Query 036693
Match_columns 218
No_of_seqs 149 out of 726
Neff 2.3
Searched_HMMs 46136
Date Fri Mar 29 04:34:56 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/036693.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/036693hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PLN03134 glycine-rich RNA-bind 97.7 0.0001 2.2E-09 58.7 6.9 31 11-41 87-117 (144)
2 KOG0111 Cyclophilin-type pepti 96.9 0.00045 9.7E-09 62.8 2.0 31 10-40 62-92 (298)
3 PF13893 RRM_5: RNA recognitio 96.9 0.00087 1.9E-08 44.0 2.7 27 9-35 30-56 (56)
4 TIGR01648 hnRNP-R-Q heterogene 96.1 0.024 5.1E-07 55.5 7.9 30 11-40 280-309 (578)
5 TIGR01659 sex-lethal sex-letha 96.0 0.023 4.9E-07 51.6 7.0 30 11-40 246-277 (346)
6 KOG4207 Predicted splicing fac 95.4 0.0082 1.8E-07 54.1 2.0 25 13-37 68-92 (256)
7 KOG0148 Apoptosis-promoting RN 95.4 0.011 2.5E-07 54.7 2.8 40 2-41 87-145 (321)
8 TIGR01661 ELAV_HUD_SF ELAV/HuD 95.1 0.016 3.4E-07 49.4 2.7 29 12-40 57-85 (352)
9 smart00361 RRM_1 RNA recogniti 95.1 0.022 4.8E-07 39.5 2.9 22 12-33 49-70 (70)
10 KOG0107 Alternative splicing f 95.0 0.022 4.8E-07 49.9 3.3 37 2-41 52-88 (195)
11 PLN03213 repressor of silencin 94.7 0.023 4.9E-07 56.7 2.8 26 13-38 63-88 (759)
12 KOG0105 Alternative splicing f 94.5 0.048 1E-06 48.8 4.2 33 2-37 50-82 (241)
13 TIGR01659 sex-lethal sex-letha 93.9 0.041 8.9E-07 50.0 2.6 27 12-38 161-187 (346)
14 KOG0125 Ataxin 2-binding prote 93.9 0.038 8.3E-07 52.3 2.4 27 12-38 148-174 (376)
15 PF00076 RRM_1: RNA recognitio 93.6 0.068 1.5E-06 34.6 2.5 20 12-31 51-70 (70)
16 KOG0108 mRNA cleavage and poly 93.4 0.058 1.3E-06 51.3 2.7 29 13-41 73-101 (435)
17 smart00362 RRM_2 RNA recogniti 93.2 0.092 2E-06 32.6 2.6 23 11-33 50-72 (72)
18 TIGR01649 hnRNP-L_PTB hnRNP-L/ 93.0 0.078 1.7E-06 49.0 2.9 29 11-39 145-175 (481)
19 KOG0145 RNA-binding protein EL 93.0 0.074 1.6E-06 49.7 2.7 28 13-40 96-123 (360)
20 TIGR01649 hnRNP-L_PTB hnRNP-L/ 92.9 0.083 1.8E-06 48.9 2.9 28 11-38 324-351 (481)
21 TIGR01628 PABP-1234 polyadenyl 92.7 0.064 1.4E-06 49.6 1.9 29 11-39 337-365 (562)
22 smart00360 RRM RNA recognition 92.6 0.12 2.5E-06 31.9 2.5 23 11-33 49-71 (71)
23 TIGR01645 half-pint poly-U bin 92.3 0.13 2.8E-06 50.9 3.4 31 11-41 257-287 (612)
24 TIGR01622 SF-CC1 splicing fact 92.1 0.13 2.9E-06 45.8 3.0 29 10-38 238-266 (457)
25 COG0724 RNA-binding proteins ( 92.0 0.16 3.4E-06 38.1 2.8 26 12-37 169-194 (306)
26 KOG0921 Dosage compensation co 90.9 1.2 2.7E-05 47.4 8.8 11 62-72 1201-1211(1282)
27 TIGR01642 U2AF_lg U2 snRNP aux 90.7 0.25 5.5E-06 44.5 3.4 27 12-38 349-375 (509)
28 cd00590 RRM RRM (RNA recogniti 88.7 0.57 1.2E-05 29.2 3.0 24 11-34 51-74 (74)
29 PF03880 DbpA: DbpA RNA bindin 85.3 0.71 1.5E-05 33.0 2.2 23 13-35 52-74 (74)
30 PF14259 RRM_6: RNA recognitio 85.0 0.91 2E-05 30.1 2.5 23 9-31 48-70 (70)
31 KOG0117 Heterogeneous nuclear 84.7 0.68 1.5E-05 45.5 2.5 28 12-39 305-332 (506)
32 TIGR01645 half-pint poly-U bin 84.6 0.7 1.5E-05 45.9 2.6 26 12-37 161-186 (612)
33 KOG0131 Splicing factor 3b, su 83.9 1 2.2E-05 40.0 3.1 37 4-40 143-179 (203)
34 TIGR01661 ELAV_HUD_SF ELAV/HuD 83.4 1.3 2.8E-05 37.8 3.4 29 11-39 142-172 (352)
35 KOG4212 RNA-binding protein hn 82.5 2.1 4.5E-05 42.6 4.8 36 2-37 88-123 (608)
36 TIGR01628 PABP-1234 polyadenyl 81.6 1.2 2.7E-05 41.3 2.8 30 11-40 140-169 (562)
37 KOG1456 Heterogeneous nuclear 79.2 1.4 3E-05 43.1 2.3 36 1-39 163-200 (494)
38 KOG0127 Nucleolar protein fibr 78.7 1.5 3.2E-05 44.3 2.5 30 10-39 168-197 (678)
39 KOG0109 RNA-binding protein LA 77.1 1.5 3.3E-05 41.4 1.9 31 11-41 123-153 (346)
40 KOG0415 Predicted peptidyl pro 76.8 1.6 3.5E-05 42.4 2.0 38 2-39 269-320 (479)
41 PLN03120 nucleic acid binding 76.3 2.3 5E-05 38.5 2.8 24 13-37 56-79 (260)
42 KOG0533 RRM motif-containing p 74.7 3.1 6.6E-05 37.3 3.1 36 1-37 126-161 (243)
43 KOG0127 Nucleolar protein fibr 74.6 2.1 4.5E-05 43.3 2.3 32 9-40 56-87 (678)
44 KOG4661 Hsp27-ERE-TATA-binding 69.3 2.9 6.3E-05 43.0 1.9 11 179-189 910-920 (940)
45 KOG0131 Splicing factor 3b, su 68.8 3.6 7.8E-05 36.6 2.2 27 12-38 63-89 (203)
46 KOG0147 Transcriptional coacti 67.2 4.3 9.3E-05 40.5 2.5 34 5-38 325-358 (549)
47 TIGR01622 SF-CC1 splicing fact 66.9 5.2 0.00011 35.8 2.8 27 11-38 142-168 (457)
48 KOG0123 Polyadenylate-binding 66.5 4.1 9E-05 37.7 2.2 29 13-41 128-156 (369)
49 PRK11634 ATP-dependent RNA hel 65.9 42 0.0009 33.1 8.9 26 13-38 538-563 (629)
50 KOG0114 Predicted RNA-binding 65.5 5.6 0.00012 33.1 2.5 29 9-37 66-94 (124)
51 KOG0123 Polyadenylate-binding 64.3 6.3 0.00014 36.6 2.9 28 12-39 49-76 (369)
52 KOG0117 Heterogeneous nuclear 61.6 6.2 0.00013 39.1 2.4 6 176-181 477-482 (506)
53 PF11608 Limkain-b1: Limkain b 59.9 8.1 0.00017 30.7 2.4 24 12-35 51-74 (90)
54 KOG0144 RNA-binding protein CU 55.3 11 0.00024 37.4 3.0 29 13-41 178-209 (510)
55 TIGR01642 U2AF_lg U2 snRNP aux 54.8 8.4 0.00018 34.9 2.0 26 10-36 233-258 (509)
56 KOG0109 RNA-binding protein LA 54.6 8.9 0.00019 36.4 2.2 26 13-38 49-74 (346)
57 PF08952 DUF1866: Domain of un 52.4 15 0.00032 31.0 3.0 35 2-37 61-106 (146)
58 KOG0124 Polypyrimidine tract-b 49.9 12 0.00026 36.9 2.3 26 11-36 166-191 (544)
59 KOG0126 Predicted RNA-binding 49.2 5.1 0.00011 36.0 -0.3 22 14-35 91-112 (219)
60 KOG0148 Apoptosis-promoting RN 48.7 14 0.0003 34.9 2.5 25 13-37 213-237 (321)
61 KOG1457 RNA binding protein (c 45.4 20 0.00043 33.3 2.9 27 13-39 90-119 (284)
62 KOG1995 Conserved Zn-finger pr 45.0 11 0.00023 36.0 1.1 28 13-40 129-156 (351)
63 KOG0110 RNA-binding protein (R 44.7 19 0.00041 37.2 2.9 26 11-36 571-596 (725)
64 KOG1190 Polypyrimidine tract-b 41.7 20 0.00044 35.5 2.5 26 11-36 346-371 (492)
65 KOG1548 Transcription elongati 41.3 22 0.00047 34.4 2.5 23 14-36 197-219 (382)
66 KOG0113 U1 small nuclear ribon 38.7 41 0.00089 32.1 3.9 27 13-39 156-182 (335)
67 KOG0121 Nuclear cap-binding pr 38.4 29 0.00064 29.8 2.7 24 12-35 90-113 (153)
68 KOG0106 Alternative splicing f 36.8 18 0.00039 32.1 1.2 23 13-35 146-168 (216)
69 KOG1548 Transcription elongati 35.5 31 0.00068 33.3 2.7 30 5-34 319-348 (382)
70 KOG0145 RNA-binding protein EL 34.7 31 0.00067 32.8 2.4 24 13-36 182-207 (360)
71 KOG0110 RNA-binding protein (R 33.6 23 0.0005 36.7 1.5 33 2-37 660-692 (725)
72 KOG4206 Spliceosomal protein s 33.3 30 0.00066 31.1 2.1 31 9-39 61-91 (221)
73 PF04847 Calcipressin: Calcipr 32.8 33 0.00071 29.3 2.1 29 11-39 42-72 (184)
74 COG4371 Predicted membrane pro 31.9 59 0.0013 30.8 3.8 8 63-70 72-79 (334)
75 KOG0106 Alternative splicing f 31.2 31 0.00067 30.7 1.8 35 3-40 41-75 (216)
76 COG4371 Predicted membrane pro 30.6 64 0.0014 30.6 3.7 8 62-69 76-83 (334)
77 COG5175 MOT2 Transcriptional r 28.8 46 0.001 32.7 2.6 33 4-36 169-201 (480)
78 KOG0116 RasGAP SH3 binding pro 25.8 2.4E+02 0.0052 27.3 6.8 27 13-40 343-369 (419)
79 KOG0149 Predicted RNA-binding 23.4 56 0.0012 30.1 2.0 35 2-36 42-89 (247)
80 KOG0115 RNA-binding protein p5 22.6 67 0.0015 30.0 2.4 27 11-37 5-31 (275)
81 KOG2202 U2 snRNP splicing fact 21.7 61 0.0013 30.0 1.9 30 6-35 116-145 (260)
82 KOG4660 Protein Mei2, essentia 21.0 40 0.00086 34.0 0.6 25 4-31 119-143 (549)
83 PF10021 DUF2263: Uncharacteri 20.5 85 0.0018 25.6 2.3 28 14-41 63-90 (148)
No 1
>PLN03134 glycine-rich RNA-binding protein 4; Provisional
Probab=97.74 E-value=0.0001 Score=58.71 Aligned_cols=31 Identities=32% Similarity=0.433 Sum_probs=27.5
Q ss_pred chHHHHHHHhCCCccCCeeEEecccccCCCC
Q 036693 11 GLKFSYKRKLVLQDLHGRRVRVNYAADRNRG 41 (218)
Q Consensus 11 ~~AqKAIeAMNGqELDGRaIRVDeArPR~~r 41 (218)
+.|++||++||+.+|++|+|+|+.|++|+..
T Consensus 87 e~A~~Al~~lng~~i~Gr~l~V~~a~~~~~~ 117 (144)
T PLN03134 87 GAATAAISEMDGKELNGRHIRVNPANDRPSA 117 (144)
T ss_pred HHHHHHHHHcCCCEECCEEEEEEeCCcCCCC
Confidence 4489999999999999999999999887654
No 2
>KOG0111 consensus Cyclophilin-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]
Probab=96.92 E-value=0.00045 Score=62.78 Aligned_cols=31 Identities=23% Similarity=0.215 Sum_probs=27.8
Q ss_pred hchHHHHHHHhCCCccCCeeEEecccccCCC
Q 036693 10 IGLKFSYKRKLVLQDLHGRRVRVNYAADRNR 40 (218)
Q Consensus 10 I~~AqKAIeAMNGqELDGRaIRVDeArPR~~ 40 (218)
.++|.+||+.||.+||-||+||||+|+|.+-
T Consensus 62 aEDAaaAiDNMnesEL~GrtirVN~AkP~ki 92 (298)
T KOG0111|consen 62 AEDAAAAIDNMNESELFGRTIRVNLAKPEKI 92 (298)
T ss_pred cchhHHHhhcCchhhhcceeEEEeecCCccc
Confidence 4568999999999999999999999999653
No 3
>PF13893 RRM_5: RNA recognition motif. (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 ....
Probab=96.89 E-value=0.00087 Score=44.03 Aligned_cols=27 Identities=22% Similarity=0.289 Sum_probs=24.0
Q ss_pred hhchHHHHHHHhCCCccCCeeEEeccc
Q 036693 9 LIGLKFSYKRKLVLQDLHGRRVRVNYA 35 (218)
Q Consensus 9 iI~~AqKAIeAMNGqELDGRaIRVDeA 35 (218)
.+++|++|++.||+..|.+|+|+|++|
T Consensus 30 ~~~~A~~a~~~l~~~~~~g~~l~V~~a 56 (56)
T PF13893_consen 30 SVEDAQKAIEQLNGRQFNGRPLKVSYA 56 (56)
T ss_dssp SHHHHHHHHHHHTTSEETTEEEEEEEE
T ss_pred CHHHHHHHHHHhCCCEECCcEEEEEEC
Confidence 345599999999999999999999986
No 4
>TIGR01648 hnRNP-R-Q heterogeneous nuclear ribonucleoprotein R, Q family. 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.
Probab=96.05 E-value=0.024 Score=55.46 Aligned_cols=30 Identities=17% Similarity=0.187 Sum_probs=26.9
Q ss_pred chHHHHHHHhCCCccCCeeEEecccccCCC
Q 036693 11 GLKFSYKRKLVLQDLHGRRVRVNYAADRNR 40 (218)
Q Consensus 11 ~~AqKAIeAMNGqELDGRaIRVDeArPR~~ 40 (218)
++|++||++||+++|++|+|+|++|+|+..
T Consensus 280 e~A~kAi~~lnG~~i~Gr~I~V~~Akp~~~ 309 (578)
T TIGR01648 280 EDAVKAMDELNGKELEGSEIEVTLAKPVDK 309 (578)
T ss_pred HHHHHHHHHhCCCEECCEEEEEEEccCCCc
Confidence 348999999999999999999999998644
No 5
>TIGR01659 sex-lethal sex-lethal family splicing factor. 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).
Probab=96.00 E-value=0.023 Score=51.65 Aligned_cols=30 Identities=13% Similarity=0.020 Sum_probs=25.5
Q ss_pred chHHHHHHHhCCCccCC--eeEEecccccCCC
Q 036693 11 GLKFSYKRKLVLQDLHG--RRVRVNYAADRNR 40 (218)
Q Consensus 11 ~~AqKAIeAMNGqELDG--RaIRVDeArPR~~ 40 (218)
++|++||++||+++|++ ++|+|..|+++..
T Consensus 246 e~A~~Ai~~lng~~~~g~~~~l~V~~a~~~~~ 277 (346)
T TIGR01659 246 EEAQEAISALNNVIPEGGSQPLTVRLAEEHGK 277 (346)
T ss_pred HHHHHHHHHhCCCccCCCceeEEEEECCcccc
Confidence 45899999999999987 6899999887644
No 6
>KOG4207 consensus Predicted splicing factor, SR protein superfamily [RNA processing and modification]
Probab=95.44 E-value=0.0082 Score=54.12 Aligned_cols=25 Identities=24% Similarity=0.123 Sum_probs=23.7
Q ss_pred HHHHHHHhCCCccCCeeEEeccccc
Q 036693 13 KFSYKRKLVLQDLHGRRVRVNYAAD 37 (218)
Q Consensus 13 AqKAIeAMNGqELDGRaIRVDeArP 37 (218)
|++|+++||++.||||.|||.+|+-
T Consensus 68 aedA~damDG~~ldgRelrVq~ary 92 (256)
T KOG4207|consen 68 AEDALDAMDGAVLDGRELRVQMARY 92 (256)
T ss_pred HHHHHHhhcceeeccceeeehhhhc
Confidence 8999999999999999999999973
No 7
>KOG0148 consensus Apoptosis-promoting RNA-binding protein TIA-1/TIAR (RRM superfamily) [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=95.40 E-value=0.011 Score=54.71 Aligned_cols=40 Identities=23% Similarity=0.178 Sum_probs=35.1
Q ss_pred ceeecchhhch-------------------HHHHHHHhCCCccCCeeEEecccccCCCC
Q 036693 2 CEVISKRLIGL-------------------KFSYKRKLVLQDLHGRRVRVNYAADRNRG 41 (218)
Q Consensus 2 cEViSaRiI~~-------------------AqKAIeAMNGqELDGRaIRVDeArPR~~r 41 (218)
.||.++|||.+ |+.||++|||+=|..|+||-|-|.-|+.+
T Consensus 87 GevS~akvirD~~T~KsKGYgFVSf~~k~dAEnAI~~MnGqWlG~R~IRTNWATRKp~e 145 (321)
T KOG0148|consen 87 GEVSDAKVIRDMNTGKSKGYGFVSFPNKEDAENAIQQMNGQWLGRRTIRTNWATRKPSE 145 (321)
T ss_pred cccccceEeecccCCcccceeEEeccchHHHHHHHHHhCCeeeccceeeccccccCccc
Confidence 58888888877 69999999999999999999999877643
No 8
>TIGR01661 ELAV_HUD_SF ELAV/HuD family splicing factor. These proteins contain 3 RNA-recognition motifs (rrm: pfam00076).
Probab=95.15 E-value=0.016 Score=49.38 Aligned_cols=29 Identities=17% Similarity=0.132 Sum_probs=26.4
Q ss_pred hHHHHHHHhCCCccCCeeEEecccccCCC
Q 036693 12 LKFSYKRKLVLQDLHGRRVRVNYAADRNR 40 (218)
Q Consensus 12 ~AqKAIeAMNGqELDGRaIRVDeArPR~~ 40 (218)
+|++||+.||+++|.+|+|+|.+|+|+..
T Consensus 57 ~A~~Ai~~l~g~~l~g~~i~v~~a~~~~~ 85 (352)
T TIGR01661 57 DAEKAVNSLNGLRLQNKTIKVSYARPSSD 85 (352)
T ss_pred HHHHHHhhcccEEECCeeEEEEeeccccc
Confidence 48999999999999999999999988753
No 9
>smart00361 RRM_1 RNA recognition motif.
Probab=95.11 E-value=0.022 Score=39.46 Aligned_cols=22 Identities=18% Similarity=0.063 Sum_probs=20.2
Q ss_pred hHHHHHHHhCCCccCCeeEEec
Q 036693 12 LKFSYKRKLVLQDLHGRRVRVN 33 (218)
Q Consensus 12 ~AqKAIeAMNGqELDGRaIRVD 33 (218)
+|++||+.||+..|++|+|+|.
T Consensus 49 dA~~A~~~l~g~~~~gr~l~~~ 70 (70)
T smart00361 49 DAARAIVDLNGRYFDGRTVKAE 70 (70)
T ss_pred HHHHHHHHhCCCEECCEEEEeC
Confidence 4899999999999999999973
No 10
>KOG0107 consensus Alternative splicing factor SRp20/9G8 (RRM superfamily) [RNA processing and modification]
Probab=95.03 E-value=0.022 Score=49.94 Aligned_cols=37 Identities=32% Similarity=0.371 Sum_probs=32.0
Q ss_pred ceeecchhhchHHHHHHHhCCCccCCeeEEecccccCCCC
Q 036693 2 CEVISKRLIGLKFSYKRKLVLQDLHGRRVRVNYAADRNRG 41 (218)
Q Consensus 2 cEViSaRiI~~AqKAIeAMNGqELDGRaIRVDeArPR~~r 41 (218)
+|..++|+ |+.|+..|||++|.|..|||.+++-++..
T Consensus 52 VEFed~RD---A~DAvr~LDG~~~cG~r~rVE~S~G~~r~ 88 (195)
T KOG0107|consen 52 VEFEDPRD---AEDAVRYLDGKDICGSRIRVELSTGRPRG 88 (195)
T ss_pred EeccCccc---HHHHHhhcCCccccCceEEEEeecCCccc
Confidence 57778888 99999999999999999999998755543
No 11
>PLN03213 repressor of silencing 3; Provisional
Probab=94.67 E-value=0.023 Score=56.65 Aligned_cols=26 Identities=15% Similarity=0.042 Sum_probs=24.6
Q ss_pred HHHHHHHhCCCccCCeeEEecccccC
Q 036693 13 KFSYKRKLVLQDLHGRRVRVNYAADR 38 (218)
Q Consensus 13 AqKAIeAMNGqELDGRaIRVDeArPR 38 (218)
+++||++||+++|+||+|||++|+|.
T Consensus 63 eeKAISaLNGAEWKGR~LKVNKAKP~ 88 (759)
T PLN03213 63 LTKLFSTYNGCVWKGGRLRLEKAKEH 88 (759)
T ss_pred HHHHHHHhcCCeecCceeEEeeccHH
Confidence 69999999999999999999999974
No 12
>KOG0105 consensus Alternative splicing factor ASF/SF2 (RRM superfamily) [RNA processing and modification]
Probab=94.52 E-value=0.048 Score=48.81 Aligned_cols=33 Identities=21% Similarity=0.096 Sum_probs=29.3
Q ss_pred ceeecchhhchHHHHHHHhCCCccCCeeEEeccccc
Q 036693 2 CEVISKRLIGLKFSYKRKLVLQDLHGRRVRVNYAAD 37 (218)
Q Consensus 2 cEViSaRiI~~AqKAIeAMNGqELDGRaIRVDeArP 37 (218)
+|..++|+ |+.||..-|+.++++..|||.+++-
T Consensus 50 VeFEd~RD---AeDAiygRdGYdydg~rLRVEfprg 82 (241)
T KOG0105|consen 50 VEFEDPRD---AEDAIYGRDGYDYDGCRLRVEFPRG 82 (241)
T ss_pred EEecCccc---hhhhhhcccccccCcceEEEEeccC
Confidence 46778888 9999999999999999999999753
No 13
>TIGR01659 sex-lethal sex-lethal family splicing factor. 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).
Probab=93.91 E-value=0.041 Score=50.00 Aligned_cols=27 Identities=19% Similarity=0.186 Sum_probs=24.6
Q ss_pred hHHHHHHHhCCCccCCeeEEecccccC
Q 036693 12 LKFSYKRKLVLQDLHGRRVRVNYAADR 38 (218)
Q Consensus 12 ~AqKAIeAMNGqELDGRaIRVDeArPR 38 (218)
+|++||++||+++|.+|+|+|.+|+|.
T Consensus 161 ~A~~Ai~~LnG~~l~gr~i~V~~a~p~ 187 (346)
T TIGR01659 161 DSQRAIKNLNGITVRNKRLKVSYARPG 187 (346)
T ss_pred HHHHHHHHcCCCccCCceeeeeccccc
Confidence 479999999999999999999998764
No 14
>KOG0125 consensus Ataxin 2-binding protein (RRM superfamily) [General function prediction only]
Probab=93.87 E-value=0.038 Score=52.25 Aligned_cols=27 Identities=26% Similarity=0.244 Sum_probs=25.3
Q ss_pred hHHHHHHHhCCCccCCeeEEecccccC
Q 036693 12 LKFSYKRKLVLQDLHGRRVRVNYAADR 38 (218)
Q Consensus 12 ~AqKAIeAMNGqELDGRaIRVDeArPR 38 (218)
+|++|-++||++.|+||+|.||.|++|
T Consensus 148 dadRARa~LHgt~VEGRkIEVn~ATar 174 (376)
T KOG0125|consen 148 DADRARAELHGTVVEGRKIEVNNATAR 174 (376)
T ss_pred hHHHHHHHhhcceeeceEEEEeccchh
Confidence 379999999999999999999999886
No 15
>PF00076 RRM_1: RNA recognition motif. (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 ....
Probab=93.55 E-value=0.068 Score=34.56 Aligned_cols=20 Identities=20% Similarity=0.240 Sum_probs=18.8
Q ss_pred hHHHHHHHhCCCccCCeeEE
Q 036693 12 LKFSYKRKLVLQDLHGRRVR 31 (218)
Q Consensus 12 ~AqKAIeAMNGqELDGRaIR 31 (218)
+|++|++.||++.|.+|+||
T Consensus 51 ~a~~a~~~l~g~~~~~~~ir 70 (70)
T PF00076_consen 51 DAEKALEELNGKKINGRKIR 70 (70)
T ss_dssp HHHHHHHHHTTEEETTEEEE
T ss_pred HHHHHHHHcCCCEECccCcC
Confidence 48999999999999999997
No 16
>KOG0108 consensus mRNA cleavage and polyadenylation factor I complex, subunit RNA15 [RNA processing and modification]
Probab=93.37 E-value=0.058 Score=51.34 Aligned_cols=29 Identities=34% Similarity=0.544 Sum_probs=26.3
Q ss_pred HHHHHHHhCCCccCCeeEEecccccCCCC
Q 036693 13 KFSYKRKLVLQDLHGRRVRVNYAADRNRG 41 (218)
Q Consensus 13 AqKAIeAMNGqELDGRaIRVDeArPR~~r 41 (218)
+++||+.||++|+.+|+|||++|.-++++
T Consensus 73 ~~~a~~~lNg~~~~gr~l~v~~~~~~~~~ 101 (435)
T KOG0108|consen 73 AERAIRNLNGAEFNGRKLRVNYASNRKNA 101 (435)
T ss_pred HHHHHHhcCCcccCCceEEeecccccchh
Confidence 79999999999999999999998776654
No 17
>smart00362 RRM_2 RNA recognition motif.
Probab=93.22 E-value=0.092 Score=32.62 Aligned_cols=23 Identities=26% Similarity=0.124 Sum_probs=20.4
Q ss_pred chHHHHHHHhCCCccCCeeEEec
Q 036693 11 GLKFSYKRKLVLQDLHGRRVRVN 33 (218)
Q Consensus 11 ~~AqKAIeAMNGqELDGRaIRVD 33 (218)
..|++|++.|++..|.+++|+|.
T Consensus 50 ~~a~~a~~~~~~~~~~~~~i~v~ 72 (72)
T smart00362 50 EDAEKAIEALNGTKLGGRPLRVE 72 (72)
T ss_pred HHHHHHHHHhCCcEECCEEEeeC
Confidence 34899999999999999999984
No 18
>TIGR01649 hnRNP-L_PTB hnRNP-L/PTB/hephaestus splicing factor family. 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).
Probab=93.03 E-value=0.078 Score=49.05 Aligned_cols=29 Identities=17% Similarity=0.155 Sum_probs=24.7
Q ss_pred chHHHHHHHhCCCccCC--eeEEecccccCC
Q 036693 11 GLKFSYKRKLVLQDLHG--RRVRVNYAADRN 39 (218)
Q Consensus 11 ~~AqKAIeAMNGqELDG--RaIRVDeArPR~ 39 (218)
+.|++||++||+++|.+ ++|+|++|+++.
T Consensus 145 ~~A~~A~~~Lng~~i~~~~~~l~v~~sk~~~ 175 (481)
T TIGR01649 145 NSAQHAKAALNGADIYNGCCTLKIEYAKPTR 175 (481)
T ss_pred HHHHHHHHHhcCCcccCCceEEEEEEecCCC
Confidence 44999999999999976 589999998744
No 19
>KOG0145 consensus RNA-binding protein ELAV/HU (RRM superfamily) [RNA processing and modification]
Probab=92.97 E-value=0.074 Score=49.71 Aligned_cols=28 Identities=18% Similarity=0.179 Sum_probs=26.4
Q ss_pred HHHHHHHhCCCccCCeeEEecccccCCC
Q 036693 13 KFSYKRKLVLQDLHGRRVRVNYAADRNR 40 (218)
Q Consensus 13 AqKAIeAMNGqELDGRaIRVDeArPR~~ 40 (218)
|++||..||+-.|.-++|+|.+|+|...
T Consensus 96 Ae~AintlNGLrLQ~KTIKVSyARPSs~ 123 (360)
T KOG0145|consen 96 AEKAINTLNGLRLQNKTIKVSYARPSSD 123 (360)
T ss_pred HHHHHhhhcceeeccceEEEEeccCChh
Confidence 7999999999999999999999999764
No 20
>TIGR01649 hnRNP-L_PTB hnRNP-L/PTB/hephaestus splicing factor family. 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).
Probab=92.89 E-value=0.083 Score=48.87 Aligned_cols=28 Identities=18% Similarity=0.029 Sum_probs=25.0
Q ss_pred chHHHHHHHhCCCccCCeeEEecccccC
Q 036693 11 GLKFSYKRKLVLQDLHGRRVRVNYAADR 38 (218)
Q Consensus 11 ~~AqKAIeAMNGqELDGRaIRVDeArPR 38 (218)
++|++||+.||+.+|++|+|+|.+++.+
T Consensus 324 ~~A~~Ai~~lng~~l~g~~l~v~~s~~~ 351 (481)
T TIGR01649 324 YQAQLALTHLNGVKLFGKPLRVCPSKQQ 351 (481)
T ss_pred HHHHHHHHHhCCCEECCceEEEEEcccc
Confidence 3489999999999999999999998654
No 21
>TIGR01628 PABP-1234 polyadenylate binding protein, human types 1, 2, 3, 4 family. There are four paralogs in Homo sapiens which are expressed in testis, platelets, broadly expressed, or of unknown tissue range.
Probab=92.70 E-value=0.064 Score=49.63 Aligned_cols=29 Identities=14% Similarity=0.052 Sum_probs=26.2
Q ss_pred chHHHHHHHhCCCccCCeeEEecccccCC
Q 036693 11 GLKFSYKRKLVLQDLHGRRVRVNYAADRN 39 (218)
Q Consensus 11 ~~AqKAIeAMNGqELDGRaIRVDeArPR~ 39 (218)
+.|++||++||+..|.+|+|+|.+|++|.
T Consensus 337 ~~A~~A~~~~~g~~~~gk~l~V~~a~~k~ 365 (562)
T TIGR01628 337 EEANRAVTEMHGRMLGGKPLYVALAQRKE 365 (562)
T ss_pred HHHHHHHHHhcCCeeCCceeEEEeccCcH
Confidence 44899999999999999999999998764
No 22
>smart00360 RRM RNA recognition motif.
Probab=92.62 E-value=0.12 Score=31.90 Aligned_cols=23 Identities=22% Similarity=0.173 Sum_probs=20.6
Q ss_pred chHHHHHHHhCCCccCCeeEEec
Q 036693 11 GLKFSYKRKLVLQDLHGRRVRVN 33 (218)
Q Consensus 11 ~~AqKAIeAMNGqELDGRaIRVD 33 (218)
+.|++||+.|++..+.+++|+|+
T Consensus 49 ~~a~~a~~~~~~~~~~~~~~~v~ 71 (71)
T smart00360 49 EDAEKALEALNGKELDGRPLKVK 71 (71)
T ss_pred HHHHHHHHHcCCCeeCCcEEEeC
Confidence 45899999999999999999984
No 23
>TIGR01645 half-pint poly-U binding splicing factor, half-pint family. 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.
Probab=92.25 E-value=0.13 Score=50.95 Aligned_cols=31 Identities=19% Similarity=0.150 Sum_probs=27.1
Q ss_pred chHHHHHHHhCCCccCCeeEEecccccCCCC
Q 036693 11 GLKFSYKRKLVLQDLHGRRVRVNYAADRNRG 41 (218)
Q Consensus 11 ~~AqKAIeAMNGqELDGRaIRVDeArPR~~r 41 (218)
+.|++||++||+.+|.||.|||.+|.+.+..
T Consensus 257 e~A~kAI~amNg~elgGr~LrV~kAi~pP~~ 287 (612)
T TIGR01645 257 QSQSEAIASMNLFDLGGQYLRVGKCVTPPDA 287 (612)
T ss_pred HHHHHHHHHhCCCeeCCeEEEEEecCCCccc
Confidence 3489999999999999999999999876654
No 24
>TIGR01622 SF-CC1 splicing factor, CC1-like family. 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.
Probab=92.09 E-value=0.13 Score=45.75 Aligned_cols=29 Identities=24% Similarity=0.237 Sum_probs=25.4
Q ss_pred hchHHHHHHHhCCCccCCeeEEecccccC
Q 036693 10 IGLKFSYKRKLVLQDLHGRRVRVNYAADR 38 (218)
Q Consensus 10 I~~AqKAIeAMNGqELDGRaIRVDeArPR 38 (218)
.+.|++||++||+.+|.+|+|+|.+|+..
T Consensus 238 ~e~A~~A~~~l~g~~i~g~~i~v~~a~~~ 266 (457)
T TIGR01622 238 AEEAKEALEVMNGFELAGRPIKVGYAQDS 266 (457)
T ss_pred HHHHHHHHHhcCCcEECCEEEEEEEccCC
Confidence 34589999999999999999999998743
No 25
>COG0724 RNA-binding proteins (RRM domain) [General function prediction only]
Probab=91.96 E-value=0.16 Score=38.13 Aligned_cols=26 Identities=27% Similarity=0.225 Sum_probs=23.5
Q ss_pred hHHHHHHHhCCCccCCeeEEeccccc
Q 036693 12 LKFSYKRKLVLQDLHGRRVRVNYAAD 37 (218)
Q Consensus 12 ~AqKAIeAMNGqELDGRaIRVDeArP 37 (218)
.+++||+.|++..|++|+|+|+.+++
T Consensus 169 ~~~~a~~~~~~~~~~~~~~~v~~~~~ 194 (306)
T COG0724 169 SAEKAIEELNGKELEGRPLRVQKAQP 194 (306)
T ss_pred HHHHHHHHcCCCeECCceeEeecccc
Confidence 37999999999999999999999653
No 26
>KOG0921 consensus Dosage compensation complex, subunit MLE [Transcription]
Probab=90.86 E-value=1.2 Score=47.40 Aligned_cols=11 Identities=82% Similarity=1.893 Sum_probs=4.5
Q ss_pred CCCCCCCCCCC
Q 036693 62 GGYGGGGYGGG 72 (218)
Q Consensus 62 GGYggggYGgg 72 (218)
+||+.++|++-
T Consensus 1201 gGygsGGYGgs 1211 (1282)
T KOG0921|consen 1201 GGYGSGGYGGS 1211 (1282)
T ss_pred CCcCCCCCCCC
Confidence 33444444433
No 27
>TIGR01642 U2AF_lg U2 snRNP auxilliary factor, large subunit, splicing factor. Members of this subfamily are found in plants, metazoa and fungi.
Probab=90.67 E-value=0.25 Score=44.49 Aligned_cols=27 Identities=15% Similarity=-0.012 Sum_probs=24.5
Q ss_pred hHHHHHHHhCCCccCCeeEEecccccC
Q 036693 12 LKFSYKRKLVLQDLHGRRVRVNYAADR 38 (218)
Q Consensus 12 ~AqKAIeAMNGqELDGRaIRVDeArPR 38 (218)
.|++||++||+.+|.+++|+|.+|...
T Consensus 349 ~a~~A~~~l~g~~~~~~~l~v~~a~~~ 375 (509)
T TIGR01642 349 VTDVAIAALNGKDTGDNKLHVQRACVG 375 (509)
T ss_pred HHHHHHHHcCCCEECCeEEEEEECccC
Confidence 389999999999999999999998654
No 28
>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. 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).
Probab=88.75 E-value=0.57 Score=29.16 Aligned_cols=24 Identities=25% Similarity=0.241 Sum_probs=21.4
Q ss_pred chHHHHHHHhCCCccCCeeEEecc
Q 036693 11 GLKFSYKRKLVLQDLHGRRVRVNY 34 (218)
Q Consensus 11 ~~AqKAIeAMNGqELDGRaIRVDe 34 (218)
..|++|++.|++..+.+++|+|.+
T Consensus 51 ~~a~~a~~~~~~~~~~~~~~~v~~ 74 (74)
T cd00590 51 EDAEKALEALNGKELGGRPLRVEF 74 (74)
T ss_pred HHHHHHHHHhCCCeECCeEEEEeC
Confidence 458999999999999999999864
No 29
>PF03880 DbpA: DbpA RNA binding domain ; InterPro: IPR005580 This RNA binding domain is found at the C terminus of a number of DEAD helicase proteins [].; PDB: 2G0C_A 3MOJ_B.
Probab=85.27 E-value=0.71 Score=33.01 Aligned_cols=23 Identities=26% Similarity=0.297 Sum_probs=15.2
Q ss_pred HHHHHHHhCCCccCCeeEEeccc
Q 036693 13 KFSYKRKLVLQDLHGRRVRVNYA 35 (218)
Q Consensus 13 AqKAIeAMNGqELDGRaIRVDeA 35 (218)
++++|++|++..+.+|+|+|..|
T Consensus 52 a~~v~~~l~~~~~~gk~v~ve~A 74 (74)
T PF03880_consen 52 AEKVLEALNGKKIKGKKVRVERA 74 (74)
T ss_dssp HHHHHHHHTT--SSS----EEE-
T ss_pred HHHHHHHhcCCCCCCeeEEEEEC
Confidence 79999999999999999999876
No 30
>PF14259 RRM_6: RNA recognition motif (a.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 ....
Probab=85.01 E-value=0.91 Score=30.12 Aligned_cols=23 Identities=17% Similarity=0.086 Sum_probs=20.0
Q ss_pred hhchHHHHHHHhCCCccCCeeEE
Q 036693 9 LIGLKFSYKRKLVLQDLHGRRVR 31 (218)
Q Consensus 9 iI~~AqKAIeAMNGqELDGRaIR 31 (218)
..++|++|++.+++..|++|+|+
T Consensus 48 ~~~~a~~al~~~~~~~~~g~~l~ 70 (70)
T PF14259_consen 48 SEEDAKRALELLNGKEIDGRKLR 70 (70)
T ss_dssp SHHHHHHHHHHHTTEEETTEEEE
T ss_pred CHHHHHHHHHHCCCcEECCEEcC
Confidence 34559999999999999999986
No 31
>KOG0117 consensus Heterogeneous nuclear ribonucleoprotein R (RRM superfamily) [RNA processing and modification]
Probab=84.73 E-value=0.68 Score=45.48 Aligned_cols=28 Identities=14% Similarity=0.135 Sum_probs=25.6
Q ss_pred hHHHHHHHhCCCccCCeeEEecccccCC
Q 036693 12 LKFSYKRKLVLQDLHGRRVRVNYAADRN 39 (218)
Q Consensus 12 ~AqKAIeAMNGqELDGRaIRVDeArPR~ 39 (218)
+|.+||++||++||+|-.|-|..|+|..
T Consensus 305 davkAm~~~ngkeldG~~iEvtLAKP~~ 332 (506)
T KOG0117|consen 305 DAVKAMKETNGKELDGSPIEVTLAKPVD 332 (506)
T ss_pred HHHHHHHHhcCceecCceEEEEecCChh
Confidence 4799999999999999999999999853
No 32
>TIGR01645 half-pint poly-U binding splicing factor, half-pint family. 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.
Probab=84.63 E-value=0.7 Score=45.93 Aligned_cols=26 Identities=19% Similarity=0.166 Sum_probs=22.9
Q ss_pred hHHHHHHHhCCCccCCeeEEeccccc
Q 036693 12 LKFSYKRKLVLQDLHGRRVRVNYAAD 37 (218)
Q Consensus 12 ~AqKAIeAMNGqELDGRaIRVDeArP 37 (218)
.|++||++||++.|++|+|+|+.+..
T Consensus 161 ~A~~Ai~~lnG~~i~GR~IkV~rp~~ 186 (612)
T TIGR01645 161 AAQLALEQMNGQMLGGRNIKVGRPSN 186 (612)
T ss_pred HHHHHHHhcCCeEEecceeeeccccc
Confidence 37999999999999999999986543
No 33
>KOG0131 consensus Splicing factor 3b, subunit 4 [RNA processing and modification]
Probab=83.95 E-value=1 Score=39.97 Aligned_cols=37 Identities=19% Similarity=0.128 Sum_probs=29.8
Q ss_pred eecchhhchHHHHHHHhCCCccCCeeEEecccccCCC
Q 036693 4 VISKRLIGLKFSYKRKLVLQDLHGRRVRVNYAADRNR 40 (218)
Q Consensus 4 ViSaRiI~~AqKAIeAMNGqELDGRaIRVDeArPR~~ 40 (218)
||.-+..+-+.+||++||++-+..|+|+|++|..+..
T Consensus 143 ~i~~~sfeasd~ai~s~ngq~l~nr~itv~ya~k~~~ 179 (203)
T KOG0131|consen 143 FINYASFEASDAAIGSMNGQYLCNRPITVSYAFKKDT 179 (203)
T ss_pred EEechhHHHHHHHHHHhccchhcCCceEEEEEEecCC
Confidence 4444555567999999999999999999999975544
No 34
>TIGR01661 ELAV_HUD_SF ELAV/HuD family splicing factor. These proteins contain 3 RNA-recognition motifs (rrm: pfam00076).
Probab=83.42 E-value=1.3 Score=37.80 Aligned_cols=29 Identities=14% Similarity=0.096 Sum_probs=24.2
Q ss_pred chHHHHHHHhCCCccCC--eeEEecccccCC
Q 036693 11 GLKFSYKRKLVLQDLHG--RRVRVNYAADRN 39 (218)
Q Consensus 11 ~~AqKAIeAMNGqELDG--RaIRVDeArPR~ 39 (218)
++|++||++||++.+.+ ++|+|.+|.++.
T Consensus 142 ~~A~~ai~~l~g~~~~g~~~~i~v~~a~~~~ 172 (352)
T TIGR01661 142 DEADRAIKTLNGTTPSGCTEPITVKFANNPS 172 (352)
T ss_pred HHHHHHHHHhCCCccCCCceeEEEEECCCCC
Confidence 44899999999999987 678999886554
No 35
>KOG4212 consensus RNA-binding protein hnRNP-M [RNA processing and modification]
Probab=82.52 E-value=2.1 Score=42.63 Aligned_cols=36 Identities=22% Similarity=0.211 Sum_probs=30.8
Q ss_pred ceeecchhhchHHHHHHHhCCCccCCeeEEeccccc
Q 036693 2 CEVISKRLIGLKFSYKRKLVLQDLHGRRVRVNYAAD 37 (218)
Q Consensus 2 cEViSaRiI~~AqKAIeAMNGqELDGRaIRVDeArP 37 (218)
|-|+--++-+.+|||+|.||=.||.+|+|.|.|-..
T Consensus 88 cavVEFk~~E~~qKa~E~lnk~~~~GR~l~vKEd~d 123 (608)
T KOG4212|consen 88 CAVVEFKDPENVQKALEKLNKYEVNGRELVVKEDHD 123 (608)
T ss_pred ceEEEeeCHHHHHHHHHHhhhccccCceEEEeccCc
Confidence 666666777778999999999999999999998544
No 36
>TIGR01628 PABP-1234 polyadenylate binding protein, human types 1, 2, 3, 4 family. There are four paralogs in Homo sapiens which are expressed in testis, platelets, broadly expressed, or of unknown tissue range.
Probab=81.57 E-value=1.2 Score=41.32 Aligned_cols=30 Identities=13% Similarity=-0.011 Sum_probs=24.9
Q ss_pred chHHHHHHHhCCCccCCeeEEecccccCCC
Q 036693 11 GLKFSYKRKLVLQDLHGRRVRVNYAADRNR 40 (218)
Q Consensus 11 ~~AqKAIeAMNGqELDGRaIRVDeArPR~~ 40 (218)
+.|++||++||+..+.+|+|+|....++..
T Consensus 140 e~A~~Ai~~lng~~~~~~~i~v~~~~~~~~ 169 (562)
T TIGR01628 140 ESAKAAIQKVNGMLLNDKEVYVGRFIKKHE 169 (562)
T ss_pred HHHHHHHHHhcccEecCceEEEeccccccc
Confidence 348999999999999999999987665543
No 37
>KOG1456 consensus Heterogeneous nuclear ribonucleoprotein L (contains RRM repeats) [RNA processing and modification]
Probab=79.24 E-value=1.4 Score=43.08 Aligned_cols=36 Identities=22% Similarity=0.205 Sum_probs=28.5
Q ss_pred CceeecchhhchHHHHHHHhCCCccCC--eeEEecccccCC
Q 036693 1 MCEVISKRLIGLKFSYKRKLVLQDLHG--RRVRVNYAADRN 39 (218)
Q Consensus 1 ~cEViSaRiI~~AqKAIeAMNGqELDG--RaIRVDeArPR~ 39 (218)
|+|..+... |++|.++|||+||-- -+|+|++|+|-+
T Consensus 163 mVEFdsv~~---AqrAk~alNGADIYsGCCTLKIeyAkP~r 200 (494)
T KOG1456|consen 163 MVEFDSVEV---AQRAKAALNGADIYSGCCTLKIEYAKPTR 200 (494)
T ss_pred EEeechhHH---HHHHHhhcccccccccceeEEEEecCcce
Confidence 455555555 999999999999974 489999999853
No 38
>KOG0127 consensus Nucleolar protein fibrillarin NOP77 (RRM superfamily) [RNA processing and modification]
Probab=78.70 E-value=1.5 Score=44.34 Aligned_cols=30 Identities=20% Similarity=0.182 Sum_probs=26.8
Q ss_pred hchHHHHHHHhCCCccCCeeEEecccccCC
Q 036693 10 IGLKFSYKRKLVLQDLHGRRVRVNYAADRN 39 (218)
Q Consensus 10 I~~AqKAIeAMNGqELDGRaIRVDeArPR~ 39 (218)
+.+|.+||+.||+.+|+||+|.||.|-++.
T Consensus 168 ~~dA~~Al~~~N~~~i~gR~VAVDWAV~Kd 197 (678)
T KOG0127|consen 168 KKDAEKALEFFNGNKIDGRPVAVDWAVDKD 197 (678)
T ss_pred HHHHHHHHHhccCceecCceeEEeeecccc
Confidence 345899999999999999999999998764
No 39
>KOG0109 consensus RNA-binding protein LARK, contains RRM and retroviral-type Zn-finger domains [RNA processing and modification; General function prediction only]
Probab=77.07 E-value=1.5 Score=41.36 Aligned_cols=31 Identities=23% Similarity=0.283 Sum_probs=27.1
Q ss_pred chHHHHHHHhCCCccCCeeEEecccccCCCC
Q 036693 11 GLKFSYKRKLVLQDLHGRRVRVNYAADRNRG 41 (218)
Q Consensus 11 ~~AqKAIeAMNGqELDGRaIRVDeArPR~~r 41 (218)
++|..||+.||+.||+|++|.|..+++|-+-
T Consensus 123 eda~~air~l~~~~~~gk~m~vq~stsrlrt 153 (346)
T KOG0109|consen 123 EDAVEAIRGLDNTEFQGKRMHVQLSTSRLRT 153 (346)
T ss_pred cchHHHHhcccccccccceeeeeeecccccc
Confidence 5589999999999999999999998877543
No 40
>KOG0415 consensus Predicted peptidyl prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]
Probab=76.79 E-value=1.6 Score=42.42 Aligned_cols=38 Identities=26% Similarity=0.337 Sum_probs=33.3
Q ss_pred ceeecchhhchH--------------HHHHHHhCCCccCCeeEEecccccCC
Q 036693 2 CEVISKRLIGLK--------------FSYKRKLVLQDLHGRRVRVNYAADRN 39 (218)
Q Consensus 2 cEViSaRiI~~A--------------qKAIeAMNGqELDGRaIRVDeArPR~ 39 (218)
||||-+|-+.+. ++|.-.|+.+-|+-|.|.|+++++-.
T Consensus 269 ceVIRD~ktgdsLqyaFiEFen~escE~AyFKMdNvLIDDrRIHVDFSQSVs 320 (479)
T KOG0415|consen 269 CEVIRDRKTGDSLQYAFIEFENKESCEQAYFKMDNVLIDDRRIHVDFSQSVS 320 (479)
T ss_pred eeEEecccccchhheeeeeecchhhHHHHHhhhcceeeccceEEeehhhhhh
Confidence 899999887772 88999999999999999999988643
No 41
>PLN03120 nucleic acid binding protein; Provisional
Probab=76.27 E-value=2.3 Score=38.54 Aligned_cols=24 Identities=17% Similarity=0.032 Sum_probs=21.7
Q ss_pred HHHHHHHhCCCccCCeeEEeccccc
Q 036693 13 KFSYKRKLVLQDLHGRRVRVNYAAD 37 (218)
Q Consensus 13 AqKAIeAMNGqELDGRaIRVDeArP 37 (218)
|++||. ||+.+|.+|+|+|+.+++
T Consensus 56 Ae~All-LnG~~l~gr~V~Vt~a~~ 79 (260)
T PLN03120 56 AETALL-LSGATIVDQSVTITPAED 79 (260)
T ss_pred HHHHHH-hcCCeeCCceEEEEeccC
Confidence 799995 999999999999999863
No 42
>KOG0533 consensus RRM motif-containing protein [RNA processing and modification]
Probab=74.70 E-value=3.1 Score=37.27 Aligned_cols=36 Identities=17% Similarity=0.123 Sum_probs=28.5
Q ss_pred CceeecchhhchHHHHHHHhCCCccCCeeEEeccccc
Q 036693 1 MCEVISKRLIGLKFSYKRKLVLQDLHGRRVRVNYAAD 37 (218)
Q Consensus 1 ~cEViSaRiI~~AqKAIeAMNGqELDGRaIRVDeArP 37 (218)
+|+|+=.|- ++|.+||+.+|+..|+||.|++....+
T Consensus 126 ta~v~~~r~-~DA~~avk~~~gv~ldG~~mk~~~i~~ 161 (243)
T KOG0533|consen 126 TADVSFNRR-DDAERAVKKYNGVALDGRPMKIEIISS 161 (243)
T ss_pred cceeeecch-HhHHHHHHHhcCcccCCceeeeEEecC
Confidence 355555554 568999999999999999999987543
No 43
>KOG0127 consensus Nucleolar protein fibrillarin NOP77 (RRM superfamily) [RNA processing and modification]
Probab=74.65 E-value=2.1 Score=43.34 Aligned_cols=32 Identities=19% Similarity=0.112 Sum_probs=28.5
Q ss_pred hhchHHHHHHHhCCCccCCeeEEecccccCCC
Q 036693 9 LIGLKFSYKRKLVLQDLHGRRVRVNYAADRNR 40 (218)
Q Consensus 9 iI~~AqKAIeAMNGqELDGRaIRVDeArPR~~ 40 (218)
+.++.+.|+++++.+.|.||.|+|++|++|.+
T Consensus 56 m~ED~qrA~~e~~~~kf~Gr~l~v~~A~~R~r 87 (678)
T KOG0127|consen 56 MEEDVQRALAETEQSKFEGRILNVDPAKKRAR 87 (678)
T ss_pred hHhHHHHHHHHhhcCcccceeccccccccccc
Confidence 34668999999999999999999999998865
No 44
>KOG4661 consensus Hsp27-ERE-TATA-binding protein/Scaffold attachment factor (SAF-B) [Transcription]
Probab=69.33 E-value=2.9 Score=42.97 Aligned_cols=11 Identities=36% Similarity=0.839 Sum_probs=4.9
Q ss_pred CCCCCCCCCCC
Q 036693 179 LSGDTGGTDAG 189 (218)
Q Consensus 179 ~~~~~~~~~~~ 189 (218)
|.|-.++.+++
T Consensus 910 ~qGg~ggq~rG 920 (940)
T KOG4661|consen 910 YQGGSGGQGRG 920 (940)
T ss_pred cccCCCCCCCC
Confidence 44444444444
No 45
>KOG0131 consensus Splicing factor 3b, subunit 4 [RNA processing and modification]
Probab=68.78 E-value=3.6 Score=36.64 Aligned_cols=27 Identities=30% Similarity=0.224 Sum_probs=24.4
Q ss_pred hHHHHHHHhCCCccCCeeEEecccccC
Q 036693 12 LKFSYKRKLVLQDLHGRRVRVNYAADR 38 (218)
Q Consensus 12 ~AqKAIeAMNGqELDGRaIRVDeArPR 38 (218)
+|+=||+-||...|-+|+|||+.|+..
T Consensus 63 dadYAikiln~VkLYgrpIrv~kas~~ 89 (203)
T KOG0131|consen 63 DADYAIKILNMVKLYGRPIRVNKASAH 89 (203)
T ss_pred hhHHHHHHHHHHHhcCceeEEEecccc
Confidence 489999999999999999999999843
No 46
>KOG0147 consensus Transcriptional coactivator CAPER (RRM superfamily) [Transcription]
Probab=67.20 E-value=4.3 Score=40.55 Aligned_cols=34 Identities=21% Similarity=0.113 Sum_probs=26.7
Q ss_pred ecchhhchHHHHHHHhCCCccCCeeEEecccccC
Q 036693 5 ISKRLIGLKFSYKRKLVLQDLHGRRVRVNYAADR 38 (218)
Q Consensus 5 iSaRiI~~AqKAIeAMNGqELDGRaIRVDeArPR 38 (218)
|.=+..++|++|.+.||+-||.||.|+|..-+.|
T Consensus 325 i~f~~~~~ar~a~e~lngfelAGr~ikV~~v~~r 358 (549)
T KOG0147|consen 325 ITFVNKEDARKALEQLNGFELAGRLIKVSVVTER 358 (549)
T ss_pred EEEecHHHHHHHHHHhccceecCceEEEEEeeee
Confidence 3334455699999999999999999999765444
No 47
>TIGR01622 SF-CC1 splicing factor, CC1-like family. 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.
Probab=66.95 E-value=5.2 Score=35.76 Aligned_cols=27 Identities=22% Similarity=0.092 Sum_probs=22.7
Q ss_pred chHHHHHHHhCCCccCCeeEEecccccC
Q 036693 11 GLKFSYKRKLVLQDLHGRRVRVNYAADR 38 (218)
Q Consensus 11 ~~AqKAIeAMNGqELDGRaIRVDeArPR 38 (218)
+.|++||+ ||++.|.+++|+|..++..
T Consensus 142 e~A~~Al~-l~g~~~~g~~i~v~~~~~~ 168 (457)
T TIGR01622 142 ESVIKALA-LTGQMLLGRPIIVQSSQAE 168 (457)
T ss_pred HHHHHHHH-hCCCEECCeeeEEeecchh
Confidence 34799996 9999999999999886544
No 48
>KOG0123 consensus Polyadenylate-binding protein (RRM superfamily) [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=66.50 E-value=4.1 Score=37.74 Aligned_cols=29 Identities=17% Similarity=0.126 Sum_probs=26.6
Q ss_pred HHHHHHHhCCCccCCeeEEecccccCCCC
Q 036693 13 KFSYKRKLVLQDLHGRRVRVNYAADRNRG 41 (218)
Q Consensus 13 AqKAIeAMNGqELDGRaIRVDeArPR~~r 41 (218)
|++||+.||+..+.+++|-|..+.+|..|
T Consensus 128 a~~ai~~~ng~ll~~kki~vg~~~~~~er 156 (369)
T KOG0123|consen 128 AKKAIEKLNGMLLNGKKIYVGLFERKEER 156 (369)
T ss_pred HHHHHHHhcCcccCCCeeEEeeccchhhh
Confidence 89999999999999999999998887654
No 49
>PRK11634 ATP-dependent RNA helicase DeaD; Provisional
Probab=65.92 E-value=42 Score=33.10 Aligned_cols=26 Identities=4% Similarity=0.047 Sum_probs=22.9
Q ss_pred HHHHHHHhCCCccCCeeEEecccccC
Q 036693 13 KFSYKRKLVLQDLHGRRVRVNYAADR 38 (218)
Q Consensus 13 AqKAIeAMNGqELDGRaIRVDeArPR 38 (218)
+.+.+++|+...+.+|+|+|..++++
T Consensus 538 ~~~~~~~~~~~~~~~~~~~~~~~~~~ 563 (629)
T PRK11634 538 PGEVLQHFTRTRILNKPMNMQLLGDA 563 (629)
T ss_pred HHHHHHHhccccccCCceEEEECCCC
Confidence 68899999999999999999987643
No 50
>KOG0114 consensus Predicted RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=65.52 E-value=5.6 Score=33.11 Aligned_cols=29 Identities=17% Similarity=-0.089 Sum_probs=25.7
Q ss_pred hhchHHHHHHHhCCCccCCeeEEeccccc
Q 036693 9 LIGLKFSYKRKLVLQDLHGRRVRVNYAAD 37 (218)
Q Consensus 9 iI~~AqKAIeAMNGqELDGRaIRVDeArP 37 (218)
+|.+|++|++.|++..++.|-|+|-+-+|
T Consensus 66 di~dAk~A~dhlsg~n~~~ryl~vlyyq~ 94 (124)
T KOG0114|consen 66 DIFDAKKACDHLSGYNVDNRYLVVLYYQP 94 (124)
T ss_pred HhhhHHHHHHHhcccccCCceEEEEecCH
Confidence 45779999999999999999999987665
No 51
>KOG0123 consensus Polyadenylate-binding protein (RRM superfamily) [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=64.32 E-value=6.3 Score=36.58 Aligned_cols=28 Identities=11% Similarity=0.154 Sum_probs=24.3
Q ss_pred hHHHHHHHhCCCccCCeeEEecccccCC
Q 036693 12 LKFSYKRKLVLQDLHGRRVRVNYAADRN 39 (218)
Q Consensus 12 ~AqKAIeAMNGqELDGRaIRVDeArPR~ 39 (218)
+|.+||++||-..|.+|+|||-.++..+
T Consensus 49 da~~A~~~~n~~~~~~~~~rim~s~rd~ 76 (369)
T KOG0123|consen 49 DAERALDTMNFDVLKGKPIRIMWSQRDP 76 (369)
T ss_pred HHHHHHHHcCCcccCCcEEEeehhccCC
Confidence 3899999999999999999998766443
No 52
>KOG0117 consensus Heterogeneous nuclear ribonucleoprotein R (RRM superfamily) [RNA processing and modification]
Probab=61.58 E-value=6.2 Score=39.09 Aligned_cols=6 Identities=50% Similarity=1.071 Sum_probs=2.4
Q ss_pred cccCCC
Q 036693 176 FGDLSG 181 (218)
Q Consensus 176 ~~~~~~ 181 (218)
.+.|++
T Consensus 477 ~g~~~~ 482 (506)
T KOG0117|consen 477 IGTLAG 482 (506)
T ss_pred ccccCC
Confidence 334443
No 53
>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. Limkain b1 may be a relatively common target of human autoantibodies reactive to cytoplasmic vesicle-like structures [].; PDB: 2DIU_A.
Probab=59.94 E-value=8.1 Score=30.73 Aligned_cols=24 Identities=13% Similarity=0.415 Sum_probs=18.5
Q ss_pred hHHHHHHHhCCCccCCeeEEeccc
Q 036693 12 LKFSYKRKLVLQDLHGRRVRVNYA 35 (218)
Q Consensus 12 ~AqKAIeAMNGqELDGRaIRVDeA 35 (218)
.|++|.+.|++.++-|++|.|.+.
T Consensus 51 ~A~RA~KRmegEdVfG~kI~v~~~ 74 (90)
T PF11608_consen 51 FAERAQKRMEGEDVFGNKISVSFS 74 (90)
T ss_dssp HHHHHHHHHTT--SSSS--EEESS
T ss_pred HHHHHHHhhcccccccceEEEEEc
Confidence 389999999999999999999996
No 54
>KOG0144 consensus RNA-binding protein CUGBP1/BRUNO (RRM superfamily) [RNA processing and modification]
Probab=55.27 E-value=11 Score=37.39 Aligned_cols=29 Identities=14% Similarity=0.161 Sum_probs=23.7
Q ss_pred HHHHHHHhCCCccC-C--eeEEecccccCCCC
Q 036693 13 KFSYKRKLVLQDLH-G--RRVRVNYAADRNRG 41 (218)
Q Consensus 13 AqKAIeAMNGqELD-G--RaIRVDeArPR~~r 41 (218)
|.+||++||++.-+ | .+|.|.+|.+++++
T Consensus 178 A~~Aika~ng~~tmeGcs~PLVVkFADtqkdk 209 (510)
T KOG0144|consen 178 AVAAIKALNGTQTMEGCSQPLVVKFADTQKDK 209 (510)
T ss_pred HHHHHHhhccceeeccCCCceEEEecccCCCc
Confidence 79999999996544 4 58999999987764
No 55
>TIGR01642 U2AF_lg U2 snRNP auxilliary factor, large subunit, splicing factor. Members of this subfamily are found in plants, metazoa and fungi.
Probab=54.75 E-value=8.4 Score=34.88 Aligned_cols=26 Identities=4% Similarity=-0.202 Sum_probs=21.3
Q ss_pred hchHHHHHHHhCCCccCCeeEEecccc
Q 036693 10 IGLKFSYKRKLVLQDLHGRRVRVNYAA 36 (218)
Q Consensus 10 I~~AqKAIeAMNGqELDGRaIRVDeAr 36 (218)
.+.|++|| +||+..|.+++|+|....
T Consensus 233 ~e~A~~Al-~l~g~~~~g~~l~v~r~~ 258 (509)
T TIGR01642 233 VEEATFAM-ALDSIIYSNVFLKIRRPH 258 (509)
T ss_pred HHHHhhhh-cCCCeEeeCceeEecCcc
Confidence 34589999 599999999999997543
No 56
>KOG0109 consensus RNA-binding protein LARK, contains RRM and retroviral-type Zn-finger domains [RNA processing and modification; General function prediction only]
Probab=54.57 E-value=8.9 Score=36.43 Aligned_cols=26 Identities=23% Similarity=0.227 Sum_probs=24.2
Q ss_pred HHHHHHHhCCCccCCeeEEecccccC
Q 036693 13 KFSYKRKLVLQDLHGRRVRVNYAADR 38 (218)
Q Consensus 13 AqKAIeAMNGqELDGRaIRVDeArPR 38 (218)
++.||..||+..|++..|.|..++.|
T Consensus 49 aedairNLhgYtLhg~nInVeaSksK 74 (346)
T KOG0109|consen 49 AEDAIRNLHGYTLHGVNINVEASKSK 74 (346)
T ss_pred cHHHHhhcccceecceEEEEEecccc
Confidence 68999999999999999999988877
No 57
>PF08952 DUF1866: Domain of unknown function (DUF1866) ; InterPro: IPR015047 This domain, found in synaptojanin, has no known function. ; PDB: 1UFW_A 2DNR_A.
Probab=52.43 E-value=15 Score=31.03 Aligned_cols=35 Identities=20% Similarity=0.310 Sum_probs=22.2
Q ss_pred ceeecchhhch-----------HHHHHHHhCCCccCCeeEEeccccc
Q 036693 2 CEVISKRLIGL-----------KFSYKRKLVLQDLHGRRVRVNYAAD 37 (218)
Q Consensus 2 cEViSaRiI~~-----------AqKAIeAMNGqELDGRaIRVDeArP 37 (218)
.|||=.|.++. |.+|+ .|++.++.+++|+|..-+|
T Consensus 61 GevvLvRfv~~~mwVTF~dg~sALaal-s~dg~~v~g~~l~i~LKtp 106 (146)
T PF08952_consen 61 GEVVLVRFVGDTMWVTFRDGQSALAAL-SLDGIQVNGRTLKIRLKTP 106 (146)
T ss_dssp S-ECEEEEETTCEEEEESSCHHHHHHH-HGCCSEETTEEEEEEE---
T ss_pred CceEEEEEeCCeEEEEECccHHHHHHH-ccCCcEECCEEEEEEeCCc
Confidence 45555566555 34444 4899999999999976444
No 58
>KOG0124 consensus Polypyrimidine tract-binding protein PUF60 (RRM superfamily) [RNA processing and modification]
Probab=49.93 E-value=12 Score=36.89 Aligned_cols=26 Identities=19% Similarity=0.128 Sum_probs=22.7
Q ss_pred chHHHHHHHhCCCccCCeeEEecccc
Q 036693 11 GLKFSYKRKLVLQDLHGRRVRVNYAA 36 (218)
Q Consensus 11 ~~AqKAIeAMNGqELDGRaIRVDeAr 36 (218)
+-|+-|++.||++.+.||.|+|...+
T Consensus 166 EaAqLAlEqMNg~mlGGRNiKVgrPs 191 (544)
T KOG0124|consen 166 EAAQLALEQMNGQMLGGRNIKVGRPS 191 (544)
T ss_pred HHHHHHHHHhccccccCccccccCCC
Confidence 34799999999999999999998544
No 59
>KOG0126 consensus Predicted RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=49.19 E-value=5.1 Score=36.00 Aligned_cols=22 Identities=23% Similarity=0.226 Sum_probs=19.5
Q ss_pred HHHHHHhCCCccCCeeEEeccc
Q 036693 14 FSYKRKLVLQDLHGRRVRVNYA 35 (218)
Q Consensus 14 qKAIeAMNGqELDGRaIRVDeA 35 (218)
.-|++.|||.-|.+|+||||.-
T Consensus 91 ILAVDN~NGiki~gRtirVDHv 112 (219)
T KOG0126|consen 91 ILAVDNLNGIKILGRTIRVDHV 112 (219)
T ss_pred EEEEeccCCceecceeEEeeec
Confidence 4589999999999999999963
No 60
>KOG0148 consensus Apoptosis-promoting RNA-binding protein TIA-1/TIAR (RRM superfamily) [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=48.74 E-value=14 Score=34.89 Aligned_cols=25 Identities=12% Similarity=0.212 Sum_probs=22.2
Q ss_pred HHHHHHHhCCCccCCeeEEeccccc
Q 036693 13 KFSYKRKLVLQDLHGRRVRVNYAAD 37 (218)
Q Consensus 13 AqKAIeAMNGqELDGRaIRVDeArP 37 (218)
|.+||.+||++||.|..+|+.--+.
T Consensus 213 AahAIv~mNntei~G~~VkCsWGKe 237 (321)
T KOG0148|consen 213 AAHAIVQMNNTEIGGQLVRCSWGKE 237 (321)
T ss_pred HHHHHHHhcCceeCceEEEEecccc
Confidence 7999999999999999999986443
No 61
>KOG1457 consensus RNA binding protein (contains RRM repeats) [General function prediction only]
Probab=45.41 E-value=20 Score=33.29 Aligned_cols=27 Identities=11% Similarity=0.161 Sum_probs=23.4
Q ss_pred HHHHHHHhCCCccC---CeeEEecccccCC
Q 036693 13 KFSYKRKLVLQDLH---GRRVRVNYAADRN 39 (218)
Q Consensus 13 AqKAIeAMNGqELD---GRaIRVDeArPR~ 39 (218)
|++|+.+|||..|| +.+||++.|+...
T Consensus 90 A~aamnaLNGvrFDpE~~stLhiElAKSNt 119 (284)
T KOG1457|consen 90 ALAAMNALNGVRFDPETGSTLHIELAKSNT 119 (284)
T ss_pred HHHHHHHhcCeeeccccCceeEeeehhcCc
Confidence 89999999999998 7899999887643
No 62
>KOG1995 consensus Conserved Zn-finger protein [General function prediction only]
Probab=44.97 E-value=11 Score=35.97 Aligned_cols=28 Identities=18% Similarity=0.213 Sum_probs=26.1
Q ss_pred HHHHHHHhCCCccCCeeEEecccccCCC
Q 036693 13 KFSYKRKLVLQDLHGRRVRVNYAADRNR 40 (218)
Q Consensus 13 AqKAIeAMNGqELDGRaIRVDeArPR~~ 40 (218)
|++||+-+++++|.+-+|+|..|+.|+.
T Consensus 129 akaai~~~agkdf~gn~ikvs~a~~r~~ 156 (351)
T KOG1995|consen 129 AKAAIEWFAGKDFCGNTIKVSLAERRTG 156 (351)
T ss_pred hhhhhhhhccccccCCCchhhhhhhccC
Confidence 7999999999999999999999988874
No 63
>KOG0110 consensus RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=44.69 E-value=19 Score=37.21 Aligned_cols=26 Identities=12% Similarity=0.103 Sum_probs=23.9
Q ss_pred chHHHHHHHhCCCccCCeeEEecccc
Q 036693 11 GLKFSYKRKLVLQDLHGRRVRVNYAA 36 (218)
Q Consensus 11 ~~AqKAIeAMNGqELDGRaIRVDeAr 36 (218)
++|++|+++|++..|+|+.|.|.++.
T Consensus 571 e~A~~a~k~lqgtvldGH~l~lk~S~ 596 (725)
T KOG0110|consen 571 ESAQAALKALQGTVLDGHKLELKISE 596 (725)
T ss_pred HHHHHHHHHhcCceecCceEEEEecc
Confidence 34899999999999999999999987
No 64
>KOG1190 consensus Polypyrimidine tract-binding protein [RNA processing and modification]
Probab=41.65 E-value=20 Score=35.46 Aligned_cols=26 Identities=19% Similarity=0.181 Sum_probs=23.5
Q ss_pred chHHHHHHHhCCCccCCeeEEecccc
Q 036693 11 GLKFSYKRKLVLQDLHGRRVRVNYAA 36 (218)
Q Consensus 11 ~~AqKAIeAMNGqELDGRaIRVDeAr 36 (218)
-.|+-|++.|++..|.+|+|||.+++
T Consensus 346 ~qAqLA~~hL~g~~l~gk~lrvt~SK 371 (492)
T KOG1190|consen 346 QQAQLAMEHLEGHKLYGKKLRVTLSK 371 (492)
T ss_pred hHHHHHHHHhhcceecCceEEEeecc
Confidence 34799999999999999999999876
No 65
>KOG1548 consensus Transcription elongation factor TAT-SF1 [Transcription]
Probab=41.31 E-value=22 Score=34.40 Aligned_cols=23 Identities=26% Similarity=0.288 Sum_probs=21.7
Q ss_pred HHHHHHhCCCccCCeeEEecccc
Q 036693 14 FSYKRKLVLQDLHGRRVRVNYAA 36 (218)
Q Consensus 14 qKAIeAMNGqELDGRaIRVDeAr 36 (218)
.-||+-||+.+|.+++|||..|+
T Consensus 197 eLA~~ilDe~~~rg~~~rVerAk 219 (382)
T KOG1548|consen 197 ELAIKILDEDELRGKKLRVERAK 219 (382)
T ss_pred HHHHHHhCcccccCcEEEEehhh
Confidence 67999999999999999999986
No 66
>KOG0113 consensus U1 small nuclear ribonucleoprotein (RRM superfamily) [RNA processing and modification]
Probab=38.70 E-value=41 Score=32.07 Aligned_cols=27 Identities=19% Similarity=0.183 Sum_probs=23.5
Q ss_pred HHHHHHHhCCCccCCeeEEecccccCC
Q 036693 13 KFSYKRKLVLQDLHGRRVRVNYAADRN 39 (218)
Q Consensus 13 AqKAIeAMNGqELDGRaIRVDeArPR~ 39 (218)
-++|.++.+++.|++|.|.||+-+-|.
T Consensus 156 m~~AYK~adG~~Idgrri~VDvERgRT 182 (335)
T KOG0113|consen 156 MKAAYKDADGIKIDGRRILVDVERGRT 182 (335)
T ss_pred HHHHHHhccCceecCcEEEEEeccccc
Confidence 488999999999999999999976553
No 67
>KOG0121 consensus Nuclear cap-binding protein complex, subunit CBP20 (RRM superfamily) [RNA processing and modification]
Probab=38.44 E-value=29 Score=29.85 Aligned_cols=24 Identities=17% Similarity=0.180 Sum_probs=22.2
Q ss_pred hHHHHHHHhCCCccCCeeEEeccc
Q 036693 12 LKFSYKRKLVLQDLHGRRVRVNYA 35 (218)
Q Consensus 12 ~AqKAIeAMNGqELDGRaIRVDeA 35 (218)
+|..|++-+++..|+-|+||||.-
T Consensus 90 dA~~AlryisgtrLddr~ir~D~D 113 (153)
T KOG0121|consen 90 DAEDALRYISGTRLDDRPIRIDWD 113 (153)
T ss_pred hHHHHHHHhccCcccccceeeecc
Confidence 489999999999999999999974
No 68
>KOG0106 consensus Alternative splicing factor SRp55/B52/SRp75 (RRM superfamily) [RNA processing and modification]
Probab=36.84 E-value=18 Score=32.12 Aligned_cols=23 Identities=30% Similarity=0.293 Sum_probs=20.9
Q ss_pred HHHHHHHhCCCccCCeeEEeccc
Q 036693 13 KFSYKRKLVLQDLHGRRVRVNYA 35 (218)
Q Consensus 13 AqKAIeAMNGqELDGRaIRVDeA 35 (218)
+++||+.|++.++.++.|+|..+
T Consensus 146 a~ra~~~l~~~~~~~~~l~~~~~ 168 (216)
T KOG0106|consen 146 AKRALEKLDGKKLNGRRISVEKN 168 (216)
T ss_pred hhhcchhccchhhcCceeeeccc
Confidence 79999999999999999999543
No 69
>KOG1548 consensus Transcription elongation factor TAT-SF1 [Transcription]
Probab=35.54 E-value=31 Score=33.32 Aligned_cols=30 Identities=13% Similarity=0.008 Sum_probs=25.3
Q ss_pred ecchhhchHHHHHHHhCCCccCCeeEEecc
Q 036693 5 ISKRLIGLKFSYKRKLVLQDLHGRRVRVNY 34 (218)
Q Consensus 5 iSaRiI~~AqKAIeAMNGqELDGRaIRVDe 34 (218)
|+=|..++|+.+|+.|+|.-|++|+|.-..
T Consensus 319 V~f~n~eeA~~ciq~m~GR~fdgRql~A~i 348 (382)
T KOG1548|consen 319 VSFRNNEEADQCIQTMDGRWFDGRQLTASI 348 (382)
T ss_pred EEeCChHHHHHHHHHhcCeeecceEEEEEE
Confidence 455666779999999999999999998654
No 70
>KOG0145 consensus RNA-binding protein ELAV/HU (RRM superfamily) [RNA processing and modification]
Probab=34.71 E-value=31 Score=32.80 Aligned_cols=24 Identities=21% Similarity=0.128 Sum_probs=21.0
Q ss_pred HHHHHHHhCCCccCCe--eEEecccc
Q 036693 13 KFSYKRKLVLQDLHGR--RVRVNYAA 36 (218)
Q Consensus 13 AqKAIeAMNGqELDGR--aIRVDeAr 36 (218)
|++||+.||++.--+- +|+|.+|.
T Consensus 182 Ae~AIk~lNG~~P~g~tepItVKFan 207 (360)
T KOG0145|consen 182 AEEAIKGLNGQKPSGCTEPITVKFAN 207 (360)
T ss_pred HHHHHHhccCCCCCCCCCCeEEEecC
Confidence 7999999999887764 89999985
No 71
>KOG0110 consensus RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=33.65 E-value=23 Score=36.67 Aligned_cols=33 Identities=21% Similarity=0.257 Sum_probs=29.7
Q ss_pred ceeecchhhchHHHHHHHhCCCccCCeeEEeccccc
Q 036693 2 CEVISKRLIGLKFSYKRKLVLQDLHGRRVRVNYAAD 37 (218)
Q Consensus 2 cEViSaRiI~~AqKAIeAMNGqELDGRaIRVDeArP 37 (218)
|+.+++|. |..||++|..+.|.||.|.+..|..
T Consensus 660 v~f~t~~e---a~nA~~al~STHlyGRrLVLEwA~~ 692 (725)
T KOG0110|consen 660 VDFLTPRE---AKNAFDALGSTHLYGRRLVLEWAKS 692 (725)
T ss_pred eeccCcHH---HHHHHHhhcccceechhhheehhcc
Confidence 67888888 9999999999999999999998864
No 72
>KOG4206 consensus Spliceosomal protein snRNP-U1A/U2B [RNA processing and modification]
Probab=33.32 E-value=30 Score=31.10 Aligned_cols=31 Identities=19% Similarity=0.179 Sum_probs=26.8
Q ss_pred hhchHHHHHHHhCCCccCCeeEEecccccCC
Q 036693 9 LIGLKFSYKRKLVLQDLHGRRVRVNYAADRN 39 (218)
Q Consensus 9 iI~~AqKAIeAMNGqELDGRaIRVDeArPR~ 39 (218)
.++-|-.|+++|+|-.+-++.|||-+|+.+.
T Consensus 61 ~~~~As~A~r~l~gfpFygK~mriqyA~s~s 91 (221)
T KOG4206|consen 61 ETEAASAALRALQGFPFYGKPMRIQYAKSDS 91 (221)
T ss_pred ChhHHHHHHHHhcCCcccCchhheecccCcc
Confidence 3455789999999999999999999998654
No 73
>PF04847 Calcipressin: Calcipressin; InterPro: IPR006931 Calcipressin 1 negatively regulates calcineurin (IPR015757 from INTERPRO) by direct binding and is essential for the survival of T helper type 1 cells. Calcipressin 1 is a phosphoprotein that increases its capacity to inhibit calcineurin when phosphorylated at the FLISPP motif, and this phosphorylation also controls the half-life of calcipressin 1 by accelerating its degradation []. Calcineurin is a calcium-responsive enzyme that dephosphorylates the nuclear factor of activated T cells (NFAT). In so doing it promotes its nuclear translocation and uniquely links calcium signalling to transcriptional regulation []. Calcipressins are a family of proteins derived from three genes. Calcipressin 1 is also known as modulatory calcineurin-interacting protein 1 (MCIP1), Adapt78 and Down syndrome critical region 1 (DSCR1). Calcipressin 2 is variously known as MCIP2, ZAKI-4 and DSCR1-like 1. Calcipressin 3 is also called MCIP3 and DSCR1-like 2 []. DSCR1 (Adapt78) is associated with successful adaptation to oxidative stress and calcium stress as well as with diseases like Alzheimer's and Down syndrome. The DSCR1 (Adapt78) isoform 1 protein, calcipressin 1, inhibits calcineurin and protects against acute calcium-mediated stress damage, including transient oxidative stress []. Calcipressin 1 is encoded by DSCR1, a gene on human chromosome 21. Calcipressin 1 isoform 1 has an N-terminal coding region, which generates a new polypeptide of 252 amino acids. Endogenous calcipressin 1 exists as a complex together with the calcineurin A and B heterodimer []. ; GO: 0019722 calcium-mediated signaling; PDB: 1WEY_A.
Probab=32.82 E-value=33 Score=29.30 Aligned_cols=29 Identities=17% Similarity=0.245 Sum_probs=20.7
Q ss_pred chHHHHHHHhC--CCccCCeeEEecccccCC
Q 036693 11 GLKFSYKRKLV--LQDLHGRRVRVNYAADRN 39 (218)
Q Consensus 11 ~~AqKAIeAMN--GqELDGRaIRVDeArPR~ 39 (218)
+.|++|...|+ ...+++..|||.++++..
T Consensus 42 ~~A~~~r~~l~~~~~~~~g~~l~~yf~~~~~ 72 (184)
T PF04847_consen 42 ESAQRARQLLHWDGTSFNGKRLRVYFGQPTP 72 (184)
T ss_dssp THHHHHHHTST--TSEETTEE-EEE----SS
T ss_pred HHHHHHHHHhcccccccCCCceEEEEccccc
Confidence 34899999999 999999999999986543
No 74
>COG4371 Predicted membrane protein [Function unknown]
Probab=31.93 E-value=59 Score=30.78 Aligned_cols=8 Identities=63% Similarity=1.327 Sum_probs=3.3
Q ss_pred CCCCCCCC
Q 036693 63 GYGGGGYG 70 (218)
Q Consensus 63 GYggggYG 70 (218)
+|.+++|.
T Consensus 72 gpsGGgY~ 79 (334)
T COG4371 72 GPSGGGYS 79 (334)
T ss_pred CCCCCCCC
Confidence 34444443
No 75
>KOG0106 consensus Alternative splicing factor SRp55/B52/SRp75 (RRM superfamily) [RNA processing and modification]
Probab=31.25 E-value=31 Score=30.66 Aligned_cols=35 Identities=26% Similarity=0.204 Sum_probs=28.7
Q ss_pred eeecchhhchHHHHHHHhCCCccCCeeEEecccccCCC
Q 036693 3 EVISKRLIGLKFSYKRKLVLQDLHGRRVRVNYAADRNR 40 (218)
Q Consensus 3 EViSaRiI~~AqKAIeAMNGqELDGRaIRVDeArPR~~ 40 (218)
|+.+.|+ |..||-.||+++|.+-++.|.+|+....
T Consensus 41 ~fed~rd---a~Dav~~l~~~~l~~e~~vve~~r~~~~ 75 (216)
T KOG0106|consen 41 EFEDPRD---ADDAVHDLDGKELCGERLVVEHARGKRR 75 (216)
T ss_pred ccCchhh---hhcccchhcCceecceeeeeeccccccc
Confidence 4556666 8999999999999999999988876543
No 76
>COG4371 Predicted membrane protein [Function unknown]
Probab=30.57 E-value=64 Score=30.58 Aligned_cols=8 Identities=88% Similarity=2.037 Sum_probs=3.1
Q ss_pred CCCCCCCC
Q 036693 62 GGYGGGGY 69 (218)
Q Consensus 62 GGYggggY 69 (218)
++|.+++|
T Consensus 76 GgY~gg~Y 83 (334)
T COG4371 76 GGYSGGGY 83 (334)
T ss_pred CCCCCCCC
Confidence 33443333
No 77
>COG5175 MOT2 Transcriptional repressor [Transcription]
Probab=28.75 E-value=46 Score=32.67 Aligned_cols=33 Identities=15% Similarity=0.077 Sum_probs=26.8
Q ss_pred eecchhhchHHHHHHHhCCCccCCeeEEecccc
Q 036693 4 VISKRLIGLKFSYKRKLVLQDLHGRRVRVNYAA 36 (218)
Q Consensus 4 ViSaRiI~~AqKAIeAMNGqELDGRaIRVDeAr 36 (218)
+|+--.-++|+++|++.|+.-+|||-|+..+-.
T Consensus 169 YITy~~kedAarcIa~vDgs~~DGr~lkatYGT 201 (480)
T COG5175 169 YITYSTKEDAARCIAEVDGSLLDGRVLKATYGT 201 (480)
T ss_pred EEEecchHHHHHHHHHhccccccCceEeeecCc
Confidence 444444567999999999999999999988754
No 78
>KOG0116 consensus RasGAP SH3 binding protein rasputin, contains NTF2 and RRM domains [Signal transduction mechanisms]
Probab=25.80 E-value=2.4e+02 Score=27.34 Aligned_cols=27 Identities=15% Similarity=0.102 Sum_probs=21.5
Q ss_pred HHHHHHHhCCCccCCeeEEecccccCCC
Q 036693 13 KFSYKRKLVLQDLHGRRVRVNYAADRNR 40 (218)
Q Consensus 13 AqKAIeAMNGqELDGRaIRVDeArPR~~ 40 (218)
++.||+| +=..|.+|+|.|.+-+++.+
T Consensus 343 ~~~~i~A-sp~~ig~~kl~Veek~~~~~ 369 (419)
T KOG0116|consen 343 VQNAIEA-SPLEIGGRKLNVEEKRPGFR 369 (419)
T ss_pred hhhhhhc-CccccCCeeEEEEecccccc
Confidence 6888887 47788999999998776544
No 79
>KOG0149 consensus Predicted RNA-binding protein SEB4 (RRM superfamily) [General function prediction only]
Probab=23.41 E-value=56 Score=30.06 Aligned_cols=35 Identities=23% Similarity=0.232 Sum_probs=22.6
Q ss_pred ceeecchhhch-----------HHHHHHHhCC--CccCCeeEEecccc
Q 036693 2 CEVISKRLIGL-----------KFSYKRKLVL--QDLHGRRVRVNYAA 36 (218)
Q Consensus 2 cEViSaRiI~~-----------AqKAIeAMNG--qELDGRaIRVDeAr 36 (218)
+.||++|.+.+ +++|.+|... -.||||+..||.|.
T Consensus 42 avvitd~~t~rskGyGfVTf~d~~aa~rAc~dp~piIdGR~aNcnlA~ 89 (247)
T KOG0149|consen 42 AVVITDKNTGRSKGYGFVTFRDAEAATRACKDPNPIIDGRKANCNLAS 89 (247)
T ss_pred EEEEeccCCccccceeeEEeecHHHHHHHhcCCCCcccccccccchhh
Confidence 34566655554 3555555443 56999999999864
No 80
>KOG0115 consensus RNA-binding protein p54nrb (RRM superfamily) [RNA processing and modification]
Probab=22.61 E-value=67 Score=29.97 Aligned_cols=27 Identities=33% Similarity=0.300 Sum_probs=24.0
Q ss_pred chHHHHHHHhCCCccCCeeEEeccccc
Q 036693 11 GLKFSYKRKLVLQDLHGRRVRVNYAAD 37 (218)
Q Consensus 11 ~~AqKAIeAMNGqELDGRaIRVDeArP 37 (218)
+.|..|..+|++.-..+|.+||-||.-
T Consensus 5 t~ae~ak~eLd~~~~~~~~lr~rfa~~ 31 (275)
T KOG0115|consen 5 TLAEIAKRELDGRFPKGRSLRVRFAMH 31 (275)
T ss_pred cHHHHHHHhcCCCCCCCCceEEEeecc
Confidence 468899999999999999999999853
No 81
>KOG2202 consensus U2 snRNP splicing factor, small subunit, and related proteins [RNA processing and modification]
Probab=21.73 E-value=61 Score=29.95 Aligned_cols=30 Identities=13% Similarity=-0.022 Sum_probs=24.4
Q ss_pred cchhhchHHHHHHHhCCCccCCeeEEeccc
Q 036693 6 SKRLIGLKFSYKRKLVLQDLHGRRVRVNYA 35 (218)
Q Consensus 6 SaRiI~~AqKAIeAMNGqELDGRaIRVDeA 35 (218)
-.|.-+.|++|++.||+.-|.+|+|...+.
T Consensus 116 ~f~~Ee~ae~a~~~lnnRw~~G~pi~ae~~ 145 (260)
T KOG2202|consen 116 KFRSEEDAEAALEDLNNRWYNGRPIHAELS 145 (260)
T ss_pred hcccHHHHHHHHHHHcCccccCCcceeeec
Confidence 344445689999999999999999987763
No 82
>KOG4660 consensus Protein Mei2, essential for commitment to meiosis, and related proteins [Cell cycle control, cell division, chromosome partitioning]
Probab=21.00 E-value=40 Score=33.99 Aligned_cols=25 Identities=16% Similarity=0.242 Sum_probs=21.2
Q ss_pred eecchhhchHHHHHHHhCCCccCCeeEE
Q 036693 4 VISKRLIGLKFSYKRKLVLQDLHGRRVR 31 (218)
Q Consensus 4 ViSaRiI~~AqKAIeAMNGqELDGRaIR 31 (218)
.-+.|. |++|+++|+.+||.+++|.
T Consensus 119 FyDvR~---A~~Alk~l~~~~~~~~~~k 143 (549)
T KOG4660|consen 119 FYDVRD---AERALKALNRREIAGKRIK 143 (549)
T ss_pred EeehHh---HHHHHHHHHHHHhhhhhhc
Confidence 334454 9999999999999999999
No 83
>PF10021 DUF2263: Uncharacterized protein conserved in bacteria (DUF2263); InterPro: IPR019261 This domain, found in various hypothetical bacterial and eukaryotic proteins, has no known function. ; PDB: 3SIJ_A 3SIG_A 3SII_A 3SIH_A.
Probab=20.46 E-value=85 Score=25.62 Aligned_cols=28 Identities=25% Similarity=0.477 Sum_probs=15.8
Q ss_pred HHHHHHhCCCccCCeeEEecccccCCCC
Q 036693 14 FSYKRKLVLQDLHGRRVRVNYAADRNRG 41 (218)
Q Consensus 14 qKAIeAMNGqELDGRaIRVDeArPR~~r 41 (218)
..|+.+|...+-..|.+.||+|.++.+.
T Consensus 63 l~aa~~L~~~~~~~~v~VLNfAs~~~PG 90 (148)
T PF10021_consen 63 LDAARRLAKSEPGGKVAVLNFASAKNPG 90 (148)
T ss_dssp HHHHHHHHH-H-SS--EEEEE--SSSTT
T ss_pred HHHHHHHHhhccCCCeEEEeccCcCCCC
Confidence 4455556555578899999999998873
Done!