Query 038714
Match_columns 319
No_of_seqs 73 out of 75
Neff 4.8
Searched_HMMs 46136
Date Fri Mar 29 02:36:42 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/038714.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/038714hhsearch_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 98.1 5.6E-06 1.2E-10 80.6 5.7 78 235-319 96-176 (311)
2 KOG0149 Predicted RNA-binding 98.0 1.7E-05 3.6E-10 74.5 7.9 72 234-311 9-83 (247)
3 PF14259 RRM_6: RNA recognitio 97.9 2.1E-05 4.6E-10 58.1 4.9 64 243-311 4-69 (70)
4 PLN03134 glycine-rich RNA-bind 97.8 0.00019 4.1E-09 62.2 9.6 79 230-315 30-110 (144)
5 PF00076 RRM_1: RNA recognitio 97.8 7.2E-05 1.6E-09 54.2 6.0 65 242-311 3-69 (70)
6 KOG4205 RNA-binding protein mu 97.7 3.6E-05 7.8E-10 75.0 5.2 78 233-319 5-85 (311)
7 smart00360 RRM RNA recognition 97.7 0.00019 4.1E-09 50.3 7.5 62 247-312 8-69 (71)
8 PLN03120 nucleic acid binding 97.7 0.00019 4.1E-09 68.5 9.3 68 234-314 4-75 (260)
9 smart00362 RRM_2 RNA recogniti 97.6 0.00033 7.2E-09 49.3 7.8 65 243-313 5-71 (72)
10 KOG0113 U1 small nuclear ribon 97.5 0.00046 1E-08 67.0 9.4 92 209-313 84-175 (335)
11 cd00590 RRM RRM (RNA recogniti 97.5 0.00072 1.6E-08 47.8 8.2 67 243-314 5-73 (74)
12 TIGR01661 ELAV_HUD_SF ELAV/HuD 97.5 0.00059 1.3E-08 65.0 9.9 74 234-314 3-78 (352)
13 TIGR01661 ELAV_HUD_SF ELAV/HuD 97.4 0.00074 1.6E-08 64.3 8.9 75 234-318 269-348 (352)
14 TIGR01645 half-pint poly-U bin 97.2 0.0011 2.3E-08 70.1 8.7 79 233-318 203-283 (612)
15 TIGR01659 sex-lethal sex-letha 97.2 0.0012 2.5E-08 65.1 8.5 78 230-314 103-182 (346)
16 TIGR01622 SF-CC1 splicing fact 97.2 0.0015 3.3E-08 64.7 9.2 74 233-313 185-260 (457)
17 COG0724 RNA-binding proteins ( 97.1 0.0026 5.6E-08 55.0 8.5 76 234-316 115-192 (306)
18 TIGR01622 SF-CC1 splicing fact 97.1 0.0023 5E-08 63.4 8.7 76 231-314 86-163 (457)
19 PLN03121 nucleic acid binding 97.0 0.0045 9.8E-08 58.6 9.8 69 234-315 5-77 (243)
20 TIGR01628 PABP-1234 polyadenyl 96.9 0.0043 9.3E-08 63.6 9.3 71 236-313 2-74 (562)
21 TIGR01659 sex-lethal sex-letha 96.8 0.0044 9.4E-08 61.1 8.1 61 233-298 192-254 (346)
22 TIGR01628 PABP-1234 polyadenyl 96.8 0.0051 1.1E-07 63.1 8.7 76 234-317 285-362 (562)
23 TIGR01649 hnRNP-L_PTB hnRNP-L/ 96.7 0.0052 1.1E-07 62.5 8.0 72 234-316 2-75 (481)
24 TIGR01642 U2AF_lg U2 snRNP aux 96.6 0.012 2.6E-07 59.1 9.6 79 230-315 291-371 (509)
25 TIGR01645 half-pint poly-U bin 96.5 0.0089 1.9E-07 63.3 8.3 74 233-313 106-181 (612)
26 TIGR01648 hnRNP-R-Q heterogene 96.5 0.0098 2.1E-07 62.6 8.5 62 231-298 55-118 (578)
27 TIGR01648 hnRNP-R-Q heterogene 95.9 0.031 6.8E-07 58.9 8.6 82 229-314 133-217 (578)
28 smart00361 RRM_1 RNA recogniti 95.7 0.056 1.2E-06 40.7 7.1 61 248-313 1-69 (70)
29 TIGR01642 U2AF_lg U2 snRNP aux 95.6 0.052 1.1E-06 54.5 8.6 73 230-314 171-255 (509)
30 KOG0116 RasGAP SH3 binding pro 95.1 0.065 1.4E-06 54.5 7.3 78 230-315 284-363 (419)
31 KOG0132 RNA polymerase II C-te 94.9 0.041 8.9E-07 59.4 5.7 72 234-318 421-497 (894)
32 KOG0153 Predicted RNA-binding 93.9 0.21 4.5E-06 49.9 7.6 67 235-314 229-301 (377)
33 KOG0144 RNA-binding protein CU 93.6 0.078 1.7E-06 54.1 4.3 54 232-291 122-177 (510)
34 PF13893 RRM_5: RNA recognitio 93.2 0.22 4.7E-06 35.4 5.0 50 252-313 1-53 (56)
35 TIGR01649 hnRNP-L_PTB hnRNP-L/ 92.7 0.54 1.2E-05 48.0 8.8 70 233-314 274-346 (481)
36 KOG0144 RNA-binding protein CU 91.6 0.26 5.6E-06 50.5 4.8 60 239-300 36-97 (510)
37 KOG0117 Heterogeneous nuclear 91.4 0.39 8.5E-06 49.4 5.8 69 236-313 85-158 (506)
38 KOG0127 Nucleolar protein fibr 90.1 1.4 3.1E-05 46.5 8.6 79 235-318 293-377 (678)
39 PLN03213 repressor of silencin 89.9 1.1 2.3E-05 47.1 7.5 69 239-318 12-87 (759)
40 KOG4207 Predicted splicing fac 89.2 0.85 1.8E-05 43.0 5.7 63 245-311 23-85 (256)
41 KOG0108 mRNA cleavage and poly 88.9 0.87 1.9E-05 46.7 6.1 67 238-311 19-90 (435)
42 KOG4212 RNA-binding protein hn 88.1 1.6 3.5E-05 45.1 7.3 81 229-314 39-119 (608)
43 KOG0129 Predicted RNA-binding 84.9 3 6.4E-05 43.6 7.3 60 232-296 368-430 (520)
44 KOG0131 Splicing factor 3b, su 84.5 2.3 4.9E-05 39.4 5.6 60 233-297 8-72 (203)
45 KOG0114 Predicted RNA-binding 83.1 3.6 7.7E-05 35.2 5.8 55 229-291 13-69 (124)
46 KOG0122 Translation initiation 80.8 3.1 6.7E-05 40.1 5.2 51 247-299 201-254 (270)
47 PF15513 DUF4651: Domain of un 80.8 2.7 5.9E-05 32.3 4.0 36 250-288 9-44 (62)
48 KOG0129 Predicted RNA-binding 79.8 3.3 7.2E-05 43.3 5.5 68 235-304 257-335 (520)
49 KOG0105 Alternative splicing f 77.8 5.4 0.00012 37.3 5.7 61 232-300 4-66 (241)
50 KOG0146 RNA-binding protein ET 76.9 3 6.6E-05 40.8 4.0 62 231-296 16-77 (371)
51 KOG4206 Spliceosomal protein s 74.6 9.4 0.0002 36.1 6.5 57 235-299 10-75 (221)
52 TIGR03147 cyt_nit_nrfF cytochr 74.0 2.3 4.9E-05 36.9 2.1 21 247-270 74-94 (126)
53 KOG4211 Splicing factor hnRNP- 72.1 6.7 0.00015 40.9 5.2 53 243-298 109-164 (510)
54 KOG0127 Nucleolar protein fibr 71.9 4.8 0.00011 42.7 4.2 59 235-298 6-66 (678)
55 KOG0148 Apoptosis-promoting RN 71.9 10 0.00022 37.2 6.2 55 230-295 160-216 (321)
56 KOG1457 RNA binding protein (c 71.5 14 0.00031 35.5 6.9 63 231-299 31-100 (284)
57 KOG0121 Nuclear cap-binding pr 70.9 9.6 0.00021 33.8 5.2 59 233-296 35-95 (153)
58 KOG4454 RNA binding protein (R 70.7 3.1 6.6E-05 39.7 2.3 65 229-299 4-72 (267)
59 PRK10144 formate-dependent nit 70.0 3.2 6.9E-05 36.0 2.1 21 247-270 74-94 (126)
60 KOG0123 Polyadenylate-binding 68.3 11 0.00025 37.7 5.9 65 236-311 3-67 (369)
61 KOG0107 Alternative splicing f 66.7 16 0.00034 33.8 5.9 56 235-300 11-71 (195)
62 KOG0126 Predicted RNA-binding 66.4 1.9 4.1E-05 40.1 -0.1 49 241-291 39-89 (219)
63 KOG4208 Nucleolar RNA-binding 65.9 20 0.00042 33.8 6.5 51 240-291 52-104 (214)
64 PF03918 CcmH: Cytochrome C bi 65.8 3.9 8.4E-05 36.1 1.8 20 247-269 74-93 (148)
65 KOG4211 Splicing factor hnRNP- 65.3 19 0.00042 37.7 6.9 72 235-311 8-88 (510)
66 PF05172 Nup35_RRM: Nup53/35/4 64.8 17 0.00038 30.0 5.4 56 244-300 13-75 (100)
67 KOG0125 Ataxin 2-binding prote 63.6 17 0.00037 36.5 6.0 76 231-318 93-173 (376)
68 KOG0148 Apoptosis-promoting RN 61.8 22 0.00048 35.0 6.2 72 237-315 62-141 (321)
69 KOG0533 RRM motif-containing p 59.7 15 0.00033 35.1 4.7 56 232-291 79-136 (243)
70 KOG0147 Transcriptional coacti 59.4 15 0.00032 38.9 4.9 60 245-311 288-350 (549)
71 KOG0123 Polyadenylate-binding 53.8 66 0.0014 32.3 8.4 70 240-319 79-153 (369)
72 PF10866 DUF2704: Protein of u 53.7 18 0.00039 32.7 3.9 38 11-56 54-91 (168)
73 PF08777 RRM_3: RNA binding mo 53.6 12 0.00025 31.0 2.5 65 239-311 4-72 (105)
74 KOG0124 Polypyrimidine tract-b 52.5 27 0.00058 35.8 5.3 69 230-300 203-273 (544)
75 PF14605 Nup35_RRM_2: Nup53/35 51.9 47 0.001 24.1 5.2 45 243-295 7-52 (53)
76 KOG0111 Cyclophilin-type pepti 46.4 19 0.00041 34.6 3.0 57 230-291 6-64 (298)
77 KOG0145 RNA-binding protein EL 42.9 40 0.00087 33.2 4.7 63 231-297 37-101 (360)
78 COG3088 CcmH Uncharacterized p 39.1 21 0.00045 32.1 1.9 20 247-269 78-97 (153)
79 KOG0145 RNA-binding protein EL 37.8 38 0.00082 33.3 3.6 61 234-299 127-192 (360)
80 KOG2971 RNA-binding protein re 36.2 46 0.001 32.5 3.9 62 230-317 148-211 (299)
81 KOG2202 U2 snRNP splicing fact 35.3 18 0.00039 35.0 1.1 56 251-313 84-142 (260)
82 PF02946 GTF2I: GTF2I-like rep 35.2 31 0.00066 27.6 2.2 51 249-307 2-74 (76)
83 COG5606 Uncharacterized conser 32.7 49 0.0011 27.3 3.0 39 42-80 27-65 (91)
84 KOG0131 Splicing factor 3b, su 32.3 57 0.0012 30.4 3.7 49 247-297 108-157 (203)
85 KOG0117 Heterogeneous nuclear 32.1 1.7E+02 0.0037 30.8 7.4 63 229-295 159-224 (506)
86 PF10309 DUF2414: Protein of u 28.4 1.5E+02 0.0033 22.6 4.9 48 243-297 11-60 (62)
87 KOG4209 Splicing factor RNPS1, 27.9 1.1E+02 0.0024 28.9 5.0 64 231-297 98-161 (231)
88 PF03540 TFIID_30kDa: Transcri 24.7 77 0.0017 23.5 2.6 34 50-83 10-46 (51)
89 KOG0130 RNA-binding protein RB 24.5 1.5E+02 0.0032 26.7 4.8 55 238-294 73-129 (170)
90 TIGR02118 conserved hypothetic 24.5 3E+02 0.0064 21.8 6.3 61 239-299 3-73 (100)
91 PF04059 RRM_2: RNA recognitio 24.2 2.7E+02 0.0058 22.9 6.0 55 243-297 7-63 (97)
92 COG3495 Uncharacterized protei 24.2 54 0.0012 29.4 2.0 22 228-249 105-126 (166)
93 COG5132 BUD31 Cell cycle contr 21.9 56 0.0012 28.5 1.7 60 17-91 50-110 (146)
94 COG1259 Uncharacterized conser 21.3 2E+02 0.0044 25.8 5.1 47 240-290 52-98 (151)
95 KOG0106 Alternative splicing f 20.5 95 0.002 29.3 3.0 46 240-295 4-51 (216)
96 PRK11512 DNA-binding transcrip 20.3 5.2E+02 0.011 21.6 7.7 78 1-81 1-79 (144)
97 PF13797 Post_transc_reg: Post 20.1 78 0.0017 25.6 2.0 16 244-259 24-40 (87)
No 1
>KOG4205 consensus RNA-binding protein musashi/mRNA cleavage and polyadenylation factor I complex, subunit HRP1 [RNA processing and modification]
Probab=98.06 E-value=5.6e-06 Score=80.58 Aligned_cols=78 Identities=24% Similarity=0.376 Sum_probs=68.6
Q ss_pred ceEEEEccCCCc--CCHHHHHHHHHhhcCCceeEEEeeecCCCCCCCceEEEEecchhhHHHHhCC-CCeeeEEEcCcee
Q 038714 235 RTIFLTFSKGYP--ISENEIRDFFIRKFGECFEAINMQEVASSTEQPLFARLVMDSASFMDVVLGG-KSKAKFSINGKHK 311 (319)
Q Consensus 235 Rt~FvTFS~G~P--vse~ei~~fF~~~yGdcie~v~mq~~~~~~~qplfariVf~s~~~v~~vL~g-~~~~kf~Ingkhi 311 (319)
||+ ..|.+|.| ++++|+++||+. ||-.-+.+.|-+. ...+...||+|.|++++.||.++.- .+ .+|||.+
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-FGKVADVVIMYDK-TTSRPRGFGFVTFDSEDSVDKVTLQKFH----DFNGKKV 168 (311)
T ss_pred cee-EEEecCcCCCCchHHHhhhhhc-cceeEeeEEeecc-cccccccceeeEeccccccceeccccee----eecCcee
Confidence 455 66668999 999999999997 9976777788887 8999999999999999999999983 44 8999999
Q ss_pred EEEeccCC
Q 038714 312 IIQILKNN 319 (319)
Q Consensus 312 Warky~pk 319 (319)
-+++++||
T Consensus 169 evkrA~pk 176 (311)
T KOG4205|consen 169 EVKRAIPK 176 (311)
T ss_pred eEeeccch
Confidence 99999997
No 2
>KOG0149 consensus Predicted RNA-binding protein SEB4 (RRM superfamily) [General function prediction only]
Probab=98.02 E-value=1.7e-05 Score=74.52 Aligned_cols=72 Identities=18% Similarity=0.335 Sum_probs=61.3
Q ss_pred CceEEEEccCCCc--CCHHHHHHHHHhhcCCceeEEEeeecCCCCCCCceEEEEecchhhHHHHhCC-CCeeeEEEcCce
Q 038714 234 ERTIFLTFSKGYP--ISENEIRDFFIRKFGECFEAINMQEVASSTEQPLFARLVMDSASFMDVVLGG-KSKAKFSINGKH 310 (319)
Q Consensus 234 ~Rt~FvTFS~G~P--vse~ei~~fF~~~yGdcie~v~mq~~~~~~~qplfariVf~s~~~v~~vL~g-~~~~kf~Ingkh 310 (319)
|-|.=+.|.+|.| -+.+++++||++ ||+++|+|.+-|. .+++..+||+|+|+..+...+.... .. .|+||.
T Consensus 9 DT~~TKifVggL~w~T~~~~l~~yFeq-fGeI~eavvitd~-~t~rskGyGfVTf~d~~aa~rAc~dp~p----iIdGR~ 82 (247)
T KOG0149|consen 9 DTTFTKIFVGGLAWETHKETLRRYFEQ-FGEIVEAVVITDK-NTGRSKGYGFVTFRDAEAATRACKDPNP----IIDGRK 82 (247)
T ss_pred CceEEEEEEcCcccccchHHHHHHHHH-hCceEEEEEEecc-CCccccceeeEEeecHHHHHHHhcCCCC----cccccc
Confidence 3355578999999 678999999997 9999999999998 8999999999999999987777663 45 788876
Q ss_pred e
Q 038714 311 K 311 (319)
Q Consensus 311 i 311 (319)
.
T Consensus 83 a 83 (247)
T KOG0149|consen 83 A 83 (247)
T ss_pred c
Confidence 5
No 3
>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=97.89 E-value=2.1e-05 Score=58.07 Aligned_cols=64 Identities=23% Similarity=0.363 Sum_probs=52.5
Q ss_pred CCCc--CCHHHHHHHHHhhcCCceeEEEeeecCCCCCCCceEEEEecchhhHHHHhCCCCeeeEEEcCcee
Q 038714 243 KGYP--ISENEIRDFFIRKFGECFEAINMQEVASSTEQPLFARLVMDSASFMDVVLGGKSKAKFSINGKHK 311 (319)
Q Consensus 243 ~G~P--vse~ei~~fF~~~yGdcie~v~mq~~~~~~~qplfariVf~s~~~v~~vL~g~~~~kf~Ingkhi 311 (319)
+|.| ++++||+++|.+ ||+ |+.|.|..... ++...+|.|.|.+++...++|.-.+ +..|+||++
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 6777 999999999998 896 89999988634 8899999999999999998888433 458899986
No 4
>PLN03134 glycine-rich RNA-binding protein 4; Provisional
Probab=97.77 E-value=0.00019 Score=62.21 Aligned_cols=79 Identities=14% Similarity=0.253 Sum_probs=61.0
Q ss_pred CCCCCceEEEEccCCCc--CCHHHHHHHHHhhcCCceeEEEeeecCCCCCCCceEEEEecchhhHHHHhCCCCeeeEEEc
Q 038714 230 VPPDERTIFLTFSKGYP--ISENEIRDFFIRKFGECFEAINMQEVASSTEQPLFARLVMDSASFMDVVLGGKSKAKFSIN 307 (319)
Q Consensus 230 ~~~d~Rt~FvTFS~G~P--vse~ei~~fF~~~yGdcie~v~mq~~~~~~~qplfariVf~s~~~v~~vL~g~~~~kf~In 307 (319)
.....+++|| ++.| ++|++|+++|.. ||. |+++.|...+.+++...||.|.|.+++.++.+|...+ ...|+
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 999999999986 998 6666665543688999999999999999999886432 12688
Q ss_pred CceeEEEe
Q 038714 308 GKHKIIQI 315 (319)
Q Consensus 308 gkhiWark 315 (319)
|+.+=+..
T Consensus 103 Gr~l~V~~ 110 (144)
T PLN03134 103 GRHIRVNP 110 (144)
T ss_pred CEEEEEEe
Confidence 88875543
No 5
>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=97.77 E-value=7.2e-05 Score=54.15 Aligned_cols=65 Identities=29% Similarity=0.439 Sum_probs=51.0
Q ss_pred cCCCc--CCHHHHHHHHHhhcCCceeEEEeeecCCCCCCCceEEEEecchhhHHHHhCCCCeeeEEEcCcee
Q 038714 242 SKGYP--ISENEIRDFFIRKFGECFEAINMQEVASSTEQPLFARLVMDSASFMDVVLGGKSKAKFSINGKHK 311 (319)
Q Consensus 242 S~G~P--vse~ei~~fF~~~yGdcie~v~mq~~~~~~~qplfariVf~s~~~v~~vL~g~~~~kf~Ingkhi 311 (319)
.+|.| ++++||+++|.. ||+. +.+.|... ..+....||.|.|.+.+..+.++.--+. ..++|+.+
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-ESIKVMRN-SSGKSKGYAFVEFESEEDAEKALEELNG--KKINGRKI 69 (70)
T ss_dssp EESETTTSSHHHHHHHHHT-TSTE-EEEEEEEE-TTSSEEEEEEEEESSHHHHHHHHHHHTT--EEETTEEE
T ss_pred EcCCCCcCCHHHHHHHHHH-hhhc-cccccccc-ccccccceEEEEEcCHHHHHHHHHHcCC--CEECccCc
Confidence 37878 999999999998 9994 66666665 7899999999999999998888762211 35677654
No 6
>KOG4205 consensus RNA-binding protein musashi/mRNA cleavage and polyadenylation factor I complex, subunit HRP1 [RNA processing and modification]
Probab=97.74 E-value=3.6e-05 Score=75.01 Aligned_cols=78 Identities=19% Similarity=0.408 Sum_probs=69.6
Q ss_pred CCceEEEEccCCCc--CCHHHHHHHHHhhcCCceeEEEeeecCCCCCCCceEEEEecchhhHHHHhCC-CCeeeEEEcCc
Q 038714 233 DERTIFLTFSKGYP--ISENEIRDFFIRKFGECFEAINMQEVASSTEQPLFARLVMDSASFMDVVLGG-KSKAKFSINGK 309 (319)
Q Consensus 233 d~Rt~FvTFS~G~P--vse~ei~~fF~~~yGdcie~v~mq~~~~~~~qplfariVf~s~~~v~~vL~g-~~~~kf~Ingk 309 (319)
|...+|| .|.. .+++.+++||+ +||+.+|.+.|.++ .+++...||+|.|.+++-+++||+- .+ .|.||
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-QFGEVTDCVVMRDP-STGRSRGFGFVTFATPEGVDAVLNARTH----KLDGR 75 (311)
T ss_pred CCcceee---cCcCccccHHHHHHHhc-ccCceeeEEEeccC-CCCCcccccceecCCCcchheeeccccc----ccCCc
Confidence 6678888 8877 99999999995 59999999999998 8899999999999999999999995 44 79999
Q ss_pred eeEEEeccCC
Q 038714 310 HKIIQILKNN 319 (319)
Q Consensus 310 hiWarky~pk 319 (319)
.|-..+-+|+
T Consensus 76 ~ve~k~av~r 85 (311)
T KOG4205|consen 76 SVEPKRAVSR 85 (311)
T ss_pred cccceeccCc
Confidence 9988888775
No 7
>smart00360 RRM RNA recognition motif.
Probab=97.73 E-value=0.00019 Score=50.29 Aligned_cols=62 Identities=19% Similarity=0.369 Sum_probs=48.5
Q ss_pred CCHHHHHHHHHhhcCCceeEEEeeecCCCCCCCceEEEEecchhhHHHHhCCCCeeeEEEcCceeE
Q 038714 247 ISENEIRDFFIRKFGECFEAINMQEVASSTEQPLFARLVMDSASFMDVVLGGKSKAKFSINGKHKI 312 (319)
Q Consensus 247 vse~ei~~fF~~~yGdcie~v~mq~~~~~~~qplfariVf~s~~~v~~vL~g~~~~kf~IngkhiW 312 (319)
++++||+++|.+ ||+ |+.+.+...+..++...||.|.|.+.+....++...+ +..++|+++=
T Consensus 8 ~~~~~l~~~f~~-~g~-v~~~~i~~~~~~~~~~~~a~v~f~~~~~a~~a~~~~~--~~~~~~~~~~ 69 (71)
T smart00360 8 VTEEELRELFSK-FGK-IESVRLVRDKDTGKSKGFAFVEFESEEDAEKALEALN--GKELDGRPLK 69 (71)
T ss_pred cCHHHHHHHHHh-hCC-EeEEEEEeCCCCCCCCceEEEEeCCHHHHHHHHHHcC--CCeeCCcEEE
Confidence 799999999985 998 5667776652457778899999999999988887544 3355888764
No 8
>PLN03120 nucleic acid binding protein; Provisional
Probab=97.71 E-value=0.00019 Score=68.50 Aligned_cols=68 Identities=24% Similarity=0.347 Sum_probs=53.9
Q ss_pred CceEEEEccCCCc--CCHHHHHHHHHhhcCCceeEEEeeecCCCCCCCceEEEEecchhhHHHHhC--CCCeeeEEEcCc
Q 038714 234 ERTIFLTFSKGYP--ISENEIRDFFIRKFGECFEAINMQEVASSTEQPLFARLVMDSASFMDVVLG--GKSKAKFSINGK 309 (319)
Q Consensus 234 ~Rt~FvTFS~G~P--vse~ei~~fF~~~yGdcie~v~mq~~~~~~~qplfariVf~s~~~v~~vL~--g~~~~kf~Ingk 309 (319)
-||+|| +|.| ++|+||++||.. ||. |++|.|... ++...||+|.|.+++..+..|. |. .|+|+
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 478888 8877 999999999986 997 899999765 3456899999999888665554 43 68888
Q ss_pred eeEEE
Q 038714 310 HKIIQ 314 (319)
Q Consensus 310 hiWar 314 (319)
.+-+.
T Consensus 71 ~V~Vt 75 (260)
T PLN03120 71 SVTIT 75 (260)
T ss_pred eEEEE
Confidence 88544
No 9
>smart00362 RRM_2 RNA recognition motif.
Probab=97.65 E-value=0.00033 Score=49.31 Aligned_cols=65 Identities=15% Similarity=0.379 Sum_probs=49.5
Q ss_pred CCCc--CCHHHHHHHHHhhcCCceeEEEeeecCCCCCCCceEEEEecchhhHHHHhCCCCeeeEEEcCceeEE
Q 038714 243 KGYP--ISENEIRDFFIRKFGECFEAINMQEVASSTEQPLFARLVMDSASFMDVVLGGKSKAKFSINGKHKII 313 (319)
Q Consensus 243 ~G~P--vse~ei~~fF~~~yGdcie~v~mq~~~~~~~qplfariVf~s~~~v~~vL~g~~~~kf~IngkhiWa 313 (319)
+|.| .+++||+++|.+ ||+ |..+.|... . +....||.|.|.+.+..+.++...+. ..|+|+++=+
T Consensus 5 ~~l~~~~~~~~l~~~~~~-~g~-v~~~~~~~~-~-~~~~~~~~v~f~~~~~a~~a~~~~~~--~~~~~~~i~v 71 (72)
T smart00362 5 GNLPPDVTEEDLKELFSK-FGP-IESVKIPKD-T-GKSKGFAFVEFESEEDAEKAIEALNG--TKLGGRPLRV 71 (72)
T ss_pred cCCCCcCCHHHHHHHHHh-cCC-EEEEEEecC-C-CCCCceEEEEeCCHHHHHHHHHHhCC--cEECCEEEee
Confidence 6777 899999999985 998 455666554 3 67788999999999998888764332 3568887643
No 10
>KOG0113 consensus U1 small nuclear ribonucleoprotein (RRM superfamily) [RNA processing and modification]
Probab=97.54 E-value=0.00046 Score=66.99 Aligned_cols=92 Identities=17% Similarity=0.296 Sum_probs=69.8
Q ss_pred HhhhcCCCCCCCCCCCCccccCCCCCceEEEEccCCCcCCHHHHHHHHHhhcCCceeEEEeeecCCCCCCCceEEEEecc
Q 038714 209 RRMQISSSNSDEKGNHDYQVTVPPDERTIFLTFSKGYPISENEIRDFFIRKFGECFEAINMQEVASSTEQPLFARLVMDS 288 (319)
Q Consensus 209 ~~~~~~p~~~~~~~~~~~~~~~~~d~Rt~FvTFS~G~Pvse~ei~~fF~~~yGdcie~v~mq~~~~~~~qplfariVf~s 288 (319)
.-+.|+|+. ++. .+-+-++||||.=- .|-.+|++|+..|++ ||+ |++|.|=....++.+.+||+|+|..
T Consensus 84 ~l~~wdP~~-dp~-------a~gDPy~TLFv~RL-nydT~EskLrreF~~-YG~-IkrirlV~d~vTgkskGYAFIeye~ 152 (335)
T KOG0113|consen 84 RLKLWDPNN-DPN-------AIGDPYKTLFVARL-NYDTSESKLRREFEK-YGP-IKRIRLVRDKVTGKSKGYAFIEYEH 152 (335)
T ss_pred HHHhcCCCC-CCc-------ccCCccceeeeeec-cccccHHHHHHHHHh-cCc-ceeEEEeeecccCCccceEEEEecc
Confidence 345698853 111 45578999998421 377999999999997 999 9999887755799999999999999
Q ss_pred hhhHHHHhCCCCeeeEEEcCceeEE
Q 038714 289 ASFMDVVLGGKSKAKFSINGKHKII 313 (319)
Q Consensus 289 ~~~v~~vL~g~~~~kf~IngkhiWa 313 (319)
+..|...-- +..=..|+|+.|-+
T Consensus 153 erdm~~AYK--~adG~~Idgrri~V 175 (335)
T KOG0113|consen 153 ERDMKAAYK--DADGIKIDGRRILV 175 (335)
T ss_pred HHHHHHHHH--hccCceecCcEEEE
Confidence 888765554 33345799998744
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=97.53 E-value=0.00072 Score=47.84 Aligned_cols=67 Identities=18% Similarity=0.398 Sum_probs=52.2
Q ss_pred CCCc--CCHHHHHHHHHhhcCCceeEEEeeecCCCCCCCceEEEEecchhhHHHHhCCCCeeeEEEcCceeEEE
Q 038714 243 KGYP--ISENEIRDFFIRKFGECFEAINMQEVASSTEQPLFARLVMDSASFMDVVLGGKSKAKFSINGKHKIIQ 314 (319)
Q Consensus 243 ~G~P--vse~ei~~fF~~~yGdcie~v~mq~~~~~~~qplfariVf~s~~~v~~vL~g~~~~kf~IngkhiWar 314 (319)
+|.| ++++||+++|.+ ||+ |+.+.|... ..+....+|.|.|++.+....++...+.. .++|+++=++
T Consensus 5 ~~l~~~~~~~~i~~~~~~-~g~-i~~~~~~~~-~~~~~~~~~~v~f~s~~~a~~a~~~~~~~--~~~~~~~~v~ 73 (74)
T cd00590 5 GNLPPDVTEEDLRELFSK-FGK-VESVRIVRD-KDTKSKGFAFVEFEDEEDAEKALEALNGK--ELGGRPLRVE 73 (74)
T ss_pred eCCCCccCHHHHHHHHHh-cCC-EEEEEEeeC-CCCCcceEEEEEECCHHHHHHHHHHhCCC--eECCeEEEEe
Confidence 6776 799999999998 798 678888765 44467889999999999988888743322 2788887554
No 12
>TIGR01661 ELAV_HUD_SF ELAV/HuD family splicing factor. These proteins contain 3 RNA-recognition motifs (rrm: pfam00076).
Probab=97.52 E-value=0.00059 Score=64.98 Aligned_cols=74 Identities=11% Similarity=0.194 Sum_probs=56.6
Q ss_pred CceEEEEccCCCc--CCHHHHHHHHHhhcCCceeEEEeeecCCCCCCCceEEEEecchhhHHHHhCCCCeeeEEEcCcee
Q 038714 234 ERTIFLTFSKGYP--ISENEIRDFFIRKFGECFEAINMQEVASSTEQPLFARLVMDSASFMDVVLGGKSKAKFSINGKHK 311 (319)
Q Consensus 234 ~Rt~FvTFS~G~P--vse~ei~~fF~~~yGdcie~v~mq~~~~~~~qplfariVf~s~~~v~~vL~g~~~~kf~Ingkhi 311 (319)
..+||| ++.| ++|+||+++|.+ ||+..+.-.|.+. ..++..+||+|-|.+.+..+..|..-+. ..|.||.+
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-IGEIESCKLVRDK-VTGQSLGYGFVNYVRPEDAEKAVNSLNG--LRLQNKTI 75 (352)
T ss_pred CcEEEE---eCCCCCCCHHHHHHHHHc-cCCEEEEEEEEcC-CCCccceEEEEEECcHHHHHHHHhhccc--EEECCeeE
Confidence 347777 8998 999999999998 9995555555554 6788999999999999998887764332 35677776
Q ss_pred EEE
Q 038714 312 IIQ 314 (319)
Q Consensus 312 War 314 (319)
=++
T Consensus 76 ~v~ 78 (352)
T TIGR01661 76 KVS 78 (352)
T ss_pred EEE
Confidence 544
No 13
>TIGR01661 ELAV_HUD_SF ELAV/HuD family splicing factor. These proteins contain 3 RNA-recognition motifs (rrm: pfam00076).
Probab=97.40 E-value=0.00074 Score=64.32 Aligned_cols=75 Identities=12% Similarity=0.205 Sum_probs=56.0
Q ss_pred CceEEEEccCCCc--CCHHHHHHHHHhhcCCceeEEEeeecCCCCCCCceEEEEecchhhHHHHh---CCCCeeeEEEcC
Q 038714 234 ERTIFLTFSKGYP--ISENEIRDFFIRKFGECFEAINMQEVASSTEQPLFARLVMDSASFMDVVL---GGKSKAKFSING 308 (319)
Q Consensus 234 ~Rt~FvTFS~G~P--vse~ei~~fF~~~yGdcie~v~mq~~~~~~~qplfariVf~s~~~v~~vL---~g~~~~kf~Ing 308 (319)
.+++|| ++.| .++++|+++|.. ||++++ +.+-..+.+++..+||+|.|.+.+.....+ +|. .++|
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-FGAVQN-VKIIRDLTTNQCKGYGFVSMTNYDEAAMAILSLNGY-----TLGN 338 (352)
T ss_pred CcEEEE---eCCCCCCCHHHHHHHHHh-CCCeEE-EEEeEcCCCCCccceEEEEECCHHHHHHHHHHhCCC-----EECC
Confidence 456776 8888 999999999986 998444 555443268999999999999987655544 453 5899
Q ss_pred ceeEEEeccC
Q 038714 309 KHKIIQILKN 318 (319)
Q Consensus 309 khiWarky~p 318 (319)
|.+=+.-..+
T Consensus 339 r~i~V~~~~~ 348 (352)
T TIGR01661 339 RVLQVSFKTN 348 (352)
T ss_pred eEEEEEEccC
Confidence 9886655443
No 14
>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=97.24 E-value=0.0011 Score=70.11 Aligned_cols=79 Identities=13% Similarity=0.204 Sum_probs=62.8
Q ss_pred CCceEEEEccCCCc--CCHHHHHHHHHhhcCCceeEEEeeecCCCCCCCceEEEEecchhhHHHHhCCCCeeeEEEcCce
Q 038714 233 DERTIFLTFSKGYP--ISENEIRDFFIRKFGECFEAINMQEVASSTEQPLFARLVMDSASFMDVVLGGKSKAKFSINGKH 310 (319)
Q Consensus 233 d~Rt~FvTFS~G~P--vse~ei~~fF~~~yGdcie~v~mq~~~~~~~qplfariVf~s~~~v~~vL~g~~~~kf~Ingkh 310 (319)
..+++|| +|.| +++++|+++|.+ ||.++....+.+. .+++..+||+|.|.+.+.....+...+ .|.|+|+.
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-FGEIVKCQLARAP-TGRGHKGYGFIEYNNLQSQSEAIASMN--LFDLGGQY 275 (612)
T ss_pred ccceEEe---ecCCCCCCHHHHHHHHhh-cCCeeEEEEEecC-CCCCcCCeEEEEECCHHHHHHHHHHhC--CCeeCCeE
Confidence 3456766 8988 999999999996 9995544444444 678899999999999999888887554 45899999
Q ss_pred eEEEeccC
Q 038714 311 KIIQILKN 318 (319)
Q Consensus 311 iWarky~p 318 (319)
+=+.+.++
T Consensus 276 LrV~kAi~ 283 (612)
T TIGR01645 276 LRVGKCVT 283 (612)
T ss_pred EEEEecCC
Confidence 98887765
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=97.24 E-value=0.0012 Score=65.14 Aligned_cols=78 Identities=10% Similarity=0.137 Sum_probs=57.3
Q ss_pred CCCCCceEEEEccCCCc--CCHHHHHHHHHhhcCCceeEEEeeecCCCCCCCceEEEEecchhhHHHHhCCCCeeeEEEc
Q 038714 230 VPPDERTIFLTFSKGYP--ISENEIRDFFIRKFGECFEAINMQEVASSTEQPLFARLVMDSASFMDVVLGGKSKAKFSIN 307 (319)
Q Consensus 230 ~~~d~Rt~FvTFS~G~P--vse~ei~~fF~~~yGdcie~v~mq~~~~~~~qplfariVf~s~~~v~~vL~g~~~~kf~In 307 (319)
...+.++||| ++.| ++|+||+++|.. ||++++...|.+. .+++...||+|.|.+++.....+..-+. ..+.
T Consensus 103 ~~~~~~~LfV---gnLp~~~te~~L~~lF~~-~G~V~~v~i~~d~-~tg~srGyaFVeF~~~e~A~~Ai~~LnG--~~l~ 175 (346)
T TIGR01659 103 TNNSGTNLIV---NYLPQDMTDRELYALFRT-IGPINTCRIMRDY-KTGYSFGYAFVDFGSEADSQRAIKNLNG--ITVR 175 (346)
T ss_pred CCCCCcEEEE---eCCCCCCCHHHHHHHHHh-cCCEEEEEEEecC-CCCccCcEEEEEEccHHHHHHHHHHcCC--CccC
Confidence 3456789988 8888 999999999996 9995544455555 6788999999999999887766532111 2356
Q ss_pred CceeEEE
Q 038714 308 GKHKIIQ 314 (319)
Q Consensus 308 gkhiWar 314 (319)
||.+.+.
T Consensus 176 gr~i~V~ 182 (346)
T TIGR01659 176 NKRLKVS 182 (346)
T ss_pred Cceeeee
Confidence 6666554
No 16
>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=97.23 E-value=0.0015 Score=64.75 Aligned_cols=74 Identities=18% Similarity=0.328 Sum_probs=57.3
Q ss_pred CCceEEEEccCCCc--CCHHHHHHHHHhhcCCceeEEEeeecCCCCCCCceEEEEecchhhHHHHhCCCCeeeEEEcCce
Q 038714 233 DERTIFLTFSKGYP--ISENEIRDFFIRKFGECFEAINMQEVASSTEQPLFARLVMDSASFMDVVLGGKSKAKFSINGKH 310 (319)
Q Consensus 233 d~Rt~FvTFS~G~P--vse~ei~~fF~~~yGdcie~v~mq~~~~~~~qplfariVf~s~~~v~~vL~g~~~~kf~Ingkh 310 (319)
..+|+|| +|.| +++++|+++|.. ||. |+.|.+.....+++...||.|.|.+.+.....+..-+. +.|+|+.
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 66666655436678899999999999987776543222 5788888
Q ss_pred eEE
Q 038714 311 KII 313 (319)
Q Consensus 311 iWa 313 (319)
+=+
T Consensus 258 i~v 260 (457)
T TIGR01622 258 IKV 260 (457)
T ss_pred EEE
Confidence 733
No 17
>COG0724 RNA-binding proteins (RRM domain) [General function prediction only]
Probab=97.12 E-value=0.0026 Score=54.97 Aligned_cols=76 Identities=17% Similarity=0.361 Sum_probs=61.9
Q ss_pred CceEEEEccCCCc--CCHHHHHHHHHhhcCCceeEEEeeecCCCCCCCceEEEEecchhhHHHHhCCCCeeeEEEcCcee
Q 038714 234 ERTIFLTFSKGYP--ISENEIRDFFIRKFGECFEAINMQEVASSTEQPLFARLVMDSASFMDVVLGGKSKAKFSINGKHK 311 (319)
Q Consensus 234 ~Rt~FvTFS~G~P--vse~ei~~fF~~~yGdcie~v~mq~~~~~~~qplfariVf~s~~~v~~vL~g~~~~kf~Ingkhi 311 (319)
.+|+|| ++.| ++++||+++|.. ||. |.+|.|...+..+...+||.|.|.+.+.+..++.... ...++|+.+
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 8887 999999999997 998 5666666543689999999999999998777776433 457899998
Q ss_pred EEEec
Q 038714 312 IIQIL 316 (319)
Q Consensus 312 Warky 316 (319)
.++..
T Consensus 188 ~v~~~ 192 (306)
T COG0724 188 RVQKA 192 (306)
T ss_pred Eeecc
Confidence 88763
No 18
>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=97.06 E-value=0.0023 Score=63.41 Aligned_cols=76 Identities=18% Similarity=0.250 Sum_probs=58.5
Q ss_pred CCCCceEEEEccCCCc--CCHHHHHHHHHhhcCCceeEEEeeecCCCCCCCceEEEEecchhhHHHHhCCCCeeeEEEcC
Q 038714 231 PPDERTIFLTFSKGYP--ISENEIRDFFIRKFGECFEAINMQEVASSTEQPLFARLVMDSASFMDVVLGGKSKAKFSING 308 (319)
Q Consensus 231 ~~d~Rt~FvTFS~G~P--vse~ei~~fF~~~yGdcie~v~mq~~~~~~~qplfariVf~s~~~v~~vL~g~~~~kf~Ing 308 (319)
..+.||+|| ++.| +++++|++||.. ||. |+.|.|-....++...+||+|.|.+.+.....|.- -...+.|
T Consensus 86 ~~~~~~l~V---~nlp~~~~~~~l~~~F~~-~G~-v~~v~i~~d~~~~~skg~afVeF~~~e~A~~Al~l---~g~~~~g 157 (457)
T TIGR01622 86 ERDDRTVFV---LQLALKARERDLYEFFSK-VGK-VRDVQCIKDRNSRRSKGVAYVEFYDVESVIKALAL---TGQMLLG 157 (457)
T ss_pred ccCCcEEEE---eCCCCCCCHHHHHHHHHh-cCC-eeEEEEeecCCCCCcceEEEEEECCHHHHHHHHHh---CCCEECC
Confidence 456889988 7888 999999999987 996 56666654336788999999999999998777752 1224677
Q ss_pred ceeEEE
Q 038714 309 KHKIIQ 314 (319)
Q Consensus 309 khiWar 314 (319)
+.+.++
T Consensus 158 ~~i~v~ 163 (457)
T TIGR01622 158 RPIIVQ 163 (457)
T ss_pred eeeEEe
Confidence 777654
No 19
>PLN03121 nucleic acid binding protein; Provisional
Probab=97.03 E-value=0.0045 Score=58.63 Aligned_cols=69 Identities=20% Similarity=0.296 Sum_probs=53.6
Q ss_pred CceEEEEccCCCc--CCHHHHHHHHHhhcCCceeEEEeeecCCCCCCCceEEEEecchhhHHH--HhCCCCeeeEEEcCc
Q 038714 234 ERTIFLTFSKGYP--ISENEIRDFFIRKFGECFEAINMQEVASSTEQPLFARLVMDSASFMDV--VLGGKSKAKFSINGK 309 (319)
Q Consensus 234 ~Rt~FvTFS~G~P--vse~ei~~fF~~~yGdcie~v~mq~~~~~~~qplfariVf~s~~~v~~--vL~g~~~~kf~Ingk 309 (319)
-+|+|| .+.+ .+|+||++||.. ||. |++|.|... ++...||.|.|+.++.++. .|+|. .|.|+
T Consensus 5 g~TV~V---~NLS~~tTE~dLrefFS~-~G~-I~~V~I~~D---~et~gfAfVtF~d~~aaetAllLnGa-----~l~d~ 71 (243)
T PLN03121 5 GYTAEV---TNLSPKATEKDVYDFFSH-CGA-IEHVEIIRS---GEYACTAYVTFKDAYALETAVLLSGA-----TIVDQ 71 (243)
T ss_pred ceEEEE---ecCCCCCCHHHHHHHHHh-cCC-eEEEEEecC---CCcceEEEEEECCHHHHHHHHhcCCC-----eeCCc
Confidence 367776 7765 999999999997 999 999999876 5666799999999888554 45575 46677
Q ss_pred eeEEEe
Q 038714 310 HKIIQI 315 (319)
Q Consensus 310 hiWark 315 (319)
.|.+-.
T Consensus 72 ~I~It~ 77 (243)
T PLN03121 72 RVCITR 77 (243)
T ss_pred eEEEEe
Confidence 665544
No 20
>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=96.91 E-value=0.0043 Score=63.62 Aligned_cols=71 Identities=13% Similarity=0.223 Sum_probs=53.9
Q ss_pred eEEEEccCCCc--CCHHHHHHHHHhhcCCceeEEEeeecCCCCCCCceEEEEecchhhHHHHhCCCCeeeEEEcCceeEE
Q 038714 236 TIFLTFSKGYP--ISENEIRDFFIRKFGECFEAINMQEVASSTEQPLFARLVMDSASFMDVVLGGKSKAKFSINGKHKII 313 (319)
Q Consensus 236 t~FvTFS~G~P--vse~ei~~fF~~~yGdcie~v~mq~~~~~~~qplfariVf~s~~~v~~vL~g~~~~kf~IngkhiWa 313 (319)
|||| ++.| +||++|+++|.+ ||. |++|.+-....+++...||.|.|.+.+...+.|.-.+ .-.|+||.+.+
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 5666 8877 999999999986 999 5556554432668888999999999999888885221 12478988755
No 21
>TIGR01659 sex-lethal sex-lethal family splicing factor. This model describes the sex-lethal family of splicing factors found in Dipteran insects. The sex-lethal phenotype, however, may be limited to the Melanogasters and closely related species. In Drosophila the protein acts as an inhibitor of splicing. This subfamily is most closely related to the ELAV/HUD subfamily of splicing factors (TIGR01661).
Probab=96.81 E-value=0.0044 Score=61.14 Aligned_cols=61 Identities=8% Similarity=0.269 Sum_probs=47.7
Q ss_pred CCceEEEEccCCCc--CCHHHHHHHHHhhcCCceeEEEeeecCCCCCCCceEEEEecchhhHHHHhCC
Q 038714 233 DERTIFLTFSKGYP--ISENEIRDFFIRKFGECFEAINMQEVASSTEQPLFARLVMDSASFMDVVLGG 298 (319)
Q Consensus 233 d~Rt~FvTFS~G~P--vse~ei~~fF~~~yGdcie~v~mq~~~~~~~qplfariVf~s~~~v~~vL~g 298 (319)
.+.++|| .+.| ++|+||+++|.+ ||+++....+.+. ..++...||+|.|.+.+..+..+..
T Consensus 192 ~~~~lfV---~nLp~~vtee~L~~~F~~-fG~V~~v~i~~d~-~tg~~kG~aFV~F~~~e~A~~Ai~~ 254 (346)
T TIGR01659 192 KDTNLYV---TNLPRTITDDQLDTIFGK-YGQIVQKNILRDK-LTGTPRGVAFVRFNKREEAQEAISA 254 (346)
T ss_pred ccceeEE---eCCCCcccHHHHHHHHHh-cCCEEEEEEeecC-CCCccceEEEEEECCHHHHHHHHHH
Confidence 3457777 7888 999999999964 9996555555444 6788889999999998887776653
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=96.79 E-value=0.0051 Score=63.09 Aligned_cols=76 Identities=13% Similarity=0.232 Sum_probs=58.0
Q ss_pred CceEEEEccCCCc--CCHHHHHHHHHhhcCCceeEEEeeecCCCCCCCceEEEEecchhhHHHHhCCCCeeeEEEcCcee
Q 038714 234 ERTIFLTFSKGYP--ISENEIRDFFIRKFGECFEAINMQEVASSTEQPLFARLVMDSASFMDVVLGGKSKAKFSINGKHK 311 (319)
Q Consensus 234 ~Rt~FvTFS~G~P--vse~ei~~fF~~~yGdcie~v~mq~~~~~~~qplfariVf~s~~~v~~vL~g~~~~kf~Ingkhi 311 (319)
..++|| +|.| ++++|++++|.+ ||.+.+.-.|.+ ..+...+||+|.|.+.+....++...+. ..++||.+
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 456777 7877 999999999996 999665555555 5788899999999999988877753222 47899988
Q ss_pred EEEecc
Q 038714 312 IIQILK 317 (319)
Q Consensus 312 Warky~ 317 (319)
-+....
T Consensus 357 ~V~~a~ 362 (562)
T TIGR01628 357 YVALAQ 362 (562)
T ss_pred EEEecc
Confidence 655443
No 23
>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=96.70 E-value=0.0052 Score=62.48 Aligned_cols=72 Identities=13% Similarity=0.208 Sum_probs=55.4
Q ss_pred CceEEEEccCCCc--CCHHHHHHHHHhhcCCceeEEEeeecCCCCCCCceEEEEecchhhHHHHhCCCCeeeEEEcCcee
Q 038714 234 ERTIFLTFSKGYP--ISENEIRDFFIRKFGECFEAINMQEVASSTEQPLFARLVMDSASFMDVVLGGKSKAKFSINGKHK 311 (319)
Q Consensus 234 ~Rt~FvTFS~G~P--vse~ei~~fF~~~yGdcie~v~mq~~~~~~~qplfariVf~s~~~v~~vL~g~~~~kf~Ingkhi 311 (319)
.|++|| ++.| ++|+||+++|.. ||. |+++.|-.. ..||.|-|.+++....+++........|+|+.+
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-FGP-VSYVMMLPG------KRQALVEFEDEESAKACVNFATSVPIYIRGQPA 70 (481)
T ss_pred ccEEEE---cCCCCCCCHHHHHHHHHh-cCC-eeEEEEECC------CCEEEEEeCchHHHHHHHHHhhcCCceEcCeEE
Confidence 378877 8988 999999999997 999 555544222 259999999999988888643333568999999
Q ss_pred EEEec
Q 038714 312 IIQIL 316 (319)
Q Consensus 312 Warky 316 (319)
+++..
T Consensus 71 ~v~~s 75 (481)
T TIGR01649 71 FFNYS 75 (481)
T ss_pred EEEec
Confidence 88654
No 24
>TIGR01642 U2AF_lg U2 snRNP auxilliary factor, large subunit, splicing factor. Members of this subfamily are found in plants, metazoa and fungi.
Probab=96.58 E-value=0.012 Score=59.10 Aligned_cols=79 Identities=18% Similarity=0.304 Sum_probs=57.5
Q ss_pred CCCCCceEEEEccCCCc--CCHHHHHHHHHhhcCCceeEEEeeecCCCCCCCceEEEEecchhhHHHHhCCCCeeeEEEc
Q 038714 230 VPPDERTIFLTFSKGYP--ISENEIRDFFIRKFGECFEAINMQEVASSTEQPLFARLVMDSASFMDVVLGGKSKAKFSIN 307 (319)
Q Consensus 230 ~~~d~Rt~FvTFS~G~P--vse~ei~~fF~~~yGdcie~v~mq~~~~~~~qplfariVf~s~~~v~~vL~g~~~~kf~In 307 (319)
+++..++||| +|.| +++++|+++|.. ||. |+.+.+......+...+||+|.|.+.+..+.++.+-+- +.|+
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 7888 899999999997 998 56666554326788899999999998887766542211 1366
Q ss_pred CceeEEEe
Q 038714 308 GKHKIIQI 315 (319)
Q Consensus 308 gkhiWark 315 (319)
|+.+=+++
T Consensus 364 ~~~l~v~~ 371 (509)
T TIGR01642 364 DNKLHVQR 371 (509)
T ss_pred CeEEEEEE
Confidence 77664443
No 25
>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=96.50 E-value=0.0089 Score=63.26 Aligned_cols=74 Identities=18% Similarity=0.251 Sum_probs=54.9
Q ss_pred CCceEEEEccCCCc--CCHHHHHHHHHhhcCCceeEEEeeecCCCCCCCceEEEEecchhhHHHHhCCCCeeeEEEcCce
Q 038714 233 DERTIFLTFSKGYP--ISENEIRDFFIRKFGECFEAINMQEVASSTEQPLFARLVMDSASFMDVVLGGKSKAKFSINGKH 310 (319)
Q Consensus 233 d~Rt~FvTFS~G~P--vse~ei~~fF~~~yGdcie~v~mq~~~~~~~qplfariVf~s~~~v~~vL~g~~~~kf~Ingkh 310 (319)
..+++|| +|.| ++|++|+++|.+ ||+ |++|.|-..+.+++..+||+|.|.+.+..+..+...+. ..|+||.
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 3457877 7877 999999999997 999 55555544337889999999999999998888753221 2456665
Q ss_pred eEE
Q 038714 311 KII 313 (319)
Q Consensus 311 iWa 313 (319)
+=+
T Consensus 179 IkV 181 (612)
T TIGR01645 179 IKV 181 (612)
T ss_pred eee
Confidence 543
No 26
>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=96.49 E-value=0.0098 Score=62.59 Aligned_cols=62 Identities=18% Similarity=0.216 Sum_probs=50.8
Q ss_pred CCCCceEEEEccCCCc--CCHHHHHHHHHhhcCCceeEEEeeecCCCCCCCceEEEEecchhhHHHHhCC
Q 038714 231 PPDERTIFLTFSKGYP--ISENEIRDFFIRKFGECFEAINMQEVASSTEQPLFARLVMDSASFMDVVLGG 298 (319)
Q Consensus 231 ~~d~Rt~FvTFS~G~P--vse~ei~~fF~~~yGdcie~v~mq~~~~~~~qplfariVf~s~~~v~~vL~g 298 (319)
|+...+||| ++.| ++|+|++++|.+ ||.+++...|-+ ..++...||+|.|.+.+..+..|..
T Consensus 55 p~~~~~lFV---gnLp~~~tEd~L~~~F~~-~G~I~~vrl~~D--~sG~sRGfaFV~F~~~e~A~~Ai~~ 118 (578)
T TIGR01648 55 PGRGCEVFV---GKIPRDLYEDELVPLFEK-AGPIYELRLMMD--FSGQNRGYAFVTFCGKEEAKEAVKL 118 (578)
T ss_pred CCCCCEEEe---CCCCCCCCHHHHHHHHHh-hCCEEEEEEEEC--CCCCccceEEEEeCCHHHHHHHHHH
Confidence 555678888 8998 999999999987 998666555544 4688999999999999998887763
No 27
>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=95.89 E-value=0.031 Score=58.87 Aligned_cols=82 Identities=16% Similarity=0.210 Sum_probs=56.2
Q ss_pred cCCCCCceEEEEccCCCc--CCHHHHHHHHHhhcCCceeEEEe-eecCCCCCCCceEEEEecchhhHHHHhCCCCeeeEE
Q 038714 229 TVPPDERTIFLTFSKGYP--ISENEIRDFFIRKFGECFEAINM-QEVASSTEQPLFARLVMDSASFMDVVLGGKSKAKFS 305 (319)
Q Consensus 229 ~~~~d~Rt~FvTFS~G~P--vse~ei~~fF~~~yGdcie~v~m-q~~~~~~~qplfariVf~s~~~v~~vL~g~~~~kf~ 305 (319)
..+.+.++||| +|.| ++++||.+.|.+ ++.+++.+.+ ..+...+....||+|.|++.+.....+..-..-++.
T Consensus 133 ~~S~~~~rLFV---gNLP~~~TeeeL~eeFsk-v~egvv~vIv~~~~~~kgKnRGFAFVeF~s~edAa~AirkL~~gki~ 208 (578)
T TIGR01648 133 CISVDNCRLFV---GGIPKNKKREEILEEFSK-VTEGVVDVIVYHSAADKKKNRGFAFVEYESHRAAAMARRKLMPGRIQ 208 (578)
T ss_pred cccccCceeEe---ecCCcchhhHHHHHHhhc-ccCCceEEEEeccccccCccCceEEEEcCCHHHHHHHHHHhhccceE
Confidence 34556789988 8988 899999999987 6655555444 333234567899999999988866554432223456
Q ss_pred EcCceeEEE
Q 038714 306 INGKHKIIQ 314 (319)
Q Consensus 306 IngkhiWar 314 (319)
|.|+.+=+.
T Consensus 209 l~Gr~I~Vd 217 (578)
T TIGR01648 209 LWGHVIAVD 217 (578)
T ss_pred ecCceEEEE
Confidence 677766433
No 28
>smart00361 RRM_1 RNA recognition motif.
Probab=95.67 E-value=0.056 Score=40.65 Aligned_cols=61 Identities=13% Similarity=0.200 Sum_probs=42.0
Q ss_pred CHHHHHHHHH---hhcCCceeE--EEeeecCCCCCCCceEEEEecchhhHHHHhC---CCCeeeEEEcCceeEE
Q 038714 248 SENEIRDFFI---RKFGECFEA--INMQEVASSTEQPLFARLVMDSASFMDVVLG---GKSKAKFSINGKHKII 313 (319)
Q Consensus 248 se~ei~~fF~---~~yGdcie~--v~mq~~~~~~~qplfariVf~s~~~v~~vL~---g~~~~kf~IngkhiWa 313 (319)
.+++|+++|. .+||.+... |.|.+....++..+||.|.|.+.+.....+. |. .++|+.+=+
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 3554431238899999999999988766544 43 577776543
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=95.58 E-value=0.052 Score=54.53 Aligned_cols=73 Identities=18% Similarity=0.316 Sum_probs=52.3
Q ss_pred CCCCCceEEEEccCCCc--CCHHHHHHHHHhh---c-------CCceeEEEeeecCCCCCCCceEEEEecchhhHHHHhC
Q 038714 230 VPPDERTIFLTFSKGYP--ISENEIRDFFIRK---F-------GECFEAINMQEVASSTEQPLFARLVMDSASFMDVVLG 297 (319)
Q Consensus 230 ~~~d~Rt~FvTFS~G~P--vse~ei~~fF~~~---y-------Gdcie~v~mq~~~~~~~qplfariVf~s~~~v~~vL~ 297 (319)
.....||||| +|.| ++++||++||... + |+-|..+.+ +....||+|.|.+.+.....|.
T Consensus 171 ~~~~~r~lyV---gnLp~~~t~~~l~~~F~~~~~~~~~~~~~~~~~v~~~~~------~~~kg~afVeF~~~e~A~~Al~ 241 (509)
T TIGR01642 171 ATRQARRLYV---GGIPPEFVEEAVVDFFNDLMIATGYHKAEDGKHVSSVNI------NKEKNFAFLEFRTVEEATFAMA 241 (509)
T ss_pred CCccccEEEE---eCCCCCCCHHHHHHHHHHHHHhcCCCCCCCCCceEEEEE------CCCCCEEEEEeCCHHHHhhhhc
Confidence 4667899998 9988 9999999999973 1 333555555 3446799999999998877774
Q ss_pred CCCeeeEEEcCceeEEE
Q 038714 298 GKSKAKFSINGKHKIIQ 314 (319)
Q Consensus 298 g~~~~kf~IngkhiWar 314 (319)
-+ .+.++|+.+=++
T Consensus 242 -l~--g~~~~g~~l~v~ 255 (509)
T TIGR01642 242 -LD--SIIYSNVFLKIR 255 (509)
T ss_pred -CC--CeEeeCceeEec
Confidence 11 235677666443
No 30
>KOG0116 consensus RasGAP SH3 binding protein rasputin, contains NTF2 and RRM domains [Signal transduction mechanisms]
Probab=95.05 E-value=0.065 Score=54.52 Aligned_cols=78 Identities=19% Similarity=0.357 Sum_probs=61.1
Q ss_pred CCCCCceEEEEccCCCc--CCHHHHHHHHHhhcCCceeEEEeeecCCCCCCCceEEEEecchhhHHHHhCCCCeeeEEEc
Q 038714 230 VPPDERTIFLTFSKGYP--ISENEIRDFFIRKFGECFEAINMQEVASSTEQPLFARLVMDSASFMDVVLGGKSKAKFSIN 307 (319)
Q Consensus 230 ~~~d~Rt~FvTFS~G~P--vse~ei~~fF~~~yGdcie~v~mq~~~~~~~qplfariVf~s~~~v~~vL~g~~~~kf~In 307 (319)
+-++..++ |.+..| .+.++++++|-. ||+ |+...|+--...+..+.||+|.|.+.+.+..++.-. ++.|+
T Consensus 284 ~~~~~~~i---~V~nlP~da~~~~l~~~Fk~-FG~-Ik~~~I~vr~~~~~~~~fgFV~f~~~~~~~~~i~As---p~~ig 355 (419)
T KOG0116|consen 284 PRADGLGI---FVKNLPPDATPAELEEVFKQ-FGP-IKEGGIQVRSPGGKNPCFGFVEFENAAAVQNAIEAS---PLEIG 355 (419)
T ss_pred eeecccce---EeecCCCCCCHHHHHHHHhh-ccc-ccccceEEeccCCCcCceEEEEEeecchhhhhhhcC---ccccC
Confidence 34455564 559999 999999999997 999 666666653245666699999999999988888765 88999
Q ss_pred CceeEEEe
Q 038714 308 GKHKIIQI 315 (319)
Q Consensus 308 gkhiWark 315 (319)
|+.+-+..
T Consensus 356 ~~kl~Vee 363 (419)
T KOG0116|consen 356 GRKLNVEE 363 (419)
T ss_pred CeeEEEEe
Confidence 99887654
No 31
>KOG0132 consensus RNA polymerase II C-terminal domain-binding protein RA4, contains RPR and RRM domains [RNA processing and modification; Transcription]
Probab=94.95 E-value=0.041 Score=59.39 Aligned_cols=72 Identities=21% Similarity=0.270 Sum_probs=55.0
Q ss_pred CceEEEEccCCCc--CCHHHHHHHHHhhcCCceeEEEeeecCCCCCCCceEEEEecchhhHHHHhCCCCeeeEEEcCcee
Q 038714 234 ERTIFLTFSKGYP--ISENEIRDFFIRKFGECFEAINMQEVASSTEQPLFARLVMDSASFMDVVLGGKSKAKFSINGKHK 311 (319)
Q Consensus 234 ~Rt~FvTFS~G~P--vse~ei~~fF~~~yGdcie~v~mq~~~~~~~qplfariVf~s~~~v~~vL~g~~~~kf~Ingkhi 311 (319)
.||||| +|.| ++|+|+...|++ ||+ |++|.|- -...+|.|++.+-.....+|.--. +..+++|-|
T Consensus 421 SrTLwv---G~i~k~v~e~dL~~~fee-fGe-iqSi~li------~~R~cAfI~M~~RqdA~kalqkl~--n~kv~~k~I 487 (894)
T KOG0132|consen 421 SRTLWV---GGIPKNVTEQDLANLFEE-FGE-IQSIILI------PPRGCAFIKMVRRQDAEKALQKLS--NVKVADKTI 487 (894)
T ss_pred eeeeee---ccccchhhHHHHHHHHHh-ccc-ceeEeec------cCCceeEEEEeehhHHHHHHHHHh--cccccceee
Confidence 589988 9999 999999999998 999 9999993 346788888877766666665433 445666666
Q ss_pred ---EEEeccC
Q 038714 312 ---IIQILKN 318 (319)
Q Consensus 312 ---Warky~p 318 (319)
||.-+=|
T Consensus 488 ki~Wa~g~G~ 497 (894)
T KOG0132|consen 488 KIAWAVGKGP 497 (894)
T ss_pred EEeeeccCCc
Confidence 8875544
No 32
>KOG0153 consensus Predicted RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=93.92 E-value=0.21 Score=49.85 Aligned_cols=67 Identities=22% Similarity=0.392 Sum_probs=51.0
Q ss_pred ceEEEEccCCC--cCCHHHHHHHHHhhcCCceeEEEeeecCCCCCCCceEEEEecchhhHHHHhC-CCCeeeEEEcCcee
Q 038714 235 RTIFLTFSKGY--PISENEIRDFFIRKFGECFEAINMQEVASSTEQPLFARLVMDSASFMDVVLG-GKSKAKFSINGKHK 311 (319)
Q Consensus 235 Rt~FvTFS~G~--Pvse~ei~~fF~~~yGdcie~v~mq~~~~~~~qplfariVf~s~~~v~~vL~-g~~~~kf~Ingkhi 311 (319)
+|||| +|. -|+|.+|+++|.. ||+ |+.|.+.- .++ .|+|.|.+-.....+.. +.+ |+.|||+++
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 46666 885 3999999999997 999 88887743 333 89999998877665555 444 999999776
Q ss_pred ---EEE
Q 038714 312 ---IIQ 314 (319)
Q Consensus 312 ---War 314 (319)
|.+
T Consensus 296 ~i~Wg~ 301 (377)
T KOG0153|consen 296 KIKWGR 301 (377)
T ss_pred EEEeCC
Confidence 654
No 33
>KOG0144 consensus RNA-binding protein CUGBP1/BRUNO (RRM superfamily) [RNA processing and modification]
Probab=93.63 E-value=0.078 Score=54.13 Aligned_cols=54 Identities=24% Similarity=0.366 Sum_probs=46.9
Q ss_pred CCCceEEEEccCCCc--CCHHHHHHHHHhhcCCceeEEEeeecCCCCCCCceEEEEecchhh
Q 038714 232 PDERTIFLTFSKGYP--ISENEIRDFFIRKFGECFEAINMQEVASSTEQPLFARLVMDSASF 291 (319)
Q Consensus 232 ~d~Rt~FvTFS~G~P--vse~ei~~fF~~~yGdcie~v~mq~~~~~~~qplfariVf~s~~~ 291 (319)
.++|.||| +-.+ .+|.||++-|.+ ||- ||+++|-+. .-+..++||+|.|.+.++
T Consensus 122 ~~e~KLFv---g~lsK~~te~evr~iFs~-fG~-Ied~~ilrd-~~~~sRGcaFV~fstke~ 177 (510)
T KOG0144|consen 122 VEERKLFV---GMLSKQCTENEVREIFSR-FGH-IEDCYILRD-PDGLSRGCAFVKFSTKEM 177 (510)
T ss_pred ccchhhhh---hhccccccHHHHHHHHHh-hCc-cchhhheec-ccccccceeEEEEehHHH
Confidence 56788887 4444 899999999997 998 999999887 789999999999999877
No 34
>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=93.24 E-value=0.22 Score=35.43 Aligned_cols=50 Identities=22% Similarity=0.382 Sum_probs=36.2
Q ss_pred HHHHHHhhcCCceeEEEeeecCCCCCCCceEEEEecchhhHHHHh---CCCCeeeEEEcCceeEE
Q 038714 252 IRDFFIRKFGECFEAINMQEVASSTEQPLFARLVMDSASFMDVVL---GGKSKAKFSINGKHKII 313 (319)
Q Consensus 252 i~~fF~~~yGdcie~v~mq~~~~~~~qplfariVf~s~~~v~~vL---~g~~~~kf~IngkhiWa 313 (319)
++++|.+ ||+ |++|.|.+. . +.+|.|.|.+.+.....+ +|.. ++|+.+=+
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 788888664 2 799999999998865554 5543 68887643
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=92.75 E-value=0.54 Score=47.97 Aligned_cols=70 Identities=11% Similarity=0.175 Sum_probs=50.6
Q ss_pred CCceEEEEccCCCc---CCHHHHHHHHHhhcCCceeEEEeeecCCCCCCCceEEEEecchhhHHHHhCCCCeeeEEEcCc
Q 038714 233 DERTIFLTFSKGYP---ISENEIRDFFIRKFGECFEAINMQEVASSTEQPLFARLVMDSASFMDVVLGGKSKAKFSINGK 309 (319)
Q Consensus 233 d~Rt~FvTFS~G~P---vse~ei~~fF~~~yGdcie~v~mq~~~~~~~qplfariVf~s~~~v~~vL~g~~~~kf~Ingk 309 (319)
...+||| +|.| +++++|++.|.. ||++. +|.+-.. ...||.|.|.+++....++..-+- ..|.||
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 4578887 7876 799999999996 99955 5544332 247999999999887777653221 156888
Q ss_pred eeEEE
Q 038714 310 HKIIQ 314 (319)
Q Consensus 310 hiWar 314 (319)
.+-+.
T Consensus 342 ~l~v~ 346 (481)
T TIGR01649 342 PLRVC 346 (481)
T ss_pred eEEEE
Confidence 88665
No 36
>KOG0144 consensus RNA-binding protein CUGBP1/BRUNO (RRM superfamily) [RNA processing and modification]
Probab=91.58 E-value=0.26 Score=50.51 Aligned_cols=60 Identities=17% Similarity=0.272 Sum_probs=48.8
Q ss_pred EEccCCCc--CCHHHHHHHHHhhcCCceeEEEeeecCCCCCCCceEEEEecchhhHHHHhCCCC
Q 038714 239 LTFSKGYP--ISENEIRDFFIRKFGECFEAINMQEVASSTEQPLFARLVMDSASFMDVVLGGKS 300 (319)
Q Consensus 239 vTFS~G~P--vse~ei~~fF~~~yGdcie~v~mq~~~~~~~qplfariVf~s~~~v~~vL~g~~ 300 (319)
.-|..-.| .||.|||++|++ ||++-|-..+.|- .++++..|++|.|.+.+.-|+..+--+
T Consensus 36 KlfVgqIprt~sE~dlr~lFe~-yg~V~einl~kDk-~t~~s~gcCFv~~~trk~a~~a~~Alh 97 (510)
T KOG0144|consen 36 KLFVGQIPRTASEKDLRELFEK-YGNVYEINLIKDK-STGQSKGCCFVKYYTRKEADEAINALH 97 (510)
T ss_pred hheeccCCccccHHHHHHHHHH-hCceeEEEeeccc-ccCcccceEEEEeccHHHHHHHHHHhh
Confidence 44557777 899999999997 9996666666555 889999999999999998888776433
No 37
>KOG0117 consensus Heterogeneous nuclear ribonucleoprotein R (RRM superfamily) [RNA processing and modification]
Probab=91.36 E-value=0.39 Score=49.36 Aligned_cols=69 Identities=19% Similarity=0.226 Sum_probs=50.9
Q ss_pred eEEEEccCCCc--CCHHHHHHHHHhhcCCceeEEEeeecCCCCCCCceEEEEecchhhHH---HHhCCCCeeeEEEcCce
Q 038714 236 TIFLTFSKGYP--ISENEIRDFFIRKFGECFEAINMQEVASSTEQPLFARLVMDSASFMD---VVLGGKSKAKFSINGKH 310 (319)
Q Consensus 236 t~FvTFS~G~P--vse~ei~~fF~~~yGdcie~v~mq~~~~~~~qplfariVf~s~~~v~---~vL~g~~~~kf~Ingkh 310 (319)
-+|| +|.| +.|+|+.-+|++ =|..-|-=.|-++ -+|...+||+|+|.+..... ..||+.. .=.||+
T Consensus 85 EVfv---GkIPrD~~EdeLvplfEk-iG~I~elRLMmD~-~sG~nRGYAFVtf~~Ke~Aq~Aik~lnn~E----ir~GK~ 155 (506)
T KOG0117|consen 85 EVFV---GKIPRDVFEDELVPLFEK-IGKIYELRLMMDP-FSGDNRGYAFVTFCTKEEAQEAIKELNNYE----IRPGKL 155 (506)
T ss_pred eEEe---cCCCccccchhhHHHHHh-ccceeeEEEeecc-cCCCCcceEEEEeecHHHHHHHHHHhhCcc----ccCCCE
Confidence 4555 9999 999999999997 8976665555565 78999999999999977633 3455543 116777
Q ss_pred eEE
Q 038714 311 KII 313 (319)
Q Consensus 311 iWa 313 (319)
+=+
T Consensus 156 igv 158 (506)
T KOG0117|consen 156 LGV 158 (506)
T ss_pred eEE
Confidence 643
No 38
>KOG0127 consensus Nucleolar protein fibrillarin NOP77 (RRM superfamily) [RNA processing and modification]
Probab=90.08 E-value=1.4 Score=46.52 Aligned_cols=79 Identities=16% Similarity=0.321 Sum_probs=59.4
Q ss_pred ceEEEEccCCCc--CCHHHHHHHHHhhcCCceeEEEeeecCCCCCCCceEEEEecchhhHHHHhCCC----CeeeEEEcC
Q 038714 235 RTIFLTFSKGYP--ISENEIRDFFIRKFGECFEAINMQEVASSTEQPLFARLVMDSASFMDVVLGGK----SKAKFSING 308 (319)
Q Consensus 235 Rt~FvTFS~G~P--vse~ei~~fF~~~yGdcie~v~mq~~~~~~~qplfariVf~s~~~v~~vL~g~----~~~kf~Ing 308 (319)
+|+|| |..| .+|+||.+.|+. ||..=-.+.+-++ .++++-+-|+|-|+.+.+-..-|.+. ..--+.+.|
T Consensus 293 ~tVFv---RNL~fD~tEEel~~~fsk-FG~v~ya~iV~~k-~T~~skGtAFv~Fkt~~~~~~ci~~Aspa~e~g~~ll~G 367 (678)
T KOG0127|consen 293 KTVFV---RNLPFDTTEEELKEHFSK-FGEVKYAIIVKDK-DTGHSKGTAFVKFKTQIAAQNCIEAASPASEDGSVLLDG 367 (678)
T ss_pred ceEEE---ecCCccccHHHHHHHHHh-hccceeEEEEecc-CCCCcccceEEEeccHHHHHHHHHhcCccCCCceEEEec
Confidence 89988 8988 999999999996 9984445555555 89999999999999998844444332 222288899
Q ss_pred ceeEEEeccC
Q 038714 309 KHKIIQILKN 318 (319)
Q Consensus 309 khiWarky~p 318 (319)
+.+=+-..++
T Consensus 368 R~Lkv~~Av~ 377 (678)
T KOG0127|consen 368 RLLKVTLAVT 377 (678)
T ss_pred cEEeeeeccc
Confidence 9886655444
No 39
>PLN03213 repressor of silencing 3; Provisional
Probab=89.88 E-value=1.1 Score=47.08 Aligned_cols=69 Identities=13% Similarity=0.239 Sum_probs=49.5
Q ss_pred EEccCCCc--CCHHHHHHHHHhhcCCceeEEEeeecCCCCCCCceEEEEecch--hhHHH---HhCCCCeeeEEEcCcee
Q 038714 239 LTFSKGYP--ISENEIRDFFIRKFGECFEAINMQEVASSTEQPLFARLVMDSA--SFMDV---VLGGKSKAKFSINGKHK 311 (319)
Q Consensus 239 vTFS~G~P--vse~ei~~fF~~~yGdcie~v~mq~~~~~~~qplfariVf~s~--~~v~~---vL~g~~~~kf~Ingkhi 311 (319)
-.|.+|.+ ++++|++..|.+ ||. |.+|.+-+ ..| .+||+|-|.++ +..+. .|+|.. ..|+.+
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 34458866 999999999998 999 77777753 445 89999999987 44443 455643 567777
Q ss_pred EEEeccC
Q 038714 312 IIQILKN 318 (319)
Q Consensus 312 Warky~p 318 (319)
=+.+..|
T Consensus 81 KVNKAKP 87 (759)
T PLN03213 81 RLEKAKE 87 (759)
T ss_pred EEeeccH
Confidence 6655444
No 40
>KOG4207 consensus Predicted splicing factor, SR protein superfamily [RNA processing and modification]
Probab=89.18 E-value=0.85 Score=43.04 Aligned_cols=63 Identities=14% Similarity=0.265 Sum_probs=47.4
Q ss_pred CcCCHHHHHHHHHhhcCCceeEEEeeecCCCCCCCceEEEEecchhhHHHHhCCCCeeeEEEcCcee
Q 038714 245 YPISENEIRDFFIRKFGECFEAINMQEVASSTEQPLFARLVMDSASFMDVVLGGKSKAKFSINGKHK 311 (319)
Q Consensus 245 ~Pvse~ei~~fF~~~yGdcie~v~mq~~~~~~~qplfariVf~s~~~v~~vL~g~~~~kf~Ingkhi 311 (319)
|--|.++++--|++ ||. |-+|++...+-+.+..+||+|-|+-...+...|.-.+- -+++|+.+
T Consensus 23 yRTspd~LrrvFek-YG~-vgDVyIPrdr~Tr~sRgFaFVrf~~k~daedA~damDG--~~ldgRel 85 (256)
T KOG4207|consen 23 YRTSPDDLRRVFEK-YGR-VGDVYIPRDRYTRQSRGFAFVRFHDKRDAEDALDAMDG--AVLDGREL 85 (256)
T ss_pred ccCCHHHHHHHHHH-hCc-ccceecccccccccccceeEEEeeecchHHHHHHhhcc--eeecccee
Confidence 44578999999996 999 77899987657999999999999876665555442111 15777776
No 41
>KOG0108 consensus mRNA cleavage and polyadenylation factor I complex, subunit RNA15 [RNA processing and modification]
Probab=88.87 E-value=0.87 Score=46.71 Aligned_cols=67 Identities=16% Similarity=0.189 Sum_probs=50.4
Q ss_pred EEEccCCCc--CCHHHHHHHHHhhcCCceeEEEeeecCCCCCCCceEEEEecchhhHH---HHhCCCCeeeEEEcCcee
Q 038714 238 FLTFSKGYP--ISENEIRDFFIRKFGECFEAINMQEVASSTEQPLFARLVMDSASFMD---VVLGGKSKAKFSINGKHK 311 (319)
Q Consensus 238 FvTFS~G~P--vse~ei~~fF~~~yGdcie~v~mq~~~~~~~qplfariVf~s~~~v~---~vL~g~~~~kf~Ingkhi 311 (319)
+..|+++.| ++|++|.+.|.+ .|..+--=.+.|. .+|+.++||++-|...++.. +.|+|.+ ++|+.+
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-VGPVLSFRLVYDR-ETGKPKGFGFCEFTDEETAERAIRNLNGAE-----FNGRKL 90 (435)
T ss_pred cceEecCCCCcccHHHHHHHHhc-cCccceeeecccc-cCCCcCceeeEecCchhhHHHHHHhcCCcc-----cCCceE
Confidence 445559988 999999999996 8985554455555 89999999999999977744 4566643 555554
No 42
>KOG4212 consensus RNA-binding protein hnRNP-M [RNA processing and modification]
Probab=88.13 E-value=1.6 Score=45.09 Aligned_cols=81 Identities=20% Similarity=0.331 Sum_probs=65.4
Q ss_pred cCCCCCceEEEEccCCCcCCHHHHHHHHHhhcCCceeEEEeeecCCCCCCCceEEEEecchhhHHHHhCCCCeeeEEEcC
Q 038714 229 TVPPDERTIFLTFSKGYPISENEIRDFFIRKFGECFEAINMQEVASSTEQPLFARLVMDSASFMDVVLGGKSKAKFSING 308 (319)
Q Consensus 229 ~~~~d~Rt~FvTFS~G~Pvse~ei~~fF~~~yGdcie~v~mq~~~~~~~qplfariVf~s~~~v~~vL~g~~~~kf~Ing 308 (319)
.++..+|++|||=- -|-+.=+++++.|.++-|. |+-|..-.. ..+.....|.|-|+.++-+...|. ..-|+.+||
T Consensus 39 n~~~r~R~vfItNI-pyd~rWqdLKdLvrekvGe-v~yveLl~D-~~GK~rGcavVEFk~~E~~qKa~E--~lnk~~~~G 113 (608)
T KOG4212|consen 39 NVAARDRSVFITNI-PYDYRWQDLKDLVREKVGE-VEYVELLFD-ESGKARGCAVVEFKDPENVQKALE--KLNKYEVNG 113 (608)
T ss_pred CcccccceEEEecC-cchhhhHhHHHHHHHhcCc-eEeeeeecc-cCCCcCCceEEEeeCHHHHHHHHH--HhhhccccC
Confidence 57889999999721 1337778999999999997 666665555 679999999999999999988875 345789999
Q ss_pred ceeEEE
Q 038714 309 KHKIIQ 314 (319)
Q Consensus 309 khiWar 314 (319)
+.+-++
T Consensus 114 R~l~vK 119 (608)
T KOG4212|consen 114 RELVVK 119 (608)
T ss_pred ceEEEe
Confidence 988765
No 43
>KOG0129 consensus Predicted RNA-binding protein (RRM superfamily) [Translation, ribosomal structure and biogenesis]
Probab=84.94 E-value=3 Score=43.64 Aligned_cols=60 Identities=17% Similarity=0.275 Sum_probs=45.3
Q ss_pred CCCceEEEEccCCCc--CCHHHHHHHHHhhcCC-ceeEEEeeecCCCCCCCceEEEEecchhhHHHHh
Q 038714 232 PDERTIFLTFSKGYP--ISENEIRDFFIRKFGE-CFEAINMQEVASSTEQPLFARLVMDSASFMDVVL 296 (319)
Q Consensus 232 ~d~Rt~FvTFS~G~P--vse~ei~~fF~~~yGd-cie~v~mq~~~~~~~qplfariVf~s~~~v~~vL 296 (319)
+--||+|| +|.| ++.+|+-..|.+.||- |-..|.+- + .-+=+-+=|||+|.....--+.+
T Consensus 368 DprrTVFV---Ggvprpl~A~eLA~imd~lyGgV~yaGIDtD-~-k~KYPkGaGRVtFsnqqsYi~AI 430 (520)
T KOG0129|consen 368 DPRRTVFV---GGLPRPLTAEELAMIMEDLFGGVLYVGIDTD-P-KLKYPKGAGRVTFSNQQAYIKAI 430 (520)
T ss_pred CccceEEe---cCCCCcchHHHHHHHHHHhcCceEEEEeccC-c-ccCCCCCcceeeecccHHHHHHH
Confidence 34589988 9987 9999999999999996 45555553 2 34566677999999988733333
No 44
>KOG0131 consensus Splicing factor 3b, subunit 4 [RNA processing and modification]
Probab=84.47 E-value=2.3 Score=39.41 Aligned_cols=60 Identities=13% Similarity=0.283 Sum_probs=50.7
Q ss_pred CCceEEEEccCCCc--CCHHHHHHHHHhhcCCceeEEEeeecCCCCCCCceEEEEecchhhHH---HHhC
Q 038714 233 DERTIFLTFSKGYP--ISENEIRDFFIRKFGECFEAINMQEVASSTEQPLFARLVMDSASFMD---VVLG 297 (319)
Q Consensus 233 d~Rt~FvTFS~G~P--vse~ei~~fF~~~yGdcie~v~mq~~~~~~~qplfariVf~s~~~v~---~vL~ 297 (319)
.+-|+|+ .|.+ +||+-+.|.|.+ -|+ |.+++|.+.+..+.+.+||++-|++++..| .||+
T Consensus 8 qd~tiyv---gnld~kvs~~~l~EL~iq-agp-Vv~i~iPkDrv~~~~qGygF~Ef~~eedadYAikiln 72 (203)
T KOG0131|consen 8 QDATLYV---GNLDEKVSEELLYELFIQ-AGP-VVNLHIPKDRVTQKHQGYGFAEFRTEEDADYAIKILN 72 (203)
T ss_pred CCceEEE---ecCCHHHHHHHHHHHHHh-cCc-eeeeecchhhhcccccceeEEEEechhhhHHHHHHHH
Confidence 4568888 7877 999999999997 788 789999987678889999999999999865 3555
No 45
>KOG0114 consensus Predicted RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=83.07 E-value=3.6 Score=35.22 Aligned_cols=55 Identities=22% Similarity=0.406 Sum_probs=42.9
Q ss_pred cCCCCCceEEEEccCCCc--CCHHHHHHHHHhhcCCceeEEEeeecCCCCCCCceEEEEecchhh
Q 038714 229 TVPPDERTIFLTFSKGYP--ISENEIRDFFIRKFGECFEAINMQEVASSTEQPLFARLVMDSASF 291 (319)
Q Consensus 229 ~~~~d~Rt~FvTFS~G~P--vse~ei~~fF~~~yGdcie~v~mq~~~~~~~qplfariVf~s~~~ 291 (319)
..|+-.|-+|| +..| ||.+|+.|.|-+ ||. |.-|.+-. ..+-.+=|+||.....-
T Consensus 13 lppevnriLyi---rNLp~~ITseemydlFGk-yg~-IrQIRiG~---~k~TrGTAFVVYedi~d 69 (124)
T KOG0114|consen 13 LPPEVNRILYI---RNLPFKITSEEMYDLFGK-YGT-IRQIRIGN---TKETRGTAFVVYEDIFD 69 (124)
T ss_pred CChhhheeEEE---ecCCccccHHHHHHHhhc-ccc-eEEEEecC---ccCcCceEEEEehHhhh
Confidence 46778898888 9988 999999999997 998 65666643 36667779999766544
No 46
>KOG0122 consensus Translation initiation factor 3, subunit g (eIF-3g) [Translation, ribosomal structure and biogenesis]
Probab=80.83 E-value=3.1 Score=40.05 Aligned_cols=51 Identities=18% Similarity=0.283 Sum_probs=42.3
Q ss_pred CCHHHHHHHHHhhcCCceeEEEeeecCCCCCCCceEEEEecchhhHHH---HhCCC
Q 038714 247 ISENEIRDFFIRKFGECFEAINMQEVASSTEQPLFARLVMDSASFMDV---VLGGK 299 (319)
Q Consensus 247 vse~ei~~fF~~~yGdcie~v~mq~~~~~~~qplfariVf~s~~~v~~---vL~g~ 299 (319)
.+|+|++|.|.. ||. |-+|++-....+|...+||+|.|.|.+-..+ .|+|.
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 789999999986 999 8889888766899999999999999776443 45653
No 47
>PF15513 DUF4651: Domain of unknown function (DUF4651)
Probab=80.83 E-value=2.7 Score=32.30 Aligned_cols=36 Identities=33% Similarity=0.575 Sum_probs=32.1
Q ss_pred HHHHHHHHhhcCCceeEEEeeecCCCCCCCceEEEEecc
Q 038714 250 NEIRDFFIRKFGECFEAINMQEVASSTEQPLFARLVMDS 288 (319)
Q Consensus 250 ~ei~~fF~~~yGdcie~v~mq~~~~~~~qplfariVf~s 288 (319)
+|||+||.. .|+ |+.++++.. .+....+=|=+||..
T Consensus 9 ~~iR~~fs~-lG~-I~vLYvn~~-eS~~~~~~GGvV~eD 44 (62)
T PF15513_consen 9 AEIRQFFSQ-LGE-IAVLYVNPY-ESDEDRLTGGVVMED 44 (62)
T ss_pred HHHHHHHHh-cCc-EEEEEEccc-ccCCCeEeccEEEeC
Confidence 689999997 999 999999988 889999999998864
No 48
>KOG0129 consensus Predicted RNA-binding protein (RRM superfamily) [Translation, ribosomal structure and biogenesis]
Probab=79.79 E-value=3.3 Score=43.28 Aligned_cols=68 Identities=24% Similarity=0.302 Sum_probs=47.4
Q ss_pred ceEEEEccCCCc--CCHHHHHHHHHhhcCCceeEEEeeecCC-CCC-CC---ceEEEEecchhhHHHHhC----CCCeee
Q 038714 235 RTIFLTFSKGYP--ISENEIRDFFIRKFGECFEAINMQEVAS-STE-QP---LFARLVMDSASFMDVVLG----GKSKAK 303 (319)
Q Consensus 235 Rt~FvTFS~G~P--vse~ei~~fF~~~yGdcie~v~mq~~~~-~~~-qp---lfariVf~s~~~v~~vL~----g~~~~k 303 (319)
|-.+..|.+|.| |+|++|...|.+ ||.|...=-- +.+. ... +- +|..+||..+..|..+|. +..+..
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-FGSVKVDWPG-KANSRGRAPPKGSYGYVFLVFEDERSVQSLLSACSEGEGNYY 334 (520)
T ss_pred ccccceeecCCCccccHHHHHhhccc-ccceEeecCC-CccccccCCCCCcccEEEEEecchHHHHHHHHHHhhcccceE
Confidence 344566679999 999999999997 9987654331 1111 111 12 499999999999887776 455566
Q ss_pred E
Q 038714 304 F 304 (319)
Q Consensus 304 f 304 (319)
|
T Consensus 335 f 335 (520)
T KOG0129|consen 335 F 335 (520)
T ss_pred E
Confidence 6
No 49
>KOG0105 consensus Alternative splicing factor ASF/SF2 (RRM superfamily) [RNA processing and modification]
Probab=77.76 E-value=5.4 Score=37.28 Aligned_cols=61 Identities=25% Similarity=0.535 Sum_probs=46.6
Q ss_pred CCCceEEEEccCCCc--CCHHHHHHHHHhhcCCceeEEEeeecCCCCCCCceEEEEecchhhHHHHhCCCC
Q 038714 232 PDERTIFLTFSKGYP--ISENEIRDFFIRKFGECFEAINMQEVASSTEQPLFARLVMDSASFMDVVLGGKS 300 (319)
Q Consensus 232 ~d~Rt~FvTFS~G~P--vse~ei~~fF~~~yGdcie~v~mq~~~~~~~qplfariVf~s~~~v~~vL~g~~ 300 (319)
..+|++|+ ...| |-|-||.+.|-+ ||. |..|... ....+|-||+|-|..+--.+...-|.+
T Consensus 4 r~~~~iyv---GNLP~diRekeieDlFyK-yg~-i~~ieLK---~r~g~ppfafVeFEd~RDAeDAiygRd 66 (241)
T KOG0105|consen 4 RNSRRIYV---GNLPGDIREKEIEDLFYK-YGR-IREIELK---NRPGPPPFAFVEFEDPRDAEDAIYGRD 66 (241)
T ss_pred cccceEEe---cCCCcchhhccHHHHHhh-hcc-eEEEEec---cCCCCCCeeEEEecCccchhhhhhccc
Confidence 45577777 7788 899999999996 999 5555553 347889999999998887776666543
No 50
>KOG0146 consensus RNA-binding protein ETR-3 (RRM superfamily) [RNA processing and modification]
Probab=76.91 E-value=3 Score=40.81 Aligned_cols=62 Identities=19% Similarity=0.289 Sum_probs=46.9
Q ss_pred CCCCceEEEEccCCCcCCHHHHHHHHHhhcCCceeEEEeeecCCCCCCCceEEEEecchhhHHHHh
Q 038714 231 PPDERTIFLTFSKGYPISENEIRDFFIRKFGECFEAINMQEVASSTEQPLFARLVMDSASFMDVVL 296 (319)
Q Consensus 231 ~~d~Rt~FvTFS~G~Pvse~ei~~fF~~~yGdcie~v~mq~~~~~~~qplfariVf~s~~~v~~vL 296 (319)
+.|||.+||--- +.--+||||+..|.- ||+ ||.+.+-+. .-+..-+.|+|-|.|........
T Consensus 16 g~~drklfvgml-~kqq~e~dvrrlf~p-fG~-~~e~tvlrg-~dg~sKGCAFVKf~s~~eAqaAI 77 (371)
T KOG0146|consen 16 GGDDRKLFVGML-NKQQSEDDVRRLFQP-FGN-IEECTVLRG-PDGNSKGCAFVKFSSHAEAQAAI 77 (371)
T ss_pred Cccchhhhhhhh-cccccHHHHHHHhcc-cCC-cceeEEecC-CCCCCCCceEEEeccchHHHHHH
Confidence 459999998321 234799999999997 998 666666665 66788899999999987654443
No 51
>KOG4206 consensus Spliceosomal protein snRNP-U1A/U2B [RNA processing and modification]
Probab=74.60 E-value=9.4 Score=36.08 Aligned_cols=57 Identities=19% Similarity=0.334 Sum_probs=43.0
Q ss_pred ceEEEEccCCCc--CCHHHHHH----HHHhhcCCceeEEEeeecCCCCCCCceEEEEecchhhHHH---HhCCC
Q 038714 235 RTIFLTFSKGYP--ISENEIRD----FFIRKFGECFEAINMQEVASSTEQPLFARLVMDSASFMDV---VLGGK 299 (319)
Q Consensus 235 Rt~FvTFS~G~P--vse~ei~~----fF~~~yGdcie~v~mq~~~~~~~qplfariVf~s~~~v~~---vL~g~ 299 (319)
+|+|| +.++ |..+|++. .|.+ ||. |-.|.+-++ ...++=|.|||++.++-.. -|+|-
T Consensus 10 ~TlYI---nnLnekI~~~elkrsL~~LFsq-fG~-ildI~a~kt---~KmRGQA~VvFk~~~~As~A~r~l~gf 75 (221)
T KOG4206|consen 10 GTLYI---NNLNEKIKKDELKRSLYLLFSQ-FGK-ILDISAFKT---PKMRGQAFVVFKETEAASAALRALQGF 75 (221)
T ss_pred ceEee---hhccccccHHHHHHHHHHHHHh-hCC-eEEEEecCC---CCccCceEEEecChhHHHHHHHHhcCC
Confidence 39988 8866 99999988 9997 998 555666554 6777779999999777444 45553
No 52
>TIGR03147 cyt_nit_nrfF cytochrome c nitrite reductase, accessory protein NrfF.
Probab=74.04 E-value=2.3 Score=36.90 Aligned_cols=21 Identities=29% Similarity=0.547 Sum_probs=17.7
Q ss_pred CCHHHHHHHHHhhcCCceeEEEee
Q 038714 247 ISENEIRDFFIRKFGECFEAINMQ 270 (319)
Q Consensus 247 vse~ei~~fF~~~yGdcie~v~mq 270 (319)
-|++||++||..+||| -|.++
T Consensus 74 ~Sd~eI~~~~v~RYG~---~Vly~ 94 (126)
T TIGR03147 74 KSNQQIIDFMTARFGD---FVLYN 94 (126)
T ss_pred CCHHHHHHHHHHhcCC---eEEec
Confidence 4899999999999999 55553
No 53
>KOG4211 consensus Splicing factor hnRNP-F and related RNA-binding proteins [RNA processing and modification]
Probab=72.06 E-value=6.7 Score=40.93 Aligned_cols=53 Identities=23% Similarity=0.308 Sum_probs=42.0
Q ss_pred CCCc--CCHHHHHHHHHhhcCCceeE-EEeeecCCCCCCCceEEEEecchhhHHHHhCC
Q 038714 243 KGYP--ISENEIRDFFIRKFGECFEA-INMQEVASSTEQPLFARLVMDSASFMDVVLGG 298 (319)
Q Consensus 243 ~G~P--vse~ei~~fF~~~yGdcie~-v~mq~~~~~~~qplfariVf~s~~~v~~vL~g 298 (319)
||.| +||+||.+||.-. +.|.. +.+-.. ..+++.+=|.|.|.|.+.+...|..
T Consensus 109 RGLPfscte~dI~~FFaGL--~Iv~~gi~l~~d-~rgR~tGEAfVqF~sqe~ae~Al~r 164 (510)
T KOG4211|consen 109 RGLPFSCTEEDIVEFFAGL--EIVPDGILLPMD-QRGRPTGEAFVQFESQESAEIALGR 164 (510)
T ss_pred cCCCccCcHHHHHHHhcCC--cccccceeeecc-CCCCcccceEEEecCHHHHHHHHHH
Confidence 9999 9999999999841 44444 434444 4577888899999999999999975
No 54
>KOG0127 consensus Nucleolar protein fibrillarin NOP77 (RRM superfamily) [RNA processing and modification]
Probab=71.88 E-value=4.8 Score=42.69 Aligned_cols=59 Identities=19% Similarity=0.308 Sum_probs=49.4
Q ss_pred ceEEEEccCCCc--CCHHHHHHHHHhhcCCceeEEEeeecCCCCCCCceEEEEecchhhHHHHhCC
Q 038714 235 RTIFLTFSKGYP--ISENEIRDFFIRKFGECFEAINMQEVASSTEQPLFARLVMDSASFMDVVLGG 298 (319)
Q Consensus 235 Rt~FvTFS~G~P--vse~ei~~fF~~~yGdcie~v~mq~~~~~~~qplfariVf~s~~~v~~vL~g 298 (319)
-|||| ++.| ++.+++.+||.. .|++=-.|.+-++ ..++-++||.+.|.-.+-+.+.|.-
T Consensus 6 ~TlfV---~~lp~~~~~~qL~e~FS~-vGPik~~~vVt~~-gs~~~RGfgfVtFam~ED~qrA~~e 66 (678)
T KOG0127|consen 6 ATLFV---SRLPFSSTGEQLEEFFSY-VGPIKHAVVVTNK-GSSEKRGFGFVTFAMEEDVQRALAE 66 (678)
T ss_pred ceEEE---ecCCCccchhHHHHhhhc-ccCcceeEEecCC-CcccccCccceeeehHhHHHHHHHH
Confidence 58988 5555 999999999997 8886666677676 7889999999999999999888863
No 55
>KOG0148 consensus Apoptosis-promoting RNA-binding protein TIA-1/TIAR (RRM superfamily) [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=71.87 E-value=10 Score=37.18 Aligned_cols=55 Identities=15% Similarity=0.345 Sum_probs=43.8
Q ss_pred CCCCCceEEEEccCCCc--CCHHHHHHHHHhhcCCceeEEEeeecCCCCCCCceEEEEecchhhHHHH
Q 038714 230 VPPDERTIFLTFSKGYP--ISENEIRDFFIRKFGECFEAINMQEVASSTEQPLFARLVMDSASFMDVV 295 (319)
Q Consensus 230 ~~~d~Rt~FvTFS~G~P--vse~ei~~fF~~~yGdcie~v~mq~~~~~~~qplfariVf~s~~~v~~v 295 (319)
.++|.-|+|+ +|.+ ++|+++|+-|.. ||+ |..|.+=+. -.||+|=|.+.+...+.
T Consensus 160 ssp~NtsVY~---G~I~~~lte~~mr~~Fs~-fG~-I~EVRvFk~------qGYaFVrF~tkEaAahA 216 (321)
T KOG0148|consen 160 SSPDNTSVYV---GNIASGLTEDLMRQTFSP-FGP-IQEVRVFKD------QGYAFVRFETKEAAAHA 216 (321)
T ss_pred CCCCCceEEe---CCcCccccHHHHHHhccc-CCc-ceEEEEecc------cceEEEEecchhhHHHH
Confidence 5778889998 8877 999999999997 999 555655443 47999999988775443
No 56
>KOG1457 consensus RNA binding protein (contains RRM repeats) [General function prediction only]
Probab=71.52 E-value=14 Score=35.47 Aligned_cols=63 Identities=30% Similarity=0.404 Sum_probs=43.0
Q ss_pred CCCCceEEEEccCCCc--CCHHHHHHHHHhhcCCceeEEEeeecCCCCCC--CceEEEEecchhhH---HHHhCCC
Q 038714 231 PPDERTIFLTFSKGYP--ISENEIRDFFIRKFGECFEAINMQEVASSTEQ--PLFARLVMDSASFM---DVVLGGK 299 (319)
Q Consensus 231 ~~d~Rt~FvTFS~G~P--vse~ei~~fF~~~yGdcie~v~mq~~~~~~~q--plfariVf~s~~~v---~~vL~g~ 299 (319)
+..=||+|| -|.| |.--||...|.+.-|- |.-...-+ ..+.| .-+|+++|.|.+.. -..|||.
T Consensus 31 ~~~VRTLFV---SGLP~DvKpREiynLFR~f~GY--EgslLK~T-sk~~~~~~pvaFatF~s~q~A~aamnaLNGv 100 (284)
T KOG1457|consen 31 PGAVRTLFV---SGLPNDVKPREIYNLFRRFHGY--EGSLLKYT-SKGDQVCKPVAFATFTSHQFALAAMNALNGV 100 (284)
T ss_pred ccccceeee---ccCCcccCHHHHHHHhccCCCc--cceeeeec-cCCCccccceEEEEecchHHHHHHHHHhcCe
Confidence 444799988 8999 8999999999998772 12222222 22222 26899999998774 4456663
No 57
>KOG0121 consensus Nuclear cap-binding protein complex, subunit CBP20 (RRM superfamily) [RNA processing and modification]
Probab=70.94 E-value=9.6 Score=33.77 Aligned_cols=59 Identities=17% Similarity=0.190 Sum_probs=46.2
Q ss_pred CCceEEEEccCC--CcCCHHHHHHHHHhhcCCceeEEEeeecCCCCCCCceEEEEecchhhHHHHh
Q 038714 233 DERTIFLTFSKG--YPISENEIRDFFIRKFGECFEAINMQEVASSTEQPLFARLVMDSASFMDVVL 296 (319)
Q Consensus 233 d~Rt~FvTFS~G--~Pvse~ei~~fF~~~yGdcie~v~mq~~~~~~~qplfariVf~s~~~v~~vL 296 (319)
..-|+|| .. +-.+|++|.|.|.+ .|+ |-+|.|-=.+-...+=+|++|.|-|.+.....|
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 3348877 33 33899999999997 999 999999865567889999999999877644443
No 58
>KOG4454 consensus RNA binding protein (RRM superfamily) [General function prediction only]
Probab=70.72 E-value=3.1 Score=39.71 Aligned_cols=65 Identities=18% Similarity=0.335 Sum_probs=49.0
Q ss_pred cCCCCCceEEEE-ccCCCcCCHHHHHHHHHhhcCCceeEEEeeecCCCCCCCceEEEEecchhhH---HHHhCCC
Q 038714 229 TVPPDERTIFLT-FSKGYPISENEIRDFFIRKFGECFEAINMQEVASSTEQPLFARLVMDSASFM---DVVLGGK 299 (319)
Q Consensus 229 ~~~~d~Rt~FvT-FS~G~Pvse~ei~~fF~~~yGdcie~v~mq~~~~~~~qplfariVf~s~~~v---~~vL~g~ 299 (319)
..+|.|||+||. |+. .|+|+=+.|.|-. =|+ |..|.+.++ .-++|+ ||.+-|..+-.| -.++||-
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-VYKVGIPSG-QDQEQK-FAYVFFPNENSVQLAGQLENGD 72 (267)
T ss_pred CCcchhhHHHHHhhhh--hhhHHHHHHHhhc-cCc-eEEEeCCCC-ccCCCc-eeeeecccccchhhhhhhcccc
Confidence 578899999882 222 2899999999997 677 778888887 566666 999999977664 4555563
No 59
>PRK10144 formate-dependent nitrite reductase complex subunit NrfF; Provisional
Probab=69.97 E-value=3.2 Score=36.01 Aligned_cols=21 Identities=24% Similarity=0.485 Sum_probs=17.7
Q ss_pred CCHHHHHHHHHhhcCCceeEEEee
Q 038714 247 ISENEIRDFFIRKFGECFEAINMQ 270 (319)
Q Consensus 247 vse~ei~~fF~~~yGdcie~v~mq 270 (319)
-|++||++||..+||| -|.++
T Consensus 74 ~sd~eI~~~~v~RYG~---~Vl~~ 94 (126)
T PRK10144 74 KSEVEIIGWMTERYGD---FVRYN 94 (126)
T ss_pred CCHHHHHHHHHHhcCC---eEEec
Confidence 4899999999999999 55553
No 60
>KOG0123 consensus Polyadenylate-binding protein (RRM superfamily) [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=68.33 E-value=11 Score=37.73 Aligned_cols=65 Identities=15% Similarity=0.139 Sum_probs=50.4
Q ss_pred eEEEEccCCCcCCHHHHHHHHHhhcCCceeEEEeeecCCCCCCCceEEEEecchhhHHHHhCCCCeeeEEEcCcee
Q 038714 236 TIFLTFSKGYPISENEIRDFFIRKFGECFEAINMQEVASSTEQPLFARLVMDSASFMDVVLGGKSKAKFSINGKHK 311 (319)
Q Consensus 236 t~FvTFS~G~Pvse~ei~~fF~~~yGdcie~v~mq~~~~~~~qplfariVf~s~~~v~~vL~g~~~~kf~Ingkhi 311 (319)
++|++ .-++|+.++++|+. +|. |.+|-+=++ . + .-+||.+-|.+++-..+.|.-.+ .=.|+||.+
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-VLSIRVCRD-A-T-SLGYAYVNFQQPADAERALDTMN--FDVLKGKPI 67 (369)
T ss_pred ceecC----CcCChHHHHHHhcc-cCC-ceeEEEeec-C-C-ccceEEEecCCHHHHHHHHHHcC--CcccCCcEE
Confidence 56675 44999999999997 999 667777666 4 4 99999999999999888887322 115778776
No 61
>KOG0107 consensus Alternative splicing factor SRp20/9G8 (RRM superfamily) [RNA processing and modification]
Probab=66.74 E-value=16 Score=33.84 Aligned_cols=56 Identities=16% Similarity=0.335 Sum_probs=42.7
Q ss_pred ceEEEEccCCCc--CCHHHHHHHHHhhcCCceeEEEeeecCCCCCCCceEEEEecchhh---HHHHhCCCC
Q 038714 235 RTIFLTFSKGYP--ISENEIRDFFIRKFGECFEAINMQEVASSTEQPLFARLVMDSASF---MDVVLGGKS 300 (319)
Q Consensus 235 Rt~FvTFS~G~P--vse~ei~~fF~~~yGdcie~v~mq~~~~~~~qplfariVf~s~~~---v~~vL~g~~ 300 (319)
.-+|| .+.+ .++.||..-|.. ||. +-.|-|-. .+|.||+|-|..+-- .-+.|+|..
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 45666 6666 999999999996 997 77777733 689999999987644 445788865
No 62
>KOG0126 consensus Predicted RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=66.37 E-value=1.9 Score=40.08 Aligned_cols=49 Identities=20% Similarity=0.376 Sum_probs=42.0
Q ss_pred ccCCCc--CCHHHHHHHHHhhcCCceeEEEeeecCCCCCCCceEEEEecchhh
Q 038714 241 FSKGYP--ISENEIRDFFIRKFGECFEAINMQEVASSTEQPLFARLVMDSASF 291 (319)
Q Consensus 241 FS~G~P--vse~ei~~fF~~~yGdcie~v~mq~~~~~~~qplfariVf~s~~~ 291 (319)
|-+|.| +||.+|.--|.+ ||..|.-..|.+- .+|..-+||++....+..
T Consensus 39 yiggl~~~LtEgDil~VFSq-yGe~vdinLiRDk-~TGKSKGFaFLcYEDQRS 89 (219)
T KOG0126|consen 39 YIGGLPYELTEGDILCVFSQ-YGEIVDINLIRDK-KTGKSKGFAFLCYEDQRS 89 (219)
T ss_pred EECCCcccccCCcEEEEeec-cCceEEEEEEecC-CCCcccceEEEEecCccc
Confidence 449988 999999999997 9998888888877 899999999999876543
No 63
>KOG4208 consensus Nucleolar RNA-binding protein NIFK [General function prediction only]
Probab=65.86 E-value=20 Score=33.81 Aligned_cols=51 Identities=18% Similarity=0.343 Sum_probs=41.6
Q ss_pred EccCCCc--CCHHHHHHHHHhhcCCceeEEEeeecCCCCCCCceEEEEecchhh
Q 038714 240 TFSKGYP--ISENEIRDFFIRKFGECFEAINMQEVASSTEQPLFARLVMDSASF 291 (319)
Q Consensus 240 TFS~G~P--vse~ei~~fF~~~yGdcie~v~mq~~~~~~~qplfariVf~s~~~ 291 (319)
+.++..| +.|.++..||.+ +|+.|-++.|-+.+-+|-.-.||+|=|.|++.
T Consensus 52 ~~~~~~p~g~~e~~~~~~~~q-~~g~v~r~rlsRnkrTGNSKgYAFVEFEs~eV 104 (214)
T KOG4208|consen 52 VYVDHIPHGFFETEILNYFRQ-FGGTVTRFRLSRNKRTGNSKGYAFVEFESEEV 104 (214)
T ss_pred eeecccccchhHHHHhhhhhh-cCCeeEEEEeecccccCCcCceEEEEeccHHH
Confidence 4456666 889999999998 76668888886544789999999999999865
No 64
>PF03918 CcmH: Cytochrome C biogenesis protein; InterPro: IPR005616 Members of this family include NrfF, CcmH, CycL, Ccl2.; PDB: 2KW0_A 2HL7_A.
Probab=65.76 E-value=3.9 Score=36.09 Aligned_cols=20 Identities=35% Similarity=0.747 Sum_probs=15.3
Q ss_pred CCHHHHHHHHHhhcCCceeEEEe
Q 038714 247 ISENEIRDFFIRKFGECFEAINM 269 (319)
Q Consensus 247 vse~ei~~fF~~~yGdcie~v~m 269 (319)
.|++||++||..+||+ .|..
T Consensus 74 ~s~~eI~~~~v~rYG~---~Vl~ 93 (148)
T PF03918_consen 74 KSDEEIIDYFVERYGE---FVLY 93 (148)
T ss_dssp --HHHHHHHHHHHHTT---T-EE
T ss_pred CCHHHHHHHHHHhcCc---ceee
Confidence 5889999999999998 5555
No 65
>KOG4211 consensus Splicing factor hnRNP-F and related RNA-binding proteins [RNA processing and modification]
Probab=65.27 E-value=19 Score=37.68 Aligned_cols=72 Identities=24% Similarity=0.307 Sum_probs=55.0
Q ss_pred ceEEEEccCCCc--CCHHHHHHHHHhhcCCceeEEEeeecCCCCCCCceEEEEecchhhHHHHhC------C-CCeeeEE
Q 038714 235 RTIFLTFSKGYP--ISENEIRDFFIRKFGECFEAINMQEVASSTEQPLFARLVMDSASFMDVVLG------G-KSKAKFS 305 (319)
Q Consensus 235 Rt~FvTFS~G~P--vse~ei~~fF~~~yGdcie~v~mq~~~~~~~qplfariVf~s~~~v~~vL~------g-~~~~kf~ 305 (319)
.+.|+.=-+|.| -|++||.+||.. .-||++..-. ..+++..=|.|.|.|++-+...|. | .=..-|+
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 2378876644 469999999999999999888775 2 2344566
Q ss_pred EcCcee
Q 038714 306 INGKHK 311 (319)
Q Consensus 306 Ingkhi 311 (319)
++++.+
T Consensus 83 ~~~~e~ 88 (510)
T KOG4211|consen 83 AGGAEA 88 (510)
T ss_pred cCCccc
Confidence 766654
No 66
>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=64.80 E-value=17 Score=30.05 Aligned_cols=56 Identities=16% Similarity=0.286 Sum_probs=38.5
Q ss_pred CCc-CCHHHHHHHHHhhcCCceeEEEeeec------CCCCCCCceEEEEecchhhHHHHhCCCC
Q 038714 244 GYP-ISENEIRDFFIRKFGECFEAINMQEV------ASSTEQPLFARLVMDSASFMDVVLGGKS 300 (319)
Q Consensus 244 G~P-vse~ei~~fF~~~yGdcie~v~mq~~------~~~~~qplfariVf~s~~~v~~vL~g~~ 300 (319)
||| -....|.++|.+ ||+++|.+.+-+. .+.....-.-+|.|++.....+.|.-..
T Consensus 13 Gfp~~~~~~Vl~~F~~-~G~Ile~~~~~~~~~~~~~~~~~~~~NWi~I~Y~~~~~A~rAL~~NG 75 (100)
T PF05172_consen 13 GFPPSASNQVLRHFSS-FGTILEHFEVLRSSSGINPYPIPSGGNWIHITYDNPLSAQRALQKNG 75 (100)
T ss_dssp ---GGGHHHHHHHHHC-CS-EECEEGGG----------E-CCTTEEEEEESSHHHHHHHHTTTT
T ss_pred ccCHHHHHHHHHHHHh-cceEEEeecccccccccccccCCCCCCEEEEECCCHHHHHHHHHhCC
Confidence 888 456788999997 9999998844321 0235678899999999999999998443
No 67
>KOG0125 consensus Ataxin 2-binding protein (RRM superfamily) [General function prediction only]
Probab=63.65 E-value=17 Score=36.47 Aligned_cols=76 Identities=14% Similarity=0.336 Sum_probs=51.2
Q ss_pred CCCCceEEEEccCCCc--CCHHHHHHHHHhhcCCceeEEEeeecCCCCCCCceEEEEecchhhHHHH---hCCCCeeeEE
Q 038714 231 PPDERTIFLTFSKGYP--ISENEIRDFFIRKFGECFEAINMQEVASSTEQPLFARLVMDSASFMDVV---LGGKSKAKFS 305 (319)
Q Consensus 231 ~~d~Rt~FvTFS~G~P--vse~ei~~fF~~~yGdcie~v~mq~~~~~~~qplfariVf~s~~~v~~v---L~g~~~~kf~ 305 (319)
+.-.|-|.| -..| .-+.|++.-|.+ ||.++ +|.+== ...-.-+||+|+|.+.+.-|+. |.|. .
T Consensus 93 ~~~pkRLhV---SNIPFrFRdpDL~aMF~k-fG~Vl-dVEIIf--NERGSKGFGFVTmen~~dadRARa~LHgt-----~ 160 (376)
T KOG0125|consen 93 KDTPKRLHV---SNIPFRFRDPDLRAMFEK-FGKVL-DVEIIF--NERGSKGFGFVTMENPADADRARAELHGT-----V 160 (376)
T ss_pred CCCCceeEe---ecCCccccCccHHHHHHh-hCcee-eEEEEe--ccCCCCccceEEecChhhHHHHHHHhhcc-----e
Confidence 344455655 3445 678999999996 99733 333311 1123568999999999997775 5563 6
Q ss_pred EcCceeEEEeccC
Q 038714 306 INGKHKIIQILKN 318 (319)
Q Consensus 306 IngkhiWarky~p 318 (319)
|.||.|.++..-+
T Consensus 161 VEGRkIEVn~ATa 173 (376)
T KOG0125|consen 161 VEGRKIEVNNATA 173 (376)
T ss_pred eeceEEEEeccch
Confidence 8899988876543
No 68
>KOG0148 consensus Apoptosis-promoting RNA-binding protein TIA-1/TIAR (RRM superfamily) [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=61.75 E-value=22 Score=34.96 Aligned_cols=72 Identities=15% Similarity=0.288 Sum_probs=54.0
Q ss_pred EEEEccCCC-c-CCHHHHHHHHHhhcCCceeEEEeeecCCCCCCCceEEEEecchhhHHHHh---CCCCeeeEEEcCcee
Q 038714 237 IFLTFSKGY-P-ISENEIRDFFIRKFGECFEAINMQEVASSTEQPLFARLVMDSASFMDVVL---GGKSKAKFSINGKHK 311 (319)
Q Consensus 237 ~FvTFS~G~-P-vse~ei~~fF~~~yGdcie~v~mq~~~~~~~qplfariVf~s~~~v~~vL---~g~~~~kf~Ingkhi 311 (319)
-|=-|..-+ | |+-+.||+=|+. ||++-|+=.+.++ .++..-+||+|-|-..+-..... || . +|.+|.|
T Consensus 62 hfhvfvgdls~eI~~e~lr~aF~p-FGevS~akvirD~-~T~KsKGYgFVSf~~k~dAEnAI~~MnG-q----WlG~R~I 134 (321)
T KOG0148|consen 62 HFHVFVGDLSPEIDNEKLREAFAP-FGEVSDAKVIRDM-NTGKSKGYGFVSFPNKEDAENAIQQMNG-Q----WLGRRTI 134 (321)
T ss_pred ceeEEehhcchhcchHHHHHHhcc-ccccccceEeecc-cCCcccceeEEeccchHHHHHHHHHhCC-e----eecccee
Confidence 334444443 2 899999999996 9998899899888 89999999999998777655544 44 3 6777766
Q ss_pred ---EEEe
Q 038714 312 ---IIQI 315 (319)
Q Consensus 312 ---Wark 315 (319)
||-|
T Consensus 135 RTNWATR 141 (321)
T KOG0148|consen 135 RTNWATR 141 (321)
T ss_pred ecccccc
Confidence 6643
No 69
>KOG0533 consensus RRM motif-containing protein [RNA processing and modification]
Probab=59.71 E-value=15 Score=35.07 Aligned_cols=56 Identities=14% Similarity=0.262 Sum_probs=44.6
Q ss_pred CCCc-eEEEEccCC-CcCCHHHHHHHHHhhcCCceeEEEeeecCCCCCCCceEEEEecchhh
Q 038714 232 PDER-TIFLTFSKG-YPISENEIRDFFIRKFGECFEAINMQEVASSTEQPLFARLVMDSASF 291 (319)
Q Consensus 232 ~d~R-t~FvTFS~G-~Pvse~ei~~fF~~~yGdcie~v~mq~~~~~~~qplfariVf~s~~~ 291 (319)
.+.| |. |.+|+= |-|++++|+|+|+. || -++.|.++-. ..++.-.-|-|+|..-+-
T Consensus 79 ~~~~~~~-v~v~NL~~~V~~~Dl~eLF~~-~~-~~~r~~vhy~-~~G~s~Gta~v~~~r~~D 136 (243)
T KOG0533|consen 79 NETRSTK-VNVSNLPYGVIDADLKELFAE-FG-ELKRVAVHYD-RAGRSLGTADVSFNRRDD 136 (243)
T ss_pred cCCCcce-eeeecCCcCcchHHHHHHHHH-hc-cceEEeeccC-CCCCCCccceeeecchHh
Confidence 3445 44 666654 55999999999998 99 5889999887 788899999999988744
No 70
>KOG0147 consensus Transcriptional coactivator CAPER (RRM superfamily) [Transcription]
Probab=59.44 E-value=15 Score=38.92 Aligned_cols=60 Identities=20% Similarity=0.392 Sum_probs=47.1
Q ss_pred CcCCHHHHHHHHHhhcCCceeEEEeeecCCCCCCCceEEEEecchhhHH---HHhCCCCeeeEEEcCcee
Q 038714 245 YPISENEIRDFFIRKFGECFEAINMQEVASSTEQPLFARLVMDSASFMD---VVLGGKSKAKFSINGKHK 311 (319)
Q Consensus 245 ~Pvse~ei~~fF~~~yGdcie~v~mq~~~~~~~qplfariVf~s~~~v~---~vL~g~~~~kf~Ingkhi 311 (319)
+-++|+.++.-|+- ||. ||.|..+....+|+-.+||.|.|....--. ..||| |.|-|+-|
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 899988876249999999999999877633 45666 45555544
No 71
>KOG0123 consensus Polyadenylate-binding protein (RRM superfamily) [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=53.78 E-value=66 Score=32.32 Aligned_cols=70 Identities=19% Similarity=0.306 Sum_probs=49.3
Q ss_pred EccCCCc--CCHHHHHHHHHhhcCCceeEEEeeecCCCCCCCceEEEEecchhhHHH---HhCCCCeeeEEEcCceeEEE
Q 038714 240 TFSKGYP--ISENEIRDFFIRKFGECFEAINMQEVASSTEQPLFARLVMDSASFMDV---VLGGKSKAKFSINGKHKIIQ 314 (319)
Q Consensus 240 TFS~G~P--vse~ei~~fF~~~yGdcie~v~mq~~~~~~~qplfariVf~s~~~v~~---vL~g~~~~kf~IngkhiWar 314 (319)
.|-+..+ ++-.++.++|.. ||+.+--=.|-+. . | ...| +|-|.+++..+. -|||. ..+||.+.+-
T Consensus 79 ~~i~nl~~~~~~~~~~d~f~~-~g~ilS~kv~~~~-~-g-~kg~-FV~f~~e~~a~~ai~~~ng~-----ll~~kki~vg 148 (369)
T KOG0123|consen 79 VFIKNLDESIDNKSLYDTFSE-FGNILSCKVATDE-N-G-SKGY-FVQFESEESAKKAIEKLNGM-----LLNGKKIYVG 148 (369)
T ss_pred eeecCCCcccCcHHHHHHHHh-hcCeeEEEEEEcC-C-C-ceee-EEEeCCHHHHHHHHHHhcCc-----ccCCCeeEEe
Confidence 3447766 999999999997 9995554445444 2 2 6666 999999988433 45564 4788888876
Q ss_pred eccCC
Q 038714 315 ILKNN 319 (319)
Q Consensus 315 ky~pk 319 (319)
.+.+|
T Consensus 149 ~~~~~ 153 (369)
T KOG0123|consen 149 LFERK 153 (369)
T ss_pred eccch
Confidence 66553
No 72
>PF10866 DUF2704: Protein of unknown function (DUF2704); InterPro: IPR022594 This group of viral proteins has no known function.
Probab=53.70 E-value=18 Score=32.69 Aligned_cols=38 Identities=21% Similarity=0.427 Sum_probs=31.4
Q ss_pred ccCHHHHHHHHhhHHHHHHHHHHHhCCChHHHHHHHHHHHHHhccC
Q 038714 11 TVTKEQFKTFHNIDRILFTKLVHYLGRNSIESMQVIALWIWLEHSG 56 (319)
Q Consensus 11 ~vT~ee~~~Fh~idR~lf~RLV~~L~rdp~~S~~VmAlwLWLE~~G 56 (319)
-+|+.|..-+|+.-|+||..|...+=-+| |=||||+..
T Consensus 54 ~l~mkeYkEvysl~rqLyE~lr~~FVdeP--------fKlWle~Na 91 (168)
T PF10866_consen 54 QLTMKEYKEVYSLGRQLYEILRGDFVDEP--------FKLWLEQNA 91 (168)
T ss_pred ccCHHHHHHHHHHHHHHHHHHHHHhcCCc--------hHHHHHhhH
Confidence 48999999999999999999986665555 568999643
No 73
>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=53.61 E-value=12 Score=31.00 Aligned_cols=65 Identities=26% Similarity=0.395 Sum_probs=34.3
Q ss_pred EEcc-CCCcCCHHHHHHHHHhhcCCceeEEEeeecCCCCCCCceEEEEecchhhHHHHhCCCCee---eEEEcCcee
Q 038714 239 LTFS-KGYPISENEIRDFFIRKFGECFEAINMQEVASSTEQPLFARLVMDSASFMDVVLGGKSKA---KFSINGKHK 311 (319)
Q Consensus 239 vTFS-~G~Pvse~ei~~fF~~~yGdcie~v~mq~~~~~~~qplfariVf~s~~~v~~vL~g~~~~---kf~Ingkhi 311 (319)
|-|+ -+-|+++++|++.|.+ ||+ |.=|.+++. ..-|.|=|++++....++..-... ++.|+|..+
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-VAYVDFSRG------DTEGYVRFKTPEAAQKALEKLKEANDGKLKIKGKEV 72 (105)
T ss_dssp EEEEE--SS--HHHHHHHT-S-S---EEEEE--TT-------SEEEEEESS---HHHHHHHHHHTTTS-B-TTSSSE
T ss_pred EEEecCCCCcCHHHHHHHHHh-cCC-cceEEecCC------CCEEEEEECCcchHHHHHHHHHhccCCceEEcCceE
Confidence 5566 5678999999999997 994 777777552 335899999996655555432222 556666544
No 74
>KOG0124 consensus Polypyrimidine tract-binding protein PUF60 (RRM superfamily) [RNA processing and modification]
Probab=52.53 E-value=27 Score=35.80 Aligned_cols=69 Identities=13% Similarity=0.234 Sum_probs=53.4
Q ss_pred CCCCCceEEEEccCC-Cc-CCHHHHHHHHHhhcCCceeEEEeeecCCCCCCCceEEEEecchhhHHHHhCCCC
Q 038714 230 VPPDERTIFLTFSKG-YP-ISENEIRDFFIRKFGECFEAINMQEVASSTEQPLFARLVMDSASFMDVVLGGKS 300 (319)
Q Consensus 230 ~~~d~Rt~FvTFS~G-~P-vse~ei~~fF~~~yGdcie~v~mq~~~~~~~qplfariVf~s~~~v~~vL~g~~ 300 (319)
+.++-|..|-.+.-- +| +||+||+.-|+- ||..+---.-+.+ .++...+||+|-|......+....|.+
T Consensus 203 vqeeAk~fnRiYVaSvHpDLSe~DiKSVFEA-FG~I~~C~LAr~p-t~~~HkGyGfiEy~n~qs~~eAiasMN 273 (544)
T KOG0124|consen 203 VQEEAKKFNRIYVASVHPDLSETDIKSVFEA-FGEIVKCQLARAP-TGRGHKGYGFIEYNNLQSQSEAIASMN 273 (544)
T ss_pred HHHHHHhhheEEeeecCCCccHHHHHHHHHh-hcceeeEEeeccC-CCCCccceeeEEeccccchHHHhhhcc
Confidence 556666655444333 45 999999999996 9996666666667 888899999999999988888877765
No 75
>PF14605 Nup35_RRM_2: Nup53/35/40-type RNA recognition motif
Probab=51.94 E-value=47 Score=24.08 Aligned_cols=45 Identities=24% Similarity=0.379 Sum_probs=31.6
Q ss_pred CCCcCCH-HHHHHHHHhhcCCceeEEEeeecCCCCCCCceEEEEecchhhHHHH
Q 038714 243 KGYPISE-NEIRDFFIRKFGECFEAINMQEVASSTEQPLFARLVMDSASFMDVV 295 (319)
Q Consensus 243 ~G~Pvse-~ei~~fF~~~yGdcie~v~mq~~~~~~~qplfariVf~s~~~v~~v 295 (319)
.|||-+. ++|.+||.. ||. |+++.. +....+..|-|++.......
T Consensus 7 ~Gf~~~~~~~vl~~F~~-fGe-I~~~~~------~~~~~~~~l~y~~~~~ae~A 52 (53)
T PF14605_consen 7 SGFPPDLAEEVLEHFAS-FGE-IVDIYV------PESTNWMYLKYKSRKDAEKA 52 (53)
T ss_pred EeECchHHHHHHHHHHh-cCC-EEEEEc------CCCCcEEEEEECCHHHHHhh
Confidence 5777555 458999996 999 555444 25567788888888766544
No 76
>KOG0111 consensus Cyclophilin-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]
Probab=46.35 E-value=19 Score=34.61 Aligned_cols=57 Identities=21% Similarity=0.395 Sum_probs=44.4
Q ss_pred CCCCCceEEEEccCCCc--CCHHHHHHHHHhhcCCceeEEEeeecCCCCCCCceEEEEecchhh
Q 038714 230 VPPDERTIFLTFSKGYP--ISENEIRDFFIRKFGECFEAINMQEVASSTEQPLFARLVMDSASF 291 (319)
Q Consensus 230 ~~~d~Rt~FvTFS~G~P--vse~ei~~fF~~~yGdcie~v~mq~~~~~~~qplfariVf~s~~~ 291 (319)
..-+.||+|| +|.. |+|.=+..-|-- ||| |.+|.|.-.-.+++.+.||+|.|.-.+-
T Consensus 6 ~a~~KrtlYV---GGladeVtekvLhaAFIP-FGD-I~dIqiPlDyesqkHRgFgFVefe~aED 64 (298)
T KOG0111|consen 6 MANQKRTLYV---GGLADEVTEKVLHAAFIP-FGD-IKDIQIPLDYESQKHRGFGFVEFEEAED 64 (298)
T ss_pred ccccceeEEe---ccchHHHHHHHHHhcccc-ccc-hhhcccccchhcccccceeEEEeeccch
Confidence 4667899998 8976 777777777776 999 7777776432678999999999976554
No 77
>KOG0145 consensus RNA-binding protein ELAV/HU (RRM superfamily) [RNA processing and modification]
Probab=42.92 E-value=40 Score=33.17 Aligned_cols=63 Identities=13% Similarity=0.233 Sum_probs=47.6
Q ss_pred CCCCceEEEEccCCCc--CCHHHHHHHHHhhcCCceeEEEeeecCCCCCCCceEEEEecchhhHHHHhC
Q 038714 231 PPDERTIFLTFSKGYP--ISENEIRDFFIRKFGECFEAINMQEVASSTEQPLFARLVMDSASFMDVVLG 297 (319)
Q Consensus 231 ~~d~Rt~FvTFS~G~P--vse~ei~~fF~~~yGdcie~v~mq~~~~~~~qplfariVf~s~~~v~~vL~ 297 (319)
.+|.||=-| .+=.| +|+||+|..|.. -|+ ||+.-.-+....|+.=+||+|-.-.+.-.++..+
T Consensus 37 t~~skTNLI--vNYLPQ~MTqdE~rSLF~S-iGe-iEScKLvRDKitGqSLGYGFVNYv~p~DAe~Ain 101 (360)
T KOG0145|consen 37 TDESKTNLI--VNYLPQNMTQDELRSLFGS-IGE-IESCKLVRDKITGQSLGYGFVNYVRPKDAEKAIN 101 (360)
T ss_pred cCcccceee--eeecccccCHHHHHHHhhc-ccc-eeeeeeeeccccccccccceeeecChHHHHHHHh
Confidence 566677533 24455 999999999998 898 8888766654899999999999877776555433
No 78
>COG3088 CcmH Uncharacterized protein involved in biosynthesis of c-type cytochromes [Posttranslational modification, protein turnover, chaperones]
Probab=39.07 E-value=21 Score=32.09 Aligned_cols=20 Identities=25% Similarity=0.605 Sum_probs=17.1
Q ss_pred CCHHHHHHHHHhhcCCceeEEEe
Q 038714 247 ISENEIRDFFIRKFGECFEAINM 269 (319)
Q Consensus 247 vse~ei~~fF~~~yGdcie~v~m 269 (319)
-|+.||.+|++.+||+ -|.+
T Consensus 78 kS~~qIid~mVaRYG~---FVly 97 (153)
T COG3088 78 KSDQQIIDYMVARYGE---FVLY 97 (153)
T ss_pred CcHHHHHHHHHHhhcc---eeee
Confidence 4899999999999999 4555
No 79
>KOG0145 consensus RNA-binding protein ELAV/HU (RRM superfamily) [RNA processing and modification]
Probab=37.79 E-value=38 Score=33.34 Aligned_cols=61 Identities=15% Similarity=0.334 Sum_probs=48.1
Q ss_pred CceEEEEccCCCc--CCHHHHHHHHHhhcCCceeEEEeeecCCCCCCCceEEEEecchhhHHHH---hCCC
Q 038714 234 ERTIFLTFSKGYP--ISENEIRDFFIRKFGECFEAINMQEVASSTEQPLFARLVMDSASFMDVV---LGGK 299 (319)
Q Consensus 234 ~Rt~FvTFS~G~P--vse~ei~~fF~~~yGdcie~v~mq~~~~~~~qplfariVf~s~~~v~~v---L~g~ 299 (319)
+--+|| -|.| +|..|+...|.. ||..|.+=...+. .++...+-|+|-|+.-...++. |||.
T Consensus 127 ~aNLYv---SGlPktMtqkelE~iFs~-fGrIItSRiL~dq-vtg~srGVgFiRFDKr~EAe~AIk~lNG~ 192 (360)
T KOG0145|consen 127 DANLYV---SGLPKTMTQKELEQIFSP-FGRIITSRILVDQ-VTGLSRGVGFIRFDKRIEAEEAIKGLNGQ 192 (360)
T ss_pred ccceEE---ecCCccchHHHHHHHHHH-hhhhhhhhhhhhc-ccceecceeEEEecchhHHHHHHHhccCC
Confidence 345666 7888 899999999997 9998888777776 7899999999999876554443 5564
No 80
>KOG2971 consensus RNA-binding protein required for biogenesis of the ribosomal 60S subunit [Translation, ribosomal structure and biogenesis]
Probab=36.22 E-value=46 Score=32.47 Aligned_cols=62 Identities=21% Similarity=0.403 Sum_probs=44.7
Q ss_pred CCCCCceEEEEccCCCc-CCHHH-HHHHHHhhcCCceeEEEeeecCCCCCCCceEEEEecchhhHHHHhCCCCeeeEEEc
Q 038714 230 VPPDERTIFLTFSKGYP-ISENE-IRDFFIRKFGECFEAINMQEVASSTEQPLFARLVMDSASFMDVVLGGKSKAKFSIN 307 (319)
Q Consensus 230 ~~~d~Rt~FvTFS~G~P-vse~e-i~~fF~~~yGdcie~v~mq~~~~~~~qplfariVf~s~~~v~~vL~g~~~~kf~In 307 (319)
--.++|-+ ++|++.+- +.... ++|.++..||- +.+ .| +|..++|+|+ .|+|-
T Consensus 148 ~lkgsrpl-LsFd~~Fd~~pHlkl~Kell~q~fgi-----------P~~-hr-------kSkpf~Dhvf------~Fsi~ 201 (299)
T KOG2971|consen 148 CLKGSRPL-LSFDKAFDELPHLKLLKELLEQIFGI-----------PKH-HR-------KSKPFVDHVF------TFSIL 201 (299)
T ss_pred cccCCcce-eecccccccchHHHHHHHHHHHHcCC-----------CCC-Cc-------ccCCccceEE------EEEEe
Confidence 46788999 99999876 44444 48999999983 111 11 4556777665 57888
Q ss_pred CceeEEEecc
Q 038714 308 GKHKIIQILK 317 (319)
Q Consensus 308 gkhiWarky~ 317 (319)
..+||.|.|.
T Consensus 202 D~~IWfRnyq 211 (299)
T KOG2971|consen 202 DGKIWFRNYQ 211 (299)
T ss_pred cCeEEEEEeE
Confidence 8999999995
No 81
>KOG2202 consensus U2 snRNP splicing factor, small subunit, and related proteins [RNA processing and modification]
Probab=35.29 E-value=18 Score=34.97 Aligned_cols=56 Identities=16% Similarity=0.134 Sum_probs=36.0
Q ss_pred HHHHHHHhhcCCceeEEEeeecCCCCCCCceEEEEecchhhHHHH---hCCCCeeeEEEcCceeEE
Q 038714 251 EIRDFFIRKFGECFEAINMQEVASSTEQPLFARLVMDSASFMDVV---LGGKSKAKFSINGKHKII 313 (319)
Q Consensus 251 ei~~fF~~~yGdcie~v~mq~~~~~~~qplfariVf~s~~~v~~v---L~g~~~~kf~IngkhiWa 313 (319)
|++..|..+||. ||.+.+-+. ...+-.+=..|-|++++..... ||| + +++|+.|-|
T Consensus 84 d~f~E~~~kygE-iee~~Vc~N-l~~hl~GNVYV~f~~Ee~ae~a~~~lnn-R----w~~G~pi~a 142 (260)
T KOG2202|consen 84 DVFTELEDKYGE-IEELNVCDN-LGDHLVGNVYVKFRSEEDAEAALEDLNN-R----WYNGRPIHA 142 (260)
T ss_pred HHHHHHHHHhhh-hhhhhhhcc-cchhhhhhhhhhcccHHHHHHHHHHHcC-c----cccCCccee
Confidence 344555668998 555544442 4455555567789998885444 445 5 799998865
No 82
>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=35.19 E-value=31 Score=27.62 Aligned_cols=51 Identities=25% Similarity=0.516 Sum_probs=31.5
Q ss_pred HHHHHHHHHhhcCCc-----------------eeEEEeeecCCCCCCCceEEEEecchh-----hHHHHhCCCCeeeEEE
Q 038714 249 ENEIRDFFIRKFGEC-----------------FEAINMQEVASSTEQPLFARLVMDSAS-----FMDVVLGGKSKAKFSI 306 (319)
Q Consensus 249 e~ei~~fF~~~yGdc-----------------ie~v~mq~~~~~~~qplfariVf~s~~-----~v~~vL~g~~~~kf~I 306 (319)
+..|.++|..+||.- -++|+++-- + + -|.|+.+. ++..||...+..+|.|
T Consensus 2 Rk~Ve~lF~~kY~eALG~~~~V~VPY~k~~~~p~~v~V~GL-P--e-----gi~fr~P~~Y~i~~L~~IL~~~~~I~FvI 73 (76)
T PF02946_consen 2 RKQVEELFNKKYGEALGKSEPVPVPYEKFQRDPEAVYVQGL-P--E-----GIPFRRPSNYGIPRLEKILEASSRIRFVI 73 (76)
T ss_dssp HHHHHHHHHHHHHHHHT-SS-----HHHHHHTTTTEEEES-----T-----T--SS-TTTS-HHHHHHHHHTTTT-EEEE
T ss_pred hHHHHHHHHHHHHHHhCCCCcccCCHHHHhhCCCcEEEEeC-C--C-----CCcCCCCCcCCHHHHHHHHHccCCcEEEE
Confidence 467899999999831 124455431 0 0 14455554 4889999999999999
Q ss_pred c
Q 038714 307 N 307 (319)
Q Consensus 307 n 307 (319)
+
T Consensus 74 k 74 (76)
T PF02946_consen 74 K 74 (76)
T ss_dssp S
T ss_pred e
Confidence 7
No 83
>COG5606 Uncharacterized conserved small protein [Function unknown]
Probab=32.74 E-value=49 Score=27.30 Aligned_cols=39 Identities=23% Similarity=0.401 Sum_probs=32.5
Q ss_pred HHHHHHHHHHHhccCCchhHhHhhhcCChHHHHHHHHHH
Q 038714 42 SMQVIALWIWLEHSGLCRDLVNTLLTWPDTLITSLADEA 80 (319)
Q Consensus 42 S~~VmAlwLWLE~~G~~~n~i~~ilslpd~~i~~lAdEA 80 (319)
+..+|+...|+|..++.+.=|..++..+-+-++.||+=-
T Consensus 27 ~~l~~~i~~~i~q~~l~Q~qiae~lgV~qprvS~l~~gk 65 (91)
T COG5606 27 SALMMAIKQWIEQAALSQAQIAELLGVTQPRVSDLARGK 65 (91)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhCCCCchHHHHHhcc
Confidence 567899999999999978888888888888888887643
No 84
>KOG0131 consensus Splicing factor 3b, subunit 4 [RNA processing and modification]
Probab=32.30 E-value=57 Score=30.44 Aligned_cols=49 Identities=20% Similarity=0.263 Sum_probs=39.3
Q ss_pred CCHHHHHHHHHhhcCCceeE-EEeeecCCCCCCCceEEEEecchhhHHHHhC
Q 038714 247 ISENEIRDFFIRKFGECFEA-INMQEVASSTEQPLFARLVMDSASFMDVVLG 297 (319)
Q Consensus 247 vse~ei~~fF~~~yGdcie~-v~mq~~~~~~~qplfariVf~s~~~v~~vL~ 297 (319)
|.|.-+.+-|.. ||-|+.. -.|.++ .++.++.||.|.|.|.+.-|.++.
T Consensus 108 vDe~~L~dtFsa-fG~l~~~P~i~rd~-~tg~~~~~g~i~~~sfeasd~ai~ 157 (203)
T KOG0131|consen 108 VDEKLLYDTFSA-FGVLISPPKIMRDP-DTGNPKGFGFINYASFEASDAAIG 157 (203)
T ss_pred hhHHHHHHHHHh-ccccccCCcccccc-cCCCCCCCeEEechhHHHHHHHHH
Confidence 777778888885 9999874 346666 789999999999999988766654
No 85
>KOG0117 consensus Heterogeneous nuclear ribonucleoprotein R (RRM superfamily) [RNA processing and modification]
Probab=32.10 E-value=1.7e+02 Score=30.76 Aligned_cols=63 Identities=16% Similarity=0.160 Sum_probs=50.8
Q ss_pred cCCCCCceEEEEccCCCc--CCHHHHHHHHHhhcCCceeEEEeeec-CCCCCCCceEEEEecchhhHHHH
Q 038714 229 TVPPDERTIFLTFSKGYP--ISENEIRDFFIRKFGECFEAINMQEV-ASSTEQPLFARLVMDSASFMDVV 295 (319)
Q Consensus 229 ~~~~d~Rt~FvTFS~G~P--vse~ei~~fF~~~yGdcie~v~mq~~-~~~~~qplfariVf~s~~~v~~v 295 (319)
-++.+.--||| ++.| -+++||.+=|.+ -|.=|+.|.+... ....+-++||+|-+-|..+.+..
T Consensus 159 c~Svan~RLFi---G~IPK~k~keeIlee~~k-VteGVvdVivy~~p~dk~KNRGFaFveYe~H~~Aa~a 224 (506)
T KOG0117|consen 159 CVSVANCRLFI---GNIPKTKKKEEILEEMKK-VTEGVVDVIVYPSPDDKTKNRGFAFVEYESHRAAAMA 224 (506)
T ss_pred EEeeecceeEe---ccCCccccHHHHHHHHHh-hCCCeeEEEEecCccccccccceEEEEeecchhHHHH
Confidence 46777777888 9999 889999999987 7877888888763 24678899999999998875544
No 86
>PF10309 DUF2414: Protein of unknown function (DUF2414); InterPro: IPR019416 This entry contains proteins that have no known function.
Probab=28.37 E-value=1.5e+02 Score=22.62 Aligned_cols=48 Identities=19% Similarity=0.276 Sum_probs=32.2
Q ss_pred CCC-cCCHHHHHHHHHhhcCC-ceeEEEeeecCCCCCCCceEEEEecchhhHHHHhC
Q 038714 243 KGY-PISENEIRDFFIRKFGE-CFEAINMQEVASSTEQPLFARLVMDSASFMDVVLG 297 (319)
Q Consensus 243 ~G~-Pvse~ei~~fF~~~yGd-cie~v~mq~~~~~~~qplfariVf~s~~~v~~vL~ 297 (319)
+|. -+|-+||+.||...|+. -..+|.-=+. .+ +-|||.++.+..+.|.
T Consensus 11 rGvd~lsT~dI~~y~~~y~~~~~~~~IEWIdD-----tS--cNvvf~d~~~A~~AL~ 60 (62)
T PF10309_consen 11 RGVDELSTDDIKAYFSEYFDEEGPFRIEWIDD-----TS--CNVVFKDEETAARALV 60 (62)
T ss_pred EcCCCCCHHHHHHHHHHhcccCCCceEEEecC-----Cc--EEEEECCHHHHHHHHH
Confidence 663 49999999999995431 1223333332 11 8899999999877763
No 87
>KOG4209 consensus Splicing factor RNPS1, SR protein superfamily [RNA processing and modification]
Probab=27.91 E-value=1.1e+02 Score=28.88 Aligned_cols=64 Identities=11% Similarity=0.161 Sum_probs=48.8
Q ss_pred CCCCceEEEEccCCCcCCHHHHHHHHHhhcCCceeEEEeeecCCCCCCCceEEEEecchhhHHHHhC
Q 038714 231 PPDERTIFLTFSKGYPISENEIRDFFIRKFGECFEAINMQEVASSTEQPLFARLVMDSASFMDVVLG 297 (319)
Q Consensus 231 ~~d~Rt~FvTFS~G~Pvse~ei~~fF~~~yGdcie~v~mq~~~~~~~qplfariVf~s~~~v~~vL~ 297 (319)
..|.+++|+... ++-++-+++...|.. +|. |.+|.|...+-.+++-+||-+-|.+...+..-|.
T Consensus 98 ~~d~~sv~v~nv-d~~~t~~~~e~hf~~-Cg~-i~~~ti~~d~~~~~~k~~~yvef~~~~~~~~ay~ 161 (231)
T KOG4209|consen 98 EVDAPSVWVGNV-DFLVTLTKIELHFES-CGG-INRVTVPKDKFRGHPKGFAYVEFSSYELVEEAYK 161 (231)
T ss_pred ccCCceEEEecc-ccccccchhhheeec-cCC-ccceeeeccccCCCcceeEEEecccHhhhHHHhh
Confidence 446678888654 455677778888886 887 7778887765677799999999999998766554
No 88
>PF03540 TFIID_30kDa: Transcription initiation factor TFIID 23-30kDa subunit; InterPro: IPR003923 Transcription initiation factor TFIID is a multimeric protein complex that plays a central role in mediating promoter responses to various activators and repressors. The complex includes TATA binding protein (TBP) and various TBP-associated factors (TAFS). TFIID a bona fide RNA polymerase II-specific TATA-binding protein-associated factor (TAF) and is essential for viability []. TFIID acts to nucleate the transcription complex, recruiting the rest of the factors through a direct interaction with TFIIB. The TBP subunit of TFIID is sufficient for TATA-element binding and TFIIB interaction, and can support basal transcription. The protein belongs to the TAF2H family.; GO: 0006352 transcription initiation, DNA-dependent, 0005634 nucleus
Probab=24.67 E-value=77 Score=23.49 Aligned_cols=34 Identities=21% Similarity=0.327 Sum_probs=23.9
Q ss_pred HHHhccCC---chhHhHhhhcCChHHHHHHHHHHHHH
Q 038714 50 IWLEHSGL---CRDLVNTLLTWPDTLITSLADEAVLC 83 (319)
Q Consensus 50 LWLE~~G~---~~n~i~~ilslpd~~i~~lAdEA~~c 83 (319)
-||++.|+ +..+++-|.-.-.-+|.++|+.|..+
T Consensus 10 ~yL~~~G~~~~D~rv~RLvSLaaQKFisdI~~dA~q~ 46 (51)
T PF03540_consen 10 YYLERSGFQTSDPRVKRLVSLAAQKFISDIANDAMQY 46 (51)
T ss_pred HHHHHCCCCCCCHhHHHHHHHHHHHHHHHHHHHHHHH
Confidence 47899998 45555444445568888898888764
No 89
>KOG0130 consensus RNA-binding protein RBM8/Tsunagi (RRM superfamily) [General function prediction only]
Probab=24.52 E-value=1.5e+02 Score=26.73 Aligned_cols=55 Identities=18% Similarity=0.312 Sum_probs=43.1
Q ss_pred EEEccCCCc--CCHHHHHHHHHhhcCCceeEEEeeecCCCCCCCceEEEEecchhhHHH
Q 038714 238 FLTFSKGYP--ISENEIRDFFIRKFGECFEAINMQEVASSTEQPLFARLVMDSASFMDV 294 (319)
Q Consensus 238 FvTFS~G~P--vse~ei~~fF~~~yGdcie~v~mq~~~~~~~qplfariVf~s~~~v~~ 294 (319)
+|.|..|.. -+|+||.+-|.. ||. |..+..-=.+-+|---+||-|-.........
T Consensus 73 wIi~VtgvHeEatEedi~d~F~d-yGe-iKNihLNLDRRtGy~KGYaLvEYet~keAq~ 129 (170)
T KOG0130|consen 73 WIIFVTGVHEEATEEDIHDKFAD-YGE-IKNIHLNLDRRTGYVKGYALVEYETLKEAQA 129 (170)
T ss_pred EEEEEeccCcchhHHHHHHHHhh-ccc-ccceeeccccccccccceeeeehHhHHHHHH
Confidence 677777744 899999999998 998 8888886555678888999998876555333
No 90
>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=24.50 E-value=3e+02 Score=21.79 Aligned_cols=61 Identities=8% Similarity=0.119 Sum_probs=40.8
Q ss_pred EEccCCCcCCHHHHHHHHHhhcCCc------eeEEEeeec--CCCCCCC--ceEEEEecchhhHHHHhCCC
Q 038714 239 LTFSKGYPISENEIRDFFIRKFGEC------FEAINMQEV--ASSTEQP--LFARLVMDSASFMDVVLGGK 299 (319)
Q Consensus 239 vTFS~G~Pvse~ei~~fF~~~yGdc------ie~v~mq~~--~~~~~qp--lfariVf~s~~~v~~vL~g~ 299 (319)
+|+..-.|++.+++..|.+...++- +.+..+... ...+.+| ..+-+.|+|.+.+...++..
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 4666777899999999999876542 333333221 0123333 56889999999999988653
No 91
>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=24.25 E-value=2.7e+02 Score=22.94 Aligned_cols=55 Identities=7% Similarity=0.036 Sum_probs=46.0
Q ss_pred CCCc--CCHHHHHHHHHhhcCCceeEEEeeecCCCCCCCceEEEEecchhhHHHHhC
Q 038714 243 KGYP--ISENEIRDFFIRKFGECFEAINMQEVASSTEQPLFARLVMDSASFMDVVLG 297 (319)
Q Consensus 243 ~G~P--vse~ei~~fF~~~yGdcie~v~mq~~~~~~~qplfariVf~s~~~v~~vL~ 297 (319)
|..| .|.+++.+.+.+.+.+..+=+|+.=+-..+.--+||+|=|.+++.+...-.
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 5666 899999999999888889999998543677889999999999999776654
No 92
>COG3495 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=24.18 E-value=54 Score=29.44 Aligned_cols=22 Identities=36% Similarity=0.721 Sum_probs=18.9
Q ss_pred ccCCCCCceEEEEccCCCcCCH
Q 038714 228 VTVPPDERTIFLTFSKGYPISE 249 (319)
Q Consensus 228 ~~~~~d~Rt~FvTFS~G~Pvse 249 (319)
++.|+-++-++|+|.+|++++|
T Consensus 105 vPpPPpNQIV~Vk~~kg~km~e 126 (166)
T COG3495 105 VPPPPPNQIVLVKPAKGYKMSE 126 (166)
T ss_pred cCCcCCCeEEEEecCCCccHhH
Confidence 4577888999999999999875
No 93
>COG5132 BUD31 Cell cycle control protein, G10 family [Transcription / Cell division and chromosome partitioning]
Probab=21.95 E-value=56 Score=28.55 Aligned_cols=60 Identities=27% Similarity=0.486 Sum_probs=41.0
Q ss_pred HHHHHhhHHHHHHHHHHHhCCChHHHHHHHHHHHHHhccCC-chhHhHhhhcCChHHHHHHHHHHHHHhhhhcCCC
Q 038714 17 FKTFHNIDRILFTKLVHYLGRNSIESMQVIALWIWLEHSGL-CRDLVNTLLTWPDTLITSLADEAVLCLSCIQSDE 91 (319)
Q Consensus 17 ~~~Fh~idR~lf~RLV~~L~rdp~~S~~VmAlwLWLE~~G~-~~n~i~~ilslpd~~i~~lAdEA~~cL~cL~~~~ 91 (319)
|-+.|.--|=+|.--- -| -+.|. -|.-||-++-| ++++|.+ -..+-.|...||.||+..+
T Consensus 50 fQLHHQRSRYIY~Lyy---KR-~aISt---~LY~wL~k~~yaD~~Liak--------W~k~GYEkLCCLRCIQ~~e 110 (146)
T COG5132 50 FQLHHQRSRYIYNLYY---KR-GAIST---KLYGWLSKNRYADHELIAK--------WDKVGYEKLCCLRCIQPIE 110 (146)
T ss_pred HHHHHhhhHHHHHHHh---hh-hhHHH---HHHHHHHHhcccchhHhhh--------hcccchhhhhhHhhcCccc
Confidence 6678888887775332 12 13333 35779988877 6777776 3567789999999998544
No 94
>COG1259 Uncharacterized conserved protein [Function unknown]
Probab=21.34 E-value=2e+02 Score=25.79 Aligned_cols=47 Identities=13% Similarity=0.411 Sum_probs=38.2
Q ss_pred EccCCCcCCHHHHHHHHHhhcCCceeEEEeeecCCCCCCCceEEEEecchh
Q 038714 240 TFSKGYPISENEIRDFFIRKFGECFEAINMQEVASSTEQPLFARLVMDSAS 290 (319)
Q Consensus 240 TFS~G~Pvse~ei~~fF~~~yGdcie~v~mq~~~~~~~qplfariVf~s~~ 290 (319)
++...-|.+.+=+.+-|++ +|--||+|.+.+. ..+--||+++++-..
T Consensus 52 ~~~p~RP~tHdll~~i~~~-l~~~v~kVvI~d~---~d~tyyA~L~~~~~~ 98 (151)
T COG1259 52 GVEPPRPLTHDLLVEIFEE-LGARVEKVVIDDL---IDNTYYATLILEQDD 98 (151)
T ss_pred cCCCCCCcHHHHHHHHHHH-hCCcEEEEEEEEe---ccCeEEEEEEEEcCC
Confidence 3445578999999999997 9988999999886 556899999997544
No 95
>KOG0106 consensus Alternative splicing factor SRp55/B52/SRp75 (RRM superfamily) [RNA processing and modification]
Probab=20.46 E-value=95 Score=29.32 Aligned_cols=46 Identities=17% Similarity=0.359 Sum_probs=32.7
Q ss_pred EccCCCc--CCHHHHHHHHHhhcCCceeEEEeeecCCCCCCCceEEEEecchhhHHHH
Q 038714 240 TFSKGYP--ISENEIRDFFIRKFGECFEAINMQEVASSTEQPLFARLVMDSASFMDVV 295 (319)
Q Consensus 240 TFS~G~P--vse~ei~~fF~~~yGdcie~v~mq~~~~~~~qplfariVf~s~~~v~~v 295 (319)
||.+..| ..+.++.+||.+ ||- +-.+.|. .+||.+-|......+.+
T Consensus 4 v~vg~~~~~~~~~d~E~~f~~-yg~-~~d~~mk--------~gf~fv~fed~rda~Da 51 (216)
T KOG0106|consen 4 VYIGRLPYRARERDVERFFKG-YGK-IPDADMK--------NGFGFVEFEDPRDADDA 51 (216)
T ss_pred eeecccCCccchhHHHHHHhh-ccc-cccceee--------cccceeccCchhhhhcc
Confidence 3445555 899999999997 996 4455552 36788888887775544
No 96
>PRK11512 DNA-binding transcriptional repressor MarR; Provisional
Probab=20.25 E-value=5.2e+02 Score=21.61 Aligned_cols=78 Identities=13% Similarity=0.103 Sum_probs=49.3
Q ss_pred CCCCCCCCCcccCHHH-HHHHHhhHHHHHHHHHHHhCCChHHHHHHHHHHHHHhccCCchhHhHhhhcCChHHHHHHHHH
Q 038714 1 MASSSSLAPLTVTKEQ-FKTFHNIDRILFTKLVHYLGRNSIESMQVIALWIWLEHSGLCRDLVNTLLTWPDTLITSLADE 79 (319)
Q Consensus 1 ~~~~~~~~~~~vT~ee-~~~Fh~idR~lf~RLV~~L~rdp~~S~~VmAlwLWLE~~G~~~n~i~~ilslpd~~i~~lAdE 79 (319)
|-|.|+-.....+..- +..++..-+..+.+.+-..|-.+.|..-+.++ |-+ .|.-..=+++.+.++...+..+++.
T Consensus 1 ~~~~~~~~~~~~~l~~l~~~~~~~~~~~~~~~l~~~glt~~q~~vL~~l--~~~-~~~t~~eLa~~l~i~~~tvsr~l~~ 77 (144)
T PRK11512 1 MKSTSDLFNEIIPLGRLIHMVNQKKDRLLNEYLSPLDITAAQFKVLCSI--RCA-ACITPVELKKVLSVDLGALTRMLDR 77 (144)
T ss_pred CcCchhhhhhhhHHHHHHHHHHHHHHHHHHHHhcccCCCHHHHHHHHHH--HHc-CCCCHHHHHHHHCCCHHHHHHHHHH
Confidence 4555555444444332 33455555566777777788888886555443 433 4544677888899999888888764
Q ss_pred HH
Q 038714 80 AV 81 (319)
Q Consensus 80 A~ 81 (319)
-+
T Consensus 78 Le 79 (144)
T PRK11512 78 LV 79 (144)
T ss_pred HH
Confidence 33
No 97
>PF13797 Post_transc_reg: Post-transcriptional regulator
Probab=20.11 E-value=78 Score=25.57 Aligned_cols=16 Identities=25% Similarity=0.781 Sum_probs=14.6
Q ss_pred CCc-CCHHHHHHHHHhh
Q 038714 244 GYP-ISENEIRDFFIRK 259 (319)
Q Consensus 244 G~P-vse~ei~~fF~~~ 259 (319)
||+ ||++||-+||+.+
T Consensus 24 GY~~vt~~dlw~yl~~~ 40 (87)
T PF13797_consen 24 GYESVTEEDLWSYLTEK 40 (87)
T ss_pred CcCcCCHHHHHHHHHHH
Confidence 888 9999999999874
Done!