTVDG--HKLEVRISERATKP   91 (98)
T ss_dssp             CEEEEEEEEEEESSHHHHHHHHHHSTTCEETT--EECEEECSSCSSCC
T ss_pred             CcCcccEEEEEECCHHHHHHHHHHhCCCeeCC--eEEEEEEccCCCCC
Confidence            66999999999999999999999999999976  68999999765443

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

Probab=99.02  E-value=1.3e-10  Score=72.51  Aligned_cols=43  Identities=26%  Similarity=0.430  Sum_probs=39.7

Q ss_pred             CCCCCCccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEec
Q psy6355           2 KGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFA   46 (83)
Q Consensus         2 Dk~TG~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA   46 (83)
                      |+.+|.++|||||.|.+.++|++||+.|||..+.|  +.|.|+++
T Consensus        75 ~~~~g~~~g~afV~f~~~~~A~~A~~~l~g~~~~g--~~l~V~~a  117 (118)
T 2khc_A           75 DKQTSLSKCFGFVSFDNPDSAQVAIKAMNGFQVGT--KRLKVQLK  117 (118)
T ss_dssp             CSSSSCCCCEEEEEEESSHHHHHHHHHCCCCEETT--EECCEEEC
T ss_pred             CCCCCCcCcEEEEEECCHHHHHHHHHHcCCCEECC--EEEEEEec
Confidence            67889999999999999999999999999999977  67899886

>1h2v_Z 20 kDa nuclear CAP binding protein; CAP-binding-complex, RNP domain, MIF4G domain, RNA maturation, RNA export, nuclear protein, RNA-binding; 2.0A {Homo sapiens} SCOP: d.58.7.1 PDB: 1h2u_X* 1h2t_Z 1n52_B* 1n54_B 3fex_B 3fey_B 1h6k_X

Probab=99.02  E-value=3.1e-10  Score=74.02  Aligned_cols=49  Identities=18%  Similarity=0.255  Sum_probs=44.0

Q ss_pred             CCCCCCccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecCCCCCC
Q psy6355           2 KGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSPSSS   52 (83)
Q Consensus         2 Dk~TG~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~~~~~~   52 (83)
                      |+.||.++|||||.|.+.++|++||+.|||..+.|  ++|.|.++.+....
T Consensus        74 ~~~~~~~~g~afV~f~~~~~A~~Ai~~l~g~~~~g--~~l~V~~a~~~~~~  122 (156)
T 1h2v_Z           74 DKMKKTACGFCFVEYYSRADAENAMRYINGTRLDD--RIIRTDWDAGFKEG  122 (156)
T ss_dssp             CTTTCCEEEEEEEEESSHHHHHHHHHHTTTSEETT--EECEEEEESCCCTT
T ss_pred             cCCCCccceEEEEEECCHHHHHHHHHHhCCCEECC--eEEEEEECCCCCCc
Confidence            67789999999999999999999999999999976  77999999876544

>2jwn_A Embryonic polyadenylate-binding protein 2-B; epabp2, poly(A) binding, structural genomics, protein structure initiative, PSI-2; NMR {Xenopus laevis}

Probab=99.02  E-value=3.4e-10  Score=71.08  Aligned_cols=48  Identities=19%  Similarity=0.342  Sum_probs=42.3

Q ss_pred             CCCCCCccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecCCCCCC
Q psy6355           2 KGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSPSSS   52 (83)
Q Consensus         2 Dk~TG~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~~~~~~   52 (83)
                      |+.+|.++|||||.|.+.++|++|| .|||..+.|  +.|.|.++......
T Consensus        71 ~~~~~~~~g~afV~f~~~~~a~~A~-~l~g~~~~g--~~l~V~~a~~~~~~  118 (124)
T 2jwn_A           71 DKFSGHPKGYAYIEFAERNSVDAAV-AMDETVFRG--RTIKVLPKRTNMPG  118 (124)
T ss_dssp             ECTTSSCEEEEEEEESSHHHHHHHH-TTTTCEETT--EECEEEESSCCCSS
T ss_pred             cCCCCCcccEEEEEECCHHHHHHHH-hcCCCeECC--eEEEEEECCCCCCC
Confidence            5678999999999999999999999 899999977  67999998765443

>2wbr_A GW182, gawky, LD47780P; DNA-binding protein, RRM, RBD, TNRC6A, mirnas, P-bodies, argonaute, mRNA decay; NMR {Drosophila melanogaster}

Probab=99.02  E-value=1.9e-10  Score=71.70  Aligned_cols=39  Identities=18%  Similarity=0.265  Sum_probs=36.2

Q ss_pred             CccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecC
Q psy6355           7 FCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFAN   47 (83)
Q Consensus         7 ~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~   47 (83)
                      .+||||||+|.+.++|++||+.|||.++.|  ++|.|++|.
T Consensus        41 ~~kGfaFVey~~~~eA~~Ai~~Ln~~~l~g--r~I~V~~A~   79 (89)
T 2wbr_A           41 LNQGIALCKYTTREEANKAQMALNNCVLAN--TTIFAESPS   79 (89)
T ss_dssp             TTTTEEEEEESSHHHHHHHHHHHTTEEETT--EEEEEECCC
T ss_pred             CCCcEEEEEECCHHHHHHHHHHhcCCEECC--cEEEEEECC
Confidence            489999999999999999999999999977  789999993

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

Probab=99.02  E-value=3.1e-10  Score=72.43  Aligned_cols=45  Identities=24%  Similarity=0.454  Sum_probs=41.2

Q ss_pred             CCCCCCccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecCC
Q psy6355           2 KGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANS   48 (83)
Q Consensus         2 Dk~TG~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~~   48 (83)
                      |+.+|.++|||||.|.+.++|++|++.|||..+.|  ++|.|.||.+
T Consensus       122 ~~~~~~~~g~afV~f~~~~~A~~A~~~l~g~~~~g--~~i~v~~a~~  166 (166)
T 3md3_A          122 DMQTGSSRGYGFVSFTSQDDAQNAMDSMQGQDLNG--RPLRINWAAK  166 (166)
T ss_dssp             CTTTCCEEEEEEEEESCHHHHHHHHHHHTTCEETT--EECEEEESCC
T ss_pred             cCCCCCcceEEEEEeCCHHHHHHHHHHhCCCccCC--cEEEEEecCC
Confidence            67789999999999999999999999999999976  7899999863

>2ku7_A MLL1 PHD3-CYP33 RRM chimeric protein; transcriptional regulation, RRM domain, transcr; NMR {Homo sapiens}

Probab=99.01  E-value=2.1e-10  Score=72.80  Aligned_cols=44  Identities=27%  Similarity=0.348  Sum_probs=39.3

Q ss_pred             CCCCCCCccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEec
Q psy6355           1 MKGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFA   46 (83)
Q Consensus         1 ~Dk~TG~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA   46 (83)
                      .|+.+|.++|||||.|.+.++|++|++.|||..+.|  ++|.|++|
T Consensus        97 ~~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g--~~l~v~~A  140 (140)
T 2ku7_A           97 LDYETEKHRGFAFVEFELAEDAAAAIDNMNESELFG--RTIRVNLA  140 (140)
T ss_dssp             CCTTTCCCCSEEEEEESCHHHHHHHHHHSTEEEETT--EEEEEEC-
T ss_pred             ecCCCCCcCcEEEEEECCHHHHHHHHHHhCCCEECC--EEEEEEeC
Confidence            367889999999999999999999999999999977  67999875

>2e5j_A Methenyltetrahydrofolate synthetase domain containing; RRM domain, RBD, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=99.01  E-value=5.3e-10  Score=67.74  Aligned_cols=44  Identities=18%  Similarity=0.224  Sum_probs=39.4

Q ss_pred             CCCccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecCCCC
Q psy6355           5 TDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSPS   50 (83)
Q Consensus         5 TG~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~~~~   50 (83)
                      ++.++|||||.|.+.++|++||+.|||..+.|  +.|.|+++.+..
T Consensus        52 ~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g--~~l~V~~a~~~~   95 (97)
T 2e5j_A           52 WQGPRRRAFLHYPDSAAAQQAVSCLQGLRLGT--DTLRVALARQQR   95 (97)
T ss_dssp             EETTTTEEEEECSSHHHHHHHHHHHTTCCSSS--SCCEEEECCCCC
T ss_pred             cCCCCcEEEEEECCHHHHHHHHHHhCCCEECC--cEEEEEEcCCCC
Confidence            46789999999999999999999999999977  679999997653

>2cpi_A CCR4-NOT transcription complex subunit 4; RNA recognition motif, RRM, RNP, structural genomics, NPPSFA; NMR {Mus musculus} SCOP: d.58.7.1

Probab=99.01  E-value=5e-10  Score=69.72  Aligned_cols=43  Identities=16%  Similarity=0.231  Sum_probs=38.3

Q ss_pred             CCccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecCCCC
Q psy6355           6 DFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSPS   50 (83)
Q Consensus         6 G~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~~~~   50 (83)
                      +.++|||||.|.+.++|++||+.|||..+.|  ++|.|.+|.+..
T Consensus        60 ~~~~G~afV~f~~~~~A~~Ai~~lng~~~~g--r~l~V~~a~~k~  102 (111)
T 2cpi_A           60 QGPSASAYVTYIRSEDALRAIQCVNNVVVDG--RTLKASLGTTKY  102 (111)
T ss_dssp             SCCCEEEEEEESSHHHHHHHHHHHTTEEETT--EEEEEESCCCCS
T ss_pred             CCCCeEEEEEECcHHHHHHHHHHhCCCEECC--EEEEEEeccccc
Confidence            3567999999999999999999999999977  689999987654

>2rs2_A Musashi-1, RNA-binding protein musashi homolog 1; protein-RNA complex, RRM, RBD, RNA binding protein- complex; NMR {Mus musculus}

Probab=99.00  E-value=4.4e-10  Score=70.01  Aligned_cols=49  Identities=16%  Similarity=0.221  Sum_probs=41.7

Q ss_pred             CCCCCCCccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecCCCCCC
Q psy6355           1 MKGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSPSSS   52 (83)
Q Consensus         1 ~Dk~TG~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~~~~~~   52 (83)
                      .|+.||.++|||||.|.+.++|++||+.+ +..+.|  +.|.|+++.....+
T Consensus        59 ~~~~tg~~kg~afV~f~~~~~A~~Ai~~~-~~~l~g--~~l~V~~a~~~~~~  107 (109)
T 2rs2_A           59 RDPLTKRSRGFGFVTFMDQAGVDKVLAQS-RHELDS--KTIDPKVAFPRRAQ  107 (109)
T ss_dssp             CCTTTCCCTTCEEEEESSHHHHHHHHHSS-CEEETT--EEEEEEECCCCCCC
T ss_pred             ECCCCCCcCcEEEEEECCHHHHHHHHHHC-CCcCCC--EEEEEEEccCCCCC
Confidence            36788999999999999999999999986 467877  67999999876544

>2qfj_A FBP-interacting repressor; protein-DNA complex; HET: DNA; 2.10A {Homo sapiens} PDB: 3uwt_A 2kxf_A 2kxh_A

Probab=99.00  E-value=7.9e-10  Score=73.69  Aligned_cols=49  Identities=20%  Similarity=0.240  Sum_probs=43.6

Q ss_pred             CCCCCCccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecCCCCCC
Q psy6355           2 KGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSPSSS   52 (83)
Q Consensus         2 Dk~TG~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~~~~~~   52 (83)
                      |+.+|.++|||||.|.+.++|.+|++.|||..+.|  ++|.|.++.++...
T Consensus       160 ~~~~g~~~g~afV~F~~~~~A~~A~~~l~g~~~~g--~~i~V~~a~~~~~~  208 (216)
T 2qfj_A          160 DPTTGKHKGYGFIEYEKAQSSQDAVSSMNLFDLGG--QYLRVGKAVTPPMP  208 (216)
T ss_dssp             CTTTCCEEEEEEEEESSHHHHHHHHHHHTTCBCSS--SBCEEEECSSCSST
T ss_pred             cCCCCCcCceEEEEecCHHHHHHHHHHccCCEeCC--cEEEEEEecCCCCC
Confidence            56789999999999999999999999999999977  67999999876443

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

Probab=98.99  E-value=4e-10  Score=65.08  Aligned_cols=42  Identities=19%  Similarity=0.301  Sum_probs=37.9

Q ss_pred             CCCCCCccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEec
Q psy6355           2 KGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFA   46 (83)
Q Consensus         2 Dk~TG~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA   46 (83)
                      |+.+|.++|||||.|.+.++|++|++.|| ..+.|  ++|.|++|
T Consensus        35 ~~~~~~~~g~afV~f~~~~~a~~a~~~~~-~~~~g--~~l~v~~a   76 (77)
T 1uaw_A           35 DPLTKRSRGFGFVTFMDQAGVDKVLAQSR-HELDS--KTIDPKVA   76 (77)
T ss_dssp             CCCSSSCSSEEEECCCCTTHHHHHHHTTT-CCCSS--CCCEEEEC
T ss_pred             CCCCCCcCceEEEEEcCHHHHHHHHHhCC-CccCC--EEEEEEec
Confidence            67789999999999999999999999999 78877  56888876

>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=98.99  E-value=2.1e-10  Score=80.21  Aligned_cols=47  Identities=9%  Similarity=0.068  Sum_probs=42.7

Q ss_pred             CCCCCCCccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecCCC
Q psy6355           1 MKGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSP   49 (83)
Q Consensus         1 ~Dk~TG~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~~~   49 (83)
                      +|+.||.+||||||.|.+.++|++||+.|||+.+.|  +.|.|++|.+.
T Consensus       104 ~d~~tg~skGfaFV~f~~~~~a~~Ai~~lng~~~~G--r~l~V~~a~~~  150 (229)
T 3q2s_C          104 ENRANGQSKGFALVGVGSEASSKKLMDLLPKRELHG--QNPVVTPVNKQ  150 (229)
T ss_dssp             ECTTTCCEEEEEEEEESCTTHHHHHHTTSTTSCBTT--BCCEEEECCHH
T ss_pred             ecCCCCccceEEEEEECCHHHHHHHHHHcCCCeECC--EEeEEEECCCC
Confidence            378899999999999999999999999999999977  67999998643

>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=98.99  E-value=4.2e-10  Score=70.55  Aligned_cols=45  Identities=27%  Similarity=0.411  Sum_probs=39.4

Q ss_pred             CCccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecCCCCCC
Q psy6355           6 DFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSPSSS   52 (83)
Q Consensus         6 G~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~~~~~~   52 (83)
                      +.+||||||.|.+.++|++||+.|||..+.|  ++|.|.++.+...+
T Consensus        42 ~~~kg~afV~f~~~~~A~~Ai~~l~~~~~~g--~~i~V~~a~~~~~~   86 (115)
T 4f25_A           42 NGSKGYGFVHFETQEAAERAIEKMNGMLLND--RKVFVGRFKSRKER   86 (115)
T ss_dssp             TEEEEEEEEEESCHHHHHHHHHHHTTCEETT--EECEEEESSCCCC-
T ss_pred             CCCCceEEEEECCHHHHHHHHHHcCCCEECC--EEEEEEECCCcccc
Confidence            5689999999999999999999999999977  68999998765544

>2cqi_A Nucleolysin TIAR; RNA recognition motif, RRM, RNA binding domain, RBD, RNP, ST genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=98.99  E-value=8e-10  Score=67.35  Aligned_cols=46  Identities=26%  Similarity=0.407  Sum_probs=40.6

Q ss_pred             CCccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecCCCCCCc
Q psy6355           6 DFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSPSSSN   53 (83)
Q Consensus         6 G~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~~~~~~~   53 (83)
                      +.++|||||.|.+.++|++|++.|||..+.|  ++|.|.++..+..+.
T Consensus        52 ~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g--~~l~V~~a~~~~~~~   97 (103)
T 2cqi_A           52 TSNDPYCFVEFYEHRDAAAALAAMNGRKILG--KEVKVNWATTPSSQK   97 (103)
T ss_dssp             CSSCCEEEEEESSHHHHHHHHHHHTTEEETT--EEEEEEECCCTTCCC
T ss_pred             CCCCCEEEEEECCHHHHHHHHHHhCCCCcCC--CeEEEEECCCCcccc
Confidence            4479999999999999999999999999976  789999998876553

>1fjc_A Nucleolin RBD2, protein C23; RNP, RRM, RNA binding domain, nucleolus, structural protein; NMR {Mesocricetus auratus} SCOP: d.58.7.1

Probab=98.99  E-value=3e-10  Score=68.36  Aligned_cols=46  Identities=15%  Similarity=0.374  Sum_probs=40.9

Q ss_pred             CCCCccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecCCCCC
Q psy6355           4 FTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSPSS   51 (83)
Q Consensus         4 ~TG~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~~~~~   51 (83)
                      .+|.++|||||.|.+.++|++|++.|||..+.|  ++|.|.++.+...
T Consensus        48 ~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g--~~l~v~~a~~~~~   93 (96)
T 1fjc_A           48 QDGKSKGIAYIEFKSEADAEKNLEEKQGAEIDG--RSVSLYYTGEKGG   93 (96)
T ss_dssp             ETTEEEEEEEEEESSHHHHHHHHHHTTEEEETT--EEEEEEECSSSCC
T ss_pred             CCCCcceEEEEEECCHHHHHHHHHHhCCCEECC--eEEEEEEcCCCCC
Confidence            468899999999999999999999999999977  6799999976543

>2lcw_A RNA-binding protein FUS; RRM, nucleic acid binding protein; NMR {Homo sapiens}

Probab=98.54  E-value=4.8e-11  Score=74.53  Aligned_cols=49  Identities=27%  Similarity=0.278  Sum_probs=43.3

Q ss_pred             CCCCCCccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecCCCCCC
Q psy6355           2 KGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSPSSS   52 (83)
Q Consensus         2 Dk~TG~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~~~~~~   52 (83)
                      |+.+|.++|||||.|.+.++|++||+.|||..+.|  ++|.|+++.+....
T Consensus        50 ~~~~g~~~g~afV~f~~~~~A~~Ai~~l~g~~~~g--~~l~V~~a~~~~~~   98 (116)
T 2lcw_A           50 DRETGKLKGEATVSFDDPPSAKAAIDWFDGKEFSG--NPIKVSFATRRADF   98 (116)
Confidence            66789999999999999999999999999999977  67999998765443

>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=98.98  E-value=7.9e-10  Score=71.23  Aligned_cols=43  Identities=30%  Similarity=0.556  Sum_probs=39.0

Q ss_pred             CCCccceEEEEeCCHHHHHHHHHHhCCCCC-CCCCcceEEEecC
Q psy6355           5 TDFCRYLGFIRFDQRIEAERAIQELNGTIP-KGSNEPITVKFAN   47 (83)
Q Consensus         5 TG~SrG~gFV~F~~~e~A~~AI~~LnG~~~-~G~~~~l~V~fA~   47 (83)
                      +|.++|||||.|.+.++|++|++.|||..+ .|+.++|.|+||+
T Consensus       132 ~g~~~g~afV~f~~~~~A~~A~~~l~g~~~~~g~~~~l~V~~ad  175 (175)
T 3nmr_A          132 DGLSRGCAFVTFTTRAMAQTAIKAMHQAQTMEGCSSPMVVKFAD  175 (175)
T ss_dssp             TSCEEEEEEEEESSHHHHHHHHHHHTTSCCCTTCSSCCEEEECC
T ss_pred             CCCEEEEEEEEECCHHHHHHHHHHhcCCcccCCCCCCeEEEecC
Confidence            589999999999999999999999999875 5556899999985

>1rk8_A CG8781-PA, CG8781-PA protein; mRNA processing, RRM, RBD, NMD, oskar mRNA localization, translation; 1.90A {Drosophila melanogaster} SCOP: d.58.7.1 PDB: 1hl6_A 2x1g_A

Probab=98.98  E-value=3.7e-10  Score=74.61  Aligned_cols=49  Identities=20%  Similarity=0.305  Sum_probs=42.7

Q ss_pred             CCCCCCccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecCCCCCC
Q psy6355           2 KGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSPSSS   52 (83)
Q Consensus         2 Dk~TG~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~~~~~~   52 (83)
                      |+.||.++|||||.|.+.++|++||+.|||..+.|  ++|.|.++.+...+
T Consensus       107 ~~~~g~~~g~afV~f~~~~~A~~Ai~~l~g~~~~g--~~l~V~~a~~~~~~  155 (165)
T 1rk8_A          107 DRRTGFSKGYALVEYETHKQALAAKEALNGAEIMG--QTIQVDWCFVKGPK  155 (165)
T ss_dssp             CTTTSSEEEEEEEEESSHHHHHHHHHHHTTCEETT--EECEEEESEECC--
T ss_pred             cCCCCcEeeEEEEEECCHHHHHHHHHHhCCCEECC--EEEEEEEecCCCCC
Confidence            67799999999999999999999999999999977  68999998765444

>2dgx_A KIAA0430 protein; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=98.98  E-value=6.8e-10  Score=67.39  Aligned_cols=40  Identities=18%  Similarity=0.209  Sum_probs=36.6

Q ss_pred             cceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecCCCC
Q psy6355           9 RYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSPS   50 (83)
Q Consensus         9 rG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~~~~   50 (83)
                      ||||||.|.+.++|++||+.|||..+.|  ++|.|++|.+..
T Consensus        52 rg~afV~f~~~~~A~~Ai~~l~g~~~~g--r~l~V~~a~~~~   91 (96)
T 2dgx_A           52 QLKAVVQMENLQDAIGAVNSLHRYKIGS--KKILVSLATGAS   91 (96)
T ss_dssp             TCCEEEEESSHHHHHHHHHHHTTEEETT--EEEEEEECCCSS
T ss_pred             CeEEEEEECCHHHHHHHHHHhCCCEECC--eEEEEEEcCCCC
Confidence            9999999999999999999999999977  789999997653

>2cqd_A RNA-binding region containing protein 1; RNA recognition motif, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=98.98  E-value=5.9e-10  Score=69.38  Aligned_cols=46  Identities=30%  Similarity=0.339  Sum_probs=41.0

Q ss_pred             CCCCCCCccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecCCC
Q psy6355           1 MKGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSP   49 (83)
Q Consensus         1 ~Dk~TG~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~~~   49 (83)
                      .|+.+|.++|||||.|.+.++|++||+.||+ .+.|  ++|.|.++...
T Consensus        51 ~~~~~~~~~g~afV~f~~~~~a~~Ai~~~~~-~~~g--~~l~V~~a~~~   96 (116)
T 2cqd_A           51 TDRQTGKSRGYGFVTMADRAAAERACKDPNP-IIDG--RKANVNLAYLG   96 (116)
T ss_dssp             CCSSSCCCCSEEEEEESSHHHHHHHHTCSSC-EETT--EECEEEESTTT
T ss_pred             EcCCCCccceEEEEEECCHHHHHHHHHhCCC-cCCC--EEEEEEEcccC
Confidence            3678899999999999999999999999998 7866  78999999754

>1jmt_A Splicing factor U2AF 35 kDa subunit; RRM, RNA splicing, proline, PPII helix, peptide recognition, RNA binding protein; 2.20A {Homo sapiens} SCOP: d.58.7.3

Probab=98.97  E-value=5.1e-10  Score=69.91  Aligned_cols=40  Identities=25%  Similarity=0.429  Sum_probs=36.8

Q ss_pred             CCCccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEec
Q psy6355           5 TDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFA   46 (83)
Q Consensus         5 TG~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA   46 (83)
                      +|.+||||||.|.+.++|++|++.|||..+.|  ++|.|.|+
T Consensus        64 ~~~~~G~~fV~f~~~~~A~~A~~~lng~~~~G--r~i~v~~s  103 (104)
T 1jmt_A           64 GDHLVGNVYVKFRREEDAEKAVIDLNNRWFNG--QPIHAELS  103 (104)
T ss_dssp             SSSSEEEEEEEESCHHHHHHHHHHHTTCEETT--EECCEEEC
T ss_pred             CCCccEEEEEEECCHHHHHHHHHHHCCCEECC--EEEEEEEc
Confidence            47899999999999999999999999999977  67888886

>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=98.97  E-value=4.4e-10  Score=67.35  Aligned_cols=44  Identities=30%  Similarity=0.317  Sum_probs=39.2

Q ss_pred             CCCCCCccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecCC
Q psy6355           2 KGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANS   48 (83)
Q Consensus         2 Dk~TG~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~~   48 (83)
                      |+. |.++|||||.|.+.++|++|++.|||..+.|  ++|.|+++..
T Consensus        51 ~~~-g~~~g~afV~f~~~~~a~~A~~~l~g~~~~g--~~l~V~~a~~   94 (95)
T 2ywk_A           51 DRE-GKPKSFGFVCFKHPESVSYAIALLNGIRLYG--RPINVSGPSS   94 (95)
T ss_dssp             CTT-SCEEEEEEEEESSTHHHHHHHHHHTTCEETT--EECEEECCCC
T ss_pred             CCC-CCCceEEEEEECCHHHHHHHHHHhCCCEECC--CEEEEEEcCC
Confidence            453 8999999999999999999999999999976  7799998853

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

Probab=98.97  E-value=1.7e-10  Score=68.05  Aligned_cols=44  Identities=20%  Similarity=0.337  Sum_probs=37.6

Q ss_pred             CCCCCCCccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEec
Q psy6355           1 MKGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFA   46 (83)
Q Consensus         1 ~Dk~TG~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA   46 (83)
                      .|+.+|.++|||||.|.+.++|++|++.|||..+.|  +.|.|+++
T Consensus        39 ~~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g--~~~~~~~~   82 (85)
T 1x4e_A           39 LDKTTNKCKGYGFVDFDSPSAAQKAVTALKASGVQA--QMAKQSGP   82 (85)
T ss_dssp             CCSSSCSCCSEEEEEESCHHHHHHHHHHHHHHTCCE--ESCCSSCC
T ss_pred             ecCCCCCcCcEEEEEECCHHHHHHHHHHhcCCeEee--EEEeecCC
Confidence            367789999999999999999999999999999976  45655543

>1wel_A RNA-binding protein 12; structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=98.96  E-value=3.3e-10  Score=71.67  Aligned_cols=44  Identities=16%  Similarity=0.110  Sum_probs=39.8

Q ss_pred             CCCCCCccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecCC
Q psy6355           2 KGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANS   48 (83)
Q Consensus         2 Dk~TG~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~~   48 (83)
                      |+.+|.++|||||.|.+.++|++||+ |||..+.|  +.|.|.++..
T Consensus        60 ~~~~g~~~G~afV~F~~~~~a~~Al~-~~g~~~~g--r~i~V~~a~~  103 (124)
T 1wel_A           60 YGPNGKATGEGFVEFRNEADYKAALC-RHKQYMGN--RFIQVHPITK  103 (124)
T ss_dssp             ECTTSSEEEEEEEEBSSSHHHHHHHT-SCSBCSTT--SCBEEEEECH
T ss_pred             ECCCCCCCeEEEEEECCHHHHHHHHH-hCCCeECC--cEEEEEECCH
Confidence            56789999999999999999999999 99999977  6799998864

>2cq4_A RNA binding motif protein 23; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=98.96  E-value=3.2e-10  Score=70.38  Aligned_cols=46  Identities=20%  Similarity=0.242  Sum_probs=41.2

Q ss_pred             CCCCCCCccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecCCC
Q psy6355           1 MKGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSP   49 (83)
Q Consensus         1 ~Dk~TG~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~~~   49 (83)
                      .|+.+|.++|||||.|.+.++|++|| .|||..+.|  ++|.|.++...
T Consensus        59 ~~~~~g~~~g~afV~f~~~~~a~~A~-~l~g~~~~g--~~l~V~~a~~~  104 (114)
T 2cq4_A           59 SDRNSRRSKGIAYVEFCEIQSVPLAI-GLTGQRLLG--VPIIVQASQAE  104 (114)
T ss_dssp             CSCCSSSCCCCEEEEESCGGGHHHHH-HHTTEEETT--EEEEEEEHHHH
T ss_pred             ecCCCCccCcEEEEEeCcHHHHHHHH-HcCCCEeCC--eEEEEEecCCC
Confidence            37788999999999999999999999 999999977  67999998653

>1nu4_A U1A RNA binding domain; RNA recognition motif, U1 small nuclear ribonucleoprotein, R binding domain, RNA binding protein; HET: MLA; 1.80A {Homo sapiens} SCOP: d.58.7.1 PDB: 1drz_A* 1urn_A 3hhn_B* 3egz_A* 1zzn_A* 1u6b_A* 3cun_A* 3cul_A* 3g8s_A* 3g8t_A* 3g96_A* 3g9c_A* 3irw_P* 3mum_P* 3mur_P* 3mut_P* 3muv_P* 3mxh_P* 3p49_B 3r1h_A* ...

Probab=98.95  E-value=3e-10  Score=68.33  Aligned_cols=45  Identities=20%  Similarity=0.318  Sum_probs=40.3

Q ss_pred             CCCccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecCCCCC
Q psy6355           5 TDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSPSS   51 (83)
Q Consensus         5 TG~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~~~~~   51 (83)
                      +|.++|||||.|.+.++|++|++.|||..+.|  ++|.|.++.+...
T Consensus        47 ~~~~~g~afV~f~~~~~A~~A~~~l~g~~~~g--~~l~v~~a~~~~~   91 (97)
T 1nu4_A           47 SLKMRGQAFVIFKEVSSATNALRSMQGFPFYD--KPMRIQYAKTDSD   91 (97)
T ss_dssp             HHHHTTCEEEEESSHHHHHHHHHHHTTCEETT--EECEEEECSSCCT
T ss_pred             CCCcCcEEEEEeCCHHHHHHHHHHhCCCEECC--cEEEEEEccCCCc
Confidence            46789999999999999999999999999976  7899999987654

>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=98.95  E-value=1.1e-09  Score=67.41  Aligned_cols=46  Identities=22%  Similarity=0.247  Sum_probs=40.4

Q ss_pred             CCCCccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecCCCCC
Q psy6355           4 FTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSPSS   51 (83)
Q Consensus         4 ~TG~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~~~~~   51 (83)
                      .++.++|||||.|.+.++|++||+.|||..+.|  ++|.|.++.....
T Consensus        56 ~~~~~~g~afV~f~~~~~A~~A~~~l~g~~~~g--~~l~V~~a~~~~~  101 (109)
T 1x4a_A           56 NRRGGPPFAFVEFEDPRDAEDAVYGRDGYDYDG--YRLRVEFPRSGRG  101 (109)
T ss_dssp             CSSSSSCCEEEEESCHHHHHHHHHHHTTCEETT--EECEEECCCCCCC
T ss_pred             ECCCCCcEEEEEECCHHHHHHHHHHcCCCEECC--eEEEEEEcccCCC
Confidence            356789999999999999999999999999976  6899999976543

>1wez_A HnRNP H', FTP-3, heterogeneous nuclear ribonucleoprotein H'; structural genomics, RRM domain, riken structural genomics/proteomics initiative, RSGI; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=98.95  E-value=7.7e-10  Score=68.47  Aligned_cols=45  Identities=7%  Similarity=-0.020  Sum_probs=39.1

Q ss_pred             CCCCCCccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecCCCC
Q psy6355           2 KGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSPS   50 (83)
Q Consensus         2 Dk~TG~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~~~~   50 (83)
                      |+ +|++||||||.|.+.++|++|| .+|++.+.|  +.|.|..+....
T Consensus        49 d~-~g~~~G~afV~F~~~~~a~~Al-~~~~~~~~g--r~i~V~~~~~~~   93 (102)
T 1wez_A           49 GP-DGRVTGEADVEFATHEDAVAAM-AKDKANMQH--RYVELFLNSTAG   93 (102)
T ss_dssp             SS-SSCEEEEEEEECSSSHHHHHHH-TTSSCCSSS--SCCEEEEECCCC
T ss_pred             CC-CCCEeeEEEEEECCHHHHHHHH-HhCCCeECC--cEEEEEECCCCC
Confidence            66 8999999999999999999999 579999976  679998876553

>3egn_A RNA-binding protein 40; RNA recognition motif (RRM), RNP motif, U11/U12-65K protein, DI-snRNP, U1A protein, U2B protein; 2.50A {Homo sapiens}

Probab=98.93  E-value=6.5e-10  Score=71.54  Aligned_cols=47  Identities=28%  Similarity=0.398  Sum_probs=41.4

Q ss_pred             CCCCccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecCCCCCC
Q psy6355           4 FTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSPSSS   52 (83)
Q Consensus         4 ~TG~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~~~~~~   52 (83)
                      .+|.++|||||.|.+.++|++||+.|||..+.|  ++|.|.+|.....+
T Consensus        87 ~~g~~~g~afV~f~~~~~A~~Ai~~lng~~~~g--~~l~V~~a~~~~~~  133 (143)
T 3egn_A           87 KEGRMKGQAFIGLPNEKAAAKALKEANGYVLFG--KPMVVQFARSARPK  133 (143)
T ss_dssp             EETTTEEEEEEECSSHHHHHHHHHHHTTBEETT--EECEEEECCCSCC-
T ss_pred             cCCCcccEEEEEeCCHHHHHHHHHHhCCCEeCC--cEEEEEECCCCCCc
Confidence            479999999999999999999999999999977  78999999765443

>1iqt_A AUF1, heterogeneous nuclear ribonucleoprotein D0; RNA-binding protein, hnRNP, telomere, DNA-binding protein, RNA binding protein; NMR {Homo sapiens} SCOP: d.58.7.1 PDB: 1wtb_A 1x0f_A

Probab=98.93  E-value=8.1e-10  Score=63.59  Aligned_cols=43  Identities=19%  Similarity=0.166  Sum_probs=37.3

Q ss_pred             CCCCCCCccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEec
Q psy6355           1 MKGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFA   46 (83)
Q Consensus         1 ~Dk~TG~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA   46 (83)
                      .|+.+|.++|||||.|.+.++|++|++. ++..+.|  +.|.|++|
T Consensus        33 ~~~~~~~~~g~afV~f~~~~~a~~Ai~~-~~~~~~g--~~l~v~~a   75 (75)
T 1iqt_A           33 MDNKTNKRRGFCFITFKEEEPVKKIMEK-KYHNVGL--SKCEIKVA   75 (75)
T ss_dssp             CSCCCSSSCCCEEEECSSSHHHHHHHTT-SSCCBTT--BCCCEEEC
T ss_pred             ecCCCCCcCCEEEEEECCHHHHHHHHHh-CCCeECC--EEEEEEEC
Confidence            3678899999999999999999999985 8888977  56888765

>2cjk_A Nuclear polyadenylated RNA-binding protein 4; HRP1, RNA-binding, RNA processing, mRNA processing, nonsense-mediated mRNA decay, cleavage; NMR {Saccharomyces cerevisiae} PDB: 2km8_C

Probab=98.93  E-value=1.5e-09  Score=69.70  Aligned_cols=45  Identities=24%  Similarity=0.197  Sum_probs=40.5

Q ss_pred             CCCCCCccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecCCC
Q psy6355           2 KGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSP   49 (83)
Q Consensus         2 Dk~TG~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~~~   49 (83)
                      |+.+|.++|||||.|.+.++|++|++ |||..+.|  ++|.|++|.+.
T Consensus       122 ~~~~g~~~g~afV~f~~~~~a~~A~~-~~~~~~~g--~~i~V~~a~pk  166 (167)
T 2cjk_A          122 DKDTGQSRGFGFVTYDSADAVDRVCQ-NKFIDFKD--RKIEIKRAEPR  166 (167)
T ss_dssp             SSSSSTTSEEEEEEESSHHHHHHHHH-CSEECSSS--SCEEEEECCCC
T ss_pred             cCCCCccceEEEEEECCHHHHHHHHh-CCCEEeCC--eEEEEeecCCC
Confidence            66789999999999999999999998 89999977  67999998754

>3v4m_A Splicing factor U2AF 65 kDa subunit; canonical RNA binding protein, RNA splicing, structural GENO joint center for structural genomics, JCSG; HET: MSE; 1.80A {Mus musculus} PDB: 1o0p_A 1opi_A

Probab=98.93  E-value=1.1e-09  Score=68.56  Aligned_cols=41  Identities=17%  Similarity=0.227  Sum_probs=37.5

Q ss_pred             CCccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecCC
Q psy6355           6 DFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANS   48 (83)
Q Consensus         6 G~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~~   48 (83)
                      +.++|++||.|.+.++|.+|++.|||..+.|  ++|.|.|++.
T Consensus        56 ~~~~G~~fV~f~~~~~A~~Ai~~lnG~~f~G--R~i~v~~~~~   96 (105)
T 3v4m_A           56 VPGCGKIFVEFTSVFDCQKAMQGLTGRKFAN--RVVVTKYCDP   96 (105)
T ss_dssp             CTTTTEEEEEESSHHHHHHHHHHHTTCEETT--EECEEEEECH
T ss_pred             cCCcEEEEEEECCHHHHHHHHHHhCCCEeCC--CEEEEEEeCH
Confidence            4789999999999999999999999999977  7899999764

>1x4b_A Heterogeneous nuclear ribonucleoproteins A2/B1; structure genomics, RRM domain, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=98.92  E-value=9.3e-10  Score=68.45  Aligned_cols=49  Identities=20%  Similarity=0.224  Sum_probs=42.7

Q ss_pred             CCCCCCCccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecCCCCCC
Q psy6355           1 MKGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSPSSS   52 (83)
Q Consensus         1 ~Dk~TG~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~~~~~~   52 (83)
                      .|+.+|.++|||||.|.+.++|++||+. ||..+.|  +.|.|.++.+....
T Consensus        61 ~~~~~g~~~g~afV~f~~~~~a~~Ai~~-~~~~~~g--~~l~V~~a~~~~~~  109 (116)
T 1x4b_A           61 RDPASKRSRGFGFVTFSSMAEVDAAMAA-RPHSIDG--RVVEPKRAVAREES  109 (116)
T ss_dssp             CCTTTSSCCSEEEEECSSHHHHHHHHTS-CSEEETT--EEEEEECCSSCCCC
T ss_pred             ECCCCCCcCceEEEEeCCHHHHHHHHHh-CCcEECC--EEEEEEECCCCccC
Confidence            3678899999999999999999999998 9988977  67999998766443

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

Probab=98.91  E-value=1.8e-09  Score=67.20  Aligned_cols=43  Identities=16%  Similarity=0.169  Sum_probs=38.0

Q ss_pred             CCCCCCccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecCC
Q psy6355           2 KGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANS   48 (83)
Q Consensus         2 Dk~TG~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~~   48 (83)
                      |+. |.+||||||.|.+.++|++||+ +||..+.|  ++|.|.++..
T Consensus        46 d~~-g~~rG~aFV~F~~~e~a~~Ai~-~~~~~~~g--r~l~V~~~~~   88 (103)
T 1s79_A           46 TLH-KAFKGSIFVVFDSIESAKKFVE-TPGQKYKE--TDLLILFKDD   88 (103)
T ss_dssp             CCT-TSCCCEEEEEESSHHHHHHHHT-SSCCCCTT--TTCEEEEHHH
T ss_pred             CCC-CCCccEEEEEECCHHHHHHHHH-cCCCEECC--EEEEEEEchH
Confidence            665 9999999999999999999999 89999977  6789987653

>2g4b_A Splicing factor U2AF 65 kDa subunit; protein-RNA complex, RNA splicing factor, RNA recognition motif, RNA binding protein/RNA complex; 2.50A {Homo sapiens} PDB: 2u2f_A

Probab=98.90  E-value=8.2e-10  Score=71.28  Aligned_cols=44  Identities=20%  Similarity=0.234  Sum_probs=40.1

Q ss_pred             CCCCCCccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecC
Q psy6355           2 KGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFAN   47 (83)
Q Consensus         2 Dk~TG~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~   47 (83)
                      |+.+|.++|||||.|.+.++|++|++.|||..+.|  ++|.|++|.
T Consensus       129 ~~~~g~~~g~afV~f~~~~~A~~A~~~l~g~~~~g--~~l~V~~As  172 (172)
T 2g4b_A          129 DSATGLSKGYAFCEYVDINVTDQAIAGLNGMQLGD--KKLLVQRAS  172 (172)
T ss_dssp             CTTTCSEEEEEEEEESSTTHHHHHHHHHTTCEETT--EECEEEECC
T ss_pred             cCCCCCcceEEEEEeCCHHHHHHHHHHcCCCEECC--eEEEEEeCC
Confidence            56789999999999999999999999999999977  679999873

>2yh0_A Splicing factor U2AF 65 kDa subunit; PRE-mRNA splicing, transcription, RNA binding protein, mRNA processing; NMR {Homo sapiens} PDB: 2yh1_A

Probab=98.90  E-value=9.7e-10  Score=72.38  Aligned_cols=48  Identities=19%  Similarity=0.205  Sum_probs=43.0

Q ss_pred             CCCCCCccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecCCCCC
Q psy6355           2 KGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSPSS   51 (83)
Q Consensus         2 Dk~TG~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~~~~~   51 (83)
                      |+.+|.++|||||.|.+.++|++|++.|||..+.|  ++|.|.++.+...
T Consensus       149 ~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g--~~l~v~~a~~~~~  196 (198)
T 2yh0_A          149 DSATGLSKGYAFCEYVDINVTDQAIAGLNGMQLGD--KKLLVQRASVGAK  196 (198)
T ss_dssp             CTTTCSEEEEEEEEESSSSHHHHHHHHHTTCEETT--EECEEEESCCCCC
T ss_pred             cCCCCCcceEEEEEECCHHHHHHHHHHcCCCEECC--EEEEEEECCCCCC
Confidence            56689999999999999999999999999999977  6799999987644

>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=98.89  E-value=3.1e-09  Score=64.65  Aligned_cols=45  Identities=29%  Similarity=0.497  Sum_probs=39.7

Q ss_pred             CCccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecCCCCCC
Q psy6355           6 DFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSPSSS   52 (83)
Q Consensus         6 G~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~~~~~~   52 (83)
                      +.++|||||.|.+.++|++||+.|||..+.|  ++|.|.++.+...+
T Consensus        52 ~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g--~~l~v~~a~~~~~~   96 (103)
T 2cq3_A           52 RGSKGFGFVTFENSADADRAREKLHGTVVEG--RKIEVNNATARVMT   96 (103)
T ss_dssp             TTTCCEEEEEESCHHHHHHHHHHHTTCEETT--EECEEEECCSSCCC
T ss_pred             CCCcEEEEEEECCHHHHHHHHHHhCCCEECC--EEEEEEEcccCCCC
Confidence            3489999999999999999999999999977  77999999876544

>2lmi_A GRSF-1, G-rich sequence factor 1; G-rich RNA sequence binding factor, RNA binding domain, STRU genomics, joint center for structural genomics, JCSG; NMR {Homo sapiens}

Probab=98.89  E-value=1.5e-09  Score=67.15  Aligned_cols=43  Identities=12%  Similarity=0.037  Sum_probs=38.0

Q ss_pred             CCCCCCccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecCC
Q psy6355           2 KGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANS   48 (83)
Q Consensus         2 Dk~TG~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~~   48 (83)
                      |+. |.++|||||.|.+.++|++||+ |||..+.|  +.|.|.++.+
T Consensus        49 ~~~-g~~~G~afV~F~~~~~a~~Al~-~~~~~~~g--r~i~V~~a~~   91 (107)
T 2lmi_A           49 NRD-GKRRGDALIEMESEQDVQKALE-KHRMYMGQ--RYVEVYEINN   91 (107)
T ss_dssp             CTT-STTCSEEEEEBSSHHHHHHHHT-TTTCCSSS--SCCCCEECCH
T ss_pred             CCC-CCEeeEEEEEECCHHHHHHHHH-hCcceeCC--eEEEEEECCH
Confidence            665 9999999999999999999999 99999976  6788888754

>2dh8_A DAZ-associated protein 1; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=98.88  E-value=5.7e-10  Score=68.20  Aligned_cols=47  Identities=17%  Similarity=0.203  Sum_probs=41.5

Q ss_pred             CCCCCCccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecCCCCC
Q psy6355           2 KGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSPSS   51 (83)
Q Consensus         2 Dk~TG~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~~~~~   51 (83)
                      |+.+|.++|||||.|.+.++|++||+. ||..+.|  +.|.|+++.+...
T Consensus        51 ~~~~g~~~g~afV~f~~~~~a~~a~~~-~~~~~~g--~~l~V~~a~~~~~   97 (105)
T 2dh8_A           51 DKTTNQSRGFGFVKFKDPNCVGTVLAS-RPHTLDG--RNIDPKPCTPRGM   97 (105)
T ss_dssp             CSSSCCEEEEEEEEESSTTHHHHHHHH-CSEEETT--EEEBCCCSCCSSC
T ss_pred             CCCCCCcceEEEEEECCHHHHHHHHHh-CCCeECC--EEEEEEEccCCCC
Confidence            677899999999999999999999998 9999977  6799999876544

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

Probab=98.88  E-value=1.7e-09  Score=68.59  Aligned_cols=42  Identities=24%  Similarity=0.236  Sum_probs=37.5

Q ss_pred             CCccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecCCC
Q psy6355           6 DFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSP   49 (83)
Q Consensus         6 G~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~~~   49 (83)
                      +.++|||||.|.+.++|++||+.|||..+.|  ++|.|+++..+
T Consensus        64 ~~~rGfaFV~F~~~e~A~~Ai~~lng~~l~G--r~i~V~~a~~~  105 (111)
T 2jvr_A           64 RDFDGTGALEFPSEEILVEALERLNNIEFRG--SVITVERDDNP  105 (111)
T ss_dssp             CSSSCCEEEEESSHHHHHHHHHHTTTEEETT--EEEEEEESCC-
T ss_pred             CCCCCEEEEEECCHHHHHHHHHHcCCCEECC--eEEEEEECCCC
Confidence            5689999999999999999999999999977  67999998654

>2cpy_A RNA-binding protein 12; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=98.87  E-value=1.2e-09  Score=68.30  Aligned_cols=45  Identities=9%  Similarity=0.078  Sum_probs=39.8

Q ss_pred             CCCCCCCccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecCCC
Q psy6355           1 MKGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSP   49 (83)
Q Consensus         1 ~Dk~TG~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~~~   49 (83)
                      +|+ +|.++|||||.|.+.++|++||+. ||..+.|  ++|.|.++...
T Consensus        50 ~d~-~g~~~G~afV~F~~~~~a~~Al~~-~~~~~~g--r~i~v~~a~~~   94 (114)
T 2cpy_A           50 VDN-NGQGLGQALVQFKNEDDARKSERL-HRKKLNG--REAFVHVVTLE   94 (114)
T ss_dssp             CCT-TSSCSSCEEEECSSHHHHHHHGGG-CSEEETT--EEEEEEEECHH
T ss_pred             ECC-CCCcceEEEEEECCHHHHHHHHHh-CCCccCC--eEEEEEECCHH
Confidence            367 899999999999999999999987 9988977  78999998654

>1fje_B Nucleolin RBD12, protein C23; RNP, RRM, RNA binding domain, RNA-protein complex, nucleolus, structural protein/RNA complex; NMR {Mesocricetus auratus} SCOP: d.58.7.1 d.58.7.1 PDB: 1rkj_A 2krr_A

Probab=98.87  E-value=1.9e-09  Score=70.07  Aligned_cols=44  Identities=16%  Similarity=0.385  Sum_probs=40.1

Q ss_pred             CCCCccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecCCC
Q psy6355           4 FTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSP   49 (83)
Q Consensus         4 ~TG~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~~~   49 (83)
                      .+|.++|||||.|.+.++|.+|++.|||..+.|  ++|.|+||.+.
T Consensus       131 ~~~~~~g~afV~f~~~~~A~~A~~~l~g~~~~g--~~i~v~~a~~k  174 (175)
T 1fje_B          131 QDGKSKGIAYIEFKSEADAEKNLEEKQGAEIDG--RSVSLYYTGEK  174 (175)
T ss_dssp             SSSSCCSEEEEECSSHHHHHHHHHHHTEEEETT--EEEEEEECSSC
T ss_pred             CCCCCceEEEEEECCHHHHHHHHHHhCCCEECC--eEEEEEecCCC
Confidence            578999999999999999999999999999977  67999999753

>2f3j_A RNA and export factor binding protein 2; RRM domain, RBD domain., transport protein; NMR {Mus musculus}

Probab=98.86  E-value=3.2e-09  Score=71.62  Aligned_cols=45  Identities=18%  Similarity=0.349  Sum_probs=41.0

Q ss_pred             CCCCCCccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecCCC
Q psy6355           2 KGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSP   49 (83)
Q Consensus         2 Dk~TG~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~~~   49 (83)
                      |+ +|.++|||||.|.+.++|++||+.|||..+.|  ++|.|.+|...
T Consensus       123 d~-~g~~kG~afV~F~~~~~A~~Ai~~lng~~l~G--r~l~V~~a~~~  167 (177)
T 2f3j_A          123 DR-SGRSLGTADVHFERRADALKAMKQYKGVPLDG--RPMDIQLVASQ  167 (177)
T ss_dssp             CT-TSSCSCCEEEEESCHHHHHHHHHHSTTCBCSS--SBCEEEEESSG
T ss_pred             CC-CCCEeeEEEEEeCCHHHHHHHHHHhCCCEECC--EEEEEEEecCC
Confidence            56 89999999999999999999999999999977  67999998754

>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=98.86  E-value=1.4e-09  Score=64.25  Aligned_cols=42  Identities=26%  Similarity=0.301  Sum_probs=36.8

Q ss_pred             CCCCCCccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEec
Q psy6355           2 KGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFA   46 (83)
Q Consensus         2 Dk~TG~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA   46 (83)
                      |+.+|.++|||||.|.+.++|++|++. +++.+.|  +.|.|++|
T Consensus        46 ~~~~g~~~g~afV~f~~~~~a~~A~~~-~~~~~~g--~~i~v~~A   87 (87)
T 3s7r_A           46 DPNTGRSRGFGFILFKDAASVEKVLDQ-KEHRLDG--RVIDPKKA   87 (87)
T ss_dssp             CTTTCCEEEEEEEEESSTHHHHHHHHS-SCEEETT--EEEEEEEC
T ss_pred             cCCCCccccEEEEEECCHHHHHHHHHh-CCCEECC--EEEEEEeC
Confidence            678899999999999999999999964 7878877  67888875

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

Probab=98.86  E-value=2.9e-09  Score=64.41  Aligned_cols=44  Identities=25%  Similarity=0.351  Sum_probs=39.2

Q ss_pred             CccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecCCCCCC
Q psy6355           7 FCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSPSSS   52 (83)
Q Consensus         7 ~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~~~~~~   52 (83)
                      .++|||||.|.+.++|++||+.|||..+.|  ++|.|.++.+....
T Consensus        47 ~~~g~afV~f~~~~~a~~Ai~~l~g~~~~g--~~l~v~~a~~~~~~   90 (97)
T 1x5p_A           47 PPRNCAFVTYEKMESADQAVAELNGTQVES--VQLKVNIARKQPML   90 (97)
T ss_dssp             TTTTEEEEEESSHHHHHHHHHHTTTEEETT--EEEEEECCSSCCCC
T ss_pred             CCCCEEEEEECCHHHHHHHHHHhCCCeECC--eEEEEEECCCCCCC
Confidence            689999999999999999999999999976  78999999876544

>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=98.86  E-value=3.1e-09  Score=67.81  Aligned_cols=48  Identities=29%  Similarity=0.407  Sum_probs=42.7

Q ss_pred             CCCCCCccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecCCCCC
Q psy6355           2 KGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSPSS   51 (83)
Q Consensus         2 Dk~TG~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~~~~~   51 (83)
                      |+.+|.++|||||.|.+.++|++|++.|||..+.|  ++|.|.++.+...
T Consensus        37 ~~~~~~~~g~afV~f~~~~~A~~a~~~l~~~~~~g--~~l~v~~~~~~~~   84 (167)
T 1fxl_A           37 DKITGQSLGYGFVNYIDPKDAEKAINTLNGLRLQT--KTIKVSYARPSSA   84 (167)
T ss_dssp             CTTTCCEEEEEEEEESSHHHHHHHHHHHTTCEETT--EECEEEECCCCCG
T ss_pred             CCCCCcceeEEEEEECCHHHHHHHHHHcCCCccCC--ceEEEEecCCCcc
Confidence            56789999999999999999999999999999966  7799999876543

>1wg5_A Heterogeneous nuclear ribonucleoprotein H; structural genomics, RRM domain, riken structural genomics/proteomics initiative, RSGI; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=98.86  E-value=4.1e-09  Score=64.80  Aligned_cols=43  Identities=16%  Similarity=0.165  Sum_probs=38.1

Q ss_pred             CCCCccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecCCC
Q psy6355           4 FTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSP   49 (83)
Q Consensus         4 ~TG~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~~~   49 (83)
                      .+|.++|||||.|.+.++|++||+. ||..+.|  +.|.|..+...
T Consensus        52 ~~g~~~G~afV~F~~~~~a~~A~~~-~~~~~~g--r~i~v~~~~~~   94 (104)
T 1wg5_A           52 FQGRSTGEAFVQFASQEIAEKALKK-HKERIGH--RYIEIFKSSRA   94 (104)
T ss_dssp             SSSCBCSEEEEEESSHHHHHHHHTT-TTCCSSS--SCCEEEEECTT
T ss_pred             CCCCcceEEEEEECCHHHHHHHHHh-CcchhCC--cEEEEEECCHH
Confidence            5899999999999999999999997 9999977  57999887643

>2dnn_A RNA-binding protein 12; RRM domain, RBD, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=98.85  E-value=2.6e-09  Score=67.43  Aligned_cols=43  Identities=14%  Similarity=0.060  Sum_probs=37.4

Q ss_pred             CCCCCCCccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecC
Q psy6355           1 MKGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFAN   47 (83)
Q Consensus         1 ~Dk~TG~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~   47 (83)
                      +|+. |+++|||||.|.+.++|++|| .|||+.+.|  +.|.|..+.
T Consensus        49 ~d~~-g~~~G~afV~F~~~~~a~~Al-~~~~~~~~g--r~i~V~~a~   91 (109)
T 2dnn_A           49 KDHV-GRNNGNGLVKFLSPQDTFEAL-KRNRMLMIQ--RYVEVSPAT   91 (109)
T ss_dssp             CCTT-CCCCSEEEEECSSHHHHHHHH-HTTTEEETT--EEEEEEECC
T ss_pred             ECCC-CCCCeEEEEEECCHHHHHHHH-hcCCCeECC--eEEEEEECC
Confidence            3664 999999999999999999999 699999977  678997764

>2cqh_A IGF-II mRNA-binding protein 2 isoform A; RNA recognition motif, RRM, RNA binding domain, RBD, RNP, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=98.85  E-value=2.5e-09  Score=64.00  Aligned_cols=44  Identities=23%  Similarity=0.300  Sum_probs=38.7

Q ss_pred             CccceEEEEeCCHHHHHHHHHHhCC-CCCCCCCcceEEEecCCCCCC
Q psy6355           7 FCRYLGFIRFDQRIEAERAIQELNG-TIPKGSNEPITVKFANSPSSS   52 (83)
Q Consensus         7 ~SrG~gFV~F~~~e~A~~AI~~LnG-~~~~G~~~~l~V~fA~~~~~~   52 (83)
                      .++|||||.|.+.++|++|++.||| ..+.|  ++|.|.++.+...+
T Consensus        42 ~~~g~afV~f~~~~~A~~A~~~l~g~~~~~g--~~l~v~~a~~~~~~   86 (93)
T 2cqh_A           42 LKSGYAFVDYPDQNWAIRAIETLSGKVELHG--KIMEVDYSVSKKLR   86 (93)
T ss_dssp             EETTEEEECCSCHHHHHHHHHHHTTTCEETT--EECEEEECCCCCCC
T ss_pred             cCCCEEEEEECCHHHHHHHHHHccCCeeECC--EEEEEEEccCcccc
Confidence            3689999999999999999999999 78877  78999999876554

>3ue2_A Poly(U)-binding-splicing factor PUF60; RNA recognition motif, RRM, RNA binding domain, ST genomics, joint center for structural genomics, JCSG; HET: MSE; 1.23A {Homo sapiens} SCOP: d.58.7.0 PDB: 3us5_A 2dny_A

Probab=98.84  E-value=2e-09  Score=69.03  Aligned_cols=42  Identities=24%  Similarity=0.271  Sum_probs=38.2

Q ss_pred             CCCccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecCC
Q psy6355           5 TDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANS   48 (83)
Q Consensus         5 TG~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~~   48 (83)
                      ++.++|++||.|.+.++|.+||+.|||..+.|  ++|.|.|++.
T Consensus        67 ~~~~~G~~FV~F~~~e~A~~Ai~~LnGr~f~G--R~i~v~~~~~  108 (118)
T 3ue2_A           67 DAEIIVKIFVEFSIASETHKAIQALNGRWFAG--RKVVAEVYDQ  108 (118)
T ss_dssp             TCEEEEEEEEEESSHHHHHHHHHHHTTCEETT--EECEEEEECH
T ss_pred             CCcceEEEEEEECCHHHHHHHHHHHCCCEECC--cEEEEEEcCh
Confidence            57889999999999999999999999999977  7899998753

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

Probab=98.84  E-value=2.5e-09  Score=66.39  Aligned_cols=42  Identities=31%  Similarity=0.540  Sum_probs=37.9

Q ss_pred             CCccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecCCC
Q psy6355           6 DFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSP   49 (83)
Q Consensus         6 G~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~~~   49 (83)
                      +.++|||||.|.+.++|++|++.|||..+.|  ++|.|+++.+.
T Consensus        66 ~~~kg~afV~f~~~~~A~~Ai~~l~g~~~~g--~~l~V~~a~~~  107 (109)
T 2err_A           66 RGSKGFGFVTFENSADADRAREKLHGTVVEG--RKIEVNNATAR  107 (109)
T ss_dssp             TBCTTEEEEECCCSHHHHHHHHHHTTCEETT--EECEEEECCCS
T ss_pred             CCCceEEEEEECCHHHHHHHHHHcCCCEECC--EEEEEEECCCC
Confidence            4589999999999999999999999999977  77999998653

>1b7f_A Protein (SXL-lethal protein), RNA (5'-R(P*GP*UP*UP*GP*UP*UP*UP*UP*UP*UP*UP*U)-3; splicing regulation, RNP domain, RNA complex; 2.60A {Drosophila melanogaster} SCOP: d.58.7.1 d.58.7.1 PDB: 3sxl_A* 1sxl_A 2sxl_A

Probab=98.83  E-value=3.4e-09  Score=67.94  Aligned_cols=49  Identities=24%  Similarity=0.426  Sum_probs=43.0

Q ss_pred             CCCCCCccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecCCCCCC
Q psy6355           2 KGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSPSSS   52 (83)
Q Consensus         2 Dk~TG~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~~~~~~   52 (83)
                      |+.+|.++|||||.|.+.++|++|++.|||..+.|  ++|.|.++.+....
T Consensus        38 ~~~~~~~~g~afV~f~~~~~A~~a~~~l~~~~~~g--~~l~v~~~~~~~~~   86 (168)
T 1b7f_A           38 DYKTGYSYGYAFVDFTSEMDSQRAIKVLNGITVRN--KRLKVSYARPGGES   86 (168)
T ss_dssp             ETTTTEECSEEEEEESSHHHHHHHHHHHTTCEETT--EECEEEECCCCSST
T ss_pred             eCCCCccceEEEEEECCHHHHHHHHHhcCCCEeCC--cEEEEEecCCCccc
Confidence            56789999999999999999999999999999966  67999998865443

>2dit_A HIV TAT specific factor 1 variant; structural genomics, RRM_1 domain, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=98.83  E-value=4.8e-09  Score=65.39  Aligned_cols=41  Identities=24%  Similarity=0.250  Sum_probs=37.5

Q ss_pred             CccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecCCC
Q psy6355           7 FCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSP   49 (83)
Q Consensus         7 ~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~~~   49 (83)
                      .++|||||.|.+.++|++||+.|||..+.|  ++|.|.++.+.
T Consensus        62 ~~~G~afV~f~~~~~A~~Ai~~lng~~~~g--r~l~v~~a~~~  102 (112)
T 2dit_A           62 HPDGVASVSFRDPEEADYCIQTLDGRWFGG--RQITAQAWDGT  102 (112)
T ss_dssp             CTTCEEEEECSCHHHHHHHHHHSTTCEETT--EECEEEECCSC
T ss_pred             CCCEEEEEEECCHHHHHHHHHHcCCCEECC--cEEEEEEeCCC
Confidence            489999999999999999999999999976  78999998764

>2cqg_A TDP-43, TAR DNA-binding protein-43; RNA recognition motif, RRM, RNA binding domain, RBD, RNP, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=98.82  E-value=4.4e-09  Score=63.99  Aligned_cols=47  Identities=21%  Similarity=0.280  Sum_probs=39.9

Q ss_pred             CCCCCCccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecCCCCCC
Q psy6355           2 KGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSPSSS   52 (83)
Q Consensus         2 Dk~TG~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~~~~~~   52 (83)
                      |+.+|.++|||||.|.+.++|++||+  +++.+.|  +.|.|.++......
T Consensus        50 ~~~~g~~~g~afV~f~~~~~a~~A~~--~~~~~~g--~~l~v~~a~~~~~~   96 (103)
T 2cqg_A           50 DLKTGHSKGFGFVRFTEYETQVKVMS--QRHMIDG--RWCDCKLPNSKQSQ   96 (103)
T ss_dssp             CSSSCSEEEEEEEEESSHHHHHHHHH--SCEEETT--EEEEEECCCTTCCC
T ss_pred             cCCCCCccceEEEEECCHHHHHHHHH--cCCeeCC--eEEEEEecCCCCcC
Confidence            67789999999999999999999998  4667866  67999999875443

>2cpj_A Non-POU domain-containing octamer-binding protein; RNA recognition motif, RRM, RNP, structural genomics, NPPSFA; NMR {Mus musculus} SCOP: d.58.7.1

Probab=98.82  E-value=5.9e-09  Score=63.14  Aligned_cols=43  Identities=35%  Similarity=0.464  Sum_probs=38.0

Q ss_pred             CccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecCCCCC
Q psy6355           7 FCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSPSS   51 (83)
Q Consensus         7 ~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~~~~~   51 (83)
                      .+||||||.|.+.++|++|++.|||..+.|  ++|.|.++.+...
T Consensus        49 ~~kg~afV~f~~~~~a~~a~~~l~g~~~~g--~~l~v~~a~~~~~   91 (99)
T 2cpj_A           49 KDKGFGFIRLETRTLAEIAKVELDNMPLRG--KQLRVRFACHSAS   91 (99)
T ss_dssp             TTTTEEEEECSSSHHHHHHHHHHTTCCBTT--BCCEEEESSCCSC
T ss_pred             cCCCEEEEEECCHHHHHHHHHHhCCCEeCC--ceEEEEEcCCCCC
Confidence            358999999999999999999999999977  7799999976543

>1why_A Hypothetical protein riken cDNA 1810017N16; RNA recognition motif, RRM, RNA binding domain, RBD, RNP, structural genomics; NMR {Mus musculus} SCOP: d.58.7.1

Probab=98.82  E-value=8.2e-09  Score=62.29  Aligned_cols=43  Identities=23%  Similarity=0.380  Sum_probs=37.3

Q ss_pred             cceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecCCCCC
Q psy6355           9 RYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSPSS   51 (83)
Q Consensus         9 rG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~~~~~   51 (83)
                      +|||||.|.+.++|++|++.|||..+.+..++|.|.++.+...
T Consensus        53 ~g~afV~f~~~~~A~~A~~~l~g~~~~~~g~~l~V~~a~~~~~   95 (97)
T 1why_A           53 DSFAYIQYESLDAAQAACAKMRGFPLGGPDRRLRVDFAKSGPS   95 (97)
T ss_dssp             SCCEEEEESSHHHHHHHHHHHTTCBCSSSSCBCEEEECCCCCC
T ss_pred             CCEEEEEECCHHHHHHHHHHHCCCEeCCCCcEEEEEECCCCCC
Confidence            8999999999999999999999999972237899999987543

>2hgl_A HNRPF protein, heterogeneous nuclear ribonucleoprotein F; RNA recognition motif, G-tract, G-quadruplex, alternative, splicing, RNA binding protein; NMR {Homo sapiens} PDB: 2kfy_A

Probab=98.82  E-value=1.7e-09  Score=70.78  Aligned_cols=42  Identities=10%  Similarity=-0.043  Sum_probs=38.0

Q ss_pred             CCCCCCccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecC
Q psy6355           2 KGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFAN   47 (83)
Q Consensus         2 Dk~TG~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~   47 (83)
                      |+. |++||||||.|.+.++|++||+ |||..+.|  ++|.|..+.
T Consensus        82 d~~-g~srG~aFV~F~~~e~a~~Al~-~~g~~l~g--r~i~V~~a~  123 (136)
T 2hgl_A           82 TRE-GRQSGEAFVELGSEDDVKMALK-KDRESMGH--RYIEVFKSH  123 (136)
T ss_dssp             CSS-SCEEEEEEEECSSHHHHHHHHT-TTEEESSS--SEEEEEECC
T ss_pred             CCC-CCCCeEEEEEECCHHHHHHHHh-cCCCEECC--EEEEEEECC
Confidence            665 9999999999999999999999 99999977  679998874

>2db1_A Heterogeneous nuclear ribonucleoprotein F; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Mus musculus}

Probab=98.82  E-value=1.5e-09  Score=68.45  Aligned_cols=43  Identities=9%  Similarity=-0.028  Sum_probs=38.0

Q ss_pred             CCCCCCccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecCC
Q psy6355           2 KGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANS   48 (83)
Q Consensus         2 Dk~TG~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~~   48 (83)
                      |+. |.+||||||.|.+.++|++||+ |||+.+.|  +.|.|.++..
T Consensus        55 ~~~-g~~~G~afV~F~~~~~a~~Al~-~~g~~~~g--r~i~V~~a~~   97 (118)
T 2db1_A           55 TRE-GRQSGEAFVELESEDDVKLALK-KDRESMGH--RYIEVFKSHR   97 (118)
T ss_dssp             CSS-SCEEEEEEEEBSSHHHHHHHGG-GTTEEETT--EEEEEEEECH
T ss_pred             CCC-CCCCeEEEEEECCHHHHHHHHh-cCCCeECC--eEEEEEECCH
Confidence            555 9999999999999999999999 99999976  6799998753

>3lqv_A PRE-mRNA branch site protein P14; cysless mutant, PRE-mRNA splicing, adenine, mRNA processing, nucleus, phosphoprotein, RNA-binding; HET: ADE; 2.38A {Homo sapiens} SCOP: d.58.7.1 PDB: 2f9d_A 2f9j_A 2fho_B

Probab=98.82  E-value=7e-09  Score=64.20  Aligned_cols=45  Identities=18%  Similarity=0.287  Sum_probs=39.7

Q ss_pred             CCCccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecCCCCC
Q psy6355           5 TDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSPSS   51 (83)
Q Consensus         5 TG~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~~~~~   51 (83)
                      ++.++|||||.|.+.++|++|++.|||..+.|  +.|.|.++.+...
T Consensus        43 ~~~~~g~afV~f~~~~~A~~A~~~l~g~~~~g--~~l~v~~a~~~~~   87 (115)
T 3lqv_A           43 TPETRGTAYVVYEDIFDAKNAVDHLSGFNVSN--RYLVVLYYNANRA   87 (115)
T ss_dssp             STTTTTCEEEEESSHHHHHHHHHHHTTCBSSS--CBCEEEECCHHHH
T ss_pred             CCCCCcEEEEEECCHHHHHHHHHHcCCCEECC--eEEEEEEecCChh
Confidence            46789999999999999999999999999977  6799999986443

>1wg1_A KIAA1579 protein, homolog EXC-7; RBD, structural genomics, riken structural genomics/proteomics initiative, RSGI, RNA binding protein; NMR {Homo sapiens} SCOP: d.58.7.1 PDB: 1wi6_A

Probab=98.81  E-value=3.1e-09  Score=63.39  Aligned_cols=41  Identities=17%  Similarity=0.217  Sum_probs=37.2

Q ss_pred             CccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecCCC
Q psy6355           7 FCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSP   49 (83)
Q Consensus         7 ~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~~~   49 (83)
                      .+||||||.|.+.++|++|++.|||..+.|  ++|.|.++...
T Consensus        38 ~~~g~afV~f~~~~~a~~Ai~~l~g~~~~g--~~l~V~~a~~~   78 (88)
T 1wg1_A           38 RNKRTAFVTLLNGEQAQNAIQMFHQYSFRG--KDLIVQLQPTD   78 (88)
T ss_dssp             GGGTEEEECCSCHHHHHHHHHHHTTEEETT--EEEEEEECCCC
T ss_pred             CCCcEEEEEECCHHHHHHHHHHhCCCeECC--cEEEEEEcCCC
Confidence            679999999999999999999999999977  67999998654

>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=98.80  E-value=1.1e-08  Score=66.21  Aligned_cols=41  Identities=24%  Similarity=0.421  Sum_probs=37.4

Q ss_pred             ccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecCCCC
Q psy6355           8 CRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSPS   50 (83)
Q Consensus         8 SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~~~~   50 (83)
                      ++|||||.|.+.++|++||+.|||..+.|  ++|.|+++.++.
T Consensus       109 ~~g~afV~f~~~~~a~~A~~~l~g~~~~g--~~l~v~~a~~~~  149 (150)
T 2i2y_A          109 PPGFAFVEFEDPRDAADAVRELDGRTLCG--CRVRVELSNGEK  149 (150)
T ss_dssp             SCSEEEEEESSHHHHHHHHHHHSSSCSSS--SCCEEEECCCCC
T ss_pred             CCcEEEEEECCHHHHHHHHHHcCCCEECC--eEEEEEEcCCCC
Confidence            79999999999999999999999999976  789999997653

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

Probab=98.79  E-value=1.2e-08  Score=60.86  Aligned_cols=42  Identities=26%  Similarity=0.430  Sum_probs=37.4

Q ss_pred             cceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecCCCCCC
Q psy6355           9 RYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSPSSS   52 (83)
Q Consensus         9 rG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~~~~~~   52 (83)
                      ||||||.|.+.++|++|++.|||..+.|  ++|.|+++.+....
T Consensus        42 ~g~afV~f~~~~~A~~A~~~l~g~~~~g--~~l~v~~a~~~~~~   83 (90)
T 2dnq_A           42 KNYGFVHIEDKTAAEDAIRNLHHYKLHG--VNINVEASKNKSKA   83 (90)
T ss_dssp             TTEEEEEESSHHHHHHHHHHHTTCBCSS--CBCEEECSSCCCCC
T ss_pred             CCEEEEEECCHHHHHHHHHHhcCCccCC--cEEEEEECCCCCCC
Confidence            7999999999999999999999999977  67999999866443

>2cpd_A Apobec-1 stimulating protein; RNA recognition motif, RRM, RNP, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=98.77  E-value=8.3e-09  Score=62.46  Aligned_cols=43  Identities=33%  Similarity=0.550  Sum_probs=38.2

Q ss_pred             CccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecCCCCC
Q psy6355           7 FCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSPSS   51 (83)
Q Consensus         7 ~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~~~~~   51 (83)
                      .+||||||.|.+.++|++||+.|||..+.|  ++|.|.++.+...
T Consensus        49 ~~~g~afV~f~~~~~A~~A~~~l~g~~~~g--~~l~v~~a~~~~~   91 (99)
T 2cpd_A           49 KIRDYAFVHFSNREDAVEAMKALNGKVLDG--SPIEVTLAKPVDK   91 (99)
T ss_dssp             ECSSEEEEEESSHHHHHHHHHHHSSEEETT--EEEEEECCCCCCC
T ss_pred             EeCCeEEEEeCCHHHHHHHHHHhCCCEeCC--cEEEEEECCCCCC
Confidence            468999999999999999999999999976  6899999986544

>2diu_A KIAA0430 protein; structural genomics, RRM domain, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=98.76  E-value=1.5e-08  Score=63.86  Aligned_cols=41  Identities=24%  Similarity=0.276  Sum_probs=37.4

Q ss_pred             ceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecCCCCCC
Q psy6355          10 YLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSPSSS   52 (83)
Q Consensus        10 G~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~~~~~~   52 (83)
                      |+|||.|.+.++|++|++.|||..+.|  ++|+|.||...+..
T Consensus        47 G~AfV~F~~~esA~~A~~~l~G~~l~g--r~i~v~~A~~~sd~   87 (96)
T 2diu_A           47 CSAILRFINQDSAERAQKRMENEDVFG--NRIIVSFTPKNREL   87 (96)
T ss_dssp             TCEEEEESSHHHHHHHHHHHTTCCSSS--SCCEEESSCCSCCC
T ss_pred             CEEEEEECCHHHHHHHHHHhcCCccCC--ceEEEEecCCCcce
Confidence            999999999999999999999999977  78999999876554

>2dgu_A Heterogeneous nuclear ribonucleoprotein Q; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} PDB: 2dk2_A

Probab=98.76  E-value=9.6e-09  Score=62.71  Aligned_cols=44  Identities=36%  Similarity=0.604  Sum_probs=39.0

Q ss_pred             ccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecCCCCCCc
Q psy6355           8 CRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSPSSSN   53 (83)
Q Consensus         8 SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~~~~~~~   53 (83)
                      .+|||||.|.+.++|++||+.|||..+.|  ++|.|.++.+...+.
T Consensus        44 ~~~~afV~f~~~~~a~~A~~~l~g~~~~g--~~l~v~~a~~~~~~~   87 (103)
T 2dgu_A           44 LKDYAFIHFDERDGAVKAMEEMNGKDLEG--ENIEIVFAKPPDQKR   87 (103)
T ss_dssp             CSSCEEEEESSHHHHHHHHHHHTTEEETT--EEEEEEECCCCCCCC
T ss_pred             ECCEEEEEeCCHHHHHHHHHHHCCCccCC--CEEEEEEcCCCcccc
Confidence            47899999999999999999999999976  689999998776553

>2qfj_A FBP-interacting repressor; protein-DNA complex; HET: DNA; 2.10A {Homo sapiens} PDB: 3uwt_A 2kxf_A 2kxh_A

Probab=98.76  E-value=1.8e-08  Score=67.05  Aligned_cols=47  Identities=17%  Similarity=0.258  Sum_probs=39.3

Q ss_pred             CCCCCCccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecCCCC
Q psy6355           2 KGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSPS   50 (83)
Q Consensus         2 Dk~TG~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~~~~   50 (83)
                      |+.+|.++|||||.|.+.++|++|++.|||..+.|  ++|.|.++....
T Consensus        63 ~~~~g~~~g~afV~f~~~~~A~~A~~~l~~~~~~g--~~l~v~~~~~~~  109 (216)
T 2qfj_A           63 DSVTMKHKGFAFVEYEVPEAAQLALEQMNSVMLGG--RNIKVGRPSNIG  109 (216)
T ss_dssp             C-CC-CCCSEEEEEESSHHHHHHHHHHHSSCCCC---CCCEEECCSCCG
T ss_pred             cCCCCccCceEEEEeCCHHHHHHHHHHccCCeeCC--eeEEEecCCCcc
Confidence            67789999999999999999999999999999976  679998876543

>2kvi_A Nuclear polyadenylated RNA-binding protein 3; RNA-binding motif, RRM, transcription termination, NUC phosphoprotein; NMR {Saccharomyces cerevisiae}

Probab=98.75  E-value=1e-08  Score=61.95  Aligned_cols=42  Identities=21%  Similarity=0.347  Sum_probs=36.9

Q ss_pred             ccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecCCCCC
Q psy6355           8 CRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSPSS   51 (83)
Q Consensus         8 SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~~~~~   51 (83)
                      ++|||||.|.+.++|++||+.|||..+.|  ++|.|.++.....
T Consensus        44 ~~g~afV~f~~~~~A~~A~~~l~g~~~~g--~~l~V~~a~~~~~   85 (96)
T 2kvi_A           44 KNAFGFIQFDNPQSVRDAIECESQEMNFG--KKLILEVSSSNAR   85 (96)
T ss_dssp             ETTEEEEEESCHHHHHHHHHHHTCSSCBT--TTBCEEEEECCCC
T ss_pred             eCCEEEEEECCHHHHHHHHHHcCCCeeCC--cEEEEEEcCcCCC
Confidence            58999999999999999999999999977  6799999876543

>1whx_A Hypothetical protein riken cDNA 1200009A02; RNA recognition motif, RRM, RNA binding domain, RBD, RNP, structural genomics; NMR {Mus musculus} SCOP: d.58.7.1

Probab=98.75  E-value=1.1e-08  Score=63.76  Aligned_cols=43  Identities=16%  Similarity=0.150  Sum_probs=37.8

Q ss_pred             CccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecCCCCC
Q psy6355           7 FCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSPSS   51 (83)
Q Consensus         7 ~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~~~~~   51 (83)
                      .++|||||.|.+.++|++||+.|||..+.|  ++|.|.||.....
T Consensus        44 ~~~g~afV~f~~~~~A~~Ai~~l~g~~~~g--~~l~V~~a~~~~~   86 (111)
T 1whx_A           44 EGGITAIVEFLEPLEARKAFRHLAYSKFHH--VPLYLEWAPIGVF   86 (111)
T ss_dssp             SSSSCEEEEESCHHHHHHHHHHHTTCBSSS--SBCEEEEEETTTT
T ss_pred             CCCCEEEEEeCCHHHHHHHHHHhCCCEECC--eEEEEEECCCCcc
Confidence            378999999999999999999999999976  6799999876433

>2cq2_A Hypothetical protein LOC91801; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=98.75  E-value=1e-08  Score=65.91  Aligned_cols=45  Identities=24%  Similarity=0.324  Sum_probs=37.4

Q ss_pred             ccceEEEEeCCHHHHHHHHHHhCCCCC---CCCCcceEEEecCCCCCC
Q psy6355           8 CRYLGFIRFDQRIEAERAIQELNGTIP---KGSNEPITVKFANSPSSS   52 (83)
Q Consensus         8 SrG~gFV~F~~~e~A~~AI~~LnG~~~---~G~~~~l~V~fA~~~~~~   52 (83)
                      +||||||.|.+.++|++||+.|||+.+   .+..++|.|.|+..-...
T Consensus        62 ~rgfaFV~f~~~~~A~~Ai~~lnG~~~~~~lg~g~~l~v~~a~~~p~~  109 (114)
T 2cq2_A           62 NKPYSFARYRTTEESKRAYVTLNGKEVVDDLGQKITLYLNFVEKVQWS  109 (114)
T ss_dssp             TCSCEEEEESSHHHHHHHHHHTTTCEEECTTSCEEECEEEEESCCCCS
T ss_pred             CCCEEEEEECCHHHHHHHHHHhCCCEEccccCCCcEEEEEecccCccc
Confidence            489999999999999999999999965   334578999998754443

>2xnq_A Nuclear polyadenylated RNA-binding protein 3; transcription termination, RNA processi recognition, RRM; HET: CAF; 1.30A {Saccharomyces cerevisiae} PDB: 2xnr_A 2l41_A

Probab=98.75  E-value=1.1e-08  Score=62.35  Aligned_cols=40  Identities=23%  Similarity=0.385  Sum_probs=36.3

Q ss_pred             ccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecCCC
Q psy6355           8 CRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSP   49 (83)
Q Consensus         8 SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~~~   49 (83)
                      ++|||||.|.+.++|++|++.|||..+.|  +.|.|.++...
T Consensus        56 ~~g~afV~f~~~~~A~~Ai~~l~g~~~~g--~~l~V~~a~~~   95 (97)
T 2xnq_A           56 KNAFGFIQFDNPQSVRDAIEXESQEMNFG--KKLILEVSSSN   95 (97)
T ss_dssp             CSSEEEEEESSHHHHHHHHHHHTTSEETT--EECEEEECCCC
T ss_pred             eCCEEEEEECCHHHHHHHHHHcCCCEECC--EEEEEEecCCC
Confidence            58999999999999999999999999976  67999998754

>1l3k_A Heterogeneous nuclear ribonucleoprotein A1; nuclear protein hnRNP A1, RNA-recognition motif, RNA- binding, UP1, RNA binding protein; 1.10A {Homo sapiens} SCOP: d.58.7.1 d.58.7.1 PDB: 1u1k_A* 1u1l_A* 1u1m_A* 1u1n_A* 1u1o_A 1u1p_A* 1u1q_A 1u1r_A* 1pgz_A* 1ha1_A 1po6_A* 2up1_A* 1up1_A

Probab=98.75  E-value=7.6e-09  Score=67.95  Aligned_cols=48  Identities=17%  Similarity=0.160  Sum_probs=39.1

Q ss_pred             CCCCCCccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecCCCCCC
Q psy6355           2 KGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSPSSS   52 (83)
Q Consensus         2 Dk~TG~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~~~~~~   52 (83)
                      |+.+|.++|||||.|.+.++|++|++. +|..+.|  ++|.|++|.+..+.
T Consensus       139 ~~~~g~~~g~afV~F~~~~~A~~A~~~-~~~~~~G--~~i~v~~a~~k~~~  186 (196)
T 1l3k_A          139 DRGSGKKRGFAFVTFDDHDSVDKIVIQ-KYHTVNG--HNCEVRKALSKQEM  186 (196)
T ss_dssp             CTTTCCEEEEEEEEESSHHHHHHHHHC-SCCEETT--EECEEEECC-----
T ss_pred             cCCCCCccceEEEEECCHHHHHHHHHh-CCcEECC--EEEEEEecCChhHh
Confidence            667899999999999999999999986 8888877  67999999876554

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

Probab=98.74  E-value=4.6e-09  Score=63.69  Aligned_cols=40  Identities=18%  Similarity=0.207  Sum_probs=36.1

Q ss_pred             CccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecCC
Q psy6355           7 FCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANS   48 (83)
Q Consensus         7 ~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~~   48 (83)
                      .++|||||.|.+.++|++||+.|||..+.|  +.|.|+++.+
T Consensus        61 ~~~g~afV~f~~~~~A~~Ai~~l~g~~~~g--~~l~V~~a~~  100 (101)
T 2la4_A           61 PEKGCCFIKYDTHEQAAVCIVALANFPFQG--RNLRTGWGKE  100 (101)
T ss_dssp             TTTTEEEEECSSHHHHHHHHHHHTTCEETT--EECCCCBCCC
T ss_pred             cCCCEEEEEECCHHHHHHHHHHhCCCeECC--eEEEEEeccC
Confidence            579999999999999999999999999977  6799998864

>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=98.74  E-value=1.3e-08  Score=62.64  Aligned_cols=42  Identities=24%  Similarity=0.411  Sum_probs=37.7

Q ss_pred             cceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecCCCCCC
Q psy6355           9 RYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSPSSS   52 (83)
Q Consensus         9 rG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~~~~~~   52 (83)
                      +|||||.|.+.++|++||+.|||..+.|  ++|.|.++......
T Consensus        61 ~g~afV~f~~~~~a~~A~~~l~g~~~~g--~~l~v~~a~~~~~~  102 (109)
T 1x4g_A           61 KGYSFVRFSTHESAAHAIVSVNGTTIEG--HVVKCYWGKESPDM  102 (109)
T ss_dssp             TTEEEEEESSHHHHHHHHHHHTTCEETT--EECEEECCCCCCSS
T ss_pred             CCEEEEEECCHHHHHHHHHHcCCCEECC--cEEEEEecCCCCCC
Confidence            8999999999999999999999999977  67999999876443

>1sjr_A Polypyrimidine tract-binding protein 1; extended babbab motif, RNA binding protein; NMR {Homo sapiens} SCOP: d.58.7.1 PDB: 2adb_A

Probab=98.74  E-value=2e-08  Score=68.25  Aligned_cols=45  Identities=13%  Similarity=0.253  Sum_probs=39.1

Q ss_pred             CccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecCCCCC
Q psy6355           7 FCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSPSS   51 (83)
Q Consensus         7 ~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~~~~~   51 (83)
                      .++|||||.|.+.++|++|++.|||..+.|..++|.|.|+.+...
T Consensus        82 ~~rgfAFVeF~d~~~A~~Ai~~LnG~~i~g~g~~L~V~~Ak~~~l  126 (164)
T 1sjr_A           82 NNQFQALLQYADPVSAQHAKLSLDGQNIYNACCTLRIDFSKLTSL  126 (164)
T ss_dssp             SSCEEEEEEESCHHHHHHHHHHSTTBCSSSSCSCEEEEECSSSSC
T ss_pred             CCCCEEEEEECCHHHHHHHHHHhCCCEecCCCcEEEEEEecCCcc
Confidence            478999999999999999999999999865446899999987643

>2jvo_A Nucleolar protein 3; nucleus, phosphorylation, ribonucleoprotein, ribosome biogenesis, RNA-binding, rRNA processing; NMR {Saccharomyces cerevisiae} PDB: 2osq_A

Probab=98.73  E-value=9.9e-09  Score=63.88  Aligned_cols=41  Identities=24%  Similarity=0.536  Sum_probs=36.8

Q ss_pred             cceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecCCCCC
Q psy6355           9 RYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSPSS   51 (83)
Q Consensus         9 rG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~~~~~   51 (83)
                      +|||||.|.+.++|++|++.|||..+.|  ++|.|.++.....
T Consensus        65 kg~afV~f~~~~~A~~Ai~~l~g~~~~g--~~l~V~~a~~~~~  105 (108)
T 2jvo_A           65 NGFAFVEFEEAESAAKAIEEVHGKSFAN--QPLEVVYSKLPAK  105 (108)
T ss_dssp             TTEEEEECSSHHHHHHHHHHHTTCEETT--EECEEESCSCCC-
T ss_pred             CCEEEEEECCHHHHHHHHHHcCCCEECC--eEEEEEEecCCCC
Confidence            7999999999999999999999999976  7799999987644

>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=98.73  E-value=7.4e-09  Score=63.87  Aligned_cols=43  Identities=19%  Similarity=0.432  Sum_probs=38.1

Q ss_pred             ccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecCCCCCC
Q psy6355           8 CRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSPSSS   52 (83)
Q Consensus         8 SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~~~~~~   52 (83)
                      ++|||||.|.+.++|++||+.|||..+.|  ++|.|.++..+...
T Consensus        61 ~~g~afV~f~~~~~A~~A~~~l~g~~~~g--~~l~V~~a~~~~~~  103 (110)
T 1wf1_A           61 HKGYAFVQYSNERHARAAVLGENGRVLAG--QTLDINMAGEPKPD  103 (110)
T ss_dssp             ETTEEEEECSSSHHHHHHHHHHTTCEETT--EECCEEESCCCCSC
T ss_pred             eCCEEEEEECCHHHHHHHHHHcCCCEECC--eEEEEEECCCCCCC
Confidence            68999999999999999999999999977  67999999865443

>2hgn_A Heterogeneous nuclear ribonucleoprotein F; RNA recognition motif, G-tract, G-quadruplex, alternative splicing, RNA binding protein; NMR {Homo sapiens} PDB: 2kg1_A

Probab=98.73  E-value=5.5e-09  Score=68.65  Aligned_cols=46  Identities=11%  Similarity=-0.021  Sum_probs=39.4

Q ss_pred             CCCCCCCccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecCCCC
Q psy6355           1 MKGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSPS   50 (83)
Q Consensus         1 ~Dk~TG~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~~~~   50 (83)
                      +|+. |.+||||||.|.+.++|++|| .||+..+.|  +.|.|..+....
T Consensus        79 ~d~~-g~srGfaFV~F~~~e~A~~Al-~~~g~~l~g--R~i~V~~a~~~~  124 (139)
T 2hgn_A           79 IGPD-GRVTGEADVEFATHEEAVAAM-SKDRANMQH--RYIELFLNSTTG  124 (139)
T ss_dssp             CSSS-SCSSCCCEEECSHHHHHHHHT-TCCSCSSSS--CCCCCEECCCSC
T ss_pred             ECCC-CCCceEEEEEeCCHHHHHHHH-hhCCCEECC--EEEEEEECCCCC
Confidence            3665 999999999999999999999 889999977  578888876553

>3pgw_S U1-70K; protein-RNA complex, U1 snRNA, SM fold, SM core, RRM, splici SNRNPS, splicing factors; HET: DNA; 4.40A {Homo sapiens} PDB: 3cw1_K 2l5i_A 2l5j_A*

Probab=98.72  E-value=1.2e-08  Score=77.26  Aligned_cols=48  Identities=15%  Similarity=0.230  Sum_probs=43.0

Q ss_pred             CCCCCCCccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecCCCC
Q psy6355           1 MKGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSPS   50 (83)
Q Consensus         1 ~Dk~TG~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~~~~   50 (83)
                      .|+.||.++|||||.|.+.++|.+||+.|||..|.|  .+|.|.++....
T Consensus       136 ~d~~tg~~kG~aFV~F~~~e~A~~Ai~~lng~~i~g--r~i~V~~a~~~~  183 (437)
T 3pgw_S          136 YSKRSGKPRGYAFIEYEHERDMHSAYKHADGKKIDG--RRVLVDVERGRT  183 (437)
T ss_pred             ccCCCCCccceEEEeeccHHHHHHHHHHcCCCEECC--EEEEEEEeCCCC
Confidence            367899999999999999999999999999999977  679999997543

>4f02_A Polyadenylate-binding protein 1; mRNA, eukaryotic initiation factors PAIP1 and PAIP2, translation-RNA complex; 2.00A {Homo sapiens} PDB: 1cvj_A*

Probab=98.72  E-value=8.5e-09  Score=70.01  Aligned_cols=45  Identities=27%  Similarity=0.411  Sum_probs=39.6

Q ss_pred             CCCccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecCCCCC
Q psy6355           5 TDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSPSS   51 (83)
Q Consensus         5 TG~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~~~~~   51 (83)
                      .+.+||||||.|.+.++|++||+.|||..+.|  ++|.|++|.+..+
T Consensus       139 ~~~~~g~~fV~f~~~~~a~~Ai~~lng~~~~g--~~i~V~~a~~~~~  183 (213)
T 4f02_A          139 ENGSKGYGFVHFETQEAAERAIEKMNGMLLND--RKVFVGRFKSRKE  183 (213)
T ss_dssp             TTEEEEEEEEEESSHHHHHHHHHHHTTCEETT--EECEEEECCCHHH
T ss_pred             CCCCceEEEEEeCCHHHHHHHHHHhCCCEECC--EEEEEEEcCCCcc
Confidence            35689999999999999999999999999977  7899999976533

>2j8a_A Histone-lysine N-methyltransferase, H3 lysine-4 specific; histone methyltransferase, RRM fold, telomere, nuclear protein; 3.0A {Saccharomyces cerevisiae}

Probab=98.72  E-value=3.3e-09  Score=70.60  Aligned_cols=47  Identities=15%  Similarity=0.116  Sum_probs=38.6

Q ss_pred             CCCCCCCccceEEEEeCC----HHH----HHHHHH--HhCCCCCCCCCcceEEEecCCC
Q psy6355           1 MKGFTDFCRYLGFIRFDQ----RIE----AERAIQ--ELNGTIPKGSNEPITVKFANSP   49 (83)
Q Consensus         1 ~Dk~TG~SrG~gFV~F~~----~e~----A~~AI~--~LnG~~~~G~~~~l~V~fA~~~   49 (83)
                      +|+.||.|+|||||+|.+    .++    |.+||.  .|||..++|  ++|.|.+.+..
T Consensus        40 ~Dp~Tg~slGfgfVef~d~~g~~d~a~kAA~kAi~~~~lng~~I~G--r~irV~ln~~g   96 (136)
T 2j8a_A           40 NDPNSALPLHVYLIKYASSDGKINDAAKAAFSAVRKHESSGCFIMG--FKFEVILNKHS   96 (136)
T ss_dssp             ECTTTCCEEEEEEEECC------CCHHHHHHHHHHHTTTTCEEETT--EEEEEEECCTT
T ss_pred             ecCCCCceeeEEEEEECCCCCCcchHHHHHHHHHHHhhhcCCeecC--cEEEEEECccc
Confidence            599999999999999996    333    899999  889999988  67999986543

>3s6e_A RNA-binding protein 39; ferredoxin-like, structural genomics, joint center for struc genomics, JCSG, protein structure initiative, PSI-biology; HET: MSE CIT; 0.95A {Mus musculus} PDB: 2lq5_A

Probab=98.72  E-value=9.4e-09  Score=65.58  Aligned_cols=39  Identities=18%  Similarity=0.197  Sum_probs=36.0

Q ss_pred             ccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecCC
Q psy6355           8 CRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANS   48 (83)
Q Consensus         8 SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~~   48 (83)
                      ++|++||.|.+.++|++||+.|||..+.|  ++|.|.|+..
T Consensus        54 ~~G~~fV~f~~~e~A~~Ai~~lnG~~f~G--R~i~v~~~~~   92 (114)
T 3s6e_A           54 AQGNVYVKCPSIAAAIAAVNALHGRWFAG--KMITAAYVPL   92 (114)
T ss_dssp             TTCCEEEECSSHHHHHHHHHHHTTCEETT--EECEEEEECH
T ss_pred             CcEEEEEEECCHHHHHHHHHHhCCCEECC--EEEEEEEEcH
Confidence            69999999999999999999999999977  7899999863

>3dxb_A Thioredoxin N-terminally fused to PUF60(UHM); splicing, FBP interacting repressor, RRM, electron TRAN redox-active center, transport; 2.20A {Escherichia coli O157}

Probab=98.71  E-value=2.1e-08  Score=68.47  Aligned_cols=45  Identities=22%  Similarity=0.228  Sum_probs=40.5

Q ss_pred             CCCCCCccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecCC
Q psy6355           2 KGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANS   48 (83)
Q Consensus         2 Dk~TG~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~~   48 (83)
                      |+.+|.++|++||.|.+.++|.+||+.|||..+.|  ++|.|.|.+.
T Consensus       168 ~~~~~~~~G~~fv~f~~~~~a~~a~~~l~gr~~~g--r~i~~~~~~~  212 (222)
T 3dxb_A          168 EEEDAEIIVKIFVEFSIASETHKAIQALNGRWFAG--RKVVAEVYDQ  212 (222)
T ss_dssp             SSTTCCEEEEEEEEESSHHHHHHHHHHHTTCBSSS--SBCEEEECCH
T ss_pred             cccCcCceeEEEEEECCHHHHHHHHHHhcCceECC--eEEEEEEcCH
Confidence            45678999999999999999999999999999988  6799999763

>2dnp_A RNA-binding protein 14; RRM domain, RBD, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=98.70  E-value=2.2e-08  Score=59.64  Aligned_cols=42  Identities=26%  Similarity=0.491  Sum_probs=37.1

Q ss_pred             ccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecCCCCC
Q psy6355           8 CRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSPSS   51 (83)
Q Consensus         8 SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~~~~~   51 (83)
                      .+|||||.|.+.++|++||+.|||..+.|  ++|.|.++.+...
T Consensus        42 ~~~~afV~f~~~~~a~~A~~~l~g~~~~g--~~l~v~~a~~~~~   83 (90)
T 2dnp_A           42 VKDYAFVHMEKEADAKAAIAQLNGKEVKG--KRINVELSTKGQK   83 (90)
T ss_dssp             CSSCEEEEESCHHHHHHHHHHHTTCEETT--EECEEEESCCCCC
T ss_pred             ECCEEEEEECCHHHHHHHHHHhCCCEECC--cEEEEEECCCCCC
Confidence            36799999999999999999999999976  6799999987644

>1fje_B Nucleolin RBD12, protein C23; RNP, RRM, RNA binding domain, RNA-protein complex, nucleolus, structural protein/RNA complex; NMR {Mesocricetus auratus} SCOP: d.58.7.1 d.58.7.1 PDB: 1rkj_A 2krr_A

Probab=98.70  E-value=6.2e-09  Score=67.57  Aligned_cols=47  Identities=26%  Similarity=0.367  Sum_probs=40.7

Q ss_pred             CCCCCCccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecCCCCC
Q psy6355           2 KGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSPSS   51 (83)
Q Consensus         2 Dk~TG~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~~~~~   51 (83)
                      |+.+|.++|||||.|.+.++|++|+ .|||..+.|  ++|.|.++.....
T Consensus        47 ~~~~~~~~g~afV~f~~~~~a~~A~-~l~g~~~~g--~~l~v~~~~~~~~   93 (175)
T 1fje_B           47 DVRTGTNRKFGYVDFESAEDLEKAL-ELTGLKVFG--NEIKLEKPKGRDS   93 (175)
T ss_dssp             EEEEETTTTEEEEEESSHHHHHHHH-HGGGEEETT--EEEEEECCCCSSC
T ss_pred             ECCCCccccEEEEEECCHHHHHHHH-hcCCCEeCC--eEEEEecCCCccc
Confidence            4567899999999999999999999 599999976  7899999876544

>3smz_A Protein raver-1, ribonucleoprotein PTB-binding 1; RNA binding, RNA recognition motif, vincu alpha-actinin, nucleus, RNA binding protein; 1.99A {Homo sapiens} PDB: 3vf0_B* 3h2u_B 3h2v_E

Probab=98.69  E-value=1.3e-08  Score=70.94  Aligned_cols=46  Identities=17%  Similarity=0.251  Sum_probs=42.0

Q ss_pred             CCCccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecCCCCCC
Q psy6355           5 TDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSPSSS   52 (83)
Q Consensus         5 TG~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~~~~~~   52 (83)
                      +|.++|||||.|.+.++|.+|++.|||..+.|  ++|.|+|+.+...+
T Consensus       222 ~g~~~g~afV~f~~~~~A~~A~~~l~g~~~~g--~~l~v~~a~~~~~~  267 (284)
T 3smz_A          222 DGQLKGFAVLEYETAEMAEEAQQQADGLSLGG--SHLRVSFCAPGPPG  267 (284)
T ss_dssp             SCCEEEEEEEECSSHHHHHHHHHHHTTCEETT--EECEEEECCSSSCH
T ss_pred             CCCcccEEEEEeCCHHHHHHHHHHhCCCccCC--eEEEEEEecCCCcc
Confidence            78999999999999999999999999999977  68999999876554

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

Probab=98.67  E-value=3.9e-08  Score=61.40  Aligned_cols=43  Identities=16%  Similarity=0.193  Sum_probs=35.8

Q ss_pred             CCccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecCCCCCC
Q psy6355           6 DFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSPSSS   52 (83)
Q Consensus         6 G~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~~~~~~   52 (83)
                      +.+||||||.|.+.++|++||+.+++  +.|  ++|.|+++..+..+
T Consensus        51 ~~~rGfaFVeF~~~~~A~~Ai~~~~~--~~g--~~l~V~~a~~~~~~   93 (100)
T 2d9o_A           51 SKKPGTAVVEFATVKAAELAVQNEVG--LVD--NPLKISWLEGQPQD   93 (100)
T ss_dssp             SSSSSEEEEEESCHHHHHHHHHTCCB--CSS--SBCEEECSSCCCCC
T ss_pred             cCCCCEEEEEECCHHHHHHHHHhcCC--CCC--CeEEEEEccCCCCC
Confidence            47899999999999999999998665  334  68999999876544

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

Probab=98.67  E-value=2.8e-08  Score=59.37  Aligned_cols=43  Identities=21%  Similarity=0.362  Sum_probs=37.6

Q ss_pred             ccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecCCCCCC
Q psy6355           8 CRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSPSSS   52 (83)
Q Consensus         8 SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~~~~~~   52 (83)
                      .++||||.|.+.++|++|++.|||..+.|  +.|.|+++.+....
T Consensus        43 ~~~~afV~f~~~~~a~~A~~~l~g~~~~g--~~l~V~~a~~~~~~   85 (92)
T 2dgt_A           43 VKDYAFVHMERAEDAVEAIRGLDNTEFQG--KRMHVQLSTSRLRT   85 (92)
T ss_dssp             CSSEEEEEESCHHHHHHHHHHHTTEEETT--EEEEEEESSCCCSC
T ss_pred             ECCEEEEEECCHHHHHHHHHHhCCCeeCC--cEEEEEEccCCCCC
Confidence            36799999999999999999999999976  78999999765443

>4f02_A Polyadenylate-binding protein 1; mRNA, eukaryotic initiation factors PAIP1 and PAIP2, translation-RNA complex; 2.00A {Homo sapiens} PDB: 1cvj_A*

Probab=98.67  E-value=2.5e-08  Score=67.65  Aligned_cols=46  Identities=24%  Similarity=0.420  Sum_probs=41.5

Q ss_pred             CCCCCCccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecCCC
Q psy6355           2 KGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSP   49 (83)
Q Consensus         2 Dk~TG~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~~~   49 (83)
                      |+.||.++|||||.|.+.++|++||+.|||..+.|  ++|.|.++...
T Consensus        50 d~~tg~~~G~afV~F~~~~~A~~Ai~~~~~~~~~g--~~i~~~~~~~~   95 (213)
T 4f02_A           50 DMITRRSLGYAYVNFQQPADAERALDTMNFDVIKG--KPVRIMWSQRD   95 (213)
T ss_dssp             CTTTCCEEEEEEEEESSHHHHHHHHHHHTTCEETT--EECEEEECCCC
T ss_pred             ccCCCCccccccceeCCHHHHHHHHHHhhhhhcCC--ccccccccccc
Confidence            78899999999999999999999999999999866  67888887654

>3pgw_A U1-A; protein-RNA complex, U1 snRNA, SM fold, SM core, RRM, splici SNRNPS, splicing factors; HET: DNA; 4.40A {Homo sapiens} PDB: 1fht_A 2u1a_A 2aym_A 2b0g_A

Probab=98.66  E-value=3.1e-08  Score=69.01  Aligned_cols=44  Identities=20%  Similarity=0.321  Sum_probs=40.0

Q ss_pred             CCCccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecCCCC
Q psy6355           5 TDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSPS   50 (83)
Q Consensus         5 TG~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~~~~   50 (83)
                      +|.+||||||.|.+.++|++||+.|||..+.|  ++|.|.++....
T Consensus        48 ~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g--~~l~v~~a~~~~   91 (282)
T 3pgw_A           48 SLKMRGQAFVIFKEVSSATNALRSMQGFPFYD--KPMRIQYAKTDS   91 (282)
T ss_pred             CCCcceEEEEEECCHHHHHHHHHHhcCCeeCC--cEEEEEEeccCc
Confidence            78999999999999999999999999999977  779999987644

>2ytc_A PRE-mRNA-splicing factor RBM22; RRM domain, RBD, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=98.66  E-value=1.6e-08  Score=59.31  Aligned_cols=38  Identities=32%  Similarity=0.438  Sum_probs=34.1

Q ss_pred             ccceEEEEeCCHHHHHHHHHHh-CCCCCCCCCcceEEEecC
Q psy6355           8 CRYLGFIRFDQRIEAERAIQEL-NGTIPKGSNEPITVKFAN   47 (83)
Q Consensus         8 SrG~gFV~F~~~e~A~~AI~~L-nG~~~~G~~~~l~V~fA~   47 (83)
                      +||||||.|.+.++|++|++.| ||..+.|  ++|.|++|.
T Consensus        47 ~kg~afV~f~~~~~A~~a~~~l~~~~~~~g--~~l~v~~ak   85 (85)
T 2ytc_A           47 RQQCAFIQFATRQAAEVAAEKSFNKLIVNG--RRLNVKWGR   85 (85)
T ss_dssp             GGTEEEEEESSHHHHHHHHHTTTTTCEETT--EECCEEECC
T ss_pred             CCCEEEEEECCHHHHHHHHHHhcCCeeECC--CEEEEEecC
Confidence            5899999999999999999999 9888877  679998873

>2hgm_A HNRPF protein, heterogeneous nuclear ribonucleoprotein F; RNA recognition motif, G-tract, G-quadruplex, alternative splicing, RNA binding protein; NMR {Homo sapiens} PDB: 2kg0_A

Probab=98.65  E-value=1.3e-08  Score=65.97  Aligned_cols=43  Identities=16%  Similarity=0.056  Sum_probs=36.4

Q ss_pred             CCCCCCCccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecC
Q psy6355           1 MKGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFAN   47 (83)
Q Consensus         1 ~Dk~TG~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~   47 (83)
                      +|+. |++||||||.|.+.++|++||+. ++..+.|  ++|.|..+.
T Consensus        77 ~d~~-GrsrGfaFV~F~~~e~A~~Al~~-~~~~l~g--R~I~V~~a~  119 (126)
T 2hgm_A           77 VDPE-GKITGEAFVQFASQELAEKALGK-HKERIGH--RYIEVFKSS  119 (126)
T ss_dssp             CCSS-SSSCSEEEEEESSTTHHHHHHTT-TTCCBTT--BCCCCEEEC
T ss_pred             ECCC-CCCceEEEEEECCHHHHHHHHHH-CCCEECC--EEEEEEECC
Confidence            3665 99999999999999999999985 7788877  678887764

>1wex_A Hypothetical protein (riken cDNA 2810036L13); structural genomics, RRM domain, riken structural genomics/proteomics initiative, RSGI; NMR {Mus musculus} SCOP: d.58.7.1

Probab=98.64  E-value=4.2e-08  Score=61.26  Aligned_cols=42  Identities=10%  Similarity=0.144  Sum_probs=35.8

Q ss_pred             ccceEEEEeCCHHHHHHHHHHhCCCC--CCCCCcceEEEecCCCCC
Q psy6355           8 CRYLGFIRFDQRIEAERAIQELNGTI--PKGSNEPITVKFANSPSS   51 (83)
Q Consensus         8 SrG~gFV~F~~~e~A~~AI~~LnG~~--~~G~~~~l~V~fA~~~~~   51 (83)
                      +||||||.|.+.++|++||+.||+..  +.|  ++|.|.|+.....
T Consensus        50 ~kg~aFVef~~~~~A~~Ai~~l~~~~~~i~G--r~l~V~~a~~~~~   93 (104)
T 1wex_A           50 FKRQALVEFENIDSAKECVTFAADVPVYIAG--QQAFFNYSTSKRI   93 (104)
T ss_dssp             TTTEEEEEESSHHHHHHHHHHHHHSCCBSSS--SBCEEEECSSSSC
T ss_pred             CCCEEEEEECCHHHHHHHHHHhccCCceECC--EEEEEEEccCccc
Confidence            48999999999999999999998765  666  7899999976543

>1x4f_A Matrin 3; structural genomics, RRM domain, NPPSFA, national project on protein structural and functional analyses; NMR {Mus musculus} SCOP: d.58.7.1

Probab=98.64  E-value=3.7e-08  Score=62.90  Aligned_cols=43  Identities=14%  Similarity=0.173  Sum_probs=36.2

Q ss_pred             CccceEEEEeCCHHHHHHHHHHhCCC--CCCCCCcceEEEecCCCCC
Q psy6355           7 FCRYLGFIRFDQRIEAERAIQELNGT--IPKGSNEPITVKFANSPSS   51 (83)
Q Consensus         7 ~SrG~gFV~F~~~e~A~~AI~~LnG~--~~~G~~~~l~V~fA~~~~~   51 (83)
                      .+||||||.|.+.++|++||+.||+.  .+.|  ++|.|.++.....
T Consensus        60 ~~kg~aFVef~~~~~A~~Ai~~l~~~~~~l~G--r~l~V~~a~~~~~  104 (112)
T 1x4f_A           60 RMKSQAFIEMETREDAMAMVDHCLKKALWFQG--RCVKVDLSEKYKK  104 (112)
T ss_dssp             TTTTEEEEECSSHHHHHHHHHHHHHSCCCSSS--SCCEEEEECSCSS
T ss_pred             cCCCEEEEEECCHHHHHHHHHHhccCCceECC--EEEEEEECccccc
Confidence            46899999999999999999999754  4766  6799999976544

>2e5i_A Heterogeneous nuclear ribonucleoprotein L-like; RRM domain, RBD, structural genomics, NPPSFA; NMR {Mus musculus}

Probab=98.63  E-value=5.3e-08  Score=63.06  Aligned_cols=43  Identities=16%  Similarity=0.279  Sum_probs=37.7

Q ss_pred             ce-EEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecCCCCCC
Q psy6355          10 YL-GFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSPSSS   52 (83)
Q Consensus        10 G~-gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~~~~~~   52 (83)
                      || |||.|.+.++|++|++.|||..+.|...+|.|.||.+....
T Consensus        62 Gf~aFVef~~~~~A~~A~~~LnG~~i~g~~~~l~V~~Ak~~~l~  105 (124)
T 2e5i_A           62 GIQAMVEFESVLCAQKAKAALNGADIYAGCCTLKIEYARPTRLN  105 (124)
T ss_dssp             SEEEEEEESSHHHHHHHHHHHTTCCCBTTBSEEEEECCSCSCCC
T ss_pred             CCEEEEEECCHHHHHHHHHHhCCCEecCCCeEEEEEEecCCcce
Confidence            86 99999999999999999999999775568999999876543

>3r27_A HnRNP L, heterogeneous nuclear ribonucleoprotein L; RBD fold, protein binding, nucleus; 2.04A {Homo sapiens}

Probab=98.63  E-value=3.1e-08  Score=62.30  Aligned_cols=41  Identities=17%  Similarity=0.255  Sum_probs=36.0

Q ss_pred             CccceEEEEeCCHHHHHHHHHHhCCCC--CCCCCcceEEEecCCC
Q psy6355           7 FCRYLGFIRFDQRIEAERAIQELNGTI--PKGSNEPITVKFANSP   49 (83)
Q Consensus         7 ~SrG~gFV~F~~~e~A~~AI~~LnG~~--~~G~~~~l~V~fA~~~   49 (83)
                      .+||+|||.|.+.++|.+||+.|||..  +.|  ++|.|.|+...
T Consensus        55 ~~kg~AFVef~~~~~A~~Av~~ln~~~~~i~G--r~i~V~~S~~k   97 (100)
T 3r27_A           55 PKKRQALVEFEDVLGACNAVNYAADNQIYIAG--HPAFVNYSTSQ   97 (100)
T ss_dssp             TTTTEEEEEESSHHHHHHHHHHHHHSCEEETT--EEEEEEECSCS
T ss_pred             cCCCEEEEEECCHHHHHHHHHHhcCCCceeCC--cEEEEEecccc
Confidence            368999999999999999999999986  556  78999998754

>2ghp_A U4/U6 snRNA-associated splicing factor PRP24; RNA chaperone, RNA binding domain, RNA recognition motif, SP factor, snRNP, spliceosome; 2.70A {Saccharomyces cerevisiae} SCOP: d.58.7.1 d.58.7.1 d.58.7.1 PDB: 2go9_A 2kh9_A

Probab=98.63  E-value=2.5e-08  Score=69.76  Aligned_cols=42  Identities=26%  Similarity=0.483  Sum_probs=37.0

Q ss_pred             CCCccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecCCC
Q psy6355           5 TDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSP   49 (83)
Q Consensus         5 TG~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~~~   49 (83)
                      ||.++|||||.|.+.++|.+|+ .|||..+.|  ++|.|.||.+.
T Consensus       250 tg~~~g~afV~F~~~~~A~~A~-~l~g~~~~g--~~i~V~~a~~k  291 (292)
T 2ghp_A          250 HSFNNCCAFMVFENKDSAERAL-QMNRSLLGN--REISVSLADKK  291 (292)
T ss_dssp             --CCCEEEEEEESSHHHHHHHG-GGTTEEETT--EEEEEEECCCC
T ss_pred             CCCCceEEEEEeCCHHHHHHHH-HhcCCEECC--cEEEEEEecCC
Confidence            6999999999999999999999 999999976  78999998753

>1x4d_A Matrin 3; structural genomics, RRM domain, NPPSFA, national project on protein structural and functional analyses; NMR {Mus musculus} SCOP: d.58.7.1

Probab=98.63  E-value=3.2e-08  Score=61.96  Aligned_cols=41  Identities=20%  Similarity=0.231  Sum_probs=35.5

Q ss_pred             ccceEEEEeCCHHHHHHHHHHhCCCC--CCCCCcceEEEecCCCC
Q psy6355           8 CRYLGFIRFDQRIEAERAIQELNGTI--PKGSNEPITVKFANSPS   50 (83)
Q Consensus         8 SrG~gFV~F~~~e~A~~AI~~LnG~~--~~G~~~~l~V~fA~~~~   50 (83)
                      .||||||.|.+.++|++||+.||+..  +.|  ++|.|.+|....
T Consensus        51 ~kg~aFVef~~~~~A~~Ai~~l~~~~~~~~G--r~l~V~~a~~~~   93 (102)
T 1x4d_A           51 KINEAFIEMATTEDAQAAVDYYTTTPALVFG--KPVRVHLSQKYK   93 (102)
T ss_dssp             SSSCEEEEESSHHHHHHHHHHHHHSCCEETT--EECEEEEECCCT
T ss_pred             CCCEEEEEECCHHHHHHHHHHHcCCCceECC--cEEEEEECCCCC
Confidence            47999999999999999999999864  666  789999998643

>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=98.62  E-value=5e-08  Score=62.67  Aligned_cols=50  Identities=24%  Similarity=0.246  Sum_probs=41.7

Q ss_pred             CCCCC--CccceEEEEeCCHHHHHHHHHHhCCCCC-CCCCcceEEEecCCCCC
Q psy6355           2 KGFTD--FCRYLGFIRFDQRIEAERAIQELNGTIP-KGSNEPITVKFANSPSS   51 (83)
Q Consensus         2 Dk~TG--~SrG~gFV~F~~~e~A~~AI~~LnG~~~-~G~~~~l~V~fA~~~~~   51 (83)
                      |+.+|  .++|||||.|.+.++|++|++.|||..+ .+..+++.+.++.....
T Consensus        38 ~~~~~~~~~~g~afV~f~~~~~A~~A~~~l~~~~~~~~~~~~~~~~~~~~~~~   90 (175)
T 3nmr_A           38 DRSQNPPQSKGCCFVTFYTRKAALEAQNALHNMKVLPGMHHPIQMKPADSEKN   90 (175)
T ss_dssp             ECSSSSCEEEEEEEEEESSHHHHHHHHHHHTTTCCCTTCSSCCEEEECGGGCC
T ss_pred             cCCCCCCCcceEEEEEECCHHHHHHHHHHhcCcEEccCCccceEEcccccccc
Confidence            45555  8999999999999999999999999875 56678899998775543

>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=98.62  E-value=3.7e-08  Score=60.74  Aligned_cols=43  Identities=23%  Similarity=0.293  Sum_probs=37.0

Q ss_pred             ceEEEEeCCHHHHHHHHHHhCCCCCCCCC---cceEEEecCCCCCC
Q psy6355          10 YLGFIRFDQRIEAERAIQELNGTIPKGSN---EPITVKFANSPSSS   52 (83)
Q Consensus        10 G~gFV~F~~~e~A~~AI~~LnG~~~~G~~---~~l~V~fA~~~~~~   52 (83)
                      |||||.|.+.++|++||+.|||..+.|..   ++|.|++|.+...+
T Consensus        51 g~afV~f~~~~~a~~Ai~~l~g~~~~g~~~~~~~i~V~~a~~~~~~   96 (108)
T 1x4c_A           51 GTGVVEFVRKEDMTYAVRKLDNTKFRSHEGETAYIRVKVDGPRSPS   96 (108)
T ss_dssp             TEEEEEESSHHHHHHHHHHSSSEEEECTTSCEEEEEEEESSCCSCC
T ss_pred             CEEEEEECCHHHHHHHHHHHCcCCccCCcCcceEEEEEeCCCCCCC
Confidence            99999999999999999999999886522   67999999875444

>3smz_A Protein raver-1, ribonucleoprotein PTB-binding 1; RNA binding, RNA recognition motif, vincu alpha-actinin, nucleus, RNA binding protein; 1.99A {Homo sapiens} PDB: 3vf0_B* 3h2u_B 3h2v_E

Probab=98.62  E-value=2.8e-08  Score=69.30  Aligned_cols=47  Identities=19%  Similarity=0.234  Sum_probs=42.5

Q ss_pred             CCCCCCccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecCCCC
Q psy6355           2 KGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSPS   50 (83)
Q Consensus         2 Dk~TG~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~~~~   50 (83)
                      |+.+|.++|||||.|.+.++|.+|++.|||..+.|  ++|.|.++.+..
T Consensus       130 ~~~~g~~~g~afV~f~~~~~a~~A~~~l~~~~~~g--~~i~v~~a~~~~  176 (284)
T 3smz_A          130 SERTGQSKGYGFAEYMKKDSAARAKSDLLGKPLGP--RTLYVHWTDAGQ  176 (284)
T ss_dssp             CTTTCCEEEEEEEEESSHHHHHHHHHHHTTCEETT--EECEEEECCGGG
T ss_pred             eCCCCccceEEEEEECCHHHHHHHHHHhCCCEeCC--cEEEEEECCCCC
Confidence            67799999999999999999999999999999966  689999987654

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

Probab=98.61  E-value=8.9e-08  Score=57.30  Aligned_cols=38  Identities=16%  Similarity=0.258  Sum_probs=34.4

Q ss_pred             ceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecCCC
Q psy6355          10 YLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSP   49 (83)
Q Consensus        10 G~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~~~   49 (83)
                      |.|||.|.+.++|++||+.|||..+.|  ++|.|.++.+.
T Consensus        55 ~~afV~f~~~~~a~~Ai~~l~g~~~~g--~~l~V~~a~~~   92 (96)
T 2e44_A           55 AVVNVTYSSKDQARQALDKLNGFQLEN--FTLKVAYIPDE   92 (96)
T ss_dssp             EEEEEEESSHHHHHHHHHHHTTCBCSS--CBCEEEECCCC
T ss_pred             CEEEEEECCHHHHHHHHHHhCCCEECC--cEEEEEEcCcc
Confidence            449999999999999999999999977  67999999876

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

Probab=98.60  E-value=6.7e-08  Score=61.43  Aligned_cols=45  Identities=20%  Similarity=0.322  Sum_probs=39.0

Q ss_pred             CCCccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecCCCCC
Q psy6355           5 TDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSPSS   51 (83)
Q Consensus         5 TG~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~~~~~   51 (83)
                      +|.++|||||.|.+.++|++|++.|||..+.|  ++|.|.++.....
T Consensus        37 ~~~~~g~afV~f~~~~~a~~A~~~l~~~~~~g--~~i~v~~~~~~~~   81 (166)
T 3md3_A           37 NNKNVNYAFVEYHQSHDANIALQTLNGKQIEN--NIVKINWAFQSQQ   81 (166)
T ss_dssp             C-CCEEEEEEEESSHHHHHHHHHHHTTCEETT--EECEEEECCCCCC
T ss_pred             CCCCCCEEEEEeCCHHHHHHHHHHcCCCccCC--CeeEEEEcCCCCC
Confidence            47899999999999999999999999999966  6799999876543

>1l3k_A Heterogeneous nuclear ribonucleoprotein A1; nuclear protein hnRNP A1, RNA-recognition motif, RNA- binding, UP1, RNA binding protein; 1.10A {Homo sapiens} SCOP: d.58.7.1 d.58.7.1 PDB: 1u1k_A* 1u1l_A* 1u1m_A* 1u1n_A* 1u1o_A 1u1p_A* 1u1q_A 1u1r_A* 1pgz_A* 1ha1_A 1po6_A* 2up1_A* 1up1_A

Probab=98.58  E-value=5.3e-08  Score=63.84  Aligned_cols=46  Identities=22%  Similarity=0.216  Sum_probs=39.1

Q ss_pred             CCCCCCccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecCCCC
Q psy6355           2 KGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSPS   50 (83)
Q Consensus         2 Dk~TG~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~~~~   50 (83)
                      |+.+|.++|||||.|.+.++|++|++. ++..+.|  +.|.|.++....
T Consensus        48 ~~~~g~~~g~afV~f~~~~~A~~A~~~-~~~~~~g--~~l~v~~~~~~~   93 (196)
T 1l3k_A           48 DPNTKRSRGFGFVTYATVEEVDAAMNA-RPHKVDG--RVVEPKRAVSRE   93 (196)
T ss_dssp             CTTTCCEEEEEEEEESSHHHHHHHHHT-CSCEETT--EECEEEECCC--
T ss_pred             cCCCCCccceEEEEeCCHHHHHHHHhc-CCCEECC--EEeeeecccCcc
Confidence            678899999999999999999999976 8888877  678999876543

>3tyt_A Heterogeneous nuclear ribonucleoprotein L; ferredoxin-like, structural genomics, joint center for struc genomics, JCSG; 1.60A {Mus musculus} PDB: 3s01_A 3to8_A

Probab=98.58  E-value=4.9e-08  Score=66.84  Aligned_cols=42  Identities=21%  Similarity=0.241  Sum_probs=36.8

Q ss_pred             CCCccceEEEEeCCHHHHHHHHHHhCCCCCC--CCCcceEEEec
Q psy6355           5 TDFCRYLGFIRFDQRIEAERAIQELNGTIPK--GSNEPITVKFA   46 (83)
Q Consensus         5 TG~SrG~gFV~F~~~e~A~~AI~~LnG~~~~--G~~~~l~V~fA   46 (83)
                      .|.++|||||.|.+.++|.+||..|||..+.  +.+.|+.|+||
T Consensus       161 ~~~~~g~gfV~f~~~~~A~~Ai~~lng~~~~g~~~~~p~~vk~~  204 (205)
T 3tyt_A          161 KSERSSSGLLEWDSKSDALETLGFLNHYQMKNPNGPYPYTLKLC  204 (205)
T ss_dssp             CSSSSEEEEEECSSHHHHHHHHHHHTTCEECCSSSSSCEECEEE
T ss_pred             CCCCceEEEEEeCCHHHHHHHHHHhCCCCccCCCCCcceEEEec
Confidence            3567899999999999999999999999874  45689999987

>3zzy_A Polypyrimidine tract-binding protein 1; protein binding, peptide binding, RNA recognition motif; 1.40A {Homo sapiens} PDB: 3zzz_A

Probab=98.57  E-value=5.3e-08  Score=63.81  Aligned_cols=45  Identities=13%  Similarity=0.250  Sum_probs=38.8

Q ss_pred             ccce-EEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecCCCCCC
Q psy6355           8 CRYL-GFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSPSSS   52 (83)
Q Consensus         8 SrG~-gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~~~~~~   52 (83)
                      ++|+ |||.|.+.++|++|++.|||..+.|...+|.|.|+.+..-.
T Consensus        64 ~~gfqAFVef~~~~~A~~Ai~~LnG~~i~g~~~~LrI~~ak~~~l~  109 (130)
T 3zzy_A           64 NNQFQALLQYADPVSAQHAKLSLDGQNIYNACCTLRIDFSKLTSLN  109 (130)
T ss_dssp             TTEEEEEEEESCHHHHHHHHHHHTTCEEETTEEEEEEEECSCSSCC
T ss_pred             CCCcEEEEEECCHHHHHHHHHHcCCCeecCCCcEEEEEecCCCcee
Confidence            4788 99999999999999999999998665578999999876443

>2cq1_A PTB-like protein L; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=98.57  E-value=8.3e-08  Score=59.69  Aligned_cols=43  Identities=12%  Similarity=0.231  Sum_probs=35.7

Q ss_pred             ccceEEEEeCCHHHHHHHHHHhC--CCCCCCCCcceEEEecCCCCCC
Q psy6355           8 CRYLGFIRFDQRIEAERAIQELN--GTIPKGSNEPITVKFANSPSSS   52 (83)
Q Consensus         8 SrG~gFV~F~~~e~A~~AI~~Ln--G~~~~G~~~~l~V~fA~~~~~~   52 (83)
                      .||||||.|.+.++|++||+.||  +..+.|  ++|.|.|+.....+
T Consensus        50 ~kg~aFVef~~~~~A~~Ai~~l~~~~~~~~G--r~l~V~~a~~~~~~   94 (101)
T 2cq1_A           50 GKNQAFLELATEEAAITMVNYYSAVTPHLRN--QPIYIQYSNHKELK   94 (101)
T ss_dssp             TTTEEEEEESSHHHHHHHHHHHHHSCCEETT--EECEEEECSCSSCC
T ss_pred             CCCEEEEEECCHHHHHHHHHHhccCCceECC--cEEEEEEcCcccCc
Confidence            38999999999999999999885  445766  78999999865443

>2dnl_A Cytoplasmic polyadenylation element binding protein 3; RRM domain, RBD, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.56  E-value=7.6e-08  Score=59.91  Aligned_cols=25  Identities=12%  Similarity=0.058  Sum_probs=23.9

Q ss_pred             CCccceEEEEeCCHHHHHHHHHHhC
Q psy6355           6 DFCRYLGFIRFDQRIEAERAIQELN   30 (83)
Q Consensus         6 G~SrG~gFV~F~~~e~A~~AI~~Ln   30 (83)
                      |.+||||||.|.+.++|++||+.|+
T Consensus        49 g~~~G~aFV~f~~~~~a~~Ai~~~~   73 (114)
T 2dnl_A           49 FPPKGYAFLLFQEESSVQALIDACL   73 (114)
T ss_dssp             SCTTSEEEECCSSHHHHHHHHHHSE
T ss_pred             CCcccEEEEEECCHHHHHHHHHhhh
Confidence            8999999999999999999999993

>3tyt_A Heterogeneous nuclear ribonucleoprotein L; ferredoxin-like, structural genomics, joint center for struc genomics, JCSG; 1.60A {Mus musculus} PDB: 3s01_A 3to8_A

Probab=98.55  E-value=6.8e-08  Score=66.12  Aligned_cols=40  Identities=20%  Similarity=0.306  Sum_probs=36.4

Q ss_pred             ccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecCCC
Q psy6355           8 CRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSP   49 (83)
Q Consensus         8 SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~~~   49 (83)
                      +||||||.|.+.++|++||+.|||..+.|  ++|.|.++...
T Consensus        41 ~~g~afV~f~~~~~A~~Ai~~lng~~~~g--~~l~v~~s~~~   80 (205)
T 3tyt_A           41 KPGAAMVEMADGYAVDRAITHLNNNFMFG--QKMNVCVSKQP   80 (205)
T ss_dssp             STTCEEEEESSHHHHHHHHHHHTTCEETT--EECEEEECSCS
T ss_pred             CCCEEEEEECCHHHHHHHHHHhCCCEECC--ceEEEEEccCC
Confidence            58999999999999999999999999977  78999998643

>2ad9_A Polypyrimidine tract-binding protein 1; RBD, RRM, protein-RNA complex, RNA binding protein/RNA complex; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=98.55  E-value=1.1e-07  Score=61.17  Aligned_cols=43  Identities=19%  Similarity=0.397  Sum_probs=36.3

Q ss_pred             ccceEEEEeCCHHHHHHHHHHhCC--CCCCCCCcceEEEecCCCCCC
Q psy6355           8 CRYLGFIRFDQRIEAERAIQELNG--TIPKGSNEPITVKFANSPSSS   52 (83)
Q Consensus         8 SrG~gFV~F~~~e~A~~AI~~LnG--~~~~G~~~~l~V~fA~~~~~~   52 (83)
                      .||||||.|.+.++|++||+.||+  ..+.|  ++|.|.|+.....+
T Consensus        66 ~kG~AFVeF~~~e~A~~Ai~~l~~~~~~l~G--r~l~V~~a~~k~~~  110 (119)
T 2ad9_A           66 GKNQAFIEMNTEEAANTMVNYYTSVTPVLRG--QPIYIQFSNHKELK  110 (119)
T ss_dssp             GGTEEEEECSCHHHHHHHHHHHHHHCCCBTT--BCCEEEECSSSSCC
T ss_pred             CCCEEEEEECCHHHHHHHHHHhccCCceECC--eEEEEEEccCCCCC
Confidence            489999999999999999999985  46766  78999999765444

>1sjq_A Polypyrimidine tract-binding protein 1; babbab motif, RNA binding protein; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=98.55  E-value=4.1e-08  Score=62.14  Aligned_cols=43  Identities=19%  Similarity=0.397  Sum_probs=35.8

Q ss_pred             ccceEEEEeCCHHHHHHHHHHhCC--CCCCCCCcceEEEecCCCCCC
Q psy6355           8 CRYLGFIRFDQRIEAERAIQELNG--TIPKGSNEPITVKFANSPSSS   52 (83)
Q Consensus         8 SrG~gFV~F~~~e~A~~AI~~LnG--~~~~G~~~~l~V~fA~~~~~~   52 (83)
                      .||||||.|.+.++|++||+.|++  ..+.|  ++|.|.+|.....+
T Consensus        51 ~kGfaFVeF~~~~~A~~Ai~~l~~~~~~l~G--r~l~V~~A~~~~~~   95 (105)
T 1sjq_A           51 GKNQAFIEMNTEEAANTMVNYYTSVTPVLRG--QPIYIQFSNHKELK   95 (105)
T ss_dssp             TTTEEEEEESSHHHHHHHHHHHTTSCCEETT--EECCBCCCSSSSCC
T ss_pred             CCCEEEEEECCHHHHHHHHHHhccCCceECC--EEEEEEEcCCCCCC
Confidence            389999999999999999999975  45766  78999999765433

>2dha_A FLJ20171 protein; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=98.55  E-value=2.1e-08  Score=64.59  Aligned_cols=41  Identities=12%  Similarity=-0.011  Sum_probs=35.7

Q ss_pred             CCCCccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecC
Q psy6355           4 FTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFAN   47 (83)
Q Consensus         4 ~TG~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~   47 (83)
                      .+|++||||||.|.+.++|++||+. |++.+.|  +.|.|..+.
T Consensus        63 ~~gr~~G~aFV~F~~~~~A~~Al~~-~~~~l~g--R~i~V~~a~  103 (123)
T 2dha_A           63 PDGRPTGDAFVLFACEEYAQNALRK-HKDLLGK--RYIELFRST  103 (123)
T ss_dssp             TTSCEEEEEEECCSSHHHHHHHHTT-TTEESSS--CEECCEEEC
T ss_pred             CCCCEeeEEEEEECCHHHHHHHHHh-CCCeeCC--eEEEEEECC
Confidence            4899999999999999999999986 9988866  568887764

>2e5g_A U6 snRNA-specific terminal uridylyltransferase 1; RRM domain, RBD, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.52  E-value=4.6e-08  Score=58.71  Aligned_cols=43  Identities=7%  Similarity=0.062  Sum_probs=36.3

Q ss_pred             CCCCCCccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecCCCC
Q psy6355           2 KGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSPS   50 (83)
Q Consensus         2 Dk~TG~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~~~~   50 (83)
                      |+.+|.   ||||.|.+.++|++||+ |||..+.|  ++|.|+++....
T Consensus        41 ~~~~g~---~afV~f~~~~~a~~ai~-l~g~~~~g--~~l~V~~a~~~~   83 (94)
T 2e5g_A           41 DKDKGV---FAIVEMGDVGAREAVLS-QSQHSLGG--HRLRVRPREQKE   83 (94)
T ss_dssp             CSSSCC---EEEEEESSHHHHHHHHT-CSCCEETT--EECCCBCSCCSC
T ss_pred             cCCCCc---EEEEEECCHHHHHHHHh-cCCeEECC--EEEEEEECCcCC
Confidence            556665   99999999999999999 99999977  678999876543

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

Probab=98.50  E-value=1.6e-08  Score=61.42  Aligned_cols=43  Identities=14%  Similarity=0.277  Sum_probs=36.9

Q ss_pred             CCCCCCccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecCCC
Q psy6355           2 KGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSP   49 (83)
Q Consensus         2 Dk~TG~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~~~   49 (83)
                      |+ +|.++|||||.|.+.++|++|++  ||..+.|  +.|.|.++.+.
T Consensus        44 ~~-~g~~~g~afV~f~~~~~a~~Ai~--~~~~~~g--~~l~v~~a~~~   86 (102)
T 2xs2_A           44 DR-TGVSKGYGFVSFYNDVDVQKIVE--SQINFHG--KKLKLGPAIRK   86 (102)
T ss_dssp             CT-TSCEEEEEEEEESSCCCHHHHTT--CCCEETT--EECEEEEEEEC
T ss_pred             CC-CCCccceEEEEECCHHHHHHHHh--CCCeECC--EEEEEEECCcC
Confidence            66 89999999999999999999998  8888877  56888877644

>3u1l_A PRE-mRNA-splicing factor CWC2; CSMP, zinc finger; 1.64A {Saccharomyces cerevisiae} PDB: 3u1m_A 3tp2_A

Probab=98.49  E-value=1.4e-07  Score=67.18  Aligned_cols=41  Identities=27%  Similarity=0.426  Sum_probs=35.5

Q ss_pred             CccceEEEEeCCHHHHHHHHHHhCCCCC------------CCCCcceEEEecCCC
Q psy6355           7 FCRYLGFIRFDQRIEAERAIQELNGTIP------------KGSNEPITVKFANSP   49 (83)
Q Consensus         7 ~SrG~gFV~F~~~e~A~~AI~~LnG~~~------------~G~~~~l~V~fA~~~   49 (83)
                      .+||||||.|.+.++|+.|++.|||..+            .|  ++|.|++|...
T Consensus       177 ~~kG~AFV~F~~~~~Ae~A~~am~g~~l~~~~~~e~~~~~~g--r~L~V~wA~~~  229 (240)
T 3u1l_A          177 ESKNCGFVKFKYQANAEFAKEAMSNQTLLLPSDKEWDDRREG--TGLLVKWANED  229 (240)
T ss_dssp             GGGTEEEEEESSHHHHHHHHHHHTTCCCCCTTSTTGGGGGGS--CCCEEEECC--
T ss_pred             CCCCEEEEEeCCHHHHHHHHHHhCCCEEeccccccccccCCC--CEEEEEEccCC
Confidence            3689999999999999999999999988            44  67999999754

>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=98.48  E-value=1e-07  Score=55.83  Aligned_cols=35  Identities=20%  Similarity=0.469  Sum_probs=31.4

Q ss_pred             CccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEE
Q psy6355           7 FCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVK   44 (83)
Q Consensus         7 ~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~   44 (83)
                      .+||||||.|.+.++|++|+ .|||..+.|  ++|.|+
T Consensus        51 ~~kg~afV~f~~~~~a~~A~-~l~g~~~~g--~~l~V~   85 (87)
T 2hzc_A           51 QDKNFAFLEFRSVDETTQAM-AFDGIIFQG--QSLKIR   85 (87)
T ss_dssp             SSSSEEEEEESSHHHHHHHG-GGTTCEETT--EECEEE
T ss_pred             CCCcEEEEEcCCHHHHHHHH-hcCCCEECC--eEEEEe
Confidence            45899999999999999999 999999977  568776

>2adc_A Polypyrimidine tract-binding protein 1; RBD, RRM, protein-RNA complex, RNA binding protein/RNA complex; NMR {Homo sapiens} SCOP: d.58.7.1 d.58.7.1 PDB: 2evz_A

Probab=98.46  E-value=2.6e-07  Score=63.20  Aligned_cols=40  Identities=23%  Similarity=0.286  Sum_probs=36.3

Q ss_pred             ccceEEEEeCCHHHHHHHHHHhCCCCCC-CCCcceEEEecCCC
Q psy6355           8 CRYLGFIRFDQRIEAERAIQELNGTIPK-GSNEPITVKFANSP   49 (83)
Q Consensus         8 SrG~gFV~F~~~e~A~~AI~~LnG~~~~-G~~~~l~V~fA~~~   49 (83)
                      ++|||||.|.+.++|++|++.|||..+. |  ++|.|.|+.++
T Consensus       188 ~~g~afV~f~~~~~A~~Ai~~l~g~~~~~g--~~l~v~~a~~~  228 (229)
T 2adc_A          188 DRKMALIQMGSVEEAVQALIDLHNHDLGEN--HHLRVSFSKST  228 (229)
T ss_dssp             STTCEEEEESSHHHHHHHHHHHTTCBSSSS--CBCEEEECSSC
T ss_pred             CCcEEEEEECCHHHHHHHHHHHCCCccCCC--CeEEEEEecCC
Confidence            6899999999999999999999999996 5  67999998754

>1qm9_A Polypyrimidine tract-binding protein; ribonucleoprotein, RNP, RNA, spicing, translation; NMR {Homo sapiens} SCOP: d.58.7.1 d.58.7.1

Probab=98.46  E-value=2e-07  Score=61.66  Aligned_cols=40  Identities=23%  Similarity=0.286  Sum_probs=36.0

Q ss_pred             ccceEEEEeCCHHHHHHHHHHhCCCCCC-CCCcceEEEecCCC
Q psy6355           8 CRYLGFIRFDQRIEAERAIQELNGTIPK-GSNEPITVKFANSP   49 (83)
Q Consensus         8 SrG~gFV~F~~~e~A~~AI~~LnG~~~~-G~~~~l~V~fA~~~   49 (83)
                      ++|||||.|.+.++|.+|++.|||..+. |  ++|.|.|+.++
T Consensus       157 ~~g~afV~f~~~~~A~~A~~~l~g~~~~~g--~~l~v~~a~~~  197 (198)
T 1qm9_A          157 DRKMALIQMGSVEEAVQALIDLHNHDLGEN--HHLRVSFSKST  197 (198)
T ss_dssp             TSSCEEEECSSHHHHHHHHHHHTSSCCSSC--CSCCEEEECCC
T ss_pred             CCcEEEEEeCCHHHHHHHHHHhcCCccCCC--CeEEEEeeccc
Confidence            5899999999999999999999999996 5  67999998754

>2yh0_A Splicing factor U2AF 65 kDa subunit; PRE-mRNA splicing, transcription, RNA binding protein, mRNA processing; NMR {Homo sapiens} PDB: 2yh1_A

Probab=98.42  E-value=5.4e-08  Score=63.91  Aligned_cols=42  Identities=17%  Similarity=0.369  Sum_probs=37.4

Q ss_pred             CCCccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecCCC
Q psy6355           5 TDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSP   49 (83)
Q Consensus         5 TG~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~~~   49 (83)
                      ++.++|||||.|.+.++|++|+ .|||..+.|  ++|.|.++...
T Consensus        47 ~~~~~g~afV~F~~~~~A~~Al-~l~g~~~~g--~~i~v~~~~~~   88 (198)
T 2yh0_A           47 INQDKNFAFLEFRSVDETTQAM-AFDGIIFQG--QSLKIRRPHDY   88 (198)
T ss_dssp             EETTTTEEEEEESCSHHHHHHG-GGTTEEETT--EEEEEECCCCC
T ss_pred             ecCCCCEEEEEeCCHHHHHHHH-HhcCCEEcC--ceEEEeCCCCC
Confidence            4788999999999999999999 899999976  67999987654

>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=98.41  E-value=4.2e-07  Score=56.75  Aligned_cols=40  Identities=20%  Similarity=0.275  Sum_probs=31.7

Q ss_pred             ceEEEEeCCHHHHHHHHHHhCCCCCCCCC---cceEEEecCCC
Q psy6355          10 YLGFIRFDQRIEAERAIQELNGTIPKGSN---EPITVKFANSP   49 (83)
Q Consensus        10 G~gFV~F~~~e~A~~AI~~LnG~~~~G~~---~~l~V~fA~~~   49 (83)
                      |||||.|.+.++|++||+.|||..+.|..   .-|.|..+.+.
T Consensus        52 g~afV~f~~~~~a~~Ai~~l~g~~~~gr~~~~~~i~v~~~~~~   94 (115)
T 3beg_B           52 GTGVVEFVRKEDMTYAVRKLDNTKFRSHEGETAYIRVKVDGPR   94 (115)
T ss_dssp             SEEEEEESSHHHHHHHHHHHTTCBCCCTTSCCCBCEEEECC--
T ss_pred             CEEEEEECCHHHHHHHHHHhCCCEECCcEeeeEEEEeccCCCC
Confidence            99999999999999999999999997733   12666665543

>2g4b_A Splicing factor U2AF 65 kDa subunit; protein-RNA complex, RNA splicing factor, RNA recognition motif, RNA binding protein/RNA complex; 2.50A {Homo sapiens} PDB: 2u2f_A

Probab=98.40  E-value=2e-07  Score=59.94  Aligned_cols=42  Identities=17%  Similarity=0.369  Sum_probs=36.9

Q ss_pred             CCCccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecCCC
Q psy6355           5 TDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSP   49 (83)
Q Consensus         5 TG~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~~~   49 (83)
                      ++.++|||||.|.+.++|++|+ .|||..+.|  ++|.|.++...
T Consensus        47 ~~~~~g~afV~f~~~~~A~~A~-~~~~~~~~g--~~i~v~~~~~~   88 (172)
T 2g4b_A           47 INQDKNFAFLEFRSVDETTQAM-AFDGIIFQG--QSLKIRRPHDY   88 (172)
T ss_dssp             EETTTTEEEEEESSHHHHHHHG-GGTTCEETT--EECEEECCSSC
T ss_pred             ecCCCCEEEEEeCCHHHHHHHH-HhCCcEecC--ceeeecCCccc
Confidence            4678999999999999999999 899999976  67999987654

>2ghp_A U4/U6 snRNA-associated splicing factor PRP24; RNA chaperone, RNA binding domain, RNA recognition motif, SP factor, snRNP, spliceosome; 2.70A {Saccharomyces cerevisiae} SCOP: d.58.7.1 d.58.7.1 d.58.7.1 PDB: 2go9_A 2kh9_A

Probab=98.38  E-value=2.8e-07  Score=64.41  Aligned_cols=43  Identities=21%  Similarity=0.371  Sum_probs=36.2

Q ss_pred             CCccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecCCCC
Q psy6355           6 DFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSPS   50 (83)
Q Consensus         6 G~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~~~~   50 (83)
                      |.++|||||.|.+.++|++|++.|||..+.|  ++|.|.++.+..
T Consensus       156 ~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g--~~l~v~~a~~~~  198 (292)
T 2ghp_A          156 NTSRRFAYIDVTSKEDARYCVEKLNGLKIEG--YTLVTKVSNPLE  198 (292)
T ss_dssp             ---CCEEEEECSSHHHHHHHHHHHTTCEETT--EECEEEECCCC-
T ss_pred             CCcceEEEEEECCHHHHHHHHHHhCCCEeCC--cEEEEEECCCCc
Confidence            7899999999999999999999999999977  789999987654

>2cjk_A Nuclear polyadenylated RNA-binding protein 4; HRP1, RNA-binding, RNA processing, mRNA processing, nonsense-mediated mRNA decay, cleavage; NMR {Saccharomyces cerevisiae} PDB: 2km8_C

Probab=98.34  E-value=3.1e-07  Score=58.76  Aligned_cols=44  Identities=23%  Similarity=0.298  Sum_probs=35.2

Q ss_pred             CCCCCCCccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecCC
Q psy6355           1 MKGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANS   48 (83)
Q Consensus         1 ~Dk~TG~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~~   48 (83)
                      .|+.+|.++|||||.|.+.++|++|++.  ++.+.|  ++|.|.++.+
T Consensus        37 ~~~~~g~~~g~afV~f~~~~~a~~A~~~--~~~~~g--~~i~v~~~~~   80 (167)
T 2cjk_A           37 KDPATGRSRGFGFLSFEKPSSVDEVVKT--QHILDG--KVIDPKRAIP   80 (167)
T ss_dssp             CCTTTSSCCSCEEEEESSTHHHHHHHHS--CCEETT--EECCCEECCC
T ss_pred             ECCCCCCccceEEEEEccHHHHHHHHhc--ccccCC--eEcccccccc
Confidence            3677999999999999999999999985  455655  4566776654

>3pgw_A U1-A; protein-RNA complex, U1 snRNA, SM fold, SM core, RRM, splici SNRNPS, splicing factors; HET: DNA; 4.40A {Homo sapiens} PDB: 1fht_A 2u1a_A 2aym_A 2b0g_A

Probab=98.32  E-value=5.8e-07  Score=62.49  Aligned_cols=37  Identities=24%  Similarity=0.480  Sum_probs=34.2

Q ss_pred             cceEEEEeCCHHHHHHHHHHhCCCCCC-CCCcceEEEecC
Q psy6355           9 RYLGFIRFDQRIEAERAIQELNGTIPK-GSNEPITVKFAN   47 (83)
Q Consensus         9 rG~gFV~F~~~e~A~~AI~~LnG~~~~-G~~~~l~V~fA~   47 (83)
                      +|||||.|.+.++|++|++.|||..+. |  ++|.|.|+.
T Consensus       244 ~g~afV~f~~~~~A~~A~~~l~g~~~~~g--~~l~v~~ak  281 (282)
T 3pgw_A          244 HDIAFVEFDNEVQAGAARDALQGFKITQN--NAMKISFAK  281 (282)
T ss_pred             CcEEEEEeCCHHHHHHHHHHcCCcEeCCC--CEEEEEEec
Confidence            699999999999999999999999986 5  689999985

>3sde_A Paraspeckle component 1; RRM, anti parallel right handed coiled-coil, NOPS, DBHS, RNA protein, RNA binding; 1.90A {Homo sapiens} PDB: 3sde_B

Probab=98.27  E-value=8.2e-07  Score=61.89  Aligned_cols=46  Identities=15%  Similarity=0.181  Sum_probs=38.7

Q ss_pred             CCCCccceEEEEeCCHHHHHHHHHHhCCCC-C-CCCCcceEEEecCCC
Q psy6355           4 FTDFCRYLGFIRFDQRIEAERAIQELNGTI-P-KGSNEPITVKFANSP   49 (83)
Q Consensus         4 ~TG~SrG~gFV~F~~~e~A~~AI~~LnG~~-~-~G~~~~l~V~fA~~~   49 (83)
                      .+|.++|||||.|.+.++|.+|++.||+.. + .+..++|.|.++...
T Consensus       132 ~~g~~~g~afV~f~~~~~A~~A~~~l~~~~~~~~~~~r~i~v~~~~~~  179 (261)
T 3sde_A          132 DRGRATGKGFVEFAAKPPARKALERCGDGAFLLTTTPRPVIVEPMEQF  179 (261)
T ss_dssp             TTSCEEEEEEEEESSHHHHHHHHHHHHHSCEESSSSCCBCEEEECCCE
T ss_pred             CCCCcCcEEEEEeCCHHHHHHHHHHhcCCeEEecCCCceEEEeecccc
Confidence            479999999999999999999999996554 3 445689999998754

>2voo_A Lupus LA protein; RNA-binding protein, RNA recognition motif, systemic lupus erythematosus, phosphoprotein, RNA maturation; 1.8A {Homo sapiens} SCOP: a.4.5.46 d.58.7.1 PDB: 2von_A 2vod_A 2vop_A 1zh5_A 1yty_A 1s7a_A

Probab=98.27  E-value=6.3e-07  Score=60.91  Aligned_cols=45  Identities=13%  Similarity=0.110  Sum_probs=36.1

Q ss_pred             CCCccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecCCCCCC
Q psy6355           5 TDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSPSSS   52 (83)
Q Consensus         5 TG~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~~~~~~   52 (83)
                      +|.+||||||.|.+.++|++|++.++ ..+.|  ++|.|.++..-.++
T Consensus       146 ~~~~kG~aFVeF~~~e~A~~A~~~~~-~~~~G--r~l~V~~~~~y~~~  190 (193)
T 2voo_A          146 HKAFKGSIFVVFDSIESAKKFVETPG-QKYKE--TDLLILFKDDYFAK  190 (193)
T ss_dssp             TCCEEEEEEEEESSHHHHHHHHHCTT-CEETT--EECEEEETTTC---
T ss_pred             CCCcccEEEEEECCHHHHHHHHHhCC-CeECC--EEEEEEEhHHHHHH
Confidence            58999999999999999999998765 47877  67999987765444

>1qm9_A Polypyrimidine tract-binding protein; ribonucleoprotein, RNP, RNA, spicing, translation; NMR {Homo sapiens} SCOP: d.58.7.1 d.58.7.1

Probab=98.27  E-value=1.2e-06  Score=57.87  Aligned_cols=39  Identities=21%  Similarity=0.410  Sum_probs=35.7

Q ss_pred             cceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecCCC
Q psy6355           9 RYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSP   49 (83)
Q Consensus         9 rG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~~~   49 (83)
                      +|||||.|.+.++|++|++.|||..+.|  ++|.|.++...
T Consensus        41 ~g~afV~f~~~~~a~~A~~~l~~~~~~g--~~l~v~~a~~~   79 (198)
T 1qm9_A           41 KENALVQMADGNQAQLAMSHLNGHKLHG--KPIRITLSKHQ   79 (198)
T ss_dssp             SSCCEEECTTTHHHHHHHHHHTTCCCSS--CCCEEEECCCC
T ss_pred             CCEEEEEECCHHHHHHHHHHhCCCeecC--eEEEEEEecCC
Confidence            8999999999999999999999999977  67999998754

>2adc_A Polypyrimidine tract-binding protein 1; RBD, RRM, protein-RNA complex, RNA binding protein/RNA complex; NMR {Homo sapiens} SCOP: d.58.7.1 d.58.7.1 PDB: 2evz_A

Probab=98.25  E-value=1.8e-06  Score=58.98  Aligned_cols=39  Identities=21%  Similarity=0.410  Sum_probs=35.7

Q ss_pred             cceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecCCC
Q psy6355           9 RYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSP   49 (83)
Q Consensus         9 rG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~~~   49 (83)
                      +|||||.|.+.++|++|++.|||..+.|  ++|.|.++...
T Consensus        72 ~g~afV~F~~~~~A~~Ai~~l~g~~~~g--~~l~v~~a~~~  110 (229)
T 2adc_A           72 KENALVQMADGNQAQLAMSHLNGHKLHG--KPIRITLSKHQ  110 (229)
T ss_dssp             SCCEEEEESCHHHHHHHHHHHTTCBCSS--SBCEEECCSCC
T ss_pred             CCEEEEEECCHHHHHHHHHHhCCCeECC--eEEEEEEecCc
Confidence            8999999999999999999999999976  67999998754

>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=98.25  E-value=6.2e-07  Score=53.84  Aligned_cols=41  Identities=17%  Similarity=0.155  Sum_probs=30.4

Q ss_pred             CccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecCCCCC
Q psy6355           7 FCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSPSS   51 (83)
Q Consensus         7 ~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~~~~~   51 (83)
                      .|||||||.|.+.++|+    .|+|..+.+..+.|.|++|.+...
T Consensus        46 ~srGfaFV~F~~~~~A~----~~~~~~~~~~g~~v~v~~a~~k~~   86 (89)
T 3d2w_A           46 PFRAFAFVTFADDKVAQ----SLCGEDLIIKGISVHISNAEPKHN   86 (89)
T ss_dssp             SCCSEEEEEESCHHHHH----HHTTCEEEETTEEEEEEECC----
T ss_pred             CCCCEEEEEECCHHHHH----HHcCCCcccCCEEEEEEEcCCCCc
Confidence            38999999999999988    368876554457899999876544

>3tht_A Alkylated DNA repair protein ALKB homolog 8; structural genomics, PSI-biology, northeast structural genom consortium, NESG; HET: AKG; 3.01A {Homo sapiens} PDB: 3thp_A*

Probab=98.24  E-value=8e-07  Score=66.17  Aligned_cols=40  Identities=25%  Similarity=0.385  Sum_probs=34.5

Q ss_pred             ccceEEEEeCCHHHHHHHHHHhCCCCC---CCCCcceEEEecC
Q psy6355           8 CRYLGFIRFDQRIEAERAIQELNGTIP---KGSNEPITVKFAN   47 (83)
Q Consensus         8 SrG~gFV~F~~~e~A~~AI~~LnG~~~---~G~~~~l~V~fA~   47 (83)
                      +||||||.|.+.++|++||+.|||+.+   .|...+|.|.|+.
T Consensus        55 ~kgfaFV~f~~~~~A~~Ai~~lnG~~~~~~~g~~~~ly~~~~~   97 (345)
T 3tht_A           55 NKPYSFARYRTTEESKRAYVTLNGKEVVDDLGQKITLYLNFVE   97 (345)
T ss_dssp             TCSEEEEEESSHHHHHHHHHHTTTCEEECTTSCEEECEEEECS
T ss_pred             CCCEEEEEECCHHHHHHHHHHhCCCccccccCCceEEEEEEee
Confidence            689999999999999999999999975   3444478889885

>3sde_A Paraspeckle component 1; RRM, anti parallel right handed coiled-coil, NOPS, DBHS, RNA protein, RNA binding; 1.90A {Homo sapiens} PDB: 3sde_B

Probab=98.16  E-value=1.5e-06  Score=60.59  Aligned_cols=41  Identities=44%  Similarity=0.659  Sum_probs=36.8

Q ss_pred             CCccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecCC
Q psy6355           6 DFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANS   48 (83)
Q Consensus         6 G~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~~   48 (83)
                      +.++|||||.|.+.++|++|+..|||..+.|  ++|.|.++.+
T Consensus        55 ~~~kg~afV~f~~~~~A~~A~~~l~g~~i~g--~~l~v~~a~~   95 (261)
T 3sde_A           55 NRDRGFGFIRLESRTLAEIAKAELDGTILKS--RPLRIRFATH   95 (261)
T ss_dssp             ETTTTEEEEECSSHHHHHHHHHHHTTCEETT--EECEEEECCC
T ss_pred             eCCCcEEEEEECCHHHHHHHHHHcCCcEECC--ceeEeeeccc
Confidence            3579999999999999999999999999966  7899999865

>1wf0_A TDP-43, TAR DNA-binding protein-43; structural genomics, RRM domain, riken structural genomics/proteomics initiative RSGI, RNA binding protein; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=97.81  E-value=1.2e-05  Score=47.24  Aligned_cols=42  Identities=19%  Similarity=0.161  Sum_probs=31.1

Q ss_pred             CccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecCCCCCC
Q psy6355           7 FCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSPSSS   52 (83)
Q Consensus         7 ~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~~~~~~   52 (83)
                      .+||||||.|.+.++|++    |++..+.+..++|.|.++.+....
T Consensus        40 ~~~g~afV~f~~~~~a~~----~~~~~~~~~g~~l~v~~a~~~~~~   81 (88)
T 1wf0_A           40 PFRAFAFVTFADDQIAQS----LCGEDLIIKGISVHISNAEPKHNS   81 (88)
T ss_dssp             SCCSCCEEECSCHHHHHH----TTTCEEEETTEEEEEECCCCCCCC
T ss_pred             CCCCEEEEEECCHHHHHH----HhcCCceeCCEEEEEEecCCCCCC
Confidence            379999999999999974    466654333478999988765443

>2dnr_A Synaptojanin-1; RRM domain, RBD, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=97.81  E-value=1.4e-05  Score=49.80  Aligned_cols=37  Identities=19%  Similarity=0.218  Sum_probs=32.3

Q ss_pred             ceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecCCC
Q psy6355          10 YLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSP   49 (83)
Q Consensus        10 G~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~~~   49 (83)
                      +.+||.|.+.++|.+||+ |||..+.|  +.|+|+++.+.
T Consensus        50 d~~fVtF~d~~sAlaAi~-mnG~~v~G--r~LkV~lkt~d   86 (91)
T 2dnr_A           50 DKMWVTFLEGSSALNVLS-LNGKELLN--RTITIALKSPS   86 (91)
T ss_dssp             SSEEEEESSHHHHHHGGG-GTTCEETT--EEEEEEECCCS
T ss_pred             CCEEEEECChHHHHHHHh-cCCeEeCC--eEEEEEeCCCC
Confidence            448999999999999998 99999977  67999988654

>1ufw_A Synaptojanin 2; RNP domain, structural genomics, riken structural genomics/proteomics initiative, RSGI, RNA binding protein; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=97.31  E-value=0.00013  Score=45.71  Aligned_cols=32  Identities=16%  Similarity=0.294  Sum_probs=28.8

Q ss_pred             EEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEec
Q psy6355          12 GFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFA   46 (83)
Q Consensus        12 gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA   46 (83)
                      +||.|.+.++|.+||+ |||.++.|  +.|.|++.
T Consensus        61 ~fVtF~d~~sAl~AI~-ldG~~v~G--r~L~V~~k   92 (95)
T 1ufw_A           61 MLVTFADSHSALSVLD-VDGMKVKG--RAVKISGP   92 (95)
T ss_dssp             EEEECSCSHHHHHHHH-GGGSEETT--EEEEEECC
T ss_pred             EEEEEcChHHHHHHHh-cCCeeeCC--eEEEEecc
Confidence            9999999999999998 99999977  67888764

>2kn4_A Immunoglobulin G-binding protein G, splicing FACT arginine/serine-rich 2, S35, splicing factor SC35,; RRM domain, cell WALL; NMR {Streptococcus SP}

Probab=96.98  E-value=0.00031  Score=44.99  Aligned_cols=27  Identities=7%  Similarity=-0.041  Sum_probs=24.5

Q ss_pred             CCccceEEEEeCCHHHHHHHHHHhCCC
Q psy6355           6 DFCRYLGFIRFDQRIEAERAIQELNGT   32 (83)
Q Consensus         6 G~SrG~gFV~F~~~e~A~~AI~~LnG~   32 (83)
                      ..++|||||.|.+.++|++|++.+++.
T Consensus        10 ~~~~G~~fV~f~~~~~A~~al~~~~~~   36 (158)
T 2kn4_A           10 KTLKGETTTEAVDAATAEKVFKQYAND   36 (158)
T ss_dssp             SSCEEEEEEECSSHHHHHHHHHHHHHH
T ss_pred             ccccchhHHHHHHHHhHHHHHHhhccc
Confidence            478999999999999999999998864

>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=96.66  E-value=0.00083  Score=42.88  Aligned_cols=40  Identities=15%  Similarity=0.000  Sum_probs=35.3

Q ss_pred             CCccceEEEEeCCHHHHHHHHHHh-CCCCCCCCCcceEEEecCC
Q psy6355           6 DFCRYLGFIRFDQRIEAERAIQEL-NGTIPKGSNEPITVKFANS   48 (83)
Q Consensus         6 G~SrG~gFV~F~~~e~A~~AI~~L-nG~~~~G~~~~l~V~fA~~   48 (83)
                      ..-+|+++|.|.+.++|++|++.| ||..++|   ++.+.++..
T Consensus        10 ~~l~G~~~ve~~~~~~A~~a~~~~~ng~~~~G---~~~~~~a~~   50 (150)
T 2i2y_A           10 KTLKGETTTEAVDAATAEKVFKQYANDNGVDG---EWTYDDATK   50 (150)
T ss_dssp             SSSCEEEEEECSSHHHHTTTHHHHHHHHTCCC---EEEEETTTT
T ss_pred             ccccccceeeecCHHHHHHHHHHHhcCCCCCC---ceecccccC
Confidence            356899999999999999999999 9999977   688888764

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

Probab=93.52  E-value=0.19  Score=32.02  Aligned_cols=39  Identities=18%  Similarity=0.196  Sum_probs=29.5

Q ss_pred             eEEEEeCC-HHHHHHHHHHhC--CCCCCCCCcceEEEecCCCCC
Q psy6355          11 LGFIRFDQ-RIEAERAIQELN--GTIPKGSNEPITVKFANSPSS   51 (83)
Q Consensus        11 ~gFV~F~~-~e~A~~AI~~Ln--G~~~~G~~~~l~V~fA~~~~~   51 (83)
                      .|||+|.+ .++|..|++.||  |..+.|  ..++++...-..+
T Consensus        57 tgfVrf~~~~~~A~~av~~ln~~~~~i~g--~~~~~evL~GeeE   98 (121)
T 1owx_A           57 EGIILFKEKAKEALGKAKDANNGNLQLRN--KEVTWEVLEGEVE   98 (121)
T ss_dssp             EEEEEESSCHHHHHHHHHHTTTSCBCTTS--SSEEEEECCHHHH
T ss_pred             EEEEEECCChHHHHHHHHHhhcCCcEEeC--cEEEEEECCCHHH
Confidence            59999999 899999999996  445655  5677776654433

>2l9w_A U4/U6 snRNA-associated-splicing factor PRP24; RRM, U6 snRNP, RNA binding protein; NMR {Saccharomyces cerevisiae}

Probab=90.94  E-value=0.18  Score=32.49  Aligned_cols=33  Identities=24%  Similarity=0.220  Sum_probs=28.7

Q ss_pred             ceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEE
Q psy6355          10 YLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVK   44 (83)
Q Consensus        10 G~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~   44 (83)
                      |=|+|.|.|...|.+|.-.|||..+.|  +.|.|.
T Consensus        63 ~GAivef~d~~~AgKasLaL~G~ef~g--r~Lr~g   95 (117)
T 2l9w_A           63 NGAIIIFRDSKFAAKMLMILNGSQFQG--KVIRSG   95 (117)
T ss_dssp             TEEEEECSCHHHHHHHHHHHSSEEETT--EEEEEE
T ss_pred             CceEEEEccchhhHHHHhhcCCeeecC--eEEEec
Confidence            349999999999999999999999976  567775

>1wey_A Calcipressin 1; structural genomics, RRM domain, riken structural genomics/proteomics initiative, RSGI, RNA binding protein; NMR {Mus musculus} SCOP: d.58.7.1

Probab=84.93  E-value=0.58  Score=29.37  Aligned_cols=37  Identities=24%  Similarity=0.233  Sum_probs=31.7

Q ss_pred             EEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecCCCC
Q psy6355          12 GFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSPS   50 (83)
Q Consensus        12 gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~~~~   50 (83)
                      -.|.|.+.++|.+|-..||+..+.|  ..|+|-|+.+..
T Consensus        49 irv~F~~~~~A~~AR~~Lh~~~f~g--~~~r~YFgq~~~   85 (104)
T 1wey_A           49 VRINFSNPLSAADARLRLHKTEFLG--KEMKLYFAQTLH   85 (104)
T ss_dssp             EEEECSSTTHHHHHHHTSTTSEETT--EECEEECCCCSS
T ss_pred             EEEEeCChHHHHHHHHHhccceecC--ceeEEEecCCCC
Confidence            4689999999999999999999877  579999987543

---

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	83
d1b7fa2	85	d.58.7.1 (A:205-289) Sex-lethal protein {Drosophil	9e-10
d1no8a_	78	d.58.7.1 (A:) Nuclear factor Aly {Mouse (Mus muscu	6e-07
d1fxla2	85	d.58.7.1 (A:119-203) Hu antigen D (Hud) {Human (Ho	7e-07
d2cqia1	90	d.58.7.1 (A:1-90) Nucleolysin TIAR {Human (Homo sa	1e-06
d2cpja1	86	d.58.7.1 (A:65-150) Non-POU domain-containing octa	2e-06
d1whya_	97	d.58.7.1 (A:) Putative RNA-binding protein 15B, Rb	3e-06
d2u2fa_	85	d.58.7.1 (A:) Splicing factor U2AF 65 KDa subunit	6e-06
d2f9da1	114	d.58.7.1 (A:12-125) Pre-mRNA branch site protein p	1e-05
d2adba1	108	d.58.7.1 (A:177-284) Polypyrimidine tract-binding	2e-05
d2disa1	96	d.58.7.1 (A:8-103) Hypothetical protein FLJ20273 {	3e-05
d1x5sa1	90	d.58.7.1 (A:8-97) Cold-inducible RNA-binding prote	3e-05
d2dita1	99	d.58.7.1 (A:8-106) HIV Tat-specific factor 1 {Huma	4e-05
d1nu4a_	91	d.58.7.1 (A:) Splicesomal U1A protein {Human (Homo	5e-05
d2cpfa1	85	d.58.7.1 (A:362-446) Probable RNA-binding protein	6e-05
d1x5ua1	93	d.58.7.1 (A:7-99) Splicing factor 3B subunit 4 {Hu	7e-05
d2cpda1	86	d.58.7.1 (A:223-308) APOBEC1 stimulating protein {	1e-04
d1cvja1	80	d.58.7.1 (A:11-90) Poly(A)-binding protein {Human	1e-04
d2cq2a1	101	d.58.7.1 (A:25-125) Alkylation repair AlkB homolog	1e-04
d1wf2a_	98	d.58.7.1 (A:) Heterogeneous nuclear ribonucleoprot	1e-04
d2cpea1	101	d.58.7.1 (A:353-453) RNA-binding protein EWS {Huma	2e-04
d1fxla1	82	d.58.7.1 (A:37-118) Hu antigen D (Hud) {Human (Hom	2e-04
d2cqba1	89	d.58.7.1 (A:1-89) Peptidyl-prolyl cis-trans isomer	3e-04
d2cpza1	102	d.58.7.1 (A:383-484) CUG triplet repeat RNA-bindin	4e-04
d2cq1a1	88	d.58.7.1 (A:51-138) Polypyrimidine tract-binding p	4e-04
d1fjca_	96	d.58.7.1 (A:) Nucleolin {Golden hamster (Mesocrice	4e-04
d1x5oa1	101	d.58.7.1 (A:8-108) RNA-binding motif, single-stran	4e-04
d1x4aa1	95	d.58.7.1 (A:9-103) Splicing factor, arginine/serin	5e-04
d2cpha1	94	d.58.7.1 (A:454-547) Probable RNA-binding protein	5e-04
d1h2vz_	93	d.58.7.1 (Z:) CBP20, 20KDa nuclear cap-binding pro	6e-04
d1wexa_	104	d.58.7.1 (A:) Heterogeneous nuclear ribonucleoprot	6e-04
d1whwa_	99	d.58.7.1 (A:) Probable RNA-binding protein 19, Rbm	6e-04
d2cq3a1	93	d.58.7.1 (A:110-202) RNA-binding protein 9 {Human	7e-04
d1weya_	104	d.58.7.1 (A:) Calcipressin-1 {Mouse (Mus musculus)	7e-04
d2cq0a1	90	d.58.7.1 (A:231-320) Eukaryotic translation initia	0.001
U2AF35 (35 KDa subunit) {Human (Homo sapiens) [TaxId: 9606]} Length = 104" target="_blank" href="http://scop.mrc-lmb.cam.ac.uk/scop/search.cgi?sid=d1jmta_">d1jmta_	104	d.58.7.3 (A:) 0.001
d2cqda1	103	d.58.7.1 (A:1-103) RNA-binding region containing p	0.002
d1o0pa_	104	d.58.7.1 (A:) Splicing factor U2AF 65 KDa subunit	0.002
d1p1ta_	104	d.58.7.1 (A:) Cleavage stimulation factor, 64 kda	0.003
d1rk8a_	88	d.58.7.1 (A:) RNA-binding protein 8 {Fruit fly (Dr	0.003

>d1b7fa2 d.58.7.1 (A:205-289) Sex-lethal protein {Drosophila melanogaster [TaxId: 7227]} Length = 85

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Sex-lethal protein
species: Drosophila melanogaster [TaxId: 7227]

 Score = 48.0 bits (114), Expect = 9e-10
 Identities = 17/46 (36%), Positives = 29/46 (63%)

Query: 1  MKGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFA 46
              T   R + F+R+++R EA+ AI  LN  IP+G ++P++V+ A
Sbjct: 40 RDKLTGRPRGVAFVRYNKREEAQEAISALNNVIPEGGSQPLSVRLA 85

>d1no8a_ d.58.7.1 (A:) Nuclear factor Aly {Mouse (Mus musculus) [TaxId: 10090]} Length = 78

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Nuclear factor Aly
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 40.7 bits (95), Expect = 6e-07
 Identities = 8/48 (16%), Positives = 21/48 (43%), Gaps = 2/48 (4%)

Query: 1  MKGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANS 48
              +        + F+++ +A +A+++ NG    G   P+ ++   S
Sbjct: 33 HYDRSGRSLGTADVHFERKADALKAMKQYNGVPLDGR--PMNIQLVTS 78

>d1fxla2 d.58.7.1 (A:119-203) Hu antigen D (Hud) {Human (Homo sapiens) [TaxId: 9606]} Length = 85

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Hu antigen D (Hud)
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 40.8 bits (95), Expect = 7e-07
 Identities = 25/34 (73%), Positives = 28/34 (82%)

Query: 13 FIRFDQRIEAERAIQELNGTIPKGSNEPITVKFA 46
          FIRFD+RIEAE AI+ LNG  P G+ EPITVKFA
Sbjct: 52 FIRFDKRIEAEEAIKGLNGQKPSGATEPITVKFA 85

>d2cqia1 d.58.7.1 (A:1-90) Nucleolysin TIAR {Human (Homo sapiens) [TaxId: 9606]} Length = 90

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Nucleolysin TIAR
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 40.0 bits (93), Expect = 1e-06
 Identities = 12/46 (26%), Positives = 20/46 (43%), Gaps = 2/46 (4%)

Query: 6  DFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSPSS 51
                 F+ F +  +A  A+  +NG    G    + V +A +PSS
Sbjct: 45 TSNDPYCFVEFYEHRDAAAALAAMNGRKILGK--EVKVNWATTPSS 88

>d2cpja1 d.58.7.1 (A:65-150) Non-POU domain-containing octamer-binding protein, NonO {Mouse (Mus musculus) [TaxId: 10090]} Length = 86

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Non-POU domain-containing octamer-binding protein, NonO
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 39.6 bits (92), Expect = 2e-06
 Identities = 16/48 (33%), Positives = 23/48 (47%), Gaps = 2/48 (4%)

Query: 4  FTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSPSS 51
          F    +  GFIR + R  AE A  EL+    +G    + V+FA   +S
Sbjct: 39 FIHKDKGFGFIRLETRTLAEIAKVELDNMPLRGK--QLRVRFACHSAS 84

>d1whya_ d.58.7.1 (A:) Putative RNA-binding protein 15B, Rbm15b {Mouse (Mus musculus) [TaxId: 10090]} Length = 97

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Putative RNA-binding protein 15B, Rbm15b
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 39.3 bits (91), Expect = 3e-06
 Identities = 11/49 (22%), Positives = 20/49 (40%)

Query: 4  FTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSPSSS 52
                   +I+++    A+ A  ++ G    G +  + V FA S  SS
Sbjct: 48 DHVKGDSFAYIQYESLDAAQAACAKMRGFPLGGPDRRLRVDFAKSGPSS 96

>d2u2fa_ d.58.7.1 (A:) Splicing factor U2AF 65 KDa subunit {Human (Homo sapiens) [TaxId: 9606]} Length = 85

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Splicing factor U2AF 65 KDa subunit
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 38.5 bits (89), Expect = 6e-06
 Identities = 9/52 (17%), Positives = 18/52 (34%), Gaps = 2/52 (3%)

Query: 1  MKGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSPSSS 52
              T   +   F  +      ++AI  LNG         + V+ A+  + +
Sbjct: 35 KDSATGLSKGYAFCEYVDINVTDQAIAGLNGMQLGDK--KLLVQRASVGAKN 84

>d2f9da1 d.58.7.1 (A:12-125) Pre-mRNA branch site protein p14 {Human (Homo sapiens) [TaxId: 9606]} Length = 114

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Pre-mRNA branch site protein p14
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 38.1 bits (88), Expect = 1e-05
 Identities = 10/54 (18%), Positives = 21/54 (38%), Gaps = 2/54 (3%)

Query: 1  MKGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSPSSSNK 54
            G T   R   ++ ++   +A+ A   L+G         + V + N+  +  K
Sbjct: 38 RVGNTPETRGTAYVVYEDIFDAKNACDHLSGFNVCNR--YLVVLYYNANRAFQK 89

>d2adba1 d.58.7.1 (A:177-284) Polypyrimidine tract-binding protein {Human (Homo sapiens) [TaxId: 9606]} Length = 108

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Polypyrimidine tract-binding protein
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 37.7 bits (87), Expect = 2e-05
 Identities = 9/54 (16%), Positives = 23/54 (42%)

Query: 1  MKGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSPSSSNK 54
          +  FT   ++   +++   + A+ A   L+G     +   + + F+   S + K
Sbjct: 37 IITFTKNNQFQALLQYADPVSAQHAKLSLDGQNIYNACCTLRIDFSKLTSLNVK 90

>d2disa1 d.58.7.1 (A:8-103) Hypothetical protein FLJ20273 {Human (Homo sapiens) [TaxId: 9606]} Length = 96

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Hypothetical protein FLJ20273
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 36.6 bits (84), Expect = 3e-05
 Identities = 8/47 (17%), Positives = 15/47 (31%)

Query: 1  MKGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFAN 47
                  R   F+ ++    A  A ++L     +     I V +A 
Sbjct: 37 SAADKMKNRGFAFVEYESHRAAAMARRKLMPGRIQLWGHQIAVDWAE 83

>d1x5sa1 d.58.7.1 (A:8-97) Cold-inducible RNA-binding protein {Human (Homo sapiens) [TaxId: 9606]} Length = 90

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Cold-inducible RNA-binding protein
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 36.6 bits (84), Expect = 3e-05
 Identities = 16/54 (29%), Positives = 23/54 (42%), Gaps = 3/54 (5%)

Query: 1  MKGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSPSSSNK 54
              T   R  GF+ F+   +A+ A+  +NG    G    I V  A   SS N+
Sbjct: 39 KDRETQRSRGFGFVTFENIDDAKDAMMAMNGKSVDGR--QIRVDQAG-KSSDNR 89

>d2dita1 d.58.7.1 (A:8-106) HIV Tat-specific factor 1 {Human (Homo sapiens) [TaxId: 9606]} Length = 99

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: HIV Tat-specific factor 1
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 36.4 bits (84), Expect = 4e-05
 Identities = 11/47 (23%), Positives = 18/47 (38%), Gaps = 2/47 (4%)

Query: 1  MKGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFAN 47
          +  F      +  + F    EA+  IQ L+G    G    IT +  +
Sbjct: 49 LLLFDRHPDGVASVSFRDPEEADYCIQTLDGRWFGGR--QITAQAWD 93

>d1nu4a_ d.58.7.1 (A:) Splicesomal U1A protein {Human (Homo sapiens) [TaxId: 9606]} Length = 91

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Splicesomal U1A protein
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 36.2 bits (83), Expect = 5e-05
 Identities = 11/51 (21%), Positives = 23/51 (45%), Gaps = 5/51 (9%)

Query: 9  RYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSPSSSNKVIAPL 59
          R   F+ F +   A  A++ + G        P+ +++A + S    +IA +
Sbjct: 46 RGQAFVIFKEVSSATNALRSMQGFPFYDK--PMRIQYAKTDS---DIIAKM 91

>d2cpfa1 d.58.7.1 (A:362-446) Probable RNA-binding protein 19, Rbm19 {Mouse (Mus musculus) [TaxId: 10090]} Length = 85

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Probable RNA-binding protein 19, Rbm19
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 35.8 bits (82), Expect = 6e-05
 Identities = 8/46 (17%), Positives = 21/46 (45%), Gaps = 2/46 (4%)

Query: 5  TDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSPS 50
                 GF+ + +  +A++A+++L G    G    + V+ +   +
Sbjct: 39 VLLSMGFGFVEYKKPEQAQKALKQLQGHTVDGH--KLEVRISERAT 82

>d1x5ua1 d.58.7.1 (A:7-99) Splicing factor 3B subunit 4 {Human (Homo sapiens) [TaxId: 9606]} Length = 93

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Splicing factor 3B subunit 4
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 35.8 bits (82), Expect = 7e-05
 Identities = 12/52 (23%), Positives = 23/52 (44%), Gaps = 2/52 (3%)

Query: 1  MKGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSPSSS 52
              T   +  GF+ F    +A+ AI+ ++     G   PI V  A++ + +
Sbjct: 43 KDRVTGQHQGYGFVEFLSEEDADYAIKIMDMIKLYGK--PIRVNKASAHNKN 92

>d2cpda1 d.58.7.1 (A:223-308) APOBEC1 stimulating protein {Human (Homo sapiens) [TaxId: 9606]} Length = 86

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: APOBEC1 stimulating protein
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 35.4 bits (81), Expect = 1e-04
 Identities = 15/49 (30%), Positives = 21/49 (42%), Gaps = 2/49 (4%)

Query: 5  TDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSPSSSN 53
              R   F+ F  R +A  A++ LNG +  GS  PI V  A      +
Sbjct: 40 VKKIRDYAFVHFSNREDAVEAMKALNGKVLDGS--PIEVTLAKPVDKDS 86

>d1cvja1 d.58.7.1 (A:11-90) Poly(A)-binding protein {Human (Homo sapiens) [TaxId: 9606]} Length = 80

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Poly(A)-binding protein
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 34.9 bits (80), Expect = 1e-04
 Identities = 11/43 (25%), Positives = 21/43 (48%), Gaps = 2/43 (4%)

Query: 5  TDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFAN 47
          T       ++ F Q  +AERA+  +N  + KG   P+ + ++ 
Sbjct: 38 TRRSLGYAYVNFQQPADAERALDTMNFDVIKGK--PVRIMWSQ 78

>d2cq2a1 d.58.7.1 (A:25-125) Alkylation repair AlkB homolog 8, ALKBH8 {Human (Homo sapiens) [TaxId: 9606]} Length = 101

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Alkylation repair AlkB homolog 8, ALKBH8
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 35.5 bits (81), Expect = 1e-04
 Identities = 10/44 (22%), Positives = 17/44 (38%), Gaps = 1/44 (2%)

Query: 4  FTDFCRYLGFIRFDQRIEAERAIQELNGT-IPKGSNEPITVKFA 46
               +   F R+    E++RA   LNG  +     + IT+   
Sbjct: 51 LMPPNKPYSFARYRTTEESKRAYVTLNGKEVVDDLGQKITLYLN 94

>d1wf2a_ d.58.7.1 (A:) Heterogeneous nuclear ribonucleoproteins C1/C2 {Human (Homo sapiens) [TaxId: 9606]} Length = 98

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Heterogeneous nuclear ribonucleoproteins C1/C2
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 35.2 bits (81), Expect = 1e-04
 Identities = 7/43 (16%), Positives = 16/43 (37%), Gaps = 2/43 (4%)

Query: 12 GFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSPSSSNK 54
           F+++     A  A+   +G +  G    + +  A  P  +  
Sbjct: 53 AFVQYVNERNARAAVAGEDGRMIAGQ--VLDINLAAEPKVNRS 93

>d2cpea1 d.58.7.1 (A:353-453) RNA-binding protein EWS {Human (Homo sapiens) [TaxId: 9606]} Length = 101

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding protein EWS
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 34.8 bits (79), Expect = 2e-04
 Identities = 10/50 (20%), Positives = 21/50 (42%), Gaps = 4/50 (8%)

Query: 5   TDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFA--NSPSSS 52
           T   +    + ++    A+ A++  +G   +GS   + V  A    P +S
Sbjct: 54  TGKPKGDATVSYEDPPTAKAAVEWFDGKDFQGS--KLKVSLARKKPPMNS 101

>d1fxla1 d.58.7.1 (A:37-118) Hu antigen D (Hud) {Human (Homo sapiens) [TaxId: 9606]} Length = 82

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Hu antigen D (Hud)
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 34.3 bits (78), Expect = 2e-04
 Identities = 15/50 (30%), Positives = 21/50 (42%), Gaps = 3/50 (6%)

Query: 1  MKGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSPS 50
              T      GF+ +    +AE+AI  LNG   +     I V +A  PS
Sbjct: 36 RDKITGQSLGYGFVNYIDPKDAEKAINTLNGLRLQTK--TIKVSYAR-PS 82

>d2cqba1 d.58.7.1 (A:1-89) Peptidyl-prolyl cis-trans isomerase E, N-terminal domain {Human (Homo sapiens) [TaxId: 9606]} Length = 89

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Peptidyl-prolyl cis-trans isomerase E, N-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 33.9 bits (77), Expect = 3e-04
 Identities = 12/46 (26%), Positives = 19/46 (41%), Gaps = 2/46 (4%)

Query: 1  MKGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFA 46
          +   T+  R   F+ F+   +A  AI  +N +   G    I V  A
Sbjct: 39 LDYETEKHRGFAFVEFELAEDAAAAIDNMNESELFGR--TIRVNLA 82

>d2cpza1 d.58.7.1 (A:383-484) CUG triplet repeat RNA-binding protein 1 {Human (Homo sapiens) [TaxId: 9606]} Length = 102

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: CUG triplet repeat RNA-binding protein 1
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 33.9 bits (77), Expect = 4e-04
 Identities = 13/52 (25%), Positives = 24/52 (46%), Gaps = 2/52 (3%)

Query: 1   MKGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSPSSS 52
           +   T+  +  GF+ +D  + A+ AIQ +NG         + V+   S + S
Sbjct: 52  IDKQTNLSKCFGFVSYDNPVSAQAAIQSMNGFQIGMK--RLKVQLKRSKNDS 101

>d2cq1a1 d.58.7.1 (A:51-138) Polypyrimidine tract-binding protein 2, PTBP2 {Human (Homo sapiens) [TaxId: 9606]} Length = 88

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Polypyrimidine tract-binding protein 2, PTBP2
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 33.7 bits (76), Expect = 4e-04
 Identities = 7/48 (14%), Positives = 16/48 (33%)

Query: 1  MKGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANS 48
                  +   F+       A   +   +   P   N+PI ++++N 
Sbjct: 36 TNILMLKGKNQAFLELATEEAAITMVNYYSAVTPHLRNQPIYIQYSNH 83

>d1fjca_ d.58.7.1 (A:) Nucleolin {Golden hamster (Mesocricetus auratus) [TaxId: 10036]} Length = 96

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Nucleolin
species: Golden hamster (Mesocricetus auratus) [TaxId: 10036]

 Score = 33.9 bits (77), Expect = 4e-04
 Identities = 7/48 (14%), Positives = 19/48 (39%), Gaps = 2/48 (4%)

Query: 5  TDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSPSSS 52
              + + +I F    +AE+ ++E  G    G    +++ +      +
Sbjct: 49 DGKSKGIAYIEFKSEADAEKNLEEKQGAEIDGR--SVSLYYTGEKGGT 94

>d1x5oa1 d.58.7.1 (A:8-108) RNA-binding motif, single-stranded-interacting protein 1, RBMS1 {Human (Homo sapiens) [TaxId: 9606]} Length = 101

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding motif, single-stranded-interacting protein 1, RBMS1
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 34.0 bits (77), Expect = 4e-04
 Identities = 13/44 (29%), Positives = 17/44 (38%), Gaps = 6/44 (13%)

Query: 8   CRYLGFIRFDQRIEAERAIQELNGTIPKG------SNEPITVKF 45
            R +GF R +   + E  I   NG   K         EP+  KF
Sbjct: 58  SRGVGFARMESTEKCEAVIGHFNGKFIKTPPGVSAPTEPLLCKF 101

>d1x4aa1 d.58.7.1 (A:9-103) Splicing factor, arginine/serine-rich 1, SFRS1 {Human (Homo sapiens) [TaxId: 9606]} Length = 95

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]

 Score = 33.5 bits (76), Expect = 5e-04
 Identities = 10/48 (20%), Positives = 18/48 (37%), Gaps = 2/48 (4%)

Query: 5  TDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSPSSS 52
                  F+ F+   +AE A+   +G    G    + V+F  S   +
Sbjct: 49 RRGGPPFAFVEFEDPRDAEDAVYGRDGYDYDGY--RLRVEFPRSGRGT 94

>d2cpha1 d.58.7.1 (A:454-547) Probable RNA-binding protein 19, Rbm19 {Mouse (Mus musculus) [TaxId: 10090]} Length = 94

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Probable RNA-binding protein 19, Rbm19
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 33.4 bits (76), Expect = 5e-04
 Identities = 12/48 (25%), Positives = 23/48 (47%), Gaps = 3/48 (6%)

Query: 2  KGFTDFCRYLGFIRFDQRIEAERAIQEL-NGTIPKGSNEPITVKFANS 48
             T   R  GF+ F  + +A++A   L + T   G    + +++A+S
Sbjct: 44 MTGTGAHRGFGFVDFITKQDAKKAFNALCHSTHLYGR--RLVLEWADS 89

>d1h2vz_ d.58.7.1 (Z:) CBP20, 20KDa nuclear cap-binding protein {Human (Homo sapiens) [TaxId: 9606]} Length = 93

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: CBP20, 20KDa nuclear cap-binding protein
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 33.4 bits (76), Expect = 6e-04
 Identities = 9/48 (18%), Positives = 16/48 (33%), Gaps = 2/48 (4%)

Query: 4  FTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSPSS 51
                   F+ +  R +AE A++ +NGT        I   +      
Sbjct: 44 MKKTACGFCFVEYYSRADAENAMRYINGTRLDDR--IIRTDWDAGFKE 89

>d1wexa_ d.58.7.1 (A:) Heterogeneous nuclear ribonucleoprotein L-like {Mouse (Mus musculus) [TaxId: 10090]} Length = 104

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Heterogeneous nuclear ribonucleoprotein L-like
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 33.6 bits (76), Expect = 6e-04
 Identities = 3/45 (6%), Positives = 12/45 (26%)

Query: 4  FTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANS 48
               +    + F+    A+  +          + +     ++ S
Sbjct: 46 MMMPFKRQALVEFENIDSAKECVTFAADVPVYIAGQQAFFNYSTS 90

>d1whwa_ d.58.7.1 (A:) Probable RNA-binding protein 19, Rbm19 {Mouse (Mus musculus) [TaxId: 10090]} Length = 99

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Probable RNA-binding protein 19, Rbm19
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 33.5 bits (76), Expect = 6e-04
 Identities = 9/54 (16%), Positives = 22/54 (40%), Gaps = 2/54 (3%)

Query: 1  MKGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSPSSSNK 54
          +   T   +   F+ F     A +A  E++G + +G    + V  +     +++
Sbjct: 42 IDSLTKKPKGFAFVTFMFPEHAVKAYAEVDGQVFQGR--MLHVLPSTIKKEASQ 93

>d2cq3a1 d.58.7.1 (A:110-202) RNA-binding protein 9 {Human (Homo sapiens) [TaxId: 9606]} Length = 93

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding protein 9
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 33.1 bits (75), Expect = 7e-04
 Identities = 14/49 (28%), Positives = 26/49 (53%), Gaps = 2/49 (4%)

Query: 5  TDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSPSSSN 53
              +  GF+ F+   +A+RA ++L+GT+ +G    I V  A +   +N
Sbjct: 47 ERGSKGFGFVTFENSADADRAREKLHGTVVEGR--KIEVNNATARVMTN 93

>d1weya_ d.58.7.1 (A:) Calcipressin-1 {Mouse (Mus musculus) [TaxId: 10090]} Length = 104

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Calcipressin-1
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 33.2 bits (75), Expect = 7e-04
 Identities = 11/58 (18%), Positives = 19/58 (32%), Gaps = 2/58 (3%)

Query: 8   CRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSPSSSNKVIAPLAAYLTP 65
                 I F   + A  A   L+ T   G    + + FA +    +  +AP     + 
Sbjct: 45  SFKRVRINFSNPLSAADARLRLHKTEFLGK--EMKLYFAQTLHIGSSHLAPPNPDKSG 100

>d2cq0a1 d.58.7.1 (A:231-320) Eukaryotic translation initiation factor 3 subunit 4 {Human (Homo sapiens) [TaxId: 9606]} Length = 90

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Eukaryotic translation initiation factor 3 subunit 4
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 32.7 bits (74), Expect = 0.001
 Identities = 14/49 (28%), Positives = 24/49 (48%), Gaps = 3/49 (6%)

Query: 4  FTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSPSSS 52
           T   +   FI F +R +A RAI  ++G         + V++A  PS++
Sbjct: 45 TTGQSKGFAFISFHRREDAARAIAGVSGFGYDHL--ILNVEWAK-PSTN 90

>d1jmta_ d.58.7.3 (A:) U2AF35 (35 KDa subunit) {Human (Homo sapiens) [TaxId: 9606]} Length = 104

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Splicing factor U2AF subunits
domain: U2AF35 (35 KDa subunit)
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 32.3 bits (73), Expect = 0.001
 Identities = 12/49 (24%), Positives = 21/49 (42%), Gaps = 4/49 (8%)

Query: 1   MKGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSP 49
                D      +++F +  +AE+A+ +LN     G   PI  +   SP
Sbjct: 60  CDNLGDHLVGNVYVKFRREEDAEKAVIDLNNRWFNGQ--PIHAEL--SP 104

>d2cqda1 d.58.7.1 (A:1-103) RNA-binding region containing protein 1 {Human (Homo sapiens) [TaxId: 9606]} Length = 103

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding region containing protein 1
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 32.4 bits (73), Expect = 0.002
 Identities = 11/39 (28%), Positives = 15/39 (38%), Gaps = 3/39 (7%)

Query: 12 GFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSPS 50
          GF+    R  AERA ++ N  I         V  A   +
Sbjct: 55 GFVTMADRAAAERACKDPNPII---DGRKANVNLAYLGA 90

>d1o0pa_ d.58.7.1 (A:) Splicing factor U2AF 65 KDa subunit {Human (Homo sapiens) [TaxId: 9606]} Length = 104

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Splicing factor U2AF 65 KDa subunit
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 31.9 bits (72), Expect = 0.002
 Identities = 8/47 (17%), Positives = 17/47 (36%), Gaps = 2/47 (4%)

Query: 1  MKGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFAN 47
          + G         F+ F    + ++A+Q L G         +  K+ +
Sbjct: 50 VDGVEVPGCGKIFVEFTSVFDCQKAMQGLTGRKFANR--VVVTKYCD 94

>d1p1ta_ d.58.7.1 (A:) Cleavage stimulation factor, 64 kda subunit {Human (Homo sapiens) [TaxId: 9606]} Length = 104

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Cleavage stimulation factor, 64 kda subunit
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 31.6 bits (71), Expect = 0.003
 Identities = 12/54 (22%), Positives = 20/54 (37%), Gaps = 2/54 (3%)

Query: 1  MKGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSPSSSNK 54
              T   +  GF  +  +  A  A++ LNG    G    + V  A S  +  +
Sbjct: 42 YDRETGKPKGYGFCEYQDQETALSAMRNLNGREFSGR--ALRVDNAASEKNKEE 93

>d1rk8a_ d.58.7.1 (A:) RNA-binding protein 8 {Fruit fly (Drosophila melanogaster) [TaxId: 7227]} Length = 88

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]

 Score = 31.2 bits (70), Expect = 0.003
 Identities = 10/48 (20%), Positives = 18/48 (37%), Gaps = 2/48 (4%)

Query: 1  MKGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANS 48
          +   T F +    + ++   +A  A + LNG    G    I V +   
Sbjct: 41 LDRRTGFSKGYALVEYETHKQALAAKEALNGAEIMGQ--TIQVDWCFV 86

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	83
d1fxla2	85	Hu antigen D (Hud) {Human (Homo sapiens) [TaxId: 9	99.41
d1b7fa2	85	Sex-lethal protein {Drosophila melanogaster [TaxId	99.4
d1x5ta1	83	Splicing factor 3B subunit 4 {Human (Homo sapiens)	99.36
d2u2fa_	85	Splicing factor U2AF 65 KDa subunit {Human (Homo s	99.33
d2cqba1	89	Peptidyl-prolyl cis-trans isomerase E, N-terminal	99.33
d1x5ua1	93	Splicing factor 3B subunit 4 {Human (Homo sapiens)	99.32
d1whwa_	99	Probable RNA-binding protein 19, Rbm19 {Mouse (Mus	99.3
d2cq0a1	90	Eukaryotic translation initiation factor 3 subunit	99.3
d2cpza1	102	CUG triplet repeat RNA-binding protein 1 {Human (H	99.29
d1cvja1	80	Poly(A)-binding protein {Human (Homo sapiens) [Tax	99.27
d1b7fa1	82	Sex-lethal protein {Drosophila melanogaster [TaxId	99.27
d1x5sa1	90	Cold-inducible RNA-binding protein {Human (Homo sa	99.26
d1rk8a_	88	RNA-binding protein 8 {Fruit fly (Drosophila melan	99.26
d2cpha1	94	Probable RNA-binding protein 19, Rbm19 {Mouse (Mus	99.25
d2ghpa1	81	U4/U6 snRNA-associated-splicing factor PRP24 {Bake	99.25
d2cpea1	101	RNA-binding protein EWS {Human (Homo sapiens) [Tax	99.24
d1h2vz_	93	CBP20, 20KDa nuclear cap-binding protein {Human (H	99.23
d1no8a_	78	Nuclear factor Aly {Mouse (Mus musculus) [TaxId: 1	99.22
d1u6fa1	139	RNA-binding protein UBP1 {Trypanosoma cruzi [TaxId	99.22
d1fxla1	82	Hu antigen D (Hud) {Human (Homo sapiens) [TaxId: 9	99.21
d1p1ta_	104	Cleavage stimulation factor, 64 kda subunit {Human	99.2
d2cpxa1	102	RNA-binding protein 41, RBM41 {Human (Homo sapiens	99.19
d1uawa_	77	Musashi-1 {Mouse (Mus musculus) [TaxId: 10090]}	99.19
d1hd0a_	75	Heterogeneous nuclear ribonucleoprotein d0 {Human	99.11
d2cqpa1	86	RNA-binding protein 12 {Mouse (Mus musculus) [TaxI	99.1
d2ghpa3	86	U4/U6 snRNA-associated-splicing factor PRP24 {Bake	99.1
d2cpfa1	85	Probable RNA-binding protein 19, Rbm19 {Mouse (Mus	99.09
d2cqda1	103	RNA-binding region containing protein 1 {Human (Ho	99.09
d2msta_	75	Neural RNA-binding protein Musashi-1 {Mouse (Mus m	99.09
d2cq4a1	101	RNA binding protein 23 {Human (Homo sapiens) [TaxI	99.08
d2cqha1	80	IGF-II mRNA-binding protein 2 isoform A {Human (Ho	99.07
d2cqga1	90	TAR DNA-binding protein 43, TDP-43 {Human (Homo sa	99.07
d2cqia1	90	Nucleolysin TIAR {Human (Homo sapiens) [TaxId: 960	99.07
d1cvja2	89	Poly(A)-binding protein {Human (Homo sapiens) [Tax	99.06
d2cqca1	83	Arginine/serine-rich splicing factor 10 {Human (Ho	99.05
U2AF35 (35 KDa subunit) {Human (Homo sapiens) [TaxId: 9606]}" target="_blank" href="http://scop.mrc-lmb.cam.ac.uk/scop/search.cgi?sid=d1jmta_">d1jmta_	104	U2	99.05
d2disa1	96	Hypothetical protein FLJ20273 {Human (Homo sapiens	99.05
d1wi6a1	75	Ribonucleoprotein PTB-binding 1, Raver-1 {Mouse (M	99.04
d1fjeb1	91	Nucleolin {Golden hamster (Mesocricetus auratus) [	99.04
d1x4ba1	103	Heterogeneous nuclear ribonucleoproteins A2/B1 {Hu	99.04
d1l3ka1	84	Nuclear ribonucleoprotein A1 (RNP A1, UP1) {Human	99.03
d1fjca_	96	Nucleolin {Golden hamster (Mesocricetus auratus) [	99.02
d1x4ha1	98	RNA-binding protein 28 {Mouse (Mus musculus) [TaxI	99.02
d1wf2a_	98	Heterogeneous nuclear ribonucleoproteins C1/C2 {Hu	99.0
d1x5oa1	101	RNA-binding motif, single-stranded-interacting pro	99.0
d1x0fa1	75	Nuclear ribonucleoprotein D0 (AUF1) {Human (Homo s	98.99
d2f9da1	114	Pre-mRNA branch site protein p14 {Human (Homo sapi	98.96
d1l3ka2	79	Nuclear ribonucleoprotein A1 (RNP A1, UP1) {Human	98.96
d1x4aa1	95	Splicing factor, arginine/serine-rich 1, SFRS1 {Hu	98.95
d1wi8a_	104	Eukaryotic translation initiation factor 4B {Human	98.94
d1wg1a_	88	Probable RNA-binding protein KIAA1579 {Human (Homo	98.94
d2cq3a1	93	RNA-binding protein 9 {Human (Homo sapiens) [TaxId	98.94
d1weya_	104	Calcipressin-1 {Mouse (Mus musculus) [TaxId: 10090	98.94
d2cpda1	86	APOBEC1 stimulating protein {Human (Homo sapiens)	98.94
d1nu4a_	91	Splicesomal U1A protein {Human (Homo sapiens) [Tax	98.94
d1whya_	97	Putative RNA-binding protein 15B, Rbm15b {Mouse (M	98.92
d2cpia1	89	E3 ubiquitin protein ligase CNOT4 {Mouse (Mus musc	98.91
d2adca2	88	Polypyrimidine tract-binding protein {Human (Homo	98.91
d2bz2a1	79	Negative elongation factor E, NELF-E {Human (Homo	98.88
d2cpja1	86	Non-POU domain-containing octamer-binding protein,	98.88
d1wg5a_	104	Heterogeneous nuclear ribonucleoprotein H' {Human	98.88
d1x4ea1	72	RNA-binding motif, single-stranded-interacting pro	98.86
d1whxa_	111	Probable RNA-binding protein 19, Rbm19 {Mouse (Mus	98.84
d2cpya1	103	RNA-binding protein 12 {Human (Homo sapiens) [TaxI	98.82
d1x4ga1	96	Nucleolysin TIAR {Human (Homo sapiens) [TaxId: 960	98.82
d1weza_	102	Heterogeneous nuclear ribonucleoprotein H' {Human	98.81
d2adba1	108	Polypyrimidine tract-binding protein {Human (Homo	98.81
d2adca1	109	Polypyrimidine tract-binding protein {Human (Homo	98.8
d2dita1	99	HIV Tat-specific factor 1 {Human (Homo sapiens) [T	98.76
d2b0ga1	83	Splicesomal U1A protein {Drosophila melanogaster [	98.74
d1u1qa_	183	Nuclear ribonucleoprotein A1 (RNP A1, UP1) {Human	98.68
d1zh5a2	85	Lupus LA protein {Human (Homo sapiens) [TaxId: 960	98.66
d1wela1	112	RNA-binding protein 12 {Human (Homo sapiens) [TaxI	98.65
d1u2fa_	90	Splicing factor U2AF 65 KDa subunit {Human (Homo s	98.63
d1o0pa_	104	Splicing factor U2AF 65 KDa subunit {Human (Homo s	98.59
d1wg4a_	98	Splicing factor, arginine/serine-rich 9 (SFRS9) {M	98.58
d3begb1	87	Splicing factor, arginine/serine-rich 1, SFRS1 {Hu	98.57
d1x4fa1	99	Matrin 3 {Mouse (Mus musculus) [TaxId: 10090]}	98.48
d1wf0a_	88	TAR DNA-binding protein 43, TDP-43 {Human (Homo sa	98.47
d2cq1a1	88	Polypyrimidine tract-binding protein 2, PTBP2 {Hum	98.44
d1wexa_	104	Heterogeneous nuclear ribonucleoprotein L-like {Mo	98.37
d2cq2a1	101	Alkylation repair AlkB homolog 8, ALKBH8 {Human (H	98.37
d1x4da1	89	Matrin 3 {Mouse (Mus musculus) [TaxId: 10090]}	98.35
d2ghpa2	75	U4/U6 snRNA-associated-splicing factor PRP24 {Bake	98.32
d1wwha1	81	Nucleoporin 35 {Mouse (Mus musculus) [TaxId: 10090	98.26
d1owxa_	113	Lupus LA protein {Human (Homo sapiens) [TaxId: 960	97.95
d1u1qa_	183	Nuclear ribonucleoprotein A1 (RNP A1, UP1) {Human	97.22
d2dgxa1	73	Limkain-b1, LKAP {Human (Homo sapiens) [TaxId: 960	90.62

>d1fxla2 d.58.7.1 (A:119-203) Hu antigen D (Hud) {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Hu antigen D (Hud)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.41  E-value=1.8e-13  Score=81.36  Aligned_cols=45  Identities=62%  Similarity=0.948  Sum_probs=43.0

Q ss_pred             CCCCCCccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEec
Q psy6355           2 KGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFA   46 (83)
Q Consensus         2 Dk~TG~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA   46 (83)
                      |+.+|.+||||||.|.+.++|++|++.|||..+.|..++|.|+||
T Consensus        41 d~~~g~~kg~afV~f~~~~~a~~Ai~~lng~~~~G~~~~i~V~~A   85 (85)
T d1fxla2          41 DQVTGVSRGVGFIRFDKRIEAEEAIKGLNGQKPSGATEPITVKFA   85 (85)
T ss_dssp             CTTTCCEEEEEEEEESSHHHHHHHHHHHTTCCCTTCSSCCEEEEC
T ss_pred             ccccccCCCeeEEEEcCHHHHHHHHHHhCCCEeCCCCEEEEEEeC
Confidence            788999999999999999999999999999999998899999997

>d1b7fa2 d.58.7.1 (A:205-289) Sex-lethal protein {Drosophila melanogaster [TaxId: 7227]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Sex-lethal protein
species: Drosophila melanogaster [TaxId: 7227]

Probab=99.40  E-value=2.3e-13  Score=80.69  Aligned_cols=45  Identities=38%  Similarity=0.696  Sum_probs=42.6

Q ss_pred             CCCCCCccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEec
Q psy6355           2 KGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFA   46 (83)
Q Consensus         2 Dk~TG~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA   46 (83)
                      |+.+|.+||||||.|.+.++|++||+.|||..+.|..++|.|+||
T Consensus        41 d~~~g~~~g~afV~f~~~~~A~~Ai~~l~g~~~~g~~~~l~V~~A   85 (85)
T d1b7fa2          41 DKLTGRPRGVAFVRYNKREEAQEAISALNNVIPEGGSQPLSVRLA   85 (85)
T ss_dssp             CTTTCCEEEEEEEEESSHHHHHHHHHHHTTCCCTTCSSCCEEEEC
T ss_pred             ccccccCceeEEEEECCHHHHHHHHHHHCCCEeCCCCeEEEEEEC
Confidence            788999999999999999999999999999999887789999987

>d1x5ta1 d.58.7.1 (A:8-90) Splicing factor 3B subunit 4 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Splicing factor 3B subunit 4
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.36  E-value=4.8e-13  Score=78.72  Aligned_cols=49  Identities=29%  Similarity=0.317  Sum_probs=43.9

Q ss_pred             CCCCCCCccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecCCCCC
Q psy6355           1 MKGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSPSS   51 (83)
Q Consensus         1 ~Dk~TG~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~~~~~   51 (83)
                      .|+.||.++|||||.|.+.++|++||+.|||..+.|  ++|.|++|.+...
T Consensus        33 ~~~~~g~~~g~afV~f~~~~~a~~Ai~~~~g~~~~g--r~l~v~~a~~k~~   81 (83)
T d1x5ta1          33 RDPDTGNSKGYAFINFASFDASDAAIEAMNGQYLCN--RPITVSYAFKKDS   81 (83)
T ss_dssp             CCTTTCSCCSEEEEEBSSHHHHHHHHHTTTTCEETT--EECEEEESCCCCC
T ss_pred             eeccccccCceEEEEECCHHHHHHHHHhCCCcEECC--EEEEEEEecCCCc
Confidence            378899999999999999999999999999999977  7899999986543

>d2u2fa_ d.58.7.1 (A:) Splicing factor U2AF 65 KDa subunit {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Splicing factor U2AF 65 KDa subunit
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.33  E-value=1.1e-12  Score=77.98  Aligned_cols=48  Identities=19%  Similarity=0.195  Sum_probs=43.7

Q ss_pred             CCCCCCCccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecCCCC
Q psy6355           1 MKGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSPS   50 (83)
Q Consensus         1 ~Dk~TG~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~~~~   50 (83)
                      +|+.||.+||||||.|.+.++|+.|++.|||..+.|  ++|.|++|....
T Consensus        35 ~d~~tg~~rg~aFV~f~~~~~A~~a~~~l~~~~l~g--~~l~V~~A~~~~   82 (85)
T d2u2fa_          35 KDSATGLSKGYAFCEYVDINVTDQAIAGLNGMQLGD--KKLLVQRASVGA   82 (85)
T ss_dssp             CCCSSSCCCCEEEEEESSSHHHHHHHHTSSSCCCSS--SCCEEEECCCCC
T ss_pred             ccccccccceeEEEEECCHHHHHHHHHHhCCCEECC--EEEEEEECCCCC
Confidence            488999999999999999999999999999999976  679999997543

>d2cqba1 d.58.7.1 (A:1-89) Peptidyl-prolyl cis-trans isomerase E, N-terminal domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Peptidyl-prolyl cis-trans isomerase E, N-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.33  E-value=6.7e-13  Score=79.33  Aligned_cols=49  Identities=24%  Similarity=0.291  Sum_probs=44.1

Q ss_pred             CCCCCCCccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecCCCCC
Q psy6355           1 MKGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSPSS   51 (83)
Q Consensus         1 ~Dk~TG~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~~~~~   51 (83)
                      .|+.+|.+||||||.|.+.++|++||+.|||..+.|  ++|.|++|.+.+.
T Consensus        39 ~d~~~~~~kg~afV~f~~~~~A~~ai~~l~~~~i~g--~~l~v~~a~p~~~   87 (89)
T d2cqba1          39 LDYETEKHRGFAFVEFELAEDAAAAIDNMNESELFG--RTIRVNLAKPMRI   87 (89)
T ss_dssp             CCSSSCCCSSEEEECCSSHHHHHHHHHHHTTEEETT--EEEEEEECCCCCC
T ss_pred             cccccccccceeEEEECCHHHHHHHHHHcCCCEECC--EEEEEEEeCCCCC
Confidence            478899999999999999999999999999999977  6899999976543

>d1x5ua1 d.58.7.1 (A:7-99) Splicing factor 3B subunit 4 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Splicing factor 3B subunit 4
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.32  E-value=1.7e-12  Score=78.33  Aligned_cols=47  Identities=26%  Similarity=0.311  Sum_probs=43.3

Q ss_pred             CCCCCCccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecCCCC
Q psy6355           2 KGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSPS   50 (83)
Q Consensus         2 Dk~TG~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~~~~   50 (83)
                      |+.||.+||||||.|.+.++|++||+.|||..+.|  ++|.|++|.+..
T Consensus        44 d~~tg~~kg~afV~f~~~~~A~~Ai~~l~g~~~~g--~~l~V~~A~~~~   90 (93)
T d1x5ua1          44 DRVTGQHQGYGFVEFLSEEDADYAIKIMDMIKLYG--KPIRVNKASAHN   90 (93)
T ss_dssp             CSSSCSBCSCEEEEESSHHHHHHHHHHSSSCBCSS--CBCEEEETTTTS
T ss_pred             cccccccccceEEEECCHHHHHHHHHHcCCCEECC--EEEEEEEcCCCC
Confidence            78899999999999999999999999999999977  679999997654

>d1whwa_ d.58.7.1 (A:) Probable RNA-binding protein 19, Rbm19 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Probable RNA-binding protein 19, Rbm19
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.30  E-value=2.2e-12  Score=78.27  Aligned_cols=50  Identities=18%  Similarity=0.243  Sum_probs=44.9

Q ss_pred             CCCCCCCccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecCCCCCC
Q psy6355           1 MKGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSPSSS   52 (83)
Q Consensus         1 ~Dk~TG~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~~~~~~   52 (83)
                      +|+.||.+||||||.|.+.++|++||+.|||..+.|  ++|.|.+|....+.
T Consensus        42 ~d~~tg~~~g~afV~f~~~~~a~~A~~~l~g~~~~g--r~i~V~~a~~~~~~   91 (99)
T d1whwa_          42 IDSLTKKPKGFAFVTFMFPEHAVKAYAEVDGQVFQG--RMLHVLPSTIKKEA   91 (99)
T ss_dssp             CCTTTCCCCSEEEEEESSHHHHHHHHHHTTTEESSS--CEEEEEECCCCSTT
T ss_pred             ccccccccCcceEEEECCHHHHHHHHHHcCCCEECC--EEEEEEECCCCCcc
Confidence            478899999999999999999999999999999977  67999999876544

>d2cq0a1 d.58.7.1 (A:231-320) Eukaryotic translation initiation factor 3 subunit 4 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Eukaryotic translation initiation factor 3 subunit 4
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.30  E-value=1.4e-12  Score=78.01  Aligned_cols=46  Identities=26%  Similarity=0.321  Sum_probs=42.2

Q ss_pred             CCCCCCccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecCCC
Q psy6355           2 KGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSP   49 (83)
Q Consensus         2 Dk~TG~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~~~   49 (83)
                      |+.+|.+||||||.|.+.++|++||+.|||..+.|  +.|.|++|.+.
T Consensus        43 d~~t~~~rg~afV~f~~~~~A~~Ai~~l~g~~~~g--~~i~v~~akp~   88 (90)
T d2cq0a1          43 DKTTGQSKGFAFISFHRREDAARAIAGVSGFGYDH--LILNVEWAKPS   88 (90)
T ss_dssp             CSSSCSEEEEEEEEESSHHHHHHHHHHTTTCEETT--EECEEEESSCC
T ss_pred             cccccccccceeEEECCHHHHHHHHHHhCCCEECC--EEEEEEeeeCC
Confidence            77899999999999999999999999999999976  67999999754

>d2cpza1 d.58.7.1 (A:383-484) CUG triplet repeat RNA-binding protein 1 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: CUG triplet repeat RNA-binding protein 1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.29  E-value=1.1e-12  Score=80.30  Aligned_cols=50  Identities=26%  Similarity=0.465  Sum_probs=45.0

Q ss_pred             CCCCCCCccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecCCCCCC
Q psy6355           1 MKGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSPSSS   52 (83)
Q Consensus         1 ~Dk~TG~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~~~~~~   52 (83)
                      +|+.+|.+||||||.|.+.++|+.||+.|||..+.|  ++|.|++|.+..++
T Consensus        52 ~~~~~g~~kG~afV~f~~~~~A~~Ai~~lng~~~~g--~~i~V~~a~~k~~~  101 (102)
T d2cpza1          52 IDKQTNLSKCFGFVSYDNPVSAQAAIQSMNGFQIGM--KRLKVQLKRSKNDS  101 (102)
T ss_dssp             ECSSSCSEEEEEEEECSSHHHHHHHHHHHTTCEETT--EECEEECCCCSCCC
T ss_pred             eecccCCCccceEEEeCCHHHHHHHHHHhCCCEECC--EEEEEEEeCCCCCC
Confidence            377899999999999999999999999999999966  78999999877654

>d1cvja1 d.58.7.1 (A:11-90) Poly(A)-binding protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Poly(A)-binding protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.27  E-value=1.4e-12  Score=76.50  Aligned_cols=45  Identities=24%  Similarity=0.434  Sum_probs=41.8

Q ss_pred             CCCCCCccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecCC
Q psy6355           2 KGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANS   48 (83)
Q Consensus         2 Dk~TG~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~~   48 (83)
                      |+.||.++|||||.|.+.++|+.||+.|||..+.|  ++|.|.+|..
T Consensus        35 d~~tg~~~g~aFV~f~~~~~a~~ai~~l~g~~~~g--r~i~v~~a~~   79 (80)
T d1cvja1          35 DMITRRSLGYAYVNFQQPADAERALDTMNFDVIKG--KPVRIMWSQR   79 (80)
T ss_dssp             CTTTCCEEEEEEEEESSHHHHHHHHTTSTTCEETT--EECEEEECCC
T ss_pred             cccccCCCCceEEEECCHHHHHHHHHHcCCCEECC--EEEEEEEeCC
Confidence            78899999999999999999999999999999977  7899999864

>d1b7fa1 d.58.7.1 (A:123-204) Sex-lethal protein {Drosophila melanogaster [TaxId: 7227]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Sex-lethal protein
species: Drosophila melanogaster [TaxId: 7227]

Probab=99.27  E-value=1.7e-12  Score=76.05  Aligned_cols=45  Identities=24%  Similarity=0.454  Sum_probs=41.5

Q ss_pred             CCCCCCccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecCC
Q psy6355           2 KGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANS   48 (83)
Q Consensus         2 Dk~TG~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~~   48 (83)
                      |+.+|.+||||||.|.++++|++||+.|||..+.|  ++|.|++|.+
T Consensus        37 ~~~~g~~~g~afV~f~~~~~A~~ai~~lng~~~~g--~~l~v~~a~p   81 (82)
T d1b7fa1          37 DYKTGYSYGYAFVDFTSEMDSQRAIKVLNGITVRN--KRLKVSYARP   81 (82)
T ss_dssp             ETTTTEECSEEEEEESSHHHHHHHHHHHTTCEETT--EECEEEECCC
T ss_pred             ecccCCccccceEEECCHHHHHHHHHHhCCCEECC--EEEEEEEcCC
Confidence            67899999999999999999999999999999966  7899999864

>d1x5sa1 d.58.7.1 (A:8-97) Cold-inducible RNA-binding protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Cold-inducible RNA-binding protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.26  E-value=6.2e-12  Score=74.80  Aligned_cols=49  Identities=29%  Similarity=0.397  Sum_probs=43.8

Q ss_pred             CCCCCCccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecCCCCCC
Q psy6355           2 KGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSPSSS   52 (83)
Q Consensus         2 Dk~TG~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~~~~~~   52 (83)
                      ++.+|.++|||||.|.+.++|+.||+.|||..+.|  ++|.|++|.+....
T Consensus        40 ~~~~~~~~g~afV~f~~~~~a~~Ai~~l~~~~~~g--~~l~V~~a~~~~~~   88 (90)
T d1x5sa1          40 DRETQRSRGFGFVTFENIDDAKDAMMAMNGKSVDG--RQIRVDQAGKSSDN   88 (90)
T ss_dssp             CSSSCSCCSEEEEECSSHHHHHHHHHHHTTCCTTS--CCCEEEEEECCCCC
T ss_pred             ccccccccceEEEEECCHHHHHHHHHHcCCCEECC--EEEEEEEcCCCCCC
Confidence            67789999999999999999999999999999977  67999999776543

>d1rk8a_ d.58.7.1 (A:) RNA-binding protein 8 {Fruit fly (Drosophila melanogaster) [TaxId: 7227]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding protein 8
species: Fruit fly (Drosophila melanogaster) [TaxId: 7227]

Probab=99.26  E-value=1.9e-12  Score=77.29  Aligned_cols=47  Identities=21%  Similarity=0.331  Sum_probs=42.5

Q ss_pred             CCCCCCCccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecCCC
Q psy6355           1 MKGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSP   49 (83)
Q Consensus         1 ~Dk~TG~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~~~   49 (83)
                      .|+.||.+||||||.|.+.++|++|++.|||..+.|  ++|.|+||.+.
T Consensus        41 ~d~~tg~~~g~afV~f~~~~~A~~A~~~lng~~l~g--~~l~V~~a~~k   87 (88)
T d1rk8a_          41 LDRRTGFSKGYALVEYETHKQALAAKEALNGAEIMG--QTIQVDWCFVK   87 (88)
T ss_dssp             ECTTTSSEEEEEEEEESSHHHHHHHHHHHTTCEETT--EECEEEESEEC
T ss_pred             ccccccccccceeEEECCHHHHHHHHHHcCCCEECC--EEEEEEEecCC
Confidence            378899999999999999999999999999999977  67999998653

>d2cpha1 d.58.7.1 (A:454-547) Probable RNA-binding protein 19, Rbm19 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Probable RNA-binding protein 19, Rbm19
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.25  E-value=1e-11  Score=74.85  Aligned_cols=46  Identities=26%  Similarity=0.391  Sum_probs=41.1

Q ss_pred             CCCCccceEEEEeCCHHHHHHHHHHh-CCCCCCCCCcceEEEecCCCCC
Q psy6355           4 FTDFCRYLGFIRFDQRIEAERAIQEL-NGTIPKGSNEPITVKFANSPSS   51 (83)
Q Consensus         4 ~TG~SrG~gFV~F~~~e~A~~AI~~L-nG~~~~G~~~~l~V~fA~~~~~   51 (83)
                      .+|.+||||||.|.+.++|++||+.| ||..+.|  ++|.|+||+....
T Consensus        46 ~~g~~rg~afV~f~~~~~A~~Ai~~l~~~~~~~G--r~l~V~~A~~~~~   92 (94)
T d2cpha1          46 GTGAHRGFGFVDFITKQDAKKAFNALCHSTHLYG--RRLVLEWADSEVT   92 (94)
T ss_dssp             SSCSSCSEEEEEESSHHHHHHHHHHHHTCCBSSS--CBCEEEECCCCCC
T ss_pred             cCCCcccEEEEEECCHHHHHHHHHHccCCcEECC--EEEEEEEcCCCCC
Confidence            47999999999999999999999999 8888877  6899999987643

>d2ghpa1 d.58.7.1 (A:116-196) U4/U6 snRNA-associated-splicing factor PRP24 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: U4/U6 snRNA-associated-splicing factor PRP24
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.25  E-value=2.8e-12  Score=75.02  Aligned_cols=45  Identities=20%  Similarity=0.299  Sum_probs=35.8

Q ss_pred             CCCCCCccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecCC
Q psy6355           2 KGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANS   48 (83)
Q Consensus         2 Dk~TG~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~~   48 (83)
                      |+.+|.+||||||.|.+.++|++||+.|||+.+.|  ++|.|+++++
T Consensus        36 ~~~~~~~~g~afV~f~~~e~A~~Ai~~l~g~~~~g--~~i~V~~a~P   80 (81)
T d2ghpa1          36 SLRFNTSRRFAYIDVTSKEDARYCVEKLNGLKIEG--YTLVTKVSNP   80 (81)
T ss_dssp             -------CCEEEEECSSHHHHHHHHHHHTTCEETT--EECEEEECCC
T ss_pred             ccccccccceeEEEECCHHHHHHHHHHhCCCEECC--EEEEEEEccC
Confidence            56689999999999999999999999999999977  7899999975

>d2cpea1 d.58.7.1 (A:353-453) RNA-binding protein EWS {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding protein EWS
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.24  E-value=5.4e-12  Score=76.11  Aligned_cols=48  Identities=15%  Similarity=0.165  Sum_probs=43.1

Q ss_pred             CCCCCCCccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecCCCC
Q psy6355           1 MKGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSPS   50 (83)
Q Consensus         1 ~Dk~TG~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~~~~   50 (83)
                      .|+.+|.++|||||.|.+.++|++||+.|||..+.|  ++|.|++|.+..
T Consensus        50 ~d~~~~~~~g~afV~f~~~~~a~~Ai~~l~g~~~~g--r~i~V~~a~~~~   97 (101)
T d2cpea1          50 LDKETGKPKGDATVSYEDPPTAKAAVEWFDGKDFQG--SKLKVSLARKKP   97 (101)
T ss_dssp             BCTTTCSBCSEEEEEBSSHHHHHHHHHHHTTCEETT--EECEEECSSCCC
T ss_pred             eccccccccceeeEEecCHHHHHHHHHHhCCCEECC--EEEEEEEcCCCC
Confidence            367889999999999999999999999999999977  789999997643

>d1h2vz_ d.58.7.1 (Z:) CBP20, 20KDa nuclear cap-binding protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: CBP20, 20KDa nuclear cap-binding protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.23  E-value=5.3e-12  Score=76.07  Aligned_cols=48  Identities=19%  Similarity=0.258  Sum_probs=43.1

Q ss_pred             CCCCCCccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecCCCCC
Q psy6355           2 KGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSPSS   51 (83)
Q Consensus         2 Dk~TG~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~~~~~   51 (83)
                      |+.+|.+||||||.|.+.++|+.||+.|||..+.|  ++|.|.||....+
T Consensus        42 ~~~~~~~kg~afV~f~~~~~A~~Ai~~l~g~~~~g--r~i~V~~a~~~~~   89 (93)
T d1h2vz_          42 DKMKKTACGFCFVEYYSRADAENAMRYINGTRLDD--RIIRTDWDAGFKE   89 (93)
T ss_dssp             CTTTCCEEEEEEEEESSHHHHHHHHHHTTTSEETT--EECEEEEESCCCT
T ss_pred             ccccccccceEEEEECCHHHHHHHHHHhCCCEECC--EEEEEEEcCCCCC
Confidence            78899999999999999999999999999999976  7899999865433

>d1no8a_ d.58.7.1 (A:) Nuclear factor Aly {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Nuclear factor Aly
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.22  E-value=7.4e-12  Score=73.13  Aligned_cols=44  Identities=18%  Similarity=0.375  Sum_probs=39.9

Q ss_pred             CCCCCCccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecCC
Q psy6355           2 KGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANS   48 (83)
Q Consensus         2 Dk~TG~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~~   48 (83)
                      |+ +|.++|||||.|.+.++|++|++.|||..+.|  ++|.|++|.+
T Consensus        35 ~~-~g~~~g~afV~f~~~~~A~~Ai~~l~g~~l~g--~~l~V~~a~S   78 (78)
T d1no8a_          35 DR-SGRSLGTADVHFERKADALKAMKQYNGVPLDG--RPMNIQLVTS   78 (78)
T ss_dssp             SS-CCCSCCEEEEEESCHHHHHHHHHHHTTCEETT--EECEEEEECC
T ss_pred             ee-ccccceeEEEEECCHHHHHHHHHHhCCCEECC--EEEEEEEeeC
Confidence            44 79999999999999999999999999999977  7899999863

>d1u6fa1 d.58.7.1 (A:1-139) RNA-binding protein UBP1 {Trypanosoma cruzi [TaxId: 5693]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding protein UBP1
species: Trypanosoma cruzi [TaxId: 5693]

Probab=99.22  E-value=5.2e-12  Score=80.39  Aligned_cols=48  Identities=29%  Similarity=0.334  Sum_probs=43.5

Q ss_pred             CCCCCCccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecCCCCC
Q psy6355           2 KGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSPSS   51 (83)
Q Consensus         2 Dk~TG~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~~~~~   51 (83)
                      |+.||.+||||||.|.+.++|++||+.|||..+.|  +.|.|++|.....
T Consensus        77 d~~t~~~rg~afV~f~~~~~A~~Ai~~lng~~~~g--r~l~V~~a~~~~~  124 (139)
T d1u6fa1          77 DRETRQSRGYGFVKFQSGSSAQQAIAGLNGFNILN--KRLKVALAASGHQ  124 (139)
T ss_dssp             ETTTTEEEEEEEEEESSHHHHHHHHHHTTTEECSS--CEEEEEESSCCCC
T ss_pred             ccccccccceeeEEECCHHHHHHHHHHhCCCEECC--EEEEEEEcCCCCC
Confidence            67899999999999999999999999999999977  6899999976544

>d1fxla1 d.58.7.1 (A:37-118) Hu antigen D (Hud) {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Hu antigen D (Hud)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.21  E-value=7.5e-12  Score=73.04  Aligned_cols=45  Identities=29%  Similarity=0.407  Sum_probs=41.5

Q ss_pred             CCCCCCccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecCC
Q psy6355           2 KGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANS   48 (83)
Q Consensus         2 Dk~TG~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~~   48 (83)
                      |+.+|.++|||||.|.+.++|++|++.|||..+.|  ++|.|.+|.+
T Consensus        37 ~~~~~~~~g~afv~f~~~~~a~~a~~~l~g~~~~g--~~l~v~~AkP   81 (82)
T d1fxla1          37 DKITGQSLGYGFVNYIDPKDAEKAINTLNGLRLQT--KTIKVSYARP   81 (82)
T ss_dssp             CTTTCCEEEEEEEEESSHHHHHHHHHHHTTCEETT--EECEEEECCC
T ss_pred             eccCCCceeeEEEEECCHHHHHHHHHHhCCCEECC--EEEEEEEeeC
Confidence            67889999999999999999999999999999976  7899999864

>d1p1ta_ d.58.7.1 (A:) Cleavage stimulation factor, 64 kda subunit {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Cleavage stimulation factor, 64 kda subunit
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.20  E-value=8.4e-12  Score=76.07  Aligned_cols=48  Identities=25%  Similarity=0.272  Sum_probs=43.1

Q ss_pred             CCCCCCccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecCCCCC
Q psy6355           2 KGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSPSS   51 (83)
Q Consensus         2 Dk~TG~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~~~~~   51 (83)
                      |+.||.+||||||.|.+.++|++||+.|||..+.|  ++|.|++|.+...
T Consensus        43 ~~~tg~~~g~afV~f~~~~~a~~ai~~l~~~~~~g--~~i~V~~a~~~~~   90 (104)
T d1p1ta_          43 DRETGKPKGYGFCEYQDQETALSAMRNLNGREFSG--RALRVDNAASEKN   90 (104)
T ss_dssp             ETTTTEEEEEEEEECSCHHHHHHHHHHSSSBSCSS--SCBEEEETTCTTH
T ss_pred             ccceeccCCceEEEECCHHHHHHHHHHcCCCEECC--EEEEEEECCCCCC
Confidence            67899999999999999999999999999999977  6799999876533

>d2cpxa1 d.58.7.1 (A:291-392) RNA-binding protein 41, RBM41 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding protein 41, RBM41
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.19  E-value=1e-11  Score=75.11  Aligned_cols=49  Identities=22%  Similarity=0.287  Sum_probs=43.4

Q ss_pred             CCCCCCccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecCCCCCC
Q psy6355           2 KGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSPSSS   52 (83)
Q Consensus         2 Dk~TG~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~~~~~~   52 (83)
                      |+.+|.++|||||.|.+.++|+.||+.|||..+.|  ++|.|+||.+..++
T Consensus        53 ~~~~g~~~g~~fV~f~~~~~A~~Ai~~l~g~~~~g--~~l~V~~ak~k~~r  101 (102)
T d2cpxa1          53 RMMTGRMRGQAFITFPNKEIAWQALHLVNGYKLYG--KILVIEFGKNKKQR  101 (102)
T ss_dssp             EEECSSSCSEEEEECSSHHHHHHHHHHSTTCBCSS--CBCEEEECCCCSCC
T ss_pred             ccccccccccceEEeccHHHHHHHHHHhCCCEECC--EEEEEEeCCCcccC
Confidence            45689999999999999999999999999999976  78999999876554

>d1uawa_ d.58.7.1 (A:) Musashi-1 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Musashi-1
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.19  E-value=8.8e-12  Score=73.03  Aligned_cols=43  Identities=19%  Similarity=0.268  Sum_probs=39.0

Q ss_pred             CCCCCCCccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEec
Q psy6355           1 MKGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFA   46 (83)
Q Consensus         1 ~Dk~TG~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA   46 (83)
                      .|+.||.|||||||.|.+.++|++|++ +|++.++|  ++|.|+.|
T Consensus        34 ~d~~tg~~kG~aFV~f~~~~~a~~al~-~~~~~i~G--r~i~V~~A   76 (77)
T d1uawa_          34 RDPLTKRSRGFGFVTFMDQAGVDKVLA-QSRHELDS--KTIDPKVA   76 (77)
T ss_dssp             CCCCSSSCSSEEEECCCCTTHHHHHHH-TTTCCCSS--CCCEEEEC
T ss_pred             cccCCCCccceEEEEECCHHHHHHHHH-cCCCEECC--eEEEEEEC
Confidence            488999999999999999999999997 79999987  67899876

>d1hd0a_ d.58.7.1 (A:) Heterogeneous nuclear ribonucleoprotein d0 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Heterogeneous nuclear ribonucleoprotein d0
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.11  E-value=5.5e-11  Score=68.92  Aligned_cols=43  Identities=21%  Similarity=0.312  Sum_probs=38.0

Q ss_pred             CCCCCCCccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEec
Q psy6355           1 MKGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFA   46 (83)
Q Consensus         1 ~Dk~TG~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA   46 (83)
                      .|+.||.+||||||.|.+.++|++||+ ++++.+.|  +.|.|+.|
T Consensus        33 ~d~~t~~~kg~afV~f~~~~~a~~Al~-~~~~~l~G--r~i~V~rA   75 (75)
T d1hd0a_          33 LDPITGRSRGFGFVLFKESESVDKVMD-QKEHKLNG--KVIDPKRA   75 (75)
T ss_dssp             CBTTTTBCCSEEEEEESSHHHHHHHHH-TCCCCBTT--BCCEECCC
T ss_pred             cCCCCCCcCceEEEEECCHHHHHHHHh-cCCCEECC--CEEEeeEC
Confidence            478899999999999999999999997 79999977  67888754

>d2cqpa1 d.58.7.1 (A:917-1002) RNA-binding protein 12 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding protein 12
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.10  E-value=3e-11  Score=71.18  Aligned_cols=43  Identities=16%  Similarity=0.161  Sum_probs=38.8

Q ss_pred             CCCCCCccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEec
Q psy6355           2 KGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFA   46 (83)
Q Consensus         2 Dk~TG~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA   46 (83)
                      +..+|.++|+|||.|.+.++|++||+.|||+.+.|  ++|.|++|
T Consensus        44 ~~~~g~~~G~afV~f~~~e~a~~Ai~~l~~~~l~g--r~i~v~l~   86 (86)
T d2cqpa1          44 YNEKGMPTGEAMVAFESRDEATAAVIDLNDRPIGS--RKVKLVLG   86 (86)
T ss_dssp             ECSSSCEEEEEEEEESCHHHHHHHHHHTTTCEETT--EECEEEES
T ss_pred             eCCCCCcceEEEEEEcCcHHHHHHHHHcCCCEECC--EEEEEEEC
Confidence            34689999999999999999999999999999966  77999875

>d2ghpa3 d.58.7.1 (A:206-291) U4/U6 snRNA-associated-splicing factor PRP24 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: U4/U6 snRNA-associated-splicing factor PRP24
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.10  E-value=2.6e-11  Score=71.91  Aligned_cols=44  Identities=27%  Similarity=0.446  Sum_probs=37.2

Q ss_pred             CCCCCCccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecCC
Q psy6355           2 KGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANS   48 (83)
Q Consensus         2 Dk~TG~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~~   48 (83)
                      |+.+|.+||||||.|.+.++|++|++ |||+.+.|  ++|.|++|.+
T Consensus        41 ~~~~~~~kg~afV~f~~~~~a~~Al~-~n~~~~~g--r~l~V~~a~~   84 (86)
T d2ghpa3          41 QKEHSFNNCCAFMVFENKDSAERALQ-MNRSLLGN--REISVSLADK   84 (86)
T ss_dssp             CC---CCCEEEEEEESSHHHHHHHGG-GTTEEETT--EEEEEEECCC
T ss_pred             cCCccccceeeeEEECCHHHHHHHHh-cCCCEECC--EEEEEEEcCC
Confidence            46789999999999999999999995 99999977  7899999875

>d2cpfa1 d.58.7.1 (A:362-446) Probable RNA-binding protein 19, Rbm19 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Probable RNA-binding protein 19, Rbm19
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.09  E-value=2.8e-11  Score=71.19  Aligned_cols=40  Identities=20%  Similarity=0.526  Sum_probs=36.7

Q ss_pred             CccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecCC
Q psy6355           7 FCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANS   48 (83)
Q Consensus         7 ~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~~   48 (83)
                      .|||||||.|.+.++|++|++.|||..+.|  ++|.|++|..
T Consensus        41 ~~kG~afV~f~~~~~A~~A~~~~~~~~~~g--~~i~V~~a~~   80 (85)
T d2cpfa1          41 LSMGFGFVEYKKPEQAQKALKQLQGHTVDG--HKLEVRISER   80 (85)
T ss_dssp             EEEEEEEEEESSHHHHHHHHHHSTTCEETT--EECEEECSSC
T ss_pred             ccceEEEEEECCHHHHHHHHHHhCCCEECC--EEEEEEECCC
Confidence            689999999999999999999999999977  6899999864

>d2cqda1 d.58.7.1 (A:1-103) RNA-binding region containing protein 1 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding region containing protein 1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.09  E-value=5.1e-11  Score=72.80  Aligned_cols=46  Identities=30%  Similarity=0.339  Sum_probs=40.6

Q ss_pred             CCCCCCCccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecCCC
Q psy6355           1 MKGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSP   49 (83)
Q Consensus         1 ~Dk~TG~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~~~   49 (83)
                      .|+.||.+||||||.|.+.++|++||+.+|+ .+.|  ++|.|++|...
T Consensus        44 ~d~~tg~~kg~afV~f~~~~~A~~Ai~~~~~-~l~G--r~l~V~~a~~~   89 (103)
T d2cqda1          44 TDRQTGKSRGYGFVTMADRAAAERACKDPNP-IIDG--RKANVNLAYLG   89 (103)
T ss_dssp             CCSSSCCCCSEEEEEESSHHHHHHHHTCSSC-EETT--EECEEEESTTT
T ss_pred             ccccccccCCeEEEEECCHHHHHHHHHHCCC-cCCC--EEEEEEEcCCC
Confidence            4788999999999999999999999999886 5766  67999998754

>d2msta_ d.58.7.1 (A:) Neural RNA-binding protein Musashi-1 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Neural RNA-binding protein Musashi-1
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.09  E-value=1e-10  Score=66.86  Aligned_cols=43  Identities=19%  Similarity=0.216  Sum_probs=38.7

Q ss_pred             CCCCCCCccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEec
Q psy6355           1 MKGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFA   46 (83)
Q Consensus         1 ~Dk~TG~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA   46 (83)
                      .|+.+|.++|||||.|.+.++|++|++ |||+.+.|  ++|.|+.|
T Consensus        33 ~~~~~~~~~~~afV~F~~~~~a~~al~-~~~~~l~g--r~i~V~~A   75 (75)
T d2msta_          33 FDKTTNRHRGFGFVTFESEDIVEKVCE-IHFHEINN--KMVECKKA   75 (75)
T ss_dssp             CCTTCTTSCCEEEEECSCHHHHHHHHH-CSSCCBTT--BCCEEEEC
T ss_pred             eeccccccCceeEEEECCHHHHHHHHh-cCCCEECC--eEEEEEEC
Confidence            367889999999999999999999996 99999977  77999876

>d2cq4a1 d.58.7.1 (A:132-232) RNA binding protein 23 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA binding protein 23
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.08  E-value=2.6e-11  Score=74.30  Aligned_cols=44  Identities=20%  Similarity=0.246  Sum_probs=39.8

Q ss_pred             CCCCCCCccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecC
Q psy6355           1 MKGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFAN   47 (83)
Q Consensus         1 ~Dk~TG~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~   47 (83)
                      .|+.||.|||||||.|.+.++|++|++ |||..+.|  ++|.|+++.
T Consensus        52 ~d~~tg~~kG~afV~F~~~e~a~~A~~-l~g~~~~G--~~l~V~~a~   95 (101)
T d2cq4a1          52 SDRNSRRSKGIAYVEFCEIQSVPLAIG-LTGQRLLG--VPIIVQASQ   95 (101)
T ss_dssp             CSCCSSSCCCCEEEEESCGGGHHHHHH-HTTEEETT--EEEEEEEHH
T ss_pred             ecCCCccccceEEEEECCHHHHHHHHH-HCCCEECC--EEEEEEECC
Confidence            478899999999999999999999995 99999977  789999874

>d2cqha1 d.58.7.1 (A:2-81) IGF-II mRNA-binding protein 2 isoform A {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: IGF-II mRNA-binding protein 2 isoform A
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.07  E-value=5e-11  Score=69.88  Aligned_cols=47  Identities=21%  Similarity=0.276  Sum_probs=40.6

Q ss_pred             CCCCccceEEEEeCCHHHHHHHHHHhCCCC-CCCCCcceEEEecCCCCCC
Q psy6355           4 FTDFCRYLGFIRFDQRIEAERAIQELNGTI-PKGSNEPITVKFANSPSSS   52 (83)
Q Consensus         4 ~TG~SrG~gFV~F~~~e~A~~AI~~LnG~~-~~G~~~~l~V~fA~~~~~~   52 (83)
                      ....+||||||.|.+.++|++|++.|||.. +.|  ++|.|.+|.+..++
T Consensus        32 ~~~~~rg~aFV~f~~~~~A~~Ai~~lng~~~~~G--~~i~V~~a~~k~~r   79 (80)
T d2cqha1          32 QVLLKSGYAFVDYPDQNWAIRAIETLSGKVELHG--KIMEVDYSVSKKLR   79 (80)
T ss_dssp             CEEEETTEEEECCSCHHHHHHHHHHHTTTCEETT--EECEEEECCCCCCC
T ss_pred             EEecccceEEEEECCHHHHHHHHHHhCCCeEECC--EEEEEEEcCCcCcC
Confidence            456789999999999999999999999975 877  78999999876554

>d2cqga1 d.58.7.1 (A:96-185) TAR DNA-binding protein 43, TDP-43 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: TAR DNA-binding protein 43, TDP-43
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.07  E-value=4e-11  Score=72.09  Aligned_cols=47  Identities=21%  Similarity=0.277  Sum_probs=39.9

Q ss_pred             CCCCCCCccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecCCCCC
Q psy6355           1 MKGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSPSS   51 (83)
Q Consensus         1 ~Dk~TG~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~~~~~   51 (83)
                      +|+.||.|||||||.|.+.++|++||+.+|  .+.|  +.|.|++|.+..+
T Consensus        42 ~d~~tg~srG~aFV~f~~~~~a~~al~~~~--~l~G--r~i~v~~a~~k~~   88 (90)
T d2cqga1          42 KDLKTGHSKGFGFVRFTEYETQVKVMSQRH--MIDG--RWCDCKLPNSKQS   88 (90)
T ss_dssp             ECSSSCSEEEEEEEEESSHHHHHHHHHSCE--EETT--EEEEEECCCTTCC
T ss_pred             cCCCCcccCCEEEEEECCHHHHHHHHhcCC--ccCC--EEeEEEeCCCCCC
Confidence            478899999999999999999999998544  6777  6799999976543

>d2cqia1 d.58.7.1 (A:1-90) Nucleolysin TIAR {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Nucleolysin TIAR
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.07  E-value=1.1e-10  Score=69.57  Aligned_cols=44  Identities=27%  Similarity=0.419  Sum_probs=39.3

Q ss_pred             CccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecCCCCCC
Q psy6355           7 FCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSPSSS   52 (83)
Q Consensus         7 ~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~~~~~~   52 (83)
                      ..+|||||.|.+.++|+.|++.|||..+.|  ++|.|.+|.++.++
T Consensus        46 ~~~~~afV~f~~~~~A~~A~~~l~~~~~~g--~~i~v~~a~~~~~~   89 (90)
T d2cqia1          46 SNDPYCFVEFYEHRDAAAALAAMNGRKILG--KEVKVNWATTPSSQ   89 (90)
T ss_dssp             SSCCEEEEEESSHHHHHHHHHHHTTEEETT--EEEEEEECCCTTCC
T ss_pred             ccceeeEEEECCHHHHHHHHHHcCCCEECC--EEEEEEEcCCCCCC
Confidence            348999999999999999999999999976  78999999877654

>d1cvja2 d.58.7.1 (A:91-179) Poly(A)-binding protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Poly(A)-binding protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.06  E-value=3.3e-11  Score=71.73  Aligned_cols=44  Identities=27%  Similarity=0.422  Sum_probs=39.4

Q ss_pred             CCccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecCCCCC
Q psy6355           6 DFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSPSS   51 (83)
Q Consensus         6 G~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~~~~~   51 (83)
                      +.++|||||.|.+.++|++||+.|||..+.|  ++|.|.+|.+..+
T Consensus        45 ~~~kg~afV~f~~~~~A~~Ai~~l~g~~~~g--~~i~V~~a~~~~~   88 (89)
T d1cvja2          45 NGSKGYGFVHFETQEAAERAIEKMNGMLLND--RKVFVGRFKSRKE   88 (89)
T ss_dssp             TBCCSCEEEEESCHHHHHHHTTSSSEEEETT--EEEEEEECCCTTT
T ss_pred             CCCcceeEEEECCHHHHHHHHHHcCCCEECC--EEEEEEECCCCCC
Confidence            5589999999999999999999999999977  7899999986654

>d2cqca1 d.58.7.1 (A:109-191) Arginine/serine-rich splicing factor 10 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Arginine/serine-rich splicing factor 10
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.05  E-value=4.7e-11  Score=70.01  Aligned_cols=41  Identities=24%  Similarity=0.306  Sum_probs=36.9

Q ss_pred             CCCCCCCccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEE
Q psy6355           1 MKGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITV   43 (83)
Q Consensus         1 ~Dk~TG~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V   43 (83)
                      +|+.+|.++|||||.|.+.++|++||+.|||..+.|  ++|.|
T Consensus        43 ~~~~~~~~~g~afV~f~~~~~A~~Ai~~l~g~~~~g--r~i~V   83 (83)
T d2cqca1          43 YDQQSRRSRGFAFVYFENVDDAKEAKERANGMELDG--RRIRV   83 (83)
T ss_dssp             ECSSSSSEEEEEEEEESSHHHHHHHHHHHTTEEETT--EEEEE
T ss_pred             ccccccccccceEEEECCHHHHHHHHHHcCCCEECC--EEeEC
Confidence            378899999999999999999999999999999977  56765

>d1jmta_ d.58.7.3 (A:) U2AF35 (35 KDa subunit) {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Splicing factor U2AF subunits
domain: U2AF35 (35 KDa subunit)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.05  E-value=7.1e-11  Score=72.78  Aligned_cols=43  Identities=23%  Similarity=0.422  Sum_probs=38.9

Q ss_pred             CCCCCCccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEec
Q psy6355           2 KGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFA   46 (83)
Q Consensus         2 Dk~TG~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA   46 (83)
                      +..+|.+||||||.|.+.++|.+||+.|||+.+.|  ++|.|+|.
T Consensus        61 ~~~~~~~~G~~fV~f~~~~~A~~Ai~~lng~~~~g--r~i~v~~s  103 (104)
T d1jmta_          61 DNLGDHLVGNVYVKFRREEDAEKAVIDLNNRWFNG--QPIHAELS  103 (104)
T ss_dssp             CSSSSSSEEEEEEEESCHHHHHHHHHHHTTCEETT--EECCEEEC
T ss_pred             cCCCCCEeeEEEEEEechhHHHHHHHHHCCCEECC--EEEEEEEC
Confidence            34689999999999999999999999999999977  77989875

>d2disa1 d.58.7.1 (A:8-103) Hypothetical protein FLJ20273 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Hypothetical protein FLJ20273
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.05  E-value=1.9e-10  Score=69.08  Aligned_cols=48  Identities=17%  Similarity=0.095  Sum_probs=39.6

Q ss_pred             CCCCccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecCCCCC
Q psy6355           4 FTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSPSS   51 (83)
Q Consensus         4 ~TG~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~~~~~   51 (83)
                      .+|.+||||||.|.+.++|..|++.|++..+....++|.|.+|.+..+
T Consensus        40 ~~~~~rg~aFV~F~~~~~A~~Ai~~l~~~~~~~~g~~i~V~~A~p~~~   87 (96)
T d2disa1          40 DKMKNRGFAFVEYESHRAAAMARRKLMPGRIQLWGHQIAVDWAEPEID   87 (96)
T ss_dssp             TTTTTCCEEEEEESSHHHHHHHHTTTTTCCSCBTTBCCEEEESCSSCS
T ss_pred             ccccCCCeEEEEEcCHHHHHHHHHHHcCCCeEECCEEEEEEEcCCCCC
Confidence            468999999999999999999999998776422337899999976543

>d1wi6a1 d.58.7.1 (A:69-143) Ribonucleoprotein PTB-binding 1, Raver-1 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Ribonucleoprotein PTB-binding 1, Raver-1
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.04  E-value=9.2e-11  Score=68.15  Aligned_cols=43  Identities=16%  Similarity=0.230  Sum_probs=39.2

Q ss_pred             CCCccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecCCC
Q psy6355           5 TDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSP   49 (83)
Q Consensus         5 TG~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~~~   49 (83)
                      ++.+||||||.|.+.++|++|++.|||..+.|  ++|.|+++...
T Consensus        29 ~~~~~g~afv~f~~~~~A~~Ai~~ln~~~~~g--~~l~V~~a~~d   71 (75)
T d1wi6a1          29 VDKYKGTAFVTLLNGEQAEAAINTFHQSRLRE--RELSVQLQPTD   71 (75)
T ss_dssp             EETTTTEEEEEESSHHHHHHHHHHHTTEESSS--CEEEEEECCST
T ss_pred             ecccceeEEEEECCHHHHHHHHHHhCCccCCC--CEEEEEEeCCC
Confidence            56899999999999999999999999999977  67999999654

>d1fjeb1 d.58.7.1 (B:1-91) Nucleolin {Golden hamster (Mesocricetus auratus) [TaxId: 10036]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Nucleolin
species: Golden hamster (Mesocricetus auratus) [TaxId: 10036]

Probab=99.04  E-value=3e-11  Score=72.62  Aligned_cols=44  Identities=23%  Similarity=0.364  Sum_probs=39.3

Q ss_pred             CCCCCCccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecCC
Q psy6355           2 KGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANS   48 (83)
Q Consensus         2 Dk~TG~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~~   48 (83)
                      |+.+|.+||||||.|.+.++|++||+ |||..+.|  ++|.|.+|..
T Consensus        47 ~~~~g~~kg~afv~F~~~e~a~~Al~-~~g~~~~g--~~i~V~~ak~   90 (91)
T d1fjeb1          47 DVRTGTNRKFGYVDFESAEDLEKALE-LTGLKVFG--NEIKLEKPKG   90 (91)
T ss_dssp             EEEEETTTTEEEEEESSHHHHHHHHH-GGGEEETT--EEEEEECCCC
T ss_pred             ecCCCCccEEeEEeeCCHHHHHHHHh-cCCcEECC--EEEEEEecCC
Confidence            45689999999999999999999996 99999977  7899998864

>d1x4ba1 d.58.7.1 (A:8-110) Heterogeneous nuclear ribonucleoproteins A2/B1 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Heterogeneous nuclear ribonucleoproteins A2/B1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.04  E-value=9e-11  Score=72.13  Aligned_cols=48  Identities=19%  Similarity=0.205  Sum_probs=41.8

Q ss_pred             CCCCCCCccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecCCCCC
Q psy6355           1 MKGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSPSS   51 (83)
Q Consensus         1 ~Dk~TG~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~~~~~   51 (83)
                      .|+.|+.+||||||.|.+.++|++||+ |||+.+.|  ++|.|++|.+..+
T Consensus        54 ~d~~~~~~kg~aFV~f~~~~~a~~al~-~~~~~l~G--~~i~V~~a~~ke~  101 (103)
T d1x4ba1          54 RDPASKRSRGFGFVTFSSMAEVDAAMA-ARPHSIDG--RVVEPKRAVAREE  101 (103)
T ss_dssp             CCTTTSSCCSEEEEECSSHHHHHHHHT-SCSEEETT--EEEEEECCSSCCC
T ss_pred             ccccCCCccCeEEEEECCHHHHHHHHH-hCCCeECC--EEEEEEECcccCC
Confidence            478899999999999999999999985 79999977  7899999876543

>d1l3ka1 d.58.7.1 (A:8-91) Nuclear ribonucleoprotein A1 (RNP A1, UP1) {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Nuclear ribonucleoprotein A1 (RNP A1, UP1)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.03  E-value=9.4e-11  Score=69.32  Aligned_cols=44  Identities=20%  Similarity=0.192  Sum_probs=39.0

Q ss_pred             CCCCCCCccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecC
Q psy6355           1 MKGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFAN   47 (83)
Q Consensus         1 ~Dk~TG~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~   47 (83)
                      +|+.||.+||||||.|.+.++|++||+ ++++.+.|  +.|.|+.|.
T Consensus        40 ~d~~tg~~kG~afV~f~~~~~a~~ai~-~~~~~i~G--r~i~V~~A~   83 (84)
T d1l3ka1          40 RDPNTKRSRGFGFVTYATVEEVDAAMN-ARPHKVDG--RVVEPKRAV   83 (84)
T ss_dssp             ECTTTCCEEEEEEEEESSHHHHHHHHH-TCSCEETT--EECEEEECC
T ss_pred             ccccCCCcccEEEEEEcCHHHHHHHHH-hCCCEECC--EEEEEEeee
Confidence            478899999999999999999999997 58888877  679998774

>d1fjca_ d.58.7.1 (A:) Nucleolin {Golden hamster (Mesocricetus auratus) [TaxId: 10036]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Nucleolin
species: Golden hamster (Mesocricetus auratus) [TaxId: 10036]

Probab=99.02  E-value=5.5e-11  Score=71.63  Aligned_cols=47  Identities=15%  Similarity=0.369  Sum_probs=42.3

Q ss_pred             CCCCCccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecCCCCC
Q psy6355           3 GFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSPSS   51 (83)
Q Consensus         3 k~TG~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~~~~~   51 (83)
                      +.+|.++|||||.|.+.++|++|++.|||..+.|  ++|.|.|+.+...
T Consensus        47 ~~~~~~~~~afV~f~~~~~A~~A~~~l~~~~~~g--r~i~V~~a~~k~~   93 (96)
T d1fjca_          47 SQDGKSKGIAYIEFKSEADAEKNLEEKQGAEIDG--RSVSLYYTGEKGG   93 (96)
T ss_dssp             EETTEEEEEEEEEESSHHHHHHHHHHTTEEEETT--EEEEEEECSSSCC
T ss_pred             eecCccccEEEEEeCCHHHHHHHHHHcCCCEECC--EEEEEEEeCCCCC
Confidence            4578999999999999999999999999999977  7899999987654

>d1x4ha1 d.58.7.1 (A:8-105) RNA-binding protein 28 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding protein 28
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.02  E-value=2.6e-10  Score=68.00  Aligned_cols=47  Identities=15%  Similarity=0.186  Sum_probs=39.5

Q ss_pred             CCCCCCccceEEEEeCCHHHHHHHHHHhCCC------CCCCCCcceEEEecCCCC
Q psy6355           2 KGFTDFCRYLGFIRFDQRIEAERAIQELNGT------IPKGSNEPITVKFANSPS   50 (83)
Q Consensus         2 Dk~TG~SrG~gFV~F~~~e~A~~AI~~LnG~------~~~G~~~~l~V~fA~~~~   50 (83)
                      |+.++.++|||||.|.+.++|++||+.||+.      .+.|  ++|.|.+|.+..
T Consensus        43 ~~~~~~~~g~afV~F~~~~~a~~ai~~l~~~~~~~g~~~~g--r~l~v~~a~~k~   95 (98)
T d1x4ha1          43 HPDTEHSKGCAFAQFMTQEAAQKCLAAASLEAEGGGLKLDG--RQLKVDLAVTRD   95 (98)
T ss_dssp             CSSSCCBCSEEEEEESSHHHHHHHHHHHCTTTTTCCEESSS--CEEEEECCCCCC
T ss_pred             ccccccccceEEEEEcCHHHHHHHHHHcccccccCCcEECC--EEEEEEECCCCC
Confidence            6778999999999999999999999999854      3444  679999987643

>d1wf2a_ d.58.7.1 (A:) Heterogeneous nuclear ribonucleoproteins C1/C2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Heterogeneous nuclear ribonucleoproteins C1/C2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.00  E-value=1.7e-10  Score=70.07  Aligned_cols=43  Identities=16%  Similarity=0.386  Sum_probs=38.2

Q ss_pred             CccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecCCCCC
Q psy6355           7 FCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSPSS   51 (83)
Q Consensus         7 ~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~~~~~   51 (83)
                      .+||||||.|.+.++|++||+.|||+.+.|  ++|.|.++..++.
T Consensus        48 i~rg~aFV~f~~~~~A~~Ai~~lng~~~~g--~~l~V~~a~~~~~   90 (98)
T d1wf2a_          48 VHKGFAFVQYVNERNARAAVAGEDGRMIAG--QVLDINLAAEPKV   90 (98)
T ss_dssp             EETEEEEEEESSHHHHHHHHHTTTTCEETT--EECEEEETTSCCC
T ss_pred             EeCCeEEEEECCHHHHHHHHHHcCCCEECC--EEEEEEECCCCCC
Confidence            368999999999999999999999999977  7899999976543

>d1x5oa1 d.58.7.1 (A:8-108) RNA-binding motif, single-stranded-interacting protein 1, RBMS1 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding motif, single-stranded-interacting protein 1, RBMS1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.00  E-value=2.7e-10  Score=69.15  Aligned_cols=33  Identities=27%  Similarity=0.400  Sum_probs=30.9

Q ss_pred             CCCCccceEEEEeCCHHHHHHHHHHhCCCCCCC
Q psy6355           4 FTDFCRYLGFIRFDQRIEAERAIQELNGTIPKG   36 (83)
Q Consensus         4 ~TG~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G   36 (83)
                      .++.++|||||.|.+.++|++||+.|||..+.|
T Consensus        54 ~~~~~~g~afV~f~~~~~A~~Ai~~lng~~i~g   86 (101)
T d1x5oa1          54 SSGTSRGVGFARMESTEKCEAVIGHFNGKFIKT   86 (101)
T ss_dssp             SSSCEEEEEEEEESCHHHHHHHHHHHBTCCCCC
T ss_pred             cccccccceeEEeCCHHHHHHHHHHhCCCEECC
Confidence            478999999999999999999999999999866

>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=98.99  E-value=1.5e-10  Score=67.52  Aligned_cols=43  Identities=19%  Similarity=0.166  Sum_probs=37.4

Q ss_pred             CCCCCCCccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEec
Q psy6355           1 MKGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFA   46 (83)
Q Consensus         1 ~Dk~TG~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA   46 (83)
                      +|+.||.+||||||.|.+.++|++||+. +++.+.|  +.|.|+.|
T Consensus        33 ~d~~t~~~rG~~FV~f~~~~~a~~al~~-~~~~i~g--~~i~vk~A   75 (75)
T d1x0fa1          33 MDNKTNKRRGFCFITFKEEEPVKKIMEK-KYHNVGL--SKCEIKVA   75 (75)
T ss_dssp             CCTTTCCTTCCEEEEESSSHHHHHHTTC-SSCCBTT--BCCEEECC
T ss_pred             ccccccccccEEEEEECCHHHHHHHHhh-CCCEECC--EEeEEEEC
Confidence            4888999999999999999999999964 7778877  56888875

>d2f9da1 d.58.7.1 (A:12-125) Pre-mRNA branch site protein p14 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Pre-mRNA branch site protein p14
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.96  E-value=3.3e-10  Score=69.53  Aligned_cols=43  Identities=19%  Similarity=0.222  Sum_probs=39.0

Q ss_pred             CCCCccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecCC
Q psy6355           4 FTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANS   48 (83)
Q Consensus         4 ~TG~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~~   48 (83)
                      .++.+||||||.|.+.++|..||+.|||+.+.|  ++|.|.++..
T Consensus        41 ~~~~~kG~afV~f~~~~~A~~Ai~~l~g~~~~g--r~l~V~~a~~   83 (114)
T d2f9da1          41 NTPETRGTAYVVYEDIFDAKNACDHLSGFNVCN--RYLVVLYYNA   83 (114)
T ss_dssp             CSTTTTTEEEEEESSHHHHHHHHHHHTTCEETT--EECEEEECCH
T ss_pred             ccCCcCCeEEEEECCHHHHHHHHHHhCCCEECC--EEEEEEEcCC
Confidence            467899999999999999999999999999977  7899999864

>d1l3ka2 d.58.7.1 (A:103-181) Nuclear ribonucleoprotein A1 (RNP A1, UP1) {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Nuclear ribonucleoprotein A1 (RNP A1, UP1)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.96  E-value=3e-10  Score=65.66  Aligned_cols=42  Identities=17%  Similarity=0.175  Sum_probs=37.5

Q ss_pred             CCCCCCccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEec
Q psy6355           2 KGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFA   46 (83)
Q Consensus         2 Dk~TG~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA   46 (83)
                      |+.++.++|||||.|.+.+++++|++ |||+.+.|  ++|.|+.|
T Consensus        37 ~~~~~~~~g~afV~f~~~e~~~~al~-~~~~~l~G--r~i~V~~A   78 (79)
T d1l3ka2          37 DRGSGKKRGFAFVTFDDHDSVDKIVI-QKYHTVNG--HNCEVRKA   78 (79)
T ss_dssp             CTTTCCEEEEEEEEESSHHHHHHHHH-CSCCEETT--EECEEEEC
T ss_pred             CCCCcccccEEEEEEcCHHHHHHHHH-hCCCEECC--EEEEEEEC
Confidence            78899999999999999999999985 89999977  67999866

>d1x4aa1 d.58.7.1 (A:9-103) Splicing factor, arginine/serine-rich 1, SFRS1 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Splicing factor, arginine/serine-rich 1, SFRS1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.95  E-value=5.6e-10  Score=66.93  Aligned_cols=44  Identities=23%  Similarity=0.256  Sum_probs=39.2

Q ss_pred             CCCCccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecCCC
Q psy6355           4 FTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSP   49 (83)
Q Consensus         4 ~TG~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~~~   49 (83)
                      .++.++|||||.|.+.++|+.||+.|||+.+.|  ++|.|+||...
T Consensus        48 ~~~~~~g~afV~f~~~e~a~~Ai~~l~g~~~~g--~~l~V~~a~~~   91 (95)
T d1x4aa1          48 NRRGGPPFAFVEFEDPRDAEDAVYGRDGYDYDG--YRLRVEFPRSG   91 (95)
T ss_dssp             CSSSSSCCEEEEESCHHHHHHHHHHHTTCEETT--EECEEECCCCC
T ss_pred             ccccccceEEEEECCHHHHHHHHHHhCCCEECC--EEEEEEeccCC
Confidence            356789999999999999999999999999976  77999998754

>d1wi8a_ d.58.7.1 (A:) Eukaryotic translation initiation factor 4B {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Eukaryotic translation initiation factor 4B
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.94  E-value=5.3e-10  Score=67.71  Aligned_cols=47  Identities=17%  Similarity=0.211  Sum_probs=39.7

Q ss_pred             CCCCCccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecCCCCCC
Q psy6355           3 GFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSPSSS   52 (83)
Q Consensus         3 k~TG~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~~~~~~   52 (83)
                      ..+|.+||||||.|.+.++|++|+ .|||..+.|  +.|.|.+|.....+
T Consensus        51 ~~~g~~~g~afV~f~~~e~a~~~~-~~~~~~~~g--r~l~V~~a~~~~~~   97 (104)
T d1wi8a_          51 SNPERLKGFGYAEFEDLDSLLSAL-SLNEESLGN--KRIRVDVADQAQDK   97 (104)
T ss_dssp             SCTTSBCSCEEEEESSHHHHHHHH-GGGTCEETT--EECEEEECCCCCCC
T ss_pred             ccCCCcceeeeEEECCHHHHHHHH-HcCCCEECC--EEEEEEECCCCCCC
Confidence            457899999999999999998776 699999976  78999999865443

>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=98.94  E-value=1.4e-10  Score=69.10  Aligned_cols=44  Identities=18%  Similarity=0.277  Sum_probs=39.1

Q ss_pred             CCCCccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecCCC
Q psy6355           4 FTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSP   49 (83)
Q Consensus         4 ~TG~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~~~   49 (83)
                      .++.+||||||.|.+.++|++||+.|||..+.|  +.|.|+|+...
T Consensus        35 ~~~~~kg~afV~f~~~~~A~~Ai~~ln~~~~~G--~~l~V~~a~~~   78 (88)
T d1wg1a_          35 YVDRNKRTAFVTLLNGEQAQNAIQMFHQYSFRG--KDLIVQLQPTD   78 (88)
T ss_dssp             EEEGGGTEEEECCSCHHHHHHHHHHHTTEEETT--EEEEEEECCCC
T ss_pred             eeeccCCceEEEECCHHHHHHHHHHhCCCEECC--EEEEEEEcCCC
Confidence            356789999999999999999999999999977  78999998544

>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=98.94  E-value=6e-10  Score=66.66  Aligned_cols=43  Identities=30%  Similarity=0.526  Sum_probs=38.3

Q ss_pred             CCCccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecCCC
Q psy6355           5 TDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSP   49 (83)
Q Consensus         5 TG~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~~~   49 (83)
                      .+.+||||||.|.+.++|++||+.|||..+.|  +.|.|++|.+.
T Consensus        47 ~~~~kg~afV~f~~~~~a~~Ai~~l~~~~~~g--~~l~V~~A~~r   89 (93)
T d2cq3a1          47 ERGSKGFGFVTFENSADADRAREKLHGTVVEG--RKIEVNNATAR   89 (93)
T ss_dssp             TTTTCCEEEEEESCHHHHHHHHHHHTTCEETT--EECEEEECCSS
T ss_pred             ccCCcceeEEEECCHHHHHHHHHHcCCCEECC--EEEEEEecCcC
Confidence            34589999999999999999999999999977  78999999753

>d1weya_ d.58.7.1 (A:) Calcipressin-1 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Calcipressin-1
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=98.94  E-value=2.6e-10  Score=70.18  Aligned_cols=45  Identities=20%  Similarity=0.110  Sum_probs=39.9

Q ss_pred             CccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecCCCCCCc
Q psy6355           7 FCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSPSSSN   53 (83)
Q Consensus         7 ~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~~~~~~~   53 (83)
                      .++|||||.|.+.++|.+||+.|||..+.|  ++|.|.||.+.....
T Consensus        44 k~~~~afV~f~~~~~A~~Ai~~lng~~~~g--~~l~v~~a~~~~~~~   88 (104)
T d1weya_          44 KSFKRVRINFSNPLSAADARLRLHKTEFLG--KEMKLYFAQTLHIGS   88 (104)
T ss_dssp             TTTTEEEEECSSTTHHHHHHHTSTTSEETT--EECEEECCCCSSCCS
T ss_pred             cCCCEEEEEECCHHHHHHHHHHhcccccCC--CEeEEeecccCCCCC
Confidence            578999999999999999999999999977  789999998765543

>d2cpda1 d.58.7.1 (A:223-308) APOBEC1 stimulating protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: APOBEC1 stimulating protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.94  E-value=3.3e-10  Score=66.65  Aligned_cols=44  Identities=32%  Similarity=0.541  Sum_probs=39.1

Q ss_pred             CCCccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecCCCC
Q psy6355           5 TDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSPS   50 (83)
Q Consensus         5 TG~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~~~~   50 (83)
                      .+.+||||||.|.+.++|..|++.|||..+.|  +.|.|+||.++.
T Consensus        40 ~~~~rg~afV~f~~~~~A~~Ai~~l~~~~i~g--~~i~V~~akP~~   83 (86)
T d2cpda1          40 VKKIRDYAFVHFSNREDAVEAMKALNGKVLDG--SPIEVTLAKPVD   83 (86)
T ss_dssp             EEECSSEEEEEESSHHHHHHHHHHHSSEEETT--EEEEEECCCCCC
T ss_pred             EccccEEEEEEeCCHHHHHHHHHHcCCCEECC--EEEEEEeccCCC
Confidence            35789999999999999999999999999976  689999997553

>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=98.94  E-value=1.8e-10  Score=68.66  Aligned_cols=45  Identities=20%  Similarity=0.318  Sum_probs=40.1

Q ss_pred             CCCccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecCCCCC
Q psy6355           5 TDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSPSS   51 (83)
Q Consensus         5 TG~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~~~~~   51 (83)
                      ++.++|||||.|.+.++|.+|++.|||..+.|  ++|.|.+|.+...
T Consensus        42 ~~~~~g~afV~F~~~~~A~~A~~~~~~~~~~g--~~l~v~~ak~~~~   86 (91)
T d1nu4a_          42 SLKMRGQAFVIFKEVSSATNALRSMQGFPFYD--KPMRIQYAKTDSD   86 (91)
T ss_dssp             HHHHTTCEEEEESSHHHHHHHHHHHTTCEETT--EECEEEECSSCCT
T ss_pred             eccCCCceEEEECCHHHHHHHHHHhCCCEECC--EEEEEEEeCCCch
Confidence            56789999999999999999999999999976  7899999976543

>d1whya_ d.58.7.1 (A:) Putative RNA-binding protein 15B, Rbm15b {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Putative RNA-binding protein 15B, Rbm15b
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=98.92  E-value=1.3e-09  Score=65.58  Aligned_cols=44  Identities=20%  Similarity=0.314  Sum_probs=39.7

Q ss_pred             CccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecCCCC
Q psy6355           7 FCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSPS   50 (83)
Q Consensus         7 ~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~~~~   50 (83)
                      .++|||||.|.+.++|++|++.|||..+.|..++|.|.||....
T Consensus        51 ~~~~~afV~f~~~~~A~~A~~~l~~~~i~g~~~~l~v~~ak~~~   94 (97)
T d1whya_          51 KGDSFAYIQYESLDAAQAACAKMRGFPLGGPDRRLRVDFAKSGP   94 (97)
T ss_dssp             SSSCCEEEEESSHHHHHHHHHHHTTCBCSSSSCBCEEEECCCCC
T ss_pred             ccccEEEeccCCHHHHHHHHHHhCCCEeCCCceEEEEEeCCCCC
Confidence            45899999999999999999999999998887899999997653

>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=98.91  E-value=6e-10  Score=66.36  Aligned_cols=41  Identities=17%  Similarity=0.196  Sum_probs=35.0

Q ss_pred             CCCCCCc---cceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEE
Q psy6355           2 KGFTDFC---RYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVK   44 (83)
Q Consensus         2 Dk~TG~S---rG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~   44 (83)
                      |+.++.+   +|||||.|.+.++|++||+.|||..+.|  ++|+|+
T Consensus        46 ~~~~~~~~~~~g~aFV~f~~~~~A~~Ai~~lng~~~~g--r~lkvS   89 (89)
T d2cpia1          46 STSYAGSQGPSASAYVTYIRSEDALRAIQCVNNVVVDG--RTLKAS   89 (89)
T ss_dssp             CSSCCSSSCCCEEEEEEESSHHHHHHHHHHHTTEEETT--EEEEEE
T ss_pred             ccCcCCCCCcceEEEEecccchhHHHHHHHhCCCEECC--EEEEEC
Confidence            5666655   4999999999999999999999999977  678875

>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=98.91  E-value=1.3e-09  Score=64.27  Aligned_cols=42  Identities=21%  Similarity=0.253  Sum_probs=37.1

Q ss_pred             CCCccceEEEEeCCHHHHHHHHHHhCCCCC-CCCCcceEEEecCC
Q psy6355           5 TDFCRYLGFIRFDQRIEAERAIQELNGTIP-KGSNEPITVKFANS   48 (83)
Q Consensus         5 TG~SrG~gFV~F~~~e~A~~AI~~LnG~~~-~G~~~~l~V~fA~~   48 (83)
                      .+.++|||||.|.+.++|.+|+..|||..+ +|  ++|.|+|+.+
T Consensus        44 ~~~~~~~afV~f~~~~~A~~A~~~l~~~~i~~g--~~l~v~~sk~   86 (88)
T d2adca2          44 FQKDRKMALIQMGSVEEAVQALIDLHNHDLGEN--HHLRVSFSKS   86 (88)
T ss_dssp             CSSSTTCEEEEESSHHHHHHHHHHHTTCBSSSS--CBCEEEECSS
T ss_pred             eecccceeEEEECCHHHHHHHHHhccCCEecCC--CEEEEEeCCC
Confidence            467899999999999999999999999987 45  7899999864

>d2bz2a1 d.58.7.1 (A:35-113) Negative elongation factor E, NELF-E {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Negative elongation factor E, NELF-E
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.88  E-value=1.5e-09  Score=63.12  Aligned_cols=41  Identities=29%  Similarity=0.442  Sum_probs=36.9

Q ss_pred             CCccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecCC
Q psy6355           6 DFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANS   48 (83)
Q Consensus         6 G~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~~   48 (83)
                      ...+|||||.|.+.++|..||+.|||..+.|  ++|.|+||.+
T Consensus        36 ~~~~~~afV~f~~~~~A~~Ai~~lng~~~~g--~~l~V~~a~~   76 (79)
T d2bz2a1          36 DPPRNCAFVTYEKMESADQAVAELNGTQVES--VQLKVNIARK   76 (79)
T ss_dssp             ETTTTEEEEECSSHHHHHHHHHHHTTCBCSS--CBCEEEECCS
T ss_pred             ccCCCEEEEEEcccHHHHHHHHHhCCCEECC--EEEEEEEecC
Confidence            3578999999999999999999999999977  6799999964

>d2cpja1 d.58.7.1 (A:65-150) Non-POU domain-containing octamer-binding protein, NonO {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Non-POU domain-containing octamer-binding protein, NonO
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=98.88  E-value=1.4e-09  Score=64.42  Aligned_cols=42  Identities=33%  Similarity=0.457  Sum_probs=37.9

Q ss_pred             CccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecCCCC
Q psy6355           7 FCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSPS   50 (83)
Q Consensus         7 ~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~~~~   50 (83)
                      .+||||||.|.+.++|++|++.|||..+.|  ++|.|++|.+..
T Consensus        42 ~~k~~afV~f~~~~~A~~A~~~l~g~~i~g--~~l~V~~A~~~~   83 (86)
T d2cpja1          42 KDKGFGFIRLETRTLAEIAKVELDNMPLRG--KQLRVRFACHSA   83 (86)
T ss_dssp             TTTTEEEEECSSSHHHHHHHHHHTTCCBTT--BCCEEEESSCCS
T ss_pred             cccceEEEEECCHHHHHHHHHHhCCCEECC--EEEEEEECCCcC
Confidence            468999999999999999999999999977  689999998653

>d1wg5a_ d.58.7.1 (A:) Heterogeneous nuclear ribonucleoprotein H' {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Heterogeneous nuclear ribonucleoprotein H'
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.88  E-value=2.1e-09  Score=65.30  Aligned_cols=48  Identities=15%  Similarity=0.092  Sum_probs=40.8

Q ss_pred             CCCCCCCccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecCCCCC
Q psy6355           1 MKGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSPSS   51 (83)
Q Consensus         1 ~Dk~TG~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~~~~~   51 (83)
                      +++.++.++|||||.|.++++|++|++ +|++.+.|  +.|.|..+.+...
T Consensus        49 ~~~~~~~~kG~afV~F~~~e~a~~a~~-~~~~~i~g--R~i~V~~~~~~~~   96 (104)
T d1wg5a_          49 PVDFQGRSTGEAFVQFASQEIAEKALK-KHKERIGH--RYIEIFKSSRAEV   96 (104)
T ss_dssp             CBCSSSCBCSEEEEEESSHHHHHHHHT-TTTCCSSS--SCCEEEEECTTTS
T ss_pred             EeCCCCCcceEEEEEeCCHHHHHHHHh-hCCCEEcc--eEEEEEECCHHHh
Confidence            356789999999999999999999985 89999966  6799998876533

>d1x4ea1 d.58.7.1 (A:8-79) RNA-binding motif, single-stranded-interacting protein 2, RBMS2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding motif, single-stranded-interacting protein 2, RBMS2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.86  E-value=5.5e-10  Score=63.62  Aligned_cols=37  Identities=24%  Similarity=0.471  Sum_probs=34.0

Q ss_pred             CCCCCCCccceEEEEeCCHHHHHHHHHHhCCCCCCCC
Q psy6355           1 MKGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGS   37 (83)
Q Consensus         1 ~Dk~TG~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~   37 (83)
                      .|+.++.++|||||.|.+.++|++||+.|||..+.|.
T Consensus        32 ~~~~~~~~~g~afV~f~~~~~A~~Ai~~lng~~~~Gr   68 (72)
T d1x4ea1          32 LDKTTNKCKGYGFVDFDSPSAAQKAVTALKASGVQAQ   68 (72)
T ss_dssp             CCSSSCSCCSEEEEEESCHHHHHHHHHHHHHHTCCEE
T ss_pred             cccccccccceeEEEECCHHHHHHHHHHhCCCEECCE
Confidence            3678899999999999999999999999999999773

>d1whxa_ d.58.7.1 (A:) Probable RNA-binding protein 19, Rbm19 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Probable RNA-binding protein 19, Rbm19
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=98.84  E-value=2.9e-09  Score=64.55  Aligned_cols=43  Identities=16%  Similarity=0.166  Sum_probs=37.9

Q ss_pred             CCccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecCCCC
Q psy6355           6 DFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSPS   50 (83)
Q Consensus         6 G~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~~~~   50 (83)
                      ..+||||||.|.+.++|++||+.|||..+.|  ++|.|+++....
T Consensus        43 ~~~kg~afV~f~~~~~A~~A~~~lng~~~~g--r~l~v~~a~~~~   85 (111)
T d1whxa_          43 PEGGITAIVEFLEPLEARKAFRHLAYSKFHH--VPLYLEWAPIGV   85 (111)
T ss_dssp             CSSSSCEEEEESCHHHHHHHHHHHTTCBSSS--SBCEEEEEETTT
T ss_pred             eccCceEEEEEcCHHHHHHHHHHHcCCccCC--CeEEEEECCCCc
Confidence            3578999999999999999999999999977  679999986543

>d2cpya1 d.58.7.1 (A:536-638) RNA-binding protein 12 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding protein 12
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.82  E-value=1.1e-09  Score=66.29  Aligned_cols=44  Identities=11%  Similarity=0.080  Sum_probs=38.7

Q ss_pred             CCCCCCccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecCC
Q psy6355           2 KGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANS   48 (83)
Q Consensus         2 Dk~TG~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~~   48 (83)
                      +..+|.++|||||.|.+.++|++|++ |||+.+.|  ++|.|..+..
T Consensus        43 ~~~~g~~~G~afV~F~s~~~a~~Al~-~n~~~i~g--r~i~V~~~~~   86 (103)
T d2cpya1          43 VDNNGQGLGQALVQFKNEDDARKSER-LHRKKLNG--REAFVHVVTL   86 (103)
T ss_dssp             CCTTSSCSSCEEEECSSHHHHHHHGG-GCSEEETT--EEEEEEEECH
T ss_pred             eCCCCCcCccEEEEECCHHHHHHHHh-cCCCeECC--cEEEEEECCH
Confidence            45689999999999999999999996 99999977  6899988753

>d1x4ga1 d.58.7.1 (A:8-103) Nucleolysin TIAR {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Nucleolysin TIAR
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.82  E-value=2.6e-09  Score=64.42  Aligned_cols=40  Identities=25%  Similarity=0.410  Sum_probs=36.3

Q ss_pred             ccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecCCC
Q psy6355           8 CRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSP   49 (83)
Q Consensus         8 SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~~~   49 (83)
                      .||||||.|.+.++|+.||+.|||..+.|  ++|.|.|+.+.
T Consensus        53 ~kg~afV~f~~~~~A~~Ai~~l~~~~i~g--~~l~v~~ak~~   92 (96)
T d1x4ga1          53 EKGYSFVRFSTHESAAHAIVSVNGTTIEG--HVVKCYWGKES   92 (96)
T ss_dssp             TTTEEEEEESSHHHHHHHHHHHTTCEETT--EECEEECCCCC
T ss_pred             cceEEEEEECCHHHHHHHHHHhCCCEECC--EEEEEEEcCCC
Confidence            48999999999999999999999999976  78999998754

>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=98.81  E-value=2.2e-09  Score=65.06  Aligned_cols=46  Identities=9%  Similarity=-0.003  Sum_probs=39.5

Q ss_pred             CCCCccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecCCCCCC
Q psy6355           4 FTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSPSSS   52 (83)
Q Consensus         4 ~TG~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~~~~~~   52 (83)
                      .+|.++|||||.|.+.++|++|++ ||++.+.|  +.|.|.++.....+
T Consensus        50 ~~g~~~G~afVeF~~~~~a~~Al~-~~~~~i~g--R~I~V~~s~~~~~~   95 (102)
T d1weza_          50 PDGRVTGEADVEFATHEDAVAAMA-KDKANMQH--RYVELFLNSTAGTS   95 (102)
T ss_dssp             SSSCEEEEEEEECSSSHHHHHHHT-TSSCCSSS--SCCEEEEECCCCCC
T ss_pred             cCCcceEEEEEEECCHHHHHHHHH-cCCCEECC--EEEEEEEcCCCCCC
Confidence            468999999999999999999986 89999977  67999988765443

>d2adba1 d.58.7.1 (A:177-284) Polypyrimidine tract-binding protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Polypyrimidine tract-binding protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.81  E-value=4.9e-09  Score=63.98  Aligned_cols=45  Identities=13%  Similarity=0.253  Sum_probs=38.7

Q ss_pred             CccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecCCCCC
Q psy6355           7 FCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSPSS   51 (83)
Q Consensus         7 ~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~~~~~   51 (83)
                      .++|||||.|.+.++|++||+.|||..+.+....|.|.|+.....
T Consensus        43 ~~~g~aFV~f~~~e~A~~Ai~~ln~~~l~~~~~~l~v~~s~~~~~   87 (108)
T d2adba1          43 NNQFQALLQYADPVSAQHAKLSLDGQNIYNACCTLRIDFSKLTSL   87 (108)
T ss_dssp             TTEEEEEEEESCHHHHHHHHHHHHSCCSSTTCCCCEEEECSSCSC
T ss_pred             CCCCeEEEEECCHHHHHHHHHHHCCCEeccCCcEEEEEecCCccc
Confidence            468999999999999999999999999865557899999876443

>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=98.80  E-value=5e-09  Score=63.42  Aligned_cols=40  Identities=20%  Similarity=0.376  Sum_probs=36.3

Q ss_pred             ccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecCCC
Q psy6355           8 CRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSP   49 (83)
Q Consensus         8 SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~~~   49 (83)
                      +||||||.|.+.++|++||+.|||..+.|  ++|.|.|+...
T Consensus        39 ~kg~afV~f~~~~~A~~ai~~lng~~l~g--~~l~v~~s~~~   78 (109)
T d2adca1          39 KKENALVQMADGNQAQLAMSHLNGHKLHG--KPIRITLSKHQ   78 (109)
T ss_dssp             TSCCEEEEESCHHHHHHHHHHHTTCBCSS--SBCEEECCSCC
T ss_pred             ccceEEEEECCHHHHHHHHHHhCCCEECC--EEEEEEECCCC
Confidence            48999999999999999999999999977  67999998644

>d2dita1 d.58.7.1 (A:8-106) HIV Tat-specific factor 1 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: HIV Tat-specific factor 1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.76  E-value=4.3e-09  Score=63.87  Aligned_cols=42  Identities=24%  Similarity=0.241  Sum_probs=38.1

Q ss_pred             CCCccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecCC
Q psy6355           5 TDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANS   48 (83)
Q Consensus         5 TG~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~~   48 (83)
                      ++.++|++||.|.+.++|.+|++.|||..+.|  ++|.|.|++.
T Consensus        53 ~~~~~G~~fV~f~~~e~A~~A~~~lng~~~~g--r~i~v~~~~g   94 (99)
T d2dita1          53 DRHPDGVASVSFRDPEEADYCIQTLDGRWFGG--RQITAQAWDG   94 (99)
T ss_dssp             TTCTTCEEEEECSCHHHHHHHHHHSTTCEETT--EECEEEECCS
T ss_pred             CCCCccEEEEEECCHHHHHHHHHHhCCcEECC--EEEEEEEeCC
Confidence            45678999999999999999999999999977  7899999864

>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=98.74  E-value=9e-09  Score=60.10  Aligned_cols=39  Identities=18%  Similarity=0.393  Sum_probs=34.5

Q ss_pred             ccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecC
Q psy6355           8 CRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFAN   47 (83)
Q Consensus         8 SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~   47 (83)
                      .+|||||.|.+.++|..|++.|||..+.++ ++|.|+||.
T Consensus        44 ~~g~afV~f~~~~~A~~A~~~l~g~~~~~~-~~i~v~~ak   82 (83)
T d2b0ga1          44 RHDIAFVEFTTELQSNAAKEALQGFKITPT-HAMKITFAK   82 (83)
T ss_dssp             TCSCEEEEESSHHHHHHHHHHHTTCBSSTT-CBCEEEECC
T ss_pred             cceeEEEecCCHHHHHHHHHHhCCcEeCCC-cEEEEEEec
Confidence            579999999999999999999999987432 579999985

>d1u1qa_ d.58.7.1 (A:) Nuclear ribonucleoprotein A1 (RNP A1, UP1) {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Nuclear ribonucleoprotein A1 (RNP A1, UP1)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.68  E-value=1.7e-09  Score=69.78  Aligned_cols=47  Identities=17%  Similarity=0.150  Sum_probs=40.5

Q ss_pred             CCCCCCccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecCCCCC
Q psy6355           2 KGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSPSS   51 (83)
Q Consensus         2 Dk~TG~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~~~~~   51 (83)
                      |+.+|.++|||||.|.+.++|++||+ ++++.+.|  ++|.|++|.+..+
T Consensus       132 ~~~~~~~~g~~fV~f~~~e~A~~Al~-~~~~~~~G--~~i~V~~A~~k~e  178 (183)
T d1u1qa_         132 DRGSGKKRGFAFVTFDDHDSVDKIVI-QKYHTVNG--HNCEVRKALSKQE  178 (183)
T ss_dssp             CTTTCCEEEEEEEEESCHHHHHHHHT-SSCEEETT--EEEEEEECCCHHH
T ss_pred             ccccCccceeEEEEECCHHHHHHHHH-hCCCeECC--EEEEEEecCCccc
Confidence            67889999999999999999999997 78888877  6799998865433

>d1zh5a2 d.58.7.1 (A:105-189) Lupus LA protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Lupus LA protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.66  E-value=7.6e-09  Score=60.94  Aligned_cols=41  Identities=17%  Similarity=0.223  Sum_probs=36.0

Q ss_pred             CCCCccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecC
Q psy6355           4 FTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFAN   47 (83)
Q Consensus         4 ~TG~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~   47 (83)
                      .+|.+||||||.|.+.++|++|++ +||..+.|  ++|.|++..
T Consensus        42 ~~~~~kG~afV~f~~~e~a~~al~-~~~~~~~g--~~l~v~~~~   82 (85)
T d1zh5a2          42 LHKAFKGSIFVVFDSIESAKKFVE-TPGQKYKE--TDLLILFKD   82 (85)
T ss_dssp             TTCCEEEEEEEEESCHHHHHHHHT-CCCCEETT--EECEEEEGG
T ss_pred             ccCCcceEEEEEEcCHHHHHHHHH-HCCCEECC--EEEEEEEcC
Confidence            479999999999999999999995 79999977  679998753

>d1wela1 d.58.7.1 (A:412-523) RNA-binding protein 12 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding protein 12
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.65  E-value=6.8e-09  Score=63.86  Aligned_cols=44  Identities=16%  Similarity=0.110  Sum_probs=38.0

Q ss_pred             CCCCCCccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecCC
Q psy6355           2 KGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANS   48 (83)
Q Consensus         2 Dk~TG~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~~   48 (83)
                      +..+|.++|||||.|.+.++|++|++ |||+.|.|  +.|.|..+..
T Consensus        53 ~~~~g~~~G~afVeF~~~e~a~~al~-~~~~~i~g--R~i~V~~~~~   96 (112)
T d1wela1          53 YGPNGKATGEGFVEFRNEADYKAALC-RHKQYMGN--RFIQVHPITK   96 (112)
T ss_dssp             ECTTSSEEEEEEEEBSSSHHHHHHHT-SCSBCSTT--SCBEEEEECH
T ss_pred             cCcccceeeEEEEEECCHHHHHHHHH-cCCCcCCC--EEEEEEEcCh
Confidence            45689999999999999999999985 99999976  6799987643

>d1u2fa_ d.58.7.1 (A:) Splicing factor U2AF 65 KDa subunit {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Splicing factor U2AF 65 KDa subunit
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.63  E-value=9.7e-10  Score=65.06  Aligned_cols=41  Identities=17%  Similarity=0.335  Sum_probs=35.6

Q ss_pred             CCCCCCccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEe
Q psy6355           2 KGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKF   45 (83)
Q Consensus         2 Dk~TG~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~f   45 (83)
                      |..++.++|||||.|.+.++|++|++ |||..+.|  ++|.|+.
T Consensus        41 ~~~~~~~kg~afV~f~~~e~a~~a~~-l~g~~~~G--r~l~V~r   81 (90)
T d1u2fa_          41 AVQINQDKNFAFLEFRSVDETTQAMA-FDGIIFQG--QSLKIRR   81 (90)
T ss_dssp             ECCEETTTTEEEEEESSCTTTTTGGG-GSSCCSSS--SCCCCBC
T ss_pred             ecccCCCceEEEEEeCCHHHHHHHHh-hCCcEECC--EEEEECC
Confidence            45678999999999999999999985 99999977  6688863

>d1o0pa_ d.58.7.1 (A:) Splicing factor U2AF 65 KDa subunit {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Splicing factor U2AF 65 KDa subunit
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.59  E-value=5.7e-08  Score=59.03  Aligned_cols=40  Identities=18%  Similarity=0.257  Sum_probs=36.2

Q ss_pred             CccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecCC
Q psy6355           7 FCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANS   48 (83)
Q Consensus         7 ~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~~   48 (83)
                      .+.|++||.|.+.++|.+|+..|||..+.|  ++|.|.|++.
T Consensus        56 ~~~g~vfV~f~~~e~A~~A~~~l~Gr~f~g--R~v~v~f~~~   95 (104)
T d1o0pa_          56 PGCGKIFVEFTSVFDCQKAMQGLTGRKFAN--RVVVTKYCDP   95 (104)
T ss_dssp             TTCCEEEEEESCHHHHHHHHHHHSSCCSSS--SCCEEEEECH
T ss_pred             CCceEEEEEECCHHHHHHHHHHHCCCEECC--eEEEEEEcCH
Confidence            456999999999999999999999999977  7799999863

>d1wg4a_ d.58.7.1 (A:) Splicing factor, arginine/serine-rich 9 (SFRS9) {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Splicing factor, arginine/serine-rich 9 (SFRS9)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=98.58  E-value=8.5e-09  Score=62.32  Aligned_cols=43  Identities=12%  Similarity=0.169  Sum_probs=36.8

Q ss_pred             CccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecCCCCC
Q psy6355           7 FCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSPSS   51 (83)
Q Consensus         7 ~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~~~~~   51 (83)
                      .++|||||.|.+.++|++||+.|||..+.|  +.|.|.++.....
T Consensus        48 ~~~g~afV~f~~~~~a~~Ai~~lng~~~~g--~~i~v~~~~~~~~   90 (98)
T d1wg4a_          48 QKDGMGMVEYLRKEDMEYALRKLDDTKFRS--HEGETSYIRVYPE   90 (98)
T ss_dssp             ETTTEEEEEESSHHHHHHHHHHHSSEEEEC--TTSCEEEEEEECC
T ss_pred             cccceEEEEECCHHHHHHHHHHhCCCEeCC--eEEEEEEEecCCC
Confidence            357999999999999999999999999977  5688988765433

>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=98.57  E-value=1.2e-08  Score=60.19  Aligned_cols=38  Identities=13%  Similarity=0.196  Sum_probs=33.2

Q ss_pred             ccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecC
Q psy6355           8 CRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFAN   47 (83)
Q Consensus         8 SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~   47 (83)
                      ++|||||.|.+.++|++||+.|||..+.|  +.|.|.++.
T Consensus        34 ~~g~afV~f~~~~~a~~Ai~~l~g~~~~g--~~i~v~~~~   71 (87)
T d3begb1          34 RDGTGVVEFVRKEDMTYAVRKLDNTKFRS--HEGETAYIR   71 (87)
T ss_dssp             TTSEEEEEESSHHHHHHHHHHHTTCBCCC--TTSCCCBCE
T ss_pred             ccceeeEEeCCHHHHHHHHHHhCCCEECC--cEeEEeEEe
Confidence            46999999999999999999999999977  457777664

>d1x4fa1 d.58.7.1 (A:8-106) Matrin 3 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Matrin 3
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=98.48  E-value=1.5e-07  Score=56.61  Aligned_cols=41  Identities=15%  Similarity=0.182  Sum_probs=35.0

Q ss_pred             CccceEEEEeCCHHHHHHHHH--HhCCCCCCCCCcceEEEecCCC
Q psy6355           7 FCRYLGFIRFDQRIEAERAIQ--ELNGTIPKGSNEPITVKFANSP   49 (83)
Q Consensus         7 ~SrG~gFV~F~~~e~A~~AI~--~LnG~~~~G~~~~l~V~fA~~~   49 (83)
                      .+||||||.|.+.++|.+||+  .+|+..+.|  ++|.|.|+...
T Consensus        53 ~~k~~afV~f~~~~~A~~Ai~~~~~~~~~~~g--r~l~V~~s~~~   95 (99)
T d1x4fa1          53 RMKSQAFIEMETREDAMAMVDHCLKKALWFQG--RCVKVDLSEKY   95 (99)
T ss_dssp             TTTTEEEEECSSHHHHHHHHHHHHHSCCCSSS--SCCEEEEECSC
T ss_pred             ecCCcEEEEecchHHHHHHHHHHhcCCceECC--EEEEEEEcCCc
Confidence            468999999999999999998  467777877  67999999654

>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=98.47  E-value=2.3e-08  Score=58.94  Aligned_cols=43  Identities=19%  Similarity=0.231  Sum_probs=36.2

Q ss_pred             CCCCccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecCCCC
Q psy6355           4 FTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFANSPS   50 (83)
Q Consensus         4 ~TG~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~~~~   50 (83)
                      .+..++|||||.|.+.++|++|+.  +++.+.|  ++|.|++|.+..
T Consensus        37 ~~~~~~gfafV~f~~~~~a~~a~~--~~~~i~g--~~l~v~~a~~k~   79 (88)
T d1wf0a_          37 IPKPFRAFAFVTFADDQIAQSLCG--EDLIIKG--ISVHISNAEPKH   79 (88)
T ss_dssp             CCSSCCSCCEEECSCHHHHHHTTT--CEEEETT--EEEEEECCCCCC
T ss_pred             EeeccCceEEEEECCHHHHHHHHh--CCCEECC--EEeEEEeCCCCC
Confidence            356789999999999999999985  7878877  689999997543

>d2cq1a1 d.58.7.1 (A:51-138) Polypyrimidine tract-binding protein 2, PTBP2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Polypyrimidine tract-binding protein 2, PTBP2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.44  E-value=9.5e-08  Score=56.01  Aligned_cols=42  Identities=12%  Similarity=0.238  Sum_probs=34.9

Q ss_pred             CccceEEEEeCCHHHHHHHHHHhCCC--CCCCCCcceEEEecCCCC
Q psy6355           7 FCRYLGFIRFDQRIEAERAIQELNGT--IPKGSNEPITVKFANSPS   50 (83)
Q Consensus         7 ~SrG~gFV~F~~~e~A~~AI~~LnG~--~~~G~~~~l~V~fA~~~~   50 (83)
                      .++|||||.|.+.++|+.|++.|++.  .+.|  ++|.|.|+....
T Consensus        42 ~~~~~afV~f~~~e~A~~a~~~~~~~~~~~~g--~~l~v~~sk~~~   85 (88)
T d2cq1a1          42 KGKNQAFLELATEEAAITMVNYYSAVTPHLRN--QPIYIQYSNHKE   85 (88)
T ss_dssp             TTTTEEEEEESSHHHHHHHHHHHHHSCCEETT--EECEEEECSCSS
T ss_pred             ccceEEEEEeCCHHHHHHHHHHHccCCCccCC--CEEEEEECCCCC
Confidence            46799999999999999999987654  5655  789999997554

>d1wexa_ d.58.7.1 (A:) Heterogeneous nuclear ribonucleoprotein L-like {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Heterogeneous nuclear ribonucleoprotein L-like
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=98.37  E-value=2.8e-07  Score=55.58  Aligned_cols=41  Identities=10%  Similarity=0.133  Sum_probs=34.2

Q ss_pred             CccceEEEEeCCHHHHHHHHHHhCCCC--CCCCCcceEEEecCCC
Q psy6355           7 FCRYLGFIRFDQRIEAERAIQELNGTI--PKGSNEPITVKFANSP   49 (83)
Q Consensus         7 ~SrG~gFV~F~~~e~A~~AI~~LnG~~--~~G~~~~l~V~fA~~~   49 (83)
                      .+||+|||.|.+.++|+.||+.|++..  +.|  ++|.|.|+...
T Consensus        49 ~~k~~AfV~f~~~e~A~~ai~~~~~~~~~~~g--~~l~v~~s~~~   91 (104)
T d1wexa_          49 PFKRQALVEFENIDSAKECVTFAADVPVYIAG--QQAFFNYSTSK   91 (104)
T ss_dssp             TTTTEEEEEESSHHHHHHHHHHHHHSCCBSSS--SBCEEEECSSS
T ss_pred             ecceeEEEEeCCHHHHHHHHHHHcCCCcEEee--EEEEEEEcCCC
Confidence            468999999999999999999986543  545  68999999754

>d2cq2a1 d.58.7.1 (A:25-125) Alkylation repair AlkB homolog 8, ALKBH8 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Alkylation repair AlkB homolog 8, ALKBH8
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.37  E-value=1.7e-07  Score=56.83  Aligned_cols=41  Identities=22%  Similarity=0.327  Sum_probs=32.3

Q ss_pred             CccceEEEEeCCHHHHHHHHHHhCCCCC-CCCCc--ceEEEecC
Q psy6355           7 FCRYLGFIRFDQRIEAERAIQELNGTIP-KGSNE--PITVKFAN   47 (83)
Q Consensus         7 ~SrG~gFV~F~~~e~A~~AI~~LnG~~~-~G~~~--~l~V~fA~   47 (83)
                      .+||||||.|.+.++|++|++.|||+.+ ++...  ++.+.|.+
T Consensus        54 ~~k~~aFV~f~~~e~A~~A~~~lng~~i~~~~~~~i~~~~~~~~   97 (101)
T d2cq2a1          54 PNKPYSFARYRTTEESKRAYVTLNGKEVVDDLGQKITLYLNFVE   97 (101)
T ss_dssp             TTCSCEEEEESSHHHHHHHHHHTTTCEEECTTSCEEECEEEEES
T ss_pred             cCccEEEEEECCHHHHHHHHHHhCCCCCCCCCCcEEEEEEEeee
Confidence            4689999999999999999999999975 55433  34446654

>d1x4da1 d.58.7.1 (A:8-96) Matrin 3 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Matrin 3
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=98.35  E-value=3e-07  Score=54.39  Aligned_cols=42  Identities=17%  Similarity=0.225  Sum_probs=34.9

Q ss_pred             CccceEEEEeCCHHHHHHHHHHhC--CCCCCCCCcceEEEecCCCC
Q psy6355           7 FCRYLGFIRFDQRIEAERAIQELN--GTIPKGSNEPITVKFANSPS   50 (83)
Q Consensus         7 ~SrG~gFV~F~~~e~A~~AI~~Ln--G~~~~G~~~~l~V~fA~~~~   50 (83)
                      .++++|||.|.+.++|+.|++.|+  +..+.|  ++|.|.|+.+..
T Consensus        43 ~~k~~afV~f~~~~~A~~A~~~l~~~~~~~~g--r~l~V~~s~~~~   86 (89)
T d1x4da1          43 NKINEAFIEMATTEDAQAAVDYYTTTPALVFG--KPVRVHLSQKYK   86 (89)
T ss_dssp             SSSSCEEEEESSHHHHHHHHHHHHHSCCEETT--EECEEEEECCCT
T ss_pred             ccceEEEEEEcchhhHHHHHHHHhhCCCccCC--ceEEEEECCCcc
Confidence            357899999999999999999774  555766  789999997653

>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=98.32  E-value=2.6e-07  Score=52.97  Aligned_cols=38  Identities=18%  Similarity=0.033  Sum_probs=32.1

Q ss_pred             CCccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEec
Q psy6355           6 DFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFA   46 (83)
Q Consensus         6 G~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA   46 (83)
                      +.++|||||.|.+.++|++|+ .|||+.+.|  ++|.|+.+
T Consensus        37 ~~~~~~afV~F~~~~~a~~Al-~~~~~~i~g--~~i~V~~~   74 (75)
T d2ghpa2          37 KKNFRFARIEFARYDGALAAI-TKTHKVVGQ--NEIIVSHL   74 (75)
T ss_dssp             TSSSEEEEEEESSHHHHHHHH-TTTTCEETT--EECEEEEC
T ss_pred             cccceEEEEEEcchHHhHHHH-HhcCcEECC--EEEEEEEC
Confidence            345689999999999999998 589999977  67888754

>d1wwha1 d.58.7.1 (A:169-249) Nucleoporin 35 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Nucleoporin 35
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=98.26  E-value=4.4e-07  Score=53.25  Aligned_cols=40  Identities=25%  Similarity=0.257  Sum_probs=32.4

Q ss_pred             CCCccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEec
Q psy6355           5 TDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFA   46 (83)
Q Consensus         5 TG~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA   46 (83)
                      .+.++||+||.|.++++|++|++ |||..+.|.. -|.|+-+
T Consensus        35 ~~~~~~~~fV~f~~~~~A~~Al~-~nG~~~~g~~-~vgV~~~   74 (81)
T d1wwha1          35 MSNTGNWMHIRYQSKLQARKALS-KDGRIFGESI-MIGVKPC   74 (81)
T ss_dssp             ECSSSSEEEEEESSHHHHHHHHT-TTTCEETTTE-ECEEEEC
T ss_pred             ecCCCCEEEEEEcccHHHHHHHh-cCCCeECCcE-EEEEEeC
Confidence            46789999999999999999995 9999997642 3456654

>d1owxa_ d.58.7.1 (A:) Lupus LA protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Lupus LA protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.95  E-value=7.3e-06  Score=50.00  Aligned_cols=41  Identities=20%  Similarity=0.131  Sum_probs=32.6

Q ss_pred             CccceEEEEeCCH-HHHHHHHHHhCCCCCCCCCcceEEEecC
Q psy6355           7 FCRYLGFIRFDQR-IEAERAIQELNGTIPKGSNEPITVKFAN   47 (83)
Q Consensus         7 ~SrG~gFV~F~~~-e~A~~AI~~LnG~~~~G~~~~l~V~fA~   47 (83)
                      ..+|||||.|.++ ++|.+|+..||+..+.+....+.+.+..
T Consensus        45 ~~kg~gfV~F~~~~~~A~~a~~~~~~~~l~~~~~~v~~~~~~   86 (113)
T d1owxa_          45 RGAKEGIILFKEKAKEALGKAKDANNGNLQLRNKEVTWEVLE   86 (113)
T ss_dssp             TTCSEEEEEESSCHHHHHHHHHHTTTSCBCTTSSSEEEEECC
T ss_pred             cCCceEEEEecCcHHHHHHHHHHhcCCceecCceEEEEeecc
Confidence            3589999999985 7899999999999886665566666544

>d1u1qa_ d.58.7.1 (A:) Nuclear ribonucleoprotein A1 (RNP A1, UP1) {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Nuclear ribonucleoprotein A1 (RNP A1, UP1)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.22  E-value=0.00013  Score=46.07  Aligned_cols=42  Identities=21%  Similarity=0.227  Sum_probs=31.9

Q ss_pred             CCCCCCccceEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEec
Q psy6355           2 KGFTDFCRYLGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFA   46 (83)
Q Consensus         2 Dk~TG~SrG~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA   46 (83)
                      |+.+|.++|||||.|.+.++|++|+..++ ..+.+  ..+.+...
T Consensus        41 ~~~~~~~~g~afv~f~~~~~a~~a~~~~~-~~~~~--~~~~~~~~   82 (183)
T d1u1qa_          41 DPNTKRSRGFGFVTYATVEEVDAAMNARP-HKVDG--RVVEPKRA   82 (183)
T ss_dssp             CTTTCCEEEEEEEEESSHHHHHHHHHTCS-CEETT--EECEEEEC
T ss_pred             cccCCCccCceecccCCHHHHHHHHHhcC-Ccccc--cchhhhhh
Confidence            67799999999999999999999998644 44433  34555543

>d2dgxa1 d.58.7.1 (A:563-635) Limkain-b1, LKAP {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Limkain-b1, LKAP
species: Human (Homo sapiens) [TaxId: 9606]

Probab=90.62  E-value=0.15  Score=28.86  Aligned_cols=35  Identities=17%  Similarity=0.215  Sum_probs=31.3

Q ss_pred             eEEEEeCCHHHHHHHHHHhCCCCCCCCCcceEEEecC
Q psy6355          11 LGFIRFDQRIEAERAIQELNGTIPKGSNEPITVKFAN   47 (83)
Q Consensus        11 ~gFV~F~~~e~A~~AI~~LnG~~~~G~~~~l~V~fA~   47 (83)
                      .|-|...+..+|.-||..||..++  +.+.|.|+++.
T Consensus        37 ~A~V~v~~~q~A~~~v~~LhR~Ki--G~KRI~Vs~~~   71 (73)
T d2dgxa1          37 KAVVQMENLQDAIGAVNSLHRYKI--GSKKILVSLAT   71 (73)
T ss_dssp             CEEEEESSHHHHHHHHHHHTTEEE--TTEEEEEEECC
T ss_pred             EEEEEcCCHHHHHHHHHHHHHHhc--CCeEEEEEEec
Confidence            588999999999999999999999  44789999875