Query 048589
Match_columns 283
No_of_seqs 73 out of 75
Neff 4.6
Searched_HMMs 46136
Date Fri Mar 29 10:56:49 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/048589.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/048589hhsearch_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 5.3E-06 1.1E-10 79.4 5.7 78 198-282 96-178 (311)
2 KOG0149 Predicted RNA-binding 98.0 2.7E-05 5.9E-10 72.0 7.9 71 197-273 9-84 (247)
3 PLN03134 glycine-rich RNA-bind 97.8 0.00014 3.1E-09 61.9 9.7 81 193-281 30-115 (144)
4 PLN03120 nucleic acid binding 97.8 0.0001 2.2E-09 69.2 9.3 69 197-276 4-76 (260)
5 PF14259 RRM_6: RNA recognitio 97.8 3.3E-05 7.1E-10 56.0 4.7 62 206-272 4-69 (70)
6 smart00362 RRM_2 RNA recogniti 97.7 0.00027 5.8E-09 48.8 7.9 64 206-274 5-71 (72)
7 PF00076 RRM_1: RNA recognitio 97.7 8.4E-05 1.8E-09 52.8 5.2 63 205-272 3-69 (70)
8 smart00360 RRM RNA recognition 97.6 0.0003 6.5E-09 48.3 7.2 63 207-274 3-70 (71)
9 KOG4205 RNA-binding protein mu 97.6 7.1E-05 1.5E-09 71.7 5.2 77 196-281 5-86 (311)
10 KOG0113 U1 small nuclear ribon 97.6 0.00032 6.9E-09 67.1 8.8 76 192-274 96-175 (335)
11 TIGR01661 ELAV_HUD_SF ELAV/HuD 97.6 0.0005 1.1E-08 64.2 10.1 77 197-281 3-84 (352)
12 cd00590 RRM RRM (RNA recogniti 97.5 0.00098 2.1E-08 46.2 8.1 65 206-275 5-73 (74)
13 TIGR01645 half-pint poly-U bin 97.4 0.00073 1.6E-08 70.1 8.9 78 196-281 203-285 (612)
14 TIGR01661 ELAV_HUD_SF ELAV/HuD 97.3 0.0011 2.4E-08 61.8 9.2 78 197-282 269-351 (352)
15 PLN03121 nucleic acid binding 97.2 0.0023 4.9E-08 59.7 9.8 70 196-276 4-77 (243)
16 TIGR01622 SF-CC1 splicing fact 97.2 0.0014 3.1E-08 63.6 9.0 72 196-275 185-261 (457)
17 TIGR01659 sex-lethal sex-letha 97.2 0.0015 3.2E-08 63.3 8.7 77 193-276 103-183 (346)
18 TIGR01622 SF-CC1 splicing fact 97.1 0.0023 5E-08 62.2 9.2 75 193-276 85-164 (457)
19 COG0724 RNA-binding proteins ( 97.1 0.0029 6.4E-08 53.4 8.6 74 197-278 115-193 (306)
20 TIGR01649 hnRNP-L_PTB hnRNP-L/ 97.1 0.0021 4.5E-08 64.1 8.4 75 197-280 2-78 (481)
21 TIGR01628 PABP-1234 polyadenyl 97.0 0.0031 6.7E-08 63.4 8.8 78 196-280 284-364 (562)
22 TIGR01659 sex-lethal sex-letha 96.9 0.0038 8.2E-08 60.5 8.4 75 196-275 192-270 (346)
23 TIGR01642 U2AF_lg U2 snRNP aux 96.9 0.0072 1.6E-07 59.5 10.3 77 193-277 291-372 (509)
24 TIGR01648 hnRNP-R-Q heterogene 96.9 0.0053 1.1E-07 63.5 9.4 78 192-275 53-133 (578)
25 TIGR01628 PABP-1234 polyadenyl 96.7 0.0059 1.3E-07 61.4 8.7 80 194-280 175-261 (562)
26 TIGR01645 half-pint poly-U bin 96.4 0.016 3.4E-07 60.4 9.4 72 196-275 106-182 (612)
27 TIGR01642 U2AF_lg U2 snRNP aux 96.2 0.032 6.9E-07 54.9 9.6 74 192-275 170-255 (509)
28 TIGR01648 hnRNP-R-Q heterogene 96.0 0.026 5.6E-07 58.5 8.4 82 194-280 135-222 (578)
29 smart00361 RRM_1 RNA recogniti 95.7 0.057 1.2E-06 39.9 7.0 57 211-274 1-69 (70)
30 KOG0132 RNA polymerase II C-te 95.3 0.028 6.1E-07 59.7 5.9 74 197-281 421-499 (894)
31 KOG0116 RasGAP SH3 binding pro 95.1 0.056 1.2E-06 54.1 6.9 77 194-279 285-366 (419)
32 TIGR01649 hnRNP-L_PTB hnRNP-L/ 94.4 0.21 4.5E-06 49.9 9.0 71 196-276 274-347 (481)
33 PF13893 RRM_5: RNA recognitio 94.3 0.15 3.2E-06 35.6 5.6 50 215-274 1-53 (56)
34 KOG0153 Predicted RNA-binding 93.0 0.37 8E-06 47.4 7.7 68 198-276 229-302 (377)
35 KOG0144 RNA-binding protein CU 92.2 0.16 3.4E-06 51.2 4.1 52 195-252 122-177 (510)
36 PLN03213 repressor of silencin 91.1 0.74 1.6E-05 47.5 7.5 68 202-279 12-87 (759)
37 KOG0127 Nucleolar protein fibr 90.9 1.1 2.3E-05 46.7 8.5 78 198-281 293-379 (678)
38 KOG0117 Heterogeneous nuclear 90.3 0.6 1.3E-05 47.3 5.9 67 199-274 85-158 (506)
39 KOG0131 Splicing factor 3b, su 90.2 0.54 1.2E-05 42.8 5.1 73 195-278 7-87 (203)
40 KOG4212 RNA-binding protein hn 89.3 1.4 3E-05 44.9 7.7 81 188-275 35-119 (608)
41 KOG0144 RNA-binding protein CU 89.3 0.59 1.3E-05 47.3 5.0 57 202-260 36-96 (510)
42 KOG0114 Predicted RNA-binding 88.8 1.3 2.8E-05 37.3 5.9 56 191-252 12-69 (124)
43 KOG4207 Predicted splicing fac 88.5 1 2.2E-05 42.0 5.6 60 208-272 23-85 (256)
44 KOG0108 mRNA cleavage and poly 87.0 1.6 3.4E-05 44.1 6.4 65 201-272 19-90 (435)
45 KOG0129 Predicted RNA-binding 85.6 2.6 5.5E-05 43.4 7.1 61 193-256 366-429 (520)
46 KOG0105 Alternative splicing f 85.2 2.2 4.8E-05 39.2 5.8 61 195-261 4-66 (241)
47 KOG1457 RNA binding protein (c 84.3 3.3 7.3E-05 39.0 6.7 62 193-259 30-99 (284)
48 KOG4206 Spliceosomal protein s 81.7 6 0.00013 36.8 7.3 56 198-259 10-74 (221)
49 KOG0122 Translation initiation 79.4 3.4 7.3E-05 39.2 4.9 59 196-260 188-254 (270)
50 KOG4211 Splicing factor hnRNP- 79.3 5.7 0.00012 40.8 6.8 71 198-272 8-88 (510)
51 KOG0107 Alternative splicing f 79.1 4.7 0.0001 36.6 5.5 56 198-261 11-71 (195)
52 KOG0129 Predicted RNA-binding 79.0 4.8 0.0001 41.5 6.2 79 198-278 257-353 (520)
53 PF15513 DUF4651: Domain of un 77.6 4 8.6E-05 31.0 3.9 34 213-249 9-44 (62)
54 KOG0125 Ataxin 2-binding prote 76.2 12 0.00026 37.0 7.8 78 192-280 91-174 (376)
55 KOG0148 Apoptosis-promoting RN 76.1 11 0.00024 36.4 7.4 67 192-272 159-230 (321)
56 KOG0127 Nucleolar protein fibr 74.5 5 0.00011 42.0 5.0 74 198-278 6-83 (678)
57 KOG0121 Nuclear cap-binding pr 72.1 8 0.00017 33.8 4.9 56 196-257 35-95 (153)
58 KOG4211 Splicing factor hnRNP- 71.3 4.7 0.0001 41.4 3.9 61 206-272 109-174 (510)
59 TIGR03147 cyt_nit_nrfF cytochr 70.6 3.2 6.9E-05 35.4 2.2 21 210-234 74-94 (126)
60 KOG4454 RNA binding protein (R 69.6 3.2 6.9E-05 39.0 2.1 63 191-259 3-71 (267)
61 KOG0148 Apoptosis-promoting RN 69.0 18 0.00038 35.1 7.0 74 196-276 58-141 (321)
62 PF14605 Nup35_RRM_2: Nup53/35 67.2 20 0.00042 25.6 5.4 46 206-257 7-53 (53)
63 PRK10144 formate-dependent nit 66.1 4.5 9.7E-05 34.6 2.2 21 210-234 74-94 (126)
64 PF08777 RRM_3: RNA binding mo 65.7 6.6 0.00014 31.9 3.0 65 202-272 4-72 (105)
65 KOG0126 Predicted RNA-binding 64.9 2.5 5.5E-05 38.7 0.5 65 204-272 39-107 (219)
66 KOG0123 Polyadenylate-binding 64.8 15 0.00032 36.3 5.8 64 199-272 3-67 (369)
67 KOG2971 RNA-binding protein re 63.8 9.3 0.0002 36.6 4.0 64 192-279 147-212 (299)
68 PF05172 Nup35_RRM: Nup53/35/4 63.5 24 0.00053 28.7 5.9 54 207-262 13-76 (100)
69 PF03918 CcmH: Cytochrome C bi 62.8 4.8 0.0001 34.9 1.8 16 210-225 74-89 (148)
70 KOG0146 RNA-binding protein ET 61.8 9.9 0.00022 36.8 3.8 60 194-259 16-79 (371)
71 KOG0533 RRM motif-containing p 60.2 16 0.00034 34.4 4.9 55 195-253 79-137 (243)
72 KOG4208 Nucleolar RNA-binding 55.9 34 0.00074 31.7 6.1 48 203-252 52-104 (214)
73 PF10309 DUF2414: Protein of u 55.7 37 0.00081 25.6 5.3 46 206-258 11-60 (62)
74 KOG0123 Polyadenylate-binding 55.0 65 0.0014 31.8 8.4 70 203-281 79-154 (369)
75 PF15023 DUF4523: Protein of u 51.2 22 0.00047 31.6 3.9 55 218-281 109-166 (166)
76 KOG0147 Transcriptional coacti 48.5 24 0.00053 36.7 4.4 56 209-272 289-350 (549)
77 KOG0117 Heterogeneous nuclear 46.7 68 0.0015 33.1 7.1 60 192-256 159-224 (506)
78 KOG0145 RNA-binding protein EL 44.0 73 0.0016 31.0 6.5 61 193-258 36-101 (360)
79 KOG0111 Cyclophilin-type pepti 42.0 24 0.00053 33.4 3.0 54 193-252 6-64 (298)
80 KOG0106 Alternative splicing f 41.2 25 0.00055 32.5 3.0 48 203-258 4-53 (216)
81 KOG2202 U2 snRNP splicing fact 40.7 13 0.00029 35.3 1.1 55 214-274 84-142 (260)
82 PF10866 DUF2704: Protein of u 39.5 51 0.0011 29.5 4.4 37 16-60 54-90 (168)
83 KOG0124 Polypyrimidine tract-b 39.0 68 0.0015 32.5 5.7 82 193-278 203-288 (544)
84 KOG0131 Splicing factor 3b, su 32.7 55 0.0012 30.1 3.6 47 210-258 108-157 (203)
85 KOG0145 RNA-binding protein EL 32.3 59 0.0013 31.6 3.9 61 194-259 124-191 (360)
86 COG3088 CcmH Uncharacterized p 32.3 33 0.00071 30.4 2.1 20 210-233 78-97 (153)
87 PF11161 DUF2944: Protein of u 31.0 42 0.00091 30.6 2.6 21 205-225 42-62 (187)
88 cd00559 Cyanase_C Cyanase C-te 30.8 49 0.0011 25.7 2.6 44 213-272 20-64 (69)
89 COG5606 Uncharacterized conser 28.6 70 0.0015 26.0 3.2 37 47-85 27-64 (91)
90 TIGR02118 conserved hypothetic 25.8 2.3E+02 0.005 22.0 5.7 57 202-259 3-72 (100)
91 COG5132 BUD31 Cell cycle contr 24.7 1.2E+02 0.0027 26.1 4.2 56 22-94 50-107 (146)
92 PF14214 Helitron_like_N: Heli 24.2 1.8E+02 0.0039 25.1 5.3 25 222-247 158-183 (184)
93 PF08141 SspH: Small acid-solu 23.7 1.6E+02 0.0035 21.9 4.2 29 253-281 6-34 (58)
94 PF13797 Post_transc_reg: Post 22.5 68 0.0015 25.5 2.1 17 207-223 24-41 (87)
95 KOG4209 Splicing factor RNPS1, 22.3 1.6E+02 0.0034 27.4 4.8 62 193-258 97-161 (231)
96 cd08966 EcFpg-like_N N-termina 21.7 3.1E+02 0.0067 22.0 5.9 52 216-275 10-63 (120)
97 PF04059 RRM_2: RNA recognitio 21.6 3E+02 0.0064 22.3 5.7 52 206-258 7-63 (97)
98 COG1259 Uncharacterized conser 21.6 1.9E+02 0.0041 25.6 4.8 47 203-251 52-98 (151)
99 TIGR02861 SASP_H small acid-so 21.3 1.8E+02 0.0039 21.7 4.0 28 253-280 6-33 (58)
100 KOG0109 RNA-binding protein LA 21.0 2.6E+02 0.0056 27.7 6.0 67 201-280 3-74 (346)
101 PRK03174 sspH acid-soluble spo 20.9 1.8E+02 0.0038 21.9 3.9 28 253-280 6-33 (59)
No 1
>KOG4205 consensus RNA-binding protein musashi/mRNA cleavage and polyadenylation factor I complex, subunit HRP1 [RNA processing and modification]
Probab=98.07 E-value=5.3e-06 Score=79.42 Aligned_cols=78 Identities=23% Similarity=0.401 Sum_probs=67.9
Q ss_pred ceEEEEccCCcc--CCHHHHHHHHHhhhCCceeeEEEeec--CCCCCceEEEEecChHHHHHHhC-CCCeeeEEEcCcee
Q 048589 198 RTLFATFSKGHP--ITRAELFEFFTRRYGEGCVEDIKMGN--CRDQSLYARVIVRSPAFITLILG-ENELMQFNIHGKDV 272 (283)
Q Consensus 198 RT~FvTFS~G~P--vse~Ei~~fFt~~~G~~cve~v~m~~--~~~qplfariVf~s~~~vd~vL~-g~~~~kf~Ingk~i 272 (283)
+|+ ..|.+|.| ++++|+++||++ ||- ..+.+.|-+ ..+...||+|.|.+++.||.++. -.+ .+|||.+
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-FGK-VADVVIMYDKTTSRPRGFGFVTFDSEDSVDKVTLQKFH----DFNGKKV 168 (311)
T ss_pred cee-EEEecCcCCCCchHHHhhhhhc-cce-eEeeEEeecccccccccceeeEeccccccceeccccee----eecCcee
Confidence 455 66668999 999999999997 996 677778877 79999999999999999999998 344 8999999
Q ss_pred EEEecccCCC
Q 048589 273 RVRRFVPKRA 282 (283)
Q Consensus 273 WaRky~pk~~ 282 (283)
-+++++||..
T Consensus 169 evkrA~pk~~ 178 (311)
T KOG4205|consen 169 EVKRAIPKEV 178 (311)
T ss_pred eEeeccchhh
Confidence 9999999864
No 2
>KOG0149 consensus Predicted RNA-binding protein SEB4 (RRM superfamily) [General function prediction only]
Probab=97.96 E-value=2.7e-05 Score=72.05 Aligned_cols=71 Identities=24% Similarity=0.349 Sum_probs=60.3
Q ss_pred CceEEEEccCCcc--CCHHHHHHHHHhhhCCceeeEEEeec--CCCCCceEEEEecChHHHHHHhC-CCCeeeEEEcCce
Q 048589 197 DRTLFATFSKGHP--ITRAELFEFFTRRYGEGCVEDIKMGN--CRDQSLYARVIVRSPAFITLILG-ENELMQFNIHGKD 271 (283)
Q Consensus 197 ~RT~FvTFS~G~P--vse~Ei~~fFt~~~G~~cve~v~m~~--~~~qplfariVf~s~~~vd~vL~-g~~~~kf~Ingk~ 271 (283)
|-|.=+.|.+|.| -+.+++++||++ ||| .+|+|.+-| +++..+||+|+|+..+...+... -+. .|+||.
T Consensus 9 DT~~TKifVggL~w~T~~~~l~~yFeq-fGe-I~eavvitd~~t~rskGyGfVTf~d~~aa~rAc~dp~p----iIdGR~ 82 (247)
T KOG0149|consen 9 DTTFTKIFVGGLAWETHKETLRRYFEQ-FGE-IVEAVVITDKNTGRSKGYGFVTFRDAEAATRACKDPNP----IIDGRK 82 (247)
T ss_pred CceEEEEEEcCcccccchHHHHHHHHH-hCc-eEEEEEEeccCCccccceeeEEeecHHHHHHHhcCCCC----cccccc
Confidence 3355578999999 678899999997 999 999999998 89999999999999998777766 455 788887
Q ss_pred eE
Q 048589 272 VR 273 (283)
Q Consensus 272 iW 273 (283)
.=
T Consensus 83 aN 84 (247)
T KOG0149|consen 83 AN 84 (247)
T ss_pred cc
Confidence 53
No 3
>PLN03134 glycine-rich RNA-binding protein 4; Provisional
Probab=97.83 E-value=0.00014 Score=61.87 Aligned_cols=81 Identities=20% Similarity=0.225 Sum_probs=62.9
Q ss_pred CCCCCceEEEEccCCcc--CCHHHHHHHHHhhhCCceeeEEEeec---CCCCCceEEEEecChHHHHHHhCCCCeeeEEE
Q 048589 193 DADTDRTLFATFSKGHP--ITRAELFEFFTRRYGEGCVEDIKMGN---CRDQSLYARVIVRSPAFITLILGENELMQFNI 267 (283)
Q Consensus 193 ~~~d~RT~FvTFS~G~P--vse~Ei~~fFt~~~G~~cve~v~m~~---~~~qplfariVf~s~~~vd~vL~g~~~~kf~I 267 (283)
.....+++|| ++.| +||++|+++|.. ||+ |+++.|.. +++...||.|.|.+++.++.+|...+ ...|
T Consensus 30 ~~~~~~~lfV---gnL~~~~te~~L~~~F~~-~G~--I~~v~i~~d~~tg~~kGfaFV~F~~~e~A~~Al~~ln--g~~i 101 (144)
T PLN03134 30 LRLMSTKLFI---GGLSWGTDDASLRDAFAH-FGD--VVDAKVIVDRETGRSRGFGFVNFNDEGAATAAISEMD--GKEL 101 (144)
T ss_pred ccCCCCEEEE---eCCCCCCCHHHHHHHHhc-CCC--eEEEEEEecCCCCCcceEEEEEECCHHHHHHHHHHcC--CCEE
Confidence 3455678888 6888 999999999996 998 76766653 67889999999999999999886432 1278
Q ss_pred cCceeEEEecccCC
Q 048589 268 HGKDVRVRRFVPKR 281 (283)
Q Consensus 268 ngk~iWaRky~pk~ 281 (283)
+|+.+-+..-.+++
T Consensus 102 ~Gr~l~V~~a~~~~ 115 (144)
T PLN03134 102 NGRHIRVNPANDRP 115 (144)
T ss_pred CCEEEEEEeCCcCC
Confidence 99998766555443
No 4
>PLN03120 nucleic acid binding protein; Provisional
Probab=97.82 E-value=0.0001 Score=69.19 Aligned_cols=69 Identities=23% Similarity=0.276 Sum_probs=55.8
Q ss_pred CceEEEEccCCcc--CCHHHHHHHHHhhhCCceeeEEEeecCCCCCceEEEEecChHHHHHHhC--CCCeeeEEEcCcee
Q 048589 197 DRTLFATFSKGHP--ITRAELFEFFTRRYGEGCVEDIKMGNCRDQSLYARVIVRSPAFITLILG--ENELMQFNIHGKDV 272 (283)
Q Consensus 197 ~RT~FvTFS~G~P--vse~Ei~~fFt~~~G~~cve~v~m~~~~~qplfariVf~s~~~vd~vL~--g~~~~kf~Ingk~i 272 (283)
-||+|| +|.| ++|+||++||.. ||+ |++|.|...++...||+|.|.+++..+..|. |. .|+|+.+
T Consensus 4 ~rtVfV---gNLs~~tTE~dLrefFS~-~G~--I~~V~I~~d~~~~GfAFVtF~d~eaAe~AllLnG~-----~l~gr~V 72 (260)
T PLN03120 4 VRTVKV---SNVSLKATERDIKEFFSF-SGD--IEYVEMQSENERSQIAYVTFKDPQGAETALLLSGA-----TIVDQSV 72 (260)
T ss_pred CCEEEE---eCCCCCCCHHHHHHHHHh-cCC--eEEEEEeecCCCCCEEEEEeCcHHHHHHHHHhcCC-----eeCCceE
Confidence 578888 8888 999999999986 998 9999997745567899999999888666554 42 6889988
Q ss_pred EEEe
Q 048589 273 RVRR 276 (283)
Q Consensus 273 WaRk 276 (283)
-+..
T Consensus 73 ~Vt~ 76 (260)
T PLN03120 73 TITP 76 (260)
T ss_pred EEEe
Confidence 5443
No 5
>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=97.81 E-value=3.3e-05 Score=56.00 Aligned_cols=62 Identities=24% Similarity=0.315 Sum_probs=50.7
Q ss_pred CCcc--CCHHHHHHHHHhhhCCceeeEEEeec--CCCCCceEEEEecChHHHHHHhCCCCeeeEEEcCcee
Q 048589 206 KGHP--ITRAELFEFFTRRYGEGCVEDIKMGN--CRDQSLYARVIVRSPAFITLILGENELMQFNIHGKDV 272 (283)
Q Consensus 206 ~G~P--vse~Ei~~fFt~~~G~~cve~v~m~~--~~~qplfariVf~s~~~vd~vL~g~~~~kf~Ingk~i 272 (283)
+|.| ++++||+++|.+ ||+ |+.|.|.. .++...+|.|.|.|++...+++.-.+ +..++||++
T Consensus 4 ~nlp~~~~~~~l~~~f~~-~g~--v~~v~~~~~~~~~~~~~a~v~f~~~~~a~~al~~~~--~~~~~g~~l 69 (70)
T PF14259_consen 4 SNLPPSTTEEDLRNFFSR-FGP--VEKVRLIKNKDGQSRGFAFVEFSSEEDAKRALELLN--GKEIDGRKL 69 (70)
T ss_dssp ESSTTT--HHHHHHHCTT-SSB--EEEEEEEESTTSSEEEEEEEEESSHHHHHHHHHHHT--TEEETTEEE
T ss_pred eCCCCCCCHHHHHHHHHh-cCC--cceEEEEeeeccccCCEEEEEeCCHHHHHHHHHHCC--CcEECCEEc
Confidence 6778 999999999998 887 88999887 35678999999999999999988433 458899987
No 6
>smart00362 RRM_2 RNA recognition motif.
Probab=97.71 E-value=0.00027 Score=48.82 Aligned_cols=64 Identities=22% Similarity=0.342 Sum_probs=49.1
Q ss_pred CCcc--CCHHHHHHHHHhhhCCceeeEEEeec-CCCCCceEEEEecChHHHHHHhCCCCeeeEEEcCceeEE
Q 048589 206 KGHP--ITRAELFEFFTRRYGEGCVEDIKMGN-CRDQSLYARVIVRSPAFITLILGENELMQFNIHGKDVRV 274 (283)
Q Consensus 206 ~G~P--vse~Ei~~fFt~~~G~~cve~v~m~~-~~~qplfariVf~s~~~vd~vL~g~~~~kf~Ingk~iWa 274 (283)
+|.| .+++||+++|.+ ||+ +..+.|.. .+....||.|.|.+.+..+.++...+. ..|+|+++=+
T Consensus 5 ~~l~~~~~~~~l~~~~~~-~g~--v~~~~~~~~~~~~~~~~~v~f~~~~~a~~a~~~~~~--~~~~~~~i~v 71 (72)
T smart00362 5 GNLPPDVTEEDLKELFSK-FGP--IESVKIPKDTGKSKGFAFVEFESEEDAEKAIEALNG--TKLGGRPLRV 71 (72)
T ss_pred cCCCCcCCHHHHHHHHHh-cCC--EEEEEEecCCCCCCceEEEEeCCHHHHHHHHHHhCC--cEECCEEEee
Confidence 6777 899999999985 998 55666654 455678999999999998888764433 3568887644
No 7
>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=97.69 E-value=8.4e-05 Score=52.78 Aligned_cols=63 Identities=29% Similarity=0.386 Sum_probs=49.5
Q ss_pred cCCcc--CCHHHHHHHHHhhhCCceeeEEEeec--CCCCCceEEEEecChHHHHHHhCCCCeeeEEEcCcee
Q 048589 205 SKGHP--ITRAELFEFFTRRYGEGCVEDIKMGN--CRDQSLYARVIVRSPAFITLILGENELMQFNIHGKDV 272 (283)
Q Consensus 205 S~G~P--vse~Ei~~fFt~~~G~~cve~v~m~~--~~~qplfariVf~s~~~vd~vL~g~~~~kf~Ingk~i 272 (283)
.+|.| ++++||+++|.+ ||+ |+.+.|.. .+....||.|.|.+.+..+.++..-+. ..++|+.+
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-FGK--IESIKVMRNSSGKSKGYAFVEFESEEDAEKALEELNG--KKINGRKI 69 (70)
T ss_dssp EESETTTSSHHHHHHHHHT-TST--EEEEEEEEETTSSEEEEEEEEESSHHHHHHHHHHHTT--EEETTEEE
T ss_pred EcCCCCcCCHHHHHHHHHH-hhh--cccccccccccccccceEEEEEcCHHHHHHHHHHcCC--CEECccCc
Confidence 37888 999999999998 999 55665554 788899999999999998888772221 36777654
No 8
>smart00360 RRM RNA recognition motif.
Probab=97.63 E-value=0.0003 Score=48.28 Aligned_cols=63 Identities=22% Similarity=0.373 Sum_probs=48.4
Q ss_pred Ccc--CCHHHHHHHHHhhhCCceeeEEEeec---CCCCCceEEEEecChHHHHHHhCCCCeeeEEEcCceeEE
Q 048589 207 GHP--ITRAELFEFFTRRYGEGCVEDIKMGN---CRDQSLYARVIVRSPAFITLILGENELMQFNIHGKDVRV 274 (283)
Q Consensus 207 G~P--vse~Ei~~fFt~~~G~~cve~v~m~~---~~~qplfariVf~s~~~vd~vL~g~~~~kf~Ingk~iWa 274 (283)
|.| ++++||+++|.+ ||+ |+.+.+.. +++...||.|.|.+.+....++...+ ...++|+++=+
T Consensus 3 ~l~~~~~~~~l~~~f~~-~g~--v~~~~i~~~~~~~~~~~~a~v~f~~~~~a~~a~~~~~--~~~~~~~~~~v 70 (71)
T smart00360 3 NLPPDVTEEELRELFSK-FGK--IESVRLVRDKDTGKSKGFAFVEFESEEDAEKALEALN--GKELDGRPLKV 70 (71)
T ss_pred CCCcccCHHHHHHHHHh-hCC--EeEEEEEeCCCCCCCCceEEEEeCCHHHHHHHHHHcC--CCeeCCcEEEe
Confidence 445 899999999985 998 66677665 35667799999999999998887554 33558887643
No 9
>KOG4205 consensus RNA-binding protein musashi/mRNA cleavage and polyadenylation factor I complex, subunit HRP1 [RNA processing and modification]
Probab=97.62 E-value=7.1e-05 Score=71.74 Aligned_cols=77 Identities=22% Similarity=0.425 Sum_probs=69.5
Q ss_pred CCceEEEEccCCcc--CCHHHHHHHHHhhhCCceeeEEEeec--CCCCCceEEEEecChHHHHHHhCC-CCeeeEEEcCc
Q 048589 196 TDRTLFATFSKGHP--ITRAELFEFFTRRYGEGCVEDIKMGN--CRDQSLYARVIVRSPAFITLILGE-NELMQFNIHGK 270 (283)
Q Consensus 196 d~RT~FvTFS~G~P--vse~Ei~~fFt~~~G~~cve~v~m~~--~~~qplfariVf~s~~~vd~vL~g-~~~~kf~Ingk 270 (283)
|...+|+ .|.. .+++.+++||+ +||+ .+|.+.|.+ +++.+.||+|.|.++.-++++|+- .+ .|.||
T Consensus 5 ~~~Klfi---Ggisw~ttee~Lr~yf~-~~Ge-v~d~~vm~d~~t~rsrgFgfv~f~~~~~v~~vl~~~~h----~~dgr 75 (311)
T KOG4205|consen 5 ESGKLFI---GGLSWETTEESLREYFS-QFGE-VTDCVVMRDPSTGRSRGFGFVTFATPEGVDAVLNARTH----KLDGR 75 (311)
T ss_pred CCcceee---cCcCccccHHHHHHHhc-ccCc-eeeEEEeccCCCCCcccccceecCCCcchheeeccccc----ccCCc
Confidence 6678888 8888 99999999995 5999 999999998 899999999999999999999995 44 89999
Q ss_pred eeEEEecccCC
Q 048589 271 DVRVRRFVPKR 281 (283)
Q Consensus 271 ~iWaRky~pk~ 281 (283)
.|-..+-+|+.
T Consensus 76 ~ve~k~av~r~ 86 (311)
T KOG4205|consen 76 SVEPKRAVSRE 86 (311)
T ss_pred cccceeccCcc
Confidence 99999999875
No 10
>KOG0113 consensus U1 small nuclear ribonucleoprotein (RRM superfamily) [RNA processing and modification]
Probab=97.58 E-value=0.00032 Score=67.11 Aligned_cols=76 Identities=18% Similarity=0.277 Sum_probs=61.9
Q ss_pred CCCCCCceEEEEccC-CccCCHHHHHHHHHhhhCCceeeEEEeec---CCCCCceEEEEecChHHHHHHhCCCCeeeEEE
Q 048589 192 NDADTDRTLFATFSK-GHPITRAELFEFFTRRYGEGCVEDIKMGN---CRDQSLYARVIVRSPAFITLILGENELMQFNI 267 (283)
Q Consensus 192 ~~~~d~RT~FvTFS~-G~Pvse~Ei~~fFt~~~G~~cve~v~m~~---~~~qplfariVf~s~~~vd~vL~g~~~~kf~I 267 (283)
..-+-.+||||. + .|-.+|++|+..|++ ||+ |++|.|=. ++.+.+||+|+|..+..+...-- +..=..|
T Consensus 96 a~gDPy~TLFv~--RLnydT~EskLrreF~~-YG~--IkrirlV~d~vTgkskGYAFIeye~erdm~~AYK--~adG~~I 168 (335)
T KOG0113|consen 96 AIGDPYKTLFVA--RLNYDTSESKLRREFEK-YGP--IKRIRLVRDKVTGKSKGYAFIEYEHERDMKAAYK--DADGIKI 168 (335)
T ss_pred ccCCccceeeee--eccccccHHHHHHHHHh-cCc--ceeEEEeeecccCCccceEEEEeccHHHHHHHHH--hccCcee
Confidence 455789999983 4 688999999999997 999 99998875 89999999999999988765554 3334579
Q ss_pred cCceeEE
Q 048589 268 HGKDVRV 274 (283)
Q Consensus 268 ngk~iWa 274 (283)
+|+.|-+
T Consensus 169 dgrri~V 175 (335)
T KOG0113|consen 169 DGRRILV 175 (335)
T ss_pred cCcEEEE
Confidence 9998743
No 11
>TIGR01661 ELAV_HUD_SF ELAV/HuD family splicing factor. These proteins contain 3 RNA-recognition motifs (rrm: pfam00076).
Probab=97.58 E-value=0.0005 Score=64.15 Aligned_cols=77 Identities=21% Similarity=0.276 Sum_probs=58.6
Q ss_pred CceEEEEccCCcc--CCHHHHHHHHHhhhCCceeeEEEe-ec--CCCCCceEEEEecChHHHHHHhCCCCeeeEEEcCce
Q 048589 197 DRTLFATFSKGHP--ITRAELFEFFTRRYGEGCVEDIKM-GN--CRDQSLYARVIVRSPAFITLILGENELMQFNIHGKD 271 (283)
Q Consensus 197 ~RT~FvTFS~G~P--vse~Ei~~fFt~~~G~~cve~v~m-~~--~~~qplfariVf~s~~~vd~vL~g~~~~kf~Ingk~ 271 (283)
..++|| ++.| ++|+||+++|.+ ||+ |.+|.+ .+ .++..+||+|-|.+.+..+..|..-+. ..|.||.
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~~ 74 (352)
T TIGR01661 3 KTNLIV---NYLPQTMTQEEIRSLFTS-IGE--IESCKLVRDKVTGQSLGYGFVNYVRPEDAEKAVNSLNG--LRLQNKT 74 (352)
T ss_pred CcEEEE---eCCCCCCCHHHHHHHHHc-cCC--EEEEEEEEcCCCCccceEEEEEECcHHHHHHHHhhccc--EEECCee
Confidence 457777 9999 999999999998 999 455444 33 688899999999999998887764332 4678888
Q ss_pred eEEEecccCC
Q 048589 272 VRVRRFVPKR 281 (283)
Q Consensus 272 iWaRky~pk~ 281 (283)
+=++...|+.
T Consensus 75 i~v~~a~~~~ 84 (352)
T TIGR01661 75 IKVSYARPSS 84 (352)
T ss_pred EEEEeecccc
Confidence 8666555543
No 12
>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=97.47 E-value=0.00098 Score=46.17 Aligned_cols=65 Identities=22% Similarity=0.328 Sum_probs=50.9
Q ss_pred CCcc--CCHHHHHHHHHhhhCCceeeEEEeec--CCCCCceEEEEecChHHHHHHhCCCCeeeEEEcCceeEEE
Q 048589 206 KGHP--ITRAELFEFFTRRYGEGCVEDIKMGN--CRDQSLYARVIVRSPAFITLILGENELMQFNIHGKDVRVR 275 (283)
Q Consensus 206 ~G~P--vse~Ei~~fFt~~~G~~cve~v~m~~--~~~qplfariVf~s~~~vd~vL~g~~~~kf~Ingk~iWaR 275 (283)
+|.| ++++||+++|.+ ||+ |+.+.|.. .+....+|.|.|++.+....++...+.. .++|+++=++
T Consensus 5 ~~l~~~~~~~~i~~~~~~-~g~--i~~~~~~~~~~~~~~~~~~v~f~s~~~a~~a~~~~~~~--~~~~~~~~v~ 73 (74)
T cd00590 5 GNLPPDVTEEDLRELFSK-FGK--VESVRIVRDKDTKSKGFAFVEFEDEEDAEKALEALNGK--ELGGRPLRVE 73 (74)
T ss_pred eCCCCccCHHHHHHHHHh-cCC--EEEEEEeeCCCCCcceEEEEEECCHHHHHHHHHHhCCC--eECCeEEEEe
Confidence 6777 799999999998 798 78888876 2345789999999999988888744432 2788887554
No 13
>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=97.35 E-value=0.00073 Score=70.06 Aligned_cols=78 Identities=13% Similarity=0.260 Sum_probs=63.4
Q ss_pred CCceEEEEccCCcc--CCHHHHHHHHHhhhCCceeeEEEee-c--CCCCCceEEEEecChHHHHHHhCCCCeeeEEEcCc
Q 048589 196 TDRTLFATFSKGHP--ITRAELFEFFTRRYGEGCVEDIKMG-N--CRDQSLYARVIVRSPAFITLILGENELMQFNIHGK 270 (283)
Q Consensus 196 d~RT~FvTFS~G~P--vse~Ei~~fFt~~~G~~cve~v~m~-~--~~~qplfariVf~s~~~vd~vL~g~~~~kf~Ingk 270 (283)
..+++|| +|.| +++++|+++|.+ ||+ |+.+.+. + +++..+||+|.|.+.+.....+...+ .+.|+|+
T Consensus 203 ~~~rLfV---gnLp~~vteedLk~lFs~-FG~--I~svrl~~D~~tgksKGfGFVeFe~~e~A~kAI~amN--g~elgGr 274 (612)
T TIGR01645 203 KFNRIYV---ASVHPDLSETDIKSVFEA-FGE--IVKCQLARAPTGRGHKGYGFIEYNNLQSQSEAIASMN--LFDLGGQ 274 (612)
T ss_pred ccceEEe---ecCCCCCCHHHHHHHHhh-cCC--eeEEEEEecCCCCCcCCeEEEEECCHHHHHHHHHHhC--CCeeCCe
Confidence 3467766 8988 999999999996 999 5555554 3 57789999999999999888887544 4589999
Q ss_pred eeEEEecccCC
Q 048589 271 DVRVRRFVPKR 281 (283)
Q Consensus 271 ~iWaRky~pk~ 281 (283)
.+-+.+.++++
T Consensus 275 ~LrV~kAi~pP 285 (612)
T TIGR01645 275 YLRVGKCVTPP 285 (612)
T ss_pred EEEEEecCCCc
Confidence 99999988654
No 14
>TIGR01661 ELAV_HUD_SF ELAV/HuD family splicing factor. These proteins contain 3 RNA-recognition motifs (rrm: pfam00076).
Probab=97.34 E-value=0.0011 Score=61.83 Aligned_cols=78 Identities=13% Similarity=0.178 Sum_probs=58.4
Q ss_pred CceEEEEccCCcc--CCHHHHHHHHHhhhCCceeeEEEee-c--CCCCCceEEEEecChHHHHHHhCCCCeeeEEEcCce
Q 048589 197 DRTLFATFSKGHP--ITRAELFEFFTRRYGEGCVEDIKMG-N--CRDQSLYARVIVRSPAFITLILGENELMQFNIHGKD 271 (283)
Q Consensus 197 ~RT~FvTFS~G~P--vse~Ei~~fFt~~~G~~cve~v~m~-~--~~~qplfariVf~s~~~vd~vL~g~~~~kf~Ingk~ 271 (283)
.+++|| ++.| .++++|+++|.. ||+ |+++.+- + +++..+||+|.|.+++.....+..-+- +.++||.
T Consensus 269 ~~~lfV---~NL~~~~~e~~L~~~F~~-fG~--v~~v~i~~d~~t~~skG~aFV~F~~~~~A~~Ai~~lnG--~~~~gr~ 340 (352)
T TIGR01661 269 GYCIFV---YNLSPDTDETVLWQLFGP-FGA--VQNVKIIRDLTTNQCKGYGFVSMTNYDEAAMAILSLNG--YTLGNRV 340 (352)
T ss_pred CcEEEE---eCCCCCCCHHHHHHHHHh-CCC--eEEEEEeEcCCCCCccceEEEEECCHHHHHHHHHHhCC--CEECCeE
Confidence 446776 8888 999999999996 998 5556554 3 788999999999998875555432111 2589999
Q ss_pred eEEEecccCCC
Q 048589 272 VRVRRFVPKRA 282 (283)
Q Consensus 272 iWaRky~pk~~ 282 (283)
+-+.-..+|.+
T Consensus 341 i~V~~~~~~~~ 351 (352)
T TIGR01661 341 LQVSFKTNKAY 351 (352)
T ss_pred EEEEEccCCCC
Confidence 98887776653
No 15
>PLN03121 nucleic acid binding protein; Provisional
Probab=97.24 E-value=0.0023 Score=59.69 Aligned_cols=70 Identities=17% Similarity=0.270 Sum_probs=55.8
Q ss_pred CCceEEEEccCCcc--CCHHHHHHHHHhhhCCceeeEEEeecCCCCCceEEEEecChHHHHHH--hCCCCeeeEEEcCce
Q 048589 196 TDRTLFATFSKGHP--ITRAELFEFFTRRYGEGCVEDIKMGNCRDQSLYARVIVRSPAFITLI--LGENELMQFNIHGKD 271 (283)
Q Consensus 196 d~RT~FvTFS~G~P--vse~Ei~~fFt~~~G~~cve~v~m~~~~~qplfariVf~s~~~vd~v--L~g~~~~kf~Ingk~ 271 (283)
+-.|+|| .+.+ .||+||++||.. ||+ |++|.|...++...||.|.|+.++.++.. |+|. .|.|+.
T Consensus 4 ~g~TV~V---~NLS~~tTE~dLrefFS~-~G~--I~~V~I~~D~et~gfAfVtF~d~~aaetAllLnGa-----~l~d~~ 72 (243)
T PLN03121 4 GGYTAEV---TNLSPKATEKDVYDFFSH-CGA--IEHVEIIRSGEYACTAYVTFKDAYALETAVLLSGA-----TIVDQR 72 (243)
T ss_pred CceEEEE---ecCCCCCCHHHHHHHHHh-cCC--eEEEEEecCCCcceEEEEEECCHHHHHHHHhcCCC-----eeCCce
Confidence 3467776 6666 999999999997 999 99999998777788999999998886544 5574 467777
Q ss_pred eEEEe
Q 048589 272 VRVRR 276 (283)
Q Consensus 272 iWaRk 276 (283)
|.+-.
T Consensus 73 I~It~ 77 (243)
T PLN03121 73 VCITR 77 (243)
T ss_pred EEEEe
Confidence 76655
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=97.24 E-value=0.0014 Score=63.61 Aligned_cols=72 Identities=18% Similarity=0.301 Sum_probs=56.4
Q ss_pred CCceEEEEccCCcc--CCHHHHHHHHHhhhCCceeeEEEeec---CCCCCceEEEEecChHHHHHHhCCCCeeeEEEcCc
Q 048589 196 TDRTLFATFSKGHP--ITRAELFEFFTRRYGEGCVEDIKMGN---CRDQSLYARVIVRSPAFITLILGENELMQFNIHGK 270 (283)
Q Consensus 196 d~RT~FvTFS~G~P--vse~Ei~~fFt~~~G~~cve~v~m~~---~~~qplfariVf~s~~~vd~vL~g~~~~kf~Ingk 270 (283)
..+|+|| +|.| +++++|+++|.. ||. |+.|.+.. +++...||.|.|.+.+.....+..-+. +.|+|+
T Consensus 185 ~~~~l~v---~nl~~~~te~~l~~~f~~-~G~--i~~v~~~~d~~~g~~~g~afV~f~~~e~A~~A~~~l~g--~~i~g~ 256 (457)
T TIGR01622 185 NFLKLYV---GNLHFNITEQELRQIFEP-FGD--IEDVQLHRDPETGRSKGFGFIQFHDAEEAKEALEVMNG--FELAGR 256 (457)
T ss_pred CCCEEEE---cCCCCCCCHHHHHHHHHh-cCC--eEEEEEEEcCCCCccceEEEEEECCHHHHHHHHHhcCC--cEECCE
Confidence 3789988 8888 999999999985 998 67776654 567889999999999987776543322 578998
Q ss_pred eeEEE
Q 048589 271 DVRVR 275 (283)
Q Consensus 271 ~iWaR 275 (283)
.+=+.
T Consensus 257 ~i~v~ 261 (457)
T TIGR01622 257 PIKVG 261 (457)
T ss_pred EEEEE
Confidence 87443
No 17
>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=97.21 E-value=0.0015 Score=63.26 Aligned_cols=77 Identities=19% Similarity=0.159 Sum_probs=56.6
Q ss_pred CCCCCceEEEEccCCcc--CCHHHHHHHHHhhhCCceeeEEEeec--CCCCCceEEEEecChHHHHHHhCCCCeeeEEEc
Q 048589 193 DADTDRTLFATFSKGHP--ITRAELFEFFTRRYGEGCVEDIKMGN--CRDQSLYARVIVRSPAFITLILGENELMQFNIH 268 (283)
Q Consensus 193 ~~~d~RT~FvTFS~G~P--vse~Ei~~fFt~~~G~~cve~v~m~~--~~~qplfariVf~s~~~vd~vL~g~~~~kf~In 268 (283)
...+.++||| ++.| ++|+||+++|.. ||+ +++...|.+ +++...||+|.|.+++.....+..-+. ..+.
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-IGP-INTCRIMRDYKTGYSFGYAFVDFGSEADSQRAIKNLNG--ITVR 175 (346)
T ss_pred CCCCCcEEEE---eCCCCCCCHHHHHHHHHh-cCC-EEEEEEEecCCCCccCcEEEEEEccHHHHHHHHHHcCC--CccC
Confidence 4457789988 8888 999999999996 999 444444444 678889999999999887766642211 2457
Q ss_pred CceeEEEe
Q 048589 269 GKDVRVRR 276 (283)
Q Consensus 269 gk~iWaRk 276 (283)
||.+.+..
T Consensus 176 gr~i~V~~ 183 (346)
T TIGR01659 176 NKRLKVSY 183 (346)
T ss_pred Cceeeeec
Confidence 77776654
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=97.12 E-value=0.0023 Score=62.17 Aligned_cols=75 Identities=23% Similarity=0.307 Sum_probs=58.5
Q ss_pred CCCCCceEEEEccCCcc--CCHHHHHHHHHhhhCCceeeEEEeec---CCCCCceEEEEecChHHHHHHhCCCCeeeEEE
Q 048589 193 DADTDRTLFATFSKGHP--ITRAELFEFFTRRYGEGCVEDIKMGN---CRDQSLYARVIVRSPAFITLILGENELMQFNI 267 (283)
Q Consensus 193 ~~~d~RT~FvTFS~G~P--vse~Ei~~fFt~~~G~~cve~v~m~~---~~~qplfariVf~s~~~vd~vL~g~~~~kf~I 267 (283)
...+.||+|| ++.| +++++|++||.. ||. |+.|.|-. ++...+||+|.|.+.+.....|.-. ...+
T Consensus 85 ~~~~~~~l~V---~nlp~~~~~~~l~~~F~~-~G~--v~~v~i~~d~~~~~skg~afVeF~~~e~A~~Al~l~---g~~~ 155 (457)
T TIGR01622 85 AERDDRTVFV---LQLALKARERDLYEFFSK-VGK--VRDVQCIKDRNSRRSKGVAYVEFYDVESVIKALALT---GQML 155 (457)
T ss_pred cccCCcEEEE---eCCCCCCCHHHHHHHHHh-cCC--eeEEEEeecCCCCCcceEEEEEECCHHHHHHHHHhC---CCEE
Confidence 4456889988 7888 999999999987 997 55565543 6788999999999999988887521 2357
Q ss_pred cCceeEEEe
Q 048589 268 HGKDVRVRR 276 (283)
Q Consensus 268 ngk~iWaRk 276 (283)
.|+.+.++.
T Consensus 156 ~g~~i~v~~ 164 (457)
T TIGR01622 156 LGRPIIVQS 164 (457)
T ss_pred CCeeeEEee
Confidence 788887654
No 19
>COG0724 RNA-binding proteins (RRM domain) [General function prediction only]
Probab=97.12 E-value=0.0029 Score=53.38 Aligned_cols=74 Identities=23% Similarity=0.382 Sum_probs=60.9
Q ss_pred CceEEEEccCCcc--CCHHHHHHHHHhhhCCceeeEEEeec---CCCCCceEEEEecChHHHHHHhCCCCeeeEEEcCce
Q 048589 197 DRTLFATFSKGHP--ITRAELFEFFTRRYGEGCVEDIKMGN---CRDQSLYARVIVRSPAFITLILGENELMQFNIHGKD 271 (283)
Q Consensus 197 ~RT~FvTFS~G~P--vse~Ei~~fFt~~~G~~cve~v~m~~---~~~qplfariVf~s~~~vd~vL~g~~~~kf~Ingk~ 271 (283)
.+|+|| ++.| ++++||+++|.. ||. |.++.|.. .+...+||.|.|.+++....++.... ...++|+.
T Consensus 115 ~~~l~v---~nL~~~~~~~~l~~~F~~-~g~--~~~~~~~~d~~~~~~~g~~~v~f~~~~~~~~a~~~~~--~~~~~~~~ 186 (306)
T COG0724 115 NNTLFV---GNLPYDVTEEDLRELFKK-FGP--VKRVRLVRDRETGKSRGFAFVEFESEESAEKAIEELN--GKELEGRP 186 (306)
T ss_pred CceEEE---eCCCCCCCHHHHHHHHHh-cCc--eeEEEeeeccccCccCceEEEEecCHHHHHHHHHHcC--CCeECCce
Confidence 688887 8888 999999999997 998 56666654 68999999999999998777776433 45899999
Q ss_pred eEEEecc
Q 048589 272 VRVRRFV 278 (283)
Q Consensus 272 iWaRky~ 278 (283)
+.++...
T Consensus 187 ~~v~~~~ 193 (306)
T COG0724 187 LRVQKAQ 193 (306)
T ss_pred eEeeccc
Confidence 9888843
No 20
>TIGR01649 hnRNP-L_PTB hnRNP-L/PTB/hephaestus splicing factor family. Included in this family of heterogeneous ribonucleoproteins are PTB (polypyrimidine tract binding protein ) and hnRNP-L. These proteins contain four RNA recognition motifs (rrm: pfam00067).
Probab=97.06 E-value=0.0021 Score=64.07 Aligned_cols=75 Identities=15% Similarity=0.142 Sum_probs=58.8
Q ss_pred CceEEEEccCCcc--CCHHHHHHHHHhhhCCceeeEEEeecCCCCCceEEEEecChHHHHHHhCCCCeeeEEEcCceeEE
Q 048589 197 DRTLFATFSKGHP--ITRAELFEFFTRRYGEGCVEDIKMGNCRDQSLYARVIVRSPAFITLILGENELMQFNIHGKDVRV 274 (283)
Q Consensus 197 ~RT~FvTFS~G~P--vse~Ei~~fFt~~~G~~cve~v~m~~~~~qplfariVf~s~~~vd~vL~g~~~~kf~Ingk~iWa 274 (283)
.|++|| ++.| ++|+||+++|.. ||. |+++.|-. ...||.|-|.+++..+.+++........|+|+.+++
T Consensus 2 s~vv~V---~nLp~~~te~~L~~~f~~-fG~--V~~v~i~~---~k~~afVef~~~e~A~~Ai~~~~~~~~~l~g~~l~v 72 (481)
T TIGR01649 2 SPVVHV---RNLPQDVVEADLVEALIP-FGP--VSYVMMLP---GKRQALVEFEDEESAKACVNFATSVPIYIRGQPAFF 72 (481)
T ss_pred ccEEEE---cCCCCCCCHHHHHHHHHh-cCC--eeEEEEEC---CCCEEEEEeCchHHHHHHHHHhhcCCceEcCeEEEE
Confidence 477877 9999 999999999997 999 66665533 346999999999998888864333356899999998
Q ss_pred EecccC
Q 048589 275 RRFVPK 280 (283)
Q Consensus 275 Rky~pk 280 (283)
+...++
T Consensus 73 ~~s~~~ 78 (481)
T TIGR01649 73 NYSTSQ 78 (481)
T ss_pred EecCCc
Confidence 766543
No 21
>TIGR01628 PABP-1234 polyadenylate binding protein, human types 1, 2, 3, 4 family. There are four paralogs in Homo sapiens which are expressed in testis, platelets, broadly expressed, or of unknown tissue range.
Probab=96.97 E-value=0.0031 Score=63.37 Aligned_cols=78 Identities=21% Similarity=0.149 Sum_probs=60.0
Q ss_pred CCceEEEEccCCcc--CCHHHHHHHHHhhhCCceeeEEEeec-CCCCCceEEEEecChHHHHHHhCCCCeeeEEEcCcee
Q 048589 196 TDRTLFATFSKGHP--ITRAELFEFFTRRYGEGCVEDIKMGN-CRDQSLYARVIVRSPAFITLILGENELMQFNIHGKDV 272 (283)
Q Consensus 196 d~RT~FvTFS~G~P--vse~Ei~~fFt~~~G~~cve~v~m~~-~~~qplfariVf~s~~~vd~vL~g~~~~kf~Ingk~i 272 (283)
...++|| +|.| ++++|++++|.+ ||. +.+.-.|.+ .+...+||+|.|.+.+....++...+. ..++||.+
T Consensus 284 ~~~~l~V---~nl~~~~~~~~L~~~F~~-~G~-i~~~~i~~d~~g~~~g~gfV~f~~~~~A~~A~~~~~g--~~~~gk~l 356 (562)
T TIGR01628 284 QGVNLYV---KNLDDTVTDEKLRELFSE-CGE-ITSAKVMLDEKGVSRGFGFVCFSNPEEANRAVTEMHG--RMLGGKPL 356 (562)
T ss_pred CCCEEEE---eCCCCccCHHHHHHHHHh-cCC-eEEEEEEECCCCCcCCeEEEEeCCHHHHHHHHHHhcC--CeeCCcee
Confidence 3456776 7877 999999999996 998 555556655 688899999999999998887753322 47899999
Q ss_pred EEEecccC
Q 048589 273 RVRRFVPK 280 (283)
Q Consensus 273 WaRky~pk 280 (283)
-+....+|
T Consensus 357 ~V~~a~~k 364 (562)
T TIGR01628 357 YVALAQRK 364 (562)
T ss_pred EEEeccCc
Confidence 77665554
No 22
>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=96.91 E-value=0.0038 Score=60.47 Aligned_cols=75 Identities=19% Similarity=0.183 Sum_probs=52.6
Q ss_pred CCceEEEEccCCcc--CCHHHHHHHHHhhhCCceeeEEEeec--CCCCCceEEEEecChHHHHHHhCCCCeeeEEEcCce
Q 048589 196 TDRTLFATFSKGHP--ITRAELFEFFTRRYGEGCVEDIKMGN--CRDQSLYARVIVRSPAFITLILGENELMQFNIHGKD 271 (283)
Q Consensus 196 d~RT~FvTFS~G~P--vse~Ei~~fFt~~~G~~cve~v~m~~--~~~qplfariVf~s~~~vd~vL~g~~~~kf~Ingk~ 271 (283)
.+.++|| .+.| ++++||+++|.+ ||+ +++...+.+ .++...||.|.|.+.+..+..+..-+...+...++.
T Consensus 192 ~~~~lfV---~nLp~~vtee~L~~~F~~-fG~-V~~v~i~~d~~tg~~kG~aFV~F~~~e~A~~Ai~~lng~~~~g~~~~ 266 (346)
T TIGR01659 192 KDTNLYV---TNLPRTITDDQLDTIFGK-YGQ-IVQKNILRDKLTGTPRGVAFVRFNKREEAQEAISALNNVIPEGGSQP 266 (346)
T ss_pred ccceeEE---eCCCCcccHHHHHHHHHh-cCC-EEEEEEeecCCCCccceEEEEEECCHHHHHHHHHHhCCCccCCCcee
Confidence 3567877 7888 999999999975 998 544444434 677889999999999887777664443333333345
Q ss_pred eEEE
Q 048589 272 VRVR 275 (283)
Q Consensus 272 iWaR 275 (283)
+=++
T Consensus 267 l~V~ 270 (346)
T TIGR01659 267 LTVR 270 (346)
T ss_pred EEEE
Confidence 5444
No 23
>TIGR01642 U2AF_lg U2 snRNP auxilliary factor, large subunit, splicing factor. Members of this subfamily are found in plants, metazoa and fungi.
Probab=96.88 E-value=0.0072 Score=59.47 Aligned_cols=77 Identities=12% Similarity=0.232 Sum_probs=57.6
Q ss_pred CCCCCceEEEEccCCcc--CCHHHHHHHHHhhhCCceeeEEEeec---CCCCCceEEEEecChHHHHHHhCCCCeeeEEE
Q 048589 193 DADTDRTLFATFSKGHP--ITRAELFEFFTRRYGEGCVEDIKMGN---CRDQSLYARVIVRSPAFITLILGENELMQFNI 267 (283)
Q Consensus 193 ~~~d~RT~FvTFS~G~P--vse~Ei~~fFt~~~G~~cve~v~m~~---~~~qplfariVf~s~~~vd~vL~g~~~~kf~I 267 (283)
+++..++||| +|.| +++++|+++|.. ||+ |+.+.+.. .+...+||+|.|.+.+..+.++.+-+- +.|
T Consensus 291 ~~~~~~~l~v---~nlp~~~~~~~l~~~f~~-~G~--i~~~~~~~~~~~g~~~g~afv~f~~~~~a~~A~~~l~g--~~~ 362 (509)
T TIGR01642 291 VLDSKDRIYI---GNLPLYLGEDQIKELLES-FGD--LKAFNLIKDIATGLSKGYAFCEYKDPSVTDVAIAALNG--KDT 362 (509)
T ss_pred CCCCCCEEEE---eCCCCCCCHHHHHHHHHh-cCC--eeEEEEEecCCCCCcCeEEEEEECCHHHHHHHHHHcCC--CEE
Confidence 4556789988 7888 899999999997 998 66666543 678889999999998887766542221 146
Q ss_pred cCceeEEEec
Q 048589 268 HGKDVRVRRF 277 (283)
Q Consensus 268 ngk~iWaRky 277 (283)
+|+.+=+++.
T Consensus 363 ~~~~l~v~~a 372 (509)
T TIGR01642 363 GDNKLHVQRA 372 (509)
T ss_pred CCeEEEEEEC
Confidence 7877755554
No 24
>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=96.85 E-value=0.0053 Score=63.45 Aligned_cols=78 Identities=17% Similarity=0.100 Sum_probs=57.2
Q ss_pred CCCCCCceEEEEccCCcc--CCHHHHHHHHHhhhCCceeeEEEeec-CCCCCceEEEEecChHHHHHHhCCCCeeeEEEc
Q 048589 192 NDADTDRTLFATFSKGHP--ITRAELFEFFTRRYGEGCVEDIKMGN-CRDQSLYARVIVRSPAFITLILGENELMQFNIH 268 (283)
Q Consensus 192 ~~~~d~RT~FvTFS~G~P--vse~Ei~~fFt~~~G~~cve~v~m~~-~~~qplfariVf~s~~~vd~vL~g~~~~kf~In 268 (283)
..|+...+||| ++.| ++|+|++++|.+ ||. +++...|-+ .++...||+|.|.+++..+..|...+..++ .+
T Consensus 53 ~~p~~~~~lFV---gnLp~~~tEd~L~~~F~~-~G~-I~~vrl~~D~sG~sRGfaFV~F~~~e~A~~Ai~~lng~~i-~~ 126 (578)
T TIGR01648 53 VQPGRGCEVFV---GKIPRDLYEDELVPLFEK-AGP-IYELRLMMDFSGQNRGYAFVTFCGKEEAKEAVKLLNNYEI-RP 126 (578)
T ss_pred CCCCCCCEEEe---CCCCCCCCHHHHHHHHHh-hCC-EEEEEEEECCCCCccceEEEEeCCHHHHHHHHHHcCCCee-cC
Confidence 34556678888 8999 999999999997 998 666545555 788999999999999998887764322221 24
Q ss_pred CceeEEE
Q 048589 269 GKDVRVR 275 (283)
Q Consensus 269 gk~iWaR 275 (283)
||.+++.
T Consensus 127 Gr~l~V~ 133 (578)
T TIGR01648 127 GRLLGVC 133 (578)
T ss_pred Ccccccc
Confidence 5555443
No 25
>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=96.75 E-value=0.0059 Score=61.39 Aligned_cols=80 Identities=20% Similarity=0.210 Sum_probs=59.5
Q ss_pred CCCCceEEEEccCCcc--CCHHHHHHHHHhhhCCceeeEEEeec-CCCCCceEEEEecChHHHHHHhCCCCeeeEEEc--
Q 048589 194 ADTDRTLFATFSKGHP--ITRAELFEFFTRRYGEGCVEDIKMGN-CRDQSLYARVIVRSPAFITLILGENELMQFNIH-- 268 (283)
Q Consensus 194 ~~d~RT~FvTFS~G~P--vse~Ei~~fFt~~~G~~cve~v~m~~-~~~qplfariVf~s~~~vd~vL~g~~~~kf~In-- 268 (283)
....+++|| +|.| +|+++|+++|.+ ||. ......|.+ .+....||+|.|.+.+.....+..-+. ..|+
T Consensus 175 ~~~~~~l~V---~nl~~~~tee~L~~~F~~-fG~-i~~~~i~~~~~g~~~G~afV~F~~~e~A~~Av~~l~g--~~i~~~ 247 (562)
T TIGR01628 175 LKKFTNLYV---KNLDPSVNEDKLRELFAK-FGE-ITSAAVMKDGSGRSRGFAFVNFEKHEDAAKAVEEMNG--KKIGLA 247 (562)
T ss_pred ccCCCeEEE---eCCCCcCCHHHHHHHHHh-cCC-EEEEEEEECCCCCcccEEEEEECCHHHHHHHHHHhCC--cEeccc
Confidence 445678887 7887 999999999986 998 444444444 677788999999999998777653221 2466
Q ss_pred --CceeEEEecccC
Q 048589 269 --GKDVRVRRFVPK 280 (283)
Q Consensus 269 --gk~iWaRky~pk 280 (283)
|+.+++.++.+|
T Consensus 248 ~~g~~l~v~~a~~k 261 (562)
T TIGR01628 248 KEGKKLYVGRAQKR 261 (562)
T ss_pred ccceeeEeecccCh
Confidence 999998877655
No 26
>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=96.43 E-value=0.016 Score=60.45 Aligned_cols=72 Identities=15% Similarity=0.256 Sum_probs=55.3
Q ss_pred CCceEEEEccCCcc--CCHHHHHHHHHhhhCCceeeEEEee-c--CCCCCceEEEEecChHHHHHHhCCCCeeeEEEcCc
Q 048589 196 TDRTLFATFSKGHP--ITRAELFEFFTRRYGEGCVEDIKMG-N--CRDQSLYARVIVRSPAFITLILGENELMQFNIHGK 270 (283)
Q Consensus 196 d~RT~FvTFS~G~P--vse~Ei~~fFt~~~G~~cve~v~m~-~--~~~qplfariVf~s~~~vd~vL~g~~~~kf~Ingk 270 (283)
..+++|| +|.| +++++|+++|.+ ||+ |++|.|- + +++..+||+|.|.+.+..+..+...+. ..|+||
T Consensus 106 ~~~rLfV---GnLp~~~tEe~Lr~lF~~-fG~--I~sV~I~~D~~TgkskGfAFVeF~s~e~A~~Ai~~lnG--~~i~GR 177 (612)
T TIGR01645 106 IMCRVYV---GSISFELREDTIRRAFDP-FGP--IKSINMSWDPATGKHKGFAFVEYEVPEAAQLALEQMNG--QMLGGR 177 (612)
T ss_pred CCCEEEE---cCCCCCCCHHHHHHHHHc-cCC--EEEEEEeecCCCCCcCCeEEEEeCcHHHHHHHHHhcCC--eEEecc
Confidence 3457777 8888 999999999997 999 6666654 3 788999999999999998888753221 256777
Q ss_pred eeEEE
Q 048589 271 DVRVR 275 (283)
Q Consensus 271 ~iWaR 275 (283)
.+=++
T Consensus 178 ~IkV~ 182 (612)
T TIGR01645 178 NIKVG 182 (612)
T ss_pred eeeec
Confidence 76554
No 27
>TIGR01642 U2AF_lg U2 snRNP auxilliary factor, large subunit, splicing factor. Members of this subfamily are found in plants, metazoa and fungi.
Probab=96.15 E-value=0.032 Score=54.94 Aligned_cols=74 Identities=16% Similarity=0.325 Sum_probs=54.8
Q ss_pred CCCCCCceEEEEccCCcc--CCHHHHHHHHHhh---h-------CCceeeEEEeecCCCCCceEEEEecChHHHHHHhCC
Q 048589 192 NDADTDRTLFATFSKGHP--ITRAELFEFFTRR---Y-------GEGCVEDIKMGNCRDQSLYARVIVRSPAFITLILGE 259 (283)
Q Consensus 192 ~~~~d~RT~FvTFS~G~P--vse~Ei~~fFt~~---~-------G~~cve~v~m~~~~~qplfariVf~s~~~vd~vL~g 259 (283)
......||||| +|.| ++++||++||... + |. -|..+.+ +....||+|.|.+++.....|.=
T Consensus 170 ~~~~~~r~lyV---gnLp~~~t~~~l~~~F~~~~~~~~~~~~~~~~-~v~~~~~---~~~kg~afVeF~~~e~A~~Al~l 242 (509)
T TIGR01642 170 QATRQARRLYV---GGIPPEFVEEAVVDFFNDLMIATGYHKAEDGK-HVSSVNI---NKEKNFAFLEFRTVEEATFAMAL 242 (509)
T ss_pred cCCccccEEEE---eCCCCCCCHHHHHHHHHHHHHhcCCCCCCCCC-ceEEEEE---CCCCCEEEEEeCCHHHHhhhhcC
Confidence 45667899998 9999 9999999999973 1 22 3556665 45678999999999998887741
Q ss_pred CCeeeEEEcCceeEEE
Q 048589 260 NELMQFNIHGKDVRVR 275 (283)
Q Consensus 260 ~~~~kf~Ingk~iWaR 275 (283)
+ .+.++|+.+=++
T Consensus 243 -~--g~~~~g~~l~v~ 255 (509)
T TIGR01642 243 -D--SIIYSNVFLKIR 255 (509)
T ss_pred -C--CeEeeCceeEec
Confidence 1 246778777554
No 28
>TIGR01648 hnRNP-R-Q heterogeneous nuclear ribonucleoprotein R, Q family. Sequences in this subfamily include the human heterogeneous nuclear ribonucleoproteins (hnRNP) R, Q and APOBEC-1 complementation factor (aka APOBEC-1 stimulating protein). These proteins contain three RNA recognition domains (rrm: pfam00076) and a somewhat variable C-terminal domain.
Probab=95.99 E-value=0.026 Score=58.48 Aligned_cols=82 Identities=21% Similarity=0.218 Sum_probs=58.2
Q ss_pred CCCCceEEEEccCCcc--CCHHHHHHHHHhhhCCceeeEEEee-c---CCCCCceEEEEecChHHHHHHhCCCCeeeEEE
Q 048589 194 ADTDRTLFATFSKGHP--ITRAELFEFFTRRYGEGCVEDIKMG-N---CRDQSLYARVIVRSPAFITLILGENELMQFNI 267 (283)
Q Consensus 194 ~~d~RT~FvTFS~G~P--vse~Ei~~fFt~~~G~~cve~v~m~-~---~~~qplfariVf~s~~~vd~vL~g~~~~kf~I 267 (283)
+.+.++||| +|.| ++++||.+.|.+ ++. +++.+.+. . .+....||+|.|++.+........-..-++.+
T Consensus 135 S~~~~rLFV---gNLP~~~TeeeL~eeFsk-v~e-gvv~vIv~~~~~~kgKnRGFAFVeF~s~edAa~AirkL~~gki~l 209 (578)
T TIGR01648 135 SVDNCRLFV---GGIPKNKKREEILEEFSK-VTE-GVVDVIVYHSAADKKKNRGFAFVEYESHRAAAMARRKLMPGRIQL 209 (578)
T ss_pred cccCceeEe---ecCCcchhhHHHHHHhhc-ccC-CceEEEEeccccccCccCceEEEEcCCHHHHHHHHHHhhccceEe
Confidence 456789988 8998 899999999987 776 44444443 2 34568999999999988766554333334567
Q ss_pred cCceeEEEecccC
Q 048589 268 HGKDVRVRRFVPK 280 (283)
Q Consensus 268 ngk~iWaRky~pk 280 (283)
.|+.+=+....|+
T Consensus 210 ~Gr~I~VdwA~p~ 222 (578)
T TIGR01648 210 WGHVIAVDWAEPE 222 (578)
T ss_pred cCceEEEEeeccc
Confidence 8888766555554
No 29
>smart00361 RRM_1 RNA recognition motif.
Probab=95.67 E-value=0.057 Score=39.91 Aligned_cols=57 Identities=14% Similarity=0.197 Sum_probs=41.4
Q ss_pred CHHHHHHHHH---hhhCCceeeEE---Eeec-C--CCCCceEEEEecChHHHHHHhC---CCCeeeEEEcCceeEE
Q 048589 211 TRAELFEFFT---RRYGEGCVEDI---KMGN-C--RDQSLYARVIVRSPAFITLILG---ENELMQFNIHGKDVRV 274 (283)
Q Consensus 211 se~Ei~~fFt---~~~G~~cve~v---~m~~-~--~~qplfariVf~s~~~vd~vL~---g~~~~kf~Ingk~iWa 274 (283)
.+++|+++|. .+||. |.+| .|.+ + +++.+||.|.|.+++.....+. |. .++|+.+=+
T Consensus 1 ~~~~l~~~~~~~~~~fG~--v~~v~~v~~~~~~~~~~~rG~~fV~f~~~~dA~~A~~~l~g~-----~~~gr~l~~ 69 (70)
T smart00361 1 KDEDFEREFSEEEEYFGE--VGKINKIYIDNVGYENHKRGNVYITFERSEDAARAIVDLNGR-----YFDGRTVKA 69 (70)
T ss_pred CchhHHHHHHHHHHhcCC--eeEEEEEEeCCCCCCCCCcEEEEEEECCHHHHHHHHHHhCCC-----EECCEEEEe
Confidence 3688999998 34997 5544 5654 4 8899999999999998766554 42 577776643
No 30
>KOG0132 consensus RNA polymerase II C-terminal domain-binding protein RA4, contains RPR and RRM domains [RNA processing and modification; Transcription]
Probab=95.35 E-value=0.028 Score=59.68 Aligned_cols=74 Identities=22% Similarity=0.294 Sum_probs=60.0
Q ss_pred CceEEEEccCCcc--CCHHHHHHHHHhhhCCceeeEEEeecCCCCCceEEEEecChHHHHHHhCCCCeeeEEEcCcee--
Q 048589 197 DRTLFATFSKGHP--ITRAELFEFFTRRYGEGCVEDIKMGNCRDQSLYARVIVRSPAFITLILGENELMQFNIHGKDV-- 272 (283)
Q Consensus 197 ~RT~FvTFS~G~P--vse~Ei~~fFt~~~G~~cve~v~m~~~~~qplfariVf~s~~~vd~vL~g~~~~kf~Ingk~i-- 272 (283)
.||||| +|.| ++|+|+...|++ ||+ |++|.| .-...+|.|+..+-.....+|.--+ +..+++|-|
T Consensus 421 SrTLwv---G~i~k~v~e~dL~~~fee-fGe--iqSi~l---i~~R~cAfI~M~~RqdA~kalqkl~--n~kv~~k~Iki 489 (894)
T KOG0132|consen 421 SRTLWV---GGIPKNVTEQDLANLFEE-FGE--IQSIIL---IPPRGCAFIKMVRRQDAEKALQKLS--NVKVADKTIKI 489 (894)
T ss_pred eeeeee---ccccchhhHHHHHHHHHh-ccc--ceeEee---ccCCceeEEEEeehhHHHHHHHHHh--cccccceeeEE
Confidence 589988 9999 999999999998 999 999999 6678899998887777666666433 445677776
Q ss_pred -EEEecccCC
Q 048589 273 -RVRRFVPKR 281 (283)
Q Consensus 273 -WaRky~pk~ 281 (283)
||.-+=||.
T Consensus 490 ~Wa~g~G~ks 499 (894)
T KOG0132|consen 490 AWAVGKGPKS 499 (894)
T ss_pred eeeccCCcch
Confidence 998777664
No 31
>KOG0116 consensus RasGAP SH3 binding protein rasputin, contains NTF2 and RRM domains [Signal transduction mechanisms]
Probab=95.10 E-value=0.056 Score=54.06 Aligned_cols=77 Identities=21% Similarity=0.317 Sum_probs=62.2
Q ss_pred CCCCceEEEEccCCcc--CCHHHHHHHHHhhhCCceeeEEEeec---CCCCCceEEEEecChHHHHHHhCCCCeeeEEEc
Q 048589 194 ADTDRTLFATFSKGHP--ITRAELFEFFTRRYGEGCVEDIKMGN---CRDQSLYARVIVRSPAFITLILGENELMQFNIH 268 (283)
Q Consensus 194 ~~d~RT~FvTFS~G~P--vse~Ei~~fFt~~~G~~cve~v~m~~---~~~qplfariVf~s~~~vd~vL~g~~~~kf~In 268 (283)
-++..++ |.+..| .+.++++++|-. ||+ |+...|+- .+..+.||+|.|.+.+.+..++.-+ ++.|+
T Consensus 285 ~~~~~~i---~V~nlP~da~~~~l~~~Fk~-FG~--Ik~~~I~vr~~~~~~~~fgFV~f~~~~~~~~~i~As---p~~ig 355 (419)
T KOG0116|consen 285 RADGLGI---FVKNLPPDATPAELEEVFKQ-FGP--IKEGGIQVRSPGGKNPCFGFVEFENAAAVQNAIEAS---PLEIG 355 (419)
T ss_pred eecccce---EeecCCCCCCHHHHHHHHhh-ccc--ccccceEEeccCCCcCceEEEEEeecchhhhhhhcC---ccccC
Confidence 3445554 559999 999999999997 999 77777775 4666799999999999988888865 89999
Q ss_pred CceeEEEeccc
Q 048589 269 GKDVRVRRFVP 279 (283)
Q Consensus 269 gk~iWaRky~p 279 (283)
|+.+-+..-.|
T Consensus 356 ~~kl~Veek~~ 366 (419)
T KOG0116|consen 356 GRKLNVEEKRP 366 (419)
T ss_pred CeeEEEEeccc
Confidence 99987765443
No 32
>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=94.41 E-value=0.21 Score=49.95 Aligned_cols=71 Identities=25% Similarity=0.373 Sum_probs=52.4
Q ss_pred CCceEEEEccCCcc---CCHHHHHHHHHhhhCCceeeEEEeecCCCCCceEEEEecChHHHHHHhCCCCeeeEEEcCcee
Q 048589 196 TDRTLFATFSKGHP---ITRAELFEFFTRRYGEGCVEDIKMGNCRDQSLYARVIVRSPAFITLILGENELMQFNIHGKDV 272 (283)
Q Consensus 196 d~RT~FvTFS~G~P---vse~Ei~~fFt~~~G~~cve~v~m~~~~~qplfariVf~s~~~vd~vL~g~~~~kf~Ingk~i 272 (283)
...+||| +|.| ++++++++.|.. ||+ |.+|.+-. ....||.|.|.+++....++..-+- ..|.||.+
T Consensus 274 ~~~~l~v---~nL~~~~vt~~~L~~lF~~-yG~--V~~vki~~--~~~g~afV~f~~~~~A~~Ai~~lng--~~l~g~~l 343 (481)
T TIGR01649 274 PGSVLMV---SGLHQEKVNCDRLFNLFCV-YGN--VERVKFMK--NKKETALIEMADPYQAQLALTHLNG--VKLFGKPL 343 (481)
T ss_pred CCCEEEE---eCCCCCCCCHHHHHHHHHh-cCC--eEEEEEEe--CCCCEEEEEECCHHHHHHHHHHhCC--CEECCceE
Confidence 4568877 7776 799999999996 998 55665433 1358999999999887777753221 15789988
Q ss_pred EEEe
Q 048589 273 RVRR 276 (283)
Q Consensus 273 WaRk 276 (283)
-+..
T Consensus 344 ~v~~ 347 (481)
T TIGR01649 344 RVCP 347 (481)
T ss_pred EEEE
Confidence 7764
No 33
>PF13893 RRM_5: RNA recognition motif. (a.k.a. RRM, RBD, or RNP domain); PDB: 2PE8_A 2PEH_A 2D9O_A 1A9N_D 2DIT_A 3S6E_A 2LQ5_A 1SJQ_A 2AD9_A 1X4D_A ....
Probab=94.28 E-value=0.15 Score=35.62 Aligned_cols=50 Identities=24% Similarity=0.430 Sum_probs=36.5
Q ss_pred HHHHHHhhhCCceeeEEEeecCCCCCceEEEEecChHHHHHHh---CCCCeeeEEEcCceeEE
Q 048589 215 LFEFFTRRYGEGCVEDIKMGNCRDQSLYARVIVRSPAFITLIL---GENELMQFNIHGKDVRV 274 (283)
Q Consensus 215 i~~fFt~~~G~~cve~v~m~~~~~qplfariVf~s~~~vd~vL---~g~~~~kf~Ingk~iWa 274 (283)
++++|.+ ||+ |++|.|.+.+ +.+|.|.|.+.+.....+ +|.. ++|+.+-+
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--VKKIKIFKKK--RGFAFVEFASVEDAQKAIEQLNGRQ-----FNGRPLKV 53 (56)
T ss_dssp HHHHHTT-TS---EEEEEEETTS--TTEEEEEESSHHHHHHHHHHHTTSE-----ETTEEEEE
T ss_pred ChHHhCC-ccc--EEEEEEEeCC--CCEEEEEECCHHHHHHHHHHhCCCE-----ECCcEEEE
Confidence 4678886 998 7888886533 799999999999866655 4533 68887644
No 34
>KOG0153 consensus Predicted RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=93.03 E-value=0.37 Score=47.38 Aligned_cols=68 Identities=21% Similarity=0.307 Sum_probs=51.9
Q ss_pred ceEEEEccCCc--cCCHHHHHHHHHhhhCCceeeEEEeecCCCCCceEEEEecChHHHHHHhC-CCCeeeEEEcCcee--
Q 048589 198 RTLFATFSKGH--PITRAELFEFFTRRYGEGCVEDIKMGNCRDQSLYARVIVRSPAFITLILG-ENELMQFNIHGKDV-- 272 (283)
Q Consensus 198 RT~FvTFS~G~--Pvse~Ei~~fFt~~~G~~cve~v~m~~~~~qplfariVf~s~~~vd~vL~-g~~~~kf~Ingk~i-- 272 (283)
+|||| +|. -++|.+|+++|.. ||+ |+.|.+.- .++ .|+|.|.+-.....+.. +.+ |+.|||+.+
T Consensus 229 ~tLyI---g~l~d~v~e~dIrdhFyq-yGe--irsi~~~~-~~~--CAFv~ftTR~aAE~Aae~~~n--~lvI~G~Rl~i 297 (377)
T KOG0153|consen 229 KTLYI---GGLNDEVLEQDIRDHFYQ-YGE--IRSIRILP-RKG--CAFVTFTTREAAEKAAEKSFN--KLVINGFRLKI 297 (377)
T ss_pred eEEEe---cccccchhHHHHHHHHhh-cCC--eeeEEeec-ccc--cceeeehhhHHHHHHHHhhcc--eeeecceEEEE
Confidence 46666 776 4999999999997 999 88888754 333 89999998877666655 434 999999776
Q ss_pred -EEEe
Q 048589 273 -RVRR 276 (283)
Q Consensus 273 -WaRk 276 (283)
|.+-
T Consensus 298 ~Wg~~ 302 (377)
T KOG0153|consen 298 KWGRP 302 (377)
T ss_pred EeCCC
Confidence 6554
No 35
>KOG0144 consensus RNA-binding protein CUGBP1/BRUNO (RRM superfamily) [RNA processing and modification]
Probab=92.24 E-value=0.16 Score=51.24 Aligned_cols=52 Identities=25% Similarity=0.255 Sum_probs=44.1
Q ss_pred CCCceEEEEccCCcc--CCHHHHHHHHHhhhCCceeeEEEeec--CCCCCceEEEEecChHH
Q 048589 195 DTDRTLFATFSKGHP--ITRAELFEFFTRRYGEGCVEDIKMGN--CRDQSLYARVIVRSPAF 252 (283)
Q Consensus 195 ~d~RT~FvTFS~G~P--vse~Ei~~fFt~~~G~~cve~v~m~~--~~~qplfariVf~s~~~ 252 (283)
.++|.||| +-.+ .+|.||++-|.+ ||. ||+++|-+ -+..++||+|.|.+.++
T Consensus 122 ~~e~KLFv---g~lsK~~te~evr~iFs~-fG~--Ied~~ilrd~~~~sRGcaFV~fstke~ 177 (510)
T KOG0144|consen 122 VEERKLFV---GMLSKQCTENEVREIFSR-FGH--IEDCYILRDPDGLSRGCAFVKFSTKEM 177 (510)
T ss_pred ccchhhhh---hhccccccHHHHHHHHHh-hCc--cchhhheecccccccceeEEEEehHHH
Confidence 56788877 4444 899999999997 997 99999877 57789999999999877
No 36
>PLN03213 repressor of silencing 3; Provisional
Probab=91.14 E-value=0.74 Score=47.52 Aligned_cols=68 Identities=15% Similarity=0.221 Sum_probs=50.6
Q ss_pred EEccCCcc--CCHHHHHHHHHhhhCCceeeEEEeec-CCCCCceEEEEecCh--HHHHH---HhCCCCeeeEEEcCceeE
Q 048589 202 ATFSKGHP--ITRAELFEFFTRRYGEGCVEDIKMGN-CRDQSLYARVIVRSP--AFITL---ILGENELMQFNIHGKDVR 273 (283)
Q Consensus 202 vTFS~G~P--vse~Ei~~fFt~~~G~~cve~v~m~~-~~~qplfariVf~s~--~~vd~---vL~g~~~~kf~Ingk~iW 273 (283)
-.|.+|.+ ++++|++..|.+ ||. |.+|.+-+ +| .+||+|-|.++ +..+. .|+|.. ..|+.+=
T Consensus 12 RIYVGNLSydVTEDDLravFSe-FGs--VkdVEIpRETG--RGFAFVEMssdddaEeeKAISaLNGAE-----WKGR~LK 81 (759)
T PLN03213 12 RLHVGGLGESVGRDDLLKIFSP-MGT--VDAVEFVRTKG--RSFAYIDFSPSSTNSLTKLFSTYNGCV-----WKGGRLR 81 (759)
T ss_pred EEEEeCCCCCCCHHHHHHHHHh-cCC--eeEEEEecccC--CceEEEEecCCcHHHHHHHHHHhcCCe-----ecCceeE
Confidence 34558777 999999999997 998 77877766 55 89999999987 44444 455643 6777776
Q ss_pred EEeccc
Q 048589 274 VRRFVP 279 (283)
Q Consensus 274 aRky~p 279 (283)
+.+..|
T Consensus 82 VNKAKP 87 (759)
T PLN03213 82 LEKAKE 87 (759)
T ss_pred EeeccH
Confidence 666544
No 37
>KOG0127 consensus Nucleolar protein fibrillarin NOP77 (RRM superfamily) [RNA processing and modification]
Probab=90.90 E-value=1.1 Score=46.69 Aligned_cols=78 Identities=22% Similarity=0.289 Sum_probs=59.8
Q ss_pred ceEEEEccCCcc--CCHHHHHHHHHhhhCCceeeEEEe-ec--CCCCCceEEEEecChHHHHHHhCCC----CeeeEEEc
Q 048589 198 RTLFATFSKGHP--ITRAELFEFFTRRYGEGCVEDIKM-GN--CRDQSLYARVIVRSPAFITLILGEN----ELMQFNIH 268 (283)
Q Consensus 198 RT~FvTFS~G~P--vse~Ei~~fFt~~~G~~cve~v~m-~~--~~~qplfariVf~s~~~vd~vL~g~----~~~kf~In 268 (283)
+|+|| |..| .+|+||.+.|+. ||+ |+-+.+ -+ ++.+-+-|+|-|+.+.+-..-|.+. ..--+.+.
T Consensus 293 ~tVFv---RNL~fD~tEEel~~~fsk-FG~--v~ya~iV~~k~T~~skGtAFv~Fkt~~~~~~ci~~Aspa~e~g~~ll~ 366 (678)
T KOG0127|consen 293 KTVFV---RNLPFDTTEEELKEHFSK-FGE--VKYAIIVKDKDTGHSKGTAFVKFKTQIAAQNCIEAASPASEDGSVLLD 366 (678)
T ss_pred ceEEE---ecCCccccHHHHHHHHHh-hcc--ceeEEEEeccCCCCcccceEEEeccHHHHHHHHHhcCccCCCceEEEe
Confidence 89988 9888 899999999997 998 444333 23 8999999999999998854444432 22238899
Q ss_pred CceeEEEecccCC
Q 048589 269 GKDVRVRRFVPKR 281 (283)
Q Consensus 269 gk~iWaRky~pk~ 281 (283)
|+.+=+-..++|+
T Consensus 367 GR~Lkv~~Av~Rk 379 (678)
T KOG0127|consen 367 GRLLKVTLAVTRK 379 (678)
T ss_pred ccEEeeeeccchH
Confidence 9999887777664
No 38
>KOG0117 consensus Heterogeneous nuclear ribonucleoprotein R (RRM superfamily) [RNA processing and modification]
Probab=90.28 E-value=0.6 Score=47.34 Aligned_cols=67 Identities=24% Similarity=0.244 Sum_probs=50.4
Q ss_pred eEEEEccCCcc--CCHHHHHHHHHhhhCCcee-eEEEeec-CCCCCceEEEEecChHHHH---HHhCCCCeeeEEEcCce
Q 048589 199 TLFATFSKGHP--ITRAELFEFFTRRYGEGCV-EDIKMGN-CRDQSLYARVIVRSPAFIT---LILGENELMQFNIHGKD 271 (283)
Q Consensus 199 T~FvTFS~G~P--vse~Ei~~fFt~~~G~~cv-e~v~m~~-~~~qplfariVf~s~~~vd---~vL~g~~~~kf~Ingk~ 271 (283)
-+|| ++.| +.|+|+.-+|++ -|. .- -+++|.. ++...+||+|+|.+..... ..||+.+ .=.||+
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-IGK-IYELRLMMDPFSGDNRGYAFVTFCTKEEAQEAIKELNNYE----IRPGKL 155 (506)
T ss_pred eEEe---cCCCccccchhhHHHHHh-ccc-eeeEEEeecccCCCCcceEEEEeecHHHHHHHHHHhhCcc----ccCCCE
Confidence 4555 9999 999999999997 887 44 4677764 9999999999999987643 3455543 117777
Q ss_pred eEE
Q 048589 272 VRV 274 (283)
Q Consensus 272 iWa 274 (283)
+=+
T Consensus 156 igv 158 (506)
T KOG0117|consen 156 LGV 158 (506)
T ss_pred eEE
Confidence 743
No 39
>KOG0131 consensus Splicing factor 3b, subunit 4 [RNA processing and modification]
Probab=90.24 E-value=0.54 Score=42.79 Aligned_cols=73 Identities=21% Similarity=0.362 Sum_probs=57.9
Q ss_pred CCCceEEEEccCCcc--CCHHHHHHHHHhhhCCceeeEEEeec---CCCCCceEEEEecChHHHH---HHhCCCCeeeEE
Q 048589 195 DTDRTLFATFSKGHP--ITRAELFEFFTRRYGEGCVEDIKMGN---CRDQSLYARVIVRSPAFIT---LILGENELMQFN 266 (283)
Q Consensus 195 ~d~RT~FvTFS~G~P--vse~Ei~~fFt~~~G~~cve~v~m~~---~~~qplfariVf~s~~~vd---~vL~g~~~~kf~ 266 (283)
..+-|+|+ .|.+ +||+-+.|.|.+ -|+ |.+++|.+ .+.+.+||++-|++++..| .|||+ +.
T Consensus 7 nqd~tiyv---gnld~kvs~~~l~EL~iq-agp--Vv~i~iPkDrv~~~~qGygF~Ef~~eedadYAikiln~-----Vk 75 (203)
T KOG0131|consen 7 NQDATLYV---GNLDEKVSEELLYELFIQ-AGP--VVNLHIPKDRVTQKHQGYGFAEFRTEEDADYAIKILNM-----VK 75 (203)
T ss_pred CCCceEEE---ecCCHHHHHHHHHHHHHh-cCc--eeeeecchhhhcccccceeEEEEechhhhHHHHHHHHH-----HH
Confidence 44568888 7887 999999999997 888 88999987 6779999999999999866 45663 23
Q ss_pred EcCceeEEEecc
Q 048589 267 IHGKDVRVRRFV 278 (283)
Q Consensus 267 Ingk~iWaRky~ 278 (283)
..||.+-++|--
T Consensus 76 LYgrpIrv~kas 87 (203)
T KOG0131|consen 76 LYGRPIRVNKAS 87 (203)
T ss_pred hcCceeEEEecc
Confidence 567777666643
No 40
>KOG4212 consensus RNA-binding protein hnRNP-M [RNA processing and modification]
Probab=89.34 E-value=1.4 Score=44.92 Aligned_cols=81 Identities=25% Similarity=0.419 Sum_probs=65.4
Q ss_pred CCCCCCCCCCceEEEEccCCcc--CCHHHHHHHHHhhhCCceeeEEE--eecCCCCCceEEEEecChHHHHHHhCCCCee
Q 048589 188 SEEANDADTDRTLFATFSKGHP--ITRAELFEFFTRRYGEGCVEDIK--MGNCRDQSLYARVIVRSPAFITLILGENELM 263 (283)
Q Consensus 188 ~~~~~~~~d~RT~FvTFS~G~P--vse~Ei~~fFt~~~G~~cve~v~--m~~~~~qplfariVf~s~~~vd~vL~g~~~~ 263 (283)
++...++..+|++||| ..| +.=+++++.|.++-|+ |+-|. |.+.+.....|.|-|+.++-+...|. ..-
T Consensus 35 s~~gn~~~r~R~vfIt---NIpyd~rWqdLKdLvrekvGe--v~yveLl~D~~GK~rGcavVEFk~~E~~qKa~E--~ln 107 (608)
T KOG4212|consen 35 SQGGNVAARDRSVFIT---NIPYDYRWQDLKDLVREKVGE--VEYVELLFDESGKARGCAVVEFKDPENVQKALE--KLN 107 (608)
T ss_pred CCCCCcccccceEEEe---cCcchhhhHhHHHHHHHhcCc--eEeeeeecccCCCcCCceEEEeeCHHHHHHHHH--Hhh
Confidence 3456788999999996 445 7778999999999998 55544 33389999999999999999988875 345
Q ss_pred eEEEcCceeEEE
Q 048589 264 QFNIHGKDVRVR 275 (283)
Q Consensus 264 kf~Ingk~iWaR 275 (283)
|+.+||+.+=++
T Consensus 108 k~~~~GR~l~vK 119 (608)
T KOG4212|consen 108 KYEVNGRELVVK 119 (608)
T ss_pred hccccCceEEEe
Confidence 789999988665
No 41
>KOG0144 consensus RNA-binding protein CUGBP1/BRUNO (RRM superfamily) [RNA processing and modification]
Probab=89.26 E-value=0.59 Score=47.30 Aligned_cols=57 Identities=16% Similarity=0.132 Sum_probs=47.0
Q ss_pred EEccCCcc--CCHHHHHHHHHhhhCCceeeEEEeec--CCCCCceEEEEecChHHHHHHhCCC
Q 048589 202 ATFSKGHP--ITRAELFEFFTRRYGEGCVEDIKMGN--CRDQSLYARVIVRSPAFITLILGEN 260 (283)
Q Consensus 202 vTFS~G~P--vse~Ei~~fFt~~~G~~cve~v~m~~--~~~qplfariVf~s~~~vd~vL~g~ 260 (283)
+-|..-.| .||.|++++|++ ||. +-|-..+.| ++++..|++|.|.+.+.-|+..+--
T Consensus 36 KlfVgqIprt~sE~dlr~lFe~-yg~-V~einl~kDk~t~~s~gcCFv~~~trk~a~~a~~Al 96 (510)
T KOG0144|consen 36 KLFVGQIPRTASEKDLRELFEK-YGN-VYEINLIKDKSTGQSKGCCFVKYYTRKEADEAINAL 96 (510)
T ss_pred hheeccCCccccHHHHHHHHHH-hCc-eeEEEeecccccCcccceEEEEeccHHHHHHHHHHh
Confidence 44557777 899999999997 998 666666666 8999999999999999888877743
No 42
>KOG0114 consensus Predicted RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=88.76 E-value=1.3 Score=37.29 Aligned_cols=56 Identities=25% Similarity=0.513 Sum_probs=46.5
Q ss_pred CCCCCCCceEEEEccCCcc--CCHHHHHHHHHhhhCCceeeEEEeecCCCCCceEEEEecChHH
Q 048589 191 ANDADTDRTLFATFSKGHP--ITRAELFEFFTRRYGEGCVEDIKMGNCRDQSLYARVIVRSPAF 252 (283)
Q Consensus 191 ~~~~~d~RT~FvTFS~G~P--vse~Ei~~fFt~~~G~~cve~v~m~~~~~qplfariVf~s~~~ 252 (283)
..+|+-.|-+|| +..| ||.||+.+.|-+ ||. |..|.+....+-.+=|+||.....-
T Consensus 12 rlppevnriLyi---rNLp~~ITseemydlFGk-yg~--IrQIRiG~~k~TrGTAFVVYedi~d 69 (124)
T KOG0114|consen 12 RLPPEVNRILYI---RNLPFKITSEEMYDLFGK-YGT--IRQIRIGNTKETRGTAFVVYEDIFD 69 (124)
T ss_pred CCChhhheeEEE---ecCCccccHHHHHHHhhc-ccc--eEEEEecCccCcCceEEEEehHhhh
Confidence 356788898988 9999 999999999997 998 7788887667778889999876554
No 43
>KOG4207 consensus Predicted splicing factor, SR protein superfamily [RNA processing and modification]
Probab=88.46 E-value=1 Score=41.97 Aligned_cols=60 Identities=18% Similarity=0.241 Sum_probs=45.7
Q ss_pred ccCCHHHHHHHHHhhhCCceeeEEEeec---CCCCCceEEEEecChHHHHHHhCCCCeeeEEEcCcee
Q 048589 208 HPITRAELFEFFTRRYGEGCVEDIKMGN---CRDQSLYARVIVRSPAFITLILGENELMQFNIHGKDV 272 (283)
Q Consensus 208 ~Pvse~Ei~~fFt~~~G~~cve~v~m~~---~~~qplfariVf~s~~~vd~vL~g~~~~kf~Ingk~i 272 (283)
|--|.++++--|++ ||+ |-+|++.. +.+..+||+|-|+-...+...|.-.+- -.++|+.+
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 88999986 899999999999876665555442211 15778877
No 44
>KOG0108 consensus mRNA cleavage and polyadenylation factor I complex, subunit RNA15 [RNA processing and modification]
Probab=86.95 E-value=1.6 Score=44.14 Aligned_cols=65 Identities=12% Similarity=0.142 Sum_probs=48.6
Q ss_pred EEEccCCcc--CCHHHHHHHHHhhhCCceeeEEEeec--CCCCCceEEEEecChHHHH---HHhCCCCeeeEEEcCcee
Q 048589 201 FATFSKGHP--ITRAELFEFFTRRYGEGCVEDIKMGN--CRDQSLYARVIVRSPAFIT---LILGENELMQFNIHGKDV 272 (283)
Q Consensus 201 FvTFS~G~P--vse~Ei~~fFt~~~G~~cve~v~m~~--~~~qplfariVf~s~~~vd---~vL~g~~~~kf~Ingk~i 272 (283)
+..|+++.| ++|++|.+.|.+ .|. .+.-=.+.| +|+.++||++-|.+.++.. +.|+|.+ ++|+.+
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-VGP-VLSFRLVYDRETGKPKGFGFCEFTDEETAERAIRNLNGAE-----FNGRKL 90 (435)
T ss_pred cceEecCCCCcccHHHHHHHHhc-cCc-cceeeecccccCCCcCceeeEecCchhhHHHHHHhcCCcc-----cCCceE
Confidence 455569999 999999999996 887 443333444 8999999999999977744 4566644 566655
No 45
>KOG0129 consensus Predicted RNA-binding protein (RRM superfamily) [Translation, ribosomal structure and biogenesis]
Probab=85.64 E-value=2.6 Score=43.41 Aligned_cols=61 Identities=21% Similarity=0.220 Sum_probs=47.2
Q ss_pred CCCCCceEEEEccCCcc--CCHHHHHHHHHhhhCCceeeEEEee-cCCCCCceEEEEecChHHHHHH
Q 048589 193 DADTDRTLFATFSKGHP--ITRAELFEFFTRRYGEGCVEDIKMG-NCRDQSLYARVIVRSPAFITLI 256 (283)
Q Consensus 193 ~~~d~RT~FvTFS~G~P--vse~Ei~~fFt~~~G~~cve~v~m~-~~~~qplfariVf~s~~~vd~v 256 (283)
.-+--||+|| +|.| ++.+|+-..|.+.||-=|-..|.+. |-+=+-+=|||+|.....--+.
T Consensus 366 ~lDprrTVFV---Ggvprpl~A~eLA~imd~lyGgV~yaGIDtD~k~KYPkGaGRVtFsnqqsYi~A 429 (520)
T KOG0129|consen 366 PIDPRRTVFV---GGLPRPLTAEELAMIMEDLFGGVLYVGIDTDPKLKYPKGAGRVTFSNQQAYIKA 429 (520)
T ss_pred ccCccceEEe---cCCCCcchHHHHHHHHHHhcCceEEEEeccCcccCCCCCcceeeecccHHHHHH
Confidence 4455689988 9998 9999999999999995366777775 3445556699999998873333
No 46
>KOG0105 consensus Alternative splicing factor ASF/SF2 (RRM superfamily) [RNA processing and modification]
Probab=85.17 E-value=2.2 Score=39.24 Aligned_cols=61 Identities=20% Similarity=0.370 Sum_probs=49.4
Q ss_pred CCCceEEEEccCCcc--CCHHHHHHHHHhhhCCceeeEEEeecCCCCCceEEEEecChHHHHHHhCCCC
Q 048589 195 DTDRTLFATFSKGHP--ITRAELFEFFTRRYGEGCVEDIKMGNCRDQSLYARVIVRSPAFITLILGENE 261 (283)
Q Consensus 195 ~d~RT~FvTFS~G~P--vse~Ei~~fFt~~~G~~cve~v~m~~~~~qplfariVf~s~~~vd~vL~g~~ 261 (283)
..++++++ ...| |-|-||.+.|-+ ||. |..|....+..+|-||+|-|..+--.+...-|.+
T Consensus 4 r~~~~iyv---GNLP~diRekeieDlFyK-yg~--i~~ieLK~r~g~ppfafVeFEd~RDAeDAiygRd 66 (241)
T KOG0105|consen 4 RNSRRIYV---GNLPGDIREKEIEDLFYK-YGR--IREIELKNRPGPPPFAFVEFEDPRDAEDAIYGRD 66 (241)
T ss_pred cccceEEe---cCCCcchhhccHHHHHhh-hcc--eEEEEeccCCCCCCeeEEEecCccchhhhhhccc
Confidence 45677776 7888 899999999996 998 7777776688889999999998887776666543
No 47
>KOG1457 consensus RNA binding protein (contains RRM repeats) [General function prediction only]
Probab=84.26 E-value=3.3 Score=39.03 Aligned_cols=62 Identities=31% Similarity=0.445 Sum_probs=44.6
Q ss_pred CCCCCceEEEEccCCcc--CCHHHHHHHHHhhhC-CceeeEEEeecCCCC--CceEEEEecChHHHH---HHhCC
Q 048589 193 DADTDRTLFATFSKGHP--ITRAELFEFFTRRYG-EGCVEDIKMGNCRDQ--SLYARVIVRSPAFIT---LILGE 259 (283)
Q Consensus 193 ~~~d~RT~FvTFS~G~P--vse~Ei~~fFt~~~G-~~cve~v~m~~~~~q--plfariVf~s~~~vd---~vL~g 259 (283)
.+..-||+|| -|.| |.--||...|.+.-| ++|. +.|-..+.| .-+|+++|.|.+... ..|||
T Consensus 30 ~~~~VRTLFV---SGLP~DvKpREiynLFR~f~GYEgsl--LK~Tsk~~~~~~pvaFatF~s~q~A~aamnaLNG 99 (284)
T KOG1457|consen 30 EPGAVRTLFV---SGLPNDVKPREIYNLFRRFHGYEGSL--LKYTSKGDQVCKPVAFATFTSHQFALAAMNALNG 99 (284)
T ss_pred cccccceeee---ccCCcccCHHHHHHHhccCCCcccee--eeeccCCCccccceEEEEecchHHHHHHHHHhcC
Confidence 3445899998 8999 899999999999888 4343 334222222 368999999988744 45566
No 48
>KOG4206 consensus Spliceosomal protein snRNP-U1A/U2B [RNA processing and modification]
Probab=81.75 E-value=6 Score=36.80 Aligned_cols=56 Identities=21% Similarity=0.284 Sum_probs=45.5
Q ss_pred ceEEEEccCCcc--CCHHHHHH----HHHhhhCCceeeEEEeecCCCCCceEEEEecChHHHHH---HhCC
Q 048589 198 RTLFATFSKGHP--ITRAELFE----FFTRRYGEGCVEDIKMGNCRDQSLYARVIVRSPAFITL---ILGE 259 (283)
Q Consensus 198 RT~FvTFS~G~P--vse~Ei~~----fFt~~~G~~cve~v~m~~~~~qplfariVf~s~~~vd~---vL~g 259 (283)
+|+|| +.++ |..+|++. .|.+ ||. |-+|.+-++...++=|.|||+++++-.. -|+|
T Consensus 10 ~TlYI---nnLnekI~~~elkrsL~~LFsq-fG~--ildI~a~kt~KmRGQA~VvFk~~~~As~A~r~l~g 74 (221)
T KOG4206|consen 10 GTLYI---NNLNEKIKKDELKRSLYLLFSQ-FGK--ILDISAFKTPKMRGQAFVVFKETEAASAALRALQG 74 (221)
T ss_pred ceEee---hhccccccHHHHHHHHHHHHHh-hCC--eEEEEecCCCCccCceEEEecChhHHHHHHHHhcC
Confidence 38988 7665 99999988 9997 998 7788887888888889999999777444 4555
No 49
>KOG0122 consensus Translation initiation factor 3, subunit g (eIF-3g) [Translation, ribosomal structure and biogenesis]
Probab=79.36 E-value=3.4 Score=39.24 Aligned_cols=59 Identities=17% Similarity=0.174 Sum_probs=44.6
Q ss_pred CCceEEEEccCCcc--CCHHHHHHHHHhhhCCceeeEEEeec---CCCCCceEEEEecChHHHHH---HhCCC
Q 048589 196 TDRTLFATFSKGHP--ITRAELFEFFTRRYGEGCVEDIKMGN---CRDQSLYARVIVRSPAFITL---ILGEN 260 (283)
Q Consensus 196 d~RT~FvTFS~G~P--vse~Ei~~fFt~~~G~~cve~v~m~~---~~~qplfariVf~s~~~vd~---vL~g~ 260 (283)
|.-|+=|| ..+ .+|+|++|.|.. ||. |-+|+.-. +|...+||+|.|.|-+-..+ .|+|.
T Consensus 188 D~~tvRvt---NLsed~~E~dL~eLf~~-fg~--i~rvylardK~TG~~kGFAFVtF~sRddA~rAI~~LnG~ 254 (270)
T KOG0122|consen 188 DEATVRVT---NLSEDMREDDLEELFRP-FGP--ITRVYLARDKETGLSKGFAFVTFESRDDAARAIADLNGY 254 (270)
T ss_pred ccceeEEe---cCccccChhHHHHHhhc-cCc--cceeEEEEccccCcccceEEEEEecHHHHHHHHHHccCc
Confidence 44555442 333 789999999996 998 88888765 89999999999999776443 45653
No 50
>KOG4211 consensus Splicing factor hnRNP-F and related RNA-binding proteins [RNA processing and modification]
Probab=79.34 E-value=5.7 Score=40.81 Aligned_cols=71 Identities=23% Similarity=0.293 Sum_probs=56.8
Q ss_pred ceEEEEccCCcc--CCHHHHHHHHHhhhCCceeeEEEeec-CCCCCceEEEEecChHHHHHHhCC-------CCeeeEEE
Q 048589 198 RTLFATFSKGHP--ITRAELFEFFTRRYGEGCVEDIKMGN-CRDQSLYARVIVRSPAFITLILGE-------NELMQFNI 267 (283)
Q Consensus 198 RT~FvTFS~G~P--vse~Ei~~fFt~~~G~~cve~v~m~~-~~~qplfariVf~s~~~vd~vL~g-------~~~~kf~I 267 (283)
.+.|+.=-+|.| -|++||.+||.. .-||++..-. .+++..=|.|.|.|++-+...|.- .=..-|++
T Consensus 8 ~~~~~vr~rGLPwsat~~ei~~Ff~~----~~I~~~~~~r~~Gr~sGeA~Ve~~seedv~~AlkkdR~~mg~RYIEVf~~ 83 (510)
T KOG4211|consen 8 STAFEVRLRGLPWSATEKEILDFFSN----CGIENLEIPRRNGRPSGEAYVEFTSEEDVEKALKKDRESMGHRYIEVFTA 83 (510)
T ss_pred CcceEEEecCCCccccHHHHHHHHhc----CceeEEEEeccCCCcCcceEEEeechHHHHHHHHhhHHHhCCceEEEEcc
Confidence 466677779999 899999999986 3588888877 699999999999999999888752 23455777
Q ss_pred cCcee
Q 048589 268 HGKDV 272 (283)
Q Consensus 268 ngk~i 272 (283)
+++.+
T Consensus 84 ~~~e~ 88 (510)
T KOG4211|consen 84 GGAEA 88 (510)
T ss_pred CCccc
Confidence 77765
No 51
>KOG0107 consensus Alternative splicing factor SRp20/9G8 (RRM superfamily) [RNA processing and modification]
Probab=79.08 E-value=4.7 Score=36.64 Aligned_cols=56 Identities=20% Similarity=0.312 Sum_probs=44.0
Q ss_pred ceEEEEccCCcc--CCHHHHHHHHHhhhCCceeeEEEeecCCCCCceEEEEecChHH---HHHHhCCCC
Q 048589 198 RTLFATFSKGHP--ITRAELFEFFTRRYGEGCVEDIKMGNCRDQSLYARVIVRSPAF---ITLILGENE 261 (283)
Q Consensus 198 RT~FvTFS~G~P--vse~Ei~~fFt~~~G~~cve~v~m~~~~~qplfariVf~s~~~---vd~vL~g~~ 261 (283)
.-+|| .+.+ .++.||..-|.. ||+ +-.|-| .-.+|.||+|-|..+-- .-+.|+|..
T Consensus 11 ~kVYV---GnL~~~a~k~eLE~~F~~-yG~--lrsvWv--ArnPPGfAFVEFed~RDA~DAvr~LDG~~ 71 (195)
T KOG0107|consen 11 TKVYV---GNLGSRATKRELERAFSK-YGP--LRSVWV--ARNPPGFAFVEFEDPRDAEDAVRYLDGKD 71 (195)
T ss_pred ceEEe---ccCCCCcchHHHHHHHHh-cCc--ceeEEE--eecCCCceEEeccCcccHHHHHhhcCCcc
Confidence 34555 6666 999999999996 998 888888 45899999999987644 446788865
No 52
>KOG0129 consensus Predicted RNA-binding protein (RRM superfamily) [Translation, ribosomal structure and biogenesis]
Probab=79.05 E-value=4.8 Score=41.52 Aligned_cols=79 Identities=24% Similarity=0.339 Sum_probs=53.1
Q ss_pred ceEEEEccCCcc--CCHHHHHHHHHhhhCCceeeEEEe--ec-CCCC----CceEEEEecChHHHHHHhC----CCCeee
Q 048589 198 RTLFATFSKGHP--ITRAELFEFFTRRYGEGCVEDIKM--GN-CRDQ----SLYARVIVRSPAFITLILG----ENELMQ 264 (283)
Q Consensus 198 RT~FvTFS~G~P--vse~Ei~~fFt~~~G~~cve~v~m--~~-~~~q----plfariVf~s~~~vd~vL~----g~~~~k 264 (283)
|-.+..|.+|.| |+|++|...|.+ ||. |...=-- +. +..+ -+|..+||..+..|..+|. +..+..
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-FGS-VKVDWPGKANSRGRAPPKGSYGYVFLVFEDERSVQSLLSACSEGEGNYY 334 (520)
T ss_pred ccccceeecCCCccccHHHHHhhccc-ccc-eEeecCCCccccccCCCCCcccEEEEEecchHHHHHHHHHHhhcccceE
Confidence 345566779999 999999999997 998 6554331 11 1222 2499999999999888776 455566
Q ss_pred E-----EEcCceeEEEecc
Q 048589 265 F-----NIHGKDVRVRRFV 278 (283)
Q Consensus 265 f-----~Ingk~iWaRky~ 278 (283)
| +|.-|.+-.|-.+
T Consensus 335 f~vss~~~k~k~VQIrPW~ 353 (520)
T KOG0129|consen 335 FKVSSPTIKDKEVQIRPWV 353 (520)
T ss_pred EEEecCcccccceeEEeeE
Confidence 6 3344545554443
No 53
>PF15513 DUF4651: Domain of unknown function (DUF4651)
Probab=77.65 E-value=4 Score=30.97 Aligned_cols=34 Identities=24% Similarity=0.494 Sum_probs=29.5
Q ss_pred HHHHHHHHhhhCCceeeEEEeec--CCCCCceEEEEecC
Q 048589 213 AELFEFFTRRYGEGCVEDIKMGN--CRDQSLYARVIVRS 249 (283)
Q Consensus 213 ~Ei~~fFt~~~G~~cve~v~m~~--~~~qplfariVf~s 249 (283)
+|||+||.. .|+ |+.++++. ++...+=|=+||..
T Consensus 9 ~~iR~~fs~-lG~--I~vLYvn~~eS~~~~~~GGvV~eD 44 (62)
T PF15513_consen 9 AEIRQFFSQ-LGE--IAVLYVNPYESDEDRLTGGVVMED 44 (62)
T ss_pred HHHHHHHHh-cCc--EEEEEEcccccCCCeEeccEEEeC
Confidence 689999997 999 99999997 78888888888754
No 54
>KOG0125 consensus Ataxin 2-binding protein (RRM superfamily) [General function prediction only]
Probab=76.19 E-value=12 Score=36.99 Aligned_cols=78 Identities=21% Similarity=0.351 Sum_probs=55.1
Q ss_pred CCCCCCceEEEEccCCcc--CCHHHHHHHHHhhhCCceeeEEEeec-CCCCCceEEEEecChHHHHHH---hCCCCeeeE
Q 048589 192 NDADTDRTLFATFSKGHP--ITRAELFEFFTRRYGEGCVEDIKMGN-CRDQSLYARVIVRSPAFITLI---LGENELMQF 265 (283)
Q Consensus 192 ~~~~d~RT~FvTFS~G~P--vse~Ei~~fFt~~~G~~cve~v~m~~-~~~qplfariVf~s~~~vd~v---L~g~~~~kf 265 (283)
..+...|-+.| -..| .-+.|++.-|.+ ||. |-+|.+== -...-+||+|+|.+.+.-|+. |.|.
T Consensus 91 ~s~~~pkRLhV---SNIPFrFRdpDL~aMF~k-fG~--VldVEIIfNERGSKGFGFVTmen~~dadRARa~LHgt----- 159 (376)
T KOG0125|consen 91 SSKDTPKRLHV---SNIPFRFRDPDLRAMFEK-FGK--VLDVEIIFNERGSKGFGFVTMENPADADRARAELHGT----- 159 (376)
T ss_pred CCCCCCceeEe---ecCCccccCccHHHHHHh-hCc--eeeEEEEeccCCCCccceEEecChhhHHHHHHHhhcc-----
Confidence 34455566766 4455 778999999996 997 44444432 234568999999999998775 4553
Q ss_pred EEcCceeEEEecccC
Q 048589 266 NIHGKDVRVRRFVPK 280 (283)
Q Consensus 266 ~Ingk~iWaRky~pk 280 (283)
.|.||.|.++..-++
T Consensus 160 ~VEGRkIEVn~ATar 174 (376)
T KOG0125|consen 160 VVEGRKIEVNNATAR 174 (376)
T ss_pred eeeceEEEEeccchh
Confidence 689999988876543
No 55
>KOG0148 consensus Apoptosis-promoting RNA-binding protein TIA-1/TIAR (RRM superfamily) [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=76.14 E-value=11 Score=36.43 Aligned_cols=67 Identities=13% Similarity=0.285 Sum_probs=49.8
Q ss_pred CCCCCCceEEEEccCCcc--CCHHHHHHHHHhhhCCceeeEEEeecCCCCCceEEEEecChHHHHHHh---CCCCeeeEE
Q 048589 192 NDADTDRTLFATFSKGHP--ITRAELFEFFTRRYGEGCVEDIKMGNCRDQSLYARVIVRSPAFITLIL---GENELMQFN 266 (283)
Q Consensus 192 ~~~~d~RT~FvTFS~G~P--vse~Ei~~fFt~~~G~~cve~v~m~~~~~qplfariVf~s~~~vd~vL---~g~~~~kf~ 266 (283)
..++|.-|+|+ +|.+ ++|+++++-|.. ||+ |..|.+=+ .-.||+|=|.+.+...+.. ||. .
T Consensus 159 Qssp~NtsVY~---G~I~~~lte~~mr~~Fs~-fG~--I~EVRvFk---~qGYaFVrF~tkEaAahAIv~mNnt-----e 224 (321)
T KOG0148|consen 159 QSSPDNTSVYV---GNIASGLTEDLMRQTFSP-FGP--IQEVRVFK---DQGYAFVRFETKEAAAHAIVQMNNT-----E 224 (321)
T ss_pred cCCCCCceEEe---CCcCccccHHHHHHhccc-CCc--ceEEEEec---ccceEEEEecchhhHHHHHHHhcCc-----e
Confidence 35778889988 8887 999999999997 999 66666633 3479999999987754433 232 4
Q ss_pred EcCcee
Q 048589 267 IHGKDV 272 (283)
Q Consensus 267 Ingk~i 272 (283)
|+|..|
T Consensus 225 i~G~~V 230 (321)
T KOG0148|consen 225 IGGQLV 230 (321)
T ss_pred eCceEE
Confidence 666655
No 56
>KOG0127 consensus Nucleolar protein fibrillarin NOP77 (RRM superfamily) [RNA processing and modification]
Probab=74.51 E-value=5 Score=42.00 Aligned_cols=74 Identities=23% Similarity=0.271 Sum_probs=54.0
Q ss_pred ceEEEEccCCcc--CCHHHHHHHHHhhhCCceeeEEEeec--CCCCCceEEEEecChHHHHHHhCCCCeeeEEEcCceeE
Q 048589 198 RTLFATFSKGHP--ITRAELFEFFTRRYGEGCVEDIKMGN--CRDQSLYARVIVRSPAFITLILGENELMQFNIHGKDVR 273 (283)
Q Consensus 198 RT~FvTFS~G~P--vse~Ei~~fFt~~~G~~cve~v~m~~--~~~qplfariVf~s~~~vd~vL~g~~~~kf~Ingk~iW 273 (283)
-|||| ++.| ++.+++.+||.. .|+ .--.+.+-+ .++-++||.|.|.-.+-+.+.|.-...- ..+|+.+-
T Consensus 6 ~TlfV---~~lp~~~~~~qL~e~FS~-vGP-ik~~~vVt~~gs~~~RGfgfVtFam~ED~qrA~~e~~~~--kf~Gr~l~ 78 (678)
T KOG0127|consen 6 ATLFV---SRLPFSSTGEQLEEFFSY-VGP-IKHAVVVTNKGSSEKRGFGFVTFAMEEDVQRALAETEQS--KFEGRILN 78 (678)
T ss_pred ceEEE---ecCCCccchhHHHHhhhc-ccC-cceeEEecCCCcccccCccceeeehHhHHHHHHHHhhcC--cccceecc
Confidence 58988 5555 999999999997 897 555555555 5789999999999999999988743322 24566554
Q ss_pred EEecc
Q 048589 274 VRRFV 278 (283)
Q Consensus 274 aRky~ 278 (283)
+....
T Consensus 79 v~~A~ 83 (678)
T KOG0127|consen 79 VDPAK 83 (678)
T ss_pred ccccc
Confidence 44333
No 57
>KOG0121 consensus Nuclear cap-binding protein complex, subunit CBP20 (RRM superfamily) [RNA processing and modification]
Probab=72.08 E-value=8 Score=33.78 Aligned_cols=56 Identities=20% Similarity=0.269 Sum_probs=44.0
Q ss_pred CCceEEEEccCC--ccCCHHHHHHHHHhhhCCceeeEEEeec---CCCCCceEEEEecChHHHHHHh
Q 048589 196 TDRTLFATFSKG--HPITRAELFEFFTRRYGEGCVEDIKMGN---CRDQSLYARVIVRSPAFITLIL 257 (283)
Q Consensus 196 d~RT~FvTFS~G--~Pvse~Ei~~fFt~~~G~~cve~v~m~~---~~~qplfariVf~s~~~vd~vL 257 (283)
..-|+|| .. +-.+|++|.|.|.+ .|+ |-+|.|.= ...+=+|++|.|-|.+.....|
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 3447776 33 23899999999997 999 99999974 6888999999999887654443
No 58
>KOG4211 consensus Splicing factor hnRNP-F and related RNA-binding proteins [RNA processing and modification]
Probab=71.34 E-value=4.7 Score=41.38 Aligned_cols=61 Identities=28% Similarity=0.361 Sum_probs=45.5
Q ss_pred CCcc--CCHHHHHHHHHhhhCCceeeE---EEeecCCCCCceEEEEecChHHHHHHhCCCCeeeEEEcCcee
Q 048589 206 KGHP--ITRAELFEFFTRRYGEGCVED---IKMGNCRDQSLYARVIVRSPAFITLILGENELMQFNIHGKDV 272 (283)
Q Consensus 206 ~G~P--vse~Ei~~fFt~~~G~~cve~---v~m~~~~~qplfariVf~s~~~vd~vL~g~~~~kf~Ingk~i 272 (283)
||.| +||+||.+||.- . + .|.. ..|+..+++.+=|.|.|.|++.+...|...+ ..|+.+=|
T Consensus 109 RGLPfscte~dI~~FFaG-L-~-Iv~~gi~l~~d~rgR~tGEAfVqF~sqe~ae~Al~rhr---e~iGhRYI 174 (510)
T KOG4211|consen 109 RGLPFSCTEEDIVEFFAG-L-E-IVPDGILLPMDQRGRPTGEAFVQFESQESAEIALGRHR---ENIGHRYI 174 (510)
T ss_pred cCCCccCcHHHHHHHhcC-C-c-ccccceeeeccCCCCcccceEEEecCHHHHHHHHHHHH---HhhccceE
Confidence 8999 999999999984 1 2 4545 4455567788899999999999999997532 24554433
No 59
>TIGR03147 cyt_nit_nrfF cytochrome c nitrite reductase, accessory protein NrfF.
Probab=70.59 E-value=3.2 Score=35.43 Aligned_cols=21 Identities=19% Similarity=0.540 Sum_probs=17.8
Q ss_pred CCHHHHHHHHHhhhCCceeeEEEee
Q 048589 210 ITRAELFEFFTRRYGEGCVEDIKMG 234 (283)
Q Consensus 210 vse~Ei~~fFt~~~G~~cve~v~m~ 234 (283)
-|++||++||..+||| -|.++
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 60
>KOG4454 consensus RNA binding protein (RRM superfamily) [General function prediction only]
Probab=69.65 E-value=3.2 Score=39.01 Aligned_cols=63 Identities=24% Similarity=0.355 Sum_probs=46.8
Q ss_pred CCCCCCCceEEEE-ccCCccCCHHHHHHHHHhhhCCceeeEEEeec--CCCCCceEEEEecChHHH---HHHhCC
Q 048589 191 ANDADTDRTLFAT-FSKGHPITRAELFEFFTRRYGEGCVEDIKMGN--CRDQSLYARVIVRSPAFI---TLILGE 259 (283)
Q Consensus 191 ~~~~~d~RT~FvT-FS~G~Pvse~Ei~~fFt~~~G~~cve~v~m~~--~~~qplfariVf~s~~~v---d~vL~g 259 (283)
+..+|.|||+||. |+.| |||+=+.|.|-. =|+ |.+|.+.+ -++|+ ||.|-|..+-.| -.++||
T Consensus 3 aaaae~drtl~v~n~~~~--v~eelL~Elfiq-aGP--V~kv~ip~~~d~~~k-Fa~v~f~~E~sv~~a~~L~ng 71 (267)
T KOG4454|consen 3 AAAAEMDRTLLVQNMYSG--VSEELLSELFIQ-AGP--VYKVGIPSGQDQEQK-FAYVFFPNENSVQLAGQLENG 71 (267)
T ss_pred CCCcchhhHHHHHhhhhh--hhHHHHHHHhhc-cCc--eEEEeCCCCccCCCc-eeeeecccccchhhhhhhccc
Confidence 3568899999882 2222 899999999997 677 77888887 34555 999999877664 455666
No 61
>KOG0148 consensus Apoptosis-promoting RNA-binding protein TIA-1/TIAR (RRM superfamily) [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=69.01 E-value=18 Score=35.11 Aligned_cols=74 Identities=16% Similarity=0.198 Sum_probs=53.1
Q ss_pred CCceEEEEccCCcc--CCHHHHHHHHHhhhCCceeeEEEeec--CCCCCceEEEEecChHHHHHHh---CCCCeeeEEEc
Q 048589 196 TDRTLFATFSKGHP--ITRAELFEFFTRRYGEGCVEDIKMGN--CRDQSLYARVIVRSPAFITLIL---GENELMQFNIH 268 (283)
Q Consensus 196 d~RT~FvTFS~G~P--vse~Ei~~fFt~~~G~~cve~v~m~~--~~~qplfariVf~s~~~vd~vL---~g~~~~kf~In 268 (283)
+-|.-|=-|..-+- |+-+.+++=|+. ||+ +-|+=.+.+ ++..-+||+|-|-..+-..... || . +|.
T Consensus 58 t~~~hfhvfvgdls~eI~~e~lr~aF~p-FGe-vS~akvirD~~T~KsKGYgFVSf~~k~dAEnAI~~MnG-q----WlG 130 (321)
T KOG0148|consen 58 TSNQHFHVFVGDLSPEIDNEKLREAFAP-FGE-VSDAKVIRDMNTGKSKGYGFVSFPNKEDAENAIQQMNG-Q----WLG 130 (321)
T ss_pred ccccceeEEehhcchhcchHHHHHHhcc-ccc-cccceEeecccCCcccceeEEeccchHHHHHHHHHhCC-e----eec
Confidence 33434444444333 899999999996 998 777777777 8999999999998877655544 44 3 677
Q ss_pred Ccee---EEEe
Q 048589 269 GKDV---RVRR 276 (283)
Q Consensus 269 gk~i---WaRk 276 (283)
+|.| ||-|
T Consensus 131 ~R~IRTNWATR 141 (321)
T KOG0148|consen 131 RRTIRTNWATR 141 (321)
T ss_pred cceeecccccc
Confidence 7776 6643
No 62
>PF14605 Nup35_RRM_2: Nup53/35/40-type RNA recognition motif
Probab=67.23 E-value=20 Score=25.64 Aligned_cols=46 Identities=26% Similarity=0.398 Sum_probs=33.8
Q ss_pred CCccCCHH-HHHHHHHhhhCCceeeEEEeecCCCCCceEEEEecChHHHHHHh
Q 048589 206 KGHPITRA-ELFEFFTRRYGEGCVEDIKMGNCRDQSLYARVIVRSPAFITLIL 257 (283)
Q Consensus 206 ~G~Pvse~-Ei~~fFt~~~G~~cve~v~m~~~~~qplfariVf~s~~~vd~vL 257 (283)
.|||-+.. +|.+||.. +|+ |+++.. +..+.+..|-|++.......|
T Consensus 7 ~Gf~~~~~~~vl~~F~~-fGe--I~~~~~---~~~~~~~~l~y~~~~~ae~Al 53 (53)
T PF14605_consen 7 SGFPPDLAEEVLEHFAS-FGE--IVDIYV---PESTNWMYLKYKSRKDAEKAL 53 (53)
T ss_pred EeECchHHHHHHHHHHh-cCC--EEEEEc---CCCCcEEEEEECCHHHHHhhC
Confidence 57886554 58999996 999 777665 356778889998887765543
No 63
>PRK10144 formate-dependent nitrite reductase complex subunit NrfF; Provisional
Probab=66.07 E-value=4.5 Score=34.55 Aligned_cols=21 Identities=24% Similarity=0.602 Sum_probs=17.8
Q ss_pred CCHHHHHHHHHhhhCCceeeEEEee
Q 048589 210 ITRAELFEFFTRRYGEGCVEDIKMG 234 (283)
Q Consensus 210 vse~Ei~~fFt~~~G~~cve~v~m~ 234 (283)
-|++||++||..+||| -|.++
T Consensus 74 ~sd~eI~~~~v~RYG~----~Vl~~ 94 (126)
T PRK10144 74 KSEVEIIGWMTERYGD----FVRYN 94 (126)
T ss_pred CCHHHHHHHHHHhcCC----eEEec
Confidence 5899999999999999 55553
No 64
>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=65.71 E-value=6.6 Score=31.90 Aligned_cols=65 Identities=26% Similarity=0.445 Sum_probs=35.1
Q ss_pred EEcc-CCccCCHHHHHHHHHhhhCCceeeEEEeecCCCCCceEEEEecChHHHHHHhCCCCee---eEEEcCcee
Q 048589 202 ATFS-KGHPITRAELFEFFTRRYGEGCVEDIKMGNCRDQSLYARVIVRSPAFITLILGENELM---QFNIHGKDV 272 (283)
Q Consensus 202 vTFS-~G~Pvse~Ei~~fFt~~~G~~cve~v~m~~~~~qplfariVf~s~~~vd~vL~g~~~~---kf~Ingk~i 272 (283)
|-|+ -+-|+++++|++.|.+ ||+ |.-|.+++ ...-|.|=|++++....++..-... ++.|+|..+
T Consensus 4 l~~~g~~~~~~re~iK~~f~~-~g~--V~yVD~~~---G~~~g~VRf~~~~~A~~a~~~~~~~~~~~~~i~~~~~ 72 (105)
T PF08777_consen 4 LKFSGLGEPTSREDIKEAFSQ-FGE--VAYVDFSR---GDTEGYVRFKTPEAAQKALEKLKEANDGKLKIKGKEV 72 (105)
T ss_dssp EEEEE--SS--HHHHHHHT-S-S----EEEEE--T---T-SEEEEEESS---HHHHHHHHHHTTTS-B-TTSSSE
T ss_pred EEEecCCCCcCHHHHHHHHHh-cCC--cceEEecC---CCCEEEEEECCcchHHHHHHHHHhccCCceEEcCceE
Confidence 5666 5778999999999997 997 88888866 3335899999996655555432222 456666544
No 65
>KOG0126 consensus Predicted RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=64.87 E-value=2.5 Score=38.71 Aligned_cols=65 Identities=22% Similarity=0.385 Sum_probs=46.7
Q ss_pred ccCCcc--CCHHHHHHHHHhhhCCceeeEEEeec--CCCCCceEEEEecChHHHHHHhCCCCeeeEEEcCcee
Q 048589 204 FSKGHP--ITRAELFEFFTRRYGEGCVEDIKMGN--CRDQSLYARVIVRSPAFITLILGENELMQFNIHGKDV 272 (283)
Q Consensus 204 FS~G~P--vse~Ei~~fFt~~~G~~cve~v~m~~--~~~qplfariVf~s~~~vd~vL~g~~~~kf~Ingk~i 272 (283)
|-+|.| +||.+|.--|.+ ||+ .|.-..|.+ +|..-+||++....+-. -||.=.+---+.|.|+-+
T Consensus 39 yiggl~~~LtEgDil~VFSq-yGe-~vdinLiRDk~TGKSKGFaFLcYEDQRS--TILAVDN~NGiki~gRti 107 (219)
T KOG0126|consen 39 YIGGLPYELTEGDILCVFSQ-YGE-IVDINLIRDKKTGKSKGFAFLCYEDQRS--TILAVDNLNGIKILGRTI 107 (219)
T ss_pred EECCCcccccCCcEEEEeec-cCc-eEEEEEEecCCCCcccceEEEEecCccc--eEEEEeccCCceecceeE
Confidence 449988 999999999997 999 777777877 99999999999876543 133211222245666654
No 66
>KOG0123 consensus Polyadenylate-binding protein (RRM superfamily) [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=64.79 E-value=15 Score=36.25 Aligned_cols=64 Identities=27% Similarity=0.310 Sum_probs=48.3
Q ss_pred eEEEEccCCccCCHHHHHHHHHhhhCCceeeEEEeec-CCCCCceEEEEecChHHHHHHhCCCCeeeEEEcCcee
Q 048589 199 TLFATFSKGHPITRAELFEFFTRRYGEGCVEDIKMGN-CRDQSLYARVIVRSPAFITLILGENELMQFNIHGKDV 272 (283)
Q Consensus 199 T~FvTFS~G~Pvse~Ei~~fFt~~~G~~cve~v~m~~-~~~qplfariVf~s~~~vd~vL~g~~~~kf~Ingk~i 272 (283)
++|++ .-+||+.+++.|+. +|+ |.+|.+=. .. .-+||.+-|.+++-..+.|.-.+ .=.|+||.+
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--VLSIRVCRDAT-SLGYAYVNFQQPADAERALDTMN--FDVLKGKPI 67 (369)
T ss_pred ceecC----CcCChHHHHHHhcc-cCC--ceeEEEeecCC-ccceEEEecCCHHHHHHHHHHcC--CcccCCcEE
Confidence 46665 44999999999997 998 55555544 43 88999999999999988887322 116788876
No 67
>KOG2971 consensus RNA-binding protein required for biogenesis of the ribosomal 60S subunit [Translation, ribosomal structure and biogenesis]
Probab=63.77 E-value=9.3 Score=36.57 Aligned_cols=64 Identities=20% Similarity=0.390 Sum_probs=48.2
Q ss_pred CCCCCCceEEEEccCCcc-CCHHH-HHHHHHhhhCCceeeEEEeecCCCCCceEEEEecChHHHHHHhCCCCeeeEEEcC
Q 048589 192 NDADTDRTLFATFSKGHP-ITRAE-LFEFFTRRYGEGCVEDIKMGNCRDQSLYARVIVRSPAFITLILGENELMQFNIHG 269 (283)
Q Consensus 192 ~~~~d~RT~FvTFS~G~P-vse~E-i~~fFt~~~G~~cve~v~m~~~~~qplfariVf~s~~~vd~vL~g~~~~kf~Ing 269 (283)
.--.++|-+ ++||+.+- +.... ++|.++..||- |...| +|..++|+|+ .|+|-.
T Consensus 147 N~lkgsrpl-LsFd~~Fd~~pHlkl~Kell~q~fgi----------P~~hr-------kSkpf~Dhvf------~Fsi~D 202 (299)
T KOG2971|consen 147 NCLKGSRPL-LSFDKAFDELPHLKLLKELLEQIFGI----------PKHHR-------KSKPFVDHVF------TFSILD 202 (299)
T ss_pred ccccCCcce-eecccccccchHHHHHHHHHHHHcCC----------CCCCc-------ccCCccceEE------EEEEec
Confidence 445778999 99999886 44444 48999999995 33333 5777788765 578888
Q ss_pred ceeEEEeccc
Q 048589 270 KDVRVRRFVP 279 (283)
Q Consensus 270 k~iWaRky~p 279 (283)
.+||.|.|.=
T Consensus 203 ~~IWfRnyqI 212 (299)
T KOG2971|consen 203 GKIWFRNYQI 212 (299)
T ss_pred CeEEEEEeEe
Confidence 9999999974
No 68
>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=63.51 E-value=24 Score=28.72 Aligned_cols=54 Identities=15% Similarity=0.304 Sum_probs=38.9
Q ss_pred Ccc-CCHHHHHHHHHhhhCCceeeEEEeec---------CCCCCceEEEEecChHHHHHHhCCCCe
Q 048589 207 GHP-ITRAELFEFFTRRYGEGCVEDIKMGN---------CRDQSLYARVIVRSPAFITLILGENEL 262 (283)
Q Consensus 207 G~P-vse~Ei~~fFt~~~G~~cve~v~m~~---------~~~qplfariVf~s~~~vd~vL~g~~~ 262 (283)
||| -....|.++|.+ ||+ ++|.+.+-+ .....-.-+|.|+++....+.|.-+.+
T Consensus 13 Gfp~~~~~~Vl~~F~~-~G~-Ile~~~~~~~~~~~~~~~~~~~~NWi~I~Y~~~~~A~rAL~~NG~ 76 (100)
T PF05172_consen 13 GFPPSASNQVLRHFSS-FGT-ILEHFEVLRSSSGINPYPIPSGGNWIHITYDNPLSAQRALQKNGT 76 (100)
T ss_dssp ---GGGHHHHHHHHHC-CS--EECEEGGG----------E-CCTTEEEEEESSHHHHHHHHTTTTE
T ss_pred ccCHHHHHHHHHHHHh-cce-EEEeecccccccccccccCCCCCCEEEEECCCHHHHHHHHHhCCe
Confidence 788 456778999997 999 998885433 256788999999999999999985543
No 69
>PF03918 CcmH: Cytochrome C biogenesis protein; InterPro: IPR005616 Members of this family include NrfF, CcmH, CycL, Ccl2.; PDB: 2KW0_A 2HL7_A.
Probab=62.79 E-value=4.8 Score=34.91 Aligned_cols=16 Identities=38% Similarity=0.924 Sum_probs=13.8
Q ss_pred CCHHHHHHHHHhhhCC
Q 048589 210 ITRAELFEFFTRRYGE 225 (283)
Q Consensus 210 vse~Ei~~fFt~~~G~ 225 (283)
.|++||++||..+||+
T Consensus 74 ~s~~eI~~~~v~rYG~ 89 (148)
T PF03918_consen 74 KSDEEIIDYFVERYGE 89 (148)
T ss_dssp --HHHHHHHHHHHHTT
T ss_pred CCHHHHHHHHHHhcCc
Confidence 5899999999999998
No 70
>KOG0146 consensus RNA-binding protein ETR-3 (RRM superfamily) [RNA processing and modification]
Probab=61.79 E-value=9.9 Score=36.84 Aligned_cols=60 Identities=18% Similarity=0.239 Sum_probs=0.0
Q ss_pred CCCCceEEEEccC--CccCCHHHHHHHHHhhhCCceeeEEEeec--CCCCCceEEEEecChHHHHHHhCC
Q 048589 194 ADTDRTLFATFSK--GHPITRAELFEFFTRRYGEGCVEDIKMGN--CRDQSLYARVIVRSPAFITLILGE 259 (283)
Q Consensus 194 ~~d~RT~FvTFS~--G~Pvse~Ei~~fFt~~~G~~cve~v~m~~--~~~qplfariVf~s~~~vd~vL~g 259 (283)
+.|||.+|| + +.--+||||+..|.- ||+ ||.+.+-+ -+..-+.|+|-|.|........++
T Consensus 16 g~~drklfv---gml~kqq~e~dvrrlf~p-fG~--~~e~tvlrg~dg~sKGCAFVKf~s~~eAqaAI~a 79 (371)
T KOG0146|consen 16 GGDDRKLFV---GMLNKQQSEDDVRRLFQP-FGN--IEECTVLRGPDGNSKGCAFVKFSSHAEAQAAINA 79 (371)
T ss_pred Cccchhhhh---hhhcccccHHHHHHHhcc-cCC--cceeEEecCCCCCCCCceEEEeccchHHHHHHHH
No 71
>KOG0533 consensus RRM motif-containing protein [RNA processing and modification]
Probab=60.19 E-value=16 Score=34.37 Aligned_cols=55 Identities=20% Similarity=0.214 Sum_probs=43.0
Q ss_pred CCCc-eEEEEccC-CccCCHHHHHHHHHhhhCCceeeEEEeec--CCCCCceEEEEecChHHH
Q 048589 195 DTDR-TLFATFSK-GHPITRAELFEFFTRRYGEGCVEDIKMGN--CRDQSLYARVIVRSPAFI 253 (283)
Q Consensus 195 ~d~R-T~FvTFS~-G~Pvse~Ei~~fFt~~~G~~cve~v~m~~--~~~qplfariVf~s~~~v 253 (283)
.+.| |. +.+|+ -|-|++++|+|+|+. ||. ++.|.++- .++.-.-|-|+|...+-.
T Consensus 79 ~~~~~~~-v~v~NL~~~V~~~Dl~eLF~~-~~~--~~r~~vhy~~~G~s~Gta~v~~~r~~DA 137 (243)
T KOG0533|consen 79 NETRSTK-VNVSNLPYGVIDADLKELFAE-FGE--LKRVAVHYDRAGRSLGTADVSFNRRDDA 137 (243)
T ss_pred cCCCcce-eeeecCCcCcchHHHHHHHHH-hcc--ceEEeeccCCCCCCCccceeeecchHhH
Confidence 4455 44 77776 556999999999998 986 77777775 788889999999987443
No 72
>KOG4208 consensus Nucleolar RNA-binding protein NIFK [General function prediction only]
Probab=55.95 E-value=34 Score=31.73 Aligned_cols=48 Identities=19% Similarity=0.406 Sum_probs=38.5
Q ss_pred EccCCcc--CCHHHHHHHHHhhhCCceeeEEEeec---CCCCCceEEEEecChHH
Q 048589 203 TFSKGHP--ITRAELFEFFTRRYGEGCVEDIKMGN---CRDQSLYARVIVRSPAF 252 (283)
Q Consensus 203 TFS~G~P--vse~Ei~~fFt~~~G~~cve~v~m~~---~~~qplfariVf~s~~~ 252 (283)
+.++..| +.|.++..||.+ +|. .+-++.|-+ +|-.-.||+|=|.|++.
T Consensus 52 ~~~~~~p~g~~e~~~~~~~~q-~~g-~v~r~rlsRnkrTGNSKgYAFVEFEs~eV 104 (214)
T KOG4208|consen 52 VYVDHIPHGFFETEILNYFRQ-FGG-TVTRFRLSRNKRTGNSKGYAFVEFESEEV 104 (214)
T ss_pred eeecccccchhHHHHhhhhhh-cCC-eeEEEEeecccccCCcCceEEEEeccHHH
Confidence 4445555 889999999998 543 488888844 89999999999999875
No 73
>PF10309 DUF2414: Protein of unknown function (DUF2414); InterPro: IPR019416 This entry contains proteins that have no known function.
Probab=55.69 E-value=37 Score=25.56 Aligned_cols=46 Identities=20% Similarity=0.341 Sum_probs=32.2
Q ss_pred CCcc-CCHHHHHHHHHhhh---CCceeeEEEeecCCCCCceEEEEecChHHHHHHhC
Q 048589 206 KGHP-ITRAELFEFFTRRY---GEGCVEDIKMGNCRDQSLYARVIVRSPAFITLILG 258 (283)
Q Consensus 206 ~G~P-vse~Ei~~fFt~~~---G~~cve~v~m~~~~~qplfariVf~s~~~vd~vL~ 258 (283)
+|.- +|-+||+.||...| ++..||=|. ..+ +-|||.++.+..+.|.
T Consensus 11 rGvd~lsT~dI~~y~~~y~~~~~~~~IEWId-----DtS--cNvvf~d~~~A~~AL~ 60 (62)
T PF10309_consen 11 RGVDELSTDDIKAYFSEYFDEEGPFRIEWID-----DTS--CNVVFKDEETAARALV 60 (62)
T ss_pred EcCCCCCHHHHHHHHHHhcccCCCceEEEec-----CCc--EEEEECCHHHHHHHHH
Confidence 5544 89999999999854 332344332 233 8999999999877763
No 74
>KOG0123 consensus Polyadenylate-binding protein (RRM superfamily) [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=55.05 E-value=65 Score=31.79 Aligned_cols=70 Identities=23% Similarity=0.301 Sum_probs=49.6
Q ss_pred EccCCcc--CCHHHHHHHHHhhhCCceeeEEEe-ecCCCCCceEEEEecChHHHHH---HhCCCCeeeEEEcCceeEEEe
Q 048589 203 TFSKGHP--ITRAELFEFFTRRYGEGCVEDIKM-GNCRDQSLYARVIVRSPAFITL---ILGENELMQFNIHGKDVRVRR 276 (283)
Q Consensus 203 TFS~G~P--vse~Ei~~fFt~~~G~~cve~v~m-~~~~~qplfariVf~s~~~vd~---vL~g~~~~kf~Ingk~iWaRk 276 (283)
.|-+..+ ++-.++.++|.. ||. |.++-. -+.+....| +|-|.+++..+. -|||. ..+||.+.+=.
T Consensus 79 ~~i~nl~~~~~~~~~~d~f~~-~g~--ilS~kv~~~~~g~kg~-FV~f~~e~~a~~ai~~~ng~-----ll~~kki~vg~ 149 (369)
T KOG0123|consen 79 VFIKNLDESIDNKSLYDTFSE-FGN--ILSCKVATDENGSKGY-FVQFESEESAKKAIEKLNGM-----LLNGKKIYVGL 149 (369)
T ss_pred eeecCCCcccCcHHHHHHHHh-hcC--eeEEEEEEcCCCceee-EEEeCCHHHHHHHHHHhcCc-----ccCCCeeEEee
Confidence 3447777 999999999997 998 444433 332336666 999999988443 45564 57899998877
Q ss_pred cccCC
Q 048589 277 FVPKR 281 (283)
Q Consensus 277 y~pk~ 281 (283)
+.+|.
T Consensus 150 ~~~~~ 154 (369)
T KOG0123|consen 150 FERKE 154 (369)
T ss_pred ccchh
Confidence 77653
No 75
>PF15023 DUF4523: Protein of unknown function (DUF4523)
Probab=51.18 E-value=22 Score=31.62 Aligned_cols=55 Identities=18% Similarity=0.270 Sum_probs=36.8
Q ss_pred HHHhhhCCceeeEEEeecCCCCCceEEEEecChHHHHHHhCCCCeeeEEEcCce---eEEEecccCC
Q 048589 218 FFTRRYGEGCVEDIKMGNCRDQSLYARVIVRSPAFITLILGENELMQFNIHGKD---VRVRRFVPKR 281 (283)
Q Consensus 218 fFt~~~G~~cve~v~m~~~~~qplfariVf~s~~~vd~vL~g~~~~kf~Ingk~---iWaRky~pk~ 281 (283)
++-..||+ |++|.+ .|+|. |.|||+.....=...+.-+. ..-|.- -|-++|+.|+
T Consensus 109 ~~Ls~fGp--I~SVT~--cGrqs--avVvF~d~~SAC~Av~Af~s---~~pgtm~qCsWqqrFMskd 166 (166)
T PF15023_consen 109 QRLSVFGP--IQSVTL--CGRQS--AVVVFKDITSACKAVSAFQS---RAPGTMFQCSWQQRFMSKD 166 (166)
T ss_pred HHHHhcCC--cceeee--cCCce--EEEEehhhHHHHHHHHhhcC---CCCCceEEeecccccccCC
Confidence 44557999 999999 89998 99999987764444442111 122332 3888887764
No 76
>KOG0147 consensus Transcriptional coactivator CAPER (RRM superfamily) [Transcription]
Probab=48.47 E-value=24 Score=36.74 Aligned_cols=56 Identities=16% Similarity=0.291 Sum_probs=44.8
Q ss_pred cCCHHHHHHHHHhhhCCceeeEEEeec---CCCCCceEEEEecChHHHH---HHhCCCCeeeEEEcCcee
Q 048589 209 PITRAELFEFFTRRYGEGCVEDIKMGN---CRDQSLYARVIVRSPAFIT---LILGENELMQFNIHGKDV 272 (283)
Q Consensus 209 Pvse~Ei~~fFt~~~G~~cve~v~m~~---~~~qplfariVf~s~~~vd---~vL~g~~~~kf~Ingk~i 272 (283)
-++|+.++.-|+- ||. ||.|..+. +|+..+||.|.|....--. ..||| |.|-|+-|
T Consensus 289 Nite~~lr~ifep-fg~--Ie~v~l~~d~~tG~skgfGfi~f~~~~~ar~a~e~lng-----felAGr~i 350 (549)
T KOG0147|consen 289 NITEDMLRGIFEP-FGK--IENVQLTKDSETGRSKGFGFITFVNKEDARKALEQLNG-----FELAGRLI 350 (549)
T ss_pred CchHHHHhhhccC-ccc--ceeeeeccccccccccCcceEEEecHHHHHHHHHHhcc-----ceecCceE
Confidence 3999999999997 998 88888775 8999999999999877643 45666 45555554
No 77
>KOG0117 consensus Heterogeneous nuclear ribonucleoprotein R (RRM superfamily) [RNA processing and modification]
Probab=46.74 E-value=68 Score=33.09 Aligned_cols=60 Identities=18% Similarity=0.131 Sum_probs=48.4
Q ss_pred CCCCCCceEEEEccCCcc--CCHHHHHHHHHhhhCCceeeEEEeec----CCCCCceEEEEecChHHHHHH
Q 048589 192 NDADTDRTLFATFSKGHP--ITRAELFEFFTRRYGEGCVEDIKMGN----CRDQSLYARVIVRSPAFITLI 256 (283)
Q Consensus 192 ~~~~d~RT~FvTFS~G~P--vse~Ei~~fFt~~~G~~cve~v~m~~----~~~qplfariVf~s~~~vd~v 256 (283)
.++.+.--||| ++.| -+++||.+=+.+ -|+ =|++|++.. ..+-++||+|-+-|..+.+..
T Consensus 159 c~Svan~RLFi---G~IPK~k~keeIlee~~k-Vte-GVvdVivy~~p~dk~KNRGFaFveYe~H~~Aa~a 224 (506)
T KOG0117|consen 159 CVSVANCRLFI---GNIPKTKKKEEILEEMKK-VTE-GVVDVIVYPSPDDKTKNRGFAFVEYESHRAAAMA 224 (506)
T ss_pred EEeeecceeEe---ccCCccccHHHHHHHHHh-hCC-CeeEEEEecCccccccccceEEEEeecchhHHHH
Confidence 46677777888 9999 889999999986 898 567777765 467799999999998875544
No 78
>KOG0145 consensus RNA-binding protein ELAV/HU (RRM superfamily) [RNA processing and modification]
Probab=43.99 E-value=73 Score=30.99 Aligned_cols=61 Identities=25% Similarity=0.275 Sum_probs=46.9
Q ss_pred CCCCCceEEEEccCCcc--CCHHHHHHHHHhhhCCceeeEEEeec---CCCCCceEEEEecChHHHHHHhC
Q 048589 193 DADTDRTLFATFSKGHP--ITRAELFEFFTRRYGEGCVEDIKMGN---CRDQSLYARVIVRSPAFITLILG 258 (283)
Q Consensus 193 ~~~d~RT~FvTFS~G~P--vse~Ei~~fFt~~~G~~cve~v~m~~---~~~qplfariVf~s~~~vd~vL~ 258 (283)
..+|.||=-| .+=.| +|+||++..|.. -|+ ||+...-+ .++.=+||+|-.-.+.-.++..+
T Consensus 36 ~t~~skTNLI--vNYLPQ~MTqdE~rSLF~S-iGe--iEScKLvRDKitGqSLGYGFVNYv~p~DAe~Ain 101 (360)
T KOG0145|consen 36 DTDESKTNLI--VNYLPQNMTQDELRSLFGS-IGE--IESCKLVRDKITGQSLGYGFVNYVRPKDAEKAIN 101 (360)
T ss_pred CcCcccceee--eeecccccCHHHHHHHhhc-ccc--eeeeeeeeccccccccccceeeecChHHHHHHHh
Confidence 4567777644 24455 999999999998 898 88887654 89999999999888777665543
No 79
>KOG0111 consensus Cyclophilin-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]
Probab=41.98 E-value=24 Score=33.40 Aligned_cols=54 Identities=22% Similarity=0.361 Sum_probs=43.8
Q ss_pred CCCCCceEEEEccCCcc--CCHHHHHHHHHhhhCCceeeEEEeec---CCCCCceEEEEecChHH
Q 048589 193 DADTDRTLFATFSKGHP--ITRAELFEFFTRRYGEGCVEDIKMGN---CRDQSLYARVIVRSPAF 252 (283)
Q Consensus 193 ~~~d~RT~FvTFS~G~P--vse~Ei~~fFt~~~G~~cve~v~m~~---~~~qplfariVf~s~~~ 252 (283)
..-+.||+|| +|.. |+|.=+..-|-- ||| |.+|.|.- +++.+.||+|.|.-.+-
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 4567899998 8987 787777777876 999 88888863 78899999999976544
No 80
>KOG0106 consensus Alternative splicing factor SRp55/B52/SRp75 (RRM superfamily) [RNA processing and modification]
Probab=41.16 E-value=25 Score=32.53 Aligned_cols=48 Identities=19% Similarity=0.304 Sum_probs=36.0
Q ss_pred EccCCcc--CCHHHHHHHHHhhhCCceeeEEEeecCCCCCceEEEEecChHHHHHHhC
Q 048589 203 TFSKGHP--ITRAELFEFFTRRYGEGCVEDIKMGNCRDQSLYARVIVRSPAFITLILG 258 (283)
Q Consensus 203 TFS~G~P--vse~Ei~~fFt~~~G~~cve~v~m~~~~~qplfariVf~s~~~vd~vL~ 258 (283)
||.+..| ..+.++.+||.+ ||. +-++.|. .+||.+-|......+.+..
T Consensus 4 v~vg~~~~~~~~~d~E~~f~~-yg~--~~d~~mk-----~gf~fv~fed~rda~Dav~ 53 (216)
T KOG0106|consen 4 VYIGRLPYRARERDVERFFKG-YGK--IPDADMK-----NGFGFVEFEDPRDADDAVH 53 (216)
T ss_pred eeecccCCccchhHHHHHHhh-ccc--cccceee-----cccceeccCchhhhhcccc
Confidence 4456555 899999999997 997 6677773 4788888888887665533
No 81
>KOG2202 consensus U2 snRNP splicing factor, small subunit, and related proteins [RNA processing and modification]
Probab=40.66 E-value=13 Score=35.30 Aligned_cols=55 Identities=20% Similarity=0.308 Sum_probs=36.3
Q ss_pred HHHHHHHhhhCCceeeEEEeec--CCCCCceEEEEecChHHHHHHhC--CCCeeeEEEcCceeEE
Q 048589 214 ELFEFFTRRYGEGCVEDIKMGN--CRDQSLYARVIVRSPAFITLILG--ENELMQFNIHGKDVRV 274 (283)
Q Consensus 214 Ei~~fFt~~~G~~cve~v~m~~--~~~qplfariVf~s~~~vd~vL~--g~~~~kf~Ingk~iWa 274 (283)
|++..+..+||+ ||.+.+-+ ..+-.+=..|-|++++.....+. +++ +++|++|-|
T Consensus 84 d~f~E~~~kygE--iee~~Vc~Nl~~hl~GNVYV~f~~Ee~ae~a~~~lnnR----w~~G~pi~a 142 (260)
T KOG2202|consen 84 DVFTELEDKYGE--IEELNVCDNLGDHLVGNVYVKFRSEEDAEAALEDLNNR----WYNGRPIHA 142 (260)
T ss_pred HHHHHHHHHhhh--hhhhhhhcccchhhhhhhhhhcccHHHHHHHHHHHcCc----cccCCccee
Confidence 344555669999 77765554 33444556678999888555444 346 899998866
No 82
>PF10866 DUF2704: Protein of unknown function (DUF2704); InterPro: IPR022594 This group of viral proteins has no known function.
Probab=39.49 E-value=51 Score=29.46 Aligned_cols=37 Identities=19% Similarity=0.351 Sum_probs=31.1
Q ss_pred ccCHHHHHHHHHhHHHHHHHHHHhcCCChHHHHHHHHHHHHHhhc
Q 048589 16 TVSLCHLQQFHYIDREAYAKLVFQLALDSHLSKRILAFWNWLETE 60 (283)
Q Consensus 16 ~vT~ee~~~Fh~idR~ly~rLV~~L~rdp~~S~~VmAlwLWLE~~ 60 (283)
-+|+.|...+|+.-|+||..|.-.+--+| |=||||+.
T Consensus 54 ~l~mkeYkEvysl~rqLyE~lr~~FVdeP--------fKlWle~N 90 (168)
T PF10866_consen 54 QLTMKEYKEVYSLGRQLYEILRGDFVDEP--------FKLWLEQN 90 (168)
T ss_pred ccCHHHHHHHHHHHHHHHHHHHHHhcCCc--------hHHHHHhh
Confidence 68999999999999999999986665555 56899973
No 83
>KOG0124 consensus Polypyrimidine tract-binding protein PUF60 (RRM superfamily) [RNA processing and modification]
Probab=39.01 E-value=68 Score=32.54 Aligned_cols=82 Identities=16% Similarity=0.264 Sum_probs=54.8
Q ss_pred CCCCCceEEEEcc-CCcc-CCHHHHHHHHHhhhCCceeeEEEeec--CCCCCceEEEEecChHHHHHHhCCCCeeeEEEc
Q 048589 193 DADTDRTLFATFS-KGHP-ITRAELFEFFTRRYGEGCVEDIKMGN--CRDQSLYARVIVRSPAFITLILGENELMQFNIH 268 (283)
Q Consensus 193 ~~~d~RT~FvTFS-~G~P-vse~Ei~~fFt~~~G~~cve~v~m~~--~~~qplfariVf~s~~~vd~vL~g~~~~kf~In 268 (283)
+.++-|..|-.+. -=+| +||+||+.-|+- ||+ .+.--.-+. ++...+||+|-|......+....+.+ -|-..
T Consensus 203 vqeeAk~fnRiYVaSvHpDLSe~DiKSVFEA-FG~-I~~C~LAr~pt~~~HkGyGfiEy~n~qs~~eAiasMN--lFDLG 278 (544)
T KOG0124|consen 203 VQEEAKKFNRIYVASVHPDLSETDIKSVFEA-FGE-IVKCQLARAPTGRGHKGYGFIEYNNLQSQSEAIASMN--LFDLG 278 (544)
T ss_pred HHHHHHhhheEEeeecCCCccHHHHHHHHHh-hcc-eeeEEeeccCCCCCccceeeEEeccccchHHHhhhcc--hhhcc
Confidence 4455555444433 2345 999999999995 998 443333333 57778999999999998888887765 34555
Q ss_pred CceeEEEecc
Q 048589 269 GKDVRVRRFV 278 (283)
Q Consensus 269 gk~iWaRky~ 278 (283)
|.-+-+-|-+
T Consensus 279 GQyLRVGk~v 288 (544)
T KOG0124|consen 279 GQYLRVGKCV 288 (544)
T ss_pred cceEeccccc
Confidence 6555444433
No 84
>KOG0131 consensus Splicing factor 3b, subunit 4 [RNA processing and modification]
Probab=32.68 E-value=55 Score=30.10 Aligned_cols=47 Identities=13% Similarity=0.207 Sum_probs=36.5
Q ss_pred CCHHHHHHHHHhhhCCceeeE-EEeec--CCCCCceEEEEecChHHHHHHhC
Q 048589 210 ITRAELFEFFTRRYGEGCVED-IKMGN--CRDQSLYARVIVRSPAFITLILG 258 (283)
Q Consensus 210 vse~Ei~~fFt~~~G~~cve~-v~m~~--~~~qplfariVf~s~~~vd~vL~ 258 (283)
|.|.-+.+-|.. ||. |+.. -.|.+ ++.++.||.|.|.|.+.-|.++.
T Consensus 108 vDe~~L~dtFsa-fG~-l~~~P~i~rd~~tg~~~~~g~i~~~sfeasd~ai~ 157 (203)
T KOG0131|consen 108 VDEKLLYDTFSA-FGV-LISPPKIMRDPDTGNPKGFGFINYASFEASDAAIG 157 (203)
T ss_pred hhHHHHHHHHHh-ccc-cccCCcccccccCCCCCCCeEEechhHHHHHHHHH
Confidence 777777888885 998 8873 23444 78999999999999988777665
No 85
>KOG0145 consensus RNA-binding protein ELAV/HU (RRM superfamily) [RNA processing and modification]
Probab=32.29 E-value=59 Score=31.59 Aligned_cols=61 Identities=16% Similarity=0.197 Sum_probs=46.6
Q ss_pred CCCCceEEEEccCCcc--CCHHHHHHHHHhhhCCceeeEEEeec--CCCCCceEEEEecChHHHHHH---hCC
Q 048589 194 ADTDRTLFATFSKGHP--ITRAELFEFFTRRYGEGCVEDIKMGN--CRDQSLYARVIVRSPAFITLI---LGE 259 (283)
Q Consensus 194 ~~d~RT~FvTFS~G~P--vse~Ei~~fFt~~~G~~cve~v~m~~--~~~qplfariVf~s~~~vd~v---L~g 259 (283)
.-.+--+|| -|.| +|..|+.+.|.. ||. .|.+=...+ ++...+-|+|-|+.-...++. |||
T Consensus 124 ~Ik~aNLYv---SGlPktMtqkelE~iFs~-fGr-IItSRiL~dqvtg~srGVgFiRFDKr~EAe~AIk~lNG 191 (360)
T KOG0145|consen 124 SIKDANLYV---SGLPKTMTQKELEQIFSP-FGR-IITSRILVDQVTGLSRGVGFIRFDKRIEAEEAIKGLNG 191 (360)
T ss_pred hhcccceEE---ecCCccchHHHHHHHHHH-hhh-hhhhhhhhhcccceecceeEEEecchhHHHHHHHhccC
Confidence 334456777 7999 899999999997 998 777666666 788899999999876554443 555
No 86
>COG3088 CcmH Uncharacterized protein involved in biosynthesis of c-type cytochromes [Posttranslational modification, protein turnover, chaperones]
Probab=32.29 E-value=33 Score=30.37 Aligned_cols=20 Identities=20% Similarity=0.537 Sum_probs=17.3
Q ss_pred CCHHHHHHHHHhhhCCceeeEEEe
Q 048589 210 ITRAELFEFFTRRYGEGCVEDIKM 233 (283)
Q Consensus 210 vse~Ei~~fFt~~~G~~cve~v~m 233 (283)
-|++||.+|++.+||+ -|.+
T Consensus 78 kS~~qIid~mVaRYG~----FVly 97 (153)
T COG3088 78 KSDQQIIDYMVARYGE----FVLY 97 (153)
T ss_pred CcHHHHHHHHHHhhcc----eeee
Confidence 4899999999999999 5555
No 87
>PF11161 DUF2944: Protein of unknown function (DUF2946); InterPro: IPR021332 This family of proteins with unknown function appear to be restricted to Proteobacteria.
Probab=31.02 E-value=42 Score=30.60 Aligned_cols=21 Identities=38% Similarity=0.778 Sum_probs=19.9
Q ss_pred cCCccCCHHHHHHHHHhhhCC
Q 048589 205 SKGHPITRAELFEFFTRRYGE 225 (283)
Q Consensus 205 S~G~Pvse~Ei~~fFt~~~G~ 225 (283)
++|.||+.+-+.+|+.|+|+.
T Consensus 42 ~~G~~I~H~~Li~FI~RNY~~ 62 (187)
T PF11161_consen 42 APGEPIRHEALIEFINRNYEH 62 (187)
T ss_pred CCCCeeecHHHHHHHHhccCC
Confidence 799999999999999999994
No 88
>cd00559 Cyanase_C Cyanase C-terminal domain. Cyanase (Cyanate lyase) is responsible for the hydrolysis of cyanate. It catalyzes the reaction of cyanate with bicarbonate to produce ammonia and carbon dioxide. This allows organisms that possess the enzyme to overcome the toxicity of environmental cyanate and to use cyanate as a source of nitrogen for growth. This enzyme is a homodecamer, formed by five dimers. Each monomer is composed of two domains, an N-terminal helix-turn-helix and this structurally unique C-terminal domain.
Probab=30.78 E-value=49 Score=25.66 Aligned_cols=44 Identities=14% Similarity=0.302 Sum_probs=28.5
Q ss_pred HHHHHHHHhhhCCceeeEEEeecCCCCCceEEEEecChHHHHHHhC-CCCeeeEEEcCcee
Q 048589 213 AELFEFFTRRYGEGCVEDIKMGNCRDQSLYARVIVRSPAFITLILG-ENELMQFNIHGKDV 272 (283)
Q Consensus 213 ~Ei~~fFt~~~G~~cve~v~m~~~~~qplfariVf~s~~~vd~vL~-g~~~~kf~Ingk~i 272 (283)
.-+++...++||||..-+|.+.= - |+++-+ |.++|+++.|||-+
T Consensus 20 ~~~K~li~E~FGDGIMSAIdF~~----------~------v~k~~dp~gdRvvit~~GKfL 64 (69)
T cd00559 20 PTLKALIHEKFGDGIMSAIDFKL----------D------VDKVEDPGGDRVVITLDGKFL 64 (69)
T ss_pred HHHHHHHHHHcCCceeeeEEeee----------e------EEeccCCCCCEEEEEEcceec
Confidence 44678888999998887776632 0 111111 44778888999844
No 89
>COG5606 Uncharacterized conserved small protein [Function unknown]
Probab=28.63 E-value=70 Score=26.02 Aligned_cols=37 Identities=24% Similarity=0.355 Sum_probs=30.5
Q ss_pred HHHHHHHHHHHhhcCc-hhhhhhhhcCcchHHHHHHHHHH
Q 048589 47 SKRILAFWNWLETEGF-TNFVHESLKLTDSLRGLYGLALE 85 (283)
Q Consensus 47 S~~VmAlwLWLE~~G~-~n~i~~i~sl~d~~~~l~~lA~E 85 (283)
+...|+...|+|..+. +.=|..++..+.+- ++.||+=
T Consensus 27 ~~l~~~i~~~i~q~~l~Q~qiae~lgV~qpr--vS~l~~g 64 (91)
T COG5606 27 SALMMAIKQWIEQAALSQAQIAELLGVTQPR--VSDLARG 64 (91)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhCCCCch--HHHHHhc
Confidence 5678999999999888 67778888888888 8888763
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=25.75 E-value=2.3e+02 Score=22.02 Aligned_cols=57 Identities=5% Similarity=-0.040 Sum_probs=39.8
Q ss_pred EEccCCccCCHHHHHHHHHhhhCCce------eeEEEeec-----CCCCC--ceEEEEecChHHHHHHhCC
Q 048589 202 ATFSKGHPITRAELFEFFTRRYGEGC------VEDIKMGN-----CRDQS--LYARVIVRSPAFITLILGE 259 (283)
Q Consensus 202 vTFS~G~Pvse~Ei~~fFt~~~G~~c------ve~v~m~~-----~~~qp--lfariVf~s~~~vd~vL~g 259 (283)
+++..-.|++.+|+..|.+...++ - +.+..+.. ++.+| ..+-+.|+|.+.....++.
T Consensus 3 ~~vlyr~p~~~e~F~~yy~~~H~p-L~~~~pg~~~y~~~~~~~~~~~~~~~d~i~el~Fds~e~~~~a~~s 72 (100)
T TIGR02118 3 VSVLYEQPEDGAAFDHHYRDTHVP-LAQKLPGLRRYAVDKIVSGLPGSSPYYGMCELYFDSIEDFQAAFDS 72 (100)
T ss_pred EEEEcCCCCCHHHHHHHHHhccHH-HHHhCcCceEEEEecccCCCCCCCCeeEEEEEEECCHHHHHHHHcC
Confidence 466677789999999999987764 1 22333322 23333 5678999999999998865
No 91
>COG5132 BUD31 Cell cycle control protein, G10 family [Transcription / Cell division and chromosome partitioning]
Probab=24.74 E-value=1.2e+02 Score=26.10 Aligned_cols=56 Identities=20% Similarity=0.427 Sum_probs=39.1
Q ss_pred HHHHHHhHHHHHHHHHHhcCCChHHHHHHHHHHHHHhhcCc--hhhhhhhhcCcchHHHHHHHHHHHHHHhhhcc
Q 048589 22 LQQFHYIDREAYAKLVFQLALDSHLSKRILAFWNWLETEGF--TNFVHESLKLTDSLRGLYGLALESALCLVCSD 94 (283)
Q Consensus 22 ~~~Fh~idR~ly~rLV~~L~rdp~~S~~VmAlwLWLE~~G~--~n~i~~i~sl~d~~~~l~~lA~EA~~cL~cL~ 94 (283)
|.+.|.--|-+|.--- .| -+.|. -|.-||-++-| +++|.+ -..+-.|-..||.||.
T Consensus 50 fQLHHQRSRYIY~Lyy---KR-~aISt---~LY~wL~k~~yaD~~Liak----------W~k~GYEkLCCLRCIQ 107 (146)
T COG5132 50 FQLHHQRSRYIYNLYY---KR-GAIST---KLYGWLSKNRYADHELIAK----------WDKVGYEKLCCLRCIQ 107 (146)
T ss_pred HHHHHhhhHHHHHHHh---hh-hhHHH---HHHHHHHHhcccchhHhhh----------hcccchhhhhhHhhcC
Confidence 5677877777765332 11 12333 36789988887 777776 5777889999999997
No 92
>PF14214 Helitron_like_N: Helitron helicase-like domain at N-terminus
Probab=24.23 E-value=1.8e+02 Score=25.11 Aligned_cols=25 Identities=12% Similarity=0.104 Sum_probs=14.2
Q ss_pred hhCCceeeEEEeec-CCCCCceEEEEe
Q 048589 222 RYGEGCVEDIKMGN-CRDQSLYARVIV 247 (283)
Q Consensus 222 ~~G~~cve~v~m~~-~~~qplfariVf 247 (283)
.||. |.+-++.-| .++...++.+++
T Consensus 158 ~~G~-v~~~~~~~E~Q~RG~~H~H~l~ 183 (184)
T PF14214_consen 158 VFGK-VSAYYYRVEFQKRGSPHAHILL 183 (184)
T ss_pred cccc-eeEEEEEEEeccCCCCeeeeEe
Confidence 3565 666655555 556666665543
No 93
>PF08141 SspH: Small acid-soluble spore protein H family; InterPro: IPR012610 This family consists of the small acid-soluble spore proteins (SASP) of the H type (sspH). SspH are unique to spores of Bacillus subtilis and are expressed only in the forespore compartment during sporulation of this organism. The sspH genes are monocistronic and are recognised by the forespore-specific sigma factor for RNA polymerase - sigma-G. The specific role of this protein is unclear but is thought to play a role in sporulation under conditions different from that of the common laboratory tests of spore properties [].; GO: 0030436 asexual sporulation, 0042601 endospore-forming forespore
Probab=23.70 E-value=1.6e+02 Score=21.90 Aligned_cols=29 Identities=10% Similarity=0.196 Sum_probs=24.2
Q ss_pred HHHHhCCCCeeeEEEcCceeEEEecccCC
Q 048589 253 ITLILGENELMQFNIHGKDVRVRRFVPKR 281 (283)
Q Consensus 253 vd~vL~g~~~~kf~Ingk~iWaRky~pk~ 281 (283)
..+|++....+..+-||..+|....-+++
T Consensus 6 AkeI~~S~~~i~V~y~G~pV~Ie~vde~~ 34 (58)
T PF08141_consen 6 AKEIAESPDMIEVTYNGVPVWIEHVDEEN 34 (58)
T ss_pred HHHHHcCCceEEEEECCEEEEEEEEcCCC
Confidence 56789988889999999999998875543
No 94
>PF13797 Post_transc_reg: Post-transcriptional regulator
Probab=22.49 E-value=68 Score=25.48 Aligned_cols=17 Identities=24% Similarity=0.608 Sum_probs=15.2
Q ss_pred Ccc-CCHHHHHHHHHhhh
Q 048589 207 GHP-ITRAELFEFFTRRY 223 (283)
Q Consensus 207 G~P-vse~Ei~~fFt~~~ 223 (283)
||+ ||++||-+|++.++
T Consensus 24 GY~~vt~~dlw~yl~~~~ 41 (87)
T PF13797_consen 24 GYESVTEEDLWSYLTEKK 41 (87)
T ss_pred CcCcCCHHHHHHHHHHHH
Confidence 898 99999999998754
No 95
>KOG4209 consensus Splicing factor RNPS1, SR protein superfamily [RNA processing and modification]
Probab=22.28 E-value=1.6e+02 Score=27.38 Aligned_cols=62 Identities=10% Similarity=0.084 Sum_probs=46.2
Q ss_pred CCCCCceEEEEccCCccCCHHHHHHHHHhhhCCceeeEEEeec---CCCCCceEEEEecChHHHHHHhC
Q 048589 193 DADTDRTLFATFSKGHPITRAELFEFFTRRYGEGCVEDIKMGN---CRDQSLYARVIVRSPAFITLILG 258 (283)
Q Consensus 193 ~~~d~RT~FvTFS~G~Pvse~Ei~~fFt~~~G~~cve~v~m~~---~~~qplfariVf~s~~~vd~vL~ 258 (283)
...|.+++|+... ++-++-+++...|.. +|. +.+|.|.. .+++-+||-+-|.+...+..-|.
T Consensus 97 ~~~d~~sv~v~nv-d~~~t~~~~e~hf~~-Cg~--i~~~ti~~d~~~~~~k~~~yvef~~~~~~~~ay~ 161 (231)
T KOG4209|consen 97 KEVDAPSVWVGNV-DFLVTLTKIELHFES-CGG--INRVTVPKDKFRGHPKGFAYVEFSSYELVEEAYK 161 (231)
T ss_pred hccCCceEEEecc-ccccccchhhheeec-cCC--ccceeeeccccCCCcceeEEEecccHhhhHHHhh
Confidence 3456678888554 455677778888886 887 76677765 66799999999999998766554
No 96
>cd08966 EcFpg-like_N N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases. This family contains the N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases. It belongs to the FpgNei_N, [N-terminal domain of Fpg (formamidopyrimidine-DNA glycosylase, MutM)_Nei (endonuclease VIII)] domain superfamily. DNA glycosylases maintain genome integrity by recognizing base lesions created by ionizing radiation, alkylating or oxidizing agents, and endogenous reactive oxygen species. They initiate the base-excision repair process, which is completed with the help of enzymes such as phosphodiesterases, AP endonucleases, DNA polymerases and DNA ligases. DNA glycosylases cleave the N-glycosyl bond between the sugar and the damaged base, creating an AP (apurinic/apyrimidinic) site. Most FpgNei DNA glycosylases use their N-terminal proline residue as the key catalytic nucleophile, and the reaction proceeds via a Schiff base intermediate. Es
Probab=21.69 E-value=3.1e+02 Score=21.96 Aligned_cols=52 Identities=13% Similarity=0.133 Sum_probs=37.1
Q ss_pred HHHHHhhh-CCceeeEEEeecCCCCCceEEEEec-ChHHHHHHhCCCCeeeEEEcCceeEEE
Q 048589 216 FEFFTRRY-GEGCVEDIKMGNCRDQSLYARVIVR-SPAFITLILGENELMQFNIHGKDVRVR 275 (283)
Q Consensus 216 ~~fFt~~~-G~~cve~v~m~~~~~qplfariVf~-s~~~vd~vL~g~~~~kf~Ingk~iWaR 275 (283)
++...+.. |. -|+.|.+..+ ++++. +++.....|.|.......=.||++|..
T Consensus 10 ~~~l~~~l~G~-~I~~v~~~~~-------~~~~~~~~~~~~~~l~G~~i~~v~r~GK~l~~~ 63 (120)
T cd08966 10 RRGLAPHLVGR-RIEDVEVRRP-------KLRRPPDPEEFAERLVGRRITGVERRGKYLLFE 63 (120)
T ss_pred HHHHHHHhCCC-EEEEEEECCC-------CeeccCChHHHHhhCCCCEEEEEEeeeEEEEEE
Confidence 44444444 55 7888888542 23444 566777889999999999999999975
No 97
>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=21.62 E-value=3e+02 Score=22.31 Aligned_cols=52 Identities=15% Similarity=0.119 Sum_probs=43.6
Q ss_pred CCcc--CCHHHHHHHHHhhhCCceeeEEEeec---CCCCCceEEEEecChHHHHHHhC
Q 048589 206 KGHP--ITRAELFEFFTRRYGEGCVEDIKMGN---CRDQSLYARVIVRSPAFITLILG 258 (283)
Q Consensus 206 ~G~P--vse~Ei~~fFt~~~G~~cve~v~m~~---~~~qplfariVf~s~~~vd~vL~ 258 (283)
|..| .|.+++.+.+.+.+.. ..+=+|+.= .+.--+||+|=|.+++.+...-.
T Consensus 7 rNIPn~~t~~~L~~~l~~~~~g-~yDF~YLPiDf~~~~N~GYAFVNf~~~~~~~~F~~ 63 (97)
T PF04059_consen 7 RNIPNKYTQEMLIQILDEHFKG-KYDFFYLPIDFKNKCNLGYAFVNFTSPQAAIRFYK 63 (97)
T ss_pred ecCCCCCCHHHHHHHHHHhccC-cceEEEeeeeccCCCceEEEEEEcCCHHHHHHHHH
Confidence 6677 8999999999987765 888899874 67789999999999999776655
No 98
>COG1259 Uncharacterized conserved protein [Function unknown]
Probab=21.55 E-value=1.9e+02 Score=25.57 Aligned_cols=47 Identities=26% Similarity=0.443 Sum_probs=38.8
Q ss_pred EccCCccCCHHHHHHHHHhhhCCceeeEEEeecCCCCCceEEEEecChH
Q 048589 203 TFSKGHPITRAELFEFFTRRYGEGCVEDIKMGNCRDQSLYARVIVRSPA 251 (283)
Q Consensus 203 TFS~G~Pvse~Ei~~fFt~~~G~~cve~v~m~~~~~qplfariVf~s~~ 251 (283)
+++..-|.+.+=+.+-|++ +|- -||+|.+.+-.++--||+++++-..
T Consensus 52 ~~~p~RP~tHdll~~i~~~-l~~-~v~kVvI~d~~d~tyyA~L~~~~~~ 98 (151)
T COG1259 52 GVEPPRPLTHDLLVEIFEE-LGA-RVEKVVIDDLIDNTYYATLILEQDD 98 (151)
T ss_pred cCCCCCCcHHHHHHHHHHH-hCC-cEEEEEEEEeccCeEEEEEEEEcCC
Confidence 3445678999999999997 997 7999999886677899999997544
No 99
>TIGR02861 SASP_H small acid-soluble spore protein, H-type. This model is derived from pfam08141 but has been expanded to include in the seed corresponding proteins from three species of Clostridium. Members of this family should occur only in endospore-forming bacteria, typically with two members per genome, but may be absent from the genomes of some endospore-forming bacteria. SspH (previously designated YfjU) was shown to be expressed specifically in spores of Bacillus subtilis.
Probab=21.31 E-value=1.8e+02 Score=21.68 Aligned_cols=28 Identities=14% Similarity=0.208 Sum_probs=23.8
Q ss_pred HHHHhCCCCeeeEEEcCceeEEEecccC
Q 048589 253 ITLILGENELMQFNIHGKDVRVRRFVPK 280 (283)
Q Consensus 253 vd~vL~g~~~~kf~Ingk~iWaRky~pk 280 (283)
+.+|++....+..+-||..+|....-.+
T Consensus 6 AkeI~~S~~~i~V~Y~G~pV~Ie~vde~ 33 (58)
T TIGR02861 6 AKEIAASPEMINVTYKGVPVYIEHVDEQ 33 (58)
T ss_pred HHHHHcCccceEEEECCEEEEEEEEcCC
Confidence 5678898888999999999999887544
No 100
>KOG0109 consensus RNA-binding protein LARK, contains RRM and retroviral-type Zn-finger domains [RNA processing and modification; General function prediction only]
Probab=20.99 E-value=2.6e+02 Score=27.65 Aligned_cols=67 Identities=25% Similarity=0.333 Sum_probs=43.4
Q ss_pred EEEccCCcc--CCHHHHHHHHHhhhCCceeeEEEeecCCCCCceEEEEecChHH-HHHH--hCCCCeeeEEEcCceeEEE
Q 048589 201 FATFSKGHP--ITRAELFEFFTRRYGEGCVEDIKMGNCRDQSLYARVIVRSPAF-ITLI--LGENELMQFNIHGKDVRVR 275 (283)
Q Consensus 201 FvTFS~G~P--vse~Ei~~fFt~~~G~~cve~v~m~~~~~qplfariVf~s~~~-vd~v--L~g~~~~kf~Ingk~iWaR 275 (283)
|.-|.+..| .++.|++..|+. ||- ++|==++ --||+|-...... -|.| |.|. +|+|+-|=+.
T Consensus 3 ~KLFIGNLp~~~~~~elr~lFe~-ygk-VlECDIv------KNYgFVHiEdktaaedairNLhgY-----tLhg~nInVe 69 (346)
T KOG0109|consen 3 VKLFIGNLPREATEQELRSLFEQ-YGK-VLECDIV------KNYGFVHIEDKTAAEDAIRNLHGY-----TLHGVNINVE 69 (346)
T ss_pred cchhccCCCcccchHHHHHHHHh-hCc-eEeeeee------cccceEEeecccccHHHHhhcccc-----eecceEEEEE
Confidence 455668887 999999999997 997 6654333 2477776655544 3333 5564 5777776655
Q ss_pred ecccC
Q 048589 276 RFVPK 280 (283)
Q Consensus 276 ky~pk 280 (283)
+-..|
T Consensus 70 aSksK 74 (346)
T KOG0109|consen 70 ASKSK 74 (346)
T ss_pred ecccc
Confidence 54444
No 101
>PRK03174 sspH acid-soluble spore protein H; Provisional
Probab=20.94 E-value=1.8e+02 Score=21.87 Aligned_cols=28 Identities=7% Similarity=0.159 Sum_probs=23.9
Q ss_pred HHHHhCCCCeeeEEEcCceeEEEecccC
Q 048589 253 ITLILGENELMQFNIHGKDVRVRRFVPK 280 (283)
Q Consensus 253 vd~vL~g~~~~kf~Ingk~iWaRky~pk 280 (283)
+.+|++....++.+-||..+|...+-..
T Consensus 6 AkeI~~Sp~~i~VtY~G~pV~Ie~vde~ 33 (59)
T PRK03174 6 AQEIAESPDMANVTYNGVPIYIQHVDEQ 33 (59)
T ss_pred HHHHHcCccceEEEECCEEEEEEEEcCC
Confidence 5678998899999999999999877543
Done!