Query 038800
Match_columns 280
No_of_seqs 74 out of 76
Neff 4.9
Searched_HMMs 46136
Date Fri Mar 29 03:23:42 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/038800.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/038800hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG4205 RNA-binding protein mu 98.2 2.7E-06 5.9E-11 81.2 6.0 79 194-279 96-177 (311)
2 KOG0149 Predicted RNA-binding 98.1 7.9E-06 1.7E-10 75.3 8.0 71 194-270 10-83 (247)
3 PLN03134 glycine-rich RNA-bind 98.0 4.8E-05 1.1E-09 64.6 10.1 83 189-278 30-114 (144)
4 PF14259 RRM_6: RNA recognitio 98.0 1.1E-05 2.4E-10 58.5 5.0 64 202-270 4-69 (70)
5 smart00360 RRM RNA recognition 97.8 0.00011 2.4E-09 50.5 7.4 66 202-271 2-69 (71)
6 PF00076 RRM_1: RNA recognitio 97.8 4.1E-05 8.9E-10 54.4 5.1 65 201-270 3-69 (70)
7 KOG4205 RNA-binding protein mu 97.8 2.8E-05 6.2E-10 74.3 5.3 79 192-279 5-86 (311)
8 PLN03120 nucleic acid binding 97.8 0.00012 2.7E-09 68.4 9.3 69 193-274 4-76 (260)
9 smart00362 RRM_2 RNA recogniti 97.7 0.00023 5.1E-09 49.2 8.1 65 202-272 5-71 (72)
10 TIGR01661 ELAV_HUD_SF ELAV/HuD 97.7 0.0003 6.5E-09 65.7 10.5 79 193-278 3-83 (352)
11 cd00590 RRM RRM (RNA recogniti 97.6 0.00051 1.1E-08 47.7 8.3 67 202-273 5-73 (74)
12 KOG0113 U1 small nuclear ribon 97.6 0.00025 5.4E-09 67.6 8.6 80 188-272 96-175 (335)
13 TIGR01661 ELAV_HUD_SF ELAV/HuD 97.6 0.00037 8E-09 65.1 9.5 77 193-279 269-350 (352)
14 TIGR01622 SF-CC1 splicing fact 97.5 0.00063 1.4E-08 66.1 9.4 74 192-272 185-260 (457)
15 TIGR01659 sex-lethal sex-letha 97.4 0.00053 1.1E-08 66.2 8.5 79 189-274 103-183 (346)
16 TIGR01645 half-pint poly-U bin 97.4 0.00066 1.4E-08 70.3 9.2 81 192-279 203-285 (612)
17 TIGR01622 SF-CC1 splicing fact 97.3 0.0011 2.4E-08 64.5 9.5 78 189-274 85-164 (457)
18 COG0724 RNA-binding proteins ( 97.3 0.0017 3.6E-08 55.1 8.5 77 193-276 115-193 (306)
19 TIGR01659 sex-lethal sex-letha 97.2 0.0016 3.5E-08 62.9 8.9 77 192-273 192-270 (346)
20 TIGR01642 U2AF_lg U2 snRNP aux 97.2 0.0024 5.2E-08 62.9 10.1 80 189-275 291-372 (509)
21 PLN03121 nucleic acid binding 97.1 0.0034 7.3E-08 58.4 9.9 70 192-274 4-77 (243)
22 TIGR01628 PABP-1234 polyadenyl 97.1 0.0025 5.3E-08 64.1 9.7 72 195-273 2-75 (562)
23 TIGR01628 PABP-1234 polyadenyl 97.0 0.0029 6.3E-08 63.6 8.7 78 193-278 285-364 (562)
24 TIGR01645 half-pint poly-U bin 96.9 0.0049 1.1E-07 64.0 9.3 75 192-273 106-182 (612)
25 TIGR01648 hnRNP-R-Q heterogene 96.8 0.0051 1.1E-07 63.4 9.0 77 190-273 55-133 (578)
26 TIGR01649 hnRNP-L_PTB hnRNP-L/ 96.7 0.0059 1.3E-07 60.9 8.3 74 193-277 2-77 (481)
27 smart00361 RRM_1 RNA recogniti 96.4 0.017 3.7E-07 42.7 7.3 61 207-272 1-69 (70)
28 TIGR01648 hnRNP-R-Q heterogene 96.4 0.012 2.7E-07 60.7 8.6 85 190-278 135-222 (578)
29 TIGR01642 U2AF_lg U2 snRNP aux 96.1 0.032 6.9E-07 55.0 9.1 74 188-273 170-255 (509)
30 KOG0132 RNA polymerase II C-te 95.5 0.024 5.2E-07 60.0 5.8 75 192-279 420-499 (894)
31 KOG0116 RasGAP SH3 binding pro 95.1 0.06 1.3E-06 53.7 7.2 78 190-275 285-364 (419)
32 PF13893 RRM_5: RNA recognitio 94.1 0.16 3.5E-06 35.4 5.4 50 211-272 1-53 (56)
33 KOG0153 Predicted RNA-binding 94.0 0.22 4.8E-06 48.7 8.0 68 194-274 229-302 (377)
34 KOG0144 RNA-binding protein CU 93.8 0.072 1.6E-06 53.4 4.2 63 191-259 122-189 (510)
35 TIGR01649 hnRNP-L_PTB hnRNP-L/ 93.8 0.36 7.8E-06 48.2 9.2 71 192-274 274-347 (481)
36 KOG0144 RNA-binding protein CU 92.6 0.18 3.8E-06 50.7 4.9 59 198-258 36-96 (510)
37 KOG4207 Predicted splicing fac 91.7 0.4 8.7E-06 44.3 5.8 60 204-270 23-85 (256)
38 KOG0127 Nucleolar protein fibr 91.1 1.1 2.3E-05 46.6 8.6 82 193-279 292-379 (678)
39 KOG0117 Heterogeneous nuclear 91.0 0.48 1.1E-05 47.8 6.0 67 200-272 87-158 (506)
40 PLN03213 repressor of silencin 90.7 0.92 2E-05 46.6 7.8 69 198-277 12-87 (759)
41 KOG0108 mRNA cleavage and poly 90.1 0.64 1.4E-05 46.7 6.1 67 197-270 19-90 (435)
42 KOG4212 RNA-binding protein hn 89.1 1.5 3.2E-05 44.6 7.6 84 183-273 34-119 (608)
43 KOG0129 Predicted RNA-binding 87.3 2.1 4.4E-05 43.9 7.5 63 189-256 366-431 (520)
44 KOG0122 Translation initiation 86.8 1.3 2.8E-05 41.8 5.3 51 206-258 201-254 (270)
45 KOG0131 Splicing factor 3b, su 86.7 1.3 2.9E-05 40.1 5.2 75 191-275 7-86 (203)
46 KOG1457 RNA binding protein (c 86.6 4.2 9.2E-05 38.2 8.5 60 190-257 31-99 (284)
47 KOG0114 Predicted RNA-binding 86.0 2.7 5.8E-05 35.3 6.2 56 187-250 12-69 (124)
48 KOG0148 Apoptosis-promoting RN 82.4 5.2 0.00011 38.5 7.3 87 181-274 47-141 (321)
49 KOG0129 Predicted RNA-binding 82.4 3.2 7E-05 42.6 6.3 68 194-263 257-335 (520)
50 KOG4454 RNA binding protein (R 81.8 1.4 2.9E-05 41.2 3.1 65 188-258 4-72 (267)
51 KOG0105 Alternative splicing f 80.9 4.1 8.9E-05 37.3 5.8 61 191-259 4-66 (241)
52 PF15513 DUF4651: Domain of un 80.8 2.9 6.3E-05 31.5 4.1 36 209-247 9-44 (62)
53 KOG0121 Nuclear cap-binding pr 79.0 4.8 0.0001 34.9 5.3 59 192-255 35-95 (153)
54 KOG4211 Splicing factor hnRNP- 77.6 4.1 8.9E-05 41.7 5.3 63 202-270 109-174 (510)
55 TIGR03147 cyt_nit_nrfF cytochr 77.0 1.8 3.9E-05 36.8 2.2 22 206-230 74-95 (126)
56 PF05172 Nup35_RRM: Nup53/35/4 76.7 4.7 0.0001 32.7 4.5 54 203-257 13-73 (100)
57 KOG0127 Nucleolar protein fibr 76.2 3.5 7.6E-05 42.9 4.4 72 194-272 6-79 (678)
58 KOG0123 Polyadenylate-binding 75.5 6.4 0.00014 38.7 5.9 65 195-270 3-67 (369)
59 PRK10144 formate-dependent nit 73.5 2.5 5.5E-05 35.9 2.2 22 206-230 74-95 (126)
60 KOG0148 Apoptosis-promoting RN 73.4 16 0.00035 35.2 7.8 67 188-270 159-230 (321)
61 KOG0125 Ataxin 2-binding prote 73.1 7.9 0.00017 38.1 5.7 76 190-277 93-173 (376)
62 KOG4206 Spliceosomal protein s 73.1 15 0.00031 34.2 7.2 57 194-258 10-75 (221)
63 KOG0107 Alternative splicing f 73.0 10 0.00022 34.4 6.0 56 194-259 11-71 (195)
64 KOG0126 Predicted RNA-binding 72.7 1.6 3.4E-05 39.8 0.9 47 200-248 39-87 (219)
65 KOG4211 Splicing factor hnRNP- 72.6 12 0.00025 38.5 7.0 72 194-270 8-88 (510)
66 KOG0146 RNA-binding protein ET 72.6 4.7 0.0001 38.8 4.0 66 190-259 16-84 (371)
67 KOG4208 Nucleolar RNA-binding 71.1 14 0.00031 34.0 6.6 62 198-260 51-121 (214)
68 PF03918 CcmH: Cytochrome C bi 68.7 2.9 6.3E-05 36.1 1.6 22 206-230 74-95 (148)
69 KOG0533 RRM motif-containing p 65.4 11 0.00023 35.4 4.8 55 191-249 79-135 (243)
70 KOG0147 Transcriptional coacti 64.3 9.5 0.00021 39.5 4.5 60 204-270 288-350 (549)
71 PF08777 RRM_3: RNA binding mo 61.5 7.2 0.00016 31.6 2.5 65 198-270 4-72 (105)
72 KOG0111 Cyclophilin-type pepti 58.1 10 0.00022 35.6 3.2 55 189-248 6-62 (298)
73 PF14605 Nup35_RRM_2: Nup53/35 56.9 35 0.00076 24.2 5.1 46 202-255 7-53 (53)
74 KOG0145 RNA-binding protein EL 51.0 20 0.00044 34.5 4.0 64 190-258 124-192 (360)
75 KOG0124 Polypyrimidine tract-b 50.4 33 0.00071 34.5 5.4 80 189-272 203-284 (544)
76 KOG0123 Polyadenylate-binding 50.1 25 0.00054 34.6 4.6 66 204-277 177-245 (369)
77 KOG0145 RNA-binding protein EL 47.8 61 0.0013 31.3 6.6 64 189-256 36-101 (360)
78 KOG0117 Heterogeneous nuclear 46.8 70 0.0015 32.8 7.2 79 188-272 159-245 (506)
79 COG0386 BtuE Glutathione perox 46.1 30 0.00066 30.7 4.0 71 202-279 70-147 (162)
80 COG3088 CcmH Uncharacterized p 44.2 16 0.00034 32.1 2.0 21 206-229 78-98 (153)
81 PF10309 DUF2414: Protein of u 42.5 85 0.0019 23.5 5.4 48 202-256 11-60 (62)
82 KOG0124 Polypyrimidine tract-b 41.2 31 0.00067 34.7 3.7 51 204-256 123-173 (544)
83 KOG2202 U2 snRNP splicing fact 39.4 14 0.0003 35.1 0.9 56 211-272 85-142 (260)
84 KOG0131 Splicing factor 3b, su 37.5 45 0.00097 30.5 3.8 49 206-256 108-157 (203)
85 PF04059 RRM_2: RNA recognitio 36.7 1.2E+02 0.0025 24.5 5.8 55 202-256 7-63 (97)
86 KOG4209 Splicing factor RNPS1, 36.5 69 0.0015 29.6 5.0 65 189-256 97-161 (231)
87 PF10866 DUF2704: Protein of u 35.6 60 0.0013 28.8 4.2 35 4-46 55-89 (168)
88 PF15023 DUF4523: Protein of u 35.3 51 0.0011 29.2 3.7 55 214-279 109-166 (166)
89 KOG0109 RNA-binding protein LA 34.4 1E+02 0.0023 30.1 6.0 67 197-278 3-74 (346)
90 KOG0106 Alternative splicing f 33.0 38 0.00083 31.3 2.8 47 199-255 4-52 (216)
91 PF02946 GTF2I: GTF2I-like rep 32.8 47 0.001 26.0 2.8 51 208-266 2-74 (76)
92 COG5606 Uncharacterized conser 32.3 56 0.0012 26.4 3.2 37 34-70 27-64 (91)
93 PF11161 DUF2944: Protein of u 31.1 44 0.00094 30.4 2.7 20 201-220 42-61 (187)
94 KOG0130 RNA-binding protein RB 30.1 1.1E+02 0.0023 27.0 4.8 54 197-252 73-128 (170)
95 PF08141 SspH: Small acid-solu 29.4 1.2E+02 0.0026 22.4 4.4 29 251-279 6-34 (58)
96 KOG1365 RNA-binding protein Fu 29.4 2.5E+02 0.0053 28.7 7.8 63 190-259 279-345 (508)
97 KOG1651 Glutathione peroxidase 27.1 56 0.0012 29.3 2.7 70 202-278 80-155 (171)
98 TIGR02861 SASP_H small acid-so 26.4 1.3E+02 0.0029 22.2 4.2 28 251-278 6-33 (58)
99 KOG0146 RNA-binding protein ET 26.4 96 0.0021 30.2 4.2 79 189-279 282-366 (371)
100 KOG1365 RNA-binding protein Fu 26.2 1.2E+02 0.0027 30.8 5.1 53 202-256 167-224 (508)
101 TIGR02118 conserved hypothetic 26.1 1.9E+02 0.0041 22.4 5.3 61 198-258 3-73 (100)
102 KOG4307 RNA binding protein RB 24.9 1.8E+02 0.0038 31.8 6.2 50 200-251 871-922 (944)
103 PRK03174 sspH acid-soluble spo 24.4 1.6E+02 0.0034 22.0 4.2 28 251-278 6-33 (59)
104 cd08773 FpgNei_N N-terminal do 22.3 1.9E+02 0.0042 23.0 4.8 44 220-273 19-62 (117)
105 PRK01625 sspH acid-soluble spo 22.2 1.8E+02 0.004 21.6 4.2 28 251-278 6-33 (59)
106 PF13797 Post_transc_reg: Post 22.1 65 0.0014 25.5 1.9 16 203-218 24-40 (87)
107 cd08966 EcFpg-like_N N-termina 22.1 1.9E+02 0.0041 23.2 4.7 51 213-273 11-63 (120)
108 cd08976 BaFpgNei_N_4 Uncharact 20.0 2.6E+02 0.0056 22.4 5.1 51 213-273 11-62 (117)
No 1
>KOG4205 consensus RNA-binding protein musashi/mRNA cleavage and polyadenylation factor I complex, subunit HRP1 [RNA processing and modification]
Probab=98.17 E-value=2.7e-06 Score=81.22 Aligned_cols=79 Identities=22% Similarity=0.412 Sum_probs=69.2
Q ss_pred ceEEEEccCCCc--CCHHHHHHHHHhhcCCeeeEEEeeccCCCCCCCceEEEEEcchhhHHHHhCC-CceeEEEEcCeee
Q 038800 194 RTMFLTFSRGFP--VTRDEVKELFTRMYGDCVESIHMQENVPSNEQPLFARLVLQSVANVDQILSG-RRIAKFRINGKHI 270 (280)
Q Consensus 194 Rt~FvTFS~G~P--vse~ei~~fF~~~yGdcve~v~m~~~~~~~~qplfarivf~s~~~v~~vL~g-~~~~Kf~Ingk~i 270 (280)
+|+ ..|.+|.| ++++|+++||++ ||-.-+.+.|-+ ...++...||+|.|.+++.||.++.- .+ .+|||.+
T Consensus 96 ~tk-kiFvGG~~~~~~e~~~r~yfe~-~g~v~~~~~~~d-~~~~~~rgFgfv~~~~e~sVdkv~~~~f~----~~~gk~v 168 (311)
T KOG4205|consen 96 RTK-KIFVGGLPPDTTEEDFKDYFEQ-FGKVADVVIMYD-KTTSRPRGFGFVTFDSEDSVDKVTLQKFH----DFNGKKV 168 (311)
T ss_pred cee-EEEecCcCCCCchHHHhhhhhc-cceeEeeEEeec-ccccccccceeeEeccccccceeccccee----eecCcee
Confidence 455 66778999 999999999997 997667777777 78899999999999999999999983 44 8999999
Q ss_pred EEEecccCC
Q 038800 271 WARKYERRD 279 (280)
Q Consensus 271 Warky~pk~ 279 (280)
-+++++||.
T Consensus 169 evkrA~pk~ 177 (311)
T KOG4205|consen 169 EVKRAIPKE 177 (311)
T ss_pred eEeeccchh
Confidence 999999985
No 2
>KOG0149 consensus Predicted RNA-binding protein SEB4 (RRM superfamily) [General function prediction only]
Probab=98.14 E-value=7.9e-06 Score=75.28 Aligned_cols=71 Identities=13% Similarity=0.339 Sum_probs=60.8
Q ss_pred ceEEEEccCCCc--CCHHHHHHHHHhhcCCeeeEEEeeccCCCCCCCceEEEEEcchhhHHHHhC-CCceeEEEEcCeee
Q 038800 194 RTMFLTFSRGFP--VTRDEVKELFTRMYGDCVESIHMQENVPSNEQPLFARLVLQSVANVDQILS-GRRIAKFRINGKHI 270 (280)
Q Consensus 194 Rt~FvTFS~G~P--vse~ei~~fF~~~yGdcve~v~m~~~~~~~~qplfarivf~s~~~v~~vL~-g~~~~Kf~Ingk~i 270 (280)
-|.=+.|.+|.| -+.|++++||++ ||+++|+|.+-+ ..+++..+||+|+|+..+...+... -.. .|+||..
T Consensus 10 T~~TKifVggL~w~T~~~~l~~yFeq-fGeI~eavvitd-~~t~rskGyGfVTf~d~~aa~rAc~dp~p----iIdGR~a 83 (247)
T KOG0149|consen 10 TTFTKIFVGGLAWETHKETLRRYFEQ-FGEIVEAVVITD-KNTGRSKGYGFVTFRDAEAATRACKDPNP----IIDGRKA 83 (247)
T ss_pred ceEEEEEEcCcccccchHHHHHHHHH-hCceEEEEEEec-cCCccccceeeEEeecHHHHHHHhcCCCC----ccccccc
Confidence 345578999999 778999999997 999999999999 7899999999999998887777665 455 7888865
No 3
>PLN03134 glycine-rich RNA-binding protein 4; Provisional
Probab=98.02 E-value=4.8e-05 Score=64.63 Aligned_cols=83 Identities=16% Similarity=0.284 Sum_probs=63.8
Q ss_pred CCCCCceEEEEccCCCc--CCHHHHHHHHHhhcCCeeeEEEeeccCCCCCCCceEEEEEcchhhHHHHhCCCceeEEEEc
Q 038800 189 ASEDDRTMFLTFSRGFP--VTRDEVKELFTRMYGDCVESIHMQENVPSNEQPLFARLVLQSVANVDQILSGRRIAKFRIN 266 (280)
Q Consensus 189 ~~~d~Rt~FvTFS~G~P--vse~ei~~fF~~~yGdcve~v~m~~~~~~~~qplfarivf~s~~~v~~vL~g~~~~Kf~In 266 (280)
.....+++|| ++.| ++|++|+++|.. ||. |+++.+..+..+++...||.|.|.+.+.++.++...+ ...|+
T Consensus 30 ~~~~~~~lfV---gnL~~~~te~~L~~~F~~-~G~-I~~v~i~~d~~tg~~kGfaFV~F~~~e~A~~Al~~ln--g~~i~ 102 (144)
T PLN03134 30 LRLMSTKLFI---GGLSWGTDDASLRDAFAH-FGD-VVDAKVIVDRETGRSRGFGFVNFNDEGAATAAISEMD--GKELN 102 (144)
T ss_pred ccCCCCEEEE---eCCCCCCCHHHHHHHHhc-CCC-eEEEEEEecCCCCCcceEEEEEECCHHHHHHHHHHcC--CCEEC
Confidence 3455678888 6877 999999999996 998 6666665545678999999999999999999886422 22789
Q ss_pred CeeeEEEecccC
Q 038800 267 GKHIWARKYERR 278 (280)
Q Consensus 267 gk~iWarky~pk 278 (280)
|+.+=+..-.++
T Consensus 103 Gr~l~V~~a~~~ 114 (144)
T PLN03134 103 GRHIRVNPANDR 114 (144)
T ss_pred CEEEEEEeCCcC
Confidence 998866554444
No 4
>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=98.00 E-value=1.1e-05 Score=58.45 Aligned_cols=64 Identities=22% Similarity=0.448 Sum_probs=52.4
Q ss_pred CCCc--CCHHHHHHHHHhhcCCeeeEEEeeccCCCCCCCceEEEEEcchhhHHHHhCCCceeEEEEcCeee
Q 038800 202 RGFP--VTRDEVKELFTRMYGDCVESIHMQENVPSNEQPLFARLVLQSVANVDQILSGRRIAKFRINGKHI 270 (280)
Q Consensus 202 ~G~P--vse~ei~~fF~~~yGdcve~v~m~~~~~~~~qplfarivf~s~~~v~~vL~g~~~~Kf~Ingk~i 270 (280)
+|.| ++++||+++|.+ ||+ |+.|.|..... ++...+|.|.|.|++...+++.-.+ +..++||++
T Consensus 4 ~nlp~~~~~~~l~~~f~~-~g~-v~~v~~~~~~~-~~~~~~a~v~f~~~~~a~~al~~~~--~~~~~g~~l 69 (70)
T PF14259_consen 4 SNLPPSTTEEDLRNFFSR-FGP-VEKVRLIKNKD-GQSRGFAFVEFSSEEDAKRALELLN--GKEIDGRKL 69 (70)
T ss_dssp ESSTTT--HHHHHHHCTT-SSB-EEEEEEEESTT-SSEEEEEEEEESSHHHHHHHHHHHT--TEEETTEEE
T ss_pred eCCCCCCCHHHHHHHHHh-cCC-cceEEEEeeec-cccCCEEEEEeCCHHHHHHHHHHCC--CcEECCEEc
Confidence 6778 999999999998 896 89999988434 8889999999999999999888422 458899987
No 5
>smart00360 RRM RNA recognition motif.
Probab=97.82 E-value=0.00011 Score=50.51 Aligned_cols=66 Identities=23% Similarity=0.489 Sum_probs=49.9
Q ss_pred CCCc--CCHHHHHHHHHhhcCCeeeEEEeeccCCCCCCCceEEEEEcchhhHHHHhCCCceeEEEEcCeeeE
Q 038800 202 RGFP--VTRDEVKELFTRMYGDCVESIHMQENVPSNEQPLFARLVLQSVANVDQILSGRRIAKFRINGKHIW 271 (280)
Q Consensus 202 ~G~P--vse~ei~~fF~~~yGdcve~v~m~~~~~~~~qplfarivf~s~~~v~~vL~g~~~~Kf~Ingk~iW 271 (280)
+|.| ++++||+++|.+ ||+ |+.+.+..+...++...||.|.|.+.+....++...+ +..++|+++=
T Consensus 2 ~~l~~~~~~~~l~~~f~~-~g~-v~~~~i~~~~~~~~~~~~a~v~f~~~~~a~~a~~~~~--~~~~~~~~~~ 69 (71)
T smart00360 2 GNLPPDVTEEELRELFSK-FGK-IESVRLVRDKDTGKSKGFAFVEFESEEDAEKALEALN--GKELDGRPLK 69 (71)
T ss_pred CCCCcccCHHHHHHHHHh-hCC-EeEEEEEeCCCCCCCCceEEEEeCCHHHHHHHHHHcC--CCeeCCcEEE
Confidence 3445 899999999985 998 5666666633457778899999999999988887544 3356888764
No 6
>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=97.81 E-value=4.1e-05 Score=54.42 Aligned_cols=65 Identities=26% Similarity=0.470 Sum_probs=50.6
Q ss_pred cCCCc--CCHHHHHHHHHhhcCCeeeEEEeeccCCCCCCCceEEEEEcchhhHHHHhCCCceeEEEEcCeee
Q 038800 201 SRGFP--VTRDEVKELFTRMYGDCVESIHMQENVPSNEQPLFARLVLQSVANVDQILSGRRIAKFRINGKHI 270 (280)
Q Consensus 201 S~G~P--vse~ei~~fF~~~yGdcve~v~m~~~~~~~~qplfarivf~s~~~v~~vL~g~~~~Kf~Ingk~i 270 (280)
.+|.| ++++||+++|.+ ||+. +.+.+.. ...+....||.|.|.+.+..+.++.--+- ..++|+.+
T Consensus 3 v~nlp~~~t~~~l~~~f~~-~g~i-~~~~~~~-~~~~~~~~~a~V~F~~~~~a~~a~~~l~g--~~~~~~~i 69 (70)
T PF00076_consen 3 VGNLPPDVTEEELRDFFSQ-FGKI-ESIKVMR-NSSGKSKGYAFVEFESEEDAEKALEELNG--KKINGRKI 69 (70)
T ss_dssp EESETTTSSHHHHHHHHHT-TSTE-EEEEEEE-ETTSSEEEEEEEEESSHHHHHHHHHHHTT--EEETTEEE
T ss_pred EcCCCCcCCHHHHHHHHHH-hhhc-ccccccc-cccccccceEEEEEcCHHHHHHHHHHcCC--CEECccCc
Confidence 47888 999999999998 9995 6666666 26799999999999999988887762111 36777654
No 7
>KOG4205 consensus RNA-binding protein musashi/mRNA cleavage and polyadenylation factor I complex, subunit HRP1 [RNA processing and modification]
Probab=97.80 E-value=2.8e-05 Score=74.30 Aligned_cols=79 Identities=16% Similarity=0.491 Sum_probs=70.7
Q ss_pred CCceEEEEccCCCc--CCHHHHHHHHHhhcCCeeeEEEeeccCCCCCCCceEEEEEcchhhHHHHhCC-CceeEEEEcCe
Q 038800 192 DDRTMFLTFSRGFP--VTRDEVKELFTRMYGDCVESIHMQENVPSNEQPLFARLVLQSVANVDQILSG-RRIAKFRINGK 268 (280)
Q Consensus 192 d~Rt~FvTFS~G~P--vse~ei~~fF~~~yGdcve~v~m~~~~~~~~qplfarivf~s~~~v~~vL~g-~~~~Kf~Ingk 268 (280)
|...+|+ .|.. .+++.+++||+ +||..+|.+.|.+ ..+++.+.||+|.|.++.-++++|+- .+ .|.||
T Consensus 5 ~~~Klfi---Ggisw~ttee~Lr~yf~-~~Gev~d~~vm~d-~~t~rsrgFgfv~f~~~~~v~~vl~~~~h----~~dgr 75 (311)
T KOG4205|consen 5 ESGKLFI---GGLSWETTEESLREYFS-QFGEVTDCVVMRD-PSTGRSRGFGFVTFATPEGVDAVLNARTH----KLDGR 75 (311)
T ss_pred CCcceee---cCcCccccHHHHHHHhc-ccCceeeEEEecc-CCCCCcccccceecCCCcchheeeccccc----ccCCc
Confidence 6678888 8877 99999999995 5999999999999 57799999999999999999999995 45 89999
Q ss_pred eeEEEecccCC
Q 038800 269 HIWARKYERRD 279 (280)
Q Consensus 269 ~iWarky~pk~ 279 (280)
.|-..+-+|+.
T Consensus 76 ~ve~k~av~r~ 86 (311)
T KOG4205|consen 76 SVEPKRAVSRE 86 (311)
T ss_pred cccceeccCcc
Confidence 99999998874
No 8
>PLN03120 nucleic acid binding protein; Provisional
Probab=97.79 E-value=0.00012 Score=68.40 Aligned_cols=69 Identities=25% Similarity=0.378 Sum_probs=54.0
Q ss_pred CceEEEEccCCCc--CCHHHHHHHHHhhcCCeeeEEEeeccCCCCCCCceEEEEEcchhhHHHHhC--CCceeEEEEcCe
Q 038800 193 DRTMFLTFSRGFP--VTRDEVKELFTRMYGDCVESIHMQENVPSNEQPLFARLVLQSVANVDQILS--GRRIAKFRINGK 268 (280)
Q Consensus 193 ~Rt~FvTFS~G~P--vse~ei~~fF~~~yGdcve~v~m~~~~~~~~qplfarivf~s~~~v~~vL~--g~~~~Kf~Ingk 268 (280)
-||+|| +|.| ++|+||++||.. ||. |++|.|..+ ++...||+|.|.+++..+..|. |. .|+|+
T Consensus 4 ~rtVfV---gNLs~~tTE~dLrefFS~-~G~-I~~V~I~~d---~~~~GfAFVtF~d~eaAe~AllLnG~-----~l~gr 70 (260)
T PLN03120 4 VRTVKV---SNVSLKATERDIKEFFSF-SGD-IEYVEMQSE---NERSQIAYVTFKDPQGAETALLLSGA-----TIVDQ 70 (260)
T ss_pred CCEEEE---eCCCCCCCHHHHHHHHHh-cCC-eEEEEEeec---CCCCCEEEEEeCcHHHHHHHHHhcCC-----eeCCc
Confidence 578888 8887 999999999986 998 889988763 3457899999998777665554 43 68899
Q ss_pred eeEEEe
Q 038800 269 HIWARK 274 (280)
Q Consensus 269 ~iWark 274 (280)
.+-+..
T Consensus 71 ~V~Vt~ 76 (260)
T PLN03120 71 SVTITP 76 (260)
T ss_pred eEEEEe
Confidence 885443
No 9
>smart00362 RRM_2 RNA recognition motif.
Probab=97.75 E-value=0.00023 Score=49.16 Aligned_cols=65 Identities=22% Similarity=0.476 Sum_probs=49.0
Q ss_pred CCCc--CCHHHHHHHHHhhcCCeeeEEEeeccCCCCCCCceEEEEEcchhhHHHHhCCCceeEEEEcCeeeEE
Q 038800 202 RGFP--VTRDEVKELFTRMYGDCVESIHMQENVPSNEQPLFARLVLQSVANVDQILSGRRIAKFRINGKHIWA 272 (280)
Q Consensus 202 ~G~P--vse~ei~~fF~~~yGdcve~v~m~~~~~~~~qplfarivf~s~~~v~~vL~g~~~~Kf~Ingk~iWa 272 (280)
+|.| .+++||+++|.+ ||++ ..+.|... . +....||.|.|.+.+....++...+. ..|+|+++=+
T Consensus 5 ~~l~~~~~~~~l~~~~~~-~g~v-~~~~~~~~-~-~~~~~~~~v~f~~~~~a~~a~~~~~~--~~~~~~~i~v 71 (72)
T smart00362 5 GNLPPDVTEEDLKELFSK-FGPI-ESVKIPKD-T-GKSKGFAFVEFESEEDAEKAIEALNG--TKLGGRPLRV 71 (72)
T ss_pred cCCCCcCCHHHHHHHHHh-cCCE-EEEEEecC-C-CCCCceEEEEeCCHHHHHHHHHHhCC--cEECCEEEee
Confidence 6777 899999999985 9985 45656552 2 67788999999999988888764332 4568887643
No 10
>TIGR01661 ELAV_HUD_SF ELAV/HuD family splicing factor. These proteins contain 3 RNA-recognition motifs (rrm: pfam00076).
Probab=97.70 E-value=0.0003 Score=65.69 Aligned_cols=79 Identities=13% Similarity=0.246 Sum_probs=59.8
Q ss_pred CceEEEEccCCCc--CCHHHHHHHHHhhcCCeeeEEEeeccCCCCCCCceEEEEEcchhhHHHHhCCCceeEEEEcCeee
Q 038800 193 DRTMFLTFSRGFP--VTRDEVKELFTRMYGDCVESIHMQENVPSNEQPLFARLVLQSVANVDQILSGRRIAKFRINGKHI 270 (280)
Q Consensus 193 ~Rt~FvTFS~G~P--vse~ei~~fF~~~yGdcve~v~m~~~~~~~~qplfarivf~s~~~v~~vL~g~~~~Kf~Ingk~i 270 (280)
..++|| ++.| ++|+||+++|.+ ||+..+--.|.+ ...++..+||+|-|.+.+..+..|..-+ ...|.|+.+
T Consensus 3 ~~~l~V---~nLp~~~~e~~l~~~F~~-~G~i~~v~i~~d-~~~g~s~g~afV~f~~~~~A~~Ai~~l~--g~~l~g~~i 75 (352)
T TIGR01661 3 KTNLIV---NYLPQTMTQEEIRSLFTS-IGEIESCKLVRD-KVTGQSLGYGFVNYVRPEDAEKAVNSLN--GLRLQNKTI 75 (352)
T ss_pred CcEEEE---eCCCCCCCHHHHHHHHHc-cCCEEEEEEEEc-CCCCccceEEEEEECcHHHHHHHHhhcc--cEEECCeeE
Confidence 356777 8998 999999999998 999655555555 4568899999999999988888776433 246788887
Q ss_pred EEEecccC
Q 038800 271 WARKYERR 278 (280)
Q Consensus 271 Warky~pk 278 (280)
=++...|+
T Consensus 76 ~v~~a~~~ 83 (352)
T TIGR01661 76 KVSYARPS 83 (352)
T ss_pred EEEeeccc
Confidence 66544444
No 11
>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=97.62 E-value=0.00051 Score=47.71 Aligned_cols=67 Identities=21% Similarity=0.448 Sum_probs=51.7
Q ss_pred CCCc--CCHHHHHHHHHhhcCCeeeEEEeeccCCCCCCCceEEEEEcchhhHHHHhCCCceeEEEEcCeeeEEE
Q 038800 202 RGFP--VTRDEVKELFTRMYGDCVESIHMQENVPSNEQPLFARLVLQSVANVDQILSGRRIAKFRINGKHIWAR 273 (280)
Q Consensus 202 ~G~P--vse~ei~~fF~~~yGdcve~v~m~~~~~~~~qplfarivf~s~~~v~~vL~g~~~~Kf~Ingk~iWar 273 (280)
+|.| ++++||+++|.+ ||+ |+.+.|.. ...+....+|.|.|++.+....++...+.. .++|+++=++
T Consensus 5 ~~l~~~~~~~~i~~~~~~-~g~-i~~~~~~~-~~~~~~~~~~~v~f~s~~~a~~a~~~~~~~--~~~~~~~~v~ 73 (74)
T cd00590 5 GNLPPDVTEEDLRELFSK-FGK-VESVRIVR-DKDTKSKGFAFVEFEDEEDAEKALEALNGK--ELGGRPLRVE 73 (74)
T ss_pred eCCCCccCHHHHHHHHHh-cCC-EEEEEEee-CCCCCcceEEEEEECCHHHHHHHHHHhCCC--eECCeEEEEe
Confidence 7777 799999999998 798 67788776 333467889999999999988888743322 2788887554
No 12
>KOG0113 consensus U1 small nuclear ribonucleoprotein (RRM superfamily) [RNA processing and modification]
Probab=97.62 E-value=0.00025 Score=67.55 Aligned_cols=80 Identities=13% Similarity=0.337 Sum_probs=63.7
Q ss_pred CCCCCCceEEEEccCCCcCCHHHHHHHHHhhcCCeeeEEEeeccCCCCCCCceEEEEEcchhhHHHHhCCCceeEEEEcC
Q 038800 188 NASEDDRTMFLTFSRGFPVTRDEVKELFTRMYGDCVESIHMQENVPSNEQPLFARLVLQSVANVDQILSGRRIAKFRING 267 (280)
Q Consensus 188 ~~~~d~Rt~FvTFS~G~Pvse~ei~~fF~~~yGdcve~v~m~~~~~~~~qplfarivf~s~~~v~~vL~g~~~~Kf~Ing 267 (280)
.+-+-++||||.=- .|-.+|++|+..|++ ||+ |++|.|=.+..+|.+.+||+|+|..+..+..+--. ..=..|+|
T Consensus 96 a~gDPy~TLFv~RL-nydT~EskLrreF~~-YG~-IkrirlV~d~vTgkskGYAFIeye~erdm~~AYK~--adG~~Idg 170 (335)
T KOG0113|consen 96 AIGDPYKTLFVARL-NYDTSESKLRREFEK-YGP-IKRIRLVRDKVTGKSKGYAFIEYEHERDMKAAYKD--ADGIKIDG 170 (335)
T ss_pred ccCCccceeeeeec-cccccHHHHHHHHHh-cCc-ceeEEEeeecccCCccceEEEEeccHHHHHHHHHh--ccCceecC
Confidence 34578999998321 377999999999997 999 89999988668999999999999988877666542 22457999
Q ss_pred eeeEE
Q 038800 268 KHIWA 272 (280)
Q Consensus 268 k~iWa 272 (280)
+.|-+
T Consensus 171 rri~V 175 (335)
T KOG0113|consen 171 RRILV 175 (335)
T ss_pred cEEEE
Confidence 88744
No 13
>TIGR01661 ELAV_HUD_SF ELAV/HuD family splicing factor. These proteins contain 3 RNA-recognition motifs (rrm: pfam00076).
Probab=97.60 E-value=0.00037 Score=65.10 Aligned_cols=77 Identities=8% Similarity=0.252 Sum_probs=58.9
Q ss_pred CceEEEEccCCCc--CCHHHHHHHHHhhcCCeeeEEEeeccCCCCCCCceEEEEEcchhhHHHHh---CCCceeEEEEcC
Q 038800 193 DRTMFLTFSRGFP--VTRDEVKELFTRMYGDCVESIHMQENVPSNEQPLFARLVLQSVANVDQIL---SGRRIAKFRING 267 (280)
Q Consensus 193 ~Rt~FvTFS~G~P--vse~ei~~fF~~~yGdcve~v~m~~~~~~~~qplfarivf~s~~~v~~vL---~g~~~~Kf~Ing 267 (280)
.+++|| ++.| .++++++++|.. ||+++ ++.+-.+..+++..+||+|.|.+.+....++ +| +.++|
T Consensus 269 ~~~lfV---~NL~~~~~e~~L~~~F~~-fG~v~-~v~i~~d~~t~~skG~aFV~F~~~~~A~~Ai~~lnG-----~~~~g 338 (352)
T TIGR01661 269 GYCIFV---YNLSPDTDETVLWQLFGP-FGAVQ-NVKIIRDLTTNQCKGYGFVSMTNYDEAAMAILSLNG-----YTLGN 338 (352)
T ss_pred CcEEEE---eCCCCCCCHHHHHHHHHh-CCCeE-EEEEeEcCCCCCccceEEEEECCHHHHHHHHHHhCC-----CEECC
Confidence 446776 8888 999999999996 99854 4555443567999999999999977655554 45 35899
Q ss_pred eeeEEEecccCC
Q 038800 268 KHIWARKYERRD 279 (280)
Q Consensus 268 k~iWarky~pk~ 279 (280)
|.|=+.-..+|.
T Consensus 339 r~i~V~~~~~~~ 350 (352)
T TIGR01661 339 RVLQVSFKTNKA 350 (352)
T ss_pred eEEEEEEccCCC
Confidence 999887776664
No 14
>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=97.46 E-value=0.00063 Score=66.10 Aligned_cols=74 Identities=15% Similarity=0.390 Sum_probs=57.7
Q ss_pred CCceEEEEccCCCc--CCHHHHHHHHHhhcCCeeeEEEeeccCCCCCCCceEEEEEcchhhHHHHhCCCceeEEEEcCee
Q 038800 192 DDRTMFLTFSRGFP--VTRDEVKELFTRMYGDCVESIHMQENVPSNEQPLFARLVLQSVANVDQILSGRRIAKFRINGKH 269 (280)
Q Consensus 192 d~Rt~FvTFS~G~P--vse~ei~~fF~~~yGdcve~v~m~~~~~~~~qplfarivf~s~~~v~~vL~g~~~~Kf~Ingk~ 269 (280)
..+|+|| +|.| +++++|+++|.. ||. |+.|.+..+..+++...||.|.|.+.+.....+..-+. +.|+|+.
T Consensus 185 ~~~~l~v---~nl~~~~te~~l~~~f~~-~G~-i~~v~~~~d~~~g~~~g~afV~f~~~e~A~~A~~~l~g--~~i~g~~ 257 (457)
T TIGR01622 185 NFLKLYV---GNLHFNITEQELRQIFEP-FGD-IEDVQLHRDPETGRSKGFGFIQFHDAEEAKEALEVMNG--FELAGRP 257 (457)
T ss_pred CCCEEEE---cCCCCCCCHHHHHHHHHh-cCC-eEEEEEEEcCCCCccceEEEEEECCHHHHHHHHHhcCC--cEECCEE
Confidence 3789988 8888 999999999985 998 56666655455678899999999998887776653222 5788988
Q ss_pred eEE
Q 038800 270 IWA 272 (280)
Q Consensus 270 iWa 272 (280)
+=+
T Consensus 258 i~v 260 (457)
T TIGR01622 258 IKV 260 (457)
T ss_pred EEE
Confidence 743
No 15
>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=97.43 E-value=0.00053 Score=66.25 Aligned_cols=79 Identities=14% Similarity=0.183 Sum_probs=58.1
Q ss_pred CCCCCceEEEEccCCCc--CCHHHHHHHHHhhcCCeeeEEEeeccCCCCCCCceEEEEEcchhhHHHHhCCCceeEEEEc
Q 038800 189 ASEDDRTMFLTFSRGFP--VTRDEVKELFTRMYGDCVESIHMQENVPSNEQPLFARLVLQSVANVDQILSGRRIAKFRIN 266 (280)
Q Consensus 189 ~~~d~Rt~FvTFS~G~P--vse~ei~~fF~~~yGdcve~v~m~~~~~~~~qplfarivf~s~~~v~~vL~g~~~~Kf~In 266 (280)
...+.++||| ++.| ++|+||+++|.. ||++++...|.+ ..+++...||+|.|.+++....++..-+ ...+.
T Consensus 103 ~~~~~~~LfV---gnLp~~~te~~L~~lF~~-~G~V~~v~i~~d-~~tg~srGyaFVeF~~~e~A~~Ai~~Ln--G~~l~ 175 (346)
T TIGR01659 103 TNNSGTNLIV---NYLPQDMTDRELYALFRT-IGPINTCRIMRD-YKTGYSFGYAFVDFGSEADSQRAIKNLN--GITVR 175 (346)
T ss_pred CCCCCcEEEE---eCCCCCCCHHHHHHHHHh-cCCEEEEEEEec-CCCCccCcEEEEEEccHHHHHHHHHHcC--CCccC
Confidence 3457789988 8888 999999999996 999544445555 5678899999999999888776664211 12456
Q ss_pred CeeeEEEe
Q 038800 267 GKHIWARK 274 (280)
Q Consensus 267 gk~iWark 274 (280)
||.+.+..
T Consensus 176 gr~i~V~~ 183 (346)
T TIGR01659 176 NKRLKVSY 183 (346)
T ss_pred Cceeeeec
Confidence 77776543
No 16
>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=97.40 E-value=0.00066 Score=70.28 Aligned_cols=81 Identities=9% Similarity=0.240 Sum_probs=64.4
Q ss_pred CCceEEEEccCCCc--CCHHHHHHHHHhhcCCeeeEEEeeccCCCCCCCceEEEEEcchhhHHHHhCCCceeEEEEcCee
Q 038800 192 DDRTMFLTFSRGFP--VTRDEVKELFTRMYGDCVESIHMQENVPSNEQPLFARLVLQSVANVDQILSGRRIAKFRINGKH 269 (280)
Q Consensus 192 d~Rt~FvTFS~G~P--vse~ei~~fF~~~yGdcve~v~m~~~~~~~~qplfarivf~s~~~v~~vL~g~~~~Kf~Ingk~ 269 (280)
..+++|| +|.| +++++++++|.+ ||.++....+.+ ..+++..+||+|.|.+.+.....+...+ .+.|+|+.
T Consensus 203 ~~~rLfV---gnLp~~vteedLk~lFs~-FG~I~svrl~~D-~~tgksKGfGFVeFe~~e~A~kAI~amN--g~elgGr~ 275 (612)
T TIGR01645 203 KFNRIYV---ASVHPDLSETDIKSVFEA-FGEIVKCQLARA-PTGRGHKGYGFIEYNNLQSQSEAIASMN--LFDLGGQY 275 (612)
T ss_pred ccceEEe---ecCCCCCCHHHHHHHHhh-cCCeeEEEEEec-CCCCCcCCeEEEEECCHHHHHHHHHHhC--CCeeCCeE
Confidence 3456766 8988 999999999996 999544444444 4678899999999999999888887644 56899999
Q ss_pred eEEEecccCC
Q 038800 270 IWARKYERRD 279 (280)
Q Consensus 270 iWarky~pk~ 279 (280)
+=+.+.++++
T Consensus 276 LrV~kAi~pP 285 (612)
T TIGR01645 276 LRVGKCVTPP 285 (612)
T ss_pred EEEEecCCCc
Confidence 9998888643
No 17
>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=97.34 E-value=0.0011 Score=64.46 Aligned_cols=78 Identities=22% Similarity=0.311 Sum_probs=60.4
Q ss_pred CCCCCceEEEEccCCCc--CCHHHHHHHHHhhcCCeeeEEEeeccCCCCCCCceEEEEEcchhhHHHHhCCCceeEEEEc
Q 038800 189 ASEDDRTMFLTFSRGFP--VTRDEVKELFTRMYGDCVESIHMQENVPSNEQPLFARLVLQSVANVDQILSGRRIAKFRIN 266 (280)
Q Consensus 189 ~~~d~Rt~FvTFS~G~P--vse~ei~~fF~~~yGdcve~v~m~~~~~~~~qplfarivf~s~~~v~~vL~g~~~~Kf~In 266 (280)
...+.||+|| ++.| +++++|++||.. ||. |+.|.|-.+..++...+||+|.|.+.+.....|.- -...+.
T Consensus 85 ~~~~~~~l~V---~nlp~~~~~~~l~~~F~~-~G~-v~~v~i~~d~~~~~skg~afVeF~~~e~A~~Al~l---~g~~~~ 156 (457)
T TIGR01622 85 AERDDRTVFV---LQLALKARERDLYEFFSK-VGK-VRDVQCIKDRNSRRSKGVAYVEFYDVESVIKALAL---TGQMLL 156 (457)
T ss_pred cccCCcEEEE---eCCCCCCCHHHHHHHHHh-cCC-eeEEEEeecCCCCCcceEEEEEECCHHHHHHHHHh---CCCEEC
Confidence 3456889988 7888 999999999997 996 56666655456789999999999998888777751 123577
Q ss_pred CeeeEEEe
Q 038800 267 GKHIWARK 274 (280)
Q Consensus 267 gk~iWark 274 (280)
|+.+.++.
T Consensus 157 g~~i~v~~ 164 (457)
T TIGR01622 157 GRPIIVQS 164 (457)
T ss_pred CeeeEEee
Confidence 88887654
No 18
>COG0724 RNA-binding proteins (RRM domain) [General function prediction only]
Probab=97.25 E-value=0.0017 Score=55.06 Aligned_cols=77 Identities=19% Similarity=0.459 Sum_probs=62.7
Q ss_pred CceEEEEccCCCc--CCHHHHHHHHHhhcCCeeeEEEeeccCCCCCCCceEEEEEcchhhHHHHhCCCceeEEEEcCeee
Q 038800 193 DRTMFLTFSRGFP--VTRDEVKELFTRMYGDCVESIHMQENVPSNEQPLFARLVLQSVANVDQILSGRRIAKFRINGKHI 270 (280)
Q Consensus 193 ~Rt~FvTFS~G~P--vse~ei~~fF~~~yGdcve~v~m~~~~~~~~qplfarivf~s~~~v~~vL~g~~~~Kf~Ingk~i 270 (280)
.+|+|| ++.| ++++||+++|.. ||. |.++.+..+...+...+||.|.|.+.+....++...+ ...++|+.+
T Consensus 115 ~~~l~v---~nL~~~~~~~~l~~~F~~-~g~-~~~~~~~~d~~~~~~~g~~~v~f~~~~~~~~a~~~~~--~~~~~~~~~ 187 (306)
T COG0724 115 NNTLFV---GNLPYDVTEEDLRELFKK-FGP-VKRVRLVRDRETGKSRGFAFVEFESEESAEKAIEELN--GKELEGRPL 187 (306)
T ss_pred CceEEE---eCCCCCCCHHHHHHHHHh-cCc-eeEEEeeeccccCccCceEEEEecCHHHHHHHHHHcC--CCeECCcee
Confidence 688887 8888 999999999997 998 4666666644689999999999999988777776433 458999999
Q ss_pred EEEecc
Q 038800 271 WARKYE 276 (280)
Q Consensus 271 Warky~ 276 (280)
.+....
T Consensus 188 ~v~~~~ 193 (306)
T COG0724 188 RVQKAQ 193 (306)
T ss_pred Eeeccc
Confidence 888743
No 19
>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=97.20 E-value=0.0016 Score=62.95 Aligned_cols=77 Identities=14% Similarity=0.274 Sum_probs=53.7
Q ss_pred CCceEEEEccCCCc--CCHHHHHHHHHhhcCCeeeEEEeeccCCCCCCCceEEEEEcchhhHHHHhCCCceeEEEEcCee
Q 038800 192 DDRTMFLTFSRGFP--VTRDEVKELFTRMYGDCVESIHMQENVPSNEQPLFARLVLQSVANVDQILSGRRIAKFRINGKH 269 (280)
Q Consensus 192 d~Rt~FvTFS~G~P--vse~ei~~fF~~~yGdcve~v~m~~~~~~~~qplfarivf~s~~~v~~vL~g~~~~Kf~Ingk~ 269 (280)
.+.++|| .+.| ++++||+++|.+ ||++++..++.+ ..+++...||+|.|.+.+..+.++..-+...+...++.
T Consensus 192 ~~~~lfV---~nLp~~vtee~L~~~F~~-fG~V~~v~i~~d-~~tg~~kG~aFV~F~~~e~A~~Ai~~lng~~~~g~~~~ 266 (346)
T TIGR01659 192 KDTNLYV---TNLPRTITDDQLDTIFGK-YGQIVQKNILRD-KLTGTPRGVAFVRFNKREEAQEAISALNNVIPEGGSQP 266 (346)
T ss_pred ccceeEE---eCCCCcccHHHHHHHHHh-cCCEEEEEEeec-CCCCccceEEEEEECCHHHHHHHHHHhCCCccCCCcee
Confidence 3567777 7988 999999999975 999655555544 56788899999999998887776664333333223344
Q ss_pred eEEE
Q 038800 270 IWAR 273 (280)
Q Consensus 270 iWar 273 (280)
+=++
T Consensus 267 l~V~ 270 (346)
T TIGR01659 267 LTVR 270 (346)
T ss_pred EEEE
Confidence 4333
No 20
>TIGR01642 U2AF_lg U2 snRNP auxilliary factor, large subunit, splicing factor. Members of this subfamily are found in plants, metazoa and fungi.
Probab=97.18 E-value=0.0024 Score=62.85 Aligned_cols=80 Identities=11% Similarity=0.296 Sum_probs=59.0
Q ss_pred CCCCCceEEEEccCCCc--CCHHHHHHHHHhhcCCeeeEEEeeccCCCCCCCceEEEEEcchhhHHHHhCCCceeEEEEc
Q 038800 189 ASEDDRTMFLTFSRGFP--VTRDEVKELFTRMYGDCVESIHMQENVPSNEQPLFARLVLQSVANVDQILSGRRIAKFRIN 266 (280)
Q Consensus 189 ~~~d~Rt~FvTFS~G~P--vse~ei~~fF~~~yGdcve~v~m~~~~~~~~qplfarivf~s~~~v~~vL~g~~~~Kf~In 266 (280)
+++..++||| +|.| +++++|+++|.. ||. |+.+.+..+..++...+||+|.|.+.+..+.++.+-+- +.|+
T Consensus 291 ~~~~~~~l~v---~nlp~~~~~~~l~~~f~~-~G~-i~~~~~~~~~~~g~~~g~afv~f~~~~~a~~A~~~l~g--~~~~ 363 (509)
T TIGR01642 291 VLDSKDRIYI---GNLPLYLGEDQIKELLES-FGD-LKAFNLIKDIATGLSKGYAFCEYKDPSVTDVAIAALNG--KDTG 363 (509)
T ss_pred CCCCCCEEEE---eCCCCCCCHHHHHHHHHh-cCC-eeEEEEEecCCCCCcCeEEEEEECCHHHHHHHHHHcCC--CEEC
Confidence 4556789988 7988 899999999997 998 56666555356788999999999998887766543111 2467
Q ss_pred CeeeEEEec
Q 038800 267 GKHIWARKY 275 (280)
Q Consensus 267 gk~iWarky 275 (280)
|+.+=+++.
T Consensus 364 ~~~l~v~~a 372 (509)
T TIGR01642 364 DNKLHVQRA 372 (509)
T ss_pred CeEEEEEEC
Confidence 777655543
No 21
>PLN03121 nucleic acid binding protein; Provisional
Probab=97.14 E-value=0.0034 Score=58.38 Aligned_cols=70 Identities=17% Similarity=0.316 Sum_probs=54.2
Q ss_pred CCceEEEEccCCCc--CCHHHHHHHHHhhcCCeeeEEEeeccCCCCCCCceEEEEEcchhhHHHH--hCCCceeEEEEcC
Q 038800 192 DDRTMFLTFSRGFP--VTRDEVKELFTRMYGDCVESIHMQENVPSNEQPLFARLVLQSVANVDQI--LSGRRIAKFRING 267 (280)
Q Consensus 192 d~Rt~FvTFS~G~P--vse~ei~~fF~~~yGdcve~v~m~~~~~~~~qplfarivf~s~~~v~~v--L~g~~~~Kf~Ing 267 (280)
+-.|+|| .+.+ .||+||++||.. ||. |++|.|..+ ++...||.|.|+.++.++.. |+|. .|.|
T Consensus 4 ~g~TV~V---~NLS~~tTE~dLrefFS~-~G~-I~~V~I~~D---~et~gfAfVtF~d~~aaetAllLnGa-----~l~d 70 (243)
T PLN03121 4 GGYTAEV---TNLSPKATEKDVYDFFSH-CGA-IEHVEIIRS---GEYACTAYVTFKDAYALETAVLLSGA-----TIVD 70 (243)
T ss_pred CceEEEE---ecCCCCCCHHHHHHHHHh-cCC-eEEEEEecC---CCcceEEEEEECCHHHHHHHHhcCCC-----eeCC
Confidence 3467766 7766 999999999997 999 899999884 56678999999987776554 5575 4677
Q ss_pred eeeEEEe
Q 038800 268 KHIWARK 274 (280)
Q Consensus 268 k~iWark 274 (280)
+.|.+-.
T Consensus 71 ~~I~It~ 77 (243)
T PLN03121 71 QRVCITR 77 (243)
T ss_pred ceEEEEe
Confidence 7776554
No 22
>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=97.13 E-value=0.0025 Score=64.12 Aligned_cols=72 Identities=19% Similarity=0.328 Sum_probs=54.8
Q ss_pred eEEEEccCCCc--CCHHHHHHHHHhhcCCeeeEEEeeccCCCCCCCceEEEEEcchhhHHHHhCCCceeEEEEcCeeeEE
Q 038800 195 TMFLTFSRGFP--VTRDEVKELFTRMYGDCVESIHMQENVPSNEQPLFARLVLQSVANVDQILSGRRIAKFRINGKHIWA 272 (280)
Q Consensus 195 t~FvTFS~G~P--vse~ei~~fF~~~yGdcve~v~m~~~~~~~~qplfarivf~s~~~v~~vL~g~~~~Kf~Ingk~iWa 272 (280)
|+|| ++.| +||++|+++|.+ ||. |++|.+-.+..+++..+||.|.|.+.+...++|.--+ .-.|+||.+.+
T Consensus 2 sl~V---gnLp~~vte~~L~~~F~~-~G~-v~~v~v~~d~~t~~s~G~afV~F~~~~~A~~Al~~ln--~~~i~gk~i~i 74 (562)
T TIGR01628 2 SLYV---GDLDPDVTEAKLYDLFKP-FGP-VLSVRVCRDSVTRRSLGYGYVNFQNPADAERALETMN--FKRLGGKPIRI 74 (562)
T ss_pred eEEE---eCCCCCCCHHHHHHHHHh-cCC-EEEEEEEecCCCCCcceEEEEEECCHHHHHHHHHHhC--CCEECCeeEEe
Confidence 4555 8888 999999999987 999 5556554435668888999999999999888886211 12588998755
Q ss_pred E
Q 038800 273 R 273 (280)
Q Consensus 273 r 273 (280)
.
T Consensus 75 ~ 75 (562)
T TIGR01628 75 M 75 (562)
T ss_pred e
Confidence 3
No 23
>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=96.98 E-value=0.0029 Score=63.57 Aligned_cols=78 Identities=14% Similarity=0.313 Sum_probs=59.7
Q ss_pred CceEEEEccCCCc--CCHHHHHHHHHhhcCCeeeEEEeeccCCCCCCCceEEEEEcchhhHHHHhCCCceeEEEEcCeee
Q 038800 193 DRTMFLTFSRGFP--VTRDEVKELFTRMYGDCVESIHMQENVPSNEQPLFARLVLQSVANVDQILSGRRIAKFRINGKHI 270 (280)
Q Consensus 193 ~Rt~FvTFS~G~P--vse~ei~~fF~~~yGdcve~v~m~~~~~~~~qplfarivf~s~~~v~~vL~g~~~~Kf~Ingk~i 270 (280)
..++|| +|.| ++++|++++|.+ ||.+.+.-.|.+ ..+...+||+|.|.+.+....++...+. ..++||.+
T Consensus 285 ~~~l~V---~nl~~~~~~~~L~~~F~~-~G~i~~~~i~~d--~~g~~~g~gfV~f~~~~~A~~A~~~~~g--~~~~gk~l 356 (562)
T TIGR01628 285 GVNLYV---KNLDDTVTDEKLRELFSE-CGEITSAKVMLD--EKGVSRGFGFVCFSNPEEANRAVTEMHG--RMLGGKPL 356 (562)
T ss_pred CCEEEE---eCCCCccCHHHHHHHHHh-cCCeEEEEEEEC--CCCCcCCeEEEEeCCHHHHHHHHHHhcC--CeeCCcee
Confidence 456776 7877 999999999996 999666556655 4688899999999998888877753222 47899999
Q ss_pred EEEecccC
Q 038800 271 WARKYERR 278 (280)
Q Consensus 271 Warky~pk 278 (280)
-+....+|
T Consensus 357 ~V~~a~~k 364 (562)
T TIGR01628 357 YVALAQRK 364 (562)
T ss_pred EEEeccCc
Confidence 66655554
No 24
>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=96.87 E-value=0.0049 Score=63.97 Aligned_cols=75 Identities=15% Similarity=0.225 Sum_probs=56.3
Q ss_pred CCceEEEEccCCCc--CCHHHHHHHHHhhcCCeeeEEEeeccCCCCCCCceEEEEEcchhhHHHHhCCCceeEEEEcCee
Q 038800 192 DDRTMFLTFSRGFP--VTRDEVKELFTRMYGDCVESIHMQENVPSNEQPLFARLVLQSVANVDQILSGRRIAKFRINGKH 269 (280)
Q Consensus 192 d~Rt~FvTFS~G~P--vse~ei~~fF~~~yGdcve~v~m~~~~~~~~qplfarivf~s~~~v~~vL~g~~~~Kf~Ingk~ 269 (280)
..+++|| +|.| +++++|+++|.+ ||+ |++|.|-.+..+++..+||+|.|.+.+..+..+...+. ..|+||.
T Consensus 106 ~~~rLfV---GnLp~~~tEe~Lr~lF~~-fG~-I~sV~I~~D~~TgkskGfAFVeF~s~e~A~~Ai~~lnG--~~i~GR~ 178 (612)
T TIGR01645 106 IMCRVYV---GSISFELREDTIRRAFDP-FGP-IKSINMSWDPATGKHKGFAFVEYEVPEAAQLALEQMNG--QMLGGRN 178 (612)
T ss_pred CCCEEEE---cCCCCCCCHHHHHHHHHc-cCC-EEEEEEeecCCCCCcCCeEEEEeCcHHHHHHHHHhcCC--eEEecce
Confidence 3456777 8877 999999999997 999 45565554356789999999999999998888753221 2467776
Q ss_pred eEEE
Q 038800 270 IWAR 273 (280)
Q Consensus 270 iWar 273 (280)
+=++
T Consensus 179 IkV~ 182 (612)
T TIGR01645 179 IKVG 182 (612)
T ss_pred eeec
Confidence 6444
No 25
>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=96.82 E-value=0.0051 Score=63.44 Aligned_cols=77 Identities=16% Similarity=0.161 Sum_probs=56.4
Q ss_pred CCCCceEEEEccCCCc--CCHHHHHHHHHhhcCCeeeEEEeeccCCCCCCCceEEEEEcchhhHHHHhCCCceeEEEEcC
Q 038800 190 SEDDRTMFLTFSRGFP--VTRDEVKELFTRMYGDCVESIHMQENVPSNEQPLFARLVLQSVANVDQILSGRRIAKFRING 267 (280)
Q Consensus 190 ~~d~Rt~FvTFS~G~P--vse~ei~~fF~~~yGdcve~v~m~~~~~~~~qplfarivf~s~~~v~~vL~g~~~~Kf~Ing 267 (280)
|+...+||| ++.| ++|+|++++|.+ ||.+++...|-+ .+++...||+|.|.+.+..+.++...+..++ .+|
T Consensus 55 p~~~~~lFV---gnLp~~~tEd~L~~~F~~-~G~I~~vrl~~D--~sG~sRGfaFV~F~~~e~A~~Ai~~lng~~i-~~G 127 (578)
T TIGR01648 55 PGRGCEVFV---GKIPRDLYEDELVPLFEK-AGPIYELRLMMD--FSGQNRGYAFVTFCGKEEAKEAVKLLNNYEI-RPG 127 (578)
T ss_pred CCCCCEEEe---CCCCCCCCHHHHHHHHHh-hCCEEEEEEEEC--CCCCccceEEEEeCCHHHHHHHHHHcCCCee-cCC
Confidence 555678888 8999 999999999997 998666555544 4688999999999999998887763222111 245
Q ss_pred eeeEEE
Q 038800 268 KHIWAR 273 (280)
Q Consensus 268 k~iWar 273 (280)
|.+++.
T Consensus 128 r~l~V~ 133 (578)
T TIGR01648 128 RLLGVC 133 (578)
T ss_pred cccccc
Confidence 555443
No 26
>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=96.72 E-value=0.0059 Score=60.87 Aligned_cols=74 Identities=12% Similarity=0.172 Sum_probs=56.9
Q ss_pred CceEEEEccCCCc--CCHHHHHHHHHhhcCCeeeEEEeeccCCCCCCCceEEEEEcchhhHHHHhCCCceeEEEEcCeee
Q 038800 193 DRTMFLTFSRGFP--VTRDEVKELFTRMYGDCVESIHMQENVPSNEQPLFARLVLQSVANVDQILSGRRIAKFRINGKHI 270 (280)
Q Consensus 193 ~Rt~FvTFS~G~P--vse~ei~~fF~~~yGdcve~v~m~~~~~~~~qplfarivf~s~~~v~~vL~g~~~~Kf~Ingk~i 270 (280)
.|++|| ++.| ++|+||+++|.. ||.+ +++.|-. ...||.|-|.+++....+++..+.....|+|+.+
T Consensus 2 s~vv~V---~nLp~~~te~~L~~~f~~-fG~V-~~v~i~~------~k~~afVef~~~e~A~~Ai~~~~~~~~~l~g~~l 70 (481)
T TIGR01649 2 SPVVHV---RNLPQDVVEADLVEALIP-FGPV-SYVMMLP------GKRQALVEFEDEESAKACVNFATSVPIYIRGQPA 70 (481)
T ss_pred ccEEEE---cCCCCCCCHHHHHHHHHh-cCCe-eEEEEEC------CCCEEEEEeCchHHHHHHHHHhhcCCceEcCeEE
Confidence 477877 9998 999999999997 9994 4554422 1259999999999988888643333568999999
Q ss_pred EEEeccc
Q 038800 271 WARKYER 277 (280)
Q Consensus 271 Warky~p 277 (280)
+++...+
T Consensus 71 ~v~~s~~ 77 (481)
T TIGR01649 71 FFNYSTS 77 (481)
T ss_pred EEEecCC
Confidence 8876543
No 27
>smart00361 RRM_1 RNA recognition motif.
Probab=96.44 E-value=0.017 Score=42.65 Aligned_cols=61 Identities=13% Similarity=0.275 Sum_probs=42.2
Q ss_pred CHHHHHHHHH---hhcCCeeeE--EEeeccCCCCCCCceEEEEEcchhhHHHHhC---CCceeEEEEcCeeeEE
Q 038800 207 TRDEVKELFT---RMYGDCVES--IHMQENVPSNEQPLFARLVLQSVANVDQILS---GRRIAKFRINGKHIWA 272 (280)
Q Consensus 207 se~ei~~fF~---~~yGdcve~--v~m~~~~~~~~qplfarivf~s~~~v~~vL~---g~~~~Kf~Ingk~iWa 272 (280)
.+++|+++|. .+||.+... |.|.+++..+++.+||.|.|.+.+....++. |. .++|+.+=+
T Consensus 1 ~~~~l~~~~~~~~~~fG~v~~v~~v~~~~~~~~~~~rG~~fV~f~~~~dA~~A~~~l~g~-----~~~gr~l~~ 69 (70)
T smart00361 1 KDEDFEREFSEEEEYFGEVGKINKIYIDNVGYENHKRGNVYITFERSEDAARAIVDLNGR-----YFDGRTVKA 69 (70)
T ss_pred CchhHHHHHHHHHHhcCCeeEEEEEEeCCCCCCCCCcEEEEEEECCHHHHHHHHHHhCCC-----EECCEEEEe
Confidence 3688999998 349985443 3555533338899999999999887666544 52 577776643
No 28
>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=96.41 E-value=0.012 Score=60.67 Aligned_cols=85 Identities=19% Similarity=0.218 Sum_probs=58.7
Q ss_pred CCCCceEEEEccCCCc--CCHHHHHHHHHhhcCCeeeEE-EeeccCCCCCCCceEEEEEcchhhHHHHhCCCceeEEEEc
Q 038800 190 SEDDRTMFLTFSRGFP--VTRDEVKELFTRMYGDCVESI-HMQENVPSNEQPLFARLVLQSVANVDQILSGRRIAKFRIN 266 (280)
Q Consensus 190 ~~d~Rt~FvTFS~G~P--vse~ei~~fF~~~yGdcve~v-~m~~~~~~~~qplfarivf~s~~~v~~vL~g~~~~Kf~In 266 (280)
+.+.++||| ++.| ++++||.+.|.+ ++.+++.+ .+..+...+....||+|.|.+.+....+...-..-++.|.
T Consensus 135 S~~~~rLFV---gNLP~~~TeeeL~eeFsk-v~egvv~vIv~~~~~~kgKnRGFAFVeF~s~edAa~AirkL~~gki~l~ 210 (578)
T TIGR01648 135 SVDNCRLFV---GGIPKNKKREEILEEFSK-VTEGVVDVIVYHSAADKKKNRGFAFVEYESHRAAAMARRKLMPGRIQLW 210 (578)
T ss_pred cccCceeEe---ecCCcchhhHHHHHHhhc-ccCCceEEEEeccccccCccCceEEEEcCCHHHHHHHHHHhhccceEec
Confidence 456789988 8988 899999999987 66544444 4434334466789999999998876665543223345677
Q ss_pred CeeeEEEecccC
Q 038800 267 GKHIWARKYERR 278 (280)
Q Consensus 267 gk~iWarky~pk 278 (280)
|+.+=+....|+
T Consensus 211 Gr~I~VdwA~p~ 222 (578)
T TIGR01648 211 GHVIAVDWAEPE 222 (578)
T ss_pred CceEEEEeeccc
Confidence 887755544443
No 29
>TIGR01642 U2AF_lg U2 snRNP auxilliary factor, large subunit, splicing factor. Members of this subfamily are found in plants, metazoa and fungi.
Probab=96.05 E-value=0.032 Score=54.97 Aligned_cols=74 Identities=20% Similarity=0.434 Sum_probs=53.4
Q ss_pred CCCCCCceEEEEccCCCc--CCHHHHHHHHHhh-----c-----CCeeeEEEeeccCCCCCCCceEEEEEcchhhHHHHh
Q 038800 188 NASEDDRTMFLTFSRGFP--VTRDEVKELFTRM-----Y-----GDCVESIHMQENVPSNEQPLFARLVLQSVANVDQIL 255 (280)
Q Consensus 188 ~~~~d~Rt~FvTFS~G~P--vse~ei~~fF~~~-----y-----Gdcve~v~m~~~~~~~~qplfarivf~s~~~v~~vL 255 (280)
......||||| +|.| ++++||.+||... + |+-|..+.+. ....||+|.|.+++....+|
T Consensus 170 ~~~~~~r~lyV---gnLp~~~t~~~l~~~F~~~~~~~~~~~~~~~~~v~~~~~~------~~kg~afVeF~~~e~A~~Al 240 (509)
T TIGR01642 170 QATRQARRLYV---GGIPPEFVEEAVVDFFNDLMIATGYHKAEDGKHVSSVNIN------KEKNFAFLEFRTVEEATFAM 240 (509)
T ss_pred cCCccccEEEE---eCCCCCCCHHHHHHHHHHHHHhcCCCCCCCCCceEEEEEC------CCCCEEEEEeCCHHHHhhhh
Confidence 45667899998 9998 9999999999973 1 3345555553 34679999999998887777
Q ss_pred CCCceeEEEEcCeeeEEE
Q 038800 256 SGRRIAKFRINGKHIWAR 273 (280)
Q Consensus 256 ~g~~~~Kf~Ingk~iWar 273 (280)
. - -.+.++|+.+=++
T Consensus 241 ~-l--~g~~~~g~~l~v~ 255 (509)
T TIGR01642 241 A-L--DSIIYSNVFLKIR 255 (509)
T ss_pred c-C--CCeEeeCceeEec
Confidence 4 1 1245677776443
No 30
>KOG0132 consensus RNA polymerase II C-terminal domain-binding protein RA4, contains RPR and RRM domains [RNA processing and modification; Transcription]
Probab=95.48 E-value=0.024 Score=59.99 Aligned_cols=75 Identities=23% Similarity=0.444 Sum_probs=58.6
Q ss_pred CCceEEEEccCCCc--CCHHHHHHHHHhhcCCeeeEEEeeccCCCCCCCceEEEEEcchhhHHHHhCCCceeEEEEcCee
Q 038800 192 DDRTMFLTFSRGFP--VTRDEVKELFTRMYGDCVESIHMQENVPSNEQPLFARLVLQSVANVDQILSGRRIAKFRINGKH 269 (280)
Q Consensus 192 d~Rt~FvTFS~G~P--vse~ei~~fF~~~yGdcve~v~m~~~~~~~~qplfarivf~s~~~v~~vL~g~~~~Kf~Ingk~ 269 (280)
=.||||| +|.| ++|+|+...|++ ||+ |++|.|-. ...+|.|+..+-.....+|.--+ +..+++|-
T Consensus 420 ~SrTLwv---G~i~k~v~e~dL~~~fee-fGe-iqSi~li~------~R~cAfI~M~~RqdA~kalqkl~--n~kv~~k~ 486 (894)
T KOG0132|consen 420 CSRTLWV---GGIPKNVTEQDLANLFEE-FGE-IQSIILIP------PRGCAFIKMVRRQDAEKALQKLS--NVKVADKT 486 (894)
T ss_pred eeeeeee---ccccchhhHHHHHHHHHh-ccc-ceeEeecc------CCceeEEEEeehhHHHHHHHHHh--ccccccee
Confidence 3689988 9999 999999999998 999 89999944 57789998887666666665433 44567776
Q ss_pred e---EEEecccCC
Q 038800 270 I---WARKYERRD 279 (280)
Q Consensus 270 i---Warky~pk~ 279 (280)
| ||.-+=||.
T Consensus 487 Iki~Wa~g~G~ks 499 (894)
T KOG0132|consen 487 IKIAWAVGKGPKS 499 (894)
T ss_pred eEEeeeccCCcch
Confidence 6 998776664
No 31
>KOG0116 consensus RasGAP SH3 binding protein rasputin, contains NTF2 and RRM domains [Signal transduction mechanisms]
Probab=95.14 E-value=0.06 Score=53.72 Aligned_cols=78 Identities=21% Similarity=0.456 Sum_probs=60.2
Q ss_pred CCCCceEEEEccCCCc--CCHHHHHHHHHhhcCCeeeEEEeeccCCCCCCCceEEEEEcchhhHHHHhCCCceeEEEEcC
Q 038800 190 SEDDRTMFLTFSRGFP--VTRDEVKELFTRMYGDCVESIHMQENVPSNEQPLFARLVLQSVANVDQILSGRRIAKFRING 267 (280)
Q Consensus 190 ~~d~Rt~FvTFS~G~P--vse~ei~~fF~~~yGdcve~v~m~~~~~~~~qplfarivf~s~~~v~~vL~g~~~~Kf~Ing 267 (280)
-++..++ |.+..| .+.+++.++|-. ||+ |+...|+--...+..+.||+|.|.+.+.+..++.-. ++.|+|
T Consensus 285 ~~~~~~i---~V~nlP~da~~~~l~~~Fk~-FG~-Ik~~~I~vr~~~~~~~~fgFV~f~~~~~~~~~i~As---p~~ig~ 356 (419)
T KOG0116|consen 285 RADGLGI---FVKNLPPDATPAELEEVFKQ-FGP-IKEGGIQVRSPGGKNPCFGFVEFENAAAVQNAIEAS---PLEIGG 356 (419)
T ss_pred eecccce---EeecCCCCCCHHHHHHHHhh-ccc-ccccceEEeccCCCcCceEEEEEeecchhhhhhhcC---ccccCC
Confidence 3445554 559999 999999999997 999 555555551335666699999999999988888865 899999
Q ss_pred eeeEEEec
Q 038800 268 KHIWARKY 275 (280)
Q Consensus 268 k~iWarky 275 (280)
+.+-+..-
T Consensus 357 ~kl~Veek 364 (419)
T KOG0116|consen 357 RKLNVEEK 364 (419)
T ss_pred eeEEEEec
Confidence 99876543
No 32
>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=94.08 E-value=0.16 Score=35.41 Aligned_cols=50 Identities=26% Similarity=0.548 Sum_probs=35.6
Q ss_pred HHHHHHhhcCCeeeEEEeeccCCCCCCCceEEEEEcchhhHHHHh---CCCceeEEEEcCeeeEE
Q 038800 211 VKELFTRMYGDCVESIHMQENVPSNEQPLFARLVLQSVANVDQIL---SGRRIAKFRINGKHIWA 272 (280)
Q Consensus 211 i~~fF~~~yGdcve~v~m~~~~~~~~qplfarivf~s~~~v~~vL---~g~~~~Kf~Ingk~iWa 272 (280)
++++|.+ ||+ |++|.|.+. . +.+|.|.|.+.+....++ +|.. ++|+.+=+
T Consensus 1 L~~~f~~-fG~-V~~i~~~~~-~----~~~a~V~f~~~~~A~~a~~~l~~~~-----~~g~~l~V 53 (56)
T PF13893_consen 1 LYKLFSK-FGE-VKKIKIFKK-K----RGFAFVEFASVEDAQKAIEQLNGRQ-----FNGRPLKV 53 (56)
T ss_dssp HHHHHTT-TS--EEEEEEETT-S----TTEEEEEESSHHHHHHHHHHHTTSE-----ETTEEEEE
T ss_pred ChHHhCC-ccc-EEEEEEEeC-C----CCEEEEEECCHHHHHHHHHHhCCCE-----ECCcEEEE
Confidence 4678886 998 678888662 1 799999999988765554 5543 68887643
No 33
>KOG0153 consensus Predicted RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=94.03 E-value=0.22 Score=48.70 Aligned_cols=68 Identities=22% Similarity=0.533 Sum_probs=50.8
Q ss_pred ceEEEEccCCC--cCCHHHHHHHHHhhcCCeeeEEEeeccCCCCCCCceEEEEEcchhhHHHHhC-CCceeEEEEcCeee
Q 038800 194 RTMFLTFSRGF--PVTRDEVKELFTRMYGDCVESIHMQENVPSNEQPLFARLVLQSVANVDQILS-GRRIAKFRINGKHI 270 (280)
Q Consensus 194 Rt~FvTFS~G~--Pvse~ei~~fF~~~yGdcve~v~m~~~~~~~~qplfarivf~s~~~v~~vL~-g~~~~Kf~Ingk~i 270 (280)
+|||| +|. -|+|.+|+++|.. ||+ |+.|.+.- .++ .|+|.|.+-.....+.. +.+ |+.|||+.+
T Consensus 229 ~tLyI---g~l~d~v~e~dIrdhFyq-yGe-irsi~~~~----~~~--CAFv~ftTR~aAE~Aae~~~n--~lvI~G~Rl 295 (377)
T KOG0153|consen 229 KTLYI---GGLNDEVLEQDIRDHFYQ-YGE-IRSIRILP----RKG--CAFVTFTTREAAEKAAEKSFN--KLVINGFRL 295 (377)
T ss_pred eEEEe---cccccchhHHHHHHHHhh-cCC-eeeEEeec----ccc--cceeeehhhHHHHHHHHhhcc--eeeecceEE
Confidence 45665 886 3999999999997 999 78877754 233 89999998666555555 433 999999776
Q ss_pred ---EEEe
Q 038800 271 ---WARK 274 (280)
Q Consensus 271 ---Wark 274 (280)
|.+-
T Consensus 296 ~i~Wg~~ 302 (377)
T KOG0153|consen 296 KIKWGRP 302 (377)
T ss_pred EEEeCCC
Confidence 6554
No 34
>KOG0144 consensus RNA-binding protein CUGBP1/BRUNO (RRM superfamily) [RNA processing and modification]
Probab=93.77 E-value=0.072 Score=53.39 Aligned_cols=63 Identities=22% Similarity=0.395 Sum_probs=49.6
Q ss_pred CCCceEEEEccCCCc--CCHHHHHHHHHhhcCCeeeEEEeeccCCCCCCCceEEEEEcchhhHHH---HhCCCc
Q 038800 191 EDDRTMFLTFSRGFP--VTRDEVKELFTRMYGDCVESIHMQENVPSNEQPLFARLVLQSVANVDQ---ILSGRR 259 (280)
Q Consensus 191 ~d~Rt~FvTFS~G~P--vse~ei~~fF~~~yGdcve~v~m~~~~~~~~qplfarivf~s~~~v~~---vL~g~~ 259 (280)
.|+|.||| +-.+ .+|.||++-|.+ ||- ||+++|-+ .+-+..++||+|.|.+.++.-. .|+|..
T Consensus 122 ~~e~KLFv---g~lsK~~te~evr~iFs~-fG~-Ied~~ilr-d~~~~sRGcaFV~fstke~A~~Aika~ng~~ 189 (510)
T KOG0144|consen 122 VEERKLFV---GMLSKQCTENEVREIFSR-FGH-IEDCYILR-DPDGLSRGCAFVKFSTKEMAVAAIKALNGTQ 189 (510)
T ss_pred ccchhhhh---hhccccccHHHHHHHHHh-hCc-cchhhhee-cccccccceeEEEEehHHHHHHHHHhhccce
Confidence 56788877 4444 899999999997 998 88999888 4679999999999998766332 345544
No 35
>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=93.75 E-value=0.36 Score=48.25 Aligned_cols=71 Identities=17% Similarity=0.255 Sum_probs=51.4
Q ss_pred CCceEEEEccCCCc---CCHHHHHHHHHhhcCCeeeEEEeeccCCCCCCCceEEEEEcchhhHHHHhCCCceeEEEEcCe
Q 038800 192 DDRTMFLTFSRGFP---VTRDEVKELFTRMYGDCVESIHMQENVPSNEQPLFARLVLQSVANVDQILSGRRIAKFRINGK 268 (280)
Q Consensus 192 d~Rt~FvTFS~G~P---vse~ei~~fF~~~yGdcve~v~m~~~~~~~~qplfarivf~s~~~v~~vL~g~~~~Kf~Ingk 268 (280)
...+||| ++.| ++++++++.|.. ||++. +|.+-.+ ...||.|.|.+++....++..-+- ..|.||
T Consensus 274 ~~~~l~v---~nL~~~~vt~~~L~~lF~~-yG~V~-~vki~~~-----~~g~afV~f~~~~~A~~Ai~~lng--~~l~g~ 341 (481)
T TIGR01649 274 PGSVLMV---SGLHQEKVNCDRLFNLFCV-YGNVE-RVKFMKN-----KKETALIEMADPYQAQLALTHLNG--VKLFGK 341 (481)
T ss_pred CCCEEEE---eCCCCCCCCHHHHHHHHHh-cCCeE-EEEEEeC-----CCCEEEEEECCHHHHHHHHHHhCC--CEECCc
Confidence 4568887 7876 799999999996 99955 5544331 248999999998887777653221 257898
Q ss_pred eeEEEe
Q 038800 269 HIWARK 274 (280)
Q Consensus 269 ~iWark 274 (280)
.+-+..
T Consensus 342 ~l~v~~ 347 (481)
T TIGR01649 342 PLRVCP 347 (481)
T ss_pred eEEEEE
Confidence 887654
No 36
>KOG0144 consensus RNA-binding protein CUGBP1/BRUNO (RRM superfamily) [RNA processing and modification]
Probab=92.59 E-value=0.18 Score=50.74 Aligned_cols=59 Identities=15% Similarity=0.315 Sum_probs=48.3
Q ss_pred EEccCCCc--CCHHHHHHHHHhhcCCeeeEEEeeccCCCCCCCceEEEEEcchhhHHHHhCCC
Q 038800 198 LTFSRGFP--VTRDEVKELFTRMYGDCVESIHMQENVPSNEQPLFARLVLQSVANVDQILSGR 258 (280)
Q Consensus 198 vTFS~G~P--vse~ei~~fF~~~yGdcve~v~m~~~~~~~~qplfarivf~s~~~v~~vL~g~ 258 (280)
+-|..-.| .||.||+++|++ ||++-|-..+.+ ..++++..|++|.|.+.+.-++..+--
T Consensus 36 KlfVgqIprt~sE~dlr~lFe~-yg~V~einl~kD-k~t~~s~gcCFv~~~trk~a~~a~~Al 96 (510)
T KOG0144|consen 36 KLFVGQIPRTASEKDLRELFEK-YGNVYEINLIKD-KSTGQSKGCCFVKYYTRKEADEAINAL 96 (510)
T ss_pred hheeccCCccccHHHHHHHHHH-hCceeEEEeecc-cccCcccceEEEEeccHHHHHHHHHHh
Confidence 44557777 899999999997 999666666655 788999999999999988888777643
No 37
>KOG4207 consensus Predicted splicing factor, SR protein superfamily [RNA processing and modification]
Probab=91.72 E-value=0.4 Score=44.34 Aligned_cols=60 Identities=15% Similarity=0.457 Sum_probs=46.9
Q ss_pred CcCCHHHHHHHHHhhcCCeeeEEEeeccCCCCCCCceEEEEEcchhhHHHH---hCCCceeEEEEcCeee
Q 038800 204 FPVTRDEVKELFTRMYGDCVESIHMQENVPSNEQPLFARLVLQSVANVDQI---LSGRRIAKFRINGKHI 270 (280)
Q Consensus 204 ~Pvse~ei~~fF~~~yGdcve~v~m~~~~~~~~qplfarivf~s~~~v~~v---L~g~~~~Kf~Ingk~i 270 (280)
|--|.++++--|++ ||. |-+|+|..+.-+.+..+||+|-|+-...+..+ |+| . +++|+.+
T Consensus 23 yRTspd~LrrvFek-YG~-vgDVyIPrdr~Tr~sRgFaFVrf~~k~daedA~damDG-~----~ldgRel 85 (256)
T KOG4207|consen 23 YRTSPDDLRRVFEK-YGR-VGDVYIPRDRYTRQSRGFAFVRFHDKRDAEDALDAMDG-A----VLDGREL 85 (256)
T ss_pred ccCCHHHHHHHHHH-hCc-ccceecccccccccccceeEEEeeecchHHHHHHhhcc-e----eecccee
Confidence 44578999999996 999 78899988777899999999999865444444 445 2 5778777
No 38
>KOG0127 consensus Nucleolar protein fibrillarin NOP77 (RRM superfamily) [RNA processing and modification]
Probab=91.14 E-value=1.1 Score=46.56 Aligned_cols=82 Identities=17% Similarity=0.326 Sum_probs=62.1
Q ss_pred CceEEEEccCCCc--CCHHHHHHHHHhhcCCeeeEEEeeccCCCCCCCceEEEEEcchhhHHHHhCCC----ceeEEEEc
Q 038800 193 DRTMFLTFSRGFP--VTRDEVKELFTRMYGDCVESIHMQENVPSNEQPLFARLVLQSVANVDQILSGR----RIAKFRIN 266 (280)
Q Consensus 193 ~Rt~FvTFS~G~P--vse~ei~~fF~~~yGdcve~v~m~~~~~~~~qplfarivf~s~~~v~~vL~g~----~~~Kf~In 266 (280)
.+|+|| |..| .+|+||.+.|+. ||..=-.+.+-+ ..++.+-+-|+|-|+.+.+-..-+.+. .---+.+.
T Consensus 292 ~~tVFv---RNL~fD~tEEel~~~fsk-FG~v~ya~iV~~-k~T~~skGtAFv~Fkt~~~~~~ci~~Aspa~e~g~~ll~ 366 (678)
T KOG0127|consen 292 GKTVFV---RNLPFDTTEEELKEHFSK-FGEVKYAIIVKD-KDTGHSKGTAFVKFKTQIAAQNCIEAASPASEDGSVLLD 366 (678)
T ss_pred cceEEE---ecCCccccHHHHHHHHHh-hccceeEEEEec-cCCCCcccceEEEeccHHHHHHHHHhcCccCCCceEEEe
Confidence 389988 9988 999999999997 998444445555 468999999999999988755544432 11238899
Q ss_pred CeeeEEEecccCC
Q 038800 267 GKHIWARKYERRD 279 (280)
Q Consensus 267 gk~iWarky~pk~ 279 (280)
|+.+=+-..++|+
T Consensus 367 GR~Lkv~~Av~Rk 379 (678)
T KOG0127|consen 367 GRLLKVTLAVTRK 379 (678)
T ss_pred ccEEeeeeccchH
Confidence 9998877777654
No 39
>KOG0117 consensus Heterogeneous nuclear ribonucleoprotein R (RRM superfamily) [RNA processing and modification]
Probab=91.00 E-value=0.48 Score=47.80 Aligned_cols=67 Identities=22% Similarity=0.247 Sum_probs=48.1
Q ss_pred ccCCCc--CCHHHHHHHHHhhcCCeeeEEEeeccCCCCCCCceEEEEEcchhhHH---HHhCCCceeEEEEcCeeeEE
Q 038800 200 FSRGFP--VTRDEVKELFTRMYGDCVESIHMQENVPSNEQPLFARLVLQSVANVD---QILSGRRIAKFRINGKHIWA 272 (280)
Q Consensus 200 FS~G~P--vse~ei~~fF~~~yGdcve~v~m~~~~~~~~qplfarivf~s~~~v~---~vL~g~~~~Kf~Ingk~iWa 272 (280)
|.+|.| +.|+|+.-+|++ =|.+-|-=.|-+ .-++...+||+|+|.+.+... ..||+.+ .=.||++=+
T Consensus 87 fvGkIPrD~~EdeLvplfEk-iG~I~elRLMmD-~~sG~nRGYAFVtf~~Ke~Aq~Aik~lnn~E----ir~GK~igv 158 (506)
T KOG0117|consen 87 FVGKIPRDVFEDELVPLFEK-IGKIYELRLMMD-PFSGDNRGYAFVTFCTKEEAQEAIKELNNYE----IRPGKLLGV 158 (506)
T ss_pred EecCCCccccchhhHHHHHh-ccceeeEEEeec-ccCCCCcceEEEEeecHHHHHHHHHHhhCcc----ccCCCEeEE
Confidence 349999 999999999997 887666444444 257999999999999865533 3455543 116777643
No 40
>PLN03213 repressor of silencing 3; Provisional
Probab=90.75 E-value=0.92 Score=46.65 Aligned_cols=69 Identities=17% Similarity=0.321 Sum_probs=49.9
Q ss_pred EEccCCCc--CCHHHHHHHHHhhcCCeeeEEEeeccCCCCCCCceEEEEEcch--hhHHH---HhCCCceeEEEEcCeee
Q 038800 198 LTFSRGFP--VTRDEVKELFTRMYGDCVESIHMQENVPSNEQPLFARLVLQSV--ANVDQ---ILSGRRIAKFRINGKHI 270 (280)
Q Consensus 198 vTFS~G~P--vse~ei~~fF~~~yGdcve~v~m~~~~~~~~qplfarivf~s~--~~v~~---vL~g~~~~Kf~Ingk~i 270 (280)
-.|.+|.+ ++++|++..|.+ ||. |.+|.+-+ .+| .+||+|-|.+. +.... .|+|.. ..|+.+
T Consensus 12 RIYVGNLSydVTEDDLravFSe-FGs-VkdVEIpR--ETG--RGFAFVEMssdddaEeeKAISaLNGAE-----WKGR~L 80 (759)
T PLN03213 12 RLHVGGLGESVGRDDLLKIFSP-MGT-VDAVEFVR--TKG--RSFAYIDFSPSSTNSLTKLFSTYNGCV-----WKGGRL 80 (759)
T ss_pred EEEEeCCCCCCCHHHHHHHHHh-cCC-eeEEEEec--ccC--CceEEEEecCCcHHHHHHHHHHhcCCe-----ecCcee
Confidence 44558866 999999999998 999 77777754 334 89999999986 44444 455643 667777
Q ss_pred EEEeccc
Q 038800 271 WARKYER 277 (280)
Q Consensus 271 Warky~p 277 (280)
=+.+..|
T Consensus 81 KVNKAKP 87 (759)
T PLN03213 81 RLEKAKE 87 (759)
T ss_pred EEeeccH
Confidence 6655544
No 41
>KOG0108 consensus mRNA cleavage and polyadenylation factor I complex, subunit RNA15 [RNA processing and modification]
Probab=90.11 E-value=0.64 Score=46.74 Aligned_cols=67 Identities=13% Similarity=0.262 Sum_probs=50.7
Q ss_pred EEEccCCCc--CCHHHHHHHHHhhcCCeeeEEEeeccCCCCCCCceEEEEEcchhhHH---HHhCCCceeEEEEcCeee
Q 038800 197 FLTFSRGFP--VTRDEVKELFTRMYGDCVESIHMQENVPSNEQPLFARLVLQSVANVD---QILSGRRIAKFRINGKHI 270 (280)
Q Consensus 197 FvTFS~G~P--vse~ei~~fF~~~yGdcve~v~m~~~~~~~~qplfarivf~s~~~v~---~vL~g~~~~Kf~Ingk~i 270 (280)
+..|+++.| ++|++|.+.|.+ .|..+.-=.+.+ ..+|+.++||++-|.+.++.. +.|||.+ ++|+.+
T Consensus 19 ~~v~vgnip~~~se~~l~~~~~~-~g~v~s~~~v~D-~~tG~~~G~~f~~~~~~~~~~~a~~~lNg~~-----~~gr~l 90 (435)
T KOG0108|consen 19 SSVFVGNIPYEGSEEQLLSIFSG-VGPVLSFRLVYD-RETGKPKGFGFCEFTDEETAERAIRNLNGAE-----FNGRKL 90 (435)
T ss_pred cceEecCCCCcccHHHHHHHHhc-cCccceeeeccc-ccCCCcCceeeEecCchhhHHHHHHhcCCcc-----cCCceE
Confidence 445559988 999999999996 998555445555 789999999999999876644 4566644 566555
No 42
>KOG4212 consensus RNA-binding protein hnRNP-M [RNA processing and modification]
Probab=89.09 E-value=1.5 Score=44.60 Aligned_cols=84 Identities=23% Similarity=0.395 Sum_probs=67.7
Q ss_pred CCCCCCCCCCCceEEEEccCCCc--CCHHHHHHHHHhhcCCeeeEEEeeccCCCCCCCceEEEEEcchhhHHHHhCCCce
Q 038800 183 WNPTNNASEDDRTMFLTFSRGFP--VTRDEVKELFTRMYGDCVESIHMQENVPSNEQPLFARLVLQSVANVDQILSGRRI 260 (280)
Q Consensus 183 ~~~~~~~~~d~Rt~FvTFS~G~P--vse~ei~~fF~~~yGdcve~v~m~~~~~~~~qplfarivf~s~~~v~~vL~g~~~ 260 (280)
..+..-++..+|++||| ..| +.=++++++|.++-|. |+-|..-. ...+.+...|.|-|+.++-+...|.- .
T Consensus 34 gs~~gn~~~r~R~vfIt---NIpyd~rWqdLKdLvrekvGe-v~yveLl~-D~~GK~rGcavVEFk~~E~~qKa~E~--l 106 (608)
T KOG4212|consen 34 GSQGGNVAARDRSVFIT---NIPYDYRWQDLKDLVREKVGE-VEYVELLF-DESGKARGCAVVEFKDPENVQKALEK--L 106 (608)
T ss_pred cCCCCCcccccceEEEe---cCcchhhhHhHHHHHHHhcCc-eEeeeeec-ccCCCcCCceEEEeeCHHHHHHHHHH--h
Confidence 34455678999999997 444 7788999999999997 56655555 35799999999999999999988864 5
Q ss_pred eEEEEcCeeeEEE
Q 038800 261 AKFRINGKHIWAR 273 (280)
Q Consensus 261 ~Kf~Ingk~iWar 273 (280)
.|+.+||+.+=++
T Consensus 107 nk~~~~GR~l~vK 119 (608)
T KOG4212|consen 107 NKYEVNGRELVVK 119 (608)
T ss_pred hhccccCceEEEe
Confidence 5889999988765
No 43
>KOG0129 consensus Predicted RNA-binding protein (RRM superfamily) [Translation, ribosomal structure and biogenesis]
Probab=87.34 E-value=2.1 Score=43.93 Aligned_cols=63 Identities=17% Similarity=0.301 Sum_probs=46.4
Q ss_pred CCCCCceEEEEccCCCc--CCHHHHHHHHHhhcCC-eeeEEEeeccCCCCCCCceEEEEEcchhhHHHHhC
Q 038800 189 ASEDDRTMFLTFSRGFP--VTRDEVKELFTRMYGD-CVESIHMQENVPSNEQPLFARLVLQSVANVDQILS 256 (280)
Q Consensus 189 ~~~d~Rt~FvTFS~G~P--vse~ei~~fF~~~yGd-cve~v~m~~~~~~~~qplfarivf~s~~~v~~vL~ 256 (280)
.-+--||+|| +|.| ++.+|+-..|.+.||- |-..|.+. ..-+=|-+=|||+|.....--+.+.
T Consensus 366 ~lDprrTVFV---Ggvprpl~A~eLA~imd~lyGgV~yaGIDtD--~k~KYPkGaGRVtFsnqqsYi~AIs 431 (520)
T KOG0129|consen 366 PIDPRRTVFV---GGLPRPLTAEELAMIMEDLFGGVLYVGIDTD--PKLKYPKGAGRVTFSNQQAYIKAIS 431 (520)
T ss_pred ccCccceEEe---cCCCCcchHHHHHHHHHHhcCceEEEEeccC--cccCCCCCcceeeecccHHHHHHHh
Confidence 3455689988 9987 9999999999999996 44555553 1345666679999998776444443
No 44
>KOG0122 consensus Translation initiation factor 3, subunit g (eIF-3g) [Translation, ribosomal structure and biogenesis]
Probab=86.81 E-value=1.3 Score=41.81 Aligned_cols=51 Identities=20% Similarity=0.385 Sum_probs=42.3
Q ss_pred CCHHHHHHHHHhhcCCeeeEEEeeccCCCCCCCceEEEEEcchhhHHH---HhCCC
Q 038800 206 VTRDEVKELFTRMYGDCVESIHMQENVPSNEQPLFARLVLQSVANVDQ---ILSGR 258 (280)
Q Consensus 206 vse~ei~~fF~~~yGdcve~v~m~~~~~~~~qplfarivf~s~~~v~~---vL~g~ 258 (280)
.+|+|++|.|.. ||. |-+|++-.+..+|...+||+|.|.|-+-..+ .|+|.
T Consensus 201 ~~E~dL~eLf~~-fg~-i~rvylardK~TG~~kGFAFVtF~sRddA~rAI~~LnG~ 254 (270)
T KOG0122|consen 201 MREDDLEELFRP-FGP-ITRVYLARDKETGLSKGFAFVTFESRDDAARAIADLNGY 254 (270)
T ss_pred cChhHHHHHhhc-cCc-cceeEEEEccccCcccceEEEEEecHHHHHHHHHHccCc
Confidence 789999999996 999 7899988877899999999999998655443 45553
No 45
>KOG0131 consensus Splicing factor 3b, subunit 4 [RNA processing and modification]
Probab=86.71 E-value=1.3 Score=40.10 Aligned_cols=75 Identities=20% Similarity=0.395 Sum_probs=57.7
Q ss_pred CCCceEEEEccCCCc--CCHHHHHHHHHhhcCCeeeEEEeeccCCCCCCCceEEEEEcchhhHH---HHhCCCceeEEEE
Q 038800 191 EDDRTMFLTFSRGFP--VTRDEVKELFTRMYGDCVESIHMQENVPSNEQPLFARLVLQSVANVD---QILSGRRIAKFRI 265 (280)
Q Consensus 191 ~d~Rt~FvTFS~G~P--vse~ei~~fF~~~yGdcve~v~m~~~~~~~~qplfarivf~s~~~v~---~vL~g~~~~Kf~I 265 (280)
..+-|+|+ .|.+ +|++-+.|.|.+ -|+ |.+++|.++...+.+.+||++-|.+++..| .|||+ + ..
T Consensus 7 nqd~tiyv---gnld~kvs~~~l~EL~iq-agp-Vv~i~iPkDrv~~~~qGygF~Ef~~eedadYAikiln~---V--kL 76 (203)
T KOG0131|consen 7 NQDATLYV---GNLDEKVSEELLYELFIQ-AGP-VVNLHIPKDRVTQKHQGYGFAEFRTEEDADYAIKILNM---V--KL 76 (203)
T ss_pred CCCceEEE---ecCCHHHHHHHHHHHHHh-cCc-eeeeecchhhhcccccceeEEEEechhhhHHHHHHHHH---H--Hh
Confidence 34568888 7877 999999999997 788 779999997778889999999999988866 35553 1 24
Q ss_pred cCeeeEEEec
Q 038800 266 NGKHIWARKY 275 (280)
Q Consensus 266 ngk~iWarky 275 (280)
-||.|-++|-
T Consensus 77 YgrpIrv~ka 86 (203)
T KOG0131|consen 77 YGRPIRVNKA 86 (203)
T ss_pred cCceeEEEec
Confidence 4565555543
No 46
>KOG1457 consensus RNA binding protein (contains RRM repeats) [General function prediction only]
Probab=86.65 E-value=4.2 Score=38.19 Aligned_cols=60 Identities=27% Similarity=0.394 Sum_probs=43.1
Q ss_pred CCCCceEEEEccCCCc--CCHHHHHHHHHhhcC--CeeeEEEeeccCCCCCC--CceEEEEEcchhh---HHHHhCC
Q 038800 190 SEDDRTMFLTFSRGFP--VTRDEVKELFTRMYG--DCVESIHMQENVPSNEQ--PLFARLVLQSVAN---VDQILSG 257 (280)
Q Consensus 190 ~~d~Rt~FvTFS~G~P--vse~ei~~fF~~~yG--dcve~v~m~~~~~~~~q--plfarivf~s~~~---v~~vL~g 257 (280)
+..-||+|| -|.| |.--||...|.+.-| .| -+-|- ..+.| .-+|+++|.|.+. +-..|||
T Consensus 31 ~~~VRTLFV---SGLP~DvKpREiynLFR~f~GYEgs--lLK~T---sk~~~~~~pvaFatF~s~q~A~aamnaLNG 99 (284)
T KOG1457|consen 31 PGAVRTLFV---SGLPNDVKPREIYNLFRRFHGYEGS--LLKYT---SKGDQVCKPVAFATFTSHQFALAAMNALNG 99 (284)
T ss_pred ccccceeee---ccCCcccCHHHHHHHhccCCCccce--eeeec---cCCCccccceEEEEecchHHHHHHHHHhcC
Confidence 444899998 8999 899999999999888 34 33342 22332 2689999998766 4455666
No 47
>KOG0114 consensus Predicted RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=86.04 E-value=2.7 Score=35.29 Aligned_cols=56 Identities=25% Similarity=0.536 Sum_probs=43.9
Q ss_pred CCCCCCCceEEEEccCCCc--CCHHHHHHHHHhhcCCeeeEEEeeccCCCCCCCceEEEEEcchhh
Q 038800 187 NNASEDDRTMFLTFSRGFP--VTRDEVKELFTRMYGDCVESIHMQENVPSNEQPLFARLVLQSVAN 250 (280)
Q Consensus 187 ~~~~~d~Rt~FvTFS~G~P--vse~ei~~fF~~~yGdcve~v~m~~~~~~~~qplfarivf~s~~~ 250 (280)
...||-.|-+|| +..| ||.||+.+.|-+ ||. |.-|-+-. ..+-.+=|+||.....-
T Consensus 12 rlppevnriLyi---rNLp~~ITseemydlFGk-yg~-IrQIRiG~---~k~TrGTAFVVYedi~d 69 (124)
T KOG0114|consen 12 RLPPEVNRILYI---RNLPFKITSEEMYDLFGK-YGT-IRQIRIGN---TKETRGTAFVVYEDIFD 69 (124)
T ss_pred CCChhhheeEEE---ecCCccccHHHHHHHhhc-ccc-eEEEEecC---ccCcCceEEEEehHhhh
Confidence 346788898888 9988 999999999997 998 55666633 46777889999876443
No 48
>KOG0148 consensus Apoptosis-promoting RNA-binding protein TIA-1/TIAR (RRM superfamily) [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=82.42 E-value=5.2 Score=38.47 Aligned_cols=87 Identities=14% Similarity=0.466 Sum_probs=60.6
Q ss_pred CCCCCCCCCCCCCceEEEEccCCCc--CCHHHHHHHHHhhcCCeeeEEEeeccCCCCCCCceEEEEEcchhhHHHHh---
Q 038800 181 WGWNPTNNASEDDRTMFLTFSRGFP--VTRDEVKELFTRMYGDCVESIHMQENVPSNEQPLFARLVLQSVANVDQIL--- 255 (280)
Q Consensus 181 ~~~~~~~~~~~d~Rt~FvTFS~G~P--vse~ei~~fF~~~yGdcve~v~m~~~~~~~~qplfarivf~s~~~v~~vL--- 255 (280)
|+..|.....++-|.-|=-|..-+- |+-+.+++=|+. ||++-|+=.+.+ ..++..-+||+|-|-..+-.....
T Consensus 47 wa~~p~nQsk~t~~~hfhvfvgdls~eI~~e~lr~aF~p-FGevS~akvirD-~~T~KsKGYgFVSf~~k~dAEnAI~~M 124 (321)
T KOG0148|consen 47 WATAPGNQSKPTSNQHFHVFVGDLSPEIDNEKLREAFAP-FGEVSDAKVIRD-MNTGKSKGYGFVSFPNKEDAENAIQQM 124 (321)
T ss_pred cccCcccCCCCccccceeEEehhcchhcchHHHHHHhcc-ccccccceEeec-ccCCcccceeEEeccchHHHHHHHHHh
Confidence 3444433334444545454554433 999999999997 999888888888 688999999999998766555443
Q ss_pred CCCceeEEEEcCeee---EEEe
Q 038800 256 SGRRIAKFRINGKHI---WARK 274 (280)
Q Consensus 256 ~g~~~~Kf~Ingk~i---Wark 274 (280)
|| . +|.+|.| ||-+
T Consensus 125 nG-q----WlG~R~IRTNWATR 141 (321)
T KOG0148|consen 125 NG-Q----WLGRRTIRTNWATR 141 (321)
T ss_pred CC-e----eeccceeecccccc
Confidence 44 3 6777776 7643
No 49
>KOG0129 consensus Predicted RNA-binding protein (RRM superfamily) [Translation, ribosomal structure and biogenesis]
Probab=82.38 E-value=3.2 Score=42.57 Aligned_cols=68 Identities=21% Similarity=0.311 Sum_probs=46.2
Q ss_pred ceEEEEccCCCc--CCHHHHHHHHHhhcCCeeeEEEeeccCC-CCCC-C---ceEEEEEcchhhHHHHhC----CCceeE
Q 038800 194 RTMFLTFSRGFP--VTRDEVKELFTRMYGDCVESIHMQENVP-SNEQ-P---LFARLVLQSVANVDQILS----GRRIAK 262 (280)
Q Consensus 194 Rt~FvTFS~G~P--vse~ei~~fF~~~yGdcve~v~m~~~~~-~~~q-p---lfarivf~s~~~v~~vL~----g~~~~K 262 (280)
|-.+..|.+|.| |+|++|...|-+ ||.|...=--.. .. ...+ - +|..+||..+..|..+|. +..+..
T Consensus 257 ~~S~KVFvGGlp~dise~~i~~~F~~-FGs~~VdWP~k~-~~~~~~ppkGs~~YvflvFe~E~sV~~Ll~aC~~~~~~~y 334 (520)
T KOG0129|consen 257 RYSRKVFVGGLPWDITEAQINASFGQ-FGSVKVDWPGKA-NSRGRAPPKGSYGYVFLVFEDERSVQSLLSACSEGEGNYY 334 (520)
T ss_pred ccccceeecCCCccccHHHHHhhccc-ccceEeecCCCc-cccccCCCCCcccEEEEEecchHHHHHHHHHHhhcccceE
Confidence 345566779999 999999999997 998743322101 11 1112 2 399999999999888776 445555
Q ss_pred E
Q 038800 263 F 263 (280)
Q Consensus 263 f 263 (280)
|
T Consensus 335 f 335 (520)
T KOG0129|consen 335 F 335 (520)
T ss_pred E
Confidence 5
No 50
>KOG4454 consensus RNA binding protein (RRM superfamily) [General function prediction only]
Probab=81.79 E-value=1.4 Score=41.24 Aligned_cols=65 Identities=26% Similarity=0.371 Sum_probs=48.2
Q ss_pred CCCCCCceEEEE-ccCCCcCCHHHHHHHHHhhcCCeeeEEEeeccCCCCCCCceEEEEEcchh---hHHHHhCCC
Q 038800 188 NASEDDRTMFLT-FSRGFPVTRDEVKELFTRMYGDCVESIHMQENVPSNEQPLFARLVLQSVA---NVDQILSGR 258 (280)
Q Consensus 188 ~~~~d~Rt~FvT-FS~G~Pvse~ei~~fF~~~yGdcve~v~m~~~~~~~~qplfarivf~s~~---~v~~vL~g~ 258 (280)
..+|.|||+||. |+. .|||+=+.|.|-. =|+ |..|.+.+ ..-++|+ ||.+-|..+- .+-.++||-
T Consensus 4 aaae~drtl~v~n~~~--~v~eelL~Elfiq-aGP-V~kv~ip~-~~d~~~k-Fa~v~f~~E~sv~~a~~L~ng~ 72 (267)
T KOG4454|consen 4 AAAEMDRTLLVQNMYS--GVSEELLSELFIQ-AGP-VYKVGIPS-GQDQEQK-FAYVFFPNENSVQLAGQLENGD 72 (267)
T ss_pred CCcchhhHHHHHhhhh--hhhHHHHHHHhhc-cCc-eEEEeCCC-CccCCCc-eeeeecccccchhhhhhhcccc
Confidence 468899999882 222 2899999999997 677 67888888 4556666 9999999554 455666663
No 51
>KOG0105 consensus Alternative splicing factor ASF/SF2 (RRM superfamily) [RNA processing and modification]
Probab=80.95 E-value=4.1 Score=37.33 Aligned_cols=61 Identities=21% Similarity=0.589 Sum_probs=47.2
Q ss_pred CCCceEEEEccCCCc--CCHHHHHHHHHhhcCCeeeEEEeeccCCCCCCCceEEEEEcchhhHHHHhCCCc
Q 038800 191 EDDRTMFLTFSRGFP--VTRDEVKELFTRMYGDCVESIHMQENVPSNEQPLFARLVLQSVANVDQILSGRR 259 (280)
Q Consensus 191 ~d~Rt~FvTFS~G~P--vse~ei~~fF~~~yGdcve~v~m~~~~~~~~qplfarivf~s~~~v~~vL~g~~ 259 (280)
..++++++ ...| |-|-||.+.|-+ ||. |..|.... ...+|-||+|-|..+.-.+...-|..
T Consensus 4 r~~~~iyv---GNLP~diRekeieDlFyK-yg~-i~~ieLK~---r~g~ppfafVeFEd~RDAeDAiygRd 66 (241)
T KOG0105|consen 4 RNSRRIYV---GNLPGDIREKEIEDLFYK-YGR-IREIELKN---RPGPPPFAFVEFEDPRDAEDAIYGRD 66 (241)
T ss_pred cccceEEe---cCCCcchhhccHHHHHhh-hcc-eEEEEecc---CCCCCCeeEEEecCccchhhhhhccc
Confidence 45677776 7788 999999999996 999 55566644 47889999999998777776666543
No 52
>PF15513 DUF4651: Domain of unknown function (DUF4651)
Probab=80.83 E-value=2.9 Score=31.50 Aligned_cols=36 Identities=19% Similarity=0.505 Sum_probs=31.9
Q ss_pred HHHHHHHHhhcCCeeeEEEeeccCCCCCCCceEEEEEcc
Q 038800 209 DEVKELFTRMYGDCVESIHMQENVPSNEQPLFARLVLQS 247 (280)
Q Consensus 209 ~ei~~fF~~~yGdcve~v~m~~~~~~~~qplfarivf~s 247 (280)
+|||+||.. .|+ |+.++++. -.++...+=|=+||..
T Consensus 9 ~~iR~~fs~-lG~-I~vLYvn~-~eS~~~~~~GGvV~eD 44 (62)
T PF15513_consen 9 AEIRQFFSQ-LGE-IAVLYVNP-YESDEDRLTGGVVMED 44 (62)
T ss_pred HHHHHHHHh-cCc-EEEEEEcc-cccCCCeEeccEEEeC
Confidence 689999997 999 99999988 6889999999999864
No 53
>KOG0121 consensus Nuclear cap-binding protein complex, subunit CBP20 (RRM superfamily) [RNA processing and modification]
Probab=79.01 E-value=4.8 Score=34.94 Aligned_cols=59 Identities=22% Similarity=0.327 Sum_probs=46.5
Q ss_pred CCceEEEEccCC--CcCCHHHHHHHHHhhcCCeeeEEEeeccCCCCCCCceEEEEEcchhhHHHHh
Q 038800 192 DDRTMFLTFSRG--FPVTRDEVKELFTRMYGDCVESIHMQENVPSNEQPLFARLVLQSVANVDQIL 255 (280)
Q Consensus 192 d~Rt~FvTFS~G--~Pvse~ei~~fF~~~yGdcve~v~m~~~~~~~~qplfarivf~s~~~v~~vL 255 (280)
..-|+|| .. +-.+|++|.|.|.+ .|+ |-+|.|-=+.-...+=+|++|.|.|.+.....|
T Consensus 35 ~S~tvyV---gNlSfyttEEqiyELFs~-cG~-irriiMGLdr~kktpCGFCFVeyy~~~dA~~Al 95 (153)
T KOG0121|consen 35 KSCTVYV---GNLSFYTTEEQIYELFSK-CGD-IRRIIMGLDRFKKTPCGFCFVEYYSRDDAEDAL 95 (153)
T ss_pred hcceEEE---eeeeeeecHHHHHHHHHh-ccc-hheeEeccccCCcCccceEEEEEecchhHHHHH
Confidence 3447877 33 33899999999997 999 899999876667889999999999866644443
No 54
>KOG4211 consensus Splicing factor hnRNP-F and related RNA-binding proteins [RNA processing and modification]
Probab=77.64 E-value=4.1 Score=41.65 Aligned_cols=63 Identities=22% Similarity=0.318 Sum_probs=46.1
Q ss_pred CCCc--CCHHHHHHHHHhhcCCeeeE-EEeeccCCCCCCCceEEEEEcchhhHHHHhCCCceeEEEEcCeee
Q 038800 202 RGFP--VTRDEVKELFTRMYGDCVES-IHMQENVPSNEQPLFARLVLQSVANVDQILSGRRIAKFRINGKHI 270 (280)
Q Consensus 202 ~G~P--vse~ei~~fF~~~yGdcve~-v~m~~~~~~~~qplfarivf~s~~~v~~vL~g~~~~Kf~Ingk~i 270 (280)
||.| +||+||.+||.-. +.|.. +.+-. ...+++.+=|.|.|.|++.+...|...+ ..|+.+=|
T Consensus 109 RGLPfscte~dI~~FFaGL--~Iv~~gi~l~~-d~rgR~tGEAfVqF~sqe~ae~Al~rhr---e~iGhRYI 174 (510)
T KOG4211|consen 109 RGLPFSCTEEDIVEFFAGL--EIVPDGILLPM-DQRGRPTGEAFVQFESQESAEIALGRHR---ENIGHRYI 174 (510)
T ss_pred cCCCccCcHHHHHHHhcCC--cccccceeeec-cCCCCcccceEEEecCHHHHHHHHHHHH---HhhccceE
Confidence 9999 9999999999841 55555 33433 3457788899999999999999998532 24554443
No 55
>TIGR03147 cyt_nit_nrfF cytochrome c nitrite reductase, accessory protein NrfF.
Probab=77.00 E-value=1.8 Score=36.75 Aligned_cols=22 Identities=14% Similarity=0.380 Sum_probs=18.2
Q ss_pred CCHHHHHHHHHhhcCCeeeEEEeec
Q 038800 206 VTRDEVKELFTRMYGDCVESIHMQE 230 (280)
Q Consensus 206 vse~ei~~fF~~~yGdcve~v~m~~ 230 (280)
-|++||++||..+||| -|.++-
T Consensus 74 ~Sd~eI~~~~v~RYG~---~Vly~P 95 (126)
T TIGR03147 74 KSNQQIIDFMTARFGD---FVLYNP 95 (126)
T ss_pred CCHHHHHHHHHHhcCC---eEEecC
Confidence 5899999999999999 555544
No 56
>PF05172 Nup35_RRM: Nup53/35/40-type RNA recognition motif; InterPro: IPR007846 The MPPN (Mitotic PhosphoProtein N end) family is uncharacterised however it probably plays a role in the cell cycle because the family includes mitotic phosphoproteins O13026 from SWISSPROT []. This family also includes Q05166 from SWISSPROT a suppressor of thermosensitive mutations in the DNA polymerase delta gene, Pol III []. The conserved central region appears to be distantly related to the RNA-binding region RNP-1 (RNA recognition motif, IPR000504 from INTERPRO), suggesting an RNA binding function for this protein.; PDB: 1WWH_C 3P3D_A.
Probab=76.69 E-value=4.7 Score=32.73 Aligned_cols=54 Identities=17% Similarity=0.373 Sum_probs=37.8
Q ss_pred CCc-CCHHHHHHHHHhhcCCeeeEEEeecc------CCCCCCCceEEEEEcchhhHHHHhCC
Q 038800 203 GFP-VTRDEVKELFTRMYGDCVESIHMQEN------VPSNEQPLFARLVLQSVANVDQILSG 257 (280)
Q Consensus 203 G~P-vse~ei~~fF~~~yGdcve~v~m~~~------~~~~~qplfarivf~s~~~v~~vL~g 257 (280)
||| -....|.++|.+ ||+++|.+.+-+. .+.....-.-+|.|++.....+.|.-
T Consensus 13 Gfp~~~~~~Vl~~F~~-~G~Ile~~~~~~~~~~~~~~~~~~~~NWi~I~Y~~~~~A~rAL~~ 73 (100)
T PF05172_consen 13 GFPPSASNQVLRHFSS-FGTILEHFEVLRSSSGINPYPIPSGGNWIHITYDNPLSAQRALQK 73 (100)
T ss_dssp ---GGGHHHHHHHHHC-CS-EECEEGGG----------E-CCTTEEEEEESSHHHHHHHHTT
T ss_pred ccCHHHHHHHHHHHHh-cceEEEeecccccccccccccCCCCCCEEEEECCCHHHHHHHHHh
Confidence 788 556788899997 9999999844331 12457788999999999999999984
No 57
>KOG0127 consensus Nucleolar protein fibrillarin NOP77 (RRM superfamily) [RNA processing and modification]
Probab=76.21 E-value=3.5 Score=42.90 Aligned_cols=72 Identities=18% Similarity=0.350 Sum_probs=53.7
Q ss_pred ceEEEEccCCCc--CCHHHHHHHHHhhcCCeeeEEEeeccCCCCCCCceEEEEEcchhhHHHHhCCCceeEEEEcCeeeE
Q 038800 194 RTMFLTFSRGFP--VTRDEVKELFTRMYGDCVESIHMQENVPSNEQPLFARLVLQSVANVDQILSGRRIAKFRINGKHIW 271 (280)
Q Consensus 194 Rt~FvTFS~G~P--vse~ei~~fF~~~yGdcve~v~m~~~~~~~~qplfarivf~s~~~v~~vL~g~~~~Kf~Ingk~iW 271 (280)
-|||| ++.| ++.+++.+||.. .|++=-.|.+-+ .+.++-++||.|.|.-.+-+.+.|.-.+.- ..+|+.+=
T Consensus 6 ~TlfV---~~lp~~~~~~qL~e~FS~-vGPik~~~vVt~-~gs~~~RGfgfVtFam~ED~qrA~~e~~~~--kf~Gr~l~ 78 (678)
T KOG0127|consen 6 ATLFV---SRLPFSSTGEQLEEFFSY-VGPIKHAVVVTN-KGSSEKRGFGFVTFAMEEDVQRALAETEQS--KFEGRILN 78 (678)
T ss_pred ceEEE---ecCCCccchhHHHHhhhc-ccCcceeEEecC-CCcccccCccceeeehHhHHHHHHHHhhcC--cccceecc
Confidence 58888 5555 999999999997 887555666666 567899999999999999999888743322 24555543
Q ss_pred E
Q 038800 272 A 272 (280)
Q Consensus 272 a 272 (280)
+
T Consensus 79 v 79 (678)
T KOG0127|consen 79 V 79 (678)
T ss_pred c
Confidence 3
No 58
>KOG0123 consensus Polyadenylate-binding protein (RRM superfamily) [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=75.48 E-value=6.4 Score=38.69 Aligned_cols=65 Identities=22% Similarity=0.254 Sum_probs=50.0
Q ss_pred eEEEEccCCCcCCHHHHHHHHHhhcCCeeeEEEeeccCCCCCCCceEEEEEcchhhHHHHhCCCceeEEEEcCeee
Q 038800 195 TMFLTFSRGFPVTRDEVKELFTRMYGDCVESIHMQENVPSNEQPLFARLVLQSVANVDQILSGRRIAKFRINGKHI 270 (280)
Q Consensus 195 t~FvTFS~G~Pvse~ei~~fF~~~yGdcve~v~m~~~~~~~~qplfarivf~s~~~v~~vL~g~~~~Kf~Ingk~i 270 (280)
++|++ .-+||+.+++.|+. +|. |.+|-+=++. + .-+||.+-|.+++-..+.|.-.+ .=.|+||.+
T Consensus 3 sl~vg----~~v~e~~l~~~f~~-~~~-v~s~rvc~d~-t--slgy~yvnf~~~~da~~A~~~~n--~~~~~~~~~ 67 (369)
T KOG0123|consen 3 SLYVG----PDVTEAMLFDKFSP-AGP-VLSIRVCRDA-T--SLGYAYVNFQQPADAERALDTMN--FDVLKGKPI 67 (369)
T ss_pred ceecC----CcCChHHHHHHhcc-cCC-ceeEEEeecC-C--ccceEEEecCCHHHHHHHHHHcC--CcccCCcEE
Confidence 46665 44999999999997 999 6677666644 4 99999999999999888887311 116788876
No 59
>PRK10144 formate-dependent nitrite reductase complex subunit NrfF; Provisional
Probab=73.54 E-value=2.5 Score=35.91 Aligned_cols=22 Identities=23% Similarity=0.353 Sum_probs=18.3
Q ss_pred CCHHHHHHHHHhhcCCeeeEEEeec
Q 038800 206 VTRDEVKELFTRMYGDCVESIHMQE 230 (280)
Q Consensus 206 vse~ei~~fF~~~yGdcve~v~m~~ 230 (280)
-|++||++||..+||| -|.++-
T Consensus 74 ~sd~eI~~~~v~RYG~---~Vl~~P 95 (126)
T PRK10144 74 KSEVEIIGWMTERYGD---FVRYNP 95 (126)
T ss_pred CCHHHHHHHHHHhcCC---eEEecC
Confidence 5899999999999999 555544
No 60
>KOG0148 consensus Apoptosis-promoting RNA-binding protein TIA-1/TIAR (RRM superfamily) [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=73.44 E-value=16 Score=35.17 Aligned_cols=67 Identities=13% Similarity=0.413 Sum_probs=49.1
Q ss_pred CCCCCCceEEEEccCCCc--CCHHHHHHHHHhhcCCeeeEEEeeccCCCCCCCceEEEEEcchhhHHHHh---CCCceeE
Q 038800 188 NASEDDRTMFLTFSRGFP--VTRDEVKELFTRMYGDCVESIHMQENVPSNEQPLFARLVLQSVANVDQIL---SGRRIAK 262 (280)
Q Consensus 188 ~~~~d~Rt~FvTFS~G~P--vse~ei~~fF~~~yGdcve~v~m~~~~~~~~qplfarivf~s~~~v~~vL---~g~~~~K 262 (280)
..++|.-|+|+ +|.+ ++|+++++-|.. ||+ |..|.+=++ -.|++|=|.+.+...+.. ||.
T Consensus 159 Qssp~NtsVY~---G~I~~~lte~~mr~~Fs~-fG~-I~EVRvFk~------qGYaFVrF~tkEaAahAIv~mNnt---- 223 (321)
T KOG0148|consen 159 QSSPDNTSVYV---GNIASGLTEDLMRQTFSP-FGP-IQEVRVFKD------QGYAFVRFETKEAAAHAIVQMNNT---- 223 (321)
T ss_pred cCCCCCceEEe---CCcCccccHHHHHHhccc-CCc-ceEEEEecc------cceEEEEecchhhHHHHHHHhcCc----
Confidence 35778889988 8877 999999999997 999 555666552 379999999876644433 232
Q ss_pred EEEcCeee
Q 038800 263 FRINGKHI 270 (280)
Q Consensus 263 f~Ingk~i 270 (280)
.|+|..+
T Consensus 224 -ei~G~~V 230 (321)
T KOG0148|consen 224 -EIGGQLV 230 (321)
T ss_pred -eeCceEE
Confidence 4666554
No 61
>KOG0125 consensus Ataxin 2-binding protein (RRM superfamily) [General function prediction only]
Probab=73.14 E-value=7.9 Score=38.05 Aligned_cols=76 Identities=13% Similarity=0.365 Sum_probs=51.6
Q ss_pred CCCCceEEEEccCCCc--CCHHHHHHHHHhhcCCeeeEEEeeccCCCCCCCceEEEEEcchhhHHHH---hCCCceeEEE
Q 038800 190 SEDDRTMFLTFSRGFP--VTRDEVKELFTRMYGDCVESIHMQENVPSNEQPLFARLVLQSVANVDQI---LSGRRIAKFR 264 (280)
Q Consensus 190 ~~d~Rt~FvTFS~G~P--vse~ei~~fF~~~yGdcve~v~m~~~~~~~~qplfarivf~s~~~v~~v---L~g~~~~Kf~ 264 (280)
+.-.|-+.| -..| .-+.|++.-|.+ ||.++ +|.+=- ++ --.-+||+|+|.+.+.-|+. |.| . .
T Consensus 93 ~~~pkRLhV---SNIPFrFRdpDL~aMF~k-fG~Vl-dVEIIf-NE-RGSKGFGFVTmen~~dadRARa~LHg-t----~ 160 (376)
T KOG0125|consen 93 KDTPKRLHV---SNIPFRFRDPDLRAMFEK-FGKVL-DVEIIF-NE-RGSKGFGFVTMENPADADRARAELHG-T----V 160 (376)
T ss_pred CCCCceeEe---ecCCccccCccHHHHHHh-hCcee-eEEEEe-cc-CCCCccceEEecChhhHHHHHHHhhc-c----e
Confidence 444456655 3445 678999999996 99733 333322 11 33568999999999887776 445 3 6
Q ss_pred EcCeeeEEEeccc
Q 038800 265 INGKHIWARKYER 277 (280)
Q Consensus 265 Ingk~iWarky~p 277 (280)
|.||.|.++..-+
T Consensus 161 VEGRkIEVn~ATa 173 (376)
T KOG0125|consen 161 VEGRKIEVNNATA 173 (376)
T ss_pred eeceEEEEeccch
Confidence 8999998877654
No 62
>KOG4206 consensus Spliceosomal protein snRNP-U1A/U2B [RNA processing and modification]
Probab=73.08 E-value=15 Score=34.17 Aligned_cols=57 Identities=21% Similarity=0.412 Sum_probs=43.1
Q ss_pred ceEEEEccCCCc--CCHHHHHH----HHHhhcCCeeeEEEeeccCCCCCCCceEEEEEcchhhHHH---HhCCC
Q 038800 194 RTMFLTFSRGFP--VTRDEVKE----LFTRMYGDCVESIHMQENVPSNEQPLFARLVLQSVANVDQ---ILSGR 258 (280)
Q Consensus 194 Rt~FvTFS~G~P--vse~ei~~----fF~~~yGdcve~v~m~~~~~~~~qplfarivf~s~~~v~~---vL~g~ 258 (280)
+|++| +.++ |..+|++. .|.+ ||. |-.|.+-+ +...++=|.|||++.++-.. -|+|.
T Consensus 10 ~TlYI---nnLnekI~~~elkrsL~~LFsq-fG~-ildI~a~k---t~KmRGQA~VvFk~~~~As~A~r~l~gf 75 (221)
T KOG4206|consen 10 GTLYI---NNLNEKIKKDELKRSLYLLFSQ-FGK-ILDISAFK---TPKMRGQAFVVFKETEAASAALRALQGF 75 (221)
T ss_pred ceEee---hhccccccHHHHHHHHHHHHHh-hCC-eEEEEecC---CCCccCceEEEecChhHHHHHHHHhcCC
Confidence 38988 8866 99999998 9997 998 55666655 46777889999998666444 45563
No 63
>KOG0107 consensus Alternative splicing factor SRp20/9G8 (RRM superfamily) [RNA processing and modification]
Probab=73.01 E-value=10 Score=34.37 Aligned_cols=56 Identities=20% Similarity=0.468 Sum_probs=42.4
Q ss_pred ceEEEEccCCCc--CCHHHHHHHHHhhcCCeeeEEEeeccCCCCCCCceEEEEEcch---hhHHHHhCCCc
Q 038800 194 RTMFLTFSRGFP--VTRDEVKELFTRMYGDCVESIHMQENVPSNEQPLFARLVLQSV---ANVDQILSGRR 259 (280)
Q Consensus 194 Rt~FvTFS~G~P--vse~ei~~fF~~~yGdcve~v~m~~~~~~~~qplfarivf~s~---~~v~~vL~g~~ 259 (280)
.-+|| .+.+ .++.||..-|.. ||. +-.|-|-. .+|.||+|-|..+ +-.-+.|+|..
T Consensus 11 ~kVYV---GnL~~~a~k~eLE~~F~~-yG~-lrsvWvAr-----nPPGfAFVEFed~RDA~DAvr~LDG~~ 71 (195)
T KOG0107|consen 11 TKVYV---GNLGSRATKRELERAFSK-YGP-LRSVWVAR-----NPPGFAFVEFEDPRDAEDAVRYLDGKD 71 (195)
T ss_pred ceEEe---ccCCCCcchHHHHHHHHh-cCc-ceeEEEee-----cCCCceEEeccCcccHHHHHhhcCCcc
Confidence 34555 6666 999999999996 997 67777744 6899999999864 33456788865
No 64
>KOG0126 consensus Predicted RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=72.70 E-value=1.6 Score=39.77 Aligned_cols=47 Identities=21% Similarity=0.462 Sum_probs=41.1
Q ss_pred ccCCCc--CCHHHHHHHHHhhcCCeeeEEEeeccCCCCCCCceEEEEEcch
Q 038800 200 FSRGFP--VTRDEVKELFTRMYGDCVESIHMQENVPSNEQPLFARLVLQSV 248 (280)
Q Consensus 200 FS~G~P--vse~ei~~fF~~~yGdcve~v~m~~~~~~~~qplfarivf~s~ 248 (280)
|-+|.| +||.+|.--|.+ ||..|.-..|.+ ..+|..-+||++....+
T Consensus 39 yiggl~~~LtEgDil~VFSq-yGe~vdinLiRD-k~TGKSKGFaFLcYEDQ 87 (219)
T KOG0126|consen 39 YIGGLPYELTEGDILCVFSQ-YGEIVDINLIRD-KKTGKSKGFAFLCYEDQ 87 (219)
T ss_pred EECCCcccccCCcEEEEeec-cCceEEEEEEec-CCCCcccceEEEEecCc
Confidence 449988 999999999997 999888888888 78999999999998754
No 65
>KOG4211 consensus Splicing factor hnRNP-F and related RNA-binding proteins [RNA processing and modification]
Probab=72.61 E-value=12 Score=38.47 Aligned_cols=72 Identities=24% Similarity=0.354 Sum_probs=56.0
Q ss_pred ceEEEEccCCCc--CCHHHHHHHHHhhcCCeeeEEEeeccCCCCCCCceEEEEEcchhhHHHHhCC-------CceeEEE
Q 038800 194 RTMFLTFSRGFP--VTRDEVKELFTRMYGDCVESIHMQENVPSNEQPLFARLVLQSVANVDQILSG-------RRIAKFR 264 (280)
Q Consensus 194 Rt~FvTFS~G~P--vse~ei~~fF~~~yGdcve~v~m~~~~~~~~qplfarivf~s~~~v~~vL~g-------~~~~Kf~ 264 (280)
.+.|+.=-+|.| -|++||.+||.. .-||++..-. ..+++..=|.|.|.|++-+...|.- .=..-|+
T Consensus 8 ~~~~~vr~rGLPwsat~~ei~~Ff~~---~~I~~~~~~r--~~Gr~sGeA~Ve~~seedv~~AlkkdR~~mg~RYIEVf~ 82 (510)
T KOG4211|consen 8 STAFEVRLRGLPWSATEKEILDFFSN---CGIENLEIPR--RNGRPSGEAYVEFTSEEDVEKALKKDRESMGHRYIEVFT 82 (510)
T ss_pred CcceEEEecCCCccccHHHHHHHHhc---CceeEEEEec--cCCCcCcceEEEeechHHHHHHHHhhHHHhCCceEEEEc
Confidence 466777779999 899999999985 2378877755 4599999999999999999888752 2235677
Q ss_pred EcCeee
Q 038800 265 INGKHI 270 (280)
Q Consensus 265 Ingk~i 270 (280)
++++.+
T Consensus 83 ~~~~e~ 88 (510)
T KOG4211|consen 83 AGGAEA 88 (510)
T ss_pred cCCccc
Confidence 777765
No 66
>KOG0146 consensus RNA-binding protein ETR-3 (RRM superfamily) [RNA processing and modification]
Probab=72.61 E-value=4.7 Score=38.80 Aligned_cols=66 Identities=24% Similarity=0.416 Sum_probs=47.7
Q ss_pred CCCCceEEEEccCCCcCCHHHHHHHHHhhcCCeeeEEEeeccCCCCCCCceEEEEEcchhhHHHH---hCCCc
Q 038800 190 SEDDRTMFLTFSRGFPVTRDEVKELFTRMYGDCVESIHMQENVPSNEQPLFARLVLQSVANVDQI---LSGRR 259 (280)
Q Consensus 190 ~~d~Rt~FvTFS~G~Pvse~ei~~fF~~~yGdcve~v~m~~~~~~~~qplfarivf~s~~~v~~v---L~g~~ 259 (280)
+.|||.+||--- +---+||||+..|.- ||+ ||.+.+-+ ..-+..-+.|+|-|.|....... |-|++
T Consensus 16 g~~drklfvgml-~kqq~e~dvrrlf~p-fG~-~~e~tvlr-g~dg~sKGCAFVKf~s~~eAqaAI~aLHgSq 84 (371)
T KOG0146|consen 16 GGDDRKLFVGML-NKQQSEDDVRRLFQP-FGN-IEECTVLR-GPDGNSKGCAFVKFSSHAEAQAAINALHGSQ 84 (371)
T ss_pred Cccchhhhhhhh-cccccHHHHHHHhcc-cCC-cceeEEec-CCCCCCCCceEEEeccchHHHHHHHHhcccc
Confidence 449999998321 234799999999997 998 56666666 34577889999999986654443 33554
No 67
>KOG4208 consensus Nucleolar RNA-binding protein NIFK [General function prediction only]
Probab=71.11 E-value=14 Score=34.03 Aligned_cols=62 Identities=15% Similarity=0.300 Sum_probs=47.0
Q ss_pred EEccCCCc--CCHHHHHHHHHhhcCCeeeEEEeeccCCCCCCCceEEEEEcchhh-------HHHHhCCCce
Q 038800 198 LTFSRGFP--VTRDEVKELFTRMYGDCVESIHMQENVPSNEQPLFARLVLQSVAN-------VDQILSGRRI 260 (280)
Q Consensus 198 vTFS~G~P--vse~ei~~fF~~~yGdcve~v~m~~~~~~~~qplfarivf~s~~~-------v~~vL~g~~~ 260 (280)
++.++..| +.|.++..||.+ +|+.|-++.|-+..-+|-.-.||+|=|.|++. |+.-|.+++.
T Consensus 51 ~~~~~~~p~g~~e~~~~~~~~q-~~g~v~r~rlsRnkrTGNSKgYAFVEFEs~eVA~IaAETMNNYLl~e~l 121 (214)
T KOG4208|consen 51 VVYVDHIPHGFFETEILNYFRQ-FGGTVTRFRLSRNKRTGNSKGYAFVEFESEEVAKIAAETMNNYLLMEHL 121 (214)
T ss_pred ceeecccccchhHHHHhhhhhh-cCCeeEEEEeecccccCCcCceEEEEeccHHHHHHHHHHhhhhhhhhhe
Confidence 34556666 889999999998 76668889996656789999999999998654 4444555444
No 68
>PF03918 CcmH: Cytochrome C biogenesis protein; InterPro: IPR005616 Members of this family include NrfF, CcmH, CycL, Ccl2.; PDB: 2KW0_A 2HL7_A.
Probab=68.66 E-value=2.9 Score=36.13 Aligned_cols=22 Identities=18% Similarity=0.481 Sum_probs=15.6
Q ss_pred CCHHHHHHHHHhhcCCeeeEEEeec
Q 038800 206 VTRDEVKELFTRMYGDCVESIHMQE 230 (280)
Q Consensus 206 vse~ei~~fF~~~yGdcve~v~m~~ 230 (280)
.|++||++||..+||| .|...-
T Consensus 74 ~s~~eI~~~~v~rYG~---~Vl~~P 95 (148)
T PF03918_consen 74 KSDEEIIDYFVERYGE---FVLYEP 95 (148)
T ss_dssp --HHHHHHHHHHHHTT---T-EES-
T ss_pred CCHHHHHHHHHHhcCc---ceeecC
Confidence 5899999999999998 455533
No 69
>KOG0533 consensus RRM motif-containing protein [RNA processing and modification]
Probab=65.40 E-value=11 Score=35.35 Aligned_cols=55 Identities=18% Similarity=0.276 Sum_probs=44.6
Q ss_pred CCCc-eEEEEccCC-CcCCHHHHHHHHHhhcCCeeeEEEeeccCCCCCCCceEEEEEcchh
Q 038800 191 EDDR-TMFLTFSRG-FPVTRDEVKELFTRMYGDCVESIHMQENVPSNEQPLFARLVLQSVA 249 (280)
Q Consensus 191 ~d~R-t~FvTFS~G-~Pvse~ei~~fF~~~yGdcve~v~m~~~~~~~~qplfarivf~s~~ 249 (280)
.+.| |. +.+|+= |-|++++|+|+|+. || -++.|.++- ...++.-.-|-|+|..-+
T Consensus 79 ~~~~~~~-v~v~NL~~~V~~~Dl~eLF~~-~~-~~~r~~vhy-~~~G~s~Gta~v~~~r~~ 135 (243)
T KOG0533|consen 79 NETRSTK-VNVSNLPYGVIDADLKELFAE-FG-ELKRVAVHY-DRAGRSLGTADVSFNRRD 135 (243)
T ss_pred cCCCcce-eeeecCCcCcchHHHHHHHHH-hc-cceEEeecc-CCCCCCCccceeeecchH
Confidence 4555 44 667764 55999999999998 99 478999988 678999999999999763
No 70
>KOG0147 consensus Transcriptional coactivator CAPER (RRM superfamily) [Transcription]
Probab=64.31 E-value=9.5 Score=39.49 Aligned_cols=60 Identities=20% Similarity=0.508 Sum_probs=47.1
Q ss_pred CcCCHHHHHHHHHhhcCCeeeEEEeeccCCCCCCCceEEEEEcchhh---HHHHhCCCceeEEEEcCeee
Q 038800 204 FPVTRDEVKELFTRMYGDCVESIHMQENVPSNEQPLFARLVLQSVAN---VDQILSGRRIAKFRINGKHI 270 (280)
Q Consensus 204 ~Pvse~ei~~fF~~~yGdcve~v~m~~~~~~~~qplfarivf~s~~~---v~~vL~g~~~~Kf~Ingk~i 270 (280)
+-++|+.++.-|+- ||. ||.|..+.+..+|+..+||.|.|...+- .-..||| |.|-|+-|
T Consensus 288 fNite~~lr~ifep-fg~-Ie~v~l~~d~~tG~skgfGfi~f~~~~~ar~a~e~lng-----felAGr~i 350 (549)
T KOG0147|consen 288 FNITEDMLRGIFEP-FGK-IENVQLTKDSETGRSKGFGFITFVNKEDARKALEQLNG-----FELAGRLI 350 (549)
T ss_pred cCchHHHHhhhccC-ccc-ceeeeeccccccccccCcceEEEecHHHHHHHHHHhcc-----ceecCceE
Confidence 33999999999997 999 8999998855689999999999997555 3355667 45555544
No 71
>PF08777 RRM_3: RNA binding motif; InterPro: IPR014886 This domain is found in protein La which functions as an RNA chaperone during RNA polymerase III transcription, and can also stimulate translation initiation. It contains a five stranded beta sheet which forms an atypical RNA recognition motif []. ; PDB: 1OWX_A.
Probab=61.47 E-value=7.2 Score=31.60 Aligned_cols=65 Identities=26% Similarity=0.515 Sum_probs=34.3
Q ss_pred EEcc-CCCcCCHHHHHHHHHhhcCCeeeEEEeeccCCCCCCCceEEEEEcchhhHHHHhCCCcee---EEEEcCeee
Q 038800 198 LTFS-RGFPVTRDEVKELFTRMYGDCVESIHMQENVPSNEQPLFARLVLQSVANVDQILSGRRIA---KFRINGKHI 270 (280)
Q Consensus 198 vTFS-~G~Pvse~ei~~fF~~~yGdcve~v~m~~~~~~~~qplfarivf~s~~~v~~vL~g~~~~---Kf~Ingk~i 270 (280)
|-|+ -+-|+++++|++.|.+ ||+ |.=|..++ | ..-|.|=|++++....++..-... ++.|+|..+
T Consensus 4 l~~~g~~~~~~re~iK~~f~~-~g~-V~yVD~~~----G--~~~g~VRf~~~~~A~~a~~~~~~~~~~~~~i~~~~~ 72 (105)
T PF08777_consen 4 LKFSGLGEPTSREDIKEAFSQ-FGE-VAYVDFSR----G--DTEGYVRFKTPEAAQKALEKLKEANDGKLKIKGKEV 72 (105)
T ss_dssp EEEEE--SS--HHHHHHHT-S-S---EEEEE--T----T---SEEEEEESS---HHHHHHHHHHTTTS-B-TTSSSE
T ss_pred EEEecCCCCcCHHHHHHHHHh-cCC-cceEEecC----C--CCEEEEEECCcchHHHHHHHHHhccCCceEEcCceE
Confidence 5566 5678999999999997 995 88888866 2 235899999986655555432222 455665544
No 72
>KOG0111 consensus Cyclophilin-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]
Probab=58.10 E-value=10 Score=35.63 Aligned_cols=55 Identities=20% Similarity=0.448 Sum_probs=44.2
Q ss_pred CCCCCceEEEEccCCCc--CCHHHHHHHHHhhcCCeeeEEEeeccCCCCCCCceEEEEEcch
Q 038800 189 ASEDDRTMFLTFSRGFP--VTRDEVKELFTRMYGDCVESIHMQENVPSNEQPLFARLVLQSV 248 (280)
Q Consensus 189 ~~~d~Rt~FvTFS~G~P--vse~ei~~fF~~~yGdcve~v~m~~~~~~~~qplfarivf~s~ 248 (280)
...+.||+|| +|.. |+|.=+..-|-- ||| |.+|.|.-+-++++.+.||+|.|.-.
T Consensus 6 ~a~~KrtlYV---GGladeVtekvLhaAFIP-FGD-I~dIqiPlDyesqkHRgFgFVefe~a 62 (298)
T KOG0111|consen 6 MANQKRTLYV---GGLADEVTEKVLHAAFIP-FGD-IKDIQIPLDYESQKHRGFGFVEFEEA 62 (298)
T ss_pred ccccceeEEe---ccchHHHHHHHHHhcccc-ccc-hhhcccccchhcccccceeEEEeecc
Confidence 4567899998 8976 777777777775 999 67777766567899999999999843
No 73
>PF14605 Nup35_RRM_2: Nup53/35/40-type RNA recognition motif
Probab=56.86 E-value=35 Score=24.22 Aligned_cols=46 Identities=28% Similarity=0.491 Sum_probs=31.6
Q ss_pred CCCcCCH-HHHHHHHHhhcCCeeeEEEeeccCCCCCCCceEEEEEcchhhHHHHh
Q 038800 202 RGFPVTR-DEVKELFTRMYGDCVESIHMQENVPSNEQPLFARLVLQSVANVDQIL 255 (280)
Q Consensus 202 ~G~Pvse-~ei~~fF~~~yGdcve~v~m~~~~~~~~qplfarivf~s~~~v~~vL 255 (280)
.|||-+. ++|.++|.. +|. |+++.. +..+.+..|-|++.......|
T Consensus 7 ~Gf~~~~~~~vl~~F~~-fGe-I~~~~~------~~~~~~~~l~y~~~~~ae~Al 53 (53)
T PF14605_consen 7 SGFPPDLAEEVLEHFAS-FGE-IVDIYV------PESTNWMYLKYKSRKDAEKAL 53 (53)
T ss_pred EeECchHHHHHHHHHHh-cCC-EEEEEc------CCCCcEEEEEECCHHHHHhhC
Confidence 5777554 558899996 999 444443 245677888888877665543
No 74
>KOG0145 consensus RNA-binding protein ELAV/HU (RRM superfamily) [RNA processing and modification]
Probab=50.99 E-value=20 Score=34.47 Aligned_cols=64 Identities=17% Similarity=0.381 Sum_probs=49.3
Q ss_pred CCCCceEEEEccCCCc--CCHHHHHHHHHhhcCCeeeEEEeeccCCCCCCCceEEEEEcchhhHHH---HhCCC
Q 038800 190 SEDDRTMFLTFSRGFP--VTRDEVKELFTRMYGDCVESIHMQENVPSNEQPLFARLVLQSVANVDQ---ILSGR 258 (280)
Q Consensus 190 ~~d~Rt~FvTFS~G~P--vse~ei~~fF~~~yGdcve~v~m~~~~~~~~qplfarivf~s~~~v~~---vL~g~ 258 (280)
.-.+--+|| -|.| +|..|+.+.|.. ||.+|.+=...+ ..++...+-|+|-|+.-...++ -|||.
T Consensus 124 ~Ik~aNLYv---SGlPktMtqkelE~iFs~-fGrIItSRiL~d-qvtg~srGVgFiRFDKr~EAe~AIk~lNG~ 192 (360)
T KOG0145|consen 124 SIKDANLYV---SGLPKTMTQKELEQIFSP-FGRIITSRILVD-QVTGLSRGVGFIRFDKRIEAEEAIKGLNGQ 192 (360)
T ss_pred hhcccceEE---ecCCccchHHHHHHHHHH-hhhhhhhhhhhh-cccceecceeEEEecchhHHHHHHHhccCC
Confidence 334456777 7999 899999999997 999888877777 5679999999999996444333 35664
No 75
>KOG0124 consensus Polypyrimidine tract-binding protein PUF60 (RRM superfamily) [RNA processing and modification]
Probab=50.43 E-value=33 Score=34.53 Aligned_cols=80 Identities=10% Similarity=0.304 Sum_probs=56.9
Q ss_pred CCCCCceEEEEccCC-Cc-CCHHHHHHHHHhhcCCeeeEEEeeccCCCCCCCceEEEEEcchhhHHHHhCCCceeEEEEc
Q 038800 189 ASEDDRTMFLTFSRG-FP-VTRDEVKELFTRMYGDCVESIHMQENVPSNEQPLFARLVLQSVANVDQILSGRRIAKFRIN 266 (280)
Q Consensus 189 ~~~d~Rt~FvTFS~G-~P-vse~ei~~fF~~~yGdcve~v~m~~~~~~~~qplfarivf~s~~~v~~vL~g~~~~Kf~In 266 (280)
+.+|-|..|-.+.-- +| +||+||+.-|+- ||.++---.-+.| .++...+||+|-|...+..+....|.+ -|-..
T Consensus 203 vqeeAk~fnRiYVaSvHpDLSe~DiKSVFEA-FG~I~~C~LAr~p-t~~~HkGyGfiEy~n~qs~~eAiasMN--lFDLG 278 (544)
T KOG0124|consen 203 VQEEAKKFNRIYVASVHPDLSETDIKSVFEA-FGEIVKCQLARAP-TGRGHKGYGFIEYNNLQSQSEAIASMN--LFDLG 278 (544)
T ss_pred HHHHHHhhheEEeeecCCCccHHHHHHHHHh-hcceeeEEeeccC-CCCCccceeeEEeccccchHHHhhhcc--hhhcc
Confidence 445555555444333 45 999999999995 9997666666664 568889999999999888888877755 34455
Q ss_pred CeeeEE
Q 038800 267 GKHIWA 272 (280)
Q Consensus 267 gk~iWa 272 (280)
|.-+-+
T Consensus 279 GQyLRV 284 (544)
T KOG0124|consen 279 GQYLRV 284 (544)
T ss_pred cceEec
Confidence 544443
No 76
>KOG0123 consensus Polyadenylate-binding protein (RRM superfamily) [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=50.14 E-value=25 Score=34.63 Aligned_cols=66 Identities=18% Similarity=0.379 Sum_probs=45.8
Q ss_pred CcCCHHHHHHHHHhhcCCeeeEEEeeccCCCCCCCceEEEEEcchhhHHH---HhCCCceeEEEEcCeeeEEEeccc
Q 038800 204 FPVTRDEVKELFTRMYGDCVESIHMQENVPSNEQPLFARLVLQSVANVDQ---ILSGRRIAKFRINGKHIWARKYER 277 (280)
Q Consensus 204 ~Pvse~ei~~fF~~~yGdcve~v~m~~~~~~~~qplfarivf~s~~~v~~---vL~g~~~~Kf~Ingk~iWarky~p 277 (280)
.-.+++++.+||.. ||...-...|.+ ..+..+.||++-|.+.+--.. .|+|.. ..|+.+|+-+...
T Consensus 177 ~~~~~~~l~~~f~~-~g~i~s~~v~~~--~~g~~~~~gfv~f~~~e~a~~av~~l~~~~-----~~~~~~~V~~aqk 245 (369)
T KOG0123|consen 177 EDSTDEELKDLFSA-YGSITSVAVMRD--SIGKSKGFGFVNFENPEDAKKAVETLNGKI-----FGDKELYVGRAQK 245 (369)
T ss_pred cccchHHHHHhhcc-cCcceEEEEeec--CCCCCCCccceeecChhHHHHHHHhccCCc-----CCccceeeccccc
Confidence 34788899999997 999666666655 456699999999998554333 334422 2267777766654
No 77
>KOG0145 consensus RNA-binding protein ELAV/HU (RRM superfamily) [RNA processing and modification]
Probab=47.76 E-value=61 Score=31.34 Aligned_cols=64 Identities=16% Similarity=0.362 Sum_probs=49.2
Q ss_pred CCCCCceEEEEccCCCc--CCHHHHHHHHHhhcCCeeeEEEeeccCCCCCCCceEEEEEcchhhHHHHhC
Q 038800 189 ASEDDRTMFLTFSRGFP--VTRDEVKELFTRMYGDCVESIHMQENVPSNEQPLFARLVLQSVANVDQILS 256 (280)
Q Consensus 189 ~~~d~Rt~FvTFS~G~P--vse~ei~~fF~~~yGdcve~v~m~~~~~~~~qplfarivf~s~~~v~~vL~ 256 (280)
-.+|.||=-| .+=.| +|+||++..|.+ -|+ ||+.-.-++..+|+.=+||+|-.-.+.-.++..+
T Consensus 36 ~t~~skTNLI--vNYLPQ~MTqdE~rSLF~S-iGe-iEScKLvRDKitGqSLGYGFVNYv~p~DAe~Ain 101 (360)
T KOG0145|consen 36 DTDESKTNLI--VNYLPQNMTQDELRSLFGS-IGE-IESCKLVRDKITGQSLGYGFVNYVRPKDAEKAIN 101 (360)
T ss_pred CcCcccceee--eeecccccCHHHHHHHhhc-ccc-eeeeeeeeccccccccccceeeecChHHHHHHHh
Confidence 3567787644 24456 999999999998 898 7888776657889999999999877666555443
No 78
>KOG0117 consensus Heterogeneous nuclear ribonucleoprotein R (RRM superfamily) [RNA processing and modification]
Probab=46.84 E-value=70 Score=32.83 Aligned_cols=79 Identities=18% Similarity=0.264 Sum_probs=57.1
Q ss_pred CCCCCCceEEEEccCCCc--CCHHHHHHHHHhhcCCeeeEEEeec-cCCCCCCCceEEEEEcchhhHHH----HhCCCce
Q 038800 188 NASEDDRTMFLTFSRGFP--VTRDEVKELFTRMYGDCVESIHMQE-NVPSNEQPLFARLVLQSVANVDQ----ILSGRRI 260 (280)
Q Consensus 188 ~~~~d~Rt~FvTFS~G~P--vse~ei~~fF~~~yGdcve~v~m~~-~~~~~~qplfarivf~s~~~v~~----vL~g~~~ 260 (280)
.++.+.--||| ++.| -+++||.+=|.+ -|.=|+.|++.. |....+-++||+|-+-|..+.+. ++.| +
T Consensus 159 c~Svan~RLFi---G~IPK~k~keeIlee~~k-VteGVvdVivy~~p~dk~KNRGFaFveYe~H~~Aa~aRrKl~~g--~ 232 (506)
T KOG0117|consen 159 CVSVANCRLFI---GNIPKTKKKEEILEEMKK-VTEGVVDVIVYPSPDDKTKNRGFAFVEYESHRAAAMARRKLMPG--K 232 (506)
T ss_pred EEeeecceeEe---ccCCccccHHHHHHHHHh-hCCCeeEEEEecCccccccccceEEEEeecchhHHHHHhhccCC--c
Confidence 46777777888 9999 889999999987 776677777765 44568889999999998776544 4445 4
Q ss_pred eEEEEcCeee-EE
Q 038800 261 AKFRINGKHI-WA 272 (280)
Q Consensus 261 ~Kf~Ingk~i-Wa 272 (280)
.|++=|.--+ ||
T Consensus 233 ~klwgn~~tVdWA 245 (506)
T KOG0117|consen 233 IKLWGNAITVDWA 245 (506)
T ss_pred eeecCCcceeecc
Confidence 5555443333 54
No 79
>COG0386 BtuE Glutathione peroxidase [Posttranslational modification, protein turnover, chaperones]
Probab=46.09 E-value=30 Score=30.67 Aligned_cols=71 Identities=20% Similarity=0.346 Sum_probs=50.4
Q ss_pred CCCcCCHHHHHHHHHhhcC---CeeeEEEeeccCCCCCCCceEEEEEcchhhHHHHhCC----CceeEEEEcCeeeEEEe
Q 038800 202 RGFPVTRDEVKELFTRMYG---DCVESIHMQENVPSNEQPLFARLVLQSVANVDQILSG----RRIAKFRINGKHIWARK 274 (280)
Q Consensus 202 ~G~Pvse~ei~~fF~~~yG---dcve~v~m~~~~~~~~qplfarivf~s~~~v~~vL~g----~~~~Kf~Ingk~iWark 274 (280)
+--|=+.+||.+|=+.+|| +.-+.|.+ ++.++.|||-.++=...-. +.| ++=-||.|+-.--=+.+
T Consensus 70 ~QEPg~~eEI~~fC~~~YgVtFp~f~Ki~V---nG~~a~PLy~~L~~~~~g~----~~~~~IkWNFtKFLvdr~G~VV~R 142 (162)
T COG0386 70 GQEPGSDEEIAKFCQLNYGVTFPMFSKIDV---NGKNAHPLYKYLKEQKPGK----LGGKDIKWNFTKFLVDRDGNVVKR 142 (162)
T ss_pred cCCCCCHHHHHHHHHhccCceeeeeeEEee---cCCCCCcHHHHHHhcCCCC----ccCCccceeeEEEEEcCCCcEEEe
Confidence 4567899999999999999 56666766 5678999997654333222 333 33479999865555677
Q ss_pred cccCC
Q 038800 275 YERRD 279 (280)
Q Consensus 275 y~pk~ 279 (280)
|-|+.
T Consensus 143 f~p~t 147 (162)
T COG0386 143 FSPKT 147 (162)
T ss_pred eCCCC
Confidence 87764
No 80
>COG3088 CcmH Uncharacterized protein involved in biosynthesis of c-type cytochromes [Posttranslational modification, protein turnover, chaperones]
Probab=44.22 E-value=16 Score=32.13 Aligned_cols=21 Identities=10% Similarity=0.349 Sum_probs=17.5
Q ss_pred CCHHHHHHHHHhhcCCeeeEEEee
Q 038800 206 VTRDEVKELFTRMYGDCVESIHMQ 229 (280)
Q Consensus 206 vse~ei~~fF~~~yGdcve~v~m~ 229 (280)
-|++||.+|++.+||+ -|.++
T Consensus 78 kS~~qIid~mVaRYG~---FVly~ 98 (153)
T COG3088 78 KSDQQIIDYMVARYGE---FVLYK 98 (153)
T ss_pred CcHHHHHHHHHHhhcc---eeeec
Confidence 5899999999999999 45553
No 81
>PF10309 DUF2414: Protein of unknown function (DUF2414); InterPro: IPR019416 This entry contains proteins that have no known function.
Probab=42.47 E-value=85 Score=23.49 Aligned_cols=48 Identities=17% Similarity=0.385 Sum_probs=32.8
Q ss_pred CCC-cCCHHHHHHHHHhhcCC-eeeEEEeeccCCCCCCCceEEEEEcchhhHHHHhC
Q 038800 202 RGF-PVTRDEVKELFTRMYGD-CVESIHMQENVPSNEQPLFARLVLQSVANVDQILS 256 (280)
Q Consensus 202 ~G~-Pvse~ei~~fF~~~yGd-cve~v~m~~~~~~~~qplfarivf~s~~~v~~vL~ 256 (280)
+|. -+|-+||+.||...|+. -..+|.-=+++. +-|||.+..+..+.|.
T Consensus 11 rGvd~lsT~dI~~y~~~y~~~~~~~~IEWIdDtS-------cNvvf~d~~~A~~AL~ 60 (62)
T PF10309_consen 11 RGVDELSTDDIKAYFSEYFDEEGPFRIEWIDDTS-------CNVVFKDEETAARALV 60 (62)
T ss_pred EcCCCCCHHHHHHHHHHhcccCCCceEEEecCCc-------EEEEECCHHHHHHHHH
Confidence 663 49999999999985432 122333333322 8999999999887774
No 82
>KOG0124 consensus Polypyrimidine tract-binding protein PUF60 (RRM superfamily) [RNA processing and modification]
Probab=41.21 E-value=31 Score=34.71 Aligned_cols=51 Identities=20% Similarity=0.358 Sum_probs=44.2
Q ss_pred CcCCHHHHHHHHHhhcCCeeeEEEeeccCCCCCCCceEEEEEcchhhHHHHhC
Q 038800 204 FPVTRDEVKELFTRMYGDCVESIHMQENVPSNEQPLFARLVLQSVANVDQILS 256 (280)
Q Consensus 204 ~Pvse~ei~~fF~~~yGdcve~v~m~~~~~~~~qplfarivf~s~~~v~~vL~ 256 (280)
|.+.||-||.-|+- ||+ |.+|.|-++..++..-.||+|-..-++.....|.
T Consensus 123 fEl~EDtiR~AF~P-FGP-IKSInMSWDp~T~kHKgFAFVEYEvPEaAqLAlE 173 (544)
T KOG0124|consen 123 FELREDTIRRAFDP-FGP-IKSINMSWDPATGKHKGFAFVEYEVPEAAQLALE 173 (544)
T ss_pred EEechHHHHhhccC-CCC-cceeecccccccccccceEEEEEeCcHHHHHHHH
Confidence 56899999999997 999 8999999977889999999999987776555554
No 83
>KOG2202 consensus U2 snRNP splicing factor, small subunit, and related proteins [RNA processing and modification]
Probab=39.36 E-value=14 Score=35.06 Aligned_cols=56 Identities=20% Similarity=0.275 Sum_probs=35.9
Q ss_pred HHHHHHhhcCCeeeEEEeeccCCCCCCCceEEEEEcchhhHHHHhC--CCceeEEEEcCeeeEE
Q 038800 211 VKELFTRMYGDCVESIHMQENVPSNEQPLFARLVLQSVANVDQILS--GRRIAKFRINGKHIWA 272 (280)
Q Consensus 211 i~~fF~~~yGdcve~v~m~~~~~~~~qplfarivf~s~~~v~~vL~--g~~~~Kf~Ingk~iWa 272 (280)
++..+..+||. ||.+.+-+ +...+-.+=..|-|++++.....++ +.+ +++|+.|-|
T Consensus 85 ~f~E~~~kygE-iee~~Vc~-Nl~~hl~GNVYV~f~~Ee~ae~a~~~lnnR----w~~G~pi~a 142 (260)
T KOG2202|consen 85 VFTELEDKYGE-IEELNVCD-NLGDHLVGNVYVKFRSEEDAEAALEDLNNR----WYNGRPIHA 142 (260)
T ss_pred HHHHHHHHhhh-hhhhhhhc-ccchhhhhhhhhhcccHHHHHHHHHHHcCc----cccCCccee
Confidence 44445568998 56665555 3445555556778888777555444 335 899998866
No 84
>KOG0131 consensus Splicing factor 3b, subunit 4 [RNA processing and modification]
Probab=37.50 E-value=45 Score=30.52 Aligned_cols=49 Identities=14% Similarity=0.229 Sum_probs=37.3
Q ss_pred CCHHHHHHHHHhhcCCeeeE-EEeeccCCCCCCCceEEEEEcchhhHHHHhC
Q 038800 206 VTRDEVKELFTRMYGDCVES-IHMQENVPSNEQPLFARLVLQSVANVDQILS 256 (280)
Q Consensus 206 vse~ei~~fF~~~yGdcve~-v~m~~~~~~~~qplfarivf~s~~~v~~vL~ 256 (280)
|.|.-+.+-|.. ||-|+.. -.|.+ ..++.++.||.|.|.|-+.-|.++.
T Consensus 108 vDe~~L~dtFsa-fG~l~~~P~i~rd-~~tg~~~~~g~i~~~sfeasd~ai~ 157 (203)
T KOG0131|consen 108 VDEKLLYDTFSA-FGVLISPPKIMRD-PDTGNPKGFGFINYASFEASDAAIG 157 (203)
T ss_pred hhHHHHHHHHHh-ccccccCCccccc-ccCCCCCCCeEEechhHHHHHHHHH
Confidence 677777788885 9998873 23555 3578999999999999877666654
No 85
>PF04059 RRM_2: RNA recognition motif 2; InterPro: IPR007201 This RNA recognition motif 2 is found in Meiosis protein mei2. It is found C-terminal to the RNA-binding region RNP-1 (IPR000504 from INTERPRO).
Probab=36.69 E-value=1.2e+02 Score=24.53 Aligned_cols=55 Identities=9% Similarity=0.126 Sum_probs=47.3
Q ss_pred CCCc--CCHHHHHHHHHhhcCCeeeEEEeeccCCCCCCCceEEEEEcchhhHHHHhC
Q 038800 202 RGFP--VTRDEVKELFTRMYGDCVESIHMQENVPSNEQPLFARLVLQSVANVDQILS 256 (280)
Q Consensus 202 ~G~P--vse~ei~~fF~~~yGdcve~v~m~~~~~~~~qplfarivf~s~~~v~~vL~ 256 (280)
|..| .|.+++.+.+.+.+.+..+=+++.-+-..+.--+||+|=|.+++.+...-.
T Consensus 7 rNIPn~~t~~~L~~~l~~~~~g~yDF~YLPiDf~~~~N~GYAFVNf~~~~~~~~F~~ 63 (97)
T PF04059_consen 7 RNIPNKYTQEMLIQILDEHFKGKYDFFYLPIDFKNKCNLGYAFVNFTSPQAAIRFYK 63 (97)
T ss_pred ecCCCCCCHHHHHHHHHHhccCcceEEEeeeeccCCCceEEEEEEcCCHHHHHHHHH
Confidence 6667 899999999999888889999998766778889999999999988776655
No 86
>KOG4209 consensus Splicing factor RNPS1, SR protein superfamily [RNA processing and modification]
Probab=36.48 E-value=69 Score=29.60 Aligned_cols=65 Identities=15% Similarity=0.223 Sum_probs=49.0
Q ss_pred CCCCCceEEEEccCCCcCCHHHHHHHHHhhcCCeeeEEEeeccCCCCCCCceEEEEEcchhhHHHHhC
Q 038800 189 ASEDDRTMFLTFSRGFPVTRDEVKELFTRMYGDCVESIHMQENVPSNEQPLFARLVLQSVANVDQILS 256 (280)
Q Consensus 189 ~~~d~Rt~FvTFS~G~Pvse~ei~~fF~~~yGdcve~v~m~~~~~~~~qplfarivf~s~~~v~~vL~ 256 (280)
...|.+++|+... ++-++-+++...|.. +|. |.+|.|..+.-.+++-+||-+-|.+...+..-|.
T Consensus 97 ~~~d~~sv~v~nv-d~~~t~~~~e~hf~~-Cg~-i~~~ti~~d~~~~~~k~~~yvef~~~~~~~~ay~ 161 (231)
T KOG4209|consen 97 KEVDAPSVWVGNV-DFLVTLTKIELHFES-CGG-INRVTVPKDKFRGHPKGFAYVEFSSYELVEEAYK 161 (231)
T ss_pred hccCCceEEEecc-ccccccchhhheeec-cCC-ccceeeeccccCCCcceeEEEecccHhhhHHHhh
Confidence 3456678888654 455677778888886 887 7778887766677899999999999888766554
No 87
>PF10866 DUF2704: Protein of unknown function (DUF2704); InterPro: IPR022594 This group of viral proteins has no known function.
Probab=35.55 E-value=60 Score=28.84 Aligned_cols=35 Identities=23% Similarity=0.479 Sum_probs=29.6
Q ss_pred cCHHHHHHHHhhhHHHHHHHHhhcCCChhHHHHHHHHHHHHhh
Q 038800 4 ISLEELHAYHTIDRDAFSRLVITLRRDPGDSLLVMATWLWLEE 46 (280)
Q Consensus 4 vt~ee~~~Fh~idR~lf~rLV~~L~rdp~~S~~VmAlwLWLE~ 46 (280)
+|+.|..=+|+.-|+||..|...+=-+| |=||||+
T Consensus 55 l~mkeYkEvysl~rqLyE~lr~~FVdeP--------fKlWle~ 89 (168)
T PF10866_consen 55 LTMKEYKEVYSLGRQLYEILRGDFVDEP--------FKLWLEQ 89 (168)
T ss_pred cCHHHHHHHHHHHHHHHHHHHHHhcCCc--------hHHHHHh
Confidence 7899999999999999999986665555 5689996
No 88
>PF15023 DUF4523: Protein of unknown function (DUF4523)
Probab=35.29 E-value=51 Score=29.16 Aligned_cols=55 Identities=18% Similarity=0.430 Sum_probs=34.2
Q ss_pred HHHhhcCCeeeEEEeeccCCCCCCCceEEEEEcchhhHHHHhCCCceeEEEEcCee---eEEEecccCC
Q 038800 214 LFTRMYGDCVESIHMQENVPSNEQPLFARLVLQSVANVDQILSGRRIAKFRINGKH---IWARKYERRD 279 (280)
Q Consensus 214 fF~~~yGdcve~v~m~~~~~~~~qplfarivf~s~~~v~~vL~g~~~~Kf~Ingk~---iWarky~pk~ 279 (280)
++-..||+ |++|.+ .|+|. |.|||+.....=...+.-+. +.-|.- -|-.+|+.|+
T Consensus 109 ~~Ls~fGp-I~SVT~-----cGrqs--avVvF~d~~SAC~Av~Af~s---~~pgtm~qCsWqqrFMskd 166 (166)
T PF15023_consen 109 QRLSVFGP-IQSVTL-----CGRQS--AVVVFKDITSACKAVSAFQS---RAPGTMFQCSWQQRFMSKD 166 (166)
T ss_pred HHHHhcCC-cceeee-----cCCce--EEEEehhhHHHHHHHHhhcC---CCCCceEEeecccccccCC
Confidence 44456999 888876 57777 99999976654444442111 122332 3878887764
No 89
>KOG0109 consensus RNA-binding protein LARK, contains RRM and retroviral-type Zn-finger domains [RNA processing and modification; General function prediction only]
Probab=34.36 E-value=1e+02 Score=30.11 Aligned_cols=67 Identities=22% Similarity=0.414 Sum_probs=42.0
Q ss_pred EEEccCCCc--CCHHHHHHHHHhhcCCeeeEEEeeccCCCCCCCceEEEEEcchhh-HHHH--hCCCceeEEEEcCeeeE
Q 038800 197 FLTFSRGFP--VTRDEVKELFTRMYGDCVESIHMQENVPSNEQPLFARLVLQSVAN-VDQI--LSGRRIAKFRINGKHIW 271 (280)
Q Consensus 197 FvTFS~G~P--vse~ei~~fF~~~yGdcve~v~m~~~~~~~~qplfarivf~s~~~-v~~v--L~g~~~~Kf~Ingk~iW 271 (280)
|.-|.+..| .++.|++..|+. ||-++|-=++ + -||+|-...... -|.| |+|. +|+|+-|=
T Consensus 3 ~KLFIGNLp~~~~~~elr~lFe~-ygkVlECDIv-K--------NYgFVHiEdktaaedairNLhgY-----tLhg~nIn 67 (346)
T KOG0109|consen 3 VKLFIGNLPREATEQELRSLFEQ-YGKVLECDIV-K--------NYGFVHIEDKTAAEDAIRNLHGY-----TLHGVNIN 67 (346)
T ss_pred cchhccCCCcccchHHHHHHHHh-hCceEeeeee-c--------ccceEEeecccccHHHHhhcccc-----eecceEEE
Confidence 455667777 999999999997 9976554333 1 266666654333 3333 4464 57777766
Q ss_pred EEecccC
Q 038800 272 ARKYERR 278 (280)
Q Consensus 272 arky~pk 278 (280)
+.+-..|
T Consensus 68 VeaSksK 74 (346)
T KOG0109|consen 68 VEASKSK 74 (346)
T ss_pred EEecccc
Confidence 5554444
No 90
>KOG0106 consensus Alternative splicing factor SRp55/B52/SRp75 (RRM superfamily) [RNA processing and modification]
Probab=32.99 E-value=38 Score=31.26 Aligned_cols=47 Identities=17% Similarity=0.424 Sum_probs=33.5
Q ss_pred EccCCCc--CCHHHHHHHHHhhcCCeeeEEEeeccCCCCCCCceEEEEEcchhhHHHHh
Q 038800 199 TFSRGFP--VTRDEVKELFTRMYGDCVESIHMQENVPSNEQPLFARLVLQSVANVDQIL 255 (280)
Q Consensus 199 TFS~G~P--vse~ei~~fF~~~yGdcve~v~m~~~~~~~~qplfarivf~s~~~v~~vL 255 (280)
||.+..| ..+.++.+||.+ ||- +-++.|. .+||++-|......+.+.
T Consensus 4 v~vg~~~~~~~~~d~E~~f~~-yg~-~~d~~mk--------~gf~fv~fed~rda~Dav 52 (216)
T KOG0106|consen 4 VYIGRLPYRARERDVERFFKG-YGK-IPDADMK--------NGFGFVEFEDPRDADDAV 52 (216)
T ss_pred eeecccCCccchhHHHHHHhh-ccc-cccceee--------cccceeccCchhhhhccc
Confidence 4446666 899999999997 996 4455553 367888888776655543
No 91
>PF02946 GTF2I: GTF2I-like repeat; InterPro: IPR004212 This region of sequence similarity is found up to six times in a variety of proteins including general transcription factor II-I (GTF2I). It has been suggested that this may be a DNA binding domain [, ].; PDB: 2E3L_A 2D99_A 2DN4_A 2D9B_A 2EJE_A 1Q60_A 2DZR_A 2DN5_A 2DZQ_A 2ED2_A.
Probab=32.81 E-value=47 Score=26.05 Aligned_cols=51 Identities=27% Similarity=0.559 Sum_probs=30.9
Q ss_pred HHHHHHHHHhhcCC---ee--------------eEEEeeccCCCCCCCceEEEEEcc-----hhhHHHHhCCCceeEEEE
Q 038800 208 RDEVKELFTRMYGD---CV--------------ESIHMQENVPSNEQPLFARLVLQS-----VANVDQILSGRRIAKFRI 265 (280)
Q Consensus 208 e~ei~~fF~~~yGd---cv--------------e~v~m~~~~~~~~qplfarivf~s-----~~~v~~vL~g~~~~Kf~I 265 (280)
+..|.++|..+||. -= ++|+++- - ++ -|.|+. ..++..||...+..+|.|
T Consensus 2 Rk~Ve~lF~~kY~eALG~~~~V~VPY~k~~~~p~~v~V~G-L--Pe-----gi~fr~P~~Y~i~~L~~IL~~~~~I~FvI 73 (76)
T PF02946_consen 2 RKQVEELFNKKYGEALGKSEPVPVPYEKFQRDPEAVYVQG-L--PE-----GIPFRRPSNYGIPRLEKILEASSRIRFVI 73 (76)
T ss_dssp HHHHHHHHHHHHHHHHT-SS-----HHHHHHTTTTEEEES-----T-----T--SS-TTTS-HHHHHHHHHTTTT-EEEE
T ss_pred hHHHHHHHHHHHHHHhCCCCcccCCHHHHhhCCCcEEEEe-C--CC-----CCcCCCCCcCCHHHHHHHHHccCCcEEEE
Confidence 46788999999983 11 2344433 0 00 144554 456889999999999999
Q ss_pred c
Q 038800 266 N 266 (280)
Q Consensus 266 n 266 (280)
+
T Consensus 74 k 74 (76)
T PF02946_consen 74 K 74 (76)
T ss_dssp S
T ss_pred e
Confidence 7
No 92
>COG5606 Uncharacterized conserved small protein [Function unknown]
Probab=32.28 E-value=56 Score=26.41 Aligned_cols=37 Identities=35% Similarity=0.534 Sum_probs=30.3
Q ss_pred HHHHHHHHHHHhhcCc-hhHHhhhhcCChHHHHHHHHH
Q 038800 34 SLLVMATWLWLEEMGF-PNIITKLMNLTDPMVNILADE 70 (280)
Q Consensus 34 S~~VmAlwLWLE~~G~-~~~i~~i~sl~d~~i~~lA~E 70 (280)
+...|+...|+|..+. +.=|..++..+.+-++.||+=
T Consensus 27 ~~l~~~i~~~i~q~~l~Q~qiae~lgV~qprvS~l~~g 64 (91)
T COG5606 27 SALMMAIKQWIEQAALSQAQIAELLGVTQPRVSDLARG 64 (91)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhCCCCchHHHHHhc
Confidence 5678999999999888 667778888888888888763
No 93
>PF11161 DUF2944: Protein of unknown function (DUF2946); InterPro: IPR021332 This family of proteins with unknown function appear to be restricted to Proteobacteria.
Probab=31.12 E-value=44 Score=30.35 Aligned_cols=20 Identities=25% Similarity=0.551 Sum_probs=19.5
Q ss_pred cCCCcCCHHHHHHHHHhhcC
Q 038800 201 SRGFPVTRDEVKELFTRMYG 220 (280)
Q Consensus 201 S~G~Pvse~ei~~fF~~~yG 220 (280)
++|.||+.+-+.+|+.|+|+
T Consensus 42 ~~G~~I~H~~Li~FI~RNY~ 61 (187)
T PF11161_consen 42 APGEPIRHEALIEFINRNYE 61 (187)
T ss_pred CCCCeeecHHHHHHHHhccC
Confidence 79999999999999999998
No 94
>KOG0130 consensus RNA-binding protein RBM8/Tsunagi (RRM superfamily) [General function prediction only]
Probab=30.14 E-value=1.1e+02 Score=27.04 Aligned_cols=54 Identities=17% Similarity=0.457 Sum_probs=42.0
Q ss_pred EEEccCCCc--CCHHHHHHHHHhhcCCeeeEEEeeccCCCCCCCceEEEEEcchhhHH
Q 038800 197 FLTFSRGFP--VTRDEVKELFTRMYGDCVESIHMQENVPSNEQPLFARLVLQSVANVD 252 (280)
Q Consensus 197 FvTFS~G~P--vse~ei~~fF~~~yGdcve~v~m~~~~~~~~qplfarivf~s~~~v~ 252 (280)
+|.|..|.. -+|+||.+-|.. ||. |..+...=+.-++---+||-|-........
T Consensus 73 wIi~VtgvHeEatEedi~d~F~d-yGe-iKNihLNLDRRtGy~KGYaLvEYet~keAq 128 (170)
T KOG0130|consen 73 WIIFVTGVHEEATEEDIHDKFAD-YGE-IKNIHLNLDRRTGYVKGYALVEYETLKEAQ 128 (170)
T ss_pred EEEEEeccCcchhHHHHHHHHhh-ccc-ccceeeccccccccccceeeeehHhHHHHH
Confidence 566767743 899999999998 998 788887665667888899999887644433
No 95
>PF08141 SspH: Small acid-soluble spore protein H family; InterPro: IPR012610 This family consists of the small acid-soluble spore proteins (SASP) of the H type (sspH). SspH are unique to spores of Bacillus subtilis and are expressed only in the forespore compartment during sporulation of this organism. The sspH genes are monocistronic and are recognised by the forespore-specific sigma factor for RNA polymerase - sigma-G. The specific role of this protein is unclear but is thought to play a role in sporulation under conditions different from that of the common laboratory tests of spore properties [].; GO: 0030436 asexual sporulation, 0042601 endospore-forming forespore
Probab=29.43 E-value=1.2e+02 Score=22.43 Aligned_cols=29 Identities=14% Similarity=0.418 Sum_probs=24.1
Q ss_pred HHHHhCCCceeEEEEcCeeeEEEecccCC
Q 038800 251 VDQILSGRRIAKFRINGKHIWARKYERRD 279 (280)
Q Consensus 251 v~~vL~g~~~~Kf~Ingk~iWarky~pk~ 279 (280)
..+|++....+..+-||..+|....-+++
T Consensus 6 AkeI~~S~~~i~V~y~G~pV~Ie~vde~~ 34 (58)
T PF08141_consen 6 AKEIAESPDMIEVTYNGVPVWIEHVDEEN 34 (58)
T ss_pred HHHHHcCCceEEEEECCEEEEEEEEcCCC
Confidence 56889988889999999999998775543
No 96
>KOG1365 consensus RNA-binding protein Fusilli, contains RRM domain [RNA processing and modification; General function prediction only]
Probab=29.37 E-value=2.5e+02 Score=28.71 Aligned_cols=63 Identities=14% Similarity=0.244 Sum_probs=46.2
Q ss_pred CCCCceEEEEccCCCc--CCHHHHHHHHHhhcCCee--eEEEeeccCCCCCCCceEEEEEcchhhHHHHhCCCc
Q 038800 190 SEDDRTMFLTFSRGFP--VTRDEVKELFTRMYGDCV--ESIHMQENVPSNEQPLFARLVLQSVANVDQILSGRR 259 (280)
Q Consensus 190 ~~d~Rt~FvTFS~G~P--vse~ei~~fF~~~yGdcv--e~v~m~~~~~~~~qplfarivf~s~~~v~~vL~g~~ 259 (280)
+.||=-+ ||.| -+-++|-+||-. |---| ..|+|-- +..|++.+=|+|-|++++.--....+.+
T Consensus 279 ~kdcvRL-----RGLPy~AtvEdIL~Flgd-Fa~~i~f~gVHmv~-N~qGrPSGeAFIqm~nae~a~aaaqk~h 345 (508)
T KOG1365|consen 279 SKDCVRL-----RGLPYEATVEDILDFLGD-FATDIRFQGVHMVL-NGQGRPSGEAFIQMRNAERARAAAQKCH 345 (508)
T ss_pred CCCeeEe-----cCCChhhhHHHHHHHHHH-HhhhcccceeEEEE-cCCCCcChhhhhhhhhhHHHHHHHHHHH
Confidence 3566566 9988 778999999986 65223 3488877 5679999999999998877555555433
No 97
>KOG1651 consensus Glutathione peroxidase [Posttranslational modification, protein turnover, chaperones]
Probab=27.06 E-value=56 Score=29.25 Aligned_cols=70 Identities=17% Similarity=0.270 Sum_probs=46.8
Q ss_pred CCCcCCHHHHHHHHHhhcC---CeeeEEEeeccCCCCCCCceEEEEEcchhhHHHHhC---CCceeEEEEcCeeeEEEec
Q 038800 202 RGFPVTRDEVKELFTRMYG---DCVESIHMQENVPSNEQPLFARLVLQSVANVDQILS---GRRIAKFRINGKHIWARKY 275 (280)
Q Consensus 202 ~G~Pvse~ei~~fF~~~yG---dcve~v~m~~~~~~~~qplfarivf~s~~~v~~vL~---g~~~~Kf~Ingk~iWarky 275 (280)
+--|=+.+||.+|...+|| +.-+.|.+ ++.+.+|+|-.+-=.... .|. -++=.||.|+-+-.=+++|
T Consensus 80 ~QEp~~n~Ei~~f~~~r~~~~f~if~KidV---NG~~~~PlykfLK~~~~~----~lg~~IkWNF~KFLVd~~G~vv~Ry 152 (171)
T KOG1651|consen 80 NQEPGSNEEILNFVKVRYGAEFPIFQKIDV---NGDNADPLYKFLKKVKGG----PLGDDIKWNFTKFLVDKDGHVVKRF 152 (171)
T ss_pred CcCCCCcHHHHHHHHhccCCCCccEeEEec---CCCCCchHHHHHhhcCCC----cccccceeeeEEEeECCCCcEEEee
Confidence 3467889999999999999 45566666 456778877654322221 222 2445899998777777777
Q ss_pred ccC
Q 038800 276 ERR 278 (280)
Q Consensus 276 ~pk 278 (280)
-|.
T Consensus 153 ~pt 155 (171)
T KOG1651|consen 153 SPT 155 (171)
T ss_pred CCC
Confidence 764
No 98
>TIGR02861 SASP_H small acid-soluble spore protein, H-type. This model is derived from pfam08141 but has been expanded to include in the seed corresponding proteins from three species of Clostridium. Members of this family should occur only in endospore-forming bacteria, typically with two members per genome, but may be absent from the genomes of some endospore-forming bacteria. SspH (previously designated YfjU) was shown to be expressed specifically in spores of Bacillus subtilis.
Probab=26.43 E-value=1.3e+02 Score=22.21 Aligned_cols=28 Identities=7% Similarity=0.279 Sum_probs=23.8
Q ss_pred HHHHhCCCceeEEEEcCeeeEEEecccC
Q 038800 251 VDQILSGRRIAKFRINGKHIWARKYERR 278 (280)
Q Consensus 251 v~~vL~g~~~~Kf~Ingk~iWarky~pk 278 (280)
+.+|++....++.+-||..+|....-.+
T Consensus 6 AkeI~~S~~~i~V~Y~G~pV~Ie~vde~ 33 (58)
T TIGR02861 6 AKEIAASPEMINVTYKGVPVYIEHVDEQ 33 (58)
T ss_pred HHHHHcCccceEEEECCEEEEEEEEcCC
Confidence 5788898888999999999999887543
No 99
>KOG0146 consensus RNA-binding protein ETR-3 (RRM superfamily) [RNA processing and modification]
Probab=26.39 E-value=96 Score=30.16 Aligned_cols=79 Identities=20% Similarity=0.400 Sum_probs=53.9
Q ss_pred CCCCCceEEEEccCCCc--CCHHHHHHHHHhhcCCeeeE-EEeeccCCCCCCCceEEEEEcchhh---HHHHhCCCceeE
Q 038800 189 ASEDDRTMFLTFSRGFP--VTRDEVKELFTRMYGDCVES-IHMQENVPSNEQPLFARLVLQSVAN---VDQILSGRRIAK 262 (280)
Q Consensus 189 ~~~d~Rt~FvTFS~G~P--vse~ei~~fF~~~yGdcve~-v~m~~~~~~~~qplfarivf~s~~~---v~~vL~g~~~~K 262 (280)
.||.| -+|| -+.| ....|+..-|-- ||.+|.+ |.|.+ .+++.--||+|-|++... .=..+||
T Consensus 282 GPeGC-NlFI---YHLPQEFgDaEliQmF~P-FGhivSaKVFvDR--ATNQSKCFGFVSfDNp~SaQaAIqAMNG----- 349 (371)
T KOG0146|consen 282 GPEGC-NLFI---YHLPQEFGDAELIQMFLP-FGHIVSAKVFVDR--ATNQSKCFGFVSFDNPASAQAAIQAMNG----- 349 (371)
T ss_pred CCCcc-eEEE---EeCchhhccHHHHHHhcc-ccceeeeeeeehh--ccccccceeeEecCCchhHHHHHHHhcc-----
Confidence 34433 6777 4666 788999999997 9997764 55644 689999999999996544 4456676
Q ss_pred EEEcCeeeEEEecccCC
Q 038800 263 FRINGKHIWARKYERRD 279 (280)
Q Consensus 263 f~Ingk~iWarky~pk~ 279 (280)
|.|.=|++=++--.||+
T Consensus 350 FQIGMKRLKVQLKRPkd 366 (371)
T KOG0146|consen 350 FQIGMKRLKVQLKRPKD 366 (371)
T ss_pred hhhhhhhhhhhhcCccc
Confidence 34555555444444543
No 100
>KOG1365 consensus RNA-binding protein Fusilli, contains RRM domain [RNA processing and modification; General function prediction only]
Probab=26.17 E-value=1.2e+02 Score=30.77 Aligned_cols=53 Identities=21% Similarity=0.273 Sum_probs=40.6
Q ss_pred CCCc--CCHHHHHHHHHhh---cCCeeeEEEeeccCCCCCCCceEEEEEcchhhHHHHhC
Q 038800 202 RGFP--VTRDEVKELFTRM---YGDCVESIHMQENVPSNEQPLFARLVLQSVANVDQILS 256 (280)
Q Consensus 202 ~G~P--vse~ei~~fF~~~---yGdcve~v~m~~~~~~~~qplfarivf~s~~~v~~vL~ 256 (280)
||.| -++.||.+||... -|+...-+.+.+ ..|++-+=|+++|-.++.++..|.
T Consensus 167 RGLPfdat~~dVv~FF~~~cpv~~g~egvLFV~r--pdgrpTGdAFvlfa~ee~aq~aL~ 224 (508)
T KOG1365|consen 167 RGLPFDATALDVVEFFGPPCPVTGGTEGVLFVTR--PDGRPTGDAFVLFACEEDAQFALR 224 (508)
T ss_pred cCCCCCcchHHHHHhcCCCCcccCCccceEEEEC--CCCCcccceEEEecCHHHHHHHHH
Confidence 8999 7899999999732 234344445555 368889999999999999888886
No 101
>TIGR02118 conserved hypothetical protein. This model represents a small family of proteins of unknown function, each about 105 amino acids in length. Conserved sites in the multiple alignment include a pair of aromatic residues, a histidine, and an aspartate.
Probab=26.12 E-value=1.9e+02 Score=22.43 Aligned_cols=61 Identities=8% Similarity=0.115 Sum_probs=41.0
Q ss_pred EEccCCCcCCHHHHHHHHHhhcCCe------eeEEEeeccC--CCCCCC--ceEEEEEcchhhHHHHhCCC
Q 038800 198 LTFSRGFPVTRDEVKELFTRMYGDC------VESIHMQENV--PSNEQP--LFARLVLQSVANVDQILSGR 258 (280)
Q Consensus 198 vTFS~G~Pvse~ei~~fF~~~yGdc------ve~v~m~~~~--~~~~qp--lfarivf~s~~~v~~vL~g~ 258 (280)
+|+..-.|++.+|+..|.+...++- +.+..+..+. ..+.+| ..+-+.|+|.+.....++..
T Consensus 3 ~~vlyr~p~~~e~F~~yy~~~H~pL~~~~pg~~~y~~~~~~~~~~~~~~~d~i~el~Fds~e~~~~a~~sp 73 (100)
T TIGR02118 3 VSVLYEQPEDGAAFDHHYRDTHVPLAQKLPGLRRYAVDKIVSGLPGSSPYYGMCELYFDSIEDFQAAFDSP 73 (100)
T ss_pred EEEEcCCCCCHHHHHHHHHhccHHHHHhCcCceEEEEecccCCCCCCCCeeEEEEEEECCHHHHHHHHcCH
Confidence 4666777899999999999766542 3344443311 123344 56789999999999988653
No 102
>KOG4307 consensus RNA binding protein RBM12/SWAN [General function prediction only]
Probab=24.94 E-value=1.8e+02 Score=31.83 Aligned_cols=50 Identities=20% Similarity=0.289 Sum_probs=39.6
Q ss_pred ccCCCc--CCHHHHHHHHHhhcCCeeeEEEeeccCCCCCCCceEEEEEcchhhH
Q 038800 200 FSRGFP--VTRDEVKELFTRMYGDCVESIHMQENVPSNEQPLFARLVLQSVANV 251 (280)
Q Consensus 200 FS~G~P--vse~ei~~fF~~~yGdcve~v~m~~~~~~~~qplfarivf~s~~~v 251 (280)
=.+++| +|-+||-+||.. |-..=.+|.... +.-+-+-+=++|-|.|.+..
T Consensus 871 ~~~n~Pf~v~l~dI~~FF~d-Y~~~p~sI~~r~-nd~G~pTGe~mvAfes~~eA 922 (944)
T KOG4307|consen 871 SCNNFPFDVTLEDIVEFFND-YEPDPNSIRIRR-NDDGVPTGECMVAFESQEEA 922 (944)
T ss_pred EecCCCccccHHHHHHHhcc-cccCCCceeEee-cCCCCcccceeEeecCHHHH
Confidence 348888 999999999997 775456777777 56677778899999987653
No 103
>PRK03174 sspH acid-soluble spore protein H; Provisional
Probab=24.37 E-value=1.6e+02 Score=22.02 Aligned_cols=28 Identities=18% Similarity=0.362 Sum_probs=23.7
Q ss_pred HHHHhCCCceeEEEEcCeeeEEEecccC
Q 038800 251 VDQILSGRRIAKFRINGKHIWARKYERR 278 (280)
Q Consensus 251 v~~vL~g~~~~Kf~Ingk~iWarky~pk 278 (280)
+.+|++....++.+-||..+|...+-..
T Consensus 6 AkeI~~Sp~~i~VtY~G~pV~Ie~vde~ 33 (59)
T PRK03174 6 AQEIAESPDMANVTYNGVPIYIQHVDEQ 33 (59)
T ss_pred HHHHHcCccceEEEECCEEEEEEEEcCC
Confidence 5788898889999999999999877543
No 104
>cd08773 FpgNei_N N-terminal domain of Fpg (formamidopyrimidine-DNA glycosylase, MutM)_Nei (endonuclease VIII) base-excision repair DNA glycosylases. DNA glycosylases maintain genome integrity by recognizing base lesions created by ionizing radiation, alkylating or oxidizing agents, and endogenous reactive oxygen species. These enzymes initiate the base-excision repair process, which is completed with the help of enzymes such as phosphodiesterases, AP endonucleases, DNA polymerases and DNA ligases. DNA glycolsylases cleave the N-glycosyl bond between the sugar and the damaged base, creating an AP (apurinic/apyrimidinic) site. The FpgNei DNA glycosylases represent one of the two structural superfamilies of DNA glycosylases that recognize oxidized bases (the other is the HTH-GPD superfamily exemplified by Escherichia coli Nth). Most FpgNei DNA glycosylases use their N-terminal proline residue as the key catalytic nucleophile, and the reaction proceeds via a Schiff base intermediate. One e
Probab=22.28 E-value=1.9e+02 Score=23.00 Aligned_cols=44 Identities=23% Similarity=0.382 Sum_probs=33.6
Q ss_pred CCeeeEEEeeccCCCCCCCceEEEEEcchhhHHHHhCCCceeEEEEcCeeeEEE
Q 038800 220 GDCVESIHMQENVPSNEQPLFARLVLQSVANVDQILSGRRIAKFRINGKHIWAR 273 (280)
Q Consensus 220 Gdcve~v~m~~~~~~~~qplfarivf~s~~~v~~vL~g~~~~Kf~Ingk~iWar 273 (280)
|--|++|.+..+ ++++...+.....|.|....+..=.||++|..
T Consensus 19 G~~I~~v~~~~~----------~~~~~~~~~~~~~l~G~~i~~v~r~GK~l~~~ 62 (117)
T cd08773 19 GKRVTRVEVSDP----------RRLFTPAAELAAALIGRRVRGAERRGKYLLLE 62 (117)
T ss_pred CCEEEEEEECCC----------ceecCChHHHHHHcCCCEEeeEEEeeeEEEEE
Confidence 677888888663 12333366677889999999999999999985
No 105
>PRK01625 sspH acid-soluble spore protein H; Provisional
Probab=22.17 E-value=1.8e+02 Score=21.64 Aligned_cols=28 Identities=25% Similarity=0.466 Sum_probs=23.7
Q ss_pred HHHHhCCCceeEEEEcCeeeEEEecccC
Q 038800 251 VDQILSGRRIAKFRINGKHIWARKYERR 278 (280)
Q Consensus 251 v~~vL~g~~~~Kf~Ingk~iWarky~pk 278 (280)
+.+|++....++.+-||..+|...+-.+
T Consensus 6 AkeI~~S~~~i~V~Y~G~pV~Iq~vde~ 33 (59)
T PRK01625 6 VKQILSSSSRIDVTYEGVPVWIESCDEQ 33 (59)
T ss_pred HHHHHcCCcceEEEECCEEEEEEEEcCC
Confidence 5688998889999999999999877543
No 106
>PF13797 Post_transc_reg: Post-transcriptional regulator
Probab=22.12 E-value=65 Score=25.46 Aligned_cols=16 Identities=25% Similarity=0.520 Sum_probs=14.6
Q ss_pred CCc-CCHHHHHHHHHhh
Q 038800 203 GFP-VTRDEVKELFTRM 218 (280)
Q Consensus 203 G~P-vse~ei~~fF~~~ 218 (280)
||+ ||++||-+||+.+
T Consensus 24 GY~~vt~~dlw~yl~~~ 40 (87)
T PF13797_consen 24 GYESVTEEDLWSYLTEK 40 (87)
T ss_pred CcCcCCHHHHHHHHHHH
Confidence 888 9999999999864
No 107
>cd08966 EcFpg-like_N N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases. This family contains the N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases. It belongs to the FpgNei_N, [N-terminal domain of Fpg (formamidopyrimidine-DNA glycosylase, MutM)_Nei (endonuclease VIII)] domain superfamily. DNA glycosylases maintain genome integrity by recognizing base lesions created by ionizing radiation, alkylating or oxidizing agents, and endogenous reactive oxygen species. They initiate the base-excision repair process, which is completed with the help of enzymes such as phosphodiesterases, AP endonucleases, DNA polymerases and DNA ligases. DNA glycosylases cleave the N-glycosyl bond between the sugar and the damaged base, creating an AP (apurinic/apyrimidinic) site. Most FpgNei DNA glycosylases use their N-terminal proline residue as the key catalytic nucleophile, and the reaction proceeds via a Schiff base intermediate. Es
Probab=22.05 E-value=1.9e+02 Score=23.16 Aligned_cols=51 Identities=20% Similarity=0.286 Sum_probs=36.9
Q ss_pred HHHHhhc-CCeeeEEEeeccCCCCCCCceEEEEEc-chhhHHHHhCCCceeEEEEcCeeeEEE
Q 038800 213 ELFTRMY-GDCVESIHMQENVPSNEQPLFARLVLQ-SVANVDQILSGRRIAKFRINGKHIWAR 273 (280)
Q Consensus 213 ~fF~~~y-Gdcve~v~m~~~~~~~~qplfarivf~-s~~~v~~vL~g~~~~Kf~Ingk~iWar 273 (280)
+...+.. |--|+.|.+..+ ++++. +++.....|.|.......=.||++|..
T Consensus 11 ~~l~~~l~G~~I~~v~~~~~----------~~~~~~~~~~~~~~l~G~~i~~v~r~GK~l~~~ 63 (120)
T cd08966 11 RGLAPHLVGRRIEDVEVRRP----------KLRRPPDPEEFAERLVGRRITGVERRGKYLLFE 63 (120)
T ss_pred HHHHHHhCCCEEEEEEECCC----------CeeccCChHHHHhhCCCCEEEEEEeeeEEEEEE
Confidence 4444444 667888888652 12343 566778889999999999999999975
No 108
>cd08976 BaFpgNei_N_4 Uncharacterized bacterial subgroup of the N-terminal domain of Fpg (formamidopyrimidine-DNA glycosylase, MutM)_Nei (endonuclease VIII) base-excision repair DNA glycosylases. This family is an uncharacterized bacterial subgroup of the FpgNei_N domain superfamily. DNA glycosylases maintain genome integrity by recognizing base lesions created by ionizing radiation, alkylating or oxidizing agents, and endogenous reactive oxygen species. They initiate the base-excision repair process, which is completed with the help of enzymes such as phosphodiesterases, AP endonucleases, DNA polymerases and DNA ligases. DNA glycosylases cleave the N-glycosyl bond between the sugar and the damaged base, creating an AP (apurinic/apyrimidinic) site. Most FpgNei DNA glycosylases use their N-terminal proline residue as the key catalytic nucleophile, and the reaction proceeds via a Schiff base intermediate. This N-terminal proline is conserved in this family. Escherichia coli Fpg prefers 8
Probab=20.02 E-value=2.6e+02 Score=22.41 Aligned_cols=51 Identities=14% Similarity=0.335 Sum_probs=36.6
Q ss_pred HHHHhhc-CCeeeEEEeeccCCCCCCCceEEEEEcchhhHHHHhCCCceeEEEEcCeeeEEE
Q 038800 213 ELFTRMY-GDCVESIHMQENVPSNEQPLFARLVLQSVANVDQILSGRRIAKFRINGKHIWAR 273 (280)
Q Consensus 213 ~fF~~~y-Gdcve~v~m~~~~~~~~qplfarivf~s~~~v~~vL~g~~~~Kf~Ingk~iWar 273 (280)
....+.. |--|++|.+..+ +++....+.....|.|.......-.||++|..
T Consensus 11 ~~l~~~~~g~~I~~v~~~~~----------~~~~~~~~~~~~~L~G~~i~~v~RrGK~L~~~ 62 (117)
T cd08976 11 QYLERTSLHRKIVEVEVGDD----------KILGEPKATLREVLEGRTFTETHRIGKYLFLK 62 (117)
T ss_pred HHHHHHhCCCEEEEEEECCC----------CEeccCHHHHHhhcCCCEEEEEEEeeeEEEEE
Confidence 4444433 778899998663 12222355667889999999999999999975
Done!