Query 026836
Match_columns 232
No_of_seqs 132 out of 177
Neff 2.8
Searched_HMMs 46136
Date Fri Mar 29 13:23:54 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/026836.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/026836hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG0126 Predicted RNA-binding 99.8 4.8E-21 1E-25 167.2 4.5 87 20-114 85-173 (219)
2 KOG2494 C3H1-type Zn-finger pr 95.1 0.0093 2E-07 56.3 1.5 30 63-92 32-62 (331)
3 PF00642 zf-CCCH: Zinc finger 94.8 0.013 2.8E-07 36.1 0.9 24 68-91 3-27 (27)
4 smart00356 ZnF_C3H1 zinc finge 94.7 0.015 3.2E-07 34.2 0.9 23 69-91 5-27 (27)
5 KOG0111 Cyclophilin-type pepti 93.7 0.026 5.5E-07 52.1 0.9 24 25-48 65-88 (298)
6 KOG1763 Uncharacterized conser 88.5 0.24 5.1E-06 47.1 1.6 46 69-116 93-143 (343)
7 PF13893 RRM_5: RNA recognitio 86.4 0.14 3E-06 34.2 -0.9 24 23-46 32-55 (56)
8 KOG0130 RNA-binding protein RB 84.2 0.28 6E-06 42.6 -0.3 27 26-53 128-154 (170)
9 KOG0108 mRNA cleavage and poly 82.6 0.36 7.8E-06 46.9 -0.3 36 18-53 65-101 (435)
10 KOG0147 Transcriptional coacti 70.6 1.1 2.3E-05 45.2 -0.8 32 23-55 331-362 (549)
11 smart00361 RRM_1 RNA recogniti 69.1 2.1 4.4E-05 30.2 0.6 21 24-44 49-69 (70)
12 PF00076 RRM_1: RNA recognitio 68.6 0.93 2E-05 29.9 -1.2 22 22-43 49-70 (70)
13 COG5252 Uncharacterized conser 63.9 3.4 7.3E-05 38.7 1.1 22 69-90 86-107 (299)
14 TIGR01622 SF-CC1 splicing fact 59.0 3.3 7.2E-05 37.9 0.2 29 22-50 238-266 (457)
15 COG5152 Uncharacterized conser 58.5 3.6 7.9E-05 37.8 0.3 32 68-100 141-173 (259)
16 PLN03134 glycine-rich RNA-bind 56.6 5 0.00011 32.7 0.8 25 23-47 87-111 (144)
17 COG0724 RNA-binding proteins ( 56.1 3.2 7E-05 32.1 -0.4 27 22-48 167-193 (306)
18 KOG2185 Predicted RNA-processi 52.6 7.1 0.00015 38.9 1.3 24 69-92 141-164 (486)
19 PF11456 DUF3019: Protein of u 52.3 24 0.00053 27.9 4.0 26 27-53 68-93 (102)
20 KOG1039 Predicted E3 ubiquitin 51.9 6.2 0.00013 37.6 0.7 25 69-93 9-33 (344)
21 KOG2202 U2 snRNP splicing fact 48.3 5.4 0.00012 37.1 -0.2 55 24-92 122-176 (260)
22 KOG1813 Predicted E3 ubiquitin 45.5 9.5 0.0002 36.4 0.9 31 69-100 187-218 (313)
23 PLN03120 nucleic acid binding 45.1 12 0.00026 34.6 1.5 27 28-55 59-85 (260)
24 PF14608 zf-CCCH_2: Zinc finge 44.1 14 0.0003 21.3 1.1 13 78-90 7-19 (19)
25 KOG1595 CCCH-type Zn-finger pr 43.8 9.7 0.00021 38.5 0.7 24 68-91 236-259 (528)
26 smart00360 RRM RNA recognition 39.1 14 0.0003 23.1 0.6 23 23-45 49-71 (71)
27 smart00362 RRM_2 RNA recogniti 38.4 14 0.0003 23.3 0.5 22 24-45 51-72 (72)
28 TIGR01649 hnRNP-L_PTB hnRNP-L/ 38.2 13 0.00029 35.4 0.7 26 22-47 323-348 (481)
29 TIGR01642 U2AF_lg U2 snRNP aux 37.3 10 0.00022 35.3 -0.3 25 24-48 349-373 (509)
30 cd00590 RRM RRM (RNA recogniti 36.3 9.6 0.00021 24.1 -0.4 24 23-46 51-74 (74)
31 KOG4207 Predicted splicing fac 36.2 15 0.00031 34.1 0.5 27 26-53 69-95 (256)
32 PF08952 DUF1866: Domain of un 31.1 18 0.00039 31.0 0.3 27 18-44 75-101 (146)
33 TIGR01661 ELAV_HUD_SF ELAV/HuD 30.9 21 0.00045 31.4 0.6 24 24-47 57-80 (352)
34 KOG0127 Nucleolar protein fibr 27.8 25 0.00055 36.4 0.7 22 26-47 172-193 (678)
35 KOG0415 Predicted peptidyl pro 26.5 32 0.00069 34.2 1.1 62 21-95 290-356 (479)
36 KOG1677 CCCH-type Zn-finger pr 25.9 34 0.00074 30.6 1.1 29 65-93 174-203 (332)
37 TIGR01642 U2AF_lg U2 snRNP aux 25.6 34 0.00073 31.9 1.1 28 24-52 235-262 (509)
38 KOG2494 C3H1-type Zn-finger pr 23.7 30 0.00066 33.3 0.4 27 68-95 71-97 (331)
39 PLN03213 repressor of silencin 23.6 35 0.00075 35.3 0.8 25 25-49 63-87 (759)
40 TIGR01659 sex-lethal sex-letha 22.0 22 0.00048 33.2 -0.8 25 23-47 160-184 (346)
41 KOG0114 Predicted RNA-binding 21.5 41 0.00088 28.4 0.7 20 27-46 72-91 (124)
No 1
>KOG0126 consensus Predicted RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=99.82 E-value=4.8e-21 Score=167.20 Aligned_cols=87 Identities=32% Similarity=0.453 Sum_probs=73.9
Q ss_pred ecceeeeeeeecCCCceecCceeEecccccccccccccHHHHHHHHHhhhhhHhhhcCCCCCCCCCcccccccccCCCCC
Q 026836 20 LKAIFSRFLPNNLNGAQILGRTIRVDHVAKYKKKEEEDEETRQRMREERGVCRAFQRGECTRGDGCKFSHNEQRAANTGG 99 (232)
Q Consensus 20 ~~~~StiLAVDNlNG~~v~GR~irVDHv~~Yk~~~~edee~~~~~~e~~~v~~alq~~~C~~~~~ck~sh~~q~~~~t~~ 99 (232)
-.|+||||||||||||+|+|||||||||.+|++|.+..+ ++.|+..||+++|.+..+-.+.++++.++++.|
T Consensus 85 EDQRSTILAVDN~NGiki~gRtirVDHv~~Yk~pk~~E~--------~d~~t~~L~~~g~~~~~~~~~~~~~~~~~~~k~ 156 (219)
T KOG0126|consen 85 EDQRSTILAVDNLNGIKILGRTIRVDHVSNYKKPKESEE--------MDAVTKELQEEGCSPKNQSIIAQPEKPSPRYKT 156 (219)
T ss_pred cCccceEEEEeccCCceecceeEEeeecccccCCchhhh--------hhHHHHHHhhccCCCCchhhhccccCCCccccc
Confidence 369999999999999999999999999999999966555 788999999999999999889999999999999
Q ss_pred CC--CCCCccccccccc
Q 026836 100 GP--QDRSSRWGHEKFE 114 (232)
Q Consensus 100 ~s--ed~~~~~~~~k~~ 114 (232)
+- +++.+.+.+.+..
T Consensus 157 ~~e~~~~~~~K~~~~~~ 173 (219)
T KOG0126|consen 157 VKEKEDRGSKKHSKKNK 173 (219)
T ss_pred eeecccccchhhhhhhH
Confidence 95 4555444444333
No 2
>KOG2494 consensus C3H1-type Zn-finger protein [Transcription]
Probab=95.15 E-value=0.0093 Score=56.28 Aligned_cols=30 Identities=43% Similarity=0.864 Sum_probs=26.6
Q ss_pred HHHHhhhhhHhhhcCCCCCCCC-Cccccccc
Q 026836 63 RMREERGVCRAFQRGECTRGDG-CKFSHNEQ 92 (232)
Q Consensus 63 ~~~e~~~v~~alq~~~C~~~~~-ck~sh~~q 92 (232)
.+-..++||+.||++-|.+++- |||.|+..
T Consensus 32 ~~wl~~eVCReF~rn~C~R~d~~CkfaHP~~ 62 (331)
T KOG2494|consen 32 TKWLTLEVCREFLRNTCSRGDRECKFAHPPK 62 (331)
T ss_pred cchhHHHHHHHHHhccccCCCccccccCCCC
Confidence 4455789999999999999999 99999866
No 3
>PF00642 zf-CCCH: Zinc finger C-x8-C-x5-C-x3-H type (and similar); InterPro: IPR000571 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents C-x8-C-x5-C-x3-H (CCCH) type Zinc finger (Znf) domains. Proteins containing CCCH Znf domains include Znf proteins from eukaryotes involved in cell cycle or growth phase-related regulation, e.g. human TIS11B (butyrate response factor 1), a probable regulatory protein involved in regulating the response to growth factors, and the mouse TTP growth factor-inducible nuclear protein, which has the same function. The mouse TTP protein is induced by growth factors. Another protein containing this domain is the human splicing factor U2AF 35kDa subunit, which plays a critical role in both constitutive and enhancer-dependent splicing by mediating essential protein-protein interactions and protein-RNA interactions required for 3' splice site selection. It has been shown that different CCCH-type Znf proteins interact with the 3'-untranslated region of various mRNA [, ]. This type of Znf is very often present in two copies. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0003676 nucleic acid binding, 0008270 zinc ion binding; PDB: 1M9O_A 1RGO_A 2CQE_A 2FC6_A 2D9M_A 2E5S_A 2RHK_C 2D9N_A 3D2S_A 3D2Q_C ....
Probab=94.81 E-value=0.013 Score=36.13 Aligned_cols=24 Identities=50% Similarity=1.144 Sum_probs=18.0
Q ss_pred hhhhHhhhc-CCCCCCCCCcccccc
Q 026836 68 RGVCRAFQR-GECTRGDGCKFSHNE 91 (232)
Q Consensus 68 ~~v~~alq~-~~C~~~~~ck~sh~~ 91 (232)
..+|..|++ |.|..|+.|+|+|++
T Consensus 3 ~~~C~~f~~~g~C~~G~~C~f~H~~ 27 (27)
T PF00642_consen 3 TKLCRFFMRTGTCPFGDKCRFAHGE 27 (27)
T ss_dssp SSB-HHHHHTS--TTGGGSSSBSSG
T ss_pred cccChhhccCCccCCCCCcCccCCC
Confidence 357888888 889999999999985
No 4
>smart00356 ZnF_C3H1 zinc finger.
Probab=94.66 E-value=0.015 Score=34.23 Aligned_cols=23 Identities=48% Similarity=1.089 Sum_probs=20.6
Q ss_pred hhhHhhhcCCCCCCCCCcccccc
Q 026836 69 GVCRAFQRGECTRGDGCKFSHNE 91 (232)
Q Consensus 69 ~v~~alq~~~C~~~~~ck~sh~~ 91 (232)
.+|..|+.|.|..|..|+|+|+.
T Consensus 5 ~~C~~~~~g~C~~g~~C~~~H~~ 27 (27)
T smart00356 5 ELCKFFKRGYCPYGDRCKFAHPL 27 (27)
T ss_pred CcCcCccCCCCCCCCCcCCCCcC
Confidence 47899999999999999999973
No 5
>KOG0111 consensus Cyclophilin-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]
Probab=93.72 E-value=0.026 Score=52.11 Aligned_cols=24 Identities=33% Similarity=0.552 Sum_probs=20.9
Q ss_pred eeeeeecCCCceecCceeEecccc
Q 026836 25 SRFLPNNLNGAQILGRTIRVDHVA 48 (232)
Q Consensus 25 tiLAVDNlNG~~v~GR~irVDHv~ 48 (232)
+-.||||||+.+|.||||+|....
T Consensus 65 AaaAiDNMnesEL~GrtirVN~Ak 88 (298)
T KOG0111|consen 65 AAAAIDNMNESELFGRTIRVNLAK 88 (298)
T ss_pred hHHHhhcCchhhhcceeEEEeecC
Confidence 346899999999999999998763
No 6
>KOG1763 consensus Uncharacterized conserved protein, contains CCCH-type Zn-finger [General function prediction only]
Probab=88.52 E-value=0.24 Score=47.08 Aligned_cols=46 Identities=39% Similarity=0.754 Sum_probs=32.5
Q ss_pred hhhHhhhcCCCCCCCCCcccccccccCCCCCCC-----CCCCcccccccccCC
Q 026836 69 GVCRAFQRGECTRGDGCKFSHNEQRAANTGGGP-----QDRSSRWGHEKFEGF 116 (232)
Q Consensus 69 ~v~~alq~~~C~~~~~ck~sh~~q~~~~t~~~s-----ed~~~~~~~~k~~~~ 116 (232)
-||--|.+|.|+-|+.|+|||+....--+.-.+ -|+| |.-++..+.
T Consensus 93 vvCafFk~g~C~KG~kCKFsHdl~~~~k~eK~dly~d~rdem--WD~~kl~~v 143 (343)
T KOG1763|consen 93 VVCAFFKQGTCTKGDKCKFSHDLAVERKKEKIDLYPDTRDEM--WDEEKLEEV 143 (343)
T ss_pred HHHHHHhccCCCCCCcccccchHHHhhhccchhccccchhhh--hhHHHHHHH
Confidence 479999999999999999999987554433321 2335 866655543
No 7
>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=86.38 E-value=0.14 Score=34.21 Aligned_cols=24 Identities=29% Similarity=0.321 Sum_probs=21.2
Q ss_pred eeeeeeeecCCCceecCceeEecc
Q 026836 23 IFSRFLPNNLNGAQILGRTIRVDH 46 (232)
Q Consensus 23 ~StiLAVDNlNG~~v~GR~irVDH 46 (232)
-++..|+-+|||..+.|++|+|++
T Consensus 32 ~~A~~a~~~l~~~~~~g~~l~V~~ 55 (56)
T PF13893_consen 32 EDAQKAIEQLNGRQFNGRPLKVSY 55 (56)
T ss_dssp HHHHHHHHHHTTSEETTEEEEEEE
T ss_pred HHHHHHHHHhCCCEECCcEEEEEE
Confidence 456778999999999999999986
No 8
>KOG0130 consensus RNA-binding protein RBM8/Tsunagi (RRM superfamily) [General function prediction only]
Probab=84.22 E-value=0.28 Score=42.64 Aligned_cols=27 Identities=33% Similarity=0.476 Sum_probs=23.4
Q ss_pred eeeeecCCCceecCceeEeccccccccc
Q 026836 26 RFLPNNLNGAQILGRTIRVDHVAKYKKK 53 (232)
Q Consensus 26 iLAVDNlNG~~v~GR~irVDHv~~Yk~~ 53 (232)
--|||-|||+.|||.+|.||.+ .-+.|
T Consensus 128 q~A~~~~Ng~~ll~q~v~VDw~-Fv~gp 154 (170)
T KOG0130|consen 128 QAAIDALNGAELLGQNVSVDWC-FVKGP 154 (170)
T ss_pred HHHHHhccchhhhCCceeEEEE-EecCC
Confidence 4589999999999999999999 55555
No 9
>KOG0108 consensus mRNA cleavage and polyadenylation factor I complex, subunit RNA15 [RNA processing and modification]
Probab=82.57 E-value=0.36 Score=46.90 Aligned_cols=36 Identities=28% Similarity=0.346 Sum_probs=28.9
Q ss_pred eeecc-eeeeeeeecCCCceecCceeEeccccccccc
Q 026836 18 ISLKA-IFSRFLPNNLNGAQILGRTIRVDHVAKYKKK 53 (232)
Q Consensus 18 ~~~~~-~StiLAVDNlNG~~v~GR~irVDHv~~Yk~~ 53 (232)
+.|+. ..|-.||-||||+++.||+|+|++..+++..
T Consensus 65 ~~~~~~~~~~~a~~~lNg~~~~gr~l~v~~~~~~~~~ 101 (435)
T KOG0108|consen 65 CEFTDEETAERAIRNLNGAEFNGRKLRVNYASNRKNA 101 (435)
T ss_pred EecCchhhHHHHHHhcCCcccCCceEEeecccccchh
Confidence 44444 4566799999999999999999998777665
No 10
>KOG0147 consensus Transcriptional coactivator CAPER (RRM superfamily) [Transcription]
Probab=70.63 E-value=1.1 Score=45.23 Aligned_cols=32 Identities=28% Similarity=0.322 Sum_probs=25.9
Q ss_pred eeeeeeeecCCCceecCceeEeccccccccccc
Q 026836 23 IFSRFLPNNLNGAQILGRTIRVDHVAKYKKKEE 55 (232)
Q Consensus 23 ~StiLAVDNlNG~~v~GR~irVDHv~~Yk~~~~ 55 (232)
..+-.|.-+|||..|+||+|+|-|| .|+....
T Consensus 331 ~~ar~a~e~lngfelAGr~ikV~~v-~~r~~~~ 362 (549)
T KOG0147|consen 331 EDARKALEQLNGFELAGRLIKVSVV-TERVDTK 362 (549)
T ss_pred HHHHHHHHHhccceecCceEEEEEe-eeecccc
Confidence 3455677899999999999999999 7776543
No 11
>smart00361 RRM_1 RNA recognition motif.
Probab=69.08 E-value=2.1 Score=30.22 Aligned_cols=21 Identities=29% Similarity=0.284 Sum_probs=18.0
Q ss_pred eeeeeeecCCCceecCceeEe
Q 026836 24 FSRFLPNNLNGAQILGRTIRV 44 (232)
Q Consensus 24 StiLAVDNlNG~~v~GR~irV 44 (232)
.+..|+.+|||..+.||+|+|
T Consensus 49 dA~~A~~~l~g~~~~gr~l~~ 69 (70)
T smart00361 49 DAARAIVDLNGRYFDGRTVKA 69 (70)
T ss_pred HHHHHHHHhCCCEECCEEEEe
Confidence 345688999999999999986
No 12
>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=68.65 E-value=0.93 Score=29.92 Aligned_cols=22 Identities=36% Similarity=0.394 Sum_probs=18.7
Q ss_pred ceeeeeeeecCCCceecCceeE
Q 026836 22 AIFSRFLPNNLNGAQILGRTIR 43 (232)
Q Consensus 22 ~~StiLAVDNlNG~~v~GR~ir 43 (232)
.-++..|+++|||..|.|++||
T Consensus 49 ~~~a~~a~~~l~g~~~~~~~ir 70 (70)
T PF00076_consen 49 EEDAEKALEELNGKKINGRKIR 70 (70)
T ss_dssp HHHHHHHHHHHTTEEETTEEEE
T ss_pred HHHHHHHHHHcCCCEECccCcC
Confidence 3456778999999999999996
No 13
>COG5252 Uncharacterized conserved protein, contains CCCH-type Zn-finger protein [General function prediction only]
Probab=63.87 E-value=3.4 Score=38.71 Aligned_cols=22 Identities=45% Similarity=1.061 Sum_probs=20.8
Q ss_pred hhhHhhhcCCCCCCCCCccccc
Q 026836 69 GVCRAFQRGECTRGDGCKFSHN 90 (232)
Q Consensus 69 ~v~~alq~~~C~~~~~ck~sh~ 90 (232)
-||--|.-+-|+-|++|+|+|.
T Consensus 86 ~vcalF~~~~c~kg~~ckF~h~ 107 (299)
T COG5252 86 VVCALFLNKTCAKGDACKFAHG 107 (299)
T ss_pred HHHHHhccCccccCchhhhhcc
Confidence 5889999999999999999999
No 14
>TIGR01622 SF-CC1 splicing factor, CC1-like family. A homologous gene from Plasmodium falciparum was identified in the course of the analysis of that genome at TIGR and was included in the model.
Probab=58.97 E-value=3.3 Score=37.94 Aligned_cols=29 Identities=24% Similarity=0.266 Sum_probs=24.3
Q ss_pred ceeeeeeeecCCCceecCceeEecccccc
Q 026836 22 AIFSRFLPNNLNGAQILGRTIRVDHVAKY 50 (232)
Q Consensus 22 ~~StiLAVDNlNG~~v~GR~irVDHv~~Y 50 (232)
.-.+..||..|||+.|.|++|+|.++..+
T Consensus 238 ~e~A~~A~~~l~g~~i~g~~i~v~~a~~~ 266 (457)
T TIGR01622 238 AEEAKEALEVMNGFELAGRPIKVGYAQDS 266 (457)
T ss_pred HHHHHHHHHhcCCcEECCEEEEEEEccCC
Confidence 34567789999999999999999998543
No 15
>COG5152 Uncharacterized conserved protein, contains RING and CCCH-type Zn-fingers [General function prediction only]
Probab=58.51 E-value=3.6 Score=37.76 Aligned_cols=32 Identities=38% Similarity=0.815 Sum_probs=24.0
Q ss_pred hhhhHhhhc-CCCCCCCCCcccccccccCCCCCC
Q 026836 68 RGVCRAFQR-GECTRGDGCKFSHNEQRAANTGGG 100 (232)
Q Consensus 68 ~~v~~alq~-~~C~~~~~ck~sh~~q~~~~t~~~ 100 (232)
-.||.-+.+ |-|+-|++|+|.|+-. .-.+||-
T Consensus 141 pdVCKdyk~TGYCGYGDsCKflH~R~-D~KtGWk 173 (259)
T COG5152 141 PDVCKDYKETGYCGYGDSCKFLHDRS-DFKTGWK 173 (259)
T ss_pred cccccchhhcccccCCchhhhhhhhh-hhhcccc
Confidence 358887755 5599999999999753 4566776
No 16
>PLN03134 glycine-rich RNA-binding protein 4; Provisional
Probab=56.57 E-value=5 Score=32.75 Aligned_cols=25 Identities=24% Similarity=0.359 Sum_probs=21.1
Q ss_pred eeeeeeeecCCCceecCceeEeccc
Q 026836 23 IFSRFLPNNLNGAQILGRTIRVDHV 47 (232)
Q Consensus 23 ~StiLAVDNlNG~~v~GR~irVDHv 47 (232)
-.+..||..|||..|.|+.|+|+..
T Consensus 87 e~A~~Al~~lng~~i~Gr~l~V~~a 111 (144)
T PLN03134 87 GAATAAISEMDGKELNGRHIRVNPA 111 (144)
T ss_pred HHHHHHHHHcCCCEECCEEEEEEeC
Confidence 3455678899999999999999987
No 17
>COG0724 RNA-binding proteins (RRM domain) [General function prediction only]
Probab=56.09 E-value=3.2 Score=32.13 Aligned_cols=27 Identities=26% Similarity=0.373 Sum_probs=23.8
Q ss_pred ceeeeeeeecCCCceecCceeEecccc
Q 026836 22 AIFSRFLPNNLNGAQILGRTIRVDHVA 48 (232)
Q Consensus 22 ~~StiLAVDNlNG~~v~GR~irVDHv~ 48 (232)
..+...||.+|||..+.|++|.|+.+.
T Consensus 167 ~~~~~~a~~~~~~~~~~~~~~~v~~~~ 193 (306)
T COG0724 167 EESAEKAIEELNGKELEGRPLRVQKAQ 193 (306)
T ss_pred HHHHHHHHHHcCCCeECCceeEeeccc
Confidence 446788999999999999999999973
No 18
>KOG2185 consensus Predicted RNA-processing protein, contains G-patch domain [RNA processing and modification]
Probab=52.56 E-value=7.1 Score=38.87 Aligned_cols=24 Identities=38% Similarity=0.937 Sum_probs=21.5
Q ss_pred hhhHhhhcCCCCCCCCCccccccc
Q 026836 69 GVCRAFQRGECTRGDGCKFSHNEQ 92 (232)
Q Consensus 69 ~v~~alq~~~C~~~~~ck~sh~~q 92 (232)
-.|.-|.++.|--+..|||||--.
T Consensus 141 kpC~ffLeg~CRF~enCRfSHG~~ 164 (486)
T KOG2185|consen 141 KPCKFFLEGRCRFGENCRFSHGLD 164 (486)
T ss_pred ccchHhhccccccCcccccccCcc
Confidence 369999999999999999999754
No 19
>PF11456 DUF3019: Protein of unknown function (DUF3019); InterPro: IPR021559 This is a bacterial family of uncharacterised proteins.
Probab=52.34 E-value=24 Score=27.89 Aligned_cols=26 Identities=19% Similarity=0.243 Sum_probs=22.1
Q ss_pred eeeecCCCceecCceeEeccccccccc
Q 026836 27 FLPNNLNGAQILGRTIRVDHVAKYKKK 53 (232)
Q Consensus 27 LAVDNlNG~~v~GR~irVDHv~~Yk~~ 53 (232)
.-+|.-+|..|++-.|+|-++. |+.+
T Consensus 68 ~L~~~~~~~~la~~~v~V~~~~-~k~R 93 (102)
T PF11456_consen 68 SLRDSDTGQPLAQVKVKVTWVS-PKVR 93 (102)
T ss_pred EEEeCCCCcEEEEEEEEEEEec-cCcC
Confidence 4469999999999999999996 6654
No 20
>KOG1039 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=51.87 E-value=6.2 Score=37.58 Aligned_cols=25 Identities=36% Similarity=0.923 Sum_probs=23.5
Q ss_pred hhhHhhhcCCCCCCCCCcccccccc
Q 026836 69 GVCRAFQRGECTRGDGCKFSHNEQR 93 (232)
Q Consensus 69 ~v~~alq~~~C~~~~~ck~sh~~q~ 93 (232)
.||+.||+|-|.-|+.|+|+|+...
T Consensus 9 tic~~~~~g~c~~g~~cr~~h~~~~ 33 (344)
T KOG1039|consen 9 TICKYYQKGNCKFGDLCRLSHSLPD 33 (344)
T ss_pred hhhhhcccccccccceeeeeccCch
Confidence 7999999999999999999999874
No 21
>KOG2202 consensus U2 snRNP splicing factor, small subunit, and related proteins [RNA processing and modification]
Probab=48.32 E-value=5.4 Score=37.06 Aligned_cols=55 Identities=27% Similarity=0.517 Sum_probs=46.2
Q ss_pred eeeeeeecCCCceecCceeEecccccccccccccHHHHHHHHHhhhhhHhhhcCCCCCCCCCccccccc
Q 026836 24 FSRFLPNNLNGAQILGRTIRVDHVAKYKKKEEEDEETRQRMREERGVCRAFQRGECTRGDGCKFSHNEQ 92 (232)
Q Consensus 24 StiLAVDNlNG~~v~GR~irVDHv~~Yk~~~~edee~~~~~~e~~~v~~alq~~~C~~~~~ck~sh~~q 92 (232)
++..|+.-|||-=+.|++|--+-+.-+.. ....|..|-.+.|++|..|-|-|.-.
T Consensus 122 ~ae~a~~~lnnRw~~G~pi~ae~~pvT~~--------------rea~C~~~e~~~C~rG~~CnFmH~k~ 176 (260)
T KOG2202|consen 122 DAEAALEDLNNRWYNGRPIHAELSPVTDF--------------REAICGQFERTECSRGGACNFMHVKR 176 (260)
T ss_pred HHHHHHHHHcCccccCCcceeeecCcCch--------------hhhhhcccccccCCCCCcCcchhhhh
Confidence 46678899999999999998888733332 46799999999999999999999873
No 22
>KOG1813 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=45.52 E-value=9.5 Score=36.35 Aligned_cols=31 Identities=32% Similarity=0.823 Sum_probs=21.1
Q ss_pred hhhHhhh-cCCCCCCCCCcccccccccCCCCCC
Q 026836 69 GVCRAFQ-RGECTRGDGCKFSHNEQRAANTGGG 100 (232)
Q Consensus 69 ~v~~alq-~~~C~~~~~ck~sh~~q~~~~t~~~ 100 (232)
+||..+- .|.|+-|++|+|+|+-- .=.+||-
T Consensus 187 DicKdykeTgycg~gdSckFlh~r~-DyK~GWq 218 (313)
T KOG1813|consen 187 DICKDYKETGYCGYGDSCKFLHDRS-DYKAGWQ 218 (313)
T ss_pred hhhhhhHhhCcccccchhhhhhhhh-hccccce
Confidence 4566554 56799999999999742 2334444
No 23
>PLN03120 nucleic acid binding protein; Provisional
Probab=45.06 E-value=12 Score=34.56 Aligned_cols=27 Identities=22% Similarity=0.390 Sum_probs=23.0
Q ss_pred eeecCCCceecCceeEeccccccccccc
Q 026836 28 LPNNLNGAQILGRTIRVDHVAKYKKKEE 55 (232)
Q Consensus 28 AVDNlNG~~v~GR~irVDHv~~Yk~~~~ 55 (232)
|| .|||..|.|+.|+|..+..|..+.+
T Consensus 59 Al-lLnG~~l~gr~V~Vt~a~~~~~p~~ 85 (260)
T PLN03120 59 AL-LLSGATIVDQSVTITPAEDYQLPPE 85 (260)
T ss_pred HH-HhcCCeeCCceEEEEeccCCCCCcc
Confidence 44 5999999999999999998987643
No 24
>PF14608 zf-CCCH_2: Zinc finger C-x8-C-x5-C-x3-H type
Probab=44.07 E-value=14 Score=21.32 Aligned_cols=13 Identities=62% Similarity=1.334 Sum_probs=11.6
Q ss_pred CCCCCCCCccccc
Q 026836 78 ECTRGDGCKFSHN 90 (232)
Q Consensus 78 ~C~~~~~ck~sh~ 90 (232)
.|+.++.|.|+|+
T Consensus 7 ~C~~~~~C~f~HP 19 (19)
T PF14608_consen 7 NCTNGDNCPFSHP 19 (19)
T ss_pred CCCCCCcCccCCc
Confidence 4999999999995
No 25
>KOG1595 consensus CCCH-type Zn-finger protein [General function prediction only]
Probab=43.85 E-value=9.7 Score=38.49 Aligned_cols=24 Identities=38% Similarity=1.064 Sum_probs=21.4
Q ss_pred hhhhHhhhcCCCCCCCCCcccccc
Q 026836 68 RGVCRAFQRGECTRGDGCKFSHNE 91 (232)
Q Consensus 68 ~~v~~alq~~~C~~~~~ck~sh~~ 91 (232)
=.+|++|..|.|-+||.|-|.|-+
T Consensus 236 ~tpCPefrkG~C~rGD~CEyaHgv 259 (528)
T KOG1595|consen 236 STPCPEFRKGSCERGDSCEYAHGV 259 (528)
T ss_pred CccCcccccCCCCCCCccccccce
Confidence 357999999999999999999865
No 26
>smart00360 RRM RNA recognition motif.
Probab=39.10 E-value=14 Score=23.11 Aligned_cols=23 Identities=26% Similarity=0.340 Sum_probs=18.6
Q ss_pred eeeeeeeecCCCceecCceeEec
Q 026836 23 IFSRFLPNNLNGAQILGRTIRVD 45 (232)
Q Consensus 23 ~StiLAVDNlNG~~v~GR~irVD 45 (232)
.++..|+..|+|..+.|+.|+|.
T Consensus 49 ~~a~~a~~~~~~~~~~~~~~~v~ 71 (71)
T smart00360 49 EDAEKALEALNGKELDGRPLKVK 71 (71)
T ss_pred HHHHHHHHHcCCCeeCCcEEEeC
Confidence 34556788999999999999883
No 27
>smart00362 RRM_2 RNA recognition motif.
Probab=38.38 E-value=14 Score=23.29 Aligned_cols=22 Identities=32% Similarity=0.462 Sum_probs=18.2
Q ss_pred eeeeeeecCCCceecCceeEec
Q 026836 24 FSRFLPNNLNGAQILGRTIRVD 45 (232)
Q Consensus 24 StiLAVDNlNG~~v~GR~irVD 45 (232)
.+..||..|+|..|.|++|+|.
T Consensus 51 ~a~~a~~~~~~~~~~~~~i~v~ 72 (72)
T smart00362 51 DAEKAIEALNGTKLGGRPLRVE 72 (72)
T ss_pred HHHHHHHHhCCcEECCEEEeeC
Confidence 4556788999999999999873
No 28
>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=38.21 E-value=13 Score=35.36 Aligned_cols=26 Identities=23% Similarity=0.457 Sum_probs=22.8
Q ss_pred ceeeeeeeecCCCceecCceeEeccc
Q 026836 22 AIFSRFLPNNLNGAQILGRTIRVDHV 47 (232)
Q Consensus 22 ~~StiLAVDNlNG~~v~GR~irVDHv 47 (232)
.-++..||.+|||..|.|++|+|...
T Consensus 323 ~~~A~~Ai~~lng~~l~g~~l~v~~s 348 (481)
T TIGR01649 323 PYQAQLALTHLNGVKLFGKPLRVCPS 348 (481)
T ss_pred HHHHHHHHHHhCCCEECCceEEEEEc
Confidence 34677899999999999999999876
No 29
>TIGR01642 U2AF_lg U2 snRNP auxilliary factor, large subunit, splicing factor. Members of this subfamily are found in plants, metazoa and fungi.
Probab=37.31 E-value=10 Score=35.31 Aligned_cols=25 Identities=16% Similarity=0.219 Sum_probs=21.6
Q ss_pred eeeeeeecCCCceecCceeEecccc
Q 026836 24 FSRFLPNNLNGAQILGRTIRVDHVA 48 (232)
Q Consensus 24 StiLAVDNlNG~~v~GR~irVDHv~ 48 (232)
++..||..|||+.|.|++|.|.++.
T Consensus 349 ~a~~A~~~l~g~~~~~~~l~v~~a~ 373 (509)
T TIGR01642 349 VTDVAIAALNGKDTGDNKLHVQRAC 373 (509)
T ss_pred HHHHHHHHcCCCEECCeEEEEEECc
Confidence 4557888999999999999999873
No 30
>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=36.28 E-value=9.6 Score=24.14 Aligned_cols=24 Identities=29% Similarity=0.378 Sum_probs=20.1
Q ss_pred eeeeeeeecCCCceecCceeEecc
Q 026836 23 IFSRFLPNNLNGAQILGRTIRVDH 46 (232)
Q Consensus 23 ~StiLAVDNlNG~~v~GR~irVDH 46 (232)
-++.+|++.|+|..+.|++|.|.+
T Consensus 51 ~~a~~a~~~~~~~~~~~~~~~v~~ 74 (74)
T cd00590 51 EDAEKALEALNGKELGGRPLRVEF 74 (74)
T ss_pred HHHHHHHHHhCCCeECCeEEEEeC
Confidence 356778999999999999999853
No 31
>KOG4207 consensus Predicted splicing factor, SR protein superfamily [RNA processing and modification]
Probab=36.17 E-value=15 Score=34.12 Aligned_cols=27 Identities=26% Similarity=0.481 Sum_probs=23.5
Q ss_pred eeeeecCCCceecCceeEeccccccccc
Q 026836 26 RFLPNNLNGAQILGRTIRVDHVAKYKKK 53 (232)
Q Consensus 26 iLAVDNlNG~~v~GR~irVDHv~~Yk~~ 53 (232)
--|+|-|.|+.|.||-|+|--+ .|-.+
T Consensus 69 edA~damDG~~ldgRelrVq~a-rygr~ 95 (256)
T KOG4207|consen 69 EDALDAMDGAVLDGRELRVQMA-RYGRP 95 (256)
T ss_pred HHHHHhhcceeeccceeeehhh-hcCCC
Confidence 3489999999999999999877 78776
No 32
>PF08952 DUF1866: Domain of unknown function (DUF1866) ; InterPro: IPR015047 This domain, found in synaptojanin, has no known function. ; PDB: 1UFW_A 2DNR_A.
Probab=31.14 E-value=18 Score=30.98 Aligned_cols=27 Identities=26% Similarity=0.491 Sum_probs=20.4
Q ss_pred eeecceeeeeeeecCCCceecCceeEe
Q 026836 18 ISLKAIFSRFLPNNLNGAQILGRTIRV 44 (232)
Q Consensus 18 ~~~~~~StiLAVDNlNG~~v~GR~irV 44 (232)
+.+.--.+-||+=.|+|++|+|++|+|
T Consensus 75 VTF~dg~sALaals~dg~~v~g~~l~i 101 (146)
T PF08952_consen 75 VTFRDGQSALAALSLDGIQVNGRTLKI 101 (146)
T ss_dssp EEESSCHHHHHHHHGCCSEETTEEEEE
T ss_pred EEECccHHHHHHHccCCcEECCEEEEE
Confidence 333334455777789999999999998
No 33
>TIGR01661 ELAV_HUD_SF ELAV/HuD family splicing factor. These proteins contain 3 RNA-recognition motifs (rrm: pfam00076).
Probab=30.91 E-value=21 Score=31.37 Aligned_cols=24 Identities=29% Similarity=0.354 Sum_probs=21.1
Q ss_pred eeeeeeecCCCceecCceeEeccc
Q 026836 24 FSRFLPNNLNGAQILGRTIRVDHV 47 (232)
Q Consensus 24 StiLAVDNlNG~~v~GR~irVDHv 47 (232)
.+..||..|||..|.|++|+|.+.
T Consensus 57 ~A~~Ai~~l~g~~l~g~~i~v~~a 80 (352)
T TIGR01661 57 DAEKAVNSLNGLRLQNKTIKVSYA 80 (352)
T ss_pred HHHHHHhhcccEEECCeeEEEEee
Confidence 567788999999999999999765
No 34
>KOG0127 consensus Nucleolar protein fibrillarin NOP77 (RRM superfamily) [RNA processing and modification]
Probab=27.80 E-value=25 Score=36.37 Aligned_cols=22 Identities=32% Similarity=0.400 Sum_probs=19.8
Q ss_pred eeeeecCCCceecCceeEeccc
Q 026836 26 RFLPNNLNGAQILGRTIRVDHV 47 (232)
Q Consensus 26 iLAVDNlNG~~v~GR~irVDHv 47 (232)
--|+-+|||-+|.||+|-||+.
T Consensus 172 ~~Al~~~N~~~i~gR~VAVDWA 193 (678)
T KOG0127|consen 172 EKALEFFNGNKIDGRPVAVDWA 193 (678)
T ss_pred HHHHHhccCceecCceeEEeee
Confidence 3578899999999999999987
No 35
>KOG0415 consensus Predicted peptidyl prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]
Probab=26.52 E-value=32 Score=34.18 Aligned_cols=62 Identities=24% Similarity=0.373 Sum_probs=41.7
Q ss_pred cceeeeeeeecCCCceecCceeEecccc---c--ccccccccHHHHHHHHHhhhhhHhhhcCCCCCCCCCcccccccccC
Q 026836 21 KAIFSRFLPNNLNGAQILGRTIRVDHVA---K--YKKKEEEDEETRQRMREERGVCRAFQRGECTRGDGCKFSHNEQRAA 95 (232)
Q Consensus 21 ~~~StiLAVDNlNG~~v~GR~irVDHv~---~--Yk~~~~edee~~~~~~e~~~v~~alq~~~C~~~~~ck~sh~~q~~~ 95 (232)
++-||--|.=.|..+-|-.|.|.||... . |+++....+ --+....|..+-+-+|+|-.+-.+
T Consensus 290 n~escE~AyFKMdNvLIDDrRIHVDFSQSVsk~k~r~k~~~~~-------------~d~~~~d~~~~~~~k~~~kd~~~~ 356 (479)
T KOG0415|consen 290 NKESCEQAYFKMDNVLIDDRRIHVDFSQSVSKVKYRQKGSQKE-------------TDHRAKDCVGGPSSKFIHKDQNRP 356 (479)
T ss_pred chhhHHHHHhhhcceeeccceEEeehhhhhhhhhccccccccc-------------cchhhhccccCCcccchhccCCCC
Confidence 3456666666677788999999999853 3 666543332 124456788888888888766544
No 36
>KOG1677 consensus CCCH-type Zn-finger protein [General function prediction only]
Probab=25.93 E-value=34 Score=30.60 Aligned_cols=29 Identities=34% Similarity=0.846 Sum_probs=24.4
Q ss_pred HHhhhhhHhhhc-CCCCCCCCCcccccccc
Q 026836 65 REERGVCRAFQR-GECTRGDGCKFSHNEQR 93 (232)
Q Consensus 65 ~e~~~v~~alq~-~~C~~~~~ck~sh~~q~ 93 (232)
+.....|..|++ |-|.-|.-|+|.|....
T Consensus 174 ~~kt~lC~~f~~tG~C~yG~rC~F~H~~~~ 203 (332)
T KOG1677|consen 174 KYKTKLCPKFQKTGLCKYGSRCRFIHGEPE 203 (332)
T ss_pred CCCCcCCCccccCCCCCCCCcCeecCCCcc
Confidence 335568999999 88999999999999873
No 37
>TIGR01642 U2AF_lg U2 snRNP auxilliary factor, large subunit, splicing factor. Members of this subfamily are found in plants, metazoa and fungi.
Probab=25.62 E-value=34 Score=31.85 Aligned_cols=28 Identities=11% Similarity=0.113 Sum_probs=22.2
Q ss_pred eeeeeeecCCCceecCceeEecccccccc
Q 026836 24 FSRFLPNNLNGAQILGRTIRVDHVAKYKK 52 (232)
Q Consensus 24 StiLAVDNlNG~~v~GR~irVDHv~~Yk~ 52 (232)
.+..|+ .|||+.|.|+.|+|.....|.+
T Consensus 235 ~A~~Al-~l~g~~~~g~~l~v~r~~~~~~ 262 (509)
T TIGR01642 235 EATFAM-ALDSIIYSNVFLKIRRPHDYIP 262 (509)
T ss_pred HHhhhh-cCCCeEeeCceeEecCccccCC
Confidence 344677 5999999999999987766763
No 38
>KOG2494 consensus C3H1-type Zn-finger protein [Transcription]
Probab=23.72 E-value=30 Score=33.27 Aligned_cols=27 Identities=33% Similarity=0.671 Sum_probs=22.6
Q ss_pred hhhhHhhhcCCCCCCCCCcccccccccC
Q 026836 68 RGVCRAFQRGECTRGDGCKFSHNEQRAA 95 (232)
Q Consensus 68 ~~v~~alq~~~C~~~~~ck~sh~~q~~~ 95 (232)
-..|.-+|.|+|++-- |||.|+.+---
T Consensus 71 v~aC~Ds~kgrCsR~n-CkylHpp~hlk 97 (331)
T KOG2494|consen 71 VIACFDSQKGRCSREN-CKYLHPPQHLK 97 (331)
T ss_pred EEEEeccccCccCccc-ceecCCChhhh
Confidence 4568999999999988 99999987433
No 39
>PLN03213 repressor of silencing 3; Provisional
Probab=23.57 E-value=35 Score=35.34 Aligned_cols=25 Identities=20% Similarity=0.274 Sum_probs=20.8
Q ss_pred eeeeeecCCCceecCceeEeccccc
Q 026836 25 SRFLPNNLNGAQILGRTIRVDHVAK 49 (232)
Q Consensus 25 tiLAVDNlNG~~v~GR~irVDHv~~ 49 (232)
-.-||.-|||++++||.|+|....-
T Consensus 63 eeKAISaLNGAEWKGR~LKVNKAKP 87 (759)
T PLN03213 63 LTKLFSTYNGCVWKGGRLRLEKAKE 87 (759)
T ss_pred HHHHHHHhcCCeecCceeEEeeccH
Confidence 3457778999999999999998843
No 40
>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=22.01 E-value=22 Score=33.23 Aligned_cols=25 Identities=24% Similarity=0.278 Sum_probs=21.4
Q ss_pred eeeeeeeecCCCceecCceeEeccc
Q 026836 23 IFSRFLPNNLNGAQILGRTIRVDHV 47 (232)
Q Consensus 23 ~StiLAVDNlNG~~v~GR~irVDHv 47 (232)
-++..||..|||+.|.|++|+|...
T Consensus 160 e~A~~Ai~~LnG~~l~gr~i~V~~a 184 (346)
T TIGR01659 160 ADSQRAIKNLNGITVRNKRLKVSYA 184 (346)
T ss_pred HHHHHHHHHcCCCccCCceeeeecc
Confidence 3566788899999999999999865
No 41
>KOG0114 consensus Predicted RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=21.47 E-value=41 Score=28.39 Aligned_cols=20 Identities=20% Similarity=0.104 Sum_probs=17.8
Q ss_pred eeeecCCCceecCceeEecc
Q 026836 27 FLPNNLNGAQILGRTIRVDH 46 (232)
Q Consensus 27 LAVDNlNG~~v~GR~irVDH 46 (232)
-|+|.|+|..|.+|-|.|-+
T Consensus 72 ~A~dhlsg~n~~~ryl~vly 91 (124)
T KOG0114|consen 72 KACDHLSGYNVDNRYLVVLY 91 (124)
T ss_pred HHHHHhcccccCCceEEEEe
Confidence 48999999999999999853
Done!